Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 209 of 235
Found at i:71215066 original size:23 final size:23
Alignment explanation
Indices: 71215033--71215078 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
71215023 CGGGTCTTAG
*
71215033 CCCGGATATATCAACTCGCATAA
1 CCCGGACATATCAACTCGCATAA
*
71215056 CCCGGACATATCAACTTGCATAA
1 CCCGGACATATCAACTCGCATAA
71215079 TTGCCTTCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.30, G:0.13, T:0.22
Consensus pattern (23 bp):
CCCGGACATATCAACTCGCATAA
Found at i:71215092 original size:63 final size:63
Alignment explanation
Indices: 71214988--71215106 Score: 211
Period size: 63 Copynumber: 1.9 Consensus size: 63
71214978 GCCTTCGGGT
* *
71214988 CATAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
71215051 CATAACCCGGACATATCAACTTGCATAATTGCCTTCGGGTCTTAGCCCGGATATAT
1 CATAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATAT
71215107 TCCAATGCTC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (63 bp):
CATAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
Found at i:71236083 original size:40 final size:40
Alignment explanation
Indices: 71235979--71236161 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
71235969 GGATGATAAC
* *
71235979 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT
*
71236018 CCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACTATATT
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT
** * *
71236058 CGGGCTAAGTGTCGAAGGCATTTGTGCGAGTTACGATA-A
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT
* **
71236097 CTGGGCTAAGTCCCGAAGGCATTTGTGCGACTTACTATAAC
1 C-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT
71236138 CGGGCTAAGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
71236162 AGCAAGTAGC
Statistics
Matches: 126, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.26
40 92 0.73
41 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT
Found at i:71236175 original size:40 final size:39
Alignment explanation
Indices: 71235974--71236194 Score: 214
Period size: 40 Copynumber: 5.6 Consensus size: 39
71235964 TATTCGGATG
*
71235974 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ACT
* * *
71236014 A-ATTCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACT
** ** * *
71236053 ATATTCGGGCTAAGTGTCGAAGGCATTTGTGCGAGTTACG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACT
* **
71236093 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGACTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTACT
*
71236133 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-CT
* * *
71236173 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
71236195 TACTTGGTTT
Statistics
Matches: 151, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
39 50 0.33
40 101 0.67
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTACT
Found at i:71236193 original size:119 final size:119
Alignment explanation
Indices: 71235973--71236194 Score: 290
Period size: 119 Copynumber: 1.9 Consensus size: 119
71235963 ATATTCGGAT
* * * *
71235973 GATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCTGAAGGCA
1 GATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGACTGACTAATACCGGGCTAAGCCCGAAGGCA
* * * *
71236038 TTTGTGCGAGTTACTATATTCGGGCTAAGTGTCGAAGGCATTTGTGCGAGTTAC
66 TTTGAGCAAGTTACTATATTCCGGCTAAATGTCGAAGGCATTTGTGCGAGTTAC
* *
71236092 GATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGACTTACT-ATAACCGGGCTAAGTCCCGAAGG
1 GATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGACTGACTAAT-ACCGGGCTAAG-CCCGAAGG
71236156 CATTTGAGCAAG-TAGCTATA-TCCGGCTAAAT-TCCGAAGG
64 CATTTGAGCAAGTTA-CTATATTCCGGCTAAATGT-CGAAGG
71236195 TACTTGGTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
118 3 0.03
119 64 0.72
120 22 0.25
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
GATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGACTGACTAATACCGGGCTAAGCCCGAAGGCA
TTTGAGCAAGTTACTATATTCCGGCTAAATGTCGAAGGCATTTGTGCGAGTTAC
Found at i:71244080 original size:40 final size:40
Alignment explanation
Indices: 71243971--71244158 Score: 245
Period size: 40 Copynumber: 4.7 Consensus size: 40
71243961 TATCCAGATG
* *
71243971 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
71244011 A-ATTCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* ** * *
71244050 ATATCCGGGCTAAGTGTCGAAGGAATTTGTGCGAGTTACG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
71244090 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAACTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
71244130 ATAACCGGGCTAAGTCCCAAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
71244159 AGCAAGTAGC
Statistics
Matches: 128, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.27
40 93 0.73
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:71244172 original size:40 final size:39
Alignment explanation
Indices: 71243971--71244191 Score: 223
Period size: 40 Copynumber: 5.6 Consensus size: 39
71243961 TATCCAGATG
*
71243971 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ACT
* * *
71244011 A-ATTCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACT
* ** * * *
71244050 ATATCCGGGCTAAGTGTCGAAGGAATTTGTGCGAGTTACG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACT
*
71244090 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAACTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAA-GTACT
* *
71244130 ATAACCGGGCTAAGTCCCAAAGGCATTTGAGCAAGTAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-CT
* * *
71244170 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
71244192 TACTTGGTTT
Statistics
Matches: 153, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
39 49 0.32
40 104 0.68
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTACT
Found at i:71244190 original size:119 final size:119
Alignment explanation
Indices: 71243970--71244191 Score: 299
Period size: 119 Copynumber: 1.9 Consensus size: 119
71243960 ATATCCAGAT
* * * **
71243970 GATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCTGAAGGCA
1 GATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAACTGACTAATACCGGGCTAAGCCCAAAGGCA
* * *
71244035 TTTGTGCGAGTTACTATATCCGGGCTAAGTGTCGAAGGAATTTGTGCGAGTTAC
66 TTTGAGCAAGTTACTATATCCGGGCTAAATGTCGAAGGAATTTGTGCGAGTTAC
*
71244089 GATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAACTTACT-ATAACCGGGCTAAGTCCCAAAGG
1 GATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAACTGACTAAT-ACCGGGCTAAG-CCCAAAGG
71244153 CATTTGAGCAAG-TAGCTATATCC-GGCTAAAT-TCCGAAGG
64 CATTTGAGCAAGTTA-CTATATCCGGGCTAAATGT-CGAAGG
71244192 TACTTGGTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
118 3 0.03
119 63 0.70
120 24 0.27
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (119 bp):
GATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAACTGACTAATACCGGGCTAAGCCCAAAGGCA
TTTGAGCAAGTTACTATATCCGGGCTAAATGTCGAAGGAATTTGTGCGAGTTAC
Found at i:71251360 original size:39 final size:40
Alignment explanation
Indices: 71251315--71251499 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
71251305 GCTCCTCGTT
* * *
71251315 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
71251355 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
71251394 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
71251434 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
71251475 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
71251500 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:71251415 original size:40 final size:39
Alignment explanation
Indices: 71251282--71251499 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
71251272 AAATCACGTA
* * **
71251282 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
71251321 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
71251360 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
71251400 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
71251440 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
71251480 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
71251500 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:71254835 original size:11 final size:13
Alignment explanation
Indices: 71254815--71254846 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
71254805 ATAATACCCT
71254815 TTTAATAAAC-CA
1 TTTAATAAACACA
71254827 TTTAA-AAACACA
1 TTTAATAAACACA
71254839 TTTAATAA
1 TTTAATAA
71254847 GGTCATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 12 0.67
13 2 0.11
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (13 bp):
TTTAATAAACACA
Found at i:71255955 original size:20 final size:18
Alignment explanation
Indices: 71255927--71255969 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
71255917 GGGCTGAAGG
*
71255927 CACGAGCGTGTCCTGAGCCA
1 CACGGGCGTGT-CTGA-CCA
*
71255947 CACGGGCGTGTGTGACCA
1 CACGGGCGTGTCTGACCA
71255965 CACGG
1 CACGG
71255970 CCTACCCACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 3 0.14
20 10 0.48
ACGTcount: A:0.19, C:0.33, G:0.35, T:0.14
Consensus pattern (18 bp):
CACGGGCGTGTCTGACCA
Found at i:71259533 original size:46 final size:46
Alignment explanation
Indices: 71259477--71259604 Score: 152
Period size: 46 Copynumber: 2.8 Consensus size: 46
71259467 CTGAGTTGAT
* * * *
71259477 AAATAGTAAGCTCTATT-GAGCTGAAAACGGTAAGCTCTATTGAGCT-
1 AAATAGTAAGCTCT-TTCGAGCTG-AAACAGTAAGCTCCAATGAGATA
* *
71259523 GAATAGTAAGCTCTTTCGAGCTGAATCAGTAAGCTCCAATGAGATA
1 AAATAGTAAGCTCTTTCGAGCTGAAACAGTAAGCTCCAATGAGATA
* *
71259569 AAATAGTAAGCTCTTACGAGCTGAATCAGTAAGCTC
1 AAATAGTAAGCTCTTTCGAGCTGAAACAGTAAGCTC
71259605 ATACAAGCTG
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
45 19 0.26
46 53 0.74
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (46 bp):
AAATAGTAAGCTCTTTCGAGCTGAAACAGTAAGCTCCAATGAGATA
Found at i:71259557 original size:23 final size:22
Alignment explanation
Indices: 71259481--71259604 Score: 108
Period size: 23 Copynumber: 5.4 Consensus size: 22
71259471 GTTGATAAAT
*
71259481 AGTAAGCTCTATTGAGCTGAAAAC
1 AGTAAGCTCT-TTGAGCTG-AATC
*
71259505 GGTAAGCTCTATTGAGCTGAAT-
1 AGTAAGCTCT-TTGAGCTGAATC
71259527 AGTAAGCTCTTTCGAGCTGAATC
1 AGTAAGCTCTTT-GAGCTGAATC
** * *
71259550 AGTAAGCTCCAATGAGATAAAAT-
1 AGTAAGCT-CTTTGAGCT-GAATC
*
71259573 AGTAAGCTCTTACGAGCTGAATC
1 AGTAAGCTCTT-TGAGCTGAATC
71259596 AGTAAGCTC
1 AGTAAGCTC
71259605 ATACAAGCTG
Statistics
Matches: 82, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
21 2 0.02
22 22 0.27
23 35 0.43
24 23 0.28
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (22 bp):
AGTAAGCTCTTTGAGCTGAATC
Found at i:71261981 original size:42 final size:42
Alignment explanation
Indices: 71261934--71262125 Score: 153
Period size: 40 Copynumber: 4.6 Consensus size: 42
71261924 TCCTAGATGT
* * *
71261934 GGTCTTACATGTAATCAAATATCGATGCCACTTTCCAGACAG
1 GGTCTTACACGAAATCAAATATCGATGCCAATTTCCAGACAG
* * * * *
71261976 GGTCTTTCACAAAATCAAATA-CAATGCCAATGTCTCAGACAT
1 GGTCTTACACGAAATCAAATATCGATGCCAATTTC-CAGACAG
* * *
71262018 GGTCTTACA--AAATCAAATA-CAATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATATCGATGCCAAT-TTCCAGACAG
* * *
71262058 GGTCTTACACGTAAATCTCAA-ATCGATGCCAACGTTCCAAAC-G
1 GGTCTTACACG-AAATC-AAATATCGATGCCAA-TTTCCAGACAG
*
71262101 TGGTCTTACACGAAATCACATATCG
1 -GGTCTTACACGAAATCAAATATCG
71262126 GAATCCCATG
Statistics
Matches: 121, Mismatches: 19, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
40 36 0.30
41 11 0.09
42 32 0.26
43 15 0.12
44 27 0.22
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATATCGATGCCAATTTCCAGACAG
Found at i:71262038 original size:40 final size:39
Alignment explanation
Indices: 71261946--71262066 Score: 161
Period size: 40 Copynumber: 3.0 Consensus size: 39
71261936 TCTTACATGT
* * * *
71261946 AATCAAATATCGATGCCACTTTCCAGACAGGGTCTTTCACAA
1 AATCAAATA-CAATGCCAATGTCCAGACATGGTC-TT-ACAA
71261988 AATCAAATACAATGCCAATGTCTCAGACATGGTCTTACAA
1 AATCAAATACAATGCCAATGTC-CAGACATGGTCTTACAA
71262028 AATCAAATACAATGCCAATGTCCCAGACATGGTCTTACA
1 AATCAAATACAATGCCAATGT-CCAGACATGGTCTTACA
71262067 CGTAAATCTC
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
40 41 0.56
41 13 0.18
42 19 0.26
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (39 bp):
AATCAAATACAATGCCAATGTCCAGACATGGTCTTACAA
Found at i:71265918 original size:49 final size:49
Alignment explanation
Indices: 71265846--71266033 Score: 241
Period size: 49 Copynumber: 3.8 Consensus size: 49
71265836 TGAGGTCACG
*
71265846 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
71265895 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
* *
71265946 TGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * *
71265995 TGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
71266034 GCTTCGGCTA
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 75 0.65
50 2 0.02
51 39 0.34
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:71266018 original size:100 final size:100
Alignment explanation
Indices: 71265841--71266028 Score: 340
Period size: 100 Copynumber: 1.9 Consensus size: 100
71265831 TATTGTGAGG
* *
71265841 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGGTCGCATGTGTAGTACT
*
71265906 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAAGCTACTATGCGTACCCGAAAACTGTGA
*
71265941 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGGTCGCATGTGTAGTACT
71266006 AAGTGCAAGCTACTATGCGTACC
66 AAGTGCAAGCTACTATGCGTACC
71266029 AGATAGCTTC
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAAGCTACTATGCGTACCCGAAAACTGTGA
Found at i:71271249 original size:27 final size:26
Alignment explanation
Indices: 71271219--71271369 Score: 131
Period size: 27 Copynumber: 5.6 Consensus size: 26
71271209 AAATTGTACA
*
71271219 GCACTAAGTGTGCGATTCTACTTTGTT
1 GCACTAAGTGTGCGATT-TACTATGTT
* * * *
71271246 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTTACTATGTT
* * *
71271273 GCACTAAGTGTGCGAATTCACCATGTG
1 GCACTAAGTGTGCG-ATTTACTATGTT
*
71271300 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TTT-ACTATGTT
* * *
71271328 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTT-ACTATGTT
*
71271355 GCACTAAATGTGCGA
1 GCACTAAGTGTGCGA
71271370 GTTGATTATA
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.01
27 79 0.77
28 23 0.22
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTTACTATGTT
Found at i:71271279 original size:54 final size:54
Alignment explanation
Indices: 71271218--71271395 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
71271208 TAAATTGTAC
** *
71271218 AGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGA-AATGAATATG-
1 AGCACTAAGTGTGCGATTC-ACCATGTGGCACTAAGTGTGCGAGAATGAATATGT
** *
71271271 ATGCACTAAGTGTGCGAATTCACCATGTGGCACTAAGTGTGCGAGTTTGACTATGT
1 A-GCACTAAGTGTGCG-ATTCACCATGTGGCACTAAGTGTGCGAGAATGAATATGT
* ** * * * * *
71271327 AGCACTAAGTGTGCGATTTGATTACGTGGCACTAAATGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGA-TTCACCATGTGGCACTAAGTGTGCGAGAATGAATATGT
*
71271381 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
71271396 GGCTCAATAT
Statistics
Matches: 106, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
53 1 0.01
54 57 0.54
55 47 0.44
56 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTCACCATGTGGCACTAAGTGTGCGAGAATGAATATGT
Found at i:71271359 original size:82 final size:81
Alignment explanation
Indices: 71271219--71271369 Score: 198
Period size: 82 Copynumber: 1.9 Consensus size: 81
71271209 AAATTGTACA
* * * *
71271219 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
71271284 GCGAATTCACCATGTG
66 GCGAATTCACCATGTG
** *
71271300 GCACTAAGTGTGCGAGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGCGA-TTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
71271363 TGTGCGA
63 TGTGCGA
71271370 GTTGATTATA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
81 17 0.28
82 43 0.72
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTCACCATGTG
Found at i:71271374 original size:27 final size:27
Alignment explanation
Indices: 71271246--71271395 Score: 113
Period size: 27 Copynumber: 5.5 Consensus size: 27
71271236 CTACTTTGTT
** * *
71271246 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAGTTGATTACG-TG
* * ** *
71271273 GCACTAAGTGTGCGAATTCACCATGTG
1 GCACTAAGTGTGCGAGTTGATTACGTG
* * *
71271300 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-TTGATTACGTG
*
71271328 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAGTTGATTACGTG
* ** *
71271355 GCACTAAATGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGTTGATTACGTG
*
71271382 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
71271396 GGCTCAATAT
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.01
27 78 0.76
28 23 0.23
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTGATTACGTG
Found at i:71271386 original size:82 final size:81
Alignment explanation
Indices: 71271218--71271395 Score: 189
Period size: 82 Copynumber: 2.2 Consensus size: 81
71271208 TAAATTGTAC
* * * *
71271218 AGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATG
*
71271283 TGCGAATTCACCATGT
66 TGCGAATTCACCATAT
* ** *
71271299 GGCACTAAGTGTGCGAGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAA
1 AGCACTAAGTGTGCGA-TTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAA
* * **
71271362 ATGTGCGAGTTGATTATAT
63 ATGTGCGAATTCACCATAT
*
71271381 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
71271396 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 17 0.22
82 62 0.78
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (81 bp):
AGCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATG
TGCGAATTCACCATAT
Found at i:71279287 original size:27 final size:27
Alignment explanation
Indices: 71279249--71279427 Score: 166
Period size: 27 Copynumber: 6.6 Consensus size: 27
71279239 TAAATTGTAC
71279249 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *** *
71279276 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGGTTTGACTATGT
** *
71279302 ATGCACTAAGTGTGCGAATTGA-TCATGC
1 A-GCACTAAGTGTGCGGTTTGACT-ATGT
*
71279330 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
* * *
71279358 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *
71279385 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
*
71279412 AGCACTGAGTGTGCGG
1 AGCACTAAGTGTGCGG
71279428 GCTCAATATA
Statistics
Matches: 127, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.02
27 103 0.81
28 21 0.17
29 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGTTTGACTATGT
Found at i:71279417 original size:82 final size:81
Alignment explanation
Indices: 71279246--71279427 Score: 240
Period size: 82 Copynumber: 2.2 Consensus size: 81
71279236 GATTAAATTG
* *
71279246 TACAGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
71279311 GTGTGCGAATTGATCA
66 GTGTGCGAATTGATCA
* * ** *
71279327 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* *
71279391 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGATCA
* *
71279409 TATAGCACTGAGTGTGCGG
1 TACAGCACTAAGTGTGCGG
71279428 GCTCAATATA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 18 0.21
82 68 0.79
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGATCA
Found at i:71289218 original size:27 final size:27
Alignment explanation
Indices: 71289144--71289222 Score: 104
Period size: 28 Copynumber: 2.9 Consensus size: 27
71289134 ATCCATTTAA
71289144 TACCTTTAACTAATAGAATACAAGTTT
1 TACCTTTAACTAATAGAATACAAGTTT
** * **
71289171 TACACTTTATGTGATTTAATACAAGTTT
1 TAC-CTTTAACTAATAGAATACAAGTTT
71289199 TACCTTTAACTAATAGAATACAAG
1 TACCTTTAACTAATAGAATACAAG
71289223 CTTTGACTAT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
27 19 0.46
28 22 0.54
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (27 bp):
TACCTTTAACTAATAGAATACAAGTTT
Found at i:71290889 original size:10 final size:10
Alignment explanation
Indices: 71290874--71290898 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
71290864 TTAACACATG
71290874 TATGTATATA
1 TATGTATATA
71290884 TATGTATATA
1 TATGTATATA
71290894 TATGT
1 TATGT
71290899 TAAAAGAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (10 bp):
TATGTATATA
Found at i:71309149 original size:48 final size:48
Alignment explanation
Indices: 71309092--71309239 Score: 226
Period size: 48 Copynumber: 3.0 Consensus size: 48
71309082 AATGTGTATA
71309092 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
* *
71309140 TATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATA
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATG
* *
71309190 TATGAGATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
71309238 TA
1 TA
71309240 GGCGATGTGC
Statistics
Matches: 90, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
47 1 0.01
48 44 0.49
49 4 0.04
50 40 0.44
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
Found at i:71309215 original size:50 final size:50
Alignment explanation
Indices: 71309088--71309236 Score: 232
Period size: 50 Copynumber: 3.0 Consensus size: 50
71309078 TGTGAATGTG
71309088 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-A
1 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
* *
71309136 TATGTATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATA
1 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATA
* *
71309186 TATATATGAGATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAATA
1 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
71309236 T
1 T
71309237 GTAGGCGATG
Statistics
Matches: 91, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 41 0.45
49 2 0.02
50 46 0.51
51 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.32
Consensus pattern (50 bp):
TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
Found at i:71309254 original size:50 final size:50
Alignment explanation
Indices: 71309092--71309260 Score: 199
Period size: 48 Copynumber: 3.4 Consensus size: 50
71309082 AATGTGTATA
71309092 TATGAGATAT--GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
*
71309140 TATGAGATATGC--ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATA
1 TATGAGATATGCGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATG
* *
71309190 TATGAGATAT--GTATATGTGGTAAAGCCAAATGGCTAGTGTGAAATATG
1 TATGAGATATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
* * *
71309238 TAGGCGATGTGCGTATATTGTGG
1 TATGAGATATGCGTATA-TGTGG
71309261 CCGAACGACC
Statistics
Matches: 103, Mismatches: 7, Indels: 19
0.80 0.05 0.15
Matches are distributed among these distances:
47 1 0.01
48 48 0.47
49 4 0.04
50 44 0.43
51 6 0.06
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (50 bp):
TATGAGATATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
Found at i:71309494 original size:37 final size:37
Alignment explanation
Indices: 71309386--71309494 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
71309376 GGAAATATAT
*
71309386 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
71309423 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
71309460 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
71309495 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:71320089 original size:23 final size:26
Alignment explanation
Indices: 71320076--71320129 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
71320066 TGAAATTTTG
71320076 AAAT-AATAATATATGAAGAGATTTA
1 AAATAAATAATATATGAAGAGATTTA
71320101 AAATAAATAATATATGAAGAGATTTA
1 AAATAAATAATATATGAAGAGATTTA
71320127 AAA
1 AAA
71320130 CAAGTACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (26 bp):
AAATAAATAATATATGAAGAGATTTA
Found at i:71321525 original size:16 final size:17
Alignment explanation
Indices: 71321506--71321538 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
71321496 TTAAGTTTAG
71321506 GTTTTAGG-TTTGGGTT
1 GTTTTAGGATTTGGGTT
*
71321522 GTTTTGGGATTTGGGTT
1 GTTTTAGGATTTGGGTT
71321539 TTAAATTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.06, C:0.00, G:0.39, T:0.55
Consensus pattern (17 bp):
GTTTTAGGATTTGGGTT
Found at i:71324066 original size:44 final size:43
Alignment explanation
Indices: 71324003--71324091 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 43
71323993 CGTGGAAGCT
71324003 GAAGATATTATAAGACAGCAATATCCGAATATGTTCAACGGTAA
1 GAAGATATTATAAGACAGCAATATCCGAATATGTTCAAC-GTAA
* *
71324047 GAAGATATTATGAGACAGCAATATCCGAATCTGTTCAACGTAA
1 GAAGATATTATAAGACAGCAATATCCGAATATGTTCAACGTAA
71324090 GA
1 GA
71324092 TTTTAGAGGA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
43 6 0.14
44 37 0.86
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.25
Consensus pattern (43 bp):
GAAGATATTATAAGACAGCAATATCCGAATATGTTCAACGTAA
Found at i:71325487 original size:43 final size:42
Alignment explanation
Indices: 71325409--71325490 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
71325399 TCTGGAATGT
* * * *
71325409 TGGCATCGTATTTGATTTCGTTTAAGACCTTGTCTGGGAAAG
1 TGGCATCGTATTTGATTACATATAAGACCTCGTCTGGGAAAG
71325451 TGGCATCGATATTTGATTACATATAAGA-CTACGTCTGGGA
1 TGGCATCG-TATTTGATTACATATAAGACCT-CGTCTGGGA
71325491 TGTTGGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 10 0.29
43 24 0.71
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (42 bp):
TGGCATCGTATTTGATTACATATAAGACCTCGTCTGGGAAAG
Found at i:71327777 original size:24 final size:26
Alignment explanation
Indices: 71327749--71327816 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
71327739 GCTAATGAAC
71327749 AGTAAGCT-TTATCGAGCTGGAA-AA-
1 AGTAAGCTCTTATCGAGCT-GAAGAAT
71327773 AGTAAGCTCTTAT-GAGCT-AAGAAT
1 AGTAAGCTCTTATCGAGCTGAAGAAT
71327797 AGTAAGCTCTTA-CGAGCTGA
1 AGTAAGCTCTTATCGAGCTGA
71327817 TATATCGGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
22 2 0.05
23 2 0.05
24 30 0.77
25 5 0.13
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (26 bp):
AGTAAGCTCTTATCGAGCTGAAGAAT
Found at i:71336984 original size:15 final size:15
Alignment explanation
Indices: 71336960--71337007 Score: 87
Period size: 15 Copynumber: 3.2 Consensus size: 15
71336950 TGACATCGGT
*
71336960 GGTTCCTAGTGAACG
1 GGTTCTTAGTGAACG
71336975 GGTTCTTAGTGAACG
1 GGTTCTTAGTGAACG
71336990 GGTTCTTAGTGAACG
1 GGTTCTTAGTGAACG
71337005 GGT
1 GGT
71337008 CACCTAGGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.19, C:0.15, G:0.35, T:0.31
Consensus pattern (15 bp):
GGTTCTTAGTGAACG
Found at i:71341973 original size:47 final size:47
Alignment explanation
Indices: 71341914--71342043 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
71341904 TGCGAGTAAA
* *** *
71341914 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTTTG-AGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA-CTCCAGAAGAAGT
* *
71341961 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCAGAATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGAAGAAGT
*
71342008 TACCTTGATTTGGCTACGAGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
71342044 TATCGATTGT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 2 0.03
47 71 0.97
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGAAGAAGT
Found at i:71344569 original size:40 final size:40
Alignment explanation
Indices: 71344486--71344705 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
71344476 ACCCAAGTAT
** * *
71344486 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
71344524 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
71344564 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
71344604 CTTCGGGTCTTAGCCTGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * * *
71344644 CTTCGGATCTTAGTCTGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
71344684 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
71344706 CATTCGAATA
Statistics
Matches: 152, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.11
40 123 0.81
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:71348906 original size:41 final size:42
Alignment explanation
Indices: 71348861--71349016 Score: 192
Period size: 43 Copynumber: 3.7 Consensus size: 42
71348851 CATGTGTTAT
*
71348861 TGTGTAAGACCATGTCGGGGACATTGGCATC-TA-CTGATTCA
1 TGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATT-A
*
71348902 TGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT-
1 TGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTA
* * *
71348943 TCGTGTAAGACCCTGTCTAGGACAGTGGCATCGATATCTGATTA
1 T-GTGTAAGACCATGTCTGGGACATTGGCATCG-TATCTGATTA
* * *
71348987 TATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTGTAAGACCATGTCTGGGACATTGGCAT
71349017 TGTACTAGCT
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
41 31 0.32
42 30 0.31
43 36 0.37
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (42 bp):
TGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTA
Found at i:71351599 original size:40 final size:40
Alignment explanation
Indices: 71351550--71351692 Score: 144
Period size: 40 Copynumber: 3.6 Consensus size: 40
71351540 GTGGCTTGAG
* * *
71351550 CATTTGCGGCGCTTCTTAAAAAATGCCACTATAGGTCAAC
1 CATTAGCGGCGCTTTTTAAAAAATGCCACTATAGGTCGAC
* * *
71351590 CATTAGCGGCGCTTTTTAAAAAAAT-CCGCTATAGATCGAG
1 CATTAGCGGCGCTTTTT-AAAAAATGCCACTATAGGTCGAC
** * *
71351630 CATTAGCGGCGCTTTTTGGAAAACGCTACTATAGGTCGAC
1 CATTAGCGGCGCTTTTTAAAAAATGCCACTATAGGTCGAC
* * * *
71351670 TATTAGCGGTGGTTTATAAAAAA
1 CATTAGCGGCGCTTTTTAAAAAA
71351693 ACGCTGCAAA
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 4 0.05
40 71 0.87
41 7 0.09
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (40 bp):
CATTAGCGGCGCTTTTTAAAAAATGCCACTATAGGTCGAC
Found at i:71351836 original size:40 final size:39
Alignment explanation
Indices: 71351737--71351838 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 39
71351727 AGTTGCACTT
* * * *
71351737 GCGGCGCTTTTTTGAAAACACCGCTATAGATCGAGCATTA
1 GCGGCGC-TTTTTGAAAACGCCACTATAGACCGAACATTA
*
71351777 GCGGCGCTTTTTGAAAAACGCCACTATAGACCGAACTTTA
1 GCGGCGCTTTTTG-AAAACGCCACTATAGACCGAACATTA
*
71351817 GCGGCGCTTTGTCGAAAACGCC
1 GCGGCGCTTT-TTGAAAACGCC
71351839 GTAAAAAACA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
39 6 0.11
40 46 0.85
41 2 0.04
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (39 bp):
GCGGCGCTTTTTGAAAACGCCACTATAGACCGAACATTA
Found at i:71351989 original size:30 final size:30
Alignment explanation
Indices: 71351953--71352009 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
71351943 ATTTGAAAGT
71351953 AAAAAATAAAAAAAATA-TATTTTAAAAATA
1 AAAAAATAAAAAAAATATTA-TTTAAAAATA
* *
71351983 AAAAAATTAAAATAATATTATTTAAAA
1 AAAAAATAAAAAAAATATTATTTAAAA
71352010 TAATTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (30 bp):
AAAAAATAAAAAAAATATTATTTAAAAATA
Found at i:71352147 original size:14 final size:14
Alignment explanation
Indices: 71352125--71352256 Score: 61
Period size: 14 Copynumber: 9.2 Consensus size: 14
71352115 TTAATTATCA
* *
71352125 TTATAGTTTAGTGT
1 TTATGGTTTAGGGT
71352139 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
71352153 ATATGGTTTAGAAGT
1 TTATGGTTTAG-GGT
*
71352168 TACTAT--TTTAAGGT
1 T--TATGGTTTAGGGT
*
71352182 TTATGGATTATGGGT
1 TTATGGTTTA-GGGT
* * *
71352197 TTAGGGATTATGGT
1 TTATGGTTTAGGGT
* *
71352211 TTAAGGGTTAGGGT
1 TTATGGTTTAGGGT
* * *
71352225 TTAAGATTTAAGGT
1 TTATGGTTTAGGGT
* *
71352239 TTAAGGGTTAAGGGT
1 TT-ATGGTTTAGGGT
71352254 TTA
1 TTA
71352257 GGGGCTAAGG
Statistics
Matches: 90, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
12 3 0.03
14 56 0.62
15 28 0.31
17 3 0.03
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:71352256 original size:22 final size:22
Alignment explanation
Indices: 71352208--71352284 Score: 79
Period size: 21 Copynumber: 3.6 Consensus size: 22
71352198 TAGGGATTAT
71352208 GGTTTAAGGGTT-AGGGTTTAA-
1 GGTTTAAGGGTTAAGGG-TTAAG
* *
71352229 GATTTAAGGTTTAAGGGTTAAG
1 GGTTTAAGGGTTAAGGGTTAAG
* *
71352251 GGTTTAGGGGCTAAGGGTT-AG
1 GGTTTAAGGGTTAAGGGTTAAG
*
71352272 GGGTTAAGGGTTA
1 GGTTTAAGGGTTA
71352285 GAGGTTTAGG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
21 26 0.58
22 19 0.42
ACGTcount: A:0.25, C:0.01, G:0.40, T:0.34
Consensus pattern (22 bp):
GGTTTAAGGGTTAAGGGTTAAG
Found at i:71352259 original size:7 final size:7
Alignment explanation
Indices: 71352174--71352294 Score: 59
Period size: 7 Copynumber: 16.9 Consensus size: 7
71352164 AAGTTACTAT
*
71352174 TTTAAGG
1 TTTAGGG
*
71352181 TTTATGG
1 TTTAGGG
*
71352188 ATTATGGG
1 TTTA-GGG
71352196 TTTAGGG
1 TTTAGGG
* *
71352203 ATTATGG
1 TTTAGGG
71352210 TTTAAGGG
1 TTT-AGGG
71352218 -TTAGGG
1 TTTAGGG
* *
71352224 TTTAAGA
1 TTTAGGG
*
71352231 TTTAAGG
1 TTTAGGG
71352238 TTTAAGGG
1 TTT-AGGG
*
71352246 TTAAGGG
1 TTTAGGG
71352253 TTTAGGGG
1 TTTA-GGG
* *
71352261 CTAAGGG
1 TTTAGGG
71352268 -TTAGGGG
1 TTTA-GGG
*
71352275 TTAAGGG
1 TTTAGGG
71352282 -TTAGAGG
1 TTTAG-GG
71352289 TTTAGG
1 TTTAGG
71352295 CCTAAATCCC
Statistics
Matches: 86, Mismatches: 19, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
6 9 0.10
7 53 0.62
8 24 0.28
ACGTcount: A:0.24, C:0.01, G:0.38, T:0.37
Consensus pattern (7 bp):
TTTAGGG
Found at i:71352265 original size:15 final size:15
Alignment explanation
Indices: 71352175--71352283 Score: 84
Period size: 14 Copynumber: 7.6 Consensus size: 15
71352165 AGTTACTATT
* *
71352175 TTAA-GGTTTATGGA
1 TTAAGGGTTTAGGGG
* *
71352189 TTATGGGTTTAGGGA
1 TTAAGGGTTTAGGGG
* *
71352204 TT-ATGGTTTAAGGG
1 TTAAGGGTTTAGGGG
* **
71352218 TT-AGGGTTTAAGAT
1 TTAAGGGTTTAGGGG
*
71352232 TTAA-GGTTTAAGGG
1 TTAAGGGTTTAGGGG
71352246 TTAAGGGTTTAGGGG
1 TTAAGGGTTTAGGGG
*
71352261 CTAAGGG-TTAGGGG
1 TTAAGGGTTTAGGGG
71352275 TTAAGGGTT
1 TTAAGGGTT
71352284 AGAGGTTTAG
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
14 49 0.64
15 28 0.36
ACGTcount: A:0.24, C:0.01, G:0.38, T:0.38
Consensus pattern (15 bp):
TTAAGGGTTTAGGGG
Found at i:71352284 original size:14 final size:14
Alignment explanation
Indices: 71352232--71352290 Score: 73
Period size: 14 Copynumber: 4.1 Consensus size: 14
71352222 GGTTTAAGAT
* *
71352232 TTAAGGTTTAAGGG
1 TTAAGGGTTAGGGG
71352246 TTAAGGGTTTAGGGG
1 TTAAGGG-TTAGGGG
*
71352261 CTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
71352275 TTAAGGGTTAGAGG
1 TTAAGGGTTAGGGG
71352289 TT
1 TT
71352291 TAGGCCTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 27 0.69
15 12 0.31
ACGTcount: A:0.24, C:0.02, G:0.42, T:0.32
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:71352294 original size:22 final size:22
Alignment explanation
Indices: 71352240--71352281 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
71352230 ATTTAAGGTT
*
71352240 TAAGGGTTAAGGGTTTAGGGGC
1 TAAGGGTTAAGGGTTAAGGGGC
*
71352262 TAAGGGTTAGGGGTTAAGGG
1 TAAGGGTTAAGGGTTAAGGG
71352282 TTAGAGGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.02, G:0.48, T:0.26
Consensus pattern (22 bp):
TAAGGGTTAAGGGTTAAGGGGC
Found at i:71358022 original size:42 final size:42
Alignment explanation
Indices: 71357970--71358116 Score: 170
Period size: 43 Copynumber: 3.5 Consensus size: 42
71357960 AGGATAGTGG
* * ** **
71357970 TGACTTTTAGCGGCGTTTTTAAGGAAAGCGTTGCTAAA-AACA
1 TGACCTTTAGCGGCGTTTTT-GGGAAAGCGCCGCTAAAGGTCA
* *
71358012 TGACCTTTAGCAGCGTTTTTGGGGAAGCGCCGCTAAAGGTCA
1 TGACCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCA
* *
71358054 TGATCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCA
1 TGACCTTTAGCGGCGTTT-TTGGGAAAGCGCCGCTAAAGGTCA
*
71358097 TGACCTTCAGCGGCGTTTTT
1 TGACCTTTAGCGGCGTTTTT
71358117 TTACATAAAC
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 13 0.15
42 37 0.42
43 38 0.43
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (42 bp):
TGACCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAGGTCA
Found at i:71358097 original size:43 final size:43
Alignment explanation
Indices: 71357970--71358116 Score: 181
Period size: 42 Copynumber: 3.5 Consensus size: 43
71357960 AGGATAGTGG
* ** ** **
71357970 TGACTTTTAGCGGCGTTTTTAAGGAAAGCGTTGCTAAA-AACA
1 TGACCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCA
*
71358012 TGACCTTTAGCAGCGTTTTTGGGG-AAGCGCCGCTAAAGGTCA
1 TGACCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCA
* *
71358054 TGATCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCA
1 TGACCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCA
*
71358097 TGACCTTCAGCGGCGTTTTT
1 TGACCTTTAGCGGCGTTTTT
71358117 TTACATAAAC
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
41 11 0.12
42 43 0.48
43 35 0.39
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (43 bp):
TGACCTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCA
Found at i:71372543 original size:98 final size:96
Alignment explanation
Indices: 71372324--71372543 Score: 250
Period size: 98 Copynumber: 2.3 Consensus size: 96
71372314 TATAATGCCA
* * *
71372324 ATGCCATGTCCCAGACATGG-CTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAAACAT
1 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCATCCATCAAGCCGATGCCATGTCCCAAACAT
* *
71372388 GGTCTTACACTGACTATCGAAATCAAGGTCG
66 GGTATTACACTGACTACCGAAATCAAGGTCG
* * * *
71372419 ACGCCATGTCCTAGACATGGTCTTACACTAGCTC-TCACATATCCATGCCGATGCCATGTCCTAG
1 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCATC-C--AT-CAAGCCGATGCCATGTCCCAA
*** *
71372483 ACATGGTATTACACTGAC-ACCTCTATC-TGTGTCG
62 ACATGGTATTACACTGACTACCGAAATCAAG-GTCG
71372517 ATGCCATGTCCTAGACATGGTCTTACA
1 ATGCCATGTCCTAGACATGGTCTTACA
71372544 TTGACACACC
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
95 20 0.19
96 13 0.12
97 1 0.01
98 37 0.35
99 34 0.32
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (96 bp):
ATGCCATGTCCTAGACATGGTCTTACACTAGCTCATCCATCAAGCCGATGCCATGTCCCAAACAT
GGTATTACACTGACTACCGAAATCAAGGTCG
Found at i:71372657 original size:48 final size:47
Alignment explanation
Indices: 71372318--71372683 Score: 248
Period size: 48 Copynumber: 7.7 Consensus size: 47
71372308 ATAGCGTATA
* *
71372318 ATGCCAATGCCATGTCCCAGACATGG-CTTACACTGGCTCATCCATCA-
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CATAAT
* * * *
71372365 A-GTCGATGCCATGTCCCAAACATGGTCTTACACTGACTATCGA-AAT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATAAT
* * * * * *
71372411 CAAGGTCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATAT
1 --ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT
* * * * *
71372461 CCATGCCGATGCCATGTCCTAGACATGGTATTACACTGACACCTC-TATCT
1 --ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATA-AT
* * * * * * * * *
71372511 GTGTCGATGCCATGTCCTAGACATGGTCTTACATTGACACACCTCAT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT
* * * **
71372558 A-GCCGATG-CATGTTCCAGATA-GGTCTTATACTGGCTCTCATCTT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT
71372602 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT
1 -ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT
* * *
71372650 GTGGCCGATG-TATGTCCCAAACAT-GTCTTACACT
1 AT-GCCGATGCCATGTCCCAGACATGGTCTTACACT
71372684 AGCACACAAA
Statistics
Matches: 254, Mismatches: 50, Indels: 31
0.76 0.15 0.09
Matches are distributed among these distances:
44 16 0.06
45 13 0.05
46 46 0.18
47 39 0.15
48 64 0.25
49 35 0.14
50 38 0.15
51 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT
Found at i:71372659 original size:140 final size:145
Alignment explanation
Indices: 71372314--71372683 Score: 367
Period size: 140 Copynumber: 2.6 Consensus size: 145
71372304 AAACATAGCG
*
71372314 TATAATGCCAATGCCATGTCCCAGACATGG-CTTACACTGGCTCATCCATCAA-GT--CGATGCC
1 TATAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-AATGTGGCGATGCC
*
71372375 ATGTCCCAAACATGGTCTTACACTGACTATCGAAATCAAGGTCGACGCCATGTCCTAGACATGGT
63 ATGTCCCAAACATGGTCTTACACTGACTATCGAAATCAAGGCCGACGCCATGTCCTAGACATGGT
71372440 CTTACACTAGCTCTCACA
128 CTTACACTAGCTCTCACA
* * * * * * *
71372458 TATCCATGCCGATGCCATGTCCTAGACATGGTATTACACTGACACCTC-TATCTGTGTCGATGCC
1 TAT-AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATA-ATGTGGCGATGCC
* * * ** * *
71372522 ATGTCCTAGACATGGTCTTACATTGAC-A-C-ACCTCATA-GCCGATG-CATGTTCC-AGATA-G
63 ATGTCCCAAACATGGTCTTACACTGACTATCGAAATCA-AGGCCGACGCCATG-TCCTAGACATG
* *
71372580 GTCTTATACTGGCTCTCATC-
126 GTCTTACACTAGCTCTCA-CA
*
71372600 T-TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATG-TAT
1 TATAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGG-CGATGCCAT
71372663 GTCCCAAACAT-GTCTTACACT
65 GTCCCAAACATGGTCTTACACT
71372684 AGCACACAAA
Statistics
Matches: 186, Mismatches: 28, Indels: 30
0.76 0.11 0.12
Matches are distributed among these distances:
138 9 0.05
139 18 0.10
140 42 0.23
141 1 0.01
142 18 0.10
143 10 0.05
144 16 0.09
145 29 0.16
146 11 0.06
147 32 0.17
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (145 bp):
TATAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCGATGCCATG
TCCCAAACATGGTCTTACACTGACTATCGAAATCAAGGCCGACGCCATGTCCTAGACATGGTCTT
ACACTAGCTCTCACA
Found at i:71381261 original size:22 final size:22
Alignment explanation
Indices: 71381236--71381278 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
71381226 CATCGTGATC
*
71381236 TTTTAAAAACAGGTAGTTTTTT
1 TTTTAAAAACAAGTAGTTTTTT
71381258 TTTTAAAAACAAGTAGTTTTT
1 TTTTAAAAACAAGTAGTTTTT
71381279 ATAAAACGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.49
Consensus pattern (22 bp):
TTTTAAAAACAAGTAGTTTTTT
Found at i:71384761 original size:27 final size:26
Alignment explanation
Indices: 71384717--71384768 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
71384707 CTTGCTGCAA
*
71384717 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
71384744 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
71384769 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:71384833 original size:33 final size:32
Alignment explanation
Indices: 71384784--71384847 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
71384774 CTCGCTGCAA
* *
71384784 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
71384817 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
71384848 GTGACTTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:71392328 original size:46 final size:44
Alignment explanation
Indices: 71392254--71392402 Score: 124
Period size: 46 Copynumber: 3.3 Consensus size: 44
71392244 GTCGATGTTG
* * * *
71392254 TGTCCCAGACAGGTCTTACATTGACACATGTAACCGT-GCTGACGCA
1 TGTCCCAGACATGTCTTACATAGACACATCT---CGTAGCCGACGCA
*
71392300 TGTCCCAGACATGTCTTACACTAG-CACATCTCGTAGCCGATGCA
1 TGTCCCAGACATGTCTTACA-TAGACACATCTCGTAGCCGACGCA
* * * *
71392344 TGTCCCAGACATGTCTGACATTGGCTATCATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACATAGAC-A-CATCTCGTA-GCCGACGCA
*
71392390 TGTCCCATACATG
1 TGTCCCAGACATG
71392403 GTTTTACACT
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
43 5 0.06
44 27 0.30
45 2 0.02
46 53 0.60
47 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.26
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACATAGACACATCTCGTAGCCGACGCA
Found at i:71392356 original size:44 final size:44
Alignment explanation
Indices: 71392297--71392418 Score: 156
Period size: 46 Copynumber: 2.7 Consensus size: 44
71392287 CCGTGCTGAC
*
71392297 GCATGTCCCAGACATGTCTTACACTAGCACATCTCGTA-GCCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCACATCTCG-AGGCCGAT
* *
71392341 GCATGTCCCAGACATGTCTGACATTGGCTATCATCTCGAGGCCGAT
1 GCATGTCCCAGACATGTCTTACACTGGC-A-CATCTCGAGGCCGAT
* *
71392387 GCATGTCCCATACATGGTTTTACACTGGCACA
1 GCATGTCCCAGACAT-GTCTTACACTGGCACA
71392419 CAAATCTCAT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
44 25 0.37
45 4 0.06
46 28 0.42
47 10 0.15
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (44 bp):
GCATGTCCCAGACATGTCTTACACTGGCACATCTCGAGGCCGAT
Found at i:71395529 original size:101 final size:101
Alignment explanation
Indices: 71395354--71395554 Score: 393
Period size: 101 Copynumber: 2.0 Consensus size: 101
71395344 AAGGACTTTC
71395354 AATTTAAAACTCATAACAATTAGGCACCTCATATATAAAGAACTCAACTTTTGCACTTTTTACAA
1 AATTTAAAACTCATAACAATTAGGCACCTCATATATAAAGAACTCAACTTTTGCACTTTTTACAA
71395419 TTTAGTCCTTTTGACTAAATTGAGTGCTCAAACGTA
66 TTTAGTCCTTTTGACTAAATTGAGTGCTCAAACGTA
*
71395455 AATTTAAAACTCATAACAATTAGGCACCTCATATATAAAGAACTCAACTTTTGTACTTTTTACAA
1 AATTTAAAACTCATAACAATTAGGCACCTCATATATAAAGAACTCAACTTTTGCACTTTTTACAA
71395520 TTTAGTCCTTTTGACTAAATTGAGTGCTCAAACGT
66 TTTAGTCCTTTTGACTAAATTGAGTGCTCAAACGT
71395555 CAAAATTTTC
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.35
Consensus pattern (101 bp):
AATTTAAAACTCATAACAATTAGGCACCTCATATATAAAGAACTCAACTTTTGCACTTTTTACAA
TTTAGTCCTTTTGACTAAATTGAGTGCTCAAACGTA
Found at i:71400888 original size:33 final size:32
Alignment explanation
Indices: 71400839--71400902 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
71400829 CTCGCTGCAA
* *
71400839 TCTGGTGGCTTCGCCACACATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
71400872 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
71400903 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:71400916 original size:27 final size:26
Alignment explanation
Indices: 71400864--71400923 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
71400854 ACACATATAT
*
71400864 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
71400890 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
71400917 ATATCTG
1 ATATCTG
71400924 GCAGCTTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:71402220 original size:44 final size:44
Alignment explanation
Indices: 71402172--71402310 Score: 133
Period size: 44 Copynumber: 3.1 Consensus size: 44
71402162 TACTGCAACT
71402172 TTAGGGAGATAAGACTTGCAATTTTCAGCCTGTTACCCTACTAC
1 TTAGGGAGATAAGACTTGCAATTTTCAGCCTGTTACCCTACTAC
* * * * * *
71402216 TTAGGG-GATTA-ACGTT-CAGTGTCTTCAGTCTGCT-CCACTGCAAC
1 TTAGGGAGATAAGAC-TTGCAAT-T-TTCAGCCTGTTACC-CTACTAC
* *
71402260 TTCAGGGAGATAAGACTTGTAATTTTCAACCTGTTACCCTACTAC
1 TT-AGGGAGATAAGACTTGCAATTTTCAGCCTGTTACCCTACTAC
71402305 TTAGGG
1 TTAGGG
71402311 GATTTACGCT
Statistics
Matches: 72, Mismatches: 14, Indels: 18
0.69 0.13 0.17
Matches are distributed among these distances:
42 5 0.07
43 9 0.12
44 26 0.36
45 19 0.26
46 9 0.12
47 4 0.06
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.32
Consensus pattern (44 bp):
TTAGGGAGATAAGACTTGCAATTTTCAGCCTGTTACCCTACTAC
Found at i:71402260 original size:89 final size:89
Alignment explanation
Indices: 71402163--71402469 Score: 406
Period size: 89 Copynumber: 3.4 Consensus size: 89
71402153 GATCTACTCT
* *
71402163 ACTGCAACTTTAGGGAGATAAGA-CTTGCAATTTTCAGCCTGTTACCCTACTACTTAGGGGATTA
1 ACTGCAACTTCAGGGAGATAAGATC-TGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGATTA
* *
71402227 ACGTTCAGTGTCTTCAGTCTGCTCC
65 ACGTTCAATGTCTTCAGTTTGCTCC
* * * *
71402252 ACTGCAACTTCAGGGAGATAAGA-CTTGTAATTTTCAACCTGTTACCCTACTACTTAGGGGATTT
1 ACTGCAACTTCAGGGAGATAAGATC-TGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGATTA
*
71402316 ACGCTCAATGTCTTC-GATTTGCTCC
65 ACGTTCAATGTCTTCAG-TTTGCTCC
* *
71402341 ACTGCAACTTCAGGGAGATAAGATCTGCAATCTTCGGCCTGTTACCCTACTACTTAGGGGGTTAA
1 ACTGCAACTTCAGGGAGATAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGATTAA
* *
71402406 -GTCTCATTGTCTTCAATTTGCTCC
66 CGT-TCAATGTCTTCAGTTTGCTCC
* * *
71402430 ACTACAACTTCAGGGAGAAAAGATCTACAATCTTCAGCCT
1 ACTGCAACTTCAGGGAGATAAGATCTGCAATCTTCAGCCT
71402470 ACTCCACTAC
Statistics
Matches: 194, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
88 2 0.01
89 191 0.98
90 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (89 bp):
ACTGCAACTTCAGGGAGATAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGATTAA
CGTTCAATGTCTTCAGTTTGCTCC
Found at i:71402542 original size:88 final size:87
Alignment explanation
Indices: 71402420--71402628 Score: 294
Period size: 88 Copynumber: 2.4 Consensus size: 87
71402410 CATTGTCTTC
* * *
71402420 AATTTGCTCCACTACAACTTCAGGGAGAAAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
1 AATTTGCTTCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAAC-T
* * *
71402485 TAGGGAGATA-GAGTGGTGGCTTA
65 TAAGAAGATAGGA-TGGTAGCTTA
* *
71402508 AATTTGCTTCACTGCAACTTCAGGGAGACGAGATCTACAATCTTTAGCCTACTCCACTACAACTT
1 AATTTGCTTCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
71402573 AAGAAGATAGGATGGTAGCTTA
66 AAGAAGATAGGATGGTAGCTTA
* * *
71402595 AATCTGCTTCATTGCAACTTCAGGAAGACAAGAT
1 AATTTGCTTCACTGCAACTTCAGGGAGACAAGAT
71402629 TCGCCGTCTT
Statistics
Matches: 108, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
87 48 0.44
88 60 0.56
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (87 bp):
AATTTGCTTCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
AAGAAGATAGGATGGTAGCTTA
Found at i:71417778 original size:130 final size:130
Alignment explanation
Indices: 71417612--71417869 Score: 399
Period size: 130 Copynumber: 2.0 Consensus size: 130
71417602 ATTCATAGAT
* * * *
71417612 CATGAGTGAAATTCTAAGGGAATATTTGATTATTTTGAACAAACAGGAAATCGCAACCTAGCACG
1 CATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGCACG
* *
71417677 ATAGGGCACGATTCCTGAATTACCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTAAAGA
66 ATAGGGCACGATTCCCGAATTACCAAACATCGAACATTACCTTCGTTTTAAAGAATTTTTAAAGA
* * *
71417742 CATGAGTGAAATTCCAAAGGAATATTCGTTTGTTTTGAACAAACGGGAAATCGCAACCCAGCACG
1 CATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGCACG
* ** *
71417807 ATAGGGCACGATTCCCGAATTGCCAAACATCGAGTATTGCCTTCGTTTTAAAGAATTTTTAAA
66 ATAGGGCACGATTCCCGAATTACCAAACATCGAACATTACCTTCGTTTTAAAGAATTTTTAAA
71417870 TGAATAGTTA
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
130 115 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (130 bp):
CATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGCACG
ATAGGGCACGATTCCCGAATTACCAAACATCGAACATTACCTTCGTTTTAAAGAATTTTTAAAGA
Found at i:71429567 original size:37 final size:37
Alignment explanation
Indices: 71429517--71429595 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
71429507 TTATTACGAA
* * * * *
71429517 GTCTTATCCGGACATAATCTCCGCACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
71429554 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
71429591 GTCTT
1 GTCTT
71429596 TAGAGCTCAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:71430641 original size:47 final size:47
Alignment explanation
Indices: 71429714--71430620 Score: 1643
Period size: 47 Copynumber: 19.3 Consensus size: 47
71429704 CCCTTCGGGA
* * * * * * * *
71429714 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
* * * *
71429761 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
71429808 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
71429855 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
71429902 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
71429949 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
71429996 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
71430043 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
71430090 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
71430137 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
71430184 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
71430231 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
71430278 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
71430325 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
71430372 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
* *
71430419 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
71430466 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
* *
71430513 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
* *
71430560 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
*
71430607 CTTATCTCATATAT
1 CTTATCACATATAT
71430621 GCATGTTCAC
Statistics
Matches: 841, Mismatches: 19, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 841 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACGTTCGTCACATCGGCCATTAGGC
Found at i:71432327 original size:109 final size:109
Alignment explanation
Indices: 71432136--71432356 Score: 442
Period size: 109 Copynumber: 2.0 Consensus size: 109
71432126 ATGTTTTGCC
71432136 CATCATCCCTTGTCATGGCCGTCCACTAGTACTTAAATGTGGGGAAATTGACATGCAAGTCCACC
1 CATCATCCCTTGTCATGGCCGTCCACTAGTACTTAAATGTGGGGAAATTGACATGCAAGTCCACC
71432201 CCTTTGATTACATGCACTATTAGGCCACTTGCATTTGCCTAGCA
66 CCTTTGATTACATGCACTATTAGGCCACTTGCATTTGCCTAGCA
71432245 CATCATCCCTTGTCATGGCCGTCCACTAGTACTTAAATGTGGGGAAATTGACATGCAAGTCCACC
1 CATCATCCCTTGTCATGGCCGTCCACTAGTACTTAAATGTGGGGAAATTGACATGCAAGTCCACC
71432310 CCTTTGATTACATGCACTATTAGGCCACTTGCATTTGCCTAGCA
66 CCTTTGATTACATGCACTATTAGGCCACTTGCATTTGCCTAGCA
71432354 CAT
1 CAT
71432357 TTTTAAATTT
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 112 1.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (109 bp):
CATCATCCCTTGTCATGGCCGTCCACTAGTACTTAAATGTGGGGAAATTGACATGCAAGTCCACC
CCTTTGATTACATGCACTATTAGGCCACTTGCATTTGCCTAGCA
Found at i:71433571 original size:40 final size:40
Alignment explanation
Indices: 71433514--71433828 Score: 209
Period size: 40 Copynumber: 7.9 Consensus size: 40
71433504 CAAATACACG
* * * *
71433514 TCACCAGCATGATTGCTCTTCAGGACCTAGCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* ** *
71433554 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
71433594 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
71433634 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * * *
71433674 GTAACTC-GCACAAATGC-CTTCGGGACTTAACCCAGATTTA
1 -TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* ** *
71433714 GTAACTTGCACCAATGC-CTTCGGG-CTTAGCCCGGA-ATTA
1 -TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA-TA
* * * *
71433753 GTAACTC-GCACAAATGC-CTTC-GGATCTTAGTCCGGATATGG
1 -TCAC-CAGCACGAATGCTCTTCGGGA-CTTAGCCCGGATAT-A
* * *
71433794 TCACTTAGCAC-AAAGC-CTTCGGGACTTAGCACGGA
1 TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGA
71433829 CATCATTCGA
Statistics
Matches: 223, Mismatches: 41, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
38 2 0.01
39 29 0.13
40 173 0.78
41 19 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:71433664 original size:80 final size:79
Alignment explanation
Indices: 71433541--71433828 Score: 269
Period size: 80 Copynumber: 3.6 Consensus size: 79
71433531 CTTCAGGACC
* * * ** * * *
71433541 TAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA-TCACTAGCACG
1 TAGCCCGGATATATCACTAGCACCAATGC-CTTCGGGACTTAGCACGGATATAGTAACTCGCACA
71433605 AATGCTCTTCGGAACT
65 AATGC-CTTCGGAACT
* ** * *
71433621 TAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACA
1 TAGCCCGGATATATCACTAGCACCAATGC-CTTCGGGACTTAGCACGGATATAGTAACTCGCACA
*
71433686 AATGCCTTCGGGACT
65 AATGCCTTCGGAACT
* * * * * *
71433701 TAACCCAGATTTAGTAACTTGCACCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCAC
1 TAGCCCGGATATA-TCACTAGCACCAATGCCTTCGGGACTTAGCACGGATA-TAGTAACTCGCAC
*
71433764 AAATGCCTTCGGATCT
64 AAATGCCTTCGGAACT
* * *
71433780 TAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCACGGA
1 TAGCCCGGATAT-ATCAC-TAGCACCAATGCCTTCGGGACTTAGCACGGA
71433829 CATCATTCGA
Statistics
Matches: 170, Mismatches: 32, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
78 1 0.01
79 60 0.35
80 84 0.49
81 25 0.15
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
TAGCCCGGATATATCACTAGCACCAATGCCTTCGGGACTTAGCACGGATATAGTAACTCGCACAA
ATGCCTTCGGAACT
Found at i:71433812 original size:79 final size:81
Alignment explanation
Indices: 71433651--71433828 Score: 222
Period size: 79 Copynumber: 2.2 Consensus size: 81
71433641 CATGAATGCT
* *
71433651 CTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGATTTAG
1 CTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGATATAG
*
71433715 TAACTTGCACCAATGC
66 TAACTTGCACCAAAGC
** * *
71433731 CTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATG
1 CTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAGATATA
*
71433793 GTCACTTAGCA-CAAAGC
65 GTAACTT-GCACCAAAGC
*
71433810 CTTCGGGACTTAGCACGGA
1 CTTCGGGACTTAGCCCGGA
71433829 CATCATTCGA
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 3 0.04
79 61 0.72
80 21 0.25
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGATATAG
TAACTTGCACCAAAGC
Found at i:71442517 original size:54 final size:54
Alignment explanation
Indices: 71442442--71442578 Score: 274
Period size: 54 Copynumber: 2.5 Consensus size: 54
71442432 GTAATTGTCG
71442442 TTGCAGGGGATTTAGCCTGGACTGGTAATTCCGACAATACTCTATGAGTTTATA
1 TTGCAGGGGATTTAGCCTGGACTGGTAATTCCGACAATACTCTATGAGTTTATA
71442496 TTGCAGGGGATTTAGCCTGGACTGGTAATTCCGACAATACTCTATGAGTTTATA
1 TTGCAGGGGATTTAGCCTGGACTGGTAATTCCGACAATACTCTATGAGTTTATA
71442550 TTGCAGGGGATTTAGCCTGGACTGGTAAT
1 TTGCAGGGGATTTAGCCTGGACTGGTAAT
71442579 CCCGCTGCAA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 83 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (54 bp):
TTGCAGGGGATTTAGCCTGGACTGGTAATTCCGACAATACTCTATGAGTTTATA
Found at i:71446533 original size:47 final size:47
Alignment explanation
Indices: 71446463--71446627 Score: 187
Period size: 47 Copynumber: 3.5 Consensus size: 47
71446453 TTGAGTTCCG
71446463 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGTTGTAACTAGGCATCCC
1 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGTTGTAACTAGGCATCCC
* * * * * *
71446510 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAAC---GC--CCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GTTG-TAACTAGGCATCCC
*
71446556 AGCTCGTTGAGTTGAGTCCGAGTTCGTGAGTTGTAACTAGGCATCCC
1 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGTTGTAACTAGGCATCCC
*
71446603 AACTCGTTGAGTTGAGTCTGAGTTC
1 AACTCGTTGAGTTGAGTCCGAGTTC
71446628 ACTTATGGAT
Statistics
Matches: 94, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
45 4 0.04
46 25 0.27
47 49 0.52
48 4 0.04
50 3 0.03
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (47 bp):
AACTCGTTGAGTTGAGTCCGAGTTCGTGAGTTGTAACTAGGCATCCC
Found at i:71446579 original size:46 final size:46
Alignment explanation
Indices: 71446512--71446681 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
71446502 GGCATCCCAA
*
71446512 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
* * * * * *
71446558 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GTTG-TAACTAGGCATCCCAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC--CCGAG
*
71446605 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
71446651 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71446682 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
45 4 0.04
46 55 0.55
47 25 0.25
48 4 0.04
50 3 0.03
51 3 0.03
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
Found at i:71446624 original size:93 final size:93
Alignment explanation
Indices: 71446460--71446673 Score: 419
Period size: 93 Copynumber: 2.3 Consensus size: 93
71446450 TATTTGAGTT
*
71446460 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGTTGTAACTAGGCATCCCAACTCGTTGAGTTGA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGTTGTAACTAGGCATCCCAACTCGTTGAGTTGA
71446525 GTCTGAGTTCACTTATGGATGCGAACGC
66 GTCTGAGTTCACTTATGGATGCGAACGC
71446553 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGTTGTAACTAGGCATCCCAACTCGTTGAGTTGA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGTTGTAACTAGGCATCCCAACTCGTTGAGTTGA
71446618 GTCTGAGTTCACTTATGGATGCGAACGC
66 GTCTGAGTTCACTTATGGATGCGAACGC
71446646 CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTC
71446674 ACTTATGGGC
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 120 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (93 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGTTGTAACTAGGCATCCCAACTCGTTGAGTTGA
GTCTGAGTTCACTTATGGATGCGAACGC
Found at i:71453259 original size:2 final size:2
Alignment explanation
Indices: 71453252--71453281 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
71453242 AATATTACTA
71453252 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
71453282 AACATCGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:71455593 original size:30 final size:30
Alignment explanation
Indices: 71455550--71455657 Score: 94
Period size: 30 Copynumber: 3.5 Consensus size: 30
71455540 TTTTCCTCTG
71455550 AAATTTTTAGAAAATTTTAATTAAACCCTTC
1 AAATTTTT-GAAAATTTTAATTAAACCCTTC
* * * * *
71455581 AAATATTTGAAAATCCTT-ATTATACCTTTT
1 AAATTTTTGAAAAT-TTTAATTAAACCCTTC
* *
71455611 ATATTTTTGAAAATTTTAATTAAGCTCTCTT-
1 AAATTTTTGAAAATTTTAATTAAAC-C-CTTC
71455642 AAATTTTTTGAAAATT
1 AAA-TTTTTGAAAATT
71455658 CTCATTAATC
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
29 2 0.03
30 32 0.53
31 12 0.20
32 14 0.23
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (30 bp):
AAATTTTTGAAAATTTTAATTAAACCCTTC
Found at i:71459111 original size:42 final size:42
Alignment explanation
Indices: 71459047--71459154 Score: 137
Period size: 42 Copynumber: 2.6 Consensus size: 42
71459037 TCATATGAGT
* * * * * *
71459047 TTTCATTTAACCCTAATGGGTTTCCGTTCAGCTCTTTTGAGC
1 TTTCGTTTAACCCTTATGGGTTTCCATTCAGCTCCTATGAAC
71459089 -TTCTGTTTAACCCTTATGGGTTTCCATTCAGCTCCTATGAAC
1 TTTC-GTTTAACCCTTATGGGTTTCCATTCAGCTCCTATGAAC
*
71459131 TTTCGTTCAACCCTTATGGGTTTC
1 TTTCGTTTAACCCTTATGGGTTTC
71459155 TGTTAGCACT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 3 0.05
42 51 0.89
43 3 0.05
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.43
Consensus pattern (42 bp):
TTTCGTTTAACCCTTATGGGTTTCCATTCAGCTCCTATGAAC
Found at i:71462730 original size:5 final size:5
Alignment explanation
Indices: 71462720--71462797 Score: 54
Period size: 5 Copynumber: 15.4 Consensus size: 5
71462710 GTAACCCAAT
* * *
71462720 TTTTA TTTTA TTTT- TATTTA TTTTA TTTATTA TTTTC TTTTG TTTTC
1 TTTTA TTTTA TTTTA T-TTTA TTTTA -TT-TTA TTTTA TTTTA TTTTA
* *
71462767 TTTT- TTATT- TATTA CTTTA TTTTA TTTTA TT
1 TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TT
71462798 ATTTATTACT
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
4 5 0.08
5 47 0.78
6 5 0.08
7 3 0.05
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:71462784 original size:25 final size:26
Alignment explanation
Indices: 71462736--71462813 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 26
71462726 TTTATTTTTA
71462736 TTTATTTTA-TTTATTA-TT-TT-CT
1 TTTATTTTATTTTATTATTTATTACT
* *
71462758 TTTGTTTTCTTTT-TTATTTATTAC-
1 TTTATTTTATTTTATTATTTATTACT
71462782 TTTATTTTATTTTATTATTTATTAC-
1 TTTATTTTATTTTATTATTTATTACT
71462807 TTTATTT
1 TTTATTT
71462814 GGATATTAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
22 10 0.21
23 5 0.11
24 13 0.28
25 19 0.40
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (26 bp):
TTTATTTTATTTTATTATTTATTACT
Found at i:71462789 original size:29 final size:29
Alignment explanation
Indices: 71462721--71462804 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 29
71462711 TAACCCAATT
*
71462721 TTTATTTTATTTTTATTTATTTTATTTATTAT
1 TTTATTTTA-TTTTA-TT-TTTTATTTATTAC
* * *
71462753 TTTCTTTTGTTTTCTTTTTTATTTATTAC
1 TTTATTTTATTTTATTTTTTATTTATTAC
*
71462782 TTTATTTTATTTTATTATTTATT
1 TTTATTTTATTTTATTTTTTATT
71462805 ACTTTATTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
29 31 0.70
30 2 0.05
31 4 0.09
32 7 0.16
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (29 bp):
TTTATTTTATTTTATTTTTTATTTATTAC
Found at i:71464720 original size:10 final size:10
Alignment explanation
Indices: 71464693--71464742 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
71464683 TAAATTTAGG
*
71464693 ATTTATTTTT
1 ATTTATCTTT
*
71464703 ATTGATCTTT
1 ATTTATCTTT
*
71464713 AATTATCTTT
1 ATTTATCTTT
71464723 ATTTAT-TTGT
1 ATTTATCTT-T
71464733 ATTTATCTTT
1 ATTTATCTTT
71464743 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:71474060 original size:21 final size:21
Alignment explanation
Indices: 71474034--71474085 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
71474024 TTTATTTTTC
* *
71474034 TTTATTATTTTATTTTAATTA
1 TTTATTATTTTATCTTAATGA
71474055 TTTATTATTTTATCTTAATGA
1 TTTATTATTTTATCTTAATGA
71474076 TTTATTATTT
1 TTTATTATTT
71474086 AATTATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTATTATTTTATCTTAATGA
Found at i:71474063 original size:7 final size:7
Alignment explanation
Indices: 71474021--71474096 Score: 54
Period size: 7 Copynumber: 11.0 Consensus size: 7
71474011 AGGCAACCCA
71474021 ATTT-TT
1 ATTTATT
71474027 ATTT-TT
1 ATTTATT
*
71474033 CTTTATT
1 ATTTATT
71474040 ATTTTATT
1 A-TTTATT
*
71474048 -TTAATT
1 ATTTATT
71474054 ATTTATT
1 ATTTATT
71474061 A-TT-TT
1 ATTTATT
*
71474066 ATCTTAATG
1 AT-TT-ATT
71474075 ATTTATT
1 ATTTATT
71474082 ATTTAATT
1 ATTT-ATT
71474090 ATTTATT
1 ATTTATT
71474097 TTATTTTGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
5 3 0.05
6 16 0.29
7 19 0.34
8 15 0.27
9 3 0.05
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (7 bp):
ATTTATT
Found at i:71475753 original size:10 final size:10
Alignment explanation
Indices: 71475738--71475797 Score: 88
Period size: 10 Copynumber: 6.0 Consensus size: 10
71475728 TAATTTTAGG
71475738 ATTTAT-TTT
1 ATTTATCTTT
71475747 CATTTATCTTT
1 -ATTTATCTTT
71475758 ATTTATCTTT
1 ATTTATCTTT
71475768 ATTTATCTTT
1 ATTTATCTTT
71475778 ATTTAT-TTGT
1 ATTTATCTT-T
71475788 ATTTATCTTT
1 ATTTATCTTT
71475798 GAGAATTTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
9 2 0.04
10 40 0.85
11 5 0.11
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:71475782 original size:14 final size:15
Alignment explanation
Indices: 71475739--71475797 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
71475729 AATTTTAGGA
71475739 TTTATTT-TCATTTAT
1 TTTATTTATC-TTTAT
71475754 CTTTATTTATCTTTA-
1 -TTTATTTATCTTTAT
*
71475769 TTTATCTT-TATTTAT
1 TTTAT-TTATCTTTAT
71475784 TTGTATTTATCTTT
1 TT-TATTTATCTTT
71475798 GAGAATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 10 0.28
15 6 0.17
16 18 0.50
17 2 0.06
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTATCTTTAT
Found at i:71477333 original size:12 final size:12
Alignment explanation
Indices: 71477316--71477354 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
71477306 AAAAATTTTG
71477316 AAATTTTGGGAA
1 AAATTTTGGGAA
71477328 AAATTTT--G--
1 AAATTTTGGGAA
71477336 AAATTTTGGGAA
1 AAATTTTGGGAA
71477348 AAATTTT
1 AAATTTT
71477355 TTGAGTTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 7 0.30
10 2 0.09
12 14 0.61
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (12 bp):
AAATTTTGGGAA
Found at i:71477355 original size:21 final size:20
Alignment explanation
Indices: 71477305--71477354 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
71477295 CTGCACCTAA
71477305 GAAAAATTTTGAAATTTTGG
1 GAAAAATTTTGAAATTTTGG
71477325 GAAAAATTTTGAAATTTTGG
1 GAAAAATTTTGAAATTTTGG
71477345 GAAAAATTTT
1 GAAAAATTTT
71477355 TTGAGTTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (20 bp):
GAAAAATTTTGAAATTTTGG
Found at i:71479664 original size:47 final size:47
Alignment explanation
Indices: 71479512--71479688 Score: 204
Period size: 47 Copynumber: 3.8 Consensus size: 47
71479502 TGTAACCCGC
* * *
71479512 CCATAAGTGAACTGGGACTCAACTCAACGAGCTCAGG-C-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACAGTTCACAT
71479558 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-AGTTCACAT
* * * *
71479608 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
71479652 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
71479689 TGTTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
43 3 0.03
44 5 0.05
45 2 0.02
46 34 0.31
47 58 0.52
48 2 0.02
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
Found at i:71479680 original size:94 final size:93
Alignment explanation
Indices: 71479520--71479690 Score: 281
Period size: 94 Copynumber: 1.8 Consensus size: 93
71479510 GCCCATAAGT
* *
71479520 GAACTGGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
71479585 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
71479613 GAACTCGGACTCAACTCAACGAGTTC-GGACATTTCACATCCATAAGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTCAGG-C-GTTCACATCCATAAGTGAACTCGGACTCAACTC
71479677 AACGAGTTCGGATG
64 AACGAGTTCGGATG
71479691 TTCAACCATC
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
92 2 0.03
93 25 0.35
94 45 0.62
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:71480144 original size:30 final size:30
Alignment explanation
Indices: 71480110--71480169 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
71480100 CCTTAATACG
71480110 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
71480140 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
71480170 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:71484206 original size:42 final size:43
Alignment explanation
Indices: 71484152--71484273 Score: 122
Period size: 43 Copynumber: 2.8 Consensus size: 43
71484142 CATCGACTTA
71484152 TGATTTACGTGTAAGACCACGTCTGGGACATTGGCATCG-TATT
1 TGATTT-CGTGTAAGACCACGTCTGGGACATTGGCATCGATATT
* * * * *
71484195 TGATTTCGTGTAAAACC-CTATTTAGGACAGTGGCATCGATATT
1 TGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATT
* * * * *
71484238 TGATTACATGTAAGACTACGCCTGGGACGTTGGCAT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCAT
71484274 TGTACGAGCT
Statistics
Matches: 61, Mismatches: 15, Indels: 6
0.74 0.18 0.07
Matches are distributed among these distances:
41 1 0.02
42 25 0.41
43 34 0.56
44 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATATT
Found at i:71491453 original size:36 final size:35
Alignment explanation
Indices: 71491405--71491476 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 35
71491395 GAGGAACACC
71491405 ATCCTCCAGGGAAGGATGATTCAAAAAAAATTTCA
1 ATCCTCCAGGGAAGGATGATTCAAAAAAAATTTCA
71491440 ANTCCTCCAGGGAAGGATGATTCAAAAAAAATTTCA
1 A-TCCTCCAGGGAAGGATGATTCAAAAAAAATTTCA
71491476 A
1 A
71491477 ACTTGATTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 1 0.03
36 35 0.97
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.22
Consensus pattern (35 bp):
ATCCTCCAGGGAAGGATGATTCAAAAAAAATTTCA
Found at i:71500855 original size:15 final size:17
Alignment explanation
Indices: 71500829--71500861 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
71500819 ATTTATTATT
71500829 AATTATTTTTTC-TATA
1 AATTATTTTTTCATATA
71500845 AATTA-TTTTTCATATA
1 AATTATTTTTTCATATA
71500861 A
1 A
71500862 TAATCTAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
AATTATTTTTTCATATA
Found at i:71508767 original size:22 final size:23
Alignment explanation
Indices: 71508737--71508779 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
71508727 AGATTCTTTG
71508737 TTTTGTTTTA-TTACTTTTTTCT
1 TTTTGTTTTATTTACTTTTTTCT
*
71508759 TTTTTTTTTATTTACTTTTTT
1 TTTTGTTTTATTTACTTTTTT
71508780 TAAGTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.81
Consensus pattern (23 bp):
TTTTGTTTTATTTACTTTTTTCT
Found at i:71508930 original size:23 final size:21
Alignment explanation
Indices: 71508890--71508950 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
71508880 AAATATATAT
*
71508890 ATTTGAAAT-TATTTTTTAAA
1 ATTTTAAATATATTTTTTAAA
71508910 ATTTTAAATATTAATTTTTT--A
1 ATTTTAAATA-T-ATTTTTTAAA
71508931 ATTTTAAATATATTTTTTAA
1 ATTTTAAATATATTTTTTAA
71508951 TAATATAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
19 7 0.20
20 9 0.26
21 11 0.31
22 1 0.03
23 7 0.20
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
ATTTTAAATATATTTTTTAAA
Found at i:71508959 original size:21 final size:21
Alignment explanation
Indices: 71508890--71508959 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 21
71508880 AAATATATAT
71508890 ATTTGAAAT-TATTTTTTAA-A
1 ATTT-AAATATATTTTTTAATA
71508910 ATTTTAAATATTAATTTTTTAAT-
1 A-TTTAAATA-T-ATTTTTTAATA
71508933 -TTTAAATATATTTTTTAATA
1 ATTTAAATATATTTTTTAATA
*
71508953 ATATAAA
1 ATTTAAA
71508960 ACATTTAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
19 10 0.24
20 6 0.14
21 16 0.38
22 1 0.02
23 9 0.21
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (21 bp):
ATTTAAATATATTTTTTAATA
Found at i:71509001 original size:100 final size:96
Alignment explanation
Indices: 71508897--71509135 Score: 261
Period size: 100 Copynumber: 2.4 Consensus size: 96
71508887 TATATTTGAA
* *
71508897 ATTA-TTTTTTAAAATTTTAAATAT-TAATTTTTTAATTTTAAATATATTT-TTTAATAATATAA
1 ATTATTTTTTTAAAATTTTAAATGTAT-A-TTTTAAATTTTAAATATATTTATTT-AT--TATAA
71508959 AACAT-TTAAATATTTTAAAGATATGACCTTTCAAATTT
61 AACATATT--AT-TTTTAAAGATATGACCTTTCAAATTT
* * *
71508997 ATTATTAGTTTTGTAATATTTTAAATGTATATTTTAAATTTTAAATATGTTTAATTTATTTTAAA
1 ATTATT--TTTT-TAAAATTTTAAATGTATATTTTAAATTTTAAATATATTT-ATTTATTATAAA
*
71509062 ATATATTATTTTTAAAGATATGACCTTTCAAATTT
62 ACATATTATTTTTAAAGATATGACCTTTCAAATTT
71509097 ATTATTTGTTTTATAATATTTTAAATGTATATTTTAAAT
1 ATTATTT-TTTTA-AA-ATTTTAAATGTATATTTTAAAT
71509136 ATTTTTAAAA
Statistics
Matches: 121, Mismatches: 7, Indels: 22
0.81 0.05 0.15
Matches are distributed among these distances:
98 3 0.02
99 4 0.03
100 58 0.48
101 3 0.02
102 8 0.07
103 25 0.21
104 16 0.13
105 4 0.03
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (96 bp):
ATTATTTTTTTAAAATTTTAAATGTATATTTTAAATTTTAAATATATTTATTTATTATAAAACAT
ATTATTTTTAAAGATATGACCTTTCAAATTT
Found at i:71509164 original size:15 final size:15
Alignment explanation
Indices: 71509146--71509177 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
71509136 ATTTTTAAAA
71509146 TTTTAATTATTAATT
1 TTTTAATTATTAATT
71509161 TTTTAATTATTAATT
1 TTTTAATTATTAATT
71509176 TT
1 TT
71509178 GAAATTAATT
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):
TTTTAATTATTAATT
Found at i:71509170 original size:100 final size:96
Alignment explanation
Indices: 71508963--71509171 Score: 271
Period size: 100 Copynumber: 2.1 Consensus size: 96
71508953 ATATAAAACA
* *
71508963 TTTAAATA-TTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTGTAATATTTTAAATGTAT
1 TTTAATTATTTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATGTAT
71509027 ATTTTAAATTTTAAATATGTTTAATTTATTT
66 ATTTTAAATTTTAAATATGTTTAATTTATTT
* *
71509058 TAAAATATATTATTTTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAAAT
1 T---TTA-ATTATTTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAAT
71509123 GTATATTTTAAATATTTTTAAA-AT-TTTAATTATTAATTT
62 GTATATTTT-AA-A-TTTTAAATATGTTTAA-T-TT-ATTT
71509162 TTTAATTATT
1 TTTAATTATT
71509172 AATTTTGAAA
Statistics
Matches: 98, Mismatches: 5, Indels: 17
0.82 0.04 0.14
Matches are distributed among these distances:
95 1 0.01
98 2 0.02
99 3 0.03
100 65 0.66
101 9 0.09
102 4 0.04
103 9 0.09
104 5 0.05
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.56
Consensus pattern (96 bp):
TTTAATTATTTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATGTAT
ATTTTAAATTTTAAATATGTTTAATTTATTT
Found at i:71509183 original size:15 final size:15
Alignment explanation
Indices: 71509150--71509184 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
71509140 TTAAAATTTT
**
71509150 AATTATTAATTTTTT
1 AATTATTAATTTTGA
71509165 AATTATTAATTTTGA
1 AATTATTAATTTTGA
71509180 AATTA
1 AATTA
71509185 ATTTTAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
AATTATTAATTTTGA
Found at i:71509233 original size:8 final size:8
Alignment explanation
Indices: 71509220--71509254 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
71509210 TAAAATTAAA
71509220 TTTAAAAT
1 TTTAAAAT
71509228 TTTAAAAT
1 TTTAAAAT
71509236 TTTAAAA-
1 TTTAAAAT
*
71509243 TTTAATAT
1 TTTAAAAT
71509251 TTTA
1 TTTA
71509255 TTTGGTGGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTTAAAAT
Found at i:71509237 original size:15 final size:15
Alignment explanation
Indices: 71509207--71509254 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
71509197 TTCAAACTTT
71509207 TTTTAAAA-TT-AAA
1 TTTTAAAATTTAAAA
71509220 -TTTAAAATTTTAAAA
1 TTTTAAAA-TTTAAAA
*
71509235 TTTTAAAATTTAATA
1 TTTTAAAATTTAAAA
71509250 TTTTA
1 TTTTA
71509255 TTTGGTGGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 7 0.23
14 2 0.07
15 14 0.47
16 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTAAAATTTAAAA
Found at i:71512592 original size:30 final size:30
Alignment explanation
Indices: 71512552--71512654 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
71512542 GGTTGCTCTA
* * * *
71512552 GGTGAAATGAACTCGAACCGCCTATGTTCG
1 GGTGATATGAACTTGAACCGCCAATGTCCG
* *
71512582 GGTGATATGAACTTGAACTGCCCATGTCCG
1 GGTGATATGAACTTGAACCGCCAATGTCCG
*
71512612 GGTGATATGAACTTGAACCGCCAATGTCCA
1 GGTGATATGAACTTGAACCGCCAATGTCCG
*
71512642 GGTGACATGAACT
1 GGTGATATGAACT
71512655 GCTCTGCGAC
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (30 bp):
GGTGATATGAACTTGAACCGCCAATGTCCG
Found at i:71515492 original size:18 final size:18
Alignment explanation
Indices: 71515452--71515493 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
71515442 TAAAGTCATA
71515452 TTTTTTTAACAAATAAAT
1 TTTTTTTAACAAATAAAT
*
71515470 ATTTTTTAACAAAT--AT
1 TTTTTTTAACAAATAAAT
71515486 TTTTTTTA
1 TTTTTTTA
71515494 TTTTTTTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 9 0.41
18 13 0.59
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTTTAACAAATAAAT
Found at i:71515631 original size:19 final size:18
Alignment explanation
Indices: 71515607--71515653 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
71515597 AAGTCATAAT
71515607 TTAAAAATTATATGTAAAA
1 TTAAAAA-TATATGTAAAA
*
71515626 TTAAAAA-ATATTTAAAA
1 TTAAAAATATATGTAAAA
*
71515643 TTTAAAATATA
1 TTAAAAATATA
71515654 CATCTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 15 0.60
18 3 0.12
19 7 0.28
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
TTAAAAATATATGTAAAA
Found at i:71515741 original size:22 final size:21
Alignment explanation
Indices: 71515714--71515780 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
71515704 AAATATTTAA
71515714 ATATTTTATATTATTAAAAAAT
1 ATATTTTA-ATTATTAAAAAAT
*
71515736 ATA-TTTAA-AATT-AAAAAT
1 ATATTTTAATTATTAAAAAAT
*
71515754 AATATTTAAAATT-TTAAAAAAT
1 -ATATTT-TAATTATTAAAAAAT
71515776 A-ATTT
1 ATATTT
71515781 CAAATATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
18 6 0.16
19 6 0.16
20 7 0.19
21 9 0.24
22 9 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATTTTAATTATTAAAAAAT
Found at i:71515750 original size:19 final size:19
Alignment explanation
Indices: 71515726--71515785 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
71515716 ATTTTATATT
71515726 ATTAAAAAATATATTTAAA
1 ATTAAAAAATATATTTAAA
71515745 ATT-AAAAATAATATTTAAA
1 ATTAAAAAAT-ATATTTAAA
*
71515764 ATTTTAAAAAATA-ATTTCAA
1 A--TTAAAAAATATATTTAAA
71515784 AT
1 AT
71515786 ATATATATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
18 7 0.19
19 13 0.36
20 7 0.19
21 3 0.08
22 6 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTAAAAAATATATTTAAA
Found at i:71515770 original size:21 final size:20
Alignment explanation
Indices: 71515726--71515778 Score: 74
Period size: 19 Copynumber: 2.6 Consensus size: 20
71515716 ATTTTATATT
71515726 ATTAAAAAAT-ATATTTAAA
1 ATTAAAAAATAATATTTAAA
71515745 ATT-AAAAATAATATTTAAA
1 ATTAAAAAATAATATTTAAA
71515764 ATTTTAAAAAATAAT
1 A--TTAAAAAATAAT
71515779 TTCAAATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.20
19 13 0.43
21 2 0.07
22 9 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTAAAAAATAATATTTAAA
Found at i:71515832 original size:45 final size:45
Alignment explanation
Indices: 71515761--71515870 Score: 123
Period size: 46 Copynumber: 2.4 Consensus size: 45
71515751 AATAATATTT
* *
71515761 AAAATTTTAAAAAATAATTTCAAATATATATATTTAAAATTTTTAA
1 AAAATATTAAAAAATAATTTCAAATATACAT-TTTAAAATTTTTAA
* **
71515807 AAAATATTATAAAAT-ATTTCAAATATACATTTTAAGTTTTTTAA
1 AAAATATTAAAAAATAATTTCAAATATACATTTTAAAATTTTTAA
*
71515851 AATCAATAATAAACAAATAA
1 AA--AATATTAAA-AAATAA
71515871 AAAAATAAGG
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
44 14 0.26
45 14 0.26
46 20 0.38
47 4 0.08
48 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.40
Consensus pattern (45 bp):
AAAATATTAAAAAATAATTTCAAATATACATTTTAAAATTTTTAA
Found at i:71524408 original size:56 final size:58
Alignment explanation
Indices: 71524299--71524421 Score: 189
Period size: 56 Copynumber: 2.2 Consensus size: 58
71524289 GAATAGAAAT
** *
71524299 AATGAAAATGGAGAAATGAGAAATATTTGGAAATGATTATAGTTTTCTTCAAAATGAA
1 AATGAAAATAAAGAAATGAGAAATATTTGGAAATGATTATAGTTTTCTCCAAAATGAA
71524357 AATGAAAATAAAGAAAT--GAAATAATTTGGAAATGATTAT-GTTTTCTCCAAAATGAA
1 AATGAAAATAAAGAAATGAGAAAT-ATTTGGAAATGATTATAGTTTTCTCCAAAATGAA
71524413 AATGAAAAT
1 AATGAAAAT
71524422 GACCCGCAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
56 30 0.49
57 16 0.26
58 15 0.25
ACGTcount: A:0.50, C:0.04, G:0.16, T:0.30
Consensus pattern (58 bp):
AATGAAAATAAAGAAATGAGAAATATTTGGAAATGATTATAGTTTTCTCCAAAATGAA
Found at i:71531490 original size:3 final size:3
Alignment explanation
Indices: 71531482--71531527 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
71531472 CCTTTGTTAC
71531482 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
71531528 AACCCGCTGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:71542655 original size:24 final size:25
Alignment explanation
Indices: 71542628--71542674 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
71542618 ACCATTATCC
71542628 TTCCTTCTTTTTTTTCTT-TTTCTT
1 TTCCTTCTTTTTTTTCTTCTTTCTT
71542652 TTCCTTCTTTTTTTTCTTCTTTC
1 TTCCTTCTTTTTTTTCTTCTTTC
71542675 AAGGATTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (25 bp):
TTCCTTCTTTTTTTTCTTCTTTCTT
Found at i:71542665 original size:12 final size:12
Alignment explanation
Indices: 71542628--71542673 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
71542618 ACCATTATCC
71542628 TTCCTTCTTTTT
1 TTCCTTCTTTTT
*
71542640 TTTCTT-TTTCTT
1 TTCCTTCTTT-TT
71542652 TTCCTTCTTTTT
1 TTCCTTCTTTTT
*
71542664 TTTCTTCTTT
1 TTCCTTCTTT
71542674 CAAGGATTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 3 0.10
12 23 0.79
13 3 0.10
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
TTCCTTCTTTTT
Found at i:71544497 original size:44 final size:44
Alignment explanation
Indices: 71544447--71544535 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
71544437 AAGTAACAGA
71544447 AACAGTAAGACAC-ATGAGGTGCCTCATCAACACCA-AGTCAAAGT
1 AACAGTAAGACACTATGA-GTGCCTCATCAAC-CCATAGTCAAAGT
* * * *
71544491 AACAGTATGGCACTATTAGTGCCTCATCAACCCATGGTCAAAGT
1 AACAGTAAGACACTATGAGTGCCTCATCAACCCATAGTCAAAGT
71544535 A
1 A
71544536 TTCCCGTACA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 3 0.08
44 33 0.85
45 3 0.08
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (44 bp):
AACAGTAAGACACTATGAGTGCCTCATCAACCCATAGTCAAAGT
Found at i:71547116 original size:37 final size:37
Alignment explanation
Indices: 71547053--71547125 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
71547043 CTTTAGCTCA
*
71547053 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
* *
71547090 GACATAATCTCCACACGTAGTCATCGGGTCTTACCC
1 GACAAAATCTCCACACGAAGTCATCGGGTCTTACCC
71547126 AGAATATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
Found at i:71547334 original size:50 final size:48
Alignment explanation
Indices: 71547274--71547417 Score: 191
Period size: 50 Copynumber: 2.9 Consensus size: 48
71547264 GCACATCGCC
*
71547274 TACATGTTTCACACTAGCCATTCGGCTTTACCACATATA-CATATCTCATA
1 TACATATTTCACA-TAGCCATTCGGCTTTACCACATATAGCATATCTC--A
* *
71547324 TATATATTTCACATTGACCATTCGGCTTTACCACATATATGCATATCTCA
1 TACATATTTCACATAG-CCATTCGGCTTTACCACATATA-GCATATCTCA
71547374 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCAT
1 TACATATTTCACA-TAGCCATTCGGCTTTACCACATATA-GCAT
71547418 GTTCATATTC
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
49 2 0.02
50 73 0.86
51 2 0.02
52 8 0.09
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATAGCCATTCGGCTTTACCACATATAGCATATCTCA
Found at i:71547403 original size:100 final size:96
Alignment explanation
Indices: 71547274--71547464 Score: 258
Period size: 100 Copynumber: 1.9 Consensus size: 96
71547264 GCACATCGCC
* *
71547274 TACATGTTTCACACTAGCCATTCGGCTTTACCACATATA-CATATCTCATATATATATTTCACAT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATAGCATAT-TCATAT-T-CA--TCACAT
*
71547338 TGACCATTCGGCTTTACCACATATATGCATATCTCA
61 TGACCATTCGGCCTTACCACATATATGCATATCTCA
* * *
71547374 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCATCACATTGGC
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA-GCATATTCATATTCATCACATTGAC
*
71547439 CATTCGGCCTTATCACATATATGCAT
65 CATTCGGCCTTACCACATATATGCAT
71547465 GTTCACATTC
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
97 33 0.40
99 1 0.01
100 38 0.46
101 6 0.07
102 4 0.05
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (96 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATAGCATATTCATATTCATCACATTGACC
ATTCGGCCTTACCACATATATGCATATCTCA
Found at i:71547454 original size:22 final size:22
Alignment explanation
Indices: 71547428--71547499 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
71547418 GTTCATATTC
71547428 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
71547450 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
71547474 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
71547497 ATC
1 ATC
71547500 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Done.