Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 183 of 259
Found at i:59219044 original size:22 final size:22
Alignment explanation
Indices: 59219011--59219064 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
59219001 AACATATTGT
59219011 TTTG-GTATGTTTATGGTTATGA
1 TTTGAGTA-GTTTATGGTTATGA
59219033 TTTGAGTAGTTTATGGTTATGA
1 TTTGAGTAGTTTATGGTTATGA
59219055 TTTGAGTAGT
1 TTTGAGTAGT
59219065 GAAATAGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 28 0.90
23 3 0.10
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (22 bp):
TTTGAGTAGTTTATGGTTATGA
Found at i:59219051 original size:76 final size:77
Alignment explanation
Indices: 59218957--59219116 Score: 279
Period size: 76 Copynumber: 2.1 Consensus size: 77
59218947 GACATATTGT
* *
59218957 TTTG-GTATGTTTGTGGTTATGATTTGAGTAGTGAAATGGTTGAAAACATATTGTTTTGGTATGT
1 TTTGAGTATGTTTATGGTTATGATTTGAGTAGTGAAATAGTTGAAAACATATTGTTTTGGTATGT
59219021 TTATGGTTATGA
66 TTATGGTTATGA
*
59219033 TTTGAGTA-GTTTATGGTTATGATTTGAGTAGTGAAATAGTTGAAGACATATTGTTTTGGTATGT
1 TTTGAGTATGTTTATGGTTATGATTTGAGTAGTGAAATAGTTGAAAACATATTGTTTTGGTATGT
59219097 TTATGGTTATGA
66 TTATGGTTATGA
59219109 TTTGAGTA
1 TTTGAGTA
59219117 ATGAAATGGT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
76 77 0.96
77 3 0.04
ACGTcount: A:0.25, C:0.01, G:0.27, T:0.47
Consensus pattern (77 bp):
TTTGAGTATGTTTATGGTTATGATTTGAGTAGTGAAATAGTTGAAAACATATTGTTTTGGTATGT
TTATGGTTATGA
Found at i:59221700 original size:20 final size:20
Alignment explanation
Indices: 59221659--59221701 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
59221649 ATCTTCTACT
**
59221659 TTTATTTTATTTTTTGTTTA
1 TTTATTTTATTTTTTGAATA
59221679 TTTA-TTTATTATTTTGAATA
1 TTTATTTTATT-TTTTGAATA
59221699 TTT
1 TTT
59221702 CTTAAATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTATTTTATTTTTTGAATA
Found at i:59230325 original size:21 final size:21
Alignment explanation
Indices: 59230299--59230351 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
59230289 TGCATATTCA
59230299 TTTTTATCAATATATATCCTT
1 TTTTTATCAATATATATCCTT
59230320 TTTTTATCAATATATATCCTT
1 TTTTTATCAATATATATCCTT
*
59230341 TTTCT-TCAATA
1 TTTTTATCAATA
59230352 ATTGGTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 6 0.19
21 25 0.81
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTTATCAATATATATCCTT
Found at i:59231066 original size:18 final size:18
Alignment explanation
Indices: 59231045--59231090 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
59231035 AATAAAATAA
59231045 AATTTATAAATTCAAAAT
1 AATTTATAAATTCAAAAT
* *
59231063 AATTTTTAAAATTTAAAAT
1 AATTTAT-AAATTCAAAAT
59231082 -ATTTATAAA
1 AATTTATAAA
59231091 AATTTCAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 3 0.12
18 11 0.46
19 10 0.42
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTTATAAATTCAAAAT
Found at i:59231080 original size:19 final size:19
Alignment explanation
Indices: 59231037--59231101 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
59231027 AAAAATAAAA
**
59231037 TAAAATAAAATTTATAAATT
1 TAAAATAATTTTTA-AAATT
*
59231057 CAAAATAATTTTTAAAATT
1 TAAAATAATTTTTAAAATT
*
59231076 TAAAAT-ATTTATAAAAATT
1 TAAAATAATTT-TTAAAATT
59231095 TCAAAAT
1 T-AAAAT
59231102 TTATATTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 4 0.11
19 18 0.47
20 16 0.42
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAATAATTTTTAAAATT
Found at i:59231091 original size:18 final size:18
Alignment explanation
Indices: 59231046--59231106 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
59231036 ATAAAATAAA
*
59231046 ATTTAT-AAATTCAAAAT
1 ATTTATAAAATTTAAAAT
*
59231063 AATTTTTAAAATTTAAAAT
1 -ATTTATAAAATTTAAAAT
*
59231082 ATTTATAAAAATTTCAAA-
1 ATTTAT-AAAATTTAAAAT
59231100 ATTTATA
1 ATTTATA
59231107 TTTTTAAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 1 0.03
18 16 0.43
19 20 0.54
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTATAAAATTTAAAAT
Found at i:59231100 original size:27 final size:28
Alignment explanation
Indices: 59231069--59231163 Score: 81
Period size: 26 Copynumber: 3.4 Consensus size: 28
59231059 AAATAATTTT
*
59231069 TAAAATTTAAAATATTTATAAAAATTTC
1 TAAAATTTAAAATATTTATAAAAAATTC
* *
59231097 -AAAATTT-ATATTTTTA-AGAAAAATTC
1 TAAAATTTAAAATATTTATA-AAAAATTC
* * *
59231123 TAAAATTCTAAAAAATATATAAAAAAAGT-
1 TAAAATT-TAAAATATTTAT-AAAAAATTC
59231152 TAAAATTTAAAA
1 TAAAATTTAAAA
59231164 AAATAATTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
25 1 0.02
26 14 0.26
27 13 0.25
28 6 0.11
29 12 0.23
30 6 0.11
31 1 0.02
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (28 bp):
TAAAATTTAAAATATTTATAAAAAATTC
Found at i:59241314 original size:220 final size:220
Alignment explanation
Indices: 59240932--59241375 Score: 888
Period size: 220 Copynumber: 2.0 Consensus size: 220
59240922 GCGAAAGTGC
59240932 GGACAGAGGTCTGGGGTTTGAGTTTCACCTCGAGCACAGAAGGCTTGGGTTTTTGCTGCTCACGT
1 GGACAGAGGTCTGGGGTTTGAGTTTCACCTCGAGCACAGAAGGCTTGGGTTTTTGCTGCTCACGT
59240997 GGGGAAGAAGTTGGAGTCTGATCCGGACTCTCCTGGCAGCATGCTGAAACGGTGCAAGGGGTGGA
66 GGGGAAGAAGTTGGAGTCTGATCCGGACTCTCCTGGCAGCATGCTGAAACGGTGCAAGGGGTGGA
59241062 TAAGGATGCTGCTAATCGGTGGGGGAGTTTGAGCTGATCAGGGGATTAGGTAAGGATGAGATAAG
131 TAAGGATGCTGCTAATCGGTGGGGGAGTTTGAGCTGATCAGGGGATTAGGTAAGGATGAGATAAG
59241127 GGAGGAAATTTAGGAGCCTGATCAA
196 GGAGGAAATTTAGGAGCCTGATCAA
59241152 GGACAGAGGTCTGGGGTTTGAGTTTCACCTCGAGCACAGAAGGCTTGGGTTTTTGCTGCTCACGT
1 GGACAGAGGTCTGGGGTTTGAGTTTCACCTCGAGCACAGAAGGCTTGGGTTTTTGCTGCTCACGT
59241217 GGGGAAGAAGTTGGAGTCTGATCCGGACTCTCCTGGCAGCATGCTGAAACGGTGCAAGGGGTGGA
66 GGGGAAGAAGTTGGAGTCTGATCCGGACTCTCCTGGCAGCATGCTGAAACGGTGCAAGGGGTGGA
59241282 TAAGGATGCTGCTAATCGGTGGGGGAGTTTGAGCTGATCAGGGGATTAGGTAAGGATGAGATAAG
131 TAAGGATGCTGCTAATCGGTGGGGGAGTTTGAGCTGATCAGGGGATTAGGTAAGGATGAGATAAG
59241347 GGAGGAAATTTAGGAGCCTGATCAA
196 GGAGGAAATTTAGGAGCCTGATCAA
59241372 GGAC
1 GGAC
59241376 TTGGTGTTGG
Statistics
Matches: 224, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
220 224 1.00
ACGTcount: A:0.24, C:0.15, G:0.37, T:0.23
Consensus pattern (220 bp):
GGACAGAGGTCTGGGGTTTGAGTTTCACCTCGAGCACAGAAGGCTTGGGTTTTTGCTGCTCACGT
GGGGAAGAAGTTGGAGTCTGATCCGGACTCTCCTGGCAGCATGCTGAAACGGTGCAAGGGGTGGA
TAAGGATGCTGCTAATCGGTGGGGGAGTTTGAGCTGATCAGGGGATTAGGTAAGGATGAGATAAG
GGAGGAAATTTAGGAGCCTGATCAA
Found at i:59241539 original size:22 final size:22
Alignment explanation
Indices: 59241514--59241555 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
59241504 CTCCCCTCTC
59241514 TTTCATTCATATTTTCTTTTAT
1 TTTCATTCATATTTTCTTTTAT
* *
59241536 TTTCTTTCATCTTTTCTTTT
1 TTTCATTCATATTTTCTTTT
59241556 TCCATCATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTCATTCATATTTTCTTTTAT
Found at i:59241552 original size:12 final size:12
Alignment explanation
Indices: 59241514--59241554 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
59241504 CTCCCCTCTC
*
59241514 TTTCATTCATAT
1 TTTCTTTCATAT
59241526 TTTCTTT--TAT
1 TTTCTTTCATAT
*
59241536 TTTCTTTCATCT
1 TTTCTTTCATAT
59241548 TTTCTTT
1 TTTCTTT
59241555 TTCCATCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 10 0.40
12 15 0.60
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTCTTTCATAT
Found at i:59244908 original size:20 final size:20
Alignment explanation
Indices: 59244866--59244905 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
59244856 TTGTATGAGA
*
59244866 AAAAATTGAAAATTACATGG
1 AAAAATTGAAAATTAAATGG
*
59244886 AAAAATTGATAATTTAAATG
1 AAAAATTGA-AAATTAAATG
59244906 AAATGAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.55, C:0.03, G:0.12, T:0.30
Consensus pattern (20 bp):
AAAAATTGAAAATTAAATGG
Found at i:59245001 original size:27 final size:27
Alignment explanation
Indices: 59244971--59245022 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
59244961 AAAAAAGATA
* *
59244971 AATTTAAAAGAAATGAGGAAAAAATTT
1 AATTGAAAAGAAATGAGAAAAAAATTT
* *
59244998 AATTGAAATGAAATGATAAAAAAAT
1 AATTGAAAAGAAATGAGAAAAAAAT
59245023 GAAATTAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.25
Consensus pattern (27 bp):
AATTGAAAAGAAATGAGAAAAAAATTT
Found at i:59245028 original size:27 final size:26
Alignment explanation
Indices: 59244896--59245032 Score: 81
Period size: 26 Copynumber: 5.3 Consensus size: 26
59244886 AAAAATTGAT
*
59244896 AATTTAAATGAAATGAGAAAAAAATA
1 AATTGAAATGAAATGAGAAAAAAATA
** * * *
59244922 AATTGGTATGAAACGA-TACAAAAT-
1 AATTGAAATGAAATGAGAAAAAAATA
59244946 --TT-AAATGAAAATTGA-AAAAAAGATA
1 AATTGAAATG-AAA-TGAGAAAAAA-ATA
* * * *
59244971 AATTTAAAAGAAATGAGGAAAAAATTT
1 AATTGAAATGAAATGA-GAAAAAAATA
*
59244998 AATTGAAATGAAATGATAAAAAAATGA
1 AATTGAAATGAAATGAGAAAAAAAT-A
59245025 AATT-AAAT
1 AATTGAAAT
59245033 TTGAAAGAAA
Statistics
Matches: 82, Mismatches: 19, Indels: 20
0.68 0.16 0.17
Matches are distributed among these distances:
21 3 0.04
22 5 0.06
23 6 0.07
24 2 0.02
25 6 0.07
26 26 0.32
27 24 0.29
28 10 0.12
ACGTcount: A:0.61, C:0.01, G:0.13, T:0.25
Consensus pattern (26 bp):
AATTGAAATGAAATGAGAAAAAAATA
Found at i:59245037 original size:76 final size:73
Alignment explanation
Indices: 59244896--59245144 Score: 222
Period size: 76 Copynumber: 3.4 Consensus size: 73
59244886 AAAAATTGAT
* * * ** ** *
59244896 AATTTAAATGAAATGA-GAAAAAAATAAATTGGTATGAAACGATACAAAATTTAAATGAAAATTG
1 AATTTAAAAGAAATGAGGAAAAAATTTAATTGAAATGAAA-GATA-AAAAAATAAAT-TAAATTG
*
59244960 AAAAAAAGATA
63 AAAGAAAGATA
59244971 AATTTAAAAGAAATGAGGAAAAAATTTAATTGAAATGAAATGATAAAAAAATGAAATTAAATTTG
1 AATTTAAAAGAAATGAGGAAAAAATTTAATTGAAATGAAA-GATAAAAAAAT-AAATTAAA-TTG
59245036 AAAGAAAGATA
63 AAAGAAAGATA
* ** * * * *
59245047 AATTTAAATGAAATG-GGAGAAACTTTTAATTTAAAT--AAGATGAGAAAA-AAATTAAATGGAA
1 AATTTAAAAGAAATGAGGA-AAAAATTTAATTGAAATGAAAGATAAAAAAATAAATTAAATTGAA
*
59245108 AGATAGAT-
65 AGAAAGATA
**
59245116 AATTTAAAAGAAATGACAAAAAAATTTAA
1 AATTTAAAAGAAATGAGGAAAAAATTTAA
59245145 ATTTGCATTG
Statistics
Matches: 146, Mismatches: 23, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
69 22 0.15
70 12 0.08
71 8 0.05
73 8 0.05
74 2 0.01
75 26 0.18
76 68 0.47
ACGTcount: A:0.59, C:0.02, G:0.14, T:0.25
Consensus pattern (73 bp):
AATTTAAAAGAAATGAGGAAAAAATTTAATTGAAATGAAAGATAAAAAAATAAATTAAATTGAAA
GAAAGATA
Found at i:59245268 original size:5 final size:5
Alignment explanation
Indices: 59245258--59245302 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
59245248 AAAATAATTT
* *
59245258 AAATG AAATG AAATT AGAATG AAATA AAATG AAGATG AAATG AAA
1 AAATG AAATG AAATG A-AATG AAATG AAATG AA-ATG AAATG AAA
59245303 AAAAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
5 25 0.74
6 9 0.26
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.20
Consensus pattern (5 bp):
AAATG
Found at i:59245271 original size:19 final size:21
Alignment explanation
Indices: 59245218--59245265 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
59245208 AGTATAAATG
59245218 AATTGAAAAAAAATAAATTTA
1 AATTGAAAAAAAATAAATTTA
59245239 AATTGAAAAAAAAT-AATTTA
1 AATTGAAAAAAAATAAATTTA
59245259 AA-TGAAA
1 AATTGAAA
59245266 TGAAATTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 5 0.19
20 8 0.30
21 14 0.52
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (21 bp):
AATTGAAAAAAAATAAATTTA
Found at i:59245278 original size:16 final size:15
Alignment explanation
Indices: 59245258--59245302 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
59245248 AAAATAATTT
*
59245258 AAATGAAATGAAATT
1 AAATGAAATGAAATG
*
59245273 AGAATGAAATAAAATG
1 A-AATGAAATGAAATG
59245289 AAGATGAAATGAAA
1 AA-ATGAAATGAAA
59245303 AAAAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.20
Consensus pattern (15 bp):
AAATGAAATGAAATG
Found at i:59245298 original size:11 final size:10
Alignment explanation
Indices: 59245258--59245302 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 10
59245248 AAAATAATTT
59245258 AAATGAAATG
1 AAATGAAATG
*
59245268 AAATTAGAATG
1 AAATGA-AATG
*
59245279 AAATAAAATG
1 AAATGAAATG
59245289 AAGATGAAATG
1 AA-ATGAAATG
59245300 AAA
1 AAA
59245303 AAAAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 12 0.40
11 18 0.60
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.20
Consensus pattern (10 bp):
AAATGAAATG
Found at i:59245641 original size:14 final size:14
Alignment explanation
Indices: 59245614--59245728 Score: 61
Period size: 14 Copynumber: 8.3 Consensus size: 14
59245604 TAATTAATTA
59245614 GAAAAAATATTAATAT
1 GAAAAAA-A-TAATAT
59245630 GAAAAAAATAATAT
1 GAAAAAAATAATAT
59245644 ----AAAATGAAT-T
1 GAAAAAAAT-AATAT
59245654 GAAAAAAATAATAT
1 GAAAAAAATAATAT
59245668 GAAAAGAAAATAATAATAT
1 G---A-AAAA-AATAATAT
*
59245687 GAAATAAATAATAT
1 GAAAAAAATAATAT
*
59245701 --AAAATA-AAT-T
1 GAAAAAAATAATAT
59245711 GAAAAAAAATAAT-T
1 G-AAAAAAATAATAT
59245725 GAAA
1 GAAA
59245729 TGAAATAAAA
Statistics
Matches: 80, Mismatches: 4, Indels: 33
0.68 0.03 0.28
Matches are distributed among these distances:
10 7 0.09
11 6 0.08
12 4 0.05
13 11 0.14
14 26 0.32
15 4 0.05
16 8 0.10
17 1 0.01
18 4 0.05
19 9 0.11
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (14 bp):
GAAAAAAATAATAT
Found at i:59245650 original size:19 final size:19
Alignment explanation
Indices: 59245615--59245756 Score: 80
Period size: 19 Copynumber: 7.3 Consensus size: 19
59245605 AATTAATTAG
*
59245615 AAAAAAT-AT-TAATATGA
1 AAAAAATAATATAAAATGA
59245632 AAAAAATAATATAAAATGAATTGA
1 AAAAAATAATAT--AA--AA-TGA
59245656 AAAAAATAATATGAAAA-GA
1 AAAAAATAATAT-AAAATGA
* *
59245675 AAATAATAATATGAAAT-A
1 AAAAAATAATATAAAATGA
* * *
59245693 AATAATATAAAATAAATTGAA
1 AA-AAAATAATATAAAATG-A
*
59245714 AAAAAATAAT-TGAAATGA
1 AAAAAATAATATAAAATGA
*
59245732 AATAAAATAAAATTAAAAT-A
1 AA-AAAATAATA-TAAAATGA
59245752 AAAAA
1 AAAAA
59245757 TAAAAGGGTT
Statistics
Matches: 96, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
17 7 0.07
18 11 0.11
19 39 0.41
20 9 0.09
21 12 0.12
23 3 0.03
24 15 0.16
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (19 bp):
AAAAAATAATATAAAATGA
Found at i:59245685 original size:57 final size:57
Alignment explanation
Indices: 59245617--59245740 Score: 182
Period size: 57 Copynumber: 2.2 Consensus size: 57
59245607 TTAATTAGAA
* *
59245617 AAAATATTAATATGAAAAAAATAATATAAAATGAATTG-AAAAAAATAATATGAAAAG
1 AAAATAATAATATGAAAAAAATAATATAAAATAAATTGAAAAAAAATAAT-TGAAAAG
* *
59245674 AAAATAATAATATGAAATAAATAATATAAAATAAATTGAAAAAAAATAATTGAAATG
1 AAAATAATAATATGAAAAAAATAATATAAAATAAATTGAAAAAAAATAATTGAAAAG
59245731 -AAATAA-AATA
1 AAAATAATAATA
59245741 AAATTAAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
55 4 0.06
56 6 0.10
57 41 0.66
58 11 0.18
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (57 bp):
AAAATAATAATATGAAAAAAATAATATAAAATAAATTGAAAAAAAATAATTGAAAAG
Found at i:59245734 original size:14 final size:14
Alignment explanation
Indices: 59245642--59245736 Score: 63
Period size: 14 Copynumber: 6.6 Consensus size: 14
59245632 AAAAAATAAT
59245642 ATAAAATGAATTGAA
1 ATAAAAT-AATTGAA
59245657 A-AAAATAATATGAAA
1 ATAAAATAAT-TG-AA
*
59245672 AGAAAATAA-T-AA
1 ATAAAATAATTGAA
* *
59245684 TATGAAATAAAT-AA
1 -ATAAAATAATTGAA
59245698 TATAAAATAAATTGAA
1 -ATAAAAT-AATTGAA
*
59245714 AAAAAATAATTGAA
1 ATAAAATAATTGAA
*
59245728 ATGAAATAA
1 ATAAAATAA
59245737 AATAAAATTA
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
12 2 0.03
13 10 0.15
14 32 0.48
15 13 0.20
16 9 0.14
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.24
Consensus pattern (14 bp):
ATAAAATAATTGAA
Found at i:59245761 original size:5 final size:5
Alignment explanation
Indices: 59245634--59245754 Score: 61
Period size: 5 Copynumber: 23.8 Consensus size: 5
59245624 TAATATGAAA
* * * * * *
59245634 AAAAT AATAT AAAAT GAATT GAAA- AAAAT AATAT GAAAAG AAAAT AATAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AA-AAT
* * * *
59245685 ATGAAAT -AAAT AATAT AAAAT AAATT GAAAA- AAAAT -AATT GAAAT
1 A--AAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT
*
59245730 GAAAT AAAAT AAAATT AAAAT AAAA
1 AAAAT AAAAT AAAA-T AAAAT AAAA
59245755 AATAAAAGGG
Statistics
Matches: 89, Mismatches: 17, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
4 14 0.16
5 56 0.63
6 15 0.17
7 3 0.03
8 1 0.01
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:59246272 original size:107 final size:111
Alignment explanation
Indices: 59246138--59246433 Score: 429
Period size: 107 Copynumber: 2.7 Consensus size: 111
59246128 TAGGATCTGT
** *
59246138 ATTGACAGGCCAGCACCAAATTTTTTTTAAAAAAACTCGTATTCTGGTGCCGGCCTTTCAAAGGC
1 ATTGACAGGCCAGCACCAAATTTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCTTTAAAAGGC
59246203 CAGCACCAAAAAAA-TT-AA-TTTTTTT-AATTACTGGTGCCGGCC
66 CAGCACCAAAAAAATTTGAATTTTTTTTAAATTACTGGTGCCGGCC
* * * *
59246245 ATTGATAGGCCAGCACCAAATTTTTTTTTTGAAAACTCGTATTCTGGTGCCAGCCATTAAAAGGC
1 ATTGACAGGCCAGCACCAAATTTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCTTTAAAAGGC
*
59246310 CAGCACCAAAAAAATTTGAATTTTTTTTTAAATTATTGGTGCCGGCC
66 CAGCACCAAAAAAATTTGAA-TTTTTTTTAAATTACTGGTGCCGGCC
* * * *
59246357 ATTGACAGGCCAGCACCCAAAATTTTTTTTTTAAAAACTCATATTCTTGTGCCGGCCTTTGACAG
1 ATTGACAGGCCAGCA-CC-AAATTTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCTTTAAAAG
59246422 GCCAGCACCAAA
64 GCCAGCACCAAA
59246434 TTACTGGTGC
Statistics
Matches: 166, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
107 72 0.43
108 2 0.01
109 2 0.01
111 7 0.04
112 30 0.18
113 2 0.01
114 51 0.31
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (111 bp):
ATTGACAGGCCAGCACCAAATTTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCTTTAAAAGGC
CAGCACCAAAAAAATTTGAATTTTTTTTAAATTACTGGTGCCGGCC
Found at i:59246302 original size:55 final size:55
Alignment explanation
Indices: 59246138--59246433 Score: 240
Period size: 55 Copynumber: 5.4 Consensus size: 55
59246128 TAGGATCTGT
**
59246138 ATTGACAGGCCAGCACC-AAATTTTTTTTAAAAAAACTCGTATTCTGGTGCCGGCC
1 ATTGACAGGCCAGCACCAAAATTTTTTTTTTAAAAACTC-TATTCTGGTGCCGGCC
* * * *
59246193 TTTCAAAGGCCAGCACCAAAAAAATTAATTTTTTT---AA-T-TA--CTGGTGCCGGCC
1 ATTGACAGGCCAGCACC---AAAATT-TTTTTTTTAAAAACTCTATTCTGGTGCCGGCC
* * *
59246245 ATTGATAGGCCAGCACC-AAATTTTTTTTTTGAAAACTCGTATTCTGGTGCCAGCC
1 ATTGACAGGCCAGCACCAAAATTTTTTTTTTAAAAACTC-TATTCTGGTGCCGGCC
* * **
59246300 ATTAAAAGGCCAGCACCAAAAAAATTTGAATTTTTTTTTAAA-T-TA-T-TGGTGCCGGCC
1 ATTGACAGGCCAGCACC---AAAATTT---TTTTTTTAAAAACTCTATTCTGGTGCCGGCC
*
59246357 ATTGACAGGCCAGCACCCAAAATTTTTTTTTTAAAAACTCATATTCTTGTGCCGGCC
1 ATTGACAGGCCAGCA-CCAAAATTTTTTTTTTAAAAACTC-TATTCTGGTGCCGGCC
*
59246414 TTTGACAGGCCAGCACCAAA
1 ATTGACAGGCCAGCACCAAA
59246434 TTACTGGTGC
Statistics
Matches: 193, Mismatches: 22, Indels: 51
0.73 0.08 0.19
Matches are distributed among these distances:
47 7 0.04
48 5 0.03
50 2 0.01
51 1 0.01
52 36 0.19
53 3 0.02
54 2 0.01
55 49 0.25
56 7 0.04
57 49 0.25
58 3 0.02
59 13 0.07
60 5 0.03
61 1 0.01
62 10 0.05
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (55 bp):
ATTGACAGGCCAGCACCAAAATTTTTTTTTTAAAAACTCTATTCTGGTGCCGGCC
Found at i:59246409 original size:57 final size:56
Alignment explanation
Indices: 59246138--59246430 Score: 229
Period size: 57 Copynumber: 5.3 Consensus size: 56
59246128 TAGGATCTGT
**
59246138 ATTGACAGGCCAGCA-CC-AAATTTTTTTTAAAAAAACTCGTATTCTGGTGCCGGCC
1 ATTGACAGGCCAGCACCCAAAATTTTTTTTTTAAAAACTC-TATTCTGGTGCCGGCC
* * * * *
59246193 TTTCAAAGGCCAGCACCAAAAAAATTAATTTTTTT---AA-T-TA--CTGGTGCCGGCC
1 ATTGACAGGCCAGCACC--CAAAATT-TTTTTTTTAAAAACTCTATTCTGGTGCCGGCC
* * *
59246245 ATTGATAGGCCAGCA-CC-AAATTTTTTTTTTGAAAACTCGTATTCTGGTGCCAGCC
1 ATTGACAGGCCAGCACCCAAAATTTTTTTTTTAAAAACTC-TATTCTGGTGCCGGCC
* * * **
59246300 ATTAAAAGGCCAGCACCAAAAAAATTTGAATTTTTTTTTAAA-T-TA-T-TGGTGCCGGCC
1 ATTGACAGGCCAGCACC--CAAAATTT---TTTTTTTAAAAACTCTATTCTGGTGCCGGCC
*
59246357 ATTGACAGGCCAGCACCCAAAATTTTTTTTTTAAAAACTCATATTCTTGTGCCGGCC
1 ATTGACAGGCCAGCACCCAAAATTTTTTTTTTAAAAACTC-TATTCTGGTGCCGGCC
*
59246414 TTTGACAGGCCAGCACC
1 ATTGACAGGCCAGCACC
59246431 AAATTACTGG
Statistics
Matches: 187, Mismatches: 26, Indels: 48
0.72 0.10 0.18
Matches are distributed among these distances:
47 7 0.04
48 5 0.03
50 2 0.01
51 2 0.01
52 34 0.18
53 3 0.02
54 2 0.01
55 45 0.24
56 4 0.02
57 53 0.28
58 1 0.01
59 13 0.07
60 5 0.03
61 1 0.01
62 10 0.05
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (56 bp):
ATTGACAGGCCAGCACCCAAAATTTTTTTTTTAAAAACTCTATTCTGGTGCCGGCC
Found at i:59252221 original size:50 final size:50
Alignment explanation
Indices: 59252146--59252241 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
59252136 GATATGAGAG
* *
59252146 TTATTGCCAAATTTAGGCAACTAATAGTGATTTAACCTTCCAACTTAGAA
1 TTATTGCCAAATTTAGGCAACTAATAGTAATTTAACCTTCAAACTTAGAA
*
59252196 TTATTGCCAAATTT-GGACACCTAATAGTAATTTAACCTTCAAACTT
1 TTATTGCCAAATTTAGG-CAACTAATAGTAATTTAACCTTCAAACTT
59252242 TAAAGTGAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
49 2 0.05
50 40 0.95
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (50 bp):
TTATTGCCAAATTTAGGCAACTAATAGTAATTTAACCTTCAAACTTAGAA
Found at i:59253682 original size:138 final size:132
Alignment explanation
Indices: 59253123--59253811 Score: 482
Period size: 128 Copynumber: 5.2 Consensus size: 132
59253113 GATGTTTTCT
* * * * *
59253123 TTAAAAGATCAATGCTT-ACTCATATTTGCTAATACT-GCGTTTTTGCAATGT-AAACACCAGAT
1 TTAAAAGATCAATG-TTCATTCATATTTGCTAATA-TAGCG-TTGTGCAGTGTAAAAAACCA-AC
* * * ** *
59253185 CACCATGTATTAATCTCAATA--TTTGTTTGGATTCTATGTTAATGTTTCGTCACTTATGTCTAA
62 CACCATGTATTAATCTCAATATGTTTGTTTCGATTTTATGTTGATGTTTTATCAATTATGTCTAA
*
59253248 GATTCA
127 CATTCA
* * * *
59253254 TTAAAAGATCAATGTCCATTCATGTATTGCTAATATAAGTGTCTGTGCAGTAT-AAAAACCAATC
1 TTAAAAGATCAATGTTCATTCATAT-TTGCTAATAT-AGCGT-TGTGCAGTGTAAAAAACCAA-C
* * * * * * * * *
59253318 AACCA--TCTCAA-C-C--TA--TTTGTTTGGATTTTATGTTGGTTTTTTTGTCACTTATGTCTG
62 CACCATGTATTAATCTCAATATGTTTGTTTCGATTTTATGTT-GATGTTTTATCAATTATGTCTA
**
59253375 TGATTCA
126 ACATTCA
* * * *
59253382 TTACAAGATCAATGTTTATTCATACATTGCTAATGTAAGCGTCCT-TGCAGTGT-AAAAACCAAA
1 TTAAAAGATCAATGTTCATTCATA-TTTGCTAATAT-AGCGT--TGTGCAGTGTAAAAAACC-AA
* * * * *
59253445 CCACCTTGCATTAATCTCAATATATTTGTTTTGATTTTATGTTGATGTTTTATTAATTATGTCTA
61 CCACCATGTATTAATCTCAATATGTTTGTTTCGATTTTATGTTGATGTTTTATCAATTATGTCTA
*
59253510 AGATTCA
126 ACATTCA
* * ** * * *
59253517 CTAAAAGATCAATTTTTGTTCATATATTTCTAGTATAAGTGTCTGTGCAGTGTAAAAAACCAAGC
1 TTAAAAGATCAATGTTCATTCATAT-TTGCTAATAT-AGCGT-TGTGCAGTGTAAAAAACCAA-C
* * * *
59253582 CATCATGTATTTATCTCAATATGTTTGTTTCGATTTTTATGTTGATAGTTTTGTCAGTTATGTCT
62 CACCATGTATTAATCTCAATATGTTTGTTTCGA-TTTTATGTTGAT-GTTTTATCAATTATGTCT
59253647 AACATTCA
125 AACATTCA
* * * * * * *
59253655 TTAAAAGAGATCAATGCTCATTCATATTTGCTAATATTGCGTTTTCGTAATGTAAAAACCCGACC
1 TT-AAA-AGATCAATGTTCATTCATATTTGCTAATATAGCGTTGT-GCAGTGTAAAAAACCAACC
* * * *
59253720 ACCATGTAATAATCTC-A-ATG--TGTTTGGATTTTATGTTGATGTTTTTCTCATTTATGTCTAA
63 ACCATGTATTAATCTCAATATGTTTGTTTCGATTTTATGTTGATG-TTTTATCAATTATGTCTAA
59253781 CATTCA
127 CATTCA
*
59253787 TTCAAAGATCAATGTTCATTCATAT
1 TTAAAAGATCAATGTTCATTCATAT
59253812 GTGTTTTGTC
Statistics
Matches: 449, Mismatches: 81, Indels: 57
0.76 0.14 0.10
Matches are distributed among these distances:
127 20 0.04
128 75 0.17
129 5 0.01
130 24 0.05
131 29 0.06
132 49 0.11
133 27 0.06
134 4 0.01
135 67 0.15
136 54 0.12
137 29 0.06
138 39 0.09
139 11 0.02
140 16 0.04
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (132 bp):
TTAAAAGATCAATGTTCATTCATATTTGCTAATATAGCGTTGTGCAGTGTAAAAAACCAACCACC
ATGTATTAATCTCAATATGTTTGTTTCGATTTTATGTTGATGTTTTATCAATTATGTCTAACATT
CA
Found at i:59272564 original size:27 final size:26
Alignment explanation
Indices: 59272527--59272610 Score: 132
Period size: 27 Copynumber: 3.2 Consensus size: 26
59272517 AGCATGGCTG
* *
59272527 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
59272553 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
59272580 CCAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
59272607 CCAG
1 CCAG
59272611 TATACTCTCT
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
26 12 0.22
27 42 0.78
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:59282375 original size:16 final size:17
Alignment explanation
Indices: 59282354--59282404 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 17
59282344 TTTCTTTTCC
59282354 TTTTGTTTCTCTATTT-
1 TTTTGTTTCTCTATTTA
59282370 TTTTGTTTCTCT-TTTA
1 TTTTGTTTCTCTATTTA
59282386 CTTTTCGTTCTCTCTATTT
1 -TTTT-GTT-TCTCTATTT
59282405 GTTGCGTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.10
16 12 0.40
17 4 0.13
18 3 0.10
19 5 0.17
20 3 0.10
ACGTcount: A:0.06, C:0.18, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTTGTTTCTCTATTTA
Found at i:59282383 original size:33 final size:35
Alignment explanation
Indices: 59282334--59282404 Score: 101
Period size: 33 Copynumber: 2.1 Consensus size: 35
59282324 AGTTATCCGT
* *
59282334 TTTTTTTCTTTTTCTTTTCCTTTT-GTT-TCTCTA
1 TTTTTTTCTTTCTCTTTTACTTTTCGTTCTCTCTA
*
59282367 TTTTTTTGTTTCTCTTTTACTTTTCGTTCTCTCTA
1 TTTTTTTCTTTCTCTTTTACTTTTCGTTCTCTCTA
59282402 TTT
1 TTT
59282405 GTTGCGTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 21 0.64
34 3 0.09
35 9 0.27
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.73
Consensus pattern (35 bp):
TTTTTTTCTTTCTCTTTTACTTTTCGTTCTCTCTA
Found at i:59285662 original size:17 final size:19
Alignment explanation
Indices: 59285656--59285690 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
59285646 ATAAAATAGA
59285656 ACAATAAATCAAAGATTAG
1 ACAATAAATCAAAGATTAG
59285675 ACAATAAA--AAAGATTA
1 ACAATAAATCAAAGATTA
59285691 TAAAGAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.63, C:0.09, G:0.09, T:0.20
Consensus pattern (19 bp):
ACAATAAATCAAAGATTAG
Found at i:59288608 original size:44 final size:44
Alignment explanation
Indices: 59288545--59288631 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
59288535 GTAGGTCAAA
* *
59288545 TAATATTAAAGTAACCTACACTAATCAGAGTTTAAGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGCTTAAGTGGGAAAC
*
59288589 TAATATTAAAATAATCTACACTAATCAGAGCTTAAGTGGGAAA
1 TAATATTAAAATAACCTACACTAATCAGAGCTTAAGTGGGAAA
59288632 TTAAAAACAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.28
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAGAGCTTAAGTGGGAAAC
Found at i:59291868 original size:132 final size:133
Alignment explanation
Indices: 59291663--59291948 Score: 364
Period size: 132 Copynumber: 2.2 Consensus size: 133
59291653 TATTTTTAGA
* * * *
59291663 ATTTTTA-AGAAACATGAGTGAAATTCTAAAGGGGATATTCGATTATTTTAAACCAACAGGAAAT
1 ATTTTTAGA-AAACATGAATGAAATTCCAAAGGGGACATTCGATTATTTTAAACAAACAGGAAAT
* * ** * *
59291727 CGCAACCCAGCATGATAGGGCACGATTCCCCGAATTGCCAAACATCGAGTATTACCTTCGTTTTA
65 CGCAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACACCGAACATCACCTTCGTTTCA
59291792 AA-G
130 AAGG
* *
59291795 AGTTTTTAGAAAACATGAATGAAATTCCAAA-GGGACATTCGATTATTTTGAGCAAAC-GAGAAA
1 A-TTTTTAGAAAACATGAATGAAATTCCAAAGGGGACATTCGATTATTTTAAACAAACAG-GAAA
* * * * *
59291858 TTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATACCGAACATCGCCTTCGTTTC
64 TCGCAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACACCGAACATCACCTTCGTTTC
59291923 AAAGG
129 AAAGG
59291928 ATTTTTAGAAAACATGAATGA
1 ATTTTTAGAAAACATGAATGA
59291949 TTATAAAACT
Statistics
Matches: 133, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
131 1 0.01
132 104 0.78
133 27 0.20
134 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (133 bp):
ATTTTTAGAAAACATGAATGAAATTCCAAAGGGGACATTCGATTATTTTAAACAAACAGGAAATC
GCAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACACCGAACATCACCTTCGTTTCAA
AGG
Found at i:59301525 original size:15 final size:15
Alignment explanation
Indices: 59301502--59301531 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59301492 TCTCATCACC
*
59301502 AAAACTAAACAAAAG
1 AAAAATAAACAAAAG
59301517 AAAAATAAACAAAAG
1 AAAAATAAACAAAAG
59301532 CTTTGTAATA
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:0.77, C:0.10, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAATAAACAAAAG
Found at i:59307748 original size:25 final size:25
Alignment explanation
Indices: 59307720--59307768 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
59307710 TCAAGCCTAT
*
59307720 TTTGATTTGGATCGTAGAGAGCAAC
1 TTTGATTTGGATCATAGAGAGCAAC
59307745 TTTGATTTGGATCATAGAGAGCAA
1 TTTGATTTGGATCATAGAGAGCAA
59307769 TCTAACCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.33
Consensus pattern (25 bp):
TTTGATTTGGATCATAGAGAGCAAC
Found at i:59308776 original size:25 final size:24
Alignment explanation
Indices: 59308742--59309122 Score: 122
Period size: 25 Copynumber: 15.6 Consensus size: 24
59308732 AAATGAATTA
*
59308742 AAATAATATAAAAATATTTAAAAGT
1 AAATAATATAAAAAGATTTAAAA-T
* * *
59308767 AAATAGTATAACAAGGTTTAAAAT
1 AAATAATATAAAAAGATTTAAAAT
* ** * *
59308791 AAATGATGAATAAAACCA-ATAAAGT
1 AAATAAT--ATAAAAAGATTTAAAAT
* *
59308816 --ACAACATAAAAAG-TTTAAAAT
1 AAATAATATAAAAAGATTTAAAAT
*
59308837 AAATAATATATAAAAAGGTTTAAAAT
1 AAAT-A-ATATAAAAAGATTTAAAAT
* * *
59308863 AAATAATATATGAAACGATTCAGAAT
1 AAATAATATA--AAAAGATTTAAAAT
* * *
59308889 AAACAATATATAAA-TTTTAAAAT
1 AAATAATATAAAAAGATTTAAAAT
* ** *
59308912 -AA-AGTATAAATCGATTTGAAAT
1 AAATAATATAAAAAGATTTAAAAT
* * * *
59308934 AAATAGTTTATAAAGCAATTTAAAGT
1 AAATAATATAAAAAG--ATTTAAAAT
* *
59308960 TAATAATATATAAAATAATTTAAAAT
1 AAATAATATA-AAAA-GATTTAAAAT
** *
59308986 -AATAATGCAAAACA-AATTAAAAT
1 AAATAATATAAAA-AGATTTAAAAT
* *
59309009 AAATAATGTGTTAAAACA-ATTTAAAAC
1 AAATAA--T-ATAAAA-AGATTTAAAAT
* *
59309036 AAATACTATATGAAAA-ACTTAAAAT
1 AAATA--ATATAAAAAGATTTAAAAT
* *
59309061 AAATAATAATAAAACTG-TTCAAAAT
1 AAATAAT-ATAAAA-AGATTTAAAAT
* * *
59309086 AAATACTAT-GAAAGATTTATAAT
1 AAATAATATAAAAAGATTTAAAAT
*
59309109 AAATAAAATAAAAA
1 AAATAATATAAAAA
59309123 AGAATACAAT
Statistics
Matches: 255, Mismatches: 72, Indels: 59
0.66 0.19 0.15
Matches are distributed among these distances:
21 17 0.07
22 10 0.04
23 36 0.14
24 39 0.15
25 67 0.26
26 63 0.25
27 22 0.09
29 1 0.00
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (24 bp):
AAATAATATAAAAAGATTTAAAAT
Found at i:59308871 original size:26 final size:26
Alignment explanation
Indices: 59308821--59308902 Score: 103
Period size: 26 Copynumber: 3.2 Consensus size: 26
59308811 AAAGTACAAC
59308821 ATAAAAA-GTTTAAAATAAATAATAT
1 ATAAAAAGGTTTAAAATAAATAATAT
59308846 ATAAAAAGGTTTAAAATAAATAATAT
1 ATAAAAAGGTTTAAAATAAATAATAT
* * * * * *
59308872 ATGAAACGATTCAGAATAAACAATAT
1 ATAAAAAGGTTTAAAATAAATAATAT
59308898 ATAAA
1 ATAAA
59308903 TTTTAAAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 7 0.14
26 42 0.86
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (26 bp):
ATAAAAAGGTTTAAAATAAATAATAT
Found at i:59309012 original size:27 final size:26
Alignment explanation
Indices: 59308982--59309075 Score: 79
Period size: 27 Copynumber: 3.6 Consensus size: 26
59308972 AAATAATTTA
59308982 AAATAATAATGCAAAACAAATTAAAAT
1 AAATAATAATG-AAAACAAATTAAAAT
* * *
59309009 AAATAAT-GTGTTAAAACAATTTAAAAC
1 AAATAATAATG--AAAACAAATTAAAAT
* *
59309036 AAATACTATATG-AAA-AACTTAAAAT
1 AAATAATA-ATGAAAACAAATTAAAAT
59309061 AAATAATAAT-AAAAC
1 AAATAATAATGAAAAC
59309076 TGTTCAAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
24 5 0.09
25 15 0.28
26 5 0.09
27 26 0.49
29 2 0.04
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (26 bp):
AAATAATAATGAAAACAAATTAAAAT
Found at i:59309074 original size:50 final size:48
Alignment explanation
Indices: 59309002--59309121 Score: 116
Period size: 48 Copynumber: 2.4 Consensus size: 48
59308992 GCAAAACAAA
** *
59309002 TTAAAATAAATAATGTGTTAAAACAATTTAAAACAAATACTATATGAAAAAC
1 TTAAAATAAATAA--TAATAAAACAATTCAAAACAAATAC--TATGAAAAAC
** * * *
59309054 TTAAAATAAATAATAATAAAACTGTTCAAAATAAATACTATGAAAGAT
1 TTAAAATAAATAATAATAAAACAATTCAAAACAAATACTATGAAAAAC
*
59309102 TTATAATAAATAA-AATAAAA
1 TTAAAATAAATAATAATAAAA
59309122 AAGAATACAA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
47 7 0.12
48 20 0.34
50 19 0.32
52 13 0.22
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.29
Consensus pattern (48 bp):
TTAAAATAAATAATAATAAAACAATTCAAAACAAATACTATGAAAAAC
Found at i:59309398 original size:11 final size:11
Alignment explanation
Indices: 59309384--59309426 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
59309374 TGTTTTCTCC
*
59309384 CTATTTTGCTA
1 CTATTTTACTA
59309395 CTATTTTACTA
1 CTATTTTACTA
* *
59309406 TTATGTTACTA
1 CTATTTTACTA
59309417 CTATTTTACT
1 CTATTTTACT
59309427 GTTATTGTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.56
Consensus pattern (11 bp):
CTATTTTACTA
Found at i:59309432 original size:11 final size:11
Alignment explanation
Indices: 59309385--59309432 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
59309375 GTTTTCTCCC
* *
59309385 TATTTTGCTAC
1 TATTTTACTAT
59309396 TATTTTACTAT
1 TATTTTACTAT
* *
59309407 TATGTTACTAC
1 TATTTTACTAT
*
59309418 TATTTTACTGT
1 TATTTTACTAT
59309429 TATT
1 TATT
59309433 GTTTGGATAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.23, C:0.12, G:0.06, T:0.58
Consensus pattern (11 bp):
TATTTTACTAT
Found at i:59311357 original size:44 final size:44
Alignment explanation
Indices: 59311298--59311694 Score: 244
Period size: 44 Copynumber: 8.7 Consensus size: 44
59311288 AGCTTCAATA
59311298 TGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTAACTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTAACTTCAACC
* * * * *
59311342 TGCTCCACTGTAACTTTAGTGAGATAAGGTTTGTGATTTGTAGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCTTGT-A-----A-CTTCAACC
* * * * ** **
59311393 TACTCCACTGCAACTTTAGGGAGATAA-GATTCACTATTTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCTT--GTAACTTCAACC
** *
59311438 TGCTCCACTATAACTTCAGGGAGATAAGACTTGTAACTTCGAA-C
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTAACTTC-AACC
* * * **
59311482 TGCCCCACTGCAACTTTAGGGGGATAAGG-TTCGTGGCTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCTT-GTAACTTCAACC
* *
59311526 TGCTCCACTACAACTTCAGGGAGATAAGGTTTGTGATTTGTAGCTTCAATCC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCTTGT-A-----A-CTTCAA-CC
* * ** * * **
59311578 -ACTCCACTGCAACTTCAGAGAGATAAGATTCTCTATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCT-TGTAACTTCAACC
* * * * *
59311622 TGCTCCATTGCAACTTCAAGGAGATGAGACTTGTAAATTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTAACTTCAACC
* *
59311666 TACTCCACTGCAACTTCAGGAAGATAAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGG
59311695 TTAGGGGCTT
Statistics
Matches: 267, Mismatches: 62, Indels: 48
0.71 0.16 0.13
Matches are distributed among these distances:
43 4 0.01
44 125 0.47
45 62 0.23
46 2 0.01
50 4 0.01
51 65 0.24
52 5 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTAACTTCAACC
Found at i:59311508 original size:89 final size:87
Alignment explanation
Indices: 59311379--59311693 Score: 279
Period size: 89 Copynumber: 3.5 Consensus size: 87
59311369 GGTTTGTGAT
* * *
59311379 TTGTAGCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTCACTATTTTCAGTCTGCTCC
1 TTGTAACTTCAA-CTACCCCACTGCAACTTTAGGGAGATAAGATTC-CTATCTTCAGTCTGCTCC
*
59311444 ACTATAACTTCAGGGAGATAAGAC
64 ACTACAACTTCAGGGAGATAAGAC
* * * * ** **
59311468 TTGTAACTTCGAACTGCCCCACTGCAACTTTAGGGGGATAAGGTTCGTGGCTTCAACCTGCTCCA
1 TTGTAACTTC-AACTACCCCACTGCAACTTTAGGGAGATAAGATTCCTATCTTCAGTCTGCTCCA
*
59311533 CTACAACTTCAGGGAGATAAGGTTTGTGAT
65 CTACAACTTCAGGGAGATAA-------GAC
* * * * *
59311563 TTGTAGCTTCAATCCACTCCACTGCAACTTCAGAGAGATAAGATTCTCTATCTTCAGTCTGCTCC
1 TTGTAACTTCAA-CTACCCCACTGCAACTTTAGGGAGATAAGATTC-CTATCTTCAGTCTGCTCC
* * * *
59311628 ATTGCAACTTCAAGGAGATGAGAC
64 ACTACAACTTCAGGGAGATAAGAC
* * * *
59311652 TTGTAAATTCAACCTACTCCACTGCAACTTCAGGAAGATAAG
1 TTGTAACTTCAA-CTACCCCACTGCAACTTTAGGGAGATAAG
59311694 GTTAGGGGCT
Statistics
Matches: 179, Mismatches: 37, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
88 32 0.18
89 76 0.42
90 2 0.01
94 2 0.01
95 37 0.21
96 30 0.17
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (87 bp):
TTGTAACTTCAACTACCCCACTGCAACTTTAGGGAGATAAGATTCCTATCTTCAGTCTGCTCCAC
TACAACTTCAGGGAGATAAGAC
Found at i:59311621 original size:184 final size:183
Alignment explanation
Indices: 59311302--59311737 Score: 586
Period size: 184 Copynumber: 2.4 Consensus size: 183
59311292 TCAATATGCT
** * *
59311302 CCACTGCAACTTCAGGGAGATAAGGCTTGTAACTTCAACCTGCTCCACTGTAACTTTAGTGAGAT
1 CCACTGCAACTTCAGGGAGATAAGG-TTGTGGCTTCAACCTGCTCCACTGCAACTTTAGGGAGAT
* * * *
59311367 AAGGTTTGTGATTTGTAGCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTCACTATTT
65 AAGGTTTGTGATTTGTAGCTTCAATCCACTCCACTGCAACTTCAGAGAGATAAGATTCACTATCT
* * * *
59311432 TCAGTCTGCTCCACTATAACTTCAGGGAGATAAGACTTGTAACTTCGAA-CTGCC
130 TCAGTCTGCTCCACTACAACTTCAAGGAGATAAGACTTGTAAATTC-AACCTACC
* * * *
59311486 CCACTGCAACTTTAGGGGGATAAGGTTCGTGGCTTCAACCTGCTCCACTACAACTTCAGGGAGAT
1 CCACTGCAACTTCAGGGAGATAAGGTT-GTGGCTTCAACCTGCTCCACTGCAACTTTAGGGAGAT
*
59311551 AAGGTTTGTGATTTGTAGCTTCAATCCACTCCACTGCAACTTCAGAGAGATAAGATTCTCTATCT
65 AAGGTTTGTGATTTGTAGCTTCAATCCACTCCACTGCAACTTCAGAGAGATAAGATTCACTATCT
* * * *
59311616 TCAGTCTGCTCCATTGCAACTTCAAGGAGATGAGACTTGTAAATTCAACCTACT
130 TCAGTCTGCTCCACTACAACTTCAAGGAGATAAGACTTGTAAATTCAACCTACC
* * * * * *
59311670 CCACTGCAACTTCAGGAAGATAAGGTTAGGGGCTTCGATCTGCTCTACTGCAACTTTAAGGAGAT
1 CCACTGCAACTTCAGGGAGATAAGGTT-GTGGCTTCAACCTGCTCCACTGCAACTTTAGGGAGAT
59311735 AAG
65 AAG
59311738 ATTCGCCATG
Statistics
Matches: 218, Mismatches: 32, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
183 4 0.02
184 214 0.98
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (183 bp):
CCACTGCAACTTCAGGGAGATAAGGTTGTGGCTTCAACCTGCTCCACTGCAACTTTAGGGAGATA
AGGTTTGTGATTTGTAGCTTCAATCCACTCCACTGCAACTTCAGAGAGATAAGATTCACTATCTT
CAGTCTGCTCCACTACAACTTCAAGGAGATAAGACTTGTAAATTCAACCTACC
Found at i:59312131 original size:44 final size:44
Alignment explanation
Indices: 59311997--59312541 Score: 266
Period size: 44 Copynumber: 12.4 Consensus size: 44
59311987 TCCCTAGAAC
* * *
59311997 TTCAAGGAGATAAGAATTATGGCTTCGAGCTGCTCCAATACCAT
1 TTCAAGGAGATAAGAATTGTGGCTTCGAGCTACTCCAATGCCAT
* * * * ** ** *
59312041 TTC-AGG-GAGAAGAGA-TGTAGCTTCAATCTACTCCGCTGGAAC
1 TTCAAGGAGATAAGA-ATTGTGGCTTCGAGCTACTCCAATGCCAT
* * *
59312083 TTCAAAGAGATAAGAATTGTGGCTTCGAGCCACTCCAATCCCAT
1 TTCAAGGAGATAAGAATTGTGGCTTCGAGCTACTCCAATGCCAT
* * * * ** * *
59312127 TTCAAGGAGA-AGAGATTTGTAGCTTCAATCTACTCCGCTAG-AAC
1 TTCAAGGAGATA-AGAATTGTGGCTTCGAGCTACTCCAAT-GCCAT
* **
59312171 TTCAAGGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCAT
1 TTCAAGGAGATAAGAATTGTGGCTTCGAGCTACTCCAATGCCAT
* * * ** ** *
59312215 TTC-AGG-GAGAAGAGATCTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCAAGGAGATAAGA-AT-TGTGGCTTCGAGCTACTCCAATGCCAT
* ** * *
59312259 TTCAAGGAGATATGAATTGTGGCTTCGAGCCGCTCCTATTCCAT
1 TTCAAGGAGATAAGAATTGTGGCTTCGAGCTACTCCAATGCCAT
* * * * * ** ** *
59312303 TTCAAGAAGA-AGAGATTTGTAGTTTCGATCTACTCCGCTGGAAC
1 TTCAAGGAGATA-AGAATTGTGGCTTCGAGCTACTCCAATGCCAT
* * *
59312347 TTCAAGGAGATATGAATTGTGGCTTCGAGCTGCTCCAATTCCAT
1 TTCAAGGAGATAAGAATTGTGGCTTCGAGCTACTCCAATGCCAT
* * * * * *** **
59312391 TTCAAGGAGAAAAGATTTGTAGTTTCGATCTACTCTGCTGGAACT
1 TTCAAGGAGATAAGAATTGTGGCTTCGAGCTACTCCAATGCCA-T
* ** *
59312436 TT-AAGGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGTCAT
1 TTCAAGGAGATAAGAATTGTGGCTTCGAGCTACTCCAATGCCAT
* * * * * * *
59312479 TTCAGGGAGA-AGAGATTTGTAGCTTCGATCTACTCCATTAG-AAC
1 TTCAAGGAGATA-AGAATTGTGGCTTCGAGCTACTCCAAT-GCCAT
*
59312523 TTCAAGGAGATAATAATTG
1 TTCAAGGAGATAAGAATTG
59312542 ATGATTTCAA
Statistics
Matches: 347, Mismatches: 135, Indels: 38
0.67 0.26 0.07
Matches are distributed among these distances:
42 30 0.09
43 19 0.05
44 281 0.81
45 12 0.03
46 5 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
TTCAAGGAGATAAGAATTGTGGCTTCGAGCTACTCCAATGCCAT
Found at i:59312188 original size:88 final size:88
Alignment explanation
Indices: 59311952--59312541 Score: 853
Period size: 88 Copynumber: 6.7 Consensus size: 88
59311942 TTTCATTGTA
* * *
59311952 ATTTCAGGGAGAAGAGATTTGTAGTTTCGATCTACTCC-CTAGAACTTCAAGGAGATAAGAATTA
1 ATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTG
* *
59312016 TGGCTTCGAGCTGCTCCAATACC
66 TGGCTTCGAGCCGCTCCAATGCC
* *
59312039 ATTTCAGGGAGAAGAGA--TGTAGCTTCAATCTACTCCGCTGGAACTTCAAAGAGATAAGAATTG
1 ATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTG
* *
59312102 TGGCTTCGAGCCACTCCAATCCC
66 TGGCTTCGAGCCGCTCCAATGCC
* * * *
59312125 ATTTCAAGGAGAAGAGATTTGTAGCTTCAATCTACTCCGCTAGAACTTCAAGGAGATACGAATTG
1 ATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTG
59312190 TGGCTTCGAGCCGCTCCAATGCC
66 TGGCTTCGAGCCGCTCCAATGCC
* *
59312213 ATTTCAGGGAGAAGAGATCTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATATGAATTG
1 ATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTG
* *
59312278 TGGCTTCGAGCCGCTCCTATTCC
66 TGGCTTCGAGCCGCTCCAATGCC
* * * *
59312301 ATTTCAAGAAGAAGAGATTTGTAGTTTCGATCTACTCCGCTGGAACTTCAAGGAGATATGAATTG
1 ATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTG
* *
59312366 TGGCTTCGAGCTGCTCCAATTCC
66 TGGCTTCGAGCCGCTCCAATGCC
* * * * * *
59312389 ATTTCAAGGAGAAAAGATTTGTAGTTTCGATCTACTCTGCTGGAACTTTAAGGAGATACGAATTG
1 ATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTG
*
59312454 TGGCTTCGAGCCGCTCCAATGTC
66 TGGCTTCGAGCCGCTCCAATGCC
** * *
59312477 ATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCATTAGAACTTCAAGGAGATAATAATTG
1 ATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTG
59312542 ATGATTTCAA
Statistics
Matches: 455, Mismatches: 45, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
85 17 0.04
86 59 0.13
87 17 0.04
88 362 0.80
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (88 bp):
ATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTG
TGGCTTCGAGCCGCTCCAATGCC
Found at i:59312703 original size:130 final size:130
Alignment explanation
Indices: 59312547--59313356 Score: 1125
Period size: 130 Copynumber: 6.2 Consensus size: 130
59312537 AATTGATGAT
* * * * * *
59312547 TTCAACCTGCTCCACTACTGCTTAGGGGGATAGGATGGTGACTTAAATCTGCTCCACTACTCCTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
* * * * * * **
59312612 AGGGAGACAAGATTTGTTATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATTTACAATC
66 AGGGAGACAAGATTCGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
* *
59312677 TTTAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATTTGCTCCACTACTGCTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
* ** *
59312742 AGGGAGATAAGATTCGTTGTCTACGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
66 AGGGAGACAAGATTCGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
* *
59312807 TTCAGCCTATTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATTTGCTCCACTACTGCTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
* ** * *
59312872 AGGGAGATAAGATTCGTTGTCTACGATCTACTCCACTACTACTTAGGGAGATAAGATCTGTAATC
66 AGGGAGACAAGATTCGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
* *
59312937 TTCAGCCTATTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
* * * * * *
59313002 AGGGAGATAATATTCGTCATCTTTGATCTGCTCTACTACTGCTTAGGGAGATAAGATATGTAATC
66 AGGGAGACAAGATTCGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
* * * *
59313067 TTCAGCCTATTCCACTACTGCTTAGGGAGATAGGATTGTGGCTTAAATATGCTCCACTATTGCTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
* * * * * *
59313132 AGGGTGACAAAATTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
66 AGGGAGACAAGATTCGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
* *
59313197 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATTGTGGCTTAAATCTGCTCCACTACTGCAT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
* * * ** * **
59313262 AGGGAAACAATATTCGTCGTCTTCGATCTATTCTACTACTACTTAGGGAGATAAGATCTACAATC
66 AGGGAGACAAGATTCGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
59313327 TTCAGCCTACTCCACTACTGCTTAGGGAGA
1 TTCAGCCTACTCCACTACTGCTTAGGGAGA
59313357 CAAGATTCGT
Statistics
Matches: 619, Mismatches: 61, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
130 619 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (130 bp):
TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
AGGGAGACAAGATTCGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
Found at i:59319037 original size:26 final size:27
Alignment explanation
Indices: 59319008--59319101 Score: 70
Period size: 26 Copynumber: 3.5 Consensus size: 27
59318998 TAAAACCATT
*
59319008 TAAAATACA-AAATAAAGA-GTTTAAAA
1 TAAAATA-ATAAATAAAAAGGTTTAAAA
*
59319034 T-AAATAATATATAAAAAGGTTTAAAA
1 TAAAATAATAAATAAAAAGGTTTAAAA
* * *
59319060 T-AAATAATATATGAAACGGTTTAGAACA
1 TAAAATAATAAATAAAAAGGTTTA-AA-A
*
59319088 AAAAATATATAAAT
1 TAAAATA-ATAAAT
59319102 TTTAAAATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
24 1 0.02
25 12 0.21
26 30 0.54
27 2 0.04
28 1 0.02
29 5 0.09
30 5 0.09
ACGTcount: A:0.61, C:0.03, G:0.09, T:0.28
Consensus pattern (27 bp):
TAAAATAATAAATAAAAAGGTTTAAAA
Found at i:59319093 original size:73 final size:73
Alignment explanation
Indices: 59318955--59319112 Score: 169
Period size: 73 Copynumber: 2.2 Consensus size: 73
59318945 TATAAAAATA
* * * *
59318955 TTTAAAAGTAAATAATATAACAAGGTTTAAAATAAATGATGAATAAAACCATTTAAAATACAAAA
1 TTTAAAA-TAAATAATATAAAAAGGTTTAAAATAAATAATGAATAAAACCATTTAAAACAAAAAA
*
59319020 TA-A-AGAG
65 TATATAAAG
* ** *
59319027 TTTAAAATAAATAATATATAAAAAGGTTTAAAATAAATAAT-ATATGAAACGGTTTAGAACAAAA
1 TTTAAAATAAAT-A-ATATAAAAAGGTTTAAAATAAATAATGA-ATAAAACCATTTAAAACAAAA
*
59319091 AATATATAAAT
63 AATATATAAAG
59319102 TTTAAAATAAA
1 TTTAAAATAAA
59319113 GTATAAATCA
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
71 5 0.07
72 9 0.13
73 43 0.61
74 1 0.01
75 13 0.18
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (73 bp):
TTTAAAATAAATAATATAAAAAGGTTTAAAATAAATAATGAATAAAACCATTTAAAACAAAAAAT
ATATAAAG
Found at i:59319162 original size:26 final size:25
Alignment explanation
Indices: 59319031--59319273 Score: 109
Period size: 26 Copynumber: 9.8 Consensus size: 25
59319021 AAAGAGTTTA
*
59319031 AAATAAATAATATATAAAA-AGGTTT
1 AAATAAATAATATATAAAACA-ATTT
* **
59319056 AAAATAAATAATATATGAAACGGTTT
1 -AAATAAATAATATATAAAACAATTT
* *
59319082 AGAACAAA-AA-ATAT-ATA-AATTT
1 A-AATAAATAATATATAAAACAATTT
* *
59319104 -TA-AAATAA-AGTATAAATCAATTT
1 AAATAAATAATA-TATAAAACAATTT
* *
59319127 GAAATAAATAGTTTATAAAACAATTT
1 -AAATAAATAATATATAAAACAATTT
* *
59319153 AAAGTGAATAATATATAAAATAATTT
1 AAA-TAAATAATATATAAAACAATTT
*
59319179 --A-AAATAATA-ATACAATACAAATTA
1 AAATAAATAATATATA-AA-AC-AATTT
* *
59319203 AAATAAATAATGTGATAAAAAAATTT
1 AAATAAATAATAT-ATAAAACAATTT
* * * *
59319229 AAAACAAATACTATATGAAAA-ACTTA
1 -AAATAAATAATATAT-AAAACAATTT
59319255 AAATAAATAATA-ATAAAAC
1 AAATAAATAATATATAAAAC
59319274 TGTTCAAAAT
Statistics
Matches: 165, Mismatches: 30, Indels: 46
0.68 0.12 0.19
Matches are distributed among these distances:
19 3 0.02
20 4 0.02
21 6 0.04
22 13 0.08
23 12 0.07
24 11 0.07
25 17 0.10
26 72 0.44
27 22 0.13
28 2 0.01
29 3 0.02
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (25 bp):
AAATAAATAATATATAAAACAATTT
Found at i:59319271 original size:50 final size:48
Alignment explanation
Indices: 59319159--59319321 Score: 127
Period size: 50 Copynumber: 3.3 Consensus size: 48
59319149 ATTTAAAGTG
* *
59319159 AATAATATATAAAATAATTTAAAATAATAATACA-AT-ACAAATTAAAATA
1 AATAATA-ATAAAAAAATTTAAAA-AA-AATACATATGAAAAATTAAAATA
* *
59319208 AATAATGTGATAAAAAAATTTAAAACAAATACTATATGAAAAACTTAAAATA
1 AATAA--TAATAAAAAAATTTAAAAAAAATAC-ATATGAAAAA-TTAAAATA
*** * * * *
59319260 AATAATAATAAAACTGTTCAAAATAAATAC-TATGAAAGATTTATAATA
1 AATAATAATAAAAAAATTTAAAAAAAATACATATGAAA-AATTAAAATA
59319308 AATAA-AATAAAAAA
1 AATAATAATAAAAAA
59319322 GAATACAAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
47 7 0.08
48 24 0.26
49 8 0.09
50 36 0.39
51 5 0.05
52 13 0.14
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (48 bp):
AATAATAATAAAAAAATTTAAAAAAAATACATATGAAAAATTAAAATA
Found at i:59319331 original size:12 final size:12
Alignment explanation
Indices: 59319316--59319341 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
59319306 TAAATAAAAT
59319316 AAAAAAGAATAC
1 AAAAAAGAATAC
59319328 AAAAAAGAATAC
1 AAAAAAGAATAC
59319340 AA
1 AA
59319342 TATAATGAAA
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:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAAAAGAATAC
Found at i:59321562 original size:35 final size:35
Alignment explanation
Indices: 59321495--59321563 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
59321485 GACAATGTTT
* *
59321495 GTTATGACCATTTAAAGAATTCAAACATATTTTTA
1 GTTATGACCATCTAAAGAATTCAAACACATTTTTA
59321530 GTTATGACCATCTAAAGAATTCAAA-AGCATTTTT
1 GTTATGACCATCTAAAGAATTCAAACA-CATTTTT
59321564 CTTTACAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 1 0.03
35 30 0.97
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (35 bp):
GTTATGACCATCTAAAGAATTCAAACACATTTTTA
Found at i:59323114 original size:27 final size:28
Alignment explanation
Indices: 59323084--59323144 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
59323074 TTTCTGTATT
*
59323084 TTTTTATATTT-GAATTTAGTATCTCTA
1 TTTTTATATTTGGAATTTAATATCTCTA
* *
59323111 TTTTTATTTTTGGGAATTTAATTTCTCTA
1 TTTTTATATTT-GGAATTTAATATCTCTA
59323140 TTTTT
1 TTTTT
59323145 TAAGTTTCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 10 0.34
29 19 0.66
ACGTcount: A:0.21, C:0.07, G:0.08, T:0.64
Consensus pattern (28 bp):
TTTTTATATTTGGAATTTAATATCTCTA
Found at i:59324214 original size:17 final size:19
Alignment explanation
Indices: 59324176--59324216 Score: 59
Period size: 17 Copynumber: 2.2 Consensus size: 19
59324166 ATGAATAAAA
59324176 TAATATTTAGTCTCTAAATT
1 TAATATTTAGTCTC-AAATT
59324196 TAATATTT-GTCTC-AATT
1 TAATATTTAGTCTCAAATT
59324213 TAAT
1 TAAT
59324217 CTATAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.38
19 5 0.24
20 8 0.38
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (19 bp):
TAATATTTAGTCTCAAATT
Found at i:59324851 original size:28 final size:28
Alignment explanation
Indices: 59324811--59324901 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
59324801 GTCATTATCA
59324811 ACCCCATAAGTTATAAAACTCTTCTTAT
1 ACCCCATAAGTTATAAAACTCTTCTTAT
59324839 ACCCCATAAGTTATAAAACTCTT-TCTAT
1 ACCCCATAAGTTATAAAACTCTTCT-TAT
* * *
59324867 ACCCCATAAGTTATAAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCTTAT
59324895 ACCCCAT
1 ACCCCAT
59324902 TAATATGGGA
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
27 1 0.02
28 57 0.98
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.34
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCTTAT
Found at i:59328219 original size:6 final size:6
Alignment explanation
Indices: 59328208--59328249 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
59328198 CATATATGAA
*
59328208 AAATAT AAATAT AAATAT AAATAT AAATAC AAATAT AAATAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT
59328250 CACATAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:59330503 original size:25 final size:25
Alignment explanation
Indices: 59330454--59330503 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
59330444 TCATGTGTCT
*
59330454 CATTTTCATGTTTCAATTCACTATCC
1 CATTTTCA-GTTTCAATTCAATATCC
59330480 CATTTTCA-TTTCACATTCAATATC
1 CATTTTCAGTTTCA-ATTCAATATC
59330504 ATCCAATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 9 0.41
26 8 0.36
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.46
Consensus pattern (25 bp):
CATTTTCAGTTTCAATTCAATATCC
Found at i:59331615 original size:21 final size:22
Alignment explanation
Indices: 59331581--59331625 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
59331571 TGGCCGTGAG
59331581 TTCTTCTTCCTTTCTTTCCCTTT
1 TTCTTCTTCCTTTCTTT-CCTTT
59331604 TTCTT-TT-CTTTCTTTCCTTT
1 TTCTTCTTCCTTTCTTTCCTTT
59331624 TT
1 TT
59331626 AATTTCGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 8 0.36
22 2 0.09
23 5 0.23
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (22 bp):
TTCTTCTTCCTTTCTTTCCTTT
Found at i:59331631 original size:20 final size:21
Alignment explanation
Indices: 59331590--59331631 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
59331580 GTTCTTCTTC
**
59331590 CTTTCTTTCCCTTTTTCTTTT
1 CTTTCTTTCCCTTTTTAATTT
59331611 CTTTCTTT-CCTTTTTAATTT
1 CTTTCTTTCCCTTTTTAATTT
59331631 C
1 C
59331632 GTTGCCTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (21 bp):
CTTTCTTTCCCTTTTTAATTT
Found at i:59331647 original size:2 final size:2
Alignment explanation
Indices: 59331640--59331670 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59331630 TCGTTGCCTT
59331640 TC TC 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 TC TC T
59331671 TTTATTCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:59335548 original size:13 final size:13
Alignment explanation
Indices: 59335530--59335593 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
59335520 AGTTTAACAT
59335530 TGTTTTTGAAAAA
1 TGTTTTTGAAAAA
59335543 TGTTTTT-AAAAA
1 TGTTTTTGAAAAA
* * *
59335555 GTGTTGTGGAAAAG
1 -TGTTTTTGAAAAA
*
59335569 TGTTTTTGAGAAA
1 TGTTTTTGAAAAA
**
59335582 TACTTTTGAAAA
1 TGTTTTTGAAAA
59335594 GTTTAGTTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
12 5 0.13
13 30 0.77
14 4 0.10
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (13 bp):
TGTTTTTGAAAAA
Found at i:59353671 original size:20 final size:19
Alignment explanation
Indices: 59353633--59353679 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
59353623 TTTTAATTTA
59353633 TTTGGTTTTATTTATTGTT
1 TTTGGTTTTATTTATTGTT
59353652 TTTGGTTTCTATTT-TCTGTT
1 TTTGGTTT-TATTTAT-TGTT
59353672 TTT-GTTTT
1 TTTGGTTTT
59353680 TGTATGGGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 1 0.04
19 13 0.50
20 12 0.46
ACGTcount: A:0.06, C:0.04, G:0.15, T:0.74
Consensus pattern (19 bp):
TTTGGTTTTATTTATTGTT
Found at i:59353934 original size:2 final size:2
Alignment explanation
Indices: 59353927--59353957 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
59353917 TTCGAATCCT
59353927 TC TC 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 TC TC T
59353958 ATAATATTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:59354683 original size:18 final size:18
Alignment explanation
Indices: 59354577--59354674 Score: 56
Period size: 18 Copynumber: 5.3 Consensus size: 18
59354567 AGTATCTAGC
*
59354577 ATTATAAAATACTATTAATAT
1 ATTATAAAA-A-TATTAA-AA
*
59354598 ATTATAAAAATATGAAAA
1 ATTATAAAAATATTAAAA
* * *
59354616 ATCATTGAAATTATTAACAA
1 ATTA-TAAAAATATTAA-AA
** *
59354636 A--ATAGGAACATTAAAA
1 ATTATAAAAATATTAAAA
*
59354652 ATTATAAAAATATTAAAT
1 ATTATAAAAATATTAAAA
59354670 ATTAT
1 ATTAT
59354675 TAATATATTG
Statistics
Matches: 58, Mismatches: 15, Indels: 11
0.69 0.18 0.13
Matches are distributed among these distances:
16 3 0.05
17 7 0.12
18 21 0.36
19 14 0.24
20 4 0.07
21 9 0.16
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (18 bp):
ATTATAAAAATATTAAAA
Found at i:59357657 original size:19 final size:19
Alignment explanation
Indices: 59357633--59357688 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
59357623 ATTGGTGTAA
59357633 ATTT-AAACTTTTTCTATTT
1 ATTTAAAACTTTTT-TATTT
**
59357652 ATTTAAAACCATTTTATTT
1 ATTTAAAACTTTTTTATTT
* *
59357671 ATTTCAAACTTTTGTATT
1 ATTTAAAACTTTTTTATT
59357689 GAGTTATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 23 0.77
20 7 0.23
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57
Consensus pattern (19 bp):
ATTTAAAACTTTTTTATTT
Found at i:59361944 original size:18 final size:18
Alignment explanation
Indices: 59361921--59361969 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
59361911 CTTTTCCCCC
59361921 CTCCCTTCTCTCTTCTTT
1 CTCCCTTCTCTCTTCTTT
*
59361939 CTCCCTTC-CT-TTTTTT
1 CTCCCTTCTCTCTTCTTT
* *
59361955 TTCTCTTCTCTCTTC
1 CTCCCTTCTCTCTTC
59361970 AAAATGATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 11 0.44
17 4 0.16
18 10 0.40
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (18 bp):
CTCCCTTCTCTCTTCTTT
Found at i:59362506 original size:15 final size:17
Alignment explanation
Indices: 59362478--59362509 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
59362468 TTGTATATAT
59362478 TATATTTATATTATGTA
1 TATATTTATATTATGTA
59362495 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
59362510 CGTTTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:59362602 original size:20 final size:22
Alignment explanation
Indices: 59362563--59362604 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
59362553 ACTTTTATTA
59362563 TATGCACATATATATGTATTTT
1 TATGCACATATATATGTATTTT
*
59362585 TATGTACATAT-TAT-TATTTT
1 TATGCACATATATATGTATTTT
59362605 ATATTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 3 0.16
22 10 0.53
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (22 bp):
TATGCACATATATATGTATTTT
Found at i:59365054 original size:24 final size:24
Alignment explanation
Indices: 59365011--59365060 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
59365001 TTCCTTTCTT
*
59365011 TTGCATTCATTCCATACATTTGCA
1 TTGCATTCATTCCATACATTGGCA
*
59365035 TTGCATTGCATTGCAT-CATTGGCA
1 TTGCATT-CATTCCATACATTGGCA
59365059 TT
1 TT
59365061 AAACTTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (24 bp):
TTGCATTCATTCCATACATTGGCA
Found at i:59372117 original size:18 final size:18
Alignment explanation
Indices: 59372082--59372115 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
59372072 GTACAAGAGC
59372082 CTCAACGCAAGGACAAAG
1 CTCAACGCAAGGACAAAG
*
59372100 CTCAAC-CAAGGGCAAA
1 CTCAACGCAAGGACAAA
59372116 AGAGTGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.29, G:0.21, T:0.06
Consensus pattern (18 bp):
CTCAACGCAAGGACAAAG
Found at i:59372518 original size:68 final size:68
Alignment explanation
Indices: 59372434--59372703 Score: 268
Period size: 61 Copynumber: 3.9 Consensus size: 68
59372424 GTTTTATTTC
* *
59372434 AAAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTCAATTTT
1 AAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCAATTTT
59372499 TTGT
65 TTGT
*** *
59372503 ATGTTCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCTGA-G----GT--ATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCAATTTTT
***
59372561 AAA
66 TGT
59372564 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT-TCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTGTCAATTT-
59372628 TGTTGT
64 T-TTGT
* * * * *
59372634 CAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATTTTCA
1 ----AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTGTCA
59372699 ATTTT
60 ATTTT
59372704 CGTTTTTCAA
Statistics
Matches: 164, Mismatches: 20, Indels: 28
0.77 0.09 0.13
Matches are distributed among these distances:
61 51 0.31
62 1 0.01
63 2 0.01
66 1 0.01
67 1 0.01
68 46 0.28
69 2 0.01
70 1 0.01
74 37 0.23
75 4 0.02
76 18 0.11
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (68 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCAATTTTT
TGT
Found at i:59372730 original size:90 final size:88
Alignment explanation
Indices: 59372618--59372790 Score: 233
Period size: 90 Copynumber: 1.9 Consensus size: 88
59372608 GCTGAGGTAA
* * *
59372618 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTTAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTGGAGCCTCAGG--ACA
*
59372683 CGCCGAGGTATTTTCAATTTTCGTT
64 CGCCGAGGTAATTTCAATTTTCGTT
*
59372708 TTTCAATTTCTGCCTT-TC-AAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACA
1 TTTCAATTTCTG--TTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTGGAGCCTCAGGACA
* *
59372771 TGCTGAGGTAATTTCAATTT
64 CGCCGAGGTAATTTCAATTT
59372791 CTGTTGTAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
88 20 0.27
90 50 0.68
91 2 0.03
92 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (88 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTGGAGCCTCAGGACACG
CCGAGGTAATTTCAATTTTCGTT
Found at i:59372830 original size:74 final size:74
Alignment explanation
Indices: 59372707--59373142 Score: 538
Period size: 74 Copynumber: 5.8 Consensus size: 74
59372697 CAATTTTCGT
* * *
59372707 TTTTCAATTTCTGCCTTT-CAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACA
1 TTTTCAATTTCTG-TTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
59372771 TGCTGAGGTA
65 TGCTGAGGTA
* * ** *
59372781 ATTTCAATTTCTGTTGTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAT
1 TTTTCAATTTCTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
59372846 GCTGAGGTA
66 GCTGAGGTA
* * *
59372855 TTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
1 TTTTCAATTTCTGT-TTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
59372920 CGCTGAGGTA
65 TGCTGAGGTA
* * * * ** * *
59372930 ATTTCAATTTCTGTTTT--CAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
*
59372993 GTTGAGGTA
66 GCTGAGGTA
*
59373002 TTTTCAATTTCTGTTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTT
1 TTTTCAATTTCTGTTTT--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
59373066 CACATGCTGAGGTA
62 -ACATGCTGAGGTA
* *
59373080 TTTTCAATTTCTGTCTTTAAACAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCAG
1 TTTTCAATTTCTGT-TTT-AA-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
59373143 ATCACACACT
Statistics
Matches: 312, Mismatches: 38, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
72 63 0.20
73 2 0.01
74 78 0.25
75 66 0.21
76 35 0.11
78 28 0.09
79 39 0.12
80 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (74 bp):
TTTTCAATTTCTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
GCTGAGGTA
Found at i:59373027 original size:149 final size:149
Alignment explanation
Indices: 59372707--59373137 Score: 609
Period size: 149 Copynumber: 2.9 Consensus size: 149
59372697 CAATTTTCGT
* * *
59372707 TTTTCAATTTCTGCCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
59372771 TGCTGAGGTAATTTCAATTTCTGTTGTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
66 TGCTGAGGTAATTTCAATTTCTGTTGTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
*
59372836 CTCAAGACATGCTGAGGTA
131 CTCAAGACACGCTGAGGTA
*
59372855 TTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
* ** * *
59372920 CGCTGAGGTAATTTCAATTTCTGTT-T-TCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGC
66 TGCTGAGGTAATTTCAATTTCTGTTGTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
*
59372983 CTCAAGACACGTTGAGGTA
131 CTCAAGACACGCTGAGGTA
*
59373002 TTTTCAATTTCTGT-TTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTT
1 TTTTCAATTTCTGTCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--
* * * * **
59373066 CACATGCTGAGGTATTTTCAATTTCTGTCTTTAAACAAAAAATCAACTCATATTACGAGAGGTGA
62 GACATGCTGAGGTAATTTCAATTTCTGT-TGT-AA-AAAAAATCAACTCATATTGCGAGAAATGA
59373131 GTTGAGC
124 GTTGAGC
59373138 TTCAGATCAC
Statistics
Matches: 250, Mismatches: 23, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
146 4 0.02
147 63 0.25
148 59 0.24
149 67 0.27
150 25 0.10
151 1 0.00
152 1 0.00
155 30 0.12
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (149 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
TGCTGAGGTAATTTCAATTTCTGTTGTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
CTCAAGACACGCTGAGGTA
Found at i:59374973 original size:15 final size:17
Alignment explanation
Indices: 59374945--59374976 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
59374935 TTGTATATAT
59374945 TATATTTATATTATGTA
1 TATATTTATATTATGTA
59374962 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
59374977 CGTTTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:59377029 original size:31 final size:30
Alignment explanation
Indices: 59376984--59377077 Score: 84
Period size: 31 Copynumber: 3.1 Consensus size: 30
59376974 AATTATTTAA
* *
59376984 GATTTAAT-TTAATTTTATACATTAACTTT
1 GATTTAATGTCAATTTTATACATGAACTTT
* * * *
59377013 GTTTTCATGTGCAATTTGATATATGAACTTT
1 GATTTAATGT-CAATTTTATACATGAACTTT
* *
59377044 GATTTAATGTC-ATTATATACATGAAACTTG
1 GATTTAATGTCAATTTTATACATG-AACTTT
59377074 GATT
1 GATT
59377078 GCGGTTCATA
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
29 15 0.30
30 11 0.22
31 24 0.48
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.48
Consensus pattern (30 bp):
GATTTAATGTCAATTTTATACATGAACTTT
Found at i:59377306 original size:29 final size:30
Alignment explanation
Indices: 59377274--59377336 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
59377264 AATTTAATGG
*
59377274 ATAAAATAACACA-AAATTAAAGTTCATGT
1 ATAAAATAACACATAAATCAAAGTTCATGT
* * *
59377303 ATAACATTACACATTAGATCAAAGTTCATGT
1 ATAAAATAACACA-TAAATCAAAGTTCATGT
59377334 ATA
1 ATA
59377337 GTTTTAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 11 0.39
31 17 0.61
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (30 bp):
ATAAAATAACACATAAATCAAAGTTCATGT
Found at i:59377832 original size:22 final size:23
Alignment explanation
Indices: 59377778--59377842 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
59377768 TGCTACTGTT
* *
59377778 TTACTATTGTTTGTTATTTTTTTG
1 TTACTATT-TTTGTTATTATATTG
* *
59377802 CTACCA-TTTTGTTATTATATTG
1 TTACTATTTTTGTTATTATATTG
*
59377824 TTACTATTTTTGTTGTTAT
1 TTACTATTTTTGTTATTAT
59377843 TGTTTGGATA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
22 17 0.52
23 12 0.36
24 4 0.12
ACGTcount: A:0.17, C:0.08, G:0.11, T:0.65
Consensus pattern (23 bp):
TTACTATTTTTGTTATTATATTG
Found at i:59379416 original size:207 final size:207
Alignment explanation
Indices: 59379061--59379473 Score: 736
Period size: 207 Copynumber: 2.0 Consensus size: 207
59379051 CCGAGATCCG
*
59379061 ACCCAAGACCCCCAAGATCTGCGTGTTTTTGGACTAAGGGTCTATTTACCCTTTCAGTCCTTTCA
1 ACCCAAGACCCCCAAGATCCGCGTGTTTTTGGACTAAGGGTCTATTTACCCTTTCAGTCCTTTCA
*
59379126 CTTTTTGGATGATTTACAATGTAGTTTCTTTTTCTTTTTAATTTTTACCCCTTAATTTTATTTTT
66 CTTTTTGGACGATTTACAATGTAGTTTCTTTTTCTTTTTAATTTTTACCCCTTAATTTTATTTTT
* * *
59379191 TTTTCATTTTGGTCCCTATGGAATGGCGCGTTTAAGGAGTTCGAGATAATTTCATATTTAGTCCT
131 CTTTCATTTTGGTCCCTATGGAATGGCACGTTTAAGGAGTTCGAGATAATTTCATATTTAGTCCC
59379256 TATTTCTTTTCC
196 TATTTCTTTTCC
* * *
59379268 ACCCAAGACCCCCAAGCTCCGCGTGTTTTTGGACTAATGGTCTATTTACCCTTTCAGTCCTTTCG
1 ACCCAAGACCCCCAAGATCCGCGTGTTTTTGGACTAAGGGTCTATTTACCCTTTCAGTCCTTTCA
*
59379333 CTTTTTGGACGTTTTACAATGTAGTTTCTTTTTCTTTTTAATTTTTACCCCTTAATTTTATTTTT
66 CTTTTTGGACGATTTACAATGTAGTTTCTTTTTCTTTTTAATTTTTACCCCTTAATTTTATTTTT
*
59379398 CTTTCATTTTGGTCCCTATGGAATGGCACGTTTAAGGAGTTCGGGATAATTTCATATTTAGTCCC
131 CTTTCATTTTGGTCCCTATGGAATGGCACGTTTAAGGAGTTCGAGATAATTTCATATTTAGTCCC
59379463 TATTTCTTTTC
196 TATTTCTTTTC
59379474 GCGCGCTTCA
Statistics
Matches: 196, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
207 196 1.00
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (207 bp):
ACCCAAGACCCCCAAGATCCGCGTGTTTTTGGACTAAGGGTCTATTTACCCTTTCAGTCCTTTCA
CTTTTTGGACGATTTACAATGTAGTTTCTTTTTCTTTTTAATTTTTACCCCTTAATTTTATTTTT
CTTTCATTTTGGTCCCTATGGAATGGCACGTTTAAGGAGTTCGAGATAATTTCATATTTAGTCCC
TATTTCTTTTCC
Found at i:59379519 original size:12 final size:12
Alignment explanation
Indices: 59379502--59379528 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
59379492 CCTTATTCTG
59379502 TTTTATTAATTA
1 TTTTATTAATTA
59379514 TTTTATTAATTA
1 TTTTATTAATTA
59379526 TTT
1 TTT
59379529 ACAATTCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTATTAATTA
Found at i:59380682 original size:18 final size:18
Alignment explanation
Indices: 59380659--59380695 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
59380649 ACTCAATATA
59380659 AGCCCTTTATAAATATCT
1 AGCCCTTTATAAATATCT
59380677 AGCCCTTTATAAATATCT
1 AGCCCTTTATAAATATCT
59380695 A
1 A
59380696 ACATTCTCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (18 bp):
AGCCCTTTATAAATATCT
Found at i:59382758 original size:27 final size:27
Alignment explanation
Indices: 59382728--59382866 Score: 142
Period size: 27 Copynumber: 5.1 Consensus size: 27
59382718 ATGACGAAGT
59382728 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
* *
59382755 CACCATA-ACAGATATATGTGGAAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* * * *
59382782 TACTAGAT-TAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
59382809 CACCA-AGACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
59382836 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
59382863 CACC
1 CACC
59382867 TGGACGCTTC
Statistics
Matches: 90, Mismatches: 15, Indels: 14
0.76 0.13 0.12
Matches are distributed among these distances:
26 11 0.12
27 74 0.82
28 5 0.06
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:59382810 original size:54 final size:54
Alignment explanation
Indices: 59382728--59382866 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 54
59382718 ATGACGAAGT
*
59382728 CACCAGATACAGAT-ATTGTGGCAGAGCCACCATA-ACAGATATATGTGGAAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCA-AGACAGATATATGTGGAAGAGC
* * * *
59382782 TACTAGATTAGATAATTGTGGCATAGCCACCAAGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAAGACAGATATATGTGGAAGAGC
59382836 CACCAGATCAGATAATTGTGGCATAGCCACC
1 CACCAGATCAGATAATTGTGGCATAGCCACC
59382867 TGGACGCTTC
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
53 5 0.07
54 70 0.93
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAAGACAGATATATGTGGAAGAGC
Found at i:59383000 original size:27 final size:26
Alignment explanation
Indices: 59382974--59383047 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
59382964 AAATTAACCT
*
59382974 TAGGGGTATAACGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTGCACC
* *
59383000 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTGC--ACC
* *
59383028 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAACAGTAATTT
59383048 AGCTACTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTGCACC
Found at i:59383307 original size:16 final size:15
Alignment explanation
Indices: 59383286--59383315 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
59383276 AAAATACCGA
59383286 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
59383302 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
59383316 CCAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:59384522 original size:26 final size:26
Alignment explanation
Indices: 59384490--59384597 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
59384480 TGAAATGCCC
59384490 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
59384516 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
59384542 ATCATAGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
59384568 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
59384594 ATCA
1 ATCA
59384598 ATTTGTACCA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
25 2 0.03
26 70 0.97
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:59384567 original size:52 final size:52
Alignment explanation
Indices: 59384490--59384597 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 52
59384480 TGAAATGCCC
* *
59384490 ATCATGGAACATTTACCTAAACCATTATTATGGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* * *
59384542 ATCATAGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACTCATT
1 ATCATAGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
59384594 ATCA
1 ATCA
59384598 ATTTGTACCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.34
Consensus pattern (52 bp):
ATCATAGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:59389836 original size:27 final size:26
Alignment explanation
Indices: 59389788--59389945 Score: 156
Period size: 27 Copynumber: 5.9 Consensus size: 26
59389778 GCGAGGTTGC
* *
59389788 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
* * *
59389814 ACAAATATTTTGGCAGAGCCACCAGAA
1 -CAGATATTGTGGCAGAGCCACCAGAT
59389841 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
* * * **
59389868 TAGATAATTGTGGTATAGCCACCAGGG
1 CAGAT-ATTGTGGCAGAGCCACCAGAT
59389895 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
59389922 CAGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
59389946 AGACGCTTCC
Statistics
Matches: 107, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
26 8 0.07
27 94 0.88
28 5 0.05
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:59389888 original size:54 final size:54
Alignment explanation
Indices: 59389806--59389945 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 54
59389796 GTGACGAAGT
* * *
59389806 CACCAGATACAAAT-ATTTTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * **
59389860 CACCAGATTAGATAATTGTGGTATAGCCACCAGGGCAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
59389914 CACCAGATCAGATAATTGTGGCATAGCCACCA
1 CACCAGATCAGATAATTGTGGCATAGCCACCA
59389946 AGACGCTTCC
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
53 3 0.04
54 73 0.96
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:59390095 original size:26 final size:27
Alignment explanation
Indices: 59390050--59390125 Score: 84
Period size: 26 Copynumber: 2.8 Consensus size: 27
59390040 CAAAATTAAC
* *
59390050 CCTAGGGGTATAA-CGATAATTTTGC-A
1 CCTAGGGGTATAATAG-TAATTTTCCAA
59390076 CCTAGGGGTATAATAGTAATTTTCCATA
1 CCTAGGGGTATAATAGTAATTTTCCA-A
* *
59390104 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
59390126 AGCTACTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 21 0.49
27 1 0.02
28 21 0.49
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCCAA
Found at i:59391600 original size:26 final size:26
Alignment explanation
Indices: 59391569--59391676 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
59391559 TGAAATGCCC
*
59391569 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
59391595 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
59391621 ATCATAGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
59391647 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
59391673 ATCA
1 ATCA
59391677 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:59394893 original size:22 final size:22
Alignment explanation
Indices: 59394864--59394931 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
59394854 TGTACAAACG
59394864 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* *
59394886 TACAGAGAGCAC-ATATGTGCTA
1 AACAGAGAGCACTA-AAGTGCTA
* *
59394908 AACAAAGAGCACTTAACGTGCTA
1 AACAGAGAGCAC-TAAAGTGCTA
59394931 A
1 A
59394932 TAATAGAACG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.03
22 28 0.74
23 8 0.21
24 1 0.03
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.18
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:59395810 original size:25 final size:26
Alignment explanation
Indices: 59395742--59395824 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
59395732 TGATACAAAT
*
59395742 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
59395768 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
59395794 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
59395819 TGATAA
1 TGATAA
59395825 GAATTTCATG
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
25 24 0.44
26 31 0.56
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:59406513 original size:29 final size:30
Alignment explanation
Indices: 59406480--59406558 Score: 99
Period size: 29 Copynumber: 2.6 Consensus size: 30
59406470 ATTATTTAAT
*
59406480 TAATAAATATCT-TTTAACTT-AATAATAAG
1 TAATAAATATCTATTT-ACTTAAATAAAAAG
59406509 TAATAAATATCTATTTACTTAAATAAAAAG
1 TAATAAATATCTATTTACTTAAATAAAAAG
*
59406539 TAATTAAATATTTATGTTAC
1 TAA-TAAATATCTAT-TTAC
59406559 AATTGTATAC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
29 16 0.36
30 14 0.32
31 10 0.23
32 4 0.09
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (30 bp):
TAATAAATATCTATTTACTTAAATAAAAAG
Found at i:59409463 original size:24 final size:22
Alignment explanation
Indices: 59409436--59409479 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
59409426 AAAAACTAAA
59409436 AAAATAAATGATATAAAAAAGATT
1 AAAATAAAT-A-ATAAAAAAGATT
*
59409460 AAAATAAGTAATAAAAAAGA
1 AAAATAAATAATAAAAAAGA
59409480 GAAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (22 bp):
AAAATAAATAATAAAAAAGATT
Found at i:59409487 original size:24 final size:24
Alignment explanation
Indices: 59409433--59409492 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
59409423 AAAAAAAACT
*
59409433 AAAAAAATAAATGATATAAAAAAG
1 AAAAAAATAAATAATATAAAAAAG
** *
59409457 ATTAAAATAAGTAATA-AAAAAGAG
1 AAAAAAATAAATAATATAAAAA-AG
59409481 AAAAAAAATAAA
1 -AAAAAAATAAA
59409493 GGTTTAAAAC
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
23 5 0.19
24 14 0.52
25 8 0.30
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (24 bp):
AAAAAAATAAATAATATAAAAAAG
Found at i:59409584 original size:30 final size:28
Alignment explanation
Indices: 59409550--59409606 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
59409540 AAACTATTGT
59409550 AAACAAGATGAAAATATATAATA-TATAACA
1 AAACAA-ATGAAAA-ATA-AATACTATAACA
*
59409580 AAACAAATTAAAAATAAATACTATAAC
1 AAACAAATGAAAAATAAATACTATAAC
59409607 TGGCAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 4 0.16
28 9 0.36
29 6 0.24
30 6 0.24
ACGTcount: A:0.65, C:0.09, G:0.04, T:0.23
Consensus pattern (28 bp):
AAACAAATGAAAAATAAATACTATAACA
Found at i:59410269 original size:14 final size:14
Alignment explanation
Indices: 59410246--59410275 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
59410236 AAATTGAAAA
59410246 ATAAAGATAAATTG
1 ATAAAGATAAATTG
*
59410260 ATAAATATAAATTG
1 ATAAAGATAAATTG
59410274 AT
1 AT
59410276 TTGAAAGACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (14 bp):
ATAAAGATAAATTG
Found at i:59413414 original size:176 final size:176
Alignment explanation
Indices: 59413044--59413549 Score: 683
Period size: 176 Copynumber: 2.9 Consensus size: 176
59413034 TGATTATTTG
* * * *
59413044 CTACCTCAAGAAGATAAGACTACAATCTTCAACCTACTTTCTTTCTACCTCAGAGAGATAAGGCT
1 CTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTC-TTGTACCTCAGAGAGATAAGGCT
* * * * * *
59413109 GGTGGCTAAAATGTACTCCTCTACTATCTTGGGAAGATAAGATTCGCTATCTTCGATCTGCTCCA
65 GGTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAAGATTCGCTATCTTTGATCTGCTCCA
* * *
59413174 CTATTGCTTAGGGAGATAAGATC-ACAATCCTCAGTTTGCTTCCTTG
130 CTACTGCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCTTCCTTA
* * *
59413220 CTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGTACCTCAAAGAGATAATGTTG
1 CTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGTACCTCAGAGAGATAAGGCTG
* * ** * * *
59413285 GTAGCTAAAATCTACTCCCCTGTTACCTCGAAAAGATAAGATTCGCCACCTTTGATCTACTCCAC
66 GTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAAGATTCGCTATCTTTGATCTGCTCCAC
* *
59413350 TACTGCTTAGGGAGATAAGATCTACAATCTTTAGTCTGCTTCCTTA
131 TACTGCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCTTCCTTA
* * *
59413396 TTACTTCAGGAAGATAAGACTACAATC-TCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCT
1 CTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTG-TACCTCAGAGAGATAAGGCT
* *
59413460 GGTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAAGATTCACTATTTTTCGATCTGCTCC
65 GGTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAAGATTCGCTATCTTT-GATCTGCTCC
* *
59413525 TCTACTACTTAGGGAGATAAGATCT
129 ACTACTGCTTAGGGAGATAAGATCT
59413550 TACTTCACCG
Statistics
Matches: 285, Mismatches: 42, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
175 108 0.38
176 145 0.51
177 32 0.11
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (176 bp):
CTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGTACCTCAGAGAGATAAGGCTG
GTGGCTAAAATCTACTCCCCTGCTACCTCGGGAAGATAAGATTCGCTATCTTTGATCTGCTCCAC
TACTGCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCTTCCTTA
Found at i:59420287 original size:49 final size:49
Alignment explanation
Indices: 59420176--59420279 Score: 133
Period size: 48 Copynumber: 2.1 Consensus size: 49
59420166 CATGGGTAGT
* * *
59420176 TCACACGCCCGTGTCTATTTAACAGATTGCAACATGGCCTAAGCCACAC
1 TCACACGACCGTGTCTATTTAACAGATTGAAACACGGCCTAAGCCACAC
*
59420225 T-ACACAACCGTGTCTATTTAACAGACTCT-AAACACGGCCTAAGCCAC-C
1 TCACACGACCGTGTCTATTTAACAGA-T-TGAAACACGGCCTAAGCCACAC
59420273 TCACACG
1 TCACACG
59420280 GGCGTGTCCC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
48 24 0.51
49 22 0.47
50 1 0.02
ACGTcount: A:0.31, C:0.34, G:0.14, T:0.21
Consensus pattern (49 bp):
TCACACGACCGTGTCTATTTAACAGATTGAAACACGGCCTAAGCCACAC
Found at i:59422227 original size:44 final size:44
Alignment explanation
Indices: 59422179--59422263 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
59422169 TTGCTTAGGG
** *
59422179 AGATAAGA-TCACAATCCTCAGTCTGCTTTCTTGCTACCTCAGGA
1 AGATAAGACT-ACAATCCTCAACCTGCTCTCTTGCTACCTCAGGA
* *
59422223 AGATAAGACTACAATCTTCAACCTGCTCTCTTGTTACCTCA
1 AGATAAGACTACAATCCTCAACCTGCTCTCTTGCTACCTCA
59422264 AAGAGATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 34 0.97
45 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (44 bp):
AGATAAGACTACAATCCTCAACCTGCTCTCTTGCTACCTCAGGA
Found at i:59422271 original size:44 final size:43
Alignment explanation
Indices: 59422178--59422272 Score: 102
Period size: 44 Copynumber: 2.2 Consensus size: 43
59422168 ATTGCTTAGG
** * *
59422178 GAGATAAGATCACAATCCTCAGTCTGCTTTCTTGCTACCTCAG
1 GAGATAAGATCACAATCCTCAACCTGCTCTCTTGCTACCTCAA
* *
59422221 GAAGATAAGA-CTACAATCTTCAACCTGCTCTCTTGTTACCTCAAA
1 G-AGATAAGATC-ACAATCCTCAACCTGCTCTCTTGCTACCTC-AA
59422266 GAGATAA
1 GAGATAA
59422273 TGTTGGTGGC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
43 2 0.05
44 39 0.91
45 2 0.05
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
GAGATAAGATCACAATCCTCAACCTGCTCTCTTGCTACCTCAA
Found at i:59422337 original size:176 final size:176
Alignment explanation
Indices: 59422033--59422542 Score: 711
Period size: 176 Copynumber: 2.9 Consensus size: 176
59422023 GTCTGATCAT
* *
59422033 TTGCTACCTCAAGAAGATAAGACTACAATCTTCAACCTGCTTTCTTTCTACCTCAGAGAGATAAG
1 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTT-TACCTCAGAGAGATAAG
* * * *
59422098 GCTGGAGGCTAAAATGTACTCCCCTACTATCTTGGGAAGATAAGATTCGCTATCTTCGATCTGCT
65 GCTGGAGGCTAAAATCTACTCCCCTACTACCTTGGGAAGATAAGATTCGCCATCTTTGATCTGCT
* *
59422163 CCACTATTGCTTAGGGAGATAAGATC-ACAATCCTCAGTCTGCTTTC
130 CCACTACTGCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCTTCC
* *
59422209 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGTTACCTCAAAGAGATAAT
1 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTT-TTACCTCAGAGAGATAAG
* * * * ** *
59422274 GTTGGTGGCTAAAATCTACTCCCCTGCTACCTCGAAAAGATAAGATTCGCCACCTTTGATCTGCT
65 GCTGGAGGCTAAAATCTACTCCCCTACTACCTTGGGAAGATAAGATTCGCCATCTTTGATCTGCT
* * *
59422339 CCACTACTGCTTAGGGAGATAAGATCTATAATCTTTAGTCTGCTTCC
130 CCACTACTGCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCTTCC
* *
59422386 TTGCT-CTTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTACTACCTCAGAGAGATAAG
1 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTT-TTACCTCAGAGAGATAAG
* * *
59422450 GCTGGCA-GCTAAAATCTGCTCCCCTACTACCTTGGGATGATAAGATTCGCCATTTTTCGATCTG
65 GCTGG-AGGCTAAAATCTACTCCCCTACTACCTTGGGAAGATAAGATTCGCCATCTTT-GATCTG
* *
59422514 CTCCTCTACTACTTAGGGAGATAAGATCT
128 CTCCACTACTGCTTAGGGAGATAAGATCT
59422543 GACTTCACCG
Statistics
Matches: 293, Mismatches: 37, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
176 238 0.81
177 55 0.19
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (176 bp):
TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTTTACCTCAGAGAGATAAGG
CTGGAGGCTAAAATCTACTCCCCTACTACCTTGGGAAGATAAGATTCGCCATCTTTGATCTGCTC
CACTACTGCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCTTCC
Found at i:59434797 original size:24 final size:22
Alignment explanation
Indices: 59434770--59434813 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
59434760 AAAAACTAAA
59434770 AAAATAAATGATATAAAAAAGATT
1 AAAATAAAT-A-ATAAAAAAGATT
*
59434794 AAAATAAGTAATAAAAAAGA
1 AAAATAAATAATAAAAAAGA
59434814 GAAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (22 bp):
AAAATAAATAATAAAAAAGATT
Found at i:59434821 original size:24 final size:24
Alignment explanation
Indices: 59434767--59434821 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
59434757 AAAAAAAACT
*
59434767 AAAAAAATAAATGATATAAAAAAG
1 AAAAAAATAAATAATATAAAAAAG
** *
59434791 ATTAAAATAAGTAATA-AAAAAGAG
1 AAAAAAATAAATAATATAAAAA-AG
59434815 AAAAAAA
1 AAAAAAA
59434822 AATAAAGGTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (24 bp):
AAAAAAATAAATAATATAAAAAAG
Found at i:59434872 original size:19 final size:19
Alignment explanation
Indices: 59434815--59434877 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
59434805 TAAAAAAGAG
*
59434815 AAAAAA-AAATAAAGGTTT
1 AAAAAACAAATAAAAGTTT
59434833 AAAACAACGAAATAAAA----
1 AAAA-AAC-AAATAAAAGTTT
59434850 AAAAAACAAATAAAAGTTT
1 AAAAAACAAATAAAAGTTT
59434869 AAAAAACAA
1 AAAAAACAA
59434878 CTATTGTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
15 8 0.22
16 3 0.08
17 4 0.11
18 4 0.11
19 11 0.30
21 7 0.19
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.14
Consensus pattern (19 bp):
AAAAAACAAATAAAAGTTT
Found at i:59437970 original size:30 final size:30
Alignment explanation
Indices: 59437934--59437993 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
59437924 TACTAGGGCG
59437934 ACACAAACAGCGAGAAGAAAAAAGAATTCT
1 ACACAAACAGCGAGAAGAAAAAAGAATTCT
*
59437964 ACACAAACAGCGAGAAGAAAATAGAATTCT
1 ACACAAACAGCGAGAAGAAAAAAGAATTCT
59437994 TCTTTTGCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.55, C:0.17, G:0.17, T:0.12
Consensus pattern (30 bp):
ACACAAACAGCGAGAAGAAAAAAGAATTCT
Found at i:59440354 original size:26 final size:26
Alignment explanation
Indices: 59440318--59440427 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
59440308 TGATACAAAT
59440318 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
59440344 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
59440370 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
59440396 TGATAAT-GAGTTAGGTAAATGTTTCA
1 TGATAATAG-GTTAGGTAAATGTTCCA
59440422 TGATAA
1 TGATAA
59440428 GAATTTCATG
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 1 0.01
26 80 0.99
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:59442458 original size:136 final size:137
Alignment explanation
Indices: 59442212--59442497 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
59442202 GAGTAGTCTC
59442212 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
59442277 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
59442342 ACTGTTA
131 ACTGTTA
*
59442349 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
59442413 TGTTATCTGAATAAGGGGCTAAGGCCGAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
59442478 ACTGTTA
131 ACTGTTA
**
59442485 CCTGAATGGGCTT
1 CCCAAATGGGCTT
59442498 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 124 0.86
137 20 0.14
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:59447133 original size:136 final size:137
Alignment explanation
Indices: 59446887--59447172 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
59446877 GAGTAGTCTC
59446887 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
59446952 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
59447017 ACTGTTA
131 ACTGTTA
*
59447024 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
59447088 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
59447153 ACTGTTA
131 ACTGTTA
**
59447160 CCTGAATGGGCTT
1 CCCAAATGGGCTT
59447173 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 124 0.86
137 20 0.14
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:59450103 original size:21 final size:22
Alignment explanation
Indices: 59450054--59450096 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
59450044 AGAAATTTGG
59450054 TAGAGAAAAGAAAGAAAAAGGAA
1 TAGAGAAAAGAAAGAAAAA-GAA
*
59450077 TAGAGAAAAGAAAAAAAAAG
1 TAGAGAAAAGAAAGAAAAAG
59450097 TCAGAGAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (22 bp):
TAGAGAAAAGAAAGAAAAAGAA
Found at i:59453079 original size:23 final size:24
Alignment explanation
Indices: 59453036--59453084 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
59453026 ATGGTTTTTT
* *
59453036 AATATTATTTGATAAAGTTTC-AA
1 AATATTATTTCATAAACTTTCTAA
59453059 AATATT-TTTCATAAATCTTTCTAA
1 AATATTATTTCATAAA-CTTTCTAA
59453083 AA
1 AA
59453085 ATAATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 8 0.36
23 10 0.45
24 4 0.18
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (24 bp):
AATATTATTTCATAAACTTTCTAA
Found at i:59453773 original size:5 final size:5
Alignment explanation
Indices: 59453763--59453798 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
59453753 TGTGTTCTTA
*
59453763 ATTTT ATTTT ATTTT AATTTT ATTTT ATATT ATTTT
1 ATTTT ATTTT ATTTT -ATTTT ATTTT ATTTT ATTTT
59453799 CACTAATTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:59453781 original size:16 final size:16
Alignment explanation
Indices: 59453760--59453790 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
59453750 CTGTGTGTTC
59453760 TTAATTTTATTTTATT
1 TTAATTTTATTTTATT
59453776 TTAATTTTATTTTAT
1 TTAATTTTATTTTAT
59453791 ATTATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTAATTTTATTTTATT
Found at i:59459514 original size:18 final size:18
Alignment explanation
Indices: 59459488--59459526 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
59459478 CTCAGGAAAC
*
59459488 TTTATATCCTTGAGGGAT
1 TTTAAATCCTTGAGGGAT
**
59459506 TTTAAATCCTTTTGGGAT
1 TTTAAATCCTTGAGGGAT
59459524 TTT
1 TTT
59459527 CATATAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.51
Consensus pattern (18 bp):
TTTAAATCCTTGAGGGAT
Found at i:59463376 original size:25 final size:25
Alignment explanation
Indices: 59463342--59463392 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
59463332 TAGTGTCTTA
59463342 GTGTCGAAACTTTGAAAACTTCAAG
1 GTGTCGAAACTTTGAAAACTTCAAG
* *
59463367 GTGTTGAAACTTTGAAAACTTGAAG
1 GTGTCGAAACTTTGAAAACTTCAAG
59463392 G
1 G
59463393 ACTTTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (25 bp):
GTGTCGAAACTTTGAAAACTTCAAG
Found at i:59464287 original size:3 final size:3
Alignment explanation
Indices: 59464279--59464519 Score: 137
Period size: 3 Copynumber: 80.7 Consensus size: 3
59464269 GGGTAAAAAT
59464279 ATA ATA AT- ATA A-A AGTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
59464323 ATA ATG ATA ATA ATG ATA A-A TATA GTA ATA ATA ATA GTA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
59464367 A-A AT- AGA ACA ACAA ATA ATA ATA CATTA ATA AAA ATA ATA AGA AT-
1 ATA ATA ATA ATA A-TA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA
* * * *
59464412 GTG TTA ATA ATA ATA A-A TTA ATGA ATTA ATA ATA A-A ATAA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A A-TA ATA ATA ATA AT-A AT-A ATA
* * * * *
59464459 A-A CACA AAA ATA A-A TATA ATT ATA ATA GTA ATA CTA A-A ATA ATA
1 ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
59464503 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
59464520 GTGATAAAAC
Statistics
Matches: 187, Mismatches: 30, Indels: 42
0.72 0.12 0.16
Matches are distributed among these distances:
2 18 0.10
3 146 0.78
4 20 0.11
5 3 0.02
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Done.