Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 33 of 313
Found at i:11213439 original size:42 final size:42
Alignment explanation
Indices: 11213380--11213465 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 42
11213370 GAAGCTTCAA
11213380 AGTTGAATAGAAGCTGGTAAGAGCTGAACAAAAACTCATAAG
1 AGTTGAATAGAAGCTGGTAAGAGCTGAACAAAAACTCATAAG
* * *
11213422 AGTTGAACT-GAAGCTGGTAAGAGTTGAACAGAAACTCGTAAG
1 AGTTGAA-TAGAAGCTGGTAAGAGCTGAACAAAAACTCATAAG
11213464 AG
1 AG
11213466 CTAAACAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 39 0.98
43 1 0.03
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.20
Consensus pattern (42 bp):
AGTTGAATAGAAGCTGGTAAGAGCTGAACAAAAACTCATAAG
Found at i:11213467 original size:63 final size:63
Alignment explanation
Indices: 11213380--11213556 Score: 203
Period size: 63 Copynumber: 2.8 Consensus size: 63
11213370 GAAGCTTCAA
* * * * *
11213380 AGTTGAATAGAAGCTGGTAAGAGCTGAACAAAAACTCATAAGAGTTGAACTGAAGCTGGTAAG
1 AGTTGAACAGAAACTAGTAAGAGCTGAACAAAAACTCATAAGAGTTGAACAGAAGCTCGTAAG
* * *
11213443 AGTTGAACAGAAACTCGTAAGAGCTAAACAAAAACTCATAAGAGTTGAACAGAAGTTCGTAAG
1 AGTTGAACAGAAACTAGTAAGAGCTGAACAAAAACTCATAAGAGTTGAACAGAAGCTCGTAAG
* * * * * * *
11213506 AGCTAAAGAGAAACTTAG-AAGAGTTGAACAAAAGCTCGTAAGAGCTGAACA
1 AGTTGAACAGAAAC-TAGTAAGAGCTGAACAAAAACTCATAAGAGTTGAACA
11213557 CACAAGAGTT
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
63 95 0.98
64 2 0.02
ACGTcount: A:0.45, C:0.13, G:0.24, T:0.19
Consensus pattern (63 bp):
AGTTGAACAGAAACTAGTAAGAGCTGAACAAAAACTCATAAGAGTTGAACAGAAGCTCGTAAG
Found at i:11213485 original size:42 final size:42
Alignment explanation
Indices: 11213439--11213556 Score: 157
Period size: 42 Copynumber: 2.8 Consensus size: 42
11213429 CTGAAGCTGG
11213439 TAAGAGTTGAACAGAAACTCGTAAGAGCTAAACAAAAACTCA
1 TAAGAGTTGAACAGAAACTCGTAAGAGCTAAACAAAAACTCA
** * * *
11213481 TAAGAGTTGAACAGAAGTTCGTAAGAGCTAAAGAGAAACTTA
1 TAAGAGTTGAACAGAAACTCGTAAGAGCTAAACAAAAACTCA
* *
11213523 GAAGAGTTGAACA-AAAGCTCGTAAGAGCTGAACA
1 TAAGAGTTGAACAGAAA-CTCGTAAGAGCTAAACA
11213557 CACAAGAGTT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 2 0.03
42 63 0.97
ACGTcount: A:0.47, C:0.14, G:0.22, T:0.18
Consensus pattern (42 bp):
TAAGAGTTGAACAGAAACTCGTAAGAGCTAAACAAAAACTCA
Found at i:11216643 original size:26 final size:26
Alignment explanation
Indices: 11216614--11216673 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 26
11216604 TTGAGTCATC
11216614 AAATACTTTAAACTTTTGTGATCTAT
1 AAATACTTTAAACTTTTGTGATCTAT
* *
11216640 AAATATGTTTTAAACTTTTGTGATCTGT
1 AAATA--CTTTAAACTTTTGTGATCTAT
11216668 AAATAC
1 AAATAC
11216674 GTGACATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.17
28 24 0.83
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (26 bp):
AAATACTTTAAACTTTTGTGATCTAT
Found at i:11217294 original size:31 final size:31
Alignment explanation
Indices: 11217256--11217318 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
11217246 TTGTGCATGC
11217256 TCGAATTCTGTCTTTGAATAGATTAGTATAT
1 TCGAATTCTGTCTTTGAATAGATTAGTATAT
11217287 TCGAATTCTGTCTTTGAATAGATTAGTATAT
1 TCGAATTCTGTCTTTGAATAGATTAGTATAT
11217318 T
1 T
11217319 GTCAATAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.46
Consensus pattern (31 bp):
TCGAATTCTGTCTTTGAATAGATTAGTATAT
Found at i:11221601 original size:6 final size:6
Alignment explanation
Indices: 11221590--11221639 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
11221580 TGAAATGTGT
* * * *
11221590 AAATAA AAATAA AATTAA AATTAA AAGTAA AAATAA AAATAA AAACAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
11221638 AA
1 AA
11221640 GGGAAAGGGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:11223255 original size:9 final size:9
Alignment explanation
Indices: 11223223--11223279 Score: 62
Period size: 9 Copynumber: 6.4 Consensus size: 9
11223213 AATAAGATAG
11223223 AATAGTAAT
1 AATAGTAAT
*
11223232 AA-AGAAAT
1 AATAGTAAT
**
11223240 AGGAGTAAT
1 AATAGTAAT
11223249 AATAGTAAT
1 AATAGTAAT
**
11223258 AATAAAAAT
1 AATAGTAAT
11223267 AATAGTAAT
1 AATAGTAAT
11223276 AATA
1 AATA
11223280 AAATGATTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
8 6 0.16
9 32 0.84
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.26
Consensus pattern (9 bp):
AATAGTAAT
Found at i:11223267 original size:18 final size:18
Alignment explanation
Indices: 11223246--11223282 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
11223236 AAATAGGAGT
11223246 AATAATAGTAATAATAAA
1 AATAATAGTAATAATAAA
11223264 AATAATAGTAATAATAAA
1 AATAATAGTAATAATAAA
11223282 A
1 A
11223283 TGATTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (18 bp):
AATAATAGTAATAATAAA
Found at i:11223421 original size:25 final size:25
Alignment explanation
Indices: 11223392--11223442 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
11223382 GAGGGGAAGG
11223392 AGAAAGCGGA-AGA-AGAAAGGAGGAA
1 AGAAA-CGGAGAGAGAG-AAGGAGGAA
*
11223417 AGAAACGGAGAGGGAGAAGGAGGAA
1 AGAAACGGAGAGAGAGAAGGAGGAA
11223442 A
1 A
11223443 CAAAAAGAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 4 0.17
25 17 0.74
26 2 0.09
ACGTcount: A:0.53, C:0.04, G:0.43, T:0.00
Consensus pattern (25 bp):
AGAAACGGAGAGAGAGAAGGAGGAA
Found at i:11224442 original size:26 final size:27
Alignment explanation
Indices: 11224410--11224465 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
11224400 GAAAAATGAA
11224410 AGAAAAATAAAGTTATTTAGTGGGGTT
1 AGAAAAATAAAGTTATTTAGTGGGGTT
11224437 AGAAAAATAAAGTTATTTAGTGGGGTT
1 AGAAAAATAAAGTTATTTAGTGGGGTT
11224464 AG
1 AG
11224466 TGCTCGGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (27 bp):
AGAAAAATAAAGTTATTTAGTGGGGTT
Found at i:11232437 original size:39 final size:39
Alignment explanation
Indices: 11232352--11232591 Score: 279
Period size: 39 Copynumber: 6.1 Consensus size: 39
11232342 CAAATCCAAT
* * * *
11232352 CACCACCAC-AAAGCATGCGGGACTTTAAGCTCGGATATAA
1 CACCAGCACGAAAGCCTTCGGGAC-TT-AGCCCGGATATAA
* *
11232392 GACCAGCAC-AAAGCCTGCGGGACTTGAGCCCGGATATAA
1 CACCAGCACGAAAGCCTTCGGGACTT-AGCCCGGATATAA
* *
11232431 CACCAGCACGAATGCCTTCGGGGCTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTTCGGGACTTAGCCCGGATATAA
*
11232470 CACCAGCACGAATA-ACTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAA-AGCCTTCGGGACTTAGCCCGGATATAA
* * * *
11232509 CACCAGCATGAATGCCTTCAGGACTTAGCCCAGATATAA
1 CACCAGCACGAAAGCCTTCGGGACTTAGCCCGGATATAA
* * *
11232548 CACCAACACGAATGCCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTTCGGGACTTAGCCCGGATATAA
11232587 CACCA
1 CACCA
11232592 TTATAAAGTC
Statistics
Matches: 175, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 142 0.81
40 33 0.19
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (39 bp):
CACCAGCACGAAAGCCTTCGGGACTTAGCCCGGATATAA
Found at i:11232589 original size:117 final size:119
Alignment explanation
Indices: 11232369--11232591 Score: 326
Period size: 117 Copynumber: 1.9 Consensus size: 119
11232359 ACAAAGCATG
* * * *
11232369 CGGGACTTTAAGCTCGGATATAAGACCAGCACAAAGCCTGCGGGACTTGAGCCCGGATATAACAC
1 CGGGACTTTAAGCCCGGATATAACACCAGCACAAAGCCTGCAGGACTTGAGCCCAGATATAACAC
* * *
11232434 CAGCACGAATGCCTTCGGGGCTTAGCCCGGATATAACACCAGCACGAATAACTT
66 CAACACGAATGCCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATAACTT
* * *
11232488 CGGGAC-TT-AGCCCGGATATAACACCAGCATGAATGCCTTCAGGACTT-AGCCCAGATATAACA
1 CGGGACTTTAAGCCCGGATATAACACCAGCA-CAAAGCCTGCAGGACTTGAGCCCAGATATAACA
11232550 CCAACACGAATGCCTTCGAGACTTAGCCCGGATATAACACCA
65 CCAACACGAATGCCTTCGAGACTTAGCCCGGATATAACACCA
11232592 TTATAAAGTC
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
117 72 0.77
118 15 0.16
119 6 0.06
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (119 bp):
CGGGACTTTAAGCCCGGATATAACACCAGCACAAAGCCTGCAGGACTTGAGCCCAGATATAACAC
CAACACGAATGCCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATAACTT
Found at i:11232705 original size:28 final size:28
Alignment explanation
Indices: 11232664--11232736 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
11232654 ATTTAATCAT
*
11232664 TCAATATTTTGCACACTAAGTGACATTC
1 TCAATATTTCGCACACTAAGTGACATTC
* * *
11232692 TCAATATCTCGCACATTAAGTGCCATTC
1 TCAATATTTCGCACACTAAGTGACATTC
*
11232720 TCAATATTTCGTACACT
1 TCAATATTTCGCACACT
11232737 GAGTACCATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.36
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGACATTC
Found at i:11232745 original size:28 final size:28
Alignment explanation
Indices: 11232664--11232745 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
11232654 ATTTAATCAT
*
11232664 TCAATATTTTGCACACTAAGTGA-CATTC
1 TCAATATTTCGCACACTAAGT-ACCATTC
* * *
11232692 TCAATATCTCGCACATTAAGTGCCATTC
1 TCAATATTTCGCACACTAAGTACCATTC
* *
11232720 TCAATATTTCGTACACTGAGTACCAT
1 TCAATATTTCGCACACTAAGTACCAT
11232746 ATTTGATTGC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.34
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTACCATTC
Found at i:11237999 original size:86 final size:86
Alignment explanation
Indices: 11237854--11238025 Score: 335
Period size: 86 Copynumber: 2.0 Consensus size: 86
11237844 CTTATGTAAC
11237854 AAATTCACCTCACTTGAATCTGAACTGAATTAAAACCAAATATTGAAATAAAAAATAAGATCATA
1 AAATTCACCTCACTTGAATCTGAACTGAATTAAAACCAAATATTGAAATAAAAAATAAGATCATA
*
11237919 AGAACTCGAAAAGCGTCTCAT
66 AGAACTCGAAAAGCATCTCAT
11237940 AAATTCACCTCACTTGAATCTGAACTGAATTAAAACCAAATATTGAAATAAAAAATAAGATCATA
1 AAATTCACCTCACTTGAATCTGAACTGAATTAAAACCAAATATTGAAATAAAAAATAAGATCATA
11238005 AGAACTCGAAAAGCATCTCAT
66 AGAACTCGAAAAGCATCTCAT
11238026 TAACAAGTTT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.24
Consensus pattern (86 bp):
AAATTCACCTCACTTGAATCTGAACTGAATTAAAACCAAATATTGAAATAAAAAATAAGATCATA
AGAACTCGAAAAGCATCTCAT
Found at i:11239079 original size:39 final size:39
Alignment explanation
Indices: 11238951--11239197 Score: 331
Period size: 39 Copynumber: 6.4 Consensus size: 39
11238941 ACTTTAAGCT
* *
11238951 CGGATATAATACCAGCAC-AAAGCCTGT-GGGACTTTAGCC
1 CGGATATAACACCAGCACGAATGCCT-TCGGGAC-TTAGCC
* *
11238990 CGGATATAACACCAACACGAATGCCCTCGGGGA--TAGCC
1 CGGATATAACACCAGCACGAATGCCTTC-GGGACTTAGCC
* * *
11239028 CGGATATAACACCAGCACGAATGCCTTCGAGACTTCGTC
1 CGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCC
* *
11239067 CGGATATAACACCAGCACGAATGCCTTTGGGACTTAGCT
1 CGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCC
* *
11239106 CGGATATAACACCAGCATGAATGCCTTCAGGACTTAGCC
1 CGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCC
*
11239145 CGGATATAACACCAACACGAATGCCTTCGGGACTTAGCC
1 CGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCC
11239184 CGGATATAACACCA
1 CGGATATAACACCA
11239198 TTATAAAGTC
Statistics
Matches: 182, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
37 3 0.02
38 31 0.17
39 139 0.76
40 5 0.03
41 4 0.02
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (39 bp):
CGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCC
Found at i:11239352 original size:28 final size:28
Alignment explanation
Indices: 11239282--11239352 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
11239272 AATATTTTTT
**
11239282 CACACTAAGTGTCATTCTCAATATCTCG
1 CACACTAAGTACCATTCTCAATATCTCG
* * *
11239310 CACATTAAGTGCCATTCTCAATATTTCG
1 CACACTAAGTACCATTCTCAATATCTCG
* *
11239338 TACACTGAGTACCAT
1 CACACTAAGTACCAT
11239353 ATTTGATTGC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (28 bp):
CACACTAAGTACCATTCTCAATATCTCG
Found at i:11242369 original size:41 final size:43
Alignment explanation
Indices: 11242294--11242387 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 43
11242284 GATTTGAGAT
* * *
11242294 TTACATGTAAGACCATGTCTGGGACATTGACATCG-TATATGA
1 TTACATGTAAGACCATATCTAGGACACTGACATCGATATATGA
* * *
11242336 TTACGTGTAAGACC-TATCTAGGACACTGGCATCGATATTTGA
1 TTACATGTAAGACCATATCTAGGACACTGACATCGATATATGA
11242378 TTACATGTAA
1 TTACATGTAA
11242388 AACATCGTCT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 16 0.36
42 28 0.64
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (43 bp):
TTACATGTAAGACCATATCTAGGACACTGACATCGATATATGA
Found at i:11245310 original size:3 final size:3
Alignment explanation
Indices: 11245302--11245331 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
11245292 TGACGTTTTA
11245302 TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
11245332 CTCCTCTGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:11246988 original size:3 final size:3
Alignment explanation
Indices: 11246980--11247008 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11246970 AAAAGTGATC
11246980 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
11247009 CTAAAAGCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11253678 original size:57 final size:58
Alignment explanation
Indices: 11253590--11253725 Score: 134
Period size: 57 Copynumber: 2.3 Consensus size: 58
11253580 AGTAACATCG
* * *
11253590 AATTTAAATATATAAAAATAATAAATAAATAAGTAAAGAGGA-AAAATAAATAATATTA
1 AATTTAAGTATATAAAAATAATAAATAAATAAATAAAGA-AATAAAATAAATAATATTA
* * * * *
11253648 AATTTAAGTATTTTAAAAT-ATAAA-ACAATAAATGAATAAATAAAATAAGTAATATTA
1 AATTTAAGTATATAAAAATAATAAATA-AATAAATAAAGAAATAAAATAAATAATATTA
* *
11253705 GATTTAAGTATACGAAAAATA
1 AATTTAAGTATA-TAAAAATA
11253726 TACTAGAAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
56 2 0.03
57 39 0.63
58 21 0.34
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.30
Consensus pattern (58 bp):
AATTTAAGTATATAAAAATAATAAATAAATAAATAAAGAAATAAAATAAATAATATTA
Found at i:11259604 original size:9 final size:9
Alignment explanation
Indices: 11259590--11259616 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
11259580 TTTGATTTTA
11259590 GTTAAATTG
1 GTTAAATTG
11259599 GTTAAATTG
1 GTTAAATTG
11259608 GTTAAATTG
1 GTTAAATTG
11259617 CAAGTTTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (9 bp):
GTTAAATTG
Found at i:11259918 original size:29 final size:29
Alignment explanation
Indices: 11259876--11259935 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
11259866 TATAGAATTG
11259876 TTCATATATATACATAATGTTATTACTGC
1 TTCATATATATACATAATGTTATTACTGC
*
11259905 TTCATATATATACATAATGTTATTGCTGC
1 TTCATATATATACATAATGTTATTACTGC
11259934 TT
1 TT
11259936 TATGAATGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (29 bp):
TTCATATATATACATAATGTTATTACTGC
Found at i:11260337 original size:20 final size:21
Alignment explanation
Indices: 11260292--11260337 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
11260282 ATTCACACTA
*
11260292 CGGTGCCCCTGTTTGCACATT
1 CGGTGCCCCTGTCTGCACATT
* *
11260313 -TGTGCCCCTGTCTGTAC-TT
1 CGGTGCCCCTGTCTGCACATT
11260332 CGGTGC
1 CGGTGC
11260338 TCTTGTTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.07, C:0.33, G:0.26, T:0.35
Consensus pattern (21 bp):
CGGTGCCCCTGTCTGCACATT
Found at i:11276596 original size:22 final size:22
Alignment explanation
Indices: 11276539--11276582 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
11276529 GACTAAATTG
11276539 CAATAGGTGCAAAACTTGAGTT
1 CAATAGGTGCAAAACTTGAGTT
11276561 CAATAGGTGCAAAACTTGAGTT
1 CAATAGGTGCAAAACTTGAGTT
11276583 TTATAGTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (22 bp):
CAATAGGTGCAAAACTTGAGTT
Found at i:11277585 original size:29 final size:31
Alignment explanation
Indices: 11277536--11277610 Score: 106
Period size: 29 Copynumber: 2.6 Consensus size: 31
11277526 AGCTTCAGCT
11277536 ATCG-ATTATGG-AAAGGAATGGTGACGACC
1 ATCGAATTATGGAAAAGGAATGGTGACGACC
11277565 ATC-AATTATGGAAAAGG-ATGGTGACGACC
1 ATCGAATTATGGAAAAGGAATGGTGACGACC
*
11277594 GTCGAATTAT-GAAAAGG
1 ATCGAATTATGGAAAAGG
11277611 GATAGCCTCG
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
29 31 0.74
30 11 0.26
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.21
Consensus pattern (31 bp):
ATCGAATTATGGAAAAGGAATGGTGACGACC
Found at i:11281792 original size:13 final size:13
Alignment explanation
Indices: 11281774--11281813 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
11281764 GGAGCAATCG
11281774 CACACGGGCGTGT
1 CACACGGGCGTGT
*
11281787 CACACGGGCATGT
1 CACACGGGCGTGT
*
11281800 CACATGGGCGTGT
1 CACACGGGCGTGT
11281813 C
1 C
11281814 CTTGTCAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.17, C:0.30, G:0.35, T:0.17
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:11283591 original size:18 final size:17
Alignment explanation
Indices: 11283568--11283601 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11283558 TTTTGAATTT
11283568 TATTATTTATTTAATATA
1 TATTA-TTATTTAATATA
*
11283586 TATTATTATTTTATAT
1 TATTATTATTTAATAT
11283602 TAAAATTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTATTATTTAATATA
Found at i:11296289 original size:175 final size:177
Alignment explanation
Indices: 11295965--11296349 Score: 562
Period size: 175 Copynumber: 2.2 Consensus size: 177
11295955 TACACTGAAG
* *
11295965 CAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTTTCAGAGAACAAATCGAAGAAACAGATTTG
1 CAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTC
* * * * * *
11296030 GCAACGCTCTGTATTCGGCAATGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTAC
66 GCAACGCTCTGTATTCGACAAGGAGCAGATCAAAGACATAGCTAATTTGGCTTTCACGTATTTAA
11296095 GTTGAAGCAAATCTAAGATGATTTGGCATATCTGTATTGTCAGAGAGA
131 GTTGAAGCAAATCTAAGATGATTTGGCATATCTGTATTGTCAGAGA-A
*
11296143 -AGATCGAAGATAGCAGATTTGGTGTCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTC
1 CAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTC
* * * *
11296207 GC-A-TCTCTGTATTCGACAGGGAGCAGATCAAAGACATAGTTAATTTGGCTTTCATGTATTTAA
66 GCAACGCTCTGTATTCGACAAGGAGCAGATCAAAGACATAGCTAATTTGGCTTTCACGTATTTAA
** *
11296270 GTTGAAGCAAATCTAAGATGATTTGGTGTCTCTGTATTGTCAGAGAA
131 GTTGAAGCAAATCTAAGATGATTTGGCATATCTGTATTGTCAGAGAA
* * *
11296317 CAAATCGAAGA-AACAGATTTGGCATCTCTGTAT
1 CAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
11296350 CCGACAGGGA
Statistics
Matches: 186, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
174 20 0.11
175 102 0.55
176 1 0.01
177 63 0.34
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (177 bp):
CAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTC
GCAACGCTCTGTATTCGACAAGGAGCAGATCAAAGACATAGCTAATTTGGCTTTCACGTATTTAA
GTTGAAGCAAATCTAAGATGATTTGGCATATCTGTATTGTCAGAGAA
Found at i:11296302 original size:88 final size:87
Alignment explanation
Indices: 11296036--11296327 Score: 242
Period size: 87 Copynumber: 3.3 Consensus size: 87
11296026 TTTGGCAACG
* * * * *
11296036 CTCTGTATTCGGCA-ATGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 CTCTGTATTCGACAGA-GAGCAGATCGAAGACATAG-TAATTTGGCTTTCATGTATTTAAGTTGA
11296100 AGCAAATCTAAGATGATTTGGCAT
64 AGCAAATCTAAGATGATTTGGCAT
* * * * * *
11296124 ATCTGTATT-GTCAGAGAGAAGATCGAAG--ATAGCAGATTTGG-TGTCTC-TGTATTGTCAG-A
1 CTCTGTATTCGACAGAGAGCAGATCGAAGACATAGTA-ATTTGGCT-T-TCATGTATT-TAAGTT
* * *
11296183 GAA-CAAATCGAAGAAACAGATTTCGCAT
62 GAAGCAAATCTAAG--A-TGATTTGGCAT
* *
11296211 CTCTGTATTCGACAGGGAGCAGATCAAAGACATAGTTAATTTGGCTTTCATGTATTTAAGTTGAA
1 CTCTGTATTCGACAGAGAGCAGATCGAAGACATAG-TAATTTGGCTTTCATGTATTTAAGTTGAA
**
11296276 GCAAATCTAAGATGATTTGGTGT
65 GCAAATCTAAGATGATTTGGCAT
* * *
11296299 CTCTGTATT-GTCAGAGAACAAATCGAAGA
1 CTCTGTATTCGACAGAGAGCAGATCGAAGA
11296328 AACAGATTTG
Statistics
Matches: 157, Mismatches: 31, Indels: 33
0.71 0.14 0.15
Matches are distributed among these distances:
84 10 0.06
85 18 0.11
86 5 0.03
87 47 0.30
88 40 0.25
89 6 0.04
90 20 0.13
91 11 0.07
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (87 bp):
CTCTGTATTCGACAGAGAGCAGATCGAAGACATAGTAATTTGGCTTTCATGTATTTAAGTTGAAG
CAAATCTAAGATGATTTGGCAT
Found at i:11296302 original size:131 final size:131
Alignment explanation
Indices: 11296158--11296745 Score: 660
Period size: 131 Copynumber: 4.5 Consensus size: 131
11296148 GAAGATAGCA
* *
11296158 GATTTGGTGTCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTCGCATCTCTGTATTCGA
1 GATTTGGTGTCTCTGTATTGTCAGAGAGCAAATCGAAGAAACAGATTTGGCATCTCTGTATTCGA
* *
11296223 CAGGGAGCAGATCAAAGACATAGTTAATTTGGCTTTCATGTATTTAAGTTGAAGCAAATCTAAGA
66 CAGGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCATGTATTTAAGTTGAAGCAAATCTAAGA
11296288 T
131 T
* *
11296289 GATTTGGTGTCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTGTATCCGA
1 GATTTGGTGTCTCTGTATTGTCAGAGAGCAAATCGAAGAAACAGATTTGGCATCTCTGTATTCGA
11296354 CAGGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCATGTATTTAAGTTGAAGCAAATCTAAGA
66 CAGGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCATGTATTTAAGTTGAAGCAAATCTAAGA
11296419 T
131 T
* *
11296420 GATTTGGTGTCTCTGTATTGTCAGAGAGCAAATCGAAGATAGCAGATTTGGCGTCTCTGTATT-G
1 GATTTGGTGTCTCTGTATTGTCAGAGAGCAAATCGAAGA-AACAGATTTGGCATCTCTGTATTCG
* * * * * * * * * * *
11296484 TCAGAGAACAAATCGAAGA-A-A-CAGATTTGGCATCTC-TGTATTCGACAG--GGAGCAGATCG
65 ACAGGGAGCAGATCAAAGACATAGCTGATTTGGC-TTTCATGTATT-TA-AGTTGAAGCAAATCT
11296543 AAGACATAGCT
127 AAG----A--T
* * * * * *
11296554 GATTTGGCTTTCATGTGTTTATGT-TGA-AGCAAATCTAAG--A-TGATTTGGCATCTCTGTATT
1 GATTTGG-TGTC-TCTGTAT-TGTCAGAGAGCAAATCGAAGAAACAGATTTGGCATCTCTGTATT
* * *
11296614 CGACAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCATGTGTTTATGTTGAAGCAAATCTA
63 CGACAGGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCATGTATTTAAGTTGAAGCAAATCTA
11296679 AGAT
128 AGAT
** * * * *
11296683 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATATT
1 GATTTGGTGTCTCTGTATTGTCAGAGAGCAAATCGAAGA-AACAGATTTGGCATCTCTGTATT
11296746 GTCAGAGAAT
Statistics
Matches: 381, Mismatches: 50, Indels: 51
0.79 0.10 0.11
Matches are distributed among these distances:
126 3 0.01
127 7 0.02
128 38 0.10
129 13 0.03
130 3 0.01
131 199 0.52
132 54 0.14
133 2 0.01
134 13 0.03
135 39 0.10
136 7 0.02
137 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (131 bp):
GATTTGGTGTCTCTGTATTGTCAGAGAGCAAATCGAAGAAACAGATTTGGCATCTCTGTATTCGA
CAGGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCATGTATTTAAGTTGAAGCAAATCTAAGA
T
Found at i:11296470 original size:175 final size:177
Alignment explanation
Indices: 11296289--11296649 Score: 600
Period size: 175 Copynumber: 2.0 Consensus size: 177
11296279 AATCTAAGAT
*
11296289 GATTTGGTGTCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTGTATCCGA
1 GATTTGGCGTCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTGTATCCGA
11296354 CAGGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCATGTATTTAAGTTGAAGCAAATCTAAGA
66 CAGGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCATGTATTTAAGTTGAAGCAAATCTAAGA
** *
11296419 TGATTTGGTGTCTCTGTATT-GTCAGAGAGCAAATCGAAG-ATAGCA
131 TGATTTGGCATCTCTGTATTCGACAGAGAGCAAATCGAAGAATAGCA
*
11296464 GATTTGGCGTCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTGTATTCGA
1 GATTTGGCGTCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTGTATCCGA
* * *
11296529 CAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCATGTGTTTATGTTGAAGCAAATCTAAGA
66 CAGGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCATGTATTTAAGTTGAAGCAAATCTAAGA
* * *
11296594 TGATTTGGCATCTCTGTATTCGACAGGGAGCAGATCGAAGACATAGCT
131 TGATTTGGCATCTCTGTATTCGACAGAGAGCAAATCGAAGA-ATAGCA
11296642 GATTTGGC
1 GATTTGGC
11296650 TTTCATGTGT
Statistics
Matches: 172, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
175 143 0.83
176 16 0.09
178 13 0.08
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (177 bp):
GATTTGGCGTCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTGTATCCGA
CAGGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCATGTATTTAAGTTGAAGCAAATCTAAGA
TGATTTGGCATCTCTGTATTCGACAGAGAGCAAATCGAAGAATAGCA
Found at i:11296536 original size:306 final size:308
Alignment explanation
Indices: 11295981--11296613 Score: 1038
Period size: 306 Copynumber: 2.1 Consensus size: 308
11295971 GAAGATAGCA
* *
11295981 GATTTGGCGTCTCTGTATTTTCAGAGAACAAATCGAAGAAACAGATTTGGCAACGCTCTGTATTC
1 GATTTGGCGTCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCAACGCTCTGTATCC
* * * * *
11296046 GGCAATGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAA
66 GACAAGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCACGTATTTAAGTTGAAGCAAATCTAA
*
11296111 GATGATTTGGCATATCTGTATTGTCAGAGAGAAGATCGAAGATAGCAGATTTGGTGTCTCTGTAT
131 GATGATTTGGCATATCTGTATTGTCAGAGAGAAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
11296176 TGTCAGAGAACAAATCGAAGAAACAGATTTCGCATCTCTGTATTCGACAGGGAGCAGATCAAAGA
196 TGTCAGAGAACAAATCGAAGAAACAGATTTCGCATCTCTGTATTCGACAGGGAGCAGATCAAAGA
*
11296241 CATAGTTAATTTGGCTTTCATGTATTTAAGTTGAAGCAAATCTAAGAT
261 CATAGCTAATTTGGCTTTCATGTATTTAAGTTGAAGCAAATCTAAGAT
* *
11296289 GATTTGGTGTCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGC-A-TCTCTGTATCC
1 GATTTGGCGTCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCAACGCTCTGTATCC
* *
11296352 GACAGGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCATGTATTTAAGTTGAAGCAAATCTAA
66 GACAAGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCACGTATTTAAGTTGAAGCAAATCTAA
** *
11296417 GATGATTTGGTGTCTCTGTATTGTCAGAGAGCAA-ATCGAAGATAGCAGATTTGGCGTCTCTGTA
131 GATGATTTGGCATATCTGTATTGTCAGAGAG-AAGATCGAAGATAGCAGATTTGGCGTCTCTGTA
* *
11296481 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTGTATTCGACAGGGAGCAGATCGAAG
195 TTGTCAGAGAACAAATCGAAGAAACAGATTTCGCATCTCTGTATTCGACAGGGAGCAGATCAAAG
* * *
11296546 ACATAGCTGATTTGGCTTTCATGTGTTTATGTTGAAGCAAATCTAAGAT
260 ACATAGCTAATTTGGCTTTCATGTATTTAAGTTGAAGCAAATCTAAGAT
*
11296595 GATTTGGCATCTCTGTATT
1 GATTTGGCGTCTCTGTATT
11296614 CGACAGGGAG
Statistics
Matches: 301, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
306 249 0.83
307 3 0.01
308 49 0.16
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (308 bp):
GATTTGGCGTCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCAACGCTCTGTATCC
GACAAGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCACGTATTTAAGTTGAAGCAAATCTAA
GATGATTTGGCATATCTGTATTGTCAGAGAGAAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
TGTCAGAGAACAAATCGAAGAAACAGATTTCGCATCTCTGTATTCGACAGGGAGCAGATCAAAGA
CATAGCTAATTTGGCTTTCATGTATTTAAGTTGAAGCAAATCTAAGAT
Found at i:11296599 original size:88 final size:87
Alignment explanation
Indices: 11296332--11296897 Score: 609
Period size: 88 Copynumber: 6.5 Consensus size: 87
11296322 CGAAGAAACA
* * *
11296332 GATTTGGCATCTCTGTATCCGACAGGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCATGTAT
1 GATTTGGCATCTCTGTATTCGACAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCATGTGT
11296397 TTAAGTTGAAGCAAATCTAAGAT
66 TT-AGTTGAAGCAAATCTAAGAT
** * * * * * *
11296420 GATTTGGTGTCTCTGTATT-GTCAGAGAGCAAATCGAAG--ATAGCAGATTTGGCGTCTC-TGTA
1 GATTTGGCATCTCTGTATTCGACAGGGAGCAGATCGAAGACATAGCTGATTTGGC-TTTCATGTG
* * *
11296481 TTGTCAG-AGAA-CAAATCGAAGAAACA
65 TT-T-AGTTGAAGCAAATCTAAG--A-T
11296507 GATTTGGCATCTCTGTATTCGACAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCATGTGT
1 GATTTGGCATCTCTGTATTCGACAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCATGTGT
11296572 TTATGTTGAAGCAAATCTAAGAT
66 TTA-GTTGAAGCAAATCTAAGAT
11296595 GATTTGGCATCTCTGTATTCGACAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCATGTGT
1 GATTTGGCATCTCTGTATTCGACAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCATGTGT
11296660 TTATGTTGAAGCAAATCTAAGAT
66 TTA-GTTGAAGCAAATCTAAGAT
* * * * *
11296683 GATTTGGCATCTCTGTATT-GTCAGAGAGCAGATCGAAG--ATAGCAGATTTGGCGTCTCTATAT
1 GATTTGGCATCTCTGTATTCGACAGGGAGCAGATCGAAGACATAGCTGATTTGGC-TTTC-ATGT
* * * * *
11296745 -TGTCAG-AGAA-TAGATCGAAGAT
64 GT-TTAGTTGAAGCAAATCTAAGAT
* *
11296767 AGCAGATTTGGCATCTCTGTATTCGACAGGGAACAGATCGAAGACATAGCTGATTTGGCTTTCAC
1 ----GATTTGGCATCTCTGTATTCGACAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCAT
11296832 GTGTTTACGTTGAAGCAAATCTAAGAT
62 GTGTTTA-GTTGAAGCAAATCTAAGAT
** * * *
11296859 GATTTGGTGTCTCTGTATT-GTCAGAGAACAGATCGAAGA
1 GATTTGGCATCTCTGTATTCGACAGGGAGCAGATCGAAGA
11296898 TAGCAGATCC
Statistics
Matches: 402, Mismatches: 50, Indels: 53
0.80 0.10 0.10
Matches are distributed among these distances:
84 18 0.04
85 38 0.09
86 12 0.03
87 72 0.18
88 176 0.44
89 26 0.06
90 26 0.06
91 25 0.06
92 9 0.02
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (87 bp):
GATTTGGCATCTCTGTATTCGACAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCATGTGT
TTAGTTGAAGCAAATCTAAGAT
Found at i:11296620 original size:263 final size:264
Alignment explanation
Indices: 11296332--11296877 Score: 941
Period size: 263 Copynumber: 2.1 Consensus size: 264
11296322 CGAAGAAACA
*
11296332 GATTTGGCATCTCTGTATCCGACAGGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCATGTAT
1 GATTTGGCATCTCTGTATTCGACAGGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCATGTAT
**
11296397 TTAAGTTGAAGCAAATCTAAGATGATTTGGTGTCTCTGTATTGTCAGAGAGCAAATCGAAGATAG
66 TTAAGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGATAG
*
11296462 CAGATTTGGCGTCTCTGTATTGTCAGAGAACAAATCGAAGA-AACAGATTTGGCATCTCTGTATT
131 CAGATTTGGCGTCTCTATATTGTCAGAGAACAAATCGAAGATAACAGATTTGGCATCTCTGTATT
* * *
11296526 CGACAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCATGTGTTTATGTTGAAGCAAATCTA
196 CGACAGGGAACAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTA
11296591 AGAT
261 AGAT
* *
11296595 GATTTGGCATCTCTGTATTCGACAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCATGTGT
1 GATTTGGCATCTCTGTATTCGACAGGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCATGTAT
* *
11296660 TTATGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
66 TTAAGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGATAG
* * *
11296725 CAGATTTGGCGTCTCTATATTGTCAGAGAATAGATCGAAGATAGCAGATTTGGCATCTCTGTATT
131 CAGATTTGGCGTCTCTATATTGTCAGAGAACAAATCGAAGATAACAGATTTGGCATCTCTGTATT
11296790 CGACAGGGAACAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTA
196 CGACAGGGAACAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTA
11296855 AGAT
261 AGAT
**
11296859 GATTTGGTGTCTCTGTATT
1 GATTTGGCATCTCTGTATT
11296878 GTCAGAGAAC
Statistics
Matches: 266, Mismatches: 16, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
263 161 0.61
264 105 0.39
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (264 bp):
GATTTGGCATCTCTGTATTCGACAGGGAGCAGATCAAAGACATAGCTGATTTGGCTTTCATGTAT
TTAAGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGATAG
CAGATTTGGCGTCTCTATATTGTCAGAGAACAAATCGAAGATAACAGATTTGGCATCTCTGTATT
CGACAGGGAACAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTA
AGAT
Found at i:11297033 original size:78 final size:78
Alignment explanation
Indices: 11296899--11297340 Score: 841
Period size: 78 Copynumber: 5.7 Consensus size: 78
11296889 GATCGAAGAT
*
11296899 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGTAGATCGAAGGCATAACAGATT
1 AGCAAATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGTAGATCGAAGGCATAACAGATT
11296964 GGACCTTCATTGA
66 GGACCTTCATTGA
11296977 AGCAAATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGTAGATCGAAGGCATAACAGATT
1 AGCAAATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGTAGATCGAAGGCATAACAGATT
11297042 GGACCTTCATTGA
66 GGACCTTCATTGA
11297055 AGCAAATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGTAGATCGAAGGCATAACAGATT
1 AGCAAATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGTAGATCGAAGGCATAACAGATT
11297120 GGACCTTCATTGA
66 GGACCTTCATTGA
11297133 AGCAAATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGTAGATCGAAGGCATAACAGATT
1 AGCAAATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGTAGATCGAAGGCATAACAGATT
11297198 GGACCTTCATTGA
66 GGACCTTCATTGA
11297211 AGCAAATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGTAGATCGAAGGCATAACAGATT
1 AGCAAATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGTAGATCGAAGGCATAACAGATT
11297276 GGACCTTCATTGA
66 GGACCTTCATTGA
* * *
11297289 AGCAAATCCAAGATGATTTGGCATCTCTGTATT-GTCAGAGAGAAGATCGAAG
1 AGCAAATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGTAGATCGAAG
11297341 ATAGTAGATT
Statistics
Matches: 360, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
77 16 0.04
78 344 0.96
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (78 bp):
AGCAAATCCAAGATGATTTGGCATCTCTGTATTAGACGGAGAGTAGATCGAAGGCATAACAGATT
GGACCTTCATTGA
Found at i:11297353 original size:44 final size:44
Alignment explanation
Indices: 11297303--11297561 Score: 347
Period size: 44 Copynumber: 5.9 Consensus size: 44
11297293 AATCCAAGAT
*
11297303 GATTTGGCATCTCTGTATTGTCAGAGAGAAGATCGAAGATAGTA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGTA
* **
11297347 GATTTGGCGTCTCTGTATTGTCAGAGAGTGGATCGAAGATAGTA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGTA
* * *
11297391 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGTA
** *
11297435 GATTTGGCATCTCCATATTGTCAGAGAGCAGATCAAAGATAGTA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGTA
* * *
11297479 GATTTGGCGTCCCTATATTGTCAGAGAGCAGATCGAAGATAGTA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGTA
* * * * *
11297523 GATTTGTCATCTTTGTGTTCGACAGAGAACAGATCGAAG
1 GATTTGGCATCTCTGTATT-GTCAGAGAGCAGATCGAAG
11297562 TATCAGCTTG
Statistics
Matches: 191, Mismatches: 23, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
44 174 0.91
45 17 0.09
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGTA
Found at i:11304735 original size:133 final size:133
Alignment explanation
Indices: 11304497--11304759 Score: 490
Period size: 133 Copynumber: 2.0 Consensus size: 133
11304487 GAATTTTGAC
* *
11304497 ACCAAAAATAATCAACCATGACATATGGCATAATAATCGAATTTCCAAGACTTACGACCTAACAT
1 ACCAAAAATAATCAACCATGACATATGGCATAAAAATCGAATTACCAAGACTTACGACCTAACAT
*
11304562 TATAGAACCAAACCCATCCGAACATTTATGCCATTTTCGCATGGCTAAAAGTTTACATACCAAAT
66 TATAGAACCAAACCCAACCGAACATTTATGCCATTTTCGCATGGCTAAAAGTTTACATACCAAAT
11304627 AAT
131 AAT
11304630 ACCAAAAATAATCAACCATGACATATGGCATAAAAATCGAATTACCAAGACTTACGACCTAACAT
1 ACCAAAAATAATCAACCATGACATATGGCATAAAAATCGAATTACCAAGACTTACGACCTAACAT
*
11304695 TATAGAACCAAATCCAACCGAACATTTATGCCATTTTCGCATGGCTAAAAGTTTACATACCAAAT
66 TATAGAACCAAACCCAACCGAACATTTATGCCATTTTCGCATGGCTAAAAGTTTACATACCAAAT
11304760 TTCAACAAAA
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
133 126 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (133 bp):
ACCAAAAATAATCAACCATGACATATGGCATAAAAATCGAATTACCAAGACTTACGACCTAACAT
TATAGAACCAAACCCAACCGAACATTTATGCCATTTTCGCATGGCTAAAAGTTTACATACCAAAT
AAT
Found at i:11304992 original size:131 final size:131
Alignment explanation
Indices: 11304758--11305020 Score: 483
Period size: 131 Copynumber: 2.0 Consensus size: 131
11304748 TACATACCAA
11304758 ATTTCAACAAAACATATTAGCCTATACATGCCGAAATGTTCTCCTAGACCGACTAAAAAGAAGAT
1 ATTTCAACAAAACATATTAGCCTATACATGCCGAAATGTTCTCCTAGACCGACTAAAAAGAAGAT
* *
11304823 ACCAAAAGTTGCTAGCCGGTGTGATGACTTCGATGACGGCCCGATCACGCAAAAAGAGACGAGTC
66 ACCAAAACTTGCTAGCCGCTGTGATGACTTCGATGACGGCCCGATCACGCAAAAAGAGACGAGTC
11304888 C
131 C
11304889 ATTTCAACAAAACATATTAGCCTATACATGCCGAAATGTTCTCCTAGACCGACTAAAAAGAA-AG
1 ATTTCAACAAAACATATTAGCCTATACATGCCGAAATGTTCTCCTAGACCGACTAAAAAGAAGA-
*
11304953 TACCAAAACTTGCTAGCTGCTGTGATGACTTCGATGACGGCCCGATCACGCAAAAAGAGACGAGT
65 TACCAAAACTTGCTAGCCGCTGTGATGACTTCGATGACGGCCCGATCACGCAAAAAGAGACGAGT
11305018 CC
130 CC
11305020 A
1 A
11305021 AGAAACCTAA
Statistics
Matches: 128, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
130 1 0.01
131 127 0.99
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (131 bp):
ATTTCAACAAAACATATTAGCCTATACATGCCGAAATGTTCTCCTAGACCGACTAAAAAGAAGAT
ACCAAAACTTGCTAGCCGCTGTGATGACTTCGATGACGGCCCGATCACGCAAAAAGAGACGAGTC
C
Found at i:11305578 original size:204 final size:204
Alignment explanation
Indices: 11305228--11305634 Score: 778
Period size: 204 Copynumber: 2.0 Consensus size: 204
11305218 CATTCCATAT
11305228 ACTAATCAATAGGATATTTGAGGCATTTTCATACATCATTGTATTTTCGTTACAATCATACAACT
1 ACTAATCAATAGGATATTTGAGGCATTTTCATACATCATTGTATTTTCGTTACAATCATACAACT
* *
11305293 AAACGACCTTTCACCTATTCCACGATAAATCTTATGTACGTGACTTCAGTTATAATTGTCACATA
66 AAACGACCTTTCACCTATTCCACAATAAATCTTATGTACGTGACTTCAATTATAATTGTCACATA
11305358 GGTTCAAACTTACCAAGCTCAACTCCAAATATAAACATAGCGCCTATTAGCCATGAACTCAAGGT
131 GGTTCAAACTTACCAAGCTCAACTCCAAATATAAACATAGCGCCTATTAGCCATGAACTCAAGGT
11305423 ACTTACCCC
196 ACTTACCCC
*
11305432 ACTAATCAATAGGATATTTGAGGCATTTTCATACATCATTTTATTTTCGTTACAATCATACAACT
1 ACTAATCAATAGGATATTTGAGGCATTTTCATACATCATTGTATTTTCGTTACAATCATACAACT
11305497 AAACGACCTTTCACCTATTCCACAATAAATCTTATGTACGTGACTTCAATTATAATTGTCACATA
66 AAACGACCTTTCACCTATTCCACAATAAATCTTATGTACGTGACTTCAATTATAATTGTCACATA
*
11305562 GGTTCAAACTTACCAAGCTCAACTTCAAATATAAACATAGCGCCTATTAGCCATGAACTCAAGGT
131 GGTTCAAACTTACCAAGCTCAACTCCAAATATAAACATAGCGCCTATTAGCCATGAACTCAAGGT
11305627 ACTTACCC
196 ACTTACCC
11305635 GATCCGCTGT
Statistics
Matches: 199, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
204 199 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (204 bp):
ACTAATCAATAGGATATTTGAGGCATTTTCATACATCATTGTATTTTCGTTACAATCATACAACT
AAACGACCTTTCACCTATTCCACAATAAATCTTATGTACGTGACTTCAATTATAATTGTCACATA
GGTTCAAACTTACCAAGCTCAACTCCAAATATAAACATAGCGCCTATTAGCCATGAACTCAAGGT
ACTTACCCC
Found at i:11305728 original size:29 final size:27
Alignment explanation
Indices: 11305710--11305779 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
11305700 ATATTAAGTC
11305710 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
11305737 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
11305765 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
11305780 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:11305773 original size:28 final size:28
Alignment explanation
Indices: 11305710--11305807 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
11305700 ATATTAAGTC
*
11305710 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
11305737 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
11305765 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
11305794 CGCACACTTAGTGC
1 CGCACACTTAGTGC
11305808 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:11314475 original size:21 final size:21
Alignment explanation
Indices: 11314449--11314498 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
11314439 GTGAGCCATG
*
11314449 TTTGAGTACCTTATTACTTGA
1 TTTGAGCACCTTATTACTTGA
11314470 TTTGAGCACCTTATTACTTGA
1 TTTGAGCACCTTATTACTTGA
11314491 TTTGAGCA
1 TTTGAGCA
11314499 GCTCGCAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (21 bp):
TTTGAGCACCTTATTACTTGA
Found at i:11317648 original size:39 final size:39
Alignment explanation
Indices: 11317463--11317650 Score: 268
Period size: 39 Copynumber: 4.8 Consensus size: 39
11317453 ACAAAGCATA
*
11317463 CGGGACTTTAAGCCCGGATATAATACCAGTACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTT
* **
11317504 CGGGACTTAGCTCGGATATAACGCCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* **
11317543 TGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
11317582 CAGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* *
11317621 CGGGACTTAGCCCGGATATATTTCCAGCAC
1 CGGGACTTAGCCCGGATATAATACCAGCAC
11317651 TTAGCCTGCG
Statistics
Matches: 132, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 124 0.94
40 2 0.02
41 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:11317675 original size:39 final size:39
Alignment explanation
Indices: 11317632--11317724 Score: 134
Period size: 39 Copynumber: 2.4 Consensus size: 39
11317622 GGGACTTAGC
* * *
11317632 CCGGATATATTTCCAGCACT-TAGCCTGCGGACTTTAAGT
1 CCGGATATATTTCCAGCA-TAAAGCATGCGGACTTCAAGT
11317671 CCGGATATATTTCCAGCATAAAGCATGCGGACTTCAAGT
1 CCGGATATATTTCCAGCATAAAGCATGCGGACTTCAAGT
*
11317710 CCGGATATTTTTCCA
1 CCGGATATATTTCCA
11317725 ATACCATGCA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.02
39 48 0.98
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATAAAGCATGCGGACTTCAAGT
Found at i:11323467 original size:39 final size:39
Alignment explanation
Indices: 11323424--11323514 Score: 139
Period size: 39 Copynumber: 2.3 Consensus size: 39
11323414 GACTTAGCCC
* *
11323424 GGATATATTTCCAGCACT-TAGCCTGCGGACTTTAAGTCT
1 GGATATATTTCCAGCA-TAAAGCCTGCGGACTTCAAGTCT
11323463 GGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGTCT
1 GGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGTCT
*
11323502 GGATATTTTTCCA
1 GGATATATTTCCA
11323515 ATACCATGCA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
38 1 0.02
39 47 0.98
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (39 bp):
GGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGTCT
Found at i:11326855 original size:38 final size:40
Alignment explanation
Indices: 11326806--11326905 Score: 114
Period size: 42 Copynumber: 2.5 Consensus size: 40
11326796 GCAAAAATTT
*
11326806 TAAAATACAGAGCAATAGTGGC-GTTTT-AAAAAATGCCGC
1 TAAAA-ACAGAGCAATAGTGGCAGTTTTAAAAAAACGCCGC
* * *
11326845 TAAAAACAGAGCAACAGTGGCATTTTTTACAAAAAACGTCGC
1 TAAAAACAGAGCAATAGTGGCA-GTTTTA-AAAAAACGCCGC
*
11326887 TAAAAACAGAGCATTAGTG
1 TAAAAACAGAGCAATAGTG
11326906 CGCTTTTGGT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
38 15 0.29
39 5 0.10
40 4 0.08
42 27 0.53
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.22
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGTGGCAGTTTTAAAAAAACGCCGC
Found at i:11326931 original size:39 final size:41
Alignment explanation
Indices: 11326885--11326961 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
11326875 AAAAAACGTC
*
11326885 GCTAAAAA-CAGAGCATTAG-TGCGCTTTTGGTAAAACACT
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACACT
11326924 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAAC
1 GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAAC
11326962 GCCACTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 8 0.23
40 11 0.31
41 16 0.46
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (41 bp):
GCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACACT
Found at i:11326970 original size:41 final size:39
Alignment explanation
Indices: 11326877--11326971 Score: 127
Period size: 41 Copynumber: 2.4 Consensus size: 39
11326867 TTTTTTACAA
* *
11326877 AAAACGTCGCTAAAAACAGAGCATTAGTGCGCTTTTGGT
1 AAAACGCCGCTAAAAACAGAGCATTAGGGCGCTTTTGGT
* *
11326916 AAAACACTGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAA-CAGAGCATTAG-GGCGCTTTTGGT
*
11326957 AAAACGCCACTAAAA
1 AAAACGCCGCTAAAA
11326972 GTCATATAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 13 0.28
40 11 0.23
41 23 0.49
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (39 bp):
AAAACGCCGCTAAAAACAGAGCATTAGGGCGCTTTTGGT
Found at i:11327860 original size:18 final size:19
Alignment explanation
Indices: 11327833--11327879 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
11327823 ACTTTATAGT
* *
11327833 TTGGTCTTGGAGTTA-TGG
1 TTGGTTTTGGAGTTACTGA
*
11327851 TTGGTTTTGGGGTTACTGA
1 TTGGTTTTGGAGTTACTGA
*
11327870 ATGGTTTTGG
1 TTGGTTTTGG
11327880 GGTTTAAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.11, C:0.04, G:0.38, T:0.47
Consensus pattern (19 bp):
TTGGTTTTGGAGTTACTGA
Found at i:11328009 original size:15 final size:15
Alignment explanation
Indices: 11327989--11328020 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11327979 TTTAATTTAG
*
11327989 AAGATAAATGTATAT
1 AAGATAAATATATAT
11328004 AAGATAAATATATAT
1 AAGATAAATATATAT
11328019 AA
1 AA
11328021 ATTATTATTT
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:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:11330837 original size:20 final size:20
Alignment explanation
Indices: 11330812--11330876 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
11330802 TTAATTAACA
11330812 TTTAATTACATTCCTAAATT
1 TTTAATTACATTCCTAAATT
**
11330832 TTTAATGT-TTTTCCTAACA-T
1 TTTAAT-TACATTCCTAA-ATT
*
11330852 TTAAATTACATTCCTAAATT
1 TTTAATTACATTCCTAAATT
11330872 TTTAA
1 TTTAA
11330877 GCTTATTTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 2 0.06
20 31 0.89
21 2 0.06
ACGTcount: A:0.34, C:0.14, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTAATTACATTCCTAAATT
Found at i:11332316 original size:15 final size:15
Alignment explanation
Indices: 11332296--11332324 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11332286 GGAGTAGACC
11332296 AGGTACGTTTTATTA
1 AGGTACGTTTTATTA
11332311 AGGTACGTTTTATT
1 AGGTACGTTTTATT
11332325 TCAAAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (15 bp):
AGGTACGTTTTATTA
Found at i:11337906 original size:21 final size:21
Alignment explanation
Indices: 11337880--11337944 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
11337870 TCAACTTAGA
*
11337880 GCGGAGTCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
11337901 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
*
11337922 GCAGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
11337943 GC
1 GC
11337945 AAAACAGAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.25, C:0.20, G:0.54, T:0.02
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:11338309 original size:42 final size:42
Alignment explanation
Indices: 11338242--11338358 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 42
11338232 ATTGGGCAAA
11338242 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCT
1 TTAGCGGCGTTTTTT-AAAAAGCGCCGCTAAAAGTACAGGTCT
* * * * * *
11338285 TTCGTGGCGTTTTTTAAAAAGCGCCGCTAAAGGTCCTGGTGT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAAGTACAGGTCT
11338327 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAA
1 TTAGCGGCGTTTTTTA-AAAAGCGCCGCTAAA
11338359 GGTCCTGGTC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
42 37 0.57
43 28 0.43
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAAGTACAGGTCT
Found at i:11338341 original size:43 final size:42
Alignment explanation
Indices: 11338242--11338370 Score: 186
Period size: 43 Copynumber: 3.0 Consensus size: 42
11338232 ATTGGGCAAA
* * *
11338242 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCT
1 TTAGCGGCGTTTTTT-AAAAAGCGCCGCTAAAGGTCCTGGTCT
* * *
11338285 TTCGTGGCGTTTTTTAAAAAGCGCCGCTAAAGGTCCTGGTGT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGGTCCTGGTCT
11338327 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTA-AAAAGCGCCGCTAAAGGTCCTGGTCT
11338370 T
1 T
11338371 GACGCTGCTA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
42 37 0.49
43 39 0.51
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGGTCCTGGTCT
Found at i:11338930 original size:25 final size:25
Alignment explanation
Indices: 11338902--11338954 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
11338892 GAACTATCTC
* *
11338902 TCAGGTAAATTTACTATTTCTTTAA
1 TCAGGTAAATTCACTAGTTCTTTAA
11338927 TCAGGTAAATTCACTAGTTCTTTAA
1 TCAGGTAAATTCACTAGTTCTTTAA
11338952 TCA
1 TCA
11338955 TGATTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.43
Consensus pattern (25 bp):
TCAGGTAAATTCACTAGTTCTTTAA
Found at i:11347169 original size:26 final size:26
Alignment explanation
Indices: 11347133--11347182 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
11347123 CGAGGTGGAA
11347133 CCGAAGACTTAGTCGACTTTTTTTCT
1 CCGAAGACTTAGTCGACTTTTTTTCT
11347159 CCGAAGACTTAGTCGACTTTTTTT
1 CCGAAGACTTAGTCGACTTTTTTT
11347183 TCTTTCCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (26 bp):
CCGAAGACTTAGTCGACTTTTTTTCT
Found at i:11353213 original size:48 final size:47
Alignment explanation
Indices: 11353158--11353289 Score: 158
Period size: 48 Copynumber: 2.7 Consensus size: 47
11353148 GTGCGAATTA
* * *
11353158 TACCTTGATTTCGCTTCGAGCCATGGTATAGGTATTAC-AGAGATGAGT
1 TACCTTGATTTGGCTTC-AGCCATGGTATAGGTACT-CTAGAGATAAGT
* * *
11353206 TACCTTGATTTGGCTACAAGCCATGGTATAGGTACTCTGGGGATAAGT
1 TACCTTGATTTGGCTTC-AGCCATGGTATAGGTACTCTAGAGATAAGT
*
11353254 TACCTTGATTTGGCTTCAGGCCATGGTATAGCTACT
1 TACCTTGATTTGGCTTCA-GCCATGGTATAGGTACT
11353290 TATTGATTGA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
47 2 0.03
48 71 0.97
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTTCAGCCATGGTATAGGTACTCTAGAGATAAGT
Found at i:11354189 original size:30 final size:30
Alignment explanation
Indices: 11354154--11354222 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
11354144 ATGTGTCTCA
*
11354154 GCCGTGTGTGACACATGGTCTTGTTACATG
1 GCCGTGTGTGACACATGGTCATGTTACATG
11354184 GCCGTGTGTGACACATGGTCATGTTACATG
1 GCCGTGTGTGACACATGGTCATGTTACATG
11354214 GCCGTGTGT
1 GCCGTGTGT
11354223 CCCCTGGTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.16, C:0.20, G:0.32, T:0.32
Consensus pattern (30 bp):
GCCGTGTGTGACACATGGTCATGTTACATG
Found at i:11354201 original size:17 final size:17
Alignment explanation
Indices: 11354154--11354201 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
11354144 ATGTGTCTCA
11354154 GCCGTGTGTGACACATG
1 GCCGTGTGTGACACATG
* *
11354171 GTC-T-TGT--TACATG
1 GCCGTGTGTGACACATG
11354184 GCCGTGTGTGACACATG
1 GCCGTGTGTGACACATG
11354201 G
1 G
11354202 TCATGTTACA
Statistics
Matches: 23, Mismatches: 4, Indels: 8
0.66 0.11 0.23
Matches are distributed among these distances:
13 7 0.30
14 1 0.04
15 6 0.26
16 1 0.04
17 8 0.35
ACGTcount: A:0.17, C:0.21, G:0.33, T:0.29
Consensus pattern (17 bp):
GCCGTGTGTGACACATG
Found at i:11362387 original size:23 final size:23
Alignment explanation
Indices: 11362343--11362387 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11362333 ACCAATTGAT
*
11362343 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
11362366 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
11362388 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:11368086 original size:15 final size:14
Alignment explanation
Indices: 11368066--11368126 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 14
11368056 TCTATTTCAA
11368066 AAAAAAAAGAAAAGG
1 AAAAAAAA-AAAAGG
* *
11368081 AAAAAAAATAAA-T
1 AAAAAAAAAAAAGG
*
11368094 AAAAAAAATAAAAAG
1 AAAAAAAA-AAAAGG
*
11368109 AAAAATAAAAAAGAG
1 AAAAAAAAAAAAG-G
11368124 AAA
1 AAA
11368127 GAAGAAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
13 8 0.22
14 10 0.27
15 19 0.51
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.07
Consensus pattern (14 bp):
AAAAAAAAAAAAGG
Found at i:11368097 original size:13 final size:12
Alignment explanation
Indices: 11368081--11368120 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
11368071 AAAGAAAAGG
11368081 AAAAAAAATAAA
1 AAAAAAAATAAA
11368093 TAAAAAAAATAAA
1 -AAAAAAAATAAA
*
11368106 AAGAAAAATAAA
1 AAAAAAAATAAA
11368118 AAA
1 AAA
11368121 GAGAAAGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 13 0.52
13 12 0.48
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.10
Consensus pattern (12 bp):
AAAAAAAATAAA
Found at i:11368099 original size:21 final size:22
Alignment explanation
Indices: 11368066--11368136 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
11368056 TCTATTTCAA
*
11368066 AAAAAAAAGAAAAGGAAAAAAA-
1 AAAAATAA-AAAAGGAAAAAAAG
*
11368088 ATAAATAAAAAA--AATAAAAAG
1 AAAAATAAAAAAGGAA-AAAAAG
*
11368109 AAAAATAAAAAA-GAGAAAGAAG
1 AAAAATAAAAAAGGA-AAAAAAG
11368131 AAAAAT
1 AAAAAT
11368137 GGAGAGGCCA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 2 0.05
20 5 0.12
21 15 0.37
22 18 0.44
23 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (22 bp):
AAAAATAAAAAAGGAAAAAAAG
Found at i:11368121 original size:13 final size:13
Alignment explanation
Indices: 11368084--11368122 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
11368074 GAAAAGGAAA
11368084 AAAAATAAATAAA-
1 AAAAATAAA-AAAG
11368097 AAAAAT-AAAAAG
1 AAAAATAAAAAAG
11368109 AAAAATAAAAAAG
1 AAAAATAAAAAAG
11368122 A
1 A
11368123 GAAAGAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.12
12 8 0.33
13 13 0.54
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (13 bp):
AAAAATAAAAAAG
Found at i:11368135 original size:34 final size:34
Alignment explanation
Indices: 11368064--11368136 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 34
11368054 CTTCTATTTC
* * *
11368064 AAAAA-AAAAAGAAAAGGAAAAAAAATAAATAAA
1 AAAAATAAAAAGAAAAAGAAAAAAAAGAAAGAAA
* * *
11368097 AAAAATAAAAAGAAAAATAAAAAAGAGAAAGAAG
1 AAAAATAAAAAGAAAAAGAAAAAAAAGAAAGAAA
11368131 AAAAAT
1 AAAAAT
11368137 GGAGAGGCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 5 0.15
34 28 0.85
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (34 bp):
AAAAATAAAAAGAAAAAGAAAAAAAAGAAAGAAA
Found at i:11369169 original size:44 final size:44
Alignment explanation
Indices: 11369027--11369615 Score: 391
Period size: 44 Copynumber: 13.4 Consensus size: 44
11369017 CAAAGAAACA
11369027 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * * * **
11369071 AGATCTGACATTCCTATGCTTAGAGCGAAGCAGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
*
11369116 AGCA--TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * *
11369159 GGATTTGGCATCCCTGTGTTTATAGGGAATAGATCGAAGATAAC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * * **
11369203 AGATCTGACA-CTCCTGTGCTTACAGCGAAGCAGATCGAGGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* *
11369248 AGCA--TGGCATCCCTATGTTTATAGGGAACA-AGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* *
11369291 AGATTTGGCATCCCTGTATTTATAGGGAACAGATCGAAGATAAC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * * * * **
11369335 AAATCTGACA-CTCCTGTGCTTACAGCGTAACCGATCGAGGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAG-GGAACAGATCGAAGATAGC
*
11369380 AGCA--TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * **
11369423 AGATTTGGCATCCCTGTGTTTATATGGAACATATCGAAGATAAT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * **
11369467 AGATCTGACA-CTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* * * *
11369512 AGCA--TGGTATCCCTGTGTTTACAGGGAACA-AGTTGAAGACAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * * * * * *
11369555 AGATTCGGCATCTCTGTATTGT-CAGAGAGCAGATCGAAGATACC
1 AGATTTGGCATCCCTGTGTT-TATAGGGAACAGATCGAAGATAGC
*
11369599 AGATTTGGCATCTCTGT
1 AGATTTGGCATCCCTGT
11369616 ATTGGCAGAG
Statistics
Matches: 416, Mismatches: 98, Indels: 62
0.72 0.17 0.11
Matches are distributed among these distances:
42 8 0.02
43 49 0.12
44 291 0.70
45 64 0.15
46 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
Found at i:11369267 original size:132 final size:132
Alignment explanation
Indices: 11369027--11369602 Score: 895
Period size: 132 Copynumber: 4.4 Consensus size: 132
11369017 CAAAGAAACA
* * *
11369027 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
*
11369092 AGAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
11369157 GC
131 GC
* *
11369159 GGATTTGGCATCCCTGTGTTTATAGGGAATAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
* *
11369224 ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
11369289 GC
131 GC
* *
11369291 AGATTTGGCATCCCTGTATTTATAGGGAACAGATCGAAGATAACAAATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
* *
11369356 ACAGCGTAA-CCGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 ACAGCG-AAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
11369420 AGC
130 AGC
* * *
11369423 AGATTTGGCATCCCTGTGTTTATATGGAACATATCGAAGATAATAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
* * *
11369488 ACAGCGAAGCAGATCGAAGATTTCAGCATGGTATCCCTGTGTTTACAGGGAACAAGTTGAAGACA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
11369553 GC
131 GC
* * * * * * *
11369555 AGATTCGGCATCTCTGTATTGT-CAGAGAGCAGATCGAAGATACCAGAT
1 AGATTTGGCATCCCTGTGTT-TATAGGGAACAGATCGAAGATAACAGAT
11369603 TTGGCATCTC
Statistics
Matches: 407, Mismatches: 34, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
131 2 0.00
132 402 0.99
133 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:11369616 original size:44 final size:44
Alignment explanation
Indices: 11369554--11369638 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
11369544 TTGAAGACAG
*
11369554 CAGATTCGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAC
1 CAGATTCGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAC
* *
11369598 CAGATTTGGCATCTCTGTATTGGCAGAGAGTAGATCGAAGA
1 CAGATTCGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGA
11369639 CATAGCTGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (44 bp):
CAGATTCGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAC
Found at i:11369983 original size:205 final size:205
Alignment explanation
Indices: 11369631--11370302 Score: 1092
Period size: 205 Copynumber: 3.3 Consensus size: 205
11369621 CAGAGAGTAG
* * * *
11369631 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACAATGAAGCAAATCTAAGATGATTTTTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATAAAGCAAATCTAAGATGATTTGTCA
* *
11369696 TCTCTGTATTGTCAGAGAACAAATAGAAGTCTGGCATCTCTACTTCAATAGAGAGCAGATACATA
66 TCTCTGTAGTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTCAATAGAGAGCAGATACATA
* *
11369761 GCAGATCTCACCTTCAGATGTTTATGCTAAAGCAGATCCAAGATGGTTTGGTATCATTGTGCTTA
131 GCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTA
*
11369826 CAATGAACAA
196 CAAGGAACAA
* * *
11369836 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATATAAGATGATTTGTCG
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATAAAGCAAATCTAAGATGATTTGTCA
*
11369901 TCTTTGTAGTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTCAATAGAGAGCAGATACATA
66 TCTCTGTAGTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTCAATAGAGAGCAGATACATA
* *
11369966 GCAGATCTCACCTTCAGATGTTTATGCTGAAGTAGATCCAAGATGGTTTTGTATCCTTGTGCTTA
131 GCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTA
11370031 CAAGGAACAA
196 CAAGGAACAA
** * *
11370041 ATCGAAGACATAGCTGATTTGGCTTTCACGTATTTATGATGAAGCAAATCTAAGATGATTTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATAAAGCAAATCTAAGATGATTTGTCA
* * *
11370106 TCTCTGTAGTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACATG
66 TCTCTGTAGTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTCAATAGAGAGCAGATACATA
* *
11370171 GCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAATATGGTTTGGCATCCTTGTGCTTA
131 GCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTA
*
11370236 CAAGGAGCAA
196 CAAGGAACAA
* * *
11370246 ATCGAAGACATAGCTGATTTGGATTTCACGTGCTTACGTTAAAGCAAATCTTAGATG
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATAAAGCAAATCTAAGATG
11370303 TGAGATACAA
Statistics
Matches: 429, Mismatches: 38, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
205 429 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (205 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATAAAGCAAATCTAAGATGATTTGTCA
TCTCTGTAGTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTCAATAGAGAGCAGATACATA
GCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTA
CAAGGAACAA
Found at i:11370350 original size:18 final size:18
Alignment explanation
Indices: 11370292--11370478 Score: 247
Period size: 18 Copynumber: 10.5 Consensus size: 18
11370282 CGTTAAAGCA
* *
11370292 AATCTTAGATGTGAGATAC
1 AATCTTAGATATGA-TTAC
* *
11370311 AATCCTAGATAT-AATAC
1 AATCTTAGATATGATTAC
*
11370328 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
11370346 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
11370363 AATCTTAGATATCATTGC
1 AATCTTAGATATGATTAC
11370381 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
11370398 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
11370416 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
11370433 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
11370451 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
11370470 AATCTTAGA
1 AATCTTAGA
11370479 AGATATGATT
Statistics
Matches: 149, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
17 62 0.42
18 66 0.44
19 21 0.14
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:11370355 original size:35 final size:35
Alignment explanation
Indices: 11370292--11370478 Score: 293
Period size: 35 Copynumber: 5.3 Consensus size: 35
11370282 CGTTAAAGCA
* * * * *
11370292 AATCTTAGATGTGAGATACAATCCTAGATATAATAC
1 AATCTTAGATATGA-TTGCAATCTTAGATATGATAC
11370328 AATCTTAGATATGATTGCAATCTTAGATATGATAC
1 AATCTTAGATATGATTGCAATCTTAGATATGATAC
*
11370363 AATCTTAGATATCATTGCAATCTTAGATATGATAC
1 AATCTTAGATATGATTGCAATCTTAGATATGATAC
11370398 AATCTTAGATATGATTGCAATCTTAGATATGATAC
1 AATCTTAGATATGATTGCAATCTTAGATATGATAC
11370433 AATCTTAGATATGATTGCAATCTTAGATATGATATAC
1 AATCTTAGATATGATTGCAATCTTAGATATG--ATAC
11370470 AATCTTAGA
1 AATCTTAGA
11370479 AGATATGATT
Statistics
Matches: 142, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
35 116 0.82
36 13 0.09
37 13 0.09
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (35 bp):
AATCTTAGATATGATTGCAATCTTAGATATGATAC
Found at i:11372789 original size:19 final size:19
Alignment explanation
Indices: 11372753--11372791 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
11372743 TTTTCATCAT
* *
11372753 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
11372772 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
11372791 A
1 A
11372792 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:11373285 original size:28 final size:28
Alignment explanation
Indices: 11373253--11373307 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
11373243 GTCACTAGAT
*
11373253 ACAGATATTTTGTGGCA-ATGCCACCAGA
1 ACAGATAATTTGTGGCATA-GCCACCAGA
11373281 ACAGATAATTTGTGGCATAGCCACCAG
1 ACAGATAATTTGTGGCATAGCCACCAG
11373308 GATGCTTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (28 bp):
ACAGATAATTTGTGGCATAGCCACCAGA
Found at i:11373460 original size:28 final size:28
Alignment explanation
Indices: 11373413--11373473 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
11373403 AAATTAACCC
* *
11373413 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGCTATAAAGGTAATTTAGCATACA
* *
11373441 TAGGGCTATAATGGTAATTTTGCATACA
1 TAGGGCTATAAAGGTAATTTAGCATACA
11373469 TAGGG
1 TAGGG
11373474 GTATTATAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (28 bp):
TAGGGCTATAAAGGTAATTTAGCATACA
Found at i:11373485 original size:28 final size:28
Alignment explanation
Indices: 11373429--11373485 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
11373419 TATAAAGGTC
*
11373429 ATTTAGCATACATAGGGCTATAATGGTA
1 ATTTAGCATACATAGGGCTATAATAGTA
* * *
11373457 ATTTTGCATACATAGGGGTATTATAGTA
1 ATTTAGCATACATAGGGCTATAATAGTA
11373485 A
1 A
11373486 ATCTAACTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (28 bp):
ATTTAGCATACATAGGGCTATAATAGTA
Found at i:11375898 original size:36 final size:36
Alignment explanation
Indices: 11375858--11375935 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 36
11375848 CTCAGAAATC
* *
11375858 AATAACACATCCCCTCAACATGTCTTCCAGAATCTG
1 AATAACACATCCCATCAACATGTCCTCCAGAATCTG
* * * *
11375894 AATAACTCTTCCGATCAACTTGTCCTCCAGAATCTG
1 AATAACACATCCCATCAACATGTCCTCCAGAATCTG
11375930 AATAAC
1 AATAAC
11375936 CCTTTCCGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.31, G:0.09, T:0.27
Consensus pattern (36 bp):
AATAACACATCCCATCAACATGTCCTCCAGAATCTG
Found at i:11380736 original size:37 final size:37
Alignment explanation
Indices: 11380686--11380764 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
11380676 TTATTACGAA
* * *
11380686 GTCTTACCCGGACATAATCTCAACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCAACACGAAGTCATCGG
* *
11380723 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCAACACGAAGTCATCGG
11380760 GTCTT
1 GTCTT
11380765 TAGAGCTCGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCAACACGAAGTCATCGG
Found at i:11380960 original size:47 final size:47
Alignment explanation
Indices: 11380882--11381222 Score: 520
Period size: 47 Copynumber: 7.2 Consensus size: 47
11380872 CCCTTCGGGA
* * * * * *
11380882 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
11380929 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** * *
11380976 CTTATCACGCATATACACTTTCACATTCTTCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
11381023 CTTATCACATATATATACACTTTCACATTCAGCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11381072 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
11381119 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11381167 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11381214 CTTATCACA
1 CTTATCACA
11381223 ATTTAGAATT
Statistics
Matches: 269, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
47 182 0.68
48 45 0.17
49 42 0.16
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:11384755 original size:19 final size:19
Alignment explanation
Indices: 11384719--11384757 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
11384709 TTTTCATCAT
* *
11384719 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
11384738 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
11384757 A
1 A
11384758 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:11385271 original size:28 final size:29
Alignment explanation
Indices: 11385187--11385264 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 29
11385177 AGCATGGCTG
* * * *
11385187 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCAGTGCCA
*
11385214 CCAGATACAGATATTTTGTGGCAGTGCCA
1 CCAGATACAGATAATTTGTGGCAGTGCCA
11385243 CCAGA-ACAGATAATTTGTGGCA
1 CCAGATACAGATAATTTGTGGCA
11385265 TAGCCACTAG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
27 11 0.26
28 17 0.40
29 15 0.35
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCAGTGCCA
Found at i:11385427 original size:28 final size:28
Alignment explanation
Indices: 11385381--11385444 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
11385371 AATTAACCCA
*
11385381 AGGGGTATAAAGGTCATTTAGCATACAT
1 AGGGGTATAAAGGTAATTTAGCATACAT
* *
11385409 AGGGGTATAATGGTAATTTTGCATACAT
1 AGGGGTATAAAGGTAATTTAGCATACAT
11385437 AGGGGTAT
1 AGGGGTAT
11385445 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (28 bp):
AGGGGTATAAAGGTAATTTAGCATACAT
Found at i:11390145 original size:27 final size:27
Alignment explanation
Indices: 11390112--11390167 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
11390102 CGGTAAGTTT
*
11390112 ATTTTCCATTATATGAACTTACTAAGC
1 ATTTTCCATTATACGAACTTACTAAGC
11390139 ATTTTCCATTATACGAACTTACTAAGC
1 ATTTTCCATTATACGAACTTACTAAGC
11390166 AT
1 AT
11390168 AAAATACTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (27 bp):
ATTTTCCATTATACGAACTTACTAAGC
Found at i:11392416 original size:27 final size:27
Alignment explanation
Indices: 11392369--11392442 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
11392359 TTTAGAGTGT
* * *
11392369 GCCACAAAGACATTCC-CTTCATAGATC
1 GCCACAAAGGC-TTCCTTTTCAAAGATC
* *
11392396 GCCCCGAAGGCTTCCTTTTCAAAGATC
1 GCCACAAAGGCTTCCTTTTCAAAGATC
*
11392423 GCCACAAAGGCTTTCTTTTC
1 GCCACAAAGGCTTCCTTTTC
11392443 CTGGCGTGAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 4 0.11
27 34 0.89
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (27 bp):
GCCACAAAGGCTTCCTTTTCAAAGATC
Found at i:11400362 original size:40 final size:40
Alignment explanation
Indices: 11400279--11400541 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
11400269 TTGAATGCTG
* * * * * *
11400279 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
11400319 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
11400359 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
11400399 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
11400439 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
11400479 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
11400518 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
11400542 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:11400561 original size:79 final size:80
Alignment explanation
Indices: 11400318--11400576 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
11400308 AAGTGAATAT
* * * * * *
11400318 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
11400382 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
11400398 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
11400463 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
11400478 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
11400542 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
11400557 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
11400577 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:11408315 original size:40 final size:40
Alignment explanation
Indices: 11408232--11408494 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
11408222 TTGAATGCTG
* * * * * *
11408232 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
11408272 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
11408312 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
11408352 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
11408392 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
11408432 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
11408471 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
11408495 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:11408514 original size:79 final size:80
Alignment explanation
Indices: 11408271--11408529 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
11408261 AAGTGAATAT
* * * * * *
11408271 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
11408335 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
11408351 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
11408416 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
11408431 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
11408495 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
11408510 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
11408530 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:11421087 original size:97 final size:96
Alignment explanation
Indices: 11420912--11421100 Score: 288
Period size: 97 Copynumber: 2.0 Consensus size: 96
11420902 AAAATTGGAG
* * *
11420912 AAAATTAATTAGAGTCTCAAATTTATATGCTTAGAATCCTTAATGAGTCTATTTTCAATAGAAAT
1 AAAATTAATTAGAGGCTAAAATTTATATGCTTAGAATCCTTAATGAGTATATTTTCAATAGAAAT
* *
11420977 CAATGGGAACATTATCCGAGTTTTGTATTGNT
66 CAACGGGAACATTATCCGAGTTCTGTATTG-T
* *
11421009 AAAATTTATTTGAGGCTAAAATTTATATGCTTAGAATCCTTAATGAGTATATTTTCAATAGAAAT
1 AAAATTAATTAGAGGCTAAAATTTATATGCTTAGAATCCTTAATGAGTATATTTTCAATAGAAAT
* *
11421074 CAACGGGATCATTATCTGAGTTCTGTA
66 CAACGGGAACATTATCCGAGTTCTGTA
11421101 ATATGATATA
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
97 83 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (96 bp):
AAAATTAATTAGAGGCTAAAATTTATATGCTTAGAATCCTTAATGAGTATATTTTCAATAGAAAT
CAACGGGAACATTATCCGAGTTCTGTATTGT
Found at i:11422711 original size:7 final size:7
Alignment explanation
Indices: 11422699--11422771 Score: 128
Period size: 7 Copynumber: 10.4 Consensus size: 7
11422689 AGTGATTTTC
11422699 CCCTAAA
1 CCCTAAA
11422706 CCCTAAA
1 CCCTAAA
11422713 CCCTAAA
1 CCCTAAA
*
11422720 CTCTAAA
1 CCCTAAA
11422727 CCCTAAA
1 CCCTAAA
11422734 CCCTAAA
1 CCCTAAA
11422741 CCCTAAA
1 CCCTAAA
*
11422748 CTCTAAA
1 CCCTAAA
11422755 CCCTAAA
1 CCCTAAA
11422762 CCCTAAA
1 CCCTAAA
11422769 CCC
1 CCC
11422772 GCACCAACTC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 62 1.00
ACGTcount: A:0.41, C:0.42, G:0.00, T:0.16
Consensus pattern (7 bp):
CCCTAAA
Found at i:11422739 original size:28 final size:28
Alignment explanation
Indices: 11422699--11422771 Score: 146
Period size: 28 Copynumber: 2.6 Consensus size: 28
11422689 AGTGATTTTC
11422699 CCCTAAACCCTAAACCCTAAACTCTAAA
1 CCCTAAACCCTAAACCCTAAACTCTAAA
11422727 CCCTAAACCCTAAACCCTAAACTCTAAA
1 CCCTAAACCCTAAACCCTAAACTCTAAA
11422755 CCCTAAACCCTAAACCC
1 CCCTAAACCCTAAACCC
11422772 GCACCAACTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.41, C:0.42, G:0.00, T:0.16
Consensus pattern (28 bp):
CCCTAAACCCTAAACCCTAAACTCTAAA
Found at i:11429840 original size:3 final size:3
Alignment explanation
Indices: 11429832--11429864 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
11429822 GTAGAAAAAG
11429832 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11429865 TTTGGCTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:11434311 original size:23 final size:22
Alignment explanation
Indices: 11434262--11434311 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
11434252 TTTCTTAAAG
*
11434262 GTTTAATTATGTTTTAAAGAAT
1 GTTTTATTATGTTTTAAAGAAT
*
11434284 TTTTTATTATGTTCTTAAATG-AT
1 GTTTTATTATGTT-TTAAA-GAAT
11434307 GTTTT
1 GTTTT
11434312 CTTAAAAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 11 0.48
23 11 0.48
24 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (22 bp):
GTTTTATTATGTTTTAAAGAAT
Found at i:11435056 original size:21 final size:20
Alignment explanation
Indices: 11435016--11435056 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11435006 TTCTTTAGCT
*
11435016 TAGAAACAATTCTTTTAAAA
1 TAGAAACAATTCTATTAAAA
*
11435036 TAGAAGCAATTCCTATTAAAA
1 TAGAAACAATT-CTATTAAAA
11435057 ATTTATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (20 bp):
TAGAAACAATTCTATTAAAA
Found at i:11439278 original size:18 final size:18
Alignment explanation
Indices: 11439255--11439293 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
11439245 CTAATTACTC
11439255 TTTT-AAATTTTATATTAA
1 TTTTAAAATTTTATA-TAA
11439273 TTTTAAAATTTTATATAA
1 TTTTAAAATTTTATATAA
11439291 TTT
1 TTT
11439294 ATATTGCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTAAAATTTTATATAA
Found at i:11439562 original size:16 final size:16
Alignment explanation
Indices: 11439541--11439573 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11439531 TATTTTAAAC
11439541 CAGATCAATGATTGAA
1 CAGATCAATGATTGAA
11439557 CAGATCAATGATTGAA
1 CAGATCAATGATTGAA
11439573 C
1 C
11439574 CGATTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.24
Consensus pattern (16 bp):
CAGATCAATGATTGAA
Found at i:11440075 original size:20 final size:18
Alignment explanation
Indices: 11440037--11440075 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
11440027 TAATATTAAT
*
11440037 TTATTAAATATATATTTG
1 TTATTAAATATAAATTTG
11440055 TTATTAATATAATAAATTTG
1 TTATTAA-AT-ATAAATTTG
11440075 T
1 T
11440076 GCATCGCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
TTATTAAATATAAATTTG
Found at i:11443411 original size:66 final size:66
Alignment explanation
Indices: 11443305--11443429 Score: 171
Period size: 66 Copynumber: 1.9 Consensus size: 66
11443295 TGATGAGCTT
* * *
11443305 AAAATGAGATGAAGCATATTCTTGCTTTACAATTCAATTCAAACACGTAAGTACAATACCGAGGG
1 AAAATAAGATGAAGCATATTCTTGCTTGACAATTCAATTCAAACACATAAGTACAATACCGAGGG
11443370 A
66 A
* * * *
11443371 AAAATAAGATGAGGTATATTCTTGCCTTGA-AATTCAATTCAAACCCATAATTACAATAC
1 AAAATAAGATGAAGCATATTCTTG-CTTGACAATTCAATTCAAACACATAAGTACAATAC
11443430 TAAGGGAACC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 47 0.92
67 4 0.08
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (66 bp):
AAAATAAGATGAAGCATATTCTTGCTTGACAATTCAATTCAAACACATAAGTACAATACCGAGGG
A
Found at i:11444486 original size:24 final size:24
Alignment explanation
Indices: 11444459--11444505 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
11444449 GGGCTTGGAT
*
11444459 TGGGATAAATATAAAATTGGTATA
1 TGGGATAAATATAAAATTAGTATA
*
11444483 TGGGTTAAATATAAAATTAGTAT
1 TGGGATAAATATAAAATTAGTAT
11444506 TTAAATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (24 bp):
TGGGATAAATATAAAATTAGTATA
Found at i:11445677 original size:15 final size:15
Alignment explanation
Indices: 11445649--11445680 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
11445639 AGATAAGGGT
11445649 AGGAAAAAGAAAAAA
1 AGGAAAAAGAAAAAA
11445664 AGGAGAAAAGAAAAAA
1 AGGA-AAAAGAAAAAA
11445680 A
1 A
11445681 ATGATGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AGGAAAAAGAAAAAA
Found at i:11445710 original size:21 final size:19
Alignment explanation
Indices: 11445651--11445696 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 19
11445641 ATAAGGGTAG
*
11445651 GAAAAAG-AAAAAAAGGA-
1 GAAAAAGAAAAAAAATGAT
11445668 G-AAAAGAAAAAAAATGAT
1 GAAAAAGAAAAAAAATGAT
11445686 GAAAAAGAAAA
1 GAAAAAGAAAA
11445697 TAGAAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 5 0.20
17 10 0.40
18 1 0.04
19 9 0.36
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (19 bp):
GAAAAAGAAAAAAAATGAT
Found at i:11451865 original size:28 final size:29
Alignment explanation
Indices: 11451825--11451890 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
11451815 ATTGCATGAC
*
11451825 TATGAATATGA-TTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
11451853 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
*
11451882 TATGTATGT
1 TATGAATGT
11451891 ATGTAGACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 10 0.29
29 25 0.71
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCCA
Found at i:11455095 original size:27 final size:27
Alignment explanation
Indices: 11455051--11455431 Score: 103
Period size: 27 Copynumber: 14.1 Consensus size: 27
11455041 TATTGAAATG
* *
11455051 CCCTCAAATTGTAAAATTACCAAAGTA
1 CCCTCAATTTATAAAATTACCAAAGTA
* * ****
11455078 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCAATTTATAAAATTACCAAAGTA
****
11455105 CCCTCAATTTATAAAATTACCGTTTTA
1 CCCTCAATTTATAAAATTACCAAAGTA
** * * *****
11455132 CCCTTGATTTACAGAATTACTGTTTTA
1 CCCTCAATTTATAAAATTACCAAAGTA
* * * * *
11455159 CCCTCGATTTACAAAATCACTAAAATA
1 CCCTCAATTTATAAAATTACCAAAGTA
* *** * *
11455186 CCATTGGTTTACAAAATTACCAAAATA
1 CCCTCAATTTATAAAATTACCAAAGTA
* * * *
11455213 CCTTCGA-TCAGTAAAATTACCAAAATA
1 CCCTCAATTTA-TAAAATTACCAAAGTA
* * * * *
11455240 CCCT-AGTATATAAAATTGCTAAAATA
1 CCCTCAATTTATAAAATTACCAAAGTA
** *
11455266 CCCAT-GGTTTGTAAAATTACCGAAA-TA
1 CCC-TCAATTTATAAAATTACC-AAAGTA
* *
11455293 CCCTCAATTTATCAAATTACCAAAATA
1 CCCTCAATTTATAAAATTACCAAAGTA
* * *
11455320 CCC-CTAGTTTGTAAAATTACCAAAATA
1 CCCTC-AATTTATAAAATTACCAAAGTA
** * * *
11455347 CCACT-GGTTTGTGAAATTA-CAGAAATA
1 CC-CTCAATTTATAAAATTACCA-AAGTA
* * *
11455374 CCTTCAATTTGTAAAATTACCAAAATA
1 CCCTCAATTTATAAAATTACCAAAGTA
* * *
11455401 CCC-CTAATTTACAAAATTACAAAAATA
1 CCCTC-AATTTATAAAATTACCAAAGTA
11455428 CCCT
1 CCCT
11455432 TGACTTTCTA
Statistics
Matches: 279, Mismatches: 61, Indels: 27
0.76 0.17 0.07
Matches are distributed among these distances:
26 28 0.10
27 245 0.88
28 6 0.02
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
CCCTCAATTTATAAAATTACCAAAGTA
Found at i:11455110 original size:54 final size:54
Alignment explanation
Indices: 11455051--11455163 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
11455041 TATTGAAATG
* *
11455051 CCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTA
* **** * *
11455105 CCCTCAATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTA
1 CCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTA
11455159 CCCTC
1 CCCTC
11455164 GATTTACAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (54 bp):
CCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTA
Found at i:11455197 original size:54 final size:54
Alignment explanation
Indices: 11455063--11455206 Score: 135
Period size: 54 Copynumber: 2.7 Consensus size: 54
11455053 CTCAAATTGT
* * * * * *
11455063 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTAT
1 AAAATCACCAAAATACCATTGATTTACAGAATTACCGTTTTACCCTCAATTTAC
* **** * * *
11455117 AAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTAC
1 AAAATCACCAAAATACCATTGATTTACAGAATTACCGTTTTACCCTCAATTTAC
* * *
11455171 AAAATCACTAAAATACCATTGGTTTACAAAATTACC
1 AAAATCACCAAAATACCATTGATTTACAGAATTACC
11455207 AAAATACCTT
Statistics
Matches: 71, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (54 bp):
AAAATCACCAAAATACCATTGATTTACAGAATTACCGTTTTACCCTCAATTTAC
Found at i:11455242 original size:81 final size:79
Alignment explanation
Indices: 11455157--11455429 Score: 264
Period size: 81 Copynumber: 3.4 Consensus size: 79
11455147 ATTACTGTTT
* ** * *
11455157 TACCCTCGATTTACAAAATCACTAAAATACCATTGGTTTACAAAATTACCAAAATACCTTCGATC
1 TACCC-CGATTTACAAAATTACTAAAATACCA-TGGTTTGTAAAATTACCAAAATACCTTCAATT
11455222 AGTAAAATTACCAAAA
64 AGTAAAATTACCAAAA
* * * * * *
11455238 TA-CCCTAGTATATAAAATTGCTAAAATACCCATGGTTTGTAAAATTACCGAAATACCCTCAATT
1 TACCCCGA-TTTACAAAATTACTAAAATA-CCATGGTTTGTAAAATTACCAAAATACCTTCAA-T
*
11455302 TA-TCAAATTACCAAAA
63 TAGTAAAATTACCAAAA
* ** * *
11455318 TACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTA-CAGAAATACCTTCAAT
1 TACCCCGA-TTTACAAAATTACTAAAATACCA-TGGTTTGTAAAATTACCA-AAATACCTTCAAT
*
11455382 TTGTAAAATTACCAAAA
63 TAGTAAAATTACCAAAA
* *
11455399 TACCCCTAATTTACAAAATTACAAAAATACC
1 TACCCC-GATTTACAAAATTACTAAAATACC
11455430 CTTGACTTTC
Statistics
Matches: 159, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
79 2 0.01
80 64 0.40
81 92 0.58
82 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (79 bp):
TACCCCGATTTACAAAATTACTAAAATACCATGGTTTGTAAAATTACCAAAATACCTTCAATTAG
TAAAATTACCAAAA
Found at i:11455331 original size:54 final size:53
Alignment explanation
Indices: 11455223--11455430 Score: 208
Period size: 54 Copynumber: 3.9 Consensus size: 53
11455213 CCTTCGATCA
* * * * * *
11455223 GTAAAATTACCAAAATACCCTAGTATATAAAATTGCTAAAATACCCATGGTTT
1 GTAAAATTACCAAAATACCCTAATTTATCAAATTACCAAAATACCCATAGTTT
* *
11455276 GTAAAATTACCGAAATACCCTCAATTTATCAAATTACCAAAATACCCCTAGTTT
1 GTAAAATTACCAAAATACCCT-AATTTATCAAATTACCAAAATACCCATAGTTT
** * *
11455330 GTAAAATTACCAAAATACCACTGGTTTGTGAAATTA-CAGAAATACCTTCA-A-TTT
1 GTAAAATTACCAAAATACC-CTAATTTATCAAATTACCA-AAATACC--CATAGTTT
*
11455384 GTAAAATTACCAAAATACCCCTAATTTA-CAAAATTACAAAAATACCC
1 GTAAAATTACCAAAATA-CCCTAATTTATC-AAATTACCAAAATACCC
11455431 TTGACTTTCT
Statistics
Matches: 128, Mismatches: 19, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
52 1 0.01
53 22 0.17
54 98 0.77
55 6 0.05
56 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (53 bp):
GTAAAATTACCAAAATACCCTAATTTATCAAATTACCAAAATACCCATAGTTT
Found at i:11455482 original size:27 final size:27
Alignment explanation
Indices: 11455157--11455492 Score: 175
Period size: 27 Copynumber: 12.4 Consensus size: 27
11455147 ATTACTGTTT
* * * *
11455157 TACCCTCGATTTACAAAATCACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
11455184 TACCATTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * * *
11455211 TA-CCTTCGATCAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-CAAAATTACCAAAA
* * * * *
11455238 TACCC-TAGTATATAAAATTGCTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* ** *
11455264 TACCCATGGTTTGTAAAATTACCGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
***
11455291 TACCCTCAATTTATC-AAATTACCAAAA
1 TACCCTTGGTTTA-CAAAATTACCAAAA
* * **
11455318 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
***
11455345 TACCAC-TGGTTTGTGAAATTA-CAGAAA
1 TACC-CTTGGTTTACAAAATTACCA-AAA
** **
11455372 TA-CCTTCAATTTGTAAAATTACCAAAA
1 TACCCTT-GGTTTACAAAATTACCAAAA
* ** *
11455399 TACCCCTAATTTACAAAATTACAAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* *
11455426 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCA-AAA
* *
11455455 TACCATTGGTTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
11455482 TACCCTTGGTT
1 TACCCTTGGTT
11455493 AGTAGATTTA
Statistics
Matches: 242, Mismatches: 50, Indels: 34
0.74 0.15 0.10
Matches are distributed among these distances:
25 1 0.00
26 27 0.11
27 179 0.74
28 17 0.07
29 18 0.07
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:11455578 original size:27 final size:27
Alignment explanation
Indices: 11455548--11455607 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
11455538 CCCCTAATAC
11455548 GTAAAAAGACCGTAA-AGCCCCTGTAGG
1 GTAAAAAGACCGTAATA-CCCCTGTAGG
** *
11455575 GTAAAGTGACCGTAATACCCCTGTATG
1 GTAAAAAGACCGTAATACCCCTGTAGG
11455602 GTAAAA
1 GTAAAA
11455608 TGATGAATAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (27 bp):
GTAAAAAGACCGTAATACCCCTGTAGG
Found at i:11456450 original size:26 final size:26
Alignment explanation
Indices: 11456421--11456544 Score: 153
Period size: 26 Copynumber: 4.8 Consensus size: 26
11456411 GAGGAAGTGC
* **
11456421 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
11456447 AAAAGCGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
11456473 AAAAGGCCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
11456499 AAAAGGTC-TCTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
11456524 AAAAGGGCTT-TGCCCCAGTTT
1 AAAAGGGCTTATGCCCCAGTTT
11456545 GCCTCCAGAT
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
25 32 0.38
26 52 0.62
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:11456499 original size:52 final size:51
Alignment explanation
Indices: 11456421--11456544 Score: 189
Period size: 52 Copynumber: 2.4 Consensus size: 51
11456411 GAGGAAGTGC
*
11456421 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGCG-CTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GTC-TATGCCCCAGTTTACCG
* *
11456473 AAAAGGCCTTATGCCCCAGTTTATTGAAAAGGTCTCTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGTCTATGCCCCAGTTTACCG
11456524 AAAAGGGCTT-TGCCCCAGTTT
1 AAAAGGGCTTATGCCCCAGTTT
11456545 GCCTCCAGAT
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
50 11 0.16
51 26 0.39
52 30 0.45
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGTCTATGCCCCAGTTTACCG
Found at i:11458932 original size:27 final size:27
Alignment explanation
Indices: 11458902--11458959 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
11458892 AATTGTAAAG
11458902 TTACCAAAGTACCCTCAATTTATAGAA
1 TTACCAAAGTACCCTCAATTTATAGAA
**** *
11458929 TTACCGTTTTACCCTCGATTTATAGAA
1 TTACCAAAGTACCCTCAATTTATAGAA
11458956 TTAC
1 TTAC
11458960 TGTTTTACCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (27 bp):
TTACCAAAGTACCCTCAATTTATAGAA
Found at i:11458964 original size:27 final size:27
Alignment explanation
Indices: 11458911--11459014 Score: 156
Period size: 27 Copynumber: 3.9 Consensus size: 27
11458901 GTTACCAAAG
* *
11458911 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
11458938 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
11458965 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
11458992 TACCCTCGATTTATTA-AATTACT
1 TACCCTCGATTTA-TAGAATTACT
11459015 AAAATACCCT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
27 69 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:11459022 original size:27 final size:27
Alignment explanation
Indices: 11458992--11459266 Score: 114
Period size: 27 Copynumber: 10.2 Consensus size: 27
11458982 ATTACTGTTT
** *
11458992 TACCCTCGATTTATTAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
11459019 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
11459046 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-CAAAATTACCAAAA
* * * ** * *
11459073 TACCTTAG-TCTGTAAAATTTCTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* ** *
11459099 TACCC-CTAGTTTGTAAAATTA-TAGAAA
1 TACCCTCGA-TTTACAAAATTACCA-AAA
* * **
11459126 TACCCGCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
11459153 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* * *** * *
11459180 TACCAC-AGGTTTGTGAAATTATCGAAA
1 TACC-CTCGATTTACAAAATTACCAAAA
* **
11459207 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
**
11459234 TACCC-CTGATTTACAAAATTACGGAAA
1 TACCCTC-GATTTACAAAATTACCAAAA
11459261 TACCCT
1 TACCCT
11459267 TGACTTTCTA
Statistics
Matches: 195, Mismatches: 41, Indels: 23
0.75 0.16 0.09
Matches are distributed among these distances:
26 24 0.12
27 167 0.86
28 4 0.02
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:11459023 original size:54 final size:54
Alignment explanation
Indices: 11458919--11459041 Score: 158
Period size: 54 Copynumber: 2.3 Consensus size: 54
11458909 AGTACCCTCA
* ****
11458919 ATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTAAAATACCCTTG
*
11458973 ATTTACAGAATTACTGTTTTACCCTCGATTTATTA-AATTACTAAAATACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCGATTTA-TAGAATTACTAAAATACCCTTG
* *
11459027 GTTTACAAAATTACC
1 ATTTACAGAATTACC
11459042 AAAATACCCT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 57 0.97
55 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (54 bp):
ATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTAAAATACCCTTG
Found at i:11459050 original size:54 final size:55
Alignment explanation
Indices: 11458992--11459351 Score: 236
Period size: 54 Copynumber: 6.7 Consensus size: 55
11458982 ATTACTGTTT
* * *
11458992 TACCCTCGA-TTTATTAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
** * * ** * *
11459046 TACCCTCGA-TCAGTAAAATTACCAAAATA-CCTTAGTCTGTAAAATTTCTAAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
* * **** **
11459099 TACCC-CTAGTTTGTAAAATTA-TAGAAATACCCGCAATTTGTAAAATTACCAAAA
1 TACCCTCGAGTTTGTAAAATTACCA-AAATACCCTTGGTTTACAAAATTACCAAAA
* * *** * *
11459153 TACCC-CTAGTTTGTAAAATTACCAAAATACCAC-AGGTTTGTGAAATTATCGAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACC-CTTGGTTTACAAAATTACCAAAA
* * * **
11459207 TACCCTC-AATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACGGAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
* * * * * **
11459261 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGAGTTTGT-AAAATTACCA-AAATACCCTTGGTTTACAAAATTACCAAAA
* * * *
11459317 TACCCTTG-GTTTGTAGATTTACCAAAACACCCTTG
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCCTTG
11459352 TAGGATGAAA
Statistics
Matches: 244, Mismatches: 51, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
52 3 0.01
53 39 0.16
54 147 0.60
55 14 0.06
56 41 0.17
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (55 bp):
TACCCTCGAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
Found at i:11459098 original size:26 final size:27
Alignment explanation
Indices: 11459033--11459240 Score: 176
Period size: 27 Copynumber: 7.7 Consensus size: 27
11459023 CTTGGTTTAC
* *
11459033 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCTAG-TCTGT
*
11459060 AAAATTACCAAAATA-CCTTAGTCTGT
1 AAAATTACCAAAATACCCCTAGTCTGT
* * *
11459086 AAAATTTCTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTCTGT
* * *
11459113 AAAATTA-TAGAAATACCCGC-AATTTGT
1 AAAATTACCA-AAATACCC-CTAGTCTGT
*
11459140 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTCTGT
* *
11459167 AAAATTACCAAAATACCAC-AGGTTTGT
1 AAAATTACCAAAATACCCCTA-GTCTGT
* * * * *
11459194 GAAATTATCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-AGTCTGT
11459221 AAAATTACCAAAATACCCCT
1 AAAATTACCAAAATACCCCT
11459241 GATTTACAAA
Statistics
Matches: 152, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
26 23 0.15
27 122 0.80
28 7 0.05
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTCTGT
Found at i:11459199 original size:81 final size:81
Alignment explanation
Indices: 11459058--11459240 Score: 271
Period size: 81 Copynumber: 2.3 Consensus size: 81
11459048 CCCTCGATCA
* * * *
11459058 GTAAAATTACCAAAATA-CCTTAGTCTGTAAAATTTCTAAAATACCCCTAGTTTGTAAAATTATA
1 GTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCACTAGTTTGTAAAATTATA
11459122 GAAATACCCGCAATTT
66 GAAATACCCGCAATTT
* *
11459138 GTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-AGGTTTGTGAAATTAT
1 GTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCACTA-GTTTGTAAAATTAT
* *
11459202 CGAAATACCCTCAATTT
65 AGAAATACCCGCAATTT
11459219 GTAAAATTACCAAAATACCCCT
1 GTAAAATTACCAAAATACCCCT
11459241 GATTTACAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
80 18 0.19
81 75 0.81
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
GTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCACTAGTTTGTAAAATTATA
GAAATACCCGCAATTT
Found at i:11459252 original size:81 final size:81
Alignment explanation
Indices: 11459058--11459264 Score: 249
Period size: 81 Copynumber: 2.6 Consensus size: 81
11459048 CCCTCGATCA
* * ** * * *
11459058 GTAAAATTACCAAAATA-CCTTAGTCTGTAAAATTTCTAAAATACCCCTA-GTTTGTAAAATTAT
1 GTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCAC-AGGTTTGTAAAATTAT
11459121 AGAAATACCCGCAATTT
65 AGAAATACCCGCAATTT
** * *
11459138 GTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACAGGTTTGTGAAATTATC
1 GTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCACAGGTTTGTAAAATTATA
*
11459203 GAAATACCCTCAATTT
66 GAAATACCCGCAATTT
**
11459219 GTAAAATTACCAAAATACCCCT-GATTTACAAAATTACGGAAATACC
1 GTAAAATTACCAAAATACCCCTAG-TTTACAAAATTACCAAAATACC
11459265 CTTGACTTTC
Statistics
Matches: 112, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
80 19 0.17
81 93 0.83
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.29
Consensus pattern (81 bp):
GTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCACAGGTTTGTAAAATTATA
GAAATACCCGCAATTT
Done.