Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 122 of 349
Found at i:38769324 original size:25 final size:25
Alignment explanation
Indices: 38769290--38769359 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
38769280 CTCTTTTAAT
*
38769290 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
38769315 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
38769340 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
38769360 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:38769593 original size:27 final size:27
Alignment explanation
Indices: 38769563--38769760 Score: 258
Period size: 27 Copynumber: 7.3 Consensus size: 27
38769553 GGGCAAAATG
* *
38769563 GTAATTTTACCCCACAAGGGTATCTT-A
1 GTAATTCTACCCTACAAGGGTAT-TTCA
*
38769590 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
38769617 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
38769644 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
38769671 GTAATTCTACCCTAC-AGGGTTATTTCA
1 GTAATTCTACCCTACAAGGG-TATTTCA
** * *
38769698 GTAATTCTACCCTACTGGGGTTTTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
38769725 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
38769751 GATAATTCTA
1 G-TAATTCTA
38769761 TCTTATAGGG
Statistics
Matches: 153, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.05
27 143 0.93
28 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:38769827 original size:27 final size:27
Alignment explanation
Indices: 38769767--38770001 Score: 242
Period size: 27 Copynumber: 8.7 Consensus size: 27
38769757 TCTATCTTAT
* * *
38769767 AGGGGTATTTCGAT-ATTTTACAAATC
1 AGGGGTATTTTGGTAATTTTACAAACC
* * * * *
38769793 -GAGAGTATTTCGATAATTTCATAAACC
1 AG-GGGTATTTTGGTAATTTTACAAACC
* *
38769820 AGGGGTATTTTGGTAATTTTACAAGCT
1 AGGGGTATTTTGGTAATTTTACAAACC
*
38769847 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
*
38769874 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
*
38769901 AGGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* * *
38769928 AGAGGTATTTTGGTAATTTTACTAATC
1 AGGGGTATTTTGGTAATTTTACAAACC
**
38769955 -GAGGGTATTTTGGTAATTTTGTAAACC
1 AG-GGGTATTTTGGTAATTTTACAAACC
* **
38769982 AAGGGTATTTCAGTAATTTT
1 AGGGGTATTTTGGTAATTTT
38770002 GTAAATCGAG
Statistics
Matches: 178, Mismatches: 26, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
25 1 0.01
26 12 0.07
27 164 0.92
28 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:38769905 original size:81 final size:81
Alignment explanation
Indices: 38769766--38770001 Score: 296
Period size: 81 Copynumber: 2.9 Consensus size: 81
38769756 TTCTATCTTA
* * * * * *
38769766 TAGGGGTATTTCGAT-ATTTTACAAATCGAGAGTATTTCGATAATTTCATAAACCAGGGGTATTT
1 TAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAACCAGGGGTATTT
* *
38769830 TGGTAATTTTACAAGC
66 TAGTAATTTTACAAAC
* * *
38769846 TAGGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATT
1 TAGGGGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTATAAACCAGGGGTATT
38769910 TTAGTAATTTTACAAAC
65 TTAGTAATTTTACAAAC
* * * * *
38769927 CAGAGGTATTTTGGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTT
1 TAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAACCAGGGGTATTT
*
38769992 CAGTAATTTT
66 TAGTAATTTT
38770002 GTAAATCGAG
Statistics
Matches: 133, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
80 15 0.11
81 116 0.87
82 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
TAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAACCAGGGGTATTT
TAGTAATTTTACAAAC
Found at i:38770267 original size:27 final size:27
Alignment explanation
Indices: 38769994--38770258 Score: 359
Period size: 27 Copynumber: 9.8 Consensus size: 27
38769984 GGGTATTTCA
* **
38769994 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATG
**
38770021 GTAATTCTGTAAATTAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
38770048 GTAATTCTGTAAGTCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
38770075 GTAATTCTATAAGTCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
38770102 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
38770129 GTAATTCTGTAAGTCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
38770156 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
**
38770183 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * **
38770210 GTAATTCTATAAATTGAGGGTAAAAAA
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
38770237 GTAAATCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
38770259 CTTTGGTAAT
Statistics
Matches: 213, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 213 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:38773227 original size:30 final size:30
Alignment explanation
Indices: 38773192--38773249 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
38773182 TAGGCACTTC
*
38773192 CACACAGGT-GACGCACACGCCCGTGTGTGA
1 CACACAGGTAGAC-CACACGCCAGTGTGTGA
*
38773222 CACACAGGTAGACCACATGCCAGTGTGT
1 CACACAGGTAGACCACACGCCAGTGTGT
38773250 CATGGCCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.26, C:0.31, G:0.28, T:0.16
Consensus pattern (30 bp):
CACACAGGTAGACCACACGCCAGTGTGTGA
Found at i:38774343 original size:27 final size:27
Alignment explanation
Indices: 38774305--38774619 Score: 262
Period size: 27 Copynumber: 11.6 Consensus size: 27
38774295 TTAGTTTACC
*
38774305 AAATTACTAAAATGCCCTCAATTTGTA
1 AAATTACTAAAATACCCTCAATTTGTA
*
38774332 AAATTACTAAAATACCC-CTAGTTTGTA
1 AAATTACTAAAATACCCTC-AATTTGTA
* * *
38774359 AAATTACCAAAATACCC-CTAGTTTGTG
1 AAATTACTAAAATACCCTC-AATTTGTA
* * *
38774386 AAATTACCAAAATA-CCTCTGATTTGTG
1 AAATTACTAAAATACCCTC-AATTTGTA
* *
38774413 AAATTACTAAAATATCCTCAACTTGTA
1 AAATTACTAAAATACCCTCAATTTGTA
* *** **
38774440 AAATTACCAAAATACCCTTGGTTTAAA
1 AAATTACTAAAATACCCTCAATTTGTA
* * *
38774467 AAATTACCAAAATACCC-CTAGTTTTTA
1 AAATTACTAAAATACCCTC-AATTTGTA
* *
38774494 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACTAAAATACCCTC-AATTTGTA
* *
38774521 AAATTACTGAAATACCCTCAGTTTGTA
1 AAATTACTAAAATACCCTCAATTTGTA
* * *
38774548 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCAATTTGTA
* * *
38774575 AAATTACTGAAATACCCTCGACTTGTAA
1 AAATTACTAAAATACCCTCAATTTGT-A
* *
38774603 AAATTACCAAAGTACCC
1 AAATTACTAAAATACCC
38774620 CGGATTTATA
Statistics
Matches: 245, Mismatches: 37, Indels: 11
0.84 0.13 0.04
Matches are distributed among these distances:
26 3 0.01
27 222 0.91
28 20 0.08
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCAATTTGTA
Found at i:38774371 original size:54 final size:54
Alignment explanation
Indices: 38774305--38774620 Score: 307
Period size: 54 Copynumber: 5.8 Consensus size: 54
38774295 TTAGTTTACC
* *
38774305 AAATTACTAAAATGCCCTCAATTTGTAAAATTACTAAAATACCCCTAGTTTGTA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* * * * *
38774359 AAATTACCAAAATACCC-CTAGTTTGTGAAATTACCAAAATACCTCT-GATTTGTG
1 AAATTACTAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTAG-TTTGTA
* * * * **
38774413 AAATTACTAAAATATCCTCAACTTGTAAAATTACCAAAATACCCTTGGTTTAAA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* * * * *
38774467 AAATTACCAAAATACCC-CTAGTTTTTAAAATTACCAAAATACCCCTAATTTGTG
1 AAATTACTAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* * *** *
38774521 AAATTACTGAAATACCCTCAGTTTGTAAAATTATTGAAATA-CCCTCGATTTGTA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAG-TTTGTA
* * * *
38774575 AAATTACTGAAATACCCTCGACTTGTAAAAATTACCAAAGTACCCC
1 AAATTACTAAAATACCCTCAATTTGT-AAAATTACCAAAATACCCC
38774621 GGATTTATAG
Statistics
Matches: 209, Mismatches: 44, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
53 7 0.03
54 185 0.89
55 14 0.07
56 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTA
Found at i:38774439 original size:81 final size:80
Alignment explanation
Indices: 38774305--38774620 Score: 307
Period size: 81 Copynumber: 3.9 Consensus size: 80
38774295 TTAGTTTACC
* * * **
38774305 AAATTACTAAAATGCCCTCAATTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCT-GATTTGTAAAATTACTAAAATACCCCTAACTTGTAAAATTACCAAA
*
38774370 ATACCCCTAGTTTGTG
65 ATACCCCTAGTTTGTA
* *
38774386 AAATTACCAAAATACCTCTGATTTGTGAAATTACTAAAATA-TCCTCAACTTGTAAAATTACCAA
1 AAATTACCAAAATACC-CTGATTTGTAAAATTACTAAAATACCCCT-AACTTGTAAAATTACCAA
* * **
38774450 AATACCCTTGGTTTAAA
64 AATACCCCTAGTTTGTA
* * * * **
38774467 AAATTACCAAAATACCCCT-AGTTTTTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGA
1 AAATTACCAAAATA-CCCTGA-TTTGTAAAATTACTAAAATACCCCTAACTTGTAAAATTACCAA
38774531 AATA-CCCTCAGTTTGTA
64 AATACCCCT-AGTTTGTA
*** * *
38774548 AAATTATTGAAATACCCTCGATTTGTAAAATTACTGAAATA-CCCTCGACTTGTAAAAATTACCA
1 AAATTACCAAAATACCCT-GATTTGTAAAATTACTAAAATACCCCT-AACTTGT-AAAATTACCA
*
38774612 AAGTACCCC
63 AAATACCCC
38774621 GGATTTATAG
Statistics
Matches: 188, Mismatches: 36, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
80 15 0.08
81 151 0.80
82 19 0.10
83 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCTGATTTGTAAAATTACTAAAATACCCCTAACTTGTAAAATTACCAAAA
TACCCCTAGTTTGTA
Found at i:38774561 original size:108 final size:108
Alignment explanation
Indices: 38774305--38774620 Score: 398
Period size: 108 Copynumber: 2.9 Consensus size: 108
38774295 TTAGTTTACC
* * *
38774305 AAATTACTAAAATGCCCTCAATTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAA
* * * *
38774370 ATACCCCTAGTTTGTGAAATTACCAAAATACCTCTGATTTGTG
66 ATACCCCTAGTTTTTAAAATTACCAAAATACCCCTAATTTGTG
* * * **
38774413 AAATTACTAAAATATCCTCAACTTGTAAAATTACCAAAATACCCTTGGTTTAAAAAATTACCAAA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAA
38774478 ATACCCCTAGTTTTTAAAATTACCAAAATACCCCTAATTTGTG
66 ATACCCCTAGTTTTTAAAATTACCAAAATACCCCTAATTTGTG
* * * * * * **
38774521 AAATTACTGAAATACCCTCAGTTTGTAAAATTATTGAAATACCCTCGATTTGTAAAATTACTGAA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAA
* * * * *
38774586 ATACCCTCGACTTGTAAAAATTACCAAAGTACCCC
66 ATACCC-CTAGTTTTTAAAATTACCAAAATACCCC
38774621 GGATTTATAG
Statistics
Matches: 177, Mismatches: 30, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
108 154 0.87
109 23 0.13
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (108 bp):
AAATTACTAAAATACCCTCAATTTGTAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAA
ATACCCCTAGTTTTTAAAATTACCAAAATACCCCTAATTTGTG
Found at i:38774688 original size:27 final size:27
Alignment explanation
Indices: 38774666--38774825 Score: 230
Period size: 27 Copynumber: 5.9 Consensus size: 27
38774656 AAAATTATTA
*
38774666 AAATACCCCTGTAGGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
38774693 AAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
38774720 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
38774747 AAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
38774774 AAATATCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
38774801 AGATACCCTTGTAGGGTAAAATTAC
1 AAATACCCCTGTAGGGTAGAATTAC
38774826 CATTTTGCCC
Statistics
Matches: 118, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 118 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACTG
Found at i:38774716 original size:54 final size:54
Alignment explanation
Indices: 38774666--38774825 Score: 266
Period size: 54 Copynumber: 3.0 Consensus size: 54
38774656 AAAATTATTA
**
38774666 AAATACCCCTGTAGGGTAGAATTATTGAAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTG
*
38774720 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTG
* * *
38774774 AAATATCCCTGTAGGGTAGAATTACCGAGATACCCTTGTAGGGTAAAATTAC
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTAC
38774826 CATTTTGCCC
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 99 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (54 bp):
AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTG
Found at i:38775108 original size:24 final size:25
Alignment explanation
Indices: 38775031--38775125 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
38775021 AGGAAGTGCT
*
38775031 AAAAGGGCTTTGCCCTAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
38775056 AAAAAGGCTTTGCCCCAGTTTACCT
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
38775081 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
38775106 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
38775126 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:38775138 original size:24 final size:25
Alignment explanation
Indices: 38775030--38775138 Score: 118
Period size: 25 Copynumber: 4.4 Consensus size: 25
38775020 GAGGAAGTGC
* *
38775030 TAAAAG-GGCTTTGCCCTAGTTTAC
1 TAAAAGAGGCTTTGCCCCAGTTTAT
* * *
38775054 CAAAAAAGGCTTTGCCCCAGTTTACC
1 TAAAAGAGGCTTTGCCCCAGTTTA-T
38775080 TAAAAG-GGCTTTGCCCCAGTTTAT
1 TAAAAGAGGCTTTGCCCCAGTTTAT
*
38775104 CAAAA-AGGGCTTTGCCCCAG-TTAT
1 TAAAAGA-GGCTTTGCCCCAGTTTAT
38775128 TAAAAGAGGCT
1 TAAAAGAGGCT
38775139 AGGCCTCCAG
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
24 20 0.28
25 47 0.65
26 5 0.07
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (25 bp):
TAAAAGAGGCTTTGCCCCAGTTTAT
Found at i:38775149 original size:50 final size:50
Alignment explanation
Indices: 38775029--38775150 Score: 140
Period size: 50 Copynumber: 2.4 Consensus size: 50
38775019 GGAGGAAGTG
** *
38775029 CTAAAAGGGCTTTGCCCTAGTTTACCAAAAAAGGCTTTGCCCCAGTTTAC
1 CTAAAAGGGCTAGGCCCCAGTTTACCAAAAAAGGCTTTGCCCCAGTTTAC
** * *
38775079 CTAAAAGGGCTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCCAG-TTA-
1 CTAAAAGGGCTAGGCCCCAGTTTACCAAAAAAGGCTTTGCCCCAGTTTAC
*
38775127 TTAAAAGAGGCTAGGCCTCCAGTT
1 CTAAAAG-GGCTAGGCC-CCAGTT
38775151 ATAAGATAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
48 6 0.09
49 10 0.16
50 48 0.75
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (50 bp):
CTAAAAGGGCTAGGCCCCAGTTTACCAAAAAAGGCTTTGCCCCAGTTTAC
Found at i:38777885 original size:18 final size:20
Alignment explanation
Indices: 38777862--38777905 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
38777852 TGTGGCTAGG
38777862 CCGTGT-GATCA-CACACGC
1 CCGTGTGGATCAGCACACGC
* *
38777880 CCGTGTGGCTCAGGACACGC
1 CCGTGTGGATCAGCACACGC
38777900 CCGTGT
1 CCGTGT
38777906 CCTCCACCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 4 0.18
20 12 0.55
ACGTcount: A:0.16, C:0.36, G:0.30, T:0.18
Consensus pattern (20 bp):
CCGTGTGGATCAGCACACGC
Found at i:38779744 original size:96 final size:94
Alignment explanation
Indices: 38779578--38779897 Score: 349
Period size: 96 Copynumber: 3.3 Consensus size: 94
38779568 GTAAAATGTT
** * * *
38779578 GATGCCATGTCCCGGATATGGTCTTACATTGGCTCTCATACATCAGTGCCGATGCCATGTCCCAG
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-ATGAG-GCCGATGCCATGTCCCAG
*
38779643 ACATGGTCTTACATTGACACATATAACAATGCC
64 ACATGGTCTTACATTGACACATAT-ACAACG-C
* * *
38779676 GATGCCATGTTCCAAACATGGTCTTCCACTGGCTCAT-ATATTGAGGCCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCATAATGAGGCCGATGCCATGTCCCAGA
* * ** *
38779740 CATGGTCTTACATTGGCTCGCATAT-TGAGGTC
65 CATGGTCTTACATT-G-ACACATATACAACG-C
* * *
38779772 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGAGGCCGATGCCATGTCCCAGAC
*
38779837 ATGGTCTTACACTAGCACACATAT-CAACGC
66 ATGGTCTTACA-TTG-ACACATATACAACGC
*
38779867 TAGTGCCATGTCCCAAACATGGTCTTACACT
1 GA-TGCCATGTCCCAAACATGGTCTTACACT
38779898 AGCACACATA
Statistics
Matches: 188, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
95 3 0.02
96 141 0.75
97 5 0.03
98 38 0.20
99 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (94 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGAGGCCGATGCCATGTCCCAGAC
ATGGTCTTACATTGACACATATACAACGC
Found at i:38779840 original size:144 final size:145
Alignment explanation
Indices: 38779578--38779895 Score: 383
Period size: 144 Copynumber: 2.2 Consensus size: 145
38779568 GTAAAATGTT
* * *
38779578 GATGCCATGTCCCGGATATGGTCTTACATTGGCTCTCATACATCAGTGCCGATGCCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCGCATACATCAGTGCCGATGCCATGTCCCAG
* * * *
38779643 ACATGGTCTTACATTGACACATATAACAATGCCGATGCCATGTTCCAAACATGGTCTTCCACTGG
66 ACATGGTCTTACACTGACACATATAACAATGCCGATGCCATGTCCCAAACATGGTCTTACACTAG
* * ** *
38779708 CTCATATATTGAGGCC
131 CACACATATCAACG-C
* * *
38779724 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCGCATA-TTGAG-GTCGATGCCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCGCATACATCAGTGCCGATGCCATGTCCCAG
* * **
38779787 ACATGGTCTTACACTGGCTC-TCATAA-TGTGGCCGATGCCATGTCCCAAACATGGTCTTACACT
66 ACATGGTCTTACACTGACACAT-ATAACAAT-GCCGATGCCATGTCCCAAACATGGTCTTACACT
38779850 AGCACACATATCAACGC
129 AGCACACATATCAACGC
* *
38779867 TAGTGCCATGTCCCAAACATGGTCTTACA
1 GA-TGCCATGTCCCAGACATGGTCTTACA
38779896 CTAGCACACA
Statistics
Matches: 148, Mismatches: 21, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
143 4 0.03
144 104 0.70
145 3 0.02
146 37 0.25
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (145 bp):
GATGCCATGTCCCAGACATGGTCTTACATTGGCTCGCATACATCAGTGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGACACATATAACAATGCCGATGCCATGTCCCAAACATGGTCTTACACTAG
CACACATATCAACGC
Found at i:38779896 original size:48 final size:48
Alignment explanation
Indices: 38779578--38779910 Score: 294
Period size: 48 Copynumber: 6.9 Consensus size: 48
38779568 GTAAAATGTT
** * * * *
38779578 GATGCCATGTCCCGGATATGGTCTTACATTGGCTCTCATA-CATCAGTGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCA--AG-GCC
* * * * * *
38779628 GATGCCATGTCCCAGACATGGTCTTACATTGACACATATAACAATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAAGGCC
* * * * **
38779676 GATGCCATGTTCCAAACATGGTCTTCCACTGGCTCATATATTGAGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAAGGCC
* * * * ** *
38779724 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCGCATATTGAGGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAAGGCC
* * * **
38779772 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCACACAT-ATCAAGGCC
* *
38779820 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAACG-C
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAAGGCC
* *
38779867 TAGTGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCA
1 GA-TGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCA
38779911 TCCAAATGTC
Statistics
Matches: 243, Mismatches: 36, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
47 4 0.02
48 200 0.82
49 3 0.01
50 34 0.14
51 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAAGGCC
Found at i:38789738 original size:20 final size:20
Alignment explanation
Indices: 38789634--38789756 Score: 72
Period size: 20 Copynumber: 6.0 Consensus size: 20
38789624 ACCACACCAA
* *
38789634 AGGCATCAAAGATGCATAACAG
1 AGGCAGCAAAG-TGCA-ATCAG
* * *
38789656 AGGCACCGAAGTGCAGA-AAG
1 AGGCAGCAAAGTGCA-ATCAG
*
38789676 AGGCA-CAAATGTGCAATCAA
1 AGGCAGCAAA-GTGCAATCAG
* * *
38789696 AGGCATCGAAGTGCAAGCAG
1 AGGCAGCAAAGTGCAATCAG
**
38789716 AGGCA-CAAATGTGCAATTTG
1 AGGCAGCAAA-GTGCAATCAG
*
38789736 AGGCAGCAAAGTGCAAACAG
1 AGGCAGCAAAGTGCAATCAG
38789756 A
1 A
38789757 AGCACTGTAC
Statistics
Matches: 79, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
19 7 0.09
20 51 0.65
21 12 0.15
22 9 0.11
ACGTcount: A:0.41, C:0.19, G:0.28, T:0.12
Consensus pattern (20 bp):
AGGCAGCAAAGTGCAATCAG
Found at i:38789740 original size:40 final size:40
Alignment explanation
Indices: 38789653--38789761 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 40
38789643 AGATGCATAA
*
38789653 CAGAGGCACCGAAGTGC-AGAAAGAGGCACAAATGTGCAAT
1 CAGAGGCACCGAAGTGCAAG-CAGAGGCACAAATGTGCAAT
* *
38789693 CAAAGGCATCGAAGTGCAAGCAGAGGCACAAATGTGCAAT
1 CAGAGGCACCGAAGTGCAAGCAGAGGCACAAATGTGCAAT
** * * * *
38789733 TTGAGGCAGCAAAGTGCAAACAGAAGCAC
1 CAGAGGCACCGAAGTGCAAGCAGAGGCAC
38789762 TGTACAAACA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 56 0.97
41 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.28, T:0.11
Consensus pattern (40 bp):
CAGAGGCACCGAAGTGCAAGCAGAGGCACAAATGTGCAAT
Found at i:38794727 original size:21 final size:20
Alignment explanation
Indices: 38794703--38794741 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
38794693 AAACTTGTAT
38794703 ATCTATCAACAAGCATTCACA
1 ATCTATCAACAAGC-TTCACA
*
38794724 ATCTATCAAGAAGCTTCA
1 ATCTATCAACAAGCTTCA
38794742 AAATACACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.26
Consensus pattern (20 bp):
ATCTATCAACAAGCTTCACA
Found at i:38799870 original size:40 final size:40
Alignment explanation
Indices: 38799826--38800009 Score: 171
Period size: 40 Copynumber: 4.6 Consensus size: 40
38799816 GCTACTCGTT
* *
38799826 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
38799866 CAAATGCCTTCGGGGCTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * * *
38799906 CCAATGCGTTCGGG-CTTAGCCCAG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
38799945 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
*
38799986 CAAA-GCCTTCGGGACTTGGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
38800010 ACATCATTCG
Statistics
Matches: 117, Mismatches: 19, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
38 2 0.02
39 29 0.25
40 72 0.62
41 14 0.12
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:38799936 original size:39 final size:39
Alignment explanation
Indices: 38799854--38799957 Score: 145
Period size: 39 Copynumber: 2.6 Consensus size: 39
38799844 AGCCCGGTTA
* * *
38799854 TAGTAACTTGCACAAATGCCTTCGGGGCTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGGCTTAACCCAGAAT
* * *
38799894 TAGTAACTCGCACCAATGCGTTCGGGCTTAGCCCAGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAACCCAGAAT
38799933 TAGTAACTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
38799958 ATCTTAGTCC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 36 0.64
40 20 0.36
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGGCTTAACCCAGAAT
Found at i:38799997 original size:79 final size:80
Alignment explanation
Indices: 38799826--38800007 Score: 181
Period size: 79 Copynumber: 2.3 Consensus size: 80
38799816 GCTACTCGTT
* ** * *
38799826 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAACTTGCACAAATGCCTTCGGGGCTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTCGGAGCTTAACCCG
* *
38799890 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * * **
38799907 CAATGCGTTCGGG-CTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 CAAAGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGAGCTTAACCCGGA
* *
38799971 TATGGTCACTTAGCA-
66 TATAGTAAC-TAGCAC
*
38799986 CAAAGCCTTCGGGACTTGGCCC
1 CAAAGCCTTCGGGACTTAGCCC
38800008 GGACATCATT
Statistics
Matches: 81, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
79 57 0.70
80 21 0.26
81 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGAGCTTAACCCGGA
TATAGTAACTAGCAC
Found at i:38804480 original size:28 final size:28
Alignment explanation
Indices: 38804437--38804495 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
38804427 TGAATATTTG
*
38804437 AAAACACTGTTGCACCTTTCAACTGATC
1 AAAACACTGTTACACCTTTCAACTGATC
38804465 AAAACACTGTTACACCTTTCAACTGATC
1 AAAACACTGTTACACCTTTCAACTGATC
38804493 AAA
1 AAA
38804496 CAAATCGTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.27
Consensus pattern (28 bp):
AAAACACTGTTACACCTTTCAACTGATC
Found at i:38806852 original size:16 final size:17
Alignment explanation
Indices: 38806821--38806853 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
38806811 ATACTTTTCT
*
38806821 CATACATTCGATCATTA
1 CATACAATCGATCATTA
38806838 CATACAATC-ATCATTA
1 CATACAATCGATCATTA
38806854 AATCTCAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.33
Consensus pattern (17 bp):
CATACAATCGATCATTA
Found at i:38815399 original size:20 final size:19
Alignment explanation
Indices: 38815363--38815413 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
38815353 AAGGGCTATT
*
38815363 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
38815382 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
38815402 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
38815414 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:38816137 original size:46 final size:46
Alignment explanation
Indices: 38816045--38816177 Score: 155
Period size: 46 Copynumber: 2.9 Consensus size: 46
38816035 TGATATGTGT
*
38816045 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATT---ATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG---CATTGAGACGAGA
*
38816091 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGA
* * * * *
38816137 GCTAGAGCAAAACATGTCAGGGACATGCATCGGCCTTGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGA
38816178 TATACAAGCT
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
43 4 0.05
46 72 0.95
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGA
Found at i:38816210 original size:48 final size:46
Alignment explanation
Indices: 38816045--38816211 Score: 128
Period size: 46 Copynumber: 3.6 Consensus size: 46
38816035 TGATATGTGT
* *
38816045 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATG-AG--A
1 GCTAGAGTAAGACATGTCTTGGACATGCATCGG---CATTGA-GAAGAAA
* * *
38816091 GCTAGTGTAAGACATGT-TTGGGACATGCATCGGCATTGAGACGAGA
1 GCTAGAGTAAGACATGTCTT-GGACATGCATCGGCATTGAGAAGAAA
* * ** * *
38816137 GCTAGAGCAAAACATGTCAGGGACATGCATCGGCCTTGAGATATACAA
1 GCTAGAGTAAGACATGTCTTGGACATGCATCGGCATTGAGA-AGA-AA
*
38816185 GCTAGAGTAAGACTTGTCTTGGACATG
1 GCTAGAGTAAGACATGTCTTGGACATG
38816212 GCGTCAGCTT
Statistics
Matches: 97, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 1 0.01
46 65 0.67
47 1 0.01
48 23 0.24
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (46 bp):
GCTAGAGTAAGACATGTCTTGGACATGCATCGGCATTGAGAAGAAA
Found at i:38816291 original size:49 final size:49
Alignment explanation
Indices: 38816232--38816403 Score: 152
Period size: 49 Copynumber: 3.5 Consensus size: 49
38816222 GTTGTGTGTT
* *
38816232 AGTGTAAGACCTGTCTGGGACATGGTATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * * *
38816281 AGTGTAAGACCTGTCTAGGACACGGCATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * * * ** *
38816330 AGTGTAAAAGCTTTCTGGGACATGGCACCGACTTTGAT-G-TGCTAGCA
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
*
38816377 AGTGTAAGACCATGTCTAGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
38816404 GTTGGCATCT
Statistics
Matches: 96, Mismatches: 25, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
47 13 0.14
48 14 0.15
49 69 0.72
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:38819423 original size:40 final size:39
Alignment explanation
Indices: 38819379--38819567 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 39
38819369 ACCATATCCA
*
38819379 GACTAAGATCCGAAGGCATTTGTACGAGTTACTAAATCTG
1 GACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATCTG
*
38819419 GACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATCTG
**
38819459 GGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTAAATCTG
1 GACTAAGTC-CGAAGGCATTTGTGCGAGTTACTAAATCTG
** * *
38819499 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATCA-CCG
1 GACTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AATCTG
* * *
38819539 GGCTATGTCCCGAAGGCATTTGAGCGAGT
1 GACTAAGT-CCGAAGGCATTTGTGCGAGT
38819568 AGCTATATCC
Statistics
Matches: 136, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 2 0.01
40 132 0.97
41 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (39 bp):
GACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCTG
Found at i:38819477 original size:80 final size:80
Alignment explanation
Indices: 38819341--38819560 Score: 259
Period size: 80 Copynumber: 2.8 Consensus size: 80
38819331 GATGTCCGGG
* * * * * *
38819341 CTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATATCCAGACTAAGAT-CCGAAGGCATTTGTAC
1 CTAAGTCCCGAAGGCATTTGTGCGA-GTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTAC
38819404 GAGTTACTAAATCTGGA
64 GAGTTACTAAATCTGGA
* * *
38819421 CTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCTCGAAGGCATTTGTGC
1 CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTTGTAC
*
38819484 GAGTTACTAAATCTGGG
64 GAGTTACTAAATCTGGA
* * *
38819501 TTAAGTCCCGAAGGCATTTGTGCGAGTTACTATCACCGGGCTATGTCCCGAAGGCATTTG
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
38819561 AGCGAGTAGC
Statistics
Matches: 119, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
79 3 0.03
80 106 0.89
81 10 0.08
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (80 bp):
CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGA
GTTACTAAATCTGGA
Found at i:38827561 original size:40 final size:40
Alignment explanation
Indices: 38827332--38827554 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
38827322 TTGAATGATG
* * * *
38827332 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
38827372 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
38827411 TCCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38827449 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38827489 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38827530 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38827555 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
37 23 0.14
38 12 0.07
39 11 0.07
40 110 0.66
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38858006 original size:46 final size:46
Alignment explanation
Indices: 38857956--38858068 Score: 140
Period size: 46 Copynumber: 2.4 Consensus size: 46
38857946 AGTTCTAGAT
*
38857956 TAAGACATGTTTGGGACATGCATCAGCCT-CGAGACG-TAAGCCAATG
1 TAAGACATGTCTGGGACATGCATC-GCCTACGAGACGAT-AGCCAATG
* * * *
38858002 TAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGTG
1 TAAGACATGTCTGGGACATGCATCGCCTACGAGACGATAGCCAATG
38858048 TAAGACCATGTCTGGGACATG
1 TAAGA-CATGTCTGGGACATG
38858069 GCTTCAATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
45 3 0.05
46 40 0.68
47 16 0.27
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGCATCGCCTACGAGACGATAGCCAATG
Found at i:38860232 original size:40 final size:40
Alignment explanation
Indices: 38860177--38860391 Score: 258
Period size: 40 Copynumber: 5.4 Consensus size: 40
38860167 ATGATAACCT
* *
38860177 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCA
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-TCCG
*
38860217 GGCTAAGCCCCGAAGGCATTTGTG-TGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATATCCG
*
38860257 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCCG
* * *
38860297 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCCG
** * *
38860337 GGCTAAGTCTGGAAGGCATTTGAGCGAG-TAGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATATCCG
* *
38860376 GGCTAAATCTCGAAGG
1 GGCTAAGTCCCGAAGG
38860392 TACTTGGTTT
Statistics
Matches: 157, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
39 17 0.11
40 139 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCCG
Found at i:38860310 original size:80 final size:79
Alignment explanation
Indices: 38860170--38860391 Score: 286
Period size: 80 Copynumber: 2.8 Consensus size: 79
38860160 TATTCGGATG
* * * *
38860170 ATAACCTGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCAGGCTAAGCCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC-GGCTAAGTCCCGAAGGC
*
38860234 ATTTGTGTGAGTTACT
64 ATTTGTGCGAGTTACT
*
38860250 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC-GGCTAAGTCCCGAAGGCA
*
38860315 TTTGTGCGAGTTATT
65 TTTGTGCGAGTTACT
** * * *
38860330 ATAACCGGGCTAAGTCTGGAAGGCATTTGAGCGAG-TAGCTATATCCGGCTAAATCTCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGCTAAGTCCCGAAGG
38860392 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
79 16 0.13
80 109 0.87
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:38868205 original size:40 final size:40
Alignment explanation
Indices: 38868150--38868269 Score: 206
Period size: 40 Copynumber: 3.0 Consensus size: 40
38868140 GATGATAACT
38868150 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
38868190 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
38868230 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
38868270 AACTAATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
39 2 0.03
40 74 0.97
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:38870393 original size:21 final size:21
Alignment explanation
Indices: 38870367--38870422 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
38870357 AAATGGTTAG
38870367 ACGGGCGTGTTGCCCTTTCAC
1 ACGGGCGTGTTGCCCTTTCAC
38870388 ACGGGCGTGTTGCCCTTTCAC
1 ACGGGCGTGTTGCCCTTTCAC
*
38870409 ACAGGCGTG-TGCCC
1 ACGGGCGTGTTGCCC
38870423 CTATGTCAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 5 0.15
21 29 0.85
ACGTcount: A:0.11, C:0.34, G:0.30, T:0.25
Consensus pattern (21 bp):
ACGGGCGTGTTGCCCTTTCAC
Found at i:38883452 original size:47 final size:47
Alignment explanation
Indices: 38883357--38883466 Score: 132
Period size: 47 Copynumber: 2.3 Consensus size: 47
38883347 CGATAAGTAT
* * * *
38883357 CTATATAATGGCCCATAGCCAAATCAAGGTAACTTATCCCAGAGTAC
1 CTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAGAATAC
* *
38883404 CTATATCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCTA-AATAC
1 CTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATC-CCAGAATAC
* *
38883451 CTATAACTTGGCCCGT
1 CTATATCATGGCCCGT
38883467 GGATAAATCA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
47 52 0.96
48 2 0.04
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (47 bp):
CTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAGAATAC
Found at i:38886785 original size:34 final size:34
Alignment explanation
Indices: 38886706--38886794 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 34
38886696 TGGATACTGT
* * * **
38886706 ACTGAAATGGGCTAAGGCCCATATTGATACAGTT
1 ACTGATATGGGCTAAGGCCCACACTGATACAGCG
**
38886740 ACTG-TATTGGGCTAAGGCCCACACTGATATTGCG
1 ACTGATA-TGGGCTAAGGCCCACACTGATACAGCG
*
38886774 ACTGATATGGGCTTAGGCCCA
1 ACTGATATGGGCTAAGGCCCA
38886795 GAATGTTCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
33 1 0.02
34 42 0.93
35 2 0.04
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (34 bp):
ACTGATATGGGCTAAGGCCCACACTGATACAGCG
Found at i:38892964 original size:112 final size:112
Alignment explanation
Indices: 38892827--38893047 Score: 424
Period size: 112 Copynumber: 2.0 Consensus size: 112
38892817 ATCATTGTTG
*
38892827 TTAGGTTAACAAGTTTTATAAAGTGATTTTGAGTAAAAATGTCAATTTTGGACCAAACTATATAA
1 TTAGATTAACAAGTTTTATAAAGTGATTTTGAGTAAAAATGTCAATTTTGGACCAAACTATATAA
*
38892892 GGTGGAAATTTAGTGGTTAAAATGTGAAATAAATTGAAAATATGATC
66 GGTGGAAATTGAGTGGTTAAAATGTGAAATAAATTGAAAATATGATC
38892939 TTAGATTAACAAGTTTTATAAAGTGATTTTGAGTAAAAATGTCAATTTTGGACCAAACTATATAA
1 TTAGATTAACAAGTTTTATAAAGTGATTTTGAGTAAAAATGTCAATTTTGGACCAAACTATATAA
38893004 GGTGGAAATTGAGTGGTTAAAATGTGAAATAAATTGAAAATATG
66 GGTGGAAATTGAGTGGTTAAAATGTGAAATAAATTGAAAATATG
38893048 GGCTGATAGT
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 107 1.00
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.34
Consensus pattern (112 bp):
TTAGATTAACAAGTTTTATAAAGTGATTTTGAGTAAAAATGTCAATTTTGGACCAAACTATATAA
GGTGGAAATTGAGTGGTTAAAATGTGAAATAAATTGAAAATATGATC
Found at i:38895938 original size:37 final size:38
Alignment explanation
Indices: 38895886--38896068 Score: 182
Period size: 37 Copynumber: 4.8 Consensus size: 38
38895876 TACATGTGGT
38895886 ACGTGTAAGACCATAGCTGGGCTATGGCATCGTAATAG
1 ACGTGTAAGACCATAGCTGGGCTATGGCATCGTAATAG
* *
38895924 -TGTGTAAGACCATAGCTGGGCTATGGCATCGTGAT-G
1 ACGTGTAAGACCATAGCTGGGCTATGGCATCGTAATAG
* * * *
38895960 ACATGTAAGACCATAGCTGGGCTATGGTATTGTGAT--
1 ACGTGTAAGACCATAGCTGGGCTATGGCATCGTAATAG
38895996 ACGTGTAAGACCAT-GTCTGGGAC-ATGGCATCG-ATATGAG
1 ACGTGTAAGACCATAG-CTGGG-CTATGGCATCGTA-AT-AG
* *
38896035 ATCCTGTGTAAGACCATATCTGGGATATGGCATC
1 A--C-GTGTAAGACCATAGCTGGGCTATGGCATC
38896069 AGCATCGATA
Statistics
Matches: 121, Mismatches: 12, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
35 1 0.01
36 28 0.23
37 65 0.54
39 1 0.01
41 1 0.01
42 25 0.21
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (38 bp):
ACGTGTAAGACCATAGCTGGGCTATGGCATCGTAATAG
Found at i:38895977 original size:74 final size:73
Alignment explanation
Indices: 38895889--38896027 Score: 201
Period size: 74 Copynumber: 1.9 Consensus size: 73
38895879 ATGTGGTACG
*
38895889 TGTAAGACCATAGCTGGGCTATGGCATCGTAATAGTGTGTAAGACCATAG-CTGGG-CTATGGCA
1 TGTAAGACCATAGCTGGGCTATGGCATCGTAATA-CGTGTAAGACCAT-GTCTGGGAC-ATGGCA
38895952 TCGTGATGACA
63 TCGTGATGACA
* * *
38895963 TGTAAGACCATAGCTGGGCTATGGTATTGTGATACGTGTAAGACCATGTCTGGGACATGGCATCG
1 TGTAAGACCATAGCTGGGCTATGGCATCGTAATACGTGTAAGACCATGTCTGGGACATGGCATCG
38896028 ATATGAGATC
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
72 1 0.02
73 26 0.44
74 32 0.54
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (73 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGTAATACGTGTAAGACCATGTCTGGGACATGGCATCG
TGATGACA
Found at i:38896045 original size:42 final size:42
Alignment explanation
Indices: 38895998--38896322 Score: 235
Period size: 48 Copynumber: 7.3 Consensus size: 42
38895988 ATTGTGATAC
* *
38895998 GTGTAAGACCATGTCTGGGACATGGCATCGATATGAGATCCT
1 GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATCTT
*
38896040 GTGTAAGACCATATCTGGGATATGGCATCAGCATCGATATGAGATCTT
1 GTGTAAGACCATATCTGGG--A---CAT-GGCATCGATATGAGATCTT
*
38896088 GTGTAAGACCATATCTAGGGTATGGCATCAGCATCGATATGAGATCTT
1 GTGTAAGACCATATCT-GGG-A---CAT-GGCATCGATATGAGATCTT
* *
38896136 GTGTAAGACCATATCTAGGATATGACATCAGCATCGATATGAGAT-TGC
1 GTGTAAGACCATATCT-GG----GACAT-GGCATCGATATGAGATCT-T
* * *
38896184 GTGTAAGACCATATCTGAGATATGGCTTCGATATGAGAT-TT
1 GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATCTT
** * * *** *
38896225 CGTGTAAGACTGTGTCTAGGATGCGGCATCGATATGTGAT-TT
1 -GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATCTT
* * * *
38896267 CGTATAAGACCATGTCTAGGACATGGCATCGATGTGAGA-CTTT
1 -GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATC-TT
38896310 GTGTAAGACCATA
1 GTGTAAGACCATA
38896323 GTTGGACTAT
Statistics
Matches: 240, Mismatches: 28, Indels: 30
0.81 0.09 0.10
Matches are distributed among these distances:
42 107 0.45
43 6 0.03
44 1 0.00
47 5 0.02
48 116 0.48
49 3 0.01
51 1 0.00
52 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATCTT
Found at i:38896093 original size:48 final size:48
Alignment explanation
Indices: 38896022--38896209 Score: 299
Period size: 48 Copynumber: 3.9 Consensus size: 48
38896012 CTGGGACATG
*
38896022 GCATCGATATGAGATCCTGTGTAAGACCATATCTGGGATATGGCATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
38896070 GCATCGATATGAGATCTTGTGTAAGACCATATCTAGGG-TATGGCATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCT-GGGATATGGCATCA
* *
38896118 GCATCGATATGAGATCTTGTGTAAGACCATATCTAGGATATGACATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
* *
38896166 GCATCGATATGAGAT-TGCGTGTAAGACCATATCTGAGATATGGC
1 GCATCGATATGAGATCT-TGTGTAAGACCATATCTGGGATATGGC
38896210 TTCGATATGA
Statistics
Matches: 130, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
47 3 0.02
48 124 0.95
49 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (48 bp):
GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
Found at i:38906832 original size:33 final size:34
Alignment explanation
Indices: 38906795--38906896 Score: 98
Period size: 34 Copynumber: 3.0 Consensus size: 34
38906785 ATACATTTTG
* * *
38906795 GATACTGT-ACTGAAATGGGCTAAGGTCCACATT
1 GATACTGTGACTGAAATGGACTAAGGCCCACACT
* *
38906828 GATACTGTGACTGTATTGGACTAAGGCCCACACT
1 GATACTGTGACTGAAATGGACTAAGGCCCACACT
* * * * * *
38906862 GATATTGCGACTGATATGGTCTTAGGCCCAGACT
1 GATACTGTGACTGAAATGGACTAAGGCCCACACT
38906896 G
1 G
38906897 TTCAACATTG
Statistics
Matches: 55, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
33 8 0.15
34 47 0.85
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.27
Consensus pattern (34 bp):
GATACTGTGACTGAAATGGACTAAGGCCCACACT
Found at i:38909888 original size:46 final size:47
Alignment explanation
Indices: 38909801--38910023 Score: 133
Period size: 47 Copynumber: 4.7 Consensus size: 47
38909791 GACGAGAGTG
*
38909801 AGTGTAAGA-CAT-TTCTGGGACAT-GCATCGGCTACGAGATGT-GTT
1 AGTGTAAGACCATGTT-TGGGACATGGCATCGGCTACGAGATGTAGCT
*
38909845 AGTGTAAGACCATGTTTGGGACATGGCATCGGC-ACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCTAC-GAGATGT---AGCT
* * * * **
38909895 AGTGTAAGACCATGTCTAGGACATGG-AGTCAGCCT-CAATTTCGATAG-T
1 AGTGTAAGACCATGTTTGGGACATGGCA-TC-GGCTACGAGAT-G-TAGCT
* * * * * *
38909943 CAGTGTAAGACCATGTCTGGGACATAGCATCGACT-TGATGGAT-AAGCC
1 -AGTGTAAGACCATGTTTGGGACATGGCATCGGCTACGA--GATGTAGCT
*
38909991 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGC
38910024 ATTATACCTA
Statistics
Matches: 143, Mismatches: 18, Indels: 33
0.74 0.09 0.17
Matches are distributed among these distances:
44 9 0.06
45 13 0.09
46 16 0.11
47 33 0.23
48 5 0.03
49 29 0.20
50 33 0.23
51 4 0.03
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCTACGAGATGTAGCT
Found at i:38912732 original size:20 final size:21
Alignment explanation
Indices: 38912693--38912732 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38912683 ACGATTTTTG
*
38912693 ACAATCTGAAGCTGCTTTCAA
1 ACAATCTGAAGCTACTTTCAA
*
38912714 ACAATGTGAAG-TACTTTCA
1 ACAATCTGAAGCTACTTTCA
38912733 CTTTCTCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (21 bp):
ACAATCTGAAGCTACTTTCAA
Found at i:38915069 original size:28 final size:28
Alignment explanation
Indices: 38915038--38915128 Score: 112
Period size: 28 Copynumber: 3.2 Consensus size: 28
38915028 GGCTCACTAG
*
38915038 GCCCAATCCCATTTATATGGCCCATCCA
1 GCCCAATCACATTTATATGGCCCATCCA
* *
38915066 GCCCAATTCACGTTCATATGGCCCAT-CA
1 GCCCAA-TCACATTTATATGGCCCATCCA
* *
38915094 GGCCCAATCTCATTTATATGGCCCATCCG
1 -GCCCAATCACATTTATATGGCCCATCCA
38915123 GCCCAA
1 GCCCAA
38915129 ATGACATTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 30 0.57
29 23 0.43
ACGTcount: A:0.24, C:0.37, G:0.14, T:0.24
Consensus pattern (28 bp):
GCCCAATCACATTTATATGGCCCATCCA
Found at i:38915138 original size:28 final size:28
Alignment explanation
Indices: 38915037--38915140 Score: 104
Period size: 28 Copynumber: 3.7 Consensus size: 28
38915027 TGGCTCACTA
*
38915037 GGCCC-AATCCCATTTATATGGCCCATCC
1 GGCCCAAATCACA-TTATATGGCCCATCC
* * * *
38915065 AGCCCAATTCACGTTCATATGGCCCATCA
1 GGCCCAAATCACATT-ATATGGCCCATCC
*
38915094 GGCCC-AATCTCATTTATATGGCCCATCC
1 GGCCCAAATCACA-TTATATGGCCCATCC
*
38915122 GGCCCAAATGACATTATAT
1 GGCCCAAATCACATTATAT
38915141 TCATGCTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
28 33 0.55
29 27 0.45
ACGTcount: A:0.26, C:0.34, G:0.14, T:0.26
Consensus pattern (28 bp):
GGCCCAAATCACATTATATGGCCCATCC
Found at i:38920649 original size:49 final size:49
Alignment explanation
Indices: 38920576--38920865 Score: 364
Period size: 49 Copynumber: 5.8 Consensus size: 49
38920566 TAGCCGAAGC
* *
38920576 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * * *
38920625 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * *
38920676 TTTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * *
38920725 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCACAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * * *
38920776 TTTCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
38920825 TATCCGGTACACGTAGTAGCCTGCACTTAGTATTACACATG
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATG
38920866 TGAACTCACA
Statistics
Matches: 204, Mismatches: 33, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
49 119 0.58
50 4 0.02
51 81 0.40
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:38920695 original size:100 final size:100
Alignment explanation
Indices: 38920581--38920868 Score: 522
Period size: 100 Copynumber: 2.9 Consensus size: 100
38920571 GAAGCTATCT
* *
38920581 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
*
38920646 TGCACTTAGTACTACACACGTGATCACAGTTTTCA
66 TGCACTTAGTACTACACATGTGATCACAGTTTTCA
38920681 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
*
38920746 TGCACTTAGTACTACACATGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACATGTGATCACAGTTTTCA
*
38920781 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
*
38920846 TGCACTTAGTATTACACATGTGA
66 TGCACTTAGTACTACACATGTGA
38920869 ACTCACAATA
Statistics
Matches: 182, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 182 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACATGTGATCACAGTTTTCA
Found at i:38939901 original size:14 final size:14
Alignment explanation
Indices: 38939882--38939908 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38939872 ATACTTGATT
38939882 TGTTCTTAATTATG
1 TGTTCTTAATTATG
38939896 TGTTCTTAATTAT
1 TGTTCTTAATTAT
38939909 TGCTTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:38940347 original size:13 final size:13
Alignment explanation
Indices: 38940329--38940354 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38940319 CTATGCATTC
38940329 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
38940342 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
38940355 AGCAAATCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:38947315 original size:27 final size:27
Alignment explanation
Indices: 38947261--38947315 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
38947251 AATATAATAT
*
38947261 AATTATAAAATAATTAAATTGTAGTTA
1 AATTATAAAATAATTAAATTGTAATTA
* *
38947288 AATTATTAAAAT-ATTTAATTTTAATTA
1 AATTA-TAAAATAATTAAATTGTAATTA
38947315 A
1 A
38947316 TTTTATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (27 bp):
AATTATAAAATAATTAAATTGTAATTA
Found at i:38950273 original size:25 final size:25
Alignment explanation
Indices: 38950243--38950337 Score: 95
Period size: 25 Copynumber: 3.8 Consensus size: 25
38950233 CATCCTGACC
*
38950243 TACAGCTCATGTGAGCATACCGATT
1 TACAGCTCATATGAGCATACCGATT
* *
38950268 TACAGCTCATGA-GAGCATACTGATC
1 TACAGCTCAT-ATGAGCATACCGATT
**
38950293 TGTAGCTCGA-ATGAGCATACCGATT
1 TACAGCTC-ATATGAGCATACCGATT
* *
38950318 CACAGCTCGTATGAGCATAC
1 TACAGCTCATATGAGCATAC
38950338 ATGTACAAGT
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
24 1 0.02
25 53 0.96
26 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.25
Consensus pattern (25 bp):
TACAGCTCATATGAGCATACCGATT
Found at i:38960686 original size:18 final size:18
Alignment explanation
Indices: 38960659--38960693 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38960649 TGAATAAGTC
*
38960659 TTGTGATTTGTTGTGAAT
1 TTGTGATTTGTTATGAAT
*
38960677 TTGTGCTTTGTTATGAA
1 TTGTGATTTGTTATGAA
38960694 AGACATATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TTGTGATTTGTTATGAAT
Found at i:38961856 original size:47 final size:44
Alignment explanation
Indices: 38961786--38961911 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 44
38961776 CCACTTGTGT
38961786 GAGCTAGTGTAAGACATGTCTGGGACATGCATAGGCCACATT-ATGA-
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATAGG---CATTGA-GAC
* *
38961832 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGAC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATAGGCATTGAGAC
38961878 GAGTGCTAGTGTAAGACATGTCTGGGACATGCAT
1 GA--GCTAGTGTAAGACATGTCTGGGACATGCAT
38961912 CGACTATGAG
Statistics
Matches: 71, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
45 6 0.08
46 20 0.28
47 28 0.39
48 17 0.24
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATAGGCATTGAGAC
Found at i:38962216 original size:13 final size:13
Alignment explanation
Indices: 38962198--38962222 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38962188 TGGCCGTATG
38962198 AAGGACACGAGCC
1 AAGGACACGAGCC
38962211 AAGGACACGAGC
1 AAGGACACGAGC
38962223 GTGTGCCAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.32, T:0.00
Consensus pattern (13 bp):
AAGGACACGAGCC
Found at i:38964386 original size:16 final size:16
Alignment explanation
Indices: 38964367--38964404 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
38964357 ATAAATCGGT
38964367 AAAAGCTGAAATGCCA
1 AAAAGCTGAAATGCCA
* *
38964383 AAAAGTTGAAATGCCG
1 AAAAGCTGAAATGCCA
38964399 AAAAGC
1 AAAAGC
38964405 CAAAAGTTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.50, C:0.16, G:0.21, T:0.13
Consensus pattern (16 bp):
AAAAGCTGAAATGCCA
Found at i:38964550 original size:29 final size:29
Alignment explanation
Indices: 38964508--38964602 Score: 113
Period size: 29 Copynumber: 3.3 Consensus size: 29
38964498 TTGGGTTGAT
* *
38964508 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAGTGGGCCATATGAATATGAA
*
38964537 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAGTGGGCCATATGAATATGAA
* * *
38964566 CTGGGCC-AGATGGGCCATTTGAATAAG-A
1 TTGGGCCTAG-TGGGCCATATGAATATGAA
38964594 TTGGGCCTA
1 TTGGGCCTA
38964603 CTATATGACG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 9 0.16
29 47 0.84
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
TTGGGCCTAGTGGGCCATATGAATATGAA
Found at i:38967707 original size:43 final size:43
Alignment explanation
Indices: 38967632--38967863 Score: 337
Period size: 43 Copynumber: 5.4 Consensus size: 43
38967622 GATAAATCTC
* * *
38967632 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
38967673 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
38967716 GTAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
38967759 GCAGGCTTCA-TGCCAGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTT-AGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
38967802 GCAGGCTTCA-TGCTGGTGATGTGTATTCGGGCCTTCGTACCTA
1 GCAGGCTT-AGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
38967845 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
38967864 AATGATATGT
Statistics
Matches: 176, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
41 15 0.09
42 3 0.02
43 157 0.89
44 1 0.01
ACGTcount: A:0.14, C:0.23, G:0.33, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:38968254 original size:45 final size:45
Alignment explanation
Indices: 38968205--38968306 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 45
38968195 ACTTAGCAAA
* *
38968205 CTATAATGCCGGTGAGATACT-AT-TCGGGCCTTCGAGCCTAGCAGG
1 CTATAATGCCGGTGAGA-ACTGATATCAGGCC-TCGAGCCTAACAGG
*
38968250 CTATAATACCGGT--GAACTGATATCAGGCCTCGAGCCTAACAGG
1 CTATAATGCCGGTGAGAACTGATATCAGGCCTCGAGCCTAACAGG
*
38968293 CGA-AATGCCGGTGA
1 CTATAATGCCGGTGA
38968307 TTTGAGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
42 11 0.23
43 19 0.40
44 6 0.12
45 12 0.25
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (45 bp):
CTATAATGCCGGTGAGAACTGATATCAGGCCTCGAGCCTAACAGG
Found at i:38972002 original size:40 final size:39
Alignment explanation
Indices: 38971937--38972022 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 39
38971927 TTTATATATA
**
38971937 TAGCCGAAGCTATCTCAAATTGCACAC-CTAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACTC-AGTGCCA-TTT
* *
38971977 TAGCCGAAGCTATTTCGAACCGCACACTCAGTGCCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACTCAGTGCCATTT
38972016 TAGCCGA
1 TAGCCGA
38972023 TAAGTCATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
39 10 0.24
40 30 0.73
41 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACTCAGTGCCATTT
Found at i:38980447 original size:38 final size:38
Alignment explanation
Indices: 38980404--38980564 Score: 178
Period size: 38 Copynumber: 4.0 Consensus size: 38
38980394 TTTCAAATTA
*
38980404 ACATGTATAACCGTGGCATATCCACTTAGCAGCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * *
38980442 ACATGTTTAACCGTGGTATATCCACTTAACACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
38980483 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* *
38980527 ACAAGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
38980565 TTTTCATTCC
Statistics
Matches: 103, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
38 62 0.60
39 1 0.01
40 3 0.03
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 3 0.03
46 1 0.01
47 27 0.26
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:38985748 original size:27 final size:27
Alignment explanation
Indices: 38985718--38985895 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38985708 ATATTGAGTC
* * * *
38985718 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
38985745 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38985772 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
38985800 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
38985827 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
38985854 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38985881 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38985896 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:38985857 original size:82 final size:81
Alignment explanation
Indices: 38985739--38985894 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38985729 TGCTATATAA
* *
38985739 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
38985804 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
38985821 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
38985885 CACTTAGTGC
65 CACTTAGTGC
38985895 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:38988331 original size:40 final size:40
Alignment explanation
Indices: 38988276--38988499 Score: 288
Period size: 40 Copynumber: 5.5 Consensus size: 40
38988266 TATTCGAATG
38988276 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
38988316 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
38988359 ATACCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
38988399 ATATCCGGGCTAAGTCCCAAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
38988439 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
38988479 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
38988500 ATACTTGGGT
Statistics
Matches: 161, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 13 0.08
40 111 0.69
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:38988422 original size:83 final size:80
Alignment explanation
Indices: 38988283--38988495 Score: 270
Period size: 83 Copynumber: 2.6 Consensus size: 80
38988273 ATGATATCCG
* * **
38988283 GGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCATGC
38988348 GAGTAGTTG-CTATACCCA
66 ---TAG-TGACTATACCCA
*
38988366 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCATGC
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCATGC
* *
38988431 TAGTGACTATATCCG
66 TAGTGACTATACCCA
* * *
38988446 GGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCC
1 GGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCC
38988496 GAAGATACTT
Statistics
Matches: 118, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
79 12 0.10
80 44 0.37
81 2 0.02
83 60 0.51
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCATGC
TAGTGACTATACCCA
Found at i:38991612 original size:31 final size:31
Alignment explanation
Indices: 38991574--38991633 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
38991564 TAGCACACAG
38991574 CCTGGTACATGGGCGTGTGACGCGGCCGTAT
1 CCTGGTACATGGGCGTGTGACGCGGCCGTAT
38991605 CCTGGTACATGGGCGTGTGACGCGGCCGT
1 CCTGGTACATGGGCGTGTGACGCGGCCGT
38991634 GTGACCCTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.12, C:0.27, G:0.40, T:0.22
Consensus pattern (31 bp):
CCTGGTACATGGGCGTGTGACGCGGCCGTAT
Found at i:38998353 original size:48 final size:48
Alignment explanation
Indices: 38998271--38998364 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
38998261 TTTCTTGGCT
* * *
38998271 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAACCTAACTTCCAACAATAAAGGATTCAACCG
38998319 TAAAAACGCCTAAGTCAA-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAACCT-AACTTC-CAACAATAAAGGATTCAAC
38998365 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.41, C:0.28, G:0.12, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAACCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:39000867 original size:48 final size:48
Alignment explanation
Indices: 39000785--39000878 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
39000775 TTTCTTGGCT
* *
39000785 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
39000833 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
39000879 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:39002012 original size:37 final size:37
Alignment explanation
Indices: 39001949--39002061 Score: 99
Period size: 37 Copynumber: 3.1 Consensus size: 37
39001939 TATTCAAAAA
*
39001949 TAATATTATTTTAATAGTTTAATATTAAATTAA-ATT
1 TAATATTATCTTAATAGTTTAATATTAAATTAATATT
* *
39001985 TAATACTTATCTTAATAGTATT-TTATTAATTTAATATT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTAATATT
* * * *
39002023 AAAGTGATTATCTTAATA-TTAAAT-TTAATTTAATGTT
1 TAA-T-ATTATCTTAATAGTTTAATATTAAATTAATATT
39002060 TA
1 TA
39002062 TCTACAAGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
36 5 0.08
37 36 0.57
38 9 0.14
39 12 0.19
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAAATTAATATT
Found at i:39002119 original size:21 final size:21
Alignment explanation
Indices: 39002102--39002142 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
39002092 GAGATTTATT
39002102 ATTAAATTTAATAAATTTAAC
1 ATTAAATTTAATAAATTTAAC
* *
39002123 ATTAAATTGATTAAATTTAA
1 ATTAAATTTAATAAATTTAA
39002143 TCATAGTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
ATTAAATTTAATAAATTTAAC
Found at i:39006741 original size:19 final size:19
Alignment explanation
Indices: 39006717--39006755 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
39006707 AATGAGCCAG
39006717 GTATTATTTTCTTATTGTT
1 GTATTATTTTCTTATTGTT
39006736 GTATTATTTTCTTATTGTT
1 GTATTATTTTCTTATTGTT
39006755 G
1 G
39006756 AACCATTTTG
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:0.15, C:0.05, G:0.13, T:0.67
Consensus pattern (19 bp):
GTATTATTTTCTTATTGTT
Found at i:39006763 original size:19 final size:19
Alignment explanation
Indices: 39006722--39006764 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
39006712 GCCAGGTATT
* **
39006722 ATTTTCTTATTGTTGTATT
1 ATTTTCTTATTGTTGAACC
39006741 ATTTTCTTATTGTTGAACC
1 ATTTTCTTATTGTTGAACC
39006760 ATTTT
1 ATTTT
39006765 GAAAGATTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.19, C:0.09, G:0.09, T:0.63
Consensus pattern (19 bp):
ATTTTCTTATTGTTGAACC
Found at i:39006987 original size:20 final size:22
Alignment explanation
Indices: 39006964--39007011 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 22
39006954 ATTTTTATTG
39006964 AATTTAGTTTTTT-TTT-TTTT
1 AATTTAGTTTTTTCTTTGTTTT
*
39006984 AATTTGGTTTTTTCTTTGTTTT
1 AATTTAGTTTTTTCTTTGTTTT
39007006 ACATTT
1 A-ATTT
39007012 TAGAATGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 12 0.50
21 3 0.12
22 5 0.21
23 4 0.17
ACGTcount: A:0.15, C:0.04, G:0.08, T:0.73
Consensus pattern (22 bp):
AATTTAGTTTTTTCTTTGTTTT
Found at i:39010370 original size:19 final size:20
Alignment explanation
Indices: 39010329--39010370 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
39010319 GCATCATGCC
***
39010329 CCCCTCCCCCCCCCCTTTTT
1 CCCCTCCCCCCCCCCTGGCT
39010349 CCCC-CCCCCCCCCCTGGCT
1 CCCCTCCCCCCCCCCTGGCT
39010368 CCC
1 CCC
39010371 TCTATTTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.00, C:0.76, G:0.05, T:0.19
Consensus pattern (20 bp):
CCCCTCCCCCCCCCCTGGCT
Found at i:39018589 original size:20 final size:20
Alignment explanation
Indices: 39018556--39018595 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
39018546 AAATTAAGAT
39018556 ATACAAAAACATATAAATAC
1 ATACAAAAACATATAAATAC
* * *
39018576 ATACATAAATATATATATAC
1 ATACAAAAACATATAAATAC
39018596 TTATAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (20 bp):
ATACAAAAACATATAAATAC
Found at i:39018807 original size:3 final size:3
Alignment explanation
Indices: 39018796--39018849 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
39018786 CAATAATACC
* * *
39018796 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
39018841 AAT AAT AAT
1 AAT AAT AAT
39018850 GAAGTTAACA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
2 1 0.02
3 42 0.98
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:39019841 original size:9 final size:9
Alignment explanation
Indices: 39019827--39019856 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
39019817 GTTTCTCTTT
39019827 GCAGGTGGA
1 GCAGGTGGA
39019836 GCAGGTGGA
1 GCAGGTGGA
39019845 GCAGGT-GA
1 GCAGGTGGA
39019853 GCAG
1 GCAG
39019857 CGATGGGACG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.29
9 15 0.71
ACGTcount: A:0.23, C:0.13, G:0.53, T:0.10
Consensus pattern (9 bp):
GCAGGTGGA
Found at i:39020353 original size:87 final size:87
Alignment explanation
Indices: 39020248--39020447 Score: 206
Period size: 87 Copynumber: 2.3 Consensus size: 87
39020238 GGCCTACTCT
* * * * * *
39020248 GCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCACTCCACCGTAACTTCAGGGAGATA
1 GCTGTAATCTCAGGGAGATAAGATCTC-TGACTTCAATCCACTCCACCGTAACCTCAGGGAGATA
* *
39020312 GGATAGTG-TCTTTGATCTGCTCC
65 AGAT-CTGATCTTTGATCTGCTCC
* ** *
39020335 GCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAA
1 GCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCCACTCCACCGTAACCTCAGGGAGATAA
* *
39020400 GATCTGAAATTCTTTGGTCTGTTCC
66 GATCTG--A-TCTTTGATCTGCTCC
*
39020425 ACTGTAATCTCAGGGAGATAAGA
1 GCTGTAATCTCAGGGAGATAAGA
39020448 CCTGATGTGA
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
86 2 0.02
87 55 0.59
88 1 0.01
90 35 0.38
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (87 bp):
GCTGTAATCTCAGGGAGATAAGATCTCTGACTTCAATCCACTCCACCGTAACCTCAGGGAGATAA
GATCTGATCTTTGATCTGCTCC
Found at i:39020440 original size:46 final size:46
Alignment explanation
Indices: 39020318--39020622 Score: 187
Period size: 44 Copynumber: 6.9 Consensus size: 46
39020308 GATAGGATAG
* *
39020318 TGTCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT--C
1 TGTCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAA
* ** *
39020362 TGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAA
1 TGTCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AA
* * *
39020409 T-TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG-A
1 TGTCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAA
* * *
39020453 TG----TGATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATC----
1 TGTCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAA
* * * * * *
39020491 ---CTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-AC
1 TGTCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAA
* * *
39020532 TATCTTTGATCCGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAAA
1 TGTCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG---AA
* * * * *
39020581 TTTTTTTTTGGTCTGTTCCACTGTAATCTTAGGGAGATAAGA
1 --TGTCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
39020623 CCTGTATAAT
Statistics
Matches: 199, Mismatches: 40, Indels: 37
0.72 0.14 0.13
Matches are distributed among these distances:
39 25 0.13
40 2 0.01
41 28 0.14
44 73 0.37
45 1 0.01
46 35 0.18
47 1 0.01
49 1 0.01
51 33 0.17
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (46 bp):
TGTCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAA
Found at i:39021847 original size:1 final size:1
Alignment explanation
Indices: 39021836--39021872 Score: 65
Period size: 1 Copynumber: 37.0 Consensus size: 1
39021826 CAAAGTCTCC
*
39021836 TTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
39021873 AGGAAGCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:39033091 original size:20 final size:20
Alignment explanation
Indices: 39033058--39033097 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
39033048 AAATTAAGAT
39033058 ATACAAAAACATATAAATAC
1 ATACAAAAACATATAAATAC
* * *
39033078 ATACATAAATATATATATAC
1 ATACAAAAACATATAAATAC
39033098 TTATAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (20 bp):
ATACAAAAACATATAAATAC
Found at i:39033240 original size:22 final size:23
Alignment explanation
Indices: 39033214--39033262 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
39033204 TACAAGCACT
*
39033214 TATA-TGATAATA-ATAAGATATA
1 TATATTGAAAATACATAAG-TATA
39033236 TATATTTGAAAATACATAAGTATA
1 TATA-TTGAAAATACATAAGTATA
39033260 TAT
1 TAT
39033263 GAATAGAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 4 0.17
24 14 0.61
25 5 0.22
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (23 bp):
TATATTGAAAATACATAAGTATA
Found at i:39033307 original size:3 final size:3
Alignment explanation
Indices: 39033296--39033348 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
39033286 CAATAATACC
* * *
39033296 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
39033341 AAT AAT AA
1 AAT AAT AA
39033349 GTTAACAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:39034333 original size:9 final size:9
Alignment explanation
Indices: 39034319--39034348 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
39034309 GTTTCTCTTT
39034319 GCAGGTGGA
1 GCAGGTGGA
39034328 GCAGGTGGA
1 GCAGGTGGA
39034337 GCAGGT-GA
1 GCAGGTGGA
39034345 GCAG
1 GCAG
39034349 CGATGGGACG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.29
9 15 0.71
ACGTcount: A:0.23, C:0.13, G:0.53, T:0.10
Consensus pattern (9 bp):
GCAGGTGGA
Found at i:39045361 original size:131 final size:131
Alignment explanation
Indices: 39045125--39045392 Score: 509
Period size: 131 Copynumber: 2.0 Consensus size: 131
39045115 GTCAATGGTA
*
39045125 CCAAACCAACACACCATATGATCAATACAATTACTGTTATGGGTATTCTTATAGTGACCCTTCTA
1 CCAAACCAACACACCACATGATCAATACAATTACTGTTATGGGTATTCTTATAGTGACCCTTCTA
39045190 ATTATGGTTACCACCCATCAAAACTTCAAGTGTCGCCCTTCCATTATTATTTTGTTTATCAAACA
66 ATTATGGTTACCACCCATCAAAACTTCAAGTGTCGCCCTTCCATTATTATTTTGTTTATCAAACA
39045255 T
131 T
39045256 CCAAACCAACACACCACATGATCAATACAATTACTGTTATGGGTATTCTTATAGTGACCCTTCTA
1 CCAAACCAACACACCACATGATCAATACAATTACTGTTATGGGTATTCTTATAGTGACCCTTCTA
* *
39045321 ATTATGGTTGCCACCCATCAAAACTTCAAGTGTCGTCCTTCCATTATTATTTTGTTTATCAAACA
66 ATTATGGTTACCACCCATCAAAACTTCAAGTGTCGCCCTTCCATTATTATTTTGTTTATCAAACA
39045386 T
131 T
39045387 CCAAAC
1 CCAAAC
39045393 TGCAAGGAAA
Statistics
Matches: 134, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 134 1.00
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (131 bp):
CCAAACCAACACACCACATGATCAATACAATTACTGTTATGGGTATTCTTATAGTGACCCTTCTA
ATTATGGTTACCACCCATCAAAACTTCAAGTGTCGCCCTTCCATTATTATTTTGTTTATCAAACA
T
Found at i:39051334 original size:20 final size:21
Alignment explanation
Indices: 39051296--39051334 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
39051286 TTTATGATTT
*
39051296 TAAATAATTTTTGGGTAAAAA
1 TAAATAATTTTCGGGTAAAAA
*
39051317 TAAAT-ATTTTCGGTTAAA
1 TAAATAATTTTCGGGTAAA
39051335 TTAAAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (21 bp):
TAAATAATTTTCGGGTAAAAA
Found at i:39051789 original size:79 final size:79
Alignment explanation
Indices: 39051658--39051818 Score: 286
Period size: 79 Copynumber: 2.0 Consensus size: 79
39051648 TTCCCTTTAA
* * *
39051658 AATCTCTCGAAATAATTTTTAAAGTTGGGCAAAAAGTCATCCGAATTTCTTCAAGCATTTTGATT
1 AATCTATCGAAATAATTTTCAAAGTTGGGAAAAAAGTCATCCGAATTTCTTCAAGCATTTTGATT
39051723 CAAACTTCTAAATC
66 CAAACTTCTAAATC
39051737 AATCTATCGAAATAATTTTCAAAGTTGGGAAAAAAGTCATCCGAATTTCTTCAAGCATTTTGATT
1 AATCTATCGAAATAATTTTCAAAGTTGGGAAAAAAGTCATCCGAATTTCTTCAAGCATTTTGATT
*
39051802 CAAAGTTCTAAATC
66 CAAACTTCTAAATC
39051816 AAT
1 AAT
39051819 TATTTGAGTT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (79 bp):
AATCTATCGAAATAATTTTCAAAGTTGGGAAAAAAGTCATCCGAATTTCTTCAAGCATTTTGATT
CAAACTTCTAAATC
Found at i:39054035 original size:28 final size:28
Alignment explanation
Indices: 39053999--39054062 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
39053989 ACTCAATGTA
*
39053999 CGAAATATTGAGAATGACACTTACTGTG
1 CGAAATATTGAGAATAACACTTACTGTG
* *
39054027 CGAGATATTGAGAATAACACTTAGTGTG
1 CGAAATATTGAGAATAACACTTACTGTG
39054055 CGAAATAT
1 CGAAATAT
39054063 CGAATGATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (28 bp):
CGAAATATTGAGAATAACACTTACTGTG
Found at i:39055562 original size:93 final size:93
Alignment explanation
Indices: 39055450--39055620 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
39055440 GCCCATAAGT
* *
39055450 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
39055515 CGAGCTT-GGATGCCTAGTTACATCTCTC
66 CGAG-TTCGGATGCCTAGTTACATCTCTC
*
39055543 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
39055608 CGAGTTCGGATGC
66 CGAGTTCGGATGC
39055621 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:39055617 original size:46 final size:46
Alignment explanation
Indices: 39055442--39055617 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
39055432 TGTAACCCGC
* * *
39055442 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
39055488 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGC-A--T
* ***
39055534 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
39055581 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
39055618 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 31 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:39074893 original size:92 final size:92
Alignment explanation
Indices: 39074717--39074893 Score: 293
Period size: 92 Copynumber: 1.9 Consensus size: 92
39074707 GATAATGTAC
*
39074717 CCACAAAACTTGAAAAATTCAGCTTATGAAAATTCAAAATGATGTTTAGTCATCTTTTTCTGGTA
1 CCACAAAACTTGAAAAATTCAGCTTATGAAAATTCAAAATGATGTGTAGTCATCTTTTTCTGGTA
*
39074782 AAAACAGATTAATAGATTGGCAAAACT
66 AAAACAGATTAATAAATTGGCAAAACT
* * *
39074809 CCACAAAACTTGAAGAATTCAGCTTATGAAAATTCAAAGTGTTGTGTAGTCATCTTTTTCTGGTA
1 CCACAAAACTTGAAAAATTCAGCTTATGAAAATTCAAAATGATGTGTAGTCATCTTTTTCTGGTA
39074874 AAAACAGATGT-ATAAATTGG
66 AAAACAGAT-TAATAAATTGG
39074894 TCCAAAAGTT
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
92 78 0.99
93 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (92 bp):
CCACAAAACTTGAAAAATTCAGCTTATGAAAATTCAAAATGATGTGTAGTCATCTTTTTCTGGTA
AAAACAGATTAATAAATTGGCAAAACT
Found at i:39093306 original size:16 final size:16
Alignment explanation
Indices: 39093285--39093332 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
39093275 AAAATAAAAA
39093285 TAAATATATATATATG
1 TAAATATATATATATG
*
39093301 TAAATATATGCATAAATG
1 TAAATATAT--ATATATG
* *
39093319 TATATATGTATATA
1 TAAATATATATATA
39093333 GATATATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 13 0.50
18 13 0.50
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (16 bp):
TAAATATATATATATG
Found at i:39094543 original size:25 final size:26
Alignment explanation
Indices: 39094509--39094559 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
39094499 AATGAAAAAC
*
39094509 GAAAACAGAG-AAGGGAAAGAAAGAAG
1 GAAAACAGAGAAAGAGAAA-AAAGAAG
39094535 GAAAA-AGAGAAAGAGAAAAAAGAAG
1 GAAAACAGAGAAAGAGAAAAAAGAAG
39094560 AAGGAGGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (26 bp):
GAAAACAGAGAAAGAGAAAAAAGAAG
Found at i:39094547 original size:16 final size:15
Alignment explanation
Indices: 39094524--39094564 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
39094514 CAGAGAAGGG
39094524 AAAGAAAGAAGGAAA
1 AAAGAAAGAAGGAAA
39094539 AAGAGAAAG-A-GAAA
1 AA-AGAAAGAAGGAAA
39094553 AAAG-AAGAAGGA
1 AAAGAAAGAAGGA
39094565 GGAATTGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 3 0.13
13 3 0.13
14 8 0.35
15 3 0.13
16 6 0.26
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
AAAGAAAGAAGGAAA
Found at i:39094855 original size:2 final size:2
Alignment explanation
Indices: 39094850--39094892 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
39094840 TATATATATA
39094850 TG TG TG TG TG TG TG TG -G TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
39094891 TG
1 TG
39094893 AATGTGATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (2 bp):
TG
Found at i:39099418 original size:19 final size:19
Alignment explanation
Indices: 39099394--39099434 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
39099384 ATAATATTTT
39099394 TAGTGTTACAATAAAACAC
1 TAGTGTTACAATAAAACAC
39099413 TAGTGTTACAATAAAACAC
1 TAGTGTTACAATAAAACAC
39099432 TAG
1 TAG
39099435 AGTATTCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (19 bp):
TAGTGTTACAATAAAACAC
Found at i:39105005 original size:13 final size:13
Alignment explanation
Indices: 39104987--39105013 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
39104977 CCATTATTTT
39104987 CACATTTTTACAA
1 CACATTTTTACAA
39105000 CACATTTTTACAA
1 CACATTTTTACAA
39105013 C
1 C
39105014 TTTTTCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (13 bp):
CACATTTTTACAA
Found at i:39106914 original size:24 final size:24
Alignment explanation
Indices: 39106832--39106934 Score: 97
Period size: 23 Copynumber: 4.3 Consensus size: 24
39106822 TAATGAACAA
*
39106832 TAAGCTCTATTGAGC-AAAAATGG
1 TAAGCTCTATTGAGCTGAAAATGG
*
39106855 TAAGCTCTATTGAGCTG-AAACGG
1 TAAGCTCTATTGAGCTGAAAATGG
* * *
39106878 TAAGCTCCAATGAGCTGAAAATAG
1 TAAGCTCTATTGAGCTGAAAATGG
39106902 TAAGCTCT-TATGAGCT-AATATATCGG
1 TAAGCTCTAT-TGAGCTGAA-A-AT-GG
39106928 TAAGCTC
1 TAAGCTC
39106935 ATACGAGCTA
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
23 37 0.57
24 18 0.28
25 2 0.03
26 8 0.12
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (24 bp):
TAAGCTCTATTGAGCTGAAAATGG
Found at i:39110003 original size:35 final size:35
Alignment explanation
Indices: 39109929--39110004 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
39109919 CTGTAACTAT
** *
39109929 ATCTGTATCTGAAATGGGTTCAGGCCCGAATCTGT
1 ATCTGTATCTGAAATGGGCGCAGGCCCGAATCTGA
* * * *
39109964 ATCTGTATCTGACATGGGCGCAGGCCCTATTGTGA
1 ATCTGTATCTGAAATGGGCGCAGGCCCGAATCTGA
39109999 ATCTGT
1 ATCTGT
39110005 CTGACTAGTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (35 bp):
ATCTGTATCTGAAATGGGCGCAGGCCCGAATCTGA
Found at i:39121021 original size:6 final size:6
Alignment explanation
Indices: 39121010--39121040 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
39121000 GGTTGTATTT
39121010 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
39121041 GATGTGATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:39121140 original size:18 final size:18
Alignment explanation
Indices: 39121100--39121133 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
39121090 TTTTAATTTA
*
39121100 TTTATATTTAAATAATAC
1 TTTATATTTAAATAAAAC
39121118 TTTAT-TTTAAATAAAA
1 TTTATATTTAAATAAAA
39121134 ATTTTATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTATATTTAAATAAAAC
Found at i:39121441 original size:17 final size:17
Alignment explanation
Indices: 39121420--39121460 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
39121410 AAATTATACT
39121420 TTTTTAATAATTTAATAA
1 TTTTTAAT-ATTTAATAA
*
39121438 TTTTTAATTTTTAATAA
1 TTTTTAATATTTAATAA
39121455 TTTTTA
1 TTTTTA
39121461 TAGGTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTTAATATTTAATAA
Found at i:39121857 original size:6 final size:7
Alignment explanation
Indices: 39121840--39121864 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
39121830 AATTAGTAAT
39121840 AAAAAAG
1 AAAAAAG
39121847 AAAAAAG
1 AAAAAAG
39121854 AAAAAAG
1 AAAAAAG
39121861 AAAA
1 AAAA
39121865 TGGAAGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:39138380 original size:49 final size:50
Alignment explanation
Indices: 39138300--39138532 Score: 317
Period size: 49 Copynumber: 4.7 Consensus size: 50
39138290 ATCTATTGTA
* *
39138300 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
39138350 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * **
39138400 CGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
39138450 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
39138500 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
39138533 TGCGTACTAG
Statistics
Matches: 158, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
49 72 0.46
50 47 0.30
51 39 0.25
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:39138575 original size:150 final size:150
Alignment explanation
Indices: 39138300--39138578 Score: 438
Period size: 150 Copynumber: 1.9 Consensus size: 150
39138290 ATCTATTGTA
*
39138300 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
* * * *
39138365 ACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACATGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACAAGTGTAGAAATAAGTGCAGGCT
39138430 ACTACGTGTATCAGATGGTT
131 ACTACGTGTATCAGATGGTT
39138450 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
* * *
39138515 ACTAAGTGCAGGCTACTATGCGTACTAGATAGCCTT-G-TCTACAAGTGT-GAAAATATGTGCAG
66 ACTAAGTGCAGGCTACTATGCGTACCAGATA-ACTTCGATC-ACAAGTGTAG-AAATAAGTGCAG
39138577 GC
128 GC
39138579 AACTGAGTAT
Statistics
Matches: 118, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
149 3 0.03
150 112 0.95
151 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (150 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACAAGTGTAGAAATAAGTGCAGGCT
ACTACGTGTATCAGATGGTT
Found at i:39147166 original size:82 final size:83
Alignment explanation
Indices: 39147043--39147220 Score: 243
Period size: 83 Copynumber: 2.2 Consensus size: 83
39147033 ACGGTCGAGA
** * * **
39147043 CACATGCCTGTGTCTCTGCTCGTGTACCCAATTCTGAGCATT-TGTTTCTCAAAATTAAGGTGTA
1 CACATGCCCATGTCTCTGCCCGTGTACCCAATTATGAGCATTCTGTTTCTCAAAATTAAGGTACA
* *
39147107 GGGGACACATGGCCTAAC
66 GGGGACACACGACCTAAC
*
39147125 CACATGCCCATGTCTCTGCCCGTGTGA-CCAATTATGAGCATTCTGTTTCTCAATATTAAGGTAC
1 CACATGCCCATGTCTCTGCCCGTGT-ACCCAATTATGAGCATTCTGTTTCTCAAAATTAAGGTAC
*
39147189 AGGTGACACACGACCTAAC
65 AGGGGACACACGACCTAAC
39147208 CACATGCCCATGT
1 CACATGCCCATGT
39147221 TACTAGGCCG
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
82 36 0.43
83 48 0.57
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (83 bp):
CACATGCCCATGTCTCTGCCCGTGTACCCAATTATGAGCATTCTGTTTCTCAAAATTAAGGTACA
GGGGACACACGACCTAAC
Found at i:39158754 original size:45 final size:45
Alignment explanation
Indices: 39158704--39158789 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
39158694 AAACTTGTGT
*
39158704 CACATACATCATGAACTCAGACCATAACTCAATGAGTTCAGATGC
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGC
*
39158749 CACATATATCATGAACTCAGACCACAACTCAATGAGTTCAG
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAG
39158790 CTCACATAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.22
Consensus pattern (45 bp):
CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGC
Found at i:39158789 original size:21 final size:21
Alignment explanation
Indices: 39158720--39158789 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
39158710 CATCATGAAC
*
39158720 TCAGACCATAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* **
39158741 TCAGATGCCACATATATC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
39158765 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
39158786 TCAG
1 TCAG
39158790 CTCACATAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
20 2 0.05
21 14 0.38
22 5 0.14
23 4 0.11
24 10 0.27
25 2 0.05
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:39159829 original size:9 final size:8
Alignment explanation
Indices: 39159802--39159834 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
39159792 AGAGTTTTCC
39159802 TATTCTTT
1 TATTCTTT
39159810 TATTCTTT
1 TATTCTTT
39159818 TATTCTTTT
1 TATTC-TTT
39159827 TATTCTTT
1 TATTCTTT
39159835 CAAAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTCTTT
Found at i:39159829 original size:17 final size:16
Alignment explanation
Indices: 39159802--39159834 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
39159792 AGAGTTTTCC
39159802 TATTCTTTTATTCTTT
1 TATTCTTTTATTCTTT
39159818 TATTCTTTTTATTCTTT
1 TATTC-TTTTATTCTTT
39159835 CAAAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (16 bp):
TATTCTTTTATTCTTT
Found at i:39162597 original size:40 final size:40
Alignment explanation
Indices: 39162568--39162750 Score: 316
Period size: 40 Copynumber: 4.6 Consensus size: 40
39162558 GCTACTGGCT
* *
39162568 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGT-AGTTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCA-CTAGCA
39162608 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
39162648 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
39162688 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
39162728 CAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
39162751 CGTTATCATC
Statistics
Matches: 139, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
40 136 0.98
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
Found at i:39174903 original size:47 final size:47
Alignment explanation
Indices: 39174845--39175380 Score: 883
Period size: 47 Copynumber: 11.4 Consensus size: 47
39174835 CAGCCAAGAC
39174845 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
39174892 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
39174939 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
39174986 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * *
39175033 AGTGTATATGTGTGAGAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
39175080 AGTGTATATGTGTGACAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
39175127 AGTGTATATGTGTGACAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
39175174 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
39175221 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
39175268 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * *
39175315 AGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
39175362 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
39175381 TCCCGAAGGG
Statistics
Matches: 468, Mismatches: 21, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 468 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:39175555 original size:37 final size:37
Alignment explanation
Indices: 39175499--39175577 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
39175489 CCGAGCTCTA
* *
39175499 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
39175536 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
39175573 AAGAC
1 AAGAC
39175578 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:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:39178973 original size:40 final size:40
Alignment explanation
Indices: 39178918--39178998 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
39178908 TACTGTAGTA
*
39178918 AATTAAAAGAAGCTCTGGGTACTCGATTGCATTTTAGCAC
1 AATTAAAAGAAGCTCTGGGTACTCGATTGCATTTCAGCAC
* *
39178958 AATTACAAGAAGCTCTGGGTACTCGATTGTATTTCAGCAC
1 AATTAAAAGAAGCTCTGGGTACTCGATTGCATTTCAGCAC
39178998 A
1 A
39178999 GCGTTTCATC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (40 bp):
AATTAAAAGAAGCTCTGGGTACTCGATTGCATTTCAGCAC
Found at i:39185284 original size:23 final size:23
Alignment explanation
Indices: 39185251--39185305 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
39185241 TTTGACGTAT
*
39185251 TAAAACAAAAAATCTTACTGAAA
1 TAAAACAAAAAATCTTAATGAAA
*
39185274 TAAAACCAAAAATCTTAATGAAA
1 TAAAACAAAAAATCTTAATGAAA
39185297 TAAATACAA
1 TAAA-ACAA
39185306 CAATTCAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 25 0.89
24 3 0.11
ACGTcount: A:0.62, C:0.13, G:0.04, T:0.22
Consensus pattern (23 bp):
TAAAACAAAAAATCTTAATGAAA
Done.