Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 109 of 279
Found at i:34490439 original size:37 final size:37
Alignment explanation
Indices: 34490362--34490439 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
34490352 CATAATCACA
* * * *
34490362 AAACCCCAAATCCATAATCATAAAACCCTAACATCAT
1 AAACCCCAAACCCATAAACATAAAACCCTAAAACCAT
* *
34490399 AAACCCCAAACCCGTAAACATAAAACCCTAAAACCGT
1 AAACCCCAAACCCATAAACATAAAACCCTAAAACCAT
34490436 AAAC
1 AAAC
34490440 TATATAAACT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.50, C:0.33, G:0.03, T:0.14
Consensus pattern (37 bp):
AAACCCCAAACCCATAAACATAAAACCCTAAAACCAT
Found at i:34490947 original size:118 final size:118
Alignment explanation
Indices: 34490739--34491001 Score: 472
Period size: 118 Copynumber: 2.2 Consensus size: 118
34490729 CTGACAAGTG
*
34490739 TATCCCAACACTTAGAAAAGTGTCGCCTTAGGACTAGACAAAAGCCAACTCTTATTCAAGCGTTG
1 TATCCCAACACTTAGAAAAGTGTCGCCTTAGGACTAGACAAAAGCCAACTCTTATTCAAGCATTG
* *
34490804 TCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAACGTAGTC
66 CCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAACATAGTC
34490857 TATCCCAACACTTAGAAAAGTGTCGCCTTAGGACTAGACAAAAGCCAACTCTTATTCAAGCATTG
1 TATCCCAACACTTAGAAAAGTGTCGCCTTAGGACTAGACAAAAGCCAACTCTTATTCAAGCATTG
*
34490922 CCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATAGTC
66 CCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAACATAGTC
* *
34490975 TATACCAACACTTAGGAAAGTGTCGCC
1 TATCCCAACACTTAGAAAAGTGTCGCC
34491002 ACAAAAGTGT
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 139 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (118 bp):
TATCCCAACACTTAGAAAAGTGTCGCCTTAGGACTAGACAAAAGCCAACTCTTATTCAAGCATTG
CCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAACATAGTC
Found at i:34491096 original size:92 final size:91
Alignment explanation
Indices: 34490975--34491154 Score: 270
Period size: 92 Copynumber: 2.0 Consensus size: 91
34490965 AAGCATAGTC
* *
34490975 TATACCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAAACCAACTC
1 TATACCAACACTTAGGAAAATGTCACCACAAAAGTGTCGTCTTAGGACTACAC-AAAACCAACTC
*
34491040 TTATTCAAGCATTGCTTTAGGCATACA
65 TTATTCAAACATTGCTTTAGGCATACA
* * **
34491067 TATATCAACCCTTAGGAAAATGTCACCACAAAAGTGTCGTCTTAGGACTACACAAAGGCAACTCT
1 TATACCAACACTTAGGAAAATGTCACCACAAAAGTGTCGTCTTAGGACTACACAAAACCAACTCT
* *
34491132 TATTTAAACGTTGCTTTAGGCAT
66 TATTCAAACATTGCTTTAGGCAT
34491155 GCATCTCCCA
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 30 0.38
92 49 0.62
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.27
Consensus pattern (91 bp):
TATACCAACACTTAGGAAAATGTCACCACAAAAGTGTCGTCTTAGGACTACACAAAACCAACTCT
TATTCAAACATTGCTTTAGGCATACA
Found at i:34491403 original size:132 final size:131
Alignment explanation
Indices: 34491240--34491559 Score: 514
Period size: 132 Copynumber: 2.4 Consensus size: 131
34491230 GGACTAGACA
34491240 ACACAAAAGCCAACTCTTATTCAAGCATTGCCTTAGGCATACATATCCCAACCCTTATACAAAGA
1 ACACAAAAGCCAACTCTTATTCAAGCATTGCCTTAGGCATACATATCCCAACCCTTATACAAAGA
* * * *
34491305 GTTGGCCAAAGCATAGTCTATCCCAACACTTAGGGAAGTGTCACCGCAAAAGTGTCTTCTTAGGA
66 GTTGGCCAAAACATAGTCTATCCCAACACTTA-GGAAATGTCACCACAAAAGTGTCGTCTTAGGA
34491370 CT
130 CT
* * *
34491372 ACACAGAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCTAACCCTTATACAAAGA
1 ACACAAAAGCCAACTCTTATTCAAGCATTGCCTTAGGCATACATATCCCAACCCTTATACAAAGA
**
34491437 GTTGGCCAAAACATAGTCTATCCCAACACTTAGGAAATGTCGTCACAAAAGTGTCGTCTTAGGAC
66 GTTGGCCAAAACATAGTCTATCCCAACACTTAGGAAATGTCACCACAAAAGTGTCGTCTTAGGAC
34491502 T
131 T
* * **
34491503 ACACAAAAACCAACTCTTATTCAAGCATTGCTTTAGGCATACATATATCAACCCTTA
1 ACACAAAAGCCAACTCTTATTCAAGCATTGCCTTAGGCATACATATCCCAACCCTTA
34491560 GGAAAATGTC
Statistics
Matches: 172, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
131 79 0.46
132 93 0.54
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.25
Consensus pattern (131 bp):
ACACAAAAGCCAACTCTTATTCAAGCATTGCCTTAGGCATACATATCCCAACCCTTATACAAAGA
GTTGGCCAAAACATAGTCTATCCCAACACTTAGGAAATGTCACCACAAAAGTGTCGTCTTAGGAC
T
Found at i:34491646 original size:91 final size:91
Alignment explanation
Indices: 34491455--34491650 Score: 268
Period size: 91 Copynumber: 2.2 Consensus size: 91
34491445 AAACATAGTC
* **
34491455 TATCCCAACACTTAGGAAATGTCGTCACAAAAGTGTCGTCTTAGGACTACACAAAAACCAACTCT
1 TATCCCAACCCTTAGGAAATGTCACCACAAAAGTGTCGTCTTAGGACTACACAAAAACCAACTCT
*
34491520 TATTCAAGCATTGCTTTAGGCATACA
66 TATTCAAACATTGCTTTAGGCATACA
** **
34491546 TATATCAACCCTTAGGAAAATGTCACCACAAAAGTGTCGTCTTAGGACTACAC-AAAGGCAACTC
1 TATCCCAACCCTTAGG-AAATGTCACCACAAAAGTGTCGTCTTAGGACTACACAAAAACCAACTC
* * *
34491610 TTATTTAAACGTTGCTTTAGGCATGCA
65 TTATTCAAACATTGCTTTAGGCATACA
*
34491637 TCTCCCAACCCTTA
1 TATCCCAACCCTTA
34491651 TACAAAGATT
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
91 56 0.62
92 34 0.38
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (91 bp):
TATCCCAACCCTTAGGAAATGTCACCACAAAAGTGTCGTCTTAGGACTACACAAAAACCAACTCT
TATTCAAACATTGCTTTAGGCATACA
Found at i:34491660 original size:479 final size:466
Alignment explanation
Indices: 34490776--34491714 Score: 1628
Period size: 479 Copynumber: 2.0 Consensus size: 466
34490766 TTAGGACTAG
* *
34490776 ACAAAAGCCAACTCTTATTCAAGCGTTGTCTTAGGCATACATATCCCAACCCTTATACAAAGAGT
1 ACAAAAGCCAACTCTTATTCAAGCATTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGT
* *
34490841 TGGCCAAAACGTAGTCTATCCCAACACTTAGAAAAGTGTCGCCTTAGGACTAGACAAAAGCCAAC
66 TGGCCAAAACATAGTCTATCCCAACACTTAGAAAAGTGTCGCCTTAGGACTACACAAAAGCCAAC
*
34490906 TCTTATTCAAGCATTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCAT
131 TCTTATTCAAGCATTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAACAT
34490971 AGTCTATACCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAAACCA
196 AGTCTATACCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAAACCA
34491036 ACTCTTATTCAAGCATTGCTTTAGGCATACATATATCAACCCTTAGGAAAATGTCACCACAAAAG
261 ACTCTTATTCAAGCATTGCTTTAGGCATACATATATCAACCCTTAGGAAAATGTCACCACAAAAG
34491101 TGTCGTCTTAGGACTACACAAAGGCAACTCTTATTTAAACGTTGCTTTAGGCATGCATCTCCCAA
326 TGTCGTCTTAGGACTACACAAAGGCAACTCTTATTTAAACGTTGCTTTAGGCATGCATCTCCCAA
34491166 CCCTTATACAAAGATTGGCTAAATCCCAGTCTATCCCTACACTTGCCCCAAAAGTGTCATCTTAG
391 CCCTTATACAAAGATTGGCTAAATCCCAGTCTATCCCTACACTTGCCCCAAAAGTGTCATCTTAG
34491231 GACTAGACAAC
456 GACTAGACAAC
34491242 ACAAAAGCCAACTCTTATTCAAGCATTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGT
1 ACAAAAGCCAACTCTTATTCAAGCATTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGT
* **
34491307 TGGCCAAAGCATAGTCTATCCCAACACTTAGGGAAGTGTCACCGCAAAAGTGTCTTCTTAGGACT
66 TGGCCAAAACATAGTCTATCCCAACAC---------T-T-A--G-AAAAGTGTCGCCTTAGGACT
* * *
34491372 ACACAGAAGCCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCCTAACCCTTATACAAAGA
117 ACACAAAAGCCAACTCTTATTCAAGCATTGCCTTAGGCATACATATCCCAACCCTTATACAAAGA
* *
34491437 GTTGGCCAAAACATAGTCTATCCCAACACTTAGGAAA-TGTCGTCACAAAAGTGTCGTCTTAGGA
182 GTTGGCCAAAACATAGTCTATACCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGA
34491501 CTACACAAAAACCAACTCTTATTCAAGCATTGCTTTAGGCATACATATATCAACCCTTAGGAAAA
247 CTACACAAAAACCAACTCTTATTCAAGCATTGCTTTAGGCATACATATATCAACCCTTAGGAAAA
34491566 TGTCACCACAAAAGTGTCGTCTTAGGACTACACAAAGGCAACTCTTATTTAAACGTTGCTTTAGG
312 TGTCACCACAAAAGTGTCGTCTTAGGACTACACAAAGGCAACTCTTATTTAAACGTTGCTTTAGG
34491631 CATGCATCTCCCAACCCTTATACAAAGATTGGCTAAATCCCAGTCTATCCCTACACTTGCCCCAA
377 CATGCATCTCCCAACCCTTATACAAAGATTGGCTAAATCCCAGTCTATCCCTACACTTGCCCCAA
34491696 AAGTGTCATCTTAGGACTA
442 AAGTGTCATCTTAGGACTA
34491715 TACTTTTGCC
Statistics
Matches: 446, Mismatches: 13, Indels: 15
0.94 0.03 0.03
Matches are distributed among these distances:
466 88 0.20
475 1 0.00
476 1 0.00
477 1 0.00
479 241 0.54
480 114 0.26
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (466 bp):
ACAAAAGCCAACTCTTATTCAAGCATTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGT
TGGCCAAAACATAGTCTATCCCAACACTTAGAAAAGTGTCGCCTTAGGACTACACAAAAGCCAAC
TCTTATTCAAGCATTGCCTTAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAACAT
AGTCTATACCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAAACCA
ACTCTTATTCAAGCATTGCTTTAGGCATACATATATCAACCCTTAGGAAAATGTCACCACAAAAG
TGTCGTCTTAGGACTACACAAAGGCAACTCTTATTTAAACGTTGCTTTAGGCATGCATCTCCCAA
CCCTTATACAAAGATTGGCTAAATCCCAGTCTATCCCTACACTTGCCCCAAAAGTGTCATCTTAG
GACTAGACAAC
Found at i:34492290 original size:29 final size:30
Alignment explanation
Indices: 34492257--34492318 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 30
34492247 TTCGTTAGAA
34492257 AATAAC-AATTCAACTTCTTTTAAAAAATT
1 AATAACAAATTCAACTTCTTTTAAAAAATT
* * * *
34492286 AATAACTAAATTCCATTTTTTTTAAAAGATT
1 AATAAC-AAATTCAACTTCTTTTAAAAAATT
34492317 AA
1 AA
34492319 GAGTCAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 6 0.22
31 21 0.78
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (30 bp):
AATAACAAATTCAACTTCTTTTAAAAAATT
Found at i:34495212 original size:21 final size:21
Alignment explanation
Indices: 34495188--34495232 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
34495178 GTTTATAAGG
*
34495188 TTAAGATTTTGCTAAAATAAT
1 TTAAGATTTTACTAAAATAAT
* *
34495209 TTAAGTTTTTATTAAAATAAT
1 TTAAGATTTTACTAAAATAAT
34495230 TTA
1 TTA
34495233 GGGTTAAGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (21 bp):
TTAAGATTTTACTAAAATAAT
Found at i:34496103 original size:14 final size:14
Alignment explanation
Indices: 34496084--34496113 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34496074 TTATATCGAG
34496084 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
34496098 ACCAATCCAATTCA
1 ACCAATCCAAATCA
34496112 AC
1 AC
34496114 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:34501772 original size:127 final size:127
Alignment explanation
Indices: 34501461--34501780 Score: 410
Period size: 128 Copynumber: 2.5 Consensus size: 127
34501451 AAAAATTCCT
* *
34501461 TAAAACGAAGGCAATGTTTGATGTTTAGAAATTCGAGAAATCGTGCCTAACCGTGCTGGGTTTCG
1 TAAAAC-AAGGCAATGTTTGATGTTTGGAAATTCGAGGAATCGTGCCT-ACCGTGCTGGGTTTCG
* * * * *
34501526 ATTTCCTGTTTGCTCAAAATAATCGAACCTTCATTTAGAATTTTACTCGTGTTTTTCTAAATTC
64 ATTTCCTGTTTGCTCAAAATAATCAAACATTCATTTAGAATTTCACTCGTATTCTTCTAAATTC
* * * *
34501590 TAAAACAAGGCGATGTTTGATGCTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGA
1 TAAAACAAGGCAATGTTTGATGTTTGGAAATTCGAGGAATCGTG-CCTACCGTGCTGGGTTTCGA
* * * *
34501655 TTT-CTCGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCATTCGTATTCTT-TAAATTC
65 TTTCCT-GTTTGCTCAAAATAATCAAACATTCATTTAGAATTTCACTCGTATTCTTCTAAATTC
** * *
34501717 TAAAACAAGGCAATGTTCAATGTTTGGAAGTTTGAGGAATCGTGCTCTACCGTGCTGGGTTTCG
1 TAAAACAAGGCAATGTTTGATGTTTGGAAATTCGAGGAATCGTGC-CTACCGTGCTGGGTTTCG
34501781 GTTATCCGTT
Statistics
Matches: 165, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
126 1 0.01
127 63 0.38
128 92 0.56
129 9 0.05
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (127 bp):
TAAAACAAGGCAATGTTTGATGTTTGGAAATTCGAGGAATCGTGCCTACCGTGCTGGGTTTCGAT
TTCCTGTTTGCTCAAAATAATCAAACATTCATTTAGAATTTCACTCGTATTCTTCTAAATTC
Found at i:34502360 original size:21 final size:21
Alignment explanation
Indices: 34502314--34502361 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
34502304 AAACTCTTAG
34502314 CCCTAAATTATTTTAACAAAA
1 CCCTAAATTATTTTAACAAAA
* **
34502335 ACCTAAATTATTTTAGTAAAA
1 CCCTAAATTATTTTAACAAAA
34502356 CCCTAA
1 CCCTAA
34502362 CCTTAAAACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (21 bp):
CCCTAAATTATTTTAACAAAA
Found at i:34502549 original size:13 final size:13
Alignment explanation
Indices: 34502531--34502555 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34502521 TCCGAGTTAG
34502531 AAAAATATTTTTC
1 AAAAATATTTTTC
34502544 AAAAATATTTTT
1 AAAAATATTTTT
34502556 GGTGTTTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
AAAAATATTTTTC
Found at i:34505093 original size:18 final size:20
Alignment explanation
Indices: 34505051--34505087 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34505041 ATATTTTATG
*
34505051 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
34505070 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
34505088 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:34507301 original size:46 final size:46
Alignment explanation
Indices: 34507249--34507476 Score: 350
Period size: 46 Copynumber: 5.0 Consensus size: 46
34507239 AGTGTGCTCT
*
34507249 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
34507295 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
34507341 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
34507387 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
34507433 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
34507477 TCATGTCAAA
Statistics
Matches: 172, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 1 0.01
46 171 0.99
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:34508274 original size:3 final size:3
Alignment explanation
Indices: 34508266--34508297 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
34508256 ATTTTGGTAT
34508266 TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA T
34508298 CAGGGTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:34515607 original size:33 final size:33
Alignment explanation
Indices: 34515565--34515727 Score: 215
Period size: 33 Copynumber: 4.9 Consensus size: 33
34515555 CCTGTAGCAG
34515565 CAGGTGAGGGGAAAGGTGAATCCATTGAAAATC
1 CAGGTGAGGGGAAAGGTGAATCCATTGAAAATC
* * * *
34515598 CAGGTGAGGGGAAACGTAAATCCACTGCAAAA-G
1 CAGGTGAGGGGAAAGGTGAATCCATTG-AAAATC
*
34515631 CAGGTGAGGGGAAGGGTGAATCCATTGAAAATC
1 CAGGTGAGGGGAAAGGTGAATCCATTGAAAATC
*
34515664 CAGGTGA-GGGAGAAGGTGAAACCATTGAAAATC
1 CAGGTGAGGGGA-AAGGTGAATCCATTGAAAATC
*
34515697 CAGGTGA-GGGAGAAGGTGAATCCATTAAAAA
1 CAGGTGAGGGGA-AAGGTGAATCCATTGAAAA
34515728 AGCGGGTGAG
Statistics
Matches: 114, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
32 8 0.07
33 102 0.89
34 4 0.04
ACGTcount: A:0.38, C:0.13, G:0.33, T:0.16
Consensus pattern (33 bp):
CAGGTGAGGGGAAAGGTGAATCCATTGAAAATC
Found at i:34518716 original size:7 final size:7
Alignment explanation
Indices: 34518699--34518728 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
34518689 TGATAAAAAA
34518699 TTAATATT
1 TTAA-ATT
34518707 TTAAATT
1 TTAAATT
34518714 TTAAATT
1 TTAAATT
34518721 TTAAATT
1 TTAAATT
34518728 T
1 T
34518729 GAGTATTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TTAAATT
Found at i:34519332 original size:20 final size:20
Alignment explanation
Indices: 34519278--34519337 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
34519268 TAACTTTAAA
*
34519278 TTTTTAAAAATTTT-ATATT
1 TTTTTAATAATTTTAATATT
*
34519297 TTTTTAATAATGTTAATAATT
1 TTTTTAATAATTTTAAT-ATT
*
34519318 TTTTT-TTAATTTTAAATATT
1 TTTTTAATAATTTT-AATATT
34519338 AAAAAATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
19 12 0.35
20 11 0.32
21 11 0.32
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTTAATAATTTTAATATT
Found at i:34520765 original size:13 final size:13
Alignment explanation
Indices: 34520747--34520794 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
34520737 TATAATTAGT
*
34520747 TAATTAATTAAAA
1 TAATTAAATAAAA
*
34520760 TAATTAAATAAAT
1 TAATTAAATAAAA
* *
34520773 TTATAAAATAAAA
1 TAATTAAATAAAA
34520786 TATATTAAA
1 TA-ATTAAA
34520795 ATCTTAAATA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 22 0.81
14 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAATTAAATAAAA
Found at i:34522244 original size:22 final size:21
Alignment explanation
Indices: 34522217--34522267 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
34522207 AATTATATTT
34522217 TAATTTTAATATTATTGTTATAA
1 TAATTTTAATATTATT-TTA-AA
34522240 -AATTTT-ATATTATTTTAAA
1 TAATTTTAATATTATTTTAAA
34522259 TAATTTTAA
1 TAATTTTAA
34522268 AAGAAAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 2 0.08
20 9 0.35
21 9 0.35
22 6 0.23
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TAATTTTAATATTATTTTAAA
Found at i:34522412 original size:14 final size:15
Alignment explanation
Indices: 34522393--34522435 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
34522383 TACTTATTTA
34522393 TTTTATT-TAAAATT
1 TTTTATTATAAAATT
34522407 TTTTATTATAAAA-T
1 TTTTATTATAAAATT
* *
34522421 TTATATTAAAAAATT
1 TTTTATTATAAAATT
34522436 ATCAAACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 19 0.76
15 6 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTTATTATAAAATT
Found at i:34529409 original size:3 final size:3
Alignment explanation
Indices: 34529396--34529466 Score: 56
Period size: 3 Copynumber: 23.7 Consensus size: 3
34529386 AGTGAAATAC
* *
34529396 AAT AGT AAT AAT AAT -AT ATAT AAAT AAT AAT AAT AAT AA- AGT AAT
1 AAT AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
34529441 AAA AAT AGT AAC AAT AAT GAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
34529467 CATATATCAG
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
2 3 0.06
3 44 0.85
4 4 0.08
5 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:34529423 original size:16 final size:16
Alignment explanation
Indices: 34529402--34529466 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 16
34529392 ATACAATAGT
34529402 AATAATAAT-ATATATA
1 AATAATAATAATA-ATA
34529418 AATAATAATAATAATA
1 AATAATAATAATAATA
* *
34529434 AAGTAATAAAAATAGT-
1 AA-TAATAATAATAATA
* *
34529450 AACAATAATGATAATA
1 AATAATAATAATAATA
34529466 A
1 A
34529467 CATATATCAG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
15 9 0.22
16 17 0.43
17 14 0.35
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:34531191 original size:17 final size:17
Alignment explanation
Indices: 34531169--34531205 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
34531159 TTACGTGGAG
*
34531169 GTGGAGTGGCGCACGAC
1 GTGGAGAGGCGCACGAC
*
34531186 GTGGAGAGTCGCACGAC
1 GTGGAGAGGCGCACGAC
34531203 GTG
1 GTG
34531206 CGGTGCCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.22, G:0.46, T:0.14
Consensus pattern (17 bp):
GTGGAGAGGCGCACGAC
Found at i:34534969 original size:25 final size:27
Alignment explanation
Indices: 34534932--34534984 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
34534922 TCAAACATGC
34534932 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
34534958 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
34534984 A
1 A
34534985 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:34536508 original size:26 final size:26
Alignment explanation
Indices: 34536470--34536527 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
34536460 CATGAAATTC
34536470 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
34536496 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
34536522 TTATCA
1 TTATCA
34536528 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:34538410 original size:24 final size:24
Alignment explanation
Indices: 34538383--34538428 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
34538373 ATATACCTAT
*
34538383 ATTAAAAAATATATATAATGTAAC
1 ATTAAAAAACATATATAATGTAAC
* *
34538407 ATTAAAATACATGTATAATGTA
1 ATTAAAAAACATATATAATGTA
34538429 GTAAAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (24 bp):
ATTAAAAAACATATATAATGTAAC
Found at i:34538445 original size:22 final size:21
Alignment explanation
Indices: 34538362--34538445 Score: 53
Period size: 24 Copynumber: 3.9 Consensus size: 21
34538352 ATAATAAGAA
** *
34538362 TAATAAAAAATATATA-CCTA
1 TAATAAAAAATATATATAATG
*
34538382 TATTAAAAAATATATATAATG
1 TAATAAAAAATATATATAATG
* * *
34538403 TAACATTAAAATACATGTATAATG
1 T-A-A-TAAAAAATATATATAATG
*
34538427 TAGTAAAAAATATTATATA
1 TAATAAAAAATA-TATATA
34538446 TTCATAAGAT
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
20 15 0.32
21 9 0.19
22 6 0.13
23 1 0.02
24 16 0.34
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (21 bp):
TAATAAAAAATATATATAATG
Found at i:34538559 original size:25 final size:26
Alignment explanation
Indices: 34538515--34538572 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
34538505 GTATAAAGAT
34538515 ATAATAT-TAAAAAGATACATATA-C
1 ATAATATATAAAAAGATACATATACC
34538539 ATAATATATAAAAATGA-ACATATACC
1 ATAATATATAAAAA-GATACATATACC
34538565 AT-ATATAT
1 ATAATATAT
34538573 TAGAAATACT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
24 7 0.23
25 19 0.61
26 5 0.16
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (26 bp):
ATAATATATAAAAAGATACATATACC
Found at i:34538579 original size:26 final size:25
Alignment explanation
Indices: 34538513--34538579 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
34538503 GTGTATAAAG
*
34538513 ATATAATATTAAAAAGATACATATAC
1 ATAT-ATATTAAAATGATACATATAC
*
34538539 ATAATATATAAAAATGA-ACATATACC
1 AT-ATATATTAAAATGATACATATA-C
34538565 ATATATATTAGAAAT
1 ATATATATTA-AAAT
34538580 ACTAATAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
25 14 0.40
26 19 0.54
27 2 0.06
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.31
Consensus pattern (25 bp):
ATATATATTAAAATGATACATATAC
Found at i:34538775 original size:22 final size:21
Alignment explanation
Indices: 34538717--34538776 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 21
34538707 ATATATATAC
* *
34538717 ACATAATATAATAAGATATATG
1 ACATAATAT-ATAATAAATATG
*
34538739 AC-TAATAGGAT-ATAAATATG
1 ACATAATA-TATAATAAATATG
34538759 TACATAATATATAATAAA
1 -ACATAATATATAATAAA
34538777 AAATAATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
20 7 0.23
21 11 0.37
22 12 0.40
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (21 bp):
ACATAATATATAATAAATATG
Found at i:34538782 original size:17 final size:19
Alignment explanation
Indices: 34538762--34538801 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
34538752 AAATATGTAC
34538762 ATAATAT-ATAATA-AAAA
1 ATAATATAATAATATAAAA
34538779 ATAATATACATAATATAAAA
1 ATAATATA-ATAATATAAAA
34538799 ATA
1 ATA
34538802 TTTAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
19 6 0.30
20 7 0.35
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (19 bp):
ATAATATAATAATATAAAA
Found at i:34538961 original size:26 final size:26
Alignment explanation
Indices: 34538925--34538980 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
34538915 TATAATAATG
* *
34538925 ATAAAAAAATAATAATACTA-GTGAAA
1 ATAAAAAAAT-ATAATAATATCTGAAA
*
34538951 ATAAATAAATATAATAATATCTGAAA
1 ATAAAAAAATATAATAATATCTGAAA
34538977 ATAA
1 ATAA
34538981 TATTATACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (26 bp):
ATAAAAAAATATAATAATATCTGAAA
Found at i:34539273 original size:19 final size:19
Alignment explanation
Indices: 34539249--34539285 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
34539239 TATAAATAAT
*
34539249 AATGATGTTAGAAATATAC
1 AATGATATTAGAAATATAC
34539268 AATGATATTAGAAATATA
1 AATGATATTAGAAATATA
34539286 TAAAATAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.14, T:0.32
Consensus pattern (19 bp):
AATGATATTAGAAATATAC
Found at i:34539505 original size:12 final size:12
Alignment explanation
Indices: 34539490--34539524 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
34539480 ATAACTATAC
34539490 TAATAATGATAA
1 TAATAATGATAA
*
34539502 TAATAATGATAG
1 TAATAATGATAA
34539514 TAATAAT-ATAA
1 TAATAATGATAA
34539525 ATATTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 3 0.14
12 18 0.86
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (12 bp):
TAATAATGATAA
Found at i:34540092 original size:20 final size:20
Alignment explanation
Indices: 34540035--34540092 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
34540025 AAGGGAGAAA
*
34540035 AAGAGAAGAAA-G-GAGAGG
1 AAGAGAGGAAAGGAGAGAGG
* *
34540053 AAGAGAGAGGAGGGAG-GAGG
1 AAGAGAG-GAAAGGAGAGAGG
34540073 AAGAGAGGAAAGGAGAGAGG
1 AAGAGAGGAAAGGAGAGAGG
34540093 GGGTCTGCTG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 6 0.19
19 8 0.26
20 16 0.52
21 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (20 bp):
AAGAGAGGAAAGGAGAGAGG
Found at i:34540256 original size:13 final size:13
Alignment explanation
Indices: 34540213--34540260 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
34540203 TTCGAATAGG
*
34540213 AAAAGGAAAGAAA
1 AAAAGAAAAGAAA
*
34540226 AAAGGAAAAGAAA
1 AAAAGAAAAGAAA
34540239 AAAAGAAAA-AAA
1 AAAAGAAAAGAAA
34540251 AGAAAGAAAA
1 A-AAAGAAAA
34540261 TCGATTCGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
12 4 0.13
13 27 0.87
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAGAAA
Found at i:34540256 original size:21 final size:21
Alignment explanation
Indices: 34540219--34540260 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
34540209 TAGGAAAAGG
*
34540219 AAAGAAAAAAGGAAAAGAAAA
1 AAAGAAAAAAAGAAAAGAAAA
34540240 AAAGAAAAAAA-AGAAAGAAAA
1 AAAGAAAAAAAGA-AAAGAAAA
34540261 TCGATTCGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAAAGAAAAGAAAA
Found at i:34554193 original size:826 final size:826
Alignment explanation
Indices: 34552602--34554253 Score: 3277
Period size: 826 Copynumber: 2.0 Consensus size: 826
34552592 AGGCAAACAA
34552602 CTGGGGCATGTACTTACTTGGGAGCCCGAGCAAAGAGAAGGTTGGTTAATACATCCAGCATAACC
1 CTGGGGCATGTACTTACTTGGGAGCCCGAGCAAAGAGAAGGTTGGTTAATACATCCAGCATAACC
34552667 TGAAATTGACGAGATGTCATAGAAGCTGTTATGCTCTGAGAGTTAAAGCTGAGATCCTTTAACGG
66 TGAAATTGACGAGATGTCATAGAAGCTGTTATGCTCTGAGAGTTAAAGCTGAGATCCTTTAACGG
*
34552732 CTTCACCTGCAACACAGTTAAAATAACAAACACATGCAAGTTCAATATAGGAGAAATCTAGTACT
131 CTTCACCTGCAACACAGTTAAAATAACAAACACATGCAAGTTCAATATAGGAGAAACCTAGTACT
*
34552797 CAAAAAAACAAACACCGTCTTTTCTTCTCAAAAGATTTAGTTTTAATACTATTATTATTACAATA
196 CAAAAAAACAAACACAGTCTTTTCTTCTCAAAAGATTTAGTTTTAATACTATTATTATTACAATA
34552862 TATCCCTTCTTTACTTATAATCAATTATGTGCCAATATACTTACACAGACATCTTTGCAAAAATA
261 TATCCCTTCTTTACTTATAATCAATTATGTGCCAATATACTTACACAGACATCTTTGCAAAAATA
34552927 GCTACCTTGTAAGCATCACATTACCTTCAATTCTGGGGTTCCACTTTTATGCCTTGTGAATCTGA
326 GCTACCTTGTAAGCATCACATTACCTTCAATTCTGGGGTTCCACTTTTATGCCTTGTGAATCTGA
34552992 AGTACATATCACAAGGCGTAAACACCCTTTCAAGTAGAGCACCAGTACGCTTGACCTTTGGAGAA
391 AGTACATATCACAAGGCGTAAACACCCTTTCAAGTAGAGCACCAGTACGCTTGACCTTTGGAGAA
34553057 CTTCTACGGATTTTTGGAAGCCATTGTACTCCAGCACCAAGATCCACATCAGTTGGTGCAACATG
456 CTTCTACGGATTTTTGGAAGCCATTGTACTCCAGCACCAAGATCCACATCAGTTGGTGCAACATG
34553122 AGCCTGCACATGCTCCAGCATCACAGAAAACTCCATGCGTTTCAAAGTCATGTCATGCCCACCTT
521 AGCCTGCACATGCTCCAGCATCACAGAAAACTCCATGCGTTTCAAAGTCATGTCATGCCCACCTT
34553187 CAGGAATCTGAACATTTCCAGTACCAAGTGCTTTCTCAATCACCTCAGAGCCGACACGAAGAACT
586 CAGGAATCTGAACATTTCCAGTACCAAGTGCTTTCTCAATCACCTCAGAGCCGACACGAAGAACT
34553252 GAATGAAAAGATCGGGCTAAAACACGACCGGTAGCAGCAGCAAGAAGAAATCTCCCCTGATAGGC
651 GAATGAAAAGATCGGGCTAAAACACGACCGGTAGCAGCAGCAAGAAGAAATCTCCCCTGATAGGC
34553317 ATGAAGAAGTAATATTATCAAAAACATGGTTAGCACAAGATGATAACTATCAACAAATCATTAAG
716 ATGAAGAAGTAATATTATCAAAAACATGGTTAGCACAAGATGATAACTATCAACAAATCATTAAG
34553382 AAGGGAAACATTATACACCTGTATCATACAGATCAGAATGTACTGT
781 AAGGGAAACATTATACACCTGTATCATACAGATCAGAATGTACTGT
34553428 CTGGGGCATGTACTTACTTGGGAGCCCGAGCAAAGAGAAGGTTGGTTAATACATCCAGCATAACC
1 CTGGGGCATGTACTTACTTGGGAGCCCGAGCAAAGAGAAGGTTGGTTAATACATCCAGCATAACC
34553493 TGAAATTGACGAGATGTCATAGAAGCTGTTATGCTCTGAGAGTTAAAGCTGAGATCCTTTAACGG
66 TGAAATTGACGAGATGTCATAGAAGCTGTTATGCTCTGAGAGTTAAAGCTGAGATCCTTTAACGG
*
34553558 CTTCACCTGCAACACAGTTAAAATAACAAACACATGCAAGTTCAATATAGGAGAAACCTAGTGCT
131 CTTCACCTGCAACACAGTTAAAATAACAAACACATGCAAGTTCAATATAGGAGAAACCTAGTACT
34553623 CAAAAAAACAAACACAGTCTTTTCTTCTCAAAAGATTTAGTTTTAATACTATTATTATTACAATA
196 CAAAAAAACAAACACAGTCTTTTCTTCTCAAAAGATTTAGTTTTAATACTATTATTATTACAATA
34553688 TATCCCTTCTTTACTTATAATCAATTATGTGCCAATATACTTACACAGACATCTTTGCAAAAATA
261 TATCCCTTCTTTACTTATAATCAATTATGTGCCAATATACTTACACAGACATCTTTGCAAAAATA
34553753 GCTACCTTGTAAGCATCACATTACCTTCAATTCTGGGGTTCCACTTTTATGCCTTGTGAATCTGA
326 GCTACCTTGTAAGCATCACATTACCTTCAATTCTGGGGTTCCACTTTTATGCCTTGTGAATCTGA
34553818 AGTACATATCACAAGGCGTAAACACCCTTTCAAGTAGAGCACCAGTACGCTTGACCTTTGGAGAA
391 AGTACATATCACAAGGCGTAAACACCCTTTCAAGTAGAGCACCAGTACGCTTGACCTTTGGAGAA
34553883 CTTCTACGGATTTTTGGAAGCCATTGTACTCCAGCACCAAGATCCACATCAGTTGGTGCAACATG
456 CTTCTACGGATTTTTGGAAGCCATTGTACTCCAGCACCAAGATCCACATCAGTTGGTGCAACATG
34553948 AGCCTGCACATGCTCCAGCATCACAGAAAACTCCATGCGTTTCAAAGTCATGTCATGCCCACCTT
521 AGCCTGCACATGCTCCAGCATCACAGAAAACTCCATGCGTTTCAAAGTCATGTCATGCCCACCTT
34554013 CAGGAATCTGAACATTTCCAGTACCAAGTGCTTTCTCAATCACCTCAGAGCCGACACGAAGAACT
586 CAGGAATCTGAACATTTCCAGTACCAAGTGCTTTCTCAATCACCTCAGAGCCGACACGAAGAACT
34554078 GAATGAAAAGATCGGGCTAAAACACGACCGGTAGCAGCAGCAAGAAGAAATCTCCCCTGATAGGC
651 GAATGAAAAGATCGGGCTAAAACACGACCGGTAGCAGCAGCAAGAAGAAATCTCCCCTGATAGGC
34554143 ATGAAGAAGTAATATTATCAAAAACATGGTTAGCACAAGATGATAACTATCAACAAATCATTAAG
716 ATGAAGAAGTAATATTATCAAAAACATGGTTAGCACAAGATGATAACTATCAACAAATCATTAAG
34554208 AAGGGAAACATTATACACCTGTATCATACAGATCAGAATGTACTGT
781 AAGGGAAACATTATACACCTGTATCATACAGATCAGAATGTACTGT
34554254 AAGATCTCCC
Statistics
Matches: 823, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
826 823 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (826 bp):
CTGGGGCATGTACTTACTTGGGAGCCCGAGCAAAGAGAAGGTTGGTTAATACATCCAGCATAACC
TGAAATTGACGAGATGTCATAGAAGCTGTTATGCTCTGAGAGTTAAAGCTGAGATCCTTTAACGG
CTTCACCTGCAACACAGTTAAAATAACAAACACATGCAAGTTCAATATAGGAGAAACCTAGTACT
CAAAAAAACAAACACAGTCTTTTCTTCTCAAAAGATTTAGTTTTAATACTATTATTATTACAATA
TATCCCTTCTTTACTTATAATCAATTATGTGCCAATATACTTACACAGACATCTTTGCAAAAATA
GCTACCTTGTAAGCATCACATTACCTTCAATTCTGGGGTTCCACTTTTATGCCTTGTGAATCTGA
AGTACATATCACAAGGCGTAAACACCCTTTCAAGTAGAGCACCAGTACGCTTGACCTTTGGAGAA
CTTCTACGGATTTTTGGAAGCCATTGTACTCCAGCACCAAGATCCACATCAGTTGGTGCAACATG
AGCCTGCACATGCTCCAGCATCACAGAAAACTCCATGCGTTTCAAAGTCATGTCATGCCCACCTT
CAGGAATCTGAACATTTCCAGTACCAAGTGCTTTCTCAATCACCTCAGAGCCGACACGAAGAACT
GAATGAAAAGATCGGGCTAAAACACGACCGGTAGCAGCAGCAAGAAGAAATCTCCCCTGATAGGC
ATGAAGAAGTAATATTATCAAAAACATGGTTAGCACAAGATGATAACTATCAACAAATCATTAAG
AAGGGAAACATTATACACCTGTATCATACAGATCAGAATGTACTGT
Found at i:34554905 original size:15 final size:15
Alignment explanation
Indices: 34554885--34554917 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
34554875 GGCATTTCAG
*
34554885 GTTCAGCAAGTTTCT
1 GTTCAGCAAGTCTCT
34554900 GTTCAGCAAGTCTCT
1 GTTCAGCAAGTCTCT
34554915 GTT
1 GTT
34554918 TCTCCTCGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (15 bp):
GTTCAGCAAGTCTCT
Found at i:34584990 original size:58 final size:59
Alignment explanation
Indices: 34584900--34585018 Score: 168
Period size: 63 Copynumber: 2.0 Consensus size: 59
34584890 TTCCCCTGAG
* * *
34584900 TTAAAAGCAACAAGTGAGTGAGGAACT-AAAAAAAGAGATGTATAAACAAGAGAAACCA
1 TTAAAAGCAACAAGTGAATGAAGAACTAAAAAAAAAAGATGTATAAACAAGAGAAACCA
34584958 TTAAAAGCAACAAGTGAATGAAGAACTAAAAAAAAAAAAAAGATGTATAAACAAGAGAAAC
1 TTAAAAGCAACAAGTGAATGAAGAACT----AAAAAAAAAAGATGTATAAACAAGAGAAAC
34585019 AAATATACAA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
58 25 0.47
63 28 0.53
ACGTcount: A:0.60, C:0.09, G:0.18, T:0.13
Consensus pattern (59 bp):
TTAAAAGCAACAAGTGAATGAAGAACTAAAAAAAAAAGATGTATAAACAAGAGAAACCA
Found at i:34587673 original size:23 final size:23
Alignment explanation
Indices: 34587647--34587716 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
34587637 TTTGTTTCTT
*
34587647 AAAACCCAAGCTATTATGTTATA
1 AAAACCCATGCTATTATGTTATA
* * *
34587670 AAAA---ATGATATT-TGTTTCTT
1 AAAACCCATGCTATTATG-TTATA
34587690 AAAACCCATGCTATTATGTTATA
1 AAAACCCATGCTATTATGTTATA
34587713 AAAA
1 AAAA
34587717 ATTACCATGT
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
19 2 0.06
20 13 0.37
23 18 0.51
24 2 0.06
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.36
Consensus pattern (23 bp):
AAAACCCATGCTATTATGTTATA
Found at i:34587693 original size:43 final size:43
Alignment explanation
Indices: 34587627--34587718 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 43
34587617 AAATGAAAAC
*
34587627 AAAACTGATATTTGTTTCTTAAAACCCAAGCTATTATGTTATA
1 AAAAATGATATTTGTTTCTTAAAACCCAAGCTATTATGTTATA
*
34587670 AAAAATGATATTTGTTTCTTAAAACCCATGCTATTATGTTATA
1 AAAAATGATATTTGTTTCTTAAAACCCAAGCTATTATGTTATA
34587713 AAAAAT
1 AAAAAT
34587719 TACCATGTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (43 bp):
AAAAATGATATTTGTTTCTTAAAACCCAAGCTATTATGTTATA
Found at i:34591324 original size:50 final size:50
Alignment explanation
Indices: 34591249--34591348 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
34591239 TTGACTATAA
34591249 CTATAAGCTAATGGAGAAAATATGTTGCATCAAAAGAACTTATTACCAAC
1 CTATAAGCTAATGGAGAAAATATGTTGCATCAAAAGAACTTATTACCAAC
34591299 CTATAAGCTAATGGAGAAAATATGTTGCATCAAAAGAACTTATTACCAAC
1 CTATAAGCTAATGGAGAAAATATGTTGCATCAAAAGAACTTATTACCAAC
34591349 ACCTATAGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (50 bp):
CTATAAGCTAATGGAGAAAATATGTTGCATCAAAAGAACTTATTACCAAC
Found at i:34596383 original size:46 final size:46
Alignment explanation
Indices: 34596324--34596582 Score: 358
Period size: 46 Copynumber: 5.6 Consensus size: 46
34596314 TCTGATATGG
* * *
34596324 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGA
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGA
* * *
34596370 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGA
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGA
* *
34596416 AATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGA
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGA
**
34596462 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAA
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-A
* *
34596509 AATGAATAAGATCATGGTTGAAAGATACCATGGCAACATGACA-GAA
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-A
* * *
34596555 AACGAGTAAAACCATAGTTGAAAGATAC
1 AATGAGTAAGACCATGGTTGAAAGATAC
34596583 TATGACATCA
Statistics
Matches: 196, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 155 0.79
47 41 0.21
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.20
Consensus pattern (46 bp):
AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGA
Found at i:34597801 original size:13 final size:13
Alignment explanation
Indices: 34597783--34597811 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
34597773 TAAAAGTCTC
34597783 AGTATAATCAATT
1 AGTATAATCAATT
34597796 AGTATAATCAATT
1 AGTATAATCAATT
34597809 AGT
1 AGT
34597812 CTAACTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (13 bp):
AGTATAATCAATT
Found at i:34603500 original size:60 final size:59
Alignment explanation
Indices: 34603406--34603525 Score: 195
Period size: 60 Copynumber: 2.0 Consensus size: 59
34603396 TCTTCATTTA
*
34603406 GTTAATTATGCAATATTCCAATTTTTCCCTTAAATCATCAATTTTCCTGCTGATTTCAT
1 GTTAATTATGCAATATTCCAATTTTGCCCTTAAATCATCAATTTTCCTGCTGATTTCAT
* * *
34603465 GNTTAATTATGCAATATTCTAATTTTGCCCTTAAATCATCCATTTTCTTGCTGATTTCAT
1 G-TTAATTATGCAATATTCCAATTTTGCCCTTAAATCATCAATTTTCCTGCTGATTTCAT
34603525 G
1 G
34603526 CCCTTGCCGT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
59 1 0.02
60 55 0.98
ACGTcount: A:0.26, C:0.19, G:0.08, T:0.46
Consensus pattern (59 bp):
GTTAATTATGCAATATTCCAATTTTGCCCTTAAATCATCAATTTTCCTGCTGATTTCAT
Found at i:34610190 original size:57 final size:57
Alignment explanation
Indices: 34610076--34610190 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 57
34610066 GATAAGAATG
***
34610076 CATTAGTTATAGATACGAACAAAATATGTTTAACATGCATTAAAAGGCATCGTGGTT
1 CATTAGTTATAGATACGAACAAAATATGTTTAACATGCATTAAAAGGCATAACGGTT
* * * *
34610133 CATTGGTTCTAGATGCGAACAAATTATGTTTAACATGCATTAAAAGGCATAACGGTT
1 CATTAGTTATAGATACGAACAAAATATGTTTAACATGCATTAAAAGGCATAACGGTT
34610190 C
1 C
34610191 TTAAGGATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (57 bp):
CATTAGTTATAGATACGAACAAAATATGTTTAACATGCATTAAAAGGCATAACGGTT
Found at i:34611669 original size:31 final size:31
Alignment explanation
Indices: 34611633--34611692 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
34611623 TTAAACAACA
34611633 TATTTAGACAACAAATACATTATGTTCTTTG
1 TATTTAGACAACAAATACATTATGTTCTTTG
* *
34611664 TATTTAGACAGCAGATACATTATGTTCTT
1 TATTTAGACAACAAATACATTATGTTCTT
34611693 CAATTGGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (31 bp):
TATTTAGACAACAAATACATTATGTTCTTTG
Found at i:34611716 original size:16 final size:16
Alignment explanation
Indices: 34611695--34611726 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34611685 ATGTTCTTCA
34611695 ATTGGAATCCTTCTTT
1 ATTGGAATCCTTCTTT
*
34611711 ATTGGAATCTTTCTTT
1 ATTGGAATCCTTCTTT
34611727 TGACACCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (16 bp):
ATTGGAATCCTTCTTT
Found at i:34612679 original size:35 final size:35
Alignment explanation
Indices: 34612633--34612716 Score: 141
Period size: 35 Copynumber: 2.4 Consensus size: 35
34612623 TCTTTGTGTT
*
34612633 TAAATTTTAATGCAACTTCAAGATAATCAAAGTAC
1 TAAATTTTAATGCAACTTCAAAATAATCAAAGTAC
* *
34612668 TAAATTTTAATGCAACTTCAAAATAATTAATGTAC
1 TAAATTTTAATGCAACTTCAAAATAATCAAAGTAC
34612703 TAAATTTTAATGCA
1 TAAATTTTAATGCA
34612717 GATCGTTTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (35 bp):
TAAATTTTAATGCAACTTCAAAATAATCAAAGTAC
Found at i:34613948 original size:11 final size:11
Alignment explanation
Indices: 34613908--34613947 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
34613898 ATAATAACAA
34613908 CAAAATAATAG
1 CAAAATAATAG
*
34613919 CAACATAATAG
1 CAAAATAATAG
* *
34613930 TAAAATAGTAG
1 CAAAATAATAG
34613941 CAAAATA
1 CAAAATA
34613948 GGAAGAAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:34622614 original size:17 final size:17
Alignment explanation
Indices: 34622577--34622615 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
34622567 GTTTTTACTT
34622577 GAATAATATAAAAAATA
1 GAATAATATAAAAAATA
34622594 -AATAA-ATACAAAAATA
1 GAATAATATA-AAAAATA
34622610 GAATAA
1 GAATAA
34622616 CAATAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.15
16 12 0.60
17 5 0.25
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.21
Consensus pattern (17 bp):
GAATAATATAAAAAATA
Found at i:34626000 original size:34 final size:34
Alignment explanation
Indices: 34625956--34626032 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
34625946 GTTTGCATTT
* * *
34625956 CTGATACTGTTACT-ATAATGGGTTAAGGCCCACA
1 CTGATACTGTTACTCA-AATGAGCTAAAGCCCACA
*
34625990 TTGATACTGTTACTCAAATGAGCTAAAGCCCACA
1 CTGATACTGTTACTCAAATGAGCTAAAGCCCACA
34626024 CTGATACTG
1 CTGATACTG
34626033 GACTGTCACT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (34 bp):
CTGATACTGTTACTCAAATGAGCTAAAGCCCACA
Found at i:34632428 original size:34 final size:34
Alignment explanation
Indices: 34632381--34632446 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
34632371 TTTCTGATAC
* *
34632381 TGTTACTATAATGGGTTAAGACCCACATTGATGT
1 TGTTACTATAATGGGCTAAGACCCACACTGATGT
*
34632415 TGTTACTGA-AATGGGCTAAGGCCCACACTGAT
1 TGTTACT-ATAATGGGCTAAGACCCACACTGAT
34632447 ACTAGATTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 27 0.96
35 1 0.04
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (34 bp):
TGTTACTATAATGGGCTAAGACCCACACTGATGT
Found at i:34639502 original size:26 final size:27
Alignment explanation
Indices: 34639457--34639511 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
34639447 CAAGTGAAAG
34639457 AATAATTTAGTGCTTTAAAAA-AAAAC
1 AATAATTTAGTGCTTTAAAAACAAAAC
*
34639483 AATAATTTAG-GTTTTCAAAAACAAAAC
1 AATAATTTAGTGCTTT-AAAAACAAAAC
34639510 AA
1 AA
34639512 AACAATTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 4 0.15
26 15 0.58
27 7 0.27
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.29
Consensus pattern (27 bp):
AATAATTTAGTGCTTTAAAAACAAAAC
Found at i:34641222 original size:4 final size:4
Alignment explanation
Indices: 34641213--34641258 Score: 92
Period size: 4 Copynumber: 11.5 Consensus size: 4
34641203 AAGTAAATAC
34641213 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
34641259 ATAATAAGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:34643339 original size:17 final size:18
Alignment explanation
Indices: 34643314--34643351 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
34643304 TTTAAATTTA
34643314 ATTACATAAAT-ATAAAT
1 ATTACATAAATAATAAAT
*
34643331 ATTAGATAAATAATAAAT
1 ATTACATAAATAATAAAT
34643349 ATT
1 ATT
34643352 TACTATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (18 bp):
ATTACATAAATAATAAAT
Found at i:34644699 original size:10 final size:9
Alignment explanation
Indices: 34644675--34644742 Score: 61
Period size: 9 Copynumber: 7.7 Consensus size: 9
34644665 TGATTTTAGT
34644675 TATTTTATA
1 TATTTTATA
34644684 TA-TTTATA
1 TATTTTATA
34644692 TATTTT-TA
1 TATTTTATA
*
34644700 TAACTTTATA
1 T-ATTTTATA
*
34644710 AATTTTAGT-
1 TATTTTA-TA
* *
34644719 TAGTTTACA
1 TATTTTATA
34644728 TATTTTATA
1 TATTTTATA
34644737 TATTTT
1 TATTTT
34644743 TAAAATAATA
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
8 11 0.24
9 32 0.70
10 3 0.07
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TATTTTATA
Found at i:34648605 original size:21 final size:21
Alignment explanation
Indices: 34648581--34648628 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
34648571 TTCTGTTCTG
* *
34648581 CTCCGCCTCCCTCGCTACTGC
1 CTCCGCCTCCCGCACTACTGC
*
34648602 CTCCGCCTCCCGCACTGCTGC
1 CTCCGCCTCCCGCACTACTGC
34648623 CTCCGC
1 CTCCGC
34648629 TCTAAGTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.04, C:0.58, G:0.17, T:0.21
Consensus pattern (21 bp):
CTCCGCCTCCCGCACTACTGC
Found at i:34654829 original size:241 final size:241
Alignment explanation
Indices: 34654406--34654892 Score: 956
Period size: 241 Copynumber: 2.0 Consensus size: 241
34654396 TTAAGGTTAT
34654406 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
34654471 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
34654536 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
34654601 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
* *
34654647 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
34654712 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
34654777 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
34654842 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
34654888 ATAAA
1 ATAAA
34654893 ATTAATTCAT
Statistics
Matches: 244, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
241 244 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (241 bp):
ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
Found at i:34655620 original size:183 final size:183
Alignment explanation
Indices: 34655312--34655643 Score: 610
Period size: 183 Copynumber: 1.8 Consensus size: 183
34655302 CCTAGAACAG
34655312 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAACAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAACAAATATAAAAACTTTATCTAT
*
34655377 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAATTGAACCAATAGTTGCAGGAGG
34655442 AGCAAGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAAGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
* *
34655495 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATTTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAACAAATATAAAAACTTTATCTAT
* *
34655560 ATCAGTATCAAATATTAATTCGAAGATTAAATGGCAGCTTCAATTGAACTAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAATTGAACCAATAGTTGCAGGAGG
*
34655625 AGCAGGAAGCAGTAACTGA
131 AGCAAGAAGCAGTAACTGA
34655644 TGCTGAATCT
Statistics
Matches: 143, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 143 1.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.28
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAACAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAATTGAACCAATAGTTGCAGGAGG
AGCAAGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
Found at i:34656922 original size:148 final size:148
Alignment explanation
Indices: 34656654--34656950 Score: 576
Period size: 148 Copynumber: 2.0 Consensus size: 148
34656644 CCTTAATCAT
34656654 AAGCTTGTGGAAGTTTAAAGTAGCTTATTCCAAACATAGCAGCAACTAGCTGTTATCGACTTAAA
1 AAGCTTGTGGAAGTTTAAAGTAGCTTATTCCAAACATAGCAGCAACTAGCTGTTATCGACTTAAA
*
34656719 AGGATATGCCAAAAAGCTGCAATTAGATACTAATATTTTACCCTTGAGTGCATATAAATCTCCTT
66 AGGATATGCCAAAAAGCTGCAATTAGATACTAATATTTTACCCTTGAATGCATATAAATCTCCTT
34656784 TTTACAATTTATTGCATA
131 TTTACAATTTATTGCATA
34656802 AAGCTTGTGGAAGTTTAAAGTAGCTTATTCCAAACATAGCAGCAACTAGCTGTTATCGACTTAAA
1 AAGCTTGTGGAAGTTTAAAGTAGCTTATTCCAAACATAGCAGCAACTAGCTGTTATCGACTTAAA
*
34656867 AGGATATGCCAAAAAGCTGCAATTAGATACTAATATTTTACCCTTGAATGTATATAAATCTCCTT
66 AGGATATGCCAAAAAGCTGCAATTAGATACTAATATTTTACCCTTGAATGCATATAAATCTCCTT
34656932 TTTACAATTTATTGCATA
131 TTTACAATTTATTGCATA
34656950 A
1 A
34656951 CATTTCTGAG
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 147 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (148 bp):
AAGCTTGTGGAAGTTTAAAGTAGCTTATTCCAAACATAGCAGCAACTAGCTGTTATCGACTTAAA
AGGATATGCCAAAAAGCTGCAATTAGATACTAATATTTTACCCTTGAATGCATATAAATCTCCTT
TTTACAATTTATTGCATA
Found at i:34665384 original size:21 final size:21
Alignment explanation
Indices: 34665360--34665403 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
34665350 ATCCTCAAGC
34665360 TTTCTTCTTTT-TT-TTTTCCTT
1 TTTCTT-TTTTATTATTTT-CTT
34665381 TTTCTTTTTTATTATTTTCTT
1 TTTCTTTTTTATTATTTTCTT
34665402 TT
1 TT
34665404 GATTGAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.19
21 13 0.62
22 4 0.19
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTCTTTTTTATTATTTTCTT
Found at i:34671694 original size:14 final size:13
Alignment explanation
Indices: 34671663--34671711 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
34671653 ATCTTGAACC
34671663 CCAAACTCTAAAT
1 CCAAACTCTAAAT
*
34671676 CCAAACTCTAAGTT
1 CCAAACTCTAA-AT
* *
34671690 CCAAACTTTGAAT
1 CCAAACTCTAAAT
34671703 CCCAAACTC
1 -CCAAACTC
34671712 CGAACCCTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 12 0.41
14 17 0.59
ACGTcount: A:0.39, C:0.33, G:0.04, T:0.24
Consensus pattern (13 bp):
CCAAACTCTAAAT
Found at i:34674357 original size:26 final size:27
Alignment explanation
Indices: 34674297--34674357 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
34674287 TAAGAAATTT
34674297 TAAAATATTATTTTGTTTTACTTTCAA
1 TAAAATATTATTTTGTTTTACTTTCAA
*
34674324 -AAAATATTATTTTATTTTTA-TTT-AA
1 TAAAATATTATTTT-GTTTTACTTTCAA
*
34674349 TAAATTATT
1 TAAAATATT
34674358 CTGATCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 2 0.07
26 23 0.77
27 5 0.17
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (27 bp):
TAAAATATTATTTTGTTTTACTTTCAA
Found at i:34674636 original size:16 final size:16
Alignment explanation
Indices: 34674605--34674648 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
34674595 ATATAGTAAA
34674605 AAATAAAAATAAAAAT
1 AAATAAAAATAAAAAT
* * *
34674621 ATATAAATATATAAAT
1 AAATAAAAATAAAAAT
*
34674637 AAATAAACATAA
1 AAATAAAAATAA
34674649 TTACTTATTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
AAATAAAAATAAAAAT
Found at i:34687124 original size:77 final size:75
Alignment explanation
Indices: 34686979--34687130 Score: 166
Period size: 77 Copynumber: 2.0 Consensus size: 75
34686969 GATTATGAAT
* *
34686979 TATGTGAATATTTGAAAGTATATTGATTAGAAACTAAAAGTGATTTGAATTGAATAAATTGAATT
1 TATGTGAATATTTGAAAGTATATTGATTAGAAACTAAAAGTGATTTGAATTGAAT--ATGGAAAT
34687044 GAATGAAAAAAA
64 GAATGAAAAAAA
* * *
34687056 TATGTGAGTATTTGAAATGTATATTGATT-GAAAAGTAATTAGTGATTTGAATTTG-AT-TGGAA
1 TATGTGAATATTTGAAA-GTATATTGATTAG-AAACTAA-AAGTGATTTGAA-TTGAATATGG-A
*
34687118 AATGAATTAAAAA
61 AATGAATGAAAAA
34687131 TATGAATTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
76 2 0.03
77 29 0.45
78 17 0.27
79 13 0.20
80 3 0.05
ACGTcount: A:0.45, C:0.01, G:0.18, T:0.36
Consensus pattern (75 bp):
TATGTGAATATTTGAAAGTATATTGATTAGAAACTAAAAGTGATTTGAATTGAATATGGAAATGA
ATGAAAAAAA
Found at i:34687137 original size:13 final size:14
Alignment explanation
Indices: 34687116--34687155 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
34687106 ATTTGATTGG
34687116 AAAATGAATTAAA-
1 AAAATGAATTAAAT
*
34687129 AATATGAATTAAAT
1 AAAATGAATTAAAT
34687143 AAAAGTGAATTAA
1 AAAA-TGAATTAA
34687156 TTTATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AAAATGAATTAAAT
Found at i:34687545 original size:23 final size:23
Alignment explanation
Indices: 34687509--34687562 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
34687499 GCTTTGCCGA
*
34687509 TCAGGCACTCTATGTGTTGTATAT
1 TCAGGCACTCTATGTATTGTAT-T
*
34687533 T-AGGCACTTTATGTATTGTATT
1 TCAGGCACTCTATGTATTGTATT
34687555 TCAGGCAC
1 TCAGGCAC
34687563 CCCGTGTGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 24 0.89
24 1 0.04
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (23 bp):
TCAGGCACTCTATGTATTGTATT
Found at i:34695196 original size:15 final size:15
Alignment explanation
Indices: 34695176--34695254 Score: 97
Period size: 15 Copynumber: 5.3 Consensus size: 15
34695166 ATATTGTAAT
*
34695176 TTGGATTTCCTTATC
1 TTGGATTTCTTTATC
*
34695191 TTGGATTTCTTTATG
1 TTGGATTTCTTTATC
*
34695206 TTGGATTTCTTTATG
1 TTGGATTTCTTTATC
*
34695221 TTGGGTTTCTTTAT-
1 TTGGATTTCTTTATC
*
34695235 TCTGGGTTTCTTTATC
1 T-TGGATTTCTTTATC
34695251 TTGG
1 TTGG
34695255 TTTTGTTGTT
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
14 1 0.02
15 57 0.97
16 1 0.02
ACGTcount: A:0.10, C:0.11, G:0.20, T:0.58
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:34695212 original size:30 final size:29
Alignment explanation
Indices: 34695174--34695254 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 29
34695164 CGATATTGTA
*
34695174 ATTTGGATTTCCTTATCTTGGATTTCTTT
1 ATTTGGATTTCTTTATCTTGGATTTCTTT
* *
34695203 ATGTTGGATTTCTTTATGTTGGGTTTCTTT
1 AT-TTGGATTTCTTTATCTTGGATTTCTTT
*
34695233 ATTCTGGGTTTCTTTATCTTGG
1 ATT-TGGATTTCTTTATCTTGG
34695255 TTTTGTTGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 3 0.07
30 42 0.93
ACGTcount: A:0.11, C:0.11, G:0.20, T:0.58
Consensus pattern (29 bp):
ATTTGGATTTCTTTATCTTGGATTTCTTT
Found at i:34701763 original size:15 final size:15
Alignment explanation
Indices: 34701743--34701806 Score: 76
Period size: 15 Copynumber: 4.3 Consensus size: 15
34701733 GTATTGTAAT
*
34701743 TTGGATTTCCTTATG
1 TTGGATTTCTTTATG
34701758 TTGGATTTCTTTATG
1 TTGGATTTCTTTATG
*
34701773 TTGGGTTTCTTTAT-
1 TTGGATTTCTTTATG
* *
34701787 TCTGGGTTTCTTTATC
1 T-TGGATTTCTTTATG
34701803 TTGG
1 TTGG
34701807 TTTTGTTGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
14 1 0.02
15 43 0.96
16 1 0.02
ACGTcount: A:0.09, C:0.11, G:0.22, T:0.58
Consensus pattern (15 bp):
TTGGATTTCTTTATG
Found at i:34704240 original size:19 final size:19
Alignment explanation
Indices: 34704207--34704252 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
34704197 TTGTAAGCAT
* *
34704207 ATATATATGTGAATAATTTG
1 ATAT-TATGTAAATAATGTG
34704227 ATATTATGTAAATAATGTG
1 ATATTATGTAAATAATGTG
*
34704246 ACATTAT
1 ATATTAT
34704253 TATATGTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.41, C:0.02, G:0.13, T:0.43
Consensus pattern (19 bp):
ATATTATGTAAATAATGTG
Found at i:34708660 original size:10 final size:11
Alignment explanation
Indices: 34708641--34708677 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
34708631 GTATTTTGAT
34708641 AATATAAATTA
1 AATATAAATTA
34708652 AAT-TAAATT-
1 AATATAAATTA
34708661 AATATAAATT-
1 AATATAAATTA
34708671 AATATAA
1 AATATAA
34708678 CTTTGAGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 3 0.12
10 19 0.76
11 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AATATAAATTA
Found at i:34710383 original size:14 final size:14
Alignment explanation
Indices: 34710364--34710397 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
34710354 AACATAGGCG
34710364 TGTGGCCACGCTCA
1 TGTGGCCACGCTCA
*
34710378 TGTGGCCACGCTCG
1 TGTGGCCACGCTCA
34710392 TGTGGC
1 TGTGGC
34710398 TTGTGGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.09, C:0.32, G:0.35, T:0.24
Consensus pattern (14 bp):
TGTGGCCACGCTCA
Found at i:34711806 original size:21 final size:21
Alignment explanation
Indices: 34711782--34711834 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
34711772 TTCACTGTGG
34711782 CTCACCACAATCTTACCTTTA
1 CTCACCACAATCTTACCTTTA
*
34711803 CTCACCACAACCTTACCTTTA
1 CTCACCACAATCTTACCTTTA
*
34711824 CTTACCACAAT
1 CTCACCACAAT
34711835 TTCTTGCCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.40, G:0.00, T:0.30
Consensus pattern (21 bp):
CTCACCACAATCTTACCTTTA
Found at i:34717320 original size:19 final size:19
Alignment explanation
Indices: 34717264--34717326 Score: 96
Period size: 18 Copynumber: 3.5 Consensus size: 19
34717254 ATGGAAATAT
34717264 AATCTT-GA-ATGATATGC
1 AATCTTAGATATGATATGC
34717281 AATCTTAGATATGAT-TGC
1 AATCTTAGATATGATATGC
*
34717299 AATATTAGATATGATATGC
1 AATCTTAGATATGATATGC
34717318 AATCTTAGA
1 AATCTTAGA
34717327 AGATATGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.15
18 19 0.46
19 16 0.39
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
AATCTTAGATATGATATGC
Found at i:34717352 original size:22 final size:22
Alignment explanation
Indices: 34717272--34717349 Score: 71
Period size: 18 Copynumber: 3.8 Consensus size: 22
34717262 ATAATCTTGA
34717272 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
34717291 ATGAT-TGCAATATT---AGAT
1 ATGATATGCAATCTTAGAAGAT
34717309 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
34717331 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
34717350 GATTTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
18 17 0.34
19 13 0.26
22 8 0.16
23 12 0.24
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:34717645 original size:19 final size:19
Alignment explanation
Indices: 34717619--34717657 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
34717609 TGTTACCCTG
*
34717619 ATTTTTTTTTATATATTTTA
1 ATTTTTTTTAATA-ATTTTA
34717639 ATTTTTTTTAATAATTTTA
1 ATTTTTTTTAATAATTTTA
34717658 GTATCATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTTTTTTTAATAATTTTA
Found at i:34728401 original size:44 final size:44
Alignment explanation
Indices: 34728343--34728614 Score: 247
Period size: 44 Copynumber: 6.3 Consensus size: 44
34728333 GATCCAAGAT
34728343 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
** *
34728387 GATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT-G-A
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
* * * * * *
34728429 TATTTGGCATCTCCGTATTCGACGGGGAGCAGATCCAAGAT----
1 GATTTGGCATCTCTGTATT-GTCAGAGAGCAGATCAAAGATAGCA
* * * *
34728470 GATTTGGCATCT-TCGTATT-TGACGAGGGGCAAATCCAAGA-AGCA
1 GATTTGGCATCTCT-GTATTGTCA-GA-GAGCAGATCAAAGATAGCA
* * * *
34728514 GATTTGACATCCCTGTATTGTCAGGGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
* * * * *
34728558 GATTTGACATCTCTGTATGGTCAGAGAGCAAATCAGAGATAGTA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
34728602 GATTTGGCATCTC
1 GATTTGGCATCTC
34728615 CATATTCGAC
Statistics
Matches: 183, Mismatches: 34, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
40 1 0.01
41 28 0.15
42 16 0.09
43 29 0.16
44 106 0.58
45 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
Found at i:34728951 original size:78 final size:78
Alignment explanation
Indices: 34728822--34729116 Score: 448
Period size: 78 Copynumber: 3.8 Consensus size: 78
34728812 CGAAGAAACA
** * *
34728822 GATTTGGCATCTCCATATTCGACGAAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
34728887 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
34728900 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
* *
34728965 GTAGATCCAATAT
66 GCAGATCCAAGAT
* * * *
34728978 TATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
34729042 AGCAGATCTAAGAT
65 AGCAGATCCAAGAT
* *
34729056 GATTTGGCATCTATGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
34729117 GTGTTTACAT
Statistics
Matches: 196, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
77 1 0.01
78 194 0.99
79 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:34729211 original size:45 final size:45
Alignment explanation
Indices: 34729056--34729303 Score: 200
Period size: 45 Copynumber: 5.5 Consensus size: 45
34729046 GATCTAAGAT
* * *
34729056 GATTTGGCATCTATGTATTAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAG--ATAACA
* * * * * * * * *
34729103 GATCTGACCT-TCATGTGTTTACATC-GAG-GCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAAATCGAAGATAACA
* * * * *
34729148 GATTTGGCATCTCTGTATTATACAGGGAACAAATCGGAGATAATA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACA
*
34729193 GATTTGGCATCTCTGTATTAGACGGGGAGCAAA-CTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATC-GAAGATAACA
* * *
34729237 AATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACA
**
34729282 GATTTGGCGCCTCTGTATTAGA
1 GATTTGGCATCTCTGTATTAGA
34729304 TAAGAAGCAG
Statistics
Matches: 158, Mismatches: 34, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
43 1 0.01
44 44 0.28
45 83 0.53
46 3 0.02
47 20 0.13
48 6 0.04
49 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACA
Found at i:34729726 original size:18 final size:18
Alignment explanation
Indices: 34729678--34729730 Score: 81
Period size: 17 Copynumber: 2.9 Consensus size: 18
34729668 ATAATCTTCA
34729678 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
34729697 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
34729714 ATGATTGCAATCTTAGA
1 ATGATTGCAATCTTAGA
34729731 ATATATGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 16 0.52
18 11 0.35
19 4 0.13
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:34729895 original size:43 final size:43
Alignment explanation
Indices: 34729834--34729919 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
34729824 GTTCAACTAT
*
34729834 AAATAGAGGCCTCTCCCTTCATTGTAAACACACTGGAGTTTGG
1 AAATAGAGGCCCCTCCCTTCATTGTAAACACACTGGAGTTTGG
34729877 AAATAGAGGCCCCTCCCTTCATTGTAAACACACTGGAGTTTGG
1 AAATAGAGGCCCCTCCCTTCATTGTAAACACACTGGAGTTTGG
34729920 GGAAACAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (43 bp):
AAATAGAGGCCCCTCCCTTCATTGTAAACACACTGGAGTTTGG
Found at i:34730283 original size:57 final size:57
Alignment explanation
Indices: 34730220--34730332 Score: 199
Period size: 57 Copynumber: 2.0 Consensus size: 57
34730210 TAATTTTCAT
*
34730220 ATTTTATCCAAAAGTTTTTCTAAAATGAGGAAATATTTTTCGTATTTAGGAATTCGG
1 ATTTTATCCAAAAGTTTTTCCAAAATGAGGAAATATTTTTCGTATTTAGGAATTCGG
* *
34730277 ATTTTATCCAAAAGTTTTTCCAAAATGAGGCAATCTTTTTCGTATTTAGGAATTCG
1 ATTTTATCCAAAAGTTTTTCCAAAATGAGGAAATATTTTTCGTATTTAGGAATTCG
34730333 AGAAATAGTG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.42
Consensus pattern (57 bp):
ATTTTATCCAAAAGTTTTTCCAAAATGAGGAAATATTTTTCGTATTTAGGAATTCGG
Found at i:34731159 original size:40 final size:40
Alignment explanation
Indices: 34731103--34731181 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
34731093 ATTTTTGCAT
*
34731103 GTAATTCCTTACACAATTTACATTCGTAACCCGGAGGACG
1 GTAATTCCTTACACAATTTACATTCGTAAACCGGAGGACG
*
34731143 GTAATTCCTTATACAATTTACATTCGTAAACCGGAGGAC
1 GTAATTCCTTACACAATTTACATTCGTAAACCGGAGGAC
34731182 TTATGAGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (40 bp):
GTAATTCCTTACACAATTTACATTCGTAAACCGGAGGACG
Found at i:34734969 original size:16 final size:16
Alignment explanation
Indices: 34734944--34734990 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
34734934 ATAAAATAAA
34734944 AAAT-TTAAATTTATT
1 AAATATTAAATTTATT
34734959 AAATATTAAATTTA--
1 AAATATTAAATTTATT
34734973 AAATAATATAAATTTATT
1 AAAT-AT-TAAATTTATT
34734991 CTTAATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 4 0.15
15 6 0.22
16 17 0.63
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATATTAAATTTATT
Found at i:34734984 original size:23 final size:23
Alignment explanation
Indices: 34734931--34734985 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
34734921 GTTTAAACTT
34734931 ATAATA-AAATAAAAAATTTAAA
1 ATAATATAAATAAAAAATTTAAA
* * **
34734953 TTTAT-TAAATATTAAATTTAAA
1 ATAATATAAATAAAAAATTTAAA
34734975 ATAATATAAAT
1 ATAATATAAAT
34734986 TTATTCTTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAATATAAATAAAAAATTTAAA
Found at i:34747762 original size:13 final size:11
Alignment explanation
Indices: 34747732--34747760 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
34747722 TTCTGAGTAA
34747732 TTCTCTCCCCT
1 TTCTCTCCCCT
34747743 TTCTCTCCCCT
1 TTCTCTCCCCT
34747754 TTCTCTC
1 TTCTCTC
34747761 TCAATCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (11 bp):
TTCTCTCCCCT
Found at i:34755721 original size:28 final size:28
Alignment explanation
Indices: 34755690--34755753 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
34755680 TAACAACACC
34755690 AGAAATCCAAAAAACAATTAAAAA-CAAA
1 AGAAATCCAAAAAACAA-TAAAAACCAAA
* *
34755718 AGAAAAT-TAGAAAACAATAAAAACCAAA
1 AG-AAATCCAAAAAACAATAAAAACCAAA
*
34755746 ATAAATCC
1 AGAAATCC
34755754 TTAAAGCTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
27 10 0.34
28 15 0.52
29 4 0.14
ACGTcount: A:0.69, C:0.14, G:0.05, T:0.12
Consensus pattern (28 bp):
AGAAATCCAAAAAACAATAAAAACCAAA
Found at i:34759837 original size:203 final size:202
Alignment explanation
Indices: 34759486--34759896 Score: 779
Period size: 203 Copynumber: 2.0 Consensus size: 202
34759476 AATTATCATT
34759486 TGTATTTGTTATAACATTATTTTTAAAAAATAATCTATCTCCTGACGACATATATTCTATAGTAC
1 TGTATTTGTTATAACATTATTTTTAAAAAATAATCTATCTCCTGACGACATATATTCTATAGTAC
*
34759551 TTACAGGTTTTGAAGTACTAGCACCACTTATTCTAACTATCATCCAGTTTCTTGGTATTAATAGA
66 TTACAGGTTTTGAAGTACTAGCACCACTTATTCTAACTATCATCCAGTTTCTTGGTATCAATAGA
34759616 TCCCTTAAATGCAATAATTTTGGTTGAATTTCTGTAGTAAATTTATTAGGTTTAAAAAGCTCAAT
131 TCCCTTAAATGCAATAATTTTGGTTGAATTTCTGTAGTAAATTTATTAGGTTTAAAAAGCTCAAT
34759681 AATGTTTA
196 AATG-TTA
*
34759689 TGTATTTGTTATAGCATTATTTTTAAAAAATAATCTATCTCCTGACGACATATATTCTATAGTAC
1 TGTATTTGTTATAACATTATTTTTAAAAAATAATCTATCTCCTGACGACATATATTCTATAGTAC
34759754 TTACAGGTTTTGAAGTACTAGCACCACTTATTCTAACTATCATCCAGTTTCTTGGTATCAATAGA
66 TTACAGGTTTTGAAGTACTAGCACCACTTATTCTAACTATCATCCAGTTTCTTGGTATCAATAGA
*
34759819 TCCCTTAAATGTAATAATTTTGGTTGAATTTCTGTAGTAAATTTATTAGGTTTAAAAAGCTCAAT
131 TCCCTTAAATGCAATAATTTTGGTTGAATTTCTGTAGTAAATTTATTAGGTTTAAAAAGCTCAAT
34759884 AATGTTA
196 AATGTTA
34759891 T-TATTT
1 TGTATTT
34759897 ATTTCTTTAA
Statistics
Matches: 205, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
201 5 0.02
202 4 0.02
203 196 0.96
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.42
Consensus pattern (202 bp):
TGTATTTGTTATAACATTATTTTTAAAAAATAATCTATCTCCTGACGACATATATTCTATAGTAC
TTACAGGTTTTGAAGTACTAGCACCACTTATTCTAACTATCATCCAGTTTCTTGGTATCAATAGA
TCCCTTAAATGCAATAATTTTGGTTGAATTTCTGTAGTAAATTTATTAGGTTTAAAAAGCTCAAT
AATGTTA
Found at i:34760277 original size:287 final size:287
Alignment explanation
Indices: 34759761--34760333 Score: 1119
Period size: 287 Copynumber: 2.0 Consensus size: 287
34759751 TACTTACAGG
34759761 TTTTGAAGTACTAGCACCACTTATTCTAACTATCATCCAGTTTCTTGGTATCAATAGATCCCTTA
1 TTTTGAAGTACTAGCACCACTTATTCTAACTATCATCCAGTTTCTTGGTATCAATAGATCCCTTA
34759826 AATGTAATAATTTTGGTTGAATTTCTGTAGTAAATTTATTAGGTTTAAAAAGCTCAATAATGTTA
66 AATGTAATAATTTTGGTTGAATTTCTGTAGTAAATTTATTAGGTTTAAAAAGCTCAATAATGTTA
34759891 TTATTTATTTCTTTAATTTCGACTTCTGCAGTATTAATATATTCATTAATAGAAGTCTAACTTAT
131 TTATTTATTTCTTTAATTTCGACTTCTGCAGTATTAATATATTCATTAATAGAAGTCTAACTTAT
34759956 TGCTAGATCTTCTGCTAAATCATTTATTTCAGAATTTTTTGTCTGAATTCTTAAACATAAACATT
196 TGCTAGATCTTCTGCTAAATCATTTATTTCAGAATTTTTTGTCTGAATTCTTAAACATAAACATT
34760021 CTTCTATTAGAGGATTTGTAATAGATA
261 CTTCTATTAGAGGATTTGTAATAGATA
* *
34760048 TTTTGAAGTACTAGCACTACTTATTCTAACTATCATCCAGTTTCTTGGTATTAATAGATCCCTTA
1 TTTTGAAGTACTAGCACCACTTATTCTAACTATCATCCAGTTTCTTGGTATCAATAGATCCCTTA
*
34760113 AATGTAATAATTTTGGTTGAATTTCTGTAGTAAATTTATTAGGTTTAAAAAGCTCAATAATTTTA
66 AATGTAATAATTTTGGTTGAATTTCTGTAGTAAATTTATTAGGTTTAAAAAGCTCAATAATGTTA
34760178 TTATTTATTTCTTTAATTTCGACTTCTGCAGTATTAATATATTCATTAATAGAAGTCTAACTTAT
131 TTATTTATTTCTTTAATTTCGACTTCTGCAGTATTAATATATTCATTAATAGAAGTCTAACTTAT
34760243 TGCTAGATCTTCTGCTAAATCATTTATTTCAGAATTTTTTGTCTGAATTCTTAAACATAAACATT
196 TGCTAGATCTTCTGCTAAATCATTTATTTCAGAATTTTTTGTCTGAATTCTTAAACATAAACATT
34760308 CTTCTATTAGAGGATTTGTAATAGAT
261 CTTCTATTAGAGGATTTGTAATAGAT
34760334 GTAAAGTAAT
Statistics
Matches: 283, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
287 283 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (287 bp):
TTTTGAAGTACTAGCACCACTTATTCTAACTATCATCCAGTTTCTTGGTATCAATAGATCCCTTA
AATGTAATAATTTTGGTTGAATTTCTGTAGTAAATTTATTAGGTTTAAAAAGCTCAATAATGTTA
TTATTTATTTCTTTAATTTCGACTTCTGCAGTATTAATATATTCATTAATAGAAGTCTAACTTAT
TGCTAGATCTTCTGCTAAATCATTTATTTCAGAATTTTTTGTCTGAATTCTTAAACATAAACATT
CTTCTATTAGAGGATTTGTAATAGATA
Found at i:34763787 original size:20 final size:21
Alignment explanation
Indices: 34763750--34763801 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
34763740 AATTTTGTCT
*
34763750 TTTAATATAA-TTAGATTAATC
1 TTTAAT-TAATTTAGATTAACC
34763771 TTTAATTAATTTA-ATTAACC
1 TTTAATTAATTTAGATTAACC
*
34763791 TTTACTTAATT
1 TTTAATTAATT
34763802 AACATTAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTAATTAATTTAGATTAACC
Found at i:34769826 original size:77 final size:77
Alignment explanation
Indices: 34769699--34769856 Score: 307
Period size: 77 Copynumber: 2.1 Consensus size: 77
34769689 CTATCCACGG
*
34769699 TCTTATTTATCTTTGACATGATGCCATAGTGTCTTTCAACTATGGTTTTACTCATTTTCTGTCAT
1 TCTTATTTATCTTTGACATGATGCCATAGTGTCTTTCAACTATAGTTTTACTCATTTTCTGTCAT
34769764 GTTGCCATGGTA
66 GTTGCCATGGTA
34769776 TCTTATTTATCTTTGACATGATGCCATAGTGTCTTTCAACTATAGTTTTACTCATTTTCTGTCAT
1 TCTTATTTATCTTTGACATGATGCCATAGTGTCTTTCAACTATAGTTTTACTCATTTTCTGTCAT
34769841 GTTGCCATGGTA
66 GTTGCCATGGTA
34769853 TCTT
1 TCTT
34769857 TCAGCCATTG
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 80 1.00
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (77 bp):
TCTTATTTATCTTTGACATGATGCCATAGTGTCTTTCAACTATAGTTTTACTCATTTTCTGTCAT
GTTGCCATGGTA
Found at i:34769885 original size:46 final size:46
Alignment explanation
Indices: 34769792--34770202 Score: 531
Period size: 46 Copynumber: 9.0 Consensus size: 46
34769782 TTATCTTTGA
* * * * * * *
34769792 CATGATGCCATAGTGTCTTTCAACTATAGTTTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGT
* * ** *
34769838 CATGTTGCCATGGTATCTTTCAGCCATTGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* **
34769884 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTCTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT-TCATGT
* *
34769930 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
*
34769976 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
34770022 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* * * * ** **
34770068 CACGCTACCATGGTATC-TTCAACCATGGTTTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* *
34770113 CATGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
34770159 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
34770203 TTCAGAAAGC
Statistics
Matches: 325, Mismatches: 36, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
45 42 0.13
46 281 0.86
47 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
Found at i:34771752 original size:11 final size:11
Alignment explanation
Indices: 34771736--34771761 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
34771726 GAAATCATGA
34771736 TGTTCTTACCT
1 TGTTCTTACCT
34771747 TGTTCTTACCT
1 TGTTCTTACCT
34771758 TGTT
1 TGTT
34771762 TTATTGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.23, G:0.12, T:0.58
Consensus pattern (11 bp):
TGTTCTTACCT
Found at i:34774663 original size:53 final size:52
Alignment explanation
Indices: 34774512--34774712 Score: 202
Period size: 52 Copynumber: 4.0 Consensus size: 52
34774502 TGACAGAAAA
*
34774512 GATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
1 GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
* * * **
34774564 AATGTGAT-T-CGAGTTCCCATATAAGACCATAGCTGGGCTATGGCATCGGTGT
1 GATGTGATATGTGA-TT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
** *
34774616 GATGTGATAATGTGATTCCGTATAAGACCATATTTGGGATATGGCATCGG--C
1 GATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
* * * *
34774667 -ATGT--TATGTGA-TCCGTGTAAGACCATGGCAGGGCTATGGCTTCGGT
1 GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
34774713 GTGTAATGTG
Statistics
Matches: 123, Mismatches: 20, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
46 27 0.22
47 6 0.05
48 1 0.01
50 5 0.04
51 3 0.02
52 47 0.38
53 29 0.24
54 3 0.02
55 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (52 bp):
GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
Found at i:34774715 original size:99 final size:103
Alignment explanation
Indices: 34774512--34774733 Score: 249
Period size: 105 Copynumber: 2.1 Consensus size: 103
34774502 TGACAGAAAA
* *
34774512 GATGTGAT-ATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATTCGA
1 GATGTGATAATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGG-ACAATGTGATTCGA
*
34774576 GTTCCCATATAAGACCATAGCTGGGCTATGGCATCGGTGT
65 G-TCCCATATAAGACCATAGCAGGGCTATGGCATCGGTGT
** *
34774616 GATGTGATAATGTGATTCCGTATAAGACCATATTTGGGATATGGCATCGG-C-ATGTTATGT-GA
1 GATGTGATAATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGGACAATGTGAT-TCGA
* * * *
34774678 -T-CCGTGTAAGACCATGGCAGGGCTATGGCTTCGGTGT
65 GTCCCATATAAGACCATAGCAGGGCTATGGCATCGGTGT
34774715 GTAATGTGTGATAATGTGA
1 G--A--TGTGATAATGTGA
34774734 AAGTCCATAG
Statistics
Matches: 102, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
99 32 0.31
100 1 0.01
101 1 0.01
102 8 0.08
103 15 0.15
104 8 0.08
105 37 0.36
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (103 bp):
GATGTGATAATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGGACAATGTGATTCGAG
TCCCATATAAGACCATAGCAGGGCTATGGCATCGGTGT
Found at i:34774722 original size:46 final size:47
Alignment explanation
Indices: 34774520--34774722 Score: 122
Period size: 46 Copynumber: 4.1 Consensus size: 47
34774510 AAGATGTGAT
* * * * *
34774520 ATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTG
1 ATGTGATTCCGTATAAGACCATAGCAGGGATATGGCATCGGT---GTGTA
* * *
34774570 AT-TCGAGTTCCCATATAAGACCATAGCTGGGCTATGGCATCGGTGTGATGTGATA
1 ATGT-GA-TT-CCGTATAAGACCATAGCAGGGATATGGCATC---G-G-TGTG-TA
*** ** *
34774625 ATGTGATTCCGTATAAGACCATATTTGGGATATGGCATCGGCATGTT
1 ATGTGATTCCGTATAAGACCATAGCAGGGATATGGCATCGGTGTGTA
* * * *
34774672 ATGTGA-TCCGTGTAAGACCATGGCAGGGCTATGGCTTCGGTGTGTA
1 ATGTGATTCCGTATAAGACCATAGCAGGGATATGGCATCGGTGTGTA
34774718 ATGTG
1 ATGTG
34774723 TGATAATGTG
Statistics
Matches: 122, Mismatches: 21, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
46 35 0.29
47 7 0.06
48 2 0.02
49 2 0.02
50 4 0.03
51 2 0.02
52 30 0.25
53 27 0.22
54 4 0.03
55 6 0.05
56 2 0.02
57 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATTCCGTATAAGACCATAGCAGGGATATGGCATCGGTGTGTA
Found at i:34775326 original size:28 final size:28
Alignment explanation
Indices: 34775295--34775354 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
34775285 TGGATAAAAG
34775295 AATGCTATTTTATCAAGATTTATAAGTC
1 AATGCTATTTTATCAAGATTTATAAGTC
34775323 AATGCTATTTTATCAAGATTTATAAGTC
1 AATGCTATTTTATCAAGATTTATAAGTC
34775351 AATG
1 AATG
34775355 TTTTGGGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.42
Consensus pattern (28 bp):
AATGCTATTTTATCAAGATTTATAAGTC
Found at i:34780724 original size:53 final size:52
Alignment explanation
Indices: 34780577--34780771 Score: 161
Period size: 52 Copynumber: 3.8 Consensus size: 52
34780567 TGACGGAAAA
* * * *
34780577 GATGTGATATGTGCTTCCATATAAGACCATAGATGGGCTATGGCATCGGTAC
1 GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAC
* * * * * * **
34780629 AATGTGAT-TCGAGTTTCTGTATAAGACCGTAGCTGGGTTATGGCATCGGTGT
1 GATGTGATAT-GTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAC
* *
34780681 GATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATTGG--C
1 GATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAC
* * * *
34780732 -ATGT--TATGTGA-TCCGTGTAAGACCATGGCAGGGCTATGGC
1 GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGATATGGC
34780772 TTCGTTGTAT
Statistics
Matches: 116, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
46 24 0.21
47 6 0.05
48 1 0.01
50 4 0.03
51 1 0.01
52 47 0.41
53 32 0.28
54 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (52 bp):
GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAC
Found at i:34787362 original size:22 final size:21
Alignment explanation
Indices: 34787327--34787402 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
34787317 AAAATGTATC
* *
34787327 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
34787348 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
34787371 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
34787390 TGC-AATCATATCT
1 TACAAATCATATCT
34787403 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:34787378 original size:17 final size:19
Alignment explanation
Indices: 34787363--34787431 Score: 117
Period size: 17 Copynumber: 3.8 Consensus size: 19
34787353 AATCATATCT
34787363 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
34787382 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
34787400 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
34787417 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
34787432 TATTGAAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.34
18 16 0.34
19 15 0.32
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:34790561 original size:19 final size:19
Alignment explanation
Indices: 34790515--34790561 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
34790505 TGAAAGATTA
* *
34790515 AAATAATTAA-ATAAGAAT
1 AAATAAATAATATAAAAAT
*
34790533 AAATATATAATATAAAAAT
1 AAATAAATAATATAAAAAT
*
34790552 AATTAAATAA
1 AAATAAATAA
34790562 GACTACAAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
AAATAAATAATATAAAAAT
Found at i:34797693 original size:314 final size:314
Alignment explanation
Indices: 34797124--34797752 Score: 1096
Period size: 314 Copynumber: 2.0 Consensus size: 314
34797114 CTAAGAAAAA
*
34797124 GGTCAAATCTGATGAGCCCAGTTAAAGTTGGGCCTCCTGTTGTACTTACTAGGAACTTGCCTTGT
1 GGTCAAATCTGATGAACCCAGTTAAAGTTGGGCCTCCTGTTGTACTTACTAGGAACTTGCCTTGT
* *
34797189 GGGCATTGTGGTAGACGTCATCCAGGCGAATGTTAGAGGATGACTGGGATATGCTTAAGATGTGG
66 GAGCATTGTGGTAGACGTCATCCAGGCGAATGTTAGAGGATGACTGGGATATACTTAAGATGTGG
* * * *
34797254 GTCTACTGAGCACAGCATTCATGAGTATCCGTTGAGGGCCGATCAAATACAAGCTCCGAGTTTTA
131 GTCTACTGAGAACAGCATTCATGAGTATCCGCTAAGGGCCGATCAAATACAAGCTCCGAGTTCTA
*
34797319 GTACTGCACAGCCACCGAGGGTAGTTTTGCAGCCATCTAGGAGCCGTGGACATGCTAGGGGTGGT
196 GTACTGCACAGCCACCGAGGGTAGTTTTGCAGCCATCTAGGAGCAGTGGACATGCTAGGGGTGGT
*
34797384 AACAATATGGGCTGTAGGCAGAGAGCACCGGGTAGAGGTGCTGGACAGACTAAG
261 AACAATATGGGCTGTAGGCAGAGAGCACCGGGTAGAGGAGCTGGACAGACTAAG
* *
34797438 GGTCAAATCTGATGAACCCAGTTAAAGTTGGGCCTCCTGTTGTACTTACTGGGAACTTGCGTTGT
1 GGTCAAATCTGATGAACCCAGTTAAAGTTGGGCCTCCTGTTGTACTTACTAGGAACTTGCCTTGT
* * *
34797503 GAGCATTGTGGTAGATGTCATCCAGGTGAATGTTAGAGGATGACTGTGATATACTTAAGATGTGG
66 GAGCATTGTGGTAGACGTCATCCAGGCGAATGTTAGAGGATGACTGGGATATACTTAAGATGTGG
*
34797568 GTCTACTGAGAACAGCATTCATGAGTATTCGCTAAGGGCCGATCAAATACAAGCTCCGAGTTCTA
131 GTCTACTGAGAACAGCATTCATGAGTATCCGCTAAGGGCCGATCAAATACAAGCTCCGAGTTCTA
* *
34797633 GTACTGCATAGCCACCGAGGGTAGTTTTGCAGCCATCTAGGAGCAGTGGTCATGCTAGGGGTGGT
196 GTACTGCACAGCCACCGAGGGTAGTTTTGCAGCCATCTAGGAGCAGTGGACATGCTAGGGGTGGT
*
34797698 AACAGTATGGGCTGTAGGCAGAGAGCACCGGGTAGAGGAGCTGGACAGACTAAG
261 AACAATATGGGCTGTAGGCAGAGAGCACCGGGTAGAGGAGCTGGACAGACTAAG
34797752 G
1 G
34797753 CGAGGCAGCC
Statistics
Matches: 297, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
314 297 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (314 bp):
GGTCAAATCTGATGAACCCAGTTAAAGTTGGGCCTCCTGTTGTACTTACTAGGAACTTGCCTTGT
GAGCATTGTGGTAGACGTCATCCAGGCGAATGTTAGAGGATGACTGGGATATACTTAAGATGTGG
GTCTACTGAGAACAGCATTCATGAGTATCCGCTAAGGGCCGATCAAATACAAGCTCCGAGTTCTA
GTACTGCACAGCCACCGAGGGTAGTTTTGCAGCCATCTAGGAGCAGTGGACATGCTAGGGGTGGT
AACAATATGGGCTGTAGGCAGAGAGCACCGGGTAGAGGAGCTGGACAGACTAAG
Found at i:34803977 original size:34 final size:34
Alignment explanation
Indices: 34803938--34804005 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
34803928 GTGTCAAAGG
*
34803938 TAACCCACTCACAAAGTCTATTGTTACTCTTTCC
1 TAACCCACTCACAAAGTCCATTGTTACTCTTTCC
34803972 TAACCCACTCACAAAGTCCATTGTTACTCTTTCC
1 TAACCCACTCACAAAGTCCATTGTTACTCTTTCC
34804006 CACTTCCATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.26, C:0.34, G:0.06, T:0.34
Consensus pattern (34 bp):
TAACCCACTCACAAAGTCCATTGTTACTCTTTCC
Found at i:34811268 original size:44 final size:45
Alignment explanation
Indices: 34811209--34811323 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 45
34811199 AATTTGATAT
* * * *
34811209 TCGGGCCTCGGCCTAGCAAGCTTTAA-GCTGGTGA-ATAATATTA
1 TCGGGCTTCGGCCTAGCAAGCTATAATGCCGATGAGATAATATTA
*
34811252 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGATGAGATAATATTA
1 TCGGGCTTCG-GCCTAGCAAGCTATAATGCCGATGAGATAATATTA
* *
34811298 ---GGCTTCGGGCCTAGCAGGCTACAATG
1 TCGGGCTTC-GGCCTAGCAAGCTATAATG
34811324 GCGGTGAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
43 32 0.52
44 15 0.24
45 6 0.10
46 9 0.15
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (45 bp):
TCGGGCTTCGGCCTAGCAAGCTATAATGCCGATGAGATAATATTA
Found at i:34811310 original size:43 final size:42
Alignment explanation
Indices: 34811245--34811373 Score: 132
Period size: 43 Copynumber: 3.0 Consensus size: 42
34811235 GCTGGTGAAT
* *
34811245 AATATTATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGATGA
1 AATAATATCAGGCTTCGAGCCTAGCAGGCTA-AATGCCGATGA
* * * * *
34811288 GATAATATTAGGCTTCGGGCCTAGCAGGCTACAATGGCGGTGA
1 AATAATATCAGGCTTCGAGCCTAGCAGGCTA-AATGCCGATGA
* * * * *
34811331 AATGATATCGGGCTTCAAGCCTAGCAGGCGAAATGCCGGTGA
1 AATAATATCAGGCTTCGAGCCTAGCAGGCTAAATGCCGATGA
34811373 A
1 A
34811374 TGAGTTCAGA
Statistics
Matches: 70, Mismatches: 16, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
42 11 0.16
43 59 0.84
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (42 bp):
AATAATATCAGGCTTCGAGCCTAGCAGGCTAAATGCCGATGA
Found at i:34811454 original size:40 final size:40
Alignment explanation
Indices: 34811307--34811453 Score: 118
Period size: 40 Copynumber: 3.6 Consensus size: 40
34811297 AGGCTTCGGG
* * *
34811307 CCTAGCAGGCTACAATGGCGGTGAAATG-ATATCGGGCTTCAAG
1 CCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGG-TTTAAA
* * * *
34811350 CCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGATTTAAA
1 CCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGTTTAAA
* *** *
34811390 GTCTAGCAGGCTTCGTGCCAGTG-ATGAATTCGGGTTTAGAA
1 -CCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGTTTA-AA
34811431 CCTAGCAGGCTAAATGCCGGTGA
1 CCTAGCAGGCTAAATGCCGGTGA
34811454 TTTGATAAAA
Statistics
Matches: 79, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
40 33 0.42
41 25 0.32
42 10 0.13
43 11 0.14
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGTTTAAA
Found at i:34813484 original size:50 final size:50
Alignment explanation
Indices: 34813369--34813611 Score: 378
Period size: 50 Copynumber: 4.8 Consensus size: 50
34813359 GATAATAACA
* ** * *
34813369 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
34813420 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
34813470 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
34813520 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
34813570 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
34813612 TTACCCAAAT
Statistics
Matches: 175, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
50 142 0.81
51 33 0.19
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:34813727 original size:13 final size:13
Alignment explanation
Indices: 34813706--34813736 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
34813696 GCTTAGATCA
*
34813706 TCATCAAATAAAT
1 TCATAAAATAAAT
34813719 TCATAAAATAAAT
1 TCATAAAATAAAT
34813732 TCATA
1 TCATA
34813737 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:34813983 original size:30 final size:30
Alignment explanation
Indices: 34813948--34814005 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
34813938 CCTCGACTCT
*
34813948 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
34813978 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
34814006 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:34818040 original size:29 final size:30
Alignment explanation
Indices: 34818006--34818066 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
34817996 CAAGTAGTCG
*
34818006 AAGCTAG-TTAAATTGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
34818035 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
34818065 AA
1 AA
34818067 ACTTCCTACT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:34819227 original size:14 final size:13
Alignment explanation
Indices: 34819208--34819281 Score: 82
Period size: 12 Copynumber: 5.8 Consensus size: 13
34819198 TTATATTAAC
*
34819208 TTAATATTTAAGTA
1 TTAATATATAA-TA
34819222 TTAATATATAATA
1 TTAATATATAATA
*
34819235 -TAATATATTATA
1 TTAATATATAATA
* *
34819247 TTATTATATTATA
1 TTAATATATAATA
34819260 TT-ATATATAATA
1 TTAATATATAATA
34819272 -TAATATATAA
1 TTAATATATAA
34819282 AATATAAGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
11 1 0.02
12 27 0.51
13 15 0.28
14 10 0.19
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (13 bp):
TTAATATATAATA
Found at i:34819237 original size:5 final size:5
Alignment explanation
Indices: 34819227--34819288 Score: 54
Period size: 5 Copynumber: 12.2 Consensus size: 5
34819217 AAGTATTAAT
* * * *
34819227 ATATA ATATA ATATA TTATA TTATT ATATT ATATTA TATATA ATATA ATAT-
1 ATATA ATATA ATATA ATATA ATATA ATATA ATA-TA -ATATA ATATA ATATA
*
34819278 ATAAA ATATA A
1 ATATA ATATA A
34819289 GAAAAGTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
4 3 0.06
5 39 0.81
6 3 0.06
7 3 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (5 bp):
ATATA
Found at i:34819280 original size:44 final size:42
Alignment explanation
Indices: 34819173--34819286 Score: 110
Period size: 44 Copynumber: 2.6 Consensus size: 42
34819163 TAAGATATTT
* *
34819173 TTTATATA-AAAATATATATTATATATTATATTAACTTAATA
1 TTTATATATAATATATATATAATATATTATATTAACTTAATA
34819214 TTTA-AGTATTAATATATAATATAATATATTATATT-A-TTATATTA
1 TTTATA-TA-TAATATAT-ATATAATATATTATATTAACTTA-A-TA
*
34819258 TATTATATATAATATAATATATAAAATAT
1 T-TTATATATAATAT-ATATATAATATAT
34819287 AAGAAAAGTA
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
40 1 0.02
41 6 0.10
42 3 0.05
43 8 0.13
44 35 0.57
45 7 0.11
46 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (42 bp):
TTTATATATAATATATATATAATATATTATATTAACTTAATA
Found at i:34819281 original size:7 final size:7
Alignment explanation
Indices: 34819183--34819288 Score: 53
Period size: 7 Copynumber: 15.3 Consensus size: 7
34819173 TTTATATAAA
34819183 AATATAT
1 AATATAT
*
34819190 ATTATAT
1 AATATAT
*
34819197 ATTATATT
1 AATATA-T
*
34819205 AA-CT-T
1 AATATAT
*
34819210 AATATTT
1 AATATAT
34819217 AAGTAT-T
1 AA-TATAT
34819224 AATATAT
1 AATATAT
34819231 -A-ATAT
1 AATATAT
34819236 AATATAT
1 AATATAT
*
34819243 TATAT-T
1 AATATAT
*
34819249 ATTATAT
1 AATATAT
*
34819256 TATATTAT
1 AATA-TAT
34819264 ATATAATAT
1 A-AT-ATAT
34819273 AATATAT
1 AATATAT
*
34819280 AAAATAT
1 AATATAT
34819287 AA
1 AA
34819289 GAAAAGTAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
5 7 0.09
6 10 0.13
7 43 0.56
8 10 0.13
9 6 0.08
10 1 0.01
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (7 bp):
AATATAT
Found at i:34820841 original size:26 final size:26
Alignment explanation
Indices: 34820794--34820846 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
34820784 TGAAGTGCAG
* * *
34820794 AGTAGGGCGCCAAGCTTTGATAGGGA
1 AGTAGGGCGCAAAACTTAGATAGGGA
34820820 AGTAGGGCGCAAAACTTAGATAGGGA
1 AGTAGGGCGCAAAACTTAGATAGGGA
34820846 A
1 A
34820847 AGAGATCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.36, T:0.17
Consensus pattern (26 bp):
AGTAGGGCGCAAAACTTAGATAGGGA
Found at i:34826503 original size:22 final size:22
Alignment explanation
Indices: 34826474--34826530 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
34826464 TAGCACGTTA
34826474 AGTGCTCTCTGTTTAGCACATCT
1 AGTGCTCTCTGTTTAGCAC-TCT
* *
34826497 -GTGCTCTCTGTATAGCACTTT
1 AGTGCTCTCTGTTTAGCACTCT
34826518 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
34826531 CGTTTGTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCACTCT
Done.