Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 153 of 226
Found at i:49856360 original size:13 final size:13
Alignment explanation
Indices: 49856336--49856378 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
49856326 CCTTAGCCCC
49856336 TCTTTT-TTCTTT
1 TCTTTTCTTCTTT
49856348 T-TTATTCTTCTTT
1 TCTT-TTCTTCTTT
49856361 TCTTTTCTT-TTT
1 TCTTTTCTTCTTT
49856373 TCTTTT
1 TCTTTT
49856379 GGTTTCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 2 0.07
12 12 0.43
13 12 0.43
14 2 0.07
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (13 bp):
TCTTTTCTTCTTT
Found at i:49856375 original size:17 final size:17
Alignment explanation
Indices: 49856340--49856390 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
49856330 AGCCCCTCTT
49856340 TTTTCTTTT-TTATTCTTC
1 TTTTCTTTTCTT-TT-TTC
49856358 TTTTCTTTTCTTTTTTC
1 TTTTCTTTTCTTTTTTC
**
49856375 TTTTGGTTTCTTTTTT
1 TTTTCTTTTCTTTTTT
49856391 TTCCAGTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 17 0.57
18 11 0.37
19 2 0.07
ACGTcount: A:0.02, C:0.14, G:0.04, T:0.80
Consensus pattern (17 bp):
TTTTCTTTTCTTTTTTC
Found at i:49859823 original size:107 final size:107
Alignment explanation
Indices: 49859618--49860135 Score: 702
Period size: 107 Copynumber: 4.9 Consensus size: 107
49859608 TGGATTGAGA
* * * * *
49859618 TTTAAGAGGATA--TTAGGCTATTTGGTTC-AACGAGAAATCGAAACCCAGCACGTCAGGGCACG
1 TTTAAAAGGATATTTTA-GCTATTTGG-TCGAACGAAAAATCAAAACCCAGCACGTTAGGGCACA
* * * *
49859680 TTTTCTCGAATTTTCAAACGCAAAATATCGCTTTATTTTGAAAT
64 TTTTCTCGAATTTCCAAATGCAAAATATTGCCTTATTTTGAAAT
49859724 TTTAAAAGGATATTTTAGCTATTTGGTCGAACGAAAAATCAAAACCCAGCACGTTAGGGCACATT
1 TTTAAAAGGATATTTTAGCTATTTGGTCGAACGAAAAATCAAAACCCAGCACGTTAGGGCACATT
49859789 TTCTCGAATTTCCAAATGCAAAATATTGCCTTATTTTGAAAT
66 TTCTCGAATTTCCAAATGCAAAATATTGCCTTATTTTGAAAT
** * *
49859831 TTTAAAAATATATTTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGGGCACGTT
1 TTTAAAAGGATATTTTAGCTATTTGGTCGAACGAAAAATCAAAACCCAGCACGTTAGGGCACATT
* * ** *
49859896 TTCTTGAATTTCCAAACGTGAAATATTGCCTTAGTTTGAAAT
66 TTCTCGAATTTCCAAATGCAAAATATTGCCTTATTTTGAAAT
* **
49859938 TTTAAAAGGATATTTTAACTATTTGGTCGAATAAAAAATCAAAACCCAGCACGTTAGGGCACATT
1 TTTAAAAGGATATTTTAGCTATTTGGTCGAACGAAAAATCAAAACCCAGCACGTTAGGGCACATT
*
49860003 TTCTCGAATTTCCAAATGTAAAATATTGCCTTATTTTGAAAT
66 TTCTCGAATTTCCAAATGCAAAATATTGCCTTATTTTGAAAT
* * * * **
49860045 TTTAAAAGGATATTTTAGCTATTTGGTCAAACGAGAAATCAAAACCCAGTAAGTTAGGGTGCGAT
1 TTTAAAAGGATATTTTAGCTATTTGGTCGAACGAAAAATCAAAACCCAGCACGTTAGGGCAC-AT
* * *
49860110 TTT-TCGAATATCGAAATACAAAATAT
65 TTTCTCGAATTTCCAAATGCAAAATAT
49860136 ATTGAATAAA
Statistics
Matches: 366, Mismatches: 42, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
106 13 0.04
107 345 0.94
108 8 0.02
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (107 bp):
TTTAAAAGGATATTTTAGCTATTTGGTCGAACGAAAAATCAAAACCCAGCACGTTAGGGCACATT
TTCTCGAATTTCCAAATGCAAAATATTGCCTTATTTTGAAAT
Found at i:49860523 original size:26 final size:26
Alignment explanation
Indices: 49860489--49860541 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
49860479 TTAAAAAATG
* * **
49860489 TGTACGTATGTATATATATGACAAAA
1 TGTAAGTATGTACATATACAACAAAA
49860515 TGTAAGTATGTACATATACAACAAAA
1 TGTAAGTATGTACATATACAACAAAA
49860541 T
1 T
49860542 TTGAAACTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.32
Consensus pattern (26 bp):
TGTAAGTATGTACATATACAACAAAA
Found at i:49863058 original size:20 final size:20
Alignment explanation
Indices: 49863035--49863083 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
49863025 TTGTTTAAGT
* *
49863035 TTAATATATTTTTAATTTTA
1 TTAATATATTTTCAATATTA
49863055 TTAATACTA-TTTCAATATTA
1 TTAATA-TATTTTCAATATTA
49863075 -TAATATATT
1 TTAATATATT
49863084 ATTATTGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 2 0.08
19 6 0.24
20 15 0.60
21 2 0.08
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (20 bp):
TTAATATATTTTCAATATTA
Found at i:49863439 original size:28 final size:28
Alignment explanation
Indices: 49863407--49863488 Score: 73
Period size: 28 Copynumber: 2.9 Consensus size: 28
49863397 ATTTTATCCC
49863407 TTTCAAATATTTTCACATTTTTAATTTA
1 TTTCAAATATTTTCACATTTTTAATTTA
* *
49863435 TTTCAACT-TATTTCA-ATATTGTTACTTTA
1 TTTCAAATAT-TTTCACAT-TT-TTAATTTA
*
49863464 TTT-AAATTATTTTAACA-TTTTAATT
1 TTTCAAA-TATTTTCACATTTTTAATT
49863489 CATATATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
27 8 0.19
28 18 0.42
29 15 0.35
30 2 0.05
ACGTcount: A:0.32, C:0.10, G:0.01, T:0.57
Consensus pattern (28 bp):
TTTCAAATATTTTCACATTTTTAATTTA
Found at i:49870600 original size:44 final size:44
Alignment explanation
Indices: 49870537--49870630 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
49870527 TAGATCGCAT
*
49870537 CAGATTGAAGCCAGAAATCTTATCTCCCTAAGATTACAGCGGAG
1 CAGATTGAAGCCAGAAATCTTATCTCCCTAAGATTAAAGCGGAG
* * * * *
49870581 CAGATTGAAGCTAGTAATCTTGTCTCCCTGAGATTAAAGTGGAG
1 CAGATTGAAGCCAGAAATCTTATCTCCCTAAGATTAAAGCGGAG
*
49870625 CGGATT
1 CAGATT
49870631 AAAATAAAGG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTAAGATTAAAGCGGAG
Found at i:49870665 original size:142 final size:142
Alignment explanation
Indices: 49870409--49870681 Score: 467
Period size: 142 Copynumber: 1.9 Consensus size: 142
49870399 CGAAGACGGC
* *
49870409 AAATCTTATCTCTCTAATGTTACAGCGGAGCAGATTGAAGCTAGTATTCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTAATGTTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
**
49870474 ATTGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAATAGATCGCATCA
66 AAAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAATAGATCGCATCA
49870539 GATTGAAGCCAG
131 GATTGAAGCCAG
* *
49870551 AAATCTTATCTCCCTAA-GATTACAGCGGAGCAGATTGAAGCTAGTAATCTTGTCTCCCTGAGAT
1 AAATCTTATCTCCCTAATG-TTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAT
*
49870615 TAAAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
65 TAAAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAATAGATCGCATC
49870680 AG
130 AG
49870682 GTTTTATCTC
Statistics
Matches: 123, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
141 1 0.01
142 122 0.99
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (142 bp):
AAATCTTATCTCCCTAATGTTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
AAAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAATAGATCGCATCA
GATTGAAGCCAG
Found at i:49870816 original size:50 final size:50
Alignment explanation
Indices: 49870757--49871530 Score: 378
Period size: 50 Copynumber: 15.6 Consensus size: 50
49870747 GTAGTGGAAC
* *
49870757 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* ** * * * **
49870807 AGATTAAAGCCACAGCGGCAAATCTTACTT-CTCTAGCGA-TGCAGTGGAGCA
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCCCGA-C-ATTGCAGT-TAAAA
* * * *
49870858 A-ATTAAAGCTACATCGGTGAATCTCACTTCTCCGACATTGC--------
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * ** * ** *
49870899 AGATTAAAGCCACAGCGGCGAATCCTACTTCCTTGGCGA-TGTC-GTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCCCGAC-ATTG-CAGTTAAAA
*
49870949 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * * * ** *
49870999 GGATTAAAGCTACAACAGCGAATCTTACCT-CCCAAGCAATGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCCCGA-CATTGCAGTTAAAA
* * **
49871049 AGATTAAAGCCACAACGGTGAATCTTGCCTCCATGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * * * * * **
49871099 AGACTAAAGCTACAACGGCGAGTGTTACTTCCCTGGCAATGCAGTGAAGC
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* *
49871149 AGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * *** * * * * * **
49871199 AGATCAAAGTCACAATGACAAATCTCACTCTCTCAGCCAGTGCAG-TAGAGC
1 AGATTAAAGCCACAACGGTGAATCTTACT-TCCCCGACATTGCAGTTA-AAA
* * * *
49871250 AGATTAAAGCCACAACGGTGAATCTTGCCTT-TCCGACATTACAGCTAAAA
1 AGATTAAAGCCACAACGGTGAATCTT-ACTTCCCCGACATTGCAGTTAAAA
* * ** * * ** **
49871300 GGATTAAAGTCACAACGACGAATCTTACCTCCCAGGA-GGTGCAG-TGGAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCC-CGACATTGCAGTTAAAA
* ** ** * * *
49871349 CGAATTAAAGCCACAATAGTGAATCTGGCCTCCCTGACATTGCGGTTAAAA
1 AG-ATTAAAGCCACAACGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* *** ** * * * **
49871400 AGATTAAAGCTACAGTAGTGAATCTTACATTCCAAGGCAGTGCAGTGAAGC
1 AGATTAAAGCCACAACGGTGAATCTTAC-TTCCCCGACATTGCAGTTAAAA
* * * *
49871451 AGATTAAAGCCACAACGATGAATCTTGCTTCCCCGATATTTCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * *
49871501 AGATTAAAGCCACGATGGCGAATCTTACTT
1 AGATTAAAGCCACAACGGTGAATCTTACTT
49871531 TCCAAAAGTT
Statistics
Matches: 520, Mismatches: 175, Indels: 58
0.69 0.23 0.08
Matches are distributed among these distances:
41 1 0.00
42 28 0.05
43 2 0.00
49 18 0.03
50 387 0.74
51 82 0.16
52 2 0.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (50 bp):
AGATTAAAGCCACAACGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
Found at i:49870968 original size:92 final size:92
Alignment explanation
Indices: 49870807--49870997 Score: 253
Period size: 92 Copynumber: 2.1 Consensus size: 92
49870797 GCAGTTAAAA
* * * *
49870807 AGATTAAAGCCACAGCGGCAAATCTTACTTCTCTAGCGATGCAGTGGAGCAAATTAAAGCTACAT
1 AGATTAAAGCCACAGCGGCAAATCCTACTTCTCTAGCGATGCAGTGGAACAAATTAAAGCCACAA
*
49870872 CGGTGAATCTCACTTCTCCGACATTGC
66 CGGTGAATCTCACTTCCCCGACATTGC
* * *
49870899 AGATTAAAGCCACAGCGGCGAATCCTACTTC-CTTGGCGATGTC-GTGGAACAGATTAAAGCCAC
1 AGATTAAAGCCACAGCGGCAAATCCTACTTCTC-TAGCGATG-CAGTGGAACAAATTAAAGCCAC
**
49870962 AACGGTGAATCTTGCTTCCCCGACATTGC
64 AACGGTGAATCTCACTTCCCCGACATTGC
49870991 AG-TTAAA
1 AGATTAAA
49870998 AGGATTAAAG
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
91 6 0.07
92 80 0.92
93 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (92 bp):
AGATTAAAGCCACAGCGGCAAATCCTACTTCTCTAGCGATGCAGTGGAACAAATTAAAGCCACAA
CGGTGAATCTCACTTCCCCGACATTGC
Found at i:49871073 original size:100 final size:99
Alignment explanation
Indices: 49870942--49871528 Score: 596
Period size: 100 Copynumber: 5.9 Consensus size: 99
49870932 TGGCGATGTC
*
49870942 GTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAGGATTAAA
1 GTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAA
*
49871007 GCTACAACAGCGAATCTTACCTCCCAAGCAATGCA
66 GCTACAACAGCGAATCTTACCTCCC-AGCAGTGCA
* ** *
49871042 GTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCATGACATTGCAGTTAAAAAGACTAAA
1 GTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAA
* * * * * *
49871107 GCTACAACGGCGAGTGTTACTTCCCTGGCAATGCA
66 GCTACAACAGCGAATCTTACCTCCC-AGCAGTGCA
* *
49871142 GT-GAAGCAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGATCAA
1 GTGGAA-CAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
* * * *
49871206 AG-TCACAA-TGACAAATCTCACTCTCTCAGCCAGTGCA
65 AGCT-ACAACAG-CGAATCTTAC-CTCCCAG-CAGTGCA
* * * * * *
49871243 GTAGAGCAGATTAAAGCCACAACGGTGAATCTTGCCTT-TCCGACATTACAGCTAAAAGGATTAA
1 GTGGAACAGATTAAAGCCACAACGGTGAATCTTG-CTTCCCCGACATTGCAGTTAAAAAGATTAA
*
49871307 AG-TCACAAC-GACGAATCTTACCTCCCAGGAGGTGCA
65 AGCT-ACAACAG-CGAATCTTACCTCCCAGCA-GTGCA
** * * * *
49871343 GTGGAAC-GAATTAAAGCCACAATAGTGAATCTGGCCTCCCTGACATTGCGGTTAAAAAGATTAA
1 GTGGAACAG-ATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
** * * *
49871407 AGCTACAGTAGTGAATCTTACATTCCAAGGCAGTGCA
65 AGCTACAACAGCGAATCTTAC-CTCCCA-GCAGTGCA
* * *
49871444 GT-GAAGCAGATTAAAGCCACAACGATGAATCTTGCTTCCCCGATATTTCAGTTAAAAAGATTAA
1 GTGGAA-CAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
* * **
49871508 AGCCACGATGGCGAATCTTAC
65 AGCTACAACAGCGAATCTTAC
49871529 TTTCCAAAAG
Statistics
Matches: 402, Mismatches: 68, Indels: 33
0.80 0.14 0.07
Matches are distributed among these distances:
99 9 0.02
100 231 0.57
101 154 0.38
102 8 0.02
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.22
Consensus pattern (99 bp):
GTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAA
GCTACAACAGCGAATCTTACCTCCCAGCAGTGCA
Found at i:49871363 original size:201 final size:202
Alignment explanation
Indices: 49870744--49871530 Score: 798
Period size: 201 Copynumber: 4.0 Consensus size: 202
49870734 TCTCCCAAGT
* *
49870744 GATGTAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
1 GATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
* ** * * * * *
49870809 ATTAAAGCCACAGCG-GCAAATCTTACTTCTCTAGCGA-TGCAGTGGAGCAAATTAAAGCTACAT
66 ATTAAAGCTACAATGAGCAAATCTTACTTCTCAAGCCAGTGCAGTGGAGCAGATTAAAGCCACAA
* *
49870872 CGGTGAATC-T-CACTTCTCCGACATT--GC-----AGATTAAAGCCACAGCGGCGAATCCTACT
131 CGGTGAATCTTGC-CTTCTCCGACATTCAGCTAAAAAGATTAAAGCCACAACGGCGAATCTTACT
* *
49870928 TCCTTGGC
195 TCCCTGGA
*
49870936 GATGTC-GTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAG
1 GATG-CAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAA
* * * * * *
49871000 GATTAAAGCTACAA-CAGCGAATCTTACCTCCCAAG-CAATGCAGTGGAACAGATTAAAGCCACA
65 GATTAAAGCTACAATGAGCAAATCTTACTTCTCAAGCCAGTGCAGTGGAGCAGATTAAAGCCACA
* * * * * *
49871063 ACGGTGAATCTTGCC-TC-CATGACATTGCAGTTAAAAAGACTAAAGCTACAACGGCGAGTGTTA
130 ACGGTGAATCTTGCCTTCTC-CGACATT-CAGCTAAAAAGATTAAAGCCACAACGGCGAATCTTA
49871126 CTTCCCTGGCA
193 CTTCCCTGG-A
*
49871137 -ATGCAGT-GAAGCAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAA
1 GATGCAGTGGAA-CAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAA
* * *
49871200 GATCAAAG-TCACAATGA-CAAATCTCACTCTCTC-AGCCAGTGCAGTAGAGCAGATTAAAGCCA
65 GATTAAAGCT-ACAATGAGCAAATCTTACT-TCTCAAGCCAGTGCAGTGGAGCAGATTAAAGCCA
* * *
49871262 CAACGGTGAATCTTGCCTT-TCCGACATTACAGCTAAAAGGATTAAAGTCACAACGACGAATCTT
128 CAACGGTGAATCTTGCCTTCTCCGACATT-CAGCTAAAAAGATTAAAGCCACAACGGCGAATCTT
* *
49871326 ACCTCCCAGGA
192 ACTTCCCTGGA
* ** * * * *
49871337 GGTGCAGTGGAAC-GAATTAAAGCCACAATAGTGAATCTGGCCTCCCTGACATTGCGGTTAAAAA
1 GATGCAGTGGAACAG-ATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAA
* ** * *
49871401 GATTAAAGCTACAGT-AGTGAATCTTACATTC-CAAGGCAGTGCAGTGAAGCAGATTAAAGCCAC
65 GATTAAAGCTACAATGAGCAAATCTTAC-TTCTCAAGCCAGTGCAGTGGAGCAGATTAAAGCCAC
* * * * * *
49871464 AACGATGAATCTTG-CTTCCCCGATATTTCAGTTAAAAAGATTAAAGCCACGATGGCGAATCTTA
129 AACGGTGAATCTTGCCTTCTCCGACA-TTCAGCTAAAAAGATTAAAGCCACAACGGCGAATCTTA
49871528 CTT
193 CTT
49871531 TCCAAAAGTT
Statistics
Matches: 489, Mismatches: 74, Indels: 55
0.79 0.12 0.09
Matches are distributed among these distances:
191 2 0.00
192 126 0.26
193 2 0.00
194 1 0.00
195 1 0.00
199 5 0.01
200 112 0.23
201 231 0.47
202 9 0.02
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (202 bp):
GATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
ATTAAAGCTACAATGAGCAAATCTTACTTCTCAAGCCAGTGCAGTGGAGCAGATTAAAGCCACAA
CGGTGAATCTTGCCTTCTCCGACATTCAGCTAAAAAGATTAAAGCCACAACGGCGAATCTTACTT
CCCTGGA
Found at i:49873061 original size:19 final size:19
Alignment explanation
Indices: 49873037--49873084 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
49873027 TTGTTTAAGT
* *
49873037 TTAATATATTTTAATTTTA
1 TTAATATATTTCAATATTA
49873056 TTAATACTATTTCAATATTA
1 TTAATA-TATTTCAATATTA
49873076 -TAATATATT
1 TTAATATATT
49873085 ATTATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 11 0.42
20 11 0.42
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAATATATTTCAATATTA
Found at i:49874831 original size:16 final size:16
Alignment explanation
Indices: 49874810--49874840 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49874800 ATTTATAAAT
*
49874810 TATTGAAAACCATGTA
1 TATTGAAAACAATGTA
49874826 TATTGAAAACAATGT
1 TATTGAAAACAATGT
49874841 CCATGTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (16 bp):
TATTGAAAACAATGTA
Found at i:49876905 original size:22 final size:20
Alignment explanation
Indices: 49876880--49876922 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
49876870 TTCTAACTTA
49876880 TAATATATTTAATTACATTTAG
1 TAATATATTT--TTACATTTAG
*
49876902 TAATTTATTTTTACATTTAG
1 TAATATATTTTTACATTTAG
49876922 T
1 T
49876923 TATAACTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
22 9 0.45
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (20 bp):
TAATATATTTTTACATTTAG
Found at i:49881470 original size:9 final size:9
Alignment explanation
Indices: 49881456--49881486 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
49881446 GTTAAACGAA
49881456 TCGAGTTAT
1 TCGAGTTAT
*
49881465 TCGAGTTAA
1 TCGAGTTAT
49881474 TCGAGTTAT
1 TCGAGTTAT
49881483 TCGA
1 TCGA
49881487 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:49881557 original size:9 final size:9
Alignment explanation
Indices: 49881540--49881576 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
49881530 TGAGTTTTCA
49881540 AATTCGAAT
1 AATTCGAAT
*
49881549 AACTCGAAT
1 AATTCGAAT
49881558 AATTCGAAT
1 AATTCGAAT
49881567 AATTCGAAT
1 AATTCGAAT
49881576 A
1 A
49881577 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:49881844 original size:30 final size:31
Alignment explanation
Indices: 49881790--49881849 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
49881780 AAACCTTTTA
*
49881790 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* **
49881820 TTTTCCCCTAAAACTTTTGTTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
49881850 TCCCACCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.18, C:0.40, G:0.02, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:49882614 original size:5 final size:5
Alignment explanation
Indices: 49882604--49882629 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
49882594 CTCGAAAATT
49882604 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
49882630 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:49885422 original size:9 final size:9
Alignment explanation
Indices: 49885410--49885443 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
49885400 ATTTAACCCA
49885410 TTTAAAATT
1 TTTAAAATT
*
49885419 TTTAAGATT
1 TTTAAAATT
49885428 TTTAAAA-T
1 TTTAAAATT
49885436 TTTAAAAT
1 TTTAAAAT
49885444 GATAAAGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (9 bp):
TTTAAAATT
Found at i:49889215 original size:56 final size:56
Alignment explanation
Indices: 49889154--49889283 Score: 199
Period size: 56 Copynumber: 2.3 Consensus size: 56
49889144 TTATTAAAAT
**
49889154 ATTTTTTTATAAAAATT-GATTCTACCACATTATACAATTTTAATATCAAATTTTTA
1 ATTTTTTTA-AAAAATTAGAGACTACCACATTATACAATTTTAATATCAAATTTTTA
* *
49889210 ATTTTTTTAAAATATTAGCGACTACCACATTATACAATTTTAATATCAAATTTTTA
1 ATTTTTTTAAAAAATTAGAGACTACCACATTATACAATTTTAATATCAAATTTTTA
*
49889266 ATTTTTTTAAAATATTAG
1 ATTTTTTTAAAAAATTAG
49889284 CGAATATATA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
55 6 0.09
56 63 0.91
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (56 bp):
ATTTTTTTAAAAAATTAGAGACTACCACATTATACAATTTTAATATCAAATTTTTA
Found at i:49889284 original size:56 final size:56
Alignment explanation
Indices: 49889175--49889286 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
49889165 AAAATTGATT
49889175 CTACCACATTATACAATTTTAATATCAAATTTTTAATTTTTTTAAAATATTAGCGA
1 CTACCACATTATACAATTTTAATATCAAATTTTTAATTTTTTTAAAATATTAGCGA
49889231 CTACCACATTATACAATTTTAATATCAAATTTTTAATTTTTTTAAAATATTAGCGA
1 CTACCACATTATACAATTTTAATATCAAATTTTTAATTTTTTTAAAATATTAGCGA
49889287 ATATATACTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (56 bp):
CTACCACATTATACAATTTTAATATCAAATTTTTAATTTTTTTAAAATATTAGCGA
Found at i:49890835 original size:13 final size:13
Alignment explanation
Indices: 49890817--49890849 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
49890807 TAGTGATATA
49890817 TTTTAATTA-TAT
1 TTTTAATTATTAT
49890829 TTATTAATTATTAT
1 TT-TTAATTATTAT
49890843 TTTTAAT
1 TTTTAAT
49890850 AATGTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 12 0.63
14 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTAATTATTAT
Found at i:49891414 original size:27 final size:26
Alignment explanation
Indices: 49891385--49891435 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
49891375 TTTAAGCATT
49891385 TTTTTTAGTAAAGCCCTTCAAGCTTA
1 TTTTTTAGTAAAGCCCTTCAAGCTTA
49891411 TTTTTTAGTAAAGCCCTTCAAGCTT
1 TTTTTTAGTAAAGCCCTTCAAGCTT
49891436 GGGAAGATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.43
Consensus pattern (26 bp):
TTTTTTAGTAAAGCCCTTCAAGCTTA
Found at i:49910305 original size:25 final size:25
Alignment explanation
Indices: 49910241--49910307 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
49910231 TATTTTAAAA
*
49910241 TTATATACACCTTTCTTCACCTTTT
1 TTATATACACCTTTTTTCACCTTTT
*
49910266 TTATATAAACCTTTTTTCACCTTTT
1 TTATATACACCTTTTTTCACCTTTT
*
49910291 TTATGTACACCTTTTTT
1 TTATATACACCTTTTTT
49910308 ATATTTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.21, C:0.22, G:0.01, T:0.55
Consensus pattern (25 bp):
TTATATACACCTTTTTTCACCTTTT
Found at i:49914259 original size:13 final size:13
Alignment explanation
Indices: 49914243--49914268 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49914233 CATTTTAATG
49914243 TTTTATTTTTATT
1 TTTTATTTTTATT
49914256 TTTTATTTTTATT
1 TTTTATTTTTATT
49914269 CTAACTTTTT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:49914941 original size:3 final size:3
Alignment explanation
Indices: 49914935--49915019 Score: 91
Period size: 3 Copynumber: 28.7 Consensus size: 3
49914925 TTTTTTTAGT
* * * * * *
49914935 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTG TTG TTG TTG TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
49914983 GTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
49915020 TTTGTTTATA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
2 2 0.03
3 73 0.97
ACGTcount: A:0.25, C:0.01, G:0.08, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:49923111 original size:3 final size:3
Alignment explanation
Indices: 49923094--49923183 Score: 85
Period size: 3 Copynumber: 29.3 Consensus size: 3
49923084 TTTAGCAATT
*
49923094 TTA TTA TTTA GTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCT- TAA
1 TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* ** *
49923141 CTA TTA TTA TTA TTA -TA TTTA TTA ACA TTA TTG TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA T
49923184 GTCTTTTTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
2 2 0.03
3 60 0.85
4 9 0.13
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:49923145 original size:27 final size:26
Alignment explanation
Indices: 49923094--49923183 Score: 98
Period size: 24 Copynumber: 3.5 Consensus size: 26
49923084 TTTAGCAATT
*
49923094 TTATTATTTAGTTA-TTATT-ATTATTA
1 TTATTA-TTA-TTATTTATTAACTATTA
*
49923120 TTATTATTATTATTATCTTAACTATTA
1 TTATTATTATTATT-TATTAACTATTA
49923147 TTATTATTA-TATTTATTAAC-ATTA
1 TTATTATTATTATTTATTAACTATTA
*
49923171 TTGTTATTATTAT
1 TTATTATTATTAT
49923184 GTCTTTTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
24 15 0.27
25 13 0.23
26 13 0.23
27 15 0.27
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (26 bp):
TTATTATTATTATTTATTAACTATTA
Found at i:49923391 original size:10 final size:10
Alignment explanation
Indices: 49923370--49923403 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
49923360 ATGTATATTA
49923370 TTTA-TATAT
1 TTTATTATAT
*
49923379 TTTATTTTAT
1 TTTATTATAT
49923389 TTTATTATAT
1 TTTATTATAT
49923399 TTTAT
1 TTTAT
49923404 AATCCATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTATTATAT
Found at i:49935980 original size:129 final size:129
Alignment explanation
Indices: 49935747--49936809 Score: 1874
Period size: 129 Copynumber: 8.2 Consensus size: 129
49935737 GAATTTCAAA
*
49935747 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
**
49935812 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
66 GTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
* *
49935876 TCCTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTTCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
* *
49935941 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCATATCAGG
66 GTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
*
49936005 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATTTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
*
49936070 GTGGAACAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
66 GTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
*
49936134 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAATACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
* * * *
49936199 GTAGAGCAGATTAAAATAAAGGATCTTATCTGTCTGAAGTTACAGTACAGTAGATCGTATCAAG
66 GTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
*
49936263 TCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
*
49936328 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
66 GTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
* *
49936392 TCTTATTTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATTTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
*
49936457 GTGGAACAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
66 GTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
49936521 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
* * *
49936586 GTAGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAATTTACAGTAGAGTAGATCGTATCAAG
66 GTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
* *
49936650 TCTTATCTCTCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
* *
49936715 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 GTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
* *
49936779 TCTTATCTCCCTGAGATTACAGTGGAACAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGA
49936810 CCGAGGAATT
Statistics
Matches: 887, Mismatches: 47, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 887 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (129 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
GTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
Found at i:49938270 original size:3 final size:3
Alignment explanation
Indices: 49938253--49938330 Score: 61
Period size: 3 Copynumber: 25.3 Consensus size: 3
49938243 TTTAGCAATT
* *
49938253 TTA TTA TTTA GTTA TTA TTA TTA TTA TTA TCT- TAA CTA TTA TTA TTA
1 TTA TTA -TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
** *
49938300 TTA -TA TTTA TTA ACA TTA TTG TTA TTA TTA T
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA T
49938331 GCCCTTTTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
2 2 0.03
3 48 0.81
4 9 0.15
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:49938302 original size:27 final size:25
Alignment explanation
Indices: 49938264--49938330 Score: 91
Period size: 24 Copynumber: 2.6 Consensus size: 25
49938254 TATTATTTAG
*
49938264 TTATTATTATTATTATTATCTTAACTA
1 TTATTATTATTATTATT-TATTAAC-A
49938291 TTATTATTATTA-TATTTATTAACA
1 TTATTATTATTATTATTTATTAACA
*
49938315 TTATTGTTATTATTAT
1 TTATTATTATTATTAT
49938331 GCCCTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 12 0.32
25 9 0.24
26 4 0.11
27 12 0.32
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (25 bp):
TTATTATTATTATTATTTATTAACA
Found at i:49941018 original size:22 final size:22
Alignment explanation
Indices: 49940979--49941020 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
49940969 AAGAAGAATT
*
49940979 AGAATTAAATTATAAATTTTTG
1 AGAATTAAAATATAAATTTTTG
49941001 AGAAGTTAAAATAT-AATTTT
1 AGAA-TTAAAATATAAATTTT
49941021 ATCATGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (22 bp):
AGAATTAAAATATAAATTTTTG
Found at i:49942344 original size:19 final size:18
Alignment explanation
Indices: 49942300--49942344 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
49942290 TAAAAACATT
49942300 TTTTAAAATTTTAAATAC
1 TTTTAAAATTTTAAATAC
49942318 TTTATAAAATATTTAAAATA-
1 TTT-TAAAAT-TTT-AAATAC
49942338 TTTTAAA
1 TTTTAAA
49942345 TTATATCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.12
19 10 0.42
20 6 0.25
21 5 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTAAAATTTTAAATAC
Found at i:49943353 original size:28 final size:28
Alignment explanation
Indices: 49943301--49943354 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
49943291 CTCACCATTC
* *
49943301 TTTCTTTTGTTTTTCTTTATGCTTTCTT
1 TTTCTTTTCTTTTTCTTTATCCTTTCTT
49943329 TTTCTTTTCTTTTTCTGTTA-CCTTTC
1 TTTCTTTTCTTTTTCT-TTATCCTTTC
49943355 AAATCACGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.04, C:0.19, G:0.06, T:0.72
Consensus pattern (28 bp):
TTTCTTTTCTTTTTCTTTATCCTTTCTT
Found at i:49944121 original size:7 final size:7
Alignment explanation
Indices: 49944109--49944137 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
49944099 TTCTATAAAG
49944109 ATTTTGA
1 ATTTTGA
49944116 ATTTTGA
1 ATTTTGA
49944123 ATTTTGA
1 ATTTTGA
49944130 ATTTTGA
1 ATTTTGA
49944137 A
1 A
49944138 GCAAATTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (7 bp):
ATTTTGA
Found at i:49961649 original size:2 final size:2
Alignment explanation
Indices: 49961644--49961672 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
49961634 TTAGTGTGTG
49961644 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
49961673 TCATTCAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49968652 original size:42 final size:42
Alignment explanation
Indices: 49968593--49968676 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
49968583 AAAAGCTAAC
*
49968593 TTACTATAACGGTTTTTAAACTCAACAATCTTCTCTTCAAAT
1 TTACTATAACAGTTTTTAAACTCAACAATCTTCTCTTCAAAT
*
49968635 TTACTGTAACAGTTTTTAAACTCAACAATCTTCTCTTCAAAT
1 TTACTATAACAGTTTTTAAACTCAACAATCTTCTCTTCAAAT
49968677 CCCTTTCTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.40
Consensus pattern (42 bp):
TTACTATAACAGTTTTTAAACTCAACAATCTTCTCTTCAAAT
Found at i:49977434 original size:113 final size:109
Alignment explanation
Indices: 49977252--49977469 Score: 312
Period size: 113 Copynumber: 2.0 Consensus size: 109
49977242 TCAAATTTAT
* ***
49977252 CTTTTTAAAAGAATTTTAAATCCCTTTACAAAAAAAAAAGAAGTGATTTTTAAGTGATGAATTGT
1 CTTTTTAAAAGAATTTTAAATCCCTTTACAAAAAAAAAAAAAGTGATTTTTAAGTGATGAATCAC
*
49977317 ACTTAACAAAAAAATCAATGGTGACTCCCTTTTAAAAAAAAACC
66 ACTTAACAAAAAAATAAATGGTGACTCCCTTTTAAAAAAAAACC
*
49977361 CTTTTTAAAAGAATTTTAAAATCTCTTTACAAAGGAAAAAAAAAAAGCT-ATTTTTAAGTGATGA
1 CTTTTTAAAAGAATTTT-AAATCCCTTTAC-AA--AAAAAAAAAAAG-TGATTTTTAAGTGATGA
* *
49977425 ATCACACTTAACAAAAATATAAATGGTGACTCCCTTTTAATAAAA
61 ATCACACTTAACAAAAAAATAAATGGTGACTCCCTTTTAAAAAAA
49977470 CCTTCTGTTT
Statistics
Matches: 96, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
109 17 0.18
110 11 0.11
111 2 0.02
113 65 0.68
114 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (109 bp):
CTTTTTAAAAGAATTTTAAATCCCTTTACAAAAAAAAAAAAAGTGATTTTTAAGTGATGAATCAC
ACTTAACAAAAAAATAAATGGTGACTCCCTTTTAAAAAAAAACC
Found at i:49982727 original size:3 final size:3
Alignment explanation
Indices: 49982719--49982784 Score: 66
Period size: 3 Copynumber: 22.0 Consensus size: 3
49982709 AGCTATTATG
* *
49982719 TAA TAA TAA T-A TGA TAA GTAA CAA TAA T-A TAAA TAA TAA TAA TAGA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA T-AA TAA TAA TAA TA-A
49982765 -AA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
49982785 AATTACTGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
2 5 0.09
3 43 0.80
4 6 0.11
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:49982739 original size:18 final size:16
Alignment explanation
Indices: 49982719--49982777 Score: 77
Period size: 15 Copynumber: 3.7 Consensus size: 16
49982709 AGCTATTATG
49982719 TAATAATAATATGATAA
1 TAATAATAATATGA-AA
*
49982736 GTAACAATAATAT-AAA
1 -TAATAATAATATGAAA
49982752 TAATAATAATA-GAAA
1 TAATAATAATATGAAA
49982767 TAATAATAATA
1 TAATAATAATA
49982778 ATAATAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
15 24 0.63
16 2 0.05
17 1 0.03
18 11 0.29
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (16 bp):
TAATAATAATATGAAA
Found at i:49983535 original size:19 final size:19
Alignment explanation
Indices: 49983513--49983549 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
49983503 AAATACTAAT
49983513 GAAACAGAAAAATAAAAGA
1 GAAACAGAAAAATAAAAGA
*
49983532 GAAACAGAGAAATAAAAG
1 GAAACAGAAAAATAAAAG
49983550 TTGAAATCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.70, C:0.05, G:0.19, T:0.05
Consensus pattern (19 bp):
GAAACAGAAAAATAAAAGA
Found at i:49984364 original size:50 final size:50
Alignment explanation
Indices: 49984297--49985032 Score: 729
Period size: 50 Copynumber: 14.7 Consensus size: 50
49984287 TTAGGGGGTG
* * * *
49984297 AGATCTGCTGTTGTAGCTTCAATATTTTTAATTGCAATGTCAGGGAAGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCAGGGAAGTA
* * * *
49984347 AGATCCGCTATTGTAGCTTCAATCTGTTCCACTGCAATG-CTAGGAAAGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTC-AGGGAAGTA
* *
49984397 AGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCAGGGAAGTA
* * * * *
49984447 AGATCCGCTGTTGTAACTTCAATCTGTTCCACTGCAACG-CTAGGAAAGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTC-AGGGAAGTA
* *
49984497 AGATCCGCTGTTGTAGCTTCAATCTTTTGAATTGCAATGTCAGGGAAGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCAGGGAAGTA
* * * * *
49984547 AGATCCGCTGTTATAGCTTCAATCTGTTCCACTGCAACG-CTAGGAAAGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTC-AGGGAAGTA
* * * * *
49984597 AGATTCGCTGTTGTAGCTTCAATCTTTTGAATTACAATGTC-GGGAAAGTG
1 AGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCAGGG-AAGTA
* * ** *
49984647 AGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAA-CACTAGGAAAGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTC-AGGGAAGTA
*
49984697 AGATCCGCTGTTGTAGCTTCAATCTTTTAAACTGCAATGTCAGGGAAGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCAGGGAAGTA
* * ** *
49984747 AGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAA-CACTAGGAAAGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTC-AGGGAAGTA
* * *
49984797 AGATCCGCTATTGTAGCTTCAATCTTTTGAACTGCCATGTCAGGGAAGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCAGGGAAGTA
* *
49984847 AGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAAT-TCTA-GGAAGGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTC-AGGGAA-GTA
* * * * * * * *
49984897 AGATTCGCCGTTGTGGCCTCAATATTTT-AATTGCAATGTCGGGGAAGTG
1 AGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCAGGGAAGTA
** * * ** * *
49984946 AGATTTGCCGTTGTAGCTTCAATCTATTCCGCTGC-ATCGCCTGGGAAGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAAT-GTCAGGGAAGTA
* * * * *
49984996 AGATTC-ATCGTTGTGGCTTCAATCTTTTAAATTGCAA
1 AGATCCGCT-GTTGTAGCTTCAATCTTTTCAACTGCAA
49985033 ACTATGGTTT
Statistics
Matches: 556, Mismatches: 110, Indels: 39
0.79 0.16 0.06
Matches are distributed among these distances:
49 47 0.08
50 501 0.90
51 8 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (50 bp):
AGATCCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCAGGGAAGTA
Found at i:49984430 original size:100 final size:100
Alignment explanation
Indices: 49984297--49985032 Score: 1066
Period size: 100 Copynumber: 7.4 Consensus size: 100
49984287 TTAGGGGGTG
* * * *
49984297 AGATCTGCTGTTGTAGCTTCAATATTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTATTGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTGAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTA
*
49984362 GCTTCAATCTGTTCCACTGCAATGCTAGGAAAGTA
66 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTA
*
49984397 AGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTGAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTA
*
49984462 ACTTCAATCTGTTCCACTGCAACGCTAGGAAAGTA
66 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTA
*
49984497 AGATCCGCTGTTGTAGCTTCAATCTTTTGAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTATA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTGAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTA
49984562 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTA
66 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTA
* * *
49984597 AGATTCGCTGTTGTAGCTTCAATCTTTTGAATTACAATGTC-GGGAAAGTGAGATCCGCTGTTGT
1 AGATCCGCTGTTGTAGCTTCAATCTTTTGAATTGCAATGTCAGGG-AAGTAAGATCCGCTGTTGT
*
49984661 AGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTA
65 AGCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTA
* *
49984697 AGATCCGCTGTTGTAGCTTCAATCTTTTAAACTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTGAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTA
*
49984762 GCTTCAATCTGTTCCACTGCAACACTAGGAAAGTA
66 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTA
* * *
49984797 AGATCCGCTATTGTAGCTTCAATCTTTTGAACTGCCATGTCAGGGAAGTAAGATCCGCTGTTGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTGAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTA
** *
49984862 GCTTCAATCTGTTCCACTGCAATTCTAGGAAGGTA
66 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTA
* * * * * * * ** *
49984897 AGATTCGCCGTTGTGGCCTCAATATTTT-AATTGCAATGTCGGGGAAGTGAGATTTGCCGTTGTA
1 AGATCCGCTGTTGTAGCTTCAATCTTTTGAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTA
* * * *
49984961 GCTTCAATCTATTCCGCTGCATCGCCT-GGGAAGTA
66 GCTTCAATCTGTTCCACTGCAACG-CTAGGAAAGTA
* * * *
49984996 AGATTC-ATCGTTGTGGCTTCAATCTTTTAAATTGCAA
1 AGATCCGCT-GTTGTAGCTTCAATCTTTTGAATTGCAA
49985033 ACTATGGTTT
Statistics
Matches: 583, Mismatches: 48, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
99 80 0.14
100 500 0.86
101 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (100 bp):
AGATCCGCTGTTGTAGCTTCAATCTTTTGAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTA
GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTA
Found at i:49986193 original size:21 final size:21
Alignment explanation
Indices: 49986167--49986213 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
49986157 GGTATAGCAA
*
49986167 GATCACCACATGCCCTAATCT
1 GATCACCACATGCCCCAATCT
** *
49986188 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
49986209 GATCA
1 GATCA
49986214 ATATTTGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.36, G:0.11, T:0.28
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:49987269 original size:46 final size:45
Alignment explanation
Indices: 49987164--49987272 Score: 121
Period size: 45 Copynumber: 2.4 Consensus size: 45
49987154 TGATCCAATG
* * *
49987164 AAGCACGAGCTTAAACTATTCATACGAAATAAATGATGACCTCCT
1 AAGCACGAGCTTAAATTATTCAGACGAAATAAATGATGAACTCCT
* ** * *
49987209 AAGCATGAATTTAAATTGTTTAGAC-ATAATAAATGATGATACTCCT
1 AAGCACGAGCTTAAATTATTCAGACGA-AATAAATGATGA-ACTCCT
49987255 AAGCACGAGCTTAAATTA
1 AAGCACGAGCTTAAATTA
49987273 CAGTCCAAAA
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
44 1 0.02
45 30 0.60
46 19 0.38
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (45 bp):
AAGCACGAGCTTAAATTATTCAGACGAAATAAATGATGAACTCCT
Found at i:49988065 original size:3 final size:3
Alignment explanation
Indices: 49988057--49988088 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
49988047 TTAAAACCAA
49988057 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
49988089 CCAATCACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:49988884 original size:15 final size:13
Alignment explanation
Indices: 49988855--49988895 Score: 64
Period size: 13 Copynumber: 3.0 Consensus size: 13
49988845 CTATAATTAA
49988855 ATTTTCTGTGAAT
1 ATTTTCTGTGAAT
49988868 ATTTTCTGATAGAAT
1 ATTTTCTG-T-GAAT
49988883 ATTTTCTGTGAAT
1 ATTTTCTGTGAAT
49988896 GAGGTTACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 12 0.46
14 2 0.08
15 12 0.46
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (13 bp):
ATTTTCTGTGAAT
Found at i:49989916 original size:15 final size:15
Alignment explanation
Indices: 49989893--49989923 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49989883 TACAACAATG
*
49989893 GTTTGAAGTGAAGAT
1 GTTTCAAGTGAAGAT
49989908 GTTTCAAGTGAAGAT
1 GTTTCAAGTGAAGAT
49989923 G
1 G
49989924 AATACTCTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.32
Consensus pattern (15 bp):
GTTTCAAGTGAAGAT
Found at i:49992191 original size:373 final size:373
Alignment explanation
Indices: 49991506--49992258 Score: 1416
Period size: 373 Copynumber: 2.0 Consensus size: 373
49991496 AATTAAAACC
49991506 GATGATATTGTCTTAATTGACTCGGTCAAGTCCATTAGATGGATAAAATCAATTTTAAAATCAGT
1 GATGATATTGTCTTAATTGACTCGGTCAAGTCCATTAGATGGATAAAATCAATTTTAAAATCAGT
*
49991571 TATAATGGATTAAGGTAACTAATTATCGAGTCATGAAATCCATAATCAAATCAATTGATTTTGTT
66 TATAATGGATTAAGGTAACTAATTATCGAGTAATGAAATCCATAATCAAATCAATTGATTTTGTT
49991636 AGAAACTAAAAGAAAATGGGATAAGCTGAAAACTGATTGCCCTTCATTAAAATTAAGGAATTCAC
131 AGAAACTAAAAGAAAATGGGATAAGCTGAAAACTGATTGCCCTTCATTAAAATTAAGGAATTCAC
49991701 CTTTTACATGTTAGATAATATGAACAACCCATATATAATAAGAAAAATTACTTACGATTATTTAT
196 CTTTTACATGTTAGATAATATGAACAACCCATATATAATAAGAAAAATTACTTACGATTATTTAT
49991766 TATCATAAATGGTTAGTTTAAATTTAAAGTAATCTAATATATGTATTGAACTTTAACTATTACAT
261 TATCATAAATGGTTAGTTTAAATTTAAAGTAATCTAATATATGTATTGAACTTTAACTATTACAT
*
49991831 AAAGTATAAGCTAAATATGTATAAATATTCTAGAAATCATATCTAACT
326 AAAGTATAAGCTAAATATGTATAAATATTCTAGAAACCATATCTAACT
* *
49991879 GATGATATTGTTTTAGTTGACTCGGTCAAGTCCATTAGATGGATAAAATCAATTTTAAAATCAGT
1 GATGATATTGTCTTAATTGACTCGGTCAAGTCCATTAGATGGATAAAATCAATTTTAAAATCAGT
*
49991944 TATAATGGATTAAGGTAACTAATTGTCGAGTAATGAAATCCATAATCAAATCAATTGATTTTGTT
66 TATAATGGATTAAGGTAACTAATTATCGAGTAATGAAATCCATAATCAAATCAATTGATTTTGTT
* *
49992009 AGAAACTAAAAGAAAATGGGATAAGCTGAAAATTGATTGCCCTTCATTAAAATTAAGGAATTCGC
131 AGAAACTAAAAGAAAATGGGATAAGCTGAAAACTGATTGCCCTTCATTAAAATTAAGGAATTCAC
*
49992074 CTTTTACATGTTAGATAATATGAACATCCCATATATAATAAGAAAAATTACTTACGATTATTTAT
196 CTTTTACATGTTAGATAATATGAACAACCCATATATAATAAGAAAAATTACTTACGATTATTTAT
*
49992139 TATCATAAATGGTTAGTTTAAATTTAAAGTAATCTAATATGTGTATTGAACTTTAACTATTACAT
261 TATCATAAATGGTTAGTTTAAATTTAAAGTAATCTAATATATGTATTGAACTTTAACTATTACAT
*
49992204 AAAGTATAAGCTAAATATGTATAAATATTCTAGAAACCATTTCTAACT
326 AAAGTATAAGCTAAATATGTATAAATATTCTAGAAACCATATCTAACT
49992252 GATGATA
1 GATGATA
49992259 GGCTAATTCG
Statistics
Matches: 370, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
373 370 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (373 bp):
GATGATATTGTCTTAATTGACTCGGTCAAGTCCATTAGATGGATAAAATCAATTTTAAAATCAGT
TATAATGGATTAAGGTAACTAATTATCGAGTAATGAAATCCATAATCAAATCAATTGATTTTGTT
AGAAACTAAAAGAAAATGGGATAAGCTGAAAACTGATTGCCCTTCATTAAAATTAAGGAATTCAC
CTTTTACATGTTAGATAATATGAACAACCCATATATAATAAGAAAAATTACTTACGATTATTTAT
TATCATAAATGGTTAGTTTAAATTTAAAGTAATCTAATATATGTATTGAACTTTAACTATTACAT
AAAGTATAAGCTAAATATGTATAAATATTCTAGAAACCATATCTAACT
Found at i:49993503 original size:16 final size:16
Alignment explanation
Indices: 49993482--49993513 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49993472 TAAATCCACG
49993482 TCTAGAACTACACATA
1 TCTAGAACTACACATA
*
49993498 TCTAGAACTACTCATA
1 TCTAGAACTACACATA
49993514 GCCCCTCTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (16 bp):
TCTAGAACTACACATA
Found at i:49996212 original size:34 final size:35
Alignment explanation
Indices: 49996158--49996224 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
49996148 CAAACACCAG
* *
49996158 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGC
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGC
*
49996193 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
49996225 CATTTTACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGC
Found at i:49996216 original size:14 final size:14
Alignment explanation
Indices: 49996193--49996232 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
49996183 ACAGAAAAGC
*
49996193 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
49996207 AAATCATTTTACGG
1 AAAACATTTTACAG
49996221 AAAACATTTTAC
1 AAAACATTTTAC
49996233 TAGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:49999722 original size:19 final size:18
Alignment explanation
Indices: 49999683--49999722 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
49999673 CAACTTTATT
49999683 TCATTTTCTTTTTCTTTG
1 TCATTTTCTTTTTCTTTG
49999701 TCATTTTCTATGTTTC-TTG
1 TCATTTTCT-T-TTTCTTTG
49999720 TCA
1 TCA
49999723 AATACATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.45
19 7 0.35
20 4 0.20
ACGTcount: A:0.10, C:0.17, G:0.07, T:0.65
Consensus pattern (18 bp):
TCATTTTCTTTTTCTTTG
Found at i:50000595 original size:31 final size:30
Alignment explanation
Indices: 50000538--50000669 Score: 137
Period size: 29 Copynumber: 4.5 Consensus size: 30
50000528 ATACAAAAGT
*
50000538 TAAAACTTACATTTTGA-CTCCTAACTTTCC
1 TAAAA-TTACATTTTGACCCCCTAACTTTCC
* * *
50000568 TAAAACTACATTTTAACCCCCCTAACTTTCT
1 TAAAATTACATTTTGA-CCCCCTAACTTTCC
* *
50000599 TAAAATTACA-TTTGACCTCC-AATTTTCC
1 TAAAATTACATTTTGACCCCCTAACTTTCC
* * *
50000627 TAAAATTATATTTTGA-CCCCAAATTTTCC
1 TAAAATTACATTTTGACCCCCTAACTTTCC
50000656 TAAAATTACATTTT
1 TAAAATTACATTTT
50000670 TCCCTAGAAG
Statistics
Matches: 86, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
28 18 0.21
29 39 0.45
30 9 0.10
31 20 0.23
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.40
Consensus pattern (30 bp):
TAAAATTACATTTTGACCCCCTAACTTTCC
Found at i:50000631 original size:59 final size:57
Alignment explanation
Indices: 50000537--50000668 Score: 149
Period size: 59 Copynumber: 2.2 Consensus size: 57
50000527 AATACAAAAG
*
50000537 TTAAAACTTACATTTTGACTCCTAACTTTCCTAAAACTACATTTTAACCCCCCTAACTTTC
1 TTAAAA-TTACA-TTTGACTCCTAACTTTCCTAAAACTACATTTTAA--CCCCAAACTTTC
* * * * *
50000598 TTAAAATTACATTTGACCTCC-AATTTTCCTAAAATTATATTTTGACCCCAAATTTTC
1 TTAAAATTACATTTGA-CTCCTAACTTTCCTAAAACTACATTTTAACCCCAAACTTTC
*
50000655 CTAAAATTACATTT
1 TTAAAATTACATTT
50000669 TTCCCTAGAA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
57 23 0.37
59 25 0.40
60 9 0.14
61 6 0.10
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.40
Consensus pattern (57 bp):
TTAAAATTACATTTGACTCCTAACTTTCCTAAAACTACATTTTAACCCCAAACTTTC
Found at i:50000892 original size:19 final size:19
Alignment explanation
Indices: 50000870--50000906 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
50000860 ACCAAAGAGG
*
50000870 AAAAAAGCA-AGCAAAAAA
1 AAAAAAACACAGCAAAAAA
50000888 AAAAAAACACAGCAAAAAA
1 AAAAAAACACAGCAAAAAA
50000907 TTGAAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.78, C:0.14, G:0.08, T:0.00
Consensus pattern (19 bp):
AAAAAAACACAGCAAAAAA
Found at i:50002011 original size:93 final size:93
Alignment explanation
Indices: 50001859--50002037 Score: 281
Period size: 93 Copynumber: 1.9 Consensus size: 93
50001849 GGGTTTCTTA
* *
50001859 ATTAAATTAATTATAAAATTTTCAAAATTAGATTAGGGTTTCAAGTTTATGGTTCTTAAGGAAAA
1 ATTAAATTAATTATAAAATTTTAAAAATTAGATTAGGGTTTCAAGTTTAGGGTTCTTAAGGAAAA
*
50001924 AA-TCAAATAAATTAGGGTTTAGGGTTG
66 AACTCAAACAAATTAGGGTTTAGGGTTG
* *
50001951 ATTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTT-AATGTTTAGGGTTTTTAAGGAA
1 ATTAAATTAATTATAAAATTTT-AAAAATTAGATTAGGGTTTCAA-GTTTAGGGTTCTTAAGGAA
50002015 AAAACTCAAACAAATTAGGGTTT
64 AAAACTCAAACAAATTAGGGTTT
50002038 GATATTTAGG
Statistics
Matches: 79, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
92 23 0.29
93 39 0.49
94 17 0.22
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (93 bp):
ATTAAATTAATTATAAAATTTTAAAAATTAGATTAGGGTTTCAAGTTTAGGGTTCTTAAGGAAAA
AACTCAAACAAATTAGGGTTTAGGGTTG
Found at i:50002492 original size:126 final size:126
Alignment explanation
Indices: 50002076--50002492 Score: 631
Period size: 126 Copynumber: 3.3 Consensus size: 126
50002066 TAATTTAAAA
* * * *
50002076 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTG-AAAAATAATTTTGAGAAAACGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
* * * * *
50002140 CTGAGCAAATAGTGGCAAAAATGCTTTAAACAGGATGCATCGTCAGTAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAAAGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* * *
50002201 AAGCTCCCACGTGGACGCTCTTTTTCAACAGTAGCTCCTAAAAAAATAATTTCGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
50002266 CTGAGCAAATAGTGTCAAAAAAGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAAAGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* *
50002327 AAACTCCCACGTAGACG-TGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTT
1 AAGCTCCCACGTGGACGCT-CTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTT
* * *
50002391 TCTGAGAAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAAAG
65 TCTGAGCAAATAGTGTCAAAAAAGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* * *
50002453 AAGCTCCCACGTGGATGCTCTTTTCCTATAGTAGCTCCTG
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGCTCCTG
50002493 TTTGGCCTGA
Statistics
Matches: 264, Mismatches: 25, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
125 37 0.14
126 226 0.86
127 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
CTGAGCAAATAGTGTCAAAAAAGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
Found at i:50008142 original size:2 final size:2
Alignment explanation
Indices: 50008135--50008161 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50008125 AATAATAATG
50008135 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
50008162 CTAGTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50010080 original size:21 final size:21
Alignment explanation
Indices: 50010036--50010090 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
50010026 TTGTCTAGCT
* * * *
50010036 TCTGGTGGGGGTTGTGGTTGC
1 TCTGGTGGGGATTCTAGTTAC
50010057 TCTGGTGGGGATTCTAGTTAC
1 TCTGGTGGGGATTCTAGTTAC
50010078 TCTGGTAGGGGAT
1 TCTGGT-GGGGAT
50010091 CGAGTTGCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.09, C:0.11, G:0.44, T:0.36
Consensus pattern (21 bp):
TCTGGTGGGGATTCTAGTTAC
Found at i:50010096 original size:21 final size:21
Alignment explanation
Indices: 50010056--50010096 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50010046 GTTGTGGTTG
*
50010056 CTCTGGTGGGGATTCTAGTTA
1 CTCTGGTGGGGATTCGAGTTA
50010077 CTCTGGTAGGGGA-TCGAGTT
1 CTCTGGT-GGGGATTCGAGTT
50010097 GCCAGTGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.15, C:0.15, G:0.37, T:0.34
Consensus pattern (21 bp):
CTCTGGTGGGGATTCGAGTTA
Found at i:50011025 original size:7 final size:7
Alignment explanation
Indices: 50011015--50011040 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
50011005 CATAATACAT
50011015 AATACTA
1 AATACTA
50011022 AATACTA
1 AATACTA
50011029 AATACTA
1 AATACTA
50011036 AATAC
1 AATAC
50011041 CGATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:50012287 original size:10 final size:10
Alignment explanation
Indices: 50012249--50012291 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
50012239 AAAGCTTTTT
*
50012249 TTGAGAGGAAT
1 TTGAGA-GAAA
50012260 TTGAGAGAATA
1 TTGAGAGAA-A
50012271 TTGGAGAGAAA
1 TT-GAGAGAAA
50012282 TTGAGAGAAA
1 TTGAGAGAAA
50012292 GGATTTAGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 11 0.38
11 11 0.38
12 7 0.24
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:50015918 original size:20 final size:21
Alignment explanation
Indices: 50015878--50015918 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
50015868 TAGAAGAATT
50015878 AGAATTAAATTATAAAATTTTG
1 AGAATTAAA-TATAAAATTTTG
*
50015900 AGAATTAAA-ATATAATTTT
1 AGAATTAAATATAAAATTTT
50015919 ATCATGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (21 bp):
AGAATTAAATATAAAATTTTG
Found at i:50017101 original size:49 final size:49
Alignment explanation
Indices: 50017029--50017173 Score: 210
Period size: 49 Copynumber: 3.0 Consensus size: 49
50017019 TATGTGATGA
50017029 CTATGCTATGCCATGTAAATTTGACTATTTGGTGTGGATTATTATTAAC
1 CTATGCTATGCCATGTAAATTTGACTATTTGGTGTGGATTATTATTAAC
*
50017078 CTATGCTATGCCATGTAAATTTGACTATTTAGTGTGGATTATTATTAAC
1 CTATGCTATGCCATGTAAATTTGACTATTTGGTGTGGATTATTATTAAC
* *
50017127 CTATG---TG--ATGTATAAATTAACCTATTTGGTGTGGATTATTATTAAC
1 CTATGCTATGCCATGTA-AATTTGA-CTATTTGGTGTGGATTATTATTAAC
50017173 C
1 C
50017174 GGCGACGTAT
Statistics
Matches: 90, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
44 5 0.06
45 5 0.06
46 27 0.30
49 53 0.59
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (49 bp):
CTATGCTATGCCATGTAAATTTGACTATTTGGTGTGGATTATTATTAAC
Found at i:50017404 original size:47 final size:47
Alignment explanation
Indices: 50017346--50017458 Score: 183
Period size: 47 Copynumber: 2.4 Consensus size: 47
50017336 AAAGATGTGT
* *
50017346 TTAAAAATAACATA-GAATAAAGAATGAAATTTATGGTTTGAAACTAA
1 TTAATAATAACACATGAA-AAAGAATGAAATTTATGGTTTGAAACTAA
*
50017393 TTAATAATAACACATGAAATAGAATGAAATTTATGGTTTGAAACTAA
1 TTAATAATAACACATGAAAAAGAATGAAATTTATGGTTTGAAACTAA
50017440 TTAATAATAACACATGAAA
1 TTAATAATAACACATGAAA
50017459 TATGTATGAT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
47 59 0.95
48 3 0.05
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.30
Consensus pattern (47 bp):
TTAATAATAACACATGAAAAAGAATGAAATTTATGGTTTGAAACTAA
Found at i:50017459 original size:47 final size:47
Alignment explanation
Indices: 50017366--50017460 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
50017356 CATAGAATAA
50017366 AGAATGAAATTTATGGTTTGAAACTAATTAATAATAACACATGAAAT
1 AGAATGAAATTTATGGTTTGAAACTAATTAATAATAACACATGAAAT
50017413 AGAATGAAATTTATGGTTTGAAACTAATTAATAATAACACATGAAAT
1 AGAATGAAATTTATGGTTTGAAACTAATTAATAATAACACATGAAAT
50017460 A
1 A
50017461 TGTATGATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (47 bp):
AGAATGAAATTTATGGTTTGAAACTAATTAATAATAACACATGAAAT
Found at i:50027777 original size:22 final size:23
Alignment explanation
Indices: 50027727--50027777 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
50027717 AGAATTTTTT
**
50027727 ATTTTGAGATGCTAAGATGAAAA
1 ATTTTGAGATGCTAAGAACAAAA
* *
50027750 ACTTTGAGTTGCTAA-AACAAAA
1 ATTTTGAGATGCTAAGAACAAAA
50027772 ATTTTG
1 ATTTTG
50027778 TATTTAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (23 bp):
ATTTTGAGATGCTAAGAACAAAA
Found at i:50030414 original size:15 final size:14
Alignment explanation
Indices: 50030386--50030412 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50030376 GTGATAATAA
50030386 TTAAATTAAAAAAT
1 TTAAATTAAAAAAT
50030400 TTAAATTAAAAAA
1 TTAAATTAAAAAA
50030413 ATGGGGATTG
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TTAAATTAAAAAAT
Found at i:50031983 original size:13 final size:13
Alignment explanation
Indices: 50031951--50031983 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
50031941 AATTATACGC
*
50031951 CAAATTTTCAAGT
1 CAAATTTTCAACT
50031964 C-AATTTTCAACT
1 CAAATTTTCAACT
50031976 CAAATTTT
1 CAAATTTT
50031984 GTATGTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.42
Consensus pattern (13 bp):
CAAATTTTCAACT
Found at i:50036221 original size:14 final size:14
Alignment explanation
Indices: 50036202--50036231 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
50036192 CAAATCGGGA
50036202 AAGACCTTATCTGG
1 AAGACCTTATCTGG
50036216 AAGACCTTATCTGG
1 AAGACCTTATCTGG
50036230 AA
1 AA
50036232 AAGCATTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (14 bp):
AAGACCTTATCTGG
Found at i:50036793 original size:6 final size:6
Alignment explanation
Indices: 50036782--50036806 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50036772 AAAATCAGTT
50036782 ACCCAA ACCCAA ACCCAA ACCCAA A
1 ACCCAA ACCCAA ACCCAA ACCCAA A
50036807 TAACCCAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCCAA
Found at i:50041321 original size:11 final size:11
Alignment explanation
Indices: 50041307--50041348 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
50041297 ACGAATATTA
50041307 TTTTTATATAT
1 TTTTTATATAT
50041318 TTTTTATATAT
1 TTTTTATATAT
*
50041329 ATTTTT-TGTA-
1 -TTTTTATATAT
50041339 TTTTTATATA
1 TTTTTATATA
50041349 AAGATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 5 0.19
10 3 0.11
11 14 0.52
12 5 0.19
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (11 bp):
TTTTTATATAT
Found at i:50041327 original size:13 final size:12
Alignment explanation
Indices: 50041301--50041335 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
50041291 TGGATTACGA
50041301 ATATTATTTTTAT
1 ATATT-TTTTTAT
50041314 ATATTTTTTATAT
1 ATATTTTTT-TAT
50041327 ATATTTTTT
1 ATATTTTTT
50041336 GTATTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
ATATTTTTTTAT
Found at i:50041410 original size:16 final size:16
Alignment explanation
Indices: 50041389--50041446 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
50041379 TATACAATTT
50041389 ATTTATTTTATATATA
1 ATTTATTTTATATATA
** *
50041405 ATTTATGCTATATGTAA
1 ATTTATTTTATATAT-A
* *
50041422 ATTT-TTGTATATATT
1 ATTTATTTTATATATA
50041437 ATTTATTTTA
1 ATTTATTTTA
50041447 AAGATTTCGT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
15 4 0.12
16 23 0.72
17 5 0.16
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (16 bp):
ATTTATTTTATATATA
Found at i:50043301 original size:45 final size:44
Alignment explanation
Indices: 50043239--50043446 Score: 147
Period size: 45 Copynumber: 4.6 Consensus size: 44
50043229 AAGTTACTAG
50043239 TCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTGAAGATAGAGAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAG-AGACTGAAGATAGAGAA
* * * *
50043284 TCTTATTTCCCTGAAGTTGTAGTGGA-ACGAATTGAAGTTATAAATTACAGA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGA-G-ACTGAAG--AT--A-GAGA-A
* * * * * **
50043335 TCTTATCTCTCTAAAATTGCAGT--AGAG-CAGATCATAGCA-AA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGAGACTGAAGATAG-AGAA
* * *
50043376 CCTTATCTCCTTGAAGTTGTAGTGGAGCAGACTGAAGATAGCGAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAG-AGACTGAAGATAGAGAA
*
50043421 TCTTATTTCCCTGAAGTTGTAGTGGA
1 TCTTATCTCCCTGAAGTTGTAGTGGA
50043447 ACGGATTGAA
Statistics
Matches: 121, Mismatches: 27, Indels: 30
0.68 0.15 0.17
Matches are distributed among these distances:
41 18 0.15
42 1 0.01
43 5 0.04
44 3 0.02
45 65 0.54
47 4 0.03
49 3 0.02
50 3 0.02
51 19 0.16
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGTAGTGGAGAGACTGAAGATAGAGAA
Found at i:50043401 original size:137 final size:137
Alignment explanation
Indices: 50043240--50043507 Score: 437
Period size: 137 Copynumber: 2.0 Consensus size: 137
50043230 AGTTACTAGT
*
50043240 CTTATCTCCCTGAAGTTGTAGTGGAGTAGACTGAAGATAGAGAATCTTATTTCCCTGAAGTTGTA
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGAGAATCTTATTTCCCTGAAGTTGTA
* * * *
50043305 GTGGAACGAATTGAAGTTATAAATTACAGATCTTATCTCTCTAAAATTGCAGTAGAGCAGATCAT
66 GTGGAACGAATTGAAGCTATAAATTACAGAACTTATCTATATAAAATTGCAGTAGAGCAGATCAT
50043370 AGCAAAC
131 AGCAAAC
* *
50043377 CTTATCTCCTTGAAGTTGTAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGTA
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGAGAATCTTATTTCCCTGAAGTTGTA
* * * *
50043442 GTGGAACGGATTGAAGCTATAAATTGCAGAACTTATCTATATGAAGTTGCAGTAGAGCAGATCAT
66 GTGGAACGAATTGAAGCTATAAATTACAGAACTTATCTATATAAAATTGCAGTAGAGCAGATCAT
50043507 A
131 A
50043508 TTTTATCTCC
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
137 120 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (137 bp):
CTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGAGAATCTTATTTCCCTGAAGTTGTA
GTGGAACGAATTGAAGCTATAAATTACAGAACTTATCTATATAAAATTGCAGTAGAGCAGATCAT
AGCAAAC
Found at i:50043457 original size:45 final size:45
Alignment explanation
Indices: 50043196--50043942 Score: 189
Period size: 44 Copynumber: 16.6 Consensus size: 45
50043186 CATATTAAAC
* * * * * *
50043196 CTTATCTCCCTGAAGTTGCAATGGAACGGGTTGAAGTTA-CTAGT
1 CTTATCTCCCTGAAGTTGTAGTGGAACGGATTGAAGATAGCGAAT
*** * *
50043240 CTTATCTCCCTGAAGTTGTAGTGGAGTAGACTGAAGATAGAGAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAACGGATTGAAGATAGCGAAT
* * *
50043285 CTTATTTCCCTGAAGTTGTAGTGGAACGAATTGAAGTTATAAATTAC-AGAT
1 CTTATCTCCCTGAAGTTGTAGTGGAACGGATTGAAG--AT--A--GCGA-AT
* * * * * * ** * *
50043336 CTTATCTCTCTAAAATTGCAGTAG-A-GCA--GATCATAGCAAAC
1 CTTATCTCCCTGAAGTTGTAGTGGAACGGATTGAAGATAGCGAAT
* * * *
50043377 CTTATCTCCTTGAAGTTGTAGTGGAGCAGACTGAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAACGGATTGAAGATAGCGAAT
*
50043422 CTTATTTCCCTGAAGTTGTAGTGGAACGGATTGAAGCTATAAATTGCAGAA-
1 CTTATCTCCCTGAAGTTGTAGTGGAACGGATTGAAG--AT--A--GC-GAAT
*** * *
50043473 CTTATCTATATGAAGTTGCAGT---A--GA--GCAGAT--C-ATAT
1 CTTATCTCCCTGAAGTTGTAGTGGAACGGATTGAAGATAGCGA-AT
* * * * * *
50043509 TTTATCTCCTTGAAGTTGCAGTGGAACAGG-TTAAAAATAAGCCAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAAC-GGATTGAAGAT-AGCGAAT
** * * * ** *
50043555 CTTATCTCTTTAAAGTTGCAGTGGAGCATATTGAAGATAGGCTACAAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAACGGATTGAAGATA-G---CGAAT
* * * * * ** * *
50043604 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-CAAAC
1 CTTATCTCCCTGAAGTTGTAGTGGAACGGATTGAAGATAGCGAAT
* * * * ** * *
50043648 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-CAAAC
1 CTTATCTCCCTGAAGTTGTAGTGGAACGGATTGAAGATAGCGAAT
* * * ** * *
50043692 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCA-CAAAC
1 CTTATCTCCCTGAAGTTGTAGTGGAACGGATTGAAGATAGCGAAT
* * * * * *
50043736 CTTATCTCCCTGAAGTTGCAGTGGAAC-AAGTTAAAAATAACCAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAACGGA-TTGAAGATAGCGAAT
* * *
50043781 CTTATCTCCCTGAAGTTGTAGTGGAGA-AGATTGAAGACATGCTACAAAT
1 CTTATCTCCCTGAAGTTGTAGTGGA-ACGGATTGAAGATA-G---CGAAT
* * * *** * ** * *
50043830 CTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCCA-CAAAC
1 CTTATCTCCCTGAAGTTGTAGTGGAACGGATTGAAGATAGCGAAT
* *
50043874 CTTATCTCCCT-AGAGTTGCAGTGAAACAGG-TTGAAGATAGC-AAT
1 CTTATCTCCCTGA-AGTTGTAGTGGAAC-GGATTGAAGATAGCGAAT
*
50043918 CTTATCTCCCTGAAGTTGCAGTGGA
1 CTTATCTCCCTGAAGTTGTAGTGGA
50043943 GTAGATTGAA
Statistics
Matches: 540, Mismatches: 111, Indels: 104
0.72 0.15 0.14
Matches are distributed among these distances:
34 1 0.00
35 1 0.00
36 19 0.04
39 1 0.00
41 20 0.04
42 4 0.01
43 7 0.01
44 210 0.39
45 111 0.21
46 37 0.07
47 7 0.01
48 1 0.00
49 77 0.14
50 2 0.00
51 39 0.07
52 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGTAGTGGAACGGATTGAAGATAGCGAAT
Found at i:50043577 original size:46 final size:48
Alignment explanation
Indices: 50043510--50043864 Score: 230
Period size: 44 Copynumber: 7.7 Consensus size: 48
50043500 AGATCATATT
* * *
50043510 TTATCTCCTTGAAGTTGCAGTGGAACAGGTTAAAAATAAGC-C-AATC
1 TTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAAAATAAGCACAAATC
* * * * *
50043556 TTATCTCTTTAAAGTTGCAGTGGAGCATATTGAAGATAGGCTACAAATC
1 TTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAAAATAAGC-ACAAATC
* *
50043605 TTATCTCTCTGAAGTTGCAGTGGAGCAGATT----A-AAGCCACAAACC
1 TTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAAAATAAG-CACAAATC
** *
50043649 TTATCTCCCTGAAGTTGCAGTGGAGCAGATT----A-AAGCCACAAACC
1 TTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAAAATAAG-CACAAATC
** * *
50043693 TTATCTCCCTGAAGTTGTAGTGGAGCAGATT----A-AAGCCACAAACC
1 TTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAAAATAAG-CACAAATC
** *
50043737 TTATCTCCCTGAAGTTGCAGTGGAACA-AGTTAAAAATAA-C-C-AATC
1 TTATCTCTTTGAAGTTGCAGTGGAGCAGA-TTAAAAATAAGCACAAATC
** * * * * * *
50043782 TTATCTCCCTGAAGTTGTAGTGGAGAAGATTGAAGACATGCTACAAATC
1 TTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAAAATAAGC-ACAAATC
* * *
50043831 TTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAA
1 TTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAA
50043865 GCCACAAACC
Statistics
Matches: 264, Mismatches: 30, Indels: 27
0.82 0.09 0.08
Matches are distributed among these distances:
43 1 0.00
44 121 0.46
45 35 0.13
46 36 0.14
47 1 0.00
48 3 0.01
49 67 0.25
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (48 bp):
TTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAAAATAAGCACAAATC
Found at i:50043660 original size:226 final size:220
Alignment explanation
Indices: 50043372--50043949 Score: 556
Period size: 226 Copynumber: 2.6 Consensus size: 220
50043362 CAGATCATAG
* * * * ** * * *
50043372 CAAACCTTATCTCCTTGAAGTTGTAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
1 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCA-CAAACCTTATCTCCCTGAAG
* * * *
50043437 TTGTAGTGGAACGGATTGAAGCTATAAATTGCAGAACTTATCTATATGAAGTTGCAGTAGAGCAG
65 TTGCAGTGGAACGGATTGAAGCCACAAA---C----CTTATCTACATGAAGTTGCAGTAGAGCAG
* ** * * **
50043502 A-T-CATATTTTATCTCCTTGAAGTTGCAGTGGAACAGGTTAAAAATAAGCCAATCTTATCTCTT
123 ATTACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAAGTTAAAAATAA-CCAATCTTATCTCCC
* * *
50043565 TAAAGTTGCAGTGGAGCATATTGAAGATAGGCTA
187 TAAAGTTGCAGTGGAGAAGATTGAAGACAGGCTA
50043599 CAAATCTTATCT-CTCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAG
1 CAAATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAG
* * * * * * *
50043663 TTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAG
65 TTGCAGTGGAACGGATTGAAGCCACAAACCTTATCTACATGAAGTTGCAGTAGAGCAGATT----
*
50043728 CCACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAAGTTAAAAATAACCAATCTTATCTCCCTG
126 --ACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAAGTTAAAAATAACCAATCTTATCTCCCTA
* *
50043793 AAGTTGTAGTGGAGAAGATTGAAGACATGCTA
189 AAGTTGCAGTGGAGAAGATTGAAGACAGGCTA
* *
50043825 CAAATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCCACAAACCTTATCTCCCT-AGAG
1 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTGA-AG
* ** * * * * *
50043889 TTGCAGTGAAACAGG-TTGAAGATAGC-AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT
65 TTGCAGTGGAAC-GGATTGAAGCCA-CAAACCTTATCTACATGAAGTTGCAGTAGAGCAGATT
50043950 GAAGCCATTA
Statistics
Matches: 294, Mismatches: 44, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
219 25 0.09
220 1 0.00
223 1 0.00
225 1 0.00
226 187 0.64
227 79 0.27
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (220 bp):
CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAGT
TGCAGTGGAACGGATTGAAGCCACAAACCTTATCTACATGAAGTTGCAGTAGAGCAGATTACAAA
CCTTATCTCCCTGAAGTTGCAGTGGAACAAGTTAAAAATAACCAATCTTATCTCCCTAAAGTTGC
AGTGGAGAAGATTGAAGACAGGCTA
Found at i:50043661 original size:44 final size:44
Alignment explanation
Indices: 50043598--50043996 Score: 410
Period size: 44 Copynumber: 8.9 Consensus size: 44
50043588 AAGATAGGCT
* *
50043598 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCC
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
50043642 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
*
50043686 ACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCC
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
* ***
50043730 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAACA-AGTTAAAAATA
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TT-AAAGCC
* * * * *
50043775 ACCAATCTTATCTCCCTGAAGTTGTAGTGGAGAAGATTGAAGACATGCT
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT--A-A-A-GCC
* * * *
50043824 ACAAATCTTATCTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCC
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
* * * * **
50043868 ACAAACCTTATCTCCCT-AGAGTTGCAGTGAAACAGGTTGAAGAT
1 ACAAACCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTAAAGCC
* * *
50043912 AGC-AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCC
1 A-CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
* * * **
50043956 ATTAATCC-TATCTCCCTGAAATTGCAGTGGAGTGGATTAAA
1 A-CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
50043997 ACGATGAATC
Statistics
Matches: 299, Mismatches: 45, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
43 2 0.01
44 218 0.73
45 39 0.13
46 4 0.01
47 2 0.01
48 1 0.00
49 33 0.11
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (44 bp):
ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
Found at i:50043863 original size:182 final size:177
Alignment explanation
Indices: 50043601--50043942 Score: 463
Period size: 182 Copynumber: 1.9 Consensus size: 177
50043591 ATAGGCTACA
* * *
50043601 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCCACAAACCTTATCTCCCTAAAGTTG
* * * *
50043666 CAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCT-GAAGTTGTAGTGGAGCAGATTAAAGCC
66 CAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTAG-AGTTGCAGTGAAACAGATTAAAGAC
50043730 A-CAAACCTTATCTCCCTGAAGTTGCAGTGGAACAAGTTAAAAATAACC
130 AGC-AACCTTATCTCCCTGAAGTTGCAGTGGAACAAGTTAAAAATAACC
* * * *
50043778 AATCTTATCTCCCTGAAGTTGTAGTGGAGAAGATTGAAGACATGCTACAAATCTTATCTCCTTAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATT--A-A-A-GCCACAAACCTTATCTCCCTAA
* * *
50043843 AGTTGCAGTGGAGTAGATTAAAGCCACAAACCTTATCTCCCTAGAGTTGCAGTGAAACAGGTTGA
61 AGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTAGAGTTGCAGTGAAACAGATTAA
* *
50043908 AGATAGCAATCTTATCTCCCTGAAGTTGCAGTGGA
126 AGACAGCAACCTTATCTCCCTGAAGTTGCAGTGGA
50043943 GTAGATTGAA
Statistics
Matches: 142, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
177 32 0.23
179 1 0.01
180 1 0.01
181 1 0.01
182 105 0.74
183 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (177 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCCACAAACCTTATCTCCCTAAAGTTG
CAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTAGAGTTGCAGTGAAACAGATTAAAGACA
GCAACCTTATCTCCCTGAAGTTGCAGTGGAACAAGTTAAAAATAACC
Found at i:50043970 original size:226 final size:227
Alignment explanation
Indices: 50043510--50043986 Score: 658
Period size: 226 Copynumber: 2.1 Consensus size: 227
50043500 AGATCATATT
* * **
50043510 TTATCTCCTTGAAGTTGCAGTGGAACAGGTTAAAAATAAGCCAATCTTATCTCTTTAAAGTTGCA
1 TTATCTCCCTGAAGTTGCAGTGGAACAAGTTAAAAATAAGCCAATCTTATCTCCCTAAAGTTGCA
* * * *
50043575 GTGGAGCATATTGAAGATAGGCTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAG
66 GTGGAGAAGATTGAAGACAGGCTACAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAG
* * *
50043640 CCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTGA
131 CCACAAACCTTATCTCCCTGAAGTTGCAGTGAAACAGATTAAAGACACAAACCTTATCTCCCTGA
*
50043705 AGTTGTAGTGGAGCAGATTAAAGCCACAAACC
196 AGTTGCAGTGGAGCAGATTAAAGCCACAAACC
* *
50043737 TTATCTCCCTGAAGTTGCAGTGGAACAAGTTAAAAATAA-CCAATCTTATCTCCCTGAAGTTGTA
1 TTATCTCCCTGAAGTTGCAGTGGAACAAGTTAAAAATAAGCCAATCTTATCTCCCTAAAGTTGCA
* *
50043801 GTGGAGAAGATTGAAGACATGCTACAAATCTTATCTC-CTTAAAGTTGCAGTGGAGTAGATTAAA
66 GTGGAGAAGATTGAAGACAGGCTACAAATCTTATCTCTC-TAAAGTTGCAGTGGAGCAGATTAAA
* * * *
50043865 GCCACAAACCTTATCTCCCT-AGAGTTGCAGTGAAACAGGTTGAAGATAGC-AATCTTATCTCCC
130 GCCACAAACCTTATCTCCCTGA-AGTTGCAGTGAAACAGATTAAAGACA-CAAACCTTATCTCCC
* * * *
50043928 TGAAGTTGCAGTGGAGTAGATTGAAGCCATTAATCC
193 TGAAGTTGCAGTGGAGCAGATTAAAGCCA-CAAACC
*
50043964 -TATCTCCCTGAAATTGCAGTGGA
1 TTATCTCCCTGAAGTTGCAGTGGA
50043987 GTGGATTAAA
Statistics
Matches: 221, Mismatches: 25, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
225 2 0.01
226 177 0.80
227 42 0.19
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (227 bp):
TTATCTCCCTGAAGTTGCAGTGGAACAAGTTAAAAATAAGCCAATCTTATCTCCCTAAAGTTGCA
GTGGAGAAGATTGAAGACAGGCTACAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAG
CCACAAACCTTATCTCCCTGAAGTTGCAGTGAAACAGATTAAAGACACAAACCTTATCTCCCTGA
AGTTGCAGTGGAGCAGATTAAAGCCACAAACC
Found at i:50044315 original size:13 final size:14
Alignment explanation
Indices: 50044289--50044317 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
50044279 CCAAGCCCAG
50044289 AACCAAATAAATAA
1 AACCAAATAAATAA
50044303 AACCAAA-AAATAA
1 AACCAAATAAATAA
50044316 AA
1 AA
50044318 GAGTCCAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.76, C:0.14, G:0.00, T:0.10
Consensus pattern (14 bp):
AACCAAATAAATAA
Found at i:50052804 original size:14 final size:13
Alignment explanation
Indices: 50052775--50052800 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50052765 ATTGTACCAC
50052775 AATATAAAATTTT
1 AATATAAAATTTT
50052788 AATATAAAATTTT
1 AATATAAAATTTT
50052801 TAATTTTTTT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AATATAAAATTTT
Found at i:50052912 original size:10 final size:10
Alignment explanation
Indices: 50052895--50052966 Score: 56
Period size: 10 Copynumber: 7.3 Consensus size: 10
50052885 TTTTAACGTC
50052895 TTTT-ATAAT
1 TTTTAATAAT
*
50052904 TTCTAATAAT
1 TTTTAATAAT
*
50052914 TTTTTATAAT
1 TTTTAATAAT
* *
50052924 TTTTTACAAT
1 TTTTAATAAT
* *
50052934 ATTTAAAAAT
1 TTTTAATAAT
* **
50052944 TTCTACCAAT
1 TTTTAATAAT
50052954 TTTTAATAAT
1 TTTTAATAAT
50052964 TTT
1 TTT
50052967 ATTATTTATT
Statistics
Matches: 48, Mismatches: 14, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
9 3 0.06
10 45 0.94
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:50060590 original size:20 final size:22
Alignment explanation
Indices: 50060547--50060590 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
50060537 TATTTGTAAC
* *
50060547 ATTTATTTTATATAGTGTTTAA
1 ATTTATTATATATAGTGTTAAA
50060569 ATTTATTAT-TATAGT-TTAAA
1 ATTTATTATATATAGTGTTAAA
50060589 AT
1 AT
50060591 GTAATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 6 0.30
22 8 0.40
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (22 bp):
ATTTATTATATATAGTGTTAAA
Found at i:50079666 original size:597 final size:598
Alignment explanation
Indices: 50078299--50080282 Score: 3290
Period size: 598 Copynumber: 3.3 Consensus size: 598
50078289 AAAAGCATAT
* * *** * * * * *
50078299 TTTTTAAGGTTGTTGCATTTGCCCATGCCAAATGGAATCTTCCCAGATAATTCATTCCTACT-CA
1 TTTTTAAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCTA-TGCA
* *
50078363 GGTAAAGCACTTCAAGCTTGGGAAGATGTTGACAAATATCATTAGGCAAACTACCTGATAGGCTA
65 AGTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTA
* * *
50078428 TTGCTGGAGAGAGCAATGGTCTTCAGAGAAGAAATGTTGAAGATCAAAGTTGGAATTTGACCTAT
130 TTGCTGGAGAGAGCAATGGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTTGGAATCTGACCTGT
* *
50078493 AAGGCCTTTAATTGCTTGAATATTAAGCAGTTCCAAACCAAGAAGATTACCAATTTCCTCAGGAA
195 AAGGCCTTTAATTGCTTGAATATTAAGCAGTTCCAAACCAAGAAGATTACCGATTTCATCAGGAA
* * * * *
50078558 TTTGACCTGTACACATGGTCGAAAAATCAAGGTGTCAAACTACTTATTTTGTAAGCATAACTCAA
260 TTTGACCTGCACACATAGTCGAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCATAAGTCAA
*
50078623 AGAGGTTTTCTTTTCTGTTCTACAGTAATTTGGAGATGTTAGATTTTAATATATTTTAGCATATG
325 AGAGGTTTTCTTTTCTGTTCTACAGTAATTTGGAGATGTTAGATTTTAATATATTTCAGCATATG
* *
50078688 TTTTTCATCAAATGAAATAAAAACTTTTTCCTTTTGTTATCTATTACAAATCAAGCTATTTTATA
390 TTTTTCATCAAATGAAATAAAAACTTTTTCCTTTTGTTATCTATTACAAATCAAACTCTTTTATA
* ** * *
50078753 AAAAAAAATACTTTGAATTCAAGAAATCAAGAAAATTGATTACCTTCTAGATTATTAAATCCCAA
455 AAAAAAAGTACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAA
** *
50078818 ATATAATTCTCCGAGTTGTGTCAGATTTCCGAA-ACTTCTTGGAATGATCCCCGTCAATTGATTC
520 ATATAATTCTTTGAGTTGTGTCAGATTGCC-AATACTTCTTGGAATGATCCCCGTCAATTGATTC
50078882 AAGGACAAGGACAAA
584 AAGGACAAGGACAAA
* *
50078897 TTTTTCAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCGATGCAA
1 TTTTTAAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCTATGCAA
* *
50078962 GTAAAGCACTTCAAGCTTGGGAAGATGTCGACATATATCATTAGGCAAACTACCTGATAGGCTAT
66 GTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTAT
*
50079027 TGTTGGAGAGAGCAATGGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTTGGAATCTGACCTGTA
131 TGCTGGAGAGAGCAATGGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTTGGAATCTGACCTGTA
50079092 AGGCCTTTAATTGCTTGAATATTAAGCAGTTCCAAACCAAGAAGATTACCGATTTCATCAGGAAT
196 AGGCCTTTAATTGCTTGAATATTAAGCAGTTCCAAACCAAGAAGATTACCGATTTCATCAGGAAT
50079157 TTGACCTGCACACATAGTCGAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCATAAGTCAAA
261 TTGACCTGCACACATAGTCGAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCATAAGTCAAA
* * *
50079222 GAGGTTTTCTTTTCTATTCTATAGTAATTTGGAGATGTTAGATTTTTATATATTTCAGCATATGT
326 GAGGTTTTCTTTTCTGTTCTACAGTAATTTGGAGATGTTAGATTTTAATATATTTCAGCATATGT
*
50079287 TTTTCATCAAATGAAATAAAAACTTTTTCGTTTTGTTATCTATTACAAATCAAACTCTTTTAT-A
391 TTTTCATCAAATGAAATAAAAACTTTTTCCTTTTGTTATCTATTACAAATCAAACTCTTTTATAA
50079351 AAAAAAGTACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAAA
456 AAAAAAGTACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAAA
*
50079416 TATAATTCTTTGAGTTGTGTCAGATTGCTAATACTTCTTGGAATGATCCCCGTCAATTGATTCAA
521 TATAATTCTTTGAGTTGTGTCAGATTGCCAATACTTCTTGGAATGATCCCCGTCAATTGATTCAA
*
50079481 AGACAAGGACAAA
586 GGACAAGGACAAA
* *
50079494 TTTTTAAGGTTGCTGCATTTGCCCATACTTGATGGAATGTTACCAGATAACTCATTACTATGCAA
1 TTTTTAAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCTATGCAA
*
50079559 GTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGTAAACTACCTGATAGGCTAT
66 GTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTAT
*
50079624 TGTTGGAGAGAGCAATGGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTTGGAATCTGACCTGTA
131 TGCTGGAGAGAGCAATGGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTTGGAATCTGACCTGTA
*
50079689 AGGCCTTTAATTGCTTGAATATTAAGCAGTTCCAAACCAAGAAGATTACCGATTTCATTAGGAAT
196 AGGCCTTTAATTGCTTGAATATTAAGCAGTTCCAAACCAAGAAGATTACCGATTTCATCAGGAAT
* *
50079754 TTGACCTGCACATATAGTCGAAAAATCAAGGTGTCAAACTACCTAATTTGTTAGCATAAGTCAAA
261 TTGACCTGCACACATAGTCGAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCATAAGTCAAA
* * * * * *
50079819 AAGGTTTTCTATTCTGTTCTACAGTAATTTGGAGATGGTAGACTTTCATATATTTCAGCTTATGT
326 GAGGTTTTCTTTTCTGTTCTACAGTAATTTGGAGATGTTAGATTTTAATATATTTCAGCATATGT
50079884 TTTTCATCAAATGAAATAAAAACTTTTTCCTTTTGTTATCTATTACAAATCAAACTCTTTTATAA
391 TTTTCATCAAATGAAATAAAAACTTTTTCCTTTTGTTATCTATTACAAATCAAACTCTTTTATAA
*
50079949 AAAAAAGTACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTATAGATTATTAAACCCCAAA
456 AAAAAAGTACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAAA
50080014 TATAATTCTTTGAGTTGTGTCAGATTGCCAATACTTCTTGGAATGATCCCCGTCAATTGATTCAA
521 TATAATTCTTTGAGTTGTGTCAGATTGCCAATACTTCTTGGAATGATCCCCGTCAATTGATTCAA
50080079 GGACAAGGACAAA
586 GGACAAGGACAAA
*
50080092 TTTTTAAGGTTGCTACATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCTATGCAA
1 TTTTTAAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCTATGCAA
*
50080157 GTAAAGAACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTAT
66 GTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTAT
** ** * * * * * * *
50080222 TGCTGGAGAGAATAATAATATTCAGAGAAGATATCTTGAAAATGGAAGATGGAACCTGACC
131 TGCTGGAGAGAGCAATGGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTTGGAATCTGACC
50080283 AGATAATTGA
Statistics
Matches: 1301, Mismatches: 82, Indels: 6
0.94 0.06 0.00
Matches are distributed among these distances:
596 2 0.00
597 566 0.44
598 733 0.56
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (598 bp):
TTTTTAAGGTTGCTGCATTTGCCCATACTTGACGGAATGTTACCAGATAACTCATTGCTATGCAA
GTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAGGCTAT
TGCTGGAGAGAGCAATGGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTTGGAATCTGACCTGTA
AGGCCTTTAATTGCTTGAATATTAAGCAGTTCCAAACCAAGAAGATTACCGATTTCATCAGGAAT
TTGACCTGCACACATAGTCGAAAAATCAAGGTGTCAAACTACCTATTTTGTTAGCATAAGTCAAA
GAGGTTTTCTTTTCTGTTCTACAGTAATTTGGAGATGTTAGATTTTAATATATTTCAGCATATGT
TTTTCATCAAATGAAATAAAAACTTTTTCCTTTTGTTATCTATTACAAATCAAACTCTTTTATAA
AAAAAAGTACTTAAAATTCAAGAAATCAAGGAAATTGATTACCTTCTAGATTATTAAACCCCAAA
TATAATTCTTTGAGTTGTGTCAGATTGCCAATACTTCTTGGAATGATCCCCGTCAATTGATTCAA
GGACAAGGACAAA
Found at i:50081427 original size:28 final size:29
Alignment explanation
Indices: 50081394--50081459 Score: 116
Period size: 28 Copynumber: 2.3 Consensus size: 29
50081384 TGAATCTAAA
50081394 ATTTTATAGAAATAAAAGAGACTAACAG-
1 ATTTTATAGAAATAAAAGAGACTAACAGC
50081422 ATTTTATAGAAATAAAAGAGACTAACAGC
1 ATTTTATAGAAATAAAAGAGACTAACAGC
50081451 ATATTTATA
1 AT-TTTATA
50081460 ACTTTGAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
28 28 0.78
29 2 0.06
30 6 0.17
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.29
Consensus pattern (29 bp):
ATTTTATAGAAATAAAAGAGACTAACAGC
Found at i:50084260 original size:29 final size:29
Alignment explanation
Indices: 50084206--50084261 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
50084196 TTATTATAGG
*
50084206 AAATGTATTAAATTAGTCTCTTTATTATT
1 AAATGTATTAAATTAATCTCTTTATTATT
**
50084235 AAATGTATTATTTTAATCT-TTGTATTA
1 AAATGTATTAAATTAATCTCTT-TATTA
50084262 GATATAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.09
29 21 0.91
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (29 bp):
AAATGTATTAAATTAATCTCTTTATTATT
Found at i:50086635 original size:20 final size:20
Alignment explanation
Indices: 50086598--50086635 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
50086588 TAGGAAATAG
*
50086598 ATTAAATGAGTTTATTTATT
1 ATTAAATGAGTATATTTATT
50086618 ATTAAATGTAGTAT-TTTA
1 ATTAAATG-AGTATATTTA
50086636 GTCTTTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (20 bp):
ATTAAATGAGTATATTTATT
Found at i:50088652 original size:13 final size:13
Alignment explanation
Indices: 50088620--50088652 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
50088610 AATTATACGC
*
50088620 CAAATTTTCAAGT
1 CAAATTTTCAAAT
50088633 C-AATTTTCAAAT
1 CAAATTTTCAAAT
50088645 CAAATTTT
1 CAAATTTT
50088653 GTATGTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.42
Consensus pattern (13 bp):
CAAATTTTCAAAT
Found at i:50088887 original size:4 final size:4
Alignment explanation
Indices: 50088878--50088902 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
50088868 CATCCATTGG
50088878 TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT T
50088903 GCATGTACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:50092949 original size:1 final size:1
Alignment explanation
Indices: 50092943--50093041 Score: 72
Period size: 1 Copynumber: 99.0 Consensus size: 1
50092933 TATTATGCTT
* * * * * * * * * *
50092943 AAAAAAAACAAAAAAAATAGAAAAAAAACAAAACAAAAAACAAAAAAAAACAGACAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
50093008 ACAAAAAAACAAAAAAACAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
50093042 TCAAGATGAA
Statistics
Matches: 70, Mismatches: 28, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.01
Consensus pattern (1 bp):
A
Found at i:50092957 original size:8 final size:8
Alignment explanation
Indices: 50092944--50093032 Score: 94
Period size: 8 Copynumber: 10.9 Consensus size: 8
50092934 ATTATGCTTA
50092944 AAAAAAAC
1 AAAAAAAC
50092952 AAAAAAA-
1 AAAAAAAC
50092959 ATAGAAAAA-
1 A-A-AAAAAC
50092968 AAACAAAAC
1 AAA-AAAAC
*
50092977 AAAAAACAA
1 AAAAAA-AC
50092986 AAAAAAAC
1 AAAAAAAC
*
50092994 AGACAAAAC
1 A-AAAAAAC
50093003 -AAAAAAC
1 AAAAAAAC
50093010 AAAAAAAC
1 AAAAAAAC
50093018 AAAAAAAC
1 AAAAAAAC
50093026 AAAAAAA
1 AAAAAAA
50093033 AAGAAAAAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 14
0.80 0.05 0.16
Matches are distributed among these distances:
7 8 0.11
8 40 0.57
9 22 0.31
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.01
Consensus pattern (8 bp):
AAAAAAAC
Found at i:50092981 original size:33 final size:33
Alignment explanation
Indices: 50092944--50093041 Score: 112
Period size: 33 Copynumber: 3.0 Consensus size: 33
50092934 ATTATGCTTA
*
50092944 AAAAAAACAAAAAAAATAGA-AAAAAAACAAAAC
1 AAAAAAACAAAAAAAACAGACAAAAAAA-AAAAC
*
50092977 -AAAAAACAAAAAAAAACAGACAAAACAAAAAAC
1 AAAAAAAC-AAAAAAAACAGACAAAAAAAAAAAC
* *
50093010 AAAAAAAC-AAAAAAACAAAAAAAAAGAAAAAA
1 AAAAAAACAAAAAAAACAGACAAAAA-AAAAAA
50093042 TCAAGATGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
32 21 0.38
33 22 0.39
34 13 0.23
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.01
Consensus pattern (33 bp):
AAAAAAACAAAAAAAACAGACAAAAAAAAAAAC
Found at i:50092982 original size:26 final size:22
Alignment explanation
Indices: 50092943--50093041 Score: 108
Period size: 26 Copynumber: 4.1 Consensus size: 22
50092933 TATTATGCTT
50092943 AAAAAAAACAAAAAAAATAGAAAA
1 AAAAAAAACAAAAAAAA-A-AAAA
50092967 AAAACAAAACAAAAAACAAAAAAA
1 AAAA-AAAACAAAAAA-AAAAAAA
50092991 AACAGACAAAACAAAAAACAAAAAAA
1 AA-A-A-AAAACAAAAAA-AAAAAAA
* *
50093017 CAAAAAAACAAAAAAAAAGAAA
1 AAAAAAAACAAAAAAAAAAAAA
50093039 AAA
1 AAA
50093042 TCAAGATGAA
Statistics
Matches: 68, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.12
23 11 0.16
24 11 0.16
25 14 0.21
26 24 0.35
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.01
Consensus pattern (22 bp):
AAAAAAAACAAAAAAAAAAAAA
Found at i:50093023 original size:42 final size:42
Alignment explanation
Indices: 50092943--50093041 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
50092933 TATTATGCTT
*
50092943 AAAAAAAACAAAAAAAATAGAAAAAAAACAAAACAAAAAACA
1 AAAAAAAACAAAAAAAACAGAAAAAAAACAAAACAAAAAACA
* *
50092985 AAAAAAAACAGACAAAACA-AAAAACAAA-AAAACAAAAAAACA
1 AAAAAAAACAAAAAAAACAGAAAAA-AAACAAAAC-AAAAAACA
*
50093027 AAAAAAAAGAAAAAA
1 AAAAAAAACAAAAAA
50093042 TCAAGATGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
41 10 0.20
42 39 0.80
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.01
Consensus pattern (42 bp):
AAAAAAAACAAAAAAAACAGAAAAAAAACAAAACAAAAAACA
Found at i:50094018 original size:77 final size:78
Alignment explanation
Indices: 50093891--50094732 Score: 1314
Period size: 77 Copynumber: 10.9 Consensus size: 78
50093881 TTTCAAGAAA
*
50093891 TATTTTTTAAAATTT-TGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
1 TATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
50093955 GGTCACGCTGAGG
66 GGTCACGCTGAGG
*
50093968 TATTTTTTTTAATTTCTGCTTTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
1 TATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
50094032 GGTCACGCTGAGG
66 GGTCACGCTGAGG
* *
50094045 TATTTTTTTAAATTTCTGTTTTTTTCAAAAAATCAAGTCATAATACAGAGGTGAGTTGAGCCTCG
1 TATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
50094110 GGTCACGCTGAGG
66 GGTCACGCTGAGG
50094123 TA--TTTTTAAATTTCTGCTTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCT
1 TATTTTTTTAAATTTCTGC--TTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCT
*
50094186 CGGGTTACGCTGAGG
64 CGGGTCACGCTGAGG
50094201 TATTTTTTTAAATTTCTGCTTTTTT-AAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
1 TATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
50094265 GGTCACGCTGAGG
66 GGTCACGCTGAGG
*
50094278 TATTTTTTTAAATTTCTACTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
1 TATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
50094343 GGTCACGCTGAGG
66 GGTCACGCTGAGG
*
50094356 TATTTTTTT-AATTTCTGCTTTTTTCAAAAACTCAACTCATAATACAGAGGTGAGTTGAGCCTCG
1 TATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
50094420 GGTCACGCTGAGG
66 GGTCACGCTGAGG
*
50094433 TATTTTTTTTAATTTCTGCTTTTTTCAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
1 TATTTTTTTAAATTTCTGCTTTTTTC-AAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
* *
50094498 GGGTCATGCCGAGG
65 GGGTCACGCTGAGG
*
50094512 TATTTCTTTTAAATTT-T-CGTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
1 TATTT-TTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
* *
50094575 GGGTCATGCCGAGG
65 GGGTCACGCTGAGG
*
50094589 TAGTTTTTTTAAATTTCT--ATTTTTC-AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCT
1 TA-TTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCT
** * *
50094651 CGGACCATGCCGAGG
64 CGGGTCACGCTGAGG
* * * * *
50094666 TATTTCTTTTAAATTTATG-TTTTTT-GAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCT
1 TATTT-TTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCT
50094729 CGGG
64 CGGG
50094733 GCACATGTCG
Statistics
Matches: 723, Mismatches: 26, Indels: 31
0.93 0.03 0.04
Matches are distributed among these distances:
76 36 0.05
77 351 0.49
78 257 0.36
79 55 0.08
80 24 0.03
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (78 bp):
TATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
GGTCACGCTGAGG
Found at i:50094075 original size:155 final size:156
Alignment explanation
Indices: 50093891--50094732 Score: 1314
Period size: 155 Copynumber: 5.4 Consensus size: 156
50093881 TTTCAAGAAA
*
50093891 TATTTTTTAAAATTT-TGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
1 TATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
*
50093955 GGTCACGCTGAGGTATTTTTTTTAATTTCTGCTTTTTTC-AAAAATCAACTCATAATACAGAGGT
66 GGTCACGCTGAGGTATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGT
50094019 GAGTTGAGCCTCGGGTCACGCTGAGG
131 GAGTTGAGCCTCGGGTCACGCTGAGG
* *
50094045 TATTTTTTTAAATTTCTGTTTTTTTCAAAAAATCAAGTCATAATACAGAGGTGAGTTGAGCCTCG
1 TATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
50094110 GGTCACGCTGAGGTA--TTTTTAAATTTCTGCTTTTTTTTCAAAAAATCAACTCATAATACAGAG
66 GGTCACGCTGAGGTATTTTTTTAAATTTCTGC--TTTTTTCAAAAAATCAACTCATAATACAGAG
*
50094173 GTGAGTTGAGCCTCGGGTTACGCTGAGG
129 GTGAGTTGAGCCTCGGGTCACGCTGAGG
50094201 TATTTTTTTAAATTTCTGCTTTTTT-AAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
1 TATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
*
50094265 GGTCACGCTGAGGTATTTTTTTAAATTTCTACTTTTTTCAAAAAATCAACTCATAATACAGAGGT
66 GGTCACGCTGAGGTATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGT
50094330 GAGTTGAGCCTCGGGTCACGCTGAGG
131 GAGTTGAGCCTCGGGTCACGCTGAGG
*
50094356 TATTTTTTT-AATTTCTGCTTTTTTCAAAAACTCAACTCATAATACAGAGGTGAGTTGAGCCTCG
1 TATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
*
50094420 GGTCACGCTGAGGTATTTTTTTTAATTTCTGCTTTTTTCAAAAAAATCAACTCATAATACAGAGG
66 GGTCACGCTGAGGTATTTTTTTAAATTTCTGCTTTTTTC-AAAAAATCAACTCATAATACAGAGG
* *
50094485 TGAGTTGAGCCTCGGGTCATGCCGAGG
130 TGAGTTGAGCCTCGGGTCACGCTGAGG
*
50094512 TATTTCTTTTAAATTT-T-CGTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
1 TATTT-TTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
* * *
50094575 GGGTCATGCCGAGGTAGTTTTTTTAAATTTCT--ATTTTTC-AAAAATCAACTCATAATACGAGA
65 GGGTCACGCTGAGGTA-TTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATAC-AGA
** * *
50094637 GGTGAGTTGAGCCTCGGACCATGCCGAGG
128 GGTGAGTTGAGCCTCGGGTCACGCTGAGG
* * * * *
50094666 TATTTCTTTTAAATTTATG-TTTTTT-GAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCT
1 TATTT-TTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCT
50094729 CGGG
64 CGGG
50094733 GCACATGTCG
Statistics
Matches: 646, Mismatches: 27, Indels: 29
0.92 0.04 0.04
Matches are distributed among these distances:
153 33 0.05
154 92 0.14
155 296 0.46
156 187 0.29
157 33 0.05
158 5 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (156 bp):
TATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
GGTCACGCTGAGGTATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGT
GAGTTGAGCCTCGGGTCACGCTGAGG
Found at i:50094321 original size:233 final size:230
Alignment explanation
Indices: 50093891--50094732 Score: 1300
Period size: 233 Copynumber: 3.6 Consensus size: 230
50093881 TTTCAAGAAA
50093891 TATTTTTTAAAATTTTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGG
1 TATTTTTT-AAATTTTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGG
* *
50093956 GTCACGCTGAGGTATTTTTTTTAATTTCTGCTTTTTTCAAAAATCAACTCATAATACAGAGGTGA
65 GTCACGCTGAGGTATTTTTTTAAATTTCTGCTTTTTTAAAAAATCAACTCATAATACAGAGGTGA
* *
50094021 GTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTGTTTTTTTCAAAAAATCAAGTCAT
130 GTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCT-CTTTTTTCAAAAAATCAACTCAT
50094086 AATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
194 AATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
50094123 TA-TTTTTAAATTTCTGCTTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
1 TATTTTTTAAATTT-TGC--TTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
*
50094187 GGGTTACGCTGAGGTATTTTTTTAAATTTCTGCTTTTTTAAAAAATCAACTCATAATACAGAGGT
63 GGGTCACGCTGAGGTATTTTTTTAAATTTCTGCTTTTTTAAAAAATCAACTCATAATACAGAGGT
50094252 GAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTACTTTTTTCAAAAAATCAACTC
128 GAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCT-CTTTTTTCAAAAAATCAACTC
50094317 ATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
192 ATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
* *
50094356 TATTTTTTTAATTTCTGCTTTTTTCAAAAACTCAACTCATAATACAGAGGTGAGTTGAGCCTCGG
1 TATTTTTTAAATTT-TGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGG
*
50094421 GTCACGCTGAGGTATTTTTTTTAATTTCTGCTTTTTTCAAAAAAATCAACTCATAATACAGAGGT
65 GTCACGCTGAGGTATTTTTTTAAATTTCTGCTTTTTT--AAAAAATCAACTCATAATACAGAGGT
* * *
50094486 GAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTT-TCGTTTTTCAAAAAATCAACTC
128 GAGTTGAGCCTCGGGTCACGCTGAGGTATTT-TTTTAAATTTCTCTTTTTTCAAAAAATCAACTC
* *
50094550 ATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGG
192 ATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
50094589 TAGTTTTTTTAAA-TTT-CTATTTTTC-AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCT
1 TA--TTTTTTAAATTTTGCT-TTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCT
** * * * * * *
50094651 CGGACCATGCCGAGGTATTTCTTTTAAATTTATG-TTTTTTGAAAAATCAACTCATATTGCGAGA
62 CGGGTCACGCTGAGGTATTT-TTTTAAATTTCTGCTTTTTTAAAAAATCAACTCATAATAC-AGA
*
50094715 GATGAGTTGAGCCTCGGG
125 GGTGAGTTGAGCCTCGGG
50094733 GCACATGTCG
Statistics
Matches: 570, Mismatches: 27, Indels: 26
0.91 0.04 0.04
Matches are distributed among these distances:
230 6 0.01
231 25 0.04
232 123 0.22
233 315 0.55
234 83 0.15
235 18 0.03
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (230 bp):
TATTTTTTAAATTTTGCTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
TCACGCTGAGGTATTTTTTTAAATTTCTGCTTTTTTAAAAAATCAACTCATAATACAGAGGTGAG
TTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTCTTTTTTCAAAAAATCAACTCATAA
TACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGG
Found at i:50094830 original size:75 final size:76
Alignment explanation
Indices: 50094461--50094841 Score: 181
Period size: 77 Copynumber: 5.0 Consensus size: 76
50094451 CTTTTTTCAA
* * * * * *
50094461 AAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTC-GGG-TCATGCCGAGGTATTTCTTTTA
1 AAAAATCAACTCATAATCCAAGAGATGAGTTGAGCCTCGGGGCACACGCCGAGCTA-TTC---TC
* *
50094523 AATTT-TCGTTTTTCA
62 GATTTAT-GTTTTTCG
* * * * * * *
50094538 AAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTC-GGG-TCATGCCGAGGTAGTTTTTTTA
1 AAAAATCAACTCATAATCCAAGAGATGAGTTGAGCCTCGGGGCACACGCCGAGCTA----TTCTC
* * *
50094600 AATTTCTATTTTTC-
62 GATTTATGTTTTTCG
* * * * * * *
50094614 AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTC-GGAC-CATGCCGAGGTATTTCTTTTA
1 AAAAATCAACTCATAATCCAAGAGATGAGTTGAGCCTCGGGGCACACGCCGAGCTA-TTC---TC
* *
50094677 AATTTATGTTTTTTG
62 GATTTATGTTTTTCG
* * * * * * *
50094692 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGGCACATGTCGAGGTATTTTCGATT
1 AAAAATCAACTCATAATCCAAGAGATGAGTTGAGCCTCGGGGCACACGCCGAGCTATTCTCGATT
*
50094757 TTTGTTTTTCG
66 TATGTTTTTCG
* * * * * *
50094768 -AAGATCAACTCATAATCCAAGAGGTGAGTTGAGTCTCGGGTCGCACGCCGAGCTGTTCTCGATT
1 AAAAATCAACTCATAATCCAAGAGATGAGTTGAGCCTCGGGGCACACGCCGAGCTATTCTCGATT
* *
50094832 TCTGCTTTTC
66 TATGTTTTTC
50094842 AAATAAAGAG
Statistics
Matches: 260, Mismatches: 32, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
74 3 0.01
75 59 0.23
76 32 0.12
77 111 0.43
78 36 0.14
79 5 0.02
80 14 0.05
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (76 bp):
AAAAATCAACTCATAATCCAAGAGATGAGTTGAGCCTCGGGGCACACGCCGAGCTATTCTCGATT
TATGTTTTTCG
Found at i:50095038 original size:30 final size:30
Alignment explanation
Indices: 50094997--50095141 Score: 161
Period size: 30 Copynumber: 4.9 Consensus size: 30
50094987 AAAATTTTAA
* * **
50094997 AAAATTGCATTTTGACCCCTGTACTTTCTC
1 AAAATTACATTTCGACCCCTAAACTTTCTC
*
50095027 AAAATTACATTTCAACCCCTAAACTTT-T-
1 AAAATTACATTTCGACCCCTAAACTTTCTC
*
50095055 ATAAATTAC-TTTTGACCCCTAAACTTTCTC
1 A-AAATTACATTTCGACCCCTAAACTTTCTC
50095085 AAAATTACATTTCGACCCCTAAACTTTCTC
1 AAAATTACATTTCGACCCCTAAACTTTCTC
* ** * *
50095115 TAAATTATGTTTCGGCCCCAAAACTTT
1 AAAATTACATTTCGACCCCTAAACTTT
50095142 TGCTGTATTT
Statistics
Matches: 98, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
28 17 0.17
29 16 0.16
30 65 0.66
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (30 bp):
AAAATTACATTTCGACCCCTAAACTTTCTC
Found at i:50095096 original size:58 final size:59
Alignment explanation
Indices: 50095006--50095121 Score: 189
Period size: 58 Copynumber: 2.0 Consensus size: 59
50094996 AAAAATTGCA
**
50095006 TTTTGACCCCTGTACTTTCTCAAAATTACATTTCAACCCCTAAACTTT-TATAAATTAC
1 TTTTGACCCCTAAACTTTCTCAAAATTACATTTCAACCCCTAAACTTTCTATAAATTAC
* *
50095064 TTTTGACCCCTAAACTTTCTCAAAATTACATTTCGACCCCTAAACTTTCTCTAAATTA
1 TTTTGACCCCTAAACTTTCTCAAAATTACATTTCAACCCCTAAACTTTCTATAAATTA
50095122 TGTTTCGGCC
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 45 0.85
59 8 0.15
ACGTcount: A:0.31, C:0.27, G:0.03, T:0.39
Consensus pattern (59 bp):
TTTTGACCCCTAAACTTTCTCAAAATTACATTTCAACCCCTAAACTTTCTATAAATTAC
Found at i:50095670 original size:10 final size:10
Alignment explanation
Indices: 50095644--50095682 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
50095634 GAGAAGAAAA
* *
50095644 AAAGAAAAAA
1 AAAGAAGAAG
50095654 AAAGAAGAAG
1 AAAGAAGAAG
50095664 AAAGAAGAAG
1 AAAGAAGAAG
*
50095674 GAAGAAGAA
1 AAAGAAGAA
50095683 AGGGGGGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (10 bp):
AAAGAAGAAG
Found at i:50095706 original size:13 final size:13
Alignment explanation
Indices: 50095690--50095732 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
50095680 GAAAGGGGGG
50095690 AAAGAAAAAGAAA
1 AAAGAAAAAGAAA
50095703 AAAGAAAAAAGAAA
1 AAAG-AAAAAGAAA
*
50095717 AAAGAAAAATAAA
1 AAAGAAAAAGAAA
50095730 AAA
1 AAA
50095733 ATAATTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
13 15 0.54
14 13 0.46
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:50095731 original size:14 final size:13
Alignment explanation
Indices: 50095690--50095733 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 13
50095680 GAAAGGGGGG
*
50095690 AAAGAAAAAGAAA
1 AAAGAAAAAAAAA
50095703 AAAGAAAAAAGAAA
1 AAAGAAAAAA-AAA
50095717 AAAGAAAAATAAAA
1 AAAGAAAAA-AAAA
50095731 AAA
1 AAA
50095734 TAATTAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 9 0.32
14 18 0.64
15 1 0.04
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.02
Consensus pattern (13 bp):
AAAGAAAAAAAAA
Found at i:50095732 original size:7 final size:7
Alignment explanation
Indices: 50095690--50095725 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
50095680 GAAAGGGGGG
50095690 AAAG-AA
1 AAAGAAA
50095696 AAAGAAA
1 AAAGAAA
50095703 AAAGAAA
1 AAAGAAA
50095710 AAAGAAA
1 AAAGAAA
50095717 AAAGAAA
1 AAAGAAA
50095724 AA
1 AA
50095726 TAAAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:50095802 original size:18 final size:18
Alignment explanation
Indices: 50095788--50095822 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50095778 CCCGACCCGG
*
50095788 AACAGCCAGCAGACCCAC
1 AACACCCAGCAGACCCAC
*
50095806 AACACCCAGCAGGCCCA
1 AACACCCAGCAGACCCA
50095823 GCAGATTAGG
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:0.37, C:0.46, G:0.17, T:0.00
Consensus pattern (18 bp):
AACACCCAGCAGACCCAC
Found at i:50096023 original size:7 final size:7
Alignment explanation
Indices: 50096011--50096062 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
50096001 CAACCTGAAA
50096011 AAAAAAG
1 AAAAAAG
50096018 AAAAAAG
1 AAAAAAG
50096025 --AAAAG
1 AAAAAAG
50096030 -AAAAAG
1 AAAAAAG
50096036 AAAAAAG
1 AAAAAAG
*
50096043 AGAAAAG
1 AAAAAAG
*
50096050 -AAAGAG
1 AAAAAAG
50096056 AAAAAAG
1 AAAAAAG
50096063 GGAAAAGGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
5 5 0.13
6 9 0.24
7 24 0.63
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:50096033 original size:11 final size:11
Alignment explanation
Indices: 50096007--50096059 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
50095997 GGCCCAACCT
50096007 GAAAAA-AAAA
1 GAAAAAGAAAA
50096017 GAAAAAAGAAAA
1 G-AAAAAGAAAA
50096029 GAAAAAG-AAA
1 GAAAAAGAAAA
*
50096039 -AAAGAGAAAA
1 GAAAAAGAAAA
*
50096049 GAAAGAGAAAA
1 GAAAAAGAAAA
50096060 AAGGGAAAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 21 0.55
12 5 0.13
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:50096062 original size:20 final size:20
Alignment explanation
Indices: 50096007--50096069 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
50095997 GGCCCAACCT
50096007 GAAAA-AAAAAG-AAAAA-A
1 GAAAAGAAAAAGAAAAAAGA
50096024 GAAAAGAAAAAGAAAAAAGA
1 GAAAAGAAAAAGAAAAAAGA
* *
50096044 GAAAAGAAAGAGAAAAAAGG
1 GAAAAGAAAAAGAAAAAAGA
50096064 GAAAAG
1 GAAAAG
50096070 GCCCAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
17 5 0.12
18 6 0.15
19 5 0.12
20 25 0.61
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (20 bp):
GAAAAGAAAAAGAAAAAAGA
Found at i:50096562 original size:17 final size:17
Alignment explanation
Indices: 50096542--50096680 Score: 75
Period size: 18 Copynumber: 7.8 Consensus size: 17
50096532 AAACTAATCG
50096542 TGTTTCAAAAATTTTCA
1 TGTTTCAAAAATTTTCA
** *
50096559 TGTTTCCAAAAAATTCCCG
1 TGTTT-C-AAAAATTTTCA
* *
50096578 TGTTTTAAAAATTTCCTTA
1 TGTTTCAAAAATTT--TCA
*
50096597 T-TTTCAAAAATTTTCG
1 TGTTTCAAAAATTTTCA
**
50096613 TGTTTCAAAAAAATCCTCA
1 TGTTTC--AAAAATTTTCA
*
50096632 TGCTTTTAAAAATTTT-A
1 TG-TTTCAAAAATTTTCA
** *
50096649 GTGTTTCAAAAATCCTCG
1 -TGTTTCAAAAATTTTCA
50096667 TGTTTTCAAAAATT
1 TG-TTTCAAAAATT
50096681 ATTATTGTGT
Statistics
Matches: 89, Mismatches: 22, Indels: 21
0.67 0.17 0.16
Matches are distributed among these distances:
16 2 0.02
17 29 0.33
18 31 0.35
19 24 0.27
20 3 0.03
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (17 bp):
TGTTTCAAAAATTTTCA
Found at i:50096580 original size:36 final size:35
Alignment explanation
Indices: 50096540--50096623 Score: 96
Period size: 36 Copynumber: 2.4 Consensus size: 35
50096530 AAAAACTAAT
* *
50096540 CGTGTTTCAAAAATTTTCATGTTTCCAAAAAATTCC
1 CGTGTTTCAAAAATTTCCATATTTCC-AAAAATTCC
* * * **
50096576 CGTGTTTTAAAAATTTCCTTATTTTCAAAAATTTT
1 CGTGTTTCAAAAATTTCCATATTTCCAAAAATTCC
50096611 CGTGTTTCAAAAA
1 CGTGTTTCAAAAA
50096624 AATCCTCATG
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
35 19 0.47
36 21 0.52
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.43
Consensus pattern (35 bp):
CGTGTTTCAAAAATTTCCATATTTCCAAAAATTCC
Found at i:50096643 original size:37 final size:35
Alignment explanation
Indices: 50096597--50096696 Score: 121
Period size: 35 Copynumber: 2.7 Consensus size: 35
50096587 AATTTCCTTA
*
50096597 TTTTCAAAAATTTTCGTGTTTCAAAAAAATCCTCATG
1 TTTTCAAAAATTTTAGTGTTTC--AAAAATCCTCATG
*
50096634 CTTTT-AAAAATTTTAGTGTTTCAAAAATCCTCGTG
1 -TTTTCAAAAATTTTAGTGTTTCAAAAATCCTCATG
50096669 TTTTCAAAAATTATTATTGTGTTTCAAA
1 TTTTCAAAAATT-TTA--GTGTTTCAAA
50096697 GTTCTCGTGT
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
34 4 0.07
35 19 0.34
36 3 0.05
37 16 0.29
38 14 0.25
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (35 bp):
TTTTCAAAAATTTTAGTGTTTCAAAAATCCTCATG
Found at i:50096656 original size:54 final size:54
Alignment explanation
Indices: 50096541--50096678 Score: 158
Period size: 54 Copynumber: 2.5 Consensus size: 54
50096531 AAAACTAATC
* * *
50096541 GTGTTTCAAAAATTTTCATGTTTCCAAAAAATTCCCGTGTTTTAAAAATTTCCTTA
1 GTGTTTCAAAAATTTTCGTGTTT-CAAAAAAATCCCATGTTTTAAAAATTT-CTTA
50096597 -T-TTTCAAAAATTTTCGTGTTTCAAAAAAATCCTCATGCTTTTAAAAA-TT-TTA
1 GTGTTTCAAAAATTTTCGTGTTTCAAAAAAATCC-CATG-TTTTAAAAATTTCTTA
**
50096649 GTGTTTCAAAAATCCTCGTGTTTTCAAAAA
1 GTGTTTCAAAAATTTTCGTG-TTTCAAAAA
50096679 TTATTATTGT
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
52 3 0.04
53 11 0.15
54 39 0.54
55 19 0.26
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (54 bp):
GTGTTTCAAAAATTTTCGTGTTTCAAAAAAATCCCATGTTTTAAAAATTTCTTA
Found at i:50101582 original size:15 final size:15
Alignment explanation
Indices: 50101564--50101599 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
50101554 GTCAATAAAT
50101564 ATTTTATAAATATAG
1 ATTTTATAAATATAG
50101579 ATTTTATAAATATAG
1 ATTTTATAAATATAG
*
50101594 AATTTA
1 ATTTTA
50101600 ATCACAAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (15 bp):
ATTTTATAAATATAG
Found at i:50103111 original size:8 final size:8
Alignment explanation
Indices: 50103072--50103110 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
50103062 CTTACATTAG
50103072 TATTTATC
1 TATTTATC
*
50103080 TATCTATC
1 TATTTATC
*
50103088 TATCTATC
1 TATTTATC
*
50103096 TATTTATT
1 TATTTATC
50103104 TATTTAT
1 TATTTAT
50103111 TGGCTTGTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTTATC
Done.