Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 70 of 438
Found at i:18366550 original size:17 final size:18
Alignment explanation
Indices: 18366520--18366553 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18366510 GGACCGAAAT
*
18366520 GGGCATTGTGGGCCCCAA
1 GGGCATTGTAGGCCCCAA
18366538 GGGC-TTGTAGGCCCCA
1 GGGCATTGTAGGCCCCA
18366554 CACGGGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.15, C:0.29, G:0.38, T:0.18
Consensus pattern (18 bp):
GGGCATTGTAGGCCCCAA
Found at i:18368293 original size:11 final size:11
Alignment explanation
Indices: 18368279--18368303 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18368269 GTGAATAAAT
18368279 TGTGAAATTTA
1 TGTGAAATTTA
18368290 TGTGAAATTTA
1 TGTGAAATTTA
18368301 TGT
1 TGT
18368304 AACAATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (11 bp):
TGTGAAATTTA
Found at i:18368737 original size:138 final size:138
Alignment explanation
Indices: 18368489--18368771 Score: 476
Period size: 138 Copynumber: 2.1 Consensus size: 138
18368479 TAAAAATGTT
* * * *
18368489 TGGTATTAATGAATTGTCTAAAATAATTTTTTAGATCAAGAATTGAATCAAACCGAAGATAATCG
1 TGGTATTAATGAATTGTCTAAAATAATTGTTTAGATCAAGAACTAAATCAAACCAAAGATAATCG
**
18368554 AAGAAAAGGAAAAAATTGTCGAATAGTCTTTGGAGGTTCAATTTGCTTACTATTTTGACCAAGTA
66 AAGAAAAGGAAAAAATTGTCGAATAGTCCCTGGAGGTTCAATTTGCTTACTATTTTGACCAAGTA
18368619 AGTTCATA
131 AGTTCATA
18368627 TGGTATTAATGAATTGTCTAAAATAATTGTTTAGATCAAGAACTAAATCAAACCAAAGATAATCG
1 TGGTATTAATGAATTGTCTAAAATAATTGTTTAGATCAAGAACTAAATCAAACCAAAGATAATCG
** * *
18368692 GGGAAAAGGCAAAAATTGTTGAATAGTCCCTGGAGGTTCAATTTGCTTACTATTTTGACCAAGTA
66 AAGAAAAGGAAAAAATTGTCGAATAGTCCCTGGAGGTTCAATTTGCTTACTATTTTGACCAAGTA
18368757 AGTTCATA
131 AGTTCATA
18368765 TGGTATT
1 TGGTATT
18368772 TATAATTTAG
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
138 135 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (138 bp):
TGGTATTAATGAATTGTCTAAAATAATTGTTTAGATCAAGAACTAAATCAAACCAAAGATAATCG
AAGAAAAGGAAAAAATTGTCGAATAGTCCCTGGAGGTTCAATTTGCTTACTATTTTGACCAAGTA
AGTTCATA
Found at i:18369697 original size:44 final size:43
Alignment explanation
Indices: 18369585--18369703 Score: 123
Period size: 44 Copynumber: 2.7 Consensus size: 43
18369575 TTAGAAATCT
* *
18369585 GAGCTCGTTGAGTTGGTCC-AGGTTCGTGATATGTATGAGGCATCC
1 GAGCTCGTTGAGTTGGTCCGA-GTTCAT--TATGGATGAGGCATCC
* ** *
18369630 GAGCTTGTTGAGTTGGTTTGAGTTCATTATGGATGCGAGCATCC
1 GAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGAG-GCATCC
* *
18369674 GAGCTCATTGAGTTGGTCCGAGTTTATTAT
1 GAGCTCGTTGAGTTGGTCCGAGTTCATTAT
18369704 AGATACGGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
43 8 0.13
44 31 0.51
45 21 0.34
46 1 0.02
ACGTcount: A:0.18, C:0.15, G:0.31, T:0.35
Consensus pattern (43 bp):
GAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGAGGCATCC
Found at i:18380823 original size:21 final size:21
Alignment explanation
Indices: 18380775--18380814 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18380765 GATTATTTTG
*
18380775 ATGTTTGATGATGGATTATAA
1 ATGTTTGATGATAGATTATAA
18380796 ATGTTTGATGATAG-TTATA
1 ATGTTTGATGATAGATTATA
18380815 CAAGTTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.45
Consensus pattern (21 bp):
ATGTTTGATGATAGATTATAA
Found at i:18386306 original size:13 final size:14
Alignment explanation
Indices: 18386278--18386306 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18386268 CATTCTAGTA
18386278 TTCATTTTCTTTCT
1 TTCATTTTCTTTCT
18386292 TTCATTTTC-TTCT
1 TTCATTTTCTTTCT
18386305 TT
1 TT
18386307 GGTTTGTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (14 bp):
TTCATTTTCTTTCT
Found at i:18391599 original size:39 final size:39
Alignment explanation
Indices: 18391502--18391608 Score: 112
Period size: 39 Copynumber: 2.8 Consensus size: 39
18391492 ATACATAGGT
* * *
18391502 GAATCT-CAACTAGACTAGATCTTGTTATATTATCCTGA
1 GAATCTACAACAAGGCTAGATCTCGTTATATTATCCTGA
18391540 GAATCTACAACAAGGCTAGATCTCGTTATATTA-CAC-GA
1 GAATCTACAACAAGGCTAGATCTCGTTATATTATC-CTGA
* * * *
18391578 GAATCTGCAACAAATGTTAGATCTCATTATA
1 GAATCTACAAC-AAGGCTAGATCTCGTTATA
18391609 ATCTATAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
38 19 0.32
39 40 0.68
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.32
Consensus pattern (39 bp):
GAATCTACAACAAGGCTAGATCTCGTTATATTATCCTGA
Found at i:18398049 original size:93 final size:93
Alignment explanation
Indices: 18397937--18398108 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18397927 CGCCCATAAG
* *
18397937 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18398002 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
18398030 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18398095 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
18398109 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:18398105 original size:46 final size:46
Alignment explanation
Indices: 18397930--18398105 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
18397920 TGTAACCCGC
* * *
18397930 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
18397976 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
18398026 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
18398069 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
18398106 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:18405186 original size:93 final size:93
Alignment explanation
Indices: 18405074--18405245 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18405064 CGCCCATAAG
* *
18405074 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18405139 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
18405167 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18405232 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
18405246 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:18405242 original size:46 final size:46
Alignment explanation
Indices: 18405067--18405242 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
18405057 TGTAACCCGC
* * *
18405067 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
18405113 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
18405163 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
18405206 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
18405243 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:18408143 original size:42 final size:43
Alignment explanation
Indices: 18408034--18408193 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
18408024 AGCTCGTACA
* * * * *
18408034 ATGCCAATGTCCCAAACTTGGTCGTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * *
18408077 ATGCCATTGTCCCAAACAGGGTCTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * *
18408119 ATGCCAATATCCCAGACATAGTCTTACTCGTAAATCACAA-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATCA-AATATCG
* **
18408163 ATGCCAACGTCCCAGATGTGGTCTTACACGA
1 ATGCCAATGTCCCAGACATGGTCTTACACGA
18408194 TAGCACATAT
Statistics
Matches: 94, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
42 26 0.28
43 41 0.44
44 27 0.29
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:18408187 original size:44 final size:42
Alignment explanation
Indices: 18408086--18408193 Score: 108
Period size: 44 Copynumber: 2.5 Consensus size: 42
18408076 GATGCCATTG
* * * * *
18408086 TCCCAAACAGGGTCTTACACGAAATCATATACGATGCCAATA
1 TCCCAGACATGGTCTTACACGAAATCACAAACGATGCCAACA
* * *
18408128 TCCCAGACATAGTCTTACTCGTAAATCACAAATCGATGCCAACG
1 TCCCAGACATGGTCTTACACG-AAATCACAAA-CGATGCCAACA
**
18408172 TCCCAGATGTGGTCTTACACGA
1 TCCCAGACATGGTCTTACACGA
18408194 TAGCACATAT
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
42 17 0.33
43 9 0.17
44 26 0.50
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAATCACAAACGATGCCAACA
Found at i:18410865 original size:2 final size:2
Alignment explanation
Indices: 18410858--18410888 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18410848 ACTACATGCT
18410858 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 T
18410889 CATAAGTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18411194 original size:48 final size:48
Alignment explanation
Indices: 18411139--18411515 Score: 335
Period size: 48 Copynumber: 7.9 Consensus size: 48
18411129 GTGAATTGCT
* *
18411139 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGAGGCC
** * * * * ** *
18411187 GATGCCATGTCCCAAACATGGTCTTACACAAGCTCTCGTCTTAATACT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGAGGCC
* * * * *
18411235 GATGCCATGTCCCAAACATAGTCTTACACTGGCTCTCATAATGTGGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGAGGCC
* * * * * *
18411283 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAAT-ATCGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGA-GGCC
* * * * * *
18411331 GATGTCATGTTCCAAACATGGTCTTACATTGGCTCTCATATTGTGGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGAGGCC
* * * *
18411379 GATGCCATTTCCCAAACATCGTCTTACACTGGCACACATA-TCATGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGA-GGCC
* * * * * *
18411427 GATGCCATGTCTCGAACATGGTCTTGCACTGGCACACATATCGTGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGAGGCC
* * * * *
18411475 GATTCCATGTCCCAGACATGGTCTTTCATTGGCACACATAT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAT
18411516 CACCCAAATG
Statistics
Matches: 262, Mismatches: 63, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
47 1 0.00
48 261 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATTGAGGCC
Found at i:18411484 original size:144 final size:143
Alignment explanation
Indices: 18411139--18411507 Score: 381
Period size: 144 Copynumber: 2.6 Consensus size: 143
18411129 GTGAATTGCT
* * *
18411139 GATGCCATGT-TCCAAACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCCCAAA
1 GATGCCATGTCT-CAAACATGGTCTTACACTGGCTCACATATCG-GGCCGATTCCATGTCCCAAA
*** * *
18411203 CATGGTCTTACACAAGCTCTCGTCTTAATACTGATGCCATGTCCCAAACATAGTCTTACACTGGC
64 CATGGTCTTACATTGGCTCTCATATTAATACTGATGCCATGTCCCAAACATAGTCTTACACTGGC
* * * *
18411268 TCTCATAATGTGGTC
129 ACACATAATATGGCC
* * * *
18411283 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATATC--GCTGATGT-CATGTTCCA
1 GATGCCATGTCTCAAACATGGTCTTACACTGG--CTCAC-ATATCGGGCCGAT-TCCATGTCCCA
* ** * *
18411345 AACATGGTCTTACATTGGCTCTCATATT-GTGGTCGATGCCATTTCCCAAACATCGTCTTACACT
62 AACATGGTCTTACATTGGCTCTCATATTAATACT-GATGCCATGTCCCAAACATAGTCTTACACT
18411409 GGCACACAT-ATCATGGCC
126 GGCACACATAAT-ATGGCC
* * * *
18411427 GATGCCATGTCTCGAACATGGTCTTGCACTGGCACACATATCGTGGCCGATTCCATGTCCCAGAC
1 GATGCCATGTCTCAAACATGGTCTTACACTGGCTCACATATCG-GGCCGATTCCATGTCCCAAAC
*
18411492 ATGGTCTTTCATTGGC
65 ATGGTCTTACATTGGC
18411508 ACACATATCA
Statistics
Matches: 184, Mismatches: 30, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
141 5 0.03
142 4 0.02
143 5 0.03
144 162 0.88
146 5 0.03
147 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (143 bp):
GATGCCATGTCTCAAACATGGTCTTACACTGGCTCACATATCGGGCCGATTCCATGTCCCAAACA
TGGTCTTACATTGGCTCTCATATTAATACTGATGCCATGTCCCAAACATAGTCTTACACTGGCAC
ACATAATATGGCC
Found at i:18413471 original size:40 final size:40
Alignment explanation
Indices: 18413426--18413593 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
18413416 CGGAATATAA
18413426 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
18413466 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
18413506 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
18413546 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
18413586 CCGGATAT
1 CCGGATAT
18413594 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:18413576 original size:80 final size:80
Alignment explanation
Indices: 18413442--18413591 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
18413432 ATAACCACGT
* *
18413442 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
18413507 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
18413522 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
18413585 CCCGGAT
64 CCCGGAT
18413592 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:18420905 original size:40 final size:38
Alignment explanation
Indices: 18420807--18420952 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
18420797 ATAACCACGT
*
18420807 GCACAAATGCCTTC-GGTCTTAGCCCGGA-TAGAATCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATTAGAATCTA
*
18420844 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCA-CTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-TAG-AATCTA
* * *
18420884 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGAT-TAGA-ATCTA
* *
18420924 GCATAATTGTCTTCGGG-CTTAGCCCGGAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGAT
18420953 ATCATTCAAT
Statistics
Matches: 91, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
37 13 0.14
38 14 0.15
39 13 0.14
40 50 0.55
41 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATTAGAATCTA
Found at i:18428191 original size:40 final size:40
Alignment explanation
Indices: 18428146--18428313 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
18428136 CGGAATATAA
18428146 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
18428186 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
18428226 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
18428266 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
18428306 CCGGATAT
1 CCGGATAT
18428314 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:18428296 original size:80 final size:80
Alignment explanation
Indices: 18428162--18428311 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
18428152 ATAACCACGT
* *
18428162 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
18428227 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
18428242 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
18428305 CCCGGAT
64 CCCGGAT
18428312 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:18433178 original size:45 final size:44
Alignment explanation
Indices: 18433127--18433386 Score: 297
Period size: 45 Copynumber: 5.8 Consensus size: 44
18433117 GTCTGATTCA
* * * *
18433127 TGATGCCATAGCGTCCTTCAGCTATGGTCTTGCTCGTTAGAATCT
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTA-AATCT
* * *
18433172 TGATGCCATAATGTCTTTTAGCTATGGTCTTACTCGTTAAAAT-T
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTT-AAATCT
* * * *
18433216 GTGATGTCATGATGTCTTTCAACTATGGTCTTACTCGTTAAAATCG
1 -TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTT-AAATCT
* * *
18433262 TGATGCCATAATGTCTTTCAACTATGGTCTTACTTGTTAAAACT
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAATCT
* * * *
18433306 GTGATGCCATAACATCTTTCAGCTATGGTCTTACTCTTTAAACTCG
1 -TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAA-TCT
18433352 TGATGCCATAACGTCTTTCAACTATGGTCTTACTC
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTC
18433387 CCTATGGCTT
Statistics
Matches: 186, Mismatches: 24, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
44 5 0.03
45 179 0.96
46 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (44 bp):
TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAATCT
Found at i:18433255 original size:90 final size:89
Alignment explanation
Indices: 18433127--18433386 Score: 349
Period size: 90 Copynumber: 2.9 Consensus size: 89
18433117 GTCTGATTCA
* * * * * *
18433127 TGATGCCATAGCGTCCTTCAGCTATGGTCTTGCTCGTTAGAATCTTGATGCCATAATGTCTTTTA
1 TGATGCCATAACATCTTTCAGCTATGGTCTTACTCGTTA-AATCGTGATGCCATAATGTCTTTCA
* *
18433192 GCTATGGTCTTACTCGTTAAAATTG
65 ACTATGGTCTTACTCGTTAAAACTG
* * ** *
18433217 TGATGTCATGATGTCTTTCAACTATGGTCTTACTCGTTAAAATCGTGATGCCATAATGTCTTTCA
1 TGATGCCATAACATCTTTCAGCTATGGTCTTACTCGTT-AAATCGTGATGCCATAATGTCTTTCA
*
18433282 ACTATGGTCTTACTTGTTAAAACTG
65 ACTATGGTCTTACTCGTTAAAACTG
* *
18433307 TGATGCCATAACATCTTTCAGCTATGGTCTTACTCTTTAAACTCGTGATGCCATAACGTCTTTCA
1 TGATGCCATAACATCTTTCAGCTATGGTCTTACTCGTTAAA-TCGTGATGCCATAATGTCTTTCA
18433372 ACTATGGTCTTACTC
65 ACTATGGTCTTACTC
18433387 CCTATGGCTT
Statistics
Matches: 148, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
89 3 0.02
90 144 0.97
91 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (89 bp):
TGATGCCATAACATCTTTCAGCTATGGTCTTACTCGTTAAATCGTGATGCCATAATGTCTTTCAA
CTATGGTCTTACTCGTTAAAACTG
Found at i:18433330 original size:135 final size:135
Alignment explanation
Indices: 18433127--18433386 Score: 360
Period size: 135 Copynumber: 1.9 Consensus size: 135
18433117 GTCTGATTCA
* * * * ** *
18433127 TGATGCCATAGCGTCCTTCAGCTATGGTCTTGCTCGTTAGAATCTTGATGCCATAATGTCTTTTA
1 TGATGCCATAACGTCCTTCAACTATGGTCTTACTCGTTAGAAACTTGATGCCATAACATCTTTCA
* * * *
18433192 GCTATGGTCTTACTCGTTAAAATTGTGATGTCATGATGTCTTTCAACTATGGTCTTACTCGTTAA
66 GCTATGGTCTTACTCGTTAAAATCGTGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAA
18433257 AATCG
131 AATCG
* * *
18433262 TGATGCCATAATGTCTTTCAACTATGGTCTTACTTGTTA-AAACTGTGATGCCATAACATCTTTC
1 TGATGCCATAACGTCCTTCAACTATGGTCTTACTCGTTAGAAACT-TGATGCCATAACATCTTTC
* *
18433326 AGCTATGGTCTTACTCTTTAAACTCGTGATGCCATAACGTCTTTCAACTATGGTCTTACTC
65 AGCTATGGTCTTACTCGTTAAAATCGTGATGCCATAACGTCTTTCAACTATGGTCTTACTC
18433387 CCTATGGCTT
Statistics
Matches: 108, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
134 4 0.04
135 104 0.96
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (135 bp):
TGATGCCATAACGTCCTTCAACTATGGTCTTACTCGTTAGAAACTTGATGCCATAACATCTTTCA
GCTATGGTCTTACTCGTTAAAATCGTGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAA
AATCG
Found at i:18433421 original size:104 final size:105
Alignment explanation
Indices: 18433283--18433482 Score: 287
Period size: 104 Copynumber: 1.9 Consensus size: 105
18433273 TGTCTTTCAA
* * **
18433283 CTATGGTCTTACTTGTTAAAACTGTGATGCCATAACATCTTTCAGCTATGGTCTTACTCTTTAAA
1 CTATGGTCTTACTCGTTAAAACTGTGATGCCATAACATCTTTCAGCTATAGTCTTACTCAGTAAA
* *
18433348 CTCGTGATGCCATAACGTCTTTCAACTATGGTCTTACTCC
66 ATCGTGATGCCATAACATCTTTCAACTATGGTCTTACTCC
* *
18433388 CTATGG-CTTTACTCGTTAAAAC-GTGATGTCATAACATCTTTTAGCTATAGTCTTACTCAGTAA
1 CTATGGTC-TTACTCGTTAAAACTGTGATGCCATAACATCTTTCAGCTATAGTCTTACTCAGTAA
* *
18433451 AATCGTGATGCCATAACATTTTTCAGCTATGG
65 AATCGTGATGCCATAACATCTTTCAACTATGG
18433483 ATGGTCTTAC
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
104 65 0.77
105 19 0.23
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (105 bp):
CTATGGTCTTACTCGTTAAAACTGTGATGCCATAACATCTTTCAGCTATAGTCTTACTCAGTAAA
ATCGTGATGCCATAACATCTTTCAACTATGGTCTTACTCC
Found at i:18433428 original size:59 final size:60
Alignment explanation
Indices: 18433328--18433445 Score: 150
Period size: 59 Copynumber: 2.0 Consensus size: 60
18433318 CATCTTTCAG
* * * *
18433328 CTATGGTCTTACTCTTTAAACTCGTGATGCCATAACGTCTTTCAACTATGGTCTTACTCC
1 CTATGGTCTTACTCGTTAAACACGTGATGCCATAACATCTTTCAACTATAGTCTTACTCC
* * *
18433388 CTATGG-CTTTACTCGTTAAA-ACGTGATGTCATAACATCTTTTAGCTATAGTCTTACTC
1 CTATGGTC-TTACTCGTTAAACACGTGATGCCATAACATCTTTCAACTATAGTCTTACTC
18433446 AGTAAAATCG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 33 0.66
60 17 0.34
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.39
Consensus pattern (60 bp):
CTATGGTCTTACTCGTTAAACACGTGATGCCATAACATCTTTCAACTATAGTCTTACTCC
Found at i:18433452 original size:44 final size:45
Alignment explanation
Indices: 18433396--18433480 Score: 122
Period size: 45 Copynumber: 1.9 Consensus size: 45
18433386 CCCTATGGCT
*
18433396 TTACTCGTTAAAA-CGTGATGTCATAACATCTTTT-AGCTATAGTC
1 TTACTCGTTAAAATCGTGATGCCATAACAT-TTTTCAGCTATAGTC
18433440 TTACTCAG-TAAAATCGTGATGCCATAACATTTTTCAGCTAT
1 TTACTC-GTTAAAATCGTGATGCCATAACATTTTTCAGCTAT
18433481 GGATGGTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
44 15 0.41
45 22 0.59
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.38
Consensus pattern (45 bp):
TTACTCGTTAAAATCGTGATGCCATAACATTTTTCAGCTATAGTC
Found at i:18449160 original size:18 final size:18
Alignment explanation
Indices: 18449127--18449220 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
18449117 AAGGTTTTCT
18449127 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
18449142 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
18449160 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
18449178 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
18449196 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
18449214 TATTGAT
1 TATTGAT
18449221 CGTGACCTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:18454451 original size:43 final size:43
Alignment explanation
Indices: 18454390--18454507 Score: 150
Period size: 43 Copynumber: 2.7 Consensus size: 43
18454380 GATATATGAG
* * *
18454390 GCATCCGAGCTCATTGAGTGGTCTGAGTTCATTATGGATACGA
1 GCATCCAAGCTCGTTGAGTGGTCTGAGTTCATTATGGATACAA
* *
18454433 GCATCCTAA-TTCGTTGAGTGGT-TCGAGTTCATTATGGATGCAA
1 GCATCC-AAGCTCGTTGAGTGGTCT-GAGTTCATTATGGATACAA
*
18454476 GCATCCAAGCTCGTTGAGTGGTCCGAGTTCAT
1 GCATCCAAGCTCGTTGAGTGGTCTGAGTTCAT
18454508 AATGAATGTG
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
42 3 0.05
43 60 0.94
44 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (43 bp):
GCATCCAAGCTCGTTGAGTGGTCTGAGTTCATTATGGATACAA
Found at i:18454556 original size:51 final size:51
Alignment explanation
Indices: 18454477--18454576 Score: 128
Period size: 51 Copynumber: 2.0 Consensus size: 51
18454467 TGGATGCAAG
*
18454477 CATCCAAGCTCGTTGAGTGGTCCGAGTTCATAATGAATGTGATACATGTAA
1 CATCCAAGCTCGTTGAGAGGTCCGAGTTCATAATGAATGTGATACATGTAA
* * * * * * *
18454528 CATCCGAGCTGGTTGAGAGGTTCTAGTTCATTATGGATGTGTTACATGT
1 CATCCAAGCTCGTTGAGAGGTCCGAGTTCATAATGAATGTGATACATGT
18454577 TATAAGGTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (51 bp):
CATCCAAGCTCGTTGAGAGGTCCGAGTTCATAATGAATGTGATACATGTAA
Found at i:18458264 original size:15 final size:15
Alignment explanation
Indices: 18458216--18458264 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
18458206 GTATCGTATA
*
18458216 TTGGATTTCTTCATC
1 TTGGATTTCTTTATC
* *
18458231 TTGGATTTTTTTGTC
1 TTGGATTTCTTTATC
*
18458246 TTGGATTTCTTTATT
1 TTGGATTTCTTTATC
18458261 TTGG
1 TTGG
18458265 TATTCTTGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.10, C:0.10, G:0.18, T:0.61
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:18461837 original size:22 final size:23
Alignment explanation
Indices: 18461812--18461855 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
18461802 TTATCCCCAC
*
18461812 ATGGAGTGTAG-GGTTGGATGGA
1 ATGGAGTGTAGAGGATGGATGGA
18461834 ATGGAGTGTAGAGGATGGATGG
1 ATGGAGTGTAGAGGATGGATGG
18461856 GTAGGATTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.25, C:0.00, G:0.50, T:0.25
Consensus pattern (23 bp):
ATGGAGTGTAGAGGATGGATGGA
Found at i:18467536 original size:18 final size:18
Alignment explanation
Indices: 18467501--18467538 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
18467491 TTGCTGTGTT
*
18467501 AGTCGAAAGAGCTTGCAA
1 AGTCGAAAGAACTTGCAA
18467519 AGTCGAAA-AACTTGGCAA
1 AGTCGAAAGAACTT-GCAA
18467537 AG
1 AG
18467539 AAAAGAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (18 bp):
AGTCGAAAGAACTTGCAA
Found at i:18470433 original size:41 final size:41
Alignment explanation
Indices: 18470388--18470467 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
18470378 AAAGAAAGAT
*
18470388 GTTGTTTGGGTTGTCGTTGATCGACTGACGAAATCTGCATA
1 GTTGTTTGGGTTGTCATTGATCGACTGACGAAATCTGCATA
18470429 GTTGTTTGGGTTGTCATTGATCGACTGACGAAATCTGCA
1 GTTGTTTGGGTTGTCATTGATCGACTGACGAAATCTGCA
18470468 CACTTCATTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.20, C:0.15, G:0.29, T:0.36
Consensus pattern (41 bp):
GTTGTTTGGGTTGTCATTGATCGACTGACGAAATCTGCATA
Found at i:18473035 original size:14 final size:13
Alignment explanation
Indices: 18473015--18473046 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
18473005 AATATTTAAC
18473015 TTGTTCTTAATTA
1 TTGTTCTTAATTA
18473028 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
18473042 TTGTT
1 TTGTT
18473047 TTGATATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:18481905 original size:14 final size:13
Alignment explanation
Indices: 18481885--18481916 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
18481875 AATATTTAAC
18481885 TTGTTCTTAATTA
1 TTGTTCTTAATTA
18481898 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
18481912 TTGTT
1 TTGTT
18481917 TTGATATCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:18484015 original size:49 final size:49
Alignment explanation
Indices: 18483955--18484087 Score: 169
Period size: 49 Copynumber: 2.7 Consensus size: 49
18483945 ACACATCTAA
*
18483955 GTCGATGCCATGTCCCAAATAGGTCTTACACTGACTTTCATATACCGAG-
1 GTCGATGCCATGTCCCAAATAGGTCTTACACTGACTCTCATATACCG-GT
* * * *
18484004 GTCGATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCGGT
1 GTCGATGCCATGTCCCAAATAGGTCTTACACTGACTCTCATATACCGGT
* * * *
18484053 GTCAATGCCATGTCCTATACAGGTCTTACACTGAC
1 GTCGATGCCATGTCCCAAATAGGTCTTACACTGAC
18484088 ACATGTTAAG
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
48 1 0.01
49 72 0.99
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAAATAGGTCTTACACTGACTCTCATATACCGGT
Found at i:18488540 original size:13 final size:13
Alignment explanation
Indices: 18488519--18488558 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
18488509 GAAGTAATCA
18488519 CACACGGGCGTGT
1 CACACGGGCGTGT
* *
18488532 CACATGGGCGCGT
1 CACACGGGCGTGT
18488545 CACACGGGCGTGT
1 CACACGGGCGTGT
18488558 C
1 C
18488559 CCTGCCAAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.15, C:0.33, G:0.38, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:18504466 original size:13 final size:13
Alignment explanation
Indices: 18504448--18504478 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
18504438 TTTTATTTTA
18504448 TTTTAAGACTACT
1 TTTTAAGACTACT
18504461 TTTTAAGACTACT
1 TTTTAAGACTACT
18504474 TTTTA
1 TTTTA
18504479 TTTTTCTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.52
Consensus pattern (13 bp):
TTTTAAGACTACT
Found at i:18510350 original size:49 final size:49
Alignment explanation
Indices: 18510242--18510509 Score: 169
Period size: 49 Copynumber: 5.6 Consensus size: 49
18510232 GGGTACGATG
* * * * * * * *
18510242 CGATGCCATGTTCCAAACATGGTCTTACACTGGC--TCACACATCTAAGT
1 CGATGCCATGTCCCAGACA-AGTCTTACACTGACTTTCATATATCGAAGC
* * * *
18510290 CGATGGCATGTCCCAGAAAAGTCTTACACTGACTTTTATATATCGAGGC
1 CGATGCCATGTCCCAGACAAGTCTTACACTGACTTTCATATATCGAAGC
* * * * * * *
18510339 CGATGCCATGTCTCAGACAGGTCTTACACTGGCTCTCATCTATCGATGT
1 CGATGCCATGTCCCAGACAAGTCTTACACTGACTTTCATATATCGAAGC
* * * *
18510388 TGATGCCATG-CCCTAGACAAGTCTTACACT-A---ACAAATGTC-AAGC
1 CGATGCCATGTCCC-AGACAAGTCTTACACTGACTTTCATATATCGAAGC
* * * * *
18510432 CGATACCATGTCCCAGATAGGTCTTACACT-AGCTTGCATATCTCGAAGC
1 CGATGCCATGTCCCAGACAAGTCTTACACTGA-CTTTCATATATCGAAGC
* *
18510481 CGATG-CATGTCCTAGACATGTCTTACACT
1 CGATGCCATGTCCCAGACAAGTCTTACACT
18510510 AGCTCTCGTC
Statistics
Matches: 168, Mismatches: 43, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
44 25 0.15
45 8 0.05
47 12 0.07
48 44 0.26
49 79 0.47
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAAGTCTTACACTGACTTTCATATATCGAAGC
Found at i:18510454 original size:93 final size:92
Alignment explanation
Indices: 18510337--18510510 Score: 224
Period size: 93 Copynumber: 1.9 Consensus size: 92
18510327 ATATATCGAG
* * * * * **
18510337 GCCGATGCCATGTCTCAGACAGGTCTTACACTGGCTCT-CATCTATCGATGTTGATGCCATGCCC
1 GCCGATACCATGTCCCAGACAGGTCTTACACTAGCT-TGCATATATCGAAGCCGATG-CATGCCC
18510401 TAGACAAGTCTTACACTAACAAATGTCAA
64 TAGACAAGTCTTACACTAACAAATGTCAA
* * *
18510430 GCCGATACCATGTCCCAGATAGGTCTTACACTAGCTTGCATATCTCGAAGCCGATGCATGTCCTA
1 GCCGATACCATGTCCCAGACAGGTCTTACACTAGCTTGCATATATCGAAGCCGATGCATGCCCTA
*
18510495 GACATGTCTTACACTA
66 GACAAGTCTTACACTA
18510511 GCTCTCGTCT
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
92 24 0.35
93 45 0.65
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (92 bp):
GCCGATACCATGTCCCAGACAGGTCTTACACTAGCTTGCATATATCGAAGCCGATGCATGCCCTA
GACAAGTCTTACACTAACAAATGTCAA
Found at i:18514574 original size:13 final size:13
Alignment explanation
Indices: 18514552--18514584 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18514542 AACGGTTTGT
18514552 TTAT-TAAACTAA
1 TTATCTAAACTAA
18514564 TTATCTAAACTAA
1 TTATCTAAACTAA
*
18514577 TTAACTAA
1 TTATCTAA
18514585 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:18517448 original size:49 final size:49
Alignment explanation
Indices: 18517321--18517547 Score: 304
Period size: 47 Copynumber: 4.8 Consensus size: 49
18517311 CCCTTCGGGA
* * * * * *
18517321 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
18517368 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18517415 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18517464 CTTATCAC--ATATATGCACTTTCACATTCATCACATCGGCCTTTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18517511 CTTATCACATATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATATACACTTTCACATTCATCACAT
18517548 AAAATCCTAA
Statistics
Matches: 161, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
46 1 0.01
47 90 0.56
49 70 0.43
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18517483 original size:96 final size:96
Alignment explanation
Indices: 18517321--18517547 Score: 325
Period size: 96 Copynumber: 2.4 Consensus size: 96
18517311 CCCTTCGGGA
* * * *
18517321 CTTATCACAT-T-TATACA-CTTCCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATA
1 CTTATCACATATATATACACCTT-CACATTCATCACATCGGCCACTAGGCCCTATCACATATATA
* *
18517383 CACTTTCACATTCATCACATTGGCCATTCGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
* * *
18517415 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGC
1 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
*
18517480 ACTTTCACATTCATCACATCGGCCTTTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
18517511 CTTATCACATATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATATACACCTTCACATTCATCACAT
18517548 AAAATCCTAA
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
94 10 0.08
95 1 0.01
96 105 0.88
97 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACCTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18522002 original size:6 final size:6
Alignment explanation
Indices: 18521991--18522071 Score: 78
Period size: 6 Copynumber: 13.7 Consensus size: 6
18521981 AAGAAAATTG
* * * *
18521991 AAAAAT AAAAAT CAAAAG AAAAAT AAGAAT AAATAA- ATAAAAT AAGAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT A-AAAAT AAAAAT
*
18522040 AAAAAT AAGAAT --AAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
18522072 TAGGAGGATT
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
4 3 0.05
6 52 0.87
7 5 0.08
ACGTcount: A:0.78, C:0.01, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:18522062 original size:22 final size:21
Alignment explanation
Indices: 18521991--18522073 Score: 80
Period size: 22 Copynumber: 3.9 Consensus size: 21
18521981 AAGAAAATTG
*
18521991 AAAAATAAAAATCAAAAGAAA-
1 AAAAATAAAAAT-AAAATAAAT
* *
18522012 AATAAGAATAAAT-AAATAAAAT
1 AAAAATAA-AAATAAAAT-AAAT
*
18522034 AAGAATAAAAATAAGAATAAAT
1 AAAAATAAAAATAA-AATAAAT
18522056 AAAAATAAAAATAAAATA
1 AAAAATAAAAATAAAATA
18522074 GGAGGATTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.06
21 17 0.33
22 28 0.55
23 3 0.06
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (21 bp):
AAAAATAAAAATAAAATAAAT
Found at i:18525482 original size:16 final size:16
Alignment explanation
Indices: 18525461--18525511 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
18525451 ATTACAAGAT
18525461 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
18525477 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
18525496 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
18525512 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:18525494 original size:19 final size:21
Alignment explanation
Indices: 18525459--18525501 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
18525449 AAATTACAAG
18525459 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
18525480 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
18525499 ATC
1 ATC
18525502 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:18526243 original size:206 final size:206
Alignment explanation
Indices: 18525885--18527230 Score: 2217
Period size: 206 Copynumber: 6.5 Consensus size: 206
18525875 CGATCTATTT
* *
18525885 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATTGTAAGCACGTGAAAACCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
* * * * *
18525950 CAACTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAG
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
* * * ** * *
18526015 TCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGATGCCAAACT
131 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
*
18526080 TCAATTTGTTC
196 TCGATTTGTTC
*
18526091 TCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
* * * *
18526156 CAGCTATGTCTTCGATTTTTTCTTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGCTTCAG
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
* *** * *
18526221 TATAAACATCTGAAGATTAGATCTGCTATGTGTCTGCTCTCCTTCAAATATGGAGACGCCAAACT
131 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
*
18526286 TTGATTTGTTC
196 TCGATTTGTTC
18526297 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
* *
18526362 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTAGGATCTGCTTCAA
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
* * * *
18526427 TATAAACATATGAAGGCCAAATCTGCTATGTGCCTGCCCTCTGTCGAATATGGAGACGCCAAACT
131 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
18526492 TCGATTTGTTC
196 TCGATTTGTTC
*
18526503 TCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
*
18526568 CAGCTATGTCTTCGATTTGTTCCTTGTATGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
* *
18526633 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTTTCCATCGAATATGGAGACGCCAAACT
131 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
*
18526698 TCAATTTGTTC
196 TCGATTTGTTC
18526709 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
18526774 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
18526839 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
131 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
* *
18526904 TTGTTTTGTTC
196 TCGATTTGTTC
*
18526915 TCTGACAGTACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
* *
18526980 CAGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTACTTCAG
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
** * *
18527045 TATAAACATATGAAGGCCAGATCTGAGATGTGTCTGCTCTCCATCGAATATGGAGACACCAAACT
131 TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
*
18527110 TCGATTCGTTC
196 TCGATTTGTTC
* * * *
18527121 TCTGACAATACAGAGATGCCAAATTATCTTAGATTTGCTTCAGCGTAAAC-CATGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
18527185 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAAT
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAAT
18527231 ATGCTATCTT
Statistics
Matches: 1069, Mismatches: 71, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
205 58 0.05
206 1011 0.95
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (206 bp):
TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT
CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
TCGATTTGTTC
Found at i:18527251 original size:44 final size:43
Alignment explanation
Indices: 18527201--18527667 Score: 356
Period size: 44 Copynumber: 10.7 Consensus size: 43
18527191 TGTCTTCGAT
* * * * *
18527201 TTGTTCCTTGTAAGCACAAGGATGCCAAATATGCTATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCC-AATCTGCTATCTTCAAC
* ** *
18527245 TTGTTCCCTATAAACACAGGGATGCC-GTGCTGAAATCTTCGA-
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCTTCAAC
* * * ** * ** *
18527287 TCTGTTTCCCTGTAAGCACAGGAATTTCAGTTCTGCTATCTTTGAT
1 T-TG-TTCCCTATAAACACAGGGATGCCA-ATCTGCTATCTTCAAC
*
18527333 TTGTTCCTTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCC-AATCTGCTATCTTCAAC
* ** *
18527377 TTGTTCCCTATAAACATAGGGATGCC-ATGCTGAAATATTCAA-
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCTTCAAC
* * * * * * *
18527419 TCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGAT
1 T-TG-TTCCCTATAAACACAGGGATGCCA-ATCTGCTATCTTCAAC
18527465 TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCC-AATCTGCTATCTTCAAC
**
18527509 TTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTCAAC
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCTTCAAC
* **
18527552 TTGTTCCCTATAAACACAGGGATGCC-ATGTTGAAATCTTCAA-
1 TTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCTTCAAC
** * * * *
18527594 TCTGCTTTGCTATAAGCACA-GGAGTGTCAGATCTGCTATCTTCGAT
1 T-TG-TTCCCTATAAACACAGGGA-TGCCA-ATCTGCTATCTTCAAC
18527640 TTGTTCCCTATAAACACAGGGATGCCAA
1 TTGTTCCCTATAAACACAGGGATGCCAA
18527668 ATCTTGTTTA
Statistics
Matches: 336, Mismatches: 65, Indels: 45
0.75 0.15 0.10
Matches are distributed among these distances:
42 8 0.02
43 82 0.24
44 199 0.59
45 39 0.12
46 8 0.02
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (43 bp):
TTGTTCCCTATAAACACAGGGATGCCAATCTGCTATCTTCAAC
Found at i:18527435 original size:132 final size:132
Alignment explanation
Indices: 18527193--18527666 Score: 609
Period size: 132 Copynumber: 3.6 Consensus size: 132
18527183 ATCAGCTATG
* * * *
18527193 TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATATGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCTTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
* * * * *
18527258 ACACAGGGATGCCGTGCTGAAATCTTCGATCTGTTTCCCTGTAAGCACAGGAATTTCAGTTCTGC
66 ACACAGGGATGCCATGCTGAAATCTTCAATCTGCTTCCCTGTAAGCACAGGAATGTCAGATCTGC
18527323 TA
131 TA
*
18527325 TCTTTGATTTGTTCCTTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCTTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
* * *
18527390 ACATAGGGATGCCATGCTGAAATATTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGC
66 ACACAGGGATGCCATGCTGAAATCTTCAATCTGCTTCCCTGTAAGCACAGGAATGTCAGATCTGC
18527455 TA
131 TA
*
18527457 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCTTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
* * * *
18527522 ACACAGGGATGCCATGCTGAAATCTTCAA-CTTG-TTCCCTATAAACACAGGGATGCCATG-T-T
66 ACACAGGGATGCCATGCTGAAATCTTCAATC-TGCTTCCCTGTAAGCACAGGAATGTCA-GATCT
**
18527583 GAAA
129 GCTA
* * * * * * * *
18527587 TCTTCAATCTGCTTTGC-TATAAGCACA-GGAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTA
1 TCTTCGATTTG--TTCCTTATAAACACAGGGA-TGCCAAATCTGCTATCTTCAACTTGTTCCCTA
18527650 TAAACACAGGGATGCCA
63 TAAACACAGGGATGCCA
18527667 AATCTTGTTT
Statistics
Matches: 305, Mismatches: 32, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
130 15 0.05
131 75 0.25
132 215 0.70
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (132 bp):
TCTTCGATTTGTTCCTTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
ACACAGGGATGCCATGCTGAAATCTTCAATCTGCTTCCCTGTAAGCACAGGAATGTCAGATCTGC
TA
Found at i:18527612 original size:175 final size:175
Alignment explanation
Indices: 18527318--18527671 Score: 575
Period size: 175 Copynumber: 2.0 Consensus size: 175
18527308 GAATTTCAGT
** * * **
18527318 TCTGCTATCTTTGATTTGTTCCTTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTC
1 TCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-AATCTGAAATCTTCAACTTGTTC
* *
18527383 CCTATAAACATAGGGATGCCATGCTGAAATATTCAATCTGCTTCGCTGTAAGCACAGGAATGTCA
65 CCTATAAACACAGGGATGCCATGCTGAAATATTCAATCTGCTTCGCTATAAGCACAGGAATGTCA
18527448 GATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAA
130 GATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAA
18527494 TCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTCAACTTGTTC
1 TCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAT-CTGAAATCTTCAACTTGTTC
* * * *
18527558 CCTATAAACACAGGGATGCCATGTTGAAATCTTCAATCTGCTTTGCTATAAGCACAGGAGTGTCA
65 CCTATAAACACAGGGATGCCATGCTGAAATATTCAATCTGCTTCGCTATAAGCACAGGAATGTCA
18527623 GATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAA
130 GATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAA
18527669 TCT
1 TCT
18527672 TGTTTATTTG
Statistics
Matches: 165, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
174 2 0.01
175 126 0.76
176 37 0.22
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (175 bp):
TCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAATCTGAAATCTTCAACTTGTTCC
CTATAAACACAGGGATGCCATGCTGAAATATTCAATCTGCTTCGCTATAAGCACAGGAATGTCAG
ATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAA
Found at i:18528537 original size:7 final size:7
Alignment explanation
Indices: 18528525--18528579 Score: 58
Period size: 7 Copynumber: 7.6 Consensus size: 7
18528515 GGCCTCTCCA
18528525 TTTTTCT
1 TTTTTCT
18528532 TTTTTCAT
1 TTTTTC-T
18528540 TTTTCTCT
1 TTTT-TCT
*
18528548 TTTTCTTT
1 TTTT-TCT
*
18528556 TTTTTAT
1 TTTTTCT
18528563 TTTTTCT
1 TTTTTCT
18528570 TTTTT-T
1 TTTTTCT
18528576 TTTT
1 TTTT
18528580 GAAATAGAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
6 5 0.12
7 19 0.44
8 17 0.40
9 2 0.05
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTCT
Found at i:18528550 original size:16 final size:14
Alignment explanation
Indices: 18528525--18528579 Score: 58
Period size: 16 Copynumber: 3.8 Consensus size: 14
18528515 GGCCTCTCCA
18528525 TTTTTCTTTTTTCAT
1 TTTTTCTTTTTTC-T
*
18528540 TTTTCTCTTTTTCTTT
1 TTTT-TCTTTTT-TCT
*
18528556 TTTTTATTTTTTCT
1 TTTTTCTTTTTTCT
18528570 TTTTT-TTTTT
1 TTTTTCTTTTT
18528580 GAAATAGAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 5 0.14
14 7 0.20
15 10 0.29
16 12 0.34
17 1 0.03
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTCTTTTTTCT
Found at i:18528551 original size:22 final size:21
Alignment explanation
Indices: 18528525--18528579 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
18528515 GGCCTCTCCA
18528525 TTTTTCTTTTTTCATTTTTCTC
1 TTTTTCTTTTTTCATTTTT-TC
*
18528547 TTTTTCTTTTTTTTATTTTTTC
1 TTTTTC-TTTTTTCATTTTTTC
18528569 TTTTT-TTTTTT
1 TTTTTCTTTTTT
18528580 GAAATAGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 6 0.19
22 13 0.42
23 12 0.39
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTTCTTTTTTCATTTTTTC
Found at i:18534119 original size:22 final size:21
Alignment explanation
Indices: 18534089--18534135 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
18534079 TACAAGTTAA
18534089 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
18534111 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
18534132 ATCT
1 ATCT
18534136 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:18534141 original size:19 final size:19
Alignment explanation
Indices: 18534106--18534165 Score: 88
Period size: 17 Copynumber: 3.2 Consensus size: 19
18534096 AGATTACAAG
18534106 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
18534127 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
18534144 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18534163 ATC
1 ATC
18534166 CTTAAAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
17 17 0.46
19 11 0.30
20 1 0.03
21 8 0.22
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:18535810 original size:15 final size:15
Alignment explanation
Indices: 18535790--18535820 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
18535780 CAATAAAGGG
18535790 TAAGTTATATGTAAT
1 TAAGTTATATGTAAT
18535805 TAAGTTATATGTAAT
1 TAAGTTATATGTAAT
18535820 T
1 T
18535821 TCTTTAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (15 bp):
TAAGTTATATGTAAT
Found at i:18537806 original size:13 final size:13
Alignment explanation
Indices: 18537784--18537816 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18537774 AAGGGTTTGT
18537784 TTAT-TAAACTAA
1 TTATCTAAACTAA
18537796 TTATCTAAACTAA
1 TTATCTAAACTAA
*
18537809 TTAACTAA
1 TTATCTAA
18537817 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:18539097 original size:47 final size:50
Alignment explanation
Indices: 18539014--18539139 Score: 143
Period size: 47 Copynumber: 2.6 Consensus size: 50
18539004 GCATTTATCA
* *
18539014 CCATGTCCCAGACATGGTCTTACA-TTAGCTCTCACGT-TAAG-T-CAATG
1 CCATGTCCCAGACATGGTCTTACACTGA-CTCCCACGTATAAGTTCCAATG
** * *
18539061 CCATGTCCCAGACATGGTCTTACACTGACTCCCACGTATCCGTTCCATTT
1 CCATGTCCCAGACATGGTCTTACACTGACTCCCACGTATAAGTTCCAATG
* *
18539111 CCATGTCCCAAACATGGTCTTATACTGAC
1 CCATGTCCCAGACATGGTCTTACACTGAC
18539140 ACATCATATA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
47 32 0.48
48 4 0.06
49 1 0.01
50 30 0.45
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACACTGACTCCCACGTATAAGTTCCAATG
Found at i:18539248 original size:46 final size:46
Alignment explanation
Indices: 18539150--18539283 Score: 155
Period size: 46 Copynumber: 2.9 Consensus size: 46
18539140 ACATCATATA
18539150 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TACATCAAGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCAAGAG
* * * *
18539196 GCCGATGCATGCCCCAGACATGTCTTACACTAGCTCTCGTCTCA-AT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATC-AAGAG
* * *
18539242 GTCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT
18539284 TTTTCCCTGG
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
46 44 0.59
47 14 0.19
48 17 0.23
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCAAGAG
Found at i:18543190 original size:20 final size:20
Alignment explanation
Indices: 18543165--18543205 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
18543155 AGGAAAACAT
18543165 ATATTAA-AATAAAAATAAAA
1 ATATTAATAA-AAAAATAAAA
*
18543185 ATATTAATAAAAAACTAAAA
1 ATATTAATAAAAAAATAAAA
18543205 A
1 A
18543206 ATCATATACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (20 bp):
ATATTAATAAAAAAATAAAA
Found at i:18543392 original size:14 final size:14
Alignment explanation
Indices: 18543373--18543403 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
18543363 AAAAAAATTG
18543373 AAAGTAATAACATA
1 AAAGTAATAACATA
18543387 AAAGTAATAACATA
1 AAAGTAATAACATA
18543401 AAA
1 AAA
18543404 AATGATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.19
Consensus pattern (14 bp):
AAAGTAATAACATA
Found at i:18543561 original size:21 final size:20
Alignment explanation
Indices: 18543533--18543572 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
18543523 TTATTATCTT
18543533 AAATTTAA-ATTAAATAATAA
1 AAATTTAAGA-TAAATAATAA
18543553 AAATGTTAAGATAAATAATA
1 AAAT-TTAAGATAAATAATA
18543573 TATTTTATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 13 0.72
22 1 0.06
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
AAATTTAAGATAAATAATAA
Found at i:18544631 original size:26 final size:26
Alignment explanation
Indices: 18544600--18544650 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
18544590 TCTTGAATAC
18544600 TAGTTTTTCAAATGACTATTTGAATT
1 TAGTTTTTCAAATGACTATTTGAATT
18544626 TAGTTTTTCAAATGACTATTTGAAT
1 TAGTTTTTCAAATGACTATTTGAAT
18544651 GTATTGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (26 bp):
TAGTTTTTCAAATGACTATTTGAATT
Found at i:18548439 original size:20 final size:19
Alignment explanation
Indices: 18548416--18548508 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 19
18548406 TTTTTTGCAA
18548416 TTTTTATAAATTTTTAATAC
1 TTTTTATAAATTTTT-ATAC
* *
18548436 TTTTAATAAGTTTTTATAAC
1 TTTTTATAAATTTTTAT-AC
*
18548456 TTTTTAAATAAA-TTTTATAT
1 TTTTT--ATAAATTTTTATAC
** *
18548476 TTTTTATAGCTTTTTATAG
1 TTTTTATAAATTTTTATAC
* *
18548495 TATTTATATATTTT
1 TTTTTATAAATTTT
18548509 AAATTTTTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
18 3 0.05
19 20 0.34
20 25 0.43
21 6 0.10
22 4 0.07
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTTATAAATTTTTATAC
Found at i:18548480 original size:30 final size:31
Alignment explanation
Indices: 18548416--18548491 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
18548406 TTTTTTGCAA
* *
18548416 TTTTTATAAATTTTT-AATACTTTTAATAAG
1 TTTTTATAACTTTTTAAATAATTTTAATAAG
*
18548446 TTTTTATAACTTTTTAAATAAATTTT-AT-AT
1 TTTTTATAACTTTTTAAAT-AATTTTAATAAG
*
18548476 TTTTTATAGCTTTTTA
1 TTTTTATAACTTTTTA
18548492 TAGTATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
30 30 0.75
31 5 0.12
32 5 0.12
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTTTATAACTTTTTAAATAATTTTAATAAG
Found at i:18548516 original size:8 final size:9
Alignment explanation
Indices: 18548414--18548538 Score: 63
Period size: 10 Copynumber: 13.0 Consensus size: 9
18548404 TTTTTTTTGC
18548414 AATTTTTAT
1 AATTTTTAT
18548423 AAATTTTTAAT
1 -AATTTTT-AT
* *
18548434 ACTTTTAAT
1 AATTTTTAT
18548443 AAGTTTTTAT
1 AA-TTTTTAT
18548453 AACTTTTTAAAT
1 AA-TTTTT--AT
*
18548465 AAATTTTAT
1 AATTTTTAT
*
18548474 ATTTTTTAT
1 AATTTTTAT
*
18548483 AGCTTTTTAT
1 A-ATTTTTAT
* *
18548493 AGTATTTAT
1 AATTTTTAT
*
18548502 ATATTTTAAAT
1 A-ATTTT-TAT
**
18548513 TTTTTTTAT
1 AATTTTTAT
*
18548522 AATTTCTA-
1 AATTTTTAT
18548530 AATTTTTAT
1 AATTTTTAT
18548539 TTTATTTATA
Statistics
Matches: 86, Mismatches: 21, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
8 7 0.08
9 27 0.31
10 40 0.47
11 8 0.09
12 4 0.05
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (9 bp):
AATTTTTAT
Found at i:18548545 original size:19 final size:18
Alignment explanation
Indices: 18548501--18548545 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
18548491 ATAGTATTTA
18548501 TATATTTTAAATTTTTTT
1 TATATTTTAAATTTTTTT
18548519 TATAATTTCTAAATTTTTATT
1 TAT-ATTT-TAAATTTTT-TT
18548540 T-TATTT
1 TATATTT
18548546 ATATAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.12
19 8 0.33
20 10 0.42
21 3 0.12
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (18 bp):
TATATTTTAAATTTTTTT
Found at i:18549243 original size:127 final size:126
Alignment explanation
Indices: 18549092--18549529 Score: 583
Period size: 127 Copynumber: 3.5 Consensus size: 126
18549082 GGATTTTGTT
* * * * *
18549092 TTTTTCTATAGTAGTTTC-AAAAAAATTAATTTTGAGAAGACGATTTTGAAAAGATAATGTCAAA
1 TTTTTCTATAGTAGTTCCTGAAAAAA-TAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAA
* *
18549156 AACGCTTCAAGCAGGATGCACTGTCACCAAAATTACTGAAAATAAGCCCCCACGTGGACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAA-AAGCTCCCACGTGGACGCTC
* * * *
18549219 TTTTTCAATAGTAGTTCCTGAAAAAATAATTTTGAGAAGAAGGTTCTGAAAAAATAGTGTAAAAA
1 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAA
* * * * * * *
18549284 ATGCTTAAAGTAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTCACGTGGATGCTTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC-TC
* * *
18549346 TTTTTCTATAGTAGTTCCTGAAAAAAT-ATTTTTATGAAGATGATTCTAAAAAAATAGTGTCAAA
1 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGA-GAAGACGATTCTGAAAAAATAGTGTCAAA
* * * *
18549410 AACGCTTCAAGCAGGATGCACTATAAGCAAAATTACTGAAAAAAGCTCCCACATGTACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
18549472 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGT
1 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGT
18549530 TTAAAAAAAT
Statistics
Matches: 267, Mismatches: 40, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
126 68 0.25
127 193 0.72
128 6 0.02
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (126 bp):
TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:18552845 original size:21 final size:22
Alignment explanation
Indices: 18552814--18552857 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
18552804 TATTGGTTCA
*
18552814 GCTCTCGGCGGGGGTTGTGGTT
1 GCTCTCGGCGGGGGTTATGGTT
18552836 GCTCT-GGCGGGGGTTATGGTT
1 GCTCTCGGCGGGGGTTATGGTT
18552857 G
1 G
18552858 TGGGTGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.02, C:0.16, G:0.50, T:0.32
Consensus pattern (22 bp):
GCTCTCGGCGGGGGTTATGGTT
Found at i:18555261 original size:26 final size:26
Alignment explanation
Indices: 18555231--18555286 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
18555221 AGAGCTCTTA
* * *
18555231 ATTAAAGGCTCTTTGTGAGCTTCCTG
1 ATTAAAAGCTCTTTGTGAACTTCCAG
**
18555257 ATTAAAATTTCTTTGTGAACTTCCAG
1 ATTAAAAGCTCTTTGTGAACTTCCAG
18555283 ATTA
1 ATTA
18555287 TCGCTCTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (26 bp):
ATTAAAAGCTCTTTGTGAACTTCCAG
Found at i:18555349 original size:23 final size:25
Alignment explanation
Indices: 18555323--18555378 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
18555313 AGCCCGGATA
18555323 AGCTTCCCGA-TAT-GCTCTTTGTG
1 AGCTTCCCGATTATGGCTCTTTGTG
*
18555346 AGCTTCCTGATTTATGGCTCTTTGTG
1 AGCTTCCCGA-TTATGGCTCTTTGTG
*
18555372 AGTTTCC
1 AGCTTCC
18555379 TGTTATATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 9 0.32
25 3 0.11
26 16 0.57
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.43
Consensus pattern (25 bp):
AGCTTCCCGATTATGGCTCTTTGTG
Found at i:18555368 original size:26 final size:26
Alignment explanation
Indices: 18555332--18555390 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
18555322 AAGCTTCCCG
18555332 ATAT-GCTCTTTGTGAGCTTCCTGATT
1 ATATGGCTCTTTGTGAGCTTCCTG-TT
*
18555358 -TATGGCTCTTTGTGAGTTTCCTGTT
1 ATATGGCTCTTTGTGAGCTTCCTGTT
18555383 ATATGGCT
1 ATATGGCT
18555391 GGAGAAAGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.14, C:0.17, G:0.22, T:0.47
Consensus pattern (26 bp):
ATATGGCTCTTTGTGAGCTTCCTGTT
Found at i:18561704 original size:71 final size:71
Alignment explanation
Indices: 18561620--18561783 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
18561610 CGATTTGTCT
18561620 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18561685 CTTTCA
66 CTTTCA
18561691 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18561756 CTTTCA
66 CTTTCA
18561762 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
18561784 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:18561821 original size:71 final size:70
Alignment explanation
Indices: 18561620--18561817 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
18561610 CGATTTGTCT
* * * *
18561620 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18561685 CTTTCA
65 CTTTCA
* * * *
18561691 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18561756 CTTTCA
65 CTTTCA
* *
18561762 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
18561818 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:18568802 original size:71 final size:71
Alignment explanation
Indices: 18568718--18568881 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
18568708 CGATTTGTCT
18568718 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18568783 CTTTCA
66 CTTTCA
18568789 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18568854 CTTTCA
66 CTTTCA
18568860 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
18568882 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:18568919 original size:71 final size:70
Alignment explanation
Indices: 18568718--18568915 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
18568708 CGATTTGTCT
* * * *
18568718 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18568783 CTTTCA
65 CTTTCA
* * * *
18568789 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18568854 CTTTCA
65 CTTTCA
* *
18568860 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
18568916 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:18572913 original size:43 final size:43
Alignment explanation
Indices: 18572788--18572949 Score: 179
Period size: 43 Copynumber: 3.8 Consensus size: 43
18572778 CGGAAAGCTC
*
18572788 ATACAATGCCAACGTCCTAGATGTGGTCTTACATGT-AATCAA
1 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAAATCAA
* **
18572830 ATATCGATGCC-ACTGTCCTAGACAAGGTCTTACATG-AAATCAA
1 ATA-CAATGCCAAC-GTCCTAGACGTGGTCTTACATGTAAATCAA
*
18572873 ATACAATGCCAACGTCCTAGGCGTGGTCTTACATGTAAATCATA
1 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAAATCA-A
** * *
18572917 AGT-CAATTTCAATGTCCCAGACGTGGTCTTACA
1 A-TACAATGCCAACGTCCTAGACGTGGTCTTACA
18572950 CGAAAACACA
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
42 30 0.30
43 42 0.42
44 27 0.27
45 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (43 bp):
ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAAATCAA
Found at i:18573712 original size:69 final size:69
Alignment explanation
Indices: 18573635--18573772 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
18573625 ATAGTTGGGT
*
18573635 GAGTTTACGAAAACTCAGTGTGTAATCCCGATAATAAACAAATAGTCGAACATACAGAGAGTAAA
1 GAGTTTACGAAAACTCAATGTGTAATCCCGATAATAAACAAATAGTCGAACATACAGAGAGTAAA
18573700 TACA
66 TACA
18573704 GAGTTTACGAAAACTCAATGTGTAATCCCGATAATAAACAAATAGTCGAACATACAGAGAGTAAA
1 GAGTTTACGAAAACTCAATGTGTAATCCCGATAATAAACAAATAGTCGAACATACAGAGAGTAAA
18573769 TACA
66 TACA
18573773 TTCTGGGCCT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.46, C:0.16, G:0.17, T:0.22
Consensus pattern (69 bp):
GAGTTTACGAAAACTCAATGTGTAATCCCGATAATAAACAAATAGTCGAACATACAGAGAGTAAA
TACA
Found at i:18573851 original size:35 final size:34
Alignment explanation
Indices: 18573774--18573859 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 34
18573764 GTAAATACAT
18573774 TCTGGGCCTAAGCCCATGTTAGTAACAGTAACAG
1 TCTGGGCCTAAGCCCATGTTAGTAACAGTAACAG
* * * * *
18573808 TCTAGGCCTTAGCCTATTTTAGTATCAGTAAACAG
1 TCTGGGCCTAAGCCCATGTTAGTAACAGT-AACAG
*
18573843 TCTGGGCCTAGGCCCAT
1 TCTGGGCCTAAGCCCAT
18573860 CTCAATACAG
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
34 24 0.57
35 18 0.43
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (34 bp):
TCTGGGCCTAAGCCCATGTTAGTAACAGTAACAG
Found at i:18574113 original size:22 final size:22
Alignment explanation
Indices: 18574050--18574114 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 22
18574040 TTAATAGTAC
18574050 TTGCAGCAGAGCTGCCAGTATAA
1 TTGCAGCAGAGCTGCCAGTAT-A
**
18574073 TTG--GCTTAGAGCTATCAGTGAT-
1 TTGCAGC--AGAGCTGCCAGT-ATA
18574095 TTGCAGCAGAGCTGCCAGTA
1 TTGCAGCAGAGCTGCCAGTA
18574115 CAGTACACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
21 3 0.09
22 13 0.39
23 13 0.39
24 4 0.12
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (22 bp):
TTGCAGCAGAGCTGCCAGTATA
Found at i:18574307 original size:27 final size:27
Alignment explanation
Indices: 18574277--18574350 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
18574267 CTTACCATAT
18574277 AAGGGCAAAACAGTCATTTTGCCTCAC
1 AAGGGCAAAACAGTCATTTTGCCTCAC
* * *
18574304 AAGGGCAAAATAGTCATTTTGTCTCAT
1 AAGGGCAAAACAGTCATTTTGCCTCAC
18574331 AAGGGCAAAACAGTCATTTT
1 AAGGGCAAAACAGTCATTTT
18574351 ACCCTATGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (27 bp):
AAGGGCAAAACAGTCATTTTGCCTCAC
Found at i:18580322 original size:43 final size:43
Alignment explanation
Indices: 18580197--18580358 Score: 179
Period size: 43 Copynumber: 3.8 Consensus size: 43
18580187 CGGAAAGCTC
*
18580197 ATACAATGCCAACGTCCTAGATGTGGTCTTACATGT-AATCAA
1 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAAATCAA
* **
18580239 ATATCGATGCC-ACTGTCCTAGACAAGGTCTTACATG-AAATCAA
1 ATA-CAATGCCAAC-GTCCTAGACGTGGTCTTACATGTAAATCAA
*
18580282 ATACAATGCCAACGTCCTAGGCGTGGTCTTACATGTAAATCATA
1 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAAATCA-A
** * *
18580326 AGT-CAATTTCAATGTCCCAGACGTGGTCTTACA
1 A-TACAATGCCAACGTCCTAGACGTGGTCTTACA
18580359 CGAAAACACA
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
42 30 0.30
43 42 0.42
44 27 0.27
45 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (43 bp):
ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAAATCAA
Found at i:18581122 original size:69 final size:69
Alignment explanation
Indices: 18581045--18581182 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
18581035 ATAGTTGGGT
*
18581045 GAGTTTACGAAAACTCAGTGTGTAATCCCGATAATAAACAAATAGTCGAACATACAGAGAGTAAA
1 GAGTTTACGAAAACTCAATGTGTAATCCCGATAATAAACAAATAGTCGAACATACAGAGAGTAAA
18581110 TACA
66 TACA
18581114 GAGTTTACGAAAACTCAATGTGTAATCCCGATAATAAACAAATAGTCGAACATACAGAGAGTAAA
1 GAGTTTACGAAAACTCAATGTGTAATCCCGATAATAAACAAATAGTCGAACATACAGAGAGTAAA
18581179 TACA
66 TACA
18581183 TTCTGGGCCT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.46, C:0.16, G:0.17, T:0.22
Consensus pattern (69 bp):
GAGTTTACGAAAACTCAATGTGTAATCCCGATAATAAACAAATAGTCGAACATACAGAGAGTAAA
TACA
Found at i:18581261 original size:35 final size:34
Alignment explanation
Indices: 18581184--18581269 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 34
18581174 GTAAATACAT
18581184 TCTGGGCCTAAGCCCATGTTAGTAACAGTAACAG
1 TCTGGGCCTAAGCCCATGTTAGTAACAGTAACAG
* * * * *
18581218 TCTAGGCCTTAGCCTATTTTAGTATCAGTAAACAG
1 TCTGGGCCTAAGCCCATGTTAGTAACAGT-AACAG
*
18581253 TCTGGGCCTAGGCCCAT
1 TCTGGGCCTAAGCCCAT
18581270 CTCAATACAG
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
34 24 0.57
35 18 0.43
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (34 bp):
TCTGGGCCTAAGCCCATGTTAGTAACAGTAACAG
Found at i:18581523 original size:22 final size:22
Alignment explanation
Indices: 18581460--18581524 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 22
18581450 TTAATAGTAC
18581460 TTGCAGCAGAGCTGCCAGTATAA
1 TTGCAGCAGAGCTGCCAGTAT-A
**
18581483 TTG--GCTTAGAGCTATCAGTGAT-
1 TTGCAGC--AGAGCTGCCAGT-ATA
18581505 TTGCAGCAGAGCTGCCAGTA
1 TTGCAGCAGAGCTGCCAGTA
18581525 CAGTACACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
21 3 0.09
22 13 0.39
23 13 0.39
24 4 0.12
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (22 bp):
TTGCAGCAGAGCTGCCAGTATA
Found at i:18581717 original size:27 final size:27
Alignment explanation
Indices: 18581687--18581760 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
18581677 CTTACCATAT
18581687 AAGGGCAAAACAGTCATTTTGCCTCAC
1 AAGGGCAAAACAGTCATTTTGCCTCAC
* * *
18581714 AAGGGCAAAATAGTCATTTTGTCTCAT
1 AAGGGCAAAACAGTCATTTTGCCTCAC
18581741 AAGGGCAAAACAGTCATTTT
1 AAGGGCAAAACAGTCATTTT
18581761 ACCTATGGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (27 bp):
AAGGGCAAAACAGTCATTTTGCCTCAC
Found at i:18583175 original size:71 final size:71
Alignment explanation
Indices: 18583091--18583254 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
18583081 CGATTTGTCT
18583091 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18583156 CTTTCA
66 CTTTCA
18583162 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18583227 CTTTCA
66 CTTTCA
18583233 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
18583255 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:18583292 original size:71 final size:70
Alignment explanation
Indices: 18583091--18583288 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
18583081 CGATTTGTCT
* * * *
18583091 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18583156 CTTTCA
65 CTTTCA
* * * *
18583162 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18583227 CTTTCA
65 CTTTCA
* *
18583233 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
18583289 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:18590751 original size:71 final size:71
Alignment explanation
Indices: 18590667--18590830 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
18590657 CGATTTGTCT
18590667 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18590732 CTTTCA
66 CTTTCA
18590738 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18590803 CTTTCA
66 CTTTCA
18590809 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
18590831 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:18590868 original size:71 final size:70
Alignment explanation
Indices: 18590667--18590864 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
18590657 CGATTTGTCT
* * * *
18590667 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18590732 CTTTCA
65 CTTTCA
* * * *
18590738 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18590803 CTTTCA
65 CTTTCA
* *
18590809 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
18590865 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:18592161 original size:27 final size:27
Alignment explanation
Indices: 18592122--18592195 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 27
18592112 GGTTGTCACA
18592122 ATTTCGGTCATTTTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGGGGGT
* *
18592149 ATTTCGGTTATTTTACCTTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGGGGGT
* *
18592176 ATTTCAGTCATTTTTCCCTA
1 ATTTCGGTCATTTTACCCTA
18592196 GAAGGGCAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.46
Consensus pattern (27 bp):
ATTTCGGTCATTTTACCCTATGGGGGT
Found at i:18592496 original size:31 final size:31
Alignment explanation
Indices: 18592461--18592564 Score: 77
Period size: 31 Copynumber: 3.2 Consensus size: 31
18592451 CCCTCGAGCC
18592461 CGTGGGGCCCACACGGCCCATTTTGGCCCAT
1 CGTGGGGCCCACACGGCCCATTTTGGCCCAT
* * ** *
18592492 CGT--GGCCCAAAATCGGCCTATGCATGGCCCTCGAGCC
1 CGTGGGGCCC-ACA-CGGCCCAT-TTTGG-CC-C-A--T
18592529 CGTGGGGCCCACACGGCCCATTTTGGCCCAT
1 CGTGGGGCCCACACGGCCCATTTTGGCCCAT
18592560 CGTGG
1 CGTGG
18592565 CCCAAAATCG
Statistics
Matches: 53, Mismatches: 10, Indels: 20
0.64 0.12 0.24
Matches are distributed among these distances:
29 5 0.09
30 2 0.04
31 15 0.28
32 3 0.06
33 3 0.06
34 2 0.04
35 3 0.06
36 3 0.06
37 10 0.19
38 2 0.04
39 5 0.09
ACGTcount: A:0.14, C:0.38, G:0.30, T:0.18
Consensus pattern (31 bp):
CGTGGGGCCCACACGGCCCATTTTGGCCCAT
Found at i:18592518 original size:68 final size:68
Alignment explanation
Indices: 18592444--18592579 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
18592434 GGCTTGCTCG
18592444 TGCATGGCCCTCGAGCCCGTGGGGCCCACACGGCCCATTTTGGCCCATCGTGGCCCAAAATCGGC
1 TGCATGGCCCTCGAGCCCGTGGGGCCCACACGGCCCATTTTGGCCCATCGTGGCCCAAAATCGGC
18592509 CTA
66 CTA
18592512 TGCATGGCCCTCGAGCCCGTGGGGCCCACACGGCCCATTTTGGCCCATCGTGGCCCAAAATCGGC
1 TGCATGGCCCTCGAGCCCGTGGGGCCCACACGGCCCATTTTGGCCCATCGTGGCCCAAAATCGGC
18592577 CTA
66 CTA
18592580 AGTCCATGAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.16, C:0.38, G:0.28, T:0.18
Consensus pattern (68 bp):
TGCATGGCCCTCGAGCCCGTGGGGCCCACACGGCCCATTTTGGCCCATCGTGGCCCAAAATCGGC
CTA
Found at i:18596447 original size:42 final size:42
Alignment explanation
Indices: 18596388--18596474 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
18596378 AAATTTGAAG
18596388 TAAAAATTATGTTTTATTAATATTTTAATGTATGCAGCATGA
1 TAAAAATTATGTTTTATTAATATTTTAATGTATGCAGCATGA
*
18596430 TAAAAATTATGTTTTATTAATATTTTAATGTATTCAGCATGA
1 TAAAAATTATGTTTTATTAATATTTTAATGTATGCAGCATGA
18596472 TAA
1 TAA
18596475 TATGATTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (42 bp):
TAAAAATTATGTTTTATTAATATTTTAATGTATGCAGCATGA
Found at i:18597663 original size:29 final size:28
Alignment explanation
Indices: 18597628--18597684 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
18597618 GTGAATTATA
*
18597628 CTGATTTGACTTCGGGCCATGCATATCAG
1 CTGATTTGACTTCAGGCCATG-ATATCAG
*
18597657 CTGATTTGGCTTCAGGCCATGATATCAG
1 CTGATTTGACTTCAGGCCATGATATCAG
18597685 AACTTCAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.32
Consensus pattern (28 bp):
CTGATTTGACTTCAGGCCATGATATCAG
Found at i:18599854 original size:37 final size:37
Alignment explanation
Indices: 18599804--18599881 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
18599794 TATAAAAGAA
18599804 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
18599841 GTCTTACCCGGTCATAATCTCCACATGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
18599878 GTCT
1 GTCT
18599882 CGCCCGGAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:18600044 original size:49 final size:49
Alignment explanation
Indices: 18599984--18600502 Score: 876
Period size: 49 Copynumber: 10.5 Consensus size: 49
18599974 CATATATTTT
* *
18599984 ACATTGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
*
18600033 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACGTTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
* * *
18600082 ACATCAGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
* *
18600131 ACATCAGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
18600180 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
*
18600229 ACATCGGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
18600278 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
*
18600327 ACATCGGCCATTAGGCCTTATCACATATACACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATAT--ACATACACTTTCACATTCATC
*
18600378 ACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
* *
18600427 ACATCGGCCATTAGGCCTTATCACATTTACACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACA--TATACATACACTTTCACATTCATC
*
18600478 ACATCGGCCATTAGGCCTTATCACA
1 ACATCGGCCATTAGGCCTCATCACA
18600503 CATATATGTA
Statistics
Matches: 452, Mismatches: 14, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
49 355 0.79
51 97 0.21
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
Found at i:18603337 original size:37 final size:37
Alignment explanation
Indices: 18603216--18603330 Score: 230
Period size: 37 Copynumber: 3.1 Consensus size: 37
18603206 TATAAAAGAA
18603216 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
18603253 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
18603290 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
18603327 GTCT
1 GTCT
18603331 CGCCCGGAAC
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 78 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:18603493 original size:49 final size:49
Alignment explanation
Indices: 18603433--18603850 Score: 721
Period size: 49 Copynumber: 8.5 Consensus size: 49
18603423 CATATATTTT
* *
18603433 ACATTGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
*
18603482 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACGTTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
* *
18603531 ACATCGGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
*
18603580 ACATCAGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
18603629 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
*
18603678 ACATCGGCCATTAGGCCTTATCACATATACACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATAT--ACATACACTTTCACATTCATC
18603729 ACATCGGCCATTAGGCCT-ATCACATATACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
* *
18603777 ACATCGGCCATTAGGCCTTATCACATACACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
*
18603826 ACATCGGCCATTAGGCCTTATCACA
1 ACATCGGCCATTAGGCCTCATCACA
18603851 CATATATGTA
Statistics
Matches: 354, Mismatches: 12, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
48 39 0.11
49 267 0.75
50 9 0.03
51 39 0.11
ACGTcount: A:0.30, C:0.33, G:0.09, T:0.28
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
Found at i:18603627 original size:27 final size:27
Alignment explanation
Indices: 18603597--18603681 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
18603587 CCATTAGGCC
18603597 TCATCACATATACATACACTTTCACAT
1 TCATCACATATACATACACTTTCACAT
*** *** *
18603624 TCATCAC--AT-CGGCCA-TTAGGCCT
1 TCATCACATATACATACACTTTCACAT
18603647 -CATCACATATACATACACTTTCACAT
1 TCATCACATATACATACACTTTCACAT
18603673 TCATCACAT
1 TCATCACAT
18603682 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
22 6 0.15
23 4 0.10
24 5 0.13
25 5 0.13
26 4 0.10
27 15 0.38
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.31
Consensus pattern (27 bp):
TCATCACATATACATACACTTTCACAT
Found at i:18606988 original size:40 final size:41
Alignment explanation
Indices: 18606944--18607042 Score: 123
Period size: 41 Copynumber: 2.4 Consensus size: 41
18606934 TCGATTGTTC
* * *
18606944 TCGGGACATAGCCCGG-TTATAGTGA-TTCGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAATGCCT
18606984 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAATGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAATGCCT
*
18607025 TCGGGACTTAGCCCGGAT
1 TCGGGACATAGCCCGGAT
18607043 ACCATTCGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.37
41 31 0.61
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.26
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAATGCCT
Found at i:18607562 original size:29 final size:29
Alignment explanation
Indices: 18607525--18607742 Score: 400
Period size: 29 Copynumber: 7.5 Consensus size: 29
18607515 CGTTGAAAAA
* * *
18607525 CTCGTACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
18607554 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
*
18607583 TTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
18607612 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
18607641 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
18607670 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
18607699 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
18607728 CTCGCACACATAGTG
1 CTCGCACACATAGTG
18607743 TAACACCCCA
Statistics
Matches: 184, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 184 1.00
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCGATTACTGAT
Found at i:18609209 original size:40 final size:40
Alignment explanation
Indices: 18609103--18609227 Score: 132
Period size: 40 Copynumber: 3.1 Consensus size: 40
18609093 GGAATACAAC
*
18609103 CGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGCA
1 CGGATAGAACCAC-TAGCACGAATGCCTTCGGGTCTTAGCA
* * * *
18609143 TGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 CGGATAGAACCACTAGCACGAATGCCTTCGGGTCTTAGCA
* *
18609183 CGGAT-GTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC-
1 CGGATAG-AACCACTAGCACGAA-TGCCTTCGGGTCTTAGCA
18609222 CGGATA
1 CGGATA
18609228 AATTTCCAGC
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
39 9 0.12
40 63 0.88
ACGTcount: A:0.24, C:0.27, G:0.26, T:0.23
Consensus pattern (40 bp):
CGGATAGAACCACTAGCACGAATGCCTTCGGGTCTTAGCA
Found at i:18610995 original size:29 final size:29
Alignment explanation
Indices: 18610953--18611167 Score: 412
Period size: 29 Copynumber: 7.4 Consensus size: 29
18610943 TTTGGGCTGT
18610953 CACACATAGTGCCTCGATTACTGATCTCG
1 CACACATAGTGCCTCGATTACTGATCTCG
*
18610982 CACACATAGTGCCTTGATTACTGATCTCG
1 CACACATAGTGCCTCGATTACTGATCTCG
*
18611011 CACACATATTGCCTCGATTACTGATCTCG
1 CACACATAGTGCCTCGATTACTGATCTCG
18611040 CACACATAGTGCCTCGATTACTGATCTCG
1 CACACATAGTGCCTCGATTACTGATCTCG
18611069 CACACATAGTGCCTCGATTACTGATCTCG
1 CACACATAGTGCCTCGATTACTGATCTCG
18611098 CACACATAGTGCCTCGATTACTGATCTCG
1 CACACATAGTGCCTCGATTACTGATCTCG
18611127 CACACATAGTGCCTCGATTACTGATCTCG
1 CACACATAGTGCCTCGATTACTGATCTCG
18611156 CACACATAGTGC
1 CACACATAGTGC
18611168 TCGGTTAACG
Statistics
Matches: 182, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 182 1.00
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (29 bp):
CACACATAGTGCCTCGATTACTGATCTCG
Found at i:18613260 original size:37 final size:37
Alignment explanation
Indices: 18613210--18613287 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
18613200 TATAAAAGAA
18613210 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
18613247 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
18613284 GTCT
1 GTCT
18613288 CGCCCGGAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:18613451 original size:49 final size:49
Alignment explanation
Indices: 18613390--18613859 Score: 796
Period size: 49 Copynumber: 9.5 Consensus size: 49
18613380 CATATATTTT
* *
18613390 ACATTGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
* * *
18613439 ACATCAGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
* *
18613488 ACATCAGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
18613537 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
18613586 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
18613635 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
*
18613684 ACATCGGCCATTAGGCCTTATCACATATACACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATAT--ACATACACTTTCACATTCATC
*
18613735 ACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
* *
18613784 ACATCGGCCATTAGGCCTTATCACATTTACACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACA--TATACATACACTTTCACATTCATC
*
18613835 ACATCGGCCATTAGGCCTTATCACA
1 ACATCGGCCATTAGGCCTCATCACA
18613860 CATATATGTA
Statistics
Matches: 409, Mismatches: 8, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
49 312 0.76
51 97 0.24
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
Found at i:18616994 original size:40 final size:41
Alignment explanation
Indices: 18616950--18617048 Score: 123
Period size: 41 Copynumber: 2.4 Consensus size: 41
18616940 TCGATTGTTC
* * *
18616950 TCGGGACATAGCCCGG-TTATAGTGA-TTCGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAATGCCT
18616990 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAATGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAATGCCT
*
18617031 TCGGGACTTAGCCCGGAT
1 TCGGGACATAGCCCGGAT
18617049 ACCATTCGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.37
41 31 0.61
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.26
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAATGCCT
Found at i:18617568 original size:29 final size:29
Alignment explanation
Indices: 18617531--18617719 Score: 342
Period size: 29 Copynumber: 6.5 Consensus size: 29
18617521 CGTTGAAAAA
* * *
18617531 CTCGTACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
18617560 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
*
18617589 TTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
18617618 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
18617647 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
18617676 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
18617705 CTCGCACACATAGTG
1 CTCGCACACATAGTG
18617720 TAACACCCCA
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 155 1.00
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCGATTACTGAT
Found at i:18619185 original size:40 final size:40
Alignment explanation
Indices: 18619079--18619195 Score: 132
Period size: 40 Copynumber: 2.9 Consensus size: 40
18619069 GGAATACAAC
*
18619079 CGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGCA
1 CGGATAGAACCAC-TAGCACGAATGCCTTCGGGTCTTAGCA
* * * *
18619119 TGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 CGGATAGAACCACTAGCACGAATGCCTTCGGGTCTTAGCA
*
18619159 CGGAT-GTAGCCACTAGCAC-AATTGCCTTCGGGTCTTA
1 CGGATAG-AACCACTAGCACGAA-TGCCTTCGGGTCTTA
18619196 ACCGGGATAA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 4 0.06
40 62 0.94
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.24
Consensus pattern (40 bp):
CGGATAGAACCACTAGCACGAATGCCTTCGGGTCTTAGCA
Found at i:18620973 original size:29 final size:29
Alignment explanation
Indices: 18620931--18621145 Score: 412
Period size: 29 Copynumber: 7.4 Consensus size: 29
18620921 TTTGGGCTGT
18620931 CACACATAGTGCCTCGATTACTGATCTCG
1 CACACATAGTGCCTCGATTACTGATCTCG
*
18620960 CACACATAGTGCCTTGATTACTGATCTCG
1 CACACATAGTGCCTCGATTACTGATCTCG
*
18620989 CACACATATTGCCTCGATTACTGATCTCG
1 CACACATAGTGCCTCGATTACTGATCTCG
18621018 CACACATAGTGCCTCGATTACTGATCTCG
1 CACACATAGTGCCTCGATTACTGATCTCG
18621047 CACACATAGTGCCTCGATTACTGATCTCG
1 CACACATAGTGCCTCGATTACTGATCTCG
18621076 CACACATAGTGCCTCGATTACTGATCTCG
1 CACACATAGTGCCTCGATTACTGATCTCG
18621105 CACACATAGTGCCTCGATTACTGATCTCG
1 CACACATAGTGCCTCGATTACTGATCTCG
18621134 CACACATAGTGC
1 CACACATAGTGC
18621146 TCGGTTAACG
Statistics
Matches: 182, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 182 1.00
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (29 bp):
CACACATAGTGCCTCGATTACTGATCTCG
Found at i:18623312 original size:37 final size:37
Alignment explanation
Indices: 18623191--18623305 Score: 230
Period size: 37 Copynumber: 3.1 Consensus size: 37
18623181 TATAAAAGAA
18623191 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
18623228 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
18623265 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
18623302 GTCT
1 GTCT
18623306 CGCCCGGAAC
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 78 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:18623468 original size:49 final size:49
Alignment explanation
Indices: 18623408--18623828 Score: 707
Period size: 49 Copynumber: 8.5 Consensus size: 49
18623398 CATATATTTT
* *
18623408 ACATTGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
*
18623457 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACGTTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
* *
18623506 ACATCGGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
*
18623555 ACATCAGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
18623604 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
*
18623653 ACATCGGCCATTAGGCCTTATCACATATACACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATAT--ACATACACTTTCACATTCATC
*
18623704 ACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
* *
18623753 ACATCGGCCATTAGGCCTTATCACATTTACACATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTCATCACA--TATACATACACTTTCACATTCATC
*
18623804 ACATCGGCCATTAGGCCTTATCACA
1 ACATCGGCCATTAGGCCTCATCACA
18623829 CATATATGTA
Statistics
Matches: 356, Mismatches: 12, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
49 259 0.73
51 97 0.27
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATC
Found at i:18623602 original size:27 final size:27
Alignment explanation
Indices: 18623572--18623656 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
18623562 CCATTAGGCC
18623572 TCATCACATATACATACACTTTCACAT
1 TCATCACATATACATACACTTTCACAT
*** *** *
18623599 TCATCAC--AT-CGGCCA-TTAGGCCT
1 TCATCACATATACATACACTTTCACAT
18623622 -CATCACATATACATACACTTTCACAT
1 TCATCACATATACATACACTTTCACAT
18623648 TCATCACAT
1 TCATCACAT
18623657 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
22 6 0.15
23 4 0.10
24 5 0.13
25 5 0.13
26 4 0.10
27 15 0.38
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.31
Consensus pattern (27 bp):
TCATCACATATACATACACTTTCACAT
Found at i:18632590 original size:37 final size:37
Alignment explanation
Indices: 18632538--18632624 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 37
18632528 TACGAAGTCT
*
18632538 TACCCGGACAAAATCTCCACACGTAGTCATCGGGTCG
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
*
18632575 TACCCGGACATAATCTCTACACGTAGTCATCGGGTCG
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
18632612 TACCCGGAACATA
1 TACCCGG-ACATA
18632625 TTTCCAAGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 42 0.89
38 5 0.11
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (37 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTCG
Found at i:18632938 original size:49 final size:49
Alignment explanation
Indices: 18632703--18632931 Score: 379
Period size: 49 Copynumber: 4.7 Consensus size: 49
18632693 ATACATATCG
* *
18632703 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTCCA
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCA
* *
18632752 CATTCATCACATCGGCCCTTAGGCCTTATCACATACATATACATTTTCA
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCA
18632801 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCA
1 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCA
*
18632850 CATTCATCACATC-GCCTATTAGGCCTTATCACATATGTATACATTTTCA
1 CATTCATCACATCGGCC-ATTAGGCCTTATCACATATATATACATTTTCA
* *
18632899 CATTCATCACATTGGCCATTCGGCCTTATCACA
1 CATTCATCACATCGGCCATTAGGCCTTATCACA
18632932 CATGTATGAA
Statistics
Matches: 169, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
48 3 0.02
49 163 0.96
50 3 0.02
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCA
Found at i:18649377 original size:26 final size:26
Alignment explanation
Indices: 18649348--18649455 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
18649338 TGATACAAAT
18649348 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18649374 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18649400 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18649426 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18649452 TGAT
1 TGAT
18649456 TGGAATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18650974 original size:26 final size:26
Alignment explanation
Indices: 18650945--18650999 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
18650935 TTTACAGTTT
18650945 TACCCCTAGGAGATAAATT-ACCAAAA
1 TACCCCTAGG-GATAAATTGACCAAAA
* *
18650971 TACCCCTAGGGCTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCAAAA
18650997 TAC
1 TAC
18651000 ATGTTTGACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.40, C:0.25, G:0.13, T:0.22
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCAAAA
Found at i:18656128 original size:71 final size:71
Alignment explanation
Indices: 18656044--18656207 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
18656034 CGATTTGTCT
18656044 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18656109 CTTTCA
66 CTTTCA
18656115 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18656180 CTTTCA
66 CTTTCA
18656186 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
18656208 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Done.