Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 180 of 444
Found at i:50268183 original size:78 final size:77
Alignment explanation
Indices: 50267974--50268193 Score: 234
Period size: 78 Copynumber: 2.8 Consensus size: 77
50267964 GTGCTAAGTG
* * * *
50267974 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAGCCCGAAGGC
1 ACTAAATCCGGGCTAAG-TCCGAAGGCATTTGAGCGAGTTACTAATCCGGGTTAAGCCCGAAGGC
**
50268039 ATTTGTGCGAGTT
65 ATTTACGCGAGTT
*
50268052 ACTAAATCCGGGTTAAGTCCGAAGGCATTT-ATGCGAGTTACTAAATCCGGGTTAAGTCCCG-AG
1 ACTAAATCCGGGCTAAGTCCGAAGGCATTTGA-GCGAGTTACT-AATCCGGGTTAAG-CCCGAAG
50268115 GCATTTACGCGAGTT
63 GCATTTACGCGAGTT
* * **
50268130 ACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATCCGAA
1 ACTA-AATCCGGGCTAAGT-CCGAAGGCATTTGAGCGAGTTA-CTA-ATCCGGGTTAAGCCCGAA
50268192 GG
62 GG
50268194 TACGTGATTT
Statistics
Matches: 121, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
77 26 0.21
78 66 0.55
79 28 0.23
80 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (77 bp):
ACTAAATCCGGGCTAAGTCCGAAGGCATTTGAGCGAGTTACTAATCCGGGTTAAGCCCGAAGGCA
TTTACGCGAGTT
Found at i:50273475 original size:28 final size:29
Alignment explanation
Indices: 50273435--50273533 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
50273425 GTAATAAGCC
*
50273435 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
50273463 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
50273491 TGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
50273520 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50273534 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:50281158 original size:28 final size:28
Alignment explanation
Indices: 50281118--50281215 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
50281108 GTAATAAGCC
*
50281118 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
50281146 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * * *
50281174 TGCACACTTAGTGCTATAA-ATTTGAACC
1 CGCACACTTAGTGCT-TAATAATCGAACT
50281202 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50281216 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
27 2 0.03
28 54 0.92
29 1 0.02
30 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:50284248 original size:18 final size:18
Alignment explanation
Indices: 50284222--50284261 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
50284212 TGATAACATA
*
50284222 ATAAACATAATCATAAAC
1 ATAAACATAAGCATAAAC
* *
50284240 ATAATCATAGGCATAAAC
1 ATAAACATAAGCATAAAC
50284258 ATAA
1 ATAA
50284262 GTTTATTCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.05, T:0.23
Consensus pattern (18 bp):
ATAAACATAAGCATAAAC
Found at i:50284255 original size:12 final size:12
Alignment explanation
Indices: 50284222--50284248 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
50284212 TGATAACATA
50284222 ATAAACATAATC
1 ATAAACATAATC
50284234 ATAAACATAATC
1 ATAAACATAATC
50284246 ATA
1 ATA
50284249 GGCATAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (12 bp):
ATAAACATAATC
Found at i:50286983 original size:71 final size:71
Alignment explanation
Indices: 50286899--50287062 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
50286889 CGATTTGTCT
*
50286899 CGTAGCTCTCTTGTCTATATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
50286964 CTTTCA
66 CTTTCA
*
50286970 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCATGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
50287035 CTTTCA
66 CTTTCA
50287041 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
50287063 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.37
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:50287100 original size:71 final size:70
Alignment explanation
Indices: 50286899--50287096 Score: 240
Period size: 71 Copynumber: 2.8 Consensus size: 70
50286889 CGATTTGTCT
* * * * *
50286899 CGTAGCTCTCTTGTCTATATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
50286964 CTTTCA
65 CTTTCA
* * * **
50286970 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCATGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
50287035 CTTTCA
65 CTTTCA
* *
50287041 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
50287097 TACAGGGTGT
Statistics
Matches: 117, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
68 21 0.18
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:50290417 original size:35 final size:35
Alignment explanation
Indices: 50290378--50290450 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
50290368 ACCATAATAA
50290378 AGAAATCCAAGATACCATATCATAATGAAAGATCC
1 AGAAATCCAAGATACCATATCATAATGAAAGATCC
50290413 AGAAATCCAAGATACCATATCATAATGAAAGATCC
1 AGAAATCCAAGATACCATATCATAATGAAAGATCC
50290448 AGA
1 AGA
50290451 GCAAAACTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.49, C:0.19, G:0.12, T:0.19
Consensus pattern (35 bp):
AGAAATCCAAGATACCATATCATAATGAAAGATCC
Found at i:50290571 original size:2 final size:2
Alignment explanation
Indices: 50290564--50290601 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
50290554 TTACCTTCTC
50290564 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50290602 CGAACAAGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50291471 original size:21 final size:20
Alignment explanation
Indices: 50291428--50291479 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
50291418 ATTGTGAGCT
50291428 TTATGAAGTTTGATGATGAA
1 TTATGAAGTTTGATGATGAA
*
50291448 TTATGAAAGTTTGTTGAT-AGA
1 TTATG-AAGTTTGATGATGA-A
*
50291469 TTATCAAGTTT
1 TTATGAAGTTT
50291480 TGTAAAGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (20 bp):
TTATGAAGTTTGATGATGAA
Found at i:50295164 original size:18 final size:18
Alignment explanation
Indices: 50295118--50295154 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
50295108 ATTTTACATA
50295118 TAATCACATACATGAACT
1 TAATCACATACATGAACT
50295136 TAATCACATACATGAACT
1 TAATCACATACATGAACT
50295154 T
1 T
50295155 TTATTCATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.30
Consensus pattern (18 bp):
TAATCACATACATGAACT
Found at i:50297809 original size:43 final size:42
Alignment explanation
Indices: 50297730--50297838 Score: 139
Period size: 43 Copynumber: 2.5 Consensus size: 42
50297720 TAGTCAACTA
* * *
50297730 GGATTACCCATCCGGCTAAATCCTTTTTATTCTGAAATCAAT
1 GGATTACCCATCGGGCTAAATCCGTTCTATTCTGAAATCAAT
50297772 GGATTACCCATCTGGGCTAAATCCGTTCTATAT-TGAAATCAAT
1 GGATTACCCATC-GGGCTAAATCCGTTCTAT-TCTGAAATCAAT
* *
50297815 GGATTACTCATCCGGGATAAATCC
1 GGATTACCCAT-CGGGCTAAATCC
50297839 TTTACATCAT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
42 12 0.20
43 45 0.76
44 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (42 bp):
GGATTACCCATCGGGCTAAATCCGTTCTATTCTGAAATCAAT
Found at i:50301612 original size:40 final size:40
Alignment explanation
Indices: 50301504--50301713 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
50301494 CGGGATTTAA
* * * * *
50301504 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
50301544 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
50301584 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
50301624 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
50301664 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
50301704 CCGGATATAT
1 CCGGATATAT
50301714 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:50310492 original size:30 final size:30
Alignment explanation
Indices: 50310456--50310586 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
50310446 GACAAGATTG
* * * * *
50310456 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
50310486 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
50310514 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
50310544 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
50310573 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50310587 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:50310547 original size:58 final size:58
Alignment explanation
Indices: 50310456--50310586 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
50310446 GACAAGATTG
* * * * * *
50310456 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
50310514 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
50310573 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50310587 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:50312569 original size:39 final size:39
Alignment explanation
Indices: 50312510--50312662 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
50312500 CGCACAAACG
*
50312510 CTTCGGCGACTTAACCCGGATATCACAACTCGCACAATTGC
1 CTTCGG-G-CTTAGCCCGGATATCACAACTCGCACAATTGC
* *
50312551 CTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTGC
1 CTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGC
*
50312590 CTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTGC
1 CTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGC
*
50312629 CTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CTTCGGGCTTAGCCCGGATATCACAACTCGCACA
50312663 TTCATTCACA
Statistics
Matches: 106, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 99 0.93
40 1 0.01
41 6 0.06
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGC
Found at i:50318713 original size:33 final size:32
Alignment explanation
Indices: 50318665--50318738 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 32
50318655 TGGTACCTAT
50318665 GAACTTTGGTATTTTTAGTATATGGCA-TGTGTAG
1 GAAC-TTGGTATTTTTAGTATAT-GCATTGT-TAG
* *
50318699 GAACTTGGTCTTTTTGGTATATGCATTGTTAG
1 GAACTTGGTATTTTTAGTATATGCATTGTTAG
*
50318731 GAATTTGG
1 GAACTTGG
50318739 CCATTTGTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 13 0.36
33 19 0.53
34 4 0.11
ACGTcount: A:0.22, C:0.07, G:0.27, T:0.45
Consensus pattern (32 bp):
GAACTTGGTATTTTTAGTATATGCATTGTTAG
Found at i:50320984 original size:26 final size:27
Alignment explanation
Indices: 50320955--50321013 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
50320945 CAAAATAATC
* *
50320955 ATTTTACCCTAGAGGGGTA-TTCGGTA
1 ATTTTACCCTACAAGGGTATTTCGGTA
*
50320981 ATTTTA-CTTACAAGGGTATTTCGGTA
1 ATTTTACCCTACAAGGGTATTTCGGTA
50321007 ATTTTAC
1 ATTTTAC
50321014 AAATCGAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTACAAGGGTATTTCGGTA
Found at i:50321035 original size:27 final size:27
Alignment explanation
Indices: 50320993--50321044 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
50320983 TTTACTTACA
*
50320993 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
50321020 AGGGTATTTTGATAATTTTACAAAT
1 AGGGTATTTCGATAATTTTACAAAT
50321045 TGGGGTCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:50323879 original size:40 final size:40
Alignment explanation
Indices: 50323820--50324011 Score: 206
Period size: 40 Copynumber: 4.8 Consensus size: 40
50323810 CAATTGAATG
* * * *
50323820 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
50323860 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
50323900 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
50323940 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* *
50323980 CTATCC-GGCTAAGACCCGAAGGCATTCGTGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
50324012 TGCGGTTATA
Statistics
Matches: 129, Mismatches: 23, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 24 0.19
40 105 0.81
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:50331497 original size:46 final size:46
Alignment explanation
Indices: 50331442--50331622 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
50331432 TAGGATGGTT
50331442 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
50331488 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
50331534 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
50331581 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50331623 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:50331603 original size:93 final size:93
Alignment explanation
Indices: 50331444--50331614 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
50331434 GGATGGTTGA
* *
50331444 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50331509 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
50331537 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50331602 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
50331615 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:50336918 original size:40 final size:40
Alignment explanation
Indices: 50336856--50337071 Score: 296
Period size: 40 Copynumber: 5.4 Consensus size: 40
50336846 AAACCAAGTA
* * *
50336856 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
50336895 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
50336935 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
50336975 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAACTG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
50337015 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
50337055 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
50337072 TGTTATCATC
Statistics
Matches: 161, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 14 0.09
40 147 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:50337351 original size:39 final size:39
Alignment explanation
Indices: 50337297--50337374 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
50337287 AATTCAAGTA
50337297 GAATCATTATATCACCGTATATTTGTTATGATGATACGT
1 GAATCATTATATCACCGTATATTTGTTATGATGATACGT
50337336 GAATCATTATATCACCGTATATTTGTTATGATGATACGT
1 GAATCATTATATCACCGTATATTTGTTATGATGATACGT
50337375 CATGACTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (39 bp):
GAATCATTATATCACCGTATATTTGTTATGATGATACGT
Found at i:50339291 original size:33 final size:32
Alignment explanation
Indices: 50339243--50339316 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 32
50339233 TGGTACCTAT
50339243 GAACTTTGGTATTTTTAGTATATGGCA-TGTGTAG
1 GAAC-TTGGTATTTTTAGTATAT-GCATTGT-TAG
* *
50339277 GAACTTGGTCTTTTTGGTATATGCATTGTTAG
1 GAACTTGGTATTTTTAGTATATGCATTGTTAG
*
50339309 GAATTTGG
1 GAACTTGG
50339317 CCATTTGTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 13 0.36
33 19 0.53
34 4 0.11
ACGTcount: A:0.22, C:0.07, G:0.27, T:0.45
Consensus pattern (32 bp):
GAACTTGGTATTTTTAGTATATGCATTGTTAG
Found at i:50343558 original size:49 final size:48
Alignment explanation
Indices: 50343437--50343715 Score: 225
Period size: 47 Copynumber: 5.8 Consensus size: 48
50343427 TATAATTCCG
* * * *
50343437 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTGTC-TCAAGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCATCGAGCCA
* *
50343484 ATGCCATGTCCCAGACATGGTCTTACACTAACTATCGTCATCGAGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCATCGA-GCCA
* * *
50343533 ACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATATCCGTA-CCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGT-CAT-CG-AGCCA
* * * * *
50343583 ATGCCATGTCCCAGACATTGTCTTACACTGACACCTCTAGACAT---GCCG
1 ATGCCATGTCCCAGACATGGTCTTACACT---AGCTCTCGTCATCGAGCCA
* * * * * * *
50343631 ATACCATGTCCCAGACATGGTCTTACACT-GGTTTAC-TTAACGAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CGTCATCGA-GCCA
50343679 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTC
50343716 TCAATGCCGA
Statistics
Matches: 185, Mismatches: 31, Indels: 32
0.75 0.12 0.13
Matches are distributed among these distances:
44 3 0.02
46 11 0.06
47 53 0.29
48 38 0.21
49 38 0.21
50 31 0.17
51 2 0.01
52 3 0.02
53 6 0.03
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCATCGAGCCA
Found at i:50343654 original size:48 final size:50
Alignment explanation
Indices: 50343536--50343660 Score: 150
Period size: 48 Copynumber: 2.5 Consensus size: 50
50343526 GAGGCCAACG
* * * *
50343536 CCATGTCCCAGACATGGTCTTACACT-AGCTCTCGTATATCCGTACCGATG
1 CCATGTCCCAGACATGGTCTTACACTGAGCCCTCGTAGA-CCATACCGATA
* *
50343586 CCATGTCCCAGACATTGTCTTACACTGA-CACCTC-TAGA-CATGCCGATA
1 CCATGTCCCAGACATGGTCTTACACTGAGC-CCTCGTAGACCATACCGATA
50343634 CCATGTCCCAGACATGGTCTTACACTG
1 CCATGTCCCAGACATGGTCTTACACTG
50343661 GTTTACTTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
48 33 0.50
50 29 0.44
51 4 0.06
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACACTGAGCCCTCGTAGACCATACCGATA
Found at i:50344481 original size:13 final size:13
Alignment explanation
Indices: 50344463--50344487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50344453 CTAAAAGTAA
50344463 AAAAATCATCAAG
1 AAAAATCATCAAG
50344476 AAAAATCATCAA
1 AAAAATCATCAA
50344488 AATCACTTAC
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:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:50349989 original size:21 final size:22
Alignment explanation
Indices: 50349965--50350008 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
50349955 CGTGACACAG
50349965 GGGC-ACACGCCCATGTGAGAA
1 GGGCAACACGCCCATGTGAGAA
*
50349986 GGGCAACACGCCCGTGTGAGAA
1 GGGCAACACGCCCATGTGAGAA
50350008 G
1 G
50350009 CACAACACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.27, C:0.27, G:0.36, T:0.09
Consensus pattern (22 bp):
GGGCAACACGCCCATGTGAGAA
Found at i:50350014 original size:22 final size:22
Alignment explanation
Indices: 50349969--50350026 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
50349959 ACACAGGGGC
* **
50349969 ACACGCCCATGTGAGAAGGGCA
1 ACACGCCCGTGTGAGAAGCACA
50349991 ACACGCCCGTGTGAGAAGCACA
1 ACACGCCCGTGTGAGAAGCACA
* *
50350013 ACACACCTGTGTGA
1 ACACGCCCGTGTGA
50350027 CGATATCAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.31, C:0.29, G:0.28, T:0.12
Consensus pattern (22 bp):
ACACGCCCGTGTGAGAAGCACA
Found at i:50351320 original size:48 final size:47
Alignment explanation
Indices: 50351117--50351448 Score: 191
Period size: 48 Copynumber: 7.0 Consensus size: 47
50351107 AAACATAGGG
* * *
50351117 TACAATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-TGT
1 TACAAGGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACT-T
* * * * * **
50351165 CT-CAA-GTCGATGTCATGACCCAAACATGGTCTTACACTAGCTCT-CGCA
1 -TACAAGGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCT-TAC-TT
* * * *
50351213 TATC-CGTGCCGATGCCATGTCCTAGACATGGTCTTACACTGAC--ACCTC
1 TA-CAAG-GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTA-CTT
* * *
50351261 TATACGTGCCGATGCCATGTCCCAAACATGATCTTACACTGGCTTACTT
1 TACAAG-GCCGATGCCATGTCCCAGACATG-TCTTACACTGGCTTACTT
* * *
50351310 TACAAGGCCGATGCCATGTCCCAGACACGTCTTACACTAGCTCT-CGTC
1 TACAAGGCCGATGCCATGTCCCAGACATGTCTTACACTGGCT-TAC-TT
* * * *
50351358 T-CAACGCCGATGCCAAGTCCCAGACATTGTCTTACATTGGCTCT-CAT
1 TACAAGGCCGATGCCATGTCCCAGACA-TGTCTTACACTGGCT-TACTT
* * * *
50351405 AATATGGCCGATG-CATGTCCCAGACATGTCTTACACTAGCTTAC
1 TACAAGGCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTAC
50351449 AATAACCCAT
Statistics
Matches: 221, Mismatches: 44, Indels: 39
0.73 0.14 0.13
Matches are distributed among these distances:
45 1 0.00
46 14 0.06
47 81 0.37
48 86 0.39
49 9 0.04
50 30 0.14
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
TACAAGGCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACTT
Found at i:50351367 original size:47 final size:48
Alignment explanation
Indices: 50351126--50351445 Score: 241
Period size: 47 Copynumber: 6.7 Consensus size: 48
50351116 GTACAATGCT
* *
50351126 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-GTCTCAA-GTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCGTCTCAACGCC
* * * * ***
50351173 GATGTCATGACCCAAACATGGTCTTACACTAGCTCTCGCATATCCGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCG--TCTCAACGCC
* *
50351223 GATGCCATGTCCTAGACATGGTCTTACACT-GACAC-C-TCT-ATACGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCGTCTCA-AC--GCC
* * * * *
50351271 GATGCCATGTCCCAAACATGATCTTACACTGGCT-TAC-TTTACAAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CGTCT-CAACGCC
*
50351319 GATGCCATGTCCCAGACA-CGTCTTACACTAGCTCTCGTCTCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAACGCC
* * * * * * **
50351366 GATGCCAAGTCCCAGACATTGTCTTACATTGGCTCTCATAAT-ATGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGT-CTCAACGCC
50351414 GATG-CATGTCCCAGACAT-GTCTTACACTAGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCT
50351446 TACAATAACC
Statistics
Matches: 216, Mismatches: 40, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
46 15 0.07
47 81 0.38
48 78 0.36
49 10 0.05
50 31 0.14
51 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAACGCC
Found at i:50353427 original size:20 final size:20
Alignment explanation
Indices: 50353404--50353461 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
50353394 AAATGTCAAT
50353404 AGAGGCACCAAAGTGCAAAC
1 AGAGGCACCAAAGTGCAAAC
** *
50353424 AGAGGCACTGAAGTGCAAAT
1 AGAGGCACCAAAGTGCAAAC
* *
50353444 AGACGCATCAAAGTGCAA
1 AGAGGCACCAAAGTGCAA
50353462 TCCTGTACAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.43, C:0.21, G:0.26, T:0.10
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAAAC
Found at i:50353791 original size:12 final size:12
Alignment explanation
Indices: 50353774--50353825 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
50353764 TCATAAAGAA
50353774 ACATACAAACAC
1 ACATACAAACAC
50353786 ACATACACACACAC
1 ACATACA-A-ACAC
* *
50353800 ACACACACACAC
1 ACATACAAACAC
*
50353812 ACATACATACAC
1 ACATACAAACAC
50353824 AC
1 AC
50353826 TACGAACTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 23 0.68
13 1 0.03
14 10 0.29
ACGTcount: A:0.52, C:0.40, G:0.00, T:0.08
Consensus pattern (12 bp):
ACATACAAACAC
Found at i:50353795 original size:2 final size:2
Alignment explanation
Indices: 50353782--50353825 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
50353772 AAACATACAA
* * *
50353782 AC AC AC AT AC AC AC AC AC AC AC AC AC AC AC AC AT AC AT AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
50353824 AC
1 AC
50353826 TACGAACTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.43, G:0.00, T:0.07
Consensus pattern (2 bp):
AC
Found at i:50354463 original size:5 final size:5
Alignment explanation
Indices: 50354453--50354480 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
50354443 ACCTTTTGTG
50354453 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
50354481 GAACACACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:50359193 original size:13 final size:13
Alignment explanation
Indices: 50359175--50359199 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50359165 ATTTTACTTT
50359175 TATTTTATTTTAC
1 TATTTTATTTTAC
50359188 TATTTTATTTTA
1 TATTTTATTTTA
50359200 TTTAAATGAG
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:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTTATTTTAC
Found at i:50362731 original size:93 final size:93
Alignment explanation
Indices: 50362619--50362790 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
50362609 GCCCATAAGT
* *
50362619 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50362684 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
50362712 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50362777 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
50362791 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:50362786 original size:46 final size:46
Alignment explanation
Indices: 50362611--50362786 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
50362601 TGTAACCCGC
* * *
50362611 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
50362657 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
50362707 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
50362750 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
50362787 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:50365213 original size:30 final size:30
Alignment explanation
Indices: 50365169--50365257 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
50365159 CAAAGATAAC
50365169 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
50365198 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
50365228 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
50365258 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:50365217 original size:15 final size:15
Alignment explanation
Indices: 50365169--50365248 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
50365159 CAAAGATAAC
*
50365169 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
50365183 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
50365198 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
50365213 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
50365228 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
50365243 AAGAAA
1 AAGAAA
50365249 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:50365257 original size:15 final size:15
Alignment explanation
Indices: 50365180--50365257 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
50365170 AGAAAACCGA
50365180 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
50365195 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
50365209 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
50365224 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
50365240 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
50365255 ATA
1 ATA
50365258 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:50368322 original size:93 final size:93
Alignment explanation
Indices: 50368210--50368381 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
50368200 GCCCATAAGT
* *
50368210 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50368275 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
50368303 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50368368 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
50368382 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:50368377 original size:46 final size:46
Alignment explanation
Indices: 50368202--50368377 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
50368192 TGTAACCCGC
* * *
50368202 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
50368248 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
50368298 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
50368341 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
50368378 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:50368713 original size:15 final size:15
Alignment explanation
Indices: 50368693--50368724 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
50368683 TCGTCCACAC
50368693 TTGGTATTTTCCCCA
1 TTGGTATTTTCCCCA
50368708 TTGGTATTTTCCCCA
1 TTGGTATTTTCCCCA
50368723 TT
1 TT
50368725 TTAGCCCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.25, G:0.12, T:0.50
Consensus pattern (15 bp):
TTGGTATTTTCCCCA
Found at i:50371380 original size:19 final size:20
Alignment explanation
Indices: 50371345--50371386 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
50371335 ATTTAAGCAT
50371345 TCAATTCACATAAAATT-AA
1 TCAATTCACATAAAATTCAA
*
50371364 TCAATTCATA-AACAATTCAA
1 TCAATTCACATAA-AATTCAA
50371384 TCA
1 TCA
50371387 TAATTAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 13 0.65
20 5 0.25
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (20 bp):
TCAATTCACATAAAATTCAA
Found at i:50372518 original size:16 final size:17
Alignment explanation
Indices: 50372471--50372518 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
50372461 GATCTAGCTT
*
50372471 AAGAATAATATAAAACAC
1 AAGAAAAATAT-AAACAC
50372489 AAGAAAAATATAAACA-
1 AAGAAAAATATAAACAC
* *
50372505 AAGTAAACTATAAA
1 AAGAAAAATATAAA
50372519 GCCTAGTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 12 0.44
17 5 0.19
18 10 0.37
ACGTcount: A:0.69, C:0.08, G:0.06, T:0.17
Consensus pattern (17 bp):
AAGAAAAATATAAACAC
Found at i:50379774 original size:46 final size:46
Alignment explanation
Indices: 50379724--50379896 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
50379714 TGGTTGAGCA
50379724 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
50379770 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
50379815 CATCCGAACTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAAAG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
50379863 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
50379897 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 7 0.07
46 55 0.53
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:50379880 original size:93 final size:93
Alignment explanation
Indices: 50379721--50379891 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
50379711 GGATGGTTGA
* * *
50379721 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGTCCCAACTCGTTGAGT
50379786 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
50379814 GCATCCGAACTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAAAG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGTCCCAA-CTCGTTGAG
50379878 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
50379892 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:50384295 original size:26 final size:26
Alignment explanation
Indices: 50384259--50384332 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 26
50384249 ATCAAAGTCG
50384259 GTCA-TTTACCCTCAAGGGTAAAACA
1 GTCATTTTACCCTCAAGGGTAAAACA
*** *
50384284 GTCATTTTACCCT-AGAGGGGTATGTCT
1 GTCATTTTACCCTCA-A-GGGTAAAACA
50384311 GTCATTTTACCCTACAAGGGTA
1 GTCATTTTACCCT-CAAGGGTA
50384333 TTTCGATAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
25 5 0.12
26 9 0.22
27 24 0.60
28 1 0.03
29 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (26 bp):
GTCATTTTACCCTCAAGGGTAAAACA
Found at i:50384344 original size:27 final size:28
Alignment explanation
Indices: 50384327--50384800 Score: 465
Period size: 27 Copynumber: 17.6 Consensus size: 28
50384317 TTACCCTACA
* *
50384327 AGGGTATTTCGATAATTTTA-C-ACTACA
1 AGGGTATTTCGATAATTTTACCAAAT-CG
*
50384354 AGGGTATTTCGATAATTTTA-CAAATTG
1 AGGGTATTTCGATAATTTTACCAAATCG
* *
50384381 AGGGTGTTTCGGTAATTTTA-CAAATCG
1 AGGGTATTTCGATAATTTTACCAAATCG
*
50384408 AGGGTATTTCGATAATTTTA-CAAATTG
1 AGGGTATTTCGATAATTTTACCAAATCG
* *
50384435 AGGGTATTTTGATAATTTTA-TAAATCG
1 AGGGTATTTCGATAATTTTACCAAATCG
50384462 AGGGTATTTCGATAATTTT-CCAAATCG
1 AGGGTATTTCGATAATTTTACCAAATCG
* *
50384489 AGGGTGTTTCGGTAATTTT-CCAAATCG
1 AGGGTATTTCGATAATTTTACCAAATCG
* *
50384516 AGGGTGTTTCGGTAATTTT-CCAAATCG
1 AGGGTATTTCGATAATTTTACCAAATCG
*
50384543 AGGGTGTTTCGATAATTTTA-CAAATCG
1 AGGGTATTTCGATAATTTTACCAAATCG
* * *
50384570 AGGGTATTTCAATAATTTCACC--ATCA
1 AGGGTATTTCGATAATTTTACCAAATCG
* *
50384596 AGGGTATTTCGGTAATTTTA-CAAATCA
1 AGGGTATTTCGATAATTTTACCAAATCG
* *
50384623 AGGGTGTTTCGGTAATTTTA-CAAATCG
1 AGGGTATTTCGATAATTTTACCAAATCG
* *
50384650 AGGGTATTTC-AGTAATTTCA-C-AATTG
1 AGGGTATTTCGA-TAATTTTACCAAATCG
* * *
50384676 AGGGTATTTTGGTAATTTTA-CAAATTG
1 AGGGTATTTCGATAATTTTACCAAATCG
* *
50384703 GGGGTATTTCGGTAATTTTA-CAAATCG
1 AGGGTATTTCGATAATTTTACCAAATCG
* * *
50384730 AGGGTATTT-TAGTAATGTCA-C-AATCG
1 AGGGTATTTCGA-TAATTTTACCAAATCG
*
50384756 AGGGTATTTCGATAATTTTA-CAAATCA
1 AGGGTATTTCGATAATTTTACCAAATCG
50384783 AGGGTATTTC-AGTAATTT
1 AGGGTATTTCGA-TAATTT
50384801 CTCTTTATTA
Statistics
Matches: 389, Mismatches: 45, Indels: 26
0.85 0.10 0.06
Matches are distributed among these distances:
25 1 0.00
26 63 0.16
27 322 0.83
28 3 0.01
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (28 bp):
AGGGTATTTCGATAATTTTACCAAATCG
Found at i:50384372 original size:54 final size:55
Alignment explanation
Indices: 50384327--50384800 Score: 519
Period size: 54 Copynumber: 8.8 Consensus size: 55
50384317 TTACCCTACA
* * *
50384327 AGGGTATTTCGATAATTTTAC-ACTACAAGGGTATTTCGATAATTTTA-CAAATTG
1 AGGGTATTTCGATAATTTTACAAAT-CGAGGGTATTTCGATAATTTTACCAAATCG
* * *
50384381 AGGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTA-CAAATTG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACCAAATCG
* *
50384435 AGGGTATTTTGATAATTTTATAAATCGAGGGTATTTCGATAATTTT-CCAAATCG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACCAAATCG
* * * * *
50384489 AGGGTGTTTCGGTAATTTTCCAAATCGAGGGTGTTTCGGTAATTTT-CCAAATCG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACCAAATCG
* * * *
50384543 AGGGTGTTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTCACC--ATCA
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACCAAATCG
* * * *
50384596 AGGGTATTTCGGTAATTTTACAAATCAAGGGTGTTTCGGTAATTTTA-CAAATCG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACCAAATCG
* * * * *
50384650 AGGGTATTTC-AGTAATTTCAC-AATTGAGGGTATTTTGGTAATTTTA-CAAATTG
1 AGGGTATTTCGA-TAATTTTACAAATCGAGGGTATTTCGATAATTTTACCAAATCG
* * * * *
50384703 GGGGTATTTCGGTAATTTTACAAATCGAGGGTATTT-TAGTAATGTCA-C-AATCG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACCAAATCG
*
50384756 AGGGTATTTCGATAATTTTACAAATCAAGGGTATTTC-AGTAATTT
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGA-TAATTT
50384801 CTCTTTATTA
Statistics
Matches: 359, Mismatches: 51, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
52 1 0.00
53 131 0.36
54 223 0.62
55 4 0.01
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (55 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACCAAATCG
Found at i:50384629 original size:80 final size:80
Alignment explanation
Indices: 50384327--50384800 Score: 556
Period size: 80 Copynumber: 5.9 Consensus size: 80
50384317 TTACCCTACA
* * * * * *
50384327 AGGGTATTTCGATAATTTTACACTACAAGGGTATTTCGATAATTTTACAAATTGAGGGTGTTTCG
1 AGGGTATTTCAATAATTTCACAAT-CGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCG
*
50384392 GTAATTTTACAAATCG
65 ATAATTTTACAAATCG
* * * * *
50384408 AGGGTATTTCGATAATTTTACAAATTGAGGGTATTTTGATAATTTTATAAATCGAGGGTATTTCG
1 AGGGTATTTCAATAATTTCAC-AATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCG
*
50384473 ATAATTTTCCAAATCG
65 ATAATTTTACAAATCG
* ** * * * *
50384489 AGGGTGTTTCGGTAATTTTC-CAAATCGAGGGTGTTTCGGTAATTTTCCAAATCGAGGGTGTTTC
1 AGGGTATTTCAATAA-TTTCAC-AATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTC
50384553 GATAATTTTACAAATCG
64 GATAATTTTACAAATCG
* * * * * *
50384570 AGGGTATTTCAATAATTTCACCATCAAGGGTATTTCGGTAATTTTACAAATCAAGGGTGTTTCGG
1 AGGGTATTTCAATAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGA
50384635 TAATTTTACAAATCG
66 TAATTTTACAAATCG
* * * * * * *
50384650 AGGGTATTTCAGTAATTTCACAATTGAGGGTATTTTGGTAATTTTACAAATTGGGGGTATTTCGG
1 AGGGTATTTCAATAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGA
50384715 TAATTTTACAAATCG
66 TAATTTTACAAATCG
* * * *
50384730 AGGGTATTTTAGTAATGTCACAATCGAGGGTATTTCGATAATTTTACAAATCAAGGGTATTTC-A
1 AGGGTATTTCAATAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGA
50384794 GTAATTT
66 -TAATTT
50384801 CTCTTTATTA
Statistics
Matches: 342, Mismatches: 47, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
80 189 0.55
81 148 0.43
82 5 0.01
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (80 bp):
AGGGTATTTCAATAATTTCACAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGA
TAATTTTACAAATCG
Found at i:50385171 original size:28 final size:28
Alignment explanation
Indices: 50385140--50385205 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
50385130 TTCGCATGGT
50385140 CCATTAGGCCCAATCACATTCATATGAC
1 CCATTAGGCCCAATCACATTCATATGAC
* *
50385168 CCATCAGGCCCAATCACATTCATATGGC
1 CCATTAGGCCCAATCACATTCATATGAC
50385196 CCATTAGGCC
1 CCATTAGGCC
50385206 AAACTACTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.29, C:0.35, G:0.14, T:0.23
Consensus pattern (28 bp):
CCATTAGGCCCAATCACATTCATATGAC
Found at i:50388034 original size:26 final size:27
Alignment explanation
Indices: 50387991--50388078 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
50387981 CAAAATAGTC
* * * *
50387991 ATTTTACCCTATAGGGGTATGTC-ATC
1 ATTTTACACTACAAGGGTATGTCTATA
*
50388017 ATGTTT-CACTACAAGGGTATTTCTATA
1 AT-TTTACACTACAAGGGTATGTCTATA
* *
50388044 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATGTCTATA
50388071 ATTTTACA
1 ATTTTACA
50388079 AAACGGGGGT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
26 18 0.34
27 35 0.66
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATGTCTATA
Found at i:50388088 original size:27 final size:27
Alignment explanation
Indices: 50388030--50388395 Score: 327
Period size: 27 Copynumber: 13.7 Consensus size: 27
50388020 TTTCACTACA
* * *
50388030 AGGGTATTTCTATAATTTTAC-ACTACA
1 AGGGTATTTCGATAATTTTACAAAT-CG
*
50388057 AGGGTATTTCGATAATTTTACAAAACG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
50388084 GGGGTGTTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
50388111 AAGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
50388138 A-GGT-GTTCTGATAATTTTACAAATTG
1 AGGGTATTTC-GATAATTTTACAAATCG
* * * *
50388164 AGGTTGTTTTGATAATTCTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
50388191 AGGGTATTTC-ACTAATTTCAC-AATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* *
50388217 TGGGTATTTCGATAATTTTACATATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * **
50388244 AGGGTTTTTCGATAATTTTGCAAATTA
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
50388271 AGGGTGTTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
50388298 AGGGTATTT-TAGTAATTTCAC-AATCA
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
50388324 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
50388351 -GAGGTATTTTGGTAACTTTACAAATCG
1 AG-GGTATTTCGATAATTTTACAAATCG
50388378 AGGGTATTTC-AGTAATTT
1 AGGGTATTTCGA-TAATTT
50388396 CCCTTTATTA
Statistics
Matches: 272, Mismatches: 54, Indels: 26
0.77 0.15 0.07
Matches are distributed among these distances:
25 3 0.01
26 64 0.24
27 201 0.74
28 4 0.01
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:50388153 original size:80 final size:80
Alignment explanation
Indices: 50388032--50388395 Score: 328
Period size: 80 Copynumber: 4.5 Consensus size: 80
50388022 TCACTACAAG
* * * * * *
50388032 GGTATTTCTATAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAAACGGGGGTGTTTTGG
1 GGTATTTCGATAATTTTACAAAT-CGAGGGTATTT-GATAATTTTACAAATCGAGGGTGTTTTGA
50388096 TAATTTTACAAATCGAA
64 TAATTTTACAAATCGAA
* * *
50388113 GGTATTTCGATAATTTTACAAATCGAGGTGT-TCTGATAATTTTACAAATTGAGGTTGTTTTGAT
1 GGTATTTCGATAATTTTACAAATCGAGG-GTATTTGATAATTTTACAAATCGAGGGTGTTTTGAT
* *
50388177 AATTCTACAAATCGAG
65 AATTTTACAAATCGAA
* * *
50388193 GGTATTTC-ACTAATTTCAC-AATCGTGGGTATTTCGATAATTTTACATATCGAGGGT-TTTTCG
1 GGTATTTCGA-TAATTTTACAAATCGAGGGTATTT-GATAATTTTACAAATCGAGGGTGTTTT-G
* *
50388255 ATAATTTTGCAAAT-TAA
63 ATAATTTTACAAATCGAA
* * * * * * * * *
50388272 GGGTGTTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTCAC-AATCAAGGGTATTTCGG
1 -GGTATTTCGATAATTTTACAAATCGAGGGTATTTGA-TAATTTTACAAATCGAGGGTGTTTTGA
*
50388336 TAATTTTACAAATCGGA
64 TAATTTTACAAATCGAA
* * * *
50388353 GGTATTTTGGTAACTTTACAAATCGAGGGTATTTCAGTAATTT
1 GGTATTTCGATAATTTTACAAATCGAGGGTATTTGA-TAATTT
50388396 CCCTTTATTA
Statistics
Matches: 231, Mismatches: 40, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
78 2 0.01
79 15 0.06
80 162 0.70
81 48 0.21
82 4 0.02
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (80 bp):
GGTATTTCGATAATTTTACAAATCGAGGGTATTTGATAATTTTACAAATCGAGGGTGTTTTGATA
ATTTTACAAATCGAA
Found at i:50388178 original size:53 final size:52
Alignment explanation
Indices: 50388057--50388395 Score: 306
Period size: 53 Copynumber: 6.3 Consensus size: 52
50388047 TTACACTACA
* * *
50388057 AGGGTATTTCGATAATTTTACAAAACGGGGGTGTTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATC-GAGG-GTTTTGATAATTTTACAAATCG
* * *
50388111 AAGGTATTTCGATAATTTTACAAATCGAGGTGTTCTGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCGAGG-GTTTTGATAATTTTACAAATCG
* * * * * *
50388164 AGGTTGTTTTGATAATTCTACAAATCGAGGGTATTTCACTAATTTCAC-AATCG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGT-TTTGA-TAATTTTACAAATCG
* * * **
50388217 TGGGTATTTCGATAATTTTACATATCGAGGGTTTTTCGATAATTTTGCAAATTA
1 AGGGTATTTCGATAATTTTACAAATCGAGGG-TTTT-GATAATTTTACAAATCG
* * * * * *
50388271 AGGGTGTTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTCAC-AATCA
1 AGGGTATTTCGATAATTTTACAAATCGAGGGT-TTTGA-TAATTTTACAAATCG
* * * *
50388324 AGGGTATTTCGGTAATTTTACAAATCGGAGGTATTTTGGTAACTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATC-GAGG-GTTTTGATAATTTTACAAATCG
50388378 AGGGTATTTC-AGTAATTT
1 AGGGTATTTCGA-TAATTT
50388396 CCCTTTATTA
Statistics
Matches: 230, Mismatches: 44, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
52 2 0.01
53 127 0.55
54 100 0.43
55 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (52 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTTTTGATAATTTTACAAATCG
Found at i:50388382 original size:107 final size:105
Alignment explanation
Indices: 50388057--50388395 Score: 376
Period size: 107 Copynumber: 3.2 Consensus size: 105
50388047 TTACACTACA
* * * * *
50388057 AGGGTATTTCGATAATTTTACAAAACGGGGGTGTTTTGGTAATTTTACAAATCGAA-GGTATTTC
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTTCAC-AATC-AAGGGTATTTC
*
50388121 GATAATTTTACAAATCGAGGTGTTCTGATAATTTTACAAATTG
64 GATAATTTTACAAATCGAGGT-TTTTGATAATTTTACAAATTG
* * * * * * **
50388164 AGGTTGTTTTGATAATTCTACAAATCGAGGGTATTTCACTAATTTCACAATCGTGGGTATTTCGA
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAATCAAGGGTATTTCGA
* * *
50388229 TAATTTTACATATCGAGGGTTTTTCGATAATTTTGCAAATTA
66 TAATTTTACAAATCGA-GGTTTTT-GATAATTTTACAAATTG
* * * *
50388271 AGGGTGTTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTCACAATCAAGGGTATTTCGG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAATCAAGGGTATTTCGA
* * *
50388336 TAATTTTACAAATCGGAGGTATTTTGGTAACTTTACAAATCG
66 TAATTTTACAAATC-GAGGT-TTTTGATAATTTTACAAATTG
50388378 AGGGTATTTC-AGTAATTT
1 AGGGTATTTCGA-TAATTT
50388396 CCCTTTATTA
Statistics
Matches: 191, Mismatches: 35, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
106 32 0.17
107 153 0.80
108 6 0.03
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (105 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAATCAAGGGTATTTCGA
TAATTTTACAAATCGAGGTTTTTGATAATTTTACAAATTG
Found at i:50388761 original size:28 final size:28
Alignment explanation
Indices: 50388730--50388803 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 28
50388720 TCTCGTTCGC
*
50388730 ATGGCCTATCAGACCCAATCACATTCAT
1 ATGGCCCATCAGACCCAATCACATTCAT
*
50388758 ATGGCCCATCAGGCCCAATCACATTCAT
1 ATGGCCCATCAGACCCAATCACATTCAT
*
50388786 ATGGCCCATCAAACCCAA
1 ATGGCCCATCAGACCCAA
50388804 GTACTTACCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.32, C:0.35, G:0.12, T:0.20
Consensus pattern (28 bp):
ATGGCCCATCAGACCCAATCACATTCAT
Found at i:50391638 original size:27 final size:27
Alignment explanation
Indices: 50391607--50391699 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
50391597 AGGGCAAAAT
* *
50391607 AGTCATTTTACCCTATAAGGGTATGTC
1 AGTCATTTTACACTACAAGGGTATGTC
* *
50391634 GGTCATTTTACACTACAAGGGTATTTC
1 AGTCATTTTACACTACAAGGGTATGTC
* * *
50391661 AGTAATTTTACACTACAATGGTATTTC
1 AGTCATTTTACACTACAAGGGTATGTC
* *
50391688 AATAATTTTACA
1 AGTCATTTTACA
50391700 AATCAGGGGT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (27 bp):
AGTCATTTTACACTACAAGGGTATGTC
Found at i:50391871 original size:26 final size:27
Alignment explanation
Indices: 50391651--50392120 Score: 424
Period size: 27 Copynumber: 17.7 Consensus size: 27
50391641 TTACACTACA
* *
50391651 AGGGTATTTCAGTAATTTTAC-ACTACA
1 AGGGTATTTCAGTAATTTTACAAAT-CG
* *
50391678 ATGGTATTTCAATAATTTTACAAATC-
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
50391704 AGGGGTGTTTCGGTAATTTTACAAATTG
1 A-GGGTATTTCAGTAATTTTACAAATCG
* ** *
50391732 AGGGTGTTTTGGTAATTTCACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* **
50391759 AGGTTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
50391786 AGGGT-GTTCCGATAATTTTACAAAACG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* * *
50391813 AGGGTGTTTCGGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
50391840 AGGGTATTTCAGTAATTTCAC-AATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
50391866 AGGGTATTTCAATAA-TTTACAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
* **
50391892 AGGGTGTTTCAAAAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
50391919 AGGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
50391946 AGGGT-TTTTAGTAATTTCAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * *
50391971 ATGGTATTTTAGTAATTTTAAAAAT-T
1 AGGGTATTTCAGTAATTTTACAAATCG
*
50391997 AGGGGTATTTCAGTAATTTGACAAATC-
1 A-GGGTATTTCAGTAATTTTACAAATCG
* *
50392024 A-GGTATTTTAGTAATTTTA-AAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
*
50392049 AGGGTATTTC-GATAATTTTATAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* * *
50392076 AAGGTATTTCGGTAATTTTACAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
*
50392103 AGGTTATTTCAGTAATTT
1 AGGGTATTTCAGTAATTT
50392121 CTCTTTATTA
Statistics
Matches: 370, Mismatches: 57, Indels: 32
0.81 0.12 0.07
Matches are distributed among these distances:
24 5 0.01
25 31 0.08
26 80 0.22
27 246 0.66
28 8 0.02
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:50391911 original size:79 final size:80
Alignment explanation
Indices: 50391649--50392120 Score: 341
Period size: 79 Copynumber: 5.9 Consensus size: 80
50391639 TTTTACACTA
* * * * ** *
50391649 CAAGGGTATTTCAGTAATTTTAC-ACTACAATGGTATTTCAATAATTTTACAAATC-AGGGGTGT
1 CAAGGGTATTTCAATAATTTTACAAAT-CGAGGGTATTTCGGTAATTTTAC-AATCGA-GGGTAT
**
50391712 TTCGGTAATTTTACAAAT
63 TTCAATAATTTTACAAAT
** * *** * * * * *
50391730 TGAGGGTGTTTTGGTAATTTCACAAATCGAGGTTATTTTGGTAATTTTACAAATCGAGGGTGTTC
1 CAAGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCGGTAATTTTAC-AATCGAGGGTATTT
* *
50391795 CGATAATTTTACAAAA
65 CAATAATTTTACAAAT
* * ** * * * *
50391811 CGAGGGTGTTTCGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAATTGAGGGTATTTC
1 CAAGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAATCGAGGGTATTTC
50391876 AATAA-TTTACAAAT
66 AATAATTTTACAAAT
* * *
50391890 CAAGGGTGTTTCAAAAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCGAGGGT-TTT
1 CAAGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCGGTAATTTTAC-AATCGAGGGTATTT
* * *
50391954 TAGTAATTTCAC-AAT
65 CAATAATTTTACAAAT
* * * * * * * *
50391969 CGATGGTATTTTAGTAATTTTAAAAAT-TAGGGGTATTTCAGTAATTTGACAAATC-A-GGTATT
1 CAAGGGTATTTCAATAATTTTACAAATCGA-GGGTATTTCGGTAATTTTAC-AATCGAGGGTATT
* *
50392031 TTAGTAATTTTA-AAAT
64 TCAATAATTTTACAAAT
* * * * *
50392047 CAAGGGTATTTCGATAATTTTATAAATCGAAGGTATTTCGGTAATTTTACAAATCAAGGTTATTT
1 CAAGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCGGTAATTTTAC-AATCGAGGGTATTT
*
50392112 CAGTAATTT
65 CAATAATTT
50392121 CTCTTTATTA
Statistics
Matches: 316, Mismatches: 65, Indels: 21
0.79 0.16 0.05
Matches are distributed among these distances:
77 3 0.01
78 61 0.19
79 104 0.33
80 43 0.14
81 102 0.32
82 3 0.01
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.39
Consensus pattern (80 bp):
CAAGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAATCGAGGGTATTTC
AATAATTTTACAAAT
Found at i:50392469 original size:28 final size:28
Alignment explanation
Indices: 50392436--50392527 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
50392426 TCAGCCCTTT
* * **
50392436 AGGCCCAATCTCGTTCGCATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
50392464 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
50392492 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
50392520 AAGCCCAA
1 AGGCCCAA
50392528 CTGCTTCCCA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.27, C:0.37, G:0.16, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:50397283 original size:20 final size:20
Alignment explanation
Indices: 50397258--50397298 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
50397248 TCTACATATT
50397258 CATCTATGACTAATTCCCAA
1 CATCTATGACTAATTCCCAA
50397278 CATCTATGACTAATTCCCAA
1 CATCTATGACTAATTCCCAA
50397298 C
1 C
50397299 CTTTAAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.29
Consensus pattern (20 bp):
CATCTATGACTAATTCCCAA
Found at i:50399381 original size:141 final size:140
Alignment explanation
Indices: 50398982--50399403 Score: 734
Period size: 135 Copynumber: 3.1 Consensus size: 140
50398972 AAGAACATAG
50398982 ATATAATT--AATATATGAATTTGATTCATACAAAATATTGATTGTATATATTTTA-CTGAATTT
1 ATATAATTAAAATATATGAATTTGATTCATACAAAATATTGATTGTATATATTTTATC-GAATTT
50399044 ATTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACAT-G--A--AATATTC
65 ATTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTC
50399104 TTTTGGAAAGA
130 TTTTGGAAAGA
50399115 ATATAATTAAAATATATGAATTTGATTCATACAAAATATTGATTGTATATATTTTATCGAATTTA
1 ATATAATTAAAATATATGAATTTGATTCATACAAAATATTGATTGTATATATTTTATCGAATTTA
* *
50399180 TTAATATAAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAAAATTAATATTCT
66 TTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCT
50399245 TTTGGAAAGA
131 TTTGGAAAGA
* *
50399255 ATATAATTAAAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTTATCAAATTT
1 ATATAATTAAAATATATGAATTTGATTCATACAAAATATTGATTGTATATA-TTTTATCGAATTT
50399320 ATTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTC
65 ATTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTC
50399385 TTTTGGAAAGA
130 TTTTGGAAAGA
50399396 ATATAATT
1 ATATAATT
50399404 CCTTTTTCTA
Statistics
Matches: 274, Mismatches: 6, Indels: 10
0.94 0.02 0.03
Matches are distributed among these distances:
133 8 0.03
135 102 0.37
136 1 0.00
138 1 0.00
140 68 0.25
141 94 0.34
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (140 bp):
ATATAATTAAAATATATGAATTTGATTCATACAAAATATTGATTGTATATATTTTATCGAATTTA
TTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCT
TTTGGAAAGA
Found at i:50399502 original size:75 final size:75
Alignment explanation
Indices: 50399379--50399528 Score: 237
Period size: 75 Copynumber: 2.0 Consensus size: 75
50399369 ATGGAAATTA
* * * *
50399379 ATATTCTTTTGGAAAGAATATAATTCCTTTTTCTAACTTTTCATTTGCCTTCTCTATTAATAATG
1 ATATTCTTTTGAAAAAAATATAATTCCTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
50399444 CAATAATCCT
66 CAATAATCCT
* *
50399454 ATATTCTTTTGAAAAAAATATAATTCCTTTTTCTAACTTTCCATTTGCCTTTTCTGTTAATAAGG
1 ATATTCTTTTGAAAAAAATATAATTCCTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
*
50399519 GAATAATCCT
66 CAATAATCCT
50399529 GGTTTTTCTT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 68 1.00
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.46
Consensus pattern (75 bp):
ATATTCTTTTGAAAAAAATATAATTCCTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
CAATAATCCT
Found at i:50402570 original size:24 final size:24
Alignment explanation
Indices: 50402543--50402590 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
50402533 TGGTGAATAT
*
50402543 ATATATG-AGGTTATGGTATGGTTA
1 ATATATGTAGGTT-TGATATGGTTA
*
50402567 ATATATGTATGTTTGATATGGTTA
1 ATATATGTAGGTTTGATATGGTTA
50402591 GATTGAAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (24 bp):
ATATATGTAGGTTTGATATGGTTA
Found at i:50404681 original size:26 final size:26
Alignment explanation
Indices: 50404645--50404696 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
50404635 AGTATACCCA
50404645 TTGAAACATTTGGAATAATATTGGAT
1 TTGAAACATTTGGAATAATATTGGAT
*
50404671 TTGAACCATTTGGAATAATATTGGAT
1 TTGAAACATTTGGAATAATATTGGAT
50404697 ACTTGAGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (26 bp):
TTGAAACATTTGGAATAATATTGGAT
Found at i:50411680 original size:39 final size:39
Alignment explanation
Indices: 50411633--50411717 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
50411623 AACTTAATGT
50411633 CTAGCAGGCCTCGT-CCTGGTGATAAATTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCC-GGTGATAAATTCAGGTTTATAC
* *
50411672 CTAGCAGGCCTCGTGCCGGTGATAAGTTTAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
50411711 CTAGCAG
1 CTAGCAG
50411718 AGTAATTGCC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
39 41 0.95
40 2 0.05
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
Found at i:50419850 original size:39 final size:39
Alignment explanation
Indices: 50419800--50419886 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
50419790 AACTTAATGT
* *
50419800 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCAGTGATAAATTCAAGTTTATAC
*
50419839 CTAGCAGGCCTCGTGCCAGTGATAAGTTCAAGTTTATAC
1 CTAGCAGGCCTCGTGCCAGTGATAAATTCAAGTTTATAC
50419878 CTAGCAGGC
1 CTAGCAGGC
50419887 TAATTCCCGG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.26
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCAGTGATAAATTCAAGTTTATAC
Found at i:50421145 original size:10 final size:10
Alignment explanation
Indices: 50421130--50421172 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
50421120 CAATTTACCA
50421130 ACCAAATCAT
1 ACCAAATCAT
*
50421140 ACCAAATCTAA
1 ACCAAATC-AT
50421151 ACCAAAATCAT
1 ACC-AAATCAT
*
50421162 ACCAAAGCAT
1 ACCAAATCAT
50421172 A
1 A
50421173 TATTTCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 15 0.54
11 8 0.29
12 5 0.18
ACGTcount: A:0.53, C:0.28, G:0.02, T:0.16
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:50421995 original size:42 final size:44
Alignment explanation
Indices: 50421948--50422042 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
50421938 TCCCAGACAG
* * * *
50421948 GGTCTTACACA-AAATCA-AA-TACAATGCTAATGTCCTAGTTGT
1 GGTCTTACACATAAATCATAAGT-CAACGCCAACGTCCTAGATGT
50421990 GGTCTTACACATAAATCATAAGTCAACGCCAACGTCCTAGATGT
1 GGTCTTACACATAAATCATAAGTCAACGCCAACGTCCTAGATGT
50422034 GGTCTTACA
1 GGTCTTACA
50422043 TGATAACACA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
42 11 0.24
43 6 0.13
44 28 0.61
45 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (44 bp):
GGTCTTACACATAAATCATAAGTCAACGCCAACGTCCTAGATGT
Found at i:50436788 original size:19 final size:19
Alignment explanation
Indices: 50436764--50436802 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
50436754 CTTTAGACCA
50436764 TATTTAGACAGATTTTTTT
1 TATTTAGACAGATTTTTTT
50436783 TATTTAGACAGATTTTTTT
1 TATTTAGACAGATTTTTTT
50436802 T
1 T
50436803 GTATTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.59
Consensus pattern (19 bp):
TATTTAGACAGATTTTTTT
Found at i:50442766 original size:30 final size:30
Alignment explanation
Indices: 50442711--50442870 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
50442701 ATAGTGAATC
50442711 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50442740 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50442770 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
50442799 CGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
50442827 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50442857 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50442871 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 47 0.39
30 47 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:50442803 original size:59 final size:57
Alignment explanation
Indices: 50442711--50442870 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
50442701 ATAGTGAATC
*
50442711 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
*
50442770 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
50442827 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
50442871 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 49 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:50450694 original size:30 final size:30
Alignment explanation
Indices: 50450639--50450798 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
50450629 ATAGTGAATC
50450639 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50450668 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50450698 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
50450727 CGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
50450755 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50450785 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50450799 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 47 0.39
30 47 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:50450731 original size:59 final size:57
Alignment explanation
Indices: 50450639--50450798 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
50450629 ATAGTGAATC
*
50450639 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
*
50450698 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
50450755 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
50450799 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 49 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:50463915 original size:28 final size:27
Alignment explanation
Indices: 50463852--50463921 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
50463842 ATAGTGAGTC
50463852 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
50463879 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
50463907 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50463922 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:50471740 original size:28 final size:27
Alignment explanation
Indices: 50471677--50471746 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
50471667 ATAGTGAGTC
50471677 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
50471704 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
50471732 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50471747 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:50478573 original size:25 final size:25
Alignment explanation
Indices: 50478545--50478596 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
50478535 ATACTGGATC
50478545 GTGATGTAAAGGTTTTAAGGAAAAA
1 GTGATGTAAAGGTTTTAAGGAAAAA
50478570 GTGATGTAAAGGTTTTAAGGAAAAA
1 GTGATGTAAAGGTTTTAAGGAAAAA
50478595 GT
1 GT
50478597 CTATCCCACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (25 bp):
GTGATGTAAAGGTTTTAAGGAAAAA
Found at i:50480483 original size:27 final size:27
Alignment explanation
Indices: 50480434--50480486 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
50480424 ACCCCGTAAT
*
50480434 TGATAAAATAACTAAAATGCCCCTATA
1 TGATAAAATAACTAAAATACCCCTATA
* **
50480461 TGATAAAATGACTATTATACCCCTAT
1 TGATAAAATAACTAAAATACCCCTAT
50480487 GAGATGTATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (27 bp):
TGATAAAATAACTAAAATACCCCTATA
Found at i:50483392 original size:17 final size:17
Alignment explanation
Indices: 50483370--50483411 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
50483360 ATTTTCATAC
50483370 GAGCTTACTAAGCTTTA
1 GAGCTTACTAAGCTTTA
50483387 GAGCTTACTAAGCTTTA
1 GAGCTTACTAAGCTTTA
*
50483404 TAGCTTAC
1 GAGCTTAC
50483412 ATTATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (17 bp):
GAGCTTACTAAGCTTTA
Found at i:50487648 original size:40 final size:40
Alignment explanation
Indices: 50487538--50487744 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
50487528 GGATTGATAC
* *
50487538 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
50487578 TCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50487617 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50487657 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
50487697 CTGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
50487737 CC-GGCTAA
1 CCGGGCTAA
50487745 ACTCCGAAGG
Statistics
Matches: 152, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 42 0.28
40 110 0.72
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:50487752 original size:119 final size:119
Alignment explanation
Indices: 50487538--50487754 Score: 307
Period size: 119 Copynumber: 1.8 Consensus size: 119
50487528 GGATTGATAC
* ** *
50487538 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACTCGGGCTAAGCCCGAAGGCATTTGA
*
50487603 GCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
66 GCGAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTACGAGTTACTATAT
*
50487657 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACT-GGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-AACTCGGGCTAAG-CCCGAAGGCATTT
*
50487721 GAGCTAG-TAGCTATATCC-GGCTAAACT-CCGAAGG
64 GAGCGAGTTA-CTATATCCGGGCT-AACTCCCGAAGG
50487755 TACTTGGTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
119 56 0.64
120 31 0.36
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACTCGGGCTAAGCCCGAAGGCATTTGA
GCGAGTTACTATATCCGGGCTAACTCCCGAAGGCATTTGTACGAGTTACTATAT
Found at i:50492835 original size:42 final size:44
Alignment explanation
Indices: 50492732--50492884 Score: 132
Period size: 43 Copynumber: 3.5 Consensus size: 44
50492722 TGTTATCGTG
** * * * * *
50492732 TAAGACCACATCTGGGACGTTGGCATCGATTTGTGATTTATGTG
1 TAAGACCATGTCTGGGACATTGGCATCGATATATGATTTACGTA
50492776 TAAGACCATGTCTGGGACATTGGCATCG-TATATGATTT-CGTA
1 TAAGACCATGTCTGGGACATTGGCATCGATATATGATTTACGTA
* * * * * * *
50492818 TAAGACCCTGTCTGGGACAGTGGCTTCAATATTTGA-TTACATG
1 TAAGACCATGTCTGGGACATTGGCATCGATATATGATTTACGTA
* * *
50492861 TAAGACCACGTTTGGGACGTTGGC
1 TAAGACCATGTCTGGGACATTGGC
50492885 GTTGTATGAG
Statistics
Matches: 88, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
42 28 0.32
43 35 0.40
44 25 0.28
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (44 bp):
TAAGACCATGTCTGGGACATTGGCATCGATATATGATTTACGTA
Found at i:50495368 original size:40 final size:40
Alignment explanation
Indices: 50495309--50495516 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
50495299 CAATTGAATG
* * * *
50495309 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
50495349 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
50495389 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * *
50495429 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
50495469 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
50495509 ATATCCGG
1 ATATCCGG
50495517 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
39 2 0.01
40 134 0.97
41 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:50495447 original size:80 final size:80
Alignment explanation
Indices: 50495311--50495516 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
50495301 ATTGAATGAT
* * ** * * *
50495311 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
* *
50495375 TTGTGCTAGTGA-CCAC
65 TTGTGCAAGTCATCC-C
* * *
50495391 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
* *
50495456 TGTGCAAGTCATTCT
66 TGTGCAAGTCATCCC
* *
50495471 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
50495517 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 104 0.97
81 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCATCCC
Found at i:50498973 original size:24 final size:24
Alignment explanation
Indices: 50498941--50499278 Score: 588
Period size: 24 Copynumber: 14.1 Consensus size: 24
50498931 GCAAAGACCA
50498941 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
50498965 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
50498989 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
50499013 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
50499037 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
50499061 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
50499085 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
50499109 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
50499133 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
50499157 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
50499181 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
50499205 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
50499229 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
50499253 TATAGCACTATGTGTGC-ATTTGC
1 TATGGCACTATGTGTGCGATTTAC
50499276 TAT
1 TAT
50499279 AGTCACATTC
Statistics
Matches: 306, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
23 9 0.03
24 297 0.97
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:50507362 original size:24 final size:24
Alignment explanation
Indices: 50507046--50507360 Score: 549
Period size: 24 Copynumber: 13.1 Consensus size: 24
50507036 GCAAAGACCA
50507046 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
50507070 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
50507094 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
50507118 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
50507142 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
50507166 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
50507190 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
50507214 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
50507238 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
50507262 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
50507286 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
50507310 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
50507334 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
50507358 TAT
1 TAT
50507361 AGTCACATTC
Statistics
Matches: 285, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 285 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:50510458 original size:21 final size:21
Alignment explanation
Indices: 50510398--50510458 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
50510388 CCCTTGAAAC
*
50510398 AGGGC-ACACGCCCGTATGGA
1 AGGGCAACACGCCCGTGTGGA
*
50510418 AGGGCAACACGCCTGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
* *
50510439 AGGGGAACACGCCCGCGTGG
1 AGGGCAACACGCCCGTGTGG
50510459 CCACTATGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
20 5 0.14
21 30 0.86
ACGTcount: A:0.23, C:0.28, G:0.39, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:50510894 original size:23 final size:24
Alignment explanation
Indices: 50510864--50510912 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
50510854 CGACTGACCG
*
50510864 TGTGTCACACACGG-CTAGACACA
1 TGTGTCACACACGGCCTACACACA
*
50510887 TGTGTCACACATGGCCTACACACA
1 TGTGTCACACACGGCCTACACACA
50510911 TG
1 TG
50510913 CCCGTGTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (24 bp):
TGTGTCACACACGGCCTACACACA
Found at i:50511890 original size:46 final size:46
Alignment explanation
Indices: 50511798--50511962 Score: 158
Period size: 46 Copynumber: 3.6 Consensus size: 46
50511788 TACGTAGCCG
*
50511798 ATGCATGTCCCAGACAT-TCTTACACTGGCT-TACATCTCGAGCCCA
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCAAGCCCA
* * *
50511843 ATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATG-CCA
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAA-GCCCA
* * ** * *
50511889 ATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAAT-GTGGCCG
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCAAGCCCA
*
50511937 ATGCATGTCCCAGATATGTCTTACAC
1 ATGCATGTCCCAGACATGTCTTACAC
50511963 CAGCACACAA
Statistics
Matches: 99, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
45 16 0.16
46 32 0.32
47 29 0.29
48 21 0.21
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGCCCA
Found at i:50513860 original size:40 final size:39
Alignment explanation
Indices: 50513815--50514022 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
50513805 CGGAATACAA
*
50513815 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
50513855 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
50513895 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
50513935 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
50513975 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
50514015 CCGGATAT
1 CCGGATAT
50514023 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:50513955 original size:80 final size:81
Alignment explanation
Indices: 50513815--50514020 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
50513805 CGGAATACAA
* * *
50513815 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
50513879 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
50513895 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
50513958 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
50513975 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
50514021 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:50521285 original size:40 final size:40
Alignment explanation
Indices: 50521240--50521447 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
50521230 CGGAATACAA
*
50521240 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
50521280 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
50521320 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
50521360 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTCAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** * ** * * *
50521400 CCGGATATAATTACTAGCATAAATGTCTTCAGGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
50521440 CCGGATAT
1 CCGGATAT
50521448 CATTCAATTG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:50526807 original size:80 final size:80
Alignment explanation
Indices: 50526695--50526876 Score: 193
Period size: 80 Copynumber: 2.3 Consensus size: 80
50526685 GCTCGATTGT
* * *** * * * **
50526695 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTACCTTCGGGTCTTAACCCGAATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATACCTTCGGGTCTTAACCCGAATATAAT
*
50526760 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* * * * *
50526775 CTTCGGGTCTTAGCCCGGATATAACAACTCGCATGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATACCTTCGGGTCTTAACCCGAATATAAT
* * *
50526840 TACTAGCATAATTGC
66 AACTAGCACAAATGC
50526855 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
50526877 CATTCCAATG
Statistics
Matches: 82, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATACCTTCGGGTCTTAACCCGAATATAAT
AACTAGCACAAATGC
Found at i:50526814 original size:40 final size:39
Alignment explanation
Indices: 50526770--50526876 Score: 160
Period size: 40 Copynumber: 2.7 Consensus size: 39
50526760 AACTTGCACA
*
50526770 AATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAT
1 AATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAT
**
50526809 GAATGCCTTCGGGTCTTAGCCCGGATATAATTACTAGCAT
1 -AATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAT
*
50526849 AATTGCCTTCGGGACTTAGCCCGGATAT
1 AA-TGCCTTCGGGTCTTAGCCCGGATAT
50526877 CATTCCAATG
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
39 2 0.03
40 60 0.97
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.28
Consensus pattern (39 bp):
AATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAT
Found at i:50533015 original size:48 final size:46
Alignment explanation
Indices: 50532649--50533018 Score: 145
Period size: 48 Copynumber: 7.8 Consensus size: 46
50532639 GTATAATACG
* * **
50532649 GATGCCATGTCCCAGACAAGGTCTTACAGTGGCTCATCCATC-AA-GTA
1 GATGCCATGT-CCAGACATGGTCTTACACTGGCTC-T-CATCTAATGCC
* ** * *** *
50532696 GATGCCATGTCCCAGACATGGTCCTACACTAACTATCAAAAACGAGGCC
1 GATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCATCTA--ATGCC
** * * *
50532745 GACACCATGTCCCAGACATGGTCTTAGACTAGCTCTCA-C-ATATCCGTACT
1 GATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCATCTA-AT--G--CC
* * * *
50532795 GATGCCATGTCCCAGACATGGTCTTACACTGACGC-CT-TTATAAGTACT
1 GATGCCATGT-CCAGACATGGTCTTACACTG--GCTCTCATCTAA-TGCC
* * *
50532843 GATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTAGTAGCC
1 GATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCATCTAAT-GCC
* * * * * *
50532889 AATG-CATGTCCCGCCAT-GTCTTGCACTGGCT-TACATCTCGAGGCC
1 GATGCCATGTCCAGACATGGTCTTACACTGGCTCT-CATCT-AATGCC
* * *
50532934 AATG-CATGTTCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCCATG-TCCAGACATGGTCTTACACTGGCTCTCATCT-AATGCC
50532980 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCAT
1 GATGCCATGTCC-AGACATGGTCTTACACTGGCTCTCAT
50533019 AATGTGGCCG
Statistics
Matches: 246, Mismatches: 52, Indels: 49
0.71 0.15 0.14
Matches are distributed among these distances:
43 9 0.04
44 7 0.03
45 26 0.11
46 44 0.18
47 41 0.17
48 51 0.21
49 33 0.13
50 28 0.11
51 3 0.01
52 4 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (46 bp):
GATGCCATGTCCAGACATGGTCTTACACTGGCTCTCATCTAATGCC
Found at i:50533029 original size:48 final size:46
Alignment explanation
Indices: 50532649--50533055 Score: 205
Period size: 47 Copynumber: 8.7 Consensus size: 46
50532639 GTATAATACG
* * *
50532649 GATGCCATGTCCCAGACAAGGTCTTACAGTGGCTCATCCATCAAGT--A
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-AAGTGCC
* ** * * *
50532696 GATGCCATGTCCCAGACATGGTCCTACACTAACTATCAAAAACGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATAA-G-TGCC
** * * * * *
50532745 GACACCATGTCCCAGACATGGTCTTAGACTAGCTCTCACATATCCGTACT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATA--AGTGCC
* * *
50532795 GATGCCATGTCCCAGACATGGTCTTACACTGACGC-CTTTATAAGTACT
1 GATGCCATGTCCCAGACATGGTCTTACACTG--GCTC-TCATAAGTGCC
* *
50532843 GATGCCATGTCCCAGACATGGTCTTACACTGACACATC-T-AGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAAGT-GCC
* * * *
50532889 AATG-CATGTCCC-GCCAT-GTCTTGCACTGGCT-TACATCTCGAG-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CA--T-AAGTGCC
* * * *
50532934 AATG-CATGTTCCAGACAT-GTCTTACACTAGCTCTCGTCTCAA-TGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--AT-AAGTGCC
*
50532980 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAA-GT-GCC
* *
50533028 GAT-ACATGTCCCAGGCAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
50533056 AGCATACTAG
Statistics
Matches: 280, Mismatches: 50, Indels: 61
0.72 0.13 0.16
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
43 11 0.04
44 4 0.01
45 31 0.11
46 46 0.16
47 59 0.21
48 58 0.21
49 30 0.11
50 33 0.12
51 3 0.01
52 3 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGTGCC
Found at i:50535813 original size:28 final size:28
Alignment explanation
Indices: 50535773--50535828 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
50535763 TAGTCCCTGG
50535773 GCTAGCTAAATTAAACTACAACTATCTC
1 GCTAGCTAAATTAAACTACAACTATCTC
50535801 GCTAGCTAAATTAAACTACAACTATCTC
1 GCTAGCTAAATTAAACTACAACTATCTC
50535829 AAAAACATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.29
Consensus pattern (28 bp):
GCTAGCTAAATTAAACTACAACTATCTC
Found at i:50537192 original size:31 final size:31
Alignment explanation
Indices: 50537151--50537214 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
50537141 CCTTTTCATA
*
50537151 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
50537182 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
50537213 TT
1 TT
50537215 ACGGTAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:50537459 original size:24 final size:24
Alignment explanation
Indices: 50537407--50537596 Score: 287
Period size: 24 Copynumber: 8.0 Consensus size: 24
50537397 GCTTTATCAT
* *
50537407 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* *
50537432 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTG
50537456 ATAACTGGGGCATAAGCCC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTG
50537479 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
50537503 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
50537527 ATAATTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
50537551 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
50537574 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
50537597 TCACTTCCTC
Statistics
Matches: 154, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
23 44 0.29
24 98 0.64
25 12 0.08
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:50537487 original size:47 final size:48
Alignment explanation
Indices: 50537406--50537597 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 48
50537396 TGCTTTATCA
* *
50537406 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
50537455 TATAACTGGGGCATAAGCCC-TTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* * *
50537502 GATAACTGGGGCATAAGCCCTTTTGATAATTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
50537550 GATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
50537597 T
1 T
50537598 CACTTCCTCC
Statistics
Matches: 133, Mismatches: 8, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
47 69 0.52
48 51 0.38
49 13 0.10
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:50537508 original size:71 final size:72
Alignment explanation
Indices: 50537407--50537597 Score: 298
Period size: 71 Copynumber: 2.7 Consensus size: 72
50537397 GCTTTATCAT
* *
50537407 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAA
50537471 GCCC-TTTG
64 GCCCTTTTG
* * *
50537479 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAATTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
50537544 CCTTTTG
66 CCTTTTG
50537551 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
50537598 CACTTCCTCC
Statistics
Matches: 110, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
71 75 0.68
72 35 0.32
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTG
Found at i:50537668 original size:9 final size:9
Alignment explanation
Indices: 50537654--50537730 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
50537644 ATCTCGTGTG
50537654 CATATCATA
1 CATATCATA
*
50537663 CATATCATGTG
1 CATATCA--TA
50537674 CATATCATA
1 CATATCATA
* *
50537683 CATGTCATGTG
1 CATATCA--TA
50537694 CATATCATA
1 CATATCATA
*
50537703 CATATCATGTG
1 CATATCA--TA
50537714 CATATCATA
1 CATATCATA
50537723 CATATCAT
1 CATATCAT
50537731 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:50537673 original size:20 final size:20
Alignment explanation
Indices: 50537650--50537732 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
50537640 GAACATCTCG
50537650 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
50537670 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
50537690 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
50537710 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
50537730 TGT
1 TGT
50537733 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:50537679 original size:11 final size:11
Alignment explanation
Indices: 50537650--50537721 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
50537640 GAACATCTCG
50537650 TGTGCATATCA
1 TGTGCATATCA
*
50537661 --TACATATCA
1 TGTGCATATCA
50537670 TGTGCATATCA
1 TGTGCATATCA
* *
50537681 --TACATGTCA
1 TGTGCATATCA
50537690 TGTGCATATCA
1 TGTGCATATCA
*
50537701 --TACATATCA
1 TGTGCATATCA
50537710 TGTGCATATCA
1 TGTGCATATCA
50537721 T
1 T
50537722 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:50539069 original size:27 final size:27
Alignment explanation
Indices: 50539056--50539584 Score: 458
Period size: 27 Copynumber: 19.6 Consensus size: 27
50539046 AGGGTATTTT
*
50539056 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCAAGGGTAAAAC
*
50539083 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTTTGTAAATCAAGGGTAAAAC
* *
50539110 AGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCAAGGGTAAAAC
* ** *
50539137 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTTTGTAAATCAAGGGTAAAAC
* * * * * *
50539164 GGTAATTATATAAATTAGGGGTAAAAT
1 AGTAATTTTGTAAATCAAGGGTAAAAC
* * * * *
50539191 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTTTGTAAATCAAGGGTAAAAC
* *
50539218 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTTTGTAAATC-AAGGGTAAAAC
* * *
50539245 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCAAGGGTAAAAC
* ** *
50539272 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCAAGGGTAAAAC
* * * *
50539299 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCAAGGGTAAAAC
*
50539326 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTTTGTAAATCAAGGGTAAAAC
* * *
50539353 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTTTGTAAATC-AAGGGTAAAAC
* * *
50539380 AGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTTTGTAAATCAAGGGTAAAAC
* *
50539407 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTTTGTAAATC-AAGGGTAAAAC
* * *
50539434 AGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTTTGTAAATCAAGGGTAAAAC
* *
50539461 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTTTGTAAATC-AAGGGTAAAAC
* * *
50539488 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCAAGGGTAAAAC
** *
50539515 AGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCAAGGGTAAAAC
* *
50539542 AGTAATTCTATAAA-CTAAGGGTAAAAC
1 AGTAATTTTGTAAATC-AAGGGTAAAAC
* *
50539569 GGTAATTCTGTAAATC
1 AGTAATTTTGTAAATC
50539585 GGGAGTACTT
Statistics
Matches: 448, Mismatches: 42, Indels: 23
0.87 0.08 0.04
Matches are distributed among these distances:
26 6 0.01
27 436 0.97
28 6 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTTTGTAAATCAAGGGTAAAAC
Found at i:50539088 original size:54 final size:54
Alignment explanation
Indices: 50539056--50539585 Score: 669
Period size: 54 Copynumber: 9.8 Consensus size: 54
50539046 AGGGTATTTT
* *
50539056 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
* * *
50539110 AGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGTAAATCGGGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAAC
* * * * ** * *
50539164 GGTAATTATATAAAT-TAGGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGA-GGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
*
50539218 AGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
* * ** * *
50539272 GGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
* *
50539326 AGTAATTCTGTAAATCAAGGGTAAAACAATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAAC
*
50539380 AGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAAC
*
50539434 AGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAAC
* * **
50539488 GGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
* * *
50539542 AGTAATTCTATAAA-CTAAGGGTAAAACGGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTGTAAATCG
50539586 GGAGTACTTT
Statistics
Matches: 419, Mismatches: 48, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
53 4 0.01
54 411 0.98
55 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:50539585 original size:81 final size:81
Alignment explanation
Indices: 50539056--50539585 Score: 678
Period size: 81 Copynumber: 6.5 Consensus size: 81
50539046 AGGGTATTTT
* * * *
50539056 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTGT
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTAT
50539121 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * * * * * **
50539137 -GATAATTATGTAAATCGGGGGTAAAATGGTAATTATATAAAT-TAGGGGTAAAATGGTAATTCT
1 AG-TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGA-GGGTAAAACAGTAATTCT
*
50539200 ATAAATCGAGGGTAAAAT
64 ATAAATCGAGGGTAAAAC
* *
50539218 AGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTA
1 AGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTA
*
50539282 CAAATCGAGGGTAAAAC
65 TAAATCGAGGGTAAAAC
* * * * * *
50539299 GGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAATAATTCTGT
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTAT
50539364 AAA-CTGAGGGTAAAAC
66 AAATC-GAGGGTAAAAC
** *
50539380 AGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAACAGTAATTCTG
1 AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTA
*
50539444 TAAATCGAGGGTAAAAT
65 TAAATCGAGGGTAAAAC
*
50539461 AGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTA
1 AGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTA
*
50539525 CAAATCGAGGGTAAAAC
65 TAAATCGAGGGTAAAAC
* *
50539542 AGTAATTCTATAAA-CTAAGGGTAAAACGGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCG
50539586 GGAGTACTTT
Statistics
Matches: 394, Mismatches: 44, Indels: 22
0.86 0.10 0.05
Matches are distributed among these distances:
80 6 0.02
81 383 0.97
82 5 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
AGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTAT
AAATCGAGGGTAAAAC
Found at i:50547651 original size:24 final size:24
Alignment explanation
Indices: 50547624--50547671 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
50547614 TGGTGAATAT
*
50547624 ATATATG-AGGTTATGGTATGGTTA
1 ATATATGTAGGCT-TGGTATGGTTA
*
50547648 ATATATGTATGCTTGGTATGGTTA
1 ATATATGTAGGCTTGGTATGGTTA
50547672 GATTGAAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.44
Consensus pattern (24 bp):
ATATATGTAGGCTTGGTATGGTTA
Found at i:50548459 original size:43 final size:42
Alignment explanation
Indices: 50548400--50548571 Score: 150
Period size: 43 Copynumber: 4.0 Consensus size: 42
50548390 GTTATAATAC
* *
50548400 TAGCACACACAATGCATCATCGAATAAATAAAAGCAATTATA
1 TAGCACACACAGTGCATCATCGAATAAATCAAAGCAATTATA
* * * *
50548442 TAAGCACACATAGTGCATCATC-AGATAAATCGAAGGAAATATA
1 T-AGCACACACAGTGCATCATCGA-ATAAATCAAAGCAATTATA
* * * * *
50548485 CTGGCACACATAGTGCATCATCGGACAAGA-CAAAGCAATTATGT
1 -TAGCACACACAGTGCATCATCGAATAA-ATCAAAGCAATTAT-A
* * **
50548529 TAGCACACACAGTACATCATCAAATAAATTGAAGCAATTATA
1 TAGCACACACAGTGCATCATCGAATAAATCAAAGCAATTATA
50548571 T
1 T
50548572 TGCCACATAC
Statistics
Matches: 101, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
42 4 0.04
43 95 0.94
44 2 0.02
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (42 bp):
TAGCACACACAGTGCATCATCGAATAAATCAAAGCAATTATA
Found at i:50548494 original size:86 final size:86
Alignment explanation
Indices: 50548396--50548592 Score: 216
Period size: 86 Copynumber: 2.3 Consensus size: 86
50548386 GAGTGTTATA
* * * *
50548396 ATACTAGCACACACAATGCATCATCGAATAA-ATAAAAGCAATTATATAAGCACACATAGTGCAT
1 ATACTGGCACACACAATGCATCATCGAACAAGA-AAAAGCAATTATATAAGCACACACAGTACAT
* *
50548460 CATCAGATAAATCGAAGGAAAT
65 CATCAAATAAATCGAAGCAAAT
* * * * * *
50548482 ATACTGGCACACATAGTGCATCATCGGACAAGACAAAGCAATTATGTTAGCACACACAGTACATC
1 ATACTGGCACACACAATGCATCATCGAACAAGAAAAAGCAATTATATAAGCACACACAGTACATC
* *
50548547 ATCAAATAAATTGAAGCAATT
66 ATCAAATAAATCGAAGCAAAT
* * * *
50548568 ATATTGCCACATACAATACATCATC
1 ATACTGGCACACACAATGCATCATC
50548593 AGATATTTCT
Statistics
Matches: 90, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
86 89 0.99
87 1 0.01
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.22
Consensus pattern (86 bp):
ATACTGGCACACACAATGCATCATCGAACAAGAAAAAGCAATTATATAAGCACACACAGTACATC
ATCAAATAAATCGAAGCAAAT
Found at i:50550533 original size:16 final size:16
Alignment explanation
Indices: 50550512--50550558 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
50550502 GGGGTGAATA
50550512 GAATAGGACTGTAATG
1 GAATAGGACTGTAATG
*
50550528 GAATA-GAGTTGTAATG
1 GAATAGGA-CTGTAATG
*
50550544 GAATAGAACTGTAAT
1 GAATAGGACTGTAAT
50550559 CAGTAATTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 2 0.08
16 23 0.88
17 1 0.04
ACGTcount: A:0.40, C:0.04, G:0.28, T:0.28
Consensus pattern (16 bp):
GAATAGGACTGTAATG
Found at i:50552738 original size:40 final size:40
Alignment explanation
Indices: 50552661--50552878 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
50552651 AAACCAAGTA
* *
50552661 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
50552700 CCTTCGGGACTTAGCCTGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
50552740 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
50552780 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
50552820 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
50552860 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
50552879 TTATCATTCG
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 15 0.09
40 149 0.91
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:50557978 original size:14 final size:14
Alignment explanation
Indices: 50557949--50557984 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
50557939 TCCATTTTCC
50557949 TTCTCTTTTTTTTT
1 TTCTCTTTTTTTTT
*
50557963 TTCTTTTTTTTCTTT
1 TTCTCTTTTTT-TTT
50557978 TTCTCTT
1 TTCTCTT
50557985 ACAGTGTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTCTCTTTTTTTTT
Found at i:50560874 original size:16 final size:16
Alignment explanation
Indices: 50560843--50560879 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
50560833 ATGTGAATAA
50560843 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
50560859 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
50560875 TATTA
1 TATTA
50560880 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:50560939 original size:22 final size:22
Alignment explanation
Indices: 50560905--50560946 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
50560895 ATTAAATAAA
50560905 TTATTAAAATAATAAATTATAT
1 TTATTAAAATAATAAATTATAT
* * *
50560927 TTATTATATTAATAATTTAT
1 TTATTAAAATAATAAATTAT
50560947 TATATGACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATTAAAATAATAAATTATAT
Found at i:50565888 original size:30 final size:31
Alignment explanation
Indices: 50565814--50565888 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
50565804 GATTATCAGC
*
50565814 TAATGAAAAAGGATAGCTTCGGCTATTAAAA
1 TAATGAAAAGGGATAGCTTCGGCTATTAAAA
*
50565845 TAATGAAAAGGGATAGGC-TCGGCTA-TCAAA
1 TAATGAAAAGGGATA-GCTTCGGCTATTAAAA
* *
50565875 TTATGAGAAGGGAT
1 TAATGAAAAGGGAT
50565889 GGTGACAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
30 16 0.41
31 21 0.54
32 2 0.05
ACGTcount: A:0.41, C:0.09, G:0.25, T:0.24
Consensus pattern (31 bp):
TAATGAAAAGGGATAGCTTCGGCTATTAAAA
Done.