Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 199 of 276
Found at i:66045152 original size:22 final size:20
Alignment explanation
Indices: 66045109--66045146 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
66045099 TATAATCGGC
* *
66045109 AATTCATTTATATGACCAAG
1 AATTCATCTATATAACCAAG
66045129 AATTCATCTATATAACCA
1 AATTCATCTATATAACCA
66045147 TTAGAAGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.34
Consensus pattern (20 bp):
AATTCATCTATATAACCAAG
Found at i:66051165 original size:55 final size:54
Alignment explanation
Indices: 66051078--66051325 Score: 230
Period size: 55 Copynumber: 4.7 Consensus size: 54
66051068 ATTAGGGTTT
* *
66051078 AAGGATACCATGTAAGAACATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTAGTAA-GTTTCTAAGGA
* * *
66051133 AAGGATACCATGTAAGACCATGTCAAGACATGGC-A-TGGATAAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTAG-TAAGTT--TCTAAGG-A
* * *
66051189 AAGG-TCCCATGTAAGACCATGCCAAG-CATGGC-ATTAGTGAG-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTAGTAAGTTTC-TAAGGA
* * * * *
66051240 AAGGATACCATGTAAGACCATGTCGAGACATCG-AAATGGTAAGTTTC--A--A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTAGTAAGTTTCTAAGGA
* *
66051289 AAGGATACCATGTAAGACCATGACAAGTCATGGCAAT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAAT
66051326 GATAAGGTAC
Statistics
Matches: 158, Mismatches: 24, Indels: 27
0.76 0.11 0.13
Matches are distributed among these distances:
49 29 0.18
50 2 0.01
51 6 0.04
52 24 0.15
53 16 0.10
54 17 0.11
55 59 0.37
56 5 0.03
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTAGTAAGTTTCTAAGGA
Found at i:66051283 original size:107 final size:110
Alignment explanation
Indices: 66051085--66051284 Score: 293
Period size: 107 Copynumber: 1.8 Consensus size: 110
66051075 TTTAAGGATA
66051085 CCATGTAAGAACATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGAAAGGATACCATGTAAGA
1 CCATGTAAGAACATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGAAAGGATACCATGTAAGA
**
66051150 CCATGTCAAGACATGGCATGGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGAAATGGATAAGTTACTATAAGGCAAAGGTC
* * *
66051195 CCATGTAAGACCATGCCAA-GCATGGC-ATTAGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGAACATGCCAAGGCATGGCAATTAGTAAGGTTTC-TAAGGAAAGGATACCATGTAAG
*
66051256 ACCATGTCGAGACATCGAAATGG-TAAGTT
65 ACCATGTCAAGACAT-GAAATGGATAAGTT
66051285 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
106 3 0.04
107 42 0.51
108 12 0.15
109 7 0.09
110 18 0.22
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (110 bp):
CCATGTAAGAACATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGAAAGGATACCATGTAAGA
CCATGTCAAGACATGAAATGGATAAGTTACTATAAGGCAAAGGTC
Found at i:66052883 original size:40 final size:40
Alignment explanation
Indices: 66052761--66052901 Score: 205
Period size: 40 Copynumber: 3.5 Consensus size: 40
66052751 CCCAAGTACT
* *
66052761 TTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCC
* *
66052800 TTTGGGTCTTAGCCCGGATATAGTCACTTAGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCAC-TAGCACAAATGCC
66052841 TTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
*
66052881 TTCAGGACTTAGCCCGGATAT
1 TTCGGGACTTAGCCCGGATAT
66052902 CATTCGAATA
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
39 9 0.10
40 45 0.49
41 38 0.41
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
Found at i:66056108 original size:42 final size:42
Alignment explanation
Indices: 66056015--66056168 Score: 146
Period size: 42 Copynumber: 3.6 Consensus size: 42
66056005 TAAAACTATG
* * * * * *
66056015 TGTAAGACCATATCTAGGATATGACATCAATGTGAAACTTCG
1 TGTAAGACCATATCTAGGATATGGCATCGATATGAGATTTCA
* * **
66056057 TGTACGACCATATCTAGGACATGGCATCGATATGAGATTTTT
1 TGTAAGACCATATCTAGGATATGGCATCGATATGAGATTTCA
* * * * **
66056099 TGTAAGACCATAGCTGGGTTATTGGCATCGATACGAGATCCCA
1 TGTAAGACCATATCTAGGATA-TGGCATCGATATGAGATTTCA
*
66056142 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTAGGATATGGCAT
66056169 TTGTATGATA
Statistics
Matches: 90, Mismatches: 21, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
42 55 0.61
43 35 0.39
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTAGGATATGGCATCGATATGAGATTTCA
Found at i:66056127 original size:43 final size:42
Alignment explanation
Indices: 66056057--66056168 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 42
66056047 TGAAACTTCG
* * * * * ****
66056057 TGTACGACCATATCTAGGACATGGCATCGATATGAGATTTTT
1 TGTAAGACCATAGCTGGGATATGGCATCGATACGAGATCCCA
*
66056099 TGTAAGACCATAGCTGGGTTATTGGCATCGATACGAGATCCCA
1 TGTAAGACCATAGCTGGGATA-TGGCATCGATACGAGATCCCA
*
66056142 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATAGCTGGGATATGGCAT
66056169 TTGTATGATA
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 22 0.39
43 35 0.61
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATAGCTGGGATATGGCATCGATACGAGATCCCA
Found at i:66071111 original size:161 final size:161
Alignment explanation
Indices: 66070846--66071167 Score: 617
Period size: 161 Copynumber: 2.0 Consensus size: 161
66070836 GAGCCACATG
66070846 CCCAAATCGACAGCCTCCCTAGATTTTAGGGACTTCGGCTTTTCCTAACTTTGTAAAATAGGACC
1 CCCAAATCGACAGCCTCCCTAGATTTTAGGGACTTCGGCTTTTCCTAACTTTGTAAAATAGGACC
*
66070911 AGATCTGAGATGATGAACACTTACCCCTTACTCCTTTTTGATCTCCATGCAATCTGGTGCAGATT
66 AGATCTGAGATGATGAACACTTACCCCTTACTCCTTTTTGATCTCCACGCAATCTGGTGCAGATT
*
66070976 TATCTTTCAAACGACGGTATAACTCGACTCC
131 TATCTTTCAAACGACGGTATAACTCAACTCC
66071007 CCCAAATCGACAGCCTCCCTAGATTTTAGGGACTTCGGCTTTTCCTAACTTTGTAAAATAGGACC
1 CCCAAATCGACAGCCTCCCTAGATTTTAGGGACTTCGGCTTTTCCTAACTTTGTAAAATAGGACC
*
66071072 AGATCTGAGATGATGAACACTTACCCCTTACTCCTTTTTGATCTCCACGCAATCTGGTGTAGATT
66 AGATCTGAGATGATGAACACTTACCCCTTACTCCTTTTTGATCTCCACGCAATCTGGTGCAGATT
66071137 TATCTTTCAAACGACGGTATAACTCAACTCC
131 TATCTTTCAAACGACGGTATAACTCAACTCC
66071168 TGGAGTTTTG
Statistics
Matches: 158, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
161 158 1.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (161 bp):
CCCAAATCGACAGCCTCCCTAGATTTTAGGGACTTCGGCTTTTCCTAACTTTGTAAAATAGGACC
AGATCTGAGATGATGAACACTTACCCCTTACTCCTTTTTGATCTCCACGCAATCTGGTGCAGATT
TATCTTTCAAACGACGGTATAACTCAACTCC
Found at i:66081812 original size:38 final size:38
Alignment explanation
Indices: 66081756--66081879 Score: 133
Period size: 38 Copynumber: 3.2 Consensus size: 38
66081746 GGCACGAAGG
* * *
66081756 CCCGAATATAATACCAGCACTAGGCTTGCGGGATTTAT
1 CCCGGATATAATACCAGCACTAAGCTTGCGGGATTTAA
* *
66081794 CCCTGATATAATACCAGCA-TGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACT-AAGCTTGCGGGATTTAA
** * *
66081832 CCCGGATATTTTACCAGCACGAAGCTTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACTAAGCTTGCGGG-ATTTAA
66081871 GCCCGGATA
1 -CCCGGATA
66081880 CACATCAAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
37 1 0.01
38 57 0.80
39 5 0.07
40 8 0.11
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACTAAGCTTGCGGGATTTAA
Found at i:66084779 original size:12 final size:12
Alignment explanation
Indices: 66084748--66084772 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66084738 TGGCAAATGG
66084748 AGAGAAAAGAAA
1 AGAGAAAAGAAA
66084760 AGAGAAAAGAAA
1 AGAGAAAAGAAA
66084772 A
1 A
66084773 TGAAAAATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAGAAAAGAAA
Found at i:66089385 original size:18 final size:18
Alignment explanation
Indices: 66089345--66089399 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
66089335 AGATGTGTCG
*
66089345 TTCATTTTCAAAATGTGT-
1 TTCATTTTCAAAAAGT-TA
*
66089363 GTCATTTTCAAAAAGTTA
1 TTCATTTTCAAAAAGTTA
* *
66089381 TTCATATT-AAAACGTTA
1 TTCATTTTCAAAAAGTTA
66089398 TT
1 TT
66089400 AATATATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 11 0.35
18 20 0.65
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (18 bp):
TTCATTTTCAAAAAGTTA
Found at i:66090263 original size:27 final size:27
Alignment explanation
Indices: 66090179--66090255 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
66090169 CATACATCAC
66090179 ATAGGGGCAAAATAGTCATTTTATAAT
1 ATAGGGGCAAAATAGTCATTTTATAAT
* * * *
66090206 GTAAGGACAAAATAGTCATTGTATTAA-
1 ATAGGGGCAAAATAGTCATTTTA-TAAT
66090233 ATAGGGGCAAAATAGTCATTTTA
1 ATAGGGGCAAAATAGTCATTTTA
66090256 CCATATAGAG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 38 0.93
28 3 0.07
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (27 bp):
ATAGGGGCAAAATAGTCATTTTATAAT
Found at i:66092933 original size:42 final size:42
Alignment explanation
Indices: 66092882--66092961 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
66092872 TATATCCATT
66092882 CCATATCCCAGACATGGTCTAACAC-AAAATCTCATAACGATG
1 CCATATCCCAGACATGGTCTAACACTAAAA-CTCATAACGATG
* * *
66092924 CCATATCCCAGATATGGTCTTACACTTAAACTCATAAC
1 CCATATCCCAGACATGGTCTAACACTAAAACTCATAAC
66092962 CCTAGTGTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
42 31 0.91
43 3 0.09
ACGTcount: A:0.36, C:0.29, G:0.10, T:0.25
Consensus pattern (42 bp):
CCATATCCCAGACATGGTCTAACACTAAAACTCATAACGATG
Found at i:66097370 original size:23 final size:22
Alignment explanation
Indices: 66097219--66097399 Score: 93
Period size: 23 Copynumber: 7.9 Consensus size: 22
66097209 GGACTCACCA
* *
66097219 CAGCTCGTATGAGCTTATTGATTT
1 CAGCTCATA-GAGCTTACTG-TTT
* *
66097243 -AGCTCATAAGATCTTACTCTTT
1 CAGCTCAT-AGAGCTTACTGTTT
* **
66097265 CAGCTCATTGAGCTTACCAATTT
1 CAGCTCATAGAGCTTA-CTGTTT
*
66097288 -AGCTCGCA-AGAGCTTACTATTT
1 CAGCT--CATAGAGCTTACTGTTT
* * * *
66097310 CAGCTCATTGGACCTTACCGATT
1 CAGCTCA-TAGAGCTTACTGTTT
66097333 CAGCTTCCA-AGAGCTTACTGTTT
1 CAGC-T-CATAGAGCTTACTGTTT
* *
66097356 CAGCTCATTGAAGCTTAATGATTT
1 CAGCTCATAG-AGCTTACTG-TTT
66097380 -AGCTCGATAGAGCTTACTGT
1 CAGCTC-ATAGAGCTTACTGT
66097400 CCATCAACTC
Statistics
Matches: 120, Mismatches: 23, Indels: 30
0.69 0.13 0.17
Matches are distributed among these distances:
21 4 0.03
22 21 0.17
23 83 0.69
24 10 0.08
25 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (22 bp):
CAGCTCATAGAGCTTACTGTTT
Found at i:66097392 original size:46 final size:44
Alignment explanation
Indices: 66097219--66097399 Score: 182
Period size: 46 Copynumber: 4.0 Consensus size: 44
66097209 GGACTCACCA
* ** * * *
66097219 CAGCTCGTATGAGCTTATTGATTTAGCTCATAAGATCTTACTCTTT
1 CAGCTCAT-TGAGCTTACCGATTTAGCTC-GAAGAGCTTACTGTTT
* *
66097265 CAGCTCATTGAGCTTACCAATTTAGCTCGCAAGAGCTTACTATTT
1 CAGCTCATTGAGCTTACCGATTTAGCTCG-AAGAGCTTACTGTTT
* * *
66097310 CAGCTCATTGGACCTTACCGATTCAGCTTCCAAGAGCTTACTGTTT
1 CAGCTCATT-GAGCTTACCGATTTAGC-TCGAAGAGCTTACTGTTT
**
66097356 CAGCTCATTGAAGCTTAATGATTTAGCTCGATAGAGCTTACTGT
1 CAGCTCATTG-AGCTTACCGATTTAGCTCGA-AGAGCTTACTGT
66097400 CCATCAACTC
Statistics
Matches: 113, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
45 43 0.38
46 68 0.60
47 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (44 bp):
CAGCTCATTGAGCTTACCGATTTAGCTCGAAGAGCTTACTGTTT
Found at i:66101281 original size:30 final size:30
Alignment explanation
Indices: 66101237--66101325 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
66101227 CAAAGATAAC
66101237 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
66101266 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
66101296 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
66101326 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:66101285 original size:15 final size:15
Alignment explanation
Indices: 66101237--66101316 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
66101227 CAAAGATAAC
*
66101237 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
66101251 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
66101266 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
66101281 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
66101296 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
66101311 AAGAAA
1 AAGAAA
66101317 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:66101325 original size:15 final size:15
Alignment explanation
Indices: 66101248--66101325 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
66101238 AGAAAACCGA
66101248 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
66101263 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
66101277 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
66101292 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
66101308 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
66101323 ATA
1 ATA
66101326 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:66104390 original size:46 final size:46
Alignment explanation
Indices: 66104323--66104494 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
66104313 AACCCGCCCA
*
66104323 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCC
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCC
*
66104369 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT--C
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TTCGCATCCC
* * * * * *
66104417 TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCC
* *
66104462 TAAGTGAACTTGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG
66104495 ATGCCCAAAT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 58 0.56
47 26 0.25
48 4 0.04
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCC
Found at i:66104487 original size:93 final size:93
Alignment explanation
Indices: 66104328--66104499 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
66104318 GCCCATAAGT
* *
66104328 GAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCCTAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
66104393 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * * *
66104421 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
66104486 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
66104500 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:66119481 original size:46 final size:48
Alignment explanation
Indices: 66119395--66119561 Score: 161
Period size: 46 Copynumber: 3.6 Consensus size: 48
66119385 ACATATCCGT
* * * *
66119395 GCCGATGCCATATCCCAGACATGGTCTTACACTGAC--ACATCTCTTA-
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATCTC-AAG
* *
66119441 GCCGATG-CATGTCCCAAACAT-GTCTTACTCTGGCTTACATCTCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATCTCAAG
* * * * *
66119487 GTCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT-TACATCTCAAG
66119533 GCCGATGCCATGTCCCAAACATGGTCTTA
1 GCCGATGCCATGTCCCAAACATGGTCTTA
66119562 TATTGGCTCT
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
44 11 0.11
45 13 0.13
46 57 0.56
47 14 0.14
48 6 0.06
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATCTCAAG
Found at i:66119584 original size:94 final size:92
Alignment explanation
Indices: 66119441--66119611 Score: 231
Period size: 94 Copynumber: 1.8 Consensus size: 92
66119431 ACATCTCTTA
*
66119441 GCCGATGCATGTCCCAAACATGTCTTACTCTGGCTTACATCTCGAGGTCGATGCATGTCCCAGAC
1 GCCGATGCATGTCCCAAACATGTCTTACTCTGGCTTACATATCGAGGTCGATGCATGTCCCAGAC
66119506 ATGTCTTACACTAGCTCTCGTCTCAAT
66 ATGTCTTACACTAGCTCTCGTCTCAAT
* * *
66119533 GCCGATGCCATGTCCCAAACATGGTCTTA-TATTGGCTCTA-ATAAT-GTGGTCGATGCATGTCT
1 GCCGATG-CATGTCCCAAACAT-GTCTTACT-CTGGCT-TACAT-ATCGAGGTCGATGCATGTCC
*
66119595 CTGACATGTCTTACACT
61 CAGACATGTCTTACACT
66119612 GGCACACAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
92 7 0.10
93 15 0.22
94 44 0.64
95 3 0.04
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.31
Consensus pattern (92 bp):
GCCGATGCATGTCCCAAACATGTCTTACTCTGGCTTACATATCGAGGTCGATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:66123840 original size:32 final size:32
Alignment explanation
Indices: 66123804--66123867 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
66123794 ACTAAAATAC
*
66123804 ACTCTTTCATGCATAAATTGAGCCAAAAATCT
1 ACTCTTTCATGCAAAAATTGAGCCAAAAATCT
66123836 ACTCTTTCATGCAAAAATTGAGCCAAAAATCT
1 ACTCTTTCATGCAAAAATTGAGCCAAAAATCT
66123868 CTTTTAATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (32 bp):
ACTCTTTCATGCAAAAATTGAGCCAAAAATCT
Found at i:66127943 original size:15 final size:15
Alignment explanation
Indices: 66127907--66127946 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
66127897 ATAGTTGACA
*
66127907 AGAAGAGGGAAAGTT
1 AGAAGATGGAAAGTT
66127922 AGAAGATGGAAAGTT
1 AGAAGATGGAAAGTT
66127937 AGAAGATGGA
1 AGAAGATGGA
66127947 TCAACCAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.38, T:0.15
Consensus pattern (15 bp):
AGAAGATGGAAAGTT
Found at i:66131748 original size:21 final size:21
Alignment explanation
Indices: 66131722--66131764 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
66131712 TGATAGACAC
66131722 CAGAGCTGTACCAGGCAAGAG
1 CAGAGCTGTACCAGGCAAGAG
66131743 CAGAGCTGTACCAGGCAAGAG
1 CAGAGCTGTACCAGGCAAGAG
66131764 C
1 C
66131765 TCTATCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.26, G:0.33, T:0.09
Consensus pattern (21 bp):
CAGAGCTGTACCAGGCAAGAG
Found at i:66137678 original size:46 final size:46
Alignment explanation
Indices: 66137577--66137664 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
66137567 TGTAACCCGC
* * * *
66137577 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
66137623 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
66137665 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:66142105 original size:66 final size:65
Alignment explanation
Indices: 66141993--66142130 Score: 181
Period size: 66 Copynumber: 2.1 Consensus size: 65
66141983 GCAAATTGCT
* *
66141993 CAACTTAAAGCGGAGGCAACATTGAGAGAAACAGAGGCTCAAAGAAAATATGAAGAACTCTAGCT
1 CAACTTAAAGCGGAGGCAACAGTGAGAGAAACAGAGGC-CAAAGAAAATATGAAGAACTCCAGCT
66142058 A
65 A
** *
66142059 CAACTTAAAGCGGAGGCAACAGTGATG-GATGCAGAGG-CAAGCAGAAAATATGACGAACTCCAG
1 CAACTTAAAGCGGAGGCAACAGTGA-GAGAAACAGAGGCCAA--AGAAAATATGAAGAACTCCAG
66142122 CTA
63 CTA
66142125 CAACTT
1 CAACTT
66142131 TAGAATATGA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
64 3 0.05
66 60 0.94
67 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (65 bp):
CAACTTAAAGCGGAGGCAACAGTGAGAGAAACAGAGGCCAAAGAAAATATGAAGAACTCCAGCTA
Found at i:66142516 original size:43 final size:43
Alignment explanation
Indices: 66142468--66142617 Score: 183
Period size: 43 Copynumber: 3.5 Consensus size: 43
66142458 AGAAAAAACA
* * * *
66142468 CCACTAACGGTCATGTTCTTTAGTGGTGTTTGTGGGGAAAGTG
1 CCACTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGGAAAGCG
*
66142511 CCACTAAAGGTCATATTCTTTAGCGGCGTTTGTGGGGAAAGCG
1 CCACTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGGAAAGCG
** * * * * *
66142554 CTGCTAAAGGTCATGTTCTTTTGCGACATTTGAGGGAAAAGCG
1 CCACTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGGAAAGCG
*
66142597 CCGCTAAAGGTCATGTTCTTT
1 CCACTAAAGGTCATGTTCTTT
66142618 TGCGACATTT
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 93 1.00
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (43 bp):
CCACTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGGAAAGCG
Found at i:66142618 original size:43 final size:43
Alignment explanation
Indices: 66142496--66142658 Score: 191
Period size: 43 Copynumber: 3.8 Consensus size: 43
66142486 TTTAGTGGTG
* * * * * * * *
66142496 TTTGTGGGGAAAGTGCCACTAAAGGTCATATTCTTTAGCGGCG
1 TTTGAGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTTGCGACA
* * *
66142539 TTTGTGGGGAAAGCGCTGCTAAAGGTCATGTTCTTTTGCGACA
1 TTTGAGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTTGCGACA
66142582 TTTGAGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTTGCGACA
1 TTTGAGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTTGCGACA
** * *
66142625 TTTGAGGGAAAAATGTCGTTAAAGGTCATGTTCT
1 TTTGAGGGAAAAGCGCCGCTAAAGGTCATGTTCT
66142659 ATATCGGTAT
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 106 1.00
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (43 bp):
TTTGAGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTTGCGACA
Found at i:66153691 original size:29 final size:29
Alignment explanation
Indices: 66153653--66153709 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
66153643 AGAAAAAAAA
66153653 TTGAGCAGGAAAAGAAAAATAACAGAAAT
1 TTGAGCAGGAAAAGAAAAATAACAGAAAT
66153682 TTGAGCAGGAAAAGAAAAATAACAGAAA
1 TTGAGCAGGAAAAGAAAAATAACAGAAA
66153710 AATTAGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.60, C:0.07, G:0.21, T:0.12
Consensus pattern (29 bp):
TTGAGCAGGAAAAGAAAAATAACAGAAAT
Found at i:66156839 original size:128 final size:128
Alignment explanation
Indices: 66156593--66156828 Score: 366
Period size: 128 Copynumber: 1.8 Consensus size: 128
66156583 ATAATTACTT
* *
66156593 GCAATGTGTTGTTATCTCCCAAGTAAGCATACTTTAGATGTGTTAACAAAGACTTTAATTCCAAC
1 GCAATATGTTGTTATCTCCCAAGTAAGCATACTTTAGATGTGTTAACAAAGACTTCAATTCCAAC
* *
66156658 ATAGGAGGATCTTCTATAGATGGCCAAGGAGGTTTAAAAGAACAGTCCAATAAAAAATTAATG
66 ATAGAAGGATCTTCTATAGATGGCCAACGAGGTTTAAAAGAACAGTCCAATAAAAAATTAATG
* **
66156721 GCAATATGTTGTTATCTCTCAAGTAAGCATACTTTAGATGTGTTGGCAAA-AGCTTCAATTCCAA
1 GCAATATGTTGTTATCTCCCAAGTAAGCATACTTTAGATGTGTTAACAAAGA-CTTCAATTCCAA
* **
66156785 CATAGAAGGATCTTCTATGGATGGCTGACGAGGTTTAAAAGAAC
65 CATAGAAGGATCTTCTATAGATGGCCAACGAGGTTTAAAAGAAC
66156829 GGTTTGATAA
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
127 1 0.01
128 96 0.99
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (128 bp):
GCAATATGTTGTTATCTCCCAAGTAAGCATACTTTAGATGTGTTAACAAAGACTTCAATTCCAAC
ATAGAAGGATCTTCTATAGATGGCCAACGAGGTTTAAAAGAACAGTCCAATAAAAAATTAATG
Found at i:66165870 original size:59 final size:59
Alignment explanation
Indices: 66165778--66165891 Score: 201
Period size: 59 Copynumber: 1.9 Consensus size: 59
66165768 TATCGAGGCC
*
66165778 ATATCCCAGATATGGTCTTATACGAAACCACACATAATCCTAATGCCATGACATTGATT
1 ATATCCCAGATATGGTCTTACACGAAACCACACATAATCCTAATGCCATGACATTGATT
* *
66165837 ATATCCCAGATATGGTTTTACACGAAACCACACATAATCCTAATGTCATGACATT
1 ATATCCCAGATATGGTCTTACACGAAACCACACATAATCCTAATGCCATGACATT
66165892 TGTATCCTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.29
Consensus pattern (59 bp):
ATATCCCAGATATGGTCTTACACGAAACCACACATAATCCTAATGCCATGACATTGATT
Found at i:66169606 original size:49 final size:49
Alignment explanation
Indices: 66169542--66170352 Score: 1622
Period size: 49 Copynumber: 16.6 Consensus size: 49
66169532 TGTTAGAGCT
66169542 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
66169591 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
66169640 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
66169689 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
66169738 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
66169787 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
66169836 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
66169885 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
66169934 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
66169983 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
66170032 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
66170081 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
66170130 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
66170179 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
66170228 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
66170277 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
66170326 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACCATGTCTGGGACATGGC
66170353 ATTAGTATTA
Statistics
Matches: 762, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 762 1.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTGGATAGTC
Found at i:66181346 original size:40 final size:40
Alignment explanation
Indices: 66181302--66181561 Score: 256
Period size: 40 Copynumber: 6.3 Consensus size: 40
66181292 GGACTAAGAT
66181302 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGTTAAGCC
* *
66181342 CCGAAGGCATTTGTGCGAGATAC-AAATTACGAGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGTTAAGCC
*
66181382 CCGAAGGCCTTTGTGCGAGATACTAAATCCGAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATAC----T---AAA-TCCGGGTTAAGCC
* *
66181430 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGCC
* * ** * *
66181470 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGCC
* * * * * *
66181510 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGCC
66181549 CCGAAGGCATTTG
1 CCGAAGGCATTTG
66181562 AACGAGGAGC
Statistics
Matches: 193, Mismatches: 18, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
39 33 0.17
40 118 0.61
41 3 0.02
44 1 0.01
48 38 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGCC
Found at i:66181436 original size:48 final size:48
Alignment explanation
Indices: 66181365--66181460 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
66181355 TGCGAGATAC
66181365 AAATTACGAGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCG
1 AAATTACGAGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCG
* *
66181413 AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCG
1 AAATTACGAGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCG
66181461 GGTTAAGTCC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (48 bp):
AAATTACGAGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCG
Found at i:66181500 original size:88 final size:88
Alignment explanation
Indices: 66181325--66181488 Score: 258
Period size: 88 Copynumber: 1.9 Consensus size: 88
66181315 TGCGAGATAC
66181325 AAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGATACAAATTACGAGTTAAGCCCCGAAGGC
1 AAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGATACAAATTACGAGTTAAGCCCCGAAGGC
* *
66181390 CTTTGTGCGAGATACTAAATCCG
66 ATTCGTGCGAGATACTAAATCCG
* * * *
66181413 AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA-TCCGGGTTAAGTCCCGAAGG
1 AAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGATAC-AAATTACGAGTTAAGCCCCGAAGG
66181477 CATTCGTGCGAG
65 CATTCGTGCGAG
66181489 TTGTTAAATC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
88 66 0.96
89 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (88 bp):
AAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGATACAAATTACGAGTTAAGCCCCGAAGGC
ATTCGTGCGAGATACTAAATCCG
Found at i:66181579 original size:79 final size:80
Alignment explanation
Indices: 66181417--66181594 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
66181407 AATCCGAAAT
* * * *
66181417 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
66181482 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
66181497 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
66181561 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
66181576 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
66181595 TACGTGATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:66182003 original size:59 final size:59
Alignment explanation
Indices: 66181911--66182029 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
66181901 TAAATTGCTT
*
66181911 ACTCGTTACATTGCTCCTCTGTTTTATAGATTTTTGGTTCTCCAGCTATCGGACTCGGG
1 ACTCGTTACACTGCTCCTCTGTTTTATAGATTTTTGGTTCTCCAGCTATCGGACTCGGG
66181970 ACTCGTTACACTGCTCCTCTGTTTTATAGATTTTTGGTTCTCCAGCTATCGGACTCGGG
1 ACTCGTTACACTGCTCCTCTGTTTTATAGATTTTTGGTTCTCCAGCTATCGGACTCGGG
66182029 A
1 A
66182030 TCTTGAAGTC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.39
Consensus pattern (59 bp):
ACTCGTTACACTGCTCCTCTGTTTTATAGATTTTTGGTTCTCCAGCTATCGGACTCGGG
Found at i:66189532 original size:39 final size:40
Alignment explanation
Indices: 66189328--66189550 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
66189318 TTGAATGCTG
* * * * * *
66189328 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
66189368 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
66189408 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
66189448 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
66189488 TCCGGGTTATGTCCCGAAGGCATT-ATGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
66189527 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
66189551 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 34 0.21
40 118 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:66189570 original size:79 final size:80
Alignment explanation
Indices: 66189403--66189585 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
66189393 GTGCGAGATA
* * * *
66189403 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
66189468 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
66189483 TTAAATCCGGGTTATGTCCCGAAGGCATT-ATGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
66189547 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
66189562 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
66189586 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:66191396 original size:73 final size:73
Alignment explanation
Indices: 66191305--66191451 Score: 276
Period size: 73 Copynumber: 2.0 Consensus size: 73
66191295 TCCACAACCT
*
66191305 CCATTCCCGACAAATACTACCCCCGCACCTACAATACCACCGGTAACGGACCAAATAAGGTCAAA
1 CCATTCCCGACAAATACTACCCCCGCACCTACAATACCACCGGTAACGGACCAAACAAGGTCAAA
66191370 TAAGCCCC
66 TAAGCCCC
*
66191378 CCATTCCCGACAAATACTACCCCCGCACCTACAATACCGCCGGTAACGGACCAAACAAGGTCAAA
1 CCATTCCCGACAAATACTACCCCCGCACCTACAATACCACCGGTAACGGACCAAACAAGGTCAAA
66191443 TAAGCCCC
66 TAAGCCCC
66191451 C
1 C
66191452 AGTTGATAGA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.35, C:0.39, G:0.13, T:0.13
Consensus pattern (73 bp):
CCATTCCCGACAAATACTACCCCCGCACCTACAATACCACCGGTAACGGACCAAACAAGGTCAAA
TAAGCCCC
Found at i:66197550 original size:39 final size:40
Alignment explanation
Indices: 66197346--66197568 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
66197336 TTGAATGCTG
* * * * * *
66197346 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
66197386 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
66197426 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
66197466 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
66197506 TCCGGGTTATGTCCCGAAGGCATT-ATGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
66197545 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
66197569 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 34 0.21
40 118 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:66197588 original size:79 final size:80
Alignment explanation
Indices: 66197421--66197603 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
66197411 GTGCGAGATA
* * * *
66197421 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
66197486 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
66197501 TTAAATCCGGGTTATGTCCCGAAGGCATT-ATGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
66197565 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
66197580 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
66197604 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:66204447 original size:44 final size:44
Alignment explanation
Indices: 66204360--66204448 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
66204350 TTTATGGAAC
* * * **
66204360 CTTCGCTTTCAGATGAATGTAGTTTGGATTATGTAATTTCCCTA
1 CTTCGCTTTCAGACGAATGTAGTTTGCATTATGCAATACCCCTA
*
66204404 CTTCGCTTTCAGACGAATGTCA-TTTGCATTGTGCAATACCCCTA
1 CTTCGCTTTCAGACGAATGT-AGTTTGCATTATGCAATACCCCTA
66204448 C
1 C
66204449 AACATTTCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 37 0.97
45 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.38
Consensus pattern (44 bp):
CTTCGCTTTCAGACGAATGTAGTTTGCATTATGCAATACCCCTA
Found at i:66208909 original size:50 final size:49
Alignment explanation
Indices: 66208744--66208966 Score: 185
Period size: 46 Copynumber: 4.7 Consensus size: 49
66208734 ATATTTATGT
* * *
66208744 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATC-GACTACATTATGAGA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTAGATTACGAGA
* * * * * * * *
66208790 GCCAGTGCAAGACCATCTCTGGGACATAGCATC-GGCTACA--A-GATGT
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTAGATTACGA-GA
* * * *
66208836 GTTTGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGA-TACGGGAGA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGC-CTAGATTAC--GAGA
* * *
66208886 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTTGATTTCGATA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTAGATTACGAGA
66208935 GCTAGTGTAAGACCATGTTTGGGACATGGCAT
1 GCTAGTGTAAGACCATGTTTGGGACATGGCAT
66208967 TGACTTGATG
Statistics
Matches: 144, Mismatches: 22, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.01
46 39 0.27
47 15 0.10
48 13 0.09
49 36 0.25
50 35 0.24
51 4 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTAGATTACGAGA
Found at i:66208953 original size:49 final size:48
Alignment explanation
Indices: 66208840--66209014 Score: 185
Period size: 49 Copynumber: 3.6 Consensus size: 48
66208830 AGATGTGTTT
* * * *
66208840 GTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGATACGGGAGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGC-CTTGATTC--GATAGCTA
*
66208890 GTGTAAGACCATGTTTGGGACATGGCATCAGCCTTGATTTCGATAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGA-TTCGATAGCTA
* * * * *
66208939 GTGTAAGACCATGTTTGGGACATGGCAT-TGACTTGA-TGGATAAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGATTCGAT-AGCTA
*
66208986 GTGTAAGTCCATGTCTGGGACATGGCATC
1 GTGTAAGACCATGTCTGGGACATGGCATC
66209015 GACATTATAC
Statistics
Matches: 110, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
46 4 0.04
47 30 0.27
48 6 0.05
49 36 0.33
50 32 0.29
51 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGATTCGATAGCTA
Found at i:66213454 original size:40 final size:40
Alignment explanation
Indices: 66213371--66213633 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
66213361 TTGAATGCTG
* * * * * *
66213371 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
66213411 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
66213451 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66213491 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
66213531 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
66213571 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
66213610 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
66213634 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:66213653 original size:79 final size:80
Alignment explanation
Indices: 66213410--66213668 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
66213400 AAGTGAATAT
* * * * * *
66213410 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
66213474 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
66213490 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
66213555 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
66213570 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
66213634 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
66213649 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
66213669 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:66221404 original size:40 final size:40
Alignment explanation
Indices: 66221321--66221663 Score: 485
Period size: 40 Copynumber: 8.6 Consensus size: 40
66221311 TTGAATGCTG
* * * * * *
66221321 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
66221361 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
66221401 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66221441 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66221481 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66221521 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
66221561 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
66221601 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
66221640 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
66221664 TGAACGAGGA
Statistics
Matches: 281, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.12
40 238 0.85
41 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:66225828 original size:13 final size:13
Alignment explanation
Indices: 66225812--66225846 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
66225802 TAAAGTAATT
66225812 TAAAAAAATGAAA
1 TAAAAAAATGAAA
*
66225825 TAAAGAAATGAAA
1 TAAAAAAATGAAA
66225838 TAAAGAAAA
1 TAAA-AAAA
66225847 AGGAAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.14
Consensus pattern (13 bp):
TAAAAAAATGAAA
Found at i:66225856 original size:19 final size:18
Alignment explanation
Indices: 66225814--66225885 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 18
66225804 AAGTAATTTA
*
66225814 AAAAAATGAAATAAAGAAATG
1 AAAAAA-GAAA-AAGGAAA-G
66225835 AAATAAAGAAAAAGGAAAG
1 AAA-AAAGAAAAAGGAAAG
* *
66225854 AAAGAAGAAAAGAGAAAAG
1 AAAAAAGAAAA-AGGAAAG
66225873 -AAAAAGAAAAAGG
1 AAAAAAGAAAAAGG
66225886 GAAAACTAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 2 0.05
18 16 0.36
19 10 0.23
20 6 0.14
21 7 0.16
22 3 0.07
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.06
Consensus pattern (18 bp):
AAAAAAGAAAAAGGAAAG
Found at i:66225863 original size:18 final size:17
Alignment explanation
Indices: 66225839--66225885 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 17
66225829 GAAATGAAAT
66225839 AAAGAAAAAGGAAAGAA
1 AAAGAAAAAGGAAAGAA
*
66225856 AGAAGAAAAGAGAAAAGAA
1 A-AAGAAAA-AGGAAAGAA
66225875 AAAGAAAAAGG
1 AAAGAAAAAGG
66225886 GAAAACTAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 3 0.12
18 14 0.54
19 9 0.35
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAGGAAAGAA
Found at i:66225883 original size:12 final size:11
Alignment explanation
Indices: 66225839--66225884 Score: 56
Period size: 12 Copynumber: 3.9 Consensus size: 11
66225829 GAAATGAAAT
*
66225839 AAAGAAAAAGG
1 AAAGAAAAAGA
66225850 AAAGAAAGAAGA
1 AAAGAAA-AAGA
66225862 AAAGAGAAAAGAA
1 AAAGA-AAAAG-A
66225875 AAAGAAAAAG
1 AAAGAAAAAG
66225885 GGAAAACTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
11 7 0.23
12 16 0.52
13 8 0.26
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAGA
Found at i:66225889 original size:19 final size:19
Alignment explanation
Indices: 66225839--66225890 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
66225829 GAAATGAAAT
66225839 AAAGAAAAA-GG-AAAGAA
1 AAAGAAAAAGGGAAAAGAA
*
66225856 AGAAG-AAAAGAGAAAAGAA
1 A-AAGAAAAAGGGAAAAGAA
66225875 AAAGAAAAAGGGAAAA
1 AAAGAAAAAGGGAAAA
66225891 CTAGGGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 5 0.17
18 7 0.24
19 17 0.59
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (19 bp):
AAAGAAAAAGGGAAAAGAA
Found at i:66226506 original size:3 final size:3
Alignment explanation
Indices: 66226498--66226530 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
66226488 GAATGGTAAG
*
66226498 TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
66226531 GGTATTGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:66231508 original size:13 final size:13
Alignment explanation
Indices: 66231492--66231526 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
66231482 ATAAAGTAAT
66231492 TAAAAAAATGAAA
1 TAAAAAAATGAAA
*
66231505 TAAAGAAATGAAA
1 TAAAAAAATGAAA
66231518 TAAAGAAAA
1 TAAA-AAAA
66231527 AGGAAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.14
Consensus pattern (13 bp):
TAAAAAAATGAAA
Found at i:66232673 original size:6 final size:6
Alignment explanation
Indices: 66232662--66232688 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
66232652 TGTGTACCTC
66232662 TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TAC
66232689 CCTTACGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:66232877 original size:18 final size:18
Alignment explanation
Indices: 66232820--66232879 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
66232810 GACTGTCTGC
* *
66232820 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTAT
* * *
66232838 TACAGAATAAACGACTAA
1 TACTGAATAAATGACTAT
*
66232856 TACTGAATAAATGAATAT
1 TACTGAATAAATGACTAT
66232874 TACTGA
1 TACTGA
66232880 TTAACCGATT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (18 bp):
TACTGAATAAATGACTAT
Found at i:66246269 original size:40 final size:40
Alignment explanation
Indices: 66246224--66246408 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 40
66246214 CTCGCACAAG
* * *
66246224 GCCTTCGAGTCTTAGCCTGGATATGGTCACTAGCATAAAT
1 GCCTTCGAGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
66246264 GCCTTCGAGACTTATCCAGGATATAGTCGCTAGCACAAAT
1 GCCTTCGAGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * * *
66246304 GCCTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAAT
1 GCCTTCGAGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
66246344 GCCTTCG-GATCTTAGTCCGGATATAGTCACTTAGCACAAAA
1 GCCTTCGAG-TCTTAGCCCGGATATAGTCAC-TAGCACAAAT
* * *
66246385 GCCTTTGGGACTTAGCCCGGATAT
1 GCCTTCGAGTCTTAGCCCGGATAT
66246409 CATTCGAATA
Statistics
Matches: 118, Mismatches: 24, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 89 0.75
41 27 0.23
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (40 bp):
GCCTTCGAGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:66246344 original size:80 final size:81
Alignment explanation
Indices: 66246224--66246408 Score: 223
Period size: 80 Copynumber: 2.3 Consensus size: 81
66246214 CTCGCACAAG
* * * * *
66246224 GCCTTCGAGTCTTAGCCTGGATATGGTCACTAGCATAAATGCCTTCGAGA-CTTA-TCCAGGATA
1 GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCG-GATCTTAGTCC-GGATA
* *
66246287 TAGTCGC-TAGCACAAAT
64 TAGTCACTTAGCACAAAA
* * *
66246304 GCCTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATA
1 GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGATATA
66246369 GTCACTTAGCACAAAA
66 GTCACTTAGCACAAAA
* *
66246385 GCCTTTGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
66246409 CATTCGAATA
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 2 0.02
80 54 0.61
81 32 0.36
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (81 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGATATA
GTCACTTAGCACAAAA
Found at i:66254359 original size:40 final size:40
Alignment explanation
Indices: 66254264--66254476 Score: 191
Period size: 40 Copynumber: 5.3 Consensus size: 40
66254254 ACCCAAGTAT
* * ** * *
66254264 CTTCGGGATTTA-GCCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTATCCCGGATATAGTCACTAGCACAAATGC
* * * *
66254302 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTATCCCGGATATAGTCACTAGCACAAATGC
* *
66254342 CTTCGAGACTTATCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTATCCCGGATATAGTCACTAGCACAAATGC
** ** * *
66254382 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTATCCCGGATATAGTCACTAGCACAAATGC
* *
66254422 CTT-TGGATCTTAGT-CCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGA-CTTA-TCCCGGATATAGTCAC-TAGCACAAATGC
66254463 CTTCGGGACTTATC
1 CTTCGGGACTTATC
66254477 ATTCAAATAA
Statistics
Matches: 136, Mismatches: 32, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
38 10 0.07
39 17 0.12
40 89 0.65
41 17 0.12
42 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTATCCCGGATATAGTCACTAGCACAAATGC
Found at i:66254398 original size:80 final size:81
Alignment explanation
Indices: 66254300--66254474 Score: 221
Period size: 80 Copynumber: 2.2 Consensus size: 81
66254290 CTCGCACAAG
* * *
66254300 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGAGA-CTTA-TCCCGGATA
1 GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCG-GATCTTAGT-CCGGATA
* *
66254363 TAGTCGC-TAGCACAAAT
64 TAGTCACTTAGCACAAAA
* * * *
66254380 GCCTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGCCTTTGGATCTTAGTCCGGATATA
1 GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGATATA
66254445 GTCACTTAGCACAAAA
66 GTCACTTAGCACAAAA
*
66254461 GCCTTCGGGACTTA
1 GCCTTCGGGTCTTA
66254475 TCATTCAAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
79 2 0.03
80 57 0.71
81 21 0.26
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (81 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGATATA
GTCACTTAGCACAAAA
Found at i:66259886 original size:93 final size:93
Alignment explanation
Indices: 66259774--66260131 Score: 682
Period size: 93 Copynumber: 3.8 Consensus size: 93
66259764 CGCCCATAAG
* *
66259774 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
66259838 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
66259867 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
66259932 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
66259960 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
66260025 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
66260053 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
66260118 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
66260132 TCAATCATCC
Statistics
Matches: 262, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
92 2 0.01
93 260 0.99
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:66259889 original size:47 final size:49
Alignment explanation
Indices: 66259767--66260131 Score: 382
Period size: 46 Copynumber: 7.8 Consensus size: 49
66259757 TGTAACCCGC
* * * *
66259767 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC--A-GGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
66259813 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
* *
66259863 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
66259906 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
* *
66259956 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
66259999 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
* *
66260049 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
66260092 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
66260132 TCAATCATCC
Statistics
Matches: 267, Mismatches: 22, Indels: 57
0.77 0.06 0.16
Matches are distributed among these distances:
42 6 0.02
43 12 0.04
44 6 0.02
45 6 0.02
46 119 0.45
47 87 0.33
48 7 0.03
49 7 0.03
50 11 0.04
51 6 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:66264295 original size:42 final size:43
Alignment explanation
Indices: 66264211--66264295 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
66264201 CTACCACTCT
66264211 TCCCTACAACACTTCATTACTATTATTTTTAACCCTTATAGCC
1 TCCCTACAACACTTCATTACTATTATTTTTAACCCTTATAGCC
* * *
66264254 TCCCTACACCACTTCCTTACTATT-TTTTTAAGCCTTATAGCC
1 TCCCTACAACACTTCATTACTATTATTTTTAACCCTTATAGCC
66264296 GAATATCACA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 17 0.44
43 22 0.56
ACGTcount: A:0.25, C:0.32, G:0.04, T:0.40
Consensus pattern (43 bp):
TCCCTACAACACTTCATTACTATTATTTTTAACCCTTATAGCC
Found at i:66272560 original size:39 final size:40
Alignment explanation
Indices: 66272460--66272604 Score: 147
Period size: 40 Copynumber: 3.6 Consensus size: 40
66272450 TTGAATGTTG
* * *
66272460 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACCATA
1 TCCGAGCTAAGTCCCGAAGGCATTTGTGC-AAGAT-ACTAAA
* *
66272500 TCCG-GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGAG-CTAAG-TCCCGAAGGCATTTGTGCAAGATACTAAA
*
66272540 TCCGAGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGAGCTAAGTCCCGAAGGCATTTGTGCAAGATACTAAA
* *
66272579 TCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGAGCTAAGTCCCGAAGGCATTTG
66272605 AACGAGGAGC
Statistics
Matches: 89, Mismatches: 9, Indels: 14
0.79 0.08 0.12
Matches are distributed among these distances:
39 34 0.38
40 45 0.51
41 10 0.11
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGAGCTAAGTCCCGAAGGCATTTGTGCAAGATACTAAA
Found at i:66292552 original size:50 final size:48
Alignment explanation
Indices: 66292467--66292762 Score: 479
Period size: 48 Copynumber: 6.1 Consensus size: 48
66292457 GCTGAAATTG
*
66292467 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
66292515 ATGTATGAGATATGTATATGTGGTAAAGCGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAA--GCCGAATGGCTAATGTGAAAT
66292565 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
66292613 ATGTATGA-ATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-AT
* *
66292662 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
66292710 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAC
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
66292758 ATGTA
1 ATGTA
66292763 GGCGATGTGC
Statistics
Matches: 234, Mismatches: 7, Indels: 14
0.92 0.03 0.05
Matches are distributed among these distances:
46 1 0.00
47 32 0.14
48 110 0.47
49 11 0.05
50 79 0.34
51 1 0.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:66292654 original size:145 final size:146
Alignment explanation
Indices: 66292467--66292762 Score: 483
Period size: 145 Copynumber: 2.0 Consensus size: 146
66292457 GCTGAAATTG
* *
66292467 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGT
1 ATGTATAAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGT
66292530 ATATGTGGTAAAGCGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
66 ATATGTGGTAAA--GCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
66292595 GAATGGCTAATGTGAAAT
129 GAATGGCTAATGTGAAAC
*
66292613 ATGTATGA-ATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 ATGTATAAGATATGCATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATGAGATATG
*
66292676 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
65 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
*
66292741 AATGGCTAGTGTGAAAC
130 AATGGCTAATGTGAAAC
66292758 ATGTA
1 ATGTA
66292763 GGCGATGTGC
Statistics
Matches: 141, Mismatches: 6, Indels: 7
0.92 0.04 0.05
Matches are distributed among these distances:
144 1 0.01
145 103 0.73
146 9 0.06
147 28 0.20
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (146 bp):
ATGTATAAGATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGT
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAAC
Found at i:66292799 original size:145 final size:144
Alignment explanation
Indices: 66292476--66292803 Score: 410
Period size: 145 Copynumber: 2.3 Consensus size: 144
66292466 GATGTATAAG
* * * * * *
66292476 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AAATATGTATGAGATATGTATATGTGGTA
1 ATATGCATATATGGT-AAGCCGAACGACCAATGTGAAAATATATATGAGATATGTATATGTGGTA
66292540 AAGCGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
65 AA-CGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
* *
66292605 TGTGAAATATGTATGA
129 TGTGAAACATGTAGGA
* * **
66292621 ATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGTATATGTGGT
1 ATATGCATATATGGT-AAGCCGAACGACCAATGTGAAA-ATATATATGAGATATGTATATGTGGT
* *
66292686 AAA-GCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
64 AAACGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
*
66292750 TGTGAAACATGTAGGCG
129 TGTGAAACATGTAGG-A
* * * *
66292767 ATGTGCGTATATTGT-GGCCGAACGACCAAATGTGAAA
1 ATATGCATATATGGTAAGCCGAACGACC-AATGTGAAA
66292804 GGTGTGTATT
Statistics
Matches: 162, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
144 8 0.05
145 113 0.70
146 13 0.08
147 28 0.17
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (144 bp):
ATATGCATATATGGTAAGCCGAACGACCAATGTGAAAATATATATGAGATATGTATATGTGGTAA
ACGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
TGAAACATGTAGGA
Found at i:66292959 original size:37 final size:37
Alignment explanation
Indices: 66292909--66293016 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
66292899 GGAAATATAT
66292909 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
66292946 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
66292983 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
66293017 TCGTCTGAGC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:66308229 original size:14 final size:14
Alignment explanation
Indices: 66308209--66308249 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
66308199 TTGCAACTTG
66308209 CACAACTTGCACAT
1 CACAACTTGCACAT
* *
66308223 TACAACTTGCAAAT
1 CACAACTTGCACAT
*
66308237 CATAACTTGCACA
1 CACAACTTGCACA
66308250 ATTAGGTAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.29, G:0.07, T:0.24
Consensus pattern (14 bp):
CACAACTTGCACAT
Found at i:66316253 original size:21 final size:19
Alignment explanation
Indices: 66316224--66316262 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
66316214 GGCTCTTGGT
66316224 GCCTGCTTCAGGCCATATAAG
1 GCCTGCTTCA-GCC-TATAAG
*
66316245 GCCTTCTTCAGCCTATAA
1 GCCTGCTTCAGCCTATAA
66316263 ACCTTGTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (19 bp):
GCCTGCTTCAGCCTATAAG
Found at i:66321546 original size:44 final size:44
Alignment explanation
Indices: 66321491--66321578 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
66321481 AGCCTAAGAC
*
66321491 TGCTGACCCTACACCATTTGCTCTTAATAAATACAGATTCTGAT
1 TGCTGAACCTACACCATTTGCTCTTAATAAATACAGATTCTGAT
*
66321535 TGCTGAACCTACACCATTTGCTCTTTATAAATACAGATTCTGAT
1 TGCTGAACCTACACCATTTGCTCTTAATAAATACAGATTCTGAT
66321579 GGATAGCTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (44 bp):
TGCTGAACCTACACCATTTGCTCTTAATAAATACAGATTCTGAT
Found at i:66333571 original size:27 final size:27
Alignment explanation
Indices: 66333541--66333718 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
66333531 ATATTGAGTC
* * * *
66333541 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
66333568 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
66333595 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
66333623 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
66333650 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
66333677 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
66333704 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66333719 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:66333680 original size:82 final size:81
Alignment explanation
Indices: 66333562--66333717 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
66333552 TGCTATATAA
* *
66333562 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
66333627 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
66333644 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
66333708 CACTTAGTGC
65 CACTTAGTGC
66333718 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:66348892 original size:6 final size:6
Alignment explanation
Indices: 66348881--66348965 Score: 75
Period size: 6 Copynumber: 13.5 Consensus size: 6
66348871 GAAGTATAAG
*
66348881 AAAATA AAAATA AAACA-A AACAACTA AAAATA AAAATA AAAATA AACATA
1 AAAATA AAAATA AAA-ATA AA-AA-TA AAAATA AAAATA AAAATA AAAATA
* *
66348931 AACATA AATAAAA TAAAATA AAGAA-A AAAATA AAA
1 AAAATA AA-AATA -AAAATA AA-AATA AAAATA AAA
66348966 TTAATGATCC
Statistics
Matches: 67, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
5 2 0.03
6 49 0.73
7 11 0.16
8 5 0.07
ACGTcount: A:0.79, C:0.06, G:0.01, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:66348949 original size:32 final size:32
Alignment explanation
Indices: 66348881--66348952 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 32
66348871 GAAGTATAAG
*
66348881 AAAATAAAAATAAAACAAAACAACTAAAAATA
1 AAAATAAAAATAAAACAAAACAAATAAAAATA
66348913 AAAATAAAAAT-AAACATAAACATAA-ATAAAAT-
1 AAAATAAAAATAAAACA-AAACA-AATA-AAAATA
66348945 AAAATAAA
1 AAAATAAA
66348953 GAAAAAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
31 5 0.14
32 25 0.69
33 6 0.17
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (32 bp):
AAAATAAAAATAAAACAAAACAAATAAAAATA
Found at i:66351001 original size:13 final size:13
Alignment explanation
Indices: 66350983--66351017 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
66350973 CGGCTAACCT
66350983 ACATAATTAAATA
1 ACATAATTAAATA
66350996 ACATAATTAAATA
1 ACATAATTAAATA
*
66351009 AAATAATTA
1 ACATAATTA
66351018 TTCATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:66351255 original size:21 final size:20
Alignment explanation
Indices: 66351230--66351286 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
66351220 GAAGAAGAAA
*
66351230 TGAGCTGAAATGAGCTAAAT
1 TGAGCTCAAATGAGCTAAAT
*
66351250 TCGAGCTCAAGTGAGCTAAAT
1 T-GAGCTCAAATGAGCTAAAT
*
66351271 TGAGCTCAATTGAGCT
1 TGAGCTCAAATGAGCT
66351287 GATTGGATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (20 bp):
TGAGCTCAAATGAGCTAAAT
Found at i:66352002 original size:15 final size:16
Alignment explanation
Indices: 66351972--66352003 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
66351962 AACTACTAAG
66351972 AAATAATAATGAAGAA
1 AAATAATAATGAAGAA
66351988 AAATAATAA-GAAGAA
1 AAATAATAATGAAGAA
66352003 A
1 A
66352004 TGAAATGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (16 bp):
AAATAATAATGAAGAA
Found at i:66352053 original size:26 final size:27
Alignment explanation
Indices: 66352006--66352074 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 27
66351996 AGAAGAAATG
66352006 AAATGAAAAACTAAAAACAATAA-AAA
1 AAATGAAAAACTAAAAACAATAATAAA
* ** *
66352032 TAATGAAAAACTAGTAAGAATAATAAA
1 AAATGAAAAACTAAAAACAATAATAAA
* *
66352059 AAATAAAAAAATAAAA
1 AAATGAAAAACTAAAA
66352075 TATATATAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
26 19 0.58
27 14 0.42
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.16
Consensus pattern (27 bp):
AAATGAAAAACTAAAAACAATAATAAA
Found at i:66355715 original size:40 final size:40
Alignment explanation
Indices: 66355671--66355757 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
66355661 GGGCACAGAT
* * * * *
66355671 GTGCATTCAGGGGTACCGAAGTACAAACAGAGGCATGTAA
1 GTGCAATCAGGGGTACCAAAATACAAACACAGGCACGTAA
* *
66355711 GTGCAATCAGGGGTTCCAAAATACAAACACTGGCACGTAA
1 GTGCAATCAGGGGTACCAAAATACAAACACAGGCACGTAA
66355751 GTGCAAT
1 GTGCAAT
66355758 AATTCAATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.18
Consensus pattern (40 bp):
GTGCAATCAGGGGTACCAAAATACAAACACAGGCACGTAA
Found at i:66355830 original size:31 final size:31
Alignment explanation
Indices: 66355795--66355858 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
66355785 ATTACAAATG
66355795 TAAGTAGAAATTTATTTATGTATTGAAACAC
1 TAAGTAGAAATTTATTTATGTATTGAAACAC
66355826 TAAGTAGAAATTTATTTATGTATTGAAACAC
1 TAAGTAGAAATTTATTTATGTATTGAAACAC
66355857 TA
1 TA
66355859 TGAGCTTACC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (31 bp):
TAAGTAGAAATTTATTTATGTATTGAAACAC
Found at i:66360277 original size:46 final size:46
Alignment explanation
Indices: 66360210--66360387 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
66360200 TGTAACTCGC
* * *
66360210 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGTGTTTGCAT
1 CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGATGTTTGCAT
* * *
66360256 CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTTGCAT
* ** * * **
66360302 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAACT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTTGCAT
* *
66360349 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGATG
66360388 CCCAAACATC
Statistics
Matches: 106, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
46 72 0.68
47 34 0.32
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (46 bp):
CCATAACTGAACTCGGACTCAACTCAACGAGCTCGGATGTTTGCAT
Found at i:66360327 original size:93 final size:93
Alignment explanation
Indices: 66360218--66360389 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
66360208 GCCCATAAGT
* * ***
66360218 GAACTCGGACTCAACTCAATGAGCTCGGGTGTTTGCATCCATAACTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTTGCATCCATAACTGAACTCGGACTCAACTCAA
66360283 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
66360311 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTTGCATCCATAACTGAACTCGGACTCAACTCAA
*
66360376 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
66360390 CAAACATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTTGCATCCATAACTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:66364971 original size:43 final size:43
Alignment explanation
Indices: 66364924--66365125 Score: 281
Period size: 43 Copynumber: 4.8 Consensus size: 43
66364914 CCGGTACTAT
* *
66364924 AGCCTGCTAAGCACGAAGGCCCGAATACACATCACCAGCACAA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGA
* * * *
66364967 AGCCTGCTAGACACGAAGGCCTGAATACACATCACCGGCATGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGA
*
66365010 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGA
*
66365053 AGCCTGCTAGGCACAAAGGCCCGAAT----A-CA-CAGCACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGA
*
66365090 AGCCTGCTAGGTACGAAGGCCCGAATACACATCACC
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACC
66365126 GGCTACACAT
Statistics
Matches: 140, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
37 31 0.22
38 2 0.01
39 1 0.01
41 1 0.01
42 2 0.01
43 103 0.74
ACGTcount: A:0.33, C:0.33, G:0.23, T:0.11
Consensus pattern (43 bp):
AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGA
Found at i:66365134 original size:14 final size:14
Alignment explanation
Indices: 66365115--66365142 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
66365105 AAGGCCCGAA
66365115 TACACATCACCGGC
1 TACACATCACCGGC
66365129 TACACATCACCGGC
1 TACACATCACCGGC
66365143 AAGAAGCCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.43, G:0.14, T:0.14
Consensus pattern (14 bp):
TACACATCACCGGC
Found at i:66369017 original size:37 final size:37
Alignment explanation
Indices: 66368976--66369170 Score: 336
Period size: 37 Copynumber: 5.3 Consensus size: 37
66368966 TAGTTCAGGG
* *
66368976 CTTACCTGGACAAAATCTCCACACGTAGTCATCGGGT
1 CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
* *
66369013 CTTACCCGGACATAATCTCCACACGAAGTTATCGGGT
1 CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
* *
66369050 CTTACCCGGACAAAATCCCCACACGTAGTCATCGGGT
1 CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
66369087 CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
1 CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
66369124 CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
1 CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
66369161 CTTACCCGGA
1 CTTACCCGGA
66369171 ATATATTTCC
Statistics
Matches: 148, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 148 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
Found at i:66369372 original size:48 final size:48
Alignment explanation
Indices: 66369311--66369442 Score: 237
Period size: 48 Copynumber: 2.8 Consensus size: 48
66369301 ATATACACAC
* *
66369311 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
66369359 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
66369407 ATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTA
66369443 NNNNNNNNNN
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 80 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:66373075 original size:40 final size:40
Alignment explanation
Indices: 66373026--66373101 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
66373016 CTTCGAGACC
*
66373026 TAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTT
1 TAGCACGGATATAACACCAGCACGAATGCTCTTCGGGGTT
* *
66373066 TAGCACGGATATATCACTAGCACGAATGCTCTTCGG
1 TAGCACGGATATAACACCAGCACGAATGCTCTTCGG
66373102 AACTTAGTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
TAGCACGGATATAACACCAGCACGAATGCTCTTCGGGGTT
Found at i:66373190 original size:40 final size:40
Alignment explanation
Indices: 66373158--66373349 Score: 276
Period size: 40 Copynumber: 4.8 Consensus size: 40
66373148 CCAGCATGAT
* * * * *
66373158 TGCTCTTCGAGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
66373198 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
66373238 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
66373278 TGCTCTTCGGGACTTAGCCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
66373318 TACTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
66373350 CTCAATTCTC
Statistics
Matches: 136, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:66373228 original size:146 final size:146
Alignment explanation
Indices: 66372964--66373254 Score: 566
Period size: 146 Copynumber: 2.0 Consensus size: 146
66372954 AATTACCGGC
66372964 ACGAAGCCTACTAGGCACGAAGGCCCGAATACACGTCACCAGCATGATTGCTCTTCGAGACCTAG
1 ACGAAGCCTACTAGGCACGAAGGCCCGAATACACGTCACCAGCATGATTGCTCTTCGAGACCTAG
66373029 CCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAATG
66 CCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAATG
66373094 CTCTTCG-GAACTTAGT
131 CTCTTCGAG-ACTTAGT
66373110 ACGAAGCCTACTAGGCACGAAGGCCCGAATACACGTCACCAGCATGATTGCTCTTCGAGACCTAG
1 ACGAAGCCTACTAGGCACGAAGGCCCGAATACACGTCACCAGCATGATTGCTCTTCGAGACCTAG
66373175 CCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAATG
66 CCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAATG
66373240 CTCTTCGAGACTTAG
131 CTCTTCGAGACTTAG
66373255 CCCGGATACA
Statistics
Matches: 144, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
146 143 0.99
147 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (146 bp):
ACGAAGCCTACTAGGCACGAAGGCCCGAATACACGTCACCAGCATGATTGCTCTTCGAGACCTAG
CCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAATG
CTCTTCGAGACTTAGT
Found at i:66380472 original size:40 final size:40
Alignment explanation
Indices: 66380427--66380658 Score: 315
Period size: 40 Copynumber: 5.8 Consensus size: 40
66380417 ATAACCACAA
* * * *
66380427 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66380467 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
66380507 CCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
66380547 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
66380587 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
66380627 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
66380659 CATTCAAATG
Statistics
Matches: 180, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 175 0.97
41 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:66387495 original size:14 final size:14
Alignment explanation
Indices: 66387461--66387508 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
66387451 GTACAAATGG
**
66387461 AATGGTAGGAATGA
1 AATGGTAGGAACAA
*
66387475 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
66387489 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
66387503 ATTGGT
1 AATGGT
66387509 CGGTTTAGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.44, C:0.04, G:0.31, T:0.21
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:66392024 original size:18 final size:19
Alignment explanation
Indices: 66392001--66392039 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
66391991 TTTATCTCAA
*
66392001 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
66392019 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
66392038 TT
1 TT
66392040 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:66392072 original size:18 final size:18
Alignment explanation
Indices: 66392051--66392096 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
66392041 TCTCTCAAAC
66392051 TCTTTTTCAATCTCATTT
1 TCTTTTTCAATCTCATTT
* * *
66392069 TCTTTTTCATTTTCTTTT
1 TCTTTTTCAATCTCATTT
*
66392087 TGTTTTTCAA
1 TCTTTTTCAA
66392097 AGGCTTTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.13, C:0.17, G:0.02, T:0.67
Consensus pattern (18 bp):
TCTTTTTCAATCTCATTT
Found at i:66392094 original size:12 final size:12
Alignment explanation
Indices: 66392063--66392087 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66392053 TTTTTCAATC
66392063 TCATTTTCTTTT
1 TCATTTTCTTTT
66392075 TCATTTTCTTTT
1 TCATTTTCTTTT
66392087 T
1 T
66392088 GTTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:66392104 original size:12 final size:12
Alignment explanation
Indices: 66392089--66392120 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
66392079 TTTCTTTTTG
66392089 TTTTTCAAAGGC
1 TTTTTCAAAGGC
66392101 TTTTTCAAAGGC
1 TTTTTCAAAGGC
*
66392113 CTTTTCAA
1 TTTTTCAA
66392121 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (12 bp):
TTTTTCAAAGGC
Found at i:66392179 original size:5 final size:5
Alignment explanation
Indices: 66392169--66392232 Score: 53
Period size: 5 Copynumber: 12.6 Consensus size: 5
66392159 TTTTTGCCTC
*
66392169 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
*
66392216 TCTTT T-TTT TGTTT TCT
1 TCTTT TCTTT TCTTT TCT
66392233 CGTTACAAGA
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
4 8 0.16
5 30 0.61
6 6 0.12
7 5 0.10
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.78
Consensus pattern (5 bp):
TCTTT
Found at i:66392194 original size:21 final size:20
Alignment explanation
Indices: 66392169--66392232 Score: 76
Period size: 20 Copynumber: 3.1 Consensus size: 20
66392159 TTTTTGCCTC
66392169 TCTTTTCTTTTTATTTCGTTT
1 TCTTTTCTTTTT-TTTCGTTT
* * *
66392190 TCTTTTTCTTCTTTTGCTTTT
1 TC-TTTTCTTTTTTTTCGTTT
66392211 TCTTTTCTTTTTTTT-GTTT
1 TCTTTTCTTTTTTTTCGTTT
66392230 TCT
1 TCT
66392233 CGTTACAAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 6 0.17
20 11 0.31
21 10 0.28
22 9 0.25
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.78
Consensus pattern (20 bp):
TCTTTTCTTTTTTTTCGTTT
Found at i:66393167 original size:11 final size:10
Alignment explanation
Indices: 66393147--66393190 Score: 61
Period size: 11 Copynumber: 4.2 Consensus size: 10
66393137 AAGTTTTCAC
66393147 TTCAATTTTT
1 TTCAATTTTT
66393157 TTCAGATTTTT
1 TTCA-ATTTTT
*
66393168 TTTAATTTTT
1 TTCAATTTTT
66393178 TTCGAATTTTT
1 TTC-AATTTTT
66393189 TT
1 TT
66393191 TAACTTGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 12 0.40
11 18 0.60
ACGTcount: A:0.18, C:0.07, G:0.05, T:0.70
Consensus pattern (10 bp):
TTCAATTTTT
Found at i:66393174 original size:21 final size:21
Alignment explanation
Indices: 66393150--66393193 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
66393140 TTTTCACTTC
66393150 AATTTTTTTC-AGATTTTTTTT
1 AATTTTTTTCGA-ATTTTTTTT
66393171 AATTTTTTTCGAATTTTTTTT
1 AATTTTTTTCGAATTTTTTTT
66393192 AA
1 AA
66393194 CTTGTATAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (21 bp):
AATTTTTTTCGAATTTTTTTT
Found at i:66395674 original size:21 final size:20
Alignment explanation
Indices: 66395646--66395695 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
66395636 AATGTAAAAG
66395646 AAAT-GAGCTAAAACGAGCT
1 AAATCGAGCTAAAACGAGCT
* *
66395665 AAATTCGAGCTCAAACGAGTT
1 AAA-TCGAGCTAAAACGAGCT
66395686 AAATCGAGCT
1 AAATCGAGCT
66395696 CAAGTGAGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 3 0.11
20 8 0.30
21 16 0.59
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGAGCTAAAACGAGCT
Found at i:66398332 original size:20 final size:20
Alignment explanation
Indices: 66398307--66398344 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
66398297 CTTGAAGTCG
66398307 GCACAAATGTGAACAAACTT
1 GCACAAATGTGAACAAACTT
66398327 GCACAAATGTGAACAAAC
1 GCACAAATGTGAACAAAC
66398345 ATTCCAAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.21, G:0.16, T:0.16
Consensus pattern (20 bp):
GCACAAATGTGAACAAACTT
Found at i:66405832 original size:56 final size:56
Alignment explanation
Indices: 66405727--66405833 Score: 144
Period size: 56 Copynumber: 1.9 Consensus size: 56
66405717 ATTAATGCCG
* * * * *
66405727 TCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCCCTTTAAATGTCGT
1 TCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCACATTAAATGTCGT
*
66405783 TCCATACATGG-GAACATCTCATTTATTTCATGTCTTTGCTGCACATTAAAT
1 TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCACATTAAAT
66405834 CAGCAAGCAG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
55 20 0.45
56 24 0.55
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (56 bp):
TCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCACATTAAATGTCGT
Found at i:66406481 original size:20 final size:20
Alignment explanation
Indices: 66406456--66406510 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
66406446 ACGAGTTAAA
* *
66406456 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
66406476 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
66406496 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
66406511 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:66406979 original size:13 final size:13
Alignment explanation
Indices: 66406961--66406995 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
66406951 ATTATATGAA
*
66406961 TAATTATTTTATT
1 TAATTATGTTATT
66406974 TAATTATGTTATT
1 TAATTATGTTATT
66406987 TAATTATGT
1 TAATTATGT
66406996 AGGTTAGCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (13 bp):
TAATTATGTTATT
Found at i:66408185 original size:14 final size:13
Alignment explanation
Indices: 66408166--66408236 Score: 54
Period size: 14 Copynumber: 5.2 Consensus size: 13
66408156 TTGAAGTATT
66408166 AAAAAAAGAAAACA
1 AAAAAAAGAAAA-A
**
66408180 AAAAAAAGGAGGAA
1 AAAAAAA-GAAAAA
66408194 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
* **
66408207 AATACGAAA-TTAAA
1 AA-A-AAAAGAAAAA
66408221 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
66408234 AAA
1 AAA
66408237 GTGAAGATCT
Statistics
Matches: 43, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
12 3 0.07
13 13 0.30
14 21 0.49
15 6 0.14
ACGTcount: A:0.82, C:0.03, G:0.11, T:0.04
Consensus pattern (13 bp):
AAAAAAAGAAAAA
Found at i:66410321 original size:21 final size:21
Alignment explanation
Indices: 66410295--66410335 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
66410285 AGAAAGTGAA
*
66410295 AATGAAAATGAAAGAAAAGAG
1 AATGAAAAAGAAAGAAAAGAG
66410316 AATGAAAAAGAAAGAAAAGA
1 AATGAAAAAGAAAGAAAAGA
66410336 ACATGGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.22, T:0.07
Consensus pattern (21 bp):
AATGAAAAAGAAAGAAAAGAG
Found at i:66411697 original size:13 final size:13
Alignment explanation
Indices: 66411679--66411713 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
66411669 ATTATATGAA
*
66411679 TAATTATTTTATT
1 TAATTATGTTATT
66411692 TAATTATGTTATT
1 TAATTATGTTATT
66411705 TAATTATGT
1 TAATTATGT
66411714 AGGTTAGCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (13 bp):
TAATTATGTTATT
Found at i:66413015 original size:19 final size:19
Alignment explanation
Indices: 66412991--66413030 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
66412981 AGCTCCCATG
66412991 TAGCTC-CACACCAGCTCAT
1 TAGCTCGCA-ACCAGCTCAT
*
66413010 TAGCTCGGAACCAGCTCAT
1 TAGCTCGCAACCAGCTCAT
66413029 TA
1 TA
66413031 TCAGCTCACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGCTCGCAACCAGCTCAT
Found at i:66414687 original size:46 final size:46
Alignment explanation
Indices: 66414620--66414791 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
66414610 AACCCGCCCC
*
66414620 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCCA
66414666 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCACATCCA
* * * * *
66414714 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCCA
*
66414759 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
66414792 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 59 0.55
47 27 0.25
48 3 0.03
49 2 0.02
50 5 0.05
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCCA
Found at i:66414733 original size:93 final size:93
Alignment explanation
Indices: 66414625--66414795 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
66414615 GCCCCTAAGT
* *
66414625 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
66414690 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
66414718 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
66414783 CGAGTTCGGATGC
66 CGAGTTCGGATGC
66414796 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:66415249 original size:30 final size:30
Alignment explanation
Indices: 66415215--66415274 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
66415205 ATTTAATAAG
66415215 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
66415245 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
66415275 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:66418289 original size:29 final size:29
Alignment explanation
Indices: 66418220--66418279 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
66418210 AAGGATTCAA
*
66418220 AGATGGGTTTATGGATATGAAGTTTGTGT
1 AGATGGGTTTATGGATATAAAGTTTGTGT
*
66418249 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTGTGT
66418278 AG
1 AG
66418280 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTGTGT
Found at i:66422345 original size:6 final size:5
Alignment explanation
Indices: 66422321--66422383 Score: 58
Period size: 5 Copynumber: 12.0 Consensus size: 5
66422311 AAGAGAAAAC
*
66422321 AAAGA AAAGA AAAGAA AAAGCA AAAGCA AAAGA AGA-A AAAGA AAATGA
1 AAAGA AAAGA AAAG-A AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA
66422369 AATA-A AAAGA AAAGA
1 AA-AGA AAAGA AAAGA
66422384 GAGGCAAGAG
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
4 4 0.08
5 25 0.50
6 20 0.40
7 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:66422351 original size:12 final size:10
Alignment explanation
Indices: 66422321--66422383 Score: 58
Period size: 11 Copynumber: 6.0 Consensus size: 10
66422311 AAGAGAAAAC
66422321 AAAGAAAAGA
1 AAAGAAAAGA
66422331 AAAGAAAAAGCA
1 AAAG-AAAAG-A
66422343 AAAGCAAAAGA
1 AAAG-AAAAGA
*
66422354 AGA-AAAAGA
1 AAAGAAAAGA
66422363 AAATGAAATA-A
1 AAA-GAAA-AGA
66422374 AAAGAAAAGA
1 AAAGAAAAGA
66422384 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
9 9 0.20
10 9 0.20
11 15 0.34
12 11 0.25
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.03
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:66422463 original size:11 final size:12
Alignment explanation
Indices: 66422431--66422461 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
66422421 TTGAGAGAAC
66422431 TTGAAAAAGCCT
1 TTGAAAAAGCCT
66422443 TTGAAAAAGCCT
1 TTGAAAAAGCCT
66422455 TTGAAAA
1 TTGAAAA
66422462 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:66422472 original size:12 final size:12
Alignment explanation
Indices: 66422464--66422488 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66422454 TTTGAAAAGC
66422464 AAAAAGAAAATG
1 AAAAAGAAAATG
66422476 AAAAAGAAAATG
1 AAAAAGAAAATG
66422488 A
1 A
66422489 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:66422485 original size:18 final size:18
Alignment explanation
Indices: 66422458--66422513 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
66422448 AAAGCCTTTG
*
66422458 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAATGAAAATGA
* *
66422477 AAAAGAAAATGAGATTGA
1 AAAAGAAAATGAAAATGA
*
66422495 AAAAGAGAATGAAAA-GA
1 AAAAGAAAATGAAAATGA
66422512 AA
1 AA
66422514 TTTGAGAGAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
17 4 0.13
18 22 0.71
19 5 0.16
ACGTcount: A:0.70, C:0.02, G:0.20, T:0.09
Consensus pattern (18 bp):
AAAAGAAAATGAAAATGA
Found at i:66422498 original size:30 final size:31
Alignment explanation
Indices: 66422464--66422545 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
66422454 TTTGAAAAGC
**
66422464 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGAG
* *
66422494 AAAAAGAGAATG-AAAAGAAATTTGAGAGAG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGAG
**
66422524 AAAAAGAAGTTGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
66422546 TGAAAAAGAG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.00, G:0.22, T:0.13
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGAG
Done.