Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 150 of 352
Found at i:49292787 original size:96 final size:96
Alignment explanation
Indices: 49292623--49292941 Score: 432
Period size: 96 Copynumber: 3.4 Consensus size: 96
49292613 TTTGACATGA
* *
49292623 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCACGTTGCCATGGTATCTTT
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTCATTTTCTGTCACGTTGCCATGGTATCTTT
49292688 CAACCATGGTCTTATTCTTTTCATGTCACGT
66 CAACCATGGTCTTATTCTTTTCATGTCACGT
* * * * *
49292719 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTTCCATGGTATATTT
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTCATTTTCTGTCACGTTGCCATGGTATCTTT
49292784 CAACCATGGTCTTATTCTTTTCATGTCACGT
66 CAACCATGGTCTTATTCTTTTCATGTCACGT
* * * *
49292815 TGCCATGGTATCTTTCAACCATGGTCATA--CA--CA-TTTCATATCAGGTTGCCATGGTATCTT
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTCATTTTC-TGTCACGTTGCCATGGTATCTT
** * * *
49292875 TCAACCATGGTCTTACACATTTCATATCAGGT
65 TCAACCATGGTCTTATTCTTTTCATGTCACGT
* *
49292907 TGCCATGGTATCTTTCAACCATGGTCTTACACATT
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATT
49292942 TCATATCAGA
Statistics
Matches: 201, Mismatches: 17, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
91 4 0.02
92 75 0.37
94 4 0.02
96 118 0.59
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (96 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACTCATTCATTTTCTGTCACGTTGCCATGGTATCTTT
CAACCATGGTCTTATTCTTTTCATGTCACGT
Found at i:49292836 original size:142 final size:138
Alignment explanation
Indices: 49292655--49292935 Score: 377
Period size: 142 Copynumber: 2.0 Consensus size: 138
49292645 GGTCTTACTC
* ** * *
49292655 ATTCATTTTCTGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTT
1 ATTCATTTTCTGTCACGTTGCCATGGTATCTTTCAACCATGGTCATACACATTTCATATCACGTT
* * * * *
49292720 GCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGTTTCCATGGTATATTT
66 GCCATAGTATCTTTCAACCATGGTCTTA--CA--CA-TTTCATATCAGGTTGCCATGGTATATTT
49292784 CAACCATGGTCTT
126 CAACCATGGTCTT
*
49292797 ATTC-TTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCATACACATTTCATATCAGGT
1 ATTCATTTTC-TGTCACGTTGCCATGGTATCTTTCAACCATGGTCATACACATTTCATATCACGT
* *
49292861 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
65 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATATTTCAAC
49292926 CATGGTCTT
130 CATGGTCTT
49292935 A
1 A
49292936 CACATTTCAT
Statistics
Matches: 124, Mismatches: 13, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
137 4 0.03
138 35 0.28
140 2 0.02
141 5 0.04
142 78 0.63
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (138 bp):
ATTCATTTTCTGTCACGTTGCCATGGTATCTTTCAACCATGGTCATACACATTTCATATCACGTT
GCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATATTTCAACC
ATGGTCTT
Found at i:49292911 original size:92 final size:92
Alignment explanation
Indices: 49292671--49292950 Score: 391
Period size: 92 Copynumber: 3.0 Consensus size: 92
49292661 TTTCTGTCAC
* *
49292671 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATAGTGTCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCA
* * *
49292736 ACTATGGTCTTACTCATTCATTTTC-TGTCAT
66 ACCATGGTCTTA--CA--CA-TTTCATATCAG
* *
49292767 GTTTCCATGGTATATTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCA
*
49292832 ACCATGGTCATACACATTTCATATCAG
66 ACCATGGTCTTACACATTTCATATCAG
** * * *
49292859 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCA
49292924 ACCATGGTCTTACACATTTCATATCAG
66 ACCATGGTCTTACACATTTCATATCAG
49292951 AGAGCACACT
Statistics
Matches: 167, Mismatches: 16, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
91 4 0.02
92 90 0.54
94 2 0.01
96 71 0.43
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (92 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACATTTCATATCAG
Found at i:49292936 original size:46 final size:46
Alignment explanation
Indices: 49292671--49292950 Score: 346
Period size: 46 Copynumber: 6.0 Consensus size: 46
49292661 TTTCTGTCAC
** * * *
49292671 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
* * * * *
49292717 GTTGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA--CA--CA-TTTCATATCAG
* * ** * * *
49292767 GTTTCCATGGTATATTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
*
49292813 GTTGCCATGGTATCTTTCAACCATGGTCATACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
49292859 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
49292905 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
49292951 AGAGCACACT
Statistics
Matches: 203, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
45 4 0.02
46 163 0.80
50 32 0.16
51 4 0.02
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
Found at i:49299295 original size:7 final size:7
Alignment explanation
Indices: 49299283--49299311 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
49299273 GTGAGCATCT
49299283 ATATGAG
1 ATATGAG
49299290 ATATGAG
1 ATATGAG
49299297 ATATGAG
1 ATATGAG
49299304 ATA-GAG
1 ATATGAG
49299310 AT
1 AT
49299312 GGTTTCGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.23
7 17 0.77
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.28
Consensus pattern (7 bp):
ATATGAG
Found at i:49308971 original size:46 final size:46
Alignment explanation
Indices: 49308918--49309046 Score: 258
Period size: 46 Copynumber: 2.8 Consensus size: 46
49308908 TATTTGGGCA
49308918 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
49308964 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
49309010 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49309047 GCGGGTTACA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:49311986 original size:15 final size:15
Alignment explanation
Indices: 49311947--49312015 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
49311937 GTATCTTGGG
*
49311947 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
49311962 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
49311977 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
*
49311990 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
49312005 TTTCTTTATTC
1 TTTCTTTATTC
49312016 AGTTTTCTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
12 2 0.04
13 7 0.16
14 4 0.09
15 30 0.67
16 2 0.04
ACGTcount: A:0.12, C:0.19, G:0.12, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:49312013 original size:28 final size:28
Alignment explanation
Indices: 49311938--49312020 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
49311928 CATAGTATCG
* * * *
49311938 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GG-TTTCTC
49311968 TAT-TCTGGATTTCTTTATTCGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGTTTCTC
*
49311996 TATCTTGGATTTCTTTATTCAGTTT
1 TATCTTGGATTTCTTTATTCGGTTT
49312021 TCTTGTTATC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
28 26 0.57
29 4 0.09
30 16 0.35
ACGTcount: A:0.12, C:0.17, G:0.14, T:0.57
Consensus pattern (28 bp):
TATCTTGGATTTCTTTATTCGGTTTCTC
Found at i:49323367 original size:42 final size:43
Alignment explanation
Indices: 49323267--49323427 Score: 139
Period size: 43 Copynumber: 3.7 Consensus size: 43
49323257 CAATGCCAAC
* * * * * ** *
49323267 GTCCCAGACGTGGTCTTACATGTAATCAAACATCGATCCCACT
1 GTCCCAGACATGGTCTTACACGAAATCAGATATCGATTGCAAT
* *
49323310 GTCCTAGACAGGGTCTTACACGAAATCAGATA-CGATTGCAAT
1 GTCCCAGACATGGTCTTACACGAAATCAGATATCGATTGCAAT
* *
49323352 GTCCCAGACATGGTCTTACACGTAAAACAGA-AGTCGA-TGCCAAC
1 GTCCCAGACATGGTCTTACACG-AAATCAGATA-TCGATTG-CAAT
** *
49323396 GTCCCAGATGTAGTCTTACACGAAATCAGATA
1 GTCCCAGACATGGTCTTACACGAAATCAGATA
49323428 ACGAAATCTT
Statistics
Matches: 95, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
42 28 0.29
43 41 0.43
44 26 0.27
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCAGATATCGATTGCAAT
Found at i:49325126 original size:48 final size:48
Alignment explanation
Indices: 49325063--49325185 Score: 128
Period size: 48 Copynumber: 2.6 Consensus size: 48
49325053 ACTCATATCT
* *
49325063 CAATGCCATAG-CCCAGTTATGGTCTTACATGATG-TCTCATA-TTGATGC
1 CAATGCCAT-GTCCCAGTTATGGTCTTACATG-GGATCTCA-ACTCGATGC
**
49325111 CAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCAACTCGATGC
1 CAATGCCATGTCCCAGTTATGGTCTTACATGGGATCTCAACTCGATGC
* *
49325159 CGATGCCATATCCCA-TATATGGTCTTA
1 CAATGCCATGTCCCAGT-TATGGTCTTA
49325186 TACGGGACCT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
47 3 0.05
48 60 0.95
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (48 bp):
CAATGCCATGTCCCAGTTATGGTCTTACATGGGATCTCAACTCGATGC
Found at i:49325279 original size:48 final size:49
Alignment explanation
Indices: 49325097--49325293 Score: 174
Period size: 48 Copynumber: 4.1 Consensus size: 49
49325087 TTACATGATG
* * * * *
49325097 TCTCATATTGATGCCAATGCCATGTCCCAGACATGGTCTTACATG-GGA
1 TCTCATAATGATGCCGATGCCATGTCCCAAACATGGTCTTATACGAGGA
* * * *
49325145 TCTCA-ACTCGATGCCGATGCCATATCCCATATATGGTCTTATACG-GGA
1 TCTCATAAT-GATGCCGATGCCATGTCCCAAACATGGTCTTATACGAGGA
* * * * * * *
49325193 CCTCAT-ACGACG-TGATGCTAGGTCCCAAACGTGGTCTTATACGAGG-
1 TCTCATAATGATGCCGATGCCATGTCCCAAACATGGTCTTATACGAGGA
* *
49325239 TCTCATAATGATGCTGATGCCATGTCCTAAACATGGTCTTATAC-AGGA
1 TCTCATAATGATGCCGATGCCATGTCCCAAACATGGTCTTATACGAGGA
49325287 TCTCATA
1 TCTCATA
49325294 TCAACTCCAT
Statistics
Matches: 118, Mismatches: 25, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
46 29 0.25
47 14 0.12
48 75 0.64
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (49 bp):
TCTCATAATGATGCCGATGCCATGTCCCAAACATGGTCTTATACGAGGA
Found at i:49328371 original size:40 final size:40
Alignment explanation
Indices: 49328301--49328452 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 40
49328291 TGGGGTTTAG
** * *
49328301 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
49328340 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * **
49328380 CCGGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
49328420 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGG
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGG
49328453 ACTTAGCCTG
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 15 0.16
40 63 0.66
41 17 0.18
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:49328458 original size:40 final size:39
Alignment explanation
Indices: 49328324--49328467 Score: 171
Period size: 40 Copynumber: 3.6 Consensus size: 39
49328314 CTCGCACAAG
* * * * *
49328324 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTC-GGACTTAGCCCGGATATAGTCGCTAGCACAAAT
49328364 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTC-GGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
49328404 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
49328445 GCCTTCGGACTTAGCCTGGATAT
1 GCCTTCGGACTTAGCCCGGATAT
49328468 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.03
40 70 0.77
41 18 0.20
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
GCCTTCGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:49329700 original size:38 final size:38
Alignment explanation
Indices: 49329658--49329733 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
49329648 CAAGAACTCC
49329658 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
49329696 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
49329734 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:49332455 original size:44 final size:44
Alignment explanation
Indices: 49332401--49332484 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
49332391 CAAAGTTTTC
49332401 TTTTTGATTCACATCTGGTTTTAAACGATTTCTAATTTTCCTCA
1 TTTTTGATTCACATCTGGTTTTAAACGATTTCTAATTTTCCTCA
* * *
49332445 TTTTTTATTCACCTCTGGTTTTAAACGATTTCTACTTTTC
1 TTTTTGATTCACATCTGGTTTTAAACGATTTCTAATTTTC
49332485 TTTGTGTCGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.20, C:0.19, G:0.08, T:0.52
Consensus pattern (44 bp):
TTTTTGATTCACATCTGGTTTTAAACGATTTCTAATTTTCCTCA
Found at i:49333355 original size:28 final size:29
Alignment explanation
Indices: 49333299--49333360 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
49333289 GAAAGCATGT
*
49333299 ATATGAATGTGATTTCGGCCTAATGGGCC
1 ATATGAATGAGATTTCGGCCTAATGGGCC
* *
49333328 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGAGATTTCGGCCTAATGGGCC
49333356 ATATG
1 ATATG
49333361 CATGTATTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.29
Consensus pattern (29 bp):
ATATGAATGAGATTTCGGCCTAATGGGCC
Found at i:49337851 original size:29 final size:29
Alignment explanation
Indices: 49337807--49337891 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 29
49337797 GCATGTATAT
49337807 GAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* *
49337836 GAATGTGATTTCGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAC
** *
49337865 GAATAAGA-TTGGGTCTAATGGGCCATA
1 GAATGTGATTTGGGCCTAATGGGCCATA
49337892 TGCATGTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 17 0.34
29 33 0.66
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:49339040 original size:17 final size:18
Alignment explanation
Indices: 49339007--49339040 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49338997 TTTTAAGAAG
49339007 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
49339025 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
49339041 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:49343073 original size:23 final size:23
Alignment explanation
Indices: 49343021--49343145 Score: 121
Period size: 23 Copynumber: 5.3 Consensus size: 23
49343011 TACCGATATA
* * *
49343021 TCAGCTCGTAAGAGCTTACTATTT
1 TCAGCTCATTAGAGCTTACT-GTT
*
49343045 TCAGCTCATTGGAGCTTACTGTT
1 TCAGCTCATTAGAGCTTACTGTT
49343068 TCAGCTCATATA-AGCTTACTG-T
1 TCAGCTCAT-TAGAGCTTACTGTT
*
49343090 TCAGCTCGA-TAGAGCTTACAGTT
1 TCAGCTC-ATTAGAGCTTACTGTT
* *
49343113 TCAGCTCAATAGAGCTTATTGTT
1 TCAGCTCATTAGAGCTTACTGTT
49343136 CATCAGCTCA
1 --TCAGCTCA
49343146 AGAGGAGCTT
Statistics
Matches: 86, Mismatches: 8, Indels: 13
0.80 0.07 0.12
Matches are distributed among these distances:
21 2 0.02
22 17 0.20
23 41 0.48
24 18 0.21
25 8 0.09
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (23 bp):
TCAGCTCATTAGAGCTTACTGTT
Found at i:49345249 original size:16 final size:16
Alignment explanation
Indices: 49345224--49345259 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
49345214 AGTAGATCGA
*
49345224 GAAATCCCGAAAAGCT
1 GAAATCCCGAAAAGCC
*
49345240 GAAATGCCGAAAAGCC
1 GAAATCCCGAAAAGCC
49345256 GAAA
1 GAAA
49345260 GTTTGGCTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.08
Consensus pattern (16 bp):
GAAATCCCGAAAAGCC
Found at i:49345514 original size:28 final size:28
Alignment explanation
Indices: 49345479--49345557 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
49345469 CTTTAAATGC
*
49345479 AATTTGGGCCTAGT-GGCCATATGAATG
1 AATTTGGGCCTAGTGGGCCATATGAAAG
* * *
49345506 TGATTTGGGCCTAATGGGCCACATGAAAG
1 -AATTTGGGCCTAGTGGGCCATATGAAAG
*
49345535 AAATTGGGCCTAGTGGGCCATAT
1 AATTTGGGCCTAGTGGGCCATAT
49345558 ATAGGTATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 31 0.74
29 11 0.26
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (28 bp):
AATTTGGGCCTAGTGGGCCATATGAAAG
Found at i:49346404 original size:41 final size:41
Alignment explanation
Indices: 49346359--49346482 Score: 248
Period size: 41 Copynumber: 3.0 Consensus size: 41
49346349 AATATAAGTC
49346359 CTTGTTTGAAATTGGGGTTTAAACTAGAAGTCTTTAAATGG
1 CTTGTTTGAAATTGGGGTTTAAACTAGAAGTCTTTAAATGG
49346400 CTTGTTTGAAATTGGGGTTTAAACTAGAAGTCTTTAAATGG
1 CTTGTTTGAAATTGGGGTTTAAACTAGAAGTCTTTAAATGG
49346441 CTTGTTTGAAATTGGGGTTTAAACTAGAAGTCTTTAAATGG
1 CTTGTTTGAAATTGGGGTTTAAACTAGAAGTCTTTAAATGG
49346482 C
1 C
49346483 AAATAGATCA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 83 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (41 bp):
CTTGTTTGAAATTGGGGTTTAAACTAGAAGTCTTTAAATGG
Found at i:49347599 original size:27 final size:27
Alignment explanation
Indices: 49347580--49347760 Score: 236
Period size: 27 Copynumber: 6.7 Consensus size: 27
49347570 ACCCAAATAT
49347580 CCTCGATTTATAGAATTACCGTTTTAC
1 CCTCGATTTATAGAATTACCGTTTTAC
*
49347607 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTATAGAATTACCGTTTTAC
*
49347634 CCTCGATTTATAGAATTACCATTTTAC
1 CCTCGATTTATAGAATTACCGTTTTAC
* * * *
49347661 CCTCAATTTATAGAATTATCATTTTGC
1 CCTCGATTTATAGAATTACCGTTTTAC
* * *
49347688 CCTCGATTTACAAAATTACCATTTTAC
1 CCTCGATTTATAGAATTACCGTTTTAC
** *
49347715 CCTTAATTTACAGAATTACCGTTTTAC
1 CCTCGATTTATAGAATTACCGTTTTAC
* *
49347742 CCTCGATTTACAAAATTAC
1 CCTCGATTTATAGAATTAC
49347761 TTAAATACCC
Statistics
Matches: 136, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 136 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
CCTCGATTTATAGAATTACCGTTTTAC
Found at i:49347769 original size:27 final size:27
Alignment explanation
Indices: 49347538--49347885 Score: 144
Period size: 27 Copynumber: 12.9 Consensus size: 27
49347528 CCCAGTTGTC
* * * *
49347538 AAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACCAAAATACCCTCGATTTACA
* * * *
49347565 AAACTACCCAAATATCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTACA
* ****
49347592 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTACA
* **** *
49347619 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTACA
* *** * *
49347646 GAATTACCATTTTACCCTCAATTTATA
1 AAATTACCAAAATACCCTCGATTTACA
* * *** *
49347673 GAATTATCATTTTGCCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTACA
*** **
49347700 AAATTACCATTTTACCCTTAATTTACA
1 AAATTACCAAAATACCCTCGATTTACA
* ****
49347727 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTACA
** * *
49347754 AAATTACTTAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTACA
* *
49347781 AAATTACCAAAATACCCTCGA-TCAGTA
1 AAATTACCAAAATACCCTCGATTTA-CA
* **
49347808 AAATTACCAAAATA-CCTCTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTACA
* * **
49347835 AAATTACTAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTACA
* *
49347862 AAATTACCAAAATTCCCTTGATTT
1 AAATTACCAAAATACCCTCGATTT
49347886 GTAAAATATC
Statistics
Matches: 264, Mismatches: 52, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
26 6 0.02
27 255 0.97
28 3 0.01
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTACA
Found at i:49347779 original size:81 final size:81
Alignment explanation
Indices: 49347604--49347789 Score: 223
Period size: 81 Copynumber: 2.3 Consensus size: 81
49347594 ATTACCGTTT
* * * *
49347604 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCAATT
* * *
49347669 TATAGAATTATCATTT
66 TACAAAATTATCATTA
* * * *
49347685 TGCCCTCGATTTACAAAATTACCATTTTACCCTTAATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCAATT
49347750 TACAAAATTA-C-TTAAA
66 TACAAAATTATCATT--A
* *
49347766 TACCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAAAATTACCA
49347790 AAATACCCTC
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
79 2 0.02
80 1 0.01
81 86 0.97
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCAATT
TACAAAATTATCATTA
Found at i:49347788 original size:54 final size:54
Alignment explanation
Indices: 49347580--49347760 Score: 263
Period size: 54 Copynumber: 3.4 Consensus size: 54
49347570 ACCCAAATAT
* * * *
49347580 CCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTTAC
* * * * * *
49347634 CCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTATCATTTTGC
1 CCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTTAC
*
49347688 CCTCGATTTACAAAATTACCATTTTACCCTTAATTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTTAC
49347742 CCTCGATTTACAAAATTAC
1 CCTCGATTTACAAAATTAC
49347761 TTAAATACCC
Statistics
Matches: 114, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 114 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (54 bp):
CCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTTAC
Found at i:49347886 original size:27 final size:27
Alignment explanation
Indices: 49347753--49347892 Score: 156
Period size: 27 Copynumber: 5.2 Consensus size: 27
49347743 CTCGATTTAC
** **
49347753 AAAATTACTTAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
49347780 AAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTGT
49347807 AAAATTACCAAAATA-CCTCTGGTTTGT
1 AAAATTACCAAAATACCCT-TGGTTTGT
* *
49347834 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
49347861 AAAATTACCAAAATTCCCTTGATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
49347888 AAAAT
1 AAAAT
49347893 ATCGAAATAC
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 3 0.03
27 88 0.95
28 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Found at i:49347927 original size:27 final size:27
Alignment explanation
Indices: 49347895--49348119 Score: 292
Period size: 27 Copynumber: 8.4 Consensus size: 27
49347885 TGTAAAATAT
49347895 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
** ** * *
49347922 TAAAATACCTTTATAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
49347949 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
49347976 TGAAATACCCCTATAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
49348003 CGAAATACCCCTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
49348030 TGAAATACCCC-GTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
49348056 CGAAATACCCTTGTAGGGCAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
49348083 CAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
49348110 C-AAGATACCC
1 CGAA-ATACCC
49348120 ATATGGGGTA
Statistics
Matches: 169, Mismatches: 27, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
26 25 0.15
27 144 0.85
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:49347974 original size:134 final size:134
Alignment explanation
Indices: 49347836--49348135 Score: 338
Period size: 134 Copynumber: 2.2 Consensus size: 134
49347826 TGGTTTGTAA
* ** * * **
49347836 AATTACTAAAATACCCCTGGT-TTGTAAAATTACCAAAATTCCCTTGAT-TTGTAAAA-TA-TCG
1 AATTACTAAAATACCCCT-ATAAGGTAAAATTACCAAAATACCCCT-ATAGGGTAAAATTACT-G
* * * *
49347897 AAATACCCCTGTAGGGTAGAATTACTAAAATACCTTTATAGGGTAGAAATACCGAAATACCCCTG
63 AAATACCCC-GTAGGGTAGAATTACCAAAATACCCTTATAGGGCAGAAATACCAAAATACCCCTG
49347962 TAGGGTAG
127 TAGGGTAG
* * * *
49347970 AATTACTGAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTGAAA
1 AATTACTAAAATACCCCTATAAGGTAAAATTACCAAAATACCCCTATAGGGTAAAATTACTGAAA
* *
49348035 TACCCCGTAGGGTAGAATTACCGAAATACCCTTGTAGGGCAGAAATACCAAAATACCCCTGTAGG
66 TACCCCGTAGGGTAGAATTACCAAAATACCCTTATAGGGCAGAAATACCAAAATACCCCTGTAGG
49348100 GTAG
131 GTAG
* * * **
49348104 AATTACCAAGATACCCATATGGGGTAAAATTA
1 AATTACTAAAATACCCCTATAAGGTAAAATTA
49348136 TCATTTTGCC
Statistics
Matches: 138, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
133 3 0.02
134 122 0.88
135 12 0.09
136 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (134 bp):
AATTACTAAAATACCCCTATAAGGTAAAATTACCAAAATACCCCTATAGGGTAAAATTACTGAAA
TACCCCGTAGGGTAGAATTACCAAAATACCCTTATAGGGCAGAAATACCAAAATACCCCTGTAGG
GTAG
Found at i:49348378 original size:25 final size:25
Alignment explanation
Indices: 49348342--49348433 Score: 105
Period size: 25 Copynumber: 3.7 Consensus size: 25
49348332 AGGAAGTGCT
* *
49348342 AAAAGGGTTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACTA
* *
49348367 AAAAGGGCTTTGCCCCAATTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACTA
* *
49348392 AAAAGGGCTCTGGCCCAGTTTA-TCA
1 AAAAGGGCTTTGCCCCAGTTTACT-A
*
49348417 AAAAGGGGTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
49348434 ATTATTAAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACTA
Found at i:49351440 original size:27 final size:27
Alignment explanation
Indices: 49351410--49351590 Score: 263
Period size: 27 Copynumber: 6.7 Consensus size: 27
49351400 ATCCAAATAT
*
49351410 CCTCGATTTATAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* *
49351437 CCTCGATTTACAAAATTATCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* *
49351464 CCTCGATTTATAGAATTACCATTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* * *
49351491 TCTCGATTTATAGAATTATCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
*
49351518 CCTCGATTTACAGAATTACCATTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
*
49351545 CCTCGATTTACAGAATTGCCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
*
49351572 CCTCGATTTACAAAATTAC
1 CCTCGATTTACAGAATTAC
49351591 TAAAATACCA
Statistics
Matches: 136, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 136 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CCTCGATTTACAGAATTACCGTTTTAC
Found at i:49351472 original size:81 final size:81
Alignment explanation
Indices: 49351383--49351554 Score: 233
Period size: 81 Copynumber: 2.1 Consensus size: 81
49351373 ACCAAAGTAC
49351383 CCCT-GATTTATAAAACTATCCAA-ATA-TCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
1 CCCTCGATTTATAAAACTA-CCAATATACT-CTCGATTTATAGAATTACCGTTTTACCCTCGATT
* *
49351445 TACAAAATTATCGTTTTA
64 TACAAAATTACCATTTTA
* * * * *
49351463 CCCTCGATTTATAGAATTACCATTTTACTCTCGATTTATAGAATTATCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAAAACTACCAATATACTCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
*
49351528 CAGAATTACCATTTTA
66 CAAAATTACCATTTTA
49351544 CCCTCGATTTA
1 CCCTCGATTTA
49351555 CAGAATTGCC
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
80 7 0.09
81 73 0.90
82 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (81 bp):
CCCTCGATTTATAAAACTACCAATATACTCTCGATTTATAGAATTACCGTTTTACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:49351599 original size:27 final size:27
Alignment explanation
Indices: 49351367--49351707 Score: 134
Period size: 27 Copynumber: 12.7 Consensus size: 27
49351357 CCCCAGTTGT
* *
49351367 AAAATTACCAAAGTACCC-CTGATTTAT
1 AAAATTACCAAAATACCCTC-GATTTAC
* * *
49351394 AAAACTATCC-AAATATCCTCGATTTAT
1 AAAATTA-CCAAAATACCCTCGATTTAC
* ****
49351421 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTCGATTTAC
* **** *
49351448 AAAATTATCGTTTTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTCGATTTAC
* *** * *
49351475 AGAATTACCATTTTACTCTCGATTTAT
1 AAAATTACCAAAATACCCTCGATTTAC
* * ****
49351502 AGAATTATCGTTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTCGATTTAC
* ***
49351529 AGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTCGATTTAC
* * ****
49351556 AGAATTGCCGTTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTCGATTTAC
* * * *
49351583 AAAATTACTAAAATACCATTGGTTTAC
1 AAAATTACCAAAATACCCTCGATTTAC
* **
49351610 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTAC
* * **
49351637 AAAATTACTAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTAC
* **
49351664 AAAATTACCAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCCTCGATTTAC
*
49351691 AAAA-TACCGAAATACCC
1 AAAATTACCAAAATACCC
49351708 CTGTAGGGTA
Statistics
Matches: 262, Mismatches: 47, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
26 14 0.05
27 244 0.93
28 4 0.02
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTAC
Found at i:49351609 original size:54 final size:54
Alignment explanation
Indices: 49351434--49351615 Score: 159
Period size: 54 Copynumber: 3.4 Consensus size: 54
49351424 ATTACCGTTT
* ** * * ***
49351434 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTACCATTT
1 TACCATCGATTTACAAAATTGCCGTTTTACCCTCGATTTACAAAATTACCAAAA
* * ** * ***
49351488 TACTC-TCGATTTATAGAATTATCGTTTTACCCTCGATTTACAGAATTACCATTT
1 TAC-CATCGATTTACAAAATTGCCGTTTTACCCTCGATTTACAAAATTACCAAAA
* * *
49351542 TACCCTCGATTTACAGAATTGCCGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCATCGATTTACAAAATTGCCGTTTTACCCTCGATTTACAAAATTACCAAAA
* *
49351596 TACCATTGGTTTACAAAATT
1 TACCATCGATTTACAAAATT
49351616 ACCAAAATAC
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 109 0.98
55 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (54 bp):
TACCATCGATTTACAAAATTGCCGTTTTACCCTCGATTTACAAAATTACCAAAA
Found at i:49351609 original size:81 final size:81
Alignment explanation
Indices: 49351410--49351619 Score: 208
Period size: 81 Copynumber: 2.6 Consensus size: 81
49351400 ATCCAAATAT
* * * ** * * * *
49351410 CCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTAT
1 CCTCGATTTACAAAATTATCGTAATACCATCGATTTACAAAATTACCATTTTACCCTCGATTTAC
49351475 AGAATTACCATTTTAC
66 AGAATTACCATTTTAC
* * * ** * *
49351491 TCTCGATTTATAGAATTATCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
1 CCTCGATTTACAAAATTATCGTAATACCATCGATTTACAAAATTACCATTTTACCCTCGATTTAC
* *
49351556 AGAATTGCCGTTTTAC
66 AGAATTACCATTTTAC
* *
49351572 CCTCGATTTACAAAATTA-C-TAAAATACCATTGGTTTACAAAATTACCA
1 CCTCGATTTACAAAATTATCGT--AATACCATCGATTTACAAAATTACCA
49351620 AAATACCCCT
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 1 0.01
80 1 0.01
81 108 0.98
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (81 bp):
CCTCGATTTACAAAATTATCGTAATACCATCGATTTACAAAATTACCATTTTACCCTCGATTTAC
AGAATTACCATTTTAC
Found at i:49351709 original size:27 final size:27
Alignment explanation
Indices: 49351583--49351709 Score: 150
Period size: 27 Copynumber: 4.7 Consensus size: 27
49351573 CTCGATTTAC
* ** * **
49351583 AAAATTACTAAAATACCATTGGTTTAC
1 AAAATTACCAAAATACCCCTAGTTTGT
49351610 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
49351637 AAAATTACTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
49351664 AAAATTACCAAAATA-CCCTTGATTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
*
49351691 AAAA-TACCGAAATACCCCT
1 AAAATTACCAAAATACCCCT
49351710 GTAGGGTAGA
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 14 0.16
27 74 0.84
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:49351825 original size:27 final size:27
Alignment explanation
Indices: 49351695--49351815 Score: 170
Period size: 27 Copynumber: 4.5 Consensus size: 27
49351685 ATTTGTAAAA
49351695 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
** *
49351722 TATTGAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
49351749 TATCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
49351776 TACCGAAATGCCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
49351803 TACCGAGATACCC
1 TACCGAAATACCC
49351816 ATTTGGGGTA
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 81 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAT
Found at i:49351825 original size:54 final size:53
Alignment explanation
Indices: 49351695--49351829 Score: 155
Period size: 54 Copynumber: 2.5 Consensus size: 53
49351685 ATTTGTAAAA
* * **
49351695 TACCGAAATACCCCTGTAGGGTAGAATTATTGAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTA-AAATACCGAAATACCCCTATAGGGTAGAAT
* * *
49351749 TATCGAAATACCCTTGTAGGGTAGAAATACCGAAATGCCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTA-AAATACCGAAATACCCCTATAGGGTAGAAT
* *
49351803 TACCGAGATACCCATT-TGGGGTAAAAT
1 TACCGAAATACCC-TTGTAGGGTAAAAT
49351830 CATCATTTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
53 4 0.06
54 64 0.91
55 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (53 bp):
TACCGAAATACCCTTGTAGGGTAAAATACCGAAATACCCCTATAGGGTAGAAT
Found at i:49354943 original size:27 final size:27
Alignment explanation
Indices: 49354896--49354951 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
49354886 CCCCCAGTTG
* *
49354896 TAAAATTACCAAAGTACCCTCGGTTTA
1 TAAAACTACCAAAGTACCCTCGATTTA
*
49354923 TAAAACTACACAAA-TATCCTCGATTTA
1 TAAAACTAC-CAAAGTACCCTCGATTTA
49354950 TA
1 TA
49354952 GAATTACTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
TAAAACTACCAAAGTACCCTCGATTTA
Found at i:49354971 original size:27 final size:27
Alignment explanation
Indices: 49354940--49355093 Score: 218
Period size: 27 Copynumber: 5.7 Consensus size: 27
49354930 ACACAAATAT
49354940 CCTCGATTTATAGAATTACTGTTTTAC
1 CCTCGATTTATAGAATTACTGTTTTAC
* **
49354967 TCTCGATTTATAGAATTACCATTTTAC
1 CCTCGATTTATAGAATTACTGTTTTAC
* *
49354994 TCTCGATTTATAGAATTATTGTTTTAC
1 CCTCGATTTATAGAATTACTGTTTTAC
49355021 CCTCGATTTATAGAATTACTGTTTTAC
1 CCTCGATTTATAGAATTACTGTTTTAC
* * *
49355048 CCTCGATTTACAGAATTGCCGTTTTAC
1 CCTCGATTTATAGAATTACTGTTTTAC
* *
49355075 CCTCGATTTACAAAATTAC
1 CCTCGATTTATAGAATTAC
49355094 AAAAATACCC
Statistics
Matches: 114, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.43
Consensus pattern (27 bp):
CCTCGATTTATAGAATTACTGTTTTAC
Found at i:49355092 original size:81 final size:81
Alignment explanation
Indices: 49354940--49355092 Score: 243
Period size: 81 Copynumber: 1.9 Consensus size: 81
49354930 ACACAAATAT
* * * *
49354940 CCTCGATTTATAGAATTACTGTTTTACTCTCGATTTATAGAATTACCATTTTACTCTCGATTTAT
1 CCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
*
49355005 AGAATTATTGTTTTAC
66 AAAATTATTGTTTTAC
* *
49355021 CCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTGCCGTTTTACCCTCGATTTAC
1 CCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
49355086 AAAATTA
66 AAAATTA
49355093 CAAAAATACC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.43
Consensus pattern (81 bp):
CCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
AAAATTATTGTTTTAC
Found at i:49355102 original size:27 final size:27
Alignment explanation
Indices: 49355072--49355238 Score: 144
Period size: 27 Copynumber: 6.2 Consensus size: 27
49355062 ATTGCCGTTT
* *
49355072 TACCCTCGATTTACAAAATTACAAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
49355099 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
49355126 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * *
49355153 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* *
49355180 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * **
49355207 TACCCTTGATTTGTAAAA-TACTGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
49355233 TACCCT
1 TACCCT
49355239 TGTAGGGTAG
Statistics
Matches: 117, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
26 15 0.13
27 100 0.85
28 2 0.02
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:49355103 original size:54 final size:54
Alignment explanation
Indices: 49354910--49355120 Score: 188
Period size: 54 Copynumber: 3.9 Consensus size: 54
49354900 ATTACCAAAG
* * * * *
49354910 TACCCTCGGTTTATAAAACTACACAAATATCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACAAAAATACCCTCGATTTACAGAATTACTGTTT
* * * *** * * *
49354964 TACTCTCGATTTATAGAATTACCATTTTACTCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTATAAAATTACAAAAATACCCTCGATTTACAGAATTACTGTTT
* ***** * *
49355018 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTGCCGTTT
1 TACCCTCGATTTATAAAATTACAAAAATACCCTCGATTTACAGAATTACTGTTT
* * * *
49355072 TACCCTCGATTTACAAAATTACAAAAATACCCTTGGTTTACAAAATTAC
1 TACCCTCGATTTATAAAATTACAAAAATACCCTCGATTTACAGAATTAC
49355121 CAAAATACCC
Statistics
Matches: 126, Mismatches: 31, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 126 1.00
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACAAAAATACCCTCGATTTACAGAATTACTGTTT
Found at i:49355120 original size:81 final size:81
Alignment explanation
Indices: 49354910--49355104 Score: 237
Period size: 81 Copynumber: 2.4 Consensus size: 81
49354900 ATTACCAAAG
* * * * *
49354910 TACCCTCGGTTTATAAAACTACACAAATATCCTCGATTTATAGAATTACTGTTTTACTCTCGATT
1 TACCCTCGATTTATAAAATTACAAAAATACCCTCGATTTATAGAATTACTGTTTTACCCTCGATT
*
49354975 TATAGAATTACCATTT
66 TACAGAATTACCATTT
* * ******
49354991 TACTCTCGATTTATAGAATTATTGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACAAAAATACCCTCGATTTATAGAATTACTGTTTTACCCTCGATT
* *
49355056 TACAGAATTGCCGTTT
66 TACAGAATTACCATTT
*
49355072 TACCCTCGATTTACAAAATTACAAAAATACCCT
1 TACCCTCGATTTATAAAATTACAAAAATACCCT
49355105 TGGTTTACAA
Statistics
Matches: 90, Mismatches: 24, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
81 90 1.00
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACAAAAATACCCTCGATTTATAGAATTACTGTTTTACCCTCGATT
TACAGAATTACCATTT
Found at i:49355157 original size:81 final size:81
Alignment explanation
Indices: 49355072--49355238 Score: 194
Period size: 81 Copynumber: 2.1 Consensus size: 81
49355062 ATTGCCGTTT
* *
49355072 TACCCTC-GATTTACAAAATTACAAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGAT
1 TACCCTCTGATTTACAAAATTACAAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTCGAT
49355136 CAGTAAAATTACCAAAA
66 CAGTAAAA-TACCAAAA
* ** * ** *
49355153 TACCC-CTGGTTTGTAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGAT
1 TACCCTCTGATTTACAAAATTACAAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTCGAT
** **
49355217 TTGTAAAATACTGAAA
66 CAGTAAAATACCAAAA
49355233 TACCCT
1 TACCCT
49355239 TGTAGGGTAG
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
80 12 0.17
81 59 0.83
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (81 bp):
TACCCTCTGATTTACAAAATTACAAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTCGAT
CAGTAAAATACCAAAA
Found at i:49355220 original size:54 final size:55
Alignment explanation
Indices: 49355086--49355237 Score: 193
Period size: 54 Copynumber: 2.8 Consensus size: 55
49355076 CTCGATTTAC
* ** * *
49355086 AAAATTACAAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCCTAGATCAGT
* **
49355140 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTAG-TTTGT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCCTAGATCAGT
* *
49355194 AAAATTACCAAAATACCCTTGATTTGTAAAA-TACTGAAATACCC
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCC
49355238 TTGTAGGGTA
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 12 0.14
54 69 0.80
55 5 0.06
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (55 bp):
AAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCCTAGATCAGT
Found at i:49355263 original size:27 final size:27
Alignment explanation
Indices: 49355225--49355444 Score: 278
Period size: 27 Copynumber: 8.1 Consensus size: 27
49355215 ATTTGTAAAA
49355225 TACTGAAATACCCTTGTAGGGTAGAAT
1 TACTGAAATACCCTTGTAGGGTAGAAT
* * *
49355252 TACTAAAATACCCTTGTAAGGTAGAAA
1 TACTGAAATACCCTTGTAGGGTAGAAT
** * *
49355279 TACCAAAATACCCCTATAGGGTAGAAT
1 TACTGAAATACCCTTGTAGGGTAGAAT
* *
49355306 TACTGAAATACCCTTATAAGGTAGAAT
1 TACTGAAATACCCTTGTAGGGTAGAAT
* *
49355333 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCTTGTAGGGTAGAAT
* *
49355360 TACTGAAATACCCCTATAGGGTAGAAT
1 TACTGAAATACCCTTGTAGGGTAGAAT
* *
49355387 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACTGAAATACCCTTGTAGGGTAGAAT
** *
49355414 TACTGAAATACCCCCGTAGGGTAGAAC
1 TACTGAAATACCCTTGTAGGGTAGAAT
49355441 TACT
1 TACT
49355445 CTGATACCAT
Statistics
Matches: 167, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 167 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
TACTGAAATACCCTTGTAGGGTAGAAT
Found at i:49355342 original size:81 final size:81
Alignment explanation
Indices: 49355225--49355439 Score: 313
Period size: 81 Copynumber: 2.7 Consensus size: 81
49355215 ATTTGTAAAA
* *
49355225 TACTGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCTTGTAAGGTAGAAATACCAAAATAC
1 TACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAAATACCAAAATAC
49355290 CCCTATAGGGTAGAAT
66 CCCTATAGGGTAGAAT
* * * * * **
49355306 TACTGAAATACCCTTATAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATAC
1 TACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAAATACCAAAATAC
49355371 CCCTATAGGGTAGAAT
66 CCCTATAGGGTAGAAT
* * * *
49355387 TACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCCGTAGGGTAGAA
1 TACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAA
49355440 CTACTCTGAT
Statistics
Matches: 119, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 119 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (81 bp):
TACTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAAATACCAAAATAC
CCCTATAGGGTAGAAT
Found at i:49355735 original size:24 final size:25
Alignment explanation
Indices: 49355675--49355740 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
49355665 AGGAAGTGCT
*
49355675 AAAACGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
49355700 AAAAGGGCTTTGCCCCAGTTTACC-
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
49355724 GAAAGGGGTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
49355741 ATTATTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
24 15 0.39
25 23 0.61
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:49357693 original size:23 final size:23
Alignment explanation
Indices: 49357666--49357922 Score: 290
Period size: 23 Copynumber: 11.2 Consensus size: 23
49357656 GGAATCTATA
* * *
49357666 GGCTACATTTTAGTGGTAGCTTT
1 GGCTACAATATAGTGGTAGCTTC
*
49357689 GGCTACAATATAATGGTAGC-TC
1 GGCTACAATATAGTGGTAGCTTC
*
49357711 TGGCTAC-ATCTCAGTGGTAGCTTC
1 -GGCTACAATAT-AGTGGTAGCTTC
* * *
49357735 GGCTACAATACAGTGCTAGCTTT
1 GGCTACAATATAGTGGTAGCTTC
49357758 GGCTACAATATAGTGGTAGCTTC
1 GGCTACAATATAGTGGTAGCTTC
49357781 GGCTAC-ATATCAGTGGTAGCTTC
1 GGCTACAATAT-AGTGGTAGCTTC
* * *
49357804 AGCTAAAATACAGTGGTAGCTTC
1 GGCTACAATATAGTGGTAGCTTC
*
49357827 GGCTAC-ATCTTAGTGGTAGCTTC
1 GGCTACAAT-ATAGTGGTAGCTTC
*
49357850 GGCTAC-ATCTTAGTGGTAGCTTC
1 GGCTACAAT-ATAGTGGTAGCTTC
* * *
49357873 GGCGACAATAAAGTGGTAGCTTT
1 GGCTACAATATAGTGGTAGCTTC
49357896 GGCTACAATATAGTGGTAGCTTC
1 GGCTACAATATAGTGGTAGCTTC
49357919 GGCT
1 GGCT
49357923 GCGTTACAGT
Statistics
Matches: 199, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
22 10 0.05
23 180 0.90
24 9 0.05
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.32
Consensus pattern (23 bp):
GGCTACAATATAGTGGTAGCTTC
Found at i:49357943 original size:69 final size:69
Alignment explanation
Indices: 49357677--49357922 Score: 370
Period size: 69 Copynumber: 3.6 Consensus size: 69
49357667 GCTACATTTT
*
49357677 AGTGGTAGCTTTGGCTACAATATAATGGTAGC-TCTGGCTACATCTCAGTGGTAGCTTCGGCTAC
1 AGTGGTAGCTTTGGCTACAATATAGTGGTAGCTTC-GGCTACATCTCAGTGGTAGCTTCGGCTAC
49357741 AATAC
65 AATAC
* * * *
49357746 AGTGCTAGCTTTGGCTACAATATAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCAGCTAAA
1 AGTGGTAGCTTTGGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTAGCTTCGGCTACA
49357811 ATAC
66 ATAC
* * * *
49357815 AGTGGTAGCTTCGGCTAC-ATCTTAGTGGTAGCTTCGGCTACATCTTAGTGGTAGCTTCGGCGAC
1 AGTGGTAGCTTTGGCTACAAT-ATAGTGGTAGCTTCGGCTACATCTCAGTGGTAGCTTCGGCTAC
*
49357879 AATAA
65 AATAC
49357884 AGTGGTAGCTTTGGCTACAATATAGTGGTAGCTTCGGCT
1 AGTGGTAGCTTTGGCTACAATATAGTGGTAGCTTCGGCT
49357923 GCGTTACAGT
Statistics
Matches: 158, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
68 2 0.01
69 152 0.96
70 4 0.03
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (69 bp):
AGTGGTAGCTTTGGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTAGCTTCGGCTACA
ATAC
Found at i:49364356 original size:23 final size:23
Alignment explanation
Indices: 49364083--49364360 Score: 312
Period size: 23 Copynumber: 12.1 Consensus size: 23
49364073 TACATTTCAA
*
49364083 TGGTAGCTTTGGCTAC-ATCTCAG
1 TGGTAGCTTTGGCTACAAT-ACAG
*
49364106 TGGTAGCTTCGGCTACAATACAG
1 TGGTAGCTTTGGCTACAATACAG
** * *
49364129 TGGTAGCTTCAGCTGCAATATAG
1 TGGTAGCTTTGGCTACAATACAG
* * *
49364152 TGGTAGCTTCGACTAC-ATCTCAG
1 TGGTAGCTTTGGCTACAAT-ACAG
*
49364175 TGGTATCTTTGGCTACAATACAG
1 TGGTAGCTTTGGCTACAATACAG
* *
49364198 TGGTAGATTTGGCTAC-ATCTCAG
1 TGGTAGCTTTGGCTACAAT-ACAG
*
49364221 TGGTAGCTTCGGCTACAATACAG
1 TGGTAGCTTTGGCTACAATACAG
*
49364244 TGGTAGCTTTGGCTAC-ATCTCAG
1 TGGTAGCTTTGGCTACAAT-ACAG
49364267 TGGTAGCTTTGGCTACAATACAG
1 TGGTAGCTTTGGCTACAATACAG
49364290 TGGTAGCTTTGGCTACAATACAG
1 TGGTAGCTTTGGCTACAATACAG
* **
49364313 TGGTAGCTTCGGCTACGTTACAG
1 TGGTAGCTTTGGCTACAATACAG
* * *
49364336 TGATAGCTTTGGCTATATTACAG
1 TGGTAGCTTTGGCTACAATACAG
49364359 TG
1 TG
49364361 TGGCACTTTG
Statistics
Matches: 218, Mismatches: 30, Indels: 14
0.83 0.11 0.05
Matches are distributed among these distances:
22 6 0.03
23 204 0.94
24 8 0.04
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (23 bp):
TGGTAGCTTTGGCTACAATACAG
Found at i:49371780 original size:42 final size:42
Alignment explanation
Indices: 49371663--49371817 Score: 177
Period size: 42 Copynumber: 3.7 Consensus size: 42
49371653 TACTATAACA
* * *
49371663 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATCG
* * * *
49371705 ATGCCAATAGCCCAGCTATGGTCTTACATGAAGTATCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* * *
49371748 ATGCCATATCCTAGATATGGTCTTACACGAAGTCCCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* *
49371790 ATGCCATATCCTAGATATGGTATTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
49371818 ATAGTCTTAG
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
42 62 0.63
43 35 0.36
44 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:49375318 original size:43 final size:43
Alignment explanation
Indices: 49375270--49375416 Score: 154
Period size: 43 Copynumber: 3.4 Consensus size: 43
49375260 ATCAAGTTGT
*
49375270 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* * * *
49375313 GATTACGTGTAAGACAATGTCTGGGACATTAGCATCATATT-A
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* * * * * *
49375355 TGATTTCGTGTAAGACCTTGTCTAGGACAGTGGCATCG-ATATGT
1 -GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGA
*
49375399 GATAACATGTAAGACCAT
1 GATTACATGTAAGACCAT
49375417 ATATAGGATA
Statistics
Matches: 84, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
42 3 0.04
43 81 0.96
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:49378367 original size:79 final size:80
Alignment explanation
Indices: 49378183--49378429 Score: 297
Period size: 79 Copynumber: 3.1 Consensus size: 80
49378173 CGGATGATAA
* * *
49378183 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TGGCTA-ATTCCGGGCTAAGTCCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGCT-ACTATA-TCCGGGCTAAGTCCCGAAGGCAT
* * *
49378245 TCGTGCGAGCTACTATAT
63 TTGTGCTAGTTACTATAT
* * *
49378263 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
49378328 TGCTAGTTATTATA-
66 TGCTAGTTACTATAT
* *
49378342 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* **
49378407 AGCTAGTGGCTATAT
66 TGCTAGTTACTATAT
49378422 CC-GGCTAA
1 CCGGGCTAA
49378430 ACTCCGAAGG
Statistics
Matches: 145, Mismatches: 18, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
79 76 0.52
80 65 0.45
81 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCTAGTTACTATAT
Found at i:49378395 original size:119 final size:120
Alignment explanation
Indices: 49378183--49378406 Score: 335
Period size: 119 Copynumber: 1.9 Consensus size: 120
49378173 CGGATGATAA
* *
49378183 CCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGGCTAATTCCGGGCTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTCG
* * *
49378248 TGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
66 TGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAT
* * * *
49378303 CCGGGCTAAGTCCCGA-AGGCATTTGTGCTAGT-TATTATACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAGA-GCATTTGAGCTAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTC
*
49378366 GTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
65 GTGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
49378407 AGCTAGTGGC
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
119 64 0.69
120 29 0.31
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTCG
TGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAT
Found at i:49378439 original size:39 final size:40
Alignment explanation
Indices: 49378183--49378429 Score: 304
Period size: 40 Copynumber: 6.2 Consensus size: 40
49378173 CGGATGATAA
* **
49378183 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGTTACTATA-T
* * *
49378223 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
* * * *
49378263 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
*
49378303 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
* *
49378342 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
* **
49378382 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
49378422 CC-GGCTAA
1 CCGGGCTAA
49378430 ACTCCGAAGG
Statistics
Matches: 185, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 43 0.23
40 139 0.75
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
Found at i:49386386 original size:40 final size:40
Alignment explanation
Indices: 49386279--49386501 Score: 276
Period size: 40 Copynumber: 5.6 Consensus size: 40
49386269 CGGATGATAA
* * *
49386279 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGCT-ACTATA-T
*
49386319 CCGGGCTAAGT-CCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* *
49386358 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* * *
49386398 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* * *
49386437 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
49386477 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
49386502 AGCTAGTGGC
Statistics
Matches: 165, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 64 0.39
40 101 0.61
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
Found at i:49386500 original size:79 final size:79
Alignment explanation
Indices: 49386278--49386501 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 79
49386268 TCGGATGATA
* * **
49386278 ACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGT-CCGAAGGCAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCAT
*
49386340 TCGTGCGAGCTACTAT
64 TTGTGCGAGCTACTAT
* * * *
49386356 ATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATATCCGGGCTAAGTCCCGAAGGCATT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
* * *
49386421 TGTGTGAGTTATTAT
65 TGTGCGAGCTACTAT
*
49386436 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
49386501 G
66 G
49386502 AGCTAGTGGC
Statistics
Matches: 126, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
79 99 0.79
80 26 0.21
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (79 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGCTACTAT
Found at i:49386534 original size:79 final size:79
Alignment explanation
Indices: 49386319--49386524 Score: 258
Period size: 79 Copynumber: 2.6 Consensus size: 79
49386309 GTGGCTAATT
* * *
49386319 CCGGGCTAAGT-CCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* * *
49386383 TGCGAGCTATTATAT
65 TGCAAGCTACTATAA
*
49386398 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TACTATATCCGGGCTAAGTCCCGAAGGCATTT
*
49386461 GTGCAAGTTACTATAA
64 GTGCAAGCTACTATAA
* *
49386477 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-ACTATATCCGGGCTAA
49386525 ACTCCGAAGG
Statistics
Matches: 110, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 84 0.76
80 25 0.23
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCAAGCTACTATAA
Found at i:49391047 original size:27 final size:25
Alignment explanation
Indices: 49391013--49391087 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 25
49391003 TCATTACGGA
49391013 GTTTGCCACAAAGGCATTCATTTCAT
1 GTTTGCCACAAAGGC-TTCATTTCAT
* **
49391039 GTTTCGCCACAAGGGCTTTTTTTCAT
1 GTTT-GCCACAAAGGCTTCATTTCAT
*
49391065 ATTATGCCACAAAGGCTATCATT
1 GTT-TGCCACAAAGGCT-TCATT
49391088 GCAGGGTTCG
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
26 25 0.64
27 14 0.36
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (25 bp):
GTTTGCCACAAAGGCTTCATTTCAT
Found at i:49392626 original size:29 final size:29
Alignment explanation
Indices: 49392594--49392652 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
49392584 TAAGTCATTG
49392594 GACGGATTATACTTTGCCAGACAAACTAT
1 GACGGATTATACTTTGCCAGACAAACTAT
49392623 GACGGATTATACTTTGCCAGACAAACTAT
1 GACGGATTATACTTTGCCAGACAAACTAT
49392652 G
1 G
49392653 TTACTACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (29 bp):
GACGGATTATACTTTGCCAGACAAACTAT
Found at i:49400155 original size:26 final size:26
Alignment explanation
Indices: 49400124--49400231 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
49400114 TGAAATGCCC
*
49400124 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
49400150 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
49400176 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
49400202 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
49400228 ATCA
1 ATCA
49400232 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:49401350 original size:6 final size:6
Alignment explanation
Indices: 49401311--49401340 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
49401301 TTATTAGTAA
49401311 TTATTT TTATTT TTATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
49401341 ACTTTTACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:49401389 original size:22 final size:24
Alignment explanation
Indices: 49401361--49401404 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
49401351 GGCACGTTAT
49401361 TTTTTGTTC-TGT-TTCTTCTTGG
1 TTTTTGTTCTTGTGTTCTTCTTGG
49401383 TTTTTGTTCTTGTGTTCTTCTT
1 TTTTTGTTCTTGTGTTCTTCTT
49401405 TTTGCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.45
23 3 0.15
24 8 0.40
ACGTcount: A:0.00, C:0.14, G:0.16, T:0.70
Consensus pattern (24 bp):
TTTTTGTTCTTGTGTTCTTCTTGG
Found at i:49403092 original size:21 final size:21
Alignment explanation
Indices: 49403068--49403107 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49403058 CTGCAATATC
*
49403068 TATTTGACTATTTGATTGAAT
1 TATTTGACTATCTGATTGAAT
*
49403089 TATTTGACTGTCTGATTGA
1 TATTTGACTATCTGATTGA
49403108 TTGAGGAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.07, G:0.17, T:0.50
Consensus pattern (21 bp):
TATTTGACTATCTGATTGAAT
Found at i:49408466 original size:18 final size:20
Alignment explanation
Indices: 49408430--49408476 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
49408420 TTGTAAGTAT
49408430 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
49408450 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
49408469 ATGATATA
1 AT-ATATA
49408477 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:49408900 original size:50 final size:50
Alignment explanation
Indices: 49408841--49409067 Score: 210
Period size: 50 Copynumber: 4.5 Consensus size: 50
49408831 TGTGCAGTGA
*
49408841 TAAGTGCAGGCTACTACGCGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TAAGTGCAGGCTACTACGCGTACCAGATTGATAGGTCACATGTGTAGTAC
* * * * * * *
49408891 TAAGTGCAGGCTACTATGCGTTCCCG-TTAACTTCGATCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGCGTACCAGATTGA--TAGGTCACATGTGTAGTAC
* * * * * *
49408942 TAAGTGCAGGCTAATACGTGTATCA-AATGGTCAAGTCACATGTGTAGTAC
1 TAAGTGCAGGCTACTACGCGTACCAGATTGAT-AGGTCACATGTGTAGTAC
* ** *
49408992 T-AGTACAGGAAACTAC-CTATACCAGATTGATAGGTCACATGTGTAGTAC
1 TAAGTGCAGGCTACTACGC-GTACCAGATTGATAGGTCACATGTGTAGTAC
* *
49409041 TAAGTGCAGGCTACTATGCATACCAGA
1 TAAGTGCAGGCTACTACGCGTACCAGA
49409068 GAGCTTCGGT
Statistics
Matches: 134, Mismatches: 35, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
49 37 0.28
50 61 0.46
51 36 0.27
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (50 bp):
TAAGTGCAGGCTACTACGCGTACCAGATTGATAGGTCACATGTGTAGTAC
Found at i:49409288 original size:16 final size:16
Alignment explanation
Indices: 49409267--49409298 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49409257 AGAATGGAGT
49409267 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
49409283 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
49409299 TAAAACAATT
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:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:49419925 original size:34 final size:34
Alignment explanation
Indices: 49419886--49419953 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
49419876 CTAGGGGAAA
49419886 AAATGTAAATATGCAAAAGTTTAGGGGCAAAATT
1 AAATGTAAATATGCAAAAGTTTAGGGGCAAAATT
49419920 AAATGTAAATATGCAAAAGTTTAGGGGCAAAATT
1 AAATGTAAATATGCAAAAGTTTAGGGGCAAAATT
49419954 GTAATTTTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (34 bp):
AAATGTAAATATGCAAAAGTTTAGGGGCAAAATT
Found at i:49420544 original size:93 final size:92
Alignment explanation
Indices: 49420386--49420556 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
49420376 GGATGGTTGA
* *
49420386 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
49420451 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
49420478 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49420543 TGAGTCCGAGTTCG
65 TGAGTCCGAGTTCG
49420557 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 24 0.32
93 51 0.68
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49420554 original size:46 final size:46
Alignment explanation
Indices: 49420390--49420563 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
49420380 GGTTGAGCAT
* *
49420390 CCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
49420435 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
49420480 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
49420528 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49420564 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 23 0.21
46 41 0.38
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:49427998 original size:46 final size:46
Alignment explanation
Indices: 49427948--49428123 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
49427938 TGGTTGAGCA
49427948 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49427994 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
49428039 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49428087 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49428124 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:49428104 original size:93 final size:93
Alignment explanation
Indices: 49427945--49428116 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
49427935 GGATGGTTGA
* *
49427945 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49428010 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
49428038 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49428103 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
49428117 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49434400 original size:19 final size:19
Alignment explanation
Indices: 49434350--49434408 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
49434340 TAATAACAAT
* *
49434350 AATAGTAATAAAAAACTAA
1 AATAATAATAAAAAAATAA
*
49434369 TACTAA-AATTAAAAAAATAA
1 -AATAATAA-TAAAAAAATAA
*
49434389 AATAATAATAAATAAATAA
1 AATAATAATAAAAAAATAA
49434408 A
1 A
49434409 TCAACAAACA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (19 bp):
AATAATAATAAAAAAATAA
Found at i:49438259 original size:20 final size:20
Alignment explanation
Indices: 49438208--49438259 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
49438198 ATTAAAATGT
49438208 AAAA-ACTAAATAAAAAACA
1 AAAATACTAAATAAAAAACA
* *
49438227 AAAATATTGAAAT-AAAAATA
1 AAAATACT-AAATAAAAAACA
49438247 AAAATGACTAAAT
1 AAAAT-ACTAAAT
49438260 TAATATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 4 0.15
20 17 0.63
21 6 0.22
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.19
Consensus pattern (20 bp):
AAAATACTAAATAAAAAACA
Found at i:49444002 original size:34 final size:35
Alignment explanation
Indices: 49443946--49444029 Score: 131
Period size: 34 Copynumber: 2.5 Consensus size: 35
49443936 TTTTTTAATA
49443946 TAATT-AAAT-TTCATAATTATTTTTGTACACTTT
1 TAATTCAAATATTCATAATTATTTTTGTACACTTT
*
49443979 TGATTCAAATATTC-TAATTATTTTTGTACACTTT
1 TAATTCAAATATTCATAATTATTTTTGTACACTTT
49444013 TAATTCAAATATT-ATAA
1 TAATTCAAATATTCATAA
49444030 CATTTTTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
33 4 0.09
34 39 0.85
35 3 0.07
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.51
Consensus pattern (35 bp):
TAATTCAAATATTCATAATTATTTTTGTACACTTT
Found at i:49448627 original size:33 final size:32
Alignment explanation
Indices: 49448590--49448660 Score: 83
Period size: 34 Copynumber: 2.2 Consensus size: 32
49448580 TCAGTCGTAA
49448590 TATCA-ATGTGGCCTTAGCCCAAT-ACAGTATCAG
1 TATCAGATG-GGCCTTAGCCC-ATCACAGTA-CAG
*
49448623 TATCAGTATGGGCCTTAGCCCATCTCAGTACAG
1 TATCAG-ATGGGCCTTAGCCCATCACAGTACAG
49448656 TATCA
1 TATCA
49448661 TAAATGCATA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
33 15 0.44
34 16 0.47
35 3 0.09
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (32 bp):
TATCAGATGGGCCTTAGCCCATCACAGTACAG
Found at i:49448722 original size:22 final size:23
Alignment explanation
Indices: 49448683--49448726 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
49448673 AAGATCCTAC
*
49448683 CCATCCATCCTCTACACTCCACT
1 CCATCCAGCCTCTACACTCCACT
49448706 CCATCCAGCC-CTACACTCCAC
1 CCATCCAGCCTCTACACTCCAC
49448727 GTGGGGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.23, C:0.55, G:0.02, T:0.20
Consensus pattern (23 bp):
CCATCCAGCCTCTACACTCCACT
Found at i:49451219 original size:13 final size:14
Alignment explanation
Indices: 49451201--49451234 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
49451191 GCTTTGGACT
49451201 TTTTGGCTTTT-AA
1 TTTTGGCTTTTGAA
49451214 TTTTGGCTTTTGAA
1 TTTTGGCTTTTGAA
49451228 TTGTTGG
1 TT-TTGG
49451235 TGTTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 4 0.21
15 4 0.21
ACGTcount: A:0.12, C:0.06, G:0.24, T:0.59
Consensus pattern (14 bp):
TTTTGGCTTTTGAA
Found at i:49452881 original size:25 final size:26
Alignment explanation
Indices: 49452839--49452891 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
49452829 TGAATATAAG
*
49452839 TAAAATTTTGAAAATTTCATATTTAAA
1 TAAAATTTTG-AAATTTCAAATTTAAA
*
49452866 TAAAATTTTG-ACTTTCAAATTTAAA
1 TAAAATTTTGAAATTTCAAATTTAAA
49452891 T
1 T
49452892 TCTTGTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 14 0.58
27 10 0.42
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (26 bp):
TAAAATTTTGAAATTTCAAATTTAAA
Found at i:49457269 original size:42 final size:44
Alignment explanation
Indices: 49457169--49457271 Score: 140
Period size: 43 Copynumber: 2.4 Consensus size: 44
49457159 AGCTTGTACA
* * *
49457169 ATGCCAACGTCCCAGAC-GTGGTCTTTCATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAGTGGTCTTGCATGAAATCAAATATCG
* *
49457212 ATGCCACTGTCCCAGACAG-GGTCTTGCATGAAATCATATA-CG
1 ATGCCAATGTCCCAGACAGTGGTCTTGCATGAAATCAAATATCG
49457254 ATGCCAATGTCCCAGACA
1 ATGCCAATGTCCCAGACA
49457272 ATGTCCCAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 19 0.36
43 33 0.62
44 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACAGTGGTCTTGCATGAAATCAAATATCG
Found at i:49457275 original size:12 final size:12
Alignment explanation
Indices: 49457258--49457283 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49457248 TATACGATGC
49457258 CAATGTCCCAGA
1 CAATGTCCCAGA
49457270 CAATGTCCCAGA
1 CAATGTCCCAGA
49457282 CA
1 CA
49457284 TGGTCTTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.35, G:0.15, T:0.15
Consensus pattern (12 bp):
CAATGTCCCAGA
Found at i:49457324 original size:56 final size:54
Alignment explanation
Indices: 49457219--49457325 Score: 151
Period size: 54 Copynumber: 1.9 Consensus size: 54
49457209 TCGATGCCAC
* * * *
49457219 TGTCCCAGACAGGGTCTTGCATGAAATCATATACGATGCCAATGTCCCAGACAA
1 TGTCCCAGACAGGGTCTTACACGAAATCACAAACGATGCCAATGTCCCAGACAA
*
49457273 TGTCCCAGACATGGTCTTACACGTAAATCACAAATCGATGCCAATGTCCCAGA
1 TGTCCCAGACAGGGTCTTACACG-AAATCACAAA-CGATGCCAATGTCCCAGA
49457326 TGTGGTCTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 20 0.43
55 8 0.17
56 18 0.39
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (54 bp):
TGTCCCAGACAGGGTCTTACACGAAATCACAAACGATGCCAATGTCCCAGACAA
Found at i:49463715 original size:50 final size:50
Alignment explanation
Indices: 49463612--49463835 Score: 175
Period size: 50 Copynumber: 4.5 Consensus size: 50
49463602 TAGTACGCAG
* * * * * * *
49463612 AGTAG-CTAGCACTTAGTACTACACATGCGACC-AACAATCCGGTACACGT
1 AGTAGCCT-GCACTTAGTACCACACACGTGACCTAACTATCTGATACACAT
* * *
49463661 AGTAGCCTGCACTTAGTACCATACACGTGACCTAACCATCTGATACACTT
1 AGTAGCCTGCACTTAGTACCACACACGTGACCTAACTATCTGATACACAT
* * * * * * * * *
49463711 AGTAGCCTGCACTCAGTACTACACACGTGA-TTGAAGTTGTCGGGTTCGCAT
1 AGTAGCCTGCACTTAGTACCACACACGTGACCT-AA-CTATCTGATACACAT
* * * * *
49463762 AGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGCTACACCT
1 AGTAGCCTGCACTTAGTACCACACACGTGACCTAACTATCTGATACACAT
*
49463812 AGTAGCCTGCACTTAGTACTACAC
1 AGTAGCCTGCACTTAGTACCACAC
49463836 GTGTTCTTAC
Statistics
Matches: 139, Mismatches: 31, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
49 26 0.19
50 76 0.55
51 36 0.26
52 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (50 bp):
AGTAGCCTGCACTTAGTACCACACACGTGACCTAACTATCTGATACACAT
Found at i:49466568 original size:15 final size:14
Alignment explanation
Indices: 49466545--49466589 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
49466535 AGAAAGCTAG
49466545 AATATAGAAATCCAA
1 AATA-AGAAATCCAA
*
49466560 CATAAAGAAATCCAA
1 AAT-AAGAAATCCAA
49466575 AATAAGAAAATCCAA
1 AATAAG-AAATCCAA
49466590 TCAGACTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 3 0.12
15 22 0.85
16 1 0.04
ACGTcount: A:0.62, C:0.16, G:0.07, T:0.16
Consensus pattern (14 bp):
AATAAGAAATCCAA
Found at i:49475385 original size:25 final size:25
Alignment explanation
Indices: 49475356--49475403 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
49475346 TTATAACATG
* * *
49475356 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
49475381 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
49475404 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:49475472 original size:20 final size:20
Alignment explanation
Indices: 49475449--49475505 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
49475439 AACATGGTAT
49475449 GTATGATATGCACATGACAC
1 GTATGATATGCACATGACAC
49475469 GTATGATATGCACATGACAC
1 GTATGATATGCACATGACAC
49475489 GTATGATATGCACATGA
1 GTATGATATGCACATGA
49475506 GGTATTCATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (20 bp):
GTATGATATGCACATGACAC
Found at i:49475583 original size:24 final size:24
Alignment explanation
Indices: 49475556--49475795 Score: 374
Period size: 24 Copynumber: 10.0 Consensus size: 24
49475546 GAGGAAGTGC
* *
49475556 AAAAGGGCTTATGCTCCAGTGATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
49475580 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
49475604 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
49475628 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
49475652 GAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
49475676 AAAAGGGCTTATACCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
49475700 GAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
49475724 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
49475748 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
49475772 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
49475796 ATGATAAAGC
Statistics
Matches: 199, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
24 188 0.94
25 11 0.06
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:49484820 original size:85 final size:84
Alignment explanation
Indices: 49484708--49485076 Score: 346
Period size: 85 Copynumber: 4.3 Consensus size: 84
49484698 CAAAAGTTCA
*
49484708 CGGCGTTTTTTACAAAAGCGCCGCTAAAGACCAGGACCTTTAGCGGCGCTCATAAAAAAACGCCG
1 CGGCGTTTTTTA-AAAAGCGCCGCTAAAGACCAGGACCTTTAGCGGCGCTCTTAAAAAAACGCCG
*
49484773 CTAAAGACCAGGACCTATAG
65 CCAAAGACCAGGACCTATAG
* * *
49484793 CGGCATTTTTTATAAAAGCGCCGCTAAAGACCAGGACCTTTAGCGGCGCTCTTAAAAAACCGCCA
1 CGGCGTTTTTTA-AAAAGCGCCGCTAAAGACCAGGACCTTTAGCGGCGCTCTTAAAAAAACGCCG
** *
49484858 CCAAAGAAGAGGACCTACAG
65 CCAAAGACCAGGACCTATAG
* ** * * * * *
49484878 CGGCGTTTTTTAAAAAAGTGCCGCTAAAAGTA-CA-GTTCTATAGCGGCGTTTTTTATAAAAGCG
1 CGGCGTTTTTT-AAAAAGCGCCGCT-AAAG-ACCAGGACCTTTAGCGGCG-CTCTTAAAAAAACG
* *
49484941 CCTCCAAAGACCAGGACCTTTAG
62 CCGCCAAAGACCAGGACCTATAG
* * * * * *
49484964 CGGCGCTTATTTAAAAAACGCCGCTATAGACCAAGAACTTTAGCGGCGCTTTTATAAAAAACGCC
1 CGGCG-TTTTTTAAAAAGCGCCGCTAAAGACCAGGACCTTTAGCGGCGCTCTTA-AAAAAACGCC
* * * * * *
49485029 GCTATAGACCTGTACTTTTAG
64 GCCAAAGACCAGGACCTATAG
* * *
49485050 CGTCGCTTTTGTAAAAAACGCCGCTAA
1 CGGCG-TTTTTTAAAAAGCGCCGCTAA
49485077 TTTGCTCAGT
Statistics
Matches: 233, Mismatches: 43, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
84 1 0.00
85 118 0.51
86 108 0.46
87 6 0.03
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (84 bp):
CGGCGTTTTTTAAAAAGCGCCGCTAAAGACCAGGACCTTTAGCGGCGCTCTTAAAAAAACGCCGC
CAAAGACCAGGACCTATAG
Found at i:49484829 original size:43 final size:42
Alignment explanation
Indices: 49484708--49485076 Score: 280
Period size: 43 Copynumber: 8.6 Consensus size: 42
49484698 CAAAAGTTCA
*
49484708 CGGCGTTTTTTACAAAAGCGCCGCTAAAGACCAGGACCTTTAG
1 CGGC-TTTTTTAAAAAAGCGCCGCTAAAGACCAGGACCTTTAG
** ** * *
49484751 CGGCGCTCATAAAAAAACGCCGCTAAAGACCAGGACCTATAG
1 CGGCTTTTTTAAAAAAGCGCCGCTAAAGACCAGGACCTTTAG
*
49484793 CGGCATTTTTTATAAAAGCGCCGCTAAAGACCAGGACCTTTAG
1 CGGC-TTTTTTAAAAAAGCGCCGCTAAAGACCAGGACCTTTAG
** * * * * ** **
49484836 CGGCGCTCTTAAAAAACCGCCACCAAAGAAGAGGACCTACAG
1 CGGCTTTTTTAAAAAAGCGCCGCTAAAGACCAGGACCTTTAG
* ** *
49484878 CGGCGTTTTTTAAAAAAGTGCCGCTAAAAGTA-CA-GTTCTATAG
1 CGGC-TTTTTTAAAAAAGCGCCGCT-AAAG-ACCAGGACCTTTAG
* * *
49484921 CGGCGTTTTTTATAAAAGCGCCTCCAAAGACCAGGACCTTTAG
1 CGGC-TTTTTTAAAAAAGCGCCGCTAAAGACCAGGACCTTTAG
* * * *
49484964 CGGCGCTTATTTAAAAAA-CGCCGCTATAGACCAAGAACTTTAG
1 C-G-GCTTTTTTAAAAAAGCGCCGCTAAAGACCAGGACCTTTAG
* * * * *
49485007 CGGCGCTTTTATAAAAAA-CGCCGCTATAGACCTGTACTTTTAG
1 C-G-GCTTTTTTAAAAAAGCGCCGCTAAAGACCAGGACCTTTAG
*
49485050 CGTCGCTTTTGTAAAAAA-CGCCGCTAA
1 CG--GCTTTTTTAAAAAAGCGCCGCTAA
49485077 TTTGCTCAGT
Statistics
Matches: 258, Mismatches: 59, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
41 1 0.00
42 73 0.28
43 165 0.64
44 16 0.06
45 3 0.01
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (42 bp):
CGGCTTTTTTAAAAAAGCGCCGCTAAAGACCAGGACCTTTAG
Found at i:49485017 original size:128 final size:128
Alignment explanation
Indices: 49484708--49485032 Score: 370
Period size: 128 Copynumber: 2.5 Consensus size: 128
49484698 CAAAAGTTCA
* * **
49484708 CGGCGTTTTTTACAAAAGCGCCGCTAAAGACCAGGACCTTTAGCGGCGCTCATAAAAAAACGCCG
1 CGGCGCTTTTTA-AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTAAAAAAACGCCG
*
49484773 CT-AAAGACCAGGACCTATAGCGGCATTTTTTATAAAAGCGCCGCTAAAGACCAGGACCTTTAG
65 CTAAAAGACCAGGACCTATAGCGGCATTTTTTATAAAAGCGCCGCCAAAGACCAGGACCTTTAG
* * * ** ** * **
49484836 CGGCGC-TCTTAAAAAACCGCCACCAAAGAAGAGGACCTACAGCGGCGTTTTTTAAAAAAGTGCC
1 CGGCGCTTTTTAAAAAA-CGCCGCTAAAGACCAGGACCTTTAGCGGCG-CTTTTAAAAAAACGCC
** * *
49484900 GCTAAAAGTA-CA-GTTCTATAGCGGCGTTTTTTATAAAAGCGCCTCCAAAGACCAGGACCTTTA
64 GCTAAAAG-ACCAGGACCTATAGCGGCATTTTTTATAAAAGCGCCGCCAAAGACCAGGACCTTTA
49484963 G
128 G
* * *
49484964 CGGCGCTTATTTAAAAAACGCCGCTATAGACCAAGAACTTTAGCGGCGCTTTTATAAAAAACGCC
1 CGGCGCTT-TTTAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTA-AAAAAACGCC
49485029 GCTA
64 GCTA
49485033 TAGACCTGTA
Statistics
Matches: 158, Mismatches: 32, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
126 4 0.03
127 28 0.18
128 77 0.49
129 40 0.25
130 9 0.06
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.22
Consensus pattern (128 bp):
CGGCGCTTTTTAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTAAAAAAACGCCGC
TAAAAGACCAGGACCTATAGCGGCATTTTTTATAAAAGCGCCGCCAAAGACCAGGACCTTTAG
Found at i:49485401 original size:21 final size:21
Alignment explanation
Indices: 49485377--49485421 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
49485367 GTTCTGCTCC
*
49485377 GCCTCCCTCGCTGCTGCCTCT
1 GCCTCCCTCACTGCTGCCTCT
*
49485398 GCCTCCCTCACTGCTTCCTCT
1 GCCTCCCTCACTGCTGCCTCT
49485419 GCC
1 GCC
49485422 CTAAGTTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.53, G:0.16, T:0.29
Consensus pattern (21 bp):
GCCTCCCTCACTGCTGCCTCT
Found at i:49486008 original size:18 final size:18
Alignment explanation
Indices: 49485976--49486013 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
49485966 TACAATATAG
49485976 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
49485995 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
49486012 TA
1 TA
49486014 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:49491599 original size:21 final size:21
Alignment explanation
Indices: 49491560--49491599 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49491550 AAATTAATTC
*
49491560 ATACTTAAGTTCAATCAAATA
1 ATACTTAAGTTCAACCAAATA
*
49491581 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTCAACCAAA
49491600 ATATAAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTCAACCAAATA
Found at i:49492059 original size:21 final size:21
Alignment explanation
Indices: 49492020--49492059 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49492010 AAATTAATTC
*
49492020 ATACTTAAGTTCAATCAAATA
1 ATACTTAAGTTCAACCAAATA
*
49492041 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTCAACCAAA
49492060 ATATAAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTCAACCAAATA
Found at i:49492436 original size:461 final size:461
Alignment explanation
Indices: 49491201--49492439 Score: 2291
Period size: 460 Copynumber: 2.7 Consensus size: 461
49491191 TAATATAACA
* * *
49491201 AAATTTTAAAGACATTTAAAAATAATAGCGATATTAAAATCAAACATGTTTAATATAAAAAAAAT
1 AAATTTTAAAGACATTTAAAAATAATA--AATATTAAAATCATACATGTTTAATATAACAAAAAT
* * *
49491266 AGTAATTTGAATATTATAATATCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAACTGGAAAT
64 AGTAATTTGAATATAATAATGTCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAACTTGAAAT
*
49491331 AGATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAA
129 AAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAA
*
49491396 GATTCATCATACGTGGCGTTGTTAAACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAG
194 GATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAG
49491461 GCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGAC
259 GCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGAC
49491526 AAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTAAGTTCAATCAAATAATACTTAAGT
324 AAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTAAGTTCAATCAAATAATACTTAAGT
49491591 TGAACCAAAATATAAAAACTTATTCATACTTCAAATAATAATTAATAATACTATTTTGATAAAAA
389 TGAACCAAAATATAAAAACTTATTCATACTTCAAATAATAATTAATAATACTATTTTGATAAAAA
49491656 TTAGTTAT
454 TTAGTTAT
49491664 AAATTTTAAAGACATTTAAAAATAATAAATATTAAAATCATACATGTTTAATATAAC-AAAATAG
1 AAATTTTAAAGACATTTAAAAATAATAAATATTAAAATCATACATGTTTAATATAACAAAAATAG
49491728 TAATTTGAATATAATAATGTCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAACTTGAAATAA
66 TAATTTGAATATAATAATGTCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAACTTGAAATAA
* *
49491793 ATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTCTGATTTTTTTAAGA
131 ATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGA
* *
49491858 TTCATCATACGTGGTGTTGTTACACCTAGGGAGGTTCCATTATATCTTGCAGCTCGATATAAGGC
196 TTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGC
*
49491923 AACCCGTCAGGTTTCCAGCTTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAA
261 AACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAA
49491988 GCAAGCTACATATATGGTAATAAAATTAATTCATACTTAAGTTCAATCAAATAATACTTAAGTTG
326 GCAAGCTACATATATGGTAATAAAATTAATTCATACTTAAGTTCAATCAAATAATACTTAAGTTG
49492053 AACCAAAATATAAAAACTTATTCATACTTCAAATAATAATTAATAATACTATTTTGATAAAAATT
391 AACCAAAATATAAAAACTTATTCATACTTCAAATAATAATTAATAATACTATTTTGATAAAAATT
49492118 AGTTAT
456 AGTTAT
49492124 AAATTTTAAAGACATTTAAAAATAATAAATATTAAAATCATACATGTTTAATATAACAAAAATAG
1 AAATTTTAAAGACATTTAAAAATAATAAATATTAAAATCATACATGTTTAATATAACAAAAATAG
49492189 TAATTTGAATATAATAATGTCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAACTTGAAATAA
66 TAATTTGAATATAATAATGTCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAACTTGAAATAA
* *
49492254 ATTAAGGTTATATAAATATTCAATAGCAATAGAACTTTTTTTAATTCTTTTTGAATTTTTTAAGA
131 ATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGA
* *
49492319 TTCATTATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAACTCGATATAAGGC
196 TTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGC
*
49492384 AACCCGTCAGGTTTCCAGCCTATATACTTTGAATGTTTAAAATATTTAAAATAAGG
261 AACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGG
49492440 TTGGAGAGAC
Statistics
Matches: 752, Mismatches: 23, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
460 450 0.60
461 275 0.37
463 27 0.04
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.36
Consensus pattern (461 bp):
AAATTTTAAAGACATTTAAAAATAATAAATATTAAAATCATACATGTTTAATATAACAAAAATAG
TAATTTGAATATAATAATGTCAAGAAAGAATCGTAGTTTAATTTTTATAAGTAAACTTGAAATAA
ATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGA
TTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGC
AACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAA
GCAAGCTACATATATGGTAATAAAATTAATTCATACTTAAGTTCAATCAAATAATACTTAAGTTG
AACCAAAATATAAAAACTTATTCATACTTCAAATAATAATTAATAATACTATTTTGATAAAAATT
AGTTAT
Found at i:49494364 original size:131 final size:131
Alignment explanation
Indices: 49494130--49494379 Score: 491
Period size: 131 Copynumber: 1.9 Consensus size: 131
49494120 GAATTCAACA
49494130 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
49494195 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATAACAATTTTAT
66 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATAACAATTTTAT
49494260 T
131 T
*
49494261 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATTTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
49494326 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAAT
66 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAAT
49494380 GGAATCACCA
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 118 1.00
ACGTcount: A:0.52, C:0.18, G:0.10, T:0.20
Consensus pattern (131 bp):
ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATAACAATTTTAT
T
Found at i:49497750 original size:14 final size:14
Alignment explanation
Indices: 49497731--49497770 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
49497721 ATTAAACCAG
* *
49497731 CTTAAACCATATAT
1 CTTAAACCATAAAC
49497745 CTTAAACCATAAAC
1 CTTAAACCATAAAC
*
49497759 CTTAAACTATAA
1 CTTAAACCATAA
49497771 TGATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (14 bp):
CTTAAACCATAAAC
Found at i:49497984 original size:41 final size:41
Alignment explanation
Indices: 49497927--49498068 Score: 275
Period size: 41 Copynumber: 3.5 Consensus size: 41
49497917 GGGGTTATAG
49497927 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCCCT
1 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCCCT
49497968 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCCCT
1 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCCCT
*
49498009 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAGTGCCCT
1 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCCCT
49498050 GGTTTTTAGCGGCGTTTTA
1 GGTTTTTAGCGGCGTTTTA
49498069 GTAAAAAACG
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 100 1.00
ACGTcount: A:0.15, C:0.25, G:0.26, T:0.34
Consensus pattern (41 bp):
GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCCCT
Found at i:49508585 original size:43 final size:43
Alignment explanation
Indices: 49508510--49508640 Score: 185
Period size: 43 Copynumber: 3.0 Consensus size: 43
49508500 ACATAGGATT
*
49508510 ATCGATATGTGATTACATATAAGACCACGTCTGGGACGTTGGC
1 ATCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGC
* * *
49508553 ATCGATATGTGATTACGTGTATGACC-CTGTCTGGGAAAG-TGGC
1 ATCGATATGTGATTACATGTAAGACCAC-GTCTGGG-ACGTTGGC
*
49508596 ATTGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGC
1 ATCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGC
49508639 AT
1 AT
49508641 TGTACAATAT
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
42 3 0.04
43 70 0.92
44 3 0.04
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
ATCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGC
Found at i:49511816 original size:31 final size:31
Alignment explanation
Indices: 49511775--49512002 Score: 320
Period size: 31 Copynumber: 7.4 Consensus size: 31
49511765 ACGGTTACTA
49511775 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
* *
49511806 GGACGAAGCCTTTTCATAAATCATATCATTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
49511837 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
* * * * *
49511868 GGCCAAAGCC-TTTCGTTTAA-CGGT-T-ACTA
1 GGCCGAAGCCTTTTC-ATAAATC-ATATCACTG
49511897 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
* *
49511928 GGACGAAGCCTTTTCATAAATCATATCATTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
*
49511959 GGCCGAAGCCTTTTCATAAATCATATCATTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTG
49511990 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
49512003 ACTGTAAACG
Statistics
Matches: 174, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
29 16 0.09
30 12 0.07
31 146 0.84
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTG
Found at i:49511959 original size:122 final size:122
Alignment explanation
Indices: 49511737--49512002 Score: 507
Period size: 122 Copynumber: 2.2 Consensus size: 122
49511727 TCAATCTCGA
49511737 CATAT-ACTGGGCCAAAGCCTTTCGTTTAACGGTTACTAGGCCGAAGCCTTTTCATAAATCATAT
1 CATATCACTGGGCCAAAGCCTTTCGTTTAACGGTTACTAGGCCGAAGCCTTTTCATAAATCATAT
49511801 CACTGGGACGAAGCCTTTTCATAAATCATATCATTGGGCCGAAGCCTTTTCATAAAT
66 CACTGGGACGAAGCCTTTTCATAAATCATATCATTGGGCCGAAGCCTTTTCATAAAT
49511858 CATATCACTGGGCCAAAGCCTTTCGTTTAACGGTTACTAGGCCGAAGCCTTTTCATAAATCATAT
1 CATATCACTGGGCCAAAGCCTTTCGTTTAACGGTTACTAGGCCGAAGCCTTTTCATAAATCATAT
49511923 CACTGGGACGAAGCCTTTTCATAAATCATATCATTGGGCCGAAGCCTTTTCATAAAT
66 CACTGGGACGAAGCCTTTTCATAAATCATATCATTGGGCCGAAGCCTTTTCATAAAT
* *
49511980 CATATCATTGGGCCGAAGCCTTT
1 CATATCACTGGGCCAAAGCCTTT
49512003 ACTGTAAACG
Statistics
Matches: 142, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
121 5 0.04
122 137 0.96
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (122 bp):
CATATCACTGGGCCAAAGCCTTTCGTTTAACGGTTACTAGGCCGAAGCCTTTTCATAAATCATAT
CACTGGGACGAAGCCTTTTCATAAATCATATCATTGGGCCGAAGCCTTTTCATAAAT
Found at i:49512073 original size:42 final size:42
Alignment explanation
Indices: 49512026--49512117 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
49512016 TGGCCCTTAG
49512026 GCCCATTTCAATATCACATGTAATGTCAATAAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATAAATGTATGCAA
*
49512068 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATAAATGTATGCAA
49512110 GCCCATTT
1 GCCCATTT
49512118 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATAAATGTATGCAA
Found at i:49512336 original size:16 final size:16
Alignment explanation
Indices: 49512315--49512345 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49512305 CCCATATCCC
*
49512315 ATGCAATATGTCATGT
1 ATGCAAAATGTCATGT
49512331 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
49512346 CCCATATTTG
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:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:49513122 original size:27 final size:27
Alignment explanation
Indices: 49513092--49513156 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
49513082 GGCCATATTC
*
49513092 GTCATTTTACCATACAAGGG-TATTATG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
49513119 GTCACTTTACCCTACACGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
49513146 GTCTTTTTACC
1 GTCATTTTACC
49513157 TATTAGGGGA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:49513240 original size:27 final size:26
Alignment explanation
Indices: 49513210--49513265 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
49513200 GTAAATCTAC
49513210 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTT-T
*
49513237 AAACCAATGGTATTTCTATAATTTTT
1 AAACCAAGGGTATTTCTATAATTTTT
49513263 AAA
1 AAA
49513266 AAGTCAATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 22 0.81
28 1 0.04
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (26 bp):
AAACCAAGGGTATTTCTATAATTTTT
Found at i:49513310 original size:27 final size:27
Alignment explanation
Indices: 49513278--49513367 Score: 144
Period size: 27 Copynumber: 3.3 Consensus size: 27
49513268 GTCAATGGTA
* * *
49513278 TTGGTAATTTCACAAACCAGTGGTATT
1 TTGGTAATTTTACAAACTAGGGGTATT
*
49513305 TCGGTAATTTTACAAACTAGGGGTATT
1 TTGGTAATTTTACAAACTAGGGGTATT
49513332 TTGGTAATTTTACAAACTAGGGGTATT
1 TTGGTAATTTTACAAACTAGGGGTATT
49513359 TTGGTAATT
1 TTGGTAATT
49513368 CTATCCTTAG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
TTGGTAATTTTACAAACTAGGGGTATT
Found at i:49513386 original size:54 final size:52
Alignment explanation
Indices: 49513278--49513400 Score: 131
Period size: 54 Copynumber: 2.3 Consensus size: 52
49513268 GTCAATGGTA
* *
49513278 TTGGTAATTTCACAAACCAGTGGTATTTCGGTAATTTTACAAACTAGGGGTATT
1 TTGGTAATTTCACAAACCAGGGGTATTTCGGTAATTCTAC--ACTAGGGGTATT
* * *
49513332 TTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATC-CTTAGGGGATATT
1 TTGGTAATTTCACAAACCAGGGGTATTTCGGTAATTCTA-CAC-TAGGGG-TATT
**
49513386 TCAGTAATTTCACAA
1 TTGGTAATTTCACAA
49513401 TCGAGGGTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
52 1 0.02
53 6 0.10
54 50 0.86
55 1 0.02
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (52 bp):
TTGGTAATTTCACAAACCAGGGGTATTTCGGTAATTCTACACTAGGGGTATT
Found at i:49513436 original size:27 final size:27
Alignment explanation
Indices: 49513399--49513596 Score: 270
Period size: 27 Copynumber: 7.3 Consensus size: 27
49513389 GTAATTTCAC
* *
49513399 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
** * *
49513426 AATTAAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
49513453 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
49513480 AATCGAGGGTAAAATGATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
49513507 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
49513534 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * * *
49513561 AATTGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
49513588 AATTGAGGG
1 AATCGAGGG
49513597 CATTTTAGTA
Statistics
Matches: 155, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 155 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:49515356 original size:34 final size:34
Alignment explanation
Indices: 49515318--49515406 Score: 128
Period size: 34 Copynumber: 2.6 Consensus size: 34
49515308 TTGAACGGTC
*
49515318 TGGGCCTAAGCCCATATCAGTCG-CAATATCAGTG
1 TGGGCCTTAGCCCATATCAGT-GACAATATCAGTG
49515352 TGGGCCTTAGCCCA-ATACAGTGACAATATCAGTG
1 TGGGCCTTAGCCCATAT-CAGTGACAATATCAGTG
*
49515386 TGGGCCTTAGCCCATTTCAGT
1 TGGGCCTTAGCCCATATCAGT
49515407 ATAGTATCCA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
33 3 0.06
34 46 0.92
35 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (34 bp):
TGGGCCTTAGCCCATATCAGTGACAATATCAGTG
Found at i:49516646 original size:6 final size:6
Alignment explanation
Indices: 49516616--49516740 Score: 87
Period size: 6 Copynumber: 20.3 Consensus size: 6
49516606 AAGAATCATT
* * *
49516616 ATCAGA A-CTAGA ATCAAA ATAAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * *
49516665 ATTAGA ATCAGA ATTAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
49516714 ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
49516741 GTGAATGTAA
Statistics
Matches: 92, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
5 5 0.05
6 75 0.82
7 9 0.10
8 3 0.03
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:49516674 original size:31 final size:31
Alignment explanation
Indices: 49516637--49516740 Score: 106
Period size: 31 Copynumber: 3.4 Consensus size: 31
49516627 AATCAAAATA
* *
49516637 AGAATCAGAATCAGAATCAGGTGACAGAATT
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* * *
49516668 AGAATCAGAATTAGAATCA-G-AATTAG-GTGAC
1 AGAATCAGAATCAGAATCAGGTAA-CAGAAT--C
*
49516699 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
49516730 AGAATCAGAAT
1 AGAATCAGAAT
49516741 GTGAATGTAA
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
29 2 0.03
30 3 0.05
31 47 0.81
32 3 0.05
33 3 0.05
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:49516678 original size:37 final size:37
Alignment explanation
Indices: 49516625--49516731 Score: 135
Period size: 37 Copynumber: 2.9 Consensus size: 37
49516615 TATCAGAACT
* *
49516625 AGAATCAAAATAAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
49516662 AGAATTAGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
*
49516699 AGAATCAGAATCAGTATCAGGTAA-CAGAATCAG
1 AGAATCAGAATCAGAATCA-G-AATCAGAATCAG
49516732 AATCAGAATG
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
37 48 0.81
38 9 0.15
39 2 0.03
ACGTcount: A:0.48, C:0.12, G:0.21, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:49516701 original size:25 final size:25
Alignment explanation
Indices: 49516673--49516740 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
49516663 GAATTAGAAT
* * *
49516673 CAGAATTAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
49516698 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
49516723 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
49516741 GTGAATGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:49516895 original size:27 final size:26
Alignment explanation
Indices: 49516858--49516938 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 26
49516848 AGCATCGCTG
*
49516858 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
49516884 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * *
49516911 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGACAGAGCCA
49516938 C
1 C
49516939 TTAACAGAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 6 0.12
27 43 0.88
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:49517035 original size:20 final size:20
Alignment explanation
Indices: 49516988--49517025 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
49516978 TATAATTGGC
*
49516988 ACGAAGCCCACAATATCGAT
1 ACGAAGCCCACAATAACGAT
49517008 ACGAAGCCCACAATAACG
1 ACGAAGCCCACAATAACG
49517026 GTACACAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.32, G:0.16, T:0.11
Consensus pattern (20 bp):
ACGAAGCCCACAATAACGAT
Found at i:49517050 original size:22 final size:22
Alignment explanation
Indices: 49517025--49517087 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
49517015 CCACAATAAC
*
49517025 GGTACACAGCCATAATCAGGTT
1 GGTACAAAGCCATAATCAGGTT
49517047 GGTACAAAGCCATATAT-AGGTT
1 GGTACAAAGCCATA-ATCAGGTT
**
49517069 GGCGCAAAGCCATAATCAG
1 GGTACAAAGCCATAATCAG
49517088 AATAATTGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.21
Consensus pattern (22 bp):
GGTACAAAGCCATAATCAGGTT
Found at i:49517631 original size:27 final size:27
Alignment explanation
Indices: 49517601--49517789 Score: 236
Period size: 27 Copynumber: 7.0 Consensus size: 27
49517591 GGGGCAAAAT
* *
49517601 GGTAATTTTACCAC-ACAAGGGTATCTC
1 GGTAATTCTACC-CTACAAGGGTATTTC
*
49517628 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
49517655 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
49517682 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
49517709 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
49517736 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * **
49517763 AGTATTTCTACCCTACTGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
49517790 AATAATTTTG
Statistics
Matches: 141, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 1 0.01
27 140 0.99
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:49517796 original size:54 final size:54
Alignment explanation
Indices: 49517615--49517796 Score: 292
Period size: 54 Copynumber: 3.4 Consensus size: 54
49517605 ATTTTACCAC
* * *
49517615 ACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCT
1 ACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCT
49517669 ACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCT
1 ACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCT
* *
49517723 ACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTATTTCTACCCT
1 ACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCT
** *
49517777 ACTGGGGTATTTCAATAATT
1 ACAAGGGTATTTCGATAATT
49517797 TTGTAAATCA
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 119 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (54 bp):
ACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCT
Done.