Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 101 of 208
Found at i:30527572 original size:41 final size:42
Alignment explanation
Indices: 30527475--30527572 Score: 180
Period size: 43 Copynumber: 2.3 Consensus size: 42
30527465 AAACACATTA
30527475 AGTAGCAGCATTAAATTCGTCCAGACATATTTATAACATGTGT
1 AGTAGCAGCATTAAATTCGTCCAGACATATTTATAACA-GTGT
30527518 AGTAGCAGCATTAAATTCGTCCAGACATATTTATAACA-TGT
1 AGTAGCAGCATTAAATTCGTCCAGACATATTTATAACAGTGT
30527559 AGTAGCAGCATTAA
1 AGTAGCAGCATTAA
30527573 CTACGAAAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 17 0.31
43 38 0.69
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (42 bp):
AGTAGCAGCATTAAATTCGTCCAGACATATTTATAACAGTGT
Found at i:30529540 original size:18 final size:18
Alignment explanation
Indices: 30529519--30529578 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
30529509 GACCTCACTC
30529519 TCTTTTTTGATTTCTTTT
1 TCTTTTTTGATTTCTTTT
** *
30529537 TCTTTTTCAATCTCTTTT
1 TCTTTTTTGATTTCTTTT
30529555 TCTTTTCTTTCGATTTCTTTT
1 TC-TTT-TTT-GATTTCTTTT
30529576 TCT
1 TCT
30529579 CGCACTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 17 0.52
19 3 0.09
20 3 0.09
21 10 0.30
ACGTcount: A:0.07, C:0.18, G:0.03, T:0.72
Consensus pattern (18 bp):
TCTTTTTTGATTTCTTTT
Found at i:30530468 original size:11 final size:11
Alignment explanation
Indices: 30530452--30530476 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30530442 ACTTCGTACC
30530452 TTTTTTTTCAA
1 TTTTTTTTCAA
30530463 TTTTTTTTCAA
1 TTTTTTTTCAA
30530474 TTT
1 TTT
30530477 CCTTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:30530477 original size:17 final size:17
Alignment explanation
Indices: 30530457--30530497 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
30530447 GTACCTTTTT
30530457 TTTCAATTTTTTTTCAA
1 TTTCAATTTTTTTTCAA
**
30530474 TTTCCTTTTTTTTTCAA
1 TTTCAATTTTTTTTCAA
*
30530491 TTACAAT
1 TTTCAAT
30530498 AGATGAAATA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTCAATTTTTTTTCAA
Found at i:30530483 original size:28 final size:29
Alignment explanation
Indices: 30530422--30530492 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
30530412 CTCACTTCTT
* *
30530422 TTTTTTTTTGAATTTTTTTTACTTCGTACC
1 TTTTTTTTTCAATTTTTTTTAATTC-TACC
30530452 -TTTTTTTTCAATTTTTTTTCAATT-T-CC
1 TTTTTTTTTCAATTTTTTTT-AATTCTACC
30530479 TTTTTTTTTCAATT
1 TTTTTTTTTCAATT
30530493 ACAATAGATG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 2 0.05
28 14 0.38
29 18 0.49
30 3 0.08
ACGTcount: A:0.14, C:0.13, G:0.03, T:0.70
Consensus pattern (29 bp):
TTTTTTTTTCAATTTTTTTTAATTCTACC
Found at i:30531436 original size:31 final size:31
Alignment explanation
Indices: 30531400--30531469 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
30531390 ACCGTTTCTA
* *
30531400 TGTGTGAACTAAAGGAAA-TGATCAGGCCTT-G
1 TGTGTGAAC-AAACGAAATTGA-AAGGCCTTAG
*
30531431 TGTGTGAACACACGAAATTGAAAGGCCTTAG
1 TGTGTGAACAAACGAAATTGAAAGGCCTTAG
30531462 TGTGTGAA
1 TGTGTGAA
30531470 GGGGACATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 13 0.38
31 21 0.62
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.26
Consensus pattern (31 bp):
TGTGTGAACAAACGAAATTGAAAGGCCTTAG
Found at i:30531953 original size:41 final size:41
Alignment explanation
Indices: 30531905--30531999 Score: 190
Period size: 41 Copynumber: 2.3 Consensus size: 41
30531895 AAACACATTA
30531905 AGTAGCAGCATTAAATTCGTCCAGACATATTTATAACATGT
1 AGTAGCAGCATTAAATTCGTCCAGACATATTTATAACATGT
30531946 AGTAGCAGCATTAAATTCGTCCAGACATATTTATAACATGT
1 AGTAGCAGCATTAAATTCGTCCAGACATATTTATAACATGT
30531987 AGTAGCAGCATTA
1 AGTAGCAGCATTA
30532000 GCTACGAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (41 bp):
AGTAGCAGCATTAAATTCGTCCAGACATATTTATAACATGT
Found at i:30539863 original size:23 final size:23
Alignment explanation
Indices: 30539831--30539942 Score: 134
Period size: 23 Copynumber: 4.9 Consensus size: 23
30539821 CTTTTTGAAC
* *
30539831 CATTAACATTTCGTACCAAATCG
1 CATTACCATTTCGTACCAAATCA
* *
30539854 TATTACCATTTCGAACCAAATCA
1 CATTACCATTTCGTACCAAATCA
* * *
30539877 CCTTACCAATTCGTACCAAATCG
1 CATTACCATTTCGTACCAAATCA
* *
30539900 TATTACCATTTCGAACCAAATCA
1 CATTACCATTTCGTACCAAATCA
*
30539923 CATTACCATTTCGTAACAAA
1 CATTACCATTTCGTACCAAA
30539943 CCCAAAACCG
Statistics
Matches: 72, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.37, C:0.28, G:0.06, T:0.29
Consensus pattern (23 bp):
CATTACCATTTCGTACCAAATCA
Found at i:30539907 original size:46 final size:46
Alignment explanation
Indices: 30539831--30539942 Score: 179
Period size: 46 Copynumber: 2.4 Consensus size: 46
30539821 CTTTTTGAAC
* *
30539831 CATTAACATTTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
1 CATTACCAATTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
*
30539877 CCTTACCAATTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
1 CATTACCAATTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
* *
30539923 CATTACCATTTCGTAACAAA
1 CATTACCAATTCGTACCAAA
30539943 CCCAAAACCG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.37, C:0.28, G:0.06, T:0.29
Consensus pattern (46 bp):
CATTACCAATTCGTACCAAATCGTATTACCATTTCGAACCAAATCA
Found at i:30544722 original size:33 final size:33
Alignment explanation
Indices: 30544680--30544746 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
30544670 TACCAAAAAG
* *
30544680 TACATGTGCTTTGTGCGAGGACATATTCAAGTC
1 TACATGTGCTTTGTACGAGGACAGATTCAAGTC
30544713 TACATGTGCTTTGTACGAGGACAGATTCAAGTC
1 TACATGTGCTTTGTACGAGGACAGATTCAAGTC
30544746 T
1 T
30544747 TCCCCACTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (33 bp):
TACATGTGCTTTGTACGAGGACAGATTCAAGTC
Found at i:30547056 original size:41 final size:41
Alignment explanation
Indices: 30546998--30547185 Score: 163
Period size: 41 Copynumber: 4.6 Consensus size: 41
30546988 ATTGGAGTGT
* **
30546998 AAACA-GGGCACGCATGTGCATTTCAAGGGTATTGAAGTAC
1 AAACAGGGGCACGTATGTGCATTTCAAGGGTACCGAAGTAC
* * * **
30547038 AAATAGGGGCACATATGTGCAATTC-AGCGGTACTAAAGTAC
1 AAACAGGGGCACGTATGTGCATTTCAAG-GGTACCGAAGTAC
* * *
30547079 AAACA-GGGCACGTATGT--ATAATCTAGGGGTATCGAAGTAC
1 AAACAGGGGCACGTATGTGCAT-TTC-AAGGGTACCGAAGTAC
*
30547119 AAACAGGGGCACGTATGTGCAATTT-AGGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGC-ATTTCAAGGGTACCGAAGTAC
* * *
30547160 AAATAGGGGCACTTATGTGCAATTCA
1 AAACAGGGGCACGTATGTGCATTTCA
30547186 GGGAATAATT
Statistics
Matches: 119, Mismatches: 19, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
38 1 0.01
39 2 0.02
40 35 0.29
41 78 0.66
43 1 0.01
44 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.22
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCATTTCAAGGGTACCGAAGTAC
Found at i:30547090 original size:81 final size:81
Alignment explanation
Indices: 30546998--30547185 Score: 218
Period size: 81 Copynumber: 2.3 Consensus size: 81
30546988 ATTGGAGTGT
* * *
30546998 AAACAGGGCACGCATGTGCATTTCAAGGGTATTGAAGTACAAATAGGGGCACATATGTGCAATTC
1 AAACAGGGCACGTATGTGCATTTCAAGGGTATCGAAGTACAAACAGGGGCACATATGTGCAATTC
*
30547063 AGCGGTACTAAAGTAC
66 AGCGGTACCAAAGTAC
* * *
30547079 AAACAGGGCACGTATGT--ATAATCTAGGGGTATCGAAGTACAAACAGGGGCACGTATGTGCAAT
1 AAACAGGGCACGTATGTGCAT-TTC-AAGGGTATCGAAGTACAAACAGGGGCACATATGTGCAAT
* * *
30547142 TTAGGGGTACCGAAGTAC
64 TCAGCGGTACCAAAGTAC
* * *
30547160 AAATAGGGGCACTTATGTGCAATTCA
1 AAACA-GGGCACGTATGTGCATTTCA
30547186 GGGAATAATT
Statistics
Matches: 88, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
79 2 0.02
80 2 0.02
81 69 0.78
82 12 0.14
83 2 0.02
84 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.22
Consensus pattern (81 bp):
AAACAGGGCACGTATGTGCATTTCAAGGGTATCGAAGTACAAACAGGGGCACATATGTGCAATTC
AGCGGTACCAAAGTAC
Found at i:30547117 original size:40 final size:41
Alignment explanation
Indices: 30547031--30547182 Score: 164
Period size: 41 Copynumber: 3.7 Consensus size: 41
30547021 CAAGGGTATT
* * * * *
30547031 GAAGTACAAATAGGGGCACATATGTGCAAT-TCAGCGGTACT
1 GAAGTACAAACAGGGGCACGTATGTACAATCT-AGGGGTACC
* * *
30547072 AAAGTACAAACA-GGGCACGTATGTATAATCTAGGGGTATC
1 GAAGTACAAACAGGGGCACGTATGTACAATCTAGGGGTACC
* *
30547112 GAAGTACAAACAGGGGCACGTATGTGCAATTTAGGGGTACC
1 GAAGTACAAACAGGGGCACGTATGTACAATCTAGGGGTACC
* * *
30547153 GAAGTACAAATAGGGGCACTTATGTGCAAT
1 GAAGTACAAACAGGGGCACGTATGTACAAT
30547183 TCAGGGAATA
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 31 0.33
41 63 0.67
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.22
Consensus pattern (41 bp):
GAAGTACAAACAGGGGCACGTATGTACAATCTAGGGGTACC
Found at i:30547147 original size:21 final size:21
Alignment explanation
Indices: 30547123--30547188 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
30547113 AAGTACAAAC
30547123 AGGGGCACGTATGTGCAATTT
1 AGGGGCACGTATGTGCAATTT
* * * *
30547144 AGGGGTACCG-AAGTACAA-AT
1 AGGGGCA-CGTATGTGCAATTT
* *
30547164 AGGGGCACTTATGTGCAATTC
1 AGGGGCACGTATGTGCAATTT
30547185 AGGG
1 AGGG
30547189 AATAATTAGG
Statistics
Matches: 32, Mismatches: 10, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
19 1 0.03
20 13 0.41
21 16 0.50
22 2 0.06
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (21 bp):
AGGGGCACGTATGTGCAATTT
Found at i:30547168 original size:20 final size:19
Alignment explanation
Indices: 30547102--30547168 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 19
30547092 ATGTATAATC
30547102 TAGGGGTATCGAAGTACAAA
1 TAGGGGTA-CGAAGTACAAA
* * * * *
30547122 CAGGGGCACGTATGTGCAATT
1 TAGGGGTACG-AAGTACAA-A
30547143 TAGGGGTACCGAAGTACAAA
1 TAGGGGTA-CGAAGTACAAA
30547163 TAGGGG
1 TAGGGG
30547169 CACTTATGTG
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
19 2 0.06
20 18 0.53
21 12 0.35
22 2 0.06
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.19
Consensus pattern (19 bp):
TAGGGGTACGAAGTACAAA
Found at i:30547358 original size:114 final size:114
Alignment explanation
Indices: 30547158--30547387 Score: 460
Period size: 114 Copynumber: 2.0 Consensus size: 114
30547148 GTACCGAAGT
30547158 ACAAATAGGGGCACTTATGTGCAATTCAGGGAATAATTAGGTATAGGCAATTAATCACATAACTA
1 ACAAATAGGGGCACTTATGTGCAATTCAGGGAATAATTAGGTATAGGCAATTAATCACATAACTA
30547223 TATTGTAAACATACAAGTAGAAATTCAACGACATTTAGAATTACTACGA
66 TATTGTAAACATACAAGTAGAAATTCAACGACATTTAGAATTACTACGA
30547272 ACAAATAGGGGCACTTATGTGCAATTCAGGGAATAATTAGGTATAGGCAATTAATCACATAACTA
1 ACAAATAGGGGCACTTATGTGCAATTCAGGGAATAATTAGGTATAGGCAATTAATCACATAACTA
30547337 TATTGTAAACATACAAGTAGAAATTCAACGACATTTAGAATTACTACGA
66 TATTGTAAACATACAAGTAGAAATTCAACGACATTTAGAATTACTACGA
30547386 AC
1 AC
30547388 TTACTTAACA
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 116 1.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (114 bp):
ACAAATAGGGGCACTTATGTGCAATTCAGGGAATAATTAGGTATAGGCAATTAATCACATAACTA
TATTGTAAACATACAAGTAGAAATTCAACGACATTTAGAATTACTACGA
Found at i:30549114 original size:22 final size:22
Alignment explanation
Indices: 30549083--30549146 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
30549073 CCTTTTTGAA
*
30549083 CCATTTCCATTTCGTACCAAAT
1 CCATTACCATTTCGTACCAAAT
**
30549105 CCATTACCATTTCGTTTCAAAT
1 CCATTACCATTTCGTACCAAAT
* *
30549127 CCCTTACCGTTTCGTACCAA
1 CCATTACCATTTCGTACCAA
30549147 TTCCCAAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.25, C:0.33, G:0.06, T:0.36
Consensus pattern (22 bp):
CCATTACCATTTCGTACCAAAT
Found at i:30555764 original size:39 final size:39
Alignment explanation
Indices: 30555721--30555910 Score: 170
Period size: 39 Copynumber: 4.7 Consensus size: 39
30555711 TTCTACAAGC
*
30555721 TGTGTATCAACAAAGCTCCACC-GTCAGCTAAAGATAAGT
1 TGTGTATCAACAAAGCTCC-CCTGTGAGCTAAAGATAAGT
* * *
30555760 TGTGTATCAACGAAGCT-CCCTCGTAAGCTAAAGATAAGC
1 TGTGTATCAACAAAGCTCCCCT-GTGAGCTAAAGATAAGT
* *
30555799 TGTGTATTAGA-AAAGCTCCCCTGTGAGCTAAGGATAAGT
1 TGTGTATCA-ACAAAGCTCCCCTGTGAGCTAAAGATAAGT
* * * * * *
30555838 TATGTATCAGCGAGGTTCCCCATGTGAGCTTAAGTGATGAAGT
1 TGTGTATCAACAAAGCTCCCC-TGTGAGC-TAA-AGAT-AAGT
*
30555881 TGTGTATCAACAAAGCTCCCCATGCGAGCT
1 TGTGTATCAACAAAGCTCCCC-TGTGAGCT
30555911 TAAGTGATAG
Statistics
Matches: 121, Mismatches: 21, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
37 2 0.02
38 1 0.01
39 72 0.60
40 12 0.10
41 3 0.02
42 4 0.03
43 27 0.22
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (39 bp):
TGTGTATCAACAAAGCTCCCCTGTGAGCTAAAGATAAGT
Found at i:30564168 original size:25 final size:25
Alignment explanation
Indices: 30564140--30564193 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
30564130 TGAACCTCTA
*
30564140 ACCTCCTTACCACACCTTTGACGCC
1 ACCTCCTTACCACACCTGTGACGCC
*
30564165 ACCTCCTTACCACACCTGTGTCGCC
1 ACCTCCTTACCACACCTGTGACGCC
30564190 ACCT
1 ACCT
30564194 TGCCACTACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.48, G:0.09, T:0.24
Consensus pattern (25 bp):
ACCTCCTTACCACACCTGTGACGCC
Found at i:30567928 original size:10 final size:10
Alignment explanation
Indices: 30567914--30567971 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
30567904 CAGCTCCGAC
30567914 CAGCTCAATT
1 CAGCTCAATT
* *
30567924 GAGCTCATTT
1 CAGCTCAATT
30567934 CAGCTCAA-T
1 CAGCTCAATT
30567943 CGAGCTCAATT
1 C-AGCTCAATT
*
30567954 TAGCTACAATT
1 CAGCT-CAATT
30567965 CAGCTCA
1 CAGCTCA
30567972 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:30567937 original size:20 final size:20
Alignment explanation
Indices: 30567914--30567974 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
30567904 CAGCTCCGAC
30567914 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
30567934 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
30567955 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
30567975 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:30569446 original size:14 final size:14
Alignment explanation
Indices: 30569427--30569456 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
30569417 AGATTGTTGC
30569427 TATTATTATATTGT
1 TATTATTATATTGT
30569441 TATTATTATATTGT
1 TATTATTATATTGT
30569455 TA
1 TA
30569457 CAACCAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (14 bp):
TATTATTATATTGT
Found at i:30572731 original size:20 final size:20
Alignment explanation
Indices: 30572698--30572742 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
30572688 TAAATTCACA
30572698 TAATTAAAACAAGACAC-AAT
1 TAATTAAAACAAGAC-CTAAT
**
30572718 TAATTAAATTAAGACCTAAT
1 TAATTAAAACAAGACCTAAT
30572738 TAATT
1 TAATT
30572743 CGGTTAGGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.31
Consensus pattern (20 bp):
TAATTAAAACAAGACCTAAT
Found at i:30574626 original size:15 final size:14
Alignment explanation
Indices: 30574589--30574639 Score: 52
Period size: 15 Copynumber: 3.7 Consensus size: 14
30574579 ACTCATTTTC
*
30574589 TTTTCTTTCTTCAA
1 TTTTCTTTTTTCAA
* *
30574603 -TTTC-CTTTTCGA
1 TTTTCTTTTTTCAA
30574615 TTTTCTCTTTTTCAA
1 TTTTCT-TTTTTCAA
30574630 TTTTCTTTTT
1 TTTTCTTTTT
30574640 CTTTCACTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
12 5 0.17
13 8 0.28
14 4 0.14
15 12 0.41
ACGTcount: A:0.10, C:0.20, G:0.02, T:0.69
Consensus pattern (14 bp):
TTTTCTTTTTTCAA
Found at i:30581209 original size:33 final size:34
Alignment explanation
Indices: 30581155--30581229 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
30581145 AGATTTAAAC
30581155 AAATTAATTACTAACACTTATTTAAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
* *
30581189 AAATTAATT-CTTACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
30581222 AATTTAAT
1 AAATTAAT
30581230 AAACTAACTC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 29 0.76
34 9 0.24
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:30583046 original size:18 final size:18
Alignment explanation
Indices: 30582998--30583037 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
30582988 TCTTTTTGCC
30582998 CTTTTTC-ATTCTCTTTTT
1 CTTTTTCGATT-TCTTTTT
30583016 CTTTTTCGATTTCTTTTT
1 CTTTTTCGATTTCTTTTT
30583034 CTTT
1 CTTT
30583038 CTTCCTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.05, C:0.20, G:0.03, T:0.72
Consensus pattern (18 bp):
CTTTTTCGATTTCTTTTT
Found at i:30587053 original size:15 final size:15
Alignment explanation
Indices: 30587012--30587065 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
30587002 TCCATTGAGC
*
30587012 GAGA-AAAAGAAAAG
1 GAGAGAAAAGAAAAA
*
30587026 GAGAG-AAACAAAAA
1 GAGAGAAAAGAAAAA
*
30587040 GAGTGAAAAGAAAAA
1 GAGAGAAAAGAAAAA
30587055 GAGAGAAAAGA
1 GAGAGAAAAGA
30587066 CTGACGAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
14 15 0.45
15 18 0.55
ACGTcount: A:0.69, C:0.02, G:0.28, T:0.02
Consensus pattern (15 bp):
GAGAGAAAAGAAAAA
Found at i:30587111 original size:26 final size:25
Alignment explanation
Indices: 30587035--30587134 Score: 73
Period size: 26 Copynumber: 4.1 Consensus size: 25
30587025 GGAGAGAAAC
30587035 AAAAAGAGTG--AAAAGAAAAAGAGA
1 AAAAAGAGTGACAAAAGAAAAAGA-A
* * * ** *
30587059 GAAAAGACTGACGAAAGTGAAATAA
1 AAAAAGAGTGACAAAAGAAAAAGAA
30587084 AAACAAGAGTGACAAAAGAAAAAGAA
1 AAA-AAGAGTGACAAAAGAAAAAGAA
* * *
30587110 AAAGAGTGTGA-AAATGAAAAA-AA
1 AAAAAGAGTGACAAAAGAAAAAGAA
30587133 AA
1 AA
30587135 GTGTTTTTGC
Statistics
Matches: 58, Mismatches: 15, Indels: 7
0.73 0.19 0.09
Matches are distributed among these distances:
23 4 0.07
24 17 0.29
25 9 0.16
26 28 0.48
ACGTcount: A:0.66, C:0.04, G:0.22, T:0.08
Consensus pattern (25 bp):
AAAAAGAGTGACAAAAGAAAAAGAA
Found at i:30587123 original size:23 final size:23
Alignment explanation
Indices: 30587060--30587134 Score: 71
Period size: 23 Copynumber: 3.1 Consensus size: 23
30587050 AAAAAGAGAG
* *
30587060 AAAAGACTGACGAAAGTGAAATAAA
1 AAAAGAGTGAC-AAAATGAAA-AAA
30587085 AACAAGAGTGACAAAA-GAAAAAGA
1 AA-AAGAGTGACAAAATGAAAAA-A
**
30587109 AAAAGAGTGTGAAAATGAAAAAA
1 AAAAGAGTGACAAAATGAAAAAA
30587132 AAA
1 AAA
30587135 GTGTTTTTGC
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
23 17 0.40
24 13 0.30
25 5 0.12
26 8 0.19
ACGTcount: A:0.65, C:0.05, G:0.20, T:0.09
Consensus pattern (23 bp):
AAAAGAGTGACAAAATGAAAAAA
Found at i:30588703 original size:20 final size:20
Alignment explanation
Indices: 30588680--30588726 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
30588670 GGGTTAAAAT
*
30588680 TGAGCTGAATTGATCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
30588700 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
30588720 TGAGCTG
1 TGAGCTG
30588727 GAAACGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:30589007 original size:20 final size:20
Alignment explanation
Indices: 30588982--30589049 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
30588972 TCCATGCGAT
*
30588982 TCAGCTCACTCAAGCTCAAG
1 TCAGCTCACTCGAGCTCAAG
*
30589002 TCAGCTCATTCGAGCTCAAG
1 TCAGCTCACTCGAGCTCAAG
* * *
30589022 TCAGCTCCCACGAGCTCAAT
1 TCAGCTCACTCGAGCTCAAG
30589042 TCAGCTCA
1 TCAGCTCA
30589050 TTGAGCTCGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.22
Consensus pattern (20 bp):
TCAGCTCACTCGAGCTCAAG
Found at i:30589026 original size:40 final size:39
Alignment explanation
Indices: 30588982--30589057 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 39
30588972 TCCATGCGAT
*
30588982 TCAGCTCACTCAAGCTCAAGTCAGCTCATTCGAGCTCAAG
1 TCAGCTCACACAAGCTCAAGTCAGCTCATT-GAGCTCAAG
* * *
30589022 TCAGCTCCCACGAGCTCAATTCAGCTCATTGAGCTC
1 TCAGCTCACACAAGCTCAAGTCAGCTCATTGAGCTC
30589058 GTTATTAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 6 0.19
40 26 0.81
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.24
Consensus pattern (39 bp):
TCAGCTCACACAAGCTCAAGTCAGCTCATTGAGCTCAAG
Found at i:30590413 original size:13 final size:15
Alignment explanation
Indices: 30590380--30590416 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
30590370 GCTGGATCAC
30590380 ATCACCATCAATAAA
1 ATCACCATCAATAAA
*
30590395 ATCACCAT-AA-AAT
1 ATCACCATCAATAAA
30590408 ATCACCATC
1 ATCACCATC
30590417 CTATTCCCCG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 10 0.50
14 2 0.10
15 8 0.40
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.22
Consensus pattern (15 bp):
ATCACCATCAATAAA
Found at i:30601753 original size:20 final size:20
Alignment explanation
Indices: 30601730--30601790 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
30601720 CAGCTCCGAC
30601730 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
30601750 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
30601771 -AGCTACAATTTAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
30601791 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:30601781 original size:11 final size:10
Alignment explanation
Indices: 30601731--30601791 Score: 63
Period size: 10 Copynumber: 6.1 Consensus size: 10
30601721 AGCTCCGACC
*
30601731 AGCTCAATTG
1 AGCTCAATTT
30601741 AGCTC-ATTT
1 AGCTCAATTT
**
30601750 CAGCTCAATCG
1 -AGCTCAATTT
30601761 AGCTCAATTT
1 AGCTCAATTT
30601771 AGCTACAATTT
1 AGCT-CAATTT
30601782 AGCTC-ATTT
1 AGCTCAATTT
30601791 A
1 A
30601792 TTTTATTGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
9 8 0.19
10 23 0.53
11 12 0.28
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (10 bp):
AGCTCAATTT
Found at i:30607264 original size:22 final size:22
Alignment explanation
Indices: 30607236--30607279 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
30607226 TTTTGAACCA
30607236 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
30607258 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
30607280 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:30608182 original size:10 final size:10
Alignment explanation
Indices: 30608169--30608193 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
30608159 TTAGCTCGTG
30608169 TCAGCTCAAT
1 TCAGCTCAAT
30608179 TCAGCTCAAT
1 TCAGCTCAAT
30608189 TCAGC
1 TCAGC
30608194 ACTTAACTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.28
Consensus pattern (10 bp):
TCAGCTCAAT
Found at i:30615096 original size:20 final size:20
Alignment explanation
Indices: 30615073--30615119 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
30615063 GGGTTGAGGT
30615073 TGAGCTGAATTCAACTCGAA
1 TGAGCTGAATTCAACTCGAA
* * * *
30615093 TGAGCTGACTTGAGCTCGAG
1 TGAGCTGAATTCAACTCGAA
30615113 TGAGCTG
1 TGAGCTG
30615120 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTCAACTCGAA
Found at i:30619399 original size:14 final size:14
Alignment explanation
Indices: 30619380--30619406 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30619370 GCATCTTCCT
30619380 ATGCATGAATCTAC
1 ATGCATGAATCTAC
30619394 ATGCATGAATCTA
1 ATGCATGAATCTA
30619407 TCCAATGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (14 bp):
ATGCATGAATCTAC
Found at i:30629722 original size:30 final size:30
Alignment explanation
Indices: 30629664--30629722 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
30629654 TTGAAAAGGT
* *
30629664 TTGAGCTGAAGTTGAGCTAATTCGAGCTCA
1 TTGAGCTGAAATGGAGCTAATTCGAGCTCA
*
30629694 TTGAGCTGAAATGGAAGTTAATTC-AGCTC
1 TTGAGCTGAAATGG-AGCTAATTCGAGCTC
30629723 GTATTAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (30 bp):
TTGAGCTGAAATGGAGCTAATTCGAGCTCA
Found at i:30630502 original size:22 final size:22
Alignment explanation
Indices: 30630440--30630511 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
30630430 AGTGTTCAAA
* **
30630440 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
30630462 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
30630484 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
30630506 CATGAG
1 CATGAG
30630512 GGTTTATACC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:30635583 original size:20 final size:20
Alignment explanation
Indices: 30635560--30635647 Score: 86
Period size: 20 Copynumber: 4.4 Consensus size: 20
30635550 TACGGGCAGT
*
30635560 CAGGGGCACCGAAGTGCGAA
1 CAGGGGCACCGAAGTGCAAA
* ** *
30635580 CAGGGGTACTTATGTGCAAA
1 CAGGGGCACCGAAGTGCAAA
* * *
30635600 CAGGGACACCGAAGTGTATA
1 CAGGGGCACCGAAGTGCAAA
* *
30635620 CAGGAGCACCGAAGTGCCAA
1 CAGGGGCACCGAAGTGCAAA
30635640 CAGGGGCA
1 CAGGGGCA
30635648 TAGTGGTGCA
Statistics
Matches: 50, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.32, C:0.23, G:0.34, T:0.11
Consensus pattern (20 bp):
CAGGGGCACCGAAGTGCAAA
Found at i:30635632 original size:60 final size:60
Alignment explanation
Indices: 30635560--30635679 Score: 163
Period size: 60 Copynumber: 2.0 Consensus size: 60
30635550 TACGGGCAGT
* * *
30635560 CAGGGGCACCGAAGTGCGAACAGGGGTACTTA-T-GTGCAAACAGGGACACCGAAGTGTATA
1 CAGGAGCACCGAAGTGCCAACAGGGG--CATAGTGGTGCAAACAGGGACACCGAAGTGTATA
* *
30635620 CAGGAGCACCGAAGTGCCAACAGGGGCATAGTGGTGCAACCAGGGACACTGAAGTGTATA
1 CAGGAGCACCGAAGTGCCAACAGGGGCATAGTGGTGCAAACAGGGACACCGAAGTGTATA
30635680 ATAGAACAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
58 3 0.06
59 1 0.02
60 49 0.92
ACGTcount: A:0.32, C:0.21, G:0.33, T:0.14
Consensus pattern (60 bp):
CAGGAGCACCGAAGTGCCAACAGGGGCATAGTGGTGCAAACAGGGACACCGAAGTGTATA
Found at i:30639666 original size:20 final size:19
Alignment explanation
Indices: 30639637--30639674 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
30639627 AGCTAATAAC
30639637 GAGCTCAATGAGCTGAATT
1 GAGCTCAATGAGCTGAATT
30639656 GAGCTCGAATGAGCTGAAT
1 GAGCTC-AATGAGCTGAAT
30639675 CAAAAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (19 bp):
GAGCTCAATGAGCTGAATT
Found at i:30643016 original size:36 final size:37
Alignment explanation
Indices: 30642976--30643053 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 37
30642966 CTCAATCTCA
30642976 TTTTCAATTTTC-TTTTCT-ATCTCACACTCATCTTCT
1 TTTTCAATTTTCATTTTCTCA-CTCACACTCATCTTCT
* * * *
30643012 TTTTC-TTTTTCATTTTCTCACTCGCACTCTTTTTCT
1 TTTTCAATTTTCATTTTCTCACTCACACTCATCTTCT
30643048 TTTTCA
1 TTTTCA
30643054 CATGATGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
35 5 0.14
36 29 0.83
37 1 0.03
ACGTcount: A:0.13, C:0.27, G:0.01, T:0.59
Consensus pattern (37 bp):
TTTTCAATTTTCATTTTCTCACTCACACTCATCTTCT
Found at i:30643022 original size:30 final size:29
Alignment explanation
Indices: 30642983--30643053 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
30642973 TCATTTTCAA
*
30642983 TTTTC-TTTTC-TATCTCACACTCATCTTCT
1 TTTTCTTTTTCATATCTCACACGCA-C-TCT
* *
30643012 TTTTCTTTTTCATTTTCTCACTCGCACTCT
1 TTTTCTTTTTCA-TATCTCACACGCACTCT
30643042 TTTTCTTTTTCA
1 TTTTCTTTTTCA
30643054 CATGATGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 5 0.14
30 20 0.56
31 1 0.03
32 10 0.28
ACGTcount: A:0.11, C:0.28, G:0.01, T:0.59
Consensus pattern (29 bp):
TTTTCTTTTTCATATCTCACACGCACTCT
Found at i:30643954 original size:15 final size:15
Alignment explanation
Indices: 30643934--30643973 Score: 66
Period size: 13 Copynumber: 2.8 Consensus size: 15
30643924 AAATTTAATA
30643934 CAAATTTTTTTTTTT
1 CAAATTTTTTTTTTT
30643949 CAAA--TTTTTTTTT
1 CAAATTTTTTTTTTT
30643962 CAAATTTTTTTT
1 CAAATTTTTTTT
30643974 ACAATCTCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 13 0.57
15 10 0.43
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (15 bp):
CAAATTTTTTTTTTT
Found at i:30643958 original size:13 final size:13
Alignment explanation
Indices: 30643940--30643973 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
30643930 AATACAAATT
30643940 TTTTTTTTTCAAA
1 TTTTTTTTTCAAA
30643953 TTTTTTTTTCAAA
1 TTTTTTTTTCAAA
30643966 TTTTTTTT
1 TTTTTTTT
30643974 ACAATCTCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTTTTCAAA
Found at i:30645611 original size:41 final size:41
Alignment explanation
Indices: 30645566--30645673 Score: 189
Period size: 41 Copynumber: 2.6 Consensus size: 41
30645556 AATTCGGCCA
* * *
30645566 AACATGTAGTAGCAGCATTAAATTCGTCCAGGCATATTTAT
1 AACATGTAGTGGCAGCATTAAATTCGTCCAGACACATTTAT
30645607 AACATGTAGTGGCAGCATTAAATTCGTCCAGACACATTTAT
1 AACATGTAGTGGCAGCATTAAATTCGTCCAGACACATTTAT
30645648 AACATGTAGTGGCAGCATTAAATTCG
1 AACATGTAGTGGCAGCATTAAATTCG
30645674 ACATATTAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (41 bp):
AACATGTAGTGGCAGCATTAAATTCGTCCAGACACATTTAT
Found at i:30649502 original size:19 final size:17
Alignment explanation
Indices: 30649471--30649515 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
30649461 CAAATGAAGG
*
30649471 TTCATGTAATTAAAAGAA
1 TTCATGTACTTAAAAG-A
*
30649489 TTCATTGTACTTAAGAGA
1 TTCA-TGTACTTAAAAGA
30649507 TTCATGTAC
1 TTCATGTAC
30649516 GACATAGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.21
18 9 0.38
19 10 0.42
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (17 bp):
TTCATGTACTTAAAAGA
Found at i:30653026 original size:70 final size:70
Alignment explanation
Indices: 30652908--30653042 Score: 252
Period size: 70 Copynumber: 1.9 Consensus size: 70
30652898 TTGCATGCCC
30652908 AACAGCACCTTAAATACATGTCTATGCTTTACATTAAATTCGGCCAACACCTCCTTTATTGCTGC
1 AACAGCACCTTAAATACATGTCTATGCTTTACATTAAATTCGGCCAACACCTCCTTTATTGCTGC
30652973 TGTTG
66 TGTTG
* *
30652978 AACATCACCTTAAATGCATGTCTATGCTTTACATTAAATTCGGCCAACACCTCCTTTATTGCTGC
1 AACAGCACCTTAAATACATGTCTATGCTTTACATTAAATTCGGCCAACACCTCCTTTATTGCTGC
30653043 CGATTTAATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (70 bp):
AACAGCACCTTAAATACATGTCTATGCTTTACATTAAATTCGGCCAACACCTCCTTTATTGCTGC
TGTTG
Found at i:30653558 original size:10 final size:9
Alignment explanation
Indices: 30653535--30653572 Score: 58
Period size: 9 Copynumber: 4.0 Consensus size: 9
30653525 AGCTAATAAC
30653535 GAGCTGAAT
1 GAGCTGAAT
30653544 GAGCTGAATT
1 GAGCTGAA-T
30653554 GAGCTCGAAT
1 GAGCT-GAAT
30653564 GAGCTGAAT
1 GAGCTGAAT
30653573 CAAAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 12 0.44
10 12 0.44
11 3 0.11
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.24
Consensus pattern (9 bp):
GAGCTGAAT
Found at i:30653563 original size:20 final size:19
Alignment explanation
Indices: 30653535--30653572 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
30653525 AGCTAATAAC
30653535 GAGCTGAATGAGCTGAATT
1 GAGCTGAATGAGCTGAATT
30653554 GAGCTCGAATGAGCTGAAT
1 GAGCT-GAATGAGCTGAAT
30653573 CAAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.24
Consensus pattern (19 bp):
GAGCTGAATGAGCTGAATT
Found at i:30655186 original size:21 final size:21
Alignment explanation
Indices: 30655157--30655202 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
30655147 CTCACTCTCA
* * *
30655157 TTTTCTTTTTCTTTTATTTCT
1 TTTTATTTTTCTCTCATTTCT
30655178 TTTTATTTTTCTCTCATTTCT
1 TTTTATTTTTCTCTCATTTCT
30655199 TTTT
1 TTTT
30655203 TCTTCTCTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTATTTTTCTCTCATTTCT
Found at i:30655211 original size:21 final size:21
Alignment explanation
Indices: 30655172--30655211 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
30655162 TTTTTCTTTT
*
30655172 ATTTCTTTTTATTTTTCTCTC
1 ATTTCTTTTTATTTCTCTCTC
30655193 ATTTCTTTTT-TCTTCTCTC
1 ATTTCTTTTTAT-TTCTCTC
30655212 AATTTCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTTCTTTTTATTTCTCTCTC
Found at i:30656196 original size:13 final size:13
Alignment explanation
Indices: 30656178--30656209 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
30656168 GAATACAAAC
30656178 TTTTTTTTT-GAA
1 TTTTTTTTTCGAA
30656190 TTTTTTTTTCGAA
1 TTTTTTTTTCGAA
30656203 TTTTTTT
1 TTTTTTT
30656210 CAAGTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.12, C:0.03, G:0.06, T:0.78
Consensus pattern (13 bp):
TTTTTTTTTCGAA
Found at i:30657574 original size:70 final size:70
Alignment explanation
Indices: 30657456--30657592 Score: 256
Period size: 70 Copynumber: 2.0 Consensus size: 70
30657446 TTGCATGCCC
30657456 AACAGCACCTTAAATACATGTCTATGCTTTACATTAAATTCGGCCAACACCTCCTTTATTGCTGC
1 AACAGCACCTTAAATACATGTCTATGCTTTACATTAAATTCGGCCAACACCTCCTTTATTGCTGC
30657521 TGTTG
66 TGTTG
* *
30657526 AACATCACCTTAAATGCATGTCTATGCTTTACATTAAATTCGGCCAACACCTCCTTTATTGCTGC
1 AACAGCACCTTAAATACATGTCTATGCTTTACATTAAATTCGGCCAACACCTCCTTTATTGCTGC
30657591 TG
66 TG
30657593 ATTTAATTCA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.34
Consensus pattern (70 bp):
AACAGCACCTTAAATACATGTCTATGCTTTACATTAAATTCGGCCAACACCTCCTTTATTGCTGC
TGTTG
Found at i:30658165 original size:20 final size:19
Alignment explanation
Indices: 30658136--30658173 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
30658126 AGCTAATAAC
30658136 GAGCTCAATGAGCTGAATT
1 GAGCTCAATGAGCTGAATT
30658155 GAGCTCGAATGAGCTGAAT
1 GAGCTC-AATGAGCTGAAT
30658174 CAAAAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (19 bp):
GAGCTCAATGAGCTGAATT
Found at i:30663292 original size:42 final size:42
Alignment explanation
Indices: 30663245--30663327 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
30663235 AATATGTGTG
30663245 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
1 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
30663287 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
1 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
30663328 CTTTGAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.39
Consensus pattern (42 bp):
AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
Found at i:30664306 original size:27 final size:26
Alignment explanation
Indices: 30664276--30664371 Score: 88
Period size: 27 Copynumber: 3.4 Consensus size: 26
30664266 AAACGTAAGA
30664276 GAAAAAGAAAATGAAGAAAAGAAAATT
1 GAAAAAGAAAATGAAGAAAAG-AAATT
*
30664303 GAAAAAGAAATTGAGATTGAGAAAGAAATT
1 GAAAAAGAAAATGA-A--GA-AAAGAAATT
30664333 GAAAAAGAGAAAATCG-A-AAAAGAAATT
1 G-AAAA-AGAAAAT-GAAGAAAAGAAATT
30664360 GAAGAAAGAAAA
1 GAA-AAAGAAAA
30664372 GAAAATGAGT
Statistics
Matches: 59, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
26 8 0.14
27 25 0.42
28 2 0.03
30 8 0.14
31 9 0.15
32 6 0.10
33 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.21, T:0.12
Consensus pattern (26 bp):
GAAAAAGAAAATGAAGAAAAGAAATT
Found at i:30664328 original size:45 final size:45
Alignment explanation
Indices: 30664278--30664379 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 45
30664268 ACGTAAGAGA
* **
30664278 AAAAGAAAATGAAGAAA-AGAAAATTGAAAAAGAAATTG-AGATTG
1 AAAAGAAAATGAA-AAAGAGAAAATCGAAAAAGAAATTGAAGAAAG
*
30664322 AGAAAGAAATTGAAAAAGAGAAAATCGAAAAAGAAATTGAAGAAAG
1 A-AAAGAAAATGAAAAAGAGAAAATCGAAAAAGAAATTGAAGAAAG
30664368 AAAAGAAAATGA
1 AAAAGAAAATGA
30664380 GTTAGAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
44 4 0.08
45 41 0.82
46 5 0.10
ACGTcount: A:0.66, C:0.01, G:0.21, T:0.13
Consensus pattern (45 bp):
AAAAGAAAATGAAAAAGAGAAAATCGAAAAAGAAATTGAAGAAAG
Found at i:30666936 original size:52 final size:52
Alignment explanation
Indices: 30666854--30666959 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
30666844 AAAGGAATTT
*
30666854 TTGTCAAATTTCTGAATGAACTATTTTTCTTGTGAGGATTCTCCCTCTCATA
1 TTGTCAAATTTCTGAATGAACTATTGTTCTTGTGAGGATTCTCCCTCTCATA
30666906 TTGTCAAATTTCTGAATGAACTATTGTTCTTGTGAGGATTCTCCCTCTCATA
1 TTGTCAAATTTCTGAATGAACTATTGTTCTTGTGAGGATTCTCCCTCTCATA
30666958 TT
1 TT
30666960 TCGTGTGAGT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (52 bp):
TTGTCAAATTTCTGAATGAACTATTGTTCTTGTGAGGATTCTCCCTCTCATA
Found at i:30674612 original size:17 final size:17
Alignment explanation
Indices: 30674589--30674631 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
30674579 CTCTTTTTTC
30674589 TTTCTTTTGC-TTTCTT
1 TTTCTTTTGCATTTCTT
30674605 TTTCCTTTT-CAATTTCTT
1 TTT-CTTTTGC-ATTTCTT
30674623 TTTCTTTTG
1 TTTCTTTTG
30674632 TTTTTTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 4 0.17
17 10 0.43
18 9 0.39
ACGTcount: A:0.05, C:0.19, G:0.05, T:0.72
Consensus pattern (17 bp):
TTTCTTTTGCATTTCTT
Found at i:30679461 original size:24 final size:24
Alignment explanation
Indices: 30679434--30679487 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
30679424 TACAATCATG
* *
30679434 TTCACAATTTTTTTTGAATTTCTT
1 TTCAAAATTTTTTTCGAATTTCTT
*
30679458 TTCAAAATTTTTTTCGAATTTTTT
1 TTCAAAATTTTTTTCGAATTTCTT
30679482 TTCAAA
1 TTCAAA
30679488 TACTTACTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.59
Consensus pattern (24 bp):
TTCAAAATTTTTTTCGAATTTCTT
Found at i:30679477 original size:11 final size:11
Alignment explanation
Indices: 30679439--30679482 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
30679429 TCATGTTCAC
*
30679439 AATTTTTTTTG
1 AATTTTTTTCG
*
30679450 AATTTCTTTTCAA
1 AATTT-TTTTC-G
30679463 AATTTTTTTCG
1 AATTTTTTTCG
30679474 AATTTTTTT
1 AATTTTTTT
30679483 TCAAATACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 14 0.50
12 9 0.32
13 5 0.18
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.66
Consensus pattern (11 bp):
AATTTTTTTCG
Found at i:30679694 original size:24 final size:25
Alignment explanation
Indices: 30679648--30679694 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
30679638 AGGAATTTGG
*
30679648 CTAAATGAATTGATGATGGAAATGA
1 CTAAATGAATTGATGATGAAAATGA
* *
30679673 CTAAGTGAA-TGATGGTGAAAAT
1 CTAAATGAATTGATGATGAAAAT
30679695 TCAGCCAAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.43, C:0.04, G:0.26, T:0.28
Consensus pattern (25 bp):
CTAAATGAATTGATGATGAAAATGA
Found at i:30696258 original size:20 final size:19
Alignment explanation
Indices: 30696203--30696247 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
30696193 CATTTCATTG
*
30696203 AGCTCCAATTAGCTCATTTCC
1 AGCTCC-ATGAGCTCATTT-C
*
30696224 AGCTCCATGAACTCATTTC
1 AGCTCCATGAGCTCATTTC
30696243 AGCTC
1 AGCTC
30696248 ATTTGAGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 10 0.45
21 6 0.27
ACGTcount: A:0.24, C:0.33, G:0.11, T:0.31
Consensus pattern (19 bp):
AGCTCCATGAGCTCATTTC
Found at i:30697969 original size:67 final size:66
Alignment explanation
Indices: 30697860--30697986 Score: 200
Period size: 67 Copynumber: 1.9 Consensus size: 66
30697850 CATTTCAGAT
* *
30697860 AGCACATTCCCACGAACCTCATCCTTGCAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAAGA
1 AGCACACTCCCACGAACCTCATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAAGA
30697925 G
66 G
* * *
30697926 AGCACACTCCCATGAACCTTATTCCTTACAGTGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGCACACTCCCACGAACCTCA-TCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
30697987 TAATATAAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
66 18 0.33
67 37 0.67
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.21
Consensus pattern (66 bp):
AGCACACTCCCACGAACCTCATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAAGA
G
Found at i:30698206 original size:57 final size:56
Alignment explanation
Indices: 30698108--30698220 Score: 165
Period size: 57 Copynumber: 2.0 Consensus size: 56
30698098 ACCATAATTC
*
30698108 AGATTACCCATCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATCA
1 AGATCACCCATCCGGGCTAAATCCATTTTCCACATATTCTTCGGGA-GGCTATATCA
* * *
30698165 AGATCACCCGTCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGCTATATCA
1 AGATCACCCATCCGGGCTAAATCCATTTTC-CACATATTCTTCGGGAGGCTATATCA
30698221 GGTTAGGATC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
56 16 0.31
57 35 0.69
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (56 bp):
AGATCACCCATCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGCTATATCA
Found at i:30701469 original size:23 final size:23
Alignment explanation
Indices: 30701438--30701513 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
30701428 CGACATCCTT
* *
30701438 AATCGCTTAGAACCAAATCGTGA
1 AATCCCTTAAAACCAAATCGTGA
*
30701461 AATCCCTTAAAACCAAATCATGA
1 AATCCCTTAAAACCAAATCGTGA
* *
30701484 AATCCTTTAAAACCAAATTGTGA
1 AATCCCTTAAAACCAAATCGTGA
30701507 AATCCCT
1 AATCCCT
30701514 AATCTTTTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.25
Consensus pattern (23 bp):
AATCCCTTAAAACCAAATCGTGA
Found at i:30702541 original size:16 final size:16
Alignment explanation
Indices: 30702520--30702558 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
30702510 ATATGATTAG
*
30702520 CCTATACACCATTCAC
1 CCTATACACCATCCAC
30702536 CCTATACACCATCCAC
1 CCTATACACCATCCAC
*
30702552 GCTATAC
1 CCTATAC
30702559 CAACCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.31, C:0.44, G:0.03, T:0.23
Consensus pattern (16 bp):
CCTATACACCATCCAC
Found at i:30706400 original size:51 final size:51
Alignment explanation
Indices: 30706321--30706418 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 51
30706311 CTACTTGCAG
* *** *
30706321 CAGCAACATTATCCACTCCGTCTGATGTTGAAAAATCATCAGCATATTCGT
1 CAGCAACATTATCCACTCCATAAAATGTTGAAAAATCACCAGCATATTCGT
*
30706372 CAGCAACATTATCCACTCCATAAAATGTTGTAAAATCACCAGCATAT
1 CAGCAACATTATCCACTCCATAAAATGTTGAAAAATCACCAGCATAT
30706419 CATCAACAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.28
Consensus pattern (51 bp):
CAGCAACATTATCCACTCCATAAAATGTTGAAAAATCACCAGCATATTCGT
Found at i:30708368 original size:12 final size:13
Alignment explanation
Indices: 30708344--30708369 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30708334 AAAAGAGAAG
30708344 AAATTCAAAAAAA
1 AAATTCAAAAAAA
30708357 AAATTCAAAAAAA
1 AAATTCAAAAAAA
30708370 TCAAATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATTCAAAAAAA
Found at i:30709466 original size:18 final size:18
Alignment explanation
Indices: 30709440--30709498 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
30709430 AAATTGAAAG
* *
30709440 AAAACAAAAAGAAAACGA
1 AAAAGAAAAAGAAATCGA
* *
30709458 AAAAGAAAAAGAAATTGC
1 AAAAGAAAAAGAAATCGA
30709476 AAAAGAAAAAGAAATCGA
1 AAAAGAAAAAGAAATCGA
30709494 AAAAG
1 AAAAG
30709499 TGAGAGAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.73, C:0.07, G:0.15, T:0.05
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCGA
Found at i:30709468 original size:6 final size:6
Alignment explanation
Indices: 30709436--30709528 Score: 62
Period size: 6 Copynumber: 15.3 Consensus size: 6
30709426 AAAGAAATTG
* * ** *
30709436 AAAG-A AAACAA AAAGAA AACGAA AAAGAA AAAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** ** * *
30709483 AAAGAA ATCGAA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA
30709529 TTGAAAAGGA
Statistics
Matches: 63, Mismatches: 22, Indels: 5
0.70 0.24 0.06
Matches are distributed among these distances:
5 3 0.05
6 54 0.86
7 2 0.03
8 4 0.06
ACGTcount: A:0.72, C:0.04, G:0.18, T:0.05
Consensus pattern (6 bp):
AAAGAA
Found at i:30709559 original size:18 final size:18
Alignment explanation
Indices: 30709528--30709562 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30709518 AGAAAAGAAA
**
30709528 ATTGAAAAGGAAATTGAG
1 ATTGAAAAAAAAATTGAG
30709546 ATTGAAAAAAAAATTGA
1 ATTGAAAAAAAAATTGA
30709563 AAAAGAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAAAAAAAAATTGAG
Found at i:30709570 original size:18 final size:18
Alignment explanation
Indices: 30709549--30709588 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
30709539 AATTGAGATT
30709549 GAAAAAAAAATTGAAAAA
1 GAAAAAAAAATTGAAAAA
* **
30709567 GAAAAAGATGTTGAAAAA
1 GAAAAAAAAATTGAAAAA
30709585 GAAA
1 GAAA
30709589 CGAGAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.12
Consensus pattern (18 bp):
GAAAAAAAAATTGAAAAA
Found at i:30709581 original size:30 final size:30
Alignment explanation
Indices: 30709462--30709584 Score: 83
Period size: 30 Copynumber: 4.2 Consensus size: 30
30709452 AAACGAAAAA
* * * *
30709462 GAAAAAGAAATTGCAAAAGAAAAAGAAATC
1 GAAAAAAAAATTGAAAAAGAAAAAGAGATT
*** ** *
30709492 GAAAAAGTGAGAGAAAAAGAAAATGA-A--
1 GAAAAAAAAATTGAAAAAGAAAAAGAGATT
* * **
30709519 GAAAAGAAAATTGAAAAGGAAATTGAGATT
1 GAAAAAAAAATTGAAAAAGAAAAAGAGATT
30709549 GAAAAAAAAATTGAAAAAGAAAAAGATG-TT
1 GAAAAAAAAATTGAAAAAGAAAAAGA-GATT
30709579 GAAAAA
1 GAAAAA
30709585 GAAACGAGAA
Statistics
Matches: 71, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
27 18 0.25
28 1 0.01
29 1 0.01
30 50 0.70
31 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.20, T:0.13
Consensus pattern (30 bp):
GAAAAAAAAATTGAAAAAGAAAAAGAGATT
Found at i:30711520 original size:20 final size:20
Alignment explanation
Indices: 30711495--30711541 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
30711485 AGCTCGTTTC
30711495 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCGAGCTCAAGT
* * * *
30711515 CAGCTCATTCGAGTTGAATT
1 CAGCTCACTCGAGCTCAAGT
30711535 CAGCTCA
1 CAGCTCA
30711542 ACCTCAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (20 bp):
CAGCTCACTCGAGCTCAAGT
Found at i:30713678 original size:41 final size:41
Alignment explanation
Indices: 30713583--30713843 Score: 249
Period size: 41 Copynumber: 6.4 Consensus size: 41
30713573 TTGTACATAT
* *
30713583 GTGCCCCTATTTGTACTTTGGTA-CCCTGAATTGCACATAC
1 GTGCCCCTATTTGTACTTTGGTACCCCTGAATTACACAAAC
* * * * *
30713623 GTGCCACTAGTTGTACTTCGGTACCCCTAAATTGCACAAAC
1 GTGCCCCTATTTGTACTTTGGTACCCCTGAATTACACAAAC
*
30713664 ATGCCCCTATTTGTACTTTGGTACCCCTGAATTACACATAA-
1 GTGCCCCTATTTGTACTTTGGTACCCCTGAATTACACA-AAC
* * * *
30713705 GTGCCCCTGTTTGTACTTCGGTA-CCCTGAATTACACATAT
1 GTGCCCCTATTTGTACTTTGGTACCCCTGAATTACACAAAC
* * * *
30713745 GTGCCCCTAATTGTATTTTGGTACCCTTGAATTACACATAC
1 GTGCCCCTATTTGTACTTTGGTACCCCTGAATTACACAAAC
** * * * * * * * *
30713786 GTGCCTTTGTTCGTACTTTGGTGCCCTTGAAATGCACATAT
1 GTGCCCCTATTTGTACTTTGGTACCCCTGAATTACACAAAC
*
30713827 GTGCCCCTGTTTGTACT
1 GTGCCCCTATTTGTACT
30713844 CTGATAACTT
Statistics
Matches: 183, Mismatches: 34, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 53 0.29
41 127 0.69
42 2 0.01
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.35
Consensus pattern (41 bp):
GTGCCCCTATTTGTACTTTGGTACCCCTGAATTACACAAAC
Found at i:30713750 original size:81 final size:81
Alignment explanation
Indices: 30713566--30713843 Score: 344
Period size: 81 Copynumber: 3.4 Consensus size: 81
30713556 GTTAATTATT
* *
30713566 CCCTGAATTGTACATATGTGCCCCTATTTGTACTTTGGTA-CCCTGAATTGCACATACGTGCCAC
1 CCCTGAATTGCACATATGTGCCCCTATTTGTACTTTGGTACCCCTGAATTACACATACGTGCCAC
30713630 TAG-TTGTACTTCGGTA
66 T-GTTTGTACTTCGGTA
* * ** * *
30713646 CCCCTAAATTGCACAAACATGCCCCTATTTGTACTTTGGTACCCCTGAATTACACATAAGTGCCC
1 -CCCTGAATTGCACATATGTGCCCCTATTTGTACTTTGGTACCCCTGAATTACACATACGTGCCA
30713711 CTGTTTGTACTTCGGTA
65 CTGTTTGTACTTCGGTA
* * * * **
30713728 CCCTGAATTACACATATGTGCCCCTAATTGTATTTTGGTACCCTTGAATTACACATACGTGCCTT
1 CCCTGAATTGCACATATGTGCCCCTATTTGTACTTTGGTACCCCTGAATTACACATACGTGCCAC
* * *
30713793 TGTTCGTACTTTGGTG
66 TGTTTGTACTTCGGTA
* *
30713809 CCCTTGAAATGCACATATGTGCCCCTGTTTGTACT
1 CCC-TGAATTGCACATATGTGCCCCTATTTGTACT
30713844 CTGATAACTT
Statistics
Matches: 167, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
81 106 0.63
82 61 0.37
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (81 bp):
CCCTGAATTGCACATATGTGCCCCTATTTGTACTTTGGTACCCCTGAATTACACATACGTGCCAC
TGTTTGTACTTCGGTA
Found at i:30713802 original size:122 final size:122
Alignment explanation
Indices: 30713566--30713843 Score: 349
Period size: 122 Copynumber: 2.3 Consensus size: 122
30713556 GTTAATTATT
* * * *
30713566 CCCTGAATTGTACATATGTGCCCCTATTTGTACTTTGGTACCCTGAATTGCACATACGTGCCACT
1 CCCTGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCTGAATTACACATACGTGCCACT
* * *
30713631 AGTTGTACTTCGGTACCCCTAAATTGCACAAACATGCCCCTATTTGTACTTTGGTAC
66 AATTGTACTTCGGTACCCCTAAATTACACAAACATGCCCCTATTCGTACTTTGGTAC
* * * *
30713688 CCCTGAATTACACATAAGTGCCCCTGTTTGTACTTCGGTACCCTGAATTACACATATGTGCCCCT
1 CCCTGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCTGAATTACACATACGTGCCACT
* * * * * * ** * *
30713753 AATTGTATTTTGGTACCCTTGAATTACACATACGTGCCTTTGTTCGTACTTTGGTGC
66 AATTGTACTTCGGTACCCCTAAATTACACAAACATGCCCCTATTCGTACTTTGGTAC
* *
30713810 CCTTGAAATGCACATATGTGCCCCTGTTTGTACT
1 CCCTGAATTGCACATATGTGCCCCTGTTTGTACT
30713844 CTGATAACTT
Statistics
Matches: 131, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
122 131 1.00
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (122 bp):
CCCTGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCTGAATTACACATACGTGCCACT
AATTGTACTTCGGTACCCCTAAATTACACAAACATGCCCCTATTCGTACTTTGGTAC
Found at i:30722344 original size:22 final size:22
Alignment explanation
Indices: 30722319--30722387 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
30722309 CTAAGAGTCG
30722319 TAAACAGGATAGCTATAAGCTA
1 TAAACAGGATAGCTATAAGCTA
30722341 TAAACAGGATAGCTATAAGCTA
1 TAAACAGGATAGCTATAAGCTA
* * * *
30722363 TAAACAGAATGGCTAGAAGCCA
1 TAAACAGGATAGCTATAAGCTA
30722385 TAA
1 TAA
30722388 GTGTAGTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.20
Consensus pattern (22 bp):
TAAACAGGATAGCTATAAGCTA
Found at i:30722562 original size:32 final size:32
Alignment explanation
Indices: 30722393--30722645 Score: 215
Period size: 32 Copynumber: 7.9 Consensus size: 32
30722383 CATAAGTGTA
* * * * *
30722393 GTAATGTGATTGGCACAAAGCCACCAGTAGCA
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* **
30722425 GTGATATGATCATCACACAA-CCATCAGTAACG
1 GTAATATGATCGGCACA-AAGCCATCAGTAACG
* * ** *
30722457 GTAACATGATCGGCACAAAGCCATCAATGGCA
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* * * *
30722489 GTGATATGATCAGCACACAGCCATCAGTAACA
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* *
30722521 GTGAA-ATGATCGGCACACAGCCATC-GATAATG
1 GT-AATATGATCGGCACAAAGCCATCAG-TAACG
** *
30722553 GTAATATGATTAGTACAAAGCCATCAGTAACG
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* * *
30722585 GTACTATGATCGGTATAAAGCCATCAGTAACG
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* *
30722617 GTACTATGATCGACACAAAGCCATCAGTA
1 GTAATATGATCGGCACAAAGCCATCAGTA
30722646 GCATCGCAGC
Statistics
Matches: 176, Mismatches: 39, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
31 5 0.03
32 167 0.95
33 4 0.02
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (32 bp):
GTAATATGATCGGCACAAAGCCATCAGTAACG
Found at i:30722593 original size:96 final size:96
Alignment explanation
Indices: 30722405--30722645 Score: 238
Period size: 96 Copynumber: 2.5 Consensus size: 96
30722395 AATGTGATTG
* * * *
30722405 GCACAAAGCCACCAGTAGCAGTGATATGATC-ATCACACAACCATCAGTAACGGTAACATGATCG
1 GCACAAAGCCATCAGTAACAGTGATATGATCGA-CACACAGCCATCAGTAACGGTAACATGATCA
**
30722469 GCACAAAGCCATCAATGGCAGTGATATGATCA
65 GCACAAAGCCATCAATAACAGTGATATGATCA
* * * * * *
30722501 GCACACAGCCATCAGTAACAGTGAAATGATCGGCACACAGCCATC-GATAATGGTAATATGATTA
1 GCACAAAGCCATCAGTAACAGTGATATGATCGACACACAGCCATCAG-TAACGGTAACATGATCA
* * * *
30722565 GTACAAAGCCATCAGTAACGGT-ACTATGATCG
65 GCACAAAGCCATCAATAACAGTGA-TATGATCA
* * * *
30722597 GTATAAAGCCATCAGTAACGGT-ACTATGATCGACACAAAGCCATCAGTA
1 GCACAAAGCCATCAGTAACAGTGA-TATGATCGACACACAGCCATCAGTA
30722646 GCATCGCAGC
Statistics
Matches: 117, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
95 3 0.03
96 113 0.97
97 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (96 bp):
GCACAAAGCCATCAGTAACAGTGATATGATCGACACACAGCCATCAGTAACGGTAACATGATCAG
CACAAAGCCATCAATAACAGTGATATGATCA
Found at i:30722700 original size:26 final size:26
Alignment explanation
Indices: 30722648--30722701 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
30722638 CATCAGTAGC
* *
30722648 ATCGCAGCAAAGCTGCCAGCAACAGT
1 ATCGCAGCAAACCTGCCAACAACAGT
* *
30722674 ATCGCAGCAAACCTGCCAATAATAGT
1 ATCGCAGCAAACCTGCCAACAACAGT
30722700 AT
1 AT
30722702 ATGTGGCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.17
Consensus pattern (26 bp):
ATCGCAGCAAACCTGCCAACAACAGT
Found at i:30722977 original size:27 final size:27
Alignment explanation
Indices: 30722935--30723200 Score: 336
Period size: 27 Copynumber: 9.9 Consensus size: 27
30722925 TTACTCACCA
** *
30722935 GGGCATTACAATCATTTTACCTTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
*
30722962 GGGTATTACGGTCATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
* * *
30722989 GAGCATTACGGTCATTTTACCCTATAA
1 GGGCATTACGGTCATTTTACCCTACAG
*
30723016 GGGCATTACGGTCATTTTACCCTATAG
1 GGGCATTACGGTCATTTTACCCTACAG
*
30723043 GGGCATTACGGTCATTTTACCCTATAG
1 GGGCATTACGGTCATTTTACCCTACAG
* *
30723070 GGGCATTACAGTTATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTACAG
* *
30723097 GGGCATTACGGCCATTTTACCCTACAA
1 GGGCATTACGGTCATTTTACCCTACAG
** *
30723124 GGGCATTACGACCATTTTACCCTATAG
1 GGGCATTACGGTCATTTTACCCTACAG
*
30723151 GGGCATTACGGTCATTTTACCC-ATCAA
1 GGGCATTACGGTCATTTTACCCTA-CAG
* **
30723178 GGGTATTTTGGTCATTTTACCCT
1 GGGCATTACGGTCATTTTACCCT
30723201 TCGGGAGTAT
Statistics
Matches: 210, Mismatches: 27, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.00
27 209 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (27 bp):
GGGCATTACGGTCATTTTACCCTACAG
Found at i:30724634 original size:25 final size:25
Alignment explanation
Indices: 30724606--30724662 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
30724596 AGCTCTTCCT
30724606 AGCTGAATA-ATGGTAAGCTCATACA-
1 AGCTGAATATA-GGTAAGCTCATA-AG
*
30724631 AGCTGAGTATAGGTAAGCTCATAAG
1 AGCTGAATATAGGTAAGCTCATAAG
30724656 AGCTGAA
1 AGCTGAA
30724663 ACCGGTAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 1 0.04
25 26 0.93
26 1 0.04
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (25 bp):
AGCTGAATATAGGTAAGCTCATAAG
Found at i:30731166 original size:18 final size:18
Alignment explanation
Indices: 30731113--30731168 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 18
30731103 AACCCAAGGA
*
30731113 CTATTGAAGTACTCGAAGC
1 CTATTCAAGTACTC-AAGC
*
30731132 CGGTATTTAAG-AGCTCAAGC
1 C--TATTCAAGTA-CTCAAGC
30731152 CTATTCAAGTACTCAAG
1 CTATTCAAGTACTCAAG
30731169 GCAGCACTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
18 13 0.42
19 2 0.06
20 6 0.19
21 10 0.32
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (18 bp):
CTATTCAAGTACTCAAGC
Found at i:30736719 original size:11 final size:11
Alignment explanation
Indices: 30736703--30736767 Score: 66
Period size: 10 Copynumber: 6.2 Consensus size: 11
30736693 AGTAGATTCG
30736703 TGAAAAAAAAT
1 TGAAAAAAAAT
30736714 TG-AAAAAAA-
1 TGAAAAAAAAT
* *
30736723 TCAAAAAAATTT
1 TGAAAAAAA-AT
30736735 TGAAAAAAAA-
1 TGAAAAAAAAT
*
30736745 T-CAAAAAAAT
1 TGAAAAAAAAT
30736755 TGAAAAAAAAT
1 TGAAAAAAAAT
30736766 TG
1 TG
30736768 CATACAGTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
9 8 0.19
10 15 0.35
11 12 0.28
12 8 0.19
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.20
Consensus pattern (11 bp):
TGAAAAAAAAT
Found at i:30736731 original size:21 final size:20
Alignment explanation
Indices: 30736705--30736763 Score: 84
Period size: 20 Copynumber: 2.9 Consensus size: 20
30736695 TAGATTCGTG
30736705 AAAAAAAATTGAAAAAAATC
1 AAAAAAAATTGAAAAAAATC
*
30736725 AAAAAAATTTTGAAAAAAAATC
1 AAAAAAA-ATTG-AAAAAAATC
30736747 -AAAAAAATTGAAAAAAA
1 AAAAAAAATTGAAAAAAA
30736764 ATTGCATACA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 7 0.20
20 10 0.29
21 9 0.26
22 9 0.26
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (20 bp):
AAAAAAAATTGAAAAAAATC
Found at i:30736739 original size:32 final size:32
Alignment explanation
Indices: 30736703--30736763 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
30736693 AGTAGATTCG
*
30736703 TGAAAAAAAATTGAAAAAAA-TCAAAAAAATTT
1 TGAAAAAAAA-TCAAAAAAATTCAAAAAAATTT
*
30736735 TGAAAAAAAATCAAAAAAATTGAAAAAAA
1 TGAAAAAAAATCAAAAAAATTCAAAAAAA
30736764 ATTGCATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 8 0.31
32 18 0.69
ACGTcount: A:0.72, C:0.03, G:0.07, T:0.18
Consensus pattern (32 bp):
TGAAAAAAAATCAAAAAAATTCAAAAAAATTT
Found at i:30736764 original size:21 final size:20
Alignment explanation
Indices: 30736706--30736765 Score: 95
Period size: 22 Copynumber: 3.0 Consensus size: 20
30736696 AGATTCGTGA
30736706 AAAAAAATTG-AAAAAAATC
1 AAAAAAATTGAAAAAAAATC
30736725 AAAAAAATTTTGAAAAAAAATC
1 AAAAAAA--TTGAAAAAAAATC
30736747 AAAAAAATTGAAAAAAAAT
1 AAAAAAATTGAAAAAAAAT
30736766 TGCATACAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.18
20 12 0.32
21 3 0.08
22 16 0.42
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.18
Consensus pattern (20 bp):
AAAAAAATTGAAAAAAAATC
Found at i:30737574 original size:15 final size:15
Alignment explanation
Indices: 30737556--30737590 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
30737546 AAGAGGTCAA
30737556 AGGAACCGAGGTAAT
1 AGGAACCGAGGTAAT
30737571 AGGAACCGAGGTAAT
1 AGGAACCGAGGTAAT
30737586 AGGAA
1 AGGAA
30737591 TCAAAGACGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.34, T:0.11
Consensus pattern (15 bp):
AGGAACCGAGGTAAT
Found at i:30742821 original size:26 final size:26
Alignment explanation
Indices: 30742792--30742847 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
30742782 ATAGACTTAA
30742792 AGAGTGGCTACCATCAGATTAGAATG
1 AGAGTGGCTACCATCAGATTAGAATG
30742818 AGAGTGGCTACCATCAGATTAGAATG
1 AGAGTGGCTACCATCAGATTAGAATG
30742844 AGAG
1 AGAG
30742848 AAGGGGATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (26 bp):
AGAGTGGCTACCATCAGATTAGAATG
Found at i:30746645 original size:25 final size:24
Alignment explanation
Indices: 30746604--30746664 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 24
30746594 AAATGAGAGA
30746604 AAAAGAAAAGAGCAAAAATACA-AAAG
1 AAAAGAAAA-AGCAAAAA-A-AGAAAG
30746630 AAAAGAAAAATG-AAAAAAAGAAAG
1 AAAAGAAAAA-GCAAAAAAAGAAAG
30746654 AAAATGAAAAA
1 AAAA-GAAAAA
30746665 AAATAAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
23 1 0.03
24 9 0.28
25 12 0.38
26 10 0.31
ACGTcount: A:0.77, C:0.03, G:0.15, T:0.05
Consensus pattern (24 bp):
AAAAGAAAAAGCAAAAAAAGAAAG
Found at i:30746646 original size:18 final size:18
Alignment explanation
Indices: 30746602--30746664 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 18
30746592 TCAAATGAGA
30746602 GAAAAAGAAAAGAGCAAAAAT
1 GAAAAAG-AAA-AG-AAAAAT
30746623 -ACAAAAGAAAAGAAAAAT
1 GA-AAAAGAAAAGAAAAAT
*
30746641 GAAAAAAAGAAAG-AAAAT
1 GAAAAAGA-AAAGAAAAAT
30746659 GAAAAA
1 GAAAAA
30746665 AAATAAAATG
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
18 22 0.58
19 7 0.18
20 4 0.11
21 5 0.13
ACGTcount: A:0.76, C:0.03, G:0.16, T:0.05
Consensus pattern (18 bp):
GAAAAAGAAAAGAAAAAT
Found at i:30746646 original size:26 final size:23
Alignment explanation
Indices: 30746604--30746672 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 23
30746594 AAATGAGAGA
*
30746604 AAAAGAAAAGAGCAAAAATACAAAAG
1 AAAAGAAAA-AG-AAAAA-AAAAAAG
*
30746630 AAAAGAAAAATGAAAAAAAGAAAG
1 AAAAGAAAAA-GAAAAAAAAAAAG
*
30746654 AAAATGAAAAA-AAATAAAA
1 AAAA-GAAAAAGAAAAAAAA
30746673 TGAAAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 6 0.16
24 9 0.24
25 12 0.32
26 10 0.27
ACGTcount: A:0.78, C:0.03, G:0.13, T:0.06
Consensus pattern (23 bp):
AAAAGAAAAAGAAAAAAAAAAAG
Found at i:30746667 original size:20 final size:20
Alignment explanation
Indices: 30746625--30746666 Score: 70
Period size: 18 Copynumber: 2.2 Consensus size: 20
30746615 GCAAAAATAC
30746625 AAAAGAAAAGAAAAATGAAA
1 AAAAGAAAAGAAAAATGAAA
30746645 AAAAG-AAAG-AAAATGAAA
1 AAAAGAAAAGAAAAATGAAA
30746663 AAAA
1 AAAA
30746667 ATAAAATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 13 0.59
19 4 0.18
20 5 0.23
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (20 bp):
AAAAGAAAAGAAAAATGAAA
Found at i:30746682 original size:15 final size:15
Alignment explanation
Indices: 30746625--30746683 Score: 64
Period size: 15 Copynumber: 3.6 Consensus size: 15
30746615 GCAAAAATAC
30746625 AAAAGAAAAGAAAAATG
1 AAAA-AAAAG-AAAATG
30746642 AAAAAAAGAAAGAAAATG
1 --AAAAA-AAAGAAAATG
*
30746660 AAAAAAAATAAAATG
1 AAAAAAAAGAAAATG
30746675 AAAAAAAAG
1 AAAAAAAAG
30746684 CGAGAAAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
15 17 0.46
16 5 0.14
18 7 0.19
19 8 0.22
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.07
Consensus pattern (15 bp):
AAAAAAAAGAAAATG
Found at i:30746711 original size:33 final size:35
Alignment explanation
Indices: 30746625--30746712 Score: 87
Period size: 34 Copynumber: 2.6 Consensus size: 35
30746615 GCAAAAATAC
30746625 AAAAGAAAA-GAAAAATG-AAAAAAAGAAAGAAAATG
1 AAAA-AAAATGAAAAA-GAAAAAAAAGAAAGAAAATG
* **
30746660 AAAAAAAAT-AAAATGAAAAAAAAGCGAGAAAA-G
1 AAAAAAAATGAAAAAGAAAAAAAAGAAAGAAAATG
*
30746693 -AAAAAGATGAAAAAGAAAAA
1 AAAAAAAATGAAAAAGAAAAA
30746713 GTGAGTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
32 7 0.16
33 12 0.27
34 22 0.49
35 4 0.09
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.06
Consensus pattern (35 bp):
AAAAAAAATGAAAAAGAAAAAAAAGAAAGAAAATG
Found at i:30751064 original size:41 final size:41
Alignment explanation
Indices: 30750952--30751189 Score: 219
Period size: 41 Copynumber: 5.8 Consensus size: 41
30750942 GTTAATTATT
* * * *
30750952 CCCTGAATTCCACATATGTGCCCATGTTTGTACTTTGGTA-
1 CCCTGAATTACACATATGTGCCCCTATTTGTACTTTGATAC
* * *
30750992 CCTTGAATTGCACATACGTGCCCCTGA-TTGTACTTTGATAC
1 CCCTGAATTACACATATGTGCCCCT-ATTTGTACTTTGATAC
* * *
30751033 CCCTGAACTACATATATGTGCCCCTATTTGTACTTTGGTAC
1 CCCTGAATTACACATATGTGCCCCTATTTGTACTTTGATAC
* * *
30751074 CCCTAAATTACACATATGTGCCCCTGTTTGTACTTCGATAC
1 CCCTGAATTACACATATGTGCCCCTATTTGTACTTTGATAC
* * * * * * *
30751115 CCTTGAATTGCACATACGTGCCCCTAATTATACTTCGGTAC
1 CCCTGAATTACACATATGTGCCCCTATTTGTACTTTGATAC
* * ** * *
30751156 CTCTGAATTGCACATACATGCCCTTATTTATACT
1 CCCTGAATTACACATATGTGCCCCTATTTGTACT
30751190 CCGATAACTT
Statistics
Matches: 164, Mismatches: 31, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
40 34 0.21
41 130 0.79
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.35
Consensus pattern (41 bp):
CCCTGAATTACACATATGTGCCCCTATTTGTACTTTGATAC
Found at i:30751136 original size:82 final size:82
Alignment explanation
Indices: 30750952--30751178 Score: 276
Period size: 82 Copynumber: 2.8 Consensus size: 82
30750942 GTTAATTATT
* * * *
30750952 CCCTGAATTCCACATATGTGCCCATGTTTGTACTTTGGTA-CCTTGAATTGCACATACGTGCCCC
1 CCCTGAATTACACATATGTGCCCCTATTTGTACTTTGGTACCCCTGAATTGCACATACGTGCCCC
*
30751016 TGATTGTACTTTGATAC
66 TGATTGTACTTCGATAC
* * * * *
30751033 CCCTGAACTACATATATGTGCCCCTATTTGTACTTTGGTACCCCTAAATTACACATATGTGCCCC
1 CCCTGAATTACACATATGTGCCCCTATTTGTACTTTGGTACCCCTGAATTGCACATACGTGCCCC
*
30751098 TGTTTGTACTTCGATAC
66 TGATTGTACTTCGATAC
* * * * * * * *
30751115 CCTTGAATTGCACATACGTGCCCCTAATTATACTTCGGTACCTCTGAATTGCACATACATGCCC
1 CCCTGAATTACACATATGTGCCCCTATTTGTACTTTGGTACCCCTGAATTGCACATACGTGCCC
30751179 TTATTTATAC
Statistics
Matches: 121, Mismatches: 24, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
81 35 0.29
82 86 0.71
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (82 bp):
CCCTGAATTACACATATGTGCCCCTATTTGTACTTTGGTACCCCTGAATTGCACATACGTGCCCC
TGATTGTACTTCGATAC
Found at i:30751184 original size:123 final size:122
Alignment explanation
Indices: 30750952--30751189 Score: 314
Period size: 123 Copynumber: 1.9 Consensus size: 122
30750942 GTTAATTATT
* * * *
30750952 CCCTGAATTCCACATATGTGCCCATGTTTGTACTTTGGTACCTTGAATTGCACATACGTGCCCCT
1 CCCTAAATTACACATATGTGCCCATGTTTGTACTTCGATACCTTGAATTGCACATACGTGCCCCT
* * * * ** *
30751017 GATTGTACTTTGATACCCCTGAACTACATATATGTGCCCCTATTTGTACTTTGGTAC
66 AATTATACTTCGATACCCCTGAACTACACATACATGCCCCTATTTATACTTTGGTAC
*
30751074 CCCTAAATTACACATATGTGCCCCTGTTTGTACTTCGATACCCTTGAATTGCACATACGTGCCCC
1 CCCTAAATTACACATATGTGCCCATGTTTGTACTTCGATA-CCTTGAATTGCACATACGTGCCCC
* * * * *
30751139 TAATTATACTTCGGTACCTCTGAATTGCACATACATGCCCTTATTTATACT
65 TAATTATACTTCGATACCCCTGAACTACACATACATGCCCCTATTTATACT
30751190 CCGATAACTT
Statistics
Matches: 98, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
122 35 0.36
123 63 0.64
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.35
Consensus pattern (122 bp):
CCCTAAATTACACATATGTGCCCATGTTTGTACTTCGATACCTTGAATTGCACATACGTGCCCCT
AATTATACTTCGATACCCCTGAACTACACATACATGCCCCTATTTATACTTTGGTAC
Found at i:30751195 original size:82 final size:82
Alignment explanation
Indices: 30750955--30751204 Score: 261
Period size: 82 Copynumber: 3.1 Consensus size: 82
30750945 AATTATTCCC
* * * *
30750955 TGAATTCCACATATGTGCCCATGTTTGTACTTTGGTACCT-TGAATTGCACATACGTGCCCCTGA
1 TGAATTACACATATGTGCCCCTATTTGTACTTTGGTACCTCTGAATTGCACATACGTG-CCCTTA
* *
30751019 -TTGTACTTTGATACCCC
65 TTTGTACTTCGATACCCT
* * * * * * * *
30751036 TGAACTACATATATGTGCCCCTATTTGTACTTTGGTACCCCTAAATTACACATATGTGCCCCTGT
1 TGAATTACACATATGTGCCCCTATTTGTACTTTGGTACCTCTGAATTGCACATACGTGCCCTTAT
30751101 TTGTACTTCGATACCCT
66 TTGTACTTCGATACCCT
* * * * * *
30751118 TGAATTGCACATACGTGCCCCTAATTATACTTCGGTACCTCTGAATTGCACATACATGCCCTTAT
1 TGAATTACACATATGTGCCCCTATTTGTACTTTGGTACCTCTGAATTGCACATACGTGCCCTTAT
* * * *
30751183 TTATACTCCGATAACTT
66 TTGTACTTCGATACCCT
30751200 TGAAT
1 TGAAT
30751205 CGAGTACAAT
Statistics
Matches: 135, Mismatches: 32, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
81 37 0.27
82 98 0.73
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (82 bp):
TGAATTACACATATGTGCCCCTATTTGTACTTTGGTACCTCTGAATTGCACATACGTGCCCTTAT
TTGTACTTCGATACCCT
Found at i:30751204 original size:41 final size:41
Alignment explanation
Indices: 30751117--30751204 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
30751107 TTCGATACCC
* * * *
30751117 TTGAATTGCACATACGTGCCCCTAATTATACTTCGGTACCT
1 TTGAATTGCACATACATGCCCCTAATTATACTCCGATAACT
* * *
30751158 CTGAATTGCACATACATGCCCTTATTTATACTCCGATAACT
1 TTGAATTGCACATACATGCCCCTAATTATACTCCGATAACT
30751199 TTGAAT
1 TTGAAT
30751205 CGAGTACAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.35
Consensus pattern (41 bp):
TTGAATTGCACATACATGCCCCTAATTATACTCCGATAACT
Found at i:30753436 original size:17 final size:16
Alignment explanation
Indices: 30753380--30753440 Score: 70
Period size: 16 Copynumber: 3.8 Consensus size: 16
30753370 GAATGCTAAT
**
30753380 GATTTAGGGATTTCGG
1 GATTTAGGGATTTCAA
30753396 GATTT-GAGGATTTCAA
1 GATTTAG-GGATTTCAA
*
30753412 GATTTAGGGATTTTAA
1 GATTTAGGGATTTCAA
30753428 GATTTTAGGGATT
1 GA-TTTAGGGATT
30753441 CAATGAAGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
15 1 0.03
16 27 0.69
17 11 0.28
ACGTcount: A:0.26, C:0.03, G:0.30, T:0.41
Consensus pattern (16 bp):
GATTTAGGGATTTCAA
Found at i:30753483 original size:16 final size:16
Alignment explanation
Indices: 30753464--30753522 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
30753454 AAATGTTATG
30753464 GATTTGGGAATTTCAC
1 GATTTGGGAATTTCAC
*
30753480 GATTTGGGGAATTTGAC
1 GATTT-GGGAATTTCAC
* * *
30753497 GAGTTGGGGATTTTA-
1 GATTTGGGAATTTCAC
30753512 GAATTTGGGAA
1 G-ATTTGGGAA
30753523 AAAAGTTTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
15 1 0.03
16 20 0.57
17 14 0.40
ACGTcount: A:0.25, C:0.05, G:0.34, T:0.36
Consensus pattern (16 bp):
GATTTGGGAATTTCAC
Found at i:30753491 original size:17 final size:17
Alignment explanation
Indices: 30753464--30753506 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
30753454 AAATGTTATG
30753464 GATTT-GGGAATTTCAC
1 GATTTGGGGAATTTCAC
*
30753480 GATTTGGGGAATTTGAC
1 GATTTGGGGAATTTCAC
*
30753497 GAGTTGGGGA
1 GATTTGGGGA
30753507 TTTTAGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.23, C:0.07, G:0.37, T:0.33
Consensus pattern (17 bp):
GATTTGGGGAATTTCAC
Found at i:30754004 original size:17 final size:17
Alignment explanation
Indices: 30753982--30754016 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
30753972 AGGGTGTGAT
30753982 CTTGTAGGCTCTTGTAA
1 CTTGTAGGCTCTTGTAA
30753999 CTTGTAGGCTCTTGTAA
1 CTTGTAGGCTCTTGTAA
30754016 C
1 C
30754017 GTTAGTAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (17 bp):
CTTGTAGGCTCTTGTAA
Found at i:30758170 original size:15 final size:15
Alignment explanation
Indices: 30758146--30758179 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
30758136 CACACTTATT
30758146 TTCTCAATTTTTTTC
1 TTCTCAATTTTTTTC
*
30758161 TTCTCCATTTTTTTC
1 TTCTCAATTTTTTTC
30758176 TTCT
1 TTCT
30758180 TTTGCTTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.68
Consensus pattern (15 bp):
TTCTCAATTTTTTTC
Found at i:30760372 original size:18 final size:18
Alignment explanation
Indices: 30760349--30760392 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
30760339 TCCAACACTG
30760349 TTTTTTTTTGAAGTTTCA
1 TTTTTTTTTGAAGTTTCA
* *
30760367 TTTTTTTTTGAATTTTCG
1 TTTTTTTTTGAAGTTTCA
30760385 TTTTTTTT
1 TTTTTTTT
30760393 CAATACTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.11, C:0.05, G:0.09, T:0.75
Consensus pattern (18 bp):
TTTTTTTTTGAAGTTTCA
Found at i:30777418 original size:3 final size:3
Alignment explanation
Indices: 30777410--30777454 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
30777400 ATTTATCACA
30777410 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
30777455 CAATTTTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:30778375 original size:19 final size:18
Alignment explanation
Indices: 30778326--30778376 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
30778316 AAAGAAGTTT
* *
30778326 AAAATTAAAAAAAAAGTGG
1 AAAAATAAAAAAAAAAT-G
*
30778345 AAAAA-AACAAAAAAATG
1 AAAAATAAAAAAAAAATG
30778362 AAAAATAAAGAAAAA
1 AAAAATAAA-AAAAA
30778377 TTAAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 6 0.23
18 11 0.42
19 9 0.35
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (18 bp):
AAAAATAAAAAAAAAATG
Found at i:30779149 original size:41 final size:41
Alignment explanation
Indices: 30779092--30779199 Score: 189
Period size: 41 Copynumber: 2.6 Consensus size: 41
30779082 TTTAATATGT
* *
30779092 CGAATTTAATGCTGCCACTACATGTTATAAATGTGTCTGGA
1 CGAATTTAATGCTGCCACTACATGTTATAAATATGCCTGGA
30779133 CGAATTTAATGCTGCCACTACATGTTATAAATATGCCTGGA
1 CGAATTTAATGCTGCCACTACATGTTATAAATATGCCTGGA
*
30779174 CGAATTTAATGCTGCTACTACATGTT
1 CGAATTTAATGCTGCCACTACATGTT
30779200 TGGCCGAATT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (41 bp):
CGAATTTAATGCTGCCACTACATGTTATAAATATGCCTGGA
Found at i:30782032 original size:24 final size:24
Alignment explanation
Indices: 30782000--30782051 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
30781990 AAAAACAACA
* *
30782000 GCTTCTTTAATGCTGTCCATGCTT
1 GCTTCTTTAATGCCGTCCAGGCTT
30782024 GCTTCTTTAATGCCGTCCAGGCTT
1 GCTTCTTTAATGCCGTCCAGGCTT
30782048 GCTT
1 GCTT
30782052 TAGCAAAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.12, C:0.27, G:0.19, T:0.42
Consensus pattern (24 bp):
GCTTCTTTAATGCCGTCCAGGCTT
Found at i:30788890 original size:22 final size:22
Alignment explanation
Indices: 30788856--30788907 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
30788846 TTTTGATAAT
*
30788856 CTACG-AAACAAAGGAAAGTAA
1 CTACGTAAGCAAAGGAAAGTAA
30788877 CTACGTAAGCAAAGGAAAGTAA
1 CTACGTAAGCAAAGGAAAGTAA
*
30788899 CTACATAAG
1 CTACGTAAG
30788908 TAGCTCGTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.52, C:0.15, G:0.19, T:0.13
Consensus pattern (22 bp):
CTACGTAAGCAAAGGAAAGTAA
Found at i:30791136 original size:12 final size:11
Alignment explanation
Indices: 30791121--30791153 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
30791111 AAGAGGAAAT
30791121 TCGAAAAGAAAA
1 TCGAAAA-AAAA
30791133 TCG-AAAAAAA
1 TCGAAAAAAAA
30791143 TCGAAAAAAAA
1 TCGAAAAAAAA
30791154 GATTCAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 7 0.35
11 10 0.50
12 3 0.15
ACGTcount: A:0.70, C:0.09, G:0.12, T:0.09
Consensus pattern (11 bp):
TCGAAAAAAAA
Found at i:30792050 original size:6 final size:6
Alignment explanation
Indices: 30792041--30792169 Score: 51
Period size: 6 Copynumber: 21.0 Consensus size: 6
30792031 AACAAAAAAG
** ** ** ** *
30792041 AAGAAA AAGAAA AAGAAA GTGAAA AAGAAA AAGAGT GCGAGC GAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
* ** * ** ** *
30792089 ATGAAA AAGAAA TTGCAA AAGAAA AAGAAA TCGAAA AAGTGA GAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
* *
30792137 AAGAAA ATGAAGAA AAGAAA ATTGAAA AAGAAA
1 AAGAAA AAG-A-AA AAGAAA A-AGAAA AAGAAA
30792170 TTGAGATTGA
Statistics
Matches: 85, Mismatches: 35, Indels: 6
0.67 0.28 0.05
Matches are distributed among these distances:
6 74 0.87
7 7 0.08
8 4 0.05
ACGTcount: A:0.67, C:0.03, G:0.22, T:0.08
Consensus pattern (6 bp):
AAGAAA
Found at i:30792118 original size:30 final size:31
Alignment explanation
Indices: 30792084--30792201 Score: 85
Period size: 30 Copynumber: 4.0 Consensus size: 31
30792074 AGTGCGAGCG
*
30792084 AGAAAATGA-AAAAGAAATTGCAAAAGAAAA
1 AGAAAATGAGAAAAGAAATTGAAAAAGAAAA
*
30792114 AG-AAATCGA-AAAAG----TG--AGAGAAAA
1 AGAAAAT-GAGAAAAGAAATTGAAAAAGAAAA
*
30792138 AGAAAATGAAGAAAAGAAAATTGAAAAAGAAAT
1 AGAAAATG-AGAAAAG-AAATTGAAAAAGAAAA
* * *
30792171 TGAGATTGAGAAAA-AAATTGAAAAAGAAAA
1 AGAAAATGAGAAAAGAAATTGAAAAAGAAAA
30792201 A
1 A
30792202 AATGTTGAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
24 10 0.14
25 5 0.07
26 7 0.10
29 4 0.06
30 24 0.35
31 2 0.03
32 6 0.09
33 11 0.16
ACGTcount: A:0.67, C:0.02, G:0.19, T:0.12
Consensus pattern (31 bp):
AGAAAATGAGAAAAGAAATTGAAAAAGAAAA
Done.