Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 172 of 378
Found at i:50072764 original size:66 final size:68
Alignment explanation
Indices: 50072688--50072874 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
50072678 TAGTACCACT
*
50072688 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
50072750 CACG
65 CACG
50072754 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
50072819 ATCACG
63 ATCACG
50072825 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
50072875 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:50072799 original size:71 final size:71
Alignment explanation
Indices: 50072711--50072874 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
50072701 CGATTTGTCT
50072711 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
50072776 CTTTCA
66 CTTTCA
50072782 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
50072847 CTTTCA
66 CTTTCA
50072853 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
50072875 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:50072912 original size:71 final size:70
Alignment explanation
Indices: 50072711--50072908 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
50072701 CGATTTGTCT
* * *
50072711 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
50072776 CTTTCA
65 CTTTCA
* * *
50072782 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
50072847 CTTTCA
65 CTTTCA
* *
50072853 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
50072909 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:50080329 original size:66 final size:68
Alignment explanation
Indices: 50080253--50080439 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
50080243 TAGTACCACT
*
50080253 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
50080315 CACG
65 CACG
50080319 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
50080384 ATCACG
63 ATCACG
50080390 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
50080440 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:50080364 original size:71 final size:71
Alignment explanation
Indices: 50080276--50080439 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
50080266 CGATTTGTCT
50080276 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
50080341 CTTTCA
66 CTTTCA
50080347 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
50080412 CTTTCA
66 CTTTCA
50080418 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
50080440 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:50080477 original size:71 final size:70
Alignment explanation
Indices: 50080276--50080473 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
50080266 CGATTTGTCT
* * *
50080276 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
50080341 CTTTCA
65 CTTTCA
* * *
50080347 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
50080412 CTTTCA
65 CTTTCA
* *
50080418 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
50080474 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:50087869 original size:21 final size:21
Alignment explanation
Indices: 50087845--50087896 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
50087835 GTAGCTCATT
50087845 GGGCCCAATTTTAGCCTATCG
1 GGGCCCAATTTTAGCCTATCG
50087866 GGGCCCAATTTTAGCCTATCG
1 GGGCCCAATTTTAGCCTATCG
*
50087887 TGGCCCAATT
1 GGGCCCAATT
50087897 ATCGAAGTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.19, C:0.29, G:0.23, T:0.29
Consensus pattern (21 bp):
GGGCCCAATTTTAGCCTATCG
Found at i:50097758 original size:79 final size:82
Alignment explanation
Indices: 50097618--50097802 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
50097608 TCGAATGATG
* * *
50097618 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAGACCCGGACTAAGATCCGAAGGCATT
*
50097682 CGTGCCAGTTAATA-AA
66 CGTGCCAGTCAATATAA
* **
50097698 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAGACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAGACCCGGACTAAGAT-CCGAAGGCAT
* *
50097760 TCGTGCGAGTCACTATAA
65 TCGTGCCAGTCAATATAA
**
50097778 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
50097803 AGCGAGTCGT
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.61
80 34 0.38
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAGACCCGGACTAAGATCCGAAGGCATT
CGTGCCAGTCAATATAA
Found at i:50097782 original size:40 final size:40
Alignment explanation
Indices: 50097619--50097802 Score: 169
Period size: 40 Copynumber: 4.6 Consensus size: 40
50097609 CGAATGATGT
* *
50097619 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCACTATAA
* * * * * *
50097659 CCGGACTAGGAT-CCGAAGGCATTCGTGCCAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCACTATAA
* * *
50097698 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAGAC
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCACTATAA
* * *
50097738 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCACTATAA
**
50097778 CCGGGCTTCGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
50097803 AGCGAGTCGT
Statistics
Matches: 115, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
39 32 0.28
40 76 0.66
41 7 0.06
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCACTATAA
Found at i:50106103 original size:21 final size:22
Alignment explanation
Indices: 50106079--50106119 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
50106069 ATATTAACAC
50106079 AAGGGC-ACACATCCGTGTGGG
1 AAGGGCAACACATCCGTGTGGG
*
50106100 AAGGGCAACACGTCCGTGTG
1 AAGGGCAACACATCCGTGTG
50106120 ACATTTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.24, C:0.24, G:0.37, T:0.15
Consensus pattern (22 bp):
AAGGGCAACACATCCGTGTGGG
Found at i:50112314 original size:66 final size:68
Alignment explanation
Indices: 50112236--50112422 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
50112226 TAGTACCACT
*
50112236 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
50112298 CACG
65 CACG
50112302 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
50112367 ATCACG
63 ATCACG
50112373 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
50112423 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:50112347 original size:71 final size:71
Alignment explanation
Indices: 50112259--50112422 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
50112249 CGATTTGTCT
50112259 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
50112324 CTTTCA
66 CTTTCA
50112330 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
50112395 CTTTCA
66 CTTTCA
50112401 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
50112423 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:50112460 original size:71 final size:70
Alignment explanation
Indices: 50112259--50112456 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
50112249 CGATTTGTCT
* * * *
50112259 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
50112324 CTTTCA
65 CTTTCA
* * * *
50112330 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
50112395 CTTTCA
65 CTTTCA
* *
50112401 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
50112457 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:50115022 original size:2 final size:2
Alignment explanation
Indices: 50115015--50115052 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
50115005 TCATCTACAC
50115015 AT AT AT AT -T CAT 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
50115053 CATTCTTTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 32 0.94
3 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50119996 original size:40 final size:40
Alignment explanation
Indices: 50119922--50120067 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
50119912 CCGCACCAAG
* * * * * *
50119922 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
50119962 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
50120002 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
50120042 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
50120068 TTTCACAAAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:50132898 original size:24 final size:24
Alignment explanation
Indices: 50132868--50133134 Score: 462
Period size: 24 Copynumber: 11.1 Consensus size: 24
50132858 GAATGTGACT
* *
50132868 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
50132892 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
50132916 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
50132940 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
50132964 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
50132988 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
50133012 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
50133036 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
50133060 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
50133084 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
50133108 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
50133132 ATA
1 ATA
50133135 TGGTCTTTGC
Statistics
Matches: 236, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 236 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:50140482 original size:25 final size:25
Alignment explanation
Indices: 50140442--50140516 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
50140432 TCGTCAATTT
50140442 CTATACAT--GTAAGCTCATACGAG
1 CTATACATCGGTAAGCTCATACGAG
* *
50140465 CTATTA-ATTGGTATGCTC-TCACGAG
1 CTA-TACATCGGTAAGCTCAT-ACGAG
* *
50140490 TTATACATCGGTAAGCTCATATGAG
1 CTATACATCGGTAAGCTCATACGAG
50140515 CT
1 CT
50140517 GAGAATTGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
23 5 0.12
24 5 0.12
25 29 0.73
26 1 0.03
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (25 bp):
CTATACATCGGTAAGCTCATACGAG
Found at i:50140527 original size:25 final size:25
Alignment explanation
Indices: 50140499--50140577 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
50140489 GTTATACATC
50140499 GGTAAGCTCATATGAGCTGAGAATT
1 GGTAAGCTCATATGAGCTGAGAATT
*
50140524 GGTAAGCTC-TCATGAGCTG-CAATT
1 GGTAAGCTCAT-ATGAGCTGAGAATT
* ** *
50140548 GGTAATCTCATACAAGCTGAGAATC
1 GGTAAGCTCATATGAGCTGAGAATT
50140573 GGTAA
1 GGTAA
50140578 TGTAACACCC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
24 19 0.42
25 26 0.58
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (25 bp):
GGTAAGCTCATATGAGCTGAGAATT
Found at i:50145691 original size:46 final size:46
Alignment explanation
Indices: 50145641--50145810 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 46
50145631 TTGAGCATCT
*
50145641 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCC
* * * * *
50145687 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCATTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--ATG--TCC
* * *
50145734 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCC
** * *
50145780 GAGGTCATTGAGTTGAGTTCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
50145811 GGGCGGGTTA
Statistics
Matches: 98, Mismatches: 19, Indels: 14
0.75 0.15 0.11
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 53 0.54
47 27 0.28
48 4 0.04
50 5 0.05
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCC
Found at i:50150363 original size:26 final size:27
Alignment explanation
Indices: 50150324--50150386 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
50150314 TGGATAAGTT
50150324 GTAGAATTACCAAAATA-CCCTGTAGG
1 GTAGAATTACCAAAATACCCCTGTAGG
*
50150350 GTAGAATTATCAAAATACCCCTGTAGG
1 GTAGAATTACCAAAATACCCCTGTAGG
50150377 GTAGAATTAC
1 GTAGAATTAC
50150387 GAGATAACCT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 16 0.47
27 18 0.53
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCAAAATACCCCTGTAGG
Found at i:50151108 original size:27 final size:26
Alignment explanation
Indices: 50151064--50151115 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
50151054 CGCGCTGCAA
*
50151064 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
50151091 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
50151116 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:50156940 original size:27 final size:27
Alignment explanation
Indices: 50156902--50156993 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
50156892 TGGATAAGTT
50156902 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
50156929 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
50156956 ATAGAATTACCGAGATACCCTTGT-GG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
50156982 GTTAAAATTACC
1 G-TAGAATTACC
50156994 ATTTTCCCCT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.03
27 56 0.97
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:50158683 original size:93 final size:93
Alignment explanation
Indices: 50158571--50158742 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
50158561 GCCCATAAGT
* *
50158571 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50158636 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
50158664 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50158729 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
50158743 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:50158738 original size:46 final size:46
Alignment explanation
Indices: 50158563--50158738 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
50158553 TGTAACCCGC
* * *
50158563 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
50158609 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
50158659 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
50158702 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
50158739 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:50161167 original size:30 final size:30
Alignment explanation
Indices: 50161123--50161211 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
50161113 CAAAGATAAC
50161123 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
50161152 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
50161182 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
50161212 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:50161171 original size:15 final size:15
Alignment explanation
Indices: 50161123--50161202 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
50161113 CAAAGATAAC
*
50161123 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
50161137 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
50161152 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
50161167 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
50161182 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
50161197 AAGAAA
1 AAGAAA
50161203 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:50161211 original size:15 final size:15
Alignment explanation
Indices: 50161134--50161211 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
50161124 AGAAAACCGA
50161134 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
50161149 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
50161163 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
50161178 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
50161194 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
50161209 ATA
1 ATA
50161212 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:50164273 original size:93 final size:93
Alignment explanation
Indices: 50164161--50164332 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
50164151 GCCCATAAGT
* *
50164161 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50164226 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
50164254 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50164319 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
50164333 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:50164328 original size:46 final size:46
Alignment explanation
Indices: 50164153--50164328 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
50164143 TGTAACCCGC
* * *
50164153 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
50164199 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
50164249 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
50164292 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
50164329 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:50166096 original size:2 final size:2
Alignment explanation
Indices: 50166089--50166132 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
50166079 GCTTCGCCAC
50166089 AT AT 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 AT AT
50166131 AT
1 AT
50166133 CTGTTCTAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50170286 original size:10 final size:10
Alignment explanation
Indices: 50170271--50170306 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
50170261 GGGCCCACAT
*
50170271 GGCCCAATTC
1 GGCCCAATAC
50170281 GGCCCAATAC
1 GGCCCAATAC
50170291 GGCCCAATAC
1 GGCCCAATAC
50170301 GGCCCA
1 GGCCCA
50170307 GCCTATGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.25, C:0.42, G:0.22, T:0.11
Consensus pattern (10 bp):
GGCCCAATAC
Found at i:50170599 original size:15 final size:15
Alignment explanation
Indices: 50170579--50170609 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
50170569 TGAACACGTG
50170579 TTAAACTAATATCAA
1 TTAAACTAATATCAA
50170594 TTAAACTAATATCAA
1 TTAAACTAATATCAA
50170609 T
1 T
50170610 GTTACCTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (15 bp):
TTAAACTAATATCAA
Found at i:50182220 original size:38 final size:38
Alignment explanation
Indices: 50182166--50182267 Score: 125
Period size: 38 Copynumber: 2.7 Consensus size: 38
50182156 GAAATTAGGT
* *
50182166 TGTGACATCTCGTATTCGAGCTTGGCATGAGATAATAG
1 TGTGACATCTCATATTCGAGCTTGGCATGAGACAATAG
* * * *
50182204 TGTGACATCCCATATTC-AGGCTTAGCATGAGACAGTGG
1 TGTGACATCTCATATTCGA-GCTTGGCATGAGACAATAG
*
50182242 TGTGACATCTCATATTCGGGCTTGGC
1 TGTGACATCTCATATTCGAGCTTGGC
50182268 GGCTAGGTCG
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
37 1 0.02
38 52 0.98
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (38 bp):
TGTGACATCTCATATTCGAGCTTGGCATGAGACAATAG
Found at i:50189197 original size:28 final size:28
Alignment explanation
Indices: 50189155--50189226 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
50189145 GGATATGTAT
50189155 ATGGCACTTAGTGTGCAAAAAATTAAGA
1 ATGGCACTTAGTGTGCAAAAAATTAAGA
* * * *
50189183 ATGGCACTT-GTTGTGCAAGATATTTAGT
1 ATGGCACTTAG-TGTGCAAAAAATTAAGA
50189211 ATGGCACTTAGTGTGC
1 ATGGCACTTAGTGTGC
50189227 GAGACATCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 1 0.03
28 36 0.95
29 1 0.03
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCAAAAAATTAAGA
Found at i:50190268 original size:16 final size:16
Alignment explanation
Indices: 50190247--50190278 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
50190237 TTTAGGGTAT
50190247 AAGTATTCAAATACTC
1 AAGTATTCAAATACTC
50190263 AAGTATTCAAATACTC
1 AAGTATTCAAATACTC
50190279 CGGGCCGCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (16 bp):
AAGTATTCAAATACTC
Found at i:50190535 original size:27 final size:27
Alignment explanation
Indices: 50190505--50190898 Score: 486
Period size: 27 Copynumber: 14.6 Consensus size: 27
50190495 GTAGTTTACC
50190505 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
50190532 AAATTACTAAAATA-CCCTCGGTTTATA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* * *
50190559 GAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
50190586 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
50190613 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
50190640 AAATTACTAAAATA-CCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
50190666 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
50190693 AAATTACCAATATACCCCTGGTTTCCA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
50190720 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
50190747 AAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
50190774 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
50190801 AAATTACCAAAATACCCCTTGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
50190828 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
50190855 AAATTACCAAAATACTCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
50190882 AAATTATCGAAATACCC
1 AAATTACCAAAATACCC
50190899 TCGACCTGTA
Statistics
Matches: 313, Mismatches: 51, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
26 26 0.08
27 283 0.90
28 4 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:50190652 original size:81 final size:81
Alignment explanation
Indices: 50190505--50190952 Score: 515
Period size: 81 Copynumber: 5.5 Consensus size: 81
50190495 GTAGTTTACC
* * * * * *
50190505 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATA-CCCTCGGTTTATAGAATCACCAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAA
50190569 AATACCCCTAGTTTGTA
65 AATACCCCTAGTTTGTA
** *
50190586 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
* * *
50190651 ATA-CCTTGGTTTATA
66 ATACCCCTAGTTTGTA
* * **
50190666 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAATATACCCCTGGTTTCCAAAATTACCAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
50190731 ATACCCCTAGTTTGTA
66 ATACCCCTAGTTTGTA
* * *
50190747 AAATTACTAAAATACCATTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
*
50190812 ATACCCCTTGTTTGTA
66 ATACCCCTAGTTTGTA
* * * * * * * *
50190828 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACTCCTAATTTGTGAAATTATCGAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
* **
50190893 ATA-CCCTCGACCTGTA
66 ATACCCCTAG-TTTGTA
*** * ** *
50190909 AAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCC
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCC
50190953 TTGATTTATA
Statistics
Matches: 311, Mismatches: 53, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
80 75 0.24
81 232 0.75
82 4 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
ATACCCCTAGTTTGTA
Found at i:50190951 original size:27 final size:27
Alignment explanation
Indices: 50190505--50191007 Score: 369
Period size: 27 Copynumber: 18.7 Consensus size: 27
50190495 GTAGTTTACC
*
50190505 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
50190532 AAATTACTAAAATACCCTCGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
50190559 GAATCACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * **
50190586 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
50190613 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * * *
50190640 AAATTACTAAAATA-CCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
50190666 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
50190693 AAATTACCAATATACCC-CTGGTTTCCA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
50190720 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * * * *
50190747 AAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
50190774 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
50190801 AAATTACCAAAATACCCCTTG-TTTGTA
1 AAATTACCAAAATA-CCCTCGATTTGTA
* *
50190828 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
50190855 AAATTACCAAAATACTCCT-AATTTGTG
1 AAATTACCAAAATAC-CCTCGATTTGTA
* * **
50190882 AAATTATCGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
50190909 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
50190936 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* **** **
50190963 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
50190990 AAATTATCGAAATACCCT
1 AAATTACCAAAATACCCT
50191008 TGTAGGGTAG
Statistics
Matches: 376, Mismatches: 83, Indels: 34
0.76 0.17 0.07
Matches are distributed among these distances:
26 27 0.07
27 342 0.91
28 7 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:50191027 original size:27 final size:27
Alignment explanation
Indices: 50190997--50191182 Score: 180
Period size: 27 Copynumber: 6.9 Consensus size: 27
50190987 ACAAAATTAT
50190997 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
50191024 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
* * *
50191051 CAAAATACCCCTATAGGGTAGAAATAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
* * * * *
50191078 TGAAATACCCCTATAAGGTAGAATTAC
1 CGAAATACCCTTGTAGGGTAGAAATAC
** *
50191105 TAAAATAGCCC-TGTAGGGTAGAATTAC
1 CGAAATA-CCCTTGTAGGGTAGAAATAC
* * * *
50191132 TGAAATATTCC-TGTAAGGTAGAATTAC
1 CGAAATA-CCCTTGTAGGGTAGAAATAC
* *
50191159 CGAGATACCCTTGTGGGGTA-AAAT
1 CGAAATACCCTTGTAGGGTAGAAAT
50191183 TACCATTTTA
Statistics
Matches: 137, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.04
27 129 0.94
28 3 0.02
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (27 bp):
CGAAATACCCTTGTAGGGTAGAAATAC
Found at i:50191185 original size:54 final size:53
Alignment explanation
Indices: 50190999--50191182 Score: 210
Period size: 54 Copynumber: 3.4 Consensus size: 53
50190989 AAAATTATCG
* * *
50190999 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCA
1 AAATACCCTTGTAGGGTAGAAATACTGAAATACCC-TGTAAGGTAGAATTACCA
* * * *
50191053 AAATACCCCTATAGGGTAGAAATACTGAAATACCCCTATAAGGTAGAATTACTA
1 AAATACCCTTGTAGGGTAGAAATACTGAAATA-CCCTGTAAGGTAGAATTACCA
* * *
50191107 AAATAGCCC-TGTAGGGTAGAATTACTGAAATATTCCTGTAAGGTAGAATTACCG
1 AAATA-CCCTTGTAGGGTAGAAATACTGAAATA-CCCTGTAAGGTAGAATTACCA
* *
50191161 AGATACCCTTGTGGGGTA-AAAT
1 AAATACCCTTGTAGGGTAGAAAT
50191183 TACCATTTTA
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
53 6 0.05
54 98 0.89
55 6 0.05
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (53 bp):
AAATACCCTTGTAGGGTAGAAATACTGAAATACCCTGTAAGGTAGAATTACCA
Found at i:50191708 original size:6 final size:6
Alignment explanation
Indices: 50191699--50191891 Score: 128
Period size: 6 Copynumber: 31.3 Consensus size: 6
50191689 TTGCATTCAC
* * *
50191699 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTTTG ATTCTG -TTGCCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * *
50191749 ATTTTG ATTCTG ATTCTG GTTCTG ATTCTA ATTCTG -TTACCTG ATACTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* * * *
50191798 ATTTTG ATTCTG -TTACCTA ATTCTG ATTCTG ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
50191848 ATTCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
50191892 AATTTTACTT
Statistics
Matches: 144, Mismatches: 26, Indels: 34
0.71 0.13 0.17
Matches are distributed among these distances:
5 10 0.07
6 113 0.78
7 14 0.10
8 7 0.05
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:50191741 original size:31 final size:31
Alignment explanation
Indices: 50191699--50191870 Score: 149
Period size: 31 Copynumber: 5.5 Consensus size: 31
50191689 TTGCATTCAC
*
50191699 ATTCTGATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
* * *
50191730 ATTTTGATTCTG-TTGCCTAATT--TTGATTCTG
1 ATTCTGATTCTGATT--CT-GTTACCTGATTCTG
* *
50191761 ATTCTGGTTCTGATTCTAATT--CTG-TTACCTG
1 ATTCTGATTCTGATTCT-GTTACCTGATT--CTG
* * *
50191792 ATACTGATTTTGATTCTGTTACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
* *
50191823 ATTCTGATTTTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
50191854 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
50191871 CATTTTGATT
Statistics
Matches: 116, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
29 2 0.02
30 12 0.10
31 92 0.79
32 6 0.05
33 4 0.03
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATTCTG
Found at i:50191783 original size:43 final size:43
Alignment explanation
Indices: 50191727--50191809 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
50191717 TTACCTGATA
* * * **
50191727 CTGATTTTGATTCTGTTGCCTAATTTTGATTCTGATTCTGGTT
1 CTGATTCTAATTCTGTTACCTAATACTGATTCTGATTCTGGTT
* *
50191770 CTGATTCTAATTCTGTTACCTGATACTGATTTTGATTCTG
1 CTGATTCTAATTCTGTTACCTAATACTGATTCTGATTCTG
50191810 TTACCTAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.17, C:0.16, G:0.17, T:0.51
Consensus pattern (43 bp):
CTGATTCTAATTCTGTTACCTAATACTGATTCTGATTCTGGTT
Found at i:50191809 original size:68 final size:68
Alignment explanation
Indices: 50191699--50191840 Score: 239
Period size: 68 Copynumber: 2.1 Consensus size: 68
50191689 TTGCATTCAC
* * *
50191699 ATTCTGATTCTGATTCTGTTACCTGATACTGATTTTGATTCTGTTGCCTAATTTTGATTCTGATT
1 ATTCTGATTCTAATTCTGTTACCTGATACTGATTTTGATTCTGTTACCTAATTCTGATTCTGATT
50191764 CTG
66 CTG
*
50191767 GTTCTGATTCTAATTCTGTTACCTGATACTGATTTTGATTCTGTTACCTAATTCTGATTCTGATT
1 ATTCTGATTCTAATTCTGTTACCTGATACTGATTTTGATTCTGTTACCTAATTCTGATTCTGATT
*
50191832 TTG
66 CTG
50191835 ATTCTG
1 ATTCTG
50191841 TCACCTGATT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.50
Consensus pattern (68 bp):
ATTCTGATTCTAATTCTGTTACCTGATACTGATTTTGATTCTGTTACCTAATTCTGATTCTGATT
CTG
Found at i:50191848 original size:25 final size:25
Alignment explanation
Indices: 50191699--50191865 Score: 141
Period size: 25 Copynumber: 6.7 Consensus size: 25
50191689 TTGCATTCAC
50191699 ATTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
* * * *
50191724 ATACTGATTTTGATTCTGTTGCCTA
1 ATTCTGATTCTGATTCTGTTACCTG
*
50191749 ATTTTGATTCTGATTCTG------G
1 ATTCTGATTCTGATTCTGTTACCTG
*
50191768 -TTCTGATTCTAATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
* *
50191792 ATACTGATTTTGATTCTGTTACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-C-----CTG
* *
50191823 ATTCTGATTTTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
50191848 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
50191866 ATTCTCATTT
Statistics
Matches: 113, Mismatches: 16, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
18 15 0.13
24 1 0.01
25 73 0.65
26 1 0.01
30 1 0.01
31 22 0.19
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTG
Found at i:50193290 original size:15 final size:15
Alignment explanation
Indices: 50193270--50193301 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
50193260 TATTGGCTAC
50193270 ACTAAAAAATTTGAA
1 ACTAAAAAATTTGAA
50193285 ACTAAAAAATTTGAA
1 ACTAAAAAATTTGAA
50193300 AC
1 AC
50193302 GTTAATGGTA
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:0.59, C:0.09, G:0.06, T:0.25
Consensus pattern (15 bp):
ACTAAAAAATTTGAA
Found at i:50195406 original size:42 final size:42
Alignment explanation
Indices: 50195304--50195406 Score: 143
Period size: 42 Copynumber: 2.5 Consensus size: 42
50195294 GATATGGCAT
*
50195304 CGGCATCGATATGAGATTACGTGTAAGACCATGTCTGGGATA
1 CGGCATCGATATGAGATTTCGTGTAAGACCATGTCTGGGATA
* * * * *
50195346 TGGCTTCGGTATGAGATTTCGTGTAAGACCGTGTCTGGGATG
1 CGGCATCGATATGAGATTTCGTGTAAGACCATGTCTGGGATA
*
50195388 CGGCATCGATATGTGATTT
1 CGGCATCGATATGAGATTT
50195407 ACCATGTCTA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (42 bp):
CGGCATCGATATGAGATTTCGTGTAAGACCATGTCTGGGATA
Found at i:50195628 original size:41 final size:41
Alignment explanation
Indices: 50195582--50195664 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
50195572 TGGGCTCAAG
*
50195582 TAAGTAAATTTGCTGTTTGAAATTGTGGATGACAGAAACAT
1 TAAGTAAATTTACTGTTTGAAATTGTGGATGACAGAAACAT
50195623 TAAGTAAATTTACTGTTTGAAATTGTGGATGACAGAAACAT
1 TAAGTAAATTTACTGTTTGAAATTGTGGATGACAGAAACAT
50195664 T
1 T
50195665 TGTAAAATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.35
Consensus pattern (41 bp):
TAAGTAAATTTACTGTTTGAAATTGTGGATGACAGAAACAT
Found at i:50200558 original size:37 final size:37
Alignment explanation
Indices: 50200513--50200635 Score: 178
Period size: 37 Copynumber: 3.4 Consensus size: 37
50200503 ACATGTGGTA
* *
50200513 CGTGTAAGACCATAGCTGGGCTATGACATTATAATAG
1 CGTGTAAGACCATAGCTGGGCTATGGCATTATGATAG
*
50200550 CGTGTAAGACCATAGCTGGGCTATGGCATCATGAT-G
1 CGTGTAAGACCATAGCTGGGCTATGGCATTATGATAG
* *
50200586 ACATGTAAGACCATAGCTGGGCTATGGCATTGTGATA-
1 -CGTGTAAGACCATAGCTGGGCTATGGCATTATGATAG
50200623 CGTGTAAGACCAT
1 CGTGTAAGACCAT
50200636 GTTTAGGACA
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
36 13 0.17
37 64 0.83
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (37 bp):
CGTGTAAGACCATAGCTGGGCTATGGCATTATGATAG
Found at i:50200671 original size:42 final size:41
Alignment explanation
Indices: 50200624--50200868 Score: 131
Period size: 42 Copynumber: 5.7 Consensus size: 41
50200614 ATTGTGATAC
*
50200624 GTGTAAGACCATGTTTAGGACATGGCATCGATATGAGATCCT
1 GTGTAAGACCATGTTT-GGACATGGCATCGATATGAGATCTT
* * * *
50200666 GTGTAAGACCATATTTGGGATATGGCATTGACATCGATATAAGAT-TAC
1 GTGTAAGACCATGTTT-GG--A---CA-TGGCATCGATATGAGATCT-T
* * *
50200714 GTGTAAGACCATGTTTGGGATATGGCTTCGGTATGAGAT-TT
1 GTGTAAGACCATGTTT-GGACATGGCATCGATATGAGATCTT
* * * *** * *
50200755 CGTGTAATACCGTGTCTAGGATGCGGCATCGATATGTGATTTT
1 -GTGTAAGACCATGT-TTGGACATGGCATCGATATGAGATCTT
* *
50200798 GTAG-AAGACCATGTCTGAGACATGGCATCGATGTGAGA-CTTT
1 GT-GTAAGACCATGTTTG-GACATGGCATCGATATGAGATC-TT
*
50200840 GTGTAAAACCATAG-TTGGACTATGGCATC
1 GTGTAAGACCAT-GTTTGGAC-ATGGCATC
50200869 AAGTAAACGA
Statistics
Matches: 154, Mismatches: 33, Indels: 32
0.70 0.15 0.15
Matches are distributed among these distances:
41 5 0.03
42 106 0.69
43 6 0.04
44 1 0.01
46 1 0.01
47 2 0.01
48 33 0.21
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (41 bp):
GTGTAAGACCATGTTTGGACATGGCATCGATATGAGATCTT
Found at i:50201026 original size:41 final size:41
Alignment explanation
Indices: 50200980--50201062 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
50200970 TGGGCTCGAG
*
50200980 TAAGTAAATTTGCTGTTTGAAATTGTGGACGACAGAAACAT
1 TAAGTAAATTTACTGTTTGAAATTGTGGACGACAGAAACAT
*
50201021 TAAGTAAATTTACTGTTTGAAATTGTGGATGACAGAAACAT
1 TAAGTAAATTTACTGTTTGAAATTGTGGACGACAGAAACAT
50201062 T
1 T
50201063 TGTAAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.34
Consensus pattern (41 bp):
TAAGTAAATTTACTGTTTGAAATTGTGGACGACAGAAACAT
Found at i:50204160 original size:37 final size:36
Alignment explanation
Indices: 50204109--50204195 Score: 129
Period size: 37 Copynumber: 2.3 Consensus size: 36
50204099 TACGAAGTCT
50204109 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
**
50204145 GTACCCGGATGTAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
50204182 TCACCCGGAACATA
1 T-ACCCGG-ACATA
50204196 TTTCTAAGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 1 0.02
37 40 0.91
38 3 0.07
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:50204330 original size:49 final size:49
Alignment explanation
Indices: 50204264--50204713 Score: 742
Period size: 49 Copynumber: 9.2 Consensus size: 49
50204254 TTTACCACAT
**
50204264 ATATATATACACTTTCACATTCATCATGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
50204313 ATATGTATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
50204362 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
50204411 ATATATACACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
50204460 ATATAT-TCACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC
1 ATATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
**
50204509 ATATATATACACTTTCACATTCATCATGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
50204558 ATATAT-TCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
50204607 ATATATACACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
50204656 ATATATACACACTTTCACATTCATCAAATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
50204705 ATATATATA
1 ATATATATA
50204714 TCTCATACAT
Statistics
Matches: 376, Mismatches: 21, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
48 1 0.00
49 374 0.99
50 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:50207472 original size:28 final size:28
Alignment explanation
Indices: 50207430--50207500 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
50207420 ATATATGTAT
50207430 ATGGCACTTAGTGTGCAAAAAATTAAGA
1 ATGGCACTTAGTGTGCAAAAAATTAAGA
* * * *
50207458 ATGGCACTT-GTTGTGCAAGATATTGAGT
1 ATGGCACTTAG-TGTGCAAAAAATTAAGA
50207486 ATGGCACTTAGTGTG
1 ATGGCACTTAGTGTG
50207501 TGAGACATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 1 0.03
28 35 0.95
29 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCAAAAAATTAAGA
Found at i:50207510 original size:28 final size:28
Alignment explanation
Indices: 50207429--50207511 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 28
50207419 TATATATGTA
** * *
50207429 TATGGCACTTAGTGTGCAAAAAATTAAG
1 TATGGCACTTAGTGTGTGAGAAATTGAG
* *
50207457 AATGGCACTT-GT-TGTGCAAGATATTGAG
1 TATGGCACTTAGTGTGTG--AGAAATTGAG
*
50207485 TATGGCACTTAGTGTGTGAGACATTGA
1 TATGGCACTTAGTGTGTGAGAAATTGA
50207512 AGATGCAACG
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
26 2 0.05
27 2 0.05
28 33 0.77
29 2 0.05
30 4 0.09
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (28 bp):
TATGGCACTTAGTGTGTGAGAAATTGAG
Found at i:50225137 original size:27 final size:27
Alignment explanation
Indices: 50225091--50225246 Score: 152
Period size: 27 Copynumber: 5.8 Consensus size: 27
50225081 GCGTACCTGA
* * *
50225091 ACCCTCATGTGACAAGATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
50225118 ACTCTTATGTGATAAAATGACAATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
50225145 GCCCTTATGTGATAAAATGATGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* * *
50225172 ACCCTTATGTGAT-AAATCGATGAATTG
1 ACCCTTATGTGATAAAAT-GACGATTTT
* * * *
50225199 CCCCTTATATGATAAAATAATGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
50225226 GCCCTTATGTGATCAAATGAC
1 ACCCTTATGTGATAAAATGAC
50225247 CGAAATACCT
Statistics
Matches: 105, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 4 0.04
27 97 0.92
28 4 0.04
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (27 bp):
ACCCTTATGTGATAAAATGACGATTTT
Found at i:50225179 original size:54 final size:52
Alignment explanation
Indices: 50225092--50225246 Score: 168
Period size: 54 Copynumber: 2.9 Consensus size: 52
50225082 CGTACCTGAA
* * * * *
50225092 CCCTCATGTGACAAGATGACGATTTTACTCTTATGTGATAAAATGACAATTTTG-
1 CCCTTATGTGATAAAATGATGATTTTACCCTTATGTGAT-AAATGACAA--TTGC
*
50225146 CCCTTATGTGATAAAATGATGATTTTACCCTTATGTGATAAATCGATGAATTGC
1 CCCTTATGTGATAAAATGATGATTTTACCCTTATGTGATAAAT-GA-CAATTGC
* * *
50225200 CCCTTATATGATAAAATAATGATTTTGCCCTTATGTGATCAAATGAC
1 CCCTTATGTGATAAAATGATGATTTTACCCTTATGTGAT-AAATGAC
50225247 CGAAATACCT
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
53 7 0.08
54 74 0.85
55 6 0.07
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (52 bp):
CCCTTATGTGATAAAATGATGATTTTACCCTTATGTGATAAATGACAATTGC
Found at i:50225305 original size:27 final size:26
Alignment explanation
Indices: 50225240--50225307 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
50225230 TTATGTGATC
* **
50225240 AAATGACCGAAATACCTTCATAGGGT
1 AAATGACCTAAATACCCCCATAGGGT
50225266 AAATGA-CTAAAATACCCCCATAGGGT
1 AAATGACCT-AAATACCCCCATAGGGT
50225292 AGAATGACCTAAATAC
1 A-AATGACCTAAATAC
50225308 ACCTATAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 1 0.03
26 22 0.61
27 11 0.31
28 2 0.06
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.21
Consensus pattern (26 bp):
AAATGACCTAAATACCCCCATAGGGT
Found at i:50225411 original size:23 final size:23
Alignment explanation
Indices: 50225383--50225428 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
50225373 ATGTATTTGA
50225383 GCATGCCATG-AT-ATATGTATGTT
1 GCATG-CATGAATGATAT-TATGTT
50225406 GCATGCATGAATGATATTATGTT
1 GCATGCATGAATGATATTATGTT
50225429 TGTAATAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 4 0.19
23 13 0.62
24 4 0.19
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (23 bp):
GCATGCATGAATGATATTATGTT
Found at i:50226719 original size:47 final size:45
Alignment explanation
Indices: 50226651--50226765 Score: 126
Period size: 45 Copynumber: 2.5 Consensus size: 45
50226641 TGTGTAAGCT
* *
50226651 AGTGTAAGA-CATGTCTGGGACATACATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATACATCAGCCACGA-GATG-G-GCC
* * * *
50226697 AGTGTAAGACCATGTTTGGGACATGCATCGGCTACGAGATGGGTC
1 AGTGTAAGACCATGTTTGGGACATACATCAGCCACGAGATGGGCC
*
50226742 AGTGTAAGACCATGTTCGGGACAT
1 AGTGTAAGACCATGTTTGGGACAT
50226766 GGCATGGCTT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
45 25 0.42
46 10 0.17
47 24 0.40
48 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACCATGTTTGGGACATACATCAGCCACGAGATGGGCC
Found at i:50226802 original size:49 final size:44
Alignment explanation
Indices: 50226689--50226805 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 44
50226679 AGCCACATTA
* *
50226689 TGAGAGCCAGTGTAAGACCATGTTTGGGACATGCATCGGCTACG
1 TGAGAGCTAGTGTAAGACCATGTTCGGGACATGCATCGGCTACG
* * *
50226733 AGATG-GGTCAGTGTAAGACCATGTTCGGGACATGGCATGGCTTGGTTACG
1 TGA-GAGCT-AGTGTAAGACCATGTTCGGGACAT-GCAT--C--GGCTACG
50226783 TGAGAGCTAGTGTAAGACCATGT
1 TGAGAGCTAGTGTAAGACCATGT
50226806 CTAGCACATG
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
44 3 0.05
45 24 0.41
46 4 0.07
48 1 0.02
49 16 0.28
50 10 0.17
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (44 bp):
TGAGAGCTAGTGTAAGACCATGTTCGGGACATGCATCGGCTACG
Found at i:50234278 original size:46 final size:45
Alignment explanation
Indices: 50234220--50234536 Score: 196
Period size: 49 Copynumber: 6.7 Consensus size: 45
50234210 TCATTTGTGT
* *
50234220 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-GATGA
* * * * *
50234266 GAGCCGGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCAGATGA
* * * *
50234314 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGGGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-AGATG-A
* * *
50234361 -AGCCAGTATAAGACATGTTTGGGACATGCAACGG-CT-ACGA-GA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-GATGA
* * * * * * *
50234403 TGTGTCAGTGTAAGACCATGTCCGAGATATTGCAT-GACACGGTTATG-TGA
1 -GAGCCAGTGTAAGA-CATGTCTGGGACA-TGCATCGGC-C--TCA-GATGA
* *
50234453 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAAAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTC--AGATGA
*
50234502 TAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
50234537 AGCATTTTAC
Statistics
Matches: 205, Mismatches: 45, Indels: 39
0.71 0.16 0.13
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 12 0.06
45 13 0.06
46 53 0.26
47 31 0.15
48 23 0.11
49 65 0.32
50 6 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAGATGA
Found at i:50237658 original size:49 final size:49
Alignment explanation
Indices: 50237588--50237896 Score: 568
Period size: 49 Copynumber: 6.3 Consensus size: 49
50237578 CCCTTCGGGA
50237588 CTTATCACAT-T-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50237635 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50237684 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50237733 CTTATCACATATATATACACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50237782 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50237831 CTTATCACATATATAGACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50237880 CTTATCACATATATATA
1 CTTATCACATATATATA
50237897 TCTCATACAA
Statistics
Matches: 253, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
47 10 0.04
48 1 0.00
49 242 0.96
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50240803 original size:40 final size:40
Alignment explanation
Indices: 50240718--50240857 Score: 104
Period size: 40 Copynumber: 3.5 Consensus size: 40
50240708 GAATCACGTA
** * * * * *
50240718 CCTTCGGGATTTAACCCGGTTATAGCGACTCGCTCGATTG
1 CCTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTG
* *
50240758 TCTTCGGGACATAGCCCGGTTACAGTGATTCGCACAATTG
1 CCTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTG
* * * **
50240798 CCTTCGAGA-ATTAGCCCGGATT-TAGTCACTTAGCACAAAAG
1 CCTTCGGGACA-TAGCCCGG-TTATAGTGA-TTCGCACAATTG
*
50240839 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACATAGCCCGG
50240858 ATACCATTCG
Statistics
Matches: 78, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
39 1 0.01
40 50 0.64
41 27 0.35
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTG
Found at i:50241683 original size:40 final size:40
Alignment explanation
Indices: 50241587--50241705 Score: 179
Period size: 40 Copynumber: 3.0 Consensus size: 40
50241577 GCCCGAATAC
* *
50241587 ACATCACCAGCAT-AATTGCTCTTCGGGACCTAGCCC-GAT
1 ACATCACTAGCATGAA-TGCTCTTCGGGACTTAGCCCGGAT
* *
50241626 ACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
50241666 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
50241706 CGTCGTCGAG
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
39 29 0.40
40 43 0.60
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (40 bp):
ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
Found at i:50241805 original size:38 final size:38
Alignment explanation
Indices: 50241763--50241837 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
50241753 GAATTTTAAT
*
50241763 CCGGACATAATCTCTGT-ACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCT-TCACATAGCCAGCGGGTCTTTAC
* * *
50241801 CCGGACATAATTTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
50241838 AACTCGGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (38 bp):
CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTAC
Found at i:50244084 original size:49 final size:49
Alignment explanation
Indices: 50244014--50244322 Score: 559
Period size: 49 Copynumber: 6.3 Consensus size: 49
50244004 CCCTTCGGGA
50244014 CTTATCACAT-T-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50244061 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50244110 CTTATCACATATATACACACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50244159 CTTATCACATATATATACACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50244208 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50244257 CTTATCACATATATAGACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50244306 CTTATCACATATATATA
1 CTTATCACATATATATA
50244323 TCTCATACAA
Statistics
Matches: 253, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
47 10 0.04
48 1 0.00
49 242 0.96
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50250020 original size:42 final size:42
Alignment explanation
Indices: 50249965--50250054 Score: 153
Period size: 42 Copynumber: 2.1 Consensus size: 42
50249955 GTGCCAAGCA
* *
50249965 ATGAGACTGAGAGGGTATCTTAGGTAATAATCTTTAGTGAAG
1 ATGAGACTAAGAGGGTATCATAGGTAATAATCTTTAGTGAAG
*
50250007 ATGAGACTAAGAGGGTATCATAGGTAGTAATCTTTAGTGAAG
1 ATGAGACTAAGAGGGTATCATAGGTAATAATCTTTAGTGAAG
50250049 ATGAGA
1 ATGAGA
50250055 TTGAGATGGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (42 bp):
ATGAGACTAAGAGGGTATCATAGGTAATAATCTTTAGTGAAG
Found at i:50254768 original size:14 final size:15
Alignment explanation
Indices: 50254749--50254781 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
50254739 AGAGAGAATG
*
50254749 ATGATGGATGA-GGA
1 ATGATGAATGAGGGA
50254763 ATGATGAATGAGGGA
1 ATGATGAATGAGGGA
50254778 ATGA
1 ATGA
50254782 AGGGGTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.21
Consensus pattern (15 bp):
ATGATGAATGAGGGA
Found at i:50257831 original size:39 final size:39
Alignment explanation
Indices: 50257753--50257990 Score: 248
Period size: 39 Copynumber: 6.1 Consensus size: 39
50257743 GTAAATTATA
* ** *
50257753 CCCTGAAGGCACTTACGTG-CCTTGTTGTACTTCGATAC
1 CCCTGAACGCACTTACGTGCCCCAGTTGTACTTCGGTAC
*
50257791 CCCTAAACGCACTTACGTGCCCCAGTTGTACTTCGGTAC
1 CCCTGAACGCACTTACGTGCCCCAGTTGTACTTCGGTAC
* * *
50257830 CCCCGAATGCACTTACGTGCCCCTA-TTGTACTTCAGTAC
1 CCCTGAACGCACTTACGTGCCCC-AGTTGTACTTCGGTAC
* * * *
50257869 CCCTGAATGCACTTACCTGTCCCTA-TTGTACTTCGATAC
1 CCCTGAACGCACTTACGTG-CCCCAGTTGTACTTCGGTAC
* * *
50257908 CCCTGATCGCACTTAAGTGCCCCTGTTGTACTTCGGTAC
1 CCCTGAACGCACTTACGTGCCCCAGTTGTACTTCGGTAC
* * * * *
50257947 ACCTGATCACACTTACGTGCCCCTGTTGTACTTCGATAC
1 CCCTGAACGCACTTACGTGCCCCAGTTGTACTTCGGTAC
*
50257986 TCCTG
1 CCCTG
50257991 TTAACATGTT
Statistics
Matches: 170, Mismatches: 26, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
38 20 0.12
39 146 0.86
40 4 0.02
ACGTcount: A:0.19, C:0.34, G:0.17, T:0.30
Consensus pattern (39 bp):
CCCTGAACGCACTTACGTGCCCCAGTTGTACTTCGGTAC
Found at i:50257862 original size:19 final size:19
Alignment explanation
Indices: 50257801--50257940 Score: 63
Period size: 19 Copynumber: 7.2 Consensus size: 19
50257791 CCCTAAACGC
50257801 ACTTACGTGCCCC-AGTTGT
1 ACTTACGTGCCCCTA-TTGT
* * * *
50257820 ACTT-CGGTACCCCCGAATGC
1 ACTTAC-GT-GCCCCTATTGT
50257840 ACTTACGTGCCCCTATTGT
1 ACTTACGTGCCCCTATTGT
* * *
50257859 ACTT-CAGTACCCCTGAATGC
1 ACTTAC-GTGCCCCT-ATTGT
* *
50257879 ACTTACCTGTCCCTATTGT
1 ACTTACGTGCCCCTATTGT
* * *
50257898 ACTT-CGATACCCCTGATCGC
1 ACTTACG-TGCCCCT-ATTGT
* *
50257918 ACTTAAGTGCCCCTGTTGT
1 ACTTACGTGCCCCTATTGT
50257937 ACTT
1 ACTT
50257941 CGGTACACCT
Statistics
Matches: 86, Mismatches: 25, Indels: 20
0.66 0.19 0.15
Matches are distributed among these distances:
18 3 0.03
19 42 0.49
20 37 0.43
21 4 0.05
ACGTcount: A:0.19, C:0.34, G:0.16, T:0.31
Consensus pattern (19 bp):
ACTTACGTGCCCCTATTGT
Found at i:50257941 original size:117 final size:116
Alignment explanation
Indices: 50257753--50257980 Score: 323
Period size: 117 Copynumber: 2.0 Consensus size: 116
50257743 GTAAATTATA
* * * *
50257753 CCCTGAAGGCACTTACGTGCCTTGTTGTACTTCGATACCCCTAAACGCACTTACGTGCCCCAGTT
1 CCCTGAAGGCACTTACCTGCCCTATTGTACTTCGATACCCCTAAACGCACTTAAGTGCCCCAGTT
* *
50257818 GTACTTCGGTACCCCCGAAT-GCACTTACGTGCCCCTATTGTACTTCAGTAC
66 GTACTTCGGTACACCCG-ATCACACTTACGTGCCCCTATTGTACTTCAGTAC
* * * *
50257869 CCCTGAATGCACTTACCTGTCCCTATTGTACTTCGATACCCCTGATCGCACTTAAGTGCCCCTGT
1 CCCTGAAGGCACTTACCTG-CCCTATTGTACTTCGATACCCCTAAACGCACTTAAGTGCCCCAGT
* *
50257934 TGTACTTCGGTACACCTGATCACACTTACGTGCCCCTGTTGTACTTC
65 TGTACTTCGGTACACCCGATCACACTTACGTGCCCCTATTGTACTTC
50257981 GATACTCCTG
Statistics
Matches: 98, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
116 19 0.19
117 79 0.81
ACGTcount: A:0.19, C:0.34, G:0.17, T:0.30
Consensus pattern (116 bp):
CCCTGAAGGCACTTACCTGCCCTATTGTACTTCGATACCCCTAAACGCACTTAAGTGCCCCAGTT
GTACTTCGGTACACCCGATCACACTTACGTGCCCCTATTGTACTTCAGTAC
Found at i:50259993 original size:47 final size:46
Alignment explanation
Indices: 50259922--50260091 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
50259912 ACTTGTGTGA
**
50259922 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTTTGA-GAGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGG---CATTGAGACGAGT
50259970 -C-AGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCATTGAGACGAGT
* * *
50260016 GCTAGTGTAAGACATGTCTGGGACATGC-TTCGGCTTTGAAACGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATT-GGCATTGAGACG-AGT
* *
50260062 GCCAGTGTAAGAAATGTCTGGGACATGCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCAT
50260092 CGATGAGTGA
Statistics
Matches: 107, Mismatches: 7, Indels: 17
0.82 0.05 0.13
Matches are distributed among these distances:
45 8 0.07
46 51 0.48
47 32 0.30
48 16 0.15
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATTGGCATTGAGACGAGT
Found at i:50268720 original size:25 final size:25
Alignment explanation
Indices: 50268691--50268738 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
50268681 TTATACCATG
* * *
50268691 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
50268716 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
50268739 GTTATGTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:50268806 original size:20 final size:20
Alignment explanation
Indices: 50268781--50268839 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
50268771 TAAATATGGT
50268781 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
50268801 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
50268821 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
50268840 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:50268821 original size:11 final size:11
Alignment explanation
Indices: 50268785--50268839 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
50268775 TATGGTATGT
50268785 ATGATATGCAC
1 ATGATATGCAC
* *
50268796 ATGAAATG--T
1 ATGATATGCAC
50268805 ATGATATGCAC
1 ATGATATGCAC
*
50268816 ATGATATG--T
1 ATGATATGCAC
50268825 ATGATATGCAC
1 ATGATATGCAC
50268836 ATGA
1 ATGA
50268840 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:50268959 original size:47 final size:48
Alignment explanation
Indices: 50268890--50269008 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
50268880 GAGGAAGTGA
50268890 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTAT-GCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTT-TGGCCCCAGTTATT
*
50268937 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
*
50268985 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
50269009 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 1 0.02
47 43 0.65
48 11 0.17
49 11 0.17
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
Found at i:50268984 original size:24 final size:24
Alignment explanation
Indices: 50268890--50269008 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
50268880 GAGGAAGTGA
*
50268890 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
50268914 GAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
50268937 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
50268961 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
50268985 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
50269009 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 22 0.26
24 51 0.61
25 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:50269234 original size:31 final size:31
Alignment explanation
Indices: 50269199--50269300 Score: 123
Period size: 31 Copynumber: 3.1 Consensus size: 31
50269189 CGTTTACAGT
50269199 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
50269230 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
*
50269268 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
50269299 AA
1 AA
50269301 TATGGAAAGG
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
31 30 0.49
33 1 0.02
36 1 0.02
38 29 0.48
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:50269268 original size:38 final size:38
Alignment explanation
Indices: 50269216--50269323 Score: 180
Period size: 38 Copynumber: 2.8 Consensus size: 38
50269206 TCGGCCCAGT
50269216 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
50269254 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
* *
50269292 AATATGAAATATGGAAAGGGCTACGGCCCAGT
1 AATATGAAATAT-GAAAAGGCTTCGGCCCAGT
50269324 GCATGATTGA
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
38 48 0.74
39 17 0.26
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:50270142 original size:18 final size:18
Alignment explanation
Indices: 50270119--50270155 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
50270109 TCTGAAAATT
50270119 CATTTTAAAGATGTTTTA
1 CATTTTAAAGATGTTTTA
50270137 CATTTTAAAGATGTTTTA
1 CATTTTAAAGATGTTTTA
50270155 C
1 C
50270156 GGAGAATATA
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:0.32, C:0.08, G:0.11, T:0.49
Consensus pattern (18 bp):
CATTTTAAAGATGTTTTA
Found at i:50278008 original size:46 final size:48
Alignment explanation
Indices: 50277934--50278024 Score: 116
Period size: 47 Copynumber: 1.9 Consensus size: 48
50277924 CCCCTCGGGA
* * *
50277934 CTTATCACATTTATACACTTTCATATTCATCGC-ATTGGCCATTCGGC
1 CTTATCACATTTATACACTTTCACATTCATCACAATCGGCCATTCGGC
*
50277981 CTTATCAC--TTATATCACTTTGACATTCATCACAATCGGCCATTC
1 CTTATCACATTTATA-CACTTTCACATTCATCACAATCGGCCATTC
50278025 AGCCCACATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 5 0.13
46 15 0.39
47 18 0.47
ACGTcount: A:0.25, C:0.29, G:0.09, T:0.37
Consensus pattern (48 bp):
CTTATCACATTTATACACTTTCACATTCATCACAATCGGCCATTCGGC
Found at i:50278102 original size:46 final size:46
Alignment explanation
Indices: 50278040--50278221 Score: 300
Period size: 46 Copynumber: 4.0 Consensus size: 46
50278030 ACATATATAC
* *
50278040 ATCTCATACATGTTTCATACTAGCCATTTGGCTTTACCACACATAT
1 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
50278086 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
1 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
*
50278132 A--TCA-CCATA-TTCACACTAGCCATTTGGCTTTACCACACATAT
1 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
*
50278174 ATCACATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
1 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
50278220 AT
1 AT
50278222 ATATTTAACT
Statistics
Matches: 127, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
42 34 0.27
43 4 0.03
44 5 0.04
45 4 0.03
46 80 0.63
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (46 bp):
ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
Found at i:50278156 original size:88 final size:88
Alignment explanation
Indices: 50278053--50278221 Score: 320
Period size: 88 Copynumber: 1.9 Consensus size: 88
50278043 TCATACATGT
* *
50278053 TTCATACTAGCCATTTGGCTTTACCACACATATATCTCATACATATTTCACACTAGCCATTTGGC
1 TTCACACTAGCCATTTGGCTTTACCACACATATATCACATACATATTTCACACTAGCCATTTGGC
50278118 TTTACCACACATATATCACCATA
66 TTTACCACACATATATCACCATA
50278141 TTCACACTAGCCATTTGGCTTTACCACACATATATCACATACATATTTCACACTAGCCATTTGGC
1 TTCACACTAGCCATTTGGCTTTACCACACATATATCACATACATATTTCACACTAGCCATTTGGC
50278206 TTTACCACACATATAT
66 TTTACCACACATATAT
50278222 ATATTTAACT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 79 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (88 bp):
TTCACACTAGCCATTTGGCTTTACCACACATATATCACATACATATTTCACACTAGCCATTTGGC
TTTACCACACATATATCACCATA
Found at i:50280973 original size:40 final size:40
Alignment explanation
Indices: 50280924--50281028 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 40
50280914 GACTCGCTCG
* * *
50280924 ATTGTCTTCGGGACATAGCCCGG-TTATAGTGATTCACACA
1 ATTGCCTTCGGGACATAGCCCGGATT-TAGTAACTCACACA
*
50280964 ATTGCCTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACA
1 ATTGCCTTCGGGACA-TAGCCCGGATTTAGTAACTCACACA
** *
50281004 AAAGCCTTCGGGACTTAGCCCGGAT
1 ATTGCCTTCGGGACATAGCCCGGAT
50281029 ACCATTCGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 52 0.95
41 2 0.04
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
ATTGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACA
Found at i:50281737 original size:40 final size:40
Alignment explanation
Indices: 50281688--50281955 Score: 439
Period size: 40 Copynumber: 6.7 Consensus size: 40
50281678 CCAGCATGAT
* *
50281688 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
50281728 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * *
50281768 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
50281808 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
50281848 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
50281888 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
50281928 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGAACTTAGCCCGGATACATC
50281956 GTCGAGACCT
Statistics
Matches: 217, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
39 3 0.01
40 214 0.99
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:50284585 original size:47 final size:46
Alignment explanation
Indices: 50284510--50284619 Score: 150
Period size: 47 Copynumber: 2.4 Consensus size: 46
50284500 CCCCTCGGGA
* * *
50284510 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTC-GC
*
50284557 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGC
*
50284603 CTTATCACATATATACA
1 CTTATCACTTATATACA
50284620 TCTCATACAT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
46 20 0.35
47 37 0.65
ACGTcount: A:0.27, C:0.28, G:0.08, T:0.36
Consensus pattern (46 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGC
Found at i:50284681 original size:46 final size:46
Alignment explanation
Indices: 50284623--50284804 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
50284613 ATATACATCT
* * *
50284623 CATACATGTTTCATACTAGCCATTTGGCTTTACCACACATATATCT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
50284669 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
50284715 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
50284761 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
50284805 ATATTTAACT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.34
Consensus pattern (46 bp):
CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
Found at i:50290256 original size:25 final size:25
Alignment explanation
Indices: 50290210--50290260 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
50290200 CCCTTATAAT
* *
50290210 GTGAAAATGACCTTTTTTCCCCTAG
1 GTGAAAATGACCTTTATACCCCTAG
50290235 GTGAAAATGA-CTATTATACCCCTAG
1 GTGAAAATGACCT-TTATACCCCTAG
50290260 G
1 G
50290261 GTTATGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (25 bp):
GTGAAAATGACCTTTATACCCCTAG
Found at i:50290339 original size:11 final size:10
Alignment explanation
Indices: 50290304--50290348 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
50290294 TTTGTACATA
* *
50290304 ATATTCCATA
1 ATATGCCATG
50290314 ATATGCCATG
1 ATATGCCATG
50290324 ATATGCACATG
1 ATATGC-CATG
*
50290335 GTATGCCATG
1 ATATGCCATG
50290345 ATAT
1 ATAT
50290349 ATATATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 21 0.70
11 9 0.30
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (10 bp):
ATATGCCATG
Found at i:50290426 original size:25 final size:25
Alignment explanation
Indices: 50290398--50290459 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
50290388 GGAAGTGCTT
* *
50290398 AAGGGCTATGCCCCAGTTTACCGAA
1 AAGGGCTTTGCCCCAGTTTACCAAA
*
50290423 AAGGGCTTTGCCCCAGTTTATCAAA
1 AAGGGCTTTGCCCCAGTTTACCAAA
50290448 AAGGGCTTTGCC
1 AAGGGCTTTGCC
50290460 TCGGTTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (25 bp):
AAGGGCTTTGCCCCAGTTTACCAAA
Found at i:50290467 original size:24 final size:25
Alignment explanation
Indices: 50290398--50290467 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
50290388 GGAAGTGCTT
* * * *
50290398 AAGGGCTATGCCCCAGTTTACCGAA
1 AAGGGCTTTGCCCCAGGTTATCAAA
*
50290423 AAGGGCTTTGCCCCAGTTTATCAAA
1 AAGGGCTTTGCCCCAGGTTATCAAA
*
50290448 AAGGGCTTTGCCTC-GGTTAT
1 AAGGGCTTTGCCCCAGGTTAT
50290468 TTAAAGAGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 5 0.12
25 35 0.88
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (25 bp):
AAGGGCTTTGCCCCAGGTTATCAAA
Found at i:50298076 original size:10 final size:10
Alignment explanation
Indices: 50298065--50298109 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
50298055 TTTGTACATA
*
50298065 ATATGCCATA
1 ATATGCCATG
*
50298075 ATATACCATG
1 ATATGCCATG
50298085 ATATGCACATG
1 ATATGC-CATG
*
50298096 ATACGCCATG
1 ATATGCCATG
50298106 ATAT
1 ATAT
50298110 ATTATATGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
10 20 0.69
11 9 0.31
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (10 bp):
ATATGCCATG
Found at i:50298223 original size:24 final size:25
Alignment explanation
Indices: 50298154--50298221 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
50298144 GGAAGTGCTT
* * *
50298154 AAGGGCTATG-CCAGAGTTTACCGAA
1 AAGGGCTTTGCCCA-AGTTTATCAAA
*
50298179 AAGGGCTTTGCCCCAGTTTATCAAA
1 AAGGGCTTTGCCCAAGTTTATCAAA
50298204 AAGGGCTTTGCCCAAGTT
1 AAGGGCTTTGCCCAAGTT
50298222 ATTTAAAGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 35 0.95
26 2 0.05
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (25 bp):
AAGGGCTTTGCCCAAGTTTATCAAA
Found at i:50300143 original size:20 final size:21
Alignment explanation
Indices: 50300106--50300148 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
50300096 TAAATATCTT
50300106 TCAACAATATAAACACAT-CA
1 TCAACAATATAAACACATACA
*
50300126 TCAACAA-ATCAAATACATACA
1 TCAACAATAT-AAACACATACA
50300147 TC
1 TC
50300149 TTGTCCTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 14 0.70
21 4 0.20
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (21 bp):
TCAACAATATAAACACATACA
Found at i:50302984 original size:27 final size:27
Alignment explanation
Indices: 50302942--50302997 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
50302932 ATCTTATAGA
*
50302942 GGCATATCAGTCATTTTACCATTTAGG
1 GGCATATCAGTCATTTTACCAATTAGG
* * *
50302969 GGCATTTCAGTTATTTTATCAATTAGG
1 GGCATATCAGTCATTTTACCAATTAGG
50302996 GG
1 GG
50302998 GTTTAGGTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.39
Consensus pattern (27 bp):
GGCATATCAGTCATTTTACCAATTAGG
Found at i:50303258 original size:19 final size:20
Alignment explanation
Indices: 50303234--50303276 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
50303224 AAGCTCATGG
* *
50303234 GGCCCACAA-GGCCCAATTT
1 GGCCCAAAATGGCCCAATTC
50303253 GGCCCAAAATGGCCCAATTC
1 GGCCCAAAATGGCCCAATTC
50303273 GGCC
1 GGCC
50303277 TCGACCCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.26, C:0.37, G:0.23, T:0.14
Consensus pattern (20 bp):
GGCCCAAAATGGCCCAATTC
Found at i:50310776 original size:42 final size:42
Alignment explanation
Indices: 50310712--50310807 Score: 183
Period size: 42 Copynumber: 2.3 Consensus size: 42
50310702 TGTACAGGTT
*
50310712 ACACACCCGTGTGAACAGGCCGTGTGCCACACACGGCTTTAG
1 ACACGCCCGTGTGAACAGGCCGTGTGCCACACACGGCTTTAG
50310754 ACACGCCCGTGTGAACAGGCCGTGTGCCACACACGGCTTTAG
1 ACACGCCCGTGTGAACAGGCCGTGTGCCACACACGGCTTTAG
50310796 ACACGCCCGTGT
1 ACACGCCCGTGT
50310808 CACTAAGCCA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.22, C:0.34, G:0.27, T:0.17
Consensus pattern (42 bp):
ACACGCCCGTGTGAACAGGCCGTGTGCCACACACGGCTTTAG
Found at i:50311073 original size:11 final size:11
Alignment explanation
Indices: 50311054--50311088 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
50311044 ACAGTTGGGA
*
50311054 CTTATCAAATT
1 CTTACCAAATT
50311065 CTTACCAAATT
1 CTTACCAAATT
50311076 CTTACCAAATT
1 CTTACCAAATT
50311087 CT
1 CT
50311089 AAAATATGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (11 bp):
CTTACCAAATT
Found at i:50311858 original size:42 final size:42
Alignment explanation
Indices: 50311748--50311905 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 42
50311738 AGCTCGTTCA
* * *
50311748 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATCA
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATAT-G
*
50311791 ATGCC-ACTGTCCCAGGCA-GGATCTTACACGAAATCAAATATG
1 ATGCCAAC-GTCCCAGACATGG-TCTTACACGAAATCAAATATG
* * *
50311833 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACATGGTCTTACAC-GAAATCA-AA-TATG
* **
50311877 ATGCCAACGTCCTAGATGTGGTCTTACAC
1 ATGCCAACGTCCCAGACATGGTCTTACAC
50311906 AAAAACACAT
Statistics
Matches: 96, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
42 26 0.27
43 41 0.43
44 28 0.29
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATG
Found at i:50313301 original size:19 final size:19
Alignment explanation
Indices: 50313277--50313314 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
50313267 TGTATTTCAT
50313277 AATATTTAGTTATTACTAA
1 AATATTTAGTTATTACTAA
50313296 AATATTTAGTTATTACTAA
1 AATATTTAGTTATTACTAA
50313315 CTTGTTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (19 bp):
AATATTTAGTTATTACTAA
Found at i:50313874 original size:30 final size:30
Alignment explanation
Indices: 50313840--50313898 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
50313830 CTACTGACTC
50313840 AACTACTTATTGAAATGCACTTGCAACACA
1 AACTACTTATTGAAATGCACTTGCAACACA
50313870 AACTACTTATTGAAATGCACTTGCAACAC
1 AACTACTTATTGAAATGCACTTGCAACAC
50313899 TGTTTGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (30 bp):
AACTACTTATTGAAATGCACTTGCAACACA
Found at i:50316402 original size:29 final size:29
Alignment explanation
Indices: 50316369--50316503 Score: 148
Period size: 29 Copynumber: 4.6 Consensus size: 29
50316359 GTGTCGAGAT
*
50316369 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
50316398 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
50316427 TGGCACTAAGTGTGCAAGCTGGAAAAAAATA
1 TGGCACTAAGTGTGCGAGCTGG--AAATATA
** *
50316458 TGGCACTGTGTGTGCGAGCT-TAAAT-TA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
50316485 CGTGGCACTAAGTGTGCGA
1 --TGGCACTAAGTGTGCGA
50316504 AATCGAGTAG
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.02
28 3 0.03
29 63 0.70
31 22 0.24
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:50316491 original size:60 final size:58
Alignment explanation
Indices: 50316369--50316501 Score: 151
Period size: 60 Copynumber: 2.3 Consensus size: 58
50316359 GTGTCGAGAT
** * * **
50316369 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCAAGCTGGAAAAATATGGCACTAAGTGTGCGAGCTGGAAATACG
** *
50316427 TGGCACTAAGTGTGCAAGCTGGAAAAAAATATGGCACTGTGTGTGCGAGCT-TAAATTACG
1 TGGCACTAAGTGTGCAAGCTGG--AAAAATATGGCACTAAGTGTGCGAGCTGGAAA-TACG
50316487 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
50316502 GAAATCGAGT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
58 20 0.32
59 3 0.05
60 40 0.63
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (58 bp):
TGGCACTAAGTGTGCAAGCTGGAAAAATATGGCACTAAGTGTGCGAGCTGGAAATACG
Found at i:50317952 original size:17 final size:18
Alignment explanation
Indices: 50317930--50317965 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
50317920 CACATTGAAG
50317930 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
50317947 TGTTTTCATTGAAAACCT
1 TGTTTTCAGTGAAAACCT
50317965 T
1 T
50317966 CCTTAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:50321820 original size:93 final size:93
Alignment explanation
Indices: 50321655--50321827 Score: 240
Period size: 93 Copynumber: 1.9 Consensus size: 93
50321645 AGGATATTTG
* * * * *
50321655 GGCATCCAAACTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTAAG
1 GGCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACCTCCGAACTCATTAAG
*
50321720 TTGAGTCCAAGTTCGTGAAATGTAACCA
66 TTAAGTCCAAGTTCGTGAAATGTAACCA
* * *
50321748 GGCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTTCTGGATGCGAACACT-CGAGCTCATTGA
1 GGCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAAC-CTCCGAACTCATTAA
*
50321812 GTTAAGTCCGAGTTCG
65 GTTAAGTCCAAGTTCG
50321828 CTTGTGGGTG
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
93 68 0.99
94 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (93 bp):
GGCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACCTCCGAACTCATTAAG
TTAAGTCCAAGTTCGTGAAATGTAACCA
Found at i:50324971 original size:27 final size:28
Alignment explanation
Indices: 50324939--50324998 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
50324929 GTACACTTAG
* *
50324939 ACCCCTTAC-TGGTAAAATGACTGTTAT
1 ACCCCTTACGAGGTAAAATGACTGATAT
50324966 ACCCC-TACGAGGTAAAATGACTGATAT
1 ACCCCTTACGAGGTAAAATGACTGATAT
50324993 ACCCCT
1 ACCCCT
50324999 ATGATATGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 3 0.10
27 26 0.90
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (28 bp):
ACCCCTTACGAGGTAAAATGACTGATAT
Found at i:50325335 original size:34 final size:34
Alignment explanation
Indices: 50325272--50325338 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
50325262 CTATTACTAT
* *
50325272 TACTGTATTGGGCTAAGGCCCACATTGATACTGA
1 TACTGTAATGGGCTAAGGCCCACACTGATACTGA
*
50325306 TACTGTAATGGGCTAGGGCCCTA-ACTGATACTG
1 TACTGTAATGGGCTAAGGCCC-ACACTGATACTG
50325339 GACTGTCACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (34 bp):
TACTGTAATGGGCTAAGGCCCACACTGATACTGA
Found at i:50330147 original size:24 final size:24
Alignment explanation
Indices: 50330117--50330383 Score: 462
Period size: 24 Copynumber: 11.1 Consensus size: 24
50330107 GAATGTGACT
* *
50330117 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
50330141 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
50330165 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
50330189 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
50330213 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
50330237 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
50330261 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
50330285 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
50330309 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
50330333 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
50330357 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
50330381 ATA
1 ATA
50330384 TGGTCTTTGC
Statistics
Matches: 236, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 236 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:50338249 original size:68 final size:68
Alignment explanation
Indices: 50338141--50338386 Score: 365
Period size: 68 Copynumber: 3.6 Consensus size: 68
50338131 ATAGCAAATC
* ** *
50338141 GCACACATA-TGCTATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGT-CATAG
1 GCACACATAGTGCCATAGTGAATCGCACACATAGT-CCATAGTGAATCGCACACATAGTCCATAG
50338204 TAAA
65 TAAA
50338208 GCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTCCATAG
1 GCACACATAGTGCCATAGTGAATCGCACACATAGT-CCATAGTGAATCGCACACATAGTCCATAG
50338273 TAAA
65 TAAA
50338277 TCGCACACATAGTGCCATAGTGAATCGCACACATAGTCCATAGTGAATCGCACACATAGTGCCAT
1 --GCACACATAGTGCCATAGTGAATCGCACACATAGTCCATAGTGAATCGCACACATAGT-CCAT
*
50338342 A--AATC
63 AGTAA-A
50338347 GCACACATAGTGCCATAGTGAATCGCACACATAGTCCATA
1 GCACACATAGTGCCATAGTGAATCGCACACATAGTCCATA
50338387 TGGTCTTTGC
Statistics
Matches: 168, Mismatches: 5, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
67 9 0.05
68 85 0.51
69 11 0.07
70 23 0.14
71 40 0.24
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.21
Consensus pattern (68 bp):
GCACACATAGTGCCATAGTGAATCGCACACATAGTCCATAGTGAATCGCACACATAGTCCATAGT
AAA
Found at i:50338282 original size:47 final size:47
Alignment explanation
Indices: 50338131--50338386 Score: 359
Period size: 47 Copynumber: 5.6 Consensus size: 47
50338121 CCGAATGACT
* * *
50338131 ATAGCAAATCGCACACATA-TGCTATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCCATAG-TAATCGCACACATAGTGCC
*
50338178 ATAGTAAATCGCACACATAGT--CATAGTAA-AGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCCATAGTAATCGCACACATAGTGCC
*
50338222 ATAGTGAATCGCACACATAGTGCCATAGTGAATCGCACACATAGT-CC
1 ATAGTAAATCGCACACATAGTGCCATAGT-AATCGCACACATAGTGCC
50338269 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGT-CC
1 ATAGTAAATCGCACACATAGTGCCATAGT-AATCGCACACATAGTGCC
*
50338316 ATAGTGAATCGCACACATAGTGCCATA--AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCCATAGTAATCGCACACATAGTGCC
*
50338361 ATAGTGAATCGCACACATAGT-CCATA
1 ATAGTAAATCGCACACATAGTGCCATA
50338387 TGGTCTTTGC
Statistics
Matches: 195, Mismatches: 8, Indels: 15
0.89 0.04 0.07
Matches are distributed among these distances:
44 54 0.28
45 25 0.13
46 10 0.05
47 94 0.48
48 12 0.06
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (47 bp):
ATAGTAAATCGCACACATAGTGCCATAGTAATCGCACACATAGTGCC
Found at i:50338347 original size:115 final size:113
Alignment explanation
Indices: 50338137--50338386 Score: 396
Period size: 115 Copynumber: 2.2 Consensus size: 113
50338127 GACTATAGCA
*
50338137 AATCGCACACATA-TGCTATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTCA
1 AATCGCACACATAGT-CCATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTCA
50338201 TAGTAAAGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTG
65 TAGTAAAGCACACATAGTGCCATA--GAATCGCACACATAGTGCCATAGTG
* *
50338252 AATCGCACACATAGTCCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTCCA
1 AATCGCACACATAGTCCATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGT-CA
*
50338317 TAGTGAATCGCACACATAGTGCCATA-AATCGCACACATAGTGCCATAGTG
65 TAGT-AA-AGCACACATAGTGCCATAGAATCGCACACATAGTGCCATAGTG
50338367 AATCGCACACATAGTCCATA
1 AATCGCACACATAGTCCATA
50338387 TGGTCTTTGC
Statistics
Matches: 127, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
115 101 0.80
116 7 0.06
117 2 0.02
118 17 0.13
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.21
Consensus pattern (113 bp):
AATCGCACACATAGTCCATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTCAT
AGTAAAGCACACATAGTGCCATAGAATCGCACACATAGTGCCATAGTG
Found at i:50340858 original size:41 final size:41
Alignment explanation
Indices: 50340813--50340930 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
50340803 TGAAAGATAA
50340813 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
50340854 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
50340884 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
50340925 ATGTAG
1 ATGTAG
50340931 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:50340869 original size:71 final size:71
Alignment explanation
Indices: 50340781--50340944 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
50340771 GAGATGTATC
50340781 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
50340846 AGGACA
66 AGGACA
50340852 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
50340917 AGGACA
66 AGGACA
50340923 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
50340945 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:50347914 original size:41 final size:41
Alignment explanation
Indices: 50347869--50347986 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
50347859 TGAAAGATAA
50347869 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
50347910 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
50347940 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
50347981 ATGTAG
1 ATGTAG
50347987 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:50347925 original size:71 final size:71
Alignment explanation
Indices: 50347837--50348000 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
50347827 GAGATGTATC
50347837 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
50347902 AGGACA
66 AGGACA
50347908 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
50347973 AGGACA
66 AGGACA
50347979 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
50348001 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:50349460 original size:6 final size:6
Alignment explanation
Indices: 50349446--50349534 Score: 58
Period size: 6 Copynumber: 14.5 Consensus size: 6
50349436 ACCTGATACC
* * *
50349446 GATTCT GATTTT GATTCT G-TTACCT GATACT GATTCC GATTCT GATTCT
1 GATTCT GATTCT GATTCT GATT--CT GATTCT GATTCT GATTCT GATTCT
* * *
50349495 G-TCACCT AATTTT GATTCT GATTCT GATTCT -AGTTCT GAT
1 GAT--TCT GATTCT GATTCT GATTCT GATTCT GA-TTCT GAT
50349535 AATGTTTCTT
Statistics
Matches: 63, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
5 4 0.06
6 51 0.81
7 6 0.10
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (6 bp):
GATTCT
Found at i:50349460 original size:31 final size:31
Alignment explanation
Indices: 50349426--50349550 Score: 137
Period size: 31 Copynumber: 4.1 Consensus size: 31
50349416 TTTTGATTTT
* *
50349426 TGATTCTGTTACCTGATACCGATTCTGATTT
1 TGATTCTGTTACCTGATACTGATTCTGATTC
*
50349457 TGATTCTGTTACCTGATACTGATTCCGATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
* * **
50349488 TGATTCTGTCACCTAATTTTGATTCTGATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
* * *
50349519 TGATTCTAGTT--CTGATAATGTTTCTTATTC
1 TGATTCT-GTTACCTGATACTGATTCTGATTC
50349549 TG
1 TG
50349551 TAATGGGTTA
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
30 16 0.20
31 61 0.77
32 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.47
Consensus pattern (31 bp):
TGATTCTGTTACCTGATACTGATTCTGATTC
Found at i:50349478 original size:25 final size:24
Alignment explanation
Indices: 50349442--50349489 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
50349432 TGTTACCTGA
* **
50349442 TACCGATTCTGATTTTGATTCTGT
1 TACCGATACTGATTCCGATTCTGT
50349466 TACCTGATACTGATTCCGATTCTG
1 TACC-GATACTGATTCCGATTCTG
50349490 ATTCTGTCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.44
Consensus pattern (24 bp):
TACCGATACTGATTCCGATTCTGT
Found at i:50349492 original size:12 final size:12
Alignment explanation
Indices: 50349438--50349493 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
50349428 ATTCTGTTAC
*
50349438 CTGATACCGATT
1 CTGATTCCGATT
**
50349450 CTGATTTTGATT
1 CTGATTCCGATT
*
50349462 CTG-TTACCTGATA
1 CTGATT-CC-GATT
50349475 CTGATTCCGATT
1 CTGATTCCGATT
50349487 CTGATTC
1 CTGATTC
50349494 TGTCACCTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
11 2 0.06
12 22 0.65
13 8 0.24
14 2 0.06
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (12 bp):
CTGATTCCGATT
Done.