Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 51 of 250
Found at i:16210150 original size:23 final size:23
Alignment explanation
Indices: 16210117--16210173 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
16210107 CTCCAAGCAA
* *
16210117 ACGGGCGTGTGTGTTGCCTCCAC
1 ACGGGCGTGTGCGCTGCCTCCAC
* *
16210140 ATGGGCATGTGCGCTGCCTCCAC
1 ACGGGCGTGTGCGCTGCCTCCAC
16210163 ACGGGCGTGTG
1 ACGGGCGTGTG
16210174 AGGCTTTAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.11, C:0.30, G:0.37, T:0.23
Consensus pattern (23 bp):
ACGGGCGTGTGCGCTGCCTCCAC
Found at i:16212755 original size:7 final size:7
Alignment explanation
Indices: 16212743--16212774 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
16212733 TCACTCATTT
16212743 TCTTTTC
1 TCTTTTC
16212750 TCTTTTC
1 TCTTTTC
16212757 TCTTTTC
1 TCTTTTC
16212764 TCTTTTC
1 TCTTTTC
16212771 TCTT
1 TCTT
16212775 AATATTGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TCTTTTC
Found at i:16215430 original size:40 final size:40
Alignment explanation
Indices: 16215386--16215610 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
16215376 GCTCCTCGTT
* * *
16215386 CAAATGCGTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
16215426 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
16215466 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
16215506 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
16215545 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
16215586 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
16215611 CATCATTCAA
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 116 0.72
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:16215570 original size:119 final size:120
Alignment explanation
Indices: 16215388--16215610 Score: 274
Period size: 119 Copynumber: 1.9 Consensus size: 120
16215378 TCCTCGTTCA
* * *
16215388 AATGCGTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
* * *
16215453 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCAGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
16215508 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATACCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
* * *
16215570 ATATGGTCACTTAGCACAAAGCCTTCAGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCAGGACTTAACCCGGA
16215611 CATCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
118 4 0.05
119 64 0.74
120 19 0.22
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:16221662 original size:79 final size:79
Alignment explanation
Indices: 16221571--16221730 Score: 311
Period size: 79 Copynumber: 2.0 Consensus size: 79
16221561 ACCGCTATAC
16221571 TATAAGTTCCTAGTCGAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCA
1 TATAAGTTCCTAGTCGAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCA
16221636 TCTAGGCAGATTCT
66 TCTAGGCAGATTCT
*
16221650 TATAAGTTCCTAGTCGAGCATATGACCTGTTGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCA
1 TATAAGTTCCTAGTCGAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCA
16221715 TCTAGGCAGATTCT
66 TCTAGGCAGATTCT
16221729 TA
1 TA
16221731 CTTTACTTAA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (79 bp):
TATAAGTTCCTAGTCGAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCA
TCTAGGCAGATTCT
Found at i:16225208 original size:20 final size:20
Alignment explanation
Indices: 16225183--16225228 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
16225173 AGAAAAATAA
16225183 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
*
16225203 TTTCT-GAAAATGGTTTACT
1 TTTCTGGAAAATGATTTACT
16225222 TTTCTGG
1 TTTCTGG
16225229 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:16228594 original size:93 final size:93
Alignment explanation
Indices: 16228435--16228606 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
16228425 CGCCCATAAG
* * *
16228435 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
16228500 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* *
16228528 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTTAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
16228593 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
16228607 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:16228603 original size:46 final size:46
Alignment explanation
Indices: 16228428--16228603 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
16228418 TGTAACCCGC
* * * *
16228428 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
16228474 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
16228524 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
16228567 CCATAAGTTAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
16228604 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.58
47 29 0.27
48 1 0.01
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:16230004 original size:39 final size:40
Alignment explanation
Indices: 16229927--16230006 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 40
16229917 AACCATAAAC
*
16229927 AGTCTAAGCTTCAATTGCAATATTCTCCATACACATTATG
1 AGTCTAAGCTTCAAGTGCAATATTCTCCATACACATTATG
* *
16229967 AGTCTGAA-CTTCAAGTGCAA-ATTCTCTATACAGATTATG
1 AGTCT-AAGCTTCAAGTGCAATATTCTCCATACACATTATG
16230006 A
1 A
16230007 AAGCATATCA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 18 0.50
40 16 0.44
41 2 0.06
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (40 bp):
AGTCTAAGCTTCAAGTGCAATATTCTCCATACACATTATG
Found at i:16253482 original size:46 final size:46
Alignment explanation
Indices: 16253415--16253588 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
16253405 GTAACCCGCC
*
16253415 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATT
16253461 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACA-T
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACATT
* * * ** * *
16253510 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCACATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATT
*
16253554 CTTAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
16253589 ATGCCCAAAT
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 61 0.57
47 26 0.24
48 3 0.03
49 3 0.03
50 2 0.02
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATT
Found at i:16253534 original size:93 final size:93
Alignment explanation
Indices: 16253422--16253593 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
16253412 GCCCATAAGT
** * * *
16253422 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATTCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
16253487 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
16253515 GAACTCGGACTCAACTCAACGAGTTCGAACATTCACATCCTTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
16253580 CGAGCTCGGATGCC
66 CGAGCTCGGATGCC
16253594 CAAATATTCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:16253608 original size:46 final size:46
Alignment explanation
Indices: 16253465--16253608 Score: 121
Period size: 46 Copynumber: 3.1 Consensus size: 46
16253455 CGCATTCATA
* ** *
16253465 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATA-TTC-C
* * * **** * * *
16253513 A-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCACATCCTT-A
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAAT-ATTCC
16253558 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATATTCC
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATATTCC
16253604 AGTGA
1 AGTGA
16253609 CATGTCACTT
Statistics
Matches: 70, Mismatches: 23, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
45 3 0.04
46 36 0.51
47 30 0.43
48 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATATTCC
Found at i:16259399 original size:46 final size:46
Alignment explanation
Indices: 16259328--16259501 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 46
16259318 GTAACCCGCC
* * *
16259328 CATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTTGCATT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTACATT
* *
16259374 CATTAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACA-T
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-ATTTACATT
* * * ** * *
16259423 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCACATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTACATT
*
16259467 CATAAGTGAACTCAGACTCAACTCAACGAGCTCGG
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
16259502 ATGCCCAAAT
Statistics
Matches: 103, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 2 0.02
46 58 0.56
47 26 0.25
48 3 0.03
49 3 0.03
50 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTACATT
Found at i:16259442 original size:93 final size:93
Alignment explanation
Indices: 16259335--16259506 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
16259325 GCCCATAAGT
** * ** * * *
16259335 GAACTCGAACTCAACTCAACGAGCTCGGGCGTTTGCATTCATTAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
16259400 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
16259428 GAACTCGGACTCAACTCAACGAGTTCGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
16259493 CGAGCTCGGATGCC
66 CGAGCTCGGATGCC
16259507 CAAATATTCC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:16266618 original size:19 final size:19
Alignment explanation
Indices: 16266589--16266631 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
16266579 ATATGGGTAT
*
16266589 AATAA-TTCTAGTCCTCAA
1 AATAACTTCTAGACCTCAA
16266607 AATAACTTCTAGACCTCAA
1 AATAACTTCTAGACCTCAA
16266626 AATAAC
1 AATAAC
16266632 CCATACAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.44, C:0.23, G:0.05, T:0.28
Consensus pattern (19 bp):
AATAACTTCTAGACCTCAA
Found at i:16268557 original size:42 final size:41
Alignment explanation
Indices: 16268441--16268560 Score: 100
Period size: 43 Copynumber: 2.9 Consensus size: 41
16268431 GTCTGAGACA
* * * *
16268441 TCGTGTAAGACCGTGTTTGGGACATAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATT-AGATT
* * *
16268483 TACATATAAGACCATGTCTGGAACATCA-GCATCGTATCT-GATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCG-AT-TAGATT
* *
16268526 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGAT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAT
16268561 ATTGAATTAC
Statistics
Matches: 61, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
41 3 0.05
42 26 0.43
43 28 0.46
44 3 0.05
45 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTAGATT
Found at i:16269013 original size:14 final size:13
Alignment explanation
Indices: 16268993--16269022 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16268983 TTTTGAAAGT
*
16268993 GTATTTTTGTTAA
1 GTATTTTTCTTAA
16269006 GTATTTTTCTTAA
1 GTATTTTTCTTAA
16269019 GTAT
1 GTAT
16269023 GGCGTGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.13, T:0.60
Consensus pattern (13 bp):
GTATTTTTCTTAA
Found at i:16274755 original size:46 final size:46
Alignment explanation
Indices: 16274688--16274846 Score: 144
Period size: 46 Copynumber: 3.4 Consensus size: 46
16274678 TGTAACCCGC
* * *
16274688 CCATAAGCGAACTCAGACTCAACTCAAGGAGCTCGGGCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAAAGAGCTCGGGCATTTGCAT
* * *
16274734 CCATAAGTGAACTCGGACTCAACTCAAAGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAAAGAGCTCGG--G-C-ATTTGCAT
* * * * * *
16274784 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAAAGAGCTCGGGCATTTGCAT
*
16274827 CCATAAGTGAACTCGGACTC
1 CCATAAGCGAACTCGGACTC
16274847 GAGTCAACAA
Statistics
Matches: 89, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
43 5 0.06
44 2 0.02
45 2 0.02
46 45 0.51
47 25 0.28
48 3 0.03
49 2 0.02
50 5 0.06
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAAAGAGCTCGGGCATTTGCAT
Found at i:16277173 original size:30 final size:30
Alignment explanation
Indices: 16277138--16277197 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
16277128 CAAGAAAACT
*
16277138 GAATAAAGAAATCCA-AGATAGAGAAACCCA
1 GAATAAAGAAATCCAGA-ATAAAGAAACCCA
16277168 GAATAAAGAAATCCAGAATAAAGAAACCCA
1 GAATAAAGAAATCCAGAATAAAGAAACCCA
16277198 AGATATGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.58, C:0.17, G:0.15, T:0.10
Consensus pattern (30 bp):
GAATAAAGAAATCCAGAATAAAGAAACCCA
Found at i:16277177 original size:15 final size:15
Alignment explanation
Indices: 16277138--16277197 Score: 77
Period size: 15 Copynumber: 4.0 Consensus size: 15
16277128 CAAGAAAACT
*
16277138 GAATAAAGAAATCCA
1 GAATAAAGAAACCCA
*
16277153 -AGATAGAGAAACCCA
1 GA-ATAAAGAAACCCA
*
16277168 GAATAAAGAAATCCA
1 GAATAAAGAAACCCA
16277183 GAATAAAGAAACCCA
1 GAATAAAGAAACCCA
16277198 AGATATGATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
14 1 0.03
15 36 0.95
16 1 0.03
ACGTcount: A:0.58, C:0.17, G:0.15, T:0.10
Consensus pattern (15 bp):
GAATAAAGAAACCCA
Found at i:16280167 original size:46 final size:45
Alignment explanation
Indices: 16280100--16280368 Score: 183
Period size: 46 Copynumber: 5.8 Consensus size: 45
16280090 TGTAACCTGC
** * * *
16280100 CCATAAGCAAACTCAGACTCAACTCAAGGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTT-GCAT
* * *
16280146 CCATAAGTGAACTCGGGCTCAACTCAACGAGCTCAGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G--GAC--GTTGCAT
* * * * *
16280196 -C-TCA-TGAACTCGGACTCAACTCAATGAGTTCGGATGTTTGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-TTGCAT
* * *
16280239 CCATAAGTGAACTCGGACTCAACTCAACGAGTTGGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTGCAT
* * *
16280289 CTCA-CA---AACTCGGACTCAACTCAACGAGTTCGAACGTTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTT-GCAT
*
16280332 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
16280369 TGCCTAAATA
Statistics
Matches: 176, Mismatches: 27, Indels: 40
0.72 0.11 0.16
Matches are distributed among these distances:
42 6 0.03
43 9 0.05
44 3 0.02
45 2 0.01
46 85 0.48
47 51 0.29
48 2 0.01
49 3 0.02
50 9 0.05
51 6 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTGCAT
Found at i:16280216 original size:47 final size:47
Alignment explanation
Indices: 16280153--16280374 Score: 208
Period size: 46 Copynumber: 4.8 Consensus size: 47
16280143 CATCCATAAG
* * *
16280153 TGAACTCGGGCTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
* * * * *
16280200 TGAACTCGGACTCAACTCAATGAGTTCGGATG-TTTGTATCCA--TAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGT-TACATCTCA
*
16280245 GTGAACTCGGACTCAACTCAACGAGTTGGGATGCCTAGTTACATCTCA
1 -TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
** * * *
16280293 CAAACTCGGACTCAACTCAACGAGTTC-GA--AC--GTTCGCATCCATAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA
16280338 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA
1 -TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA
16280375 AATATCCGAA
Statistics
Matches: 138, Mismatches: 23, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 2 0.01
45 4 0.03
46 63 0.46
47 60 0.43
48 2 0.01
49 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (47 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:16280218 original size:93 final size:93
Alignment explanation
Indices: 16280107--16280374 Score: 401
Period size: 93 Copynumber: 2.9 Consensus size: 93
16280097 TGCCCATAAG
* * * * *
16280107 CAAACTCAGACTCAACTCAAGGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGGCTCAACTCA
1 CAAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
16280172 ACGAGCTCAGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
** * * * *
16280200 TGAACTCGGACTCAACTCAATGAGTTCGGATGTTTGTATCCATAAGTGAACTCGGACTCAACTCA
1 CAAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
16280265 ACGAGTTGGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
16280293 CAAACTCGGACTCAACTCAACGAGTTCGAACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CAAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
16280358 ACGAGTTCGGATGCCTA
66 ACGAGTTCGGATGCCTA
16280375 AATATCCGAA
Statistics
Matches: 154, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 154 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
CAAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:16288203 original size:20 final size:19
Alignment explanation
Indices: 16288175--16288212 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
16288165 TTTTAAAGAC
*
16288175 TTTACTTTATTTTTATTTG
1 TTTACTTTATCTTTATTTG
16288194 TTTACTTTTATCTTTATTT
1 TTTAC-TTTATCTTTATTT
16288213 ACCTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTACTTTATCTTTATTTG
Found at i:16297618 original size:25 final size:25
Alignment explanation
Indices: 16297584--16297638 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
16297574 ACACACAGAG
16297584 TAAGCTTGAATAGCTTAGTAAGTCA
1 TAAGCTTGAATAGCTTAGTAAGTCA
16297609 TAAGCTTGAATAGCTTAGTAAGTCA
1 TAAGCTTGAATAGCTTAGTAAGTCA
16297634 TAAGC
1 TAAGC
16297639 AAATAAATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (25 bp):
TAAGCTTGAATAGCTTAGTAAGTCA
Found at i:16298089 original size:44 final size:43
Alignment explanation
Indices: 16297992--16298114 Score: 117
Period size: 43 Copynumber: 2.8 Consensus size: 43
16297982 CTCGTACAAC
*
16297992 GCCAACGTCCCAGACGTGGTCTTACATATAATCACATATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACATATAATCACAAATCGAT
** *
16298035 GCCATTGTCCCAGACAG-GGTCTTACACGTA-AATCACAAATTGAT
1 GCCAACGTCCCAGAC-GTGGTCTTACA--TATAATCACAAATCGAT
* * * *
16298079 GCTAACGTCCCA-AGTGTGGTCTTACACAAAATCACA
1 GCCAACGTCCCAGA-CGTGGTCTTACATATAATCACA
16298115 TATCAGAATC
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
42 1 0.02
43 31 0.48
44 31 0.48
45 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACATATAATCACAAATCGAT
Found at i:16301503 original size:698 final size:699
Alignment explanation
Indices: 16300166--16301562 Score: 2661
Period size: 698 Copynumber: 2.0 Consensus size: 699
16300156 GGCCACACGG
*
16300166 GCGTGTGTCCCTTGTTTTGAGAAAAAAAATTATAAGTGTAACACCCCGTACCCGAGACCGTTGCT
1 GCGTGTGTCCCTTGTTTTGAGAAAAAAAATTATAAGTGTAACACCCCGTACCCGAGACCGTTGCC
* *
16300231 GGAGTCGAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAAATTTCCA
66 GGAGTCAAACACGAGGTGCTAAAAGACTTATTTCATTGTAAAACACAGTTCATTTAAAATTTCCA
*
16300296 GACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCTAAAACTCGAAAA
131 GACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAACTCGAAAA
*
16300361 CAAGTTCCGTAATTTTTTCCTGAAACTAGACTCATATTTCCATCTACAAATTTTTTTCTATAATT
196 CAAGTTCCGTAATTTTTTCCTGAAACTAGACTCATATGTCCATCTACAAATTTTTTTCTATAATT
16300426 TTTGGTCAGGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTCGACTGCTC
261 TTTGGTCAGGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTCGACTGCTC
16300491 TGACCTTCATGCATTACGACTTATATATCTCCCTGTACAGGGCTTCAATACTTATACCGTTTGTT
326 TGACCTTCATGCATTACGACTTATATATCTCCCTGTACAGGGCTTCAATACTTATACCGTTTGTT
16300556 TCTAACGAAACTAGACTCAAAAAGGAATCTATAAATATATGGAATGACCTCTAATTATCTCTGGT
391 TCTAACGAAACTAGACTCAAAAAGGAATCTATAAATATATGGAATGACCTCTAATTATCTCTGGT
*
16300621 TAATTTATAGTGAATTTCCAAAGTCAGATTAGGGGATCCAGAAATCGCTCTGGCCCTGTTCAACA
456 TAATTTATAGTGAATTTCCAAAGTCAGATCAGGGGATCCAGAAATCGCTCTGGCCCTGTTCAACA
*
16300686 AAAACTTAAATATCCCTTAAAATACAACTCATATGATCGTTTTGTTTCTTCCGTATGAAAGTAGA
521 AAAACTTAAATATCCCTTAAAATACAACTCATATGATCGTTTCGTTTCTTCCGTATGAAAGTAGA
16300751 TTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCATTCCCACTATTTTTAGTGATT
586 TTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCATTCCCACTATTTTTAGTGATT
*
16300816 TTTCAAATTTACGCCACTGCTGCTGTTAGCATCTGCCTTTAAGGTAGAC
651 TTTCAAATTTACGCCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGAC
16300865 GCGTGTGTCCCTTGTTTTGAGAAAAAAAATTATAAGTGTAACACCCCGTACCCGAGACCGTTGCC
1 GCGTGTGTCCCTTGTTTTGAGAAAAAAAATTATAAGTGTAACACCCCGTACCCGAGACCGTTGCC
16300930 GGAGTCAAACACGAGGTGCTAAAAGACTTATTTCATTGTAAAACACAGTTCATTTAAAATTTCCA
66 GGAGTCAAACACGAGGTGCTAAAAGACTTATTTCATTGTAAAACACAGTTCATTTAAAATTTCCA
*
16300995 GACAAGCTGGCTAATTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAACTCGAAAA
131 GACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAACTCGAAAA
16301060 CAAGTTCCGTAATTTTTTCCTGAAACTAGACTCATATGTCCATCTACAAA-TTTTTTCTATAATT
196 CAAGTTCCGTAATTTTTTCCTGAAACTAGACTCATATGTCCATCTACAAATTTTTTTCTATAATT
16301124 TTTGGTCAGGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTCGACTGCTC
261 TTTGGTCAGGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTCGACTGCTC
*
16301189 TGACCTTCATGCATTACGACTTATATATCTCCCTGTACAGGGCTTCAATACTTATGCCGTTTGTT
326 TGACCTTCATGCATTACGACTTATATATCTCCCTGTACAGGGCTTCAATACTTATACCGTTTGTT
*
16301254 TCTAACGAAACTAGACTCAAAAAGGAATCTATAAATATATGGCATGACCTCTAATTATCTCTGGT
391 TCTAACGAAACTAGACTCAAAAAGGAATCTATAAATATATGGAATGACCTCTAATTATCTCTGGT
* *
16301319 TAATTTATAGTGAATTTCCAAAGTCAGATCAGGGGATCCAGAAATCGCTCTGGCCCTGTTCCACG
456 TAATTTATAGTGAATTTCCAAAGTCAGATCAGGGGATCCAGAAATCGCTCTGGCCCTGTTCAACA
16301384 AAAACTTAAATATCCCTTAAAATACAACTCATATGATCGTTTCGTTTCTTCCGTATGAAAGTAGA
521 AAAACTTAAATATCCCTTAAAATACAACTCATATGATCGTTTCGTTTCTTCCGTATGAAAGTAGA
*
16301449 TTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCTATTCCCACTATTTTTAGTGATT
586 TTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCATTCCCACTATTTTTAGTGATT
16301514 TTTCAAATTTACGCCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGAC
651 TTTCAAATTTACGCCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGAC
16301563 TTTACCTATT
Statistics
Matches: 684, Mismatches: 14, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
698 445 0.65
699 239 0.35
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (699 bp):
GCGTGTGTCCCTTGTTTTGAGAAAAAAAATTATAAGTGTAACACCCCGTACCCGAGACCGTTGCC
GGAGTCAAACACGAGGTGCTAAAAGACTTATTTCATTGTAAAACACAGTTCATTTAAAATTTCCA
GACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAACTCGAAAA
CAAGTTCCGTAATTTTTTCCTGAAACTAGACTCATATGTCCATCTACAAATTTTTTTCTATAATT
TTTGGTCAGGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTCGACTGCTC
TGACCTTCATGCATTACGACTTATATATCTCCCTGTACAGGGCTTCAATACTTATACCGTTTGTT
TCTAACGAAACTAGACTCAAAAAGGAATCTATAAATATATGGAATGACCTCTAATTATCTCTGGT
TAATTTATAGTGAATTTCCAAAGTCAGATCAGGGGATCCAGAAATCGCTCTGGCCCTGTTCAACA
AAAACTTAAATATCCCTTAAAATACAACTCATATGATCGTTTCGTTTCTTCCGTATGAAAGTAGA
TTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCATTCCCACTATTTTTAGTGATT
TTTCAAATTTACGCCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGAC
Found at i:16302335 original size:40 final size:40
Alignment explanation
Indices: 16302252--16302471 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
16302242 ACCCAATTAT
** * *
16302252 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
16302290 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
16302330 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
16302370 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
16302410 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
16302450 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
16302472 CATTCGAATA
Statistics
Matches: 154, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.10
40 125 0.81
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:16306899 original size:46 final size:46
Alignment explanation
Indices: 16306832--16306960 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
16306822 TGTAACCCGC
* * *
16306832 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
16306878 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
16306924 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
16306961 TGCCCAAATA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:16309371 original size:29 final size:28
Alignment explanation
Indices: 16309330--16309394 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 28
16309320 CAAAGATAAC
16309330 AAGAAACCGAATAAAGAAATCCA-AATA
1 AAGAAACCGAATAAAGAAATCCAGAATA
*
16309357 GAGAAATCCAGAATAAAGAAATCCAGAATA
1 AAGAAA-CC-GAATAAAGAAATCCAGAATA
16309387 AAGAAACC
1 AAGAAACC
16309395 TAAGATACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 5 0.15
28 2 0.06
29 17 0.52
30 9 0.27
ACGTcount: A:0.60, C:0.15, G:0.14, T:0.11
Consensus pattern (28 bp):
AAGAAACCGAATAAAGAAATCCAGAATA
Found at i:16309376 original size:15 final size:15
Alignment explanation
Indices: 16309330--16309392 Score: 96
Period size: 15 Copynumber: 4.4 Consensus size: 15
16309320 CAAAGATAAC
16309330 AAGAAA-CC-GAATA
1 AAGAAATCCAGAATA
16309343 AAGAAATCCA-AATA
1 AAGAAATCCAGAATA
*
16309357 GAGAAATCCAGAATA
1 AAGAAATCCAGAATA
16309372 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
16309387 AAGAAA
1 AAGAAA
16309393 CCTAAGATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.13
14 15 0.33
15 24 0.53
ACGTcount: A:0.62, C:0.13, G:0.14, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:16312348 original size:46 final size:46
Alignment explanation
Indices: 16312281--16312409 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
16312271 TGTAACCCGC
* * *
16312281 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
* * **
16312327 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCAGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
16312373 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
16312410 TGCCCAAGTA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:16316629 original size:48 final size:48
Alignment explanation
Indices: 16316558--16316663 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
16316548 CAAGATAAAT
* * *
16316558 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
16316606 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
16316654 ATGTGTATAT
1 ATATGTATAT
16316664 ATTGTGGCCG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:16318629 original size:43 final size:43
Alignment explanation
Indices: 16318562--16318781 Score: 359
Period size: 43 Copynumber: 5.1 Consensus size: 43
16318552 ATGAAACTCA
*
16318562 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
* *
16318605 TTGATATGTATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
*
16318648 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGACTTCGTGCCG
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
*
16318691 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCG
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
* * **
16318734 GTGATATGTATTCGGGTCTTCGTGCCTAGCACGCTTAATGCCG
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
16318777 GTGAT
1 GTGAT
16318782 TCAAGCAAGG
Statistics
Matches: 164, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 164 1.00
ACGTcount: A:0.13, C:0.24, G:0.31, T:0.32
Consensus pattern (43 bp):
GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
Found at i:16318999 original size:29 final size:28
Alignment explanation
Indices: 16318961--16319043 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
16318951 AAATTCCGTT
16318961 AACCGAGCACTATGTGTGCGAGATCAGT-
1 AACCGAGCACTATGTGTGCGAGATC-GTC
** * * *
16318989 AATTGAGGCACTGTGTGTGCGAGTTCTTC
1 AACCGA-GCACTATGTGTGCGAGATCGTC
16319018 AACCGAGCACTATGTGTGCGAGATCG
1 AACCGAGCACTATGTGTGCGAGATCG
16319044 ATCAGTGGGC
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
28 22 0.51
29 21 0.49
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (28 bp):
AACCGAGCACTATGTGTGCGAGATCGTC
Found at i:16319055 original size:28 final size:27
Alignment explanation
Indices: 16318967--16319063 Score: 77
Period size: 28 Copynumber: 3.4 Consensus size: 27
16318957 CGTTAACCGA
* *
16318967 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCA-TCACTG-G
* * * * *
16318996 GCACTGTGTGTGCGAGTTCTTCAACCGA
1 GCACTATGTGTGCGAGATCATC-ACTGG
*
16319024 GCACTATGTGTGCGAGATCGATCAGTGG
1 GCACTATGTGTGCGAGATC-ATCACTGG
*
16319052 GCACTAAGTGTG
1 GCACTATGTGTG
16319064 TGAAATAAGA
Statistics
Matches: 52, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
28 31 0.60
29 21 0.40
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.27
Consensus pattern (27 bp):
GCACTATGTGTGCGAGATCATCACTGG
Found at i:16322513 original size:48 final size:48
Alignment explanation
Indices: 16322439--16322533 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
16322429 TATATATGTG
* *
16322439 TGTGGTAAAGCCGGATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
16322487 TGTGGTAAAGCCGAATGGTTAATGTGAAATATGTATGAGATGTGTAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
16322534 TATTGTGTGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.32, C:0.05, G:0.31, T:0.33
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:16325584 original size:53 final size:54
Alignment explanation
Indices: 16325503--16325710 Score: 231
Period size: 53 Copynumber: 3.9 Consensus size: 54
16325493 TTTTCTTTTT
* * * *
16325503 GAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* **
16325556 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * * * *
16325610 GTAAATCATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * * *
16325665 AAACTTATCAATACCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
16325711 ATCTTACCAA
Statistics
Matches: 130, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
52 2 0.02
53 45 0.35
54 39 0.30
55 42 0.32
56 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:16325789 original size:47 final size:47
Alignment explanation
Indices: 16325690--16325897 Score: 178
Period size: 47 Copynumber: 4.5 Consensus size: 47
16325680 ATGCCTTGGC
* * *** *
16325690 ATGGTCTTACATGATATCCTTATCTTA--CCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTACCTTATGCC-AATGCCATGTT-TTGAT
*
16325737 ATGGTCTTACATGGTATCCTTACCTTAGTGCCAATG-CATATTTTGAT
1 ATGGTCTTACATGGTATCCTTACCTTA-TGCCAATGCCATGTTTTGAT
* * * * *
16325784 GTGGTCTTACATGG-AGTCCTTA-ATCAATGCCGATGCCATGTCTTGAT
1 ATGGTCTTACATGGTA-TCCTTACCT-TATGCCAATGCCATGTTTTGAT
* * * *
16325831 ATGGTCTTACACGGGATCCTTGCCTTA--CCAATGCCATGTTTTGAC
1 ATGGTCTTACATGGTATCCTTACCTTATGCCAATGCCATGTTTTGAT
16325876 ATGGTCTTACATGGTATCCTTA
1 ATGGTCTTACATGGTATCCTTA
16325898 ACCGTCAATT
Statistics
Matches: 129, Mismatches: 24, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
45 34 0.26
46 9 0.07
47 73 0.57
48 7 0.05
49 4 0.03
50 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.36
Consensus pattern (47 bp):
ATGGTCTTACATGGTATCCTTACCTTATGCCAATGCCATGTTTTGAT
Found at i:16325968 original size:44 final size:44
Alignment explanation
Indices: 16325902--16325986 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 44
16325892 TCCTTAACCG
* * *
16325902 TCAATTCCTCCTTAAATTCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCCA
*
16325946 TCAATTCTTCCTT-AATGGCCATGGTACAACCATGGACTTTT
1 TCAATTCCTCCTTAAAT-GCCATGGTACAACCATGGACTTTT
16325987 GAGAAATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
43 5 0.14
44 30 0.86
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.38
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCCA
Found at i:16327119 original size:11 final size:11
Alignment explanation
Indices: 16327103--16327131 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
16327093 TCACAGAATG
16327103 ATTTCGTGAAA
1 ATTTCGTGAAA
16327114 ATTTCGTGAAA
1 ATTTCGTGAAA
16327125 ATTTCGT
1 ATTTCGT
16327132 TCAAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (11 bp):
ATTTCGTGAAA
Found at i:16337927 original size:22 final size:21
Alignment explanation
Indices: 16337899--16337967 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 21
16337889 ATTGTTGTGA
16337899 TGTCTACGGTGTTGAGCTGTCC
1 TGTCTACGGTGTTGAGCT-TCC
*
16337921 TGTCTACGGTGTTGAGCCATCC
1 TGTCTACGGTGTTGAG-CTTCC
* *
16337943 TGTCTATGGCGTTGAGCCTTCC
1 TGTCTACGGTGTTGAG-CTTCC
16337965 TGT
1 TGT
16337968 TGACTTATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 41 0.98
23 1 0.02
ACGTcount: A:0.10, C:0.25, G:0.29, T:0.36
Consensus pattern (21 bp):
TGTCTACGGTGTTGAGCTTCC
Found at i:16338130 original size:27 final size:27
Alignment explanation
Indices: 16338100--16338152 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
16338090 ACATCTGATA
*
16338100 CTGATTCTG-CACTGGGCTTAGGCCCAC
1 CTGATTCTGTCAATGGGC-TAGGCCCAC
*
16338127 CTGATTCTGTTAATGGGCTAGGCCCA
1 CTGATTCTGTCAATGGGCTAGGCCCA
16338153 ACTGTTACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.28
Consensus pattern (27 bp):
CTGATTCTGTCAATGGGCTAGGCCCAC
Found at i:16340842 original size:53 final size:53
Alignment explanation
Indices: 16340739--16340843 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 53
16340729 TTCCTTTTTA
* * * * *
16340739 AACTTACCATTGCCATGTCTTGACACGGTCTTACGCGGTATCCTTGCCTTATG
1 AACTCACCATTGCCATGCCTTGACACGGTCTTACACGGGATCCTTACCTTATG
* * * *
16340792 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTACCTTAT
1 AACTCACCATTGCCATGCCTTGACACGGTCTTACACGGGATCCTTACCTTAT
16340844 CGTAGTTTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACACGGTCTTACACGGGATCCTTACCTTATG
Found at i:16365061 original size:39 final size:40
Alignment explanation
Indices: 16364960--16365181 Score: 262
Period size: 39 Copynumber: 5.7 Consensus size: 40
16364950 TTGAATGATG
* *
16364960 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
16364999 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
16365040 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAA-
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
16365078 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
16365117 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
** *
16365156 AACGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16365182 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
38 37 0.23
39 59 0.36
40 55 0.34
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:16365172 original size:117 final size:118
Alignment explanation
Indices: 16364960--16365181 Score: 299
Period size: 117 Copynumber: 1.9 Consensus size: 118
16364950 TTGAATGATG
*
16364960 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
**
16365025 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
66 GTGCGAGATACTAATAACGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
* * * **
16365078 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
16365140 TTGTGCGAGTTACT-ATAACGGGCTATGTCCCGAAGGCATTTG
64 TTGTGCGAGATACTAATAACGGGCTAAG-CCCGAAGGCATTTG
16365182 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
116 11 0.12
117 62 0.68
118 18 0.20
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATAACGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
Found at i:16365203 original size:78 final size:78
Alignment explanation
Indices: 16364960--16365214 Score: 218
Period size: 78 Copynumber: 3.3 Consensus size: 78
16364950 TTGAATGATG
* * * * * *
16364960 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTA-ATACGGGCTAAG-CCCGAAGGCAT
** *
16365023 TTGTGCGAGAT-ACTAAT
62 TTGAACGAG-TGACTAAA
* * *
16365040 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATCCGGGCTAAGCCCGAAGGCATTTGT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACGGGCTAAGCCCGAAGGCATTTGA
* *
16365104 GCGAGTTACTAAA
66 ACGAGTGACTAAA
* *
16365117 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACGGGCTAAG-CCCGAAGGCATTT
*
16365181 GAACGAG-GAGCTATA
64 GAACGAGTGA-CTAAA
* *
16365196 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
16365215 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
76 1 0.01
77 36 0.24
78 58 0.38
79 37 0.24
80 20 0.13
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACGGGCTAAGCCCGAAGGCATTTGA
ACGAGTGACTAAA
Found at i:16365986 original size:19 final size:20
Alignment explanation
Indices: 16365944--16365991 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 20
16365934 AAATCACTAA
16365944 AAATAGTAGGAATGGAATAATT
1 AAATAGTAGGAATGG-A-AATT
16365966 AAATAGTAGGAATGG-AATT
1 AAATAGTAGGAATGGAAATT
16365985 AAATAGT
1 AAATAGT
16365992 GAATAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.42
22 15 0.58
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (20 bp):
AAATAGTAGGAATGGAAATT
Found at i:16373101 original size:40 final size:40
Alignment explanation
Indices: 16373021--16373242 Score: 258
Period size: 40 Copynumber: 5.5 Consensus size: 40
16373011 AATGATGTCC
* *
16373021 GGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT-TCCG
*
16373061 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATTCCG
*
16373101 GGCTAAG-CCCGAAGGCATTTGCGACGAGATACTAATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTG-CGAGATACTAATTCCG
* *
16373141 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCG
* * *
16373181 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-TCCG
*
16373221 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
16373243 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
39 15 0.09
40 118 0.73
41 27 0.17
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCG
Found at i:16373260 original size:80 final size:78
Alignment explanation
Indices: 16373024--16373275 Score: 244
Period size: 80 Copynumber: 3.2 Consensus size: 78
16373014 GATGTCCGGC
* * * *
16373024 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
* *
16373087 AGATACTAATTCCGGGC
64 AG-GACTAA-TCCGGGT
* *
16373104 TAAG-CCCGAAGGCATTTGCGACGAGATACTA-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTG-CGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCG
*
16373167 AGTTACTAAATCCGGGT
64 AG-GACT-AATCCGGGT
* * **
16373184 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
16373249 GAGCTATATCC-GGT
66 GA-CTA-ATCCGGGT
* *
16373263 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
16373276 TACGTGATTT
Statistics
Matches: 146, Mismatches: 17, Indels: 19
0.80 0.09 0.10
Matches are distributed among these distances:
79 27 0.18
80 100 0.68
81 19 0.13
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
GACTAATCCGGGT
Found at i:16373261 original size:120 final size:120
Alignment explanation
Indices: 16373021--16373242 Score: 306
Period size: 120 Copynumber: 1.8 Consensus size: 120
16373011 AATGATGTCC
*
16373021 GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGC
*
16373086 GAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGCGACGAGATACTAATTCCG
66 GAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGCGACGAGATACTAATTCCG
* * * **
16373141 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGT
* *
16373204 GCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTG
64 GCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTG
16373243 AACGAGGAGC
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
119 3 0.03
120 65 0.73
121 21 0.24
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (120 bp):
GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGC
GAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGCGACGAGATACTAATTCCG
Found at i:16389056 original size:39 final size:40
Alignment explanation
Indices: 16388955--16389178 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
16388945 TTGAATGATG
* *
16388955 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
16388994 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
16389035 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
16389074 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
16389113 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
16389152 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
16389179 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
39 75 0.45
40 78 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:16389142 original size:79 final size:80
Alignment explanation
Indices: 16388955--16389178 Score: 287
Period size: 79 Copynumber: 2.8 Consensus size: 80
16388945 TTGAATGATG
* * * *
16388955 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATATCCGGGCTAAGACCCGAAGGCAT
*
16389018 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
16389035 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA-TCCGGGCTAAGACCCGAAGGCATT
*
16389097 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * *
16389113 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
16389178 G
66 G
16389179 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 36 0.28
79 56 0.44
80 35 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:16389200 original size:79 final size:79
Alignment explanation
Indices: 16388955--16389211 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
16388945 TTGAATGATG
* * * * *
16388955 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
16389017 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
16389035 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
16389099 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
16389113 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
16389177 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
16389193 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
16389212 TACGTGATTT
Statistics
Matches: 153, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
77 1 0.01
78 36 0.24
79 68 0.44
80 47 0.31
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:16401501 original size:40 final size:40
Alignment explanation
Indices: 16401446--16401712 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
16401436 AACATTGGAT
16401446 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
16401486 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
16401526 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
16401566 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
16401606 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
16401646 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
16401686 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
16401713 ATGTGTTTGC
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:16406885 original size:5 final size:6
Alignment explanation
Indices: 16406871--16406901 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
16406861 ACCTTGTGGC
16406871 AAAAGA AAAAGA AAAAGA AAAAG- AAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
16406902 GTGATGGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:16424270 original size:43 final size:42
Alignment explanation
Indices: 16424208--16424378 Score: 152
Period size: 43 Copynumber: 4.0 Consensus size: 42
16424198 ACATAGGATT
*
16424208 TCGATATGTG-TTATCGTGTAAGACCATGTGTGGGACGTTGGCA
1 TCGATAT-TGATTA-CGTGTAAGACCATGTCTGGGACGTTGGCA
* *
16424251 TCGAT-TTGAGATTACGTGTAAGACCATGTCTGGGACATCGGCA
1 TCGATATT--GATTACGTGTAAGACCATGTCTGGGACGTTGGCA
** *
16424294 TC-ATATTGATTTTGTGTAAGACCCTGTCTGGGACAG-TGGCA
1 TCGATATTGATTACGTGTAAGACCATGTCTGGGAC-GTTGGCA
* ** * * *
16424335 TCGATATTCAATTACACGTAAGACCACGTCTAGGATGTTGGCA
1 TCGATATT-GATTACGTGTAAGACCATGTCTGGGACGTTGGCA
16424378 T
1 T
16424379 TGTACGAGCT
Statistics
Matches: 103, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
41 31 0.30
42 9 0.09
43 60 0.58
44 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
TCGATATTGATTACGTGTAAGACCATGTCTGGGACGTTGGCA
Found at i:16429158 original size:47 final size:47
Alignment explanation
Indices: 16429104--16429289 Score: 273
Period size: 47 Copynumber: 4.0 Consensus size: 47
16429094 TTAGGATTTT
** * *
16429104 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
16429151 ATGTGATGAATGTGAACATGCATATATGTGAAAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
16429198 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
16429245 ATGTGATGAATATGAACATACATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
16429290 TAATTTGAAA
Statistics
Matches: 125, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 125 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:16429612 original size:37 final size:37
Alignment explanation
Indices: 16429507--16429612 Score: 185
Period size: 37 Copynumber: 2.9 Consensus size: 37
16429497 AATATATTCT
*
16429507 GGGTAAGACCCGATGACTACGTGTGGAGATTATATCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTATCC
16429544 GGGTAAGACCCGATGACTACGTGTGGAGATTTTATCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTATCC
* *
16429581 GGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTT
16429613 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTTTATCC
Found at i:16433271 original size:16 final size:16
Alignment explanation
Indices: 16433252--16433282 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16433242 CTTCTTCACT
16433252 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
16433268 TACTTACTTACTTAA
1 TACTCACTTACTTAA
16433283 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:16433288 original size:20 final size:20
Alignment explanation
Indices: 16433249--16433288 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
16433239 AAACTTCTTC
* *
16433249 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
16433269 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
16433289 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:16433661 original size:55 final size:54
Alignment explanation
Indices: 16433543--16433728 Score: 236
Period size: 55 Copynumber: 3.4 Consensus size: 54
16433533 CGATGTCTCA
*
16433543 ACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTG
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATGCCATGCCTTG
* * * *
16433596 GCATGGTCTTACATGAG-A-CCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTG
1 ACATGGTCTTACATG-GTATCC-TTGCCTTATAG-AACTTACCAATGCCATGCCTTG
*
16433651 ACATGGTCTTACATGGTATCCTTGCCTTAGA-AACCTTACCAATTGCCATGCCTTG
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAA-CTTACCAA-TGCCATGCCTTG
*
16433706 GCATGGTCTTACATGGTATCCTT
1 ACATGGTCTTACATGGTATCCTT
16433729 AAGCCCTAAT
Statistics
Matches: 114, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
52 2 0.02
53 25 0.22
54 10 0.09
55 75 0.66
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATGCCATGCCTTG
Found at i:16444566 original size:16 final size:16
Alignment explanation
Indices: 16444547--16444577 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16444537 CTTCTTCACT
16444547 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
16444563 TACTTACTTACTTAA
1 TACTCACTTACTTAA
16444578 TCAAATTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:16444583 original size:20 final size:20
Alignment explanation
Indices: 16444544--16444583 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
16444534 AAACTTCTTC
* *
16444544 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
16444564 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
16444584 TCATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:16444694 original size:23 final size:24
Alignment explanation
Indices: 16444656--16444700 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
16444646 TTTGCTCTTC
*
16444656 TAGTATGAACTTGTCTTACCTTTT
1 TAGTATGAACTCGTCTTACCTTTT
16444680 TAGTAT-AACTCGTCTTACCTT
1 TAGTATGAACTCGTCTTACCTT
16444701 ACTTACCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (24 bp):
TAGTATGAACTCGTCTTACCTTTT
Found at i:16444958 original size:55 final size:53
Alignment explanation
Indices: 16444768--16445022 Score: 227
Period size: 55 Copynumber: 4.8 Consensus size: 53
16444758 ACACGGGTAC
* * * * *
16444768 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTAT-C---CCTT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * *
16444817 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
16444870 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* * *
16444925 CTTATCAATGCCATGTCTTGACATGGTCTTACATAGTATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * * * *
16444978 CCTTACCAATTGCCACGCCTTGGCATGATCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
16445023 AAACCATAAT
Statistics
Matches: 172, Mismatches: 23, Indels: 16
0.82 0.11 0.08
Matches are distributed among these distances:
49 35 0.20
50 1 0.01
52 2 0.01
53 50 0.29
54 10 0.06
55 72 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:16444964 original size:108 final size:110
Alignment explanation
Indices: 16444815--16445015 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
16444805 ATCCCTTTGA
* *
16444815 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATAGTATCCTTGCCTTA-GAAACCTCACCAA
* *
16444878 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCACGCCTTGGCATGATCTTACATGGGACCTTTGCCTTATAGT
* * *
16444923 AACTTATCAATGCCATGTCTTGACATGGTCTTACATAGTATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATAGTATCCTTGCCTTAGAAACCTCACCAAT
16444988 TGCCACGCCTTGGCATGATCTTACATGG
66 TGCCACGCCTTGGCATGATCTTACATGG
16445016 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.59
109 7 0.08
110 26 0.31
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.33
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATAGTATCCTTGCCTTAGAAACCTCACCAAT
TGCCACGCCTTGGCATGATCTTACATGGGACCTTTGCCTTATAGT
Found at i:16447491 original size:44 final size:43
Alignment explanation
Indices: 16447443--16447525 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 43
16447433 AAATAATTAG
*
16447443 CCGAAGCTATAAT-GATATCGCATACTTAGTGCCATCATATTAAA
1 CCGAAGCTATAATGGA-ATCGCACACTTAGTGCCA-CATATTAAA
**
16447487 CCGAAGCTATCTTGGAATCGCACACTTAGTGCCACATAT
1 CCGAAGCTATAATGGAATCGCACACTTAGTGCCACATAT
16447526 AGCTGTAGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
43 5 0.14
44 28 0.80
45 2 0.06
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
CCGAAGCTATAATGGAATCGCACACTTAGTGCCACATATTAAA
Found at i:16447605 original size:40 final size:40
Alignment explanation
Indices: 16447489--16447606 Score: 107
Period size: 39 Copynumber: 3.0 Consensus size: 40
16447479 ATATTAAACC
* * *
16447489 GAAGCTATCTTGGAATCGCACACTT-AGTGCCACATATAGCT
1 GAAGCTAT-TTCGAATCGCACA-TTAAGTGCAAAATATAGCT
* * ***
16447530 GTAGCTA-TTC-AATTCGCACACTAAGTGCTTTATATAGCT
1 GAAGCTATTTCGAA-TCGCACATTAAGTGCAAAATATAGCT
*
16447569 GAAGCTATTTCGAAGCGCACATTAAGTGCAAAATATAG
1 GAAGCTATTTCGAATCGCACATTAAGTGCAAAATATAG
16447607 TAGATTTGTC
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
38 3 0.05
39 28 0.46
40 22 0.36
41 8 0.13
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (40 bp):
GAAGCTATTTCGAATCGCACATTAAGTGCAAAATATAGCT
Found at i:16460929 original size:26 final size:26
Alignment explanation
Indices: 16460894--16460947 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
16460884 AAAATGGGTT
16460894 GTTACAAATCATTTCAAATTATTGTG
1 GTTACAAATCATTTCAAATTATTGTG
16460920 GTTACAAATCATTTCAAATTATTGTG
1 GTTACAAATCATTTCAAATTATTGTG
16460946 GT
1 GT
16460948 ATAGTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (26 bp):
GTTACAAATCATTTCAAATTATTGTG
Found at i:16466950 original size:98 final size:98
Alignment explanation
Indices: 16466776--16466966 Score: 310
Period size: 98 Copynumber: 1.9 Consensus size: 98
16466766 AACGTGTACG
* *
16466776 AAGATTTGATGTCTAACCTCATTGATTGTTTGTGTCCATTATCATCATCTCATTTATGCCAGACA
1 AAGATTTGATGTCTAACCTCATTGATTGTCTATGTCCATTATCATCATCTCATTTATGCCAGACA
*
16466841 TGATAGGCTCATCAACGATTAACAAGACGTATA
66 TGATAGACTCATCAACGATTAACAAGACGTATA
* * * *
16466874 AAGATTTTATGTTTGACCTCATTGATTGTCTATGTCCATTATCATCATCTCATTTATGCCAGGCA
1 AAGATTTGATGTCTAACCTCATTGATTGTCTATGTCCATTATCATCATCTCATTTATGCCAGACA
*
16466939 TGATAGACTCATCAATGATTAACAAGAC
66 TGATAGACTCATCAACGATTAACAAGAC
16466967 ATTTATCAAT
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 85 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (98 bp):
AAGATTTGATGTCTAACCTCATTGATTGTCTATGTCCATTATCATCATCTCATTTATGCCAGACA
TGATAGACTCATCAACGATTAACAAGACGTATA
Found at i:16470332 original size:44 final size:43
Alignment explanation
Indices: 16470275--16470420 Score: 121
Period size: 44 Copynumber: 3.3 Consensus size: 43
16470265 CAGCTTCGTA
*
16470275 CACAACTTACATGGAAACTTGTCTACAAAAATTGGTGGTTTATC
1 CACAACCTACATGGAAACTTGTCT-CAAAAATTGGTGGTTTATC
* * * * * * *
16470319 CACGACCTACATGGTAGCTTGTTTGCAAATATTAGTGGCTTCATC
1 CACAACCTACATGGAAACTTGTCT-CAAAAATTGGTGG-TTTATC
* * * * *** *
16470364 CCCAACCTATATGGCAACTTGTGTTTGAATTTGGTGGTTTATC
1 CACAACCTACATGGAAACTTGTCTCAAAAATTGGTGGTTTATC
16470407 CACAACCTACATGG
1 CACAACCTACATGG
16470421 TAGCCTATTT
Statistics
Matches: 77, Mismatches: 24, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
43 17 0.22
44 37 0.48
45 23 0.30
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (43 bp):
CACAACCTACATGGAAACTTGTCTCAAAAATTGGTGGTTTATC
Found at i:16474279 original size:45 final size:45
Alignment explanation
Indices: 16474154--16474347 Score: 225
Period size: 44 Copynumber: 4.4 Consensus size: 45
16474144 AGGAGGAAGG
* *
16474154 ATTGGTGGTTTCATCCACAACCTACATGGCAGCTTGTCAGTAAAA
1 ATTGGTGGTTTCATCCACAACCTACATGGCAGCTTGTCTGTAAAT
* *
16474199 ATTGGTGGTTT-ATCCACAACCTACATTGCATCTTGTCTGTAAAT
1 ATTGGTGGTTTCATCCACAACCTACATGGCAGCTTGTCTGTAAAT
* * * * * *
16474243 ATTGGTAGTTTCATCCCCGACCTACATGGCAACTTGTCTATGAAT
1 ATTGGTGGTTTCATCCACAACCTACATGGCAGCTTGTCTGTAAAT
* * *
16474288 -TTGGAGGTTT-ATCCACAACCTACATGACAGCTTG-CTTGTGAAT
1 ATTGGTGGTTTCATCCACAACCTACATGGCAGCTTGTC-TGTAAAT
*
16474331 ATTGGTGGCTTCATCCA
1 ATTGGTGGTTTCATCCA
16474348 ATTATATATT
Statistics
Matches: 125, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
42 1 0.01
43 26 0.21
44 55 0.44
45 43 0.34
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (45 bp):
ATTGGTGGTTTCATCCACAACCTACATGGCAGCTTGTCTGTAAAT
Found at i:16483774 original size:104 final size:104
Alignment explanation
Indices: 16483633--16483856 Score: 369
Period size: 104 Copynumber: 2.2 Consensus size: 104
16483623 CGTATATAAA
** * * *
16483633 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGGTCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
16483697 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
16483737 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
16483802 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
16483841 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
16483857 GATATCCATT
Statistics
Matches: 112, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
104 111 0.99
105 1 0.01
ACGTcount: A:0.17, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:16483908 original size:71 final size:72
Alignment explanation
Indices: 16483775--16483926 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
16483765 TCATTGGTGG
* *
16483775 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
16483840 GAGGGGT
66 GAGGGGT
***
16483847 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
16483911 GAGGGGT
66 GAGGGGT
16483918 TGCTAAGTG
1 TGCTAAGTG
16483927 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:16487365 original size:54 final size:57
Alignment explanation
Indices: 16487279--16487403 Score: 190
Period size: 54 Copynumber: 2.3 Consensus size: 57
16487269 AAATTATGAT
*
16487279 GAAAAA-AAA-AAAGAAGAAAAAAGCTCTCATGTTGTTCTTGG-CG-AATAG-AGAAA
1 GAAAAAGAAAGAAA-AAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAAATAGAAGAAA
16487332 GAAAAAGAAAGAAAAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAAATAGAAGAAA
1 GAAAAAGAAAGAAAAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAAATAGAAGAAA
16487389 GAAAAAG-AAGAAAAA
1 GAAAAAGAAAGAAAAA
16487404 GAGCTTTGAA
Statistics
Matches: 66, Mismatches: 1, Indels: 7
0.89 0.01 0.09
Matches are distributed among these distances:
53 6 0.09
54 30 0.45
55 5 0.08
56 13 0.20
57 12 0.18
ACGTcount: A:0.55, C:0.09, G:0.20, T:0.16
Consensus pattern (57 bp):
GAAAAAGAAAGAAAAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAAATAGAAGAAA
Found at i:16488653 original size:41 final size:40
Alignment explanation
Indices: 16488528--16488653 Score: 143
Period size: 42 Copynumber: 3.1 Consensus size: 40
16488518 GGATTGATAA
* *
16488528 CCGGGCTAAGT-CCGAGAGGCA-TTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGA-AGGCATTTGTGCGAGTTACTATA-T
*
16488567 ACGGGCTAAG-CCCGAAAGGCATTTGTGCGGAGTTACTTATAT
1 CCGGGCTAAGTCCCG-AAGGCATTTGTGC-GAGTTAC-TATAT
16488609 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TTACTATAT
16488650 CCGG
1 CCGG
16488654 TGAAAACACT
Statistics
Matches: 75, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
39 17 0.23
40 7 0.09
41 17 0.23
42 29 0.39
43 5 0.07
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:16492330 original size:40 final size:40
Alignment explanation
Indices: 16492286--16492513 Score: 363
Period size: 40 Copynumber: 5.7 Consensus size: 40
16492276 GCTACTAGCT
16492286 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
16492326 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
16492366 CAAGA-GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAA-ATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
16492406 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
16492446 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTTACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
16492485 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
16492514 CAATCCGAAT
Statistics
Matches: 176, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
38 1 0.01
39 35 0.20
40 138 0.78
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:16493702 original size:53 final size:53
Alignment explanation
Indices: 16493644--16493768 Score: 200
Period size: 53 Copynumber: 2.4 Consensus size: 53
16493634 CTCAAAGCTC
*
16493644 TTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCGAGAACAACATGAGAGCTTTT
1 TTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTT
*
16493697 TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTT
1 TTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTT
*
16493750 TTTCTTTCTT-TTTTT-TTTC
1 TTT-TTCCTTCTTTTTCTTTC
16493769 ATCATAATTT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
52 4 0.06
53 59 0.88
54 4 0.06
ACGTcount: A:0.15, C:0.21, G:0.10, T:0.54
Consensus pattern (53 bp):
TTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTT
Found at i:16510695 original size:48 final size:49
Alignment explanation
Indices: 16510593--16510717 Score: 154
Period size: 48 Copynumber: 2.7 Consensus size: 49
16510583 AGATGTAAGC
* ** *
16510593 CAGTATAAGA-CATGTCTGGGACAT-GCAT---CAGTTATGAGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATGAGAGGTGT
16510637 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATAT-AGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATGAGAGGTGT
* *
16510685 CAGTGTAAGACCATGTCTGAGACATGGAATCGG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGG
16510718 TACAAATATG
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
44 9 0.13
45 14 0.20
46 4 0.06
48 38 0.54
49 5 0.07
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATGAGAGGTGT
Found at i:16511985 original size:21 final size:20
Alignment explanation
Indices: 16511959--16511998 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
16511949 GTTATAATGA
16511959 CCACACGGGTGTGTTGCCCTT
1 CCACACGGGTGTG-TGCCCTT
16511980 CCACACGGGTGTGTGCCCT
1 CCACACGGGTGTGTGCCCT
16511999 GTTTTAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.10, C:0.35, G:0.30, T:0.25
Consensus pattern (20 bp):
CCACACGGGTGTGTGCCCTT
Found at i:16517414 original size:46 final size:46
Alignment explanation
Indices: 16517347--16517466 Score: 154
Period size: 46 Copynumber: 2.6 Consensus size: 46
16517337 TATGTGTGCT
* * *
16517347 AGTGTAAGACATGTCTGGGACATACATCGGCCA-C-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CATCGA-GACGAGAGCC
* **
16517393 AGTGTAAGTCATGTCTGGGACATGCATCGGCATCGAGACGAGAGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCC
16517439 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
16517467 AGCCTTGAGA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
45 2 0.03
46 62 0.95
47 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCC
Found at i:16517705 original size:49 final size:49
Alignment explanation
Indices: 16517574--16517758 Score: 148
Period size: 49 Copynumber: 3.8 Consensus size: 49
16517564 TTGATTTGCT
* *
16517574 AGCCAGAGTAAGACCATATCTGGGACATGGCATCGACATCGATAGATAAG
1 AGCCAGTGTAAGACC-TATCTGGGACATGGCATCGACATCGATAAATAAG
* * * * * *
16517624 AGCCAGTGTAGGACCTGTCTAGGATAAT-GCATCGGCCTCGATAAATGAA-
1 AGCCAGTGTAAGACCTATCTGGGA-CATGGCATCGACATCGATAAAT-AAG
* * * ***
16517673 AGTCAGTGTAAGACCTATCTGGGACATGGCATCGACTTTGAT--ATGCT
1 AGCCAGTGTAAGACCTATCTGGGACATGGCATCGACATCGATAAATAAG
*
16517720 AGCCAGTGTAA-A-CTATGTCTGGGACATGGCATCGGCATC
1 AGCCAGTGTAAGACCTA--TCTGGGACATGGCATCGACATC
16517759 TTATCCCATG
Statistics
Matches: 107, Mismatches: 22, Indels: 15
0.74 0.15 0.10
Matches are distributed among these distances:
45 3 0.03
46 1 0.01
47 31 0.29
48 2 0.02
49 53 0.50
50 17 0.16
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (49 bp):
AGCCAGTGTAAGACCTATCTGGGACATGGCATCGACATCGATAAATAAG
Found at i:16523670 original size:51 final size:52
Alignment explanation
Indices: 16523583--16523712 Score: 131
Period size: 51 Copynumber: 2.5 Consensus size: 52
16523573 CGGATGCCTG
* **
16523583 GTGGCCTACACATAGTACCACCCTTGT-AGTGAAAGCTACCTTATT-CACAAA
1 GTGGCCTACACATAGTACCACACTTGTGAGCCAAAGCTACCTT-TTACACAAA
* * ** *
16523634 GTGGCCTTCACATAGTACCACACTTGTGA-CCCAAGCTATGTTTTACACATA
1 GTGGCCTACACATAGTACCACACTTGTGAGCCAAAGCTACCTTTTACACAAA
* * *
16523685 GTGGCCTGCACTTAGTACCACACATGTG
1 GTGGCCTACACATAGTACCACACTTGTG
16523713 TTCGAAGCTA
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
50 2 0.03
51 63 0.95
52 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (52 bp):
GTGGCCTACACATAGTACCACACTTGTGAGCCAAAGCTACCTTTTACACAAA
Found at i:16523721 original size:51 final size:51
Alignment explanation
Indices: 16523628--16523802 Score: 149
Period size: 51 Copynumber: 3.5 Consensus size: 51
16523618 CTACCTTATT
* * * * **
16523628 CACAAAGTGGCCTTCACATAGTACCACACTTGTGACCCAAGCTAT-GTTTTA
1 CACATAGTGGCCTGCACTTAGTACCACACATGTGACCCAAGCTATCG-GGTA
** *
16523679 CACATAGTGGCCTGCACTTAGTACCACACATGTGTTCGAAGCTATCGGGTA
1 CACATAGTGGCCTGCACTTAGTACCACACATGTGACCCAAGCTATCGGGTA
* * * * * **
16523730 CGCATAGTAGCCTGCACTTAGTACTACACATGCT-ACCTAA-CCATCTAGTA
1 CACATAGTGGCCTGCACTTAGTACCACACATG-TGACCCAAGCTATCGGGTA
* *
16523780 CACATAGTAGCCTACACTTAGTA
1 CACATAGTGGCCTGCACTTAGTA
16523803 ACTACACACA
Statistics
Matches: 102, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
50 28 0.27
51 72 0.71
52 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (51 bp):
CACATAGTGGCCTGCACTTAGTACCACACATGTGACCCAAGCTATCGGGTA
Found at i:16531786 original size:47 final size:47
Alignment explanation
Indices: 16531733--16531839 Score: 205
Period size: 47 Copynumber: 2.3 Consensus size: 47
16531723 ACAAGATATG
*
16531733 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTA
16531780 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTA
16531827 TATATGTGATAAG
1 TATATGTGATAAG
16531840 TCCCGAAGGA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 59 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTA
Found at i:16533957 original size:49 final size:49
Alignment explanation
Indices: 16533784--16534028 Score: 310
Period size: 49 Copynumber: 4.9 Consensus size: 49
16533774 TCTATTGTGA
* * * *
16533784 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-T-T
* * * * **
16533835 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
*
16533884 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
** *
16533934 GGTCATGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
16533983 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
16534029 GCTTTCGCTA
Statistics
Matches: 168, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
49 86 0.51
50 45 0.27
51 37 0.22
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:16537096 original size:27 final size:27
Alignment explanation
Indices: 16537065--16537209 Score: 193
Period size: 27 Copynumber: 5.4 Consensus size: 27
16537055 GGGCAAAATT
* * *
16537065 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
16537092 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
*
16537119 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
*
16537146 GTAATTCTATCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
**
16537173 GTAATTCTACCCTA-AAGGGGTATTTTA
1 GTAATTCTACCCTACAA-GGGTATTTCG
16537200 GTAATTCTAC
1 GTAATTCTAC
16537210 AACTTATCCA
Statistics
Matches: 104, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.02
27 102 0.98
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCG
Found at i:16543835 original size:27 final size:26
Alignment explanation
Indices: 16543787--16543845 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
16543777 ACGAGGCTGC
*
16543787 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
16543814 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
16543840 CAGATA
1 CAGATA
16543846 CGTATATGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:16543889 original size:71 final size:67
Alignment explanation
Indices: 16543814--16543949 Score: 173
Period size: 67 Copynumber: 2.0 Consensus size: 67
16543804 TCACCAGATA
* * * *
16543814 CAGATATTGTGGCTAGGCCACCAGAACAGATACGTATATGTGGCGAAGCCAGCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG--A--TATATGTGGCGAAGCCACCAGATTGCAGCGA
16543879 GGCTAC
62 GGCTAC
* * *
16543885 CAGATATTGTGACGAAGTCACCAGAACAGATATGTGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
16543950 GCTAGAACAC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
67 32 0.55
69 1 0.02
71 25 0.43
ACGTcount: A:0.29, C:0.22, G:0.30, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
AC
Found at i:16543933 original size:27 final size:26
Alignment explanation
Indices: 16543885--16543936 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
16543875 GCGAGGCTAC
*
16543885 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
16543911 CAGATATGTGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
16543937 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:16544650 original size:27 final size:27
Alignment explanation
Indices: 16544613--16544730 Score: 164
Period size: 27 Copynumber: 4.4 Consensus size: 27
16544603 AGGGTTCTCA
*
16544613 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
16544640 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
16544667 GTAATTCTATCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* **
16544694 ATAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCG
16544721 GTAATTCTAC
1 GTAATTCTAC
16544731 AACTTATCCA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:16544684 original size:54 final size:54
Alignment explanation
Indices: 16544588--16544730 Score: 189
Period size: 54 Copynumber: 2.7 Consensus size: 54
16544578 GGCAAAATGG
* * * * *
16544588 TAATTTTACCCCAAAAGGGT-TCTCAGTAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGA
* * *
16544641 TATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTATAGGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGA
* *
16544695 TAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
16544731 AACTTATCCA
Statistics
Matches: 76, Mismatches: 13, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
53 16 0.21
54 60 0.79
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (54 bp):
TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGA
Found at i:16546910 original size:50 final size:50
Alignment explanation
Indices: 16546842--16546973 Score: 142
Period size: 52 Copynumber: 2.6 Consensus size: 50
16546832 ATCAGGTACG
* * *
16546842 CATAGTAGTCTGCACTTAGTACTACACATGCGACCT-AACCA-TCTAGTACA
1 CATAGTAGCCTACACTTAGTACTACACATGCGA-CTAAACCATTCTA-AACA
* * * *
16546892 CGTAGTAGCCTACACTTAGTACTACACACGTGACTGAAAACCATTTTAAACA
1 CATAGTAGCCTACACTTAGTACTACACATGCGACT--AAACCATTCTAAACA
*
16546944 CATAGTAGCCTACACATAGTACTACACATG
1 CATAGTAGCCTACACTTAGTACTACACATG
16546974 TGTTCTCACA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
49 2 0.03
50 28 0.41
52 35 0.51
53 3 0.04
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTACACTTAGTACTACACATGCGACTAAACCATTCTAAACA
Found at i:16559570 original size:15 final size:15
Alignment explanation
Indices: 16559546--16559577 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16559536 TATACATGCA
*
16559546 AAATATAAAAGACAT
1 AAATACAAAAGACAT
16559561 AAATACAAAAGACAT
1 AAATACAAAAGACAT
16559576 AA
1 AA
16559578 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:16561226 original size:27 final size:27
Alignment explanation
Indices: 16561151--16561227 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
16561141 TGCATACACA
* *
16561151 ACATAAGGGCAAAACAATCATCTTACC
1 ACATAAGGGCAAAATAATCATTTTACC
* *
16561178 ATATAAGGGCAAAATAGTCATTTTACC
1 ACATAAGGGCAAAATAATCATTTTACC
*
16561205 ACATAAGGGAAAAATAATCATTT
1 ACATAAGGGCAAAATAATCATTT
16561228 AATTAAATTG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.25
Consensus pattern (27 bp):
ACATAAGGGCAAAATAATCATTTTACC
Found at i:16565642 original size:20 final size:21
Alignment explanation
Indices: 16565617--16565655 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
16565607 TCCTTAAAAT
16565617 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
16565637 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
16565656 ACCAACTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.21, C:0.31, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:16566824 original size:47 final size:48
Alignment explanation
Indices: 16566753--16567018 Score: 223
Period size: 47 Copynumber: 5.7 Consensus size: 48
16566743 TGGGTAAGGT
* *
16566753 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATCTC-AA
1 GCCGATGACATGTCCCAGACATGGTCTTACACTGGCTCACATCTCGAA
* * *
16566800 GTCGATGACATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTA
1 GCCGATGACATGTCCCAGACATGGTCTTACACTGGCTCA-CATCTCGAA
* *
16566848 GCCGAT-ACATGTCCCAGACAT-GTCTTACACTGGCTTA-AGTCTCGAG
1 GCCGATGACATGTCCCAGACATGGTCTTACACTGGCTCACA-TCTCGAA
* * * *
16566894 GCCGATG-CATGTCCCAGATAT-GTCTCACACTAGCTCTCATCTC-AA
1 GCCGATGACATGTCCCAGACATGGTCTTACACTGGCTCACATCTCGAA
** * * * * **
16566939 TGTTGATGCCATGTCCTAGACATGGTCTTACACTTGCTC-CAATAAT-GTG
1 -GCCGATGACATGTCCCAGACATGGTCTTACACTGGCTCAC-AT-CTCGAA
*
16566988 GCCAATG-CATGTCCCAGACAT-GTCTTACACT
1 GCCGATGACATGTCCCAGACATGGTCTTACACT
16567019 AGCCAACAAC
Statistics
Matches: 179, Mismatches: 28, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
45 2 0.01
46 69 0.39
47 82 0.46
48 25 0.14
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGACATGTCCCAGACATGGTCTTACACTGGCTCACATCTCGAA
Found at i:16567013 original size:140 final size:141
Alignment explanation
Indices: 16566753--16567018 Score: 344
Period size: 140 Copynumber: 1.9 Consensus size: 141
16566743 TGGGTAAGGT
* * *
16566753 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATCTCAAGTCGATGACATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTCACACTAGCTCACATCTCAAGTCGATGACATGTCCCAG
* * *
16566818 ACATGGTCTTACACTGACTATCATCTCGTAGCCGATACATGTCCCAGACATGTCTTACACTGGCT
66 ACATGGTCTTACACTGACTACCATATCGTAGCCAATACATGTCCCAGACATGTCTTACACTGGCT
16566883 TAAGTCTCGAG
131 TAAGTCTCGAG
* * * * *
16566894 GCCGATG-CATGTCCCAGATAT-GTCTCACACTAGCTCTCATCTCAATGTTGATGCCATGTCCTA
1 GCCGATGCCATGTCCCAGACATGGTCTCACACTAGCTCACATCTCAA-GTCGATGACATGTCCCA
* *
16566957 GACATGGTCTTACACTTG-CT-CCAATAAT-GTGGCCAATGCATGTCCCAGACATGTCTTACACT
65 GACATGGTCTTACAC-TGACTACC-AT-ATCGTAGCCAATACATGTCCCAGACATGTCTTACACT
16567019 AGCCAACAAC
Statistics
Matches: 108, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
139 22 0.20
140 76 0.70
141 10 0.09
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (141 bp):
GCCGATGCCATGTCCCAGACATGGTCTCACACTAGCTCACATCTCAAGTCGATGACATGTCCCAG
ACATGGTCTTACACTGACTACCATATCGTAGCCAATACATGTCCCAGACATGTCTTACACTGGCT
TAAGTCTCGAG
Found at i:16576855 original size:52 final size:51
Alignment explanation
Indices: 16576724--16576855 Score: 185
Period size: 50 Copynumber: 2.6 Consensus size: 51
16576714 ATGTGTTTTG
* *
16576724 CATTAAATAAAGTCTTGCATTATGTAACTCTCATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCAT
* * * *
16576775 -AATAAATTATGACATGCTTTATGTAACTCTCATGTTAGTTAAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCTCATGTTAGTT-AAGTTTGCAT
*
16576826 CATTAAATTAAGTCATGCATTAAGTAACTC
1 CATTAAATTAAGTCATGCATTATGTAACTC
16576856 ATTTGTTCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 34 0.50
51 10 0.15
52 24 0.35
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCAT
Found at i:16578412 original size:28 final size:28
Alignment explanation
Indices: 16578376--16578461 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 28
16578366 TACACACATG
*
16578376 CATACGGCCCACTAGGCCCAATCTCATT
1 CATATGGCCCACTAGGCCCAATCTCATT
* *
16578404 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCACTAGGCCC-AATCTCATT
* * *
16578433 CATATTGCCCATCTAGACCGAATCT-ATT
1 CATATGGCCCA-CTAGGCCCAATCTCATT
16578461 C
1 C
16578462 CAAGCCATGT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 21 0.44
29 22 0.46
30 5 0.10
ACGTcount: A:0.28, C:0.34, G:0.13, T:0.26
Consensus pattern (28 bp):
CATATGGCCCACTAGGCCCAATCTCATT
Found at i:16578437 original size:29 final size:28
Alignment explanation
Indices: 16578370--16578444 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
16578360 CAAGTCTACA
* * *
16578370 CACATGCATACGGCCCACTAGGCCCAAT
1 CACATTCATATGGCCCATTAGGCCCAAT
*
16578398 CTCATTCATATGGCCCATTAGGCCCAAAT
1 CACATTCATATGGCCCATTAGGCCC-AAT
*
16578427 CACATTCATATTGCCCAT
1 CACATTCATATGGCCCAT
16578445 CTAGACCGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 21 0.52
29 19 0.47
ACGTcount: A:0.28, C:0.35, G:0.13, T:0.24
Consensus pattern (28 bp):
CACATTCATATGGCCCATTAGGCCCAAT
Found at i:16581241 original size:15 final size:16
Alignment explanation
Indices: 16581216--16581250 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
16581206 ATTACACCCC
*
16581216 AAATAAAAAAAATTTA
1 AAATAAAAAAAATTAA
16581232 AAAT-AAAAAAATTAA
1 AAATAAAAAAAATTAA
16581247 AAAT
1 AAAT
16581251 TACATAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAAAAAAATTAA
Found at i:16582233 original size:28 final size:29
Alignment explanation
Indices: 16582190--16582281 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 29
16582180 CAAGTCTACA
* * *
16582190 CACATGCATATAGCCCACTAGGCCC-AAT
1 CACATTCATATGGCCCACTAAGCCCAAAT
* *
16582218 CTCATTCATATGGCCCATTAAGCCCAAAT
1 CACATTCATATGGCCCACTAAGCCCAAAT
* *
16582247 CACATTCATATGGCTCATCT-AGCCCGAAT
1 CACATTCATATGGCCCA-CTAAGCCCAAAT
16582276 CA-ATTC
1 CACATTC
16582282 CAAGCCATGT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
28 24 0.45
29 28 0.53
30 1 0.02
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.25
Consensus pattern (29 bp):
CACATTCATATGGCCCACTAAGCCCAAAT
Found at i:16584777 original size:40 final size:40
Alignment explanation
Indices: 16584703--16584924 Score: 251
Period size: 39 Copynumber: 5.7 Consensus size: 40
16584693 GGCTACCGTT
*
16584703 CAAATGCCTTC-GGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
16584742 CAAATGCCTTCGGGACTTAACCCGGATTTACTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
16584782 CAAATGCCTTCGGGAC-TAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
16584821 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
16584860 CAAATG-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
16584900 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16584925 CATCATTCAA
Statistics
Matches: 156, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
37 2 0.01
38 5 0.03
39 84 0.54
40 60 0.38
41 5 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:16584794 original size:79 final size:78
Alignment explanation
Indices: 16584703--16584924 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 78
16584693 GGCTACCGTT
*
16584703 CAAATGCCTTCGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGAC-TAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
16584768 TTTACTAACTCGCA
65 ATTACTAACTCGCA
* * *
16584782 CAAATGCCTTCGGGACTAACCCGGATT-TAGTAACTCGTACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTC-GGACTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
16584845 AATTAGTATCTCGCA
64 AATTACTAACTCGCA
* * * * *
16584860 CAAATG-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-C-TAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
16584923 GA
63 GA
16584925 CATCATTCAA
Statistics
Matches: 121, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
76 3 0.02
77 6 0.05
78 47 0.39
79 59 0.49
80 6 0.05
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGACTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTACTAACTCGCA
Found at i:16599809 original size:47 final size:47
Alignment explanation
Indices: 16599755--16599948 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
16599745 TTAGGATTTT
** * **
16599755 ATGTGATGAATGTGAATGTGTATATATGAAATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
16599802 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
16599849 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
16599896 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
16599943 ATGTGA
1 ATGTGA
16599949 AATATGTATG
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:16599904 original size:25 final size:25
Alignment explanation
Indices: 16599829--16599904 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
16599819 ATGCATATAT
16599829 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
16599854 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
16599876 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
16599901 GTGA
1 GTGA
16599905 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:16600073 original size:98 final size:96
Alignment explanation
Indices: 16599919--16600102 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 96
16599909 GAACATGCAT
* *
16599919 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATATGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
16599984 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
16600015 ATATGTGGTAAAGCCGAATGG-TCAATATGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATATG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
**
16600079 CGAATGGCTTGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
16600103 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 26 0.32
97 2 0.02
98 52 0.64
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATATGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:16600118 original size:50 final size:48
Alignment explanation
Indices: 16599918--16600102 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
16599908 TGAACATGCA
16599918 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
16599966 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
16600014 CATATGTGGTAAAGCCGAATGG-TCAATATGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
**
16600064 TATATGTGGTAAAGCCGAATGGCTTGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
16600103 GGCGATGTGC
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 80 0.64
49 4 0.03
50 39 0.31
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:16600393 original size:37 final size:37
Alignment explanation
Indices: 16600248--16600392 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
16600238 GGAAATATAT
*
16600248 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
16600285 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
16600322 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
16600359 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
16600393 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:16604343 original size:29 final size:29
Alignment explanation
Indices: 16604311--16604387 Score: 136
Period size: 29 Copynumber: 2.7 Consensus size: 29
16604301 AATCATATTC
*
16604311 ATATGGCCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
16604340 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
16604369 ATATGGCCCATTAGGCCCA
1 ATATGGCCCATTAGGCCCA
16604388 GTCACATTCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:16605934 original size:16 final size:17
Alignment explanation
Indices: 16605902--16605940 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
16605892 ATAAAGAAAG
16605902 TTTGGGATTTCAAGATT
1 TTTGGGATTTCAAGATT
*
16605919 TTTGGG-TTTCAGGATT
1 TTTGGGATTTCAAGATT
16605935 TTTGGG
1 TTTGGG
16605941 GTGTTACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.15, C:0.05, G:0.31, T:0.49
Consensus pattern (17 bp):
TTTGGGATTTCAAGATT
Found at i:16606797 original size:14 final size:13
Alignment explanation
Indices: 16606777--16606813 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
16606767 AATACTTGAT
16606777 TTGTTCTTAATTA
1 TTGTTCTTAATTA
16606790 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
16606804 TTGTT-TTAAT
1 TTGTTCTTAAT
16606814 ATTCCAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:16611108 original size:21 final size:21
Alignment explanation
Indices: 16611063--16611114 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
16611053 TTTACTCTGT
* *
16611063 TTTTTATTCTTTTGCTTTTGC
1 TTTTTATTCTTTTACTTTAGC
*
16611084 TTTTTATTCTTTTAACTTTAGT
1 TTTTTATTCTTTT-ACTTTAGC
16611106 TTTATTATT
1 TTT-TTATT
16611115 AGTATTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 13 0.50
22 8 0.31
23 5 0.19
ACGTcount: A:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (21 bp):
TTTTTATTCTTTTACTTTAGC
Found at i:16612732 original size:20 final size:20
Alignment explanation
Indices: 16612709--16612747 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16612699 AAGACTTTAC
* *
16612709 TTTATTTTTATTTTTATTTG
1 TTTACTTTTATCTTTATTTG
16612729 TTTACTTTTATCTTTATTT
1 TTTACTTTTATCTTTATTT
16612748 ACCTTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTACTTTTATCTTTATTTG
Found at i:16628459 original size:14 final size:14
Alignment explanation
Indices: 16628440--16628473 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
16628430 TTAAATCTGC
16628440 TAAAAATATAAAAA-
1 TAAAAATA-AAAAAT
16628454 TAAAAATAAAAAAT
1 TAAAAATAAAAAAT
16628468 TAAAAA
1 TAAAAA
16628474 GTAGTTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAAAATAAAAAAT
Found at i:16640968 original size:49 final size:49
Alignment explanation
Indices: 16640896--16641070 Score: 233
Period size: 49 Copynumber: 3.5 Consensus size: 49
16640886 CTCGTACGCA
* * *
16640896 TAGTAGCCTGCACTTAGTGCTACACATGCGACCAATAATCGGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCGGGTACACG
* * * * * *
16640945 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTTGGGTACGCG
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATCGGGTACACG
*
16640996 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCGGGTACACG
*
16641045 TAGTAGCTTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
16641071 CGTGACCTCA
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 65 0.61
50 2 0.02
51 40 0.37
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCGGGTACACG
Found at i:16641010 original size:100 final size:100
Alignment explanation
Indices: 16640889--16641075 Score: 320
Period size: 100 Copynumber: 1.9 Consensus size: 100
16640879 AAGCTATCTC
* *
16640889 GTACGCATAGTAGCCTGCACTTAGTGCTACACATGCGACCAATAATCGGGTACATGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCGGGTACACGTAGTAGCCT
16640954 GCACTTAGTACTACACACGTGATCACAGTTTTTGG
66 GCACTTAGTACTACACACGTGATCACAGTTTTTGG
* * * *
16640989 GTACGCGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCTT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCGGGTACACGTAGTAGCCT
16641054 GCACTTAGTACTACACACGTGA
66 GCACTTAGTACTACACACGTGA
16641076 CCTCACAATA
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (100 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCGGGTACACGTAGTAGCCT
GCACTTAGTACTACACACGTGATCACAGTTTTTGG
Found at i:16643131 original size:15 final size:15
Alignment explanation
Indices: 16643108--16643152 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
16643098 AAGAAAATCG
16643108 AATAAAGAAATCCAA
1 AATAAAGAAATCCAA
* *
16643123 AATAGAGAAA-CCTAT
1 AATAAAGAAATCC-AA
16643138 AATAAAGAAATCCAA
1 AATAAAGAAATCCAA
16643153 GATACGATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 2 0.08
15 20 0.83
16 2 0.08
ACGTcount: A:0.62, C:0.13, G:0.09, T:0.16
Consensus pattern (15 bp):
AATAAAGAAATCCAA
Done.