Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 45 of 163
Found at i:14559296 original size:22 final size:22
Alignment explanation
Indices: 14559271--14559316 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
14559261 ATATATGAGA
14559271 AAGGATGTACCAACACGTATTT
1 AAGGATGTACCAACACGTATTT
14559293 AAGGATGTACCAACACGTATTT
1 AAGGATGTACCAACACGTATTT
14559315 AA
1 AA
14559317 TTCTAGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.26
Consensus pattern (22 bp):
AAGGATGTACCAACACGTATTT
Found at i:14580683 original size:13 final size:13
Alignment explanation
Indices: 14580638--14580685 Score: 62
Period size: 13 Copynumber: 3.6 Consensus size: 13
14580628 TGTCGTGGAT
*
14580638 TATTATTTTTATA
1 TATTATTTTTTTA
14580651 TATTCATTTTGTTTA
1 TATT-ATTTT-TTTA
14580666 T-TTATTTTTTTA
1 TATTATTTTTTTA
14580678 TATTATTT
1 TATTATTT
14580686 ATATGCCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 5 0.16
13 15 0.48
14 7 0.23
15 4 0.13
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (13 bp):
TATTATTTTTTTA
Found at i:14583277 original size:19 final size:19
Alignment explanation
Indices: 14583253--14583295 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
14583243 AGTGAGTACG
*
14583253 TAATTTTTATTTAATTTGA
1 TAATTTTTATTTAATTGGA
14583272 TAATTTTTATTTAATTGGA
1 TAATTTTTATTTAATTGGA
14583291 TAATT
1 TAATT
14583296 AGTTAAGTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (19 bp):
TAATTTTTATTTAATTGGA
Found at i:14593459 original size:17 final size:17
Alignment explanation
Indices: 14593439--14593496 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 17
14593429 ATGTAATAAC
14593439 TTTCATAAACATATGCT
1 TTTCATAAACATATGCT
*
14593456 TTTCAT-ATCATA---T
1 TTTCATAAACATATGCT
14593469 TTTCATATAACATATGCAT
1 TTTCATA-AACATATGC-T
*
14593488 TTCCATAAA
1 TTTCATAAA
14593497 AAATCATCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 11
0.70 0.07 0.24
Matches are distributed among these distances:
13 7 0.22
15 5 0.16
16 5 0.16
17 6 0.19
18 2 0.06
19 7 0.22
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.43
Consensus pattern (17 bp):
TTTCATAAACATATGCT
Found at i:14593687 original size:25 final size:25
Alignment explanation
Indices: 14593659--14593729 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
14593649 AAACACTCTC
* *
14593659 GAGCCATATAACAGGATGCTCATGT
1 GAGCCATATAACAGGAAGCTCATCT
* * *
14593684 GAGCCATGTAACAGTAAGCTTATCT
1 GAGCCATATAACAGGAAGCTCATCT
*
14593709 GAG-C-TATAACAGGAAACTCAT
1 GAGCCATATAACAGGAAGCTCAT
14593730 AAGAGTTTAG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
23 13 0.35
24 1 0.03
25 23 0.62
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATCT
Found at i:14593862 original size:25 final size:24
Alignment explanation
Indices: 14593826--14593877 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
14593816 AAGTTCAAGT
14593826 GAGCCATATCAGGAAGCTCACAAA
1 GAGCCATATCAGGAAGCTCACAAA
* *
14593850 GAGCCTATATCAGGATGCTCATAAA
1 GAGCC-ATATCAGGAAGCTCACAAA
14593875 GAG
1 GAG
14593878 TTGCGGTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (24 bp):
GAGCCATATCAGGAAGCTCACAAA
Found at i:14602591 original size:23 final size:23
Alignment explanation
Indices: 14602565--14602609 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
14602555 TTTGAAGTTT
14602565 TTGTGGCATATTCTGAAATGCCC
1 TTGTGGCATATTCTGAAATGCCC
* *
14602588 TTGTGGCATATTTTGTAATGCC
1 TTGTGGCATATTCTGAAATGCC
14602610 TTGGAGACGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (23 bp):
TTGTGGCATATTCTGAAATGCCC
Found at i:14607408 original size:41 final size:42
Alignment explanation
Indices: 14607344--14607466 Score: 130
Period size: 41 Copynumber: 3.0 Consensus size: 42
14607334 CCTTGAGTTC
14607344 AACAGGC-TTCATGCCGGTGAATTATATCAGGCTCTGAGCCT
1 AACAGGCTTTCATGCCGGTGAATTATATCAGGCTCTGAGCCT
* * * *
14607385 AATAGG-TTTCATGCCGGTGAATTACATCAAGC-CTTGAGCTT
1 AACAGGCTTTCATGCCGGTGAATTATATCAGGCTC-TGAGCCT
* * * *
14607426 AGCAGGCTTT-GTGCC-GTGTATTATATCAGGCTTTGAGCCT
1 AACAGGCTTTCATGCCGGTGAATTATATCAGGCTCTGAGCCT
14607466 A
1 A
14607467 GAAAACTTCG
Statistics
Matches: 66, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
40 21 0.32
41 42 0.64
42 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (42 bp):
AACAGGCTTTCATGCCGGTGAATTATATCAGGCTCTGAGCCT
Found at i:14607481 original size:81 final size:82
Alignment explanation
Indices: 14607333--14607486 Score: 188
Period size: 81 Copynumber: 1.9 Consensus size: 82
14607323 AATGAATCGG
***
14607333 GCCTTGAGTTCAACAGGCTTCATGCCGGTGAATTATATCAGGCTCTGAGCCTAATAGGTTTCATG
1 GCCTTGAGTTCAACAGGCTTCATGCCGGTGAATTATATCAGGCTCTGAGCCTAATAAACTTCATG
14607398 CCGGTGAATTACATCAA
66 CCGGTGAATTACATCAA
* ** * * *
14607415 GCCTTGAGCTT-AGCAGGCTTTGTGCC-GTGTATTATATCAGGCTTTGAGCCTAGA-AAACTTCG
1 GCCTTGAG-TTCAACAGGCTTCATGCCGGTGAATTATATCAGGCTCTGAGCCTA-ATAAACTTCA
14607477 TGCCGGTGAA
64 TGCCGGTGAA
14607487 CTGTATCATG
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
81 38 0.62
82 21 0.34
83 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.30
Consensus pattern (82 bp):
GCCTTGAGTTCAACAGGCTTCATGCCGGTGAATTATATCAGGCTCTGAGCCTAATAAACTTCATG
CCGGTGAATTACATCAA
Found at i:14607580 original size:40 final size:40
Alignment explanation
Indices: 14607525--14607613 Score: 171
Period size: 40 Copynumber: 2.2 Consensus size: 40
14607515 TTGTTTCAAG
14607525 TATATTATGAGATTGAAAATGTTCTTGGGCTATATGATTT
1 TATATTATGAGATTGAAAATGTTCTTGGGCTATATGATTT
14607565 TATATTATGAGATTGAAAATGTTCTTGGGCTATATGATTT
1 TATATTATGAGATTGAAAATGTTCTTGGGCTATATGATTT
14607605 TATA-TATGA
1 TATATTATGA
14607614 AGTTTTAGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 5 0.10
40 44 0.90
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.45
Consensus pattern (40 bp):
TATATTATGAGATTGAAAATGTTCTTGGGCTATATGATTT
Found at i:14609253 original size:20 final size:20
Alignment explanation
Indices: 14609228--14609272 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
14609218 TAATCACCCT
14609228 TTAAACCTATCCAAAACACA
1 TTAAACCTATCCAAAACACA
**
14609248 TTAAACCTATCCTTAACACA
1 TTAAACCTATCCAAAACACA
14609268 TTAAA
1 TTAAA
14609273 ACATGCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (20 bp):
TTAAACCTATCCAAAACACA
Found at i:14610082 original size:13 final size:13
Alignment explanation
Indices: 14610064--14610210 Score: 120
Period size: 13 Copynumber: 11.0 Consensus size: 13
14610054 CATATCTATC
*
14610064 CATATAAACATTT
1 CATATAATCATTT
* *
14610077 CATATAAGCAATT
1 CATATAATCATTT
*
14610090 CATCTAA-CTATTT
1 CATATAATC-ATTT
* *
14610103 CCATATAACCAATT
1 -CATATAATCATTT
*
14610117 CATATAATCATTC
1 CATATAATCATTT
14610130 CATAT-ATCTATTT
1 CATATAATC-ATTT
*
14610143 CCATATAATCAATT
1 -CATATAATCATTT
14610157 CATATAATCATTT
1 CATATAATCATTT
**
14610170 TTTATAATCATTTT
1 CATATAATCA-TTT
14610184 CCATATAATCGA-TT
1 -CATATAATC-ATTT
14610198 CATATAATCATTT
1 CATATAATCATTT
14610211 TTCACATAGT
Statistics
Matches: 108, Mismatches: 16, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
12 5 0.05
13 69 0.64
14 22 0.20
15 11 0.10
16 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.01, T:0.42
Consensus pattern (13 bp):
CATATAATCATTT
Found at i:14610106 original size:40 final size:40
Alignment explanation
Indices: 14610062--14610209 Score: 138
Period size: 40 Copynumber: 3.7 Consensus size: 40
14610052 TACATATCTA
* *
14610062 TCCATATAAACATTTCATATAAGCAATT-CATCTAACTATT
1 TCCATATAAACAATTCATATAAGC-ATTCCATATAACTATT
* * *
14610102 TCCATATAACCAATTCATATAATCATTCCATATATCTATT
1 TCCATATAAACAATTCATATAAGCATTCCATATAACTATT
* * ***
14610142 TCCATATAATCAATTCATATAATCATTTTTTATAA-TCATTT
1 TCCATATAAACAATTCATATAAGCATTCCATATAACT-A-TT
* * *
14610183 TCCATATAATCGATTCATATAATCATT
1 TCCATATAAACAATTCATATAAGCATT
14610210 TTTCACATAG
Statistics
Matches: 94, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 62 0.66
41 28 0.30
ACGTcount: A:0.38, C:0.19, G:0.01, T:0.42
Consensus pattern (40 bp):
TCCATATAAACAATTCATATAAGCATTCCATATAACTATT
Found at i:14610110 original size:27 final size:27
Alignment explanation
Indices: 14610064--14610210 Score: 122
Period size: 27 Copynumber: 5.5 Consensus size: 27
14610054 CATATCTATC
* *
14610064 CATATAAACATTT-CATATAAGCAATT
1 CATATAATCATTTCCATATAACCAATT
*
14610090 CATCTAA-CTATTTCCATATAACCAATT
1 CATATAATC-ATTTCCATATAACCAATT
* * *
14610117 CATATAATCA-TTCCATATATCTATTT
1 CATATAATCATTTCCATATAACCAATT
* * *
14610143 CCATATAATCAATT-CATATAATCATTT
1 -CATATAATCATTTCCATATAACCAATT
** * *
14610170 TTTATAATCATTTTCCATATAATCGATT
1 CATATAATCA-TTTCCATATAACCAATT
14610198 CATATAATCATTT
1 CATATAATCATTT
14610211 TTCACATAGT
Statistics
Matches: 98, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
25 1 0.01
26 31 0.32
27 44 0.45
28 22 0.22
ACGTcount: A:0.38, C:0.18, G:0.01, T:0.42
Consensus pattern (27 bp):
CATATAATCATTTCCATATAACCAATT
Found at i:14610192 original size:28 final size:28
Alignment explanation
Indices: 14610100--14610239 Score: 112
Period size: 28 Copynumber: 5.1 Consensus size: 28
14610090 CATCTAACTA
* *
14610100 TTTCCATATAACCAATTCATATAATCA-
1 TTTCCATATAATCGATTCATATAATCAT
*
14610127 -TTCCATAT-ATCTATTTCCATATAATCA-
1 TTTCCATATAATCGA-TT-CATATAATCAT
* **
14610154 ATT-CATATAATC-ATTTTTTATAATCAT
1 TTTCCATATAATCGA-TTCATATAATCAT
14610181 TTTCCATATAATCGATTCATATAATCAT
1 TTTCCATATAATCGATTCATATAATCAT
* * * * *
14610209 TTTTCACATAGTTGATTCATATAAACAT
1 TTTCCATATAATCGATTCATATAATCAT
14610237 TTT
1 TTT
14610240 AAATATTCAT
Statistics
Matches: 94, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
25 3 0.03
26 18 0.19
27 21 0.22
28 51 0.54
29 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.45
Consensus pattern (28 bp):
TTTCCATATAATCGATTCATATAATCAT
Found at i:14610199 original size:41 final size:40
Alignment explanation
Indices: 14610097--14610212 Score: 162
Period size: 40 Copynumber: 2.9 Consensus size: 40
14610087 ATTCATCTAA
* ***
14610097 CTATTTCCATATAACCAATTCATATAATCATTCCATATAT
1 CTATTTCCATATAATCAATTCATATAATCATTTTTTATAT
14610137 CTATTTCCATATAATCAATTCATATAATCATTTTTTATAAT
1 CTATTTCCATATAATCAATTCATATAATCATTTTTTAT-AT
*
14610178 C-ATTTTCCATATAATCGATTCATATAATCATTTTT
1 CTA-TTTCCATATAATCAATTCATATAATCATTTTT
14610213 CACATAGTTG
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
40 35 0.51
41 34 0.49
ACGTcount: A:0.35, C:0.18, G:0.01, T:0.46
Consensus pattern (40 bp):
CTATTTCCATATAATCAATTCATATAATCATTTTTTATAT
Found at i:14610232 original size:41 final size:41
Alignment explanation
Indices: 14610100--14610214 Score: 155
Period size: 41 Copynumber: 2.8 Consensus size: 41
14610090 CATCTAACTA
* *
14610100 TTTCCATATAACCAATTCATATAATCA--TTCCATATATC-T
1 TTTCCATATAATCAATTCATATAATCATTTTTCATA-ATCAT
*
14610139 ATTTCCATATAATCAATTCATATAATCATTTTTTATAATCAT
1 -TTTCCATATAATCAATTCATATAATCATTTTTCATAATCAT
*
14610181 TTTCCATATAATCGATTCATATAATCATTTTTCA
1 TTTCCATATAATCAATTCATATAATCATTTTTCA
14610215 CATAGTTGAT
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
40 26 0.39
41 35 0.52
42 6 0.09
ACGTcount: A:0.36, C:0.18, G:0.01, T:0.45
Consensus pattern (41 bp):
TTTCCATATAATCAATTCATATAATCATTTTTCATAATCAT
Found at i:14611712 original size:35 final size:35
Alignment explanation
Indices: 14611660--14611726 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
14611650 ACTTGATGCC
*
14611660 ATAGTGTCTTTCAACTATTATCTTACTCATTTTCT
1 ATAGTGTCTTTCAACTATGATCTTACTCATTTTCT
* *
14611695 ATAGTGTCTTT-ATACTATGGTCTTATTCATTT
1 ATAGTGTCTTTCA-ACTATGATCTTACTCATTT
14611727 CCATCATGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 1 0.04
35 27 0.96
ACGTcount: A:0.22, C:0.16, G:0.09, T:0.52
Consensus pattern (35 bp):
ATAGTGTCTTTCAACTATGATCTTACTCATTTTCT
Found at i:14611856 original size:45 final size:45
Alignment explanation
Indices: 14611746--14611859 Score: 147
Period size: 45 Copynumber: 2.5 Consensus size: 45
14611736 TTCCATAGTT
* * * *
14611746 TCTTTCAACTATGATCTTACACGTTTAAATCGTGATGCCATAGCG
1 TCTTTCAACTATGGTCTTACTCGTTTAAATCATGATGCCATAACG
* * *
14611791 TCTTTCAACTATGGTTTTACTCGTTTGATTCATGATGCCATAACG
1 TCTTTCAACTATGGTCTTACTCGTTTAAATCATGATGCCATAACG
* *
14611836 TCTTTCGACCATGGTCTTACTCGT
1 TCTTTCAACTATGGTCTTACTCGT
14611860 ATTTCAACCA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (45 bp):
TCTTTCAACTATGGTCTTACTCGTTTAAATCATGATGCCATAACG
Found at i:14612647 original size:13 final size:13
Alignment explanation
Indices: 14612629--14612653 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14612619 TAGGCTTTTG
14612629 TTTTGTTTAATTT
1 TTTTGTTTAATTT
14612642 TTTTGTTTAATT
1 TTTTGTTTAATT
14612654 ATCAAATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (13 bp):
TTTTGTTTAATTT
Found at i:14616237 original size:23 final size:23
Alignment explanation
Indices: 14616198--14616269 Score: 82
Period size: 21 Copynumber: 3.3 Consensus size: 23
14616188 TACCAATAGT
*
14616198 AATAATAAAATAAAGA-AAAT-A
1 AATAATAAAATAATGAGAAATAA
14616219 AATAA-ATAAATAATGAGAAATAA
1 AATAATA-AAATAATGAGAAATAA
14616242 AATAATAAAATAAT-A-AAATAA
1 AATAATAAAATAATGAGAAATAA
*
14616263 AAAAATA
1 AATAATA
14616270 TATCAAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
20 1 0.02
21 25 0.56
22 5 0.11
23 13 0.29
24 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (23 bp):
AATAATAAAATAATGAGAAATAA
Found at i:14616248 original size:8 final size:8
Alignment explanation
Indices: 14616198--14616269 Score: 64
Period size: 8 Copynumber: 9.5 Consensus size: 8
14616188 TACCAATAGT
14616198 AATAATAA
1 AATAATAA
*
14616206 AATAA-AG
1 AATAATAA
14616213 AA-AAT-A
1 AATAATAA
14616219 AATAA-ATA
1 AATAATA-A
*
14616227 AATAATGA
1 AATAATAA
*
14616235 GA-AATAA
1 AATAATAA
14616242 AATAATAA
1 AATAATAA
14616250 AATAATAA
1 AATAATAA
*
14616258 AATAAAAA
1 AATAATAA
14616266 AATA
1 AATA
14616270 TATCAAATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
6 4 0.08
7 10 0.20
8 37 0.73
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (8 bp):
AATAATAA
Found at i:14616269 original size:13 final size:13
Alignment explanation
Indices: 14616201--14616269 Score: 54
Period size: 13 Copynumber: 5.3 Consensus size: 13
14616191 CAATAGTAAT
14616201 AATAAAATAAAGAA
1 AATAAAATAAA-AA
*
14616215 AAT-AAATAAATA
1 AATAAAATAAAAA
* *
14616227 AATAATGAGAAATAA
1 AATAA-AATAAA-AA
*
14616242 AAT--AATAAAAT
1 AATAAAATAAAAA
14616253 AATAAAATAAAAA
1 AATAAAATAAAAA
14616266 AATA
1 AATA
14616270 TATCAAATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
11 4 0.10
12 8 0.19
13 19 0.45
14 7 0.17
15 4 0.10
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.20
Consensus pattern (13 bp):
AATAAAATAAAAA
Found at i:14622141 original size:20 final size:20
Alignment explanation
Indices: 14622116--14622155 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14622106 CGGAAAATGA
*
14622116 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
14622136 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
14622156 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:14622250 original size:22 final size:24
Alignment explanation
Indices: 14622225--14622275 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
14622215 TTATTTATAA
14622225 ATAAATAA-A-TCAA-ATT-AAAT
1 ATAAATAATACTCAATATTAAAAT
14622245 ATATAATAATACTCAATTATTAAAAT
1 ATA-AATAATACTCAA-TATTAAAAT
14622271 ATAAA
1 ATAAA
14622276 AGCATTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 1 0.04
23 4 0.16
25 5 0.20
26 7 0.28
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATAATACTCAATATTAAAAT
Found at i:14626429 original size:184 final size:183
Alignment explanation
Indices: 14626114--14626629 Score: 762
Period size: 184 Copynumber: 2.8 Consensus size: 183
14626104 TTAGCAATGA
* * * * * *
14626114 ATATCAATATACCCAACAATTCGGTAATGTATAACCATTCATGAATCAAGATCGGCAATATATAA
1 ATATCCATATACCAAACAATTCGGCAATGTATAACCATACACGAATCAAGATCGACAATATATAA
* * *
14626179 TCATACACAAATCAAATTCGACATCTTATATTCATAAACAATTCACTATCAACAATATATAACCA
66 TCATACACAAATCAAATTCGGCATCCTATATTCATAAACAATTCACTATCGACAATATATAACCA
*
14626244 AGTACGAATTAATTTCAGTAATGTACAACCTTGTACGAATCAAGTCAGGAACTT
131 AGTAC-AATTAATTTCAGTAATGTACAACCTTGTACGAATCAAGTCAGCAACTT
* *
14626298 ATATCCATATACCAAACAATTTGGCAATGTATAACCATAAACGAATCAAGATCGACAATATATAA
1 ATATCCATATACCAAACAATTCGGCAATGTATAACCATACACGAATCAAGATCGACAATATATAA
*
14626363 TCATACACAAATTAAATTCGGCATCCTATATTCATAAACAATTCACTATCGACAATATATAACCA
66 TCATACACAAATCAAATTCGGCATCCTATATTCATAAACAATTCACTATCGACAATATATAACCA
* *
14626428 AGTACAAATTAATTTTAGTAATGTACAACCTTGTACGAATCAATTCAGCAACTT
131 AGTAC-AATTAATTTCAGTAATGTACAACCTTGTACGAATCAAGTCAGCAACTT
* * * *
14626482 ATATCCATATACCAAACAATTCGGCAATGTATAACCATACACAAATCAAGTTCGATAATGTATAA
1 ATATCCATATACCAAACAATTCGGCAATGTATAACCATACACGAATCAAGATCGACAATATATAA
* * * * * *
14626547 TCAAATACAAATCCAATTCGGCATCCTATATACATAAAGAATTCAATATCGACAATATATAACCA
66 TCATACACAAATCAAATTCGGCATCCTATATTCATAAACAATTCACTATCGACAATATATAACCA
* *
14626612 TGTGCAATTTAATTTCAG
131 AGTACAA-TTAATTTCAG
14626630 CAAGGTAAAA
Statistics
Matches: 299, Mismatches: 32, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
183 2 0.01
184 297 0.99
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (183 bp):
ATATCCATATACCAAACAATTCGGCAATGTATAACCATACACGAATCAAGATCGACAATATATAA
TCATACACAAATCAAATTCGGCATCCTATATTCATAAACAATTCACTATCGACAATATATAACCA
AGTACAATTAATTTCAGTAATGTACAACCTTGTACGAATCAAGTCAGCAACTT
Found at i:14626520 original size:30 final size:30
Alignment explanation
Indices: 14626297--14626569 Score: 115
Period size: 31 Copynumber: 8.9 Consensus size: 30
14626287 GTCAGGAACT
* *
14626297 TATATCCATATACCAAA-CAATTTGGCAATG
1 TATAACCATATA-CAAATCAATTCGGCAATG
* * * * *
14626327 TATAACCATAAACGAATCAAGATCGACAATA
1 TATAACCATATACAAATCAA-TTCGGCAATG
* * * *
14626358 TATAATCATACACAAATTAAATTCGGC-ATCC
1 TATAACCATATACAAA-TCAATTCGGCAAT-G
** * * * * *
14626389 TATATTCATAAACAATTCACTATCGACAATA
1 TATAACCATATACAAATCAAT-TCGGCAATG
* ** *
14626420 TATAACCA-AGTACAAATTAATTTTAGTAATG
1 TATAACCATA-TACAAATCAA-TTCGGCAATG
* * * * *
14626451 TACAACCTTGTACGAATCAATTCAGCAACT-
1 TATAACCATATACAAATCAATTCGGCAA-TG
*
14626481 TATATCCATATACCAAA-CAATTCGGCAATG
1 TATAACCATATA-CAAATCAATTCGGCAATG
* **
14626511 TATAACCATACACAAATCAAGTTCGATAATG
1 TATAACCATATACAAATCAA-TTCGGCAATG
* *
14626542 TATAATCAAATACAAATCCAATTCGGCA
1 TATAACCATATACAAAT-CAATTCGGCA
14626570 TCCTATATAC
Statistics
Matches: 174, Mismatches: 54, Indels: 29
0.68 0.21 0.11
Matches are distributed among these distances:
29 8 0.05
30 56 0.32
31 101 0.58
32 9 0.05
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (30 bp):
TATAACCATATACAAATCAATTCGGCAATG
Found at i:14634548 original size:22 final size:21
Alignment explanation
Indices: 14634507--14634547 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14634497 CAATGCCTAT
*
14634507 TTACAGTGTAATATATAAAAC
1 TTACAGTCTAATATATAAAAC
14634528 TTACTAGTCTAATA-ATAAAA
1 TTAC-AGTCTAATATATAAAA
14634548 AAATTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (21 bp):
TTACAGTCTAATATATAAAAC
Found at i:14645178 original size:20 final size:20
Alignment explanation
Indices: 14645155--14645198 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
14645145 TGGGGCGTAC
14645155 TCTTATCTTGTTTTACTCTT
1 TCTTATCTTGTTTTACTCTT
14645175 TCTTATCTTGTTTTACTCTT
1 TCTTATCTTGTTTTACTCTT
14645195 TCTT
1 TCTT
14645199 CTACTAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.09, C:0.20, G:0.05, T:0.66
Consensus pattern (20 bp):
TCTTATCTTGTTTTACTCTT
Found at i:14647461 original size:28 final size:28
Alignment explanation
Indices: 14647415--14647478 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
14647405 AGAAAATATT
* *
14647415 AGAAATGAAAAGAAGAAAGAAAATAAAA
1 AGAAATGAAAAGAAAAAAGAAAAGAAAA
* *
14647443 AGAAATGGAATGAAAAAAGAAAAGAAAA
1 AGAAATGAAAAGAAAAAAGAAAAGAAAA
14647471 A-AAA-GAAA
1 AGAAATGAAA
14647479 CCTAATCTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.10
27 3 0.10
28 25 0.81
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (28 bp):
AGAAATGAAAAGAAAAAAGAAAAGAAAA
Found at i:14647467 original size:33 final size:31
Alignment explanation
Indices: 14647418--14647478 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 31
14647408 AAATATTAGA
14647418 AATGAAAAGAAGAAAGAAAATAAAAAGAAATGG
1 AATGAAAAGAAGAAAG-AAA-AAAAAGAAATGG
14647451 AATGAAAA-AAGAAAAGAAAAAAAAGAAA
1 AATGAAAAGAAG-AAAGAAAAAAAAGAAA
14647479 CCTAATCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 9 0.33
32 6 0.22
33 12 0.44
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (31 bp):
AATGAAAAGAAGAAAGAAAAAAAAGAAATGG
Found at i:14671210 original size:3 final size:3
Alignment explanation
Indices: 14671202--14671228 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14671192 TCACACCAGG
14671202 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
14671229 CTTTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14671611 original size:32 final size:31
Alignment explanation
Indices: 14671575--14671636 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
14671565 GTGGAAATAA
*
14671575 AAAAGAAAATAGGTGAAACAGAAAAAAAAATG
1 AAAAG-AAACAGGTGAAACAGAAAAAAAAATG
* * *
14671607 AAAAGAAACAGTTGAAATAGAAAAATAAAT
1 AAAAGAAACAGGTGAAACAGAAAAAAAAAT
14671637 AAATAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.68, C:0.03, G:0.16, T:0.13
Consensus pattern (31 bp):
AAAAGAAACAGGTGAAACAGAAAAAAAAATG
Found at i:14671824 original size:39 final size:39
Alignment explanation
Indices: 14671772--14671847 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
14671762 AAAAATAAAG
*
14671772 GGGAAGCTTGTGACTGGCAACACCTATAAATTTTTTTAA
1 GGGAAGCATGTGACTGGCAACACCTATAAATTTTTTTAA
*
14671811 GGGAAGCATGTGACTGGCGACACCTATAAATTTTTTT
1 GGGAAGCATGTGACTGGCAACACCTATAAATTTTTTT
14671848 CTTTCTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (39 bp):
GGGAAGCATGTGACTGGCAACACCTATAAATTTTTTTAA
Found at i:14676235 original size:10 final size:11
Alignment explanation
Indices: 14676216--14676245 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
14676206 TTTTCCTGAG
14676216 ATGTGAATTGA
1 ATGTGAATTGA
14676227 ATG-GAATTGA
1 ATGTGAATTGA
14676237 ATGTGAATT
1 ATGTGAATT
14676246 TTATTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (11 bp):
ATGTGAATTGA
Found at i:14676731 original size:25 final size:27
Alignment explanation
Indices: 14676693--14676759 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 27
14676683 GACACACCGC
*
14676693 AGCTCTT-ATGAGCTTCTCGGTT-A-T
1 AGCTCTTGGTGAGCTTCTCGGTTAATT
* *
14676717 GGCTCTTGGTGAGCTT-TCTGTTAATT
1 AGCTCTTGGTGAGCTTCTCGGTTAATT
*
14676743 AGCTCTTTGTGAGCTTC
1 AGCTCTTGGTGAGCTTC
14676760 CCGATATAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
24 11 0.32
25 8 0.24
26 15 0.44
ACGTcount: A:0.13, C:0.19, G:0.24, T:0.43
Consensus pattern (27 bp):
AGCTCTTGGTGAGCTTCTCGGTTAATT
Found at i:14678751 original size:28 final size:28
Alignment explanation
Indices: 14678719--14678773 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
14678709 TGTATGACTT
14678719 AAACTTGAGTCAAGGGGAAGCAACAAAA
1 AAACTTGAGTCAAGGGGAAGCAACAAAA
14678747 AAACTTGAGTCAAGGGGAAGCAACAAA
1 AAACTTGAGTCAAGGGGAAGCAACAAA
14678774 GATTTATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.49, C:0.15, G:0.25, T:0.11
Consensus pattern (28 bp):
AAACTTGAGTCAAGGGGAAGCAACAAAA
Found at i:14681368 original size:124 final size:124
Alignment explanation
Indices: 14681177--14681408 Score: 374
Period size: 124 Copynumber: 1.9 Consensus size: 124
14681167 GATCCGAATC
* * * *
14681177 TACTAATTACAAAATCGATGCTTCCAACAAGGTTTGAATACAAAAACCATGTTTTAATTATCAAT
1 TACTAATTACAAAATCAATGCTTCCAACAAAGTTTGAACACAAAAACCATGTTTTAACTATCAAT
14681242 ATTTACCTTAAACATTGATTATACTTTACACAAATTAATAAATTCCATATAAAATATAA
66 ATTTACCTTAAACATTGATTATACTTTACACAAATTAATAAATTCCATATAAAATATAA
* * * **
14681301 TACTAGTTACAAAATCAATTCTTCTAACAAAGTTTGAACACAAAAGTCATGTTTTAACTATCAAT
1 TACTAATTACAAAATCAATGCTTCCAACAAAGTTTGAACACAAAAACCATGTTTTAACTATCAAT
*
14681366 ATTTACCTTAAACATTGGTTATACTTTACACAAATTAATAAAT
66 ATTTACCTTAAACATTGATTATACTTTACACAAATTAATAAAT
14681409 ATAAATTATA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
124 98 1.00
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (124 bp):
TACTAATTACAAAATCAATGCTTCCAACAAAGTTTGAACACAAAAACCATGTTTTAACTATCAAT
ATTTACCTTAAACATTGATTATACTTTACACAAATTAATAAATTCCATATAAAATATAA
Found at i:14682089 original size:24 final size:24
Alignment explanation
Indices: 14682061--14682112 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
14682051 TTAGTAAGTC
* *
14682061 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
14682085 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
14682109 AAAT
1 AAAT
14682113 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:14694816 original size:36 final size:36
Alignment explanation
Indices: 14694748--14694818 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
14694738 GCACACATTT
* *
14694748 AACATTGTTGGCTTATTCGACTAGCGCTGGGCACAA
1 AACATTGTTGGCTTATCCGACTAGCGCAGGGCACAA
* * * *
14694784 AACATTTTTGGTTTATCCGGCTAGTGCAGGGCACA
1 AACATTGTTGGCTTATCCGACTAGCGCAGGGCACA
14694819 CCTATCGTCG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (36 bp):
AACATTGTTGGCTTATCCGACTAGCGCAGGGCACAA
Found at i:14703166 original size:14 final size:16
Alignment explanation
Indices: 14703142--14703173 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14703132 AAGATGATAT
14703142 GTTGAATTATAT-TTG
1 GTTGAATTATATCTTG
14703157 GTTG-ATTATATCTTG
1 GTTGAATTATATCTTG
14703172 GT
1 GT
14703174 ATGTGAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.22, C:0.03, G:0.22, T:0.53
Consensus pattern (16 bp):
GTTGAATTATATCTTG
Found at i:14705340 original size:28 final size:28
Alignment explanation
Indices: 14705300--14705355 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
14705290 ATAATGTATG
14705300 GATAAATTTGATGGCTGTAGATTAACGC
1 GATAAATTTGATGGCTGTAGATTAACGC
14705328 GATAAATTTGATGGCTGTAGATTAACGC
1 GATAAATTTGATGGCTGTAGATTAACGC
14705356 AGATGATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (28 bp):
GATAAATTTGATGGCTGTAGATTAACGC
Found at i:14706169 original size:11 final size:11
Alignment explanation
Indices: 14706155--14706199 Score: 72
Period size: 11 Copynumber: 4.1 Consensus size: 11
14706145 TCAATTATTT
14706155 TCTCAATTTCC
1 TCTCAATTTCC
14706166 TCTCAATTTCC
1 TCTCAATTTCC
* *
14706177 TCTCAAATTGC
1 TCTCAATTTCC
14706188 TCTCAATTTCC
1 TCTCAATTTCC
14706199 T
1 T
14706200 TCCAAATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.20, C:0.33, G:0.02, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:14706190 original size:22 final size:22
Alignment explanation
Indices: 14706155--14706215 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
14706145 TCAATTATTT
*
14706155 TCTCAATTTCCTCTCAATTTCC
1 TCTCAAATTCCTCTCAATTTCC
*
14706177 TCTCAAATTGCTCTCAATTTCC
1 TCTCAAATTCCTCTCAATTTCC
*
14706199 T-TCCAAATTTCTCTCAA
1 TCT-CAAATTCCTCTCAA
14706216 ATCCATATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 1 0.03
22 34 0.97
ACGTcount: A:0.23, C:0.33, G:0.02, T:0.43
Consensus pattern (22 bp):
TCTCAAATTCCTCTCAATTTCC
Found at i:14706193 original size:33 final size:33
Alignment explanation
Indices: 14706155--14706217 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
14706145 TCAATTATTT
14706155 TCTCAATTTCC-TCTC-AATTTCCTCTCAAATTGC
1 TCTCAATTTCCTTC-CAAATTT-CTCTCAAATTGC
14706188 TCTCAATTTCCTTCCAAATTTCTCTCAAAT
1 TCTCAATTTCCTTCCAAATTTCTCTCAAAT
14706218 CCATATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 21 0.75
34 7 0.25
ACGTcount: A:0.24, C:0.32, G:0.02, T:0.43
Consensus pattern (33 bp):
TCTCAATTTCCTTCCAAATTTCTCTCAAATTGC
Found at i:14706239 original size:51 final size:51
Alignment explanation
Indices: 14706177--14706276 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
14706167 CTCAATTTCC
14706177 TCTCAAATTGCTCTCAA-TTTC-CTTCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAAATTGCTCTCAATTTTCTCTT--AAATTTCTCTCAAATCCATATTTAA
* * *
14706228 TCTCAATTTGCTCTCAATTTTCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAAATTGCTCTCAATTTTCTCTTAAATTTCTCTCAAATCCATATTT
14706277 TTAATTATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 37 0.84
52 4 0.09
53 3 0.07
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.46
Consensus pattern (51 bp):
TCTCAAATTGCTCTCAATTTTCTCTTAAATTTCTCTCAAATCCATATTTAA
Found at i:14707430 original size:7 final size:7
Alignment explanation
Indices: 14707418--14707450 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
14707408 TAGTCGATTG
14707418 GTATTTA
1 GTATTTA
14707425 GTATTTA
1 GTATTTA
14707432 GTATTTA
1 GTATTTA
14707439 GTATTTA
1 GTATTTA
14707446 GTATT
1 GTATT
14707451 ATGTATTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:14707456 original size:7 final size:7
Alignment explanation
Indices: 14707446--14707477 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
14707436 TTAGTATTTA
14707446 GTATTAT
1 GTATTAT
14707453 GTATTAT
1 GTATTAT
14707460 GTATTAT
1 GTATTAT
14707467 GTATTAT
1 GTATTAT
14707474 GTAT
1 GTAT
14707478 ATAACTAATA
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:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
GTATTAT
Found at i:14707456 original size:14 final size:14
Alignment explanation
Indices: 14707425--14707471 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
14707415 TTGGTATTTA
14707425 GTATTTAGTATT-T
1 GTATTTAGTATTAT
14707438 AGTATTTAGTATTAT
1 -GTATTTAGTATTAT
14707453 GTA-TTATGTATTAT
1 GTATTTA-GTATTAT
14707467 GTATT
1 GTATT
14707472 ATGTATATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.10
14 25 0.83
15 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (14 bp):
GTATTTAGTATTAT
Found at i:14708745 original size:33 final size:33
Alignment explanation
Indices: 14708702--14708788 Score: 156
Period size: 33 Copynumber: 2.6 Consensus size: 33
14708692 AAACCCTAAC
*
14708702 AAAAATCCTAACCCTAACCCTAACCCTTAACTT
1 AAAAACCCTAACCCTAACCCTAACCCTTAACTT
*
14708735 AAAAACCCTAACCATAACCCTAACCCTTAACTT
1 AAAAACCCTAACCCTAACCCTAACCCTTAACTT
14708768 AAAAACCCTAACCCTAACCCT
1 AAAAACCCTAACCCTAACCCT
14708789 TAACTTAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (33 bp):
AAAAACCCTAACCCTAACCCTAACCCTTAACTT
Found at i:14708746 original size:27 final size:27
Alignment explanation
Indices: 14708711--14708916 Score: 174
Period size: 33 Copynumber: 7.2 Consensus size: 27
14708701 CAAAAATCCT
14708711 AACCCTAACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTAACCCTTAACTTAAA
14708738 AACCCTAACCATAACCCTAACCCTTAACTTAAA
1 AA--C---CC-TAACCCTAACCCTTAACTTAAA
14708771 AACCCTAACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTAACCCTTAACTTAAA
**
14708798 AATACTAA----AACCC-TAAC--AAA
1 AACCCTAACCCTAACCCTTAACTTAAA
*
14708818 AACCCTAGCCCTAACCCTACCTCTTAACTTAAA
1 AACCCTAACCCT-A----ACC-CTTAACTTAAA
14708851 AACCCTAACCCTAACCCTAGCCCTTAACTTAAA
1 AACCCTAACCCT-A----A-CCCTTAACTTAAA
14708884 AACCCTAACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTAACCCTTAACTTAAA
14708911 AACCCT
1 AACCCT
14708917 CAACTTAAAA
Statistics
Matches: 153, Mismatches: 6, Indels: 40
0.77 0.03 0.20
Matches are distributed among these distances:
20 8 0.05
22 4 0.03
23 5 0.03
25 1 0.01
27 49 0.32
28 3 0.02
29 4 0.03
30 1 0.01
31 5 0.03
32 3 0.02
33 68 0.44
34 2 0.01
ACGTcount: A:0.41, C:0.37, G:0.01, T:0.21
Consensus pattern (27 bp):
AACCCTAACCCTAACCCTTAACTTAAA
Found at i:14708797 original size:113 final size:113
Alignment explanation
Indices: 14708657--14708913 Score: 426
Period size: 113 Copynumber: 2.3 Consensus size: 113
14708647 CAAAAACCCT
* *
14708657 AACCCTAAACCCTAAACCTTAACTTAAAAACACCAAAACCCTAACAAAAATCCTAACCCTAACCC
1 AACCCT-AACCCTAACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAACCCTAACCC
14708722 TAACC-CTTAACTTAAAAACCCTAACCATAACCCTAACCCTTAACTTAAA
65 T-ACCTCTTAACTTAAAAACCCTAACCATAACCCTAACCCTTAACTTAAA
* * *
14708771 AACCCTAACCCTAACCCTTAACTTAAAAATACTAAAACCCTAACAAAAACCCTAGCCCTAACCCT
1 AACCCTAACCCTAACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAACCCTAACCCT
* *
14708836 ACCTCTTAACTTAAAAACCCTAACCCTAACCCTAGCCCTTAACTTAAA
66 ACCTCTTAACTTAAAAACCCTAACCATAACCCTAACCCTTAACTTAAA
14708884 AACCCTAACCCTAACCCTTAACTTAAAAAC
1 AACCCTAACCCTAACCCTTAACTTAAAAAC
14708914 CCTCAACTTA
Statistics
Matches: 134, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
112 3 0.02
113 125 0.93
114 6 0.04
ACGTcount: A:0.43, C:0.36, G:0.01, T:0.20
Consensus pattern (113 bp):
AACCCTAACCCTAACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAACCCTAACCCT
ACCTCTTAACTTAAAAACCCTAACCATAACCCTAACCCTTAACTTAAA
Found at i:14708916 original size:15 final size:15
Alignment explanation
Indices: 14708871--14708927 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
14708861 CTAACCCTAG
14708871 CCCTTAACTTAAAAA
1 CCCTTAACTTAAAAA
*
14708886 CCC-TAACCCT---AA
1 CCCTTAA-CTTAAAAA
14708898 CCCTTAACTTAAAAA
1 CCCTTAACTTAAAAA
*
14708913 CCCTCAACTTAAAAA
1 CCCTTAACTTAAAAA
14708928 TATCAAAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
12 7 0.21
13 3 0.09
14 3 0.09
15 21 0.62
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (15 bp):
CCCTTAACTTAAAAA
Found at i:14708964 original size:95 final size:95
Alignment explanation
Indices: 14708848--14709106 Score: 428
Period size: 95 Copynumber: 2.7 Consensus size: 95
14708838 CTCTTAACTT
*
14708848 AAAAACCCTAACCCTAACCCTAGCCCTTAACTTAAAAACCCTAACCCTAACCCTTAACTTAAAAA
1 AAAAACCCTAACCCTAACCCTAACCCTTAACTTAAAAACCCTAACCCTAACCCTTAACTTAAAAA
* *
14708913 CCCTCAACTTAAAAATATCAAAATCCTAAC
66 CCCTCAACTTAAAAATACCAAAACCCTAAC
* *
14708943 AAAAACCCTAGCCCTAACCCTAACCCTTAACTTAAAAACCCTAACTCTAACCCTTAACTTAAAAA
1 AAAAACCCTAACCCTAACCCTAACCCTTAACTTAAAAACCCTAACCCTAACCCTTAACTTAAAAA
14709008 CCCTCAACTTAAAAATACCAAAACCCTAAC
66 CCCTCAACTTAAAAATACCAAAACCCTAAC
* ** * *
14709038 AAAAACCCTAACCATAACTTTAACCCTTAACTTTAAAACCCTAACCCTAAACCTTAACTTAAAAA
1 AAAAACCCTAACCCTAACCCTAACCCTTAACTTAAAAACCCTAACCCTAACCCTTAACTTAAAAA
14709103 CCCT
66 CCCT
14709107 AATCCTAACC
Statistics
Matches: 152, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 152 1.00
ACGTcount: A:0.44, C:0.34, G:0.01, T:0.22
Consensus pattern (95 bp):
AAAAACCCTAACCCTAACCCTAACCCTTAACTTAAAAACCCTAACCCTAACCCTTAACTTAAAAA
CCCTCAACTTAAAAATACCAAAACCCTAAC
Found at i:14708984 original size:15 final size:15
Alignment explanation
Indices: 14708964--14709022 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
14708954 CCCTAACCCT
14708964 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
14708979 AACCC-TAACTCT---
1 AACCCTTAACT-TAAA
14708991 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
*
14709006 AACCCTCAACTTAAA
1 AACCCTTAACTTAAA
14709021 AA
1 AA
14709023 TACCAAAACC
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
12 6 0.16
13 5 0.13
14 5 0.13
15 22 0.58
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.24
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:14708986 original size:27 final size:27
Alignment explanation
Indices: 14708954--14709011 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
14708944 AAAACCCTAG
14708954 CCCTAACCCTAACCCTTAACTTAAAAA
1 CCCTAACCCTAACCCTTAACTTAAAAA
*
14708981 CCCTAACTCTAACCCTTAACTTAAAAA
1 CCCTAACCCTAACCCTTAACTTAAAAA
14709008 CCCT
1 CCCT
14709012 CAACTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.24
Consensus pattern (27 bp):
CCCTAACCCTAACCCTTAACTTAAAAA
Found at i:14709082 original size:27 final size:27
Alignment explanation
Indices: 14709047--14709121 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
14709037 CAAAAACCCT
* * *
14709047 AACCATAACTTTAACCCTTAACTTTAA
1 AACCCTAACTCTAACCCTTAACTTAAA
* *
14709074 AACCCTAACCCTAAACCTTAACTTAAA
1 AACCCTAACTCTAACCCTTAACTTAAA
14709101 AACCCTAA-TCCTAACCCTTAA
1 AACCCTAACT-CTAACCCTTAA
14709122 TACCAAAACC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.27
Consensus pattern (27 bp):
AACCCTAACTCTAACCCTTAACTTAAA
Found at i:14709178 original size:6 final size:6
Alignment explanation
Indices: 14709169--14709194 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
14709159 TGCTAACAAA
14709169 AACCCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AA
14709195 TCTGATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCCT
Found at i:14709182 original size:18 final size:18
Alignment explanation
Indices: 14709149--14709183 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14709139 TAAAAATACC
**
14709149 AAAACCCTAATGCTAACA
1 AAAACCCTAACCCTAACA
14709167 AAAACCCTAACCCTAAC
1 AAAACCCTAACCCTAAC
14709184 CCTAACCCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.34, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAACCCTAACCCTAACA
Found at i:14709184 original size:122 final size:121
Alignment explanation
Indices: 14708954--14709186 Score: 308
Period size: 122 Copynumber: 1.9 Consensus size: 121
14708944 AAAACCCTAG
*
14708954 CCCTAACCCTAACCCTTAACTTAAAAACCCTAACTCTAACCCTTAACTTAAAAACCCTCAACTTA
1 CCCTAACCCTAAACCTTAACTTAAAAACCCTAACTCTAACCCTTAAC-TAAAAACCCTCAACTTA
*** **
14709019 AAAATACCAAAACCCTAACAAAAACCCTAACCATAACTTTAACCCTTAACTTTAAAA
65 AAAATACCAAAACCCTAACAAAAACAAAAACCATAACCCTAACCCTTAACTTTAAAA
*
14709076 CCCTAACCCTAAACCTTAACTTAAAAACCCTAA-TCCTAACCCTTAA-TACCAAAACCCTTAACT
1 CCCTAACCCTAAACCTTAACTTAAAAACCCTAACT-CTAACCCTTAACTA--AAAACCCTCAACT
**** *
14709139 TAAAAATACCAAAACCCTAATGCTAACAAAAACCCTAACCCTAACCCT
63 TAAAAATACCAAAACCCTAACAAAAACAAAAACCATAACCCTAACCCT
14709187 AACCCTAATC
Statistics
Matches: 96, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
120 2 0.02
121 1 0.01
122 93 0.97
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (121 bp):
CCCTAACCCTAAACCTTAACTTAAAAACCCTAACTCTAACCCTTAACTAAAAACCCTCAACTTAA
AAATACCAAAACCCTAACAAAAACAAAAACCATAACCCTAACCCTTAACTTTAAAA
Found at i:14709305 original size:59 final size:59
Alignment explanation
Indices: 14709235--14709429 Score: 390
Period size: 59 Copynumber: 3.3 Consensus size: 59
14709225 TTAATACAAT
14709235 TAACAATTAATAATTTGACTAACAAAATGTTAGATTTTACAAAATGTTTTGACGAGGAC
1 TAACAATTAATAATTTGACTAACAAAATGTTAGATTTTACAAAATGTTTTGACGAGGAC
14709294 TAACAATTAATAATTTGACTAACAAAATGTTAGATTTTACAAAATGTTTTGACGAGGAC
1 TAACAATTAATAATTTGACTAACAAAATGTTAGATTTTACAAAATGTTTTGACGAGGAC
14709353 TAACAATTAATAATTTGACTAACAAAATGTTAGATTTTACAAAATGTTTTGACGAGGAC
1 TAACAATTAATAATTTGACTAACAAAATGTTAGATTTTACAAAATGTTTTGACGAGGAC
14709412 TAACAATTAATAATTTGA
1 TAACAATTAATAATTTGA
14709430 TATAATTTTA
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 136 1.00
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (59 bp):
TAACAATTAATAATTTGACTAACAAAATGTTAGATTTTACAAAATGTTTTGACGAGGAC
Found at i:14709457 original size:22 final size:23
Alignment explanation
Indices: 14709432--14709480 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
14709422 TAATTTGATA
* *
14709432 TAATTTTAATAACAAT-TAGTTT
1 TAATTTTAATAAAAATATAATTT
14709454 TAATTTTAATAAAAATATAATTT
1 TAATTTTAATAAAAATATAATTT
14709477 TAAT
1 TAAT
14709481 AACCCAGGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TAATTTTAATAAAAATATAATTT
Found at i:14709947 original size:8 final size:8
Alignment explanation
Indices: 14709934--14709960 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
14709924 TTAAAAATAC
14709934 TTTTTTAT
1 TTTTTTAT
14709942 TTTTTTAT
1 TTTTTTAT
14709950 TTTTTTAT
1 TTTTTTAT
14709958 TTT
1 TTT
14709961 AAAAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTAT
Found at i:14710127 original size:16 final size:16
Alignment explanation
Indices: 14710106--14710147 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
14710096 TTCCCTTGGC
14710106 CCGGCCCAAATCCGGT
1 CCGGCCCAAATCCGGT
14710122 CCGGCCCAAATCCGGT
1 CCGGCCCAAATCCGGT
14710138 CCGGCCCAAA
1 CCGGCCCAAA
14710148 CTCGACCCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.21, C:0.45, G:0.24, T:0.10
Consensus pattern (16 bp):
CCGGCCCAAATCCGGT
Found at i:14710900 original size:8 final size:8
Alignment explanation
Indices: 14710887--14710913 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
14710877 TTAAAAATAC
14710887 TTTTTTAT
1 TTTTTTAT
14710895 TTTTTTAT
1 TTTTTTAT
14710903 TTTTTTAT
1 TTTTTTAT
14710911 TTT
1 TTT
14710914 AAAAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTAT
Found at i:14711080 original size:16 final size:16
Alignment explanation
Indices: 14711059--14711100 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
14711049 TTCCCTTGGC
14711059 CCGGCCCAAATCCGGT
1 CCGGCCCAAATCCGGT
14711075 CCGGCCCAAATCCGGT
1 CCGGCCCAAATCCGGT
14711091 CCGGCCCAAA
1 CCGGCCCAAA
14711101 CTCGACCCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.21, C:0.45, G:0.24, T:0.10
Consensus pattern (16 bp):
CCGGCCCAAATCCGGT
Found at i:14712412 original size:21 final size:21
Alignment explanation
Indices: 14712388--14712439 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
14712378 TGCAGGACGA
14712388 TGATGATG-TGGATAACGAGTT
1 TGATGATGAT-GATAACGAGTT
* *
14712409 TGATGATGATGATGATGAGTT
1 TGATGATGATGATAACGAGTT
14712430 TGATGATGAT
1 TGATGATGAT
14712440 TTTGAAGGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.33, T:0.37
Consensus pattern (21 bp):
TGATGATGATGATAACGAGTT
Found at i:14712475 original size:24 final size:24
Alignment explanation
Indices: 14712389--14712475 Score: 56
Period size: 24 Copynumber: 3.8 Consensus size: 24
14712379 GCAGGACGAT
* *
14712389 GATGATGTGGATAACGAG-TT-T-
1 GATGATGAGGATGACGAGTTTGTA
* *
14712410 GATGATGATGATGATGAGTTTG-A
1 GATGATGAGGATGACGAGTTTGTA
*** * *
14712433 TGATGATTTTGAAGGCGAGTTTGTA
1 -GATGATGAGGATGACGAGTTTGTA
14712458 GATGATGAGGATGACGAG
1 GATGATGAGGATGACGAG
14712476 GACGACGACG
Statistics
Matches: 47, Mismatches: 14, Indels: 7
0.69 0.21 0.10
Matches are distributed among these distances:
21 14 0.30
22 2 0.04
24 30 0.64
25 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.36, T:0.32
Consensus pattern (24 bp):
GATGATGAGGATGACGAGTTTGTA
Found at i:14712482 original size:3 final size:3
Alignment explanation
Indices: 14712470--14712504 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
14712460 TGATGAGGAT
*
14712470 GAC GAG GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
14712505 TGATGGTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.29, G:0.37, T:0.00
Consensus pattern (3 bp):
GAC
Found at i:14713295 original size:11 final size:11
Alignment explanation
Indices: 14713281--14713399 Score: 103
Period size: 11 Copynumber: 11.4 Consensus size: 11
14713271 ATTTTTTTAA
14713281 TTTTAAAATAT
1 TTTTAAAATAT
14713292 TTTTAAAATACT
1 TTTTAAAATA-T
** *
14713304 TTTTTTATTAT
1 TTTTAAAATAT
*
14713315 TTTT----TAA
1 TTTTAAAATAT
14713322 TTTTAAAATAT
1 TTTTAAAATAT
14713333 TTTTAAAATAT
1 TTTTAAAATAT
14713344 TTTTAAAATACT
1 TTTTAAAATA-T
14713356 TTTTAAAAT-T
1 TTTTAAAATAT
*
14713366 TTTT----TAA
1 TTTTAAAATAT
14713373 TTTTAAAATAT
1 TTTTAAAATAT
14713384 TTTTAAAATACT
1 TTTTAAAATA-T
14713396 TTTT
1 TTTT
14713400 TTAATTTTTA
Statistics
Matches: 89, Mismatches: 7, Indels: 23
0.75 0.06 0.19
Matches are distributed among these distances:
6 1 0.01
7 10 0.11
10 5 0.06
11 50 0.56
12 23 0.26
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:14713320 original size:41 final size:41
Alignment explanation
Indices: 14713264--14713402 Score: 154
Period size: 41 Copynumber: 3.2 Consensus size: 41
14713254 AATATATTTA
*
14713264 TTTTTTAAT-TTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATACT
*
14713304 TTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATATT
1 TTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATACT
*
14713345 TTTAAAATACTTTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTT----T--TTATT---A-TTTTTTAATTTTAAAATATTTTTAAAATACT
14713396 TTTTTTA
1 TTTTTTA
14713403 ATTTTTAAAA
Statistics
Matches: 83, Mismatches: 5, Indels: 17
0.79 0.05 0.16
Matches are distributed among these distances:
40 8 0.10
41 33 0.40
45 3 0.04
47 5 0.06
50 1 0.01
51 33 0.40
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (41 bp):
TTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:14713406 original size:40 final size:40
Alignment explanation
Indices: 14713333--14713408 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
14713323 TTTAAAATAT
14713333 TTTTAAAATATTTTTAAAATACTTTTTAAAATTTTTTTAA
1 TTTTAAAATATTTTTAAAATACTTTTTAAAATTTTTTTAA
**
14713373 TTTTAAAATATTTTTAAAATACTTTTTTTAATTTTT
1 TTTTAAAATATTTTTAAAATACTTTTTAAAATTTTT
14713409 AAAATAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (40 bp):
TTTTAAAATATTTTTAAAATACTTTTTAAAATTTTTTTAA
Found at i:14713420 original size:21 final size:21
Alignment explanation
Indices: 14713382--14713421 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14713372 ATTTTAAAAT
**
14713382 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
14713403 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
14713422 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:14713428 original size:22 final size:21
Alignment explanation
Indices: 14713381--14713439 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
14713371 AATTTTAAAA
* *
14713381 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
14713401 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
14713424 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
14713440 GGGCCGGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:14713827 original size:20 final size:20
Alignment explanation
Indices: 14713799--14713852 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
14713789 TGATTTAGGG
14713799 TTTTT-TATATTTTTTAAGT
1 TTTTTATATATTTTTTAAGT
* *
14713818 TTTTTATATATTCTTTAATT
1 TTTTTATATATTTTTTAAGT
14713838 TTTTTATA-ATTTTTT
1 TTTTTATATATTTTTT
14713853 GAGATGTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTTATATATTTTTTAAGT
Found at i:14720237 original size:12 final size:12
Alignment explanation
Indices: 14720222--14720246 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14720212 AAGATGAAAG
14720222 ATAAGAAAAGAA
1 ATAAGAAAAGAA
14720234 ATAAGAAAAGAA
1 ATAAGAAAAGAA
14720246 A
1 A
14720247 AAAAAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
ATAAGAAAAGAA
Found at i:14721328 original size:22 final size:23
Alignment explanation
Indices: 14721303--14721347 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
14721293 AAAAAAGAGT
*
14721303 TGAGAGAGGAATAA-AAATTGAG
1 TGAGAAAGGAATAAGAAATTGAG
**
14721325 TGAGAAATTAATAAGAAATTGAG
1 TGAGAAAGGAATAAGAAATTGAG
14721348 AGAAATTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.27, T:0.22
Consensus pattern (23 bp):
TGAGAAAGGAATAAGAAATTGAG
Found at i:14721352 original size:21 final size:21
Alignment explanation
Indices: 14721312--14721354 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
14721302 TTGAGAGAGG
14721312 AATAAAAATTGAGTGAGAAATT
1 AATAAAAATTGAG-GAGAAATT
14721334 AATAAGAAATTGA-GAGAAATT
1 AATAA-AAATTGAGGAGAAATT
14721355 TGAAAGAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
22 5 0.25
23 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.26
Consensus pattern (21 bp):
AATAAAAATTGAGGAGAAATT
Found at i:14724266 original size:38 final size:39
Alignment explanation
Indices: 14724207--14724301 Score: 113
Period size: 38 Copynumber: 2.5 Consensus size: 39
14724197 ATAAAAATAT
* *
14724207 TAAAAAT-AGAAAAGAAATATTAAAATTGACGTAAACTTA
1 TAAAAATAAGTAAA-AAATATTAAAATTGACATAAACTTA
* * **
14724246 TTAAAATTA-TAAAAAATATTAAAATTGGTATAAACTTA
1 TAAAAATAAGTAAAAAATATTAAAATTGACATAAACTTA
14724284 TAAAAATAAGTAAAAAAT
1 TAAAAATAAGTAAAAAAT
14724302 CATAAAAACT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
38 29 0.62
39 17 0.36
40 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.29
Consensus pattern (39 bp):
TAAAAATAAGTAAAAAATATTAAAATTGACATAAACTTA
Found at i:14724763 original size:87 final size:88
Alignment explanation
Indices: 14724662--14724837 Score: 336
Period size: 87 Copynumber: 2.0 Consensus size: 88
14724652 TTGGTTTTGG
14724662 TCAAATCGGTCCAACCAACTAATCTGGTCCAGTTCAAGTTTTTTATTTTTTTTTTCTAATTTTTA
1 TCAAATCGGTCCAACCAACTAATCTGGTCCAGTTCAAGTTTTTTATTTTTTTTTTCTAATTTTTA
*
14724727 TAAGTTTATACC-ATTTTAATAT
66 TAAGCTTATACCAATTTTAATAT
14724749 TCAAATCGGTCCAACCAACTAATCTGGTCCAGTTCAAGTTTTTTATTTTTTTTTTCTAATTTTTA
1 TCAAATCGGTCCAACCAACTAATCTGGTCCAGTTCAAGTTTTTTATTTTTTTTTTCTAATTTTTA
14724814 TAAGCTTATACCAATTTTAATAT
66 TAAGCTTATACCAATTTTAATAT
14724837 T
1 T
14724838 TTTTATATAT
Statistics
Matches: 87, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
87 76 0.87
88 11 0.13
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (88 bp):
TCAAATCGGTCCAACCAACTAATCTGGTCCAGTTCAAGTTTTTTATTTTTTTTTTCTAATTTTTA
TAAGCTTATACCAATTTTAATAT
Found at i:14724850 original size:10 final size:10
Alignment explanation
Indices: 14724827--14725028 Score: 72
Period size: 10 Copynumber: 20.5 Consensus size: 10
14724817 GCTTATACCA
*
14724827 ATTTTAATAT
1 ATTTTTATAT
14724837 -TTTTTATAT
1 ATTTTTATAT
*
14724846 ATTTTTATAGA
1 ATTTTTATA-T
* *
14724857 ATTTTAATAC
1 ATTTTTATAT
*
14724867 ATTTTTATAG
1 ATTTTTATAT
* *
14724877 AATTTTAAAT
1 ATTTTTATAT
*
14724887 ATTTTAAT-T
1 ATTTTTATAT
14724896 ATGTTTTAT-T
1 AT-TTTTATAT
*
14724906 AATTTTATA-
1 ATTTTTATAT
*
14724915 ATTTAT-TAT
1 ATTTTTATAT
14724924 ATTTTTATA-
1 ATTTTTATAT
* *
14724933 A-GTTTATACCA
1 ATTTTTATA--T
*
14724944 ATTTTCATAT
1 ATTTTTATAT
14724954 -TTTTTAAATAT
1 ATTTTT--ATAT
*
14724965 ATATTTATAT
1 ATTTTTATAT
14724975 -TTTTTGATA-
1 ATTTTT-ATAT
*
14724984 ACGTTTTTCTGAT
1 A--TTTTTAT-AT
14724997 -TTTTTATAT
1 ATTTTTATAT
14725006 -TTTTT-TAT
1 ATTTTTATAT
14725014 GATTTTTA-AT
1 -ATTTTTATAT
14725024 ATTTT
1 ATTTT
14725029 ATAGGAAAAG
Statistics
Matches: 144, Mismatches: 26, Indels: 45
0.67 0.12 0.21
Matches are distributed among these distances:
8 11 0.08
9 47 0.33
10 57 0.40
11 14 0.10
12 15 0.10
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:14724861 original size:21 final size:21
Alignment explanation
Indices: 14724837--14724891 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
14724827 ATTTTAATAT
14724837 TTTTTATATATTTTTATAGAA
1 TTTTTATATATTTTTATAGAA
* *
14724858 TTTTAATACATTTTTATAGAA
1 TTTTTATATATTTTTATAGAA
*
14724879 -TTTTAAATATTTT
1 TTTTTATATATTTT
14724892 AATTATGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 10 0.34
21 19 0.66
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTTTATATATTTTTATAGAA
Found at i:14724913 original size:16 final size:17
Alignment explanation
Indices: 14724900--14724939 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
14724890 TTAATTATGT
14724900 TTTATTA-ATTTTATAA
1 TTTATTATATTTTATAA
14724916 TTTATTATATTTTTATAA
1 TTTATTATA-TTTTATAA
14724934 GTTTAT
1 -TTTAT
14724940 ACCAATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 1 0.05
18 8 0.38
19 5 0.24
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTATTATATTTTATAA
Found at i:14725742 original size:42 final size:43
Alignment explanation
Indices: 14725690--14725789 Score: 136
Period size: 42 Copynumber: 2.4 Consensus size: 43
14725680 ACGTCGCTAA
* *
14725690 CTTTTGCGGCGCTTAT-GAAAAAACGCGGCTAA-AGATCA-TGTT
1 CTTTAGCGGCGCTTATGGAAAAAACGCCGCTAACAG-T-AGTGTT
14725732 CTTTAGCGGCGCTT-TGGAAAAAACGCCGCTAACAGTAGTGTT
1 CTTTAGCGGCGCTTATGGAAAAAACGCCGCTAACAGTAGTGTT
14725774 CTTTAGCGGCGCTTAT
1 CTTTAGCGGCGCTTAT
14725790 TTCACAAATG
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
41 2 0.04
42 47 0.90
43 3 0.06
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGCTTATGGAAAAAACGCCGCTAACAGTAGTGTT
Found at i:14726262 original size:12 final size:12
Alignment explanation
Indices: 14726224--14726262 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
14726214 TTTTGAACCT
*
14726224 CTGCTTCTATCG
1 CTGCTTCTCTCG
*
14726236 CTACTTCTCTCG
1 CTGCTTCTCTCG
14726248 CTGCTTCTCTCG
1 CTGCTTCTCTCG
14726260 CTG
1 CTG
14726263 TGGCCTCTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.05, C:0.38, G:0.15, T:0.41
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:14726274 original size:21 final size:21
Alignment explanation
Indices: 14726248--14726304 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
14726238 ACTTCTCTCG
* *
14726248 CTGCTTCTCTCGCTGTGGCCT
1 CTGCTTCTCTCGCTGTAGCAT
14726269 CTGCTTCTCTCGCTGTAGCAT
1 CTGCTTCTCTCGCTGTAGCAT
*
14726290 CTGCTTCCCTCGCTG
1 CTGCTTCTCTCGCTG
14726305 CCACATCTGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.04, C:0.39, G:0.21, T:0.37
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGTAGCAT
Found at i:14726311 original size:21 final size:21
Alignment explanation
Indices: 14726248--14726316 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
14726238 ACTTCTCTCG
* ** *
14726248 CTGCTTCTCTCGCTGTGGCCT
1 CTGCTTCCCTCGCTGCAGCAT
* *
14726269 CTGCTTCTCTCGCTGTAGCAT
1 CTGCTTCCCTCGCTGCAGCAT
14726290 CTGCTTCCCTCGCTGCCA-CAT
1 CTGCTTCCCTCGCTG-CAGCAT
14726311 CTGCTT
1 CTGCTT
14726317 TGAGTTGTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 42 0.98
22 1 0.02
ACGTcount: A:0.06, C:0.39, G:0.19, T:0.36
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGCAT
Found at i:14734104 original size:21 final size:21
Alignment explanation
Indices: 14734080--14734123 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
14734070 AACCCCTATC
* *
14734080 CCTTAATCTCCAACC-TCTAAA
1 CCTTAAACTCAAACCAT-TAAA
14734101 CCTTAAACTCAAACCATTAAA
1 CCTTAAACTCAAACCATTAAA
14734122 CC
1 CC
14734124 AAGTACCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (21 bp):
CCTTAAACTCAAACCATTAAA
Found at i:14734333 original size:21 final size:21
Alignment explanation
Indices: 14734309--14734378 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
14734299 ATAAACTATA
*
14734309 AACCGTAAACCCCTAACCCTT
1 AACCATAAACCCCTAACCCTT
* *
14734330 AACCATTAACCCGTAACACC-T
1 AACCATAAACCCCTAAC-CCTT
14734351 ATA-CATTAAA-CCCTAACCCTT
1 A-ACCA-TAAACCCCTAACCCTT
14734372 AAACCAT
1 -AACCAT
14734379 GGTTCATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
20 2 0.05
21 27 0.71
22 9 0.24
ACGTcount: A:0.39, C:0.37, G:0.03, T:0.21
Consensus pattern (21 bp):
AACCATAAACCCCTAACCCTT
Found at i:14734954 original size:114 final size:114
Alignment explanation
Indices: 14734788--14735653 Score: 1217
Period size: 114 Copynumber: 7.7 Consensus size: 114
14734778 GTTTCGGTTT
* * *
14734788 AAAACGATGCGTTTTGGTTAAGATTTGTTTGCGGTGCTTTGTATAATGCGCCGCTAATGATGTAC
1 AAAACGATGCGTTTTGGTTAAGATTT-TTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGC
*
14734853 TTTAGCGGCGTTTTACTAT-AGCGCCACTAATTCTAAAAATACCTCAACCG
65 TTTAGCGGCGTTTTACTATAAGCGCCACTAATTCT-AAAATACCTCAACCC
* * *
14734903 AAAACGATGCGTTTTGGTTATGAATTTTTGTGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
*
14734968 TTAGC-G-G-----C-A-AA-CGCCACTAAATCTAAAATACCTCAACCC
66 TTAGCGGCGTTTTACTATAAGCGCCACTAATTCTAAAATACCTCAACCC
* * *
14735007 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGAATAATGTGCCGCTAATGGTATGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
* * * *
14735072 TTAGTGGCATTTATCCT-TAAGCGCCACTAATTCTAATATACCTCAACCC
66 TTAGCGGCGTTT-TACTATAAGCGCCACTAATTCTAAAATACCTCAACCC
** * *
14735121 AAAACGATGCGTTTCAGTTAAGATTTTTTGCGGCGCTTTGTATGATCCGCCGCTAATGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
14735186 TTAGCGGCGTTTTTACT-TAAGCGCCACTAATTCTAAAATACCTCAACCC
66 TTAGCGGCG-TTTTACTATAAGCGCCACTAATTCTAAAATACCTCAACCC
* * * *
14735235 AGAATGATGCATTTTGGTTATGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
* * *
14735300 TTAGCGGC-ATTTATCCATAAGCGCCACTAATTCTAATATACCTCAACCC
66 TTAGCGGCGTTTTA-CTATAAGCGCCACTAATTCTAAAATACCTCAACCC
* * *
14735349 AAAACGATGCGTTTTGGTTAAGATTTTTTACGGCGCTTTGTATGATGCGCCGCTAATGGTGTGCG
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
* *
14735414 TTAGCAGCGTTTTTTCT-TAAGCGCCACTAATTCTAAAATACCTCAACCC
66 TTAGCGGCG-TTTTACTATAAGCGCCACTAATTCTAAAATACCTCAACCC
*
14735463 AGAACGATGCGTTTTGGTTAAGA-TTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
* * *
14735527 TTAGCGGC-ATTTATCCATAAGCGCCACTAATTCTAATATACCTCAACCC
66 TTAGCGGCGTTTTA-CTATAAGCGCCACTAATTCTAAAATACCTCAACCC
* *
14735576 AAAACGATGCGTTTTGGTTAAGATTTTTTGCTGCGCTTTGTATAATGCGCCGCTAATGGTGTGAT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
14735641 TTAGCGGCGTTTT
66 TTAGCGGCGTTTT
14735654 TCGAAGGTCG
Statistics
Matches: 665, Mismatches: 65, Indels: 42
0.86 0.08 0.05
Matches are distributed among these distances:
104 77 0.12
105 13 0.02
106 2 0.00
107 1 0.00
111 3 0.00
112 7 0.01
113 102 0.15
114 426 0.64
115 31 0.05
116 3 0.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.34
Consensus pattern (114 bp):
AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
TTAGCGGCGTTTTACTATAAGCGCCACTAATTCTAAAATACCTCAACCC
Found at i:14742599 original size:9 final size:9
Alignment explanation
Indices: 14742585--14742651 Score: 82
Period size: 9 Copynumber: 7.2 Consensus size: 9
14742575 CTTGGTTAAA
14742585 AATTACCCG
1 AATTACCCG
*
14742594 AATTA-CCA
1 AATTACCCG
14742602 AACTTACCCG
1 AA-TTACCCG
14742612 AATTACCCG
1 AATTACCCG
14742621 AAAATTACCCG
1 --AATTACCCG
*
14742632 AATTACCTG
1 AATTACCCG
14742641 AATTACCCG
1 AATTACCCG
14742650 AA
1 AA
14742652 AACCTCAGTC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
8 4 0.08
9 33 0.66
10 4 0.08
11 9 0.18
ACGTcount: A:0.39, C:0.30, G:0.09, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:14742970 original size:4 final size:4
Alignment explanation
Indices: 14742954--14742987 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
14742944 TTTTCTTACA
14742954 TAAT TAAT T--T TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
14742988 AGACAACTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
4 26 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TAAT
Found at i:14743143 original size:3 final size:3
Alignment explanation
Indices: 14743128--14743233 Score: 203
Period size: 3 Copynumber: 35.0 Consensus size: 3
14743118 TAATAACACA
14743128 AAT AAT GAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14743174 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14743222 AAT AAT AAT AAT
1 AAT AAT AAT AAT
14743234 TCACAGCACA
Statistics
Matches: 102, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
3 99 0.97
4 3 0.03
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14745092 original size:38 final size:38
Alignment explanation
Indices: 14745030--14745174 Score: 191
Period size: 38 Copynumber: 3.8 Consensus size: 38
14745020 CAGTGAATTC
* ***
14745030 TTTTGCTCAATTGAGCGGCATTCAGTATATTCAGTAGA
1 TTTTGCTCGATTGAGCAATATTCAGTATATTCAGTAGA
* * *
14745068 TTTTGCTCGATTAAGAAATGTTCAGTATATTCAGTAGA
1 TTTTGCTCGATTGAGCAATATTCAGTATATTCAGTAGA
* ** *
14745106 TTTTGCTCGACTGAGCAGCATTCAGTATATACAGTAGA
1 TTTTGCTCGATTGAGCAATATTCAGTATATTCAGTAGA
14745144 TTTTGCTCGATTGAGCAATATTCAGTATATT
1 TTTTGCTCGATTGAGCAATATTCAGTATATT
14745175 TGGTATTTCA
Statistics
Matches: 89, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 89 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.38
Consensus pattern (38 bp):
TTTTGCTCGATTGAGCAATATTCAGTATATTCAGTAGA
Found at i:14745168 original size:76 final size:76
Alignment explanation
Indices: 14745030--14745174 Score: 227
Period size: 76 Copynumber: 1.9 Consensus size: 76
14745020 CAGTGAATTC
* * * *
14745030 TTTTGCTCAATTGAGCGGCATTCAGTATATTCAGTAGATTTTGCTCGATTAAGAAATGTTCAGTA
1 TTTTGCTCAACTGAGCAGCATTCAGTATATACAGTAGATTTTGCTCGATTAAGAAATATTCAGTA
14745095 TATTCAGTAGA
66 TATTCAGTAGA
* * *
14745106 TTTTGCTCGACTGAGCAGCATTCAGTATATACAGTAGATTTTGCTCGATTGAGCAATATTCAGTA
1 TTTTGCTCAACTGAGCAGCATTCAGTATATACAGTAGATTTTGCTCGATTAAGAAATATTCAGTA
14745171 TATT
66 TATT
14745175 TGGTATTTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.38
Consensus pattern (76 bp):
TTTTGCTCAACTGAGCAGCATTCAGTATATACAGTAGATTTTGCTCGATTAAGAAATATTCAGTA
TATTCAGTAGA
Found at i:14747115 original size:17 final size:17
Alignment explanation
Indices: 14747095--14747210 Score: 126
Period size: 17 Copynumber: 6.9 Consensus size: 17
14747085 ACAATTCACT
*
14747095 TATAAACACAGCTCGTA
1 TATAAACACAGCTCGCA
* * * *
14747112 TATAAATACAACCCGTA
1 TATAAACACAGCTCGCA
* *
14747129 TAT-AACGCAGCTTGCA
1 TATAAACACAGCTCGCA
14747145 TATAAACACAGCTCGCA
1 TATAAACACAGCTCGCA
*
14747162 TATAAACACAGTTCGCA
1 TATAAACACAGCTCGCA
* **
14747179 TATAAACACAACTAACA
1 TATAAACACAGCTCGCA
14747196 TATAAACACAGCTCG
1 TATAAACACAGCTCG
14747211 TACATTGTCA
Statistics
Matches: 79, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
16 10 0.13
17 69 0.87
ACGTcount: A:0.43, C:0.25, G:0.10, T:0.22
Consensus pattern (17 bp):
TATAAACACAGCTCGCA
Found at i:14747182 original size:50 final size:51
Alignment explanation
Indices: 14747095--14747210 Score: 135
Period size: 50 Copynumber: 2.3 Consensus size: 51
14747085 ACAATTCACT
* * * * * **
14747095 TATAAACACAGCTCGTATATAAATACAACCCGTATAT-AACGCAGCTTGCA
1 TATAAACACAGCTCGCATATAAACACAACCCGCATATAAACACAACTAACA
***
14747145 TATAAACACAGCTCGCATATAAACACAGTTCGCATATAAACACAACTAACA
1 TATAAACACAGCTCGCATATAAACACAACCCGCATATAAACACAACTAACA
14747196 TATAAACACAGCTCG
1 TATAAACACAGCTCG
14747211 TACATTGTCA
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
50 31 0.56
51 24 0.44
ACGTcount: A:0.43, C:0.25, G:0.10, T:0.22
Consensus pattern (51 bp):
TATAAACACAGCTCGCATATAAACACAACCCGCATATAAACACAACTAACA
Found at i:14748096 original size:25 final size:25
Alignment explanation
Indices: 14748064--14748115 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
14748054 TTTGTATTAA
*
14748064 TCCAATCATTTACATCCATTTCTAT
1 TCCAATCATTTACAGCCATTTCTAT
*
14748089 TCCAATCATTTATAGCCATTTCTAT
1 TCCAATCATTTACAGCCATTTCTAT
14748114 TC
1 TC
14748116 ACCACACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.27, C:0.27, G:0.02, T:0.44
Consensus pattern (25 bp):
TCCAATCATTTACAGCCATTTCTAT
Found at i:14749361 original size:20 final size:20
Alignment explanation
Indices: 14749338--14749377 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14749328 TAGATACCTT
14749338 ACCTAGTGAATCGATACCAA
1 ACCTAGTGAATCGATACCAA
* * *
14749358 ACCTATTGTATTGATACCAA
1 ACCTAGTGAATCGATACCAA
14749378 TTTCAGCTTC
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:0.12, T:0.28
Consensus pattern (20 bp):
ACCTAGTGAATCGATACCAA
Found at i:14750437 original size:13 final size:13
Alignment explanation
Indices: 14750419--14750448 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
14750409 CTGTTCAAAG
14750419 GGTACGTTAGAGA
1 GGTACGTTAGAGA
14750432 GGTACGTTAGAGA
1 GGTACGTTAGAGA
14750445 GGTA
1 GGTA
14750449 TGTTGCACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.40, T:0.23
Consensus pattern (13 bp):
GGTACGTTAGAGA
Found at i:14753296 original size:19 final size:19
Alignment explanation
Indices: 14753269--14753316 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
14753259 GGACATATGA
14753269 TTCCACTAATCACACACAG
1 TTCCACTAATCACACACAG
* *
14753288 TTTCACTAATCAGACACAG
1 TTCCACTAATCACACACAG
14753307 TTCCACTAAT
1 TTCCACTAAT
14753317 AAAACACCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.35, C:0.31, G:0.06, T:0.27
Consensus pattern (19 bp):
TTCCACTAATCACACACAG
Found at i:14753323 original size:19 final size:19
Alignment explanation
Indices: 14753269--14753323 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
14753259 GGACATATGA
*
14753269 TTCCACTAATCACACACAG
1 TTCCACTAATCAAACACAG
* *
14753288 TTTCACTAATCAGACACAG
1 TTCCACTAATCAAACACAG
*
14753307 TTCCACTAATAAAACAC
1 TTCCACTAATCAAACAC
14753324 CATTAACGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.40, C:0.31, G:0.05, T:0.24
Consensus pattern (19 bp):
TTCCACTAATCAAACACAG
Found at i:14755297 original size:30 final size:30
Alignment explanation
Indices: 14755246--14755328 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 30
14755236 CACAGGTGAA
* **
14755246 ACTTAAAAAAAAAACTT-AATAGCCTAGTG
1 ACTTAAATAAAAATTTTAAATAGCCTAGTG
** *
14755275 ACTTAAATAAAAATTTTAAATAGTTTGGTG
1 ACTTAAATAAAAATTTTAAATAGCCTAGTG
*
14755305 ACTTAAATGAAAATTTTCAAATAG
1 ACTTAAATAAAAATTTT-AAATAG
14755329 TTTAGTGGCC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 14 0.31
30 25 0.56
31 6 0.13
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.33
Consensus pattern (30 bp):
ACTTAAATAAAAATTTTAAATAGCCTAGTG
Found at i:14755330 original size:31 final size:30
Alignment explanation
Indices: 14755272--14755331 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
14755262 TAATAGCCTA
14755272 GTGACTTAAATAAAAATTTTAAATAGTTTG
1 GTGACTTAAATAAAAATTTTAAATAGTTTG
*
14755302 GTGACTTAAATGAAAATTTTCAAATAGTTT
1 GTGACTTAAATAAAAATTTT-AAATAGTTT
14755332 AGTGGCCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 19 0.68
31 9 0.32
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.40
Consensus pattern (30 bp):
GTGACTTAAATAAAAATTTTAAATAGTTTG
Found at i:14761768 original size:17 final size:17
Alignment explanation
Indices: 14761742--14761776 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14761732 TGCAAGGTAG
*
14761742 TCAAATTAAGTTTAGGT
1 TCAAACTAAGTTTAGGT
14761759 TCAAACTAAGTTTAGGT
1 TCAAACTAAGTTTAGGT
14761776 T
1 T
14761777 AAGGTTCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (17 bp):
TCAAACTAAGTTTAGGT
Found at i:14764542 original size:9 final size:9
Alignment explanation
Indices: 14764504--14764630 Score: 139
Period size: 9 Copynumber: 14.1 Consensus size: 9
14764494 ACCATTTCCT
*
14764504 CAAATTCCA
1 CAAATCCCA
*
14764513 GAAATCCCA
1 CAAATCCCA
*
14764522 -AGAATTCCA
1 CA-AATCCCA
*
14764531 CAGATCCCA
1 CAAATCCCA
*
14764540 CAGATCCCA
1 CAAATCCCA
*
14764549 CAGATCCCA
1 CAAATCCCA
14764558 CAAATCCCA
1 CAAATCCCA
*
14764567 CAAATTCCA
1 CAAATCCCA
*
14764576 CTAATCCCA
1 CAAATCCCA
*
14764585 CAGATCCCA
1 CAAATCCCA
*
14764594 CAAGTCCCA
1 CAAATCCCA
14764603 CAAATCCCA
1 CAAATCCCA
*
14764612 CAAGTCCCA
1 CAAATCCCA
14764621 CAAATCCCA
1 CAAATCCCA
14764630 C
1 C
14764631 TAATGCCAGG
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
8 1 0.01
9 98 0.98
10 1 0.01
ACGTcount: A:0.39, C:0.41, G:0.06, T:0.14
Consensus pattern (9 bp):
CAAATCCCA
Found at i:14766426 original size:14 final size:16
Alignment explanation
Indices: 14766392--14766428 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
14766382 TTTCTAATAT
*
14766392 AAATTTAACACTTATA
1 AAATTTAACACGTATA
14766408 AAATTTAACA-GTA-A
1 AAATTTAACACGTATA
14766422 AAATTTA
1 AAATTTA
14766429 GCAATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 8 0.40
15 2 0.10
16 10 0.50
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (16 bp):
AAATTTAACACGTATA
Found at i:14766507 original size:2 final size:2
Alignment explanation
Indices: 14766502--14766536 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14766492 ATATATATAT
14766502 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
14766537 TTTTTATGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14767539 original size:20 final size:20
Alignment explanation
Indices: 14767514--14767554 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
14767504 TACATTTAGA
14767514 TTTTTAGGTTTTTATA-ATTT
1 TTTTTA-GTTTTTATATATTT
*
14767534 TTTTTATTTTTTATATATTT
1 TTTTTAGTTTTTATATATTT
14767554 T
1 T
14767555 AAATTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTTAGTTTTTATATATTT
Found at i:14775421 original size:22 final size:22
Alignment explanation
Indices: 14775396--14775442 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
14775386 GATTTACCTA
14775396 ACATGTGAGGTGTTGAACTAAG
1 ACATGTGAGGTGTTGAACTAAG
14775418 ACATGTGAGGTGTTGAACTAAG
1 ACATGTGAGGTGTTGAACTAAG
14775440 ACA
1 ACA
14775443 CGTACCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ACATGTGAGGTGTTGAACTAAG
Found at i:14786148 original size:7 final size:7
Alignment explanation
Indices: 14786138--14786167 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
14786128 TTTGGGTAAT
14786138 TGAAAGG
1 TGAAAGG
14786145 TGAAAGG
1 TGAAAGG
14786152 TGAAAGG
1 TGAAAGG
14786159 TGAAAGG
1 TGAAAGG
14786166 TG
1 TG
14786168 GAGTGGAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (7 bp):
TGAAAGG
Found at i:14786459 original size:7 final size:7
Alignment explanation
Indices: 14786449--14786478 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
14786439 TTTGGGTAAT
14786449 TGAAAGG
1 TGAAAGG
14786456 TGAAAGG
1 TGAAAGG
14786463 TGAAAGG
1 TGAAAGG
14786470 TGAAAGG
1 TGAAAGG
14786477 TG
1 TG
14786479 GAGTGGAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (7 bp):
TGAAAGG
Found at i:14786592 original size:311 final size:312
Alignment explanation
Indices: 14786029--14786651 Score: 1239
Period size: 311 Copynumber: 2.0 Consensus size: 312
14786019 ATGGGTTTGG
14786029 GGAAAAAGAGGGAAGCAAAGCAAAGGTTGGGTTTGTGTGGGAGAATAGGAATGAAGGGGAGATTG
1 GGAAAAAGAGGGAAGCAAAGCAAAGGTTGGGTTTGTGTGGGAGAATAGGAATGAAGGGGAGATTG
14786094 ATTCGAGTTTTTGTTGGTTTTTTGGTTTTTGGGGTTTGGGTAATTGAAAGGTGAAAGGTGAAAGG
66 ATTCGAGTTTTTGTTGGTTTTTTGGTTTTTGGGGTTTGGGTAATTGAAAGGTGAAAGGTGAAAGG
14786159 TGAAAGGTGGAGTGGAGGATCTAAGCCCCCATTGCTTTCCAATTAAATTATTCTTCATTAACCAA
131 TGAAAGGTGGAGTGGAGGATCTAAGCCCCCATTGCTTTCCAATTAAATTATTCTTCATTAACCAA
14786224 TAATTACCATTTTTAATTTTAATTTAGTTTTCTATCTTTTTAGCAATTTTTTTTTTCGATTAATT
196 TAATTACCATTTTTAATTTTAATTTAGTTTTCTATCTTTTTAGCAATTTTTTTTTTCGATTAATT
14786289 CCATATTTTTTATAATTTTACTCAAATAGAATATAAAAT-AAATAATATTTA
261 CCATATTTTTTATAATTTTACTCAAATAGAATATAAAATAAAATAATATTTA
14786340 GGAAAAAGAGGGAAGCAAAGCAAAGGTTGGGTTTGTGTGGGAGAATAGGAATGAAGGGGAGATTG
1 GGAAAAAGAGGGAAGCAAAGCAAAGGTTGGGTTTGTGTGGGAGAATAGGAATGAAGGGGAGATTG
14786405 ATTCGAGTTTTTGTTGGTTTTTTGGTTTTTGGGGTTTGGGTAATTGAAAGGTGAAAGGTGAAAGG
66 ATTCGAGTTTTTGTTGGTTTTTTGGTTTTTGGGGTTTGGGTAATTGAAAGGTGAAAGGTGAAAGG
14786470 TGAAAGGTGGAGTGGAGGATCTAAGCCCCCATTGCTTTCCAATTAAATTATTCTTCATTAACCAA
131 TGAAAGGTGGAGTGGAGGATCTAAGCCCCCATTGCTTTCCAATTAAATTATTCTTCATTAACCAA
14786535 TAATTACCATTTTTAATTTTAATTTAGTTTTCTATCTTTTTAGCAATTTTTTTTTTCGATTAATT
196 TAATTACCATTTTTAATTTTAATTTAGTTTTCTATCTTTTTAGCAATTTTTTTTTTCGATTAATT
14786600 CCATATTTTTTATAATTTTACTCAAATAGAATATAAAATAAAATAATATTTA
261 CCATATTTTTTATAATTTTACTCAAATAGAATATAAAATAAAATAATATTTA
14786652 TAATTAGAAA
Statistics
Matches: 311, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
311 299 0.96
312 12 0.04
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (312 bp):
GGAAAAAGAGGGAAGCAAAGCAAAGGTTGGGTTTGTGTGGGAGAATAGGAATGAAGGGGAGATTG
ATTCGAGTTTTTGTTGGTTTTTTGGTTTTTGGGGTTTGGGTAATTGAAAGGTGAAAGGTGAAAGG
TGAAAGGTGGAGTGGAGGATCTAAGCCCCCATTGCTTTCCAATTAAATTATTCTTCATTAACCAA
TAATTACCATTTTTAATTTTAATTTAGTTTTCTATCTTTTTAGCAATTTTTTTTTTCGATTAATT
CCATATTTTTTATAATTTTACTCAAATAGAATATAAAATAAAATAATATTTA
Found at i:14796177 original size:23 final size:24
Alignment explanation
Indices: 14796128--14796177 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
14796118 TATCTTTCTA
**
14796128 TTTTTATTTTTAAAAATTTAATTT
1 TTTTTATTTTTAAAAATTTAAAAT
14796152 TTTTTA-TTTT-AAAATTTCAAAAT
1 TTTTTATTTTTAAAAATTT-AAAAT
14796175 TTT
1 TTT
14796178 GGTTAAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 10 0.43
24 6 0.26
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTTATTTTTAAAAATTTAAAAT
Found at i:14809774 original size:18 final size:19
Alignment explanation
Indices: 14809751--14809793 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
14809741 TGATAATTTT
**
14809751 AAAAATT-CAAAAATTAAA
1 AAAAATTGCAAAAAACAAA
14809769 AAAAATTGCAAAAAACAAA
1 AAAAATTGCAAAAAACAAA
14809788 AAAAAT
1 AAAAAT
14809794 GAAATTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.16
Consensus pattern (19 bp):
AAAAATTGCAAAAAACAAA
Found at i:14811469 original size:45 final size:45
Alignment explanation
Indices: 14811412--14811538 Score: 114
Period size: 43 Copynumber: 2.9 Consensus size: 45
14811402 CATCTTTGAT
* *
14811412 CTGCTCCGCTGTCTATGCAGGAAGGCCAGATCTGTTATCTTCAAC
1 CTGCTCCACTGTCTATGCAGGAAGGCAAGATCTGTTATCTTCAAC
** * * * * * * * *
14811457 CTGCTCCACTGTCTCCG-AGGGAGACGAGGT-TGGTGTCTTCGAT
1 CTGCTCCACTGTCTATGCAGGAAGGCAAGATCTGTTATCTTCAAC
* *
14811500 CTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGTTATC
1 CTGCTCCACTGTCTATGCAGGAAGGCAAGATCTGTTATC
14811539 ATCACTGATC
Statistics
Matches: 59, Mismatches: 21, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
43 22 0.37
44 18 0.31
45 19 0.32
ACGTcount: A:0.19, C:0.26, G:0.27, T:0.28
Consensus pattern (45 bp):
CTGCTCCACTGTCTATGCAGGAAGGCAAGATCTGTTATCTTCAAC
Found at i:14811511 original size:133 final size:133
Alignment explanation
Indices: 14811038--14811444 Score: 665
Period size: 133 Copynumber: 3.1 Consensus size: 133
14811028 CTTAGAGAGA
* * * *
14811038 CAAGATCTGAAATCTTCAATCTATTCCATTGATGCCCAGGGA-AGTAGAATTATTGGCTTCAATG
1 CAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCAGGGAGA-TAGAATTATTGGCTTCAATG
* * *
14811102 TACTCCACTGTAACCACAGGGAGGTAAAATCTGCCGTCTTCGACCTGCTTTGCTGTCTATGCAGG
65 TACTCCACTGTAACCACAGGGAGGTAAAATCTGCCGTCTTTGATCTGCTTCGCTGTCTATGCAGG
14811167 AAGG
130 AAGG
14811171 CAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGT
1 CAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGT
* *
14811236 ACTCCACTGTAACTACAGGGAGGTAAAATCTGCCGTCTTTGATCTTCTTCGCTGTCTATGCAGGA
66 ACTCCACTGTAACCACAGGGAGGTAAAATCTGCCGTCTTTGATCTGCTTCGCTGTCTATGCAGGA
14811301 AGG
131 AGG
14811304 CAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGT
1 CAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGT
* * *
14811369 ACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCATCTTTGATCTGCTCCGCTGTCTATGCAGG
66 ACTCCACTGTAACCACAGGGAGGTAAAATCT-GCCGTCTTTGATCTGCTTCGCTGTCTATGCAGG
14811433 AAGG
130 AAGG
*
14811437 CCAGATCT
1 CAAGATCT
14811445 GTTATCTTCA
Statistics
Matches: 257, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
132 1 0.00
133 255 0.99
134 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (133 bp):
CAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGT
ACTCCACTGTAACCACAGGGAGGTAAAATCTGCCGTCTTTGATCTGCTTCGCTGTCTATGCAGGA
AGG
Found at i:14812766 original size:13 final size:14
Alignment explanation
Indices: 14812748--14812778 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
14812738 CATTTTTACT
14812748 TTTTCATC-TTTCA
1 TTTTCATCTTTTCA
14812761 TTTTCATCTTTTCA
1 TTTTCATCTTTTCA
14812775 TTTT
1 TTTT
14812779 TTCACATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTCATCTTTTCA
Found at i:14817561 original size:18 final size:19
Alignment explanation
Indices: 14817538--14817579 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
14817528 TGATAATTTT
**
14817538 AAAAATT-CAAAAATTAAA
1 AAAAATTGCAAAAAACAAA
14817556 AAAAATTGCAAAAAACAAA
1 AAAAATTGCAAAAAACAAA
14817575 AAAAA
1 AAAAA
14817580 ATGAAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAAATTGCAAAAAACAAA
Found at i:14823964 original size:15 final size:15
Alignment explanation
Indices: 14823939--14823973 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
14823929 GACTCTATTT
*
14823939 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
14823953 TAATTAATATTAAGA
1 TAATTAATATTAAGA
14823968 TAATTA
1 TAATTA
14823974 TTAAGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Done.