Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 148 of 250
Found at i:48030716 original size:108 final size:108
Alignment explanation
Indices: 48030271--48030708 Score: 651
Period size: 108 Copynumber: 4.1 Consensus size: 108
48030261 GGATATTTCA
* * * * * *
48030271 GTATTTCGGTAATTCTATCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATA
1 GTATTTCAGTAATTCTACCCTACAGAGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATA
* * *
48030336 TTTCTACCCTATAAGGGTATTTCGGTATTTCTATCCTACAGGG
66 TTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGG
* * * *
48030379 GTATTTCAGTAATTCTACCCTACAGAGGTATTTCGGTATTTCTACCCTATAAGGGTATTTTGGTA
1 GTATTTCAGTAATTCTACCCTACAGAGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATA
*
48030444 TTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGG
66 TTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGG
** * *
48030487 GTATTTCAGTAATTCTACCCTACAGAGGTATTTTGGTATTTCTACCCTATAAGGGTATTTCGGTA
1 GTATTTCAGTAATTCTACCCTACAGAGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATA
* *
48030552 TTTCAACCCTACAAGGGTATTTCGGTAATTTTACCCTACAGGG
66 TTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGG
* * *
48030595 GTATTTCAGTAATTCTACTCTACAGGGGTATTTCAATATTTCTACCCTACAAGGGTATTTCGATA
1 GTATTTCAGTAATTCTACCCTACAGAGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATA
* *
48030660 TTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGG
66 TTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGG
48030703 GTATTT
1 GTATTT
48030709 TAATAATTTT
Statistics
Matches: 300, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 300 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (108 bp):
GTATTTCAGTAATTCTACCCTACAGAGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATA
TTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGG
Found at i:48030785 original size:27 final size:26
Alignment explanation
Indices: 48030748--48031284 Score: 530
Period size: 27 Copynumber: 20.1 Consensus size: 26
48030738 GTAATTCTGT
*
48030748 AAATCGGGGGTACTTTGGTAATTTTAC
1 AAATCGAGGGTA-TTTGGTAATTTTAC
* * *
48030775 AAGTCGAGGGTATTTTAGTAATTTTGC
1 AAATCGAGGGTA-TTTGGTAATTTTAC
48030802 AAA-CTGAGGGTATTTTGGTAATTTTAC
1 AAATC-GAGGGTA-TTTGGTAATTTTAC
* *
48030829 AAATTGAGGGTATTTTAGTAATTTTAC
1 AAATCGAGGGTA-TTTGGTAATTTTAC
* *
48030856 -AATCGACGGTATTTTGATAATTTTAC
1 AAATCGAGGGTA-TTTGGTAATTTTAC
**
48030882 AAATCGAGGGTATTTCAATAATTTTAC
1 AAATCGAGGGTATTT-GGTAATTTTAC
* *
48030909 -AATCGACGGTATTTCGATAATTTTAC
1 AAATCGAGGGTATTT-GGTAATTTTAC
* *
48030935 AAATCGAGGATATTTGGGTAATTTTAT
1 AAATCGAGGGTATTT-GGTAATTTTAC
* *
48030962 AGA-CTGGGGGTACTTTGGTAATTTTAC
1 AAATC-GAGGGTA-TTTGGTAATTTTAC
*
48030989 AAATCGAGGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTT-GGTAATTTTAC
*
48031016 -AATCGACGGTATTTTGGTAATTTTAC
1 AAATCGAGGGTA-TTTGGTAATTTTAC
* *
48031042 AAATCGAGGATATTTGGGTAATTTTAT
1 AAATCGAGGGTATTT-GGTAATTTTAC
* *
48031069 AAATTGGGGGTACTTTGGTAATTTTAC
1 AAATCGAGGGTA-TTTGGTAATTTTAC
* *
48031096 AAGTCGAGGGTATTTTAGTAATTTTAC
1 AAATCGAGGGTA-TTTGGTAATTTTAC
** *
48031123 AAATCGAGGGTATTTATTAATTTTGC
1 AAATCGAGGGTATTTGGTAATTTTAC
*
48031149 AAA-CTGAGGGTATTTCGATAATTTTAC
1 AAATC-GAGGGTATTT-GGTAATTTTAC
*
48031176 AAATCGAGGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTT-GGTAATTTTAC
* *
48031203 -AATCGACGGTATTTCGATAATTTTAC
1 AAATCGAGGGTATTT-GGTAATTTTAC
* *
48031229 AAATCGAGGATATTTGGGTAATTTTAT
1 AAATCGAGGGTATTT-GGTAATTTTAC
48031256 AAATCGAGGGTACTTTGGTAATTTTAC
1 AAATCGAGGGTA-TTTGGTAATTTTAC
48031283 AA
1 AA
48031285 CTGGGAGTAT
Statistics
Matches: 430, Mismatches: 62, Indels: 36
0.81 0.12 0.07
Matches are distributed among these distances:
25 1 0.00
26 125 0.29
27 293 0.68
28 11 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (26 bp):
AAATCGAGGGTATTTGGTAATTTTAC
Found at i:48030884 original size:53 final size:53
Alignment explanation
Indices: 48030749--48031284 Score: 564
Period size: 53 Copynumber: 10.0 Consensus size: 53
48030739 TAATTCTGTA
* * * *
48030749 AATCGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTGC
1 AATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTAC
* *
48030802 AAACTGAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTAC
1 AATC-GAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTAC
* * * *
48030856 AATCGACGGTATTTTGATAATTTTACAAATCGAGGGTATTTCAATAATTTTAC
1 AATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTAC
* * * * ** *
48030909 AATCGACGGTATTTCGATAATTTTACAAATCGAGGATATTTGGGTAATTTTAT
1 AATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTAC
* * *
48030962 AGA-CTGGGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAC
1 A-ATC-GAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTAC
* * ** *
48031016 AATCGACGGTATTTTGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATA
1 AATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTA-C
* * * *
48031070 AATTGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTAC
1 AATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTAC
* *
48031123 AAATCGAGGGTATTTAT--TAATTTTGCAAA-CTGAGGGTA-TTTCGATAATTTTAC
1 -AATCGAGGGTATTT-TGGTAATTTTACAAATC-GAGGGTATTTTAG-TAATTTTAC
** * *
48031176 AAATCGAGGGTATTTCAGTAATTTTAC-AATCGACGGTA-TTTCGATAATTTTAC
1 -AATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAG-TAATTTTAC
* * * * *
48031229 AAATCGAGGATATTTGGGTAATTTTATAAATCGAGGGTACTTTGGTAATTTTAC
1 -AATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTAC
48031283 AA
1 AA
48031285 CTGGGAGTAT
Statistics
Matches: 411, Mismatches: 58, Indels: 28
0.83 0.12 0.06
Matches are distributed among these distances:
52 5 0.01
53 228 0.55
54 173 0.42
55 5 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (53 bp):
AATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTAC
Found at i:48030905 original size:107 final size:107
Alignment explanation
Indices: 48030749--48031284 Score: 581
Period size: 107 Copynumber: 5.0 Consensus size: 107
48030739 TAATTCTGTA
* * * *
48030749 AATCGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTGCAAACTGAGGGTA
1 AATCGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTGAGGGTA
* *
48030814 TTTTGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTAC
66 TTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTAC
* * * * * *
48030856 AATCGACGGTATTTTGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAATC-GACGGTA
1 AATCGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTGAGGGTA
* * * * *
48030920 TTTCGATAATTTTACAAATCGAGGATATTTGGGTAATTTTAT
66 TTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTAC
* * *
48030962 AGA-CTGGGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATC-GACGG
1 A-ATC-GAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTGAGGG
* * *
48031025 TATTTTGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATA
64 TATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTA-C
* * * *
48031070 AATTGGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAAA-TCGAGGGT
1 AATCGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACT-GAGGGT
* * *
48031134 ATTTAT--TAATTTTGCAAA-CTGAGGGTATTTCGATAATTTTAC
65 ATTT-TGGTAATTTTACAAATC-GAGGGTATTTTGGTAATTTTAC
* *
48031176 AAATCGAGGGTA-TTTCAGTAATTTTAC-AATCGACGGTATTTC-GATAATTTTACAAA-TCGAG
1 -AATCGAGGGTACTTT-GGTAATTTTACAAATCGAGGGTATTTCAG-TAATTTTACAAACT-GAG
* * * *
48031237 GATATTTGGGTAATTTTATAAATCGAGGGTACTTTGGTAATTTTAC
62 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTAC
48031283 AA
1 AA
48031285 CTGGGAGTAT
Statistics
Matches: 367, Mismatches: 48, Indels: 29
0.83 0.11 0.07
Matches are distributed among these distances:
105 1 0.00
106 84 0.23
107 270 0.74
108 11 0.03
109 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (107 bp):
AATCGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTGAGGGTA
TTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTAC
Found at i:48035478 original size:23 final size:21
Alignment explanation
Indices: 48035452--48035494 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
48035442 ATATTAGAGA
48035452 AATTATAATTACAATGATTTAGC
1 AATTATAATT-CAAT-ATTTAGC
48035475 AATTATAATTCAATATTTAG
1 AATTATAATTCAATATTTAG
48035495 AGAGGTTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
22 4 0.20
23 10 0.50
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (21 bp):
AATTATAATTCAATATTTAGC
Found at i:48036701 original size:7 final size:7
Alignment explanation
Indices: 48036689--48036716 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
48036679 GTTTATGAGA
48036689 ATATTAT
1 ATATTAT
48036696 ATATTAT
1 ATATTAT
48036703 ATATTAT
1 ATATTAT
48036710 ATATTAT
1 ATATTAT
48036717 TTATAAAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATATTAT
Found at i:48037857 original size:34 final size:33
Alignment explanation
Indices: 48037804--48037926 Score: 131
Period size: 34 Copynumber: 3.6 Consensus size: 33
48037794 ATTCATCAGC
*
48037804 TTATCTGACTAGTGTTGGGCACACATTCGTCTGT
1 TTATCTGACTAGTGCTGGGCACACATTCGTC-GT
* * *
48037838 TTATTTGACTAGTGCTGGGCACGAC-TTCCATCAAT
1 TTATCTGACTAGTGCTGGGCAC-ACATT-CGTC-GT
* *
48037873 TTATCTGGCTAGTGCTGGGCACACATTTGTCGAT
1 TTATCTGACTAGTGCTGGGCACACATTCGTCG-T
*
48037907 TTATCCGACTAGTGCTGGGC
1 TTATCTGACTAGTGCTGGGC
48037927 GCAAATTCTT
Statistics
Matches: 73, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
34 45 0.62
35 28 0.38
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (33 bp):
TTATCTGACTAGTGCTGGGCACACATTCGTCGT
Found at i:48042255 original size:21 final size:21
Alignment explanation
Indices: 48042229--48042273 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
48042219 CATCAAGTTC
*
48042229 ATTTATGAGTATTTTCATATA
1 ATTTATGAATATTTTCATATA
* **
48042250 ATTTATTAATATTTTTTTATA
1 ATTTATGAATATTTTCATATA
48042271 ATT
1 ATT
48042274 AATATCTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (21 bp):
ATTTATGAATATTTTCATATA
Found at i:48042302 original size:28 final size:25
Alignment explanation
Indices: 48042267--48042318 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
48042257 AATATTTTTT
48042267 TATAATTAATATCTTATTTAAATATTA
1 TATAATTAATATC-T-TTTAAATATTA
*
48042294 TATATATTAATTTCTTTTAAATATT
1 TATA-ATTAATATCTTTTAAATATT
48042319 GGTAAATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 10 0.43
27 5 0.22
28 8 0.35
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (25 bp):
TATAATTAATATCTTTTAAATATTA
Found at i:48051864 original size:17 final size:16
Alignment explanation
Indices: 48051831--48051861 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48051821 GTTTATGATA
48051831 AATTTGAGTTAAATTG
1 AATTTGAGTTAAATTG
*
48051847 AATTTGAGTTTAATT
1 AATTTGAGTTAAATT
48051862 TGATCATAAT
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:0.00, G:0.16, T:0.48
Consensus pattern (16 bp):
AATTTGAGTTAAATTG
Found at i:48054730 original size:39 final size:39
Alignment explanation
Indices: 48054623--48054881 Score: 392
Period size: 39 Copynumber: 6.6 Consensus size: 39
48054613 ACAAAGCATG
*
48054623 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTG
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTT
48054664 CGGGACTTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAATACCAGCACGAATGCCTT
* * *
48054704 CGGGACTTAGCCCGAATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* *
48054743 CGGGACTTAGCCCGGATATAATACCAGTACGAATTCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
48054782 CGGGACTTAGCCCGGATATAATACCAGCACGAATTCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* * *
48054821 CGGGACTTAGCCCGGATATAACACCAGCACAAATACCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
48054860 CGGGACTTAACCCGGATATAAT
1 CGGGACTTAGCCCGGATATAAT
48054882 TCTCCATTAT
Statistics
Matches: 203, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 158 0.78
40 36 0.18
41 9 0.04
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:48057186 original size:21 final size:21
Alignment explanation
Indices: 48057156--48057203 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
48057146 CACGAGCTGC
*
48057156 TCACACGGGCATGTGTGGCCT
1 TCACATGGGCATGTGTGGCCT
*
48057177 TCACATGGGCGTGTGTGGCCT
1 TCACATGGGCATGTGTGGCCT
48057198 TCACAT
1 TCACAT
48057204 AGGTGTGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.27, G:0.31, T:0.27
Consensus pattern (21 bp):
TCACATGGGCATGTGTGGCCT
Found at i:48057211 original size:21 final size:21
Alignment explanation
Indices: 48057167--48057211 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
48057157 CACACGGGCA
*
48057167 TGTGTGGCCTTCACATGGGCG
1 TGTGTGGCCTTCACATAGGCG
*
48057188 TGTGTGGCCTTCACATAGGTG
1 TGTGTGGCCTTCACATAGGCG
48057209 TGT
1 TGT
48057212 AGACCCCCAA
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:0.11, C:0.20, G:0.36, T:0.33
Consensus pattern (21 bp):
TGTGTGGCCTTCACATAGGCG
Found at i:48057773 original size:16 final size:16
Alignment explanation
Indices: 48057749--48057790 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
48057739 TTTGGTTCGC
* *
48057749 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
48057765 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
48057781 TGTAATGGAA
1 TGTAATGGAA
48057791 AAGCTGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:48058056 original size:18 final size:17
Alignment explanation
Indices: 48058035--48058069 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48058025 TTATTATTAA
*
48058035 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
48058053 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
48058070 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:48058206 original size:16 final size:16
Alignment explanation
Indices: 48058169--48058210 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
48058159 TTAATCATAT
*
48058169 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
48058185 TT-AAATATATTATAA
1 TTAAAATATATTATAA
48058200 TTAAAATATAT
1 TTAAAATATAT
48058211 AATTTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:48058208 original size:154 final size:156
Alignment explanation
Indices: 48057922--48058219 Score: 546
Period size: 154 Copynumber: 1.9 Consensus size: 156
48057912 TAGAATACCC
48057922 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
48057987 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
48058052 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAATAA
* *
48058079 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
48058142 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
48058207 ATATAATTTAATA
131 ATATAATTTAATA
48058220 TGAATTTACT
Statistics
Matches: 138, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 77 0.56
155 1 0.01
157 60 0.43
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:48058217 original size:14 final size:15
Alignment explanation
Indices: 48058178--48058312 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 15
48058168 TTTAAACATA
*
48058178 ATTATTATTAAATAT
1 ATTATAATTAAATAT
48058193 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
48058207 A-TATAATTTAATAT
1 ATTATAATTAAATAT
*
48058221 GAATTTACTCAAATCATAATAT
1 --A-TTA-T--AATTA-AATAT
* *
48058243 ATGATACTGTAAA-AT
1 ATTATAAT-TAAATAT
48058258 A-TA-AATTAACATA-
1 ATTATAATTAA-ATAT
*
48058271 ATTATTATTAAATAT
1 ATTATAATTAAATAT
48058286 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
48058300 A-TATAATTTAATA
1 ATTATAATTAAATA
48058313 AAATTCTTAA
Statistics
Matches: 92, Mismatches: 12, Indels: 33
0.67 0.09 0.24
Matches are distributed among these distances:
12 3 0.03
13 22 0.24
14 16 0.17
15 30 0.33
16 5 0.05
17 1 0.01
18 3 0.03
19 3 0.03
20 1 0.01
21 3 0.03
22 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:48058276 original size:154 final size:155
Alignment explanation
Indices: 48057961--48058276 Score: 401
Period size: 154 Copynumber: 2.0 Consensus size: 155
48057951 ATTGTTATTG
48057961 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTA-TATTATCAATAATAAATAATTTAATCATATTTAAACATAAT
* *
48058026 TATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCATAAATT
65 TATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA-TAGCATAAATA
** * * *** **
48058091 TGTTTTGGTAAATTATTATTGTTATTG
129 TGTACTGGTAAAATATAATTAACATAA
48058118 TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAACATAATT
1 TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
* * *
48058181 ATTATTAAATATATTATAATTAAAATATATAATTTAATATGAA-T-TTACTCAA-ATCATAATAT
66 ATTATTAAATATATTATAATTAAAATATATAATTTAATA-AAATTCTTAAT-AATAGCATAA-AT
48058243 ATGATACT-GTAAAATATAAATTAACATAA
128 ATG-TACTGGTAAAATAT-AATTAACATAA
48058272 TTATT
1 TTATT
48058277 ATTAAATATA
Statistics
Matches: 140, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
152 6 0.04
153 16 0.11
154 92 0.66
155 3 0.02
157 23 0.16
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (155 bp):
TTATTTAAATTTTAATAAGATTATATTATCAATAATAAATAATTTAATCATATTTAAACATAATT
ATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATAGCATAAATATG
TACTGGTAAAATATAATTAACATAA
Found at i:48058327 original size:44 final size:43
Alignment explanation
Indices: 48058238--48058328 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
48058228 CTCAAATCAT
* * *
48058238 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
48058281 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
48058325 AATA
1 AATA
48058329 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:48058353 original size:120 final size:119
Alignment explanation
Indices: 48058218--48058436 Score: 345
Period size: 120 Copynumber: 1.8 Consensus size: 119
48058208 TATAATTTAA
* * *
48058218 TATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT-AACATAATTATTATTA
1 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTTCAA-ATAATTAATATTA
48058281 AATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
64 AATATGATT-TAATT-AAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
48058338 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATTAAA
1 TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATTAAA
*
48058403 TATGATTTAATTAAATATATGATTTAATAAAATT
66 TATGATTTAATTAAATATATAATTTAATAAAATT
48058437 TAAAATTATT
Statistics
Matches: 92, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
119 24 0.26
120 63 0.68
121 5 0.05
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (119 bp):
TATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTCAAATAATTAATATTAAA
TATGATTTAATTAAATATATAATTTAATAAAATTCTTAATAAATAAAATTCTTC
Found at i:48058417 original size:15 final size:15
Alignment explanation
Indices: 48058397--48058435 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
48058387 AATAATTAAT
48058397 ATTAAATATGATTTA
1 ATTAAATATGATTTA
48058412 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
48058429 ATAAAAT
1 ATTAAAT
48058436 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:48058422 original size:17 final size:17
Alignment explanation
Indices: 48058402--48058435 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
48058392 TTAATATTAA
*
48058402 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
48058419 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
48058436 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:48058578 original size:93 final size:92
Alignment explanation
Indices: 48058468--48058662 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
48058458 GATTATAGTT
* * *
48058468 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
48058531 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
48058561 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
48058626 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
48058653 TATGAATTTA
1 TATGAATTTA
48058663 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:48060077 original size:11 final size:11
Alignment explanation
Indices: 48060063--48060089 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
48060053 AAAAATCAAT
48060063 ACAAAAGTTTC
1 ACAAAAGTTTC
48060074 ACAAAAGTTTC
1 ACAAAAGTTTC
48060085 ACAAA
1 ACAAA
48060090 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:48062353 original size:15 final size:15
Alignment explanation
Indices: 48062333--48062363 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
48062323 ATATTATGTA
48062333 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
48062348 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
48062363 T
1 T
48062364 TGAAGGTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
TAATTGAGGTAAAAT
Found at i:48066977 original size:40 final size:40
Alignment explanation
Indices: 48066907--48067122 Score: 262
Period size: 40 Copynumber: 5.5 Consensus size: 40
48066897 AAGCCAAGTA
* * *
48066907 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
* * * * *
48066946 CCTTCAGGACATAACCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
48066986 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
48067026 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
48067066 CCTT-GGGACTTAGCCCGGA-ACTA-TCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
48067104 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48067123 TTATCATCCA
Statistics
Matches: 155, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
38 16 0.10
39 41 0.26
40 98 0.63
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:48068408 original size:11 final size:10
Alignment explanation
Indices: 48068378--48068416 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
48068368 ACATGAGAGC
48068378 CTTTCTTTTT
1 CTTTCTTTTT
*
48068388 TTTTCTTTTT
1 CTTTCTTTTT
48068398 CTTTCTCTTTT
1 CTTTCT-TTTT
48068409 CTTT-TTTT
1 CTTTCTTTT
48068417 CATCATCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 3 0.12
10 15 0.58
11 8 0.31
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:48074953 original size:40 final size:40
Alignment explanation
Indices: 48074891--48075068 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
48074881 AAGCCAAGTA
* * * *
48074891 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
48074930 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
48074970 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
48075010 CCTTTGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
48075050 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48075069 TTATCATCCA
Statistics
Matches: 123, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 13 0.11
40 110 0.89
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48080102 original size:47 final size:47
Alignment explanation
Indices: 48080036--48080417 Score: 593
Period size: 47 Copynumber: 8.1 Consensus size: 47
48080026 GAAATGATAG
*
48080036 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
48080083 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
48080132 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
48080179 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
48080226 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
48080273 TAAGGCCTAATGGCCGATGTGACGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
48080320 TAAGGCCTAATGGCCGATGTGACGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * * *
48080367 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
48080414 TAAG
1 TAAG
48080418 TCCCGAAGGG
Statistics
Matches: 314, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 267 0.85
49 47 0.15
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:48080592 original size:37 final size:37
Alignment explanation
Indices: 48080536--48080614 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
48080526 CCGAGCTCTA
* *
48080536 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
48080573 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
48080610 AAGAC
1 AAGAC
48080615 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:48094444 original size:11 final size:11
Alignment explanation
Indices: 48094428--48094454 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
48094418 ATGAATTGAA
48094428 ATTTTTATTTT
1 ATTTTTATTTT
48094439 ATTTTTATTTT
1 ATTTTTATTTT
48094450 ATTTT
1 ATTTT
48094455 ACTTTACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:48098003 original size:30 final size:30
Alignment explanation
Indices: 48097969--48098026 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
48097959 CCGAGCCTAG
*
48097969 GGGCAAAAGTGTAAATATGCAAAAGTTTAA
1 GGGCAAAAGTGTAAATATGAAAAAGTTTAA
* * *
48097999 GGGCAAAATTGTAATTTTGAAAAAGTTT
1 GGGCAAAAGTGTAAATATGAAAAAGTTT
48098027 GAGTTAAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.05, G:0.22, T:0.29
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGAAAAAGTTTAA
Found at i:48098642 original size:64 final size:65
Alignment explanation
Indices: 48098482--48098804 Score: 282
Period size: 64 Copynumber: 4.9 Consensus size: 65
48098472 CGAAAGATAC
* * * *
48098482 AGATAGTATGTAGCTAGGTCACATGTGTAATACGA-GATGTATACCATGT-GTACAAGAGAGCTA
1 AGATA-TATGTAGCTAGGTCACATGGGTGATACTATG-TGTACACCATGTAG-ACAAGAGAGCTA
*
48098545 TGAG
63 -CAG
* * *
48098549 ACATTATGAGGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAC
1 AGA-TAT-ATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAC
48098614 AG
64 AG
48098616 -GATATATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAC-G
1 AGATATATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACAG
* ** * * * * * * * *
48098679 AGATAAATGTAGCTAGGTTGCATGTGTGGTTCCAAGTGAAGGACACCATGTAAACAAGAGAGTTA
1 AGATATATGTAGCTAGGTCACATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTA
48098744 C-G
63 CAG
* * * * * *
48098746 AGATA-AAGTGGCTAGGTCACATAGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 AGATATATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
48098805 CAAAATTATG
Statistics
Matches: 210, Mismatches: 37, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
63 19 0.09
64 78 0.37
65 11 0.05
66 18 0.09
67 34 0.16
68 48 0.23
69 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.25
Consensus pattern (65 bp):
AGATATATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACAG
Found at i:48102786 original size:42 final size:41
Alignment explanation
Indices: 48102737--48102851 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 41
48102727 CTTCGTTTTC
* * *
48102737 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAG-CCAGCTATGGTCTTACACATATTCACAT-A
*
48102780 T-GATGCCATAGCGCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGC-CAGCTATGGTCTTACACATATTCACATA
48102821 TCGATGCCATAGCCTAGCTATGGTCTTACAC
1 TCGATGCCATAGCC-AGCTATGGTCTTACAC
48102852 GAATCACATA
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
41 3 0.05
42 61 0.94
43 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (41 bp):
TCGATGCCATAGCCAGCTATGGTCTTACACATATTCACATA
Found at i:48103005 original size:31 final size:31
Alignment explanation
Indices: 48102970--48103180 Score: 298
Period size: 31 Copynumber: 6.8 Consensus size: 31
48102960 CTTGTCACTT
* * * *
48102970 GTAGCCGAAGCTACCAGTATTCACTGATCAA
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
* * * *
48103001 GTAGCCGGAGCTACCATTTTTCACTGATTAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
* * *
48103032 GTAGCCGGAGCTACCACTTTTTACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
*
48103063 GTAGTCGGAA-CTACCACTTTTCACTGATCAG
1 GTAG-CAGAAGCTACCACTTTTCACTGATCAG
48103094 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
48103125 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
48103156 GTAGCAGAAGCTACCACTTTTCACT
1 GTAGCAGAAGCTACCACTTTTCACT
48103181 TGTCATTTGT
Statistics
Matches: 166, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
30 4 0.02
31 159 0.96
32 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCAGAAGCTACCACTTTTCACTGATCAG
Found at i:48103267 original size:50 final size:51
Alignment explanation
Indices: 48103156--48103284 Score: 181
Period size: 50 Copynumber: 2.5 Consensus size: 51
48103146 CACTGATCAG
* * *
48103156 GTAGCAGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCAGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAAATAAGT
* *
48103207 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAAATAAGT
1 GTAGCAGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAAATAAGT
*
48103257 GTAGCTGAAGCTATCACTTATCACTTGT
1 GTAGCAGAAGCTATCACTTATCACTTGT
48103285 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 43 0.61
51 27 0.39
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCAGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAAATAAGT
Found at i:48106136 original size:14 final size:15
Alignment explanation
Indices: 48106112--48106140 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48106102 CATATTACTA
48106112 AATTAATAATTAAAT
1 AATTAATAATTAAAT
48106127 AATT-ATAATTAAAT
1 AATTAATAATTAAAT
48106141 TTATATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTAATAATTAAAT
Found at i:48106839 original size:9 final size:9
Alignment explanation
Indices: 48106827--48106852 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
48106817 TCATCATCTT
48106827 ATTATTATA
1 ATTATTATA
48106836 ATTATTATA
1 ATTATTATA
48106845 ATTATTAT
1 ATTATTAT
48106853 TTACATGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTATTATA
Found at i:48107316 original size:15 final size:15
Alignment explanation
Indices: 48107296--48107325 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48107286 AAAAAGTTAA
48107296 ATTTTATATTGAAAT
1 ATTTTATATTGAAAT
*
48107311 ATTTTATATTTAAAT
1 ATTTTATATTGAAAT
48107326 TACTGTGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
ATTTTATATTGAAAT
Found at i:48111316 original size:453 final size:453
Alignment explanation
Indices: 48110470--48111377 Score: 1735
Period size: 453 Copynumber: 2.0 Consensus size: 453
48110460 TCCCCTATTC
48110470 CAACTTTAGAAATTCACCATAAATTGTAAAGATATAATTAGGTAGTGTATTTTATATTCTCAGAA
1 CAACTTTAGAAATTCACCATAAATTGTAAAGATATAATTAGGTAGTGTATTTTATATTCTCAGAA
*
48110535 TCCTTATTGAGTCTAGTTTCAGGATAAATAAACCTCATAGTCATATGGATTTTGTACAGAGAGAA
66 TCCTTATTGAGTCTAGTTTCAGGAGAAATAAACCTCATAGTCATATGGATTTTGTACAGAGAGAA
48110600 ATATGGTTCGTAGTAAACAGAGGTCAGACCAGTCAAGTCCTGAAACAGGGGTAACTTTAACTAAT
131 ATATGGTTCGTAGTAAACAGAGGTCAGACCAGTCAAGTCCTGAAACAGGGGTAACTTTAACTAAT
48110665 AAACTGTACTAATTGACCCAACCAAAAATTCTAGAAAAAAATTAGTAGATAGGTATATGAGTCTA
196 AAACTGTACTAATTGACCCAACCAAAAATTCTAGAAAAAAATTAGTAGATAGGTATATGAGTCTA
* *
48110730 GATTTAGGGAAAATTTACAGATCTTGATTTTGAGTTTCGTAACTCGAGATATGGTTTTTCTTGTG
261 GATTTAGGGAAAATTTACAGATCTTGATTTCGAGTTTCGTAACTCGAGATATGATTTTTCTTGTG
*
48110795 ACTGTGATGCAAGTAGCTTAAAAGCTGTGAATGTAGAAATAAATAATCCAAAGTTCTAAATATGT
326 ACTATGATGCAAGTAGCTTAAAAGCTGTGAATGTAGAAATAAATAATCCAAAGTTCTAAATATGT
48110860 TAAATTAAGCTTAGTAACACCTCATACTCGACTCCGGCGACGGTCTCGGGCGTGGGGGCGTTA
391 TAAATTAAGCTTAGTAACACCTCATACTCGACTCCGGCGACGGTCTCGGGCGTGGGGGCGTTA
48110923 CAACTTTAGAAATTCACCATAAATTGTAAAGATATAATTAGGTAGTGTATTTTATATTCTCAGAA
1 CAACTTTAGAAATTCACCATAAATTGTAAAGATATAATTAGGTAGTGTATTTTATATTCTCAGAA
*
48110988 TCCTTATTGAGTCTAGTTTTAGGAGAAATAAACCTCATAGTCATATGGATTTTGTACAGAGAGAA
66 TCCTTATTGAGTCTAGTTTCAGGAGAAATAAACCTCATAGTCATATGGATTTTGTACAGAGAGAA
* *
48111053 ATGTGGTTCGTAGTAAACAGAGGTCAGACTAGTCAAGTCCTGAAACAGGGGTAACTTTAACTAAT
131 ATATGGTTCGTAGTAAACAGAGGTCAGACCAGTCAAGTCCTGAAACAGGGGTAACTTTAACTAAT
*
48111118 AAACTGTACTAATTGGCCCAACCAAAAATTCTAGAAAAAAATTAGTAGATAGGTATATGAGTCTA
196 AAACTGTACTAATTGACCCAACCAAAAATTCTAGAAAAAAATTAGTAGATAGGTATATGAGTCTA
*
48111183 GATTTAGGGAAAATTTACGGATCTTGATTTCGAGTTTCGTAACTCGAGATATGATTTTTCTTGTG
261 GATTTAGGGAAAATTTACAGATCTTGATTTCGAGTTTCGTAACTCGAGATATGATTTTTCTTGTG
48111248 ACTATGATGCAAGTAGCTTAAAAGCTGTGAATGTAGAAATAAATAATCCAAAGTTCTAAATATGT
326 ACTATGATGCAAGTAGCTTAAAAGCTGTGAATGTAGAAATAAATAATCCAAAGTTCTAAATATGT
48111313 TAAATTAAGCTTAGTAACACCTCATACTCGACTCCGGCGACGGTCTCGGGCGTGGGGGCGTTA
391 TAAATTAAGCTTAGTAACACCTCATACTCGACTCCGGCGACGGTCTCGGGCGTGGGGGCGTTA
48111376 CA
1 CA
48111378 GGGTTCACAC
Statistics
Matches: 446, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
453 446 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (453 bp):
CAACTTTAGAAATTCACCATAAATTGTAAAGATATAATTAGGTAGTGTATTTTATATTCTCAGAA
TCCTTATTGAGTCTAGTTTCAGGAGAAATAAACCTCATAGTCATATGGATTTTGTACAGAGAGAA
ATATGGTTCGTAGTAAACAGAGGTCAGACCAGTCAAGTCCTGAAACAGGGGTAACTTTAACTAAT
AAACTGTACTAATTGACCCAACCAAAAATTCTAGAAAAAAATTAGTAGATAGGTATATGAGTCTA
GATTTAGGGAAAATTTACAGATCTTGATTTCGAGTTTCGTAACTCGAGATATGATTTTTCTTGTG
ACTATGATGCAAGTAGCTTAAAAGCTGTGAATGTAGAAATAAATAATCCAAAGTTCTAAATATGT
TAAATTAAGCTTAGTAACACCTCATACTCGACTCCGGCGACGGTCTCGGGCGTGGGGGCGTTA
Found at i:48111532 original size:62 final size:62
Alignment explanation
Indices: 48111395--48111532 Score: 163
Period size: 62 Copynumber: 2.2 Consensus size: 62
48111385 CACGGGCAAC
* * * * *
48111395 GGACAAGAGTGTGTGTCTAAGTCGTGTAACTTACTGTTTATGGTATAAAACCACACGGCTAG
1 GGACACGAGCGTGTGCCTAAGTCGTGTAACTCACTGTTTATAGTATAAAACCACACGGCTAG
* * * *
48111457 GGACACG-GACGTGTGCCTAGGTTGTGTAACTCACTGTTTGTAGTATAAAACTACACGG-TCAG
1 GGACACGAG-CGTGTGCCTAAGTCGTGTAACTCACTGTTTATAGTATAAAACCACACGGCT-AG
48111519 GGACACGAGCGTGT
1 GGACACGAGCGTGT
48111533 ACCCAGGCGT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
61 2 0.03
62 61 0.95
63 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (62 bp):
GGACACGAGCGTGTGCCTAAGTCGTGTAACTCACTGTTTATAGTATAAAACCACACGGCTAG
Found at i:48113965 original size:43 final size:43
Alignment explanation
Indices: 48113820--48113968 Score: 112
Period size: 43 Copynumber: 3.5 Consensus size: 43
48113810 TGTGTTCTCG
* * *
48113820 TGTAATACCACGTCTGAGAC-GTTGGCATCGACT-TATGATTTACA
1 TGTAAGACCACGTCTGGGACAG-TGGCATCGA-TATTTGA-TTACA
* * * * * *
48113864 TATAAGACCATGGT-TGGGACA-TCAGTATCG-TATTTGATTTCG
1 TGTAAGACCA-CGTCTGGGACAGT-GGCATCGATATTTGATTACA
*
48113906 TGTAAGACC-CTATCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCGATATTTGATTACA
48113949 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCACGTCTGGGAC
48113969 GTTGGTATTT
Statistics
Matches: 79, Mismatches: 17, Indels: 19
0.69 0.15 0.17
Matches are distributed among these distances:
41 1 0.01
42 24 0.30
43 33 0.42
44 19 0.24
45 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTACA
Found at i:48117944 original size:17 final size:19
Alignment explanation
Indices: 48117904--48117946 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
48117894 TCAAATATAT
*
48117904 TTTTTAAAATTTTATTTTA
1 TTTTTAAAATTTTATTTAA
48117923 TTTTTAAAA-TTT-TTTAA
1 TTTTTAAAATTTTATTTAA
48117940 TTTTTAA
1 TTTTTAA
48117947 TATATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.48
18 3 0.13
19 9 0.39
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTAAAATTTTATTTAA
Found at i:48117956 original size:29 final size:29
Alignment explanation
Indices: 48117902--48117960 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
48117892 TTTCAAATAT
* *
48117902 ATTTTTTAAAATTTTATTTTATTTTTAAA
1 ATTTTTTAAAATTTTAATATATTTTTAAA
*
48117931 ATTTTTT-AATTTTTAATATATATTTTAAA
1 ATTTTTTAAAATTTTAATATAT-TTTTAAA
48117960 A
1 A
48117961 AATAATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (29 bp):
ATTTTTTAAAATTTTAATATATTTTTAAA
Found at i:48129388 original size:19 final size:20
Alignment explanation
Indices: 48129364--48129401 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
48129354 GGTACCACCA
48129364 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
48129383 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
48129402 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:48129745 original size:93 final size:93
Alignment explanation
Indices: 48129630--48129800 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
48129620 GCCCCTAAGT
* *
48129630 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
48129695 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
48129723 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
48129788 CGAGTTCGGATGC
66 CGAGTTCGGATGC
48129801 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:48129797 original size:46 final size:46
Alignment explanation
Indices: 48129625--48129797 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
48129615 AACCCGCCCC
* * * *
48129625 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
48129671 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
48129719 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
48129764 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48129798 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:48130254 original size:30 final size:30
Alignment explanation
Indices: 48130220--48130279 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
48130210 ATTTAATATG
48130220 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
48130250 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
48130280 GGCTCGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:48136979 original size:19 final size:20
Alignment explanation
Indices: 48136955--48136992 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
48136945 GGTACCACCA
48136955 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
48136974 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
48136993 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:48137336 original size:93 final size:93
Alignment explanation
Indices: 48137221--48137391 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
48137211 GCCCCTAAGT
*
48137221 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAATGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
48137285 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
48137314 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
48137379 CGAGTTCGGATGC
66 CGAGTTCGGATGC
48137392 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:48137386 original size:46 final size:46
Alignment explanation
Indices: 48137216--48137388 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
48137206 AACCCGCCCC
* * *
48137216 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCA
* * *
48137262 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
48137310 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
48137355 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48137389 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 58 0.54
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:48137845 original size:30 final size:30
Alignment explanation
Indices: 48137811--48137870 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
48137801 ATTTAATATG
48137811 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
48137841 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
48137871 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:48140025 original size:44 final size:44
Alignment explanation
Indices: 48139977--48140067 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
48139967 GTAGGTTAAA
* * *
48139977 TAATATTAAAATATCCTATATTAATCAAATTTTAAGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAAATTTTAAGTGGGAAAC
*
48140021 TAATATTAAAATAACCTACACTAATCAGATTTTAAGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAAATTTTAAGTGGGAAAC
48140065 TAA
1 TAA
48140068 AAACAGAGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAAATTTTAAGTGGGAAAC
Found at i:48145801 original size:292 final size:292
Alignment explanation
Indices: 48145272--48145822 Score: 870
Period size: 292 Copynumber: 1.9 Consensus size: 292
48145262 TAATGGTAAT
* *
48145272 AACCAAAATTTGTTCCATAGGGTATGAGCTCCAAAGATCGCAATTCCGTCAACGGTTGGAGAAGT
1 AACCAAAATTTGTTCCATAGGGTATGAGCTCCAAAGATCGCAATTCCATCAAAGGTTGGAGAAGT
* * *
48145337 TACAAGTGAAAAATGAATTATTTGGGCAATGGCTCATTAAAATCCCATTTGAATCTTAGGGCCAT
66 TACAAGTGAAAAATGAATTATATAGGCAATGGCTCATTAAAATCCCACTTGAATCTTAGGGCCAT
* * *
48145402 TTATGCAATAAACATGAAAGGGGCCAATAAGGGCATATGGCAACCAACCTGGTGAAGGCCGTGAA
131 TTATACAATAAACATGAAAGGGGCCAATAAGGGCATATGACAACCAACCTGGTGAAGGCCATGAA
* * * *
48145467 TTTTGTTATGAAGGGGGCGCGTCAGTTGCCCATACCTTTTGTGTTCACTTCTACTTTTCAGAGAA
196 TTTTATTATGAAGGGGACGCATCAGTTGCCCATACATTTTGTGTTCACTTCTACTTTTCAGAGAA
48145532 GTTACGAGTGAAAAATGACTTAACTGGGCATG
261 GTTACGAGTGAAAAATGACTTAACTGGGCATG
* *
48145564 AACCAAAATTTTTTCCATAGGGTATGAGCTCCAAAGATCTCAATTCCATCAAAGGTTGGAGAAGT
1 AACCAAAATTTGTTCCATAGGGTATGAGCTCCAAAGATCGCAATTCCATCAAAGGTTGGAGAAGT
* *
48145629 TACGAGTGAAAAATGACTTATATAGGCAATGGCT-AGTTAAAATCCCACTTGAATCTTAGGGCCA
66 TACAAGTGAAAAATGAATTATATAGGCAATGGCTCA-TTAAAATCCCACTTGAATCTTAGGGCCA
* * * * *
48145693 TTTATACAATGAACATGAAGGGGGCCGATATGGGCATATGACAACCAACTTGGTGAAGGCCATGA
130 TTTATACAATAAACATGAAAGGGGCCAATAAGGGCATATGACAACCAACCTGGTGAAGGCCATGA
* * *
48145758 ATTTTATTGTGAAGGGGACGCATCATTTGCCCATACATTTTGTGTTCACTTCTACTTTTCGGAGA
195 ATTTTATTATGAAGGGGACGCATCAGTTGCCCATACATTTTGTGTTCACTTCTACTTTTCAGAGA
48145823 TAGGTTGCTT
Statistics
Matches: 234, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
291 1 0.00
292 233 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (292 bp):
AACCAAAATTTGTTCCATAGGGTATGAGCTCCAAAGATCGCAATTCCATCAAAGGTTGGAGAAGT
TACAAGTGAAAAATGAATTATATAGGCAATGGCTCATTAAAATCCCACTTGAATCTTAGGGCCAT
TTATACAATAAACATGAAAGGGGCCAATAAGGGCATATGACAACCAACCTGGTGAAGGCCATGAA
TTTTATTATGAAGGGGACGCATCAGTTGCCCATACATTTTGTGTTCACTTCTACTTTTCAGAGAA
GTTACGAGTGAAAAATGACTTAACTGGGCATG
Found at i:48148808 original size:20 final size:20
Alignment explanation
Indices: 48148762--48148815 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
48148752 TAAACTTACC
*
48148762 CCAA-GTATCGATACTTGGG
1 CCAAGGTATCGATACTTGAG
48148781 CCAAGGTATCGATACTTGAG
1 CCAAGGTATCGATACTTGAG
***
48148801 CTGTGGTATCGATAC
1 CCAAGGTATCGATAC
48148816 CAATTCTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (20 bp):
CCAAGGTATCGATACTTGAG
Found at i:48149642 original size:34 final size:34
Alignment explanation
Indices: 48149599--48149667 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
48149589 TAGCTAAAAC
* *
48149599 TCTCTAACACACCACATATACATATCCTGATGAA
1 TCTCCAACACACCACACATACATATCCTGATGAA
*
48149633 TCTCCAACACACCATACATACATATCCTGATGAA
1 TCTCCAACACACCACACATACATATCCTGATGAA
48149667 T
1 T
48149668 GGAGCTTAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.38, C:0.30, G:0.06, T:0.26
Consensus pattern (34 bp):
TCTCCAACACACCACACATACATATCCTGATGAA
Found at i:48149922 original size:19 final size:18
Alignment explanation
Indices: 48149898--48149940 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
48149888 TTCAGAACAA
48149898 TCATTTA-TCAAATATCAT
1 TCATTTAGT-AAATATCAT
48149916 CTCATTTTAGTAAATATCAT
1 -TCA-TTTAGTAAATATCAT
48149936 TCATT
1 TCATT
48149941 CACATTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 2 0.09
19 6 0.27
20 13 0.59
21 1 0.05
ACGTcount: A:0.35, C:0.16, G:0.02, T:0.47
Consensus pattern (18 bp):
TCATTTAGTAAATATCAT
Found at i:48151407 original size:23 final size:23
Alignment explanation
Indices: 48151375--48151508 Score: 105
Period size: 23 Copynumber: 5.8 Consensus size: 23
48151365 CTGATGAACA
* *
48151375 ATAAGATCTATTGAGCTGAAAAG
1 ATAAGCTCTATCGAGCTGAAAAG
* *
48151398 ATAAGCTCTATCGAGTTGAAATG
1 ATAAGCTCTATCGAGCTGAAAAG
* *
48151421 ATAAGCTCTATCGAGTTGAACAG
1 ATAAGCTCTATCGAGCTGAAAAG
* *
48151444 -TAAGCTC-ACACGAGCTGAAACG
1 ATAAGCTCTA-TCGAGCTGAAAAG
* * *
48151466 GTAAGCTCCAAT-GAGCTGAAAAC
1 ATAAGCT-CTATCGAGCTGAAAAG
48151489 AGTAAGCTCTTAT-GAGCTGA
1 A-TAAGCTC-TATCGAGCTGA
48151509 TATATCGATA
Statistics
Matches: 90, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.01
22 16 0.18
23 56 0.62
24 16 0.18
25 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (23 bp):
ATAAGCTCTATCGAGCTGAAAAG
Found at i:48151493 original size:24 final size:24
Alignment explanation
Indices: 48151439--48151508 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
48151429 TATCGAGTTG
*
48151439 AACAGTAAGCT-CACACGAGCTG-A
1 AACAGTAAGCTCCA-ATGAGCTGAA
*
48151462 AACGGTAAGCTCCAATGAGCTGAA
1 AACAGTAAGCTCCAATGAGCTGAA
**
48151486 AACAGTAAGCTCTTATGAGCTGA
1 AACAGTAAGCTCCAATGAGCTGA
48151509 TATATCGATA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
23 17 0.43
24 23 0.57
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (24 bp):
AACAGTAAGCTCCAATGAGCTGAA
Found at i:48153084 original size:42 final size:43
Alignment explanation
Indices: 48153023--48153128 Score: 110
Period size: 43 Copynumber: 2.5 Consensus size: 43
48153013 TATGATTTAC
* *
48153023 GTGTAAGACCATGTTTGGGACA-TCGACATC-ATATTTGATTCT
1 GTGTAAGACCATATCTGGGACAGT-GACATCAATATTTGATTCT
* * **
48153065 GTGTAAGACCCTATCTGGGACAGTGGCATCAATATTTGATTAA
1 GTGTAAGACCATATCTGGGACAGTGACATCAATATTTGATTCT
*
48153108 ATGTAAGACCA-ATTCTGGGAC
1 GTGTAAGACCATA-TCTGGGAC
48153129 GTTGGCATTG
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 25 0.47
43 28 0.53
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCATATCTGGGACAGTGACATCAATATTTGATTCT
Found at i:48164524 original size:17 final size:18
Alignment explanation
Indices: 48164487--48164527 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
48164477 TGTTTTATTA
48164487 TATTTTAAAAAATTAAAAT
1 TATTTTAAAAAA-TAAAAT
*
48164506 TATTTTAAAAAA-AATAT
1 TATTTTAAAAAATAAAAT
48164523 TATTT
1 TATTT
48164528 CACTATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
19 12 0.57
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTTTAAAAAATAAAAT
Found at i:48165821 original size:187 final size:182
Alignment explanation
Indices: 48165477--48165829 Score: 424
Period size: 187 Copynumber: 1.9 Consensus size: 182
48165467 AAAGTTTTGA
* *
48165477 GAGAGTAAAATATTGAGGGAAATTAAATGAGAGAGTAAAATTTTGGAGGGAAAATATTAAAAAAT
1 GAGAGTAAAATATTGAGGGAAAGTAAATGAGAGAGTAAAATTTTGGAGAGAAAATATTAAAAAAT
* * *
48165542 GTGGGGGATAGATTTGGAGTAGATGGGAGGTGGAATGAGAGGAGAGTAAAAATTTTAGGGGTAGA
66 GTGGGGGATAGATTTGGAGTAGATGGGAGGTGGAATGAGAGGAGAGTAAAAATTTTAGAGGAAAA
* * *
48165607 GTGGGAGGGAGTAAAAATTTAGGGGGAAAA-TAAAATATTTTAAGGGTTTTT
131 GTGAGAAGGAATAAAAATTTAGGGGGAAAAGTAAAATATTTTAAGGGTTTTT
* * * *
48165658 GAGAGTAAAATTTTGAGGGAAAGTAGAT-AGGGAGTAAAATTTTTGAGAGAAAATACTTTAAAAA
1 GAGAGTAAAATATTGAGGGAAAGTAAATGAGAGAGTAAAATTTTGGAGAGAAAATA--TT-AAAA
* * * * * * *
48165722 AATTTGGTGGGAAATGGATTTGGGGTAGATGGGGGGTTGGGATGAGAGGTGAGTAAAAGTTTT-G
63 AATGTGG-GGG--ATAGATTTGGAGTAGATGGGAGG-TGGAATGAGAGGAGAGTAAAAATTTTAG
* *
48165786 TAGGAAAAGTGAGAAGGAATAAAATTTTTGGGGGAAAAGTAAAA
124 -AGGAAAAGTGAGAAGGAATAAAAATTTAGGGGGAAAAGTAAAA
48165830 CGGTTTGGGG
Statistics
Matches: 142, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
180 24 0.17
181 25 0.18
182 2 0.01
183 10 0.07
184 3 0.02
186 21 0.15
187 52 0.37
188 5 0.04
ACGTcount: A:0.40, C:0.00, G:0.34, T:0.26
Consensus pattern (182 bp):
GAGAGTAAAATATTGAGGGAAAGTAAATGAGAGAGTAAAATTTTGGAGAGAAAATATTAAAAAAT
GTGGGGGATAGATTTGGAGTAGATGGGAGGTGGAATGAGAGGAGAGTAAAAATTTTAGAGGAAAA
GTGAGAAGGAATAAAAATTTAGGGGGAAAAGTAAAATATTTTAAGGGTTTTT
Found at i:48167245 original size:20 final size:20
Alignment explanation
Indices: 48167220--48167258 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
48167210 TCAATTTATT
48167220 AAAAGAAAGTCCAAAAATTC
1 AAAAGAAAGTCCAAAAATTC
48167240 AAAAGAAAGTCCAAAAATT
1 AAAAGAAAGTCCAAAAATT
48167259 TAAATTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.13, G:0.10, T:0.15
Consensus pattern (20 bp):
AAAAGAAAGTCCAAAAATTC
Found at i:48169550 original size:3 final size:3
Alignment explanation
Indices: 48169542--48169604 Score: 60
Period size: 3 Copynumber: 21.3 Consensus size: 3
48169532 TACTTATACG
* * *
48169542 TTA TTA TTA TTA TTA TTA TTA TTA TCA -AA TTAA TCA TT- TT- TTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TT-A
48169586 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
48169605 GTTTCTTTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
2 5 0.10
3 42 0.82
4 4 0.08
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:48169676 original size:17 final size:18
Alignment explanation
Indices: 48169634--48169676 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
48169624 ACCTAAAATT
*
48169634 TTTATATACATTTATTTTA
1 TTTATAT-CATTTATTCTA
48169653 TTT-TATCATTTA-TCTA
1 TTTATATCATTTATTCTA
48169669 TTTATATC
1 TTTATATC
48169677 CTTTTATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.27
17 10 0.45
18 3 0.14
19 3 0.14
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATATCATTTATTCTA
Found at i:48171472 original size:9 final size:9
Alignment explanation
Indices: 48171458--48171482 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
48171448 TGAAAAAAAT
48171458 ATGGGATCA
1 ATGGGATCA
48171467 ATGGGATCA
1 ATGGGATCA
48171476 ATGGGAT
1 ATGGGAT
48171483 GACGAGATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.36, T:0.24
Consensus pattern (9 bp):
ATGGGATCA
Found at i:48181687 original size:96 final size:96
Alignment explanation
Indices: 48181494--48181670 Score: 221
Period size: 96 Copynumber: 1.8 Consensus size: 96
48181484 GAGCAGGTTG
* * * *
48181494 AAATTACAAGTCTTATCTCCTTGAAGTTGCAGCGGAGCAAACTGAAGATAGTAAATCTCATTTCA
1 AAATTACAAATCTTATCTCCTTGAAGTTGCAGCGGAGCAAACTGAAGATAGCAAACCTCATCTCA
*
48181559 TTGAAGTTGCAGTGGAACAGATTAAAGCTAC
66 CTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * * * *
48181590 AAATTACAAATCTTATCT-CTCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAGACCTTATCTC
1 AAATTACAAATCTTATCTCCT-TGAAGTTGCAGCGGAGCAAACTGAAGATAGCAAACCTCATCTC
* *
48181654 CCTGAAGTTGTAGTGGA
65 ACTGAAGTTGCAGTGGA
48181671 GCATATTGAA
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
95 2 0.03
96 65 0.97
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (96 bp):
AAATTACAAATCTTATCTCCTTGAAGTTGCAGCGGAGCAAACTGAAGATAGCAAACCTCATCTCA
CTGAAGTTGCAGTGGAACAGATTAAAGCTAC
Found at i:48181713 original size:44 final size:44
Alignment explanation
Indices: 48181593--48181813 Score: 182
Period size: 45 Copynumber: 5.0 Consensus size: 44
48181583 AAGCTACAAA
* * *
48181593 TTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTGAAG
1 TTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * *
48181637 ATAGC-AGACCTTATCTCCCTGAAGTTGTAGTGGAGCATATTGAAG
1 TTA-CAAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * *
48181682 TTACAAGTCTTATCTCCCTAAAATTACAGTGGAGCAGACTGAA-
1 TTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* * * * * *
48181725 TATAGCGAA-TCTTATCTCTCTAAATTTGCAATGAAGCAGATTAAAG
1 T-TA-C-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
* *
48181771 CTACTAA-TCTTAT-TCCTTGAAGTTGCAGTGGAGCAGATTGAAG
1 TTAC-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
48181814 CAACAAATCC
Statistics
Matches: 139, Mismatches: 31, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
43 24 0.17
44 44 0.32
45 69 0.50
46 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (44 bp):
TTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
Found at i:48183151 original size:3 final size:3
Alignment explanation
Indices: 48183143--48183188 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
48183133 TTTTGCTACT
*
48183143 TTA TTA TTA -AA TTA GTTA TTA TTA TTA TTA -TA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
48183188 T
1 T
48183189 ATTTCTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 3 0.08
3 29 0.78
4 5 0.14
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:48183166 original size:18 final size:19
Alignment explanation
Indices: 48183143--48183187 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
48183133 TTTTGCTACT
48183143 TTATTATTAAAT-TAGTTA
1 TTATTATTAAATATAGTTA
* *
48183161 TTATTATT-ATTATATTTA
1 TTATTATTAAATATAGTTA
48183179 TTATTATTA
1 TTATTATTA
48183188 TATTTCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TTATTATTAAATATAGTTA
Found at i:48183169 original size:21 final size:21
Alignment explanation
Indices: 48183143--48183188 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
48183133 TTTTGCTACT
48183143 TTATTATTA-AATTAGTTATTA
1 TTATTATTATAATTA-TTATTA
*
48183164 TTATTATTATATTTATTATTA
1 TTATTATTATAATTATTATTA
48183185 TTAT
1 TTAT
48183189 ATTTCTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATTATTATAATTATTATTA
Found at i:48183179 original size:15 final size:15
Alignment explanation
Indices: 48183161--48183192 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
48183151 AAATTAGTTA
48183161 TTATTATTATTATAT
1 TTATTATTATTATAT
48183176 TTATTATTATTATAT
1 TTATTATTATTATAT
48183191 TT
1 TT
48183193 CTTTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATTATTATTATAT
Found at i:48185676 original size:13 final size:13
Alignment explanation
Indices: 48185658--48185697 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
48185648 TCTTCTTCTA
48185658 TTCTTTTTTCTTT
1 TTCTTTTTTCTTT
*
48185671 TTCTTTTTTC-CT
1 TTCTTTTTTCTTT
*
48185683 TTCTTTCTTCTTT
1 TTCTTTTTTCTTT
48185696 TT
1 TT
48185698 ACTTCTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTCTTTTTTCTTT
Found at i:48186493 original size:13 final size:13
Alignment explanation
Indices: 48186475--48186506 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
48186465 AGAATATAGA
48186475 CGTGTGTCCTGGC
1 CGTGTGTCCTGGC
48186488 CGTGTGTCCTGGC
1 CGTGTGTCCTGGC
48186501 CGTGTG
1 CGTGTG
48186507 GCGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.28, G:0.41, T:0.31
Consensus pattern (13 bp):
CGTGTGTCCTGGC
Found at i:48187001 original size:19 final size:19
Alignment explanation
Indices: 48186977--48187015 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
48186967 GTTAGGAATA
48186977 TCTACATCTAACTCTGATC
1 TCTACATCTAACTCTGATC
*
48186996 TCTACATCTGACTCTGATC
1 TCTACATCTAACTCTGATC
48187015 T
1 T
48187016 GTTCTGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (19 bp):
TCTACATCTAACTCTGATC
Found at i:48199537 original size:29 final size:28
Alignment explanation
Indices: 48199471--48199539 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 28
48199461 TTATTATTTG
* *
48199471 AGACTGTATCTG-AATGGGATTAGGCCC
1 AGACTGTATATGTAATGGGATCAGGCCC
* *
48199498 AAACTGAATATGTAATGGGCA-CAGGCCCC
1 AGACTGTATATGTAATGGG-ATCAGG-CCC
48199527 AGACTGTATATGT
1 AGACTGTATATGT
48199540 TTGATTCTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 9 0.27
28 9 0.27
29 15 0.45
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (28 bp):
AGACTGTATATGTAATGGGATCAGGCCC
Found at i:48199915 original size:45 final size:45
Alignment explanation
Indices: 48199864--48199954 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
48199854 AATGTTGAAA
*
48199864 TTACCGTTACTGTTACCGATTC-GACACTTTGTGTGTCGAATACTG
1 TTACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAATACTG
*
48199909 TTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTG
1 TTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTG
48199954 T
1 T
48199955 CACTGATTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 42 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.40
Consensus pattern (45 bp):
TTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTG
Found at i:48209478 original size:24 final size:24
Alignment explanation
Indices: 48209451--48209582 Score: 178
Period size: 25 Copynumber: 5.4 Consensus size: 24
48209441 TTGGAGGCCT
48209451 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
*
48209475 AGCCCTTTTAAAAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
48209499 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
48209523 AGCCCTTTATCATAAATGGGGCATA
1 AGCCCTTT-TAATAACTGGGGCATA
*
48209548 AGCCCTTTATCAA-AACTGAGGCATA
1 AGCCCTTT-T-AATAACTGGGGCATA
48209573 AGCCCTTTTA
1 AGCCCTTTTA
48209583 CACTTCCTCC
Statistics
Matches: 98, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
23 18 0.18
24 37 0.38
25 42 0.43
26 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:48209656 original size:20 final size:20
Alignment explanation
Indices: 48209631--48209697 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
48209621 TTATGAATAC
48209631 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
48209651 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
48209671 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
48209691 ACCATGT
1 ATCATGT
48209698 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:48209662 original size:11 final size:11
Alignment explanation
Indices: 48209631--48209686 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
48209621 TTATGAATAC
48209631 ATCATGTGCAT
1 ATCATGTGCAT
*
48209642 ATCA--TACAT
1 ATCATGTGCAT
48209651 ATCATGTGCAT
1 ATCATGTGCAT
*
48209662 ATCA--TACAT
1 ATCATGTGCAT
*
48209671 GTCATGTGCAT
1 ATCATGTGCAT
48209682 ATCAT
1 ATCAT
48209687 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:48212749 original size:6 final size:6
Alignment explanation
Indices: 48212738--48212771 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
48212728 TAAATTTGGG
48212738 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
48212772 TTGTAGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:48224262 original size:12 final size:12
Alignment explanation
Indices: 48224245--48224276 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
48224235 ATCTAGGTAA
48224245 GGCCAATGTGAT
1 GGCCAATGTGAT
48224257 GGCCAATGTGAT
1 GGCCAATGTGAT
48224269 GGCCAATG
1 GGCCAATG
48224277 CACTGAGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (12 bp):
GGCCAATGTGAT
Found at i:48228456 original size:20 final size:20
Alignment explanation
Indices: 48228418--48228456 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48228408 TAAGTTCAAT
* *
48228418 AAATTTTAACATATTAAAAG
1 AAATTTAAACATATAAAAAG
*
48228438 AAATTTAAACATGTAAAAA
1 AAATTTAAACATATAAAAA
48228457 AACTAATGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (20 bp):
AAATTTAAACATATAAAAAG
Found at i:48234097 original size:68 final size:68
Alignment explanation
Indices: 48233987--48234156 Score: 198
Period size: 68 Copynumber: 2.5 Consensus size: 68
48233977 GAAAGTATGG
* * * * *
48233987 CATCATATTGTGTAAGACCATAGCTGGACTACGACAACATATGAAGTCT-GTAAGGACAGTAAAC
1 CATCATATTGTGTAAGACCATAGCTGGGCTATGGCAAAATATGAAGT-TAGTAAGGACAGGAAAC
48234051 ATGA
65 ATGA
* * *
48234055 CATCATATTGTGTATGACCATAGCTGGGCTATGGCAAAATATGAAGTTAGTCAGGATAGGAAACA
1 CATCATATTGTGTAAGACCATAGCTGGGCTATGGCAAAATATGAAGTTAGTAAGGACAGGAAACA
48234120 TGA
66 TGA
* * * * * *
48234123 CAACTTATAGTGTAAGGCCATAGTTAGGCTATGG
1 CATCATATTGTGTAAGACCATAGCTGGGCTATGG
48234157 TAGCATATAA
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
67 1 0.01
68 85 0.99
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (68 bp):
CATCATATTGTGTAAGACCATAGCTGGGCTATGGCAAAATATGAAGTTAGTAAGGACAGGAAACA
TGA
Found at i:48234316 original size:30 final size:30
Alignment explanation
Indices: 48234280--48234394 Score: 185
Period size: 30 Copynumber: 3.8 Consensus size: 30
48234270 ATCCATATTT
* *
48234280 ATGGAAAATCAAAGATATGGGTATTAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
48234310 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
48234340 TTAGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
48234370 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
48234395 GAGATATTGG
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 80 1.00
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:48234366 original size:15 final size:15
Alignment explanation
Indices: 48234287--48234394 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
48234277 TTTATGGAAA
48234287 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
48234302 ATTAAATA-ATGGAA
1 ATCAAAGATATGGGT
48234316 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* * **
48234332 ATCAAATAT-TAGAA
1 ATCAAAGATATGGGT
48234346 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
48234362 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
48234376 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
48234392 ATC
1 ATC
48234395 GAGATATTGG
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 12 0.18
15 41 0.63
16 12 0.18
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:48238998 original size:15 final size:15
Alignment explanation
Indices: 48238978--48239085 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
48238968 TTTATGGAAA
48238978 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
48238993 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
48239007 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
48239023 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
48239037 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
48239053 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
48239067 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
48239083 ATC
1 ATC
48239086 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:48239007 original size:30 final size:30
Alignment explanation
Indices: 48238971--48239085 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
48238961 ATCCATATTT
*
48238971 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
48239001 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
48239031 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
48239061 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
48239086 GAGATATTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:48246616 original size:3 final size:3
Alignment explanation
Indices: 48246608--48246651 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
48246598 CACTTATGTA
* * *
48246608 ATC ATC ATC ATC ATC ATC ACC ATC ACC ATC ATC ATT ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
48246652 TTTCTTCTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:48248217 original size:26 final size:27
Alignment explanation
Indices: 48248188--48248241 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
48248178 CTAGTTTGGC
*
48248188 AATAGTTTTGA-AAAGTG-TTGTGAAAA
1 AATACTTTTGAGAAA-TGCTTGTGAAAA
*
48248214 AATACTTTTGAGAAATGCTTTTGAAAA
1 AATACTTTTGAGAAATGCTTGTGAAAA
48248241 A
1 A
48248242 TTTGGTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.35
Consensus pattern (27 bp):
AATACTTTTGAGAAATGCTTGTGAAAA
Found at i:48248446 original size:28 final size:30
Alignment explanation
Indices: 48248414--48248479 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
48248404 ATTATAACTT
48248414 ATTTTTAATA-TTTTAA-T-ATATAATATTA
1 ATTTTTAATATTTTTAAGTAAT-TAATATTA
*
48248442 ATTTTAAATATTTTTAAGTAATTAATATTA
1 ATTTTTAATATTTTTAAGTAATTAATATTA
48248472 ATTATTTA
1 ATT-TTTA
48248480 TTAAATTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 9 0.28
29 6 0.19
30 12 0.38
31 5 0.16
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (30 bp):
ATTTTTAATATTTTTAAGTAATTAATATTA
Found at i:48253274 original size:44 final size:44
Alignment explanation
Indices: 48253224--48253313 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
48253214 GTTGAAATAA
* * **
48253224 AATAGAATTTGTGCTAATTGTACATTTAGAAA-TAATTACAATTT
1 AATAGAAGTTGTGATAATTACACATTTA-AAAGTAATTACAATTT
* *
48253268 AATAGAAGTTGTGATAATTACATATTTAAAAGTAATTAGAATTT
1 AATAGAAGTTGTGATAATTACACATTTAAAAGTAATTACAATTT
48253312 AA
1 AA
48253314 ATTACAATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 3 0.08
44 36 0.92
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.39
Consensus pattern (44 bp):
AATAGAAGTTGTGATAATTACACATTTAAAAGTAATTACAATTT
Found at i:48253950 original size:20 final size:19
Alignment explanation
Indices: 48253893--48253953 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
48253883 AACTTAAACT
*
48253893 TTTTTTAAAATTATA-AAA
1 TTTTTTAAAATAATATAAA
* *
48253911 ATATTTAAAATAAGGT-TAAA
1 TTTTTTAAAATAA--TATAAA
48253931 TTTTTTAAAATAATTATAAA
1 TTTTTTAAAATAA-TATAAA
48253951 TTT
1 TTT
48253954 GTAAAAAAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 10 0.30
19 1 0.03
20 22 0.67
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (19 bp):
TTTTTTAAAATAATATAAA
Found at i:48254264 original size:37 final size:37
Alignment explanation
Indices: 48254213--48254288 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
48254203 ATTAAAGAAT
* *
48254213 GTGTATAAAGTATTTTTTTACATGTGTAGTCTAAAAA
1 GTGTATAAAGTATTTTCTTACATGTGTAGCCTAAAAA
* *
48254250 GTGTATCAATTATTTTCTTACATGTGTAGCCTAAAAA
1 GTGTATAAAGTATTTTCTTACATGTGTAGCCTAAAAA
48254287 GT
1 GT
48254289 TAAAATAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (37 bp):
GTGTATAAAGTATTTTCTTACATGTGTAGCCTAAAAA
Found at i:48257481 original size:29 final size:29
Alignment explanation
Indices: 48257439--48257498 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
48257429 TGGGCTAATT
48257439 TAGTGGAATGCCTACCGAAGATCCTCACA
1 TAGTGGAATGCCTACCGAAGATCCTCACA
*
48257468 TAGTGGAATGCCTACCGAAGATCCTTACA
1 TAGTGGAATGCCTACCGAAGATCCTCACA
48257497 TA
1 TA
48257499 CACTTAAGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (29 bp):
TAGTGGAATGCCTACCGAAGATCCTCACA
Found at i:48263240 original size:17 final size:18
Alignment explanation
Indices: 48263214--48263247 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
48263204 TTTTTGTTTA
48263214 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
48263231 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
48263248 ATACTTGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:48263816 original size:20 final size:21
Alignment explanation
Indices: 48263775--48263816 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
48263765 GACCTATTTT
*
48263775 GTTCATTAATTATTTTTAAGA
1 GTTCATTAATTATTTATAAGA
48263796 GTTC-TTAATT-TTTATAGAGA
1 GTTCATTAATTATTTATA-AGA
48263816 G
1 G
48263817 GGTGGTAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 5 0.26
20 10 0.53
21 4 0.21
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.50
Consensus pattern (21 bp):
GTTCATTAATTATTTATAAGA
Found at i:48263957 original size:31 final size:31
Alignment explanation
Indices: 48263898--48263959 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 31
48263888 TATCCTAAAT
48263898 TTTAATTAAATTTTTGAAATTAATAATTTTTA
1 TTTAATTAAATTTTTGAAA-TAATAATTTTTA
48263930 TTTAATTAAATTTTTGAGAA-AATAATTTTT
1 TTTAATTAAATTTTTGA-AATAATAATTTTT
48263960 CCCATCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 10 0.34
32 17 0.59
33 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (31 bp):
TTTAATTAAATTTTTGAAATAATAATTTTTA
Found at i:48270697 original size:21 final size:21
Alignment explanation
Indices: 48270671--48270712 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
48270661 ACGACGATTC
*
48270671 AGCAAGTGTGAAATTTTGGTT
1 AGCAAGTGTGAAATTTAGGTT
48270692 AGCAAGTGTGAAATTTAGGTT
1 AGCAAGTGTGAAATTTAGGTT
48270713 GAACCTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.36
Consensus pattern (21 bp):
AGCAAGTGTGAAATTTAGGTT
Found at i:48281644 original size:15 final size:14
Alignment explanation
Indices: 48281622--48281663 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
48281612 GAGATTGGAG
48281622 AGGGGATTTTCGGC
1 AGGGGATTTTCGGC
*
48281636 AGAGGGATTTTAGG-
1 AG-GGGATTTTCGGC
*
48281650 TGGGGATTTTCGGC
1 AGGGGATTTTCGGC
48281664 TTTAGGGGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 10 0.43
14 3 0.13
15 10 0.43
ACGTcount: A:0.17, C:0.10, G:0.43, T:0.31
Consensus pattern (14 bp):
AGGGGATTTTCGGC
Found at i:48282954 original size:20 final size:20
Alignment explanation
Indices: 48282931--48282969 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
48282921 TAAACATGGT
48282931 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
48282951 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
48282970 TGTAATCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:48283050 original size:23 final size:23
Alignment explanation
Indices: 48283021--48283115 Score: 154
Period size: 23 Copynumber: 4.1 Consensus size: 23
48283011 AGGAAGTGTA
*
48283021 AAAGGGCTTATACCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
48283044 AAAGGGCTTATGCCTCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48283067 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
48283090 AAAGGGCTTTTTCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48283113 AAA
1 AAA
48283116 AGAGGCTAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:48283365 original size:31 final size:31
Alignment explanation
Indices: 48283330--48283393 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
48283320 CGTTTACAGT
*
48283330 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
**
48283361 AAAGGCTTCGGCCCAATGTTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
48283392 AA
1 AA
48283394 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:48290853 original size:24 final size:24
Alignment explanation
Indices: 48290822--48290867 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
48290812 TTATAACATG
* *
48290822 AAAATGACCATTTTGCCCCTAGTA
1 AAAATGACCATTATACCCCTAGTA
48290846 AAAATGACCATTATACCCCTAG
1 AAAATGACCATTATACCCCTAG
48290868 GGTTTATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGTA
Found at i:48290952 original size:11 final size:11
Alignment explanation
Indices: 48290916--48290971 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
48290906 CATGGTATAT
48290916 ATGATATGCAC
1 ATGATATGCAC
* *
48290927 ATGACATG--T
1 ATGATATGCAC
48290936 ATGATATGCAC
1 ATGATATGCAC
*
48290947 ATGATATG--T
1 ATGATATGCAC
48290956 ATGATATGCAC
1 ATGATATGCAC
48290967 ATGAT
1 ATGAT
48290972 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:48290971 original size:20 final size:20
Alignment explanation
Indices: 48290905--48290971 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
48290895 ATTTTGATAA
* *
48290905 ACATGGTATATATGATATGC
1 ACATGATATGTATGATATGC
*
48290925 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
48290945 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
48290965 ACATGAT
1 ACATGAT
48290972 GTAATCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:48291047 original size:24 final size:24
Alignment explanation
Indices: 48291020--48291096 Score: 129
Period size: 24 Copynumber: 3.2 Consensus size: 24
48291010 GGAGGAAGTG
48291020 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
48291044 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
48291067 TAAAAGGGCTTTTGCCCCATTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
48291091 TAAAAG
1 TAAAAG
48291097 AGGGTAGGCC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
23 23 0.46
24 27 0.54
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:48291051 original size:23 final size:23
Alignment explanation
Indices: 48291022--48291094 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
48291012 AGGAAGTGTA
48291022 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48291045 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
48291068 AAAAGGGCTTTTGCCCCATTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
48291092 AAA
1 AAA
48291095 AGAGGGTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:48291344 original size:31 final size:31
Alignment explanation
Indices: 48291309--48291367 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
48291299 CGTTTACAGT
48291309 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
48291340 AAAGGCTTCGGCCCAGTGTTATGAAATA
1 AAAGGCTTCGGCCCAGTAATATGAAATA
48291368 GTAAATATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:48293251 original size:5 final size:5
Alignment explanation
Indices: 48293243--48293269 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
48293233 TAAAAATAAA
48293243 ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT AT
48293270 GGTTGATATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:48299824 original size:21 final size:21
Alignment explanation
Indices: 48299798--48299903 Score: 131
Period size: 21 Copynumber: 5.0 Consensus size: 21
48299788 AGAACATGCC
* *
48299798 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCGTGAGAGCTG
48299819 AACAGAAGCTCGTGAGAGCTG
1 AACAGAAGCTCGTGAGAGCTG
* * *
48299840 AATATAAGCTCGTGAGTGCTG
1 AACAGAAGCTCGTGAGAGCTG
*
48299861 AACATAAGCTCGTGAGAGCTG
1 AACAGAAGCTCGTGAGAGCTG
* * *
48299882 AAGAGAAGCTTGTAAGAGCTG
1 AACAGAAGCTCGTGAGAGCTG
48299903 A
1 A
48299904 TCCACCCAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 74 1.00
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.19
Consensus pattern (21 bp):
AACAGAAGCTCGTGAGAGCTG
Found at i:48304861 original size:62 final size:62
Alignment explanation
Indices: 48304770--48304886 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 62
48304760 GTCACTGACT
* *
48304770 GTGTGGTTCTATACCATAAACAGTAAGTTACACAGCCTAGGCACACACCCGTGTCTCCAGCC
1 GTGTGGTTCTATACCATAAACAGTAAGTTACACAGCCCAGACACACACCCGTGTCTCCAGCC
* * * ** *
48304832 GTGTGGTTTTATACCATAAGCAGTGAGTTACATTGCCCAGACACACACTCGTGTC
1 GTGTGGTTCTATACCATAAACAGTAAGTTACACAGCCCAGACACACACCCGTGTC
48304887 CGTTGCCCGT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 47 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (62 bp):
GTGTGGTTCTATACCATAAACAGTAAGTTACACAGCCCAGACACACACCCGTGTCTCCAGCC
Found at i:48308071 original size:20 final size:20
Alignment explanation
Indices: 48308046--48308091 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
48308036 ATTGGGCCTT
48308046 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
48308066 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
48308085 GCCCATA
1 GCCCATA
48308092 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:48308100 original size:19 final size:20
Alignment explanation
Indices: 48308058--48308101 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
48308048 CCATATTAAC
** *
48308058 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
48308078 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
48308097 ACAGT
1 ACAGT
48308102 CTTATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:48314297 original size:20 final size:20
Alignment explanation
Indices: 48314268--48314305 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
48314258 TTTATACATT
*
48314268 TATTTTTAGGAATTTATTCG
1 TATTTCTAGGAATTTATTCG
48314288 TATTTCTAGGAATTTATT
1 TATTTCTAGGAATTTATT
48314306 TGTACTTTTA
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:0.26, C:0.05, G:0.13, T:0.55
Consensus pattern (20 bp):
TATTTCTAGGAATTTATTCG
Found at i:48317727 original size:125 final size:126
Alignment explanation
Indices: 48317598--48317905 Score: 336
Period size: 126 Copynumber: 2.5 Consensus size: 126
48317588 GTTAAACGGT
* * * * * *
48317598 AAATCGCAACCCAGCACGATTGGGCACGATTTAC-CGAATTTCC-AAATACGAAATATTGCCTCA
1 AAATCGAAACCCAGCACGATAGGGCACGATTT-CTCAAACTCCCTAAACACGAAATATTGCCTCA
* * *
48317661 TTTTAA-TTTAAGAAAACATCGATGAAATGTCAAAAGGATATTCCGTATCTTAGTCGAATGAA
65 TTTTAATTTTAA-AAAACATCGACGAAATGTCAAAAGGATATTCCATATCTTAGTCGAACGAA
* *
48317723 AAATCGAAACCCAGCACGATAGGACACGATCTCTCAAACTCCCTAAACACGAAATATTGCCTCAT
1 AAATCGAAACCCAGCACGATAGGGCACGATTTCTCAAACTCCCTAAACACGAAATATTGCCTCAT
* * * ** * * *
48317788 TTTAATTTTAAAAAGCATGGACGAAATTTTTAAAGGATATTTCATATTTTAGTTGAACGAA
66 TTTAATTTTAAAAAACATCGACGAAATGTCAAAAGGATATTCCATATCTTAGTCGAACGAA
* * * * ** *
48317849 AAATTGAAACCTAGCACGATAAGGCACGATTCCTTGAACTCCC-AAACACAAAATATT
1 AAATCGAAACCCAGCACGATAGGGCACGATTTCTCAAACTCCCTAAACACGAAATATT
48317906 TCCTTATGTT
Statistics
Matches: 152, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
124 1 0.01
125 47 0.31
126 99 0.65
127 5 0.03
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (126 bp):
AAATCGAAACCCAGCACGATAGGGCACGATTTCTCAAACTCCCTAAACACGAAATATTGCCTCAT
TTTAATTTTAAAAAACATCGACGAAATGTCAAAAGGATATTCCATATCTTAGTCGAACGAA
Found at i:48318052 original size:21 final size:23
Alignment explanation
Indices: 48318005--48318058 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
48317995 CATTCAAGAT
**
48318005 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
48318028 AAAATAATATAT-AAA-TAATTC
1 AAAATAATATATAAAACTAATTA
48318049 AAAAT-ATATA
1 AAAATAATATA
48318059 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 8 0.29
22 3 0.11
23 12 0.43
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:48318245 original size:12 final size:12
Alignment explanation
Indices: 48318228--48318254 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48318218 AAAAACATAT
48318228 ATAATAAAAATA
1 ATAATAAAAATA
48318240 ATAATAAAAATA
1 ATAATAAAAATA
48318252 ATA
1 ATA
48318255 TTAGTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
ATAATAAAAATA
Found at i:48318303 original size:29 final size:30
Alignment explanation
Indices: 48318230--48318303 Score: 68
Period size: 29 Copynumber: 2.6 Consensus size: 30
48318220 AAACATATAT
*
48318230 AATAAAA-ATAATAATAAAAATAATATTAG
1 AATAAAATATAATAATAAAAATAATAATAG
* *
48318259 TATATAAATA-GA-AATAAAAAT-ATAATA-
1 AATA-AAATATAATAATAAAAATAATAATAG
48318286 AATAGAAATATAATAATA
1 AATA-AAATATAATAATA
48318304 GTAGAAATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
27 8 0.23
28 6 0.17
29 16 0.46
30 4 0.11
31 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (30 bp):
AATAAAATATAATAATAAAAATAATAATAG
Done.