Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 180 of 427
Found at i:49770742 original size:24 final size:24
Alignment explanation
Indices: 49770715--49770785 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 24
49770705 TTCACATTCT
*
49770715 TTCTCTCTCTCAAACTCTTTTTCA
1 TTCTCTCTCTCAATCTCTTTTTCA
* * * * *
49770739 TTCTCTTTTTTAATCTCATTTTCT
1 TTCTCTCTCTCAATCTCTTTTTCA
* *
49770763 TTTTCACTCTCAATCTCTTTTTC
1 TTCTCTCTCTCAATCTCTTTTTC
49770786 TTTTCTTTCA
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (24 bp):
TTCTCTCTCTCAATCTCTTTTTCA
Found at i:49770757 original size:18 final size:18
Alignment explanation
Indices: 49770736--49770785 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
49770726 AAACTCTTTT
*
49770736 TCATTCTCTTTTTTAATC
1 TCATTCTCTTTTTCAATC
* *
49770754 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
49770772 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
49770786 TTTTCTTTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.14, C:0.26, G:0.00, T:0.60
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:49771860 original size:12 final size:12
Alignment explanation
Indices: 49771843--49771875 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
49771833 CAGATTTTGT
49771843 TTTTTTTTTGAA
1 TTTTTTTTTGAA
49771855 TTTTTTTTTGAA
1 TTTTTTTTTGAA
49771867 TTTTTTTTT
1 TTTTTTTTT
49771876 TAGACTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:49772117 original size:15 final size:15
Alignment explanation
Indices: 49772097--49772144 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
49772087 TCAAAGATGG
49772097 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
49772112 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
49772126 GTTTATGGATATAAA
1 GTTTATGGATATGAA
49772141 GTTT
1 GTTT
49772145 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:49772131 original size:14 final size:14
Alignment explanation
Indices: 49772091--49772134 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
49772081 AAGCATTCAA
49772091 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
49772105 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
49772120 AGATGGGTTTATGG
1 AGATGGGTTTATGG
49772134 A
1 A
49772135 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:49772160 original size:29 final size:29
Alignment explanation
Indices: 49772091--49772150 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
49772081 AAGCATTCAA
*
49772091 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
49772120 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
49772149 AG
1 AG
49772151 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:49774147 original size:28 final size:28
Alignment explanation
Indices: 49774102--49774170 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
49774092 CTTAAAACCC
*
49774102 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
49774129 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
49774157 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
49774171 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:49777243 original size:29 final size:29
Alignment explanation
Indices: 49777209--49777283 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
49777199 TACTCGATTT
*
49777209 CGCACACTTAGTGCCATGCGATTTAG-GCC
1 CGCACACTTAGTGCCATGC-ACTTAGAGCC
** * * *
49777238 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCACTTAGAGCC
49777267 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
49777284 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTAGAGCC
Found at i:49777300 original size:29 final size:29
Alignment explanation
Indices: 49777267--49777340 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
49777257 CCTTCGAGCT
49777267 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
49777296 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49777325 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
49777341 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:49785156 original size:29 final size:28
Alignment explanation
Indices: 49785086--49785160 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
49785076 ATACTCGATT
* *
49785086 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
49785114 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
49785143 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
49785161 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:49785177 original size:29 final size:29
Alignment explanation
Indices: 49785144--49785217 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
49785134 CCTTCGAGCT
49785144 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
49785173 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49785202 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
49785218 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:49786774 original size:20 final size:20
Alignment explanation
Indices: 49786751--49786788 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49786741 CACATCCAAA
*
49786751 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
49786771 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
49786789 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:49793331 original size:30 final size:30
Alignment explanation
Indices: 49793297--49793394 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 30
49793287 AGCTCACTCC
49793297 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
** * * * * *
49793327 TAGCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * *
49793357 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
49793387 TAGCTCAT
1 TAGCTCAT
49793395 TTTAGTTTAA
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:49795073 original size:13 final size:12
Alignment explanation
Indices: 49795043--49795072 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
49795033 TAAAAAAATC
49795043 AAAAAATTCGAA
1 AAAAAATTCGAA
49795055 AAAAAATTCGAA
1 AAAAAATTCGAA
49795067 AAAAAA
1 AAAAAA
49795073 AGAAAAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.13
Consensus pattern (12 bp):
AAAAAATTCGAA
Found at i:49795999 original size:9 final size:10
Alignment explanation
Indices: 49795992--49796048 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
49795982 AAGAGAAAAC
49795992 AAAGAAAAGA
1 AAAGAAAAGA
49796002 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
49796014 AAAGAAGA-A
1 AAAGAAAAGA
49796023 AAAGAAAATGA
1 AAAGAAAA-GA
49796034 AATA-AAAAGA
1 AA-AGAAAAGA
49796044 AAAGA
1 AAAGA
49796049 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:49796015 original size:21 final size:20
Alignment explanation
Indices: 49795981--49796048 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
49795971 ACATTCTTGT
49795981 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
49796002 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
49796023 AAAGAAAATGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
49796044 AAAGA
1 AAAGA
49796049 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:49796016 original size:6 final size:5
Alignment explanation
Indices: 49795992--49796048 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
49795982 AAGAGAAAAC
*
49795992 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
49796039 AAAGA AAAGA
1 AAAGA AAAGA
49796049 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:49796023 original size:15 final size:14
Alignment explanation
Indices: 49795992--49796048 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
49795982 AAGAGAAAAC
49795992 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
49796008 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
49796023 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
49796039 AAAGAAAAGA
1 AAAGAAAAGA
49796049 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:49796127 original size:11 final size:12
Alignment explanation
Indices: 49796096--49796126 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
49796086 TTGAGAGAAC
49796096 TTGAAAAAGCCT
1 TTGAAAAAGCCT
*
49796108 TTGAAAAAGTCT
1 TTGAAAAAGCCT
49796120 TTGAAAA
1 TTGAAAA
49796127 GCAAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:49796137 original size:12 final size:12
Alignment explanation
Indices: 49796129--49796153 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49796119 TTTGAAAAGC
49796129 AAAAAGAAAATG
1 AAAAAGAAAATG
49796141 AAAAAGAAAATG
1 AAAAAGAAAATG
49796153 A
1 A
49796154 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:49796150 original size:18 final size:18
Alignment explanation
Indices: 49796123--49796178 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
49796113 AAAGTCTTTG
49796123 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
49796142 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
49796160 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
49796177 AA
1 AA
49796179 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:49796163 original size:30 final size:31
Alignment explanation
Indices: 49796129--49796209 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
49796119 TTTGAAAAGC
*
49796129 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
49796159 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
49796189 -AAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
49796210 TGAAACAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 16 0.38
30 26 0.62
ACGTcount: A:0.64, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:49798513 original size:30 final size:30
Alignment explanation
Indices: 49798419--49798514 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
49798409 AGCTCACTCC
* *
49798419 TAGCTCATA-TTCAGCTCATGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTTACGAGCTAAACCT
* * * * *
49798449 T-GCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTTACGAGCTAAACCT
* * *
49798478 CAGCTCAACTTTAGCTTACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTTACGAGCTAAACCT
49798508 TAGCTCA
1 TAGCTCA
49798515 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
29 21 0.42
30 29 0.58
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTTACGAGCTAAACCT
Found at i:49811847 original size:38 final size:38
Alignment explanation
Indices: 49811805--49811884 Score: 160
Period size: 38 Copynumber: 2.1 Consensus size: 38
49811795 TTATTGCACC
49811805 AATGACATGATTTAATATATATTGAAAAGTGATGAAAG
1 AATGACATGATTTAATATATATTGAAAAGTGATGAAAG
49811843 AATGACATGATTTAATATATATTGAAAAGTGATGAAAG
1 AATGACATGATTTAATATATATTGAAAAGTGATGAAAG
49811881 AATG
1 AATG
49811885 GTAAATAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (38 bp):
AATGACATGATTTAATATATATTGAAAAGTGATGAAAG
Found at i:49815403 original size:40 final size:39
Alignment explanation
Indices: 49815235--49815405 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
49815225 AGAAATTGAA
* *
49815235 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
49815275 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
49815315 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
49815355 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
49815395 TGATATCCGGG
1 TGATATCCGGG
49815406 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:49823428 original size:40 final size:39
Alignment explanation
Indices: 49823260--49823439 Score: 161
Period size: 40 Copynumber: 4.5 Consensus size: 39
49823250 AGAAATTGAA
* *
49823260 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
49823300 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
49823340 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
49823380 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
*
49823420 TGATATCCGGG-TAAGTCCCG
1 TGATATCCGGGCTAAGACCCG
49823440 TGGCCTTGGT
Statistics
Matches: 115, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.03
39 12 0.10
40 95 0.83
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:49826994 original size:28 final size:29
Alignment explanation
Indices: 49826920--49827007 Score: 85
Period size: 28 Copynumber: 3.1 Consensus size: 29
49826910 AGCATGTCTG
* * * *
49826920 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
*
49826947 CCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAATTTGTGGCA-TAGCCA
*
49826976 CCAGA-GCAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
49827004 CCAG
1 CCAG
49827008 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
27 12 0.24
28 24 0.48
29 14 0.28
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCATAGCCA
Found at i:49827160 original size:28 final size:28
Alignment explanation
Indices: 49827113--49827177 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
49827103 AAATTAACCC
*
49827113 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
49827141 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
49827169 TAGGGGTAT
1 TAGGGGTAT
49827178 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:49829362 original size:16 final size:17
Alignment explanation
Indices: 49829341--49829412 Score: 52
Period size: 15 Copynumber: 4.6 Consensus size: 17
49829331 CACATAGTTA
49829341 AATGCATCATTTCA-TT
1 AATGCATCATTTCACTT
*
49829357 AATGCA-CA-TTCACAT
1 AATGCATCATTTCACTT
* *
49829372 AAT-CAT-AGTT-AGTT
1 AATGCATCATTTCACTT
49829386 AAATGCATCATTTCA-TT
1 -AATGCATCATTTCACTT
49829403 AATGCA-CATT
1 AATGCATCATT
49829413 CACATAATCA
Statistics
Matches: 45, Mismatches: 4, Indels: 15
0.70 0.06 0.23
Matches are distributed among these distances:
14 9 0.20
15 15 0.33
16 15 0.33
17 5 0.11
18 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (17 bp):
AATGCATCATTTCACTT
Found at i:49829396 original size:46 final size:46
Alignment explanation
Indices: 49829335--49829424 Score: 180
Period size: 46 Copynumber: 2.0 Consensus size: 46
49829325 TACATTCACA
49829335 TAGTTAAATGCATCATTTCATTAATGCACATTCACATAATCATAGT
1 TAGTTAAATGCATCATTTCATTAATGCACATTCACATAATCATAGT
49829381 TAGTTAAATGCATCATTTCATTAATGCACATTCACATAATCATA
1 TAGTTAAATGCATCATTTCATTAATGCACATTCACATAATCATA
49829425 CTTACTTCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.37
Consensus pattern (46 bp):
TAGTTAAATGCATCATTTCATTAATGCACATTCACATAATCATAGT
Found at i:49829830 original size:40 final size:39
Alignment explanation
Indices: 49829739--49829846 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 39
49829729 ATCACGATTT
* *
49829739 GCACAAATGCCTTCGGCTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
49829779 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
*
49829819 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
49829847 TTATAATTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 55 0.92
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:49841917 original size:25 final size:25
Alignment explanation
Indices: 49841886--49841952 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
49841876 AATCAAAATG
* *
49841886 AGAATTATAATCAGAATCAGGTGAC
1 AGAATTAGAATCAGAATCAGGTAAC
*
49841911 AGAATTAGAATCAGTATCAGGTAAC
1 AGAATTAGAATCAGAATCAGGTAAC
*
49841936 AGAATCAGAATCAGAAT
1 AGAATTAGAATCAGAAT
49841953 GTAAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.22
Consensus pattern (25 bp):
AGAATTAGAATCAGAATCAGGTAAC
Found at i:49842147 original size:26 final size:26
Alignment explanation
Indices: 49842070--49842149 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 26
49842060 AGCATGGCTG
* *
49842070 CCAGAACAGATATTGTGACAAAGTCA
1 CCAGAACAGATATTGTGGCAAAGCCA
* *
49842096 CCAGATACAGATATTGTAGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAAAGCCA
*
49842123 CCAGAACAGATAATGTGGCAAAGCCA
1 CCAGAACAGATATTGTGGCAAAGCCA
49842149 C
1 C
49842150 TTAACAGAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
26 24 0.52
27 22 0.48
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAAAGCCA
Found at i:49842336 original size:22 final size:22
Alignment explanation
Indices: 49842308--49842372 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
49842298 GCAAATATGT
*
49842308 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
49842330 TTGGCACAGAGCCATATTTAGG
1 TTGGCACAAAGCCATAATCAGG
*
49842352 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
49842373 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:49842827 original size:27 final size:27
Alignment explanation
Indices: 49842797--49843291 Score: 466
Period size: 27 Copynumber: 18.3 Consensus size: 27
49842787 AGGGCAAAAT
*
49842797 GGTAATTTTAACCC-ACAAGGGTATCTC
1 GGTAATTTT-ACCCTACAAGGGTATTTC
* *
49842824 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
49842851 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
49842878 AGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
49842905 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
49842932 GAT-ATTTCTACCCTACAAGGGTGTTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
49842959 AGT-ATTTCTATCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
** * * *
49842986 AATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
49843013 GGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
49843040 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
49843067 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
49843094 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
49843121 GGT-ATTTCTACCCTATAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
49843148 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * * *
49843175 AGTAATTCTACCATACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
*
49843202 GAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
49843229 GGT-ATTTCTTCCTTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
** * *
49843256 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
**
49843283 AATAATTTT
1 GGTAATTTT
49843292 GTAAATCGAA
Statistics
Matches: 397, Mismatches: 60, Indels: 22
0.83 0.13 0.05
Matches are distributed among these distances:
26 19 0.05
27 363 0.91
28 15 0.04
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:49842869 original size:54 final size:54
Alignment explanation
Indices: 49842807--49843282 Score: 621
Period size: 54 Copynumber: 8.8 Consensus size: 54
49842797 GGTAATTTTA
*
49842807 ACCC-ACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCT
1 ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCT
* * * *
49842860 ACCCTACAAGGGTATTTCAGTAATTCTATCCTACAGGGGTATTTCAGTAATTCT
1 ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCT
* * * * * *
49842914 ACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTGTTTCAGTATTTCT
1 ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCT
* * ** * *
49842968 ATCCTACAGGGGTATTTCAATAATTCTATCCTACAGGGGTATTTCGGTATTTTT
1 ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCT
* * *
49843022 ACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCT
1 ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCT
* *
49843076 ACCTTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCT
1 ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCT
* * * *
49843130 ACCCTATAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCT
1 ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCT
* * * * * *
49843184 ACCATACAGGGGTATTTTGATATTTCTACCCTACAAGGGTATTTCGGTATTTCT
1 ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCT
* * **
49843238 TCCTTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
1 ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
49843283 AATAATTTTG
Statistics
Matches: 364, Mismatches: 58, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
53 4 0.01
54 360 0.99
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (54 bp):
ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCT
Found at i:49842921 original size:81 final size:81
Alignment explanation
Indices: 49842807--49843283 Score: 618
Period size: 81 Copynumber: 5.9 Consensus size: 81
49842797 GGTAATTTTA
* * *
49842807 ACCC-ACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGG
1 ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGG
*
49842871 GTATTTCAGTAATTCT
66 GTATTTCAGTATTTCT
* * * *
49842887 ATCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC-GATATTTCTACCCTACAAG
1 ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCCTACAAG
*
49842951 GGTGTTTCAGTATTTCT
65 GGTATTTCAGTATTTCT
* * ** * * * *
49842968 ATCCTACAGGGGTATTTCAATAATTCTATCCTACAGGGGTATTTCGGTATTTTTACCCTACAAGG
1 ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGG
*
49843033 GTATTTCGGTATTTCT
66 GTATTTCAGTATTTCT
* * *
49843049 ACCCTACAAGGGTATTTCGGTAATTCTACCTTACAAGGGTATTTCAGTAATTCTACCCTACAGGG
1 ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGG
*
49843114 GTATTTCGGTATTTCT
66 GTATTTCAGTATTTCT
* * * *
49843130 ACCCTATAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCATACAGGG
1 ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGG
*
49843195 GTATTT-TGATATTTCT
66 GTATTTCAG-TATTTCT
* * * * * *
49843211 ACCCTACAAGGGTATTTCGGTATTTCTTCCTTACAAGGGTATTTCAATAATTCTACCCTACAGGG
1 ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGG
49843276 GTATTTCA
66 GTATTTCA
49843284 ATAATTTTGT
Statistics
Matches: 355, Mismatches: 37, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
80 5 0.01
81 349 0.98
82 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (81 bp):
ACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGG
GTATTTCAGTATTTCT
Found at i:49843305 original size:27 final size:27
Alignment explanation
Indices: 49843274--49843744 Score: 406
Period size: 27 Copynumber: 17.6 Consensus size: 27
49843264 TACCCTACAG
* **
49843274 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *** * * * *
49843301 AGGTAAAACGGTAATTCTATAAATCGG
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
49843328 GGGTACTTTGA-TAATTTTACAAGTCGA
1 GGGTA-TTTCAGTAATTTTACAAATCGA
* *
49843355 GGGTATTTCAGTAGTTTTGCAAA-CTGA
1 GGGTATTTCAGTAATTTTACAAATC-GA
* *
49843382 GGGTATTTCGGTAAGTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
*
49843409 GGGCATTTCAGTAATTTTAC-AATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
*
49843435 CGGTATTTC-GATAATTTTACAAATCGA
1 GGGTATTTCAG-TAATTTTACAAATCGA
*
49843462 GGGTTTTTCAGTAATTTTAC-AATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
49843488 CGGTATTTCAGTAATTTTACAAATCAA
1 GGGTATTTCAGTAATTTTACAAATCGA
* ** * * *
49843515 GGATATTTGGGTAATTTTATAAACCGG
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
49843542 GGGTACTTT-GGTAATTTTACAAGTCAA
1 GGGTA-TTTCAGTAATTTTACAAATCGA
* *
49843569 GGGTATTTCAATAATTTTACAAATCAA
1 GGGTATTTCAGTAATTTTACAAATCGA
*
49843596 GGGTATTTCAGTAATTTTGCAAA-CTGA
1 GGGTATTTCAGTAATTTTACAAATC-GA
49843623 GGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
49843650 GGGTATTTTAGTAATTTTAC-AATCAA
1 GGGTATTTCAGTAATTTTACAAATCGA
** * * *
49843676 TAGTATTTCGGTAATTTTATAAACCG-
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
49843702 GGGTACTT-AGGTAATTTTACAACT-GG
1 GGGTATTTCA-GTAATTTTACAAATCGA
*
49843728 GGGTATTTCAATAATTT
1 GGGTATTTCAGTAATTT
49843745 GGTAAACTAA
Statistics
Matches: 352, Mismatches: 76, Indels: 33
0.76 0.16 0.07
Matches are distributed among these distances:
25 2 0.01
26 104 0.30
27 240 0.68
28 6 0.02
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGA
Found at i:49843718 original size:214 final size:214
Alignment explanation
Indices: 49843310--49843723 Score: 525
Period size: 214 Copynumber: 1.9 Consensus size: 214
49843300 AAGGTAAAAC
* * * * *
49843310 GGTAATTCTATAAATCGGGGGTACTTTGATAATTTTACAAGTCGAGGGTATTTCAGTAGTTTTGC
1 GGTAATTCTATAAACCGGGGGTACTTTGATAATTTTACAAGTCAAGGGTATTTCAATAATTTTAC
* *
49843375 AAACTGAGGGTATTTCGGTAAGTTTACAAATCGAGGGCATTTCAGTAATTTTACAATCGACGGTA
66 AAACTAAGGGTATTTCAGTAAGTTTACAAATCGAGGGCATTTCAGTAATTTTACAATCGACGGTA
* * * * * * *
49843440 TTTCGATAATTTTACAAATCGAGGGTTTTTCAGTAATTTTACAATCGACGGTATTTCAGTAATTT
131 TTTAGATAATTTTACAAATCAAGAGTATTTCAGTAATTTTAAAACCGACGGTACTTCAGTAATTT
49843505 TACAAATCAAGGATATTTG
196 TACAAATCAAGGATATTTG
* *
49843524 GGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTACAAGTCAAGGGTATTTCAATAATTTTAC
1 GGTAATTCTATAAACCGGGGGTACTTTGATAATTTTACAAGTCAAGGGTATTTCAATAATTTTAC
* * * *
49843589 AAA-TCAAGGGTATTTCAGTAATTTTGCAAA-CTGAGGGTATTTCAGTAATTTTACAAATCGAGG
66 AAACT-AAGGGTATTTCAGTAAGTTTACAAATC-GAGGGCATTTCAGTAATTTTAC-AATCGACG
* * *
49843652 GTATTTTAG-TAATTTTAC-AATCAATAGTATTTCGGTAATTTTATAAACCG-GGGTACTT-AGG
128 GTA-TTTAGATAATTTTACAAATCAAGAGTATTTCAGTAATTTTA-AAACCGACGGTACTTCA-G
49843713 TAATTTTACAA
190 TAATTTTACAA
49843724 CTGGGGGTAT
Statistics
Matches: 171, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
213 3 0.02
214 141 0.82
215 23 0.13
216 4 0.02
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (214 bp):
GGTAATTCTATAAACCGGGGGTACTTTGATAATTTTACAAGTCAAGGGTATTTCAATAATTTTAC
AAACTAAGGGTATTTCAGTAAGTTTACAAATCGAGGGCATTTCAGTAATTTTACAATCGACGGTA
TTTAGATAATTTTACAAATCAAGAGTATTTCAGTAATTTTAAAACCGACGGTACTTCAGTAATTT
TACAAATCAAGGATATTTG
Found at i:49845932 original size:159 final size:159
Alignment explanation
Indices: 49845641--49845962 Score: 581
Period size: 159 Copynumber: 2.0 Consensus size: 159
49845631 GGGTTTAATC
49845641 TTTCTTTTCTTTAACTTAATTCAAGAATGTTTGCTATGTGTTTAATGTTCTTATTTACAACAATG
1 TTTCTTTTCTTTAACTTAATTCAAGAATGTTTGCTATGTGTTTAATGTTCTTATTTACAACAATG
* *
49845706 ATAGCTTAATTTTATTTAAGCTAGGATGATTATTTTGATTGAATATTATTTATTTGATTCATGCT
66 ATAGCTTAATTTTATTTAAGCTAGGATGATTATTTTGATTGAATAATATTTATTTGATTCATCCT
* *
49845771 TATAATATTTGTTCCTCAGTCGATCATGT
131 TATAATATTTGTGCCACAGTCGATCATGT
* * *
49845800 TTTCTTTTCTTTAACTTAATTCAATAATGTTTGCTATGTGTTTACTGTTCTTGTTTACAACAATG
1 TTTCTTTTCTTTAACTTAATTCAAGAATGTTTGCTATGTGTTTAATGTTCTTATTTACAACAATG
49845865 ATAGCTTAATTTTATTTAAGCTAGGATGATTATTTTGATTGAATAATATTTATTTGATTCATCCT
66 ATAGCTTAATTTTATTTAAGCTAGGATGATTATTTTGATTGAATAATATTTATTTGATTCATCCT
49845930 TATAATATTTGTGCCACAGTCGATCATGT
131 TATAATATTTGTGCCACAGTCGATCATGT
49845959 TTTC
1 TTTC
49845963 AATTAAAATC
Statistics
Matches: 156, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
159 156 1.00
ACGTcount: A:0.27, C:0.11, G:0.12, T:0.49
Consensus pattern (159 bp):
TTTCTTTTCTTTAACTTAATTCAAGAATGTTTGCTATGTGTTTAATGTTCTTATTTACAACAATG
ATAGCTTAATTTTATTTAAGCTAGGATGATTATTTTGATTGAATAATATTTATTTGATTCATCCT
TATAATATTTGTGCCACAGTCGATCATGT
Found at i:49848243 original size:27 final size:27
Alignment explanation
Indices: 49848205--49848256 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
49848195 CATTCTACCA
*
49848205 TACACGGGTATTACAGTAATTTTACAC
1 TACAAGGGTATTACAGTAATTTTACAC
* *
49848232 TACAAGGGTATTTCGGTAATTTTAC
1 TACAAGGGTATTACAGTAATTTTAC
49848257 CAATATTGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (27 bp):
TACAAGGGTATTACAGTAATTTTACAC
Found at i:49849189 original size:27 final size:27
Alignment explanation
Indices: 49849173--49849423 Score: 303
Period size: 27 Copynumber: 9.3 Consensus size: 27
49849163 CGACTTGTAA
49849173 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
49849200 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
**
49849227 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
*
49849254 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
49849281 AATTACTATTTTATCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
** *
49849308 AATTACTGTTTTCCCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
49849335 AATTACTATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
49849362 AATTATCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* * *
49849389 AATTACCGTTTTACCTTCAATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
49849416 AATTACCA
1 AATTACCA
49849424 AAATACCCTT
Statistics
Matches: 197, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
26 4 0.02
27 189 0.96
28 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:49849430 original size:27 final size:27
Alignment explanation
Indices: 49849184--49849512 Score: 86
Period size: 27 Copynumber: 12.2 Consensus size: 27
49849174 ATTACCATTT
* ***
49849184 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* *****
49849211 TACCCTCAGTTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* ****
49849238 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * ***
49849265 TACCCTCAGTTTACAGAATTACTATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * *****
49849292 TATCCTCGATTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * * ***
49849319 TCCCCTCAGTTTACAGAATTACTATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * * ****
49849346 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* ****
49849373 TACCCTCAGTTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
*
49849400 TACCTTCAATTTACAGAATTACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
*** * * *
49849427 TACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
*** *
49849454 TACCCCTGGTTTGTA-A-AATTACTAAAA
1 TA-CCCTCAATT-TACAGAATTACCAAAA
*** *
49849481 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
49849508 TACCC
1 TACCC
49849513 CTGGTTTGTA
Statistics
Matches: 247, Mismatches: 51, Indels: 8
0.81 0.17 0.03
Matches are distributed among these distances:
25 2 0.01
26 8 0.03
27 227 0.92
28 8 0.03
29 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACCAAAA
Found at i:49849439 original size:54 final size:54
Alignment explanation
Indices: 49849173--49849422 Score: 392
Period size: 54 Copynumber: 4.6 Consensus size: 54
49849163 CGACTTGTAA
* *
49849173 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
*
49849227 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
* * *
49849281 AATTACTATTTTATCCTCGATTTACAGAATTACTGTTTTCCCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
* *
49849335 AATTACTATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
** * *
49849389 AATTACCGTTTTACCTTCAATTTACAGAATTACC
1 AATTACTATTTTACCCTCGATTTACAGAATTACC
49849423 AAAATACCCT
Statistics
Matches: 178, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 178 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (54 bp):
AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
Found at i:49849441 original size:81 final size:80
Alignment explanation
Indices: 49849173--49849423 Score: 353
Period size: 81 Copynumber: 3.1 Consensus size: 80
49849163 CGACTTGTAA
49849173 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTA-CATTTTACCCTCAGTTTACAGAATTACTGTTT
*
49849238 TACCCTCGATTTACAG
65 TACCCTCAATTTACAG
* *
49849254 AATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTATCCTC-GATTTACAGAATTACTGT
1 AATTACCATTTTACCCTCGA-TTTACAGAATTAC-ATTTTACCCTCAG-TTTACAGAATTACTGT
* *
49849317 TTTCCCCTCAGTTTACAG
63 TTTACCCTCAATTTACAG
* * * *
49849335 AATTACTATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCAGTTTACAGAATTACCGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTA-CATTTTACCCTCAGTTTACAGAATTACTGTTT
*
49849400 TACCTTCAATTTACAG
65 TACCCTCAATTTACAG
49849416 AATTACCA
1 AATTACCA
49849424 AAATACCCTT
Statistics
Matches: 149, Mismatches: 15, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
80 3 0.02
81 143 0.96
82 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (80 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACATTTTACCCTCAGTTTACAGAATTACTGTTTT
ACCCTCAATTTACAG
Found at i:49849474 original size:54 final size:54
Alignment explanation
Indices: 49849416--49849566 Score: 257
Period size: 54 Copynumber: 2.8 Consensus size: 54
49849406 CAATTTACAG
* *
49849416 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
*
49849470 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
* *
49849524 AATTACTAAAATACCCTTTGTTTATAAAATTACCGAAATACCC
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCC
49849567 TATAGGGTAG
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 91 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
Found at i:49849517 original size:27 final size:27
Alignment explanation
Indices: 49849416--49849567 Score: 214
Period size: 27 Copynumber: 5.6 Consensus size: 27
49849406 CAATTTACAG
49849416 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
49849443 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
49849470 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
49849497 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
49849524 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
49849551 AATTACCGAAATACCCT
1 AATTACCAAAATACCCT
49849568 ATAGGGTAGA
Statistics
Matches: 107, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:49853304 original size:27 final size:27
Alignment explanation
Indices: 49853288--49853538 Score: 303
Period size: 27 Copynumber: 9.3 Consensus size: 27
49853278 CGACTTGTAA
49853288 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
49853315 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
**
49853342 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
*
49853369 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
49853396 AATTACTATTTTATCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
** *
49853423 AATTACTGTTTTCCCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
49853450 AATTACTATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
49853477 AATTATCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* * *
49853504 AATTACCGTTTTACCTTCAATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
49853531 AATTACCA
1 AATTACCA
49853539 AAATACCCTT
Statistics
Matches: 197, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
26 4 0.02
27 189 0.96
28 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:49853545 original size:27 final size:27
Alignment explanation
Indices: 49853299--49853627 Score: 86
Period size: 27 Copynumber: 12.2 Consensus size: 27
49853289 ATTACCATTT
* ***
49853299 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* *****
49853326 TACCCTCAGTTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* ****
49853353 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * ***
49853380 TACCCTCAGTTTACAGAATTACTATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * *****
49853407 TATCCTCGATTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * * ***
49853434 TCCCCTCAGTTTACAGAATTACTATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * * ****
49853461 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* ****
49853488 TACCCTCAGTTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
*
49853515 TACCTTCAATTTACAGAATTACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
*** * * *
49853542 TACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
*** *
49853569 TACCCCTGGTTTGTA-A-AATTACTAAAA
1 TA-CCCTCAATT-TACAGAATTACCAAAA
*** *
49853596 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
49853623 TACCC
1 TACCC
49853628 CTGGTTTGTA
Statistics
Matches: 247, Mismatches: 51, Indels: 8
0.81 0.17 0.03
Matches are distributed among these distances:
25 2 0.01
26 8 0.03
27 227 0.92
28 8 0.03
29 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACCAAAA
Found at i:49853554 original size:54 final size:54
Alignment explanation
Indices: 49853288--49853537 Score: 392
Period size: 54 Copynumber: 4.6 Consensus size: 54
49853278 CGACTTGTAA
* *
49853288 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
*
49853342 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
* * *
49853396 AATTACTATTTTATCCTCGATTTACAGAATTACTGTTTTCCCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
* *
49853450 AATTACTATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
** * *
49853504 AATTACCGTTTTACCTTCAATTTACAGAATTACC
1 AATTACTATTTTACCCTCGATTTACAGAATTACC
49853538 AAAATACCCT
Statistics
Matches: 178, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 178 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (54 bp):
AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
Found at i:49853556 original size:81 final size:80
Alignment explanation
Indices: 49853288--49853538 Score: 353
Period size: 81 Copynumber: 3.1 Consensus size: 80
49853278 CGACTTGTAA
49853288 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTA-CATTTTACCCTCAGTTTACAGAATTACTGTTT
*
49853353 TACCCTCGATTTACAG
65 TACCCTCAATTTACAG
* *
49853369 AATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTATCCTC-GATTTACAGAATTACTGT
1 AATTACCATTTTACCCTCGA-TTTACAGAATTAC-ATTTTACCCTCAG-TTTACAGAATTACTGT
* *
49853432 TTTCCCCTCAGTTTACAG
63 TTTACCCTCAATTTACAG
* * * *
49853450 AATTACTATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCAGTTTACAGAATTACCGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTA-CATTTTACCCTCAGTTTACAGAATTACTGTTT
*
49853515 TACCTTCAATTTACAG
65 TACCCTCAATTTACAG
49853531 AATTACCA
1 AATTACCA
49853539 AAATACCCTT
Statistics
Matches: 149, Mismatches: 15, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
80 3 0.02
81 143 0.96
82 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (80 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACATTTTACCCTCAGTTTACAGAATTACTGTTTT
ACCCTCAATTTACAG
Found at i:49853589 original size:54 final size:54
Alignment explanation
Indices: 49853531--49853681 Score: 257
Period size: 54 Copynumber: 2.8 Consensus size: 54
49853521 CAATTTACAG
* *
49853531 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
*
49853585 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
* *
49853639 AATTACTAAAATACCCTTTGTTTATAAAATTACCGAAATACCC
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCC
49853682 TATAGGGTAG
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 91 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
Found at i:49853632 original size:27 final size:27
Alignment explanation
Indices: 49853531--49853682 Score: 214
Period size: 27 Copynumber: 5.6 Consensus size: 27
49853521 CAATTTACAG
49853531 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
49853558 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
49853585 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
49853612 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
49853639 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
49853666 AATTACCGAAATACCCT
1 AATTACCAAAATACCCT
49853683 ATAGGGTAGA
Statistics
Matches: 107, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:49857430 original size:27 final size:27
Alignment explanation
Indices: 49857414--49857664 Score: 312
Period size: 27 Copynumber: 9.3 Consensus size: 27
49857404 CGACTTGTAA
49857414 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
49857441 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
**
49857468 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
*
49857495 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
49857522 AATTACTATTTTATCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
** *
49857549 AATTACTGTTTTCCCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
49857576 AATTACTATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
*
49857603 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* * *
49857630 AATTACCGTTTTACCTTCAATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
49857657 AATTACCA
1 AATTACCA
49857665 AAATACCCTT
Statistics
Matches: 199, Mismatches: 17, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.02
27 191 0.96
28 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:49857671 original size:27 final size:27
Alignment explanation
Indices: 49857425--49857753 Score: 95
Period size: 27 Copynumber: 12.2 Consensus size: 27
49857415 ATTACCATTT
* ***
49857425 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* *****
49857452 TACCCTCAGTTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* ****
49857479 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * ***
49857506 TACCCTCAGTTTACAGAATTACTATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * *****
49857533 TATCCTCGATTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * * ***
49857560 TCCCCTCAGTTTACAGAATTACTATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * ****
49857587 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* ****
49857614 TACCCTCAGTTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
*
49857641 TACCTTCAATTTACAGAATTACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
*** * * *
49857668 TACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
*** *
49857695 TACCCCTGGTTTGTA-A-AATTACTAAAA
1 TA-CCCTCAATT-TACAGAATTACCAAAA
*** *
49857722 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
49857749 TACCC
1 TACCC
49857754 CTGGTTTGTA
Statistics
Matches: 249, Mismatches: 49, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
25 2 0.01
26 8 0.03
27 229 0.92
28 8 0.03
29 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.36
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACCAAAA
Found at i:49857680 original size:54 final size:54
Alignment explanation
Indices: 49857414--49857663 Score: 401
Period size: 54 Copynumber: 4.6 Consensus size: 54
49857404 CGACTTGTAA
* *
49857414 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
*
49857468 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
* * *
49857522 AATTACTATTTTATCCTCGATTTACAGAATTACTGTTTTCCCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
*
49857576 AATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
** * *
49857630 AATTACCGTTTTACCTTCAATTTACAGAATTACC
1 AATTACTATTTTACCCTCGATTTACAGAATTACC
49857664 AAAATACCCT
Statistics
Matches: 180, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 180 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (54 bp):
AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
Found at i:49857682 original size:81 final size:81
Alignment explanation
Indices: 49857414--49857664 Score: 371
Period size: 81 Copynumber: 3.1 Consensus size: 81
49857404 CGACTTGTAA
49857414 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
*
49857479 TACCCTCGATTTACAG
66 TACCCTCAATTTACAG
* * *
49857495 AATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTATCCTC-GATTTACAGAATTACTGT
1 AATTACCATTTTACCCTCGA-TTTACAGAATTACCATTTTACCCTCAG-TTTACAGAATTACTGT
* *
49857558 TTTCCCCTCAGTTTACAG
64 TTTACCCTCAATTTACAG
* * * *
49857576 AATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
*
49857641 TACCTTCAATTTACAG
66 TACCCTCAATTTACAG
49857657 AATTACCA
1 AATTACCA
49857665 AAATACCCTT
Statistics
Matches: 149, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
80 2 0.01
81 145 0.97
82 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (81 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
TACCCTCAATTTACAG
Found at i:49857715 original size:54 final size:54
Alignment explanation
Indices: 49857657--49857806 Score: 257
Period size: 54 Copynumber: 2.8 Consensus size: 54
49857647 CAATTTACAG
* *
49857657 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
*
49857711 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
*
49857765 AATTACTAAAATACCCTTTGTTTATAAAATTACC-AAATACCC
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCC
49857807 TGTAGGGTAG
Statistics
Matches: 91, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 8 0.09
54 83 0.91
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
Found at i:49857758 original size:27 final size:27
Alignment explanation
Indices: 49857657--49857807 Score: 214
Period size: 27 Copynumber: 5.6 Consensus size: 27
49857647 CAATTTACAG
49857657 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
49857684 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
49857711 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
49857738 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
49857765 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
49857792 AATTACC-AAATACCCT
1 AATTACCAAAATACCCT
49857808 GTAGGGTAGA
Statistics
Matches: 107, Mismatches: 17, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
26 9 0.08
27 98 0.92
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:49860438 original size:17 final size:19
Alignment explanation
Indices: 49860416--49860453 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
49860406 AAGGGAGAAT
49860416 AAAG-AAATG-GAAAAAAA
1 AAAGAAAATGAGAAAAAAA
49860433 AAAGAAAATGATGAAAAAAA
1 AAAGAAAATGA-GAAAAAAA
49860453 A
1 A
49860454 TGTGTGTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 5 0.28
20 9 0.50
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (19 bp):
AAAGAAAATGAGAAAAAAA
Found at i:49861818 original size:29 final size:29
Alignment explanation
Indices: 49861759--49861861 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
49861749 GTGACGAGAT
* *
49861759 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
49861788 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * * *
49861817 TGGCATTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
49861846 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49861862 TGATAGAGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
28 2 0.03
29 57 0.97
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:49867879 original size:17 final size:19
Alignment explanation
Indices: 49867857--49867894 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
49867847 AAGGGAGAAT
49867857 AAAG-AAATG-GAAAAAAA
1 AAAGAAAATGAGAAAAAAA
49867874 AAAGAAAATGATGAAAAAAA
1 AAAGAAAATGA-GAAAAAAA
49867894 A
1 A
49867895 TGTGTGTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 5 0.28
20 9 0.50
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (19 bp):
AAAGAAAATGAGAAAAAAA
Found at i:49869233 original size:29 final size:29
Alignment explanation
Indices: 49869201--49869303 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
49869191 GTGACGAGAT
* *
49869201 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
49869230 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * * *
49869259 TGGCACTATGTGTGTGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
49869288 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49869304 TGATCGAGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
28 2 0.03
29 57 0.97
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:49874460 original size:27 final size:27
Alignment explanation
Indices: 49874418--49874501 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
49874408 TTGGGTTGTT
**
49874418 AATACCTCTGGGTTGT-AGAATTACCGA
1 AATACCTCTGATTTGTGA-AATTACCGA
*
49874445 AATACCTCTGATTTGTGAAATTATCGA
1 AATACCTCTGATTTGTGAAATTACCGA
*
49874472 AATACCT-TCAATTTGTGAAATTACCGA
1 AATACCTCT-GATTTGTGAAATTACCGA
49874499 AAT
1 AAT
49874502 GCCCCCGACT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
26 1 0.02
27 48 0.96
28 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (27 bp):
AATACCTCTGATTTGTGAAATTACCGA
Found at i:49874500 original size:54 final size:52
Alignment explanation
Indices: 49874436--49874585 Score: 147
Period size: 54 Copynumber: 2.8 Consensus size: 52
49874426 TGGGTTGTAG
* ** *
49874436 AATTACCGAAATACCTCTGATTTGTGAAATTATCGAAATACCTTCAATTTGTGA
1 AATTACCGAAATACC-CTGATTTGTAAAATTATCGAAATACCCCCAATTGGT-A
* * * * * *
49874490 AATTACCGAAATGCCCCCGACTTATAAAATTATTGAAATACCCCCAGTTGGTA
1 AATTACCGAAAT-ACCCTGATTTGTAAAATTATCGAAATACCCCCAATTGGTA
* * *
49874543 AATTACCAAAATACCCTTATAGTGTAAAATTATCGAAATACCC
1 AATTACCGAAATACCCTGAT-TTGTAAAATTATCGAAATACCC
49874586 TTTTATGGTA
Statistics
Matches: 76, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
52 4 0.05
53 31 0.41
54 39 0.51
55 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (52 bp):
AATTACCGAAATACCCTGATTTGTAAAATTATCGAAATACCCCCAATTGGTA
Found at i:49874596 original size:27 final size:27
Alignment explanation
Indices: 49874538--49874599 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
49874528 TACCCCCAGT
49874538 TGGT-AAATTACCAAAATACCCTTATA
1 TGGTAAAATTACCAAAATACCCTTATA
* * *
49874564 -GTGTAAAATTATCGAAATACCCTTTTA
1 TG-GTAAAATTACCAAAATACCCTTATA
49874591 TGGTAAAAT
1 TGGTAAAAT
49874600 GATTGTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 1 0.03
26 2 0.07
27 26 0.87
28 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (27 bp):
TGGTAAAATTACCAAAATACCCTTATA
Found at i:49881502 original size:40 final size:39
Alignment explanation
Indices: 49881337--49881520 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
49881327 AAATTGAATG
* * *
49881337 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
49881377 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
49881417 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
49881457 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
49881496 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
49881521 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:49881545 original size:80 final size:81
Alignment explanation
Indices: 49881377--49881565 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
49881367 GCTGGAAATT
* * * *
49881377 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
49881442 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
49881458 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
49881521 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
49881537 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
49881566 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:49891422 original size:40 final size:40
Alignment explanation
Indices: 49891363--49891504 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
49891353 AAATTGAATG
* * *
49891363 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
49891403 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
49891443 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
49891483 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
49891505 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:49891505 original size:40 final size:39
Alignment explanation
Indices: 49891402--49891530 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
49891392 TGCTGGAAAT
* * *
49891402 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
49891442 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
49891482 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
49891522 TATATCCGG
1 TATATCCGG
49891531 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:49896335 original size:40 final size:40
Alignment explanation
Indices: 49896289--49896396 Score: 126
Period size: 40 Copynumber: 2.7 Consensus size: 40
49896279 CGACGACAAA
* * * **
49896289 TCAGCTATTTGTGGCACTTAGTGTGCAATTCGATGTAGCT
1 TCAGCTATATATGGCATTTAGTGTGCAATTCGACATAGCT
* * * *
49896329 TTAGCTATATACGACATTTAGTGTGCGATTCGACATAGCT
1 TCAGCTATATATGGCATTTAGTGTGCAATTCGACATAGCT
*
49896369 TCGGCTATATATGGCATTTAGTGTGCAA
1 TCAGCTATATATGGCATTTAGTGTGCAA
49896397 GATTGAGATT
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (40 bp):
TCAGCTATATATGGCATTTAGTGTGCAATTCGACATAGCT
Found at i:49896427 original size:37 final size:36
Alignment explanation
Indices: 49896371--49896441 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
49896361 ACATAGCTTC
* *
49896371 GGCTATATATGGCATTTAGTGTGCAAGATTGAGATTT
1 GGCTATATAAGGCACTTAGTGTGCAA-ATTGAGATTT
*
49896408 GGCTATATAAGGCACTTAGTGTGCAATTTGAGAT
1 GGCTATATAAGGCACTTAGTGTGCAAATTGAGAT
49896442 AGCTTCGGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 7 0.23
37 24 0.77
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.35
Consensus pattern (36 bp):
GGCTATATAAGGCACTTAGTGTGCAAATTGAGATTT
Found at i:49896464 original size:40 final size:40
Alignment explanation
Indices: 49896303--49896471 Score: 152
Period size: 40 Copynumber: 4.3 Consensus size: 40
49896293 CTATTTGTGG
**
49896303 CACTTAGTGTGCAATTCGATG-TAGCTTTAGCTATATACGA
1 CACTTAGTGTGCAATTCGA-GATAGCTTCGGCTATATACGA
* * * * *
49896343 CATTTAGTGTGCGATTCGACATAGCTTCGGCTATATATGG
1 CACTTAGTGTGCAATTCGAGATAGCTTCGGCTATATACGA
* * *
49896383 CATTTAGTGTGCAAGATT-GAGAT---TT-GGCTATATAAGG
1 CACTTAGTGTGC-A-ATTCGAGATAGCTTCGGCTATATACGA
* *
49896420 CACTTAGTGTGCAATTTGAGATAGCTTCGGCTATGTACGA
1 CACTTAGTGTGCAATTCGAGATAGCTTCGGCTATATACGA
*
49896460 CACTTACTGTGC
1 CACTTAGTGTGC
49896472 GAGATATCGA
Statistics
Matches: 106, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
35 3 0.03
36 6 0.06
37 22 0.21
38 2 0.02
39 2 0.02
40 64 0.60
41 4 0.04
42 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (40 bp):
CACTTAGTGTGCAATTCGAGATAGCTTCGGCTATATACGA
Found at i:49896471 original size:77 final size:77
Alignment explanation
Indices: 49896332--49896476 Score: 182
Period size: 77 Copynumber: 1.9 Consensus size: 77
49896322 TGTAGCTTTA
* * * * * * *
49896332 GCTATATACGACATTTAGTGTGCGATTCGACATAGCTTCGGCTATATATGGCATTTAGTGTGCAA
1 GCTATATAAGACACTTAGTGTGCAATTCGACATAGCTTCGGCTATATACGACACTTACTGTGCAA
49896397 GATTGAGATTTG
66 GATTGAGATTTG
* * * * *
49896409 GCTATATAAGGCACTTAGTGTGCAATTTGAGATAGCTTCGGCTATGTACGACACTTACTGTGCGA
1 GCTATATAAGACACTTAGTGTGCAATTCGACATAGCTTCGGCTATATACGACACTTACTGTGCAA
49896474 GAT
66 GAT
49896477 ATCGAGTACT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
77 56 1.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (77 bp):
GCTATATAAGACACTTAGTGTGCAATTCGACATAGCTTCGGCTATATACGACACTTACTGTGCAA
GATTGAGATTTG
Found at i:49899921 original size:93 final size:93
Alignment explanation
Indices: 49899813--49899983 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
49899803 GCCCCTAAGT
* *
49899813 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49899877 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
49899906 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTTAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49899971 CGAGTTCGGATGC
66 CGAGTTCGGATGC
49899984 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:49899978 original size:46 final size:45
Alignment explanation
Indices: 49899810--49899980 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 45
49899800 CCCGCCCCTA
* *
49899810 AGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCAT
*
49899855 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT
* *
49899903 CA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
*
49899948 AGGTGAACTCGGACTTAACTCAACGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
49899981 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 10, Indels: 22
0.76 0.07 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 3 0.03
46 55 0.53
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
Found at i:49904750 original size:41 final size:40
Alignment explanation
Indices: 49904657--49904785 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
49904647 CGATGACAAA
* * *
49904657 TCAGCTATATGTGGCACTTAGTGTACGA-TTCGACATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGAGTT-GAGATAGCT
* *
49904697 TCAACTACATATGGCACTTAGTGTGCGAGGTTGAGATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGA-GTTGAGATAGCT
* *
49904738 TCGGCTATATATGGCACTCAGTGTGC-AGTTTGAGATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGAG-TTGAGATAGCT
49904778 TCAGCTAT
1 TCAGCTAT
49904786 GTACAACACT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 43 0.57
41 30 0.39
42 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (40 bp):
TCAGCTATATATGGCACTTAGTGTGCGAGTTGAGATAGCT
Found at i:49904801 original size:40 final size:41
Alignment explanation
Indices: 49904711--49904802 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 41
49904701 CTACATATGG
* ***
49904711 CACTTAGTGTGCGAGGTTGAGATAGCTTCGGCTATATATGG
1 CACTTAGTGTGCGAGGTTGAGATAGCTTCAGCTATATACAA
* * *
49904752 CACTCAGTGTGC-AGTTTGAGATAGCTTCAGCTATGTACAA
1 CACTTAGTGTGCGAGGTTGAGATAGCTTCAGCTATATACAA
49904792 CACTTAGTGTG
1 CACTTAGTGTG
49904803 TGAGATATCG
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 32 0.74
41 11 0.26
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (41 bp):
CACTTAGTGTGCGAGGTTGAGATAGCTTCAGCTATATACAA
Found at i:49905886 original size:20 final size:22
Alignment explanation
Indices: 49905857--49905896 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
49905847 ATTGATTTAT
*
49905857 GGAAATTATA-AT-TATTATTA
1 GGAAAATATATATATATTATTA
49905877 GGAAAATATATATATATTAT
1 GGAAAATATATATATATTAT
49905897 CGTATTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (22 bp):
GGAAAATATATATATATTATTA
Found at i:49907935 original size:9 final size:9
Alignment explanation
Indices: 49907923--49907979 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
49907913 TTTGATAAAC
49907923 ATGATATGT
1 ATGATATGT
*
49907932 ATGATATGCAC
1 ATGATATG--T
*
49907943 ATGACATGT
1 ATGATATGT
*
49907952 ATGATATGCAC
1 ATGATATG--T
49907963 ATGATATGT
1 ATGATATGT
49907972 ATGATATG
1 ATGATATG
49907980 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:49907946 original size:20 final size:20
Alignment explanation
Indices: 49907921--49907991 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
49907911 ATTTTGATAA
49907921 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
49907941 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
49907961 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
49907981 ACATGAGATGT
1 ACATGATATGT
49907992 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:49907968 original size:11 final size:11
Alignment explanation
Indices: 49907932--49907986 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
49907922 CATGATATGT
49907932 ATGATATGCAC
1 ATGATATGCAC
* *
49907943 ATGACATG--T
1 ATGATATGCAC
49907952 ATGATATGCAC
1 ATGATATGCAC
*
49907963 ATGATATG--T
1 ATGATATGCAC
49907972 ATGATATGCAC
1 ATGATATGCAC
49907983 ATGA
1 ATGA
49907987 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:49908092 original size:24 final size:24
Alignment explanation
Indices: 49908036--49908205 Score: 249
Period size: 24 Copynumber: 7.2 Consensus size: 24
49908026 GGAGGAAGTG
49908036 CAAAAGGGCTTATG-CCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
49908059 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
49908082 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
49908106 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
49908130 -TAAAGGGCTTATGCCCCAGTGAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
49908153 CAAAAGGGCTTACGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
49908177 -TAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
49908200 TAAAAG
1 CAAAAG
49908206 AGGCAAGGCC
Statistics
Matches: 132, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
22 12 0.09
23 50 0.38
24 70 0.53
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:49908135 original size:47 final size:47
Alignment explanation
Indices: 49908038--49908205 Score: 259
Period size: 47 Copynumber: 3.6 Consensus size: 47
49908028 AGGAAGTGCA
* *
49908038 AAAGGGCTTATG-CCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT-T
49908084 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
49908131 AAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
49908178 AAAGGGCTTTTGCCCCAGTTATTAAAAG
1 AAAGGGCTTATGCCCCAGTTATCAAAAG
49908206 AGGCAAGGCC
Statistics
Matches: 113, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
46 12 0.11
47 79 0.70
48 22 0.19
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:49910208 original size:40 final size:40
Alignment explanation
Indices: 49910149--49910290 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
49910139 AAATTGAATG
* * *
49910149 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
49910189 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
49910229 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
49910269 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
49910291 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:49910291 original size:40 final size:39
Alignment explanation
Indices: 49910188--49910316 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
49910178 TGCTGGAAAT
* * *
49910188 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
49910228 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
49910268 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
49910308 TATATCCGG
1 TATATCCGG
49910317 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:49913740 original size:20 final size:22
Alignment explanation
Indices: 49913711--49913750 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
49913701 ATTGATTTAT
*
49913711 GGAAATTATA-AT-TATTATTA
1 GGAAAATATATATATATTATTA
49913731 GGAAAATATATATATATTAT
1 GGAAAATATATATATATTAT
49913751 CGTATTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (22 bp):
GGAAAATATATATATATTATTA
Found at i:49915789 original size:9 final size:9
Alignment explanation
Indices: 49915777--49915833 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
49915767 TTTGATAAAC
49915777 ATGATATGT
1 ATGATATGT
*
49915786 ATGATATGCAC
1 ATGATATG--T
*
49915797 ATGACATGT
1 ATGATATGT
*
49915806 ATGATATGCAC
1 ATGATATG--T
49915817 ATGATATGT
1 ATGATATGT
49915826 ATGATATG
1 ATGATATG
49915834 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:49915800 original size:20 final size:20
Alignment explanation
Indices: 49915775--49915845 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
49915765 ATTTTGATAA
49915775 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
49915795 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
49915815 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
49915835 ACATGAGATGT
1 ACATGATATGT
49915846 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:49915822 original size:11 final size:11
Alignment explanation
Indices: 49915786--49915840 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
49915776 CATGATATGT
49915786 ATGATATGCAC
1 ATGATATGCAC
* *
49915797 ATGACATG--T
1 ATGATATGCAC
49915806 ATGATATGCAC
1 ATGATATGCAC
*
49915817 ATGATATG--T
1 ATGATATGCAC
49915826 ATGATATGCAC
1 ATGATATGCAC
49915837 ATGA
1 ATGA
49915841 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:49915922 original size:23 final size:23
Alignment explanation
Indices: 49915892--49916058 Score: 244
Period size: 23 Copynumber: 7.1 Consensus size: 23
49915882 AGGAAGTGCA
49915892 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
49915915 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
49915939 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
49915963 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
49915986 AAAGGGCTTATGCCCCAGTGATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
49916010 AAAGGGCTTACGTCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
49916033 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
49916056 AAA
1 AAA
49916059 AGAGGCAAGG
Statistics
Matches: 131, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
23 66 0.50
24 65 0.50
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:49915947 original size:24 final size:24
Alignment explanation
Indices: 49915890--49916060 Score: 249
Period size: 24 Copynumber: 7.2 Consensus size: 24
49915880 GGAGGAAGTG
49915890 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
49915914 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
49915937 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
49915961 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
49915985 -TAAAGGGCTTATGCCCCAGTGAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
49916008 CAAAAGGGCTTACGTCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
49916032 -TAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
49916055 TAAAAG
1 CAAAAG
49916061 AGGCAAGGCC
Statistics
Matches: 131, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
23 62 0.47
24 69 0.53
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:49915959 original size:47 final size:47
Alignment explanation
Indices: 49915891--49916060 Score: 252
Period size: 47 Copynumber: 3.6 Consensus size: 47
49915881 GAGGAAGTGC
*
49915891 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
49915937 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
* * * *
49915985 TAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGTCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
* * *
49916032 TAAAGGGCTTTTGCCCCAGTTATTAAAAG
1 AAAAGGGCTTATGCCCCAGTTATCAAAAG
49916061 AGGCAAGGCC
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
47 92 0.81
48 22 0.19
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
Found at i:49916010 original size:71 final size:71
Alignment explanation
Indices: 49915890--49916058 Score: 286
Period size: 71 Copynumber: 2.4 Consensus size: 71
49915880 GGAGGAAGTG
* *
49915890 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
49915955 AGTTAT
66 AGTTAT
*
49915961 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGTCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
49916026 AGTTAT
66 AGTTAT
* *
49916032 -TAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
49916059 AGAGGCAAGG
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
70 25 0.27
71 68 0.73
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
AGTTAT
Found at i:49926610 original size:46 final size:47
Alignment explanation
Indices: 49926504--49926625 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
49926494 TGTCTTCGAC
** * *
49926504 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
49926554 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
49926600 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
49926626 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:49935095 original size:28 final size:27
Alignment explanation
Indices: 49935047--49935099 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
49935037 TTATTTAACT
* *
49935047 AACATCAAATATTTATAATATATCATTA
1 AACATCAAATAATCATAATAT-TCATTA
49935075 AACATCAAA-AATCATACATATTCAT
1 AACATCAAATAATCATA-ATATTCAT
49935100 CAATGGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (27 bp):
AACATCAAATAATCATAATATTCATTA
Found at i:49945917 original size:47 final size:46
Alignment explanation
Indices: 49945798--49945971 Score: 198
Period size: 47 Copynumber: 3.8 Consensus size: 46
49945788 GGGATATTTG
*
49945798 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGA
* * *
49945845 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATG---CGA
49945891 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-ATGGATGCGAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCG-A
* *
49945938 CGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
49945972 TATGGGCGGG
Statistics
Matches: 110, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
43 4 0.04
45 32 0.29
46 34 0.31
47 35 0.32
48 1 0.01
49 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGA
Found at i:49951689 original size:20 final size:20
Alignment explanation
Indices: 49951664--49951730 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
49951654 GTTTTGATAT
49951664 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
49951684 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
49951704 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
49951724 ACATGAT
1 ACATGAT
49951731 GTATTCATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:49951691 original size:11 final size:11
Alignment explanation
Indices: 49951675--49951730 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
49951665 CATGATTGAT
49951675 ATGATATGCAC
1 ATGATATGCAC
*
49951686 ATGATATG--T
1 ATGATATGCAC
49951695 ATGATATGCAC
1 ATGATATGCAC
*
49951706 ATGATATG--T
1 ATGATATGCAC
49951715 ATGATATGCAC
1 ATGATATGCAC
49951726 ATGAT
1 ATGAT
49951731 GTATTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:49951744 original size:40 final size:39
Alignment explanation
Indices: 49951664--49951744 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 39
49951654 GTTTTGATAT
*
49951664 ACATGATTGATATGATATGCACATGATATGTATGATATGC
1 ACATGATTGATATGATATGCACATGA-ATGTATCATATGC
49951704 ACATGATATG-TATGATATGCACATG-ATGTATTCATAATGC
1 ACATGAT-TGATATGATATGCACATGAATGTA-TCAT-ATGC
49951744 A
1 A
49951745 TTGGGTTGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
38 5 0.14
39 3 0.08
40 27 0.73
41 2 0.05
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.35
Consensus pattern (39 bp):
ACATGATTGATATGATATGCACATGAATGTATCATATGC
Found at i:49951869 original size:24 final size:24
Alignment explanation
Indices: 49951778--49951885 Score: 137
Period size: 25 Copynumber: 4.4 Consensus size: 24
49951768 AGGAAGTGCA
* *
49951778 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
49951802 GAAAAGGGCTTTTGCCCCAGTTTATT
1 -AAAAGGGC-TTTGCCCCAGTTTATC
49951828 AAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAGGGC-TTTGCCCCAGTTTATC
*
49951853 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
49951876 AAAAGAGGCT
1 AAAAG-GGCT
49951886 AGGCCTCCAG
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
23 9 0.12
24 14 0.18
25 40 0.53
26 13 0.17
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:49955160 original size:29 final size:29
Alignment explanation
Indices: 49955127--49955287 Score: 162
Period size: 29 Copynumber: 5.6 Consensus size: 29
49955117 GTGACGAGAT
49955127 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
49955156 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
49955185 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ** * * ***
49955214 CGCCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
49955243 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
49955272 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49955288 AAATCGAGTA
Statistics
Matches: 110, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
28 2 0.02
29 108 0.98
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:49955324 original size:2 final size:2
Alignment explanation
Indices: 49955319--49955353 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
49955309 GTGTGCGTAC
49955319 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
49955354 CTCCGATCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:49963353 original size:40 final size:39
Alignment explanation
Indices: 49963308--49963515 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
49963298 CGGAATACAA
*
49963308 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
49963348 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
49963388 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
49963428 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
49963468 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
49963508 CCGGATAT
1 CCGGATAT
49963516 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:49963448 original size:80 final size:80
Alignment explanation
Indices: 49963308--49963514 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
49963298 CGGAATACAA
* * *
49963308 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
49963372 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
49963388 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
49963452 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
49963468 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
49963515 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:49971340 original size:40 final size:39
Alignment explanation
Indices: 49971295--49971502 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
49971285 CGGAATACAA
*
49971295 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
49971335 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
49971375 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
49971415 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
49971455 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
49971495 CCGGATAT
1 CCGGATAT
49971503 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:49971435 original size:80 final size:80
Alignment explanation
Indices: 49971295--49971501 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
49971285 CGGAATACAA
* * *
49971295 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
49971359 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
49971375 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
49971439 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
49971455 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
49971502 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:49974332 original size:29 final size:29
Alignment explanation
Indices: 49974299--49974459 Score: 162
Period size: 29 Copynumber: 5.6 Consensus size: 29
49974289 GTGACGAGAT
49974299 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
49974328 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
49974357 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ** * * ***
49974386 CGCCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
49974415 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
49974444 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49974460 AAATCGAGTA
Statistics
Matches: 110, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
28 2 0.02
29 108 0.98
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:49981841 original size:49 final size:49
Alignment explanation
Indices: 49981786--49981883 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
49981776 CCCATTTGGG
* *
49981786 TAAATTTGTTAGGAAATGAAATCTGGTTAACTTGCGCGTTAAGACTGGT
1 TAAATTTGGTAGGAAATGAAATCTGGTTAAATTGCGCGTTAAGACTGGT
49981835 TAAATTTGGTAGGAAATGAAATCTGGTTAAATTGCGCGTTAAGACTGGT
1 TAAATTTGGTAGGAAATGAAATCTGGTTAAATTGCGCGTTAAGACTGGT
49981884 AATACCATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.34
Consensus pattern (49 bp):
TAAATTTGGTAGGAAATGAAATCTGGTTAAATTGCGCGTTAAGACTGGT
Found at i:49982196 original size:20 final size:20
Alignment explanation
Indices: 49982171--49982217 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
49982161 GTTTTGATAT
49982171 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
49982191 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
49982211 ACATGAT
1 ACATGAT
49982218 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:49982292 original size:24 final size:25
Alignment explanation
Indices: 49982266--49982372 Score: 139
Period size: 25 Copynumber: 4.3 Consensus size: 25
49982256 GGAAGTGCAG
* *
49982266 AAAGGGC-TATGCCCCAGTTTACCGA
1 AAAGGGCTTTTGCCCCAGTTTATC-A
*
49982291 AAAGGGCTTTTGCCCCAGTTTATTA
1 AAAGGGCTTTTGCCCCAGTTTATCA
49982316 AAAGGGCTTTTGCCCCAGTTTATCA
1 AAAGGGCTTTTGCCCCAGTTTATCA
*
49982341 AAAGGGC-TTTGCCCCAG-TTATTA
1 AAAGGGCTTTTGCCCCAGTTTATCA
49982364 AAAGAGGCT
1 AAAG-GGCT
49982373 AGGCCTCCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
23 9 0.12
24 13 0.18
25 39 0.53
26 13 0.18
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTTTGCCCCAGTTTATCA
Found at i:49983392 original size:33 final size:33
Alignment explanation
Indices: 49983355--49983450 Score: 97
Period size: 34 Copynumber: 2.9 Consensus size: 33
49983345 CTATGGGCCA
* *
49983355 TACTGTTATCTGAAAAGGGGCTAAGGCCCAGT-T
1 TACTGTTATCTGAAAA-GGGCTTAGGCCCAGTAC
* *
49983388 TACTG-TATTTTGAAAAGGGCTTCGGCCCAGTACC
1 TACTGTTA-TCTGAAAAGGGCTTAGGCCCAGTA-C
* *
49983422 CACTGTTATCTGAATAGGGCTTAGGCCCA
1 TACTGTTATCTGAAAAGGGCTTAGGCCCA
49983451 ATGGGCTTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
32 15 0.29
33 12 0.24
34 22 0.43
35 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (33 bp):
TACTGTTATCTGAAAAGGGCTTAGGCCCAGTAC
Found at i:49984645 original size:157 final size:157
Alignment explanation
Indices: 49984347--49984657 Score: 480
Period size: 157 Copynumber: 2.0 Consensus size: 157
49984337 CACACTTTCC
* * * *
49984347 ATTGATGTAGCTGGAGTTTTTATACTCGTAAATTGCTTTCTACGATCTCTATTAGAATACTCCAC
1 ATTGATGTAGCTGGAGTTTTTAGACTCGTAAATTACTTCCCACGATCTCTATTAGAATACTCCAC
* * *** *
49984412 TAATGCATTTGATCGGCTATACGAATCTCGTGATTTCTTTGATGAAGAAAGATAGAGTTTATTCA
66 TAATGCATTTGATCGACTATACGAATCCCAAAATTTCTTTGATGAAGAAAGATAGACTTTATTCA
*
49984477 TTAATCTCTTTCTCGAATCTCTAGTTT
131 TTAATCACTTTCTCGAATCTCTAGTTT
* *
49984504 ATTGATGTAGCTGGAGTTTTTGGACTTGTAAATTACTTCCCACGATCTCTATTAGAATACTCCAC
1 ATTGATGTAGCTGGAGTTTTTAGACTCGTAAATTACTTCCCACGATCTCTATTAGAATACTCCAC
*
49984569 TAATGCATTTGATCGACTATACGAATCCCAAAATTTCTTTGATGAAGAATGATAGACTTTATTC-
66 TAATGCATTTGATCGACTATACGAATCCCAAAATTTCTTTGATGAAGAAAGATAGACTTTATTCA
49984633 TTCAATCACTTTCTCGAATCTCTAG
131 TT-AATCACTTTCTCGAATCTCTAG
49984658 CTTCAAAATC
Statistics
Matches: 139, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
156 2 0.01
157 137 0.99
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (157 bp):
ATTGATGTAGCTGGAGTTTTTAGACTCGTAAATTACTTCCCACGATCTCTATTAGAATACTCCAC
TAATGCATTTGATCGACTATACGAATCCCAAAATTTCTTTGATGAAGAAAGATAGACTTTATTCA
TTAATCACTTTCTCGAATCTCTAGTTT
Found at i:49985001 original size:36 final size:36
Alignment explanation
Indices: 49984954--49985025 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
49984944 CTTTTTCTAG
49984954 AAGTCAGTCTGCAAGAACTCCCAGGTGACTCTCTCT
1 AAGTCAGTCTGCAAGAACTCCCAGGTGACTCTCTCT
49984990 AAGTCAGTCTGCAAGAACTCCCAGGTGACTCTCTCT
1 AAGTCAGTCTGCAAGAACTCCCAGGTGACTCTCTCT
49985026 CTAAACCACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (36 bp):
AAGTCAGTCTGCAAGAACTCCCAGGTGACTCTCTCT
Found at i:49985379 original size:14 final size:14
Alignment explanation
Indices: 49985360--49985389 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
49985350 AAAGAAGGCT
49985360 TCTTTAGCCCCACC
1 TCTTTAGCCCCACC
49985374 TCTTTAGCCCCACC
1 TCTTTAGCCCCACC
49985388 TC
1 TC
49985390 CGTGACTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.50, G:0.07, T:0.30
Consensus pattern (14 bp):
TCTTTAGCCCCACC
Found at i:49989062 original size:22 final size:22
Alignment explanation
Indices: 49989036--49989112 Score: 95
Period size: 22 Copynumber: 3.6 Consensus size: 22
49989026 GGTTCAATAG
*
49989036 GTAAATTAATAAATTAACTTAA
1 GTAAAATAATAAATTAACTTAA
** *
49989058 GTAAAATAATAAA--AAAATAG
1 GTAAAATAATAAATTAACTTAA
*
49989078 GTAAATTAATAAATTAACTTAA
1 GTAAAATAATAAATTAACTTAA
49989100 GTAAAATAATAAA
1 GTAAAATAATAAA
49989113 AAAATAGTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
20 16 0.36
22 28 0.64
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (22 bp):
GTAAAATAATAAATTAACTTAA
Found at i:49989078 original size:42 final size:42
Alignment explanation
Indices: 49989031--49989119 Score: 178
Period size: 42 Copynumber: 2.1 Consensus size: 42
49989021 ACAAAGGTTC
49989031 AATAGGTAAATTAATAAATTAACTTAAGTAAAATAATAAAAA
1 AATAGGTAAATTAATAAATTAACTTAAGTAAAATAATAAAAA
49989073 AATAGGTAAATTAATAAATTAACTTAAGTAAAATAATAAAAA
1 AATAGGTAAATTAATAAATTAACTTAAGTAAAATAATAAAAA
49989115 AATAG
1 AATAG
49989120 TATCATCTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (42 bp):
AATAGGTAAATTAATAAATTAACTTAAGTAAAATAATAAAAA
Found at i:49993372 original size:49 final size:49
Alignment explanation
Indices: 49993319--49993689 Score: 566
Period size: 47 Copynumber: 7.8 Consensus size: 49
49993309 TTTAGGATTT
49993319 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
49993368 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
*
49993417 GATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
*
49993466 GATGTGATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
49993513 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
* *
49993560 GATGTGATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
* * *
49993607 AATGTGATGAATGTGAAAGTG--TATATATGTGAT-AGGGCTGAGTGGCC
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT-AATGGCC
* * *
49993654 AACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
49993690 TCCCGAAGGG
Statistics
Matches: 302, Mismatches: 10, Indels: 21
0.91 0.03 0.06
Matches are distributed among these distances:
45 1 0.00
46 7 0.02
47 167 0.55
48 11 0.04
49 116 0.38
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (49 bp):
GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
Found at i:49996034 original size:27 final size:27
Alignment explanation
Indices: 49996004--49996204 Score: 215
Period size: 27 Copynumber: 7.3 Consensus size: 27
49995994 TACTAAAATG
** *
49996004 CCCTCGATTTGTAGAATTACAATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
49996031 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
49996058 CCCTCGATTTACAAAATTATCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
49996085 CCCTCAATTTATAATAGAATTACCATTTTA
1 CCCTCGA-TT-T-ACAGAATTACCATTTTA
*
49996115 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
49996142 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
** *
49996169 CCCTTAATTTACA-AGATTACCTTTTTA
1 CCCTCGATTTACAGA-ATTACCATTTTA
49996196 CCCTCGATT
1 CCCTCGATT
49996205 GTGAAATTAC
Statistics
Matches: 147, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 121 0.82
28 3 0.02
29 3 0.02
30 19 0.13
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:49996122 original size:84 final size:83
Alignment explanation
Indices: 49996015--49996204 Score: 285
Period size: 84 Copynumber: 2.3 Consensus size: 83
49996005 CCTCGATTTG
* * * *
49996015 TAGAATTACAATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTACAAAATTATCG
1 TAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCA
49996080 TTTTACCCTCAATTTATAA
66 TTTTACCCTCAATTTA-AA
*
49996099 TAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCA
1 TAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCA
* *
49996164 TTTTACCCTTAATTTACA
66 TTTTACCCTCAATTTAAA
*
49996182 -AG-ATTACCTTTTTACCCTCGATT
1 TAGAATTACCATTTTACCCTCGATT
49996205 GTGAAATTAC
Statistics
Matches: 98, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
81 20 0.20
82 2 0.02
83 1 0.01
84 75 0.77
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (83 bp):
TAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTACAAAATTACCA
TTTTACCCTCAATTTAAA
Done.