Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 130 of 344
Found at i:43958176 original size:24 final size:24
Alignment explanation
Indices: 43958133--43958194 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 24
43958123 GGAAGTGCTA
* * *
43958133 AAAAGGCTCTGCCCAGTTTA-CCG
1 AAAAGGCTTTGCCCAATTTATCAG
43958156 AAAAGGCTTTGCCCTAATTTATCAG
1 AAAAGGCTTTGCCC-AATTTATCAG
*
43958181 AAAGGGCTTTGCCC
1 AAAAGGCTTTGCCC
43958195 CAGTTATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 13 0.39
24 5 0.15
25 15 0.45
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGCTTTGCCCAATTTATCAG
Found at i:43958408 original size:41 final size:40
Alignment explanation
Indices: 43958345--43958431 Score: 138
Period size: 41 Copynumber: 2.1 Consensus size: 40
43958335 TAGTCTCCCC
*
43958345 AAATGGCTTGCATACATTCATTGACATCACATGTGATATTG
1 AAATGGCTTGCATACATCCATTGA-ATCACATGTGATATTG
* *
43958386 AGATGGCTTGCATACATCCATTGAATTACATGTGATATTG
1 AAATGGCTTGCATACATCCATTGAATCACATGTGATATTG
43958426 AAATGG
1 AAATGG
43958432 GCCTAAGAGC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 20 0.48
41 22 0.52
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (40 bp):
AAATGGCTTGCATACATCCATTGAATCACATGTGATATTG
Found at i:43958501 original size:31 final size:31
Alignment explanation
Indices: 43958460--43958538 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
43958450 TTACAGTAAA
43958460 GCTTC-GCCCAGTGATATGATTTATGAAAAG
1 GCTTCGGCCCAGTGATATGATTTATGAAAAG
*
43958490 GCTTCGGCCCAGTGATATGATTTATGGAAAG
1 GCTTCGGCCCAGTGATATGATTTATGAAAAG
*
43958521 GCTTCGGCCTAGT-ATATG
1 GCTTCGGCCCAGTGATATG
43958539 TCAAGACAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 10 0.22
31 36 0.78
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (31 bp):
GCTTCGGCCCAGTGATATGATTTATGAAAAG
Found at i:43961608 original size:31 final size:31
Alignment explanation
Indices: 43961573--43961635 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
43961563 AAAGGGTTAG
*
43961573 TCACACCTGAACCAGAACCAAGGCAAGAAAC
1 TCACACCTAAACCAGAACCAAGGCAAGAAAC
43961604 TCACACCTAAACCAGAACCAAGGCAAGAAAC
1 TCACACCTAAACCAGAACCAAGGCAAGAAAC
43961635 T
1 T
43961636 GAGATAAGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.32, G:0.14, T:0.08
Consensus pattern (31 bp):
TCACACCTAAACCAGAACCAAGGCAAGAAAC
Found at i:43968873 original size:27 final size:27
Alignment explanation
Indices: 43968826--43968929 Score: 106
Period size: 27 Copynumber: 3.9 Consensus size: 27
43968816 CTGCCAAAAC
* * *
43968826 AGATAA-TGTGACAGAGTCACCAGAAT
1 AGATAATTGTGGCAAAGCCACCAGAAT
* *
43968852 AGTTAATTGTGGCAAAGCCACCAGAAC
1 AGATAATTGTGGCAAAGCCACCAGAAT
*
43968879 AGAT-ATATGTGGCAGAGCCACCAG-AT
1 AGATAAT-TGTGGCAAAGCCACCAGAAT
*
43968905 CAGATAATTGTGGCATAGCCACCAG
1 -AGATAATTGTGGCAAAGCCACCAG
43968930 GACGCTTCCT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 8 0.12
27 55 0.85
28 2 0.03
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (27 bp):
AGATAATTGTGGCAAAGCCACCAGAAT
Found at i:43968913 original size:54 final size:53
Alignment explanation
Indices: 43968823--43968929 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 53
43968813 TGGCTGCCAA
* *
43968823 AACAGATAATGTGACAGAGTCACCAGAATAGTTAATTGTGGCAAAGCCACCAG
1 AACAGATAATGTGACAGAGCCACCAGAATAGATAATTGTGGCAAAGCCACCAG
* *
43968876 AACAGATATATGTGGCAGAGCCACCAG-ATCAGATAATTGTGGCATAGCCACCAG
1 AACAGATA-ATGTGACAGAGCCACCAGAAT-AGATAATTGTGGCAAAGCCACCAG
43968930 GACGCTTCCT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
53 10 0.21
54 38 0.79
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (53 bp):
AACAGATAATGTGACAGAGCCACCAGAATAGATAATTGTGGCAAAGCCACCAG
Found at i:43970969 original size:47 final size:47
Alignment explanation
Indices: 43970894--43971342 Score: 763
Period size: 47 Copynumber: 9.5 Consensus size: 47
43970884 TTCGGGACTC
* * * * * * *
43970894 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
43970941 GTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
43970988 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
43971035 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
43971082 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
43971129 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
* *
43971176 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTA
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
43971223 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
43971270 ATCACATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
43971319 ATCACATATATACACTTTCACATT
1 ATCACATATATACACTTTCACATT
43971343 TATTCAAATA
Statistics
Matches: 384, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 338 0.88
49 46 0.12
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:43974584 original size:40 final size:40
Alignment explanation
Indices: 43974539--43974777 Score: 331
Period size: 40 Copynumber: 6.0 Consensus size: 40
43974529 CGAATACACG
* * * *
43974539 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** *
43974579 ACACCAGCACGAATGCTCTTC-AAACTTAGCTCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
43974618 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
43974658 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
43974698 TCACTAGCATGAATGCTCTTCGGGACTTAGCCTGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
43974738 TCACTAGCATGAATGCTCTTCGGGACTT-GCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
43974776 TC
1 TC
43974778 GTCGAGACCT
Statistics
Matches: 176, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
38 4 0.02
39 38 0.22
40 134 0.76
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:43990556 original size:27 final size:27
Alignment explanation
Indices: 43990513--43990645 Score: 144
Period size: 27 Copynumber: 4.9 Consensus size: 27
43990503 GCGAGGCTGC
43990513 CAGATAT-TGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAA
* * *
43990539 CAGATATATGTGGTAGAGCCACTAGAT
1 CAGATATATGTGGCAGAGCCACCAGAA
* * *
43990566 CAGATA-ATTATGGCATAGCCACCAGGA
1 CAGATATA-TGTGGCAGAGCCACCAGAA
*
43990593 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATATATGTGGCAGAGCCACCAGAA
* * *
43990620 TAGATAAATTGTGGCATAGCCACCAG
1 CAGATATA-TGTGGCAGAGCCACCAG
43990646 GACGCTTCCT
Statistics
Matches: 87, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
26 8 0.09
27 62 0.71
28 17 0.20
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATATGTGGCAGAGCCACCAGAA
Found at i:43990596 original size:54 final size:54
Alignment explanation
Indices: 43990513--43990648 Score: 202
Period size: 54 Copynumber: 2.5 Consensus size: 54
43990503 GCGAGGCTGC
* * * *
43990513 CAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGTAGAGCCACTAGAT
1 CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGAT
*
43990566 CAGATAATTATGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGAT
*
43990620 TAGATAAATTGTGGCATAGCCACCAGGAC
1 CAGAT-AATTGTGGCATAGCCACCAGGAC
43990649 GCTTCCTCCA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
53 5 0.07
54 47 0.64
55 22 0.30
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (54 bp):
CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGCCACCAGAT
Found at i:43992229 original size:26 final size:26
Alignment explanation
Indices: 43992198--43992305 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
43992188 TGAAATGGCC
*
43992198 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
43992224 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
43992250 ACCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
43992276 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
43992302 ATCA
1 ATCA
43992306 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:43998433 original size:27 final size:27
Alignment explanation
Indices: 43998399--43998527 Score: 147
Period size: 27 Copynumber: 4.8 Consensus size: 27
43998389 AGACTGCCAA
43998399 ATAT-TGTGGCAGAGCCACCAGAACAG
1 ATATATGTGGCAGAGCCACCAGAACAG
*
43998425 ATATATGTGGCAGAGCCACCAGATCAG
1 ATATATGTGGCAGAGCCACCAGAACAG
* *
43998452 ATA-ATTGTGGCATAGCCACTA-AGACAG
1 ATATA-TGTGGCAGAGCCACCAGA-ACAG
**
43998479 ATATATGTGGCAGAGCCACCAGATTAG
1 ATATATGTGGCAGAGCCACCAGAACAG
* *
43998506 ATAAATTGTGGCATAGCCACCA
1 ATATA-TGTGGCAGAGCCACCA
43998528 AGACGCTTCC
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
26 6 0.07
27 64 0.74
28 17 0.20
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
ATATATGTGGCAGAGCCACCAGAACAG
Found at i:43998469 original size:54 final size:55
Alignment explanation
Indices: 43998401--43998531 Score: 212
Period size: 54 Copynumber: 2.4 Consensus size: 55
43998391 ACTGCCAAAT
*
43998401 ATTGTGGCAGAGCCACC-AGAACAGATATATGTGGCAGAGCCACCAGATCAGAT-A
1 ATTGTGGCATAGCCACCAAG-ACAGATATATGTGGCAGAGCCACCAGATCAGATAA
* *
43998455 ATTGTGGCATAGCCACTAAGACAGATATATGTGGCAGAGCCACCAGATTAGATAA
1 ATTGTGGCATAGCCACCAAGACAGATATATGTGGCAGAGCCACCAGATCAGATAA
43998510 ATTGTGGCATAGCCACCAAGAC
1 ATTGTGGCATAGCCACCAAGAC
43998532 GCTTCCTCCA
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
54 47 0.66
55 24 0.34
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (55 bp):
ATTGTGGCATAGCCACCAAGACAGATATATGTGGCAGAGCCACCAGATCAGATAA
Found at i:44000116 original size:26 final size:26
Alignment explanation
Indices: 44000081--44000188 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
44000071 TGAAATGGCC
* *
44000081 ATCATAGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
44000107 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
44000133 ACCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
44000159 ACCATGGAACATTTACCTAACCCGTT
1 ATCATGGAACATTTACCTAACCCATT
44000185 ATCA
1 ATCA
44000189 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:44004791 original size:47 final size:47
Alignment explanation
Indices: 44004733--44005174 Score: 695
Period size: 47 Copynumber: 9.4 Consensus size: 47
44004723 CAGCCAAGAC
*
44004733 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44004780 AGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44004827 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
44004874 AATGTATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
44004921 AGTGTATATGTGTGCTAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
44004968 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44005015 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44005062 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAGGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
44005109 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
44005156 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
44005175 TCCCGAAGGG
Statistics
Matches: 365, Mismatches: 30, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 365 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:44005349 original size:37 final size:37
Alignment explanation
Indices: 44005293--44005371 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
44005283 CCGAGCTCTA
* *
44005293 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTGTGTCCGGGT
*
44005330 AAGACCCGATAACTTCGTGTGGAGATTGTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTGTGTCCGGGT
44005367 AAGAC
1 AAGAC
44005372 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTGTGTCCGGGT
Found at i:44007153 original size:41 final size:41
Alignment explanation
Indices: 44007107--44007196 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 41
44007097 CACAAAAATA
* * * *
44007107 AATTCATGGTTACCGAAGTACAAACGAGGGCA-TGTATGTGC
1 AATTCAAGGGTACCGAAGTACAAACAAGGG-AGCGTATGTGC
*
44007148 AATTCAAGGGTACCGAAGTACAAATAAGGGAGCGTATGTGC
1 AATTCAAGGGTACCGAAGTACAAACAAGGGAGCGTATGTGC
44007189 AATTCAAG
1 AATTCAAG
44007197 AATAATTTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 1 0.02
41 42 0.98
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.22
Consensus pattern (41 bp):
AATTCAAGGGTACCGAAGTACAAACAAGGGAGCGTATGTGC
Found at i:44010879 original size:14 final size:16
Alignment explanation
Indices: 44010857--44010890 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
44010847 AGTGATCGAA
44010857 AAAAGTAC-AAAAAAT
1 AAAAGTACAAAAAAAT
44010872 AAAA-TACAAAAAAAT
1 AAAAGTACAAAAAAAT
44010887 AAAA
1 AAAA
44010891 AATATTACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAAGTACAAAAAAAT
Found at i:44016624 original size:45 final size:45
Alignment explanation
Indices: 44016545--44016707 Score: 256
Period size: 45 Copynumber: 3.6 Consensus size: 45
44016535 TAGCATTTTC
*
44016545 CCTGCTAGGCTCGAA-GCCCGAATAGTATCTCACCGGCATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATAG
* * *
44016589 CCTGCTAGGCTCAAAGGCCCGAGTGGTATTTCACCGGCATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATAG
*
44016634 CCTGCTAGGCTCAAAGACCCGAATAGTATCTCACCGGCATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATAG
* *
44016679 CCTGCTAGGTTCAAAGGCCTGAATAGTAT
1 CCTGCTAGGCTCAAAGGCCCGAATAGTAT
44016708 TGTGCGGTGT
Statistics
Matches: 107, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
44 14 0.13
45 93 0.87
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (45 bp):
CCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATAG
Found at i:44024338 original size:45 final size:45
Alignment explanation
Indices: 44024253--44024383 Score: 203
Period size: 45 Copynumber: 3.0 Consensus size: 45
44024243 TTTTATCAAT
** *
44024253 TCACCGGCATT-TTTCCTACTAGGCTCAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
44024296 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
44024341 TCACCGGCATTATAGCCTGCTACGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
44024384 CTGTGCGATA
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
43 10 0.12
44 15 0.19
45 55 0.69
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:44031296 original size:28 final size:27
Alignment explanation
Indices: 44031251--44031333 Score: 103
Period size: 28 Copynumber: 3.0 Consensus size: 27
44031241 ATGCCATTGA
44031251 ATACTCAATATTCTGCACACTAAGTGCC
1 ATACTCAATA-TCTGCACACTAAGTGCC
*
44031279 ATACTCGATATCTAGCACACTAAGTGCC
1 ATACTCAATATCT-GCACACTAAGTGCC
** *
44031307 ATTTTCAATGTCTCGCACACTAAGTGC
1 ATACTCAATATCT-GCACACTAAGTGC
44031334 AATGCTCGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
27 3 0.06
28 45 0.94
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (27 bp):
ATACTCAATATCTGCACACTAAGTGCC
Found at i:44031333 original size:56 final size:56
Alignment explanation
Indices: 44031265--44031390 Score: 180
Period size: 56 Copynumber: 2.2 Consensus size: 56
44031255 TCAATATTCT
*
44031265 GCACACTAAGTGCCATACTCGATATCTAGCACACTAAGTGCCATTTTCAATGTCTC
1 GCACACTAAGTGCCATACTCGATATCTAGCACACTAAATGCCATTTTCAATGTCTC
* * * * *
44031321 GCACACTAAGTGCAATGCTCGATGTCTTGCACATTAAATGCCATTTTCAATGTCTC
1 GCACACTAAGTGCCATACTCGATATCTAGCACACTAAATGCCATTTTCAATGTCTC
* *
44031377 ACACACTAACTGCC
1 GCACACTAAGTGCC
44031391 GTACATAGCC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (56 bp):
GCACACTAAGTGCCATACTCGATATCTAGCACACTAAATGCCATTTTCAATGTCTC
Found at i:44031345 original size:28 final size:28
Alignment explanation
Indices: 44031265--44031390 Score: 126
Period size: 28 Copynumber: 4.5 Consensus size: 28
44031255 TCAATATTCT
* * * *
44031265 GCACACTAAGTGCCATACTCGATATCTA
1 GCACACTAAGTGCCATTCTCAATGTCTC
*
44031293 GCACACTAAGTGCCATTTTCAATGTCTC
1 GCACACTAAGTGCCATTCTCAATGTCTC
* * * *
44031321 GCACACTAAGTGCAATGCTCGATGTCTT
1 GCACACTAAGTGCCATTCTCAATGTCTC
* * *
44031349 GCACATTAAATGCCATTTTCAATGTCTC
1 GCACACTAAGTGCCATTCTCAATGTCTC
* *
44031377 ACACACTAACTGCC
1 GCACACTAAGTGCC
44031391 GTACATAGCC
Statistics
Matches: 78, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 78 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATGTCTC
Found at i:44031475 original size:40 final size:40
Alignment explanation
Indices: 44031397--44031475 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 40
44031387 TGCCGTACAT
* * *
44031397 AGCCGAAGATATCTCAAATCGCACACTAAGTTCCATATTC
1 AGCCGAAGATATCTCAAATCGCACACAAAATGCCATATTC
* * * *
44031437 AGCCGAAGCTATGTCGAATCGCACACAAAATGCTATATT
1 AGCCGAAGATATCTCAAATCGCACACAAAATGCCATATT
44031476 TAGTCGATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.24
Consensus pattern (40 bp):
AGCCGAAGATATCTCAAATCGCACACAAAATGCCATATTC
Found at i:44036732 original size:29 final size:30
Alignment explanation
Indices: 44036693--44036771 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
44036683 ATTAATAATC
44036693 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
44036723 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
44036752 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
44036772 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:44044725 original size:29 final size:30
Alignment explanation
Indices: 44044686--44044764 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
44044676 ATTAATAATC
44044686 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
44044716 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
44044745 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
44044765 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:44050209 original size:20 final size:22
Alignment explanation
Indices: 44050181--44050230 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
44050171 TGTTATGTAT
*
44050181 GTATCGATATTGCCTTT-A-TG
1 GTATTGATATTGCCTTTAAGTG
* *
44050201 GTATTGATATTTCTTTTAAGTG
1 GTATTGATATTGCCTTTAAGTG
44050223 GTATTGAT
1 GTATTGAT
44050231 GCCACATGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 14 0.56
21 1 0.04
22 10 0.40
ACGTcount: A:0.22, C:0.08, G:0.20, T:0.50
Consensus pattern (22 bp):
GTATTGATATTGCCTTTAAGTG
Found at i:44061186 original size:13 final size:13
Alignment explanation
Indices: 44061168--44061207 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
44061158 AGTTTGGCAA
*
44061168 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
44061181 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
44061194 TGTTTTTGAAAAG
1 TGCTTTTGAAAAG
44061207 T
1 T
44061208 TTGGTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.42
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:44075437 original size:184 final size:184
Alignment explanation
Indices: 44075128--44075495 Score: 736
Period size: 184 Copynumber: 2.0 Consensus size: 184
44075118 GAAAATGTCC
44075128 TTTAGTTTAAAGAAGATATATTATTTGAGGGAATTTTACTATTTTTAGTTTTTCTTTAAAAAACC
1 TTTAGTTTAAAGAAGATATATTATTTGAGGGAATTTTACTATTTTTAGTTTTTCTTTAAAAAACC
44075193 AATTAAAACTTTGCATATGGTGAAATTTGAACCCATGAAATTTGCAATAATAAAACATTAATTTT
66 AATTAAAACTTTGCATATGGTGAAATTTGAACCCATGAAATTTGCAATAATAAAACATTAATTTT
44075258 CACACTCAACTAAAACTTTACTTTAATTTCTTTAATACATTTTAATATTATTTT
131 CACACTCAACTAAAACTTTACTTTAATTTCTTTAATACATTTTAATATTATTTT
44075312 TTTAGTTTAAAGAAGATATATTATTTGAGGGAATTTTACTATTTTTAGTTTTTCTTTAAAAAACC
1 TTTAGTTTAAAGAAGATATATTATTTGAGGGAATTTTACTATTTTTAGTTTTTCTTTAAAAAACC
44075377 AATTAAAACTTTGCATATGGTGAAATTTGAACCCATGAAATTTGCAATAATAAAACATTAATTTT
66 AATTAAAACTTTGCATATGGTGAAATTTGAACCCATGAAATTTGCAATAATAAAACATTAATTTT
44075442 CACACTCAACTAAAACTTTACTTTAATTTCTTTAATACATTTTAATATTATTTT
131 CACACTCAACTAAAACTTTACTTTAATTTCTTTAATACATTTTAATATTATTTT
44075496 ACTTACTTTA
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
184 184 1.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (184 bp):
TTTAGTTTAAAGAAGATATATTATTTGAGGGAATTTTACTATTTTTAGTTTTTCTTTAAAAAACC
AATTAAAACTTTGCATATGGTGAAATTTGAACCCATGAAATTTGCAATAATAAAACATTAATTTT
CACACTCAACTAAAACTTTACTTTAATTTCTTTAATACATTTTAATATTATTTT
Found at i:44082083 original size:26 final size:27
Alignment explanation
Indices: 44082033--44082084 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
44082023 TTTGATTGGT
*
44082033 TAAGATTATTTTATTATTATTTTAATA
1 TAAGATTATTTTATTATTATGTTAATA
44082060 TAAGA-TATTTTATTATT-TAGTTAAT
1 TAAGATTATTTTATTATTAT-GTTAAT
44082085 GGTTAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 1 0.04
26 17 0.74
27 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.58
Consensus pattern (27 bp):
TAAGATTATTTTATTATTATGTTAATA
Found at i:44084050 original size:223 final size:223
Alignment explanation
Indices: 44083641--44084091 Score: 667
Period size: 223 Copynumber: 2.0 Consensus size: 223
44083631 CCTATAGAGG
*
44083641 TCATACGACACTTTCAGAATAATCGCAGCATTGCTGCCAATATATTGGCGAAATATTACCTTACA
1 TCATACGACACTTTCAGAATAATCGCAGCATTGCTGCCAATATATTGGCGAAATATCACCTTACA
44083706 TAGAATACTTACTCCTCATAAAACATAACCCGTCCCATAGCCAGATACAGACAGAACATCAGATA
66 TAGAATACTTACTCCTCATAAAACATAACCCGTCCCATAGCCAGATACAGACAGAACATCAGATA
* * * *
44083771 AAATAGAATAACATATACCAGAATGTATATCACATGCATGCTTGTATAACAAATACTAAACATGC
131 AAACAAAATAACAGATACCAGAACGTATATCACATGCATGCTTGTATAACAAATACTAAACATGC
44083836 TCATACATAACAGAATAGATCATACATA
196 TCATACATAACAGAATAGATCATACATA
* * * * * *
44083864 -CATACGACACTTTTCAGAATAATTGCAGCATTGGTGCGAGTATATTGGTGAAATATCGCCTTAC
1 TCATACGACAC-TTTCAGAATAATCGCAGCATTGCTGCCAATATATTGGCGAAATATCACCTTAC
* * * *
44083928 ATAGAATACTTCCTTCTCATAAAACATAACCCG-CCTTATAGCCAGATACAGACAGAGCATCAGA
65 ATAGAATACTTACTCCTCATAAAACATAACCCGTCC-CATAGCCAGATACAGACAGAACATCAGA
* *
44083992 TAAAACAAAATAACAGATACCAGAACGTATATTACATGTATGCTCATGTA-AA-AAATACTAAAC
129 TAAAACAAAATAACAGATACCAGAACGTATATCACATGCATGCT--TGTATAACAAATACTAAAC
* *
44084055 ATGCTCATACATAACATAATATATCATACATA
192 ATGCTCATACATAACAGAATAGATCATACATA
44084087 TCATA
1 TCATA
44084092 TTACACTATA
Statistics
Matches: 204, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
222 12 0.06
223 182 0.89
224 6 0.03
225 4 0.02
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (223 bp):
TCATACGACACTTTCAGAATAATCGCAGCATTGCTGCCAATATATTGGCGAAATATCACCTTACA
TAGAATACTTACTCCTCATAAAACATAACCCGTCCCATAGCCAGATACAGACAGAACATCAGATA
AAACAAAATAACAGATACCAGAACGTATATCACATGCATGCTTGTATAACAAATACTAAACATGC
TCATACATAACAGAATAGATCATACATA
Found at i:44084907 original size:13 final size:13
Alignment explanation
Indices: 44084889--44084940 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
44084879 TGGCAGCTAG
44084889 GAAAAATAAAGAA
1 GAAAAATAAAGAA
44084902 GAAAAATAAAG-A
1 GAAAAATAAAGAA
* *
44084914 GTAAAGAGAAAGAA
1 G-AAAAATAAAGAA
* *
44084928 CAAAAAAAAAGAA
1 GAAAAATAAAGAA
44084941 ACATGAAGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
12 2 0.06
13 29 0.91
14 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (13 bp):
GAAAAATAAAGAA
Found at i:44085880 original size:22 final size:22
Alignment explanation
Indices: 44085848--44085892 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
44085838 GATGATTGTG
44085848 GCACTTCGGTGCAAATGAAAGT
1 GCACTTCGGTGCAAATGAAAGT
* * *
44085870 GCACTTTGGTGCAAGTGATAGT
1 GCACTTCGGTGCAAATGAAAGT
44085892 G
1 G
44085893 GCTCTTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (22 bp):
GCACTTCGGTGCAAATGAAAGT
Found at i:44088352 original size:47 final size:48
Alignment explanation
Indices: 44088287--44088415 Score: 144
Period size: 47 Copynumber: 2.7 Consensus size: 48
44088277 ATCTCTACGC
* *
44088287 CGATTCCATGTCCCAGACATGGTCTTACACTAGCTA-TCG-T-AATGT
1 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTACTCGCTCAATGT
44088332 GGCTGATG-CATGTCCTAGACAT-GTCTTACACTAGC-ACTCGTCTCAATGT
1 --C-GATGCCATGTCCTAGACATGGTCTTACACTAGCTACTCG-CTCAATGT
* *
44088381 CGATGCCATATCCTAGATATGGTCTTACACTAGCT
1 CGATGCCATGTCCTAGACATGGTCTTACACTAGCT
44088416 CTCACAAAAC
Statistics
Matches: 70, Mismatches: 4, Indels: 14
0.80 0.05 0.16
Matches are distributed among these distances:
45 1 0.01
46 20 0.29
47 27 0.39
48 17 0.24
49 5 0.07
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (48 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTAGCTACTCGCTCAATGT
Found at i:44088369 original size:94 final size:92
Alignment explanation
Indices: 44088051--44088415 Score: 288
Period size: 94 Copynumber: 3.8 Consensus size: 92
44088041 CAAAATTGCC
* * *
44088051 GATGCCATGTCCTAGACATGGTCTTACACTGGCTATCTTCAT-TGAGGCCGATGCCATATCCCAG
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGC-A-C-TCATCTTA-GCCGATGCCATATCCCAG
* * *
44088115 ACATGGTCTTACACTAGCTCTTGTGTATAAGT-GCT
60 ACATGGTCTTACACTAGCT-AT-CGTA-ATGTGGCT
** * * ** *
44088150 GATGCATGTCCCAGACATGTCTTACACTAGCACGAAGCTTAGCCGATG-CATGTCCCAGTTA-CG
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTTAGCCGATGCCATATCCCAGACATGG
* * * * * *
44088213 TCTTACACTGGCTACCATCATTGAGGCC
66 TCTTACACTAGCTATCGT-AATGTGGCT
* * * * * *
44088241 AATGCATGTCCCCAGCCACGTCTTACACTGGCACTCATCTCTACGCCGATTCCATGTCCCAGACA
1 GATGCATGT-CCCAGACATGTCTTACACTAGCACTCATCT-TA-GCCGATGCCATATCCCAGACA
44088306 TGGTCTTACACTAGCTATCGTAATGTGGCT
63 TGGTCTTACACTAGCTATCGTAATGTGGCT
* * * * * *
44088336 GATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAATGTCGATGCCATATCCTAGATAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCT-TA-GCCGATGCCATATCCCAGACAT
44088401 GGTCTTACACTAGCT
64 GGTCTTACACTAGCT
44088416 CTCACAAAAC
Statistics
Matches: 209, Mismatches: 49, Indels: 21
0.75 0.18 0.08
Matches are distributed among these distances:
90 2 0.01
91 11 0.05
92 37 0.18
93 12 0.06
94 73 0.35
95 28 0.13
96 17 0.08
97 12 0.06
98 13 0.06
99 4 0.02
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTTAGCCGATGCCATATCCCAGACATGG
TCTTACACTAGCTATCGTAATGTGGCT
Found at i:44088412 original size:48 final size:48
Alignment explanation
Indices: 44088260--44088414 Score: 151
Period size: 48 Copynumber: 3.3 Consensus size: 48
44088250 CCCCAGCCAC
* * * * * * *
44088260 GTCTTACACTGGCACTCATCTCTACGCCGATTCCATGTCCCAGACATG
1 GTCTTACACTAGCACTCGTCTCAATGTCGATGCCATGTCCTAGACATG
44088308 GTCTTACACTAGCTA-TCG--T-AATGTGGCTGATG-CATGTCCTAGACAT-
1 GTCTTACACTAGC-ACTCGTCTCAATGT--C-GATGCCATGTCCTAGACATG
* *
44088354 GTCTTACACTAGCACTCGTCTCAATGTCGATGCCATATCCTAGATATG
1 GTCTTACACTAGCACTCGTCTCAATGTCGATGCCATGTCCTAGACATG
44088402 GTCTTACACTAGC
1 GTCTTACACTAGC
44088415 TCTCACAAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
45 3 0.03
46 21 0.24
47 27 0.31
48 31 0.35
49 6 0.07
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.30
Consensus pattern (48 bp):
GTCTTACACTAGCACTCGTCTCAATGTCGATGCCATGTCCTAGACATG
Found at i:44092649 original size:47 final size:47
Alignment explanation
Indices: 44092543--44092712 Score: 152
Period size: 47 Copynumber: 3.6 Consensus size: 47
44092533 ACGAAGTTTA
* * * *
44092543 GCCGATGCATGTCCTAGTCACGTCTTACACTGGCTACCTTCATTGAG
1 GCCGATGCATGTCCCAGACACGTCTTACATTGGCTACCTTCATTGAC
*
44092590 GCCGATGCATGTCCCAGACACGTCTTACATTGGC-A-C-TCATCTCTAC
1 GCCGATGCATGTCCCAGACACGTCTTACATTGGCTACCTTCAT-T-GAC
* ** * *
44092636 GCCGATGCGATGTCCCAGACATGGTCTTACATTGGCTGTCGTAATATG--
1 GCCGATGC-ATGTCCCAGACA-CGTCTTACATTGGCTACCTTCAT-TGAC
* *
44092684 GCTGATGCATGTCCTAGACACGTCTTACA
1 GCCGATGCATGTCCCAGACACGTCTTACA
44092713 CTAGCCCTCG
Statistics
Matches: 103, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
44 4 0.04
45 2 0.02
46 18 0.17
47 54 0.52
48 20 0.19
50 1 0.01
51 4 0.04
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACACGTCTTACATTGGCTACCTTCATTGAC
Found at i:44092693 original size:94 final size:94
Alignment explanation
Indices: 44092593--44092766 Score: 258
Period size: 94 Copynumber: 1.9 Consensus size: 94
44092583 CATTGAGGCC
* * * *
44092593 GATGCATGTCCCAGACACGTCTTACATTGGCACTCATCTCTACGCCGATGCGATGTCCCAGACAT
1 GATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCAACGCCGATGCCATGTCCCAGACAT
*
44092658 GGTCTTACATTGGCTGTCGTAATATGGCT
66 GGTCTTACACTGGCTGTCGTAATATGGCT
* * * * *
44092687 GATGCATGTCCTAGACACGTCTTACACTAGCCCTCGTTTCAATGCCGATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCAACGCCGATGCCATGTCCCAGACAT
44092752 GGTCTTACACTGGCT
66 GGTCTTACACTGGCT
44092767 CTCATAAAAC
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 70 1.00
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.28
Consensus pattern (94 bp):
GATGCATGTCCCAGACACGTCTTACACTAGCACTCATCTCAACGCCGATGCCATGTCCCAGACAT
GGTCTTACACTGGCTGTCGTAATATGGCT
Found at i:44096071 original size:40 final size:40
Alignment explanation
Indices: 44096016--44096282 Score: 471
Period size: 40 Copynumber: 6.7 Consensus size: 40
44096006 AGCATTGGAT
44096016 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
44096056 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
44096096 TATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
44096136 TATATCCGGGCTAAGACCCGAAGGCAACTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
** *
44096176 TATATCCGGGCTGTGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
44096216 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
44096256 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
44096283 ATGTGTTTGC
Statistics
Matches: 215, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:44100636 original size:40 final size:40
Alignment explanation
Indices: 44100585--44100969 Score: 628
Period size: 40 Copynumber: 9.6 Consensus size: 40
44100575 CATTTGAATG
44100585 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
44100625 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
44100665 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
44100705 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
44100745 ATATCCGGGCTAAGACCCGAAGGCATTAGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
44100785 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
44100825 ATATCCGGGCTAAGACCAGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
44100865 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
44100905 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
44100945 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
44100970 ATTGAGCTTG
Statistics
Matches: 321, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
39 2 0.01
40 318 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:44108290 original size:40 final size:40
Alignment explanation
Indices: 44108239--44108861 Score: 1063
Period size: 40 Copynumber: 15.6 Consensus size: 40
44108229 CATTTGAATG
44108239 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
44108279 ATATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
44108318 ATAT-CGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
44108357 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
44108397 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
44108437 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
44108477 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
44108517 ATATCCGGGCTAAGACCTGAAGGCAGTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
44108557 ATATCCGGGCTAACACCTGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
44108597 ATATCCGGGCTAAGACCTGAAGGCATTTGTGTGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
44108637 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
44108677 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
44108717 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
44108757 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
44108797 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
44108837 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
44108862 ATTGAGCTTG
Statistics
Matches: 554, Mismatches: 25, Indels: 8
0.94 0.04 0.01
Matches are distributed among these distances:
38 10 0.02
39 58 0.10
40 485 0.88
41 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:44117851 original size:25 final size:25
Alignment explanation
Indices: 44117817--44117879 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
44117807 AATCAAAATG
* *
44117817 AGAATTAGAATCAGAATCAGGTGAT
1 AGAATCAGAATCAGAATCAGGTGAC
*
44117842 AGAATCAGAATCAGTATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
44117867 AGAATCAGAATCA
1 AGAATCAGAATCA
44117880 TAATGTGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:44118748 original size:12 final size:13
Alignment explanation
Indices: 44118720--44118752 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
44118710 TTATTTCTTT
44118720 TTCTCCATCTACC
1 TTCTCCATCTACC
*
44118733 TTCTCC-TCTTCC
1 TTCTCCATCTACC
44118745 TTCTCCAT
1 TTCTCCAT
44118753 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:44119852 original size:28 final size:28
Alignment explanation
Indices: 44119820--44119884 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
44119810 ATTTACTAGA
*
44119820 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
44119848 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
44119876 ATACCCCTA
1 ATACCCCTA
44119885 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:44120048 original size:27 final size:28
Alignment explanation
Indices: 44119990--44120064 Score: 100
Period size: 27 Copynumber: 2.7 Consensus size: 28
44119980 AGGAAGCGTC
*
44119990 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTATT
* *
44120018 CTGGTGGCCCTGCCACATA-TATCTATT
1 CTGGTGGCACTGCCACAAATTATCTATT
44120045 CTGGTGGCACTGCCACAAAT
1 CTGGTGGCACTGCCACAAAT
44120065 AGTTGTATCT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 24 0.60
28 16 0.40
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTATT
Found at i:44120566 original size:19 final size:19
Alignment explanation
Indices: 44120542--44120580 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
44120532 TTTTAATTAT
* *
44120542 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
44120561 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
44120580 T
1 T
44120581 ATGATAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:44121158 original size:22 final size:22
Alignment explanation
Indices: 44121130--44121195 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
44121120 GCAAATACGT
44121130 TTGGCACACAGCCATAATCAGA
1 TTGGCACACAGCCATAATCAGA
* *
44121152 TTGGCACACAGCCAT-ATGTAGG
1 TTGGCACACAGCCATAAT-CAGA
*
44121174 TTGGCACAAAGCCATAATCAGA
1 TTGGCACACAGCCATAATCAGA
44121196 AGGCTTTAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (22 bp):
TTGGCACACAGCCATAATCAGA
Found at i:44121652 original size:27 final size:27
Alignment explanation
Indices: 44121622--44122142 Score: 522
Period size: 27 Copynumber: 19.3 Consensus size: 27
44121612 GGGGTAGAAT
* *
44121622 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
44121649 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
44121676 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
44121703 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
44121730 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
44121757 TGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
44121784 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
44121811 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
44121838 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
44121865 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
44121892 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
44121919 GGT-ATTTCTACCC-ATAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
44121945 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
44121972 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*** * * *
44121999 AACAATTCTACTCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
44122026 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
44122053 GG-CATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
44122080 GGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
44122107 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
**
44122134 AATAATTTT
1 GGTAATTTT
44122143 GTAAATTGAG
Statistics
Matches: 424, Mismatches: 60, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
26 35 0.08
27 377 0.89
28 12 0.03
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:44121669 original size:54 final size:54
Alignment explanation
Indices: 44121626--44122133 Score: 651
Period size: 54 Copynumber: 9.4 Consensus size: 54
44121616 TAGAATGGTA
* *
44121626 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGT
* *
44121679 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGT
* * * * * * * **
44121733 AATTCTACCCTATAGGGGTATTTCTGTATTTCTACCCTACAAGGGTATTTTGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGT
* * * * *
44121787 ATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGT
44121841 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGT
* * * *
44121895 AATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC-ATAAGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGT
**
44121948 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAAC
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGT
* * * * * * * *
44122002 AATTCTACTCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGC
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGT
* * * *
44122056 ATTTCTACCCTACAAGGGTATTTCGGTATTTTTACCCTACAAGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGT
* * *
44122110 AATTCTACCCTATAGGGGTATTTC
1 ATTTCTACCCTACAAGGGTATTTC
44122134 AATAATTTTG
Statistics
Matches: 403, Mismatches: 50, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
53 53 0.13
54 350 0.87
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGT
Found at i:44121748 original size:81 final size:81
Alignment explanation
Indices: 44121622--44122140 Score: 698
Period size: 81 Copynumber: 6.4 Consensus size: 81
44121612 GGGGTAGAAT
* * * * * *
44121622 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCAGTATTTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
44121687 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
* * * *
44121703 GGTAATTCTATCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCTGTATTTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
*
44121768 CCTACAAGGGTATTTT
66 CCTACAAGGGTATTTC
* * *
44121784 GGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
44121849 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
* *
44121865 GGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
*
44121930 CC-ATAAGGGTATTTC
66 CCTACAAGGGTATTTC
* * * * *** *
44121945 AGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAACAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
* *
44122010 TCTACAGGGGTATTTC
66 CCTACAAGGGTATTTC
* * * * * *
44122026 GGTATTTCTACCCTACAAGGGTATTTCGGCATTTCTACCCTACAAGGGTATTTCGGTATTTTTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
44122091 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
* * * *
44122107 AGTAATTCTACCCTATAGGGGTATTTCAATAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
44122141 TTGTAAATTG
Statistics
Matches: 382, Mismatches: 55, Indels: 2
0.87 0.13 0.00
Matches are distributed among these distances:
80 68 0.18
81 314 0.82
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
CCTACAAGGGTATTTC
Found at i:44122238 original size:26 final size:26
Alignment explanation
Indices: 44122160--44122410 Score: 222
Period size: 27 Copynumber: 9.4 Consensus size: 26
44122150 GAGGGTAAAA
*
44122160 CGGTAATTCTGTA-AATCGGGGGTACTTT
1 CGGTAATT-T-TACAATCGAGGGTA-TTT
*
44122188 -GATAATTTTACAAGTCGAGGGTATTT
1 CGGTAATTTTACAA-TCGAGGGTATTT
** *
44122214 CAATAATTTTACAATCGACGGTATTT
1 CGGTAATTTTACAATCGAGGGTATTT
* * * *
44122240 CGATAATTTTATAAACCG-GGGGACTTT
1 CGGTAATTTTA-CAATCGAGGGTA-TTT
44122267 -GGTAATTTTACAAGTCGAGGGTATTT
1 CGGTAATTTTACAA-TCGAGGGTATTT
*
44122293 CGGTAATTTTACAAATTGAGGGTATTT
1 CGGTAATTTTAC-AATCGAGGGTATTT
** *
44122320 TAGTAATTTTACAAATTGAGGGTATTT
1 CGGTAATTTTAC-AATCGAGGGTATTT
* *
44122347 CAGTAATTTTACAATCGACGGTATTT
1 CGGTAATTTTACAATCGAGGGTATTT
* *
44122373 TGGTAATTTTACAAATCGAGGATATTT
1 CGGTAATTTTAC-AATCGAGGGTATTT
*
44122400 GGGTAATTTTA
1 CGGTAATTTTA
44122411 TAAACCGGGG
Statistics
Matches: 189, Mismatches: 24, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
25 4 0.02
26 66 0.35
27 117 0.62
28 2 0.01
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (26 bp):
CGGTAATTTTACAATCGAGGGTATTT
Found at i:44122250 original size:53 final size:54
Alignment explanation
Indices: 44122172--44122435 Score: 277
Period size: 53 Copynumber: 4.9 Consensus size: 54
44122162 GTAATTCTGT
* * * *
44122172 AAATCGGGGGTACTTT-GATAATTTTACAAGTCGAGGGTATTTCAATAATTTTAC
1 AAATCGAGGGTA-TTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTTTAC
* * * * * *
44122226 -AATCGACGGTATTTCGATAATTTTATAAACCG-GGGGACTTTGGTAATTTTAC
1 AAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTTTAC
* * *
44122278 AAGTCGAGGGTATTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTAC
1 AAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTTTAC
* * *
44122332 AAATTGAGGGTATTTC-AGTAATTTTAC-AATCGACGGTATTTTGGTAATTTTAC
1 AAATCGAGGGTATTTCGA-TAATTTTACAAATCGAGGGTATTTTAGTAATTTTAC
* * * * * *
44122385 AAATCGAGGATATTTGGGTAATTTTATAAACCGGGGGTATTTTAGTAATTT
1 AAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTT
44122436 GGTAAACTAA
Statistics
Matches: 170, Mismatches: 34, Indels: 12
0.79 0.16 0.06
Matches are distributed among these distances:
52 18 0.11
53 93 0.55
54 59 0.35
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
AAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTTTAC
Found at i:44122372 original size:80 final size:79
Alignment explanation
Indices: 44122190--44122435 Score: 282
Period size: 80 Copynumber: 3.1 Consensus size: 79
44122180 GGTACTTTGA
** * *
44122190 TAATTTTACAAGTCGAGGGTATTTCAATAATTTTAC-AATCGACGGTA-TTTCGATAATTTTATA
1 TAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAG-TAATTTTATA
* *
44122253 AACCGGGGGACTTTGG
65 AACCGGGGTA-TTTAG
* *
44122269 TAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTACAA
1 TAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTATAA
**
44122334 ATTGAGGGTATTTCAG
66 ACCG-GGGTATTT-AG
* * * **
44122350 TAATTTTACAA-TCGACGGTATTTTGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAA
1 TAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTATAA
44122414 ACCGGGGGTATTTTAG
66 ACC-GGGGTA-TTTAG
44122430 TAATTT
1 TAATTT
44122436 GGTAAACTAA
Statistics
Matches: 142, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
79 34 0.24
80 84 0.59
81 24 0.17
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (79 bp):
TAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTATAA
ACCGGGGTATTTAG
Found at i:44122451 original size:80 final size:79
Alignment explanation
Indices: 44122160--44122435 Score: 279
Period size: 80 Copynumber: 3.5 Consensus size: 79
44122150 GAGGGTAAAA
* * * * * **
44122160 CGGTAATTCTGTAAATCGGGGGTACTTT-GATAATTTTACAAGTCGAGGGTATTTCAATAATTTT
1 CGGTAATTTTATAAACCGGGGGTATTTTAG-TAATTTTACAA-TCGAAGGTATTTCGGTAATTTT
44122224 AC-AATCGACGGTATTT
64 ACAAATCGA-GGTATTT
* * * *
44122240 CGATAATTTTATAAACCGGGGG-ACTTTGGTAATTTTACAAGTCGAGGGTATTTCGGTAATTTTA
1 CGGTAATTTTATAAACCGGGGGTATTTTAGTAATTTTACAA-TCGAAGGTATTTCGGTAATTTTA
*
44122304 CAAATTGAGGGTATTT
65 CAAATCGA-GGTATTT
** * ** * * * *
44122320 TAGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAATCGACGGTATTTTGGTAATTTTAC
1 CGGTAATTTTATAAACCGGGGGTATTTTAGTAATTTTACAATCGAAGGTATTTCGGTAATTTTAC
44122385 AAATCGAGGATATTT
66 AAATCGAGG-TATTT
*
44122400 GGGTAATTTTATAAACCGGGGGTATTTTAGTAATTT
1 CGGTAATTTTATAAACCGGGGGTATTTTAGTAATTT
44122436 GGTAAACTAA
Statistics
Matches: 164, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
79 41 0.25
80 108 0.66
81 15 0.09
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (79 bp):
CGGTAATTTTATAAACCGGGGGTATTTTAGTAATTTTACAATCGAAGGTATTTCGGTAATTTTAC
AAATCGAGGTATTT
Found at i:44123865 original size:55 final size:54
Alignment explanation
Indices: 44123778--44124010 Score: 186
Period size: 55 Copynumber: 4.4 Consensus size: 54
44123768 ATTAGGGTTT
*
44123778 AAGGATACCATGTAAGACCATG-CAAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * *
44123833 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTT--TCTAAGG-C
* * * *
44123889 AAGG-TCCCATGTACA-ACCATGCCAAGGA-ATGAC-ATTGGTGAG-TTCATAAGGC
1 AAGGATACCATGTA-AGACCATGTCAA-GACATGGCAATTGGTAAGTTTC-TAAGGC
* * *
44123941 AATGATACCATG-AAGACCATGTCGAGACATGG-AAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGGC
**
44123989 AAGGATACCACATAAGACCATG
1 AAGGATACCATGTAAGACCATG
44124011 AAAAGTCATG
Statistics
Matches: 144, Mismatches: 21, Indels: 32
0.73 0.11 0.16
Matches are distributed among these distances:
48 9 0.06
49 9 0.06
51 5 0.03
52 23 0.16
53 17 0.12
54 8 0.06
55 65 0.45
56 8 0.06
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:44124244 original size:16 final size:16
Alignment explanation
Indices: 44124223--44124253 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44124213 ATAAATTTGA
44124223 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
44124239 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
44124254 CGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:44125971 original size:42 final size:43
Alignment explanation
Indices: 44125892--44125993 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
44125882 TCCCGGACGT
* **
44125892 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACATGTAAATCAATATCGATGCCAATGTCCCAGACAG
* *
44125935 GGTCTTACATG-AAATCAGGTAT-GATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAAATCA-ATATCGATGCCAATGTCCCAGACAG
* *
44125977 GGTCTTATACGTAAATC
1 GGTCTTACATGTAAATC
44125994 TCAATCGAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 31 0.62
43 19 0.38
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAATATCGATGCCAATGTCCCAGACAG
Found at i:44129162 original size:34 final size:34
Alignment explanation
Indices: 44129102--44129167 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
44129092 GTTTCAGTTA
* * *
44129102 GGGCGTTAGCCCATTAAGGTATCAGTATCAGTGT
1 GGGCCTTAGCCCATTAAGGTAACAGTAACAGTGT
*
44129136 GGGCCTTAGCCCATTTTA-GTAACAGTAACAGT
1 GGGCCTTAGCCCA-TTAAGGTAACAGTAACAGT
44129168 ACAGTGACAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 24 0.89
35 3 0.11
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (34 bp):
GGGCCTTAGCCCATTAAGGTAACAGTAACAGTGT
Found at i:44134577 original size:81 final size:81
Alignment explanation
Indices: 44134442--44134721 Score: 350
Period size: 81 Copynumber: 3.5 Consensus size: 81
44134432 GGGGTGAAAC
* * * * *
44134442 AATCATCTTACCATAAAAGGGCAAAACA-TGCATTTTACCACATAAGGGTAAAACAATCATTTTA
1 AATCATTTTACCATATAAGGGCAAAATAGT-CATTTTACCCCATAAGGGCAAAACAATCATTTTA
* *
44134506 CCTCATACGGGCAAAAT
65 CCTCATAAGGGAAAAAT
*
44134523 AATCATTTTACCATATAAGGGC-AAATCAGTCATTTTACCCCATAAGGGCAAAACAGTCATTTTA
1 AATCATTTTACCATATAAGGGCAAAAT-AGTCATTTTACCCCATAAGGGCAAAACAATCATTTTA
44134587 CCTCATAAGGGAAAAAT
65 CCTCATAAGGGAAAAAT
* * * * *
44134604 AGTTATTTTACCATATAAGAGCAAAATAGTCATTTTACCCTATAAGGGCAAAACAATCATTTTAT
1 AATCATTTTACCATATAAGGGCAAAATAGTCATTTTACCCCATAAGGGCAAAACAATCATTTTAC
* * * *
44134669 CACAGAAAGGAAAAAC
66 CTCATAAGGGAAAAAT
*
44134685 AATCATTTTATC-TCATAAGGGCAAAATAGTCATTTTA
1 AATCATTTTACCAT-ATAAGGGCAAAATAGTCATTTTA
44134722 TTAATTTAGG
Statistics
Matches: 173, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
80 4 0.02
81 164 0.95
82 5 0.03
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.28
Consensus pattern (81 bp):
AATCATTTTACCATATAAGGGCAAAATAGTCATTTTACCCCATAAGGGCAAAACAATCATTTTAC
CTCATAAGGGAAAAAT
Found at i:44134722 original size:27 final size:27
Alignment explanation
Indices: 44134458--44134721 Score: 266
Period size: 27 Copynumber: 9.8 Consensus size: 27
44134448 CTTACCATAA
*
44134458 AAGGGCAAAACA-TGCATTTTACCACAT
1 AAGGGCAAAACAGT-CATTTTACCTCAT
* *
44134485 AAGGGTAAAACAATCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
* * *
44134512 ACGGGCAAAATAATCATTTTACCAT-AT
1 AAGGGCAAAACAGTCATTTTACC-TCAT
* *
44134539 AAGGGCAAATCAGTCATTTTACCCCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
44134566 AAGGGCAAAACAGTCATTTTACCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
* * *
44134593 AAGGGAAAAATAGTTATTTTACCAT-AT
1 AAGGGCAAAACAGTCATTTTACC-TCAT
* *
44134620 AAGAGCAAAATAGTCATTTTACC-CTAT
1 AAGGGCAAAACAGTCATTTTACCTC-AT
* * * *
44134647 AAGGGCAAAACAATCATTTTATCACAG
1 AAGGGCAAAACAGTCATTTTACCTCAT
* * * *
44134674 AAAGGAAAAACAATCATTTTATCTCAT
1 AAGGGCAAAACAGTCATTTTACCTCAT
*
44134701 AAGGGCAAAATAGTCATTTTA
1 AAGGGCAAAACAGTCATTTTA
44134722 TTAATTTAGG
Statistics
Matches: 199, Mismatches: 31, Indels: 14
0.82 0.13 0.06
Matches are distributed among these distances:
27 195 0.98
28 4 0.02
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (27 bp):
AAGGGCAAAACAGTCATTTTACCTCAT
Found at i:44135155 original size:16 final size:16
Alignment explanation
Indices: 44135130--44135160 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44135120 AATTGTCGGC
44135130 TTTTGCCAATTTACAA
1 TTTTGCCAATTTACAA
*
44135146 TTTTGGCAATTTACA
1 TTTTGCCAATTTACA
44135161 CACCTGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (16 bp):
TTTTGCCAATTTACAA
Found at i:44138914 original size:19 final size:19
Alignment explanation
Indices: 44138890--44138933 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
44138880 TAGGCATATG
44138890 GCCCGATGACAAAGACCCA
1 GCCCGATGACAAAGACCCA
*
44138909 GCCCGATGACGAAGACCCA
1 GCCCGATGACAAAGACCCA
44138928 GCCCGA
1 GCCCGA
44138934 GCACCTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.32, C:0.39, G:0.25, T:0.05
Consensus pattern (19 bp):
GCCCGATGACAAAGACCCA
Found at i:44140376 original size:27 final size:27
Alignment explanation
Indices: 44140346--44140462 Score: 153
Period size: 27 Copynumber: 4.3 Consensus size: 27
44140336 TACTGAAATG
*
44140346 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
44140373 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
44140400 CCCTTGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
44140427 CCCTCAATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
44140454 CCCTTGATT
1 CCCTCGATT
44140463 GTGAAATTAC
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:44140418 original size:54 final size:54
Alignment explanation
Indices: 44140360--44140462 Score: 170
Period size: 54 Copynumber: 1.9 Consensus size: 54
44140350 CGATTTGTAG
* *
44140360 AATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTTGATTTACAA
1 AATTACCATTTTACCCTCAATTTATAGAATTACCATTTCACCCTTGATTTACAA
* *
44140414 AATTACCGTTTTACCCTCAATTTATAGAATTACCATTTTACCCTTGATT
1 AATTACCATTTTACCCTCAATTTATAGAATTACCATTTCACCCTTGATT
44140463 GTGAAATTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.41
Consensus pattern (54 bp):
AATTACCATTTTACCCTCAATTTATAGAATTACCATTTCACCCTTGATTTACAA
Found at i:44140624 original size:27 final size:27
Alignment explanation
Indices: 44140461--44140619 Score: 187
Period size: 27 Copynumber: 5.9 Consensus size: 27
44140451 TTACCCTTGA
* *
44140461 TTGTGAAATTACTGAAATACCCCTA-T
1 TTGTAAAATTACCGAAATACCCCTAGT
** *
44140487 AGGATAGAATTACCGAAATACCCCTAGT
1 TTG-TAAAATTACCGAAATACCCCTAGT
*
44140515 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCGAAATACCCCTAGT
* *
44140542 TTGTAAAACTACCGAAATACCACTAGT
1 TTGTAAAATTACCGAAATACCCCTAGT
* *
44140569 TTGTGAAATTACCGAAATA-CCCTCAAT
1 TTGTAAAATTACCGAAATACCCCT-AGT
*
44140596 TTGTAAAATTACCAAAATACCCCT
1 TTGTAAAATTACCGAAATACCCCT
44140620 GATTTACAAA
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
26 4 0.04
27 101 0.91
28 6 0.05
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (27 bp):
TTGTAAAATTACCGAAATACCCCTAGT
Found at i:44140632 original size:54 final size:54
Alignment explanation
Indices: 44140399--44140645 Score: 146
Period size: 54 Copynumber: 4.6 Consensus size: 54
44140389 TTACCGTTTC
* *** * * ***
44140399 ACCCTTGATTTACAAAATTACCGTTTTACCCTCAATTTATAGAATTACCATTTT
1 ACCCCTGATTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAAT
* * * * ** * *
44140453 ACCCTTGATTGT--GAAATTACTGAAATACCC-CTATAGGATAGAATTACCGAAAT
1 ACCCCTGATT-TACAAAATTACCGAAATACCCTCAATTTG-TAAAATTACCAAAAT
** * * * *
44140506 ACCCCT-AGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAACTACCGAAAT
1 ACCCCTGA-TTTACAAAATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAAT
* ***
44140560 ACCACT-AGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAAT
1 ACCCCTGA-TTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAAT
**
44140614 ACCCCTGATTTACAAAATTATAGAAATACCCT
1 ACCCCTGATTTACAAAATTACCGAAATACCCT
44140646 TGACTTTCTA
Statistics
Matches: 150, Mismatches: 35, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
52 5 0.03
53 31 0.21
54 109 0.73
55 5 0.03
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (54 bp):
ACCCCTGATTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAAT
Found at i:44140640 original size:81 final size:81
Alignment explanation
Indices: 44140494--44140643 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 81
44140484 TATAGGATAG
* ** *
44140494 AATTACCGAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAACTACCGAAA
1 AATTACCGAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAACTACAGAAA
44140559 TACCACTAGTTTGTGA
66 TACCACTAGTTTGTGA
* *
44140575 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTACAAAATTATAGA
1 AATTACCGAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAACTACAGA
44140638 AATACC
64 AATACC
44140644 CTTGACTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
80 5 0.08
81 56 0.92
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (81 bp):
AATTACCGAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAACTACAGAAA
TACCACTAGTTTGTGA
Found at i:44140707 original size:27 final size:27
Alignment explanation
Indices: 44140610--44140702 Score: 109
Period size: 27 Copynumber: 3.4 Consensus size: 27
44140600 AAAATTACCA
*
44140610 AAATACCCCTGATTTACAAAATTATAG
1 AAATACCCTTGATTTACAAAATTATAG
44140637 AAATACCCTTGACTTT-CTAAAAATTATAG
1 AAATACCCTTGA-TTTAC--AAAATTATAG
* *
44140666 AAATACCATTGGTTTACAAAATTACTA-
1 AAATACCCTTGATTTACAAAATTA-TAG
44140693 AAATACCCTT
1 AAATACCCTT
44140703 TGTTTGTAGA
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
27 28 0.49
28 8 0.14
29 21 0.37
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.32
Consensus pattern (27 bp):
AAATACCCTTGATTTACAAAATTATAG
Found at i:44141674 original size:25 final size:25
Alignment explanation
Indices: 44141636--44141694 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
44141626 AGGAAGTGCT
* * *
44141636 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTATGCCCCAATTTACCA
*
44141661 AAAAGGGC-ATTGCCCCAATTTATCA
1 AAAAGGGCTA-TGCCCCAATTTACCA
44141686 AAAAGGGCT
1 AAAAGGGCT
44141695 TTGTCCCGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (25 bp):
AAAAGGGCTATGCCCCAATTTACCA
Found at i:44141913 original size:42 final size:42
Alignment explanation
Indices: 44141852--44141939 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 42
44141842 TAGTCTCCCC
* * *
44141852 AAATGGGCTTGTATGCATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
44141894 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
44141936 AAAT
1 AAAT
44141940 AGGCCTATGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.42
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:44143949 original size:16 final size:16
Alignment explanation
Indices: 44143928--44143959 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44143918 GTTGTAACGC
44143928 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
44143944 CCCAAAAATCCTGAAA
1 CCCAAAAATCCCGAAA
44143960 TCCCGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:44145303 original size:19 final size:19
Alignment explanation
Indices: 44145279--44145317 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
44145269 TTCGTGGACT
44145279 TGGGCCGGAATGGGCTAAA
1 TGGGCCGGAATGGGCTAAA
44145298 TGGGCCGGAATGGGCTAAA
1 TGGGCCGGAATGGGCTAAA
44145317 T
1 T
44145318 AGGTCTGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.41, T:0.18
Consensus pattern (19 bp):
TGGGCCGGAATGGGCTAAA
Found at i:44145445 original size:29 final size:29
Alignment explanation
Indices: 44145400--44145518 Score: 152
Period size: 29 Copynumber: 4.2 Consensus size: 29
44145390 GTGAGCATGA
*
44145400 ATAT-AATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* *
44145428 ATATGAATGTGAATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* *
44145457 ATAAGAATATGAATTGGGCCAAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* * *
44145486 ATTTGAATAAG-ATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
44145514 ATATG
1 ATATG
44145519 CATGTATGTA
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 23 0.30
29 54 0.70
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.28
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:44145467 original size:58 final size:57
Alignment explanation
Indices: 44145404--44145516 Score: 172
Period size: 58 Copynumber: 2.0 Consensus size: 57
44145394 GCATGAATAT
* * **
44145404 AATATGATTTGGGCCTAATGGGCCATATGAATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAATTGGGCCAAATGGGCCATATGAATAAG-ATTGGGCCTAGTGGGCCATAAG
*
44145462 AATATGAATTGGGCCAAATGGGCCATTTGAATAAGATTGGGCCTAGTGGGCCATA
1 AATATGAATTGGGCCAAATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATA
44145517 TGCATGTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 20 0.40
58 30 0.60
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (57 bp):
AATATGAATTGGGCCAAATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATAAG
Found at i:44146646 original size:17 final size:18
Alignment explanation
Indices: 44146624--44146657 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44146614 GTTTACCTGT
*
44146624 GTGGGGCTCACA-GGTCG
1 GTGGGGCCCACACGGTCG
44146641 GTGGGGCCCACACGGTC
1 GTGGGGCCCACACGGTC
44146658 TATTTTTTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.12, C:0.29, G:0.44, T:0.15
Consensus pattern (18 bp):
GTGGGGCCCACACGGTCG
Found at i:44152513 original size:22 final size:21
Alignment explanation
Indices: 44152466--44152516 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
44152456 TTCACACTCT
* *
44152466 CTTATTTTTCTTCCTTCTTAA
1 CTTATTTTTCCTCCTTCTCAA
* *
44152487 TTTATTTTTCCTCTTTCTCACA
1 CTTATTTTTCCTCCTTCTCA-A
44152509 CTTATTTT
1 CTTATTTT
44152517 CATTTTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.63
Consensus pattern (21 bp):
CTTATTTTTCCTCCTTCTCAA
Found at i:44154173 original size:34 final size:34
Alignment explanation
Indices: 44154127--44154208 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
44154117 CTGAACAGAC
* **
44154127 TGGGCCTAAGCCCATAT-CAATCGCAATATCAGTG
1 TGGGCCTTAGCCCA-ATGCAATAACAATATCAGTG
* *
44154161 TGGGCCTTAGCCCAATGCAGTAACACTATCAGTG
1 TGGGCCTTAGCCCAATGCAATAACAATATCAGTG
44154195 TGGGCCTTAGCCCA
1 TGGGCCTTAGCCCA
44154209 CTTCAGTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 2 0.05
34 40 0.95
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (34 bp):
TGGGCCTTAGCCCAATGCAATAACAATATCAGTG
Found at i:44161625 original size:27 final size:26
Alignment explanation
Indices: 44161585--44161757 Score: 138
Period size: 27 Copynumber: 6.4 Consensus size: 26
44161575 TATTTGGTCG
44161585 AAATACCCTCGATTTGTAAAATTATCA
1 AAATACCCT-GATTTGTAAAATTATCA
*
44161612 AAATACCCCTGATTTGTAAAATTATCG
1 AAATA-CCCTGATTTGTAAAATTATCA
44161639 AAATACCCTCGATTTGTAAAATTA-CTA
1 AAATACCCT-GATTTGTAAAATTATC-A
* * *
44161666 AAATACCTTCAGTTTGTAAAATT-TCTG
1 AAATACCCTGA-TTTGTAAAATTATC-A
* * *
44161693 AAATAACCTTG-TAGTGTAAAATTACCA
1 AAAT-ACCCTGAT-TTGTAAAATTATCA
* *
44161720 AAATACCCTTG-TAGTGTAAAATTATCG
1 AAATACCC-TGAT-TTGTAAAATTATCA
44161747 AAATAACCCTG
1 AAAT-ACCCTG
44161758 TAGGGTAAAA
Statistics
Matches: 124, Mismatches: 12, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
26 10 0.08
27 100 0.81
28 14 0.11
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.33
Consensus pattern (26 bp):
AAATACCCTGATTTGTAAAATTATCA
Found at i:44161669 original size:54 final size:54
Alignment explanation
Indices: 44161582--44161756 Score: 198
Period size: 54 Copynumber: 3.2 Consensus size: 54
44161572 TCCTATTTGG
*
44161582 TCGAAATACCCTCGATTTGTAAAATTA-TCAAAATACCCCTGATTTGTAAAATTA
1 TCGAAATACCCTCGATTTGTAAAATTACT-AAAATACCCTTGATTTGTAAAATTA
*
44161636 TCGAAATACCCTCGATTTGTAAAATTACTAAAATA-CCTTCAGTTTGTAAAATT-
1 TCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTTGA-TTTGTAAAATTA
* * * * *
44161689 TCTGAAATAACCTTG-TAGTGTAAAATTACCAAAATACCCTTG-TAGTGTAAAATTA
1 TC-GAAATACCCTCGAT-TTGTAAAATTACTAAAATACCCTTGAT-TTGTAAAATTA
44161744 TCGAAATAACCCT
1 TCGAAAT-ACCCT
44161757 GTAGGGTAAA
Statistics
Matches: 104, Mismatches: 9, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
53 8 0.08
54 85 0.82
55 11 0.11
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (54 bp):
TCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTTGATTTGTAAAATTA
Found at i:44161856 original size:34 final size:34
Alignment explanation
Indices: 44161817--44161910 Score: 136
Period size: 34 Copynumber: 2.8 Consensus size: 34
44161807 TATAAATTTG
*
44161817 ACTGATTTGACTGTGATTGTATGACTGTGCTTTA
1 ACTGATTTGACTGTGATTGTATGACTGTCCTTTA
44161851 ACTGATTTGACTGTGATTGTATGACTGTCCTTTA
1 ACTGATTTGACTGTGATTGTATGACTGTCCTTTA
* * *
44161885 ATTGACTTG-CTTGTGGTTGTATGACT
1 ACTGATTTGAC-TGTGATTGTATGACT
44161911 ACATACTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 1 0.02
34 54 0.98
ACGTcount: A:0.19, C:0.13, G:0.23, T:0.45
Consensus pattern (34 bp):
ACTGATTTGACTGTGATTGTATGACTGTCCTTTA
Found at i:44165073 original size:27 final size:27
Alignment explanation
Indices: 44165031--44165201 Score: 134
Period size: 27 Copynumber: 6.3 Consensus size: 27
44165021 TATTTGGCCA
44165031 AAATACCCCC-AGTTTGTAAAATTACCG
1 AAATACCCCCGA-TTTGTAAAATTACCG
* * *
44165058 AAATACCCCCGATTTGTAAAATCATCA
1 AAATACCCCCGATTTGTAAAATTACCG
*
44165085 AAATACCCTCGATTTGTAAAATTACCG
1 AAATACCCCCGATTTGTAAAATTACCG
* * *
44165112 AAATACCTCC-AGTTTGTAAAATTTCTG
1 AAATACCCCCGA-TTTGTAAAATTACCG
* ** * *
44165139 AAATAACCTTG-TAGTGTAAAATTACCA
1 AAATACCCCCGAT-TTGTAAAATTACCG
** * *
44165166 AAATACCCTTG-TAGTGTAAAATTATCG
1 AAATACCCCCGAT-TTGTAAAATTACCG
44165193 AAATACCCC
1 AAATACCCC
44165202 TGTAGGGTAA
Statistics
Matches: 117, Mismatches: 23, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
26 2 0.02
27 114 0.97
28 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.29
Consensus pattern (27 bp):
AAATACCCCCGATTTGTAAAATTACCG
Found at i:44165111 original size:54 final size:54
Alignment explanation
Indices: 44165029--44165133 Score: 160
Period size: 54 Copynumber: 1.9 Consensus size: 54
44165019 CCTATTTGGC
44165029 CAAAATACCCCCAGTTTGTAAAATTACCGAAATACCCCC-GATTTGTAAAATCAT
1 CAAAATACCCCCAGTTTGTAAAATTACCGAAATACCCCCAG-TTTGTAAAATCAT
* *
44165083 CAAAATACCCTC-GATTTGTAAAATTACCGAAATACCTCCAGTTTGTAAAAT
1 CAAAATACCCCCAG-TTTGTAAAATTACCGAAATACCCCCAGTTTGTAAAAT
44165134 TTCTGAAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
53 1 0.02
54 45 0.96
55 1 0.02
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.28
Consensus pattern (54 bp):
CAAAATACCCCCAGTTTGTAAAATTACCGAAATACCCCCAGTTTGTAAAATCAT
Found at i:44165143 original size:54 final size:53
Alignment explanation
Indices: 44165042--44165173 Score: 151
Period size: 54 Copynumber: 2.5 Consensus size: 53
44165032 AATACCCCCA
* *
44165042 GTTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATCATCAAAATACCCTC
1 GTTTGTAAAATTACCGAAATACCCCAGATTTGTAAAATCATCAAAATAACCTC
* * *
44165095 GATTTGTAAAATTACCGAAATACCTCCAG-TTTGTAAAAT-TTCTGAAATAACCTT
1 G-TTTGTAAAATTACCGAAATACC-CCAGATTTGTAAAATCATC-AAAATAACCTC
* *
44165149 GTAGTGTAAAATTACCAAAATACCC
1 GT-TTGTAAAATTACCGAAATACCC
44165174 TTGTAGTGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
53 5 0.07
54 60 0.88
55 3 0.04
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (53 bp):
GTTTGTAAAATTACCGAAATACCCCAGATTTGTAAAATCATCAAAATAACCTC
Found at i:44165168 original size:81 final size:81
Alignment explanation
Indices: 44165031--44165201 Score: 202
Period size: 81 Copynumber: 2.1 Consensus size: 81
44165021 TATTTGGCCA
* * *
44165031 AAATACCCCCAGTTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATCATCAAAATACCCTCG
1 AAATACCCCCAGTTTGTAAAATTACCGAAATAACCCCGATGTGTAAAATCACCAAAATACCCTCG
*
44165096 -ATTTGTAAAATTACCG
66 TA-GTGTAAAATTACCG
* * * ** * *
44165112 AAATACCTCCAGTTTGTAAAATTTCTGAAATAACCTTG-TAGTGTAAAATTACCAAAATACCCTT
1 AAATACCCCCAGTTTGTAAAATTACCGAAATAACCCCGAT-GTGTAAAATCACCAAAATACCCTC
*
44165176 GTAGTGTAAAATTATCG
65 GTAGTGTAAAATTACCG
44165193 AAATACCCC
1 AAATACCCC
44165202 TGTAGGGTAA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 73 0.97
82 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.29
Consensus pattern (81 bp):
AAATACCCCCAGTTTGTAAAATTACCGAAATAACCCCGATGTGTAAAATCACCAAAATACCCTCG
TAGTGTAAAATTACCG
Found at i:44165305 original size:34 final size:34
Alignment explanation
Indices: 44165259--44165331 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
44165249 GGACTATGAA
* * *
44165259 TTTAACTGATTTGATTGTGATTATATGACTGTGT
1 TTTAACTAATTTGACTATGATTATATGACTGTGT
* *
44165293 TTTAACTAATTTGACTATGATTGTATGACTTTGT
1 TTTAACTAATTTGACTATGATTATATGACTGTGT
44165327 TTTAA
1 TTTAA
44165332 TTGACTTGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.51
Consensus pattern (34 bp):
TTTAACTAATTTGACTATGATTATATGACTGTGT
Found at i:44165341 original size:34 final size:34
Alignment explanation
Indices: 44165276--44165357 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
44165266 GATTTGATTG
* *
44165276 TGATTATATGACTGTGTTTTAACTAATTTGACTA
1 TGATTGTATGACTGTGTTTTAACTAACTTGACTA
* * * *
44165310 TGATTGTATGACTTTGTTTTAATTGACTTGACTG
1 TGATTGTATGACTGTGTTTTAACTAACTTGACTA
*
44165344 TGGTTGTATGACTG
1 TGATTGTATGACTG
44165358 ACATGCTTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.23, C:0.09, G:0.21, T:0.48
Consensus pattern (34 bp):
TGATTGTATGACTGTGTTTTAACTAACTTGACTA
Found at i:44171835 original size:57 final size:58
Alignment explanation
Indices: 44171741--44171855 Score: 187
Period size: 57 Copynumber: 2.0 Consensus size: 58
44171731 ATAGAAATGG
* * *
44171741 TGAAAATTGATAAATGAGAAACATTTGGAAATGAATGTGTTTTTCTCCAAAATGAAAA
1 TGAAAATTGAGAAATGAGAAACATTTGGAAATGAATGTGATTTCCTCCAAAATGAAAA
*
44171799 TGAAAATTGAGAAATGA-AAACATTTGGAAATTAATGTGATTTCCTCCAAAATGAAAA
1 TGAAAATTGAGAAATGAGAAACATTTGGAAATGAATGTGATTTCCTCCAAAATGAAAA
44171856 AAAAAAGAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
57 37 0.70
58 16 0.30
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.30
Consensus pattern (58 bp):
TGAAAATTGAGAAATGAGAAACATTTGGAAATGAATGTGATTTCCTCCAAAATGAAAA
Found at i:44174063 original size:24 final size:24
Alignment explanation
Indices: 44174030--44174077 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
44174020 TTTCATTTTA
* *
44174030 ATTTTGATTTTTCTTTCTTCCATC
1 ATTTTCATTTTTCCTTCTTCCATC
44174054 ATTTTCATTTTTCCTTCTTCCATC
1 ATTTTCATTTTTCCTTCTTCCATC
44174078 TTCTTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.12, C:0.25, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTTCATTTTTCCTTCTTCCATC
Found at i:44177991 original size:43 final size:42
Alignment explanation
Indices: 44177929--44178050 Score: 122
Period size: 43 Copynumber: 2.9 Consensus size: 42
44177919 TACAATACCA
* *
44177929 ATATCCCAGAC-GTGGTCTTACATGTAATCAAATATCGATG-CC
1 ATATCCAAGACAG-GGTCTTACACGTAATCAAATA-CGATGTCC
* * * *
44177971 ACTATCCTAGACAGGGTCTTACACGAAATCACATACGATGTCG
1 A-TATCCAAGACAGGGTCTTACACGTAATCAAATACGATGTCC
* *
44178014 ATGTCCAAGACATGGTCTTACACGTAAATCAAATACG
1 ATATCCAAGACAGGGTCTTACACGT-AATCAAATACG
44178051 TTTCCAACGT
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
42 26 0.39
43 39 0.59
44 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (42 bp):
ATATCCAAGACAGGGTCTTACACGTAATCAAATACGATGTCC
Found at i:44178663 original size:148 final size:150
Alignment explanation
Indices: 44178394--44178691 Score: 537
Period size: 148 Copynumber: 2.0 Consensus size: 150
44178384 TTTCTTTAGT
* *
44178394 TCTTGATCTATATAAATTTAAATTTAACTTATTCAATTTCACATTCATTCAAATCAATCCAAAAA
1 TCTTGATCAATATAAATTTAAATTTAACTTATTCAATTTCACATTCATTCAAATAAATCCAAAAA
*
44178459 CACATATTTAGGGCACTTTACAAACTAGCCTTCACATTTTCACATTTTGACACTTAAG-TCCCTA
66 CACATATTTAGGGCACTTTACAAACTAGCCCTCACATTTTCACATTTTGACACTTAAGCTCCCTA
44178523 TTTCACAAAATCACAAAATA
131 TTTCACAAAATCACAAAATA
*
44178543 TCTTGATCAATATAAATTTAAATTTAACTTATTC-ATTTCACATTCATTCAAATAAATCCAAGAA
1 TCTTGATCAATATAAATTTAAATTTAACTTATTCAATTTCACATTCATTCAAATAAATCCAAAAA
44178607 CACATATTTAGGGCACTTTACAAACTAGCCCTCACATTTTCACATTTTGACACTTAAGTCTCCCT
66 CACATATTTAGGGCACTTTACAAACTAGCCCTCACATTTTCACATTTTGACACTTAAG-CTCCCT
44178672 ATTTCACAAAATCACAAAAT
130 ATTTCACAAAATCACAAAAT
44178692 CCACATAATT
Statistics
Matches: 143, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
148 85 0.59
149 33 0.23
150 25 0.17
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (150 bp):
TCTTGATCAATATAAATTTAAATTTAACTTATTCAATTTCACATTCATTCAAATAAATCCAAAAA
CACATATTTAGGGCACTTTACAAACTAGCCCTCACATTTTCACATTTTGACACTTAAGCTCCCTA
TTTCACAAAATCACAAAATA
Found at i:44180674 original size:16 final size:16
Alignment explanation
Indices: 44180653--44180695 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
44180643 ATGAATTGGC
* *
44180653 AAAAGCCGAAATGCCG
1 AAAAGCCAAAATGCCA
44180669 AAAAGCCAAAATGCCA
1 AAAAGCCAAAATGCCA
*
44180685 AAAAGCTAAAA
1 AAAAGCCAAAA
44180696 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.56, C:0.21, G:0.16, T:0.07
Consensus pattern (16 bp):
AAAAGCCAAAATGCCA
Found at i:44180963 original size:29 final size:29
Alignment explanation
Indices: 44180930--44181021 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
44180920 TGGGCCCAAC
*
44180930 GGGCCATATAAATGTGATTTGGG-TCTAAT
1 GGGCCATATAAACGTGATTTGGGCT-TAAT
* * *
44180959 GGGCCATATACAGGTGATTTGGGCTTAAA
1 GGGCCATATAAACGTGATTTGGGCTTAAT
* *
44180988 GGGCCATATGAACATGA-TTGGGCTTAAT
1 GGGCCATATAAACGTGATTTGGGCTTAAT
44181016 GGGCCA
1 GGGCCA
44181022 GATACAGGTA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
28 16 0.30
29 37 0.69
30 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.28
Consensus pattern (29 bp):
GGGCCATATAAACGTGATTTGGGCTTAAT
Found at i:44193933 original size:40 final size:40
Alignment explanation
Indices: 44193835--44194137 Score: 369
Period size: 40 Copynumber: 7.6 Consensus size: 40
44193825 TCCTCGTTCA
* * * * *
44193835 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
44193874 AATGCCTTCGGGACATAACCTGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
44193914 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
44193954 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
44193994 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCATG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
44194034 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
44194074 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
44194114 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
44194138 CAGCATTCAA
Statistics
Matches: 234, Mismatches: 26, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
39 36 0.15
40 190 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:44194146 original size:41 final size:41
Alignment explanation
Indices: 44194069--44194146 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44194059 TTAGTATCTC
* * *
44194069 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44194110 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44194147 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44197597 original size:19 final size:20
Alignment explanation
Indices: 44197573--44197611 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
44197563 CTAATTTTCC
44197573 TTTTTCTT-TTTCTTTCCCT
1 TTTTTCTTCTTTCTTTCCCT
44197592 TTTTTCTTCTTTCTTTCCCT
1 TTTTTCTTCTTTCTTTCCCT
44197612 ACTAATCGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTCTTCTTTCTTTCCCT
Found at i:44215505 original size:40 final size:40
Alignment explanation
Indices: 44215450--44215796 Score: 622
Period size: 40 Copynumber: 8.7 Consensus size: 40
44215440 AGAATTGGAT
44215450 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
44215490 TATATCCGGGCTAAGACCCGAAGGAAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
44215530 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
44215570 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
44215610 TATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
44215650 TATATCCGGGCTAAGACCCGAAGGCAACTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
** *
44215690 TATATCCGGGCTGTGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
44215730 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
44215770 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
44215797 ATGTGTTTGC
Statistics
Matches: 293, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 293 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:44231530 original size:93 final size:93
Alignment explanation
Indices: 44231418--44231589 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44231408 CGCCCATAAG
* *
44231418 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44231483 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
44231511 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44231576 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
44231590 TCAACCATCC
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:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:44231586 original size:46 final size:46
Alignment explanation
Indices: 44231411--44231586 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
44231401 TGTAACCCGC
* * *
44231411 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
44231457 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
44231507 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
44231550 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
44231587 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:44238876 original size:10 final size:11
Alignment explanation
Indices: 44238841--44238877 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
44238831 TATTTTTTTC
*
44238841 TTTTTACATTA
1 TTTTTATATTA
44238852 -TTTTATATTA
1 TTTTTATATTA
44238862 TTTTTAT-TTA
1 TTTTTATATTA
44238872 TTTTTA
1 TTTTTA
44238878 ATAGCTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 18 0.75
11 6 0.25
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:44240244 original size:43 final size:43
Alignment explanation
Indices: 44240196--44240284 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
44240186 ATCTCCTAAT
* *
44240196 AGGATTATCGCGTGGGAGATATCATCATCAATCGTCATCAACC
1 AGGATTATCGCGTGGGAGATAACATCATCAATCATCATCAACC
*
44240239 AGGATTATCGCGTGGGAGATAACGTCATCAATCATCATCAACC
1 AGGATTATCGCGTGGGAGATAACATCATCAATCATCATCAACC
44240282 AGG
1 AGG
44240285 TGTGTAAACG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (43 bp):
AGGATTATCGCGTGGGAGATAACATCATCAATCATCATCAACC
Found at i:44240814 original size:27 final size:26
Alignment explanation
Indices: 44240773--44240832 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
44240763 CGCCACATAT
* *
44240773 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
44240799 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
44240826 ATATCTG
1 ATATCTG
44240833 GCAGCCTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:44247313 original size:43 final size:43
Alignment explanation
Indices: 44247252--44247336 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
44247242 GTCTCCTAAC
*
44247252 AGGATTATCGCGTGGGAGATATCGTCATCAATCATCATCAACT
1 AGGATTATCGCATGGGAGATATCGTCATCAATCATCATCAACT
*
44247295 AGGATTATCGCATGGGAGATATCGTCATCAATCGTCATCAAC
1 AGGATTATCGCATGGGAGATATCGTCATCAATCATCATCAAC
44247337 CAGGTGTGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (43 bp):
AGGATTATCGCATGGGAGATATCGTCATCAATCATCATCAACT
Found at i:44264242 original size:34 final size:33
Alignment explanation
Indices: 44264171--44264242 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
44264161 AACACAGTGT
**
44264171 CAGTACAATCTGGGCCAAAGCCCTATTTAGTAA
1 CAGTACAATCTGGGCCAAAGCCCTAAATAGTAA
* ** *
44264204 CAGTACAGTCTGGGCCTTAGCCCTCAAATAGTAG
1 CAGTACAATCTGGGCCAAAGCCCT-AAATAGTAA
44264238 CAGTA
1 CAGTA
44264243 TGGGCCTAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 21 0.66
34 11 0.34
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (33 bp):
CAGTACAATCTGGGCCAAAGCCCTAAATAGTAA
Found at i:44264346 original size:30 final size:31
Alignment explanation
Indices: 44264270--44264352 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
44264260 TCAGTCTCGA
44264270 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
44264300 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
44264331 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
44264353 ACTGTAAGCG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 18 0.35
31 34 0.65
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:44264600 original size:25 final size:25
Alignment explanation
Indices: 44264572--44264641 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
44264562 CTCTTTTAAT
*
44264572 AACTGGGGTAAAACCC-TTTCTGATA
1 AACTGGGGCAAAACCCTTTTC-GATA
* *
44264597 AACTGGGGCAGAGCCCTTTTCGATA
1 AACTGGGGCAAAACCCTTTTCGATA
* *
44264622 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAACCCTTTT
44264642 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAACCCTTTTCGATA
Found at i:44265680 original size:27 final size:26
Alignment explanation
Indices: 44265543--44265807 Score: 190
Period size: 27 Copynumber: 9.8 Consensus size: 26
44265533 ATTTCATCCT
* * *
44265543 ACAAGGGTGTTTTGGTAAATCTACAA
1 ACAAGGGTATTTTGGTAATTTTACAA
* ** **
44265569 ACCAATGGTATTTCAGTAATTTTGTAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* * *
44265596 ACCAATGGTATTTCT-ATAATTTTTAGAA
1 A-CAAGGGTATTT-TGGTAA-TTTTACAA
* ** **
44265624 AGTCAATGGTATTTTTATAATTTTGTAA
1 A--CAAGGGTATTTTGGTAATTTTACAA
44265652 ATCAAGGGTATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
** * *
44265679 ATTGAGGGTATTTCGGTAATTTCACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* *
44265706 ACTAGTGGTATTTCGGTAATTTTACAA
1 ACAAG-GGTATTTTGGTAATTTTACAA
*
44265733 ACTAGGGGTATTTTGGTAATTTTACAA
1 AC-AAGGGTATTTTGGTAATTTTACAA
*
44265760 ACTAGGGGTATTTTGGTAATTTTACAA
1 AC-AAGGGTATTTTGGTAATTTTACAA
*
44265787 ACTAGGGGTATTTTGGTAATT
1 AC-AAGGGTATTTTGGTAATT
44265808 CTATCCTACA
Statistics
Matches: 202, Mismatches: 30, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
26 3 0.01
27 168 0.83
28 16 0.08
29 15 0.07
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (26 bp):
ACAAGGGTATTTTGGTAATTTTACAA
Found at i:44265821 original size:54 final size:53
Alignment explanation
Indices: 44265657--44265840 Score: 228
Period size: 54 Copynumber: 3.4 Consensus size: 53
44265647 TGTAAATCAA
* * *
44265657 GGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACTAG
1 GGGTATTTCGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTT-ACAAACTAG
*
44265711 TGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAA-TTTACAAACTAG
* **
44265765 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTAC-AG
1 GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATT-TA-CAAACTAG
* *
44265819 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCGGTAATTTTACAA
44265841 TCGAGGGTAA
Statistics
Matches: 115, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
53 2 0.02
54 105 0.91
55 8 0.07
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (53 bp):
GGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTACAAACTAG
Found at i:44265821 original size:81 final size:81
Alignment explanation
Indices: 44265657--44265849 Score: 239
Period size: 81 Copynumber: 2.4 Consensus size: 81
44265647 TGTAAATCAA
* *
44265657 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAGTGGTATTTCGG
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTCGG
*
44265722 TAATTTTACAAACTAG
66 TAATTCTACAAACTAG
* * *
44265738 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTCG
**
44265802 GTAATTCTATCCTAC-AG
65 GTAATTCTA-CAAACTAG
** * *
44265819 GGGTATTTCAGTAATTTCAC-AATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTA
44265850 AAACTATAAT
Statistics
Matches: 97, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
79 2 0.02
80 7 0.07
81 83 0.86
82 5 0.05
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.39
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTCGG
TAATTCTACAAACTAG
Found at i:44265826 original size:27 final size:27
Alignment explanation
Indices: 44265657--44265807 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
44265647 TGTAAATCAA
*
44265657 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
44265683 AGGGTATTTCGGTAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* *
44265711 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
44265738 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
44265765 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
44265792 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
44265808 CTATCCTACA
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 114 0.98
28 2 0.02
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:44265894 original size:27 final size:27
Alignment explanation
Indices: 44265839--44265901 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
44265829 GTAATTTCAC
* *
44265839 AATCGAGGGTAAAACTATAATTTTGTA
1 AATCGAGGGTAAAACTATAATTCTATA
*
44265866 AATCGAGGGTAAAAC-AGTGATTCTATA
1 AATCGAGGGTAAAACTA-TAATTCTATA
*
44265893 AATTGAGGG
1 AATCGAGGG
44265902 CATTTCTGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.03
27 30 0.97
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACTATAATTCTATA
Found at i:44268386 original size:40 final size:40
Alignment explanation
Indices: 44268342--44268446 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
44268332 CGACCAAAAA
* * *
44268342 TCGGCTATTTGTGGTACTTAGTGTGCGATTCGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT
* * *
44268382 TCGGCTATATATGGCACTTAGTGTGCTATTTGAGATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT
** * *
44268422 TCAACTATGTACGGCACTTAGTGTG
1 TCGGCTATATATGGCACTTAGTGTG
44268447 TGAGATATCG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (40 bp):
TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT
Found at i:44277916 original size:40 final size:40
Alignment explanation
Indices: 44277837--44278014 Score: 200
Period size: 40 Copynumber: 4.5 Consensus size: 40
44277827 TGGATGATAA
* * * *
44277837 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
44277877 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
** *
44277917 TTGGGCTAAGACCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTGTTATAT
44277958 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
44277998 -CTGGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
44278015 ATACTTGGGT
Statistics
Matches: 115, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
38 1 0.01
39 16 0.14
40 64 0.56
41 32 0.28
42 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:44277996 original size:81 final size:79
Alignment explanation
Indices: 44277849--44278014 Score: 235
Period size: 81 Copynumber: 2.1 Consensus size: 79
44277839 GGACTAAGAT
* * *
44277849 CCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTATGCTAGTGATTA
1 CCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTA
*
44277914 TATTTGGGCTAAGACC
66 TATCT-GGCTAA-ACC
* *
44277930 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 CCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGATT
*
44277994 ATATCTGGCTAAATC
65 ATATCTGGCTAAACC
44278009 CCGAAG
1 CCGAAG
44278015 ATACTTGGGT
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
79 8 0.10
80 6 0.08
81 61 0.79
82 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTA
TATCTGGCTAAACC
Found at i:44280002 original size:40 final size:40
Alignment explanation
Indices: 44279947--44280023 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
44279937 CGCCAATTTG
*
44279947 TGGCACTTAGTGTGCGATTCT-ACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATT-TGACATAGCTTCGACTATATA
*
44279987 TGGCACTTAGTGTGCGATTTGAGATAGCTTCGACTAT
1 TGGCACTTAGTGTGCGATTTGACATAGCTTCGACTAT
44280024 GTACGACACT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.03
40 33 0.97
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTTGACATAGCTTCGACTATATA
Found at i:44280034 original size:40 final size:40
Alignment explanation
Indices: 44279950--44280040 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 40
44279940 CAATTTGTGG
* * *
44279950 CACTTAGTGTGCGATTCTACATAGCTTCGGCTATATATGG
1 CACTTAGTGTGCGATTCTACATAGCTTCGACTATATACGA
* *
44279990 CACTTAGTGTGCGATT-TGAGATAGCTTCGACTATGTACGA
1 CACTTAGTGTGCGATTCT-ACATAGCTTCGACTATATACGA
*
44280030 CACTTGGTGTG
1 CACTTAGTGTG
44280041 TGAGATATCG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
39 1 0.02
40 43 0.98
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (40 bp):
CACTTAGTGTGCGATTCTACATAGCTTCGACTATATACGA
Found at i:44280070 original size:28 final size:28
Alignment explanation
Indices: 44280030--44280096 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
44280020 CTATGTACGA
* *
44280030 CACTTGGTGTGTGAGATATCGAGTGTGG
1 CACTTAGTGTGTGAGATATCGAGTATGG
*
44280058 CACTTAGTGTGTGTGATATCGAGTATGG
1 CACTTAGTGTGTGAGATATCGAGTATGG
*
44280086 CATTTAGTGTG
1 CACTTAGTGTG
44280097 CGAGGCATTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.19, C:0.10, G:0.34, T:0.36
Consensus pattern (28 bp):
CACTTAGTGTGTGAGATATCGAGTATGG
Found at i:44284313 original size:21 final size:21
Alignment explanation
Indices: 44284288--44284337 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
44284278 CTATATTCTT
44284288 CGAATTCCCTCGGTCTAAGTA
1 CGAATTCCCTCGGTCTAAGTA
* *
44284309 TGAATTCCCTCGGTCTAAGTC
1 CGAATTCCCTCGGTCTAAGTA
44284330 CGAATTCC
1 CGAATTCC
44284338 TCTTTTCTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (21 bp):
CGAATTCCCTCGGTCTAAGTA
Found at i:44286787 original size:30 final size:31
Alignment explanation
Indices: 44286751--44286811 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
44286741 TAATTTTTTA
44286751 GTTTAGGGGCAAAATCATAATTTTG-CAAAG
1 GTTTAGGGGCAAAATCATAATTTTGTCAAAG
**
44286781 GTTTAGGGGCAAAATTGTAATTTTGTCAAAG
1 GTTTAGGGGCAAAATCATAATTTTGTCAAAG
44286812 TTTGAGCTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.33
Consensus pattern (31 bp):
GTTTAGGGGCAAAATCATAATTTTGTCAAAG
Found at i:44287558 original size:47 final size:47
Alignment explanation
Indices: 44287447--44287646 Score: 149
Period size: 48 Copynumber: 4.3 Consensus size: 47
44287437 GTTAAGTATA
** * *
44287447 CCATGTAAGACCATGTCAAGACATGGCATTGG---TAAGGCAAGGAT
1 CCATGTAAGACCACATCAAGACATGGCATCGGCACTAAGACAAGGAT
** * *
44287491 CTCATGTAAGACCATGTCAAGACATGGCATCGGCA-T-TGATTAAGGACT
1 C-CATGTAAGACCACATCAAGACATGGCATCGGCACTAAGA-CAAGGA-T
** *
44287539 CCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGACAAGGAT
1 CCATGTAAGACCACATCAAGACATGGCATCGGCACTAAGACAAGGAT
* ** * * * * *
44287586 ACCATGTAAGAGCACATCAAGATGTGGCATTGACACTAAGGCATGAAT
1 -CCATGTAAGACCACATCAAGACATGGCATCGGCACTAAGACAAGGAT
44287634 ACCATGTAAGACC
1 -CCATGTAAGACC
44287647 TTGTTTGGAA
Statistics
Matches: 131, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
44 1 0.01
45 30 0.23
46 1 0.01
47 35 0.27
48 62 0.47
49 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.21
Consensus pattern (47 bp):
CCATGTAAGACCACATCAAGACATGGCATCGGCACTAAGACAAGGAT
Found at i:44287602 original size:48 final size:48
Alignment explanation
Indices: 44287539--44287646 Score: 171
Period size: 48 Copynumber: 2.2 Consensus size: 48
44287529 ATTAAGGACT
* *
44287539 CCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGACAAGGATA
1 CCATGTAAGACCACATCAAGATGTGGCATTGACACTAAGACAAGAATA
* * *
44287587 CCATGTAAGAGCACATCAAGATGTGGCATTGACACTAAGGCATGAATA
1 CCATGTAAGACCACATCAAGATGTGGCATTGACACTAAGACAAGAATA
44287635 CCATGTAAGACC
1 CCATGTAAGACC
44287647 TTGTTTGGAA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (48 bp):
CCATGTAAGACCACATCAAGATGTGGCATTGACACTAAGACAAGAATA
Done.