Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 41 of 290
Found at i:13785105 original size:35 final size:36
Alignment explanation
Indices: 13785066--13785138 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 36
13785056 TAATATTTTA
13785066 AATGTATTTTAATCTATTATATAA-TTTTTTCTTGT
1 AATGTATTTTAATCTATTATATAATTTTTTTCTTGT
13785101 AATGTATTTTAATCTATTATATAATTTTTTTCTTGT
1 AATGTATTTTAATCTATTATATAATTTTTTTCTTGT
13785137 AA
1 AA
13785139 AATGTCCACC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 24 0.65
36 13 0.35
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (36 bp):
AATGTATTTTAATCTATTATATAATTTTTTTCTTGT
Found at i:13787152 original size:15 final size:15
Alignment explanation
Indices: 13787132--13787162 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13787122 AGTTCTTTAA
13787132 ATCCTAAAACTGTAC
1 ATCCTAAAACTGTAC
*
13787147 ATCCTAAAATTGTAC
1 ATCCTAAAACTGTAC
13787162 A
1 A
13787163 AGCTCTCGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (15 bp):
ATCCTAAAACTGTAC
Found at i:13788787 original size:93 final size:93
Alignment explanation
Indices: 13788628--13788800 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
13788618 CGCCCATAAG
* * *
13788628 CGAACTCGGACTCAACTCAACAAGCTCAGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCAGGCATTCGCATCCATAAGTGAACTCGAACTCAACTCA
13788693 ACGAGTTCGGATGCCTAGTCACATTTCA
66 ACGAGTTCGGATGCCTAGTCACATTTCA
* *
13788721 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGAACTCAACTC
1 CGAACTCGGACTCAACTCAACAAGCTCAGG-CATTCGCATCCATAAGTGAACTCGAACTCAACTC
13788785 AACGAGTTCGGATGCC
65 AACGAGTTCGGATGCC
13788801 CAAATATCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCAGGCATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCGGATGCCTAGTCACATTTCA
Found at i:13788796 original size:46 final size:45
Alignment explanation
Indices: 13788621--13788795 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
13788611 TGTAACCCGC
* * *
13788621 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCAGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCAT
* * *
13788667 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGC-CTAGT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A-T
*
13788712 CACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCAT
* *
13788760 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
13788796 ATGCCCAAAT
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 6 0.06
46 59 0.55
47 30 0.28
48 3 0.03
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
Found at i:13788815 original size:46 final size:44
Alignment explanation
Indices: 13788673--13788804 Score: 122
Period size: 47 Copynumber: 2.9 Consensus size: 44
13788663 GCATCCATAG
* *
13788673 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTCACATTTCA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--AACA--TCA
* * * ** *
13788721 -CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAA
1 GTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAACATCA
*
13788766 GTGAACTCGAACTCAACTCAACGAGTTCGGATGCCCAAA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAA
13788805 TATCCCAGTG
Statistics
Matches: 68, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
44 5 0.07
45 2 0.03
46 27 0.40
47 30 0.44
49 4 0.06
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (44 bp):
GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCA
Found at i:13790774 original size:61 final size:61
Alignment explanation
Indices: 13790679--13790864 Score: 363
Period size: 61 Copynumber: 3.0 Consensus size: 61
13790669 TATGAATAAA
13790679 GCCCACACAAAAGATAACTTCTTGCTAGCCTCAATTGATTGAATAGTGGATTCCCTGAATG
1 GCCCACACAAAAGATAACTTCTTGCTAGCCTCAATTGATTGAATAGTGGATTCCCTGAATG
13790740 GCCCACACAAAAGATAACTTCTTGCTAGCCTCAATTGATTGAATAGTGGATTCCCTGAATG
1 GCCCACACAAAAGATAACTTCTTGCTAGCCTCAATTGATTGAATAGTGGATTCCCTGAATG
*
13790801 GCCCACACAAAAGATAACTTCTTGCTAGCCTCAATTGATTGAATGGTGGATTCCCTGAATG
1 GCCCACACAAAAGATAACTTCTTGCTAGCCTCAATTGATTGAATAGTGGATTCCCTGAATG
13790862 GCC
1 GCC
13790865 ATGAATTTAT
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
61 124 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (61 bp):
GCCCACACAAAAGATAACTTCTTGCTAGCCTCAATTGATTGAATAGTGGATTCCCTGAATG
Found at i:13795577 original size:26 final size:26
Alignment explanation
Indices: 13795537--13795589 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
13795527 CGTTGTTGTT
13795537 CATCTTCCGAGGCATGAATATTCAAA
1 CATCTTCCGAGGCATGAATATTCAAA
*
13795563 CATCTTCCGATGCATGAATATTCAAA
1 CATCTTCCGAGGCATGAATATTCAAA
13795589 C
1 C
13795590 TCCTTATCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (26 bp):
CATCTTCCGAGGCATGAATATTCAAA
Found at i:13799556 original size:6 final size:6
Alignment explanation
Indices: 13799547--13799584 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
13799537 AAATAAAAAA
*
13799547 ATTTAT ATTTAT ATTTAT ATTTAG ATTTAT ATTTAT AT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT
13799585 ATTTTTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (6 bp):
ATTTAT
Found at i:13805552 original size:310 final size:311
Alignment explanation
Indices: 13804990--13805613 Score: 937
Period size: 310 Copynumber: 2.0 Consensus size: 311
13804980 ATCAAGGATA
* * *
13804990 TCCTATGAGGGTAACATAATTATGACAAGGACAGTGGACGAGCAATGAATAGTTACTTTCGTAAT
1 TCCTATGAGGGTAACACAATTATGACAAGGACAGTGGACAAGCAATGAATAGTTACTTTCATAAT
**
13805055 GGTATGTTGTTGGGGAAAGCTCAGTCACAATACTATAACGGAATGACTTCGTGACTAAATGAGAC
66 GGTATGTCATTGGGGAAAGCTCAGTCACAATACTATAACGGAATGACTTCGTGACTAAATGAGAC
** ** *
13805120 TATAATTTCTAGGCGAAATTTTGGAACTTAATTATAAATCATTTGAGTGCTAATTACATATATTC
131 TATAATTTCTAGGCGAAAAGTTAAAACTTAATTATAAATCATTTGAGCGCTAATTACATATATTC
* *
13805185 AATCGGTCTCTCCGCTAGCTCATTAAAACCATAAATGAATTGAGTGTTTGAATCAAAATGAACAG
196 AATCGGTCTCTCAGCTAGCTCATTAAAACCATAAATGAATTGAGTGTTTGAATCAAAATGAACAA
*
13805250 AATGAATAGAAATAGACAAATA-AAAAAAATCAAAAATAATTATGGTTTTC
261 AATGAATAGAAATAGACAAATAGAAAAAAATAAAAAATAATTATGGTTTTC
* * * * * *
13805300 TCCTATGAGGGTAACACACTTATGACAAGGACATTGGACAAGTACTGAGTAGTTGCTTTCATAAT
1 TCCTATGAGGGTAACACAATTATGACAAGGACAGTGGACAAGCAATGAATAGTTACTTTCATAAT
* * ** * **
13805365 GGTGTGTCATTGGGGAAAGCTCAGTCACGATACTATAGTGGAATGGCTTCGTGACTAAATGAGTT
66 GGTATGTCATTGGGGAAAGCTCAGTCACAATACTATAACGGAATGACTTCGTGACTAAATGAGAC
*
13805430 TATAATTTCTAGGTGAAAAGTTAAAACTTAATTATAAATCATTTGAGC-CGTAATTACATATATT
131 TATAATTTCTAGGCGAAAAGTTAAAACTTAATTATAAATCATTTGAGCGC-TAATTACATATATT
* * *
13805494 CAATCGGTCTCTCAGCTAGCTCGTTGAAACCATAAATGAATTGCGTGTTTGAATCAAAATGAACA
195 CAATCGGTCTCTCAGCTAGCTCATTAAAACCATAAATGAATTGAGTGTTTGAATCAAAATGAACA
* *
13805559 AAATGAATAGAAATAGACAAATAGAAAACATTAAAAAATAATTATGGTTTTC
260 AAATGAATAGAAATAGACAAATAGAAAAAAATAAAAAATAATTATGGTTTTC
13805611 TCC
1 TCC
13805614 GAAATGGTGA
Statistics
Matches: 280, Mismatches: 32, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
309 1 0.00
310 251 0.90
311 28 0.10
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (311 bp):
TCCTATGAGGGTAACACAATTATGACAAGGACAGTGGACAAGCAATGAATAGTTACTTTCATAAT
GGTATGTCATTGGGGAAAGCTCAGTCACAATACTATAACGGAATGACTTCGTGACTAAATGAGAC
TATAATTTCTAGGCGAAAAGTTAAAACTTAATTATAAATCATTTGAGCGCTAATTACATATATTC
AATCGGTCTCTCAGCTAGCTCATTAAAACCATAAATGAATTGAGTGTTTGAATCAAAATGAACAA
AATGAATAGAAATAGACAAATAGAAAAAAATAAAAAATAATTATGGTTTTC
Found at i:13805659 original size:28 final size:29
Alignment explanation
Indices: 13805603--13805655 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
13805593 AAAATAATTA
*
13805603 TGGTTTTCTCCGAAATGGTGAAATGAATG
1 TGGTTTTCTCCAAAATGGTGAAATGAATG
13805632 TGGTTTTCT-CAAAAT-G-GAAATGAA
1 TGGTTTTCTCCAAAATGGTGAAATGAA
13805656 AATGAGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
27 1 0.04
28 5 0.22
29 9 0.39
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (29 bp):
TGGTTTTCTCCAAAATGGTGAAATGAATG
Found at i:13806865 original size:14 final size:14
Alignment explanation
Indices: 13806846--13806873 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13806836 CAGTGGTGTA
13806846 GCCATCTCTGAGTC
1 GCCATCTCTGAGTC
13806860 GCCATCTCTGAGTC
1 GCCATCTCTGAGTC
13806874 CCTCACAGGA
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:0.14, C:0.36, G:0.21, T:0.29
Consensus pattern (14 bp):
GCCATCTCTGAGTC
Found at i:13807093 original size:36 final size:34
Alignment explanation
Indices: 13807022--13807093 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
13807012 GCAATTTCAG
*
13807022 TGTGGGCCTTAGCCCATTACAGTAGTATTAACAA
1 TGTGGGCCTTAGCCCATTACAGTAGTATCAACAA
*
13807056 TGTGGGCCTTAGCCCAATT-CAGTACAGTATCAGCAA
1 TGTGGGCCTTAGCCC-ATTACAGT--AGTATCAACAA
13807092 TG
1 TG
13807094 CATAAAGAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 19 0.58
35 3 0.09
36 11 0.33
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (34 bp):
TGTGGGCCTTAGCCCATTACAGTAGTATCAACAA
Found at i:13822739 original size:45 final size:45
Alignment explanation
Indices: 13822687--13822816 Score: 145
Period size: 45 Copynumber: 2.9 Consensus size: 45
13822677 ATACGCCTAG
13822687 AATGATTAAGACCATAGTTGAAAGACGCTATGGCATCATGATTA-A
1 AATGATTAAGACCATAGTTGAAAGACGCTATGGCATCATGA-TAGA
* * * ** * * *
13822732 GATGATTAGGACAATAGCCGAAAGATGTTATTGCATCATGATAGA
1 AATGATTAAGACCATAGTTGAAAGACGCTATGGCATCATGATAGA
* * *
13822777 AATTAGTAAGATCATAGTTGAAAGACGCTATGGCATCATG
1 AATGATTAAGACCATAGTTGAAAGACGCTATGGCATCATG
13822817 TGAAAGCAAG
Statistics
Matches: 65, Mismatches: 19, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
44 2 0.03
45 63 0.97
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.27
Consensus pattern (45 bp):
AATGATTAAGACCATAGTTGAAAGACGCTATGGCATCATGATAGA
Found at i:13828668 original size:45 final size:45
Alignment explanation
Indices: 13828617--13828705 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
13828607 ATATCGTAGC
13828617 ATCTTTCAGCTAAGGTCTTACACAATATAACCCCATGTTTACTAA
1 ATCTTTCAGCTAAGGTCTTACACAATATAACCCCATGTTTACTAA
*
13828662 ATCTTTCAGCTAAGGTCTTACATAATATAACCCCATGTTTACTA
1 ATCTTTCAGCTAAGGTCTTACACAATATAACCCCATGTTTACTA
13828706 CCCTGACGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.35
Consensus pattern (45 bp):
ATCTTTCAGCTAAGGTCTTACACAATATAACCCCATGTTTACTAA
Found at i:13829206 original size:35 final size:35
Alignment explanation
Indices: 13829167--13829237 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
13829157 TCTAGGATCA
*
13829167 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTACCAAG
*
13829202 CATATCTTTGAAGATCACTTTCCATATTTACCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTACCAAG
13829237 C
1 C
13829238 TTTGAAGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTACCAAG
Found at i:13836974 original size:45 final size:45
Alignment explanation
Indices: 13836891--13836988 Score: 142
Period size: 45 Copynumber: 2.2 Consensus size: 45
13836881 TTCGATCGGA
* * * * * *
13836891 GGCAACATGCCAAACATGAGTAAGACCATATCTGAAAGATGTTGT
1 GGCATCATGACAAAAATGAGTAAGACCATAGCTAAAAGATGTTAT
13836936 GGCATCATGACAAAAATGAGTAAGACCATAGCTAAAAGATGTTAT
1 GGCATCATGACAAAAATGAGTAAGACCATAGCTAAAAGATGTTAT
13836981 GGCATCAT
1 GGCATCAT
13836989 ATGATGATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.22
Consensus pattern (45 bp):
GGCATCATGACAAAAATGAGTAAGACCATAGCTAAAAGATGTTAT
Found at i:13837102 original size:26 final size:27
Alignment explanation
Indices: 13837047--13837102 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
13837037 TGGCGTCATA
* *
13837047 GATAGTCTGTCAAGACACTAAACACGG
1 GATAGTCTATCAAGACACAAAACACGG
*
13837074 GATAGTCTATCATGACA-AAAACACGG
1 GATAGTCTATCAAGACACAAAACACGG
13837100 GAT
1 GAT
13837103 TGTATTGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (27 bp):
GATAGTCTATCAAGACACAAAACACGG
Found at i:13840751 original size:23 final size:25
Alignment explanation
Indices: 13840707--13840753 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
13840697 CGTCCATACC
13840707 ATAGTCCGCAAATAATAACAATAAA
1 ATAGTCCGCAAATAATAACAATAAA
*
13840732 ATAGTCC-CAAA-AATACCAATAA
1 ATAGTCCGCAAATAATAACAATAA
13840754 TAAAGTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
24 4 0.19
25 7 0.33
ACGTcount: A:0.55, C:0.19, G:0.06, T:0.19
Consensus pattern (25 bp):
ATAGTCCGCAAATAATAACAATAAA
Found at i:13841169 original size:24 final size:23
Alignment explanation
Indices: 13841142--13841219 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 23
13841132 TGTGGTCAAA
*
13841142 CCACTCATTTACGTTATGGTCAAG
1 CCACTCA-TTACGTTATGGACAAG
*
13841166 CCACTCGTTAGCGTTGA-GGACAAG
1 CCACTCATTA-CGTT-ATGGACAAG
*
13841190 CCACCCA-TACTGTTATGGACAAG
1 CCACTCATTAC-GTTATGGACAAG
13841213 CCACTCA
1 CCACTCA
13841220 ATTTTTCAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
22 2 0.04
23 21 0.47
24 21 0.47
25 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.24
Consensus pattern (23 bp):
CCACTCATTACGTTATGGACAAG
Found at i:13851795 original size:16 final size:17
Alignment explanation
Indices: 13851757--13851815 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
13851747 TTTATAATTC
*
13851757 ATAA-ATAAATTTTAAA
1 ATAATATAAATTTTATA
13851773 ATAATATAAATTTTATA
1 ATAATATAAATTTTATA
13851790 AT-ATAT-AATATTTATA
1 ATAATATAAAT-TTTATA
*
13851806 AAAATATAAA
1 ATAATATAAA
13851816 GTGTTCAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
15 3 0.08
16 15 0.41
17 17 0.46
18 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATATAAATTTTATA
Found at i:13851797 original size:21 final size:21
Alignment explanation
Indices: 13851746--13851800 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
13851736 TAATAACCCT
13851746 TTTTATAAT-TCATAA-ATAAA
1 TTTTATAATAT-ATAATATAAA
13851766 -TTT-TAA-A-ATAATATAAA
1 TTTTATAATATATAATATAAA
13851783 TTTTATAATATATAATAT
1 TTTTATAATATATAATAT
13851801 TTATAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 11
0.73 0.00 0.28
Matches are distributed among these distances:
16 4 0.14
17 5 0.17
18 6 0.21
19 6 0.21
20 1 0.03
21 7 0.24
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTTATAATATATAATATAAA
Found at i:13853194 original size:66 final size:66
Alignment explanation
Indices: 13853114--13853307 Score: 388
Period size: 66 Copynumber: 2.9 Consensus size: 66
13853104 CCATCAACTA
13853114 GATCTATGGATTTTTTTTCATATATCAAAGTTTGAGAGATGATGATGATTTAATCATTAATCGGT
1 GATCTATGGATTTTTTTTCATATATCAAAGTTTGAGAGATGATGATGATTTAATCATTAATCGGT
13853179 T
66 T
13853180 GATCTATGGATTTTTTTTCATATATCAAAGTTTGAGAGATGATGATGATTTAATCATTAATCGGT
1 GATCTATGGATTTTTTTTCATATATCAAAGTTTGAGAGATGATGATGATTTAATCATTAATCGGT
13853245 T
66 T
13853246 GATCTATGGATTTTTTTTCATATATCAAAGTTTGAGAGATGATGATGATTTAATCATTAATC
1 GATCTATGGATTTTTTTTCATATATCAAAGTTTGAGAGATGATGATGATTTAATCATTAATC
13853308 ATAGGTTAAT
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 128 1.00
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.44
Consensus pattern (66 bp):
GATCTATGGATTTTTTTTCATATATCAAAGTTTGAGAGATGATGATGATTTAATCATTAATCGGT
T
Found at i:13855606 original size:2 final size:2
Alignment explanation
Indices: 13855599--13855625 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13855589 AGTTGTCTGA
13855599 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
13855626 ATGTTTGCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:13856154 original size:13 final size:14
Alignment explanation
Indices: 13856132--13856160 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
13856122 AAGTTTTGTC
13856132 TTTATCTTTATTTA
1 TTTATCTTTATTTA
13856146 TTTAT-TTTATTTA
1 TTTATCTTTATTTA
13856159 TT
1 TT
13856161 ATTAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATCTTTATTTA
Found at i:13856168 original size:16 final size:17
Alignment explanation
Indices: 13856138--13856170 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13856128 TGTCTTTATC
*
13856138 TTTATTTATTTATTTTA
1 TTTATTTATTAATTTTA
13856155 TTTA-TTATTAATTTTA
1 TTTATTTATTAATTTTA
13856171 AAAACTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATTTATTAATTTTA
Found at i:13856211 original size:23 final size:24
Alignment explanation
Indices: 13856184--13856246 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 24
13856174 ACTTGAAATG
13856184 TATATTTGAAATATTTTATAATATA
1 TATATTTGAAATATTTTA-AATATA
*
13856209 TAT-TTT-TAA-ATTTTAAATATA
1 TATATTTGAAATATTTTAAATATA
*
13856230 TATATTTGAAATTTTTT
1 TATATTTGAAATATTTT
13856247 TTCTAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
21 9 0.28
22 9 0.28
23 4 0.12
24 7 0.22
25 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (24 bp):
TATATTTGAAATATTTTAAATATA
Found at i:13856227 original size:21 final size:23
Alignment explanation
Indices: 13856184--13856244 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
13856174 ACTTGAAATG
13856184 TATATTTGAAATATTTTATAATATA
1 TATATTTG-AA-ATTTTATAATATA
*
13856209 TAT-TTTTAAATTTTA-AATATA
1 TATATTTGAAATTTTATAATATA
13856230 TATATTTGAAATTTT
1 TATATTTGAAATTTT
13856245 TTTTCTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 9 0.27
22 16 0.48
23 2 0.06
24 3 0.09
25 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (23 bp):
TATATTTGAAATTTTATAATATA
Found at i:13856269 original size:33 final size:33
Alignment explanation
Indices: 13856211--13856302 Score: 98
Period size: 34 Copynumber: 2.7 Consensus size: 33
13856201 ATAATATATA
*
13856211 TTTTTAAATTTTAAATATATATATTTGAAATTT-T
1 TTTTTAAATTTTAAA-A-ATTTATTTGAAATTTAT
**
13856245 TTTTCTAAATTTTAAAAATTTATTTTTAATTTAT
1 TTTT-TAAATTTTAAAAATTTATTTGAAATTTAT
*
13856279 TTTTAAAAATTTTAAAAA-TTATTT
1 TTTT-TAAATTTTAAAAATTTATTT
13856303 TTAAATATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
33 18 0.35
34 22 0.43
35 11 0.22
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (33 bp):
TTTTTAAATTTTAAAAATTTATTTGAAATTTAT
Found at i:13856303 original size:33 final size:31
Alignment explanation
Indices: 13856195--13856306 Score: 107
Period size: 33 Copynumber: 3.3 Consensus size: 31
13856185 ATATTTGAAA
13856195 TATTTTATAATATATATTTTTAAATTTTAAATATAT
1 TATTTT-TAAT-T-TATTTTTAAATTTTAAA-A-AT
** *
13856231 ATATTTGAAATTTTTTTTCTAAATTTTAAAAATT
1 -TATTTTTAATTTATTTT-TAAATTTTAAAAA-T
13856265 TATTTTTAATTTATTTTTAAAAATTTTAAAAAT
1 TATTTTTAATTTATTTTT--AAATTTTAAAAAT
13856298 TATTTTTAA
1 TATTTTTAA
13856307 ATATTAAATA
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
32 1 0.02
33 25 0.38
34 19 0.29
35 12 0.18
36 3 0.05
37 5 0.08
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (31 bp):
TATTTTTAATTTATTTTTAAATTTTAAAAAT
Found at i:13856308 original size:20 final size:21
Alignment explanation
Indices: 13856275--13856336 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 21
13856265 TATTTTTAAT
*
13856275 TTATTTTTAAAAATTTTAAAAA
1 TTATTTTT-AAAATATTAAAAA
*
13856297 TTATTTTT-AAATATTAAATA
1 TTATTTTTAAAATATTAAAAA
13856317 -TATTTTTTAATAATA-TAAAA
1 TTA-TTTTTAA-AATATTAAAA
13856337 CATTTAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 2 0.06
20 15 0.44
21 5 0.15
22 12 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATTTTTAAAATATTAAAAA
Found at i:13856459 original size:23 final size:21
Alignment explanation
Indices: 13856404--13856477 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
13856394 TAAATGTAAA
* *
13856404 TTTT-AATTTGTTTTATACTT
1 TTTTAAATTTATTTTATAATT
*
13856424 TTTTTAATTTATTTTATAATT
1 TTTTAAATTTATTTTATAATT
13856445 TTTTAAATATATATTTTA-AATAT
1 TTTTAAAT-T-TATTTTATAAT-T
13856468 TTTTAAATTT
1 TTTTAAATTT
13856478 TAAATATAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
20 4 0.09
21 22 0.47
22 5 0.11
23 16 0.34
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (21 bp):
TTTTAAATTTATTTTATAATT
Found at i:13856489 original size:24 final size:25
Alignment explanation
Indices: 13856462--13856524 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 25
13856452 TATATATTTT
13856462 AAATATTTTTAAATT-TTAAATATA
1 AAATATTTTTAAATTATTAAATATA
* *
13856486 AAAT-TTTTATAAATTATTAATTTTA
1 AAATATTTT-TAAATTATTAAATATA
*
13856511 AAATTAATTTTAAA
1 AAA-TATTTTTAAA
13856525 GATATTCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 4 0.12
24 10 0.31
25 10 0.31
26 5 0.16
27 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
AAATATTTTTAAATTATTAAATATA
Found at i:13856748 original size:22 final size:24
Alignment explanation
Indices: 13856722--13856780 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 24
13856712 TTAGAAAAAT
13856722 AATTTCAAATATATATATT-T-AA
1 AATTTCAAATATATATATTATAAA
*
13856744 AATTTTAAA-ACTATATATTATAAA
1 AATTTCAAATA-TATATATTATAAA
13856768 ATATTTCAAATAT
1 A-ATTTCAAATAT
13856781 GCATTTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 1 0.03
22 16 0.53
23 1 0.03
24 3 0.10
25 8 0.27
26 1 0.03
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (24 bp):
AATTTCAAATATATATATTATAAA
Found at i:13856876 original size:29 final size:31
Alignment explanation
Indices: 13856805--13856876 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 31
13856795 TTAAAATTAA
*
13856805 TAATAAAAAAATAAAGACAAAACTTAAAAAAAG
1 TAATAAAAAAAT--AGACAAAACGTAAAAAAAG
*
13856838 TAA-AAGAAAAT-GACAAAA-GTAAAAAAAG
1 TAATAAAAAAATAGACAAAACGTAAAAAAAG
13856866 TAATAAAAAAA
1 TAATAAAAAAA
13856877 CAATGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
28 12 0.34
29 13 0.37
32 7 0.20
33 3 0.09
ACGTcount: A:0.74, C:0.04, G:0.08, T:0.14
Consensus pattern (31 bp):
TAATAAAAAAATAGACAAAACGTAAAAAAAG
Found at i:13857087 original size:29 final size:28
Alignment explanation
Indices: 13857019--13857099 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 28
13857009 ATTTTTACTG
* *
13857019 TAAATTTTAAGTTATTTTCATATTTAAT
1 TAAATTTTAAGTTATTTTAATAATTAAT
*** *
13857047 TAAAAAAATAAGTCATTTTAATAATTAAT
1 T-AAATTTTAAGTTATTTTAATAATTAAT
13857076 TAAATTTTTAAGTTATTTTAATAA
1 TAAA-TTTTAAGTTATTTTAATAA
13857100 AAAAAAACCT
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
28 4 0.10
29 37 0.90
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (28 bp):
TAAATTTTAAGTTATTTTAATAATTAAT
Found at i:13857534 original size:31 final size:29
Alignment explanation
Indices: 13857499--13857608 Score: 91
Period size: 30 Copynumber: 3.7 Consensus size: 29
13857489 ATTTTTTAAA
13857499 ATTTTAAAAATTCAAAAAATATATAAGAATT
1 ATTTTAAAAATT-AAAAAATATATAA-AATT
*
13857530 ATTTTTAAAAAGATTAAAAATTAT-TAAAATT
1 A-TTTT-AAAA-ATTAAAAAATATATAAAATT
* *
13857561 ATTTAAAAAAGTATAAAAAATATAT-ATATT
1 ATTTTAAAAA-T-TAAAAAATATATAAAATT
**
13857591 -TTTTAAATTTTAAAAAAT
1 ATTTTAAAAATTAAAAAAT
13857609 TAATTAAATG
Statistics
Matches: 66, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
27 8 0.12
28 2 0.03
29 11 0.17
30 16 0.24
31 7 0.11
32 7 0.11
33 12 0.18
34 3 0.05
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (29 bp):
ATTTTAAAAATTAAAAAATATATAAAATT
Found at i:13857730 original size:22 final size:22
Alignment explanation
Indices: 13857702--13857748 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
13857692 ATGATTTGAA
* * *
13857702 AAAAAATACAAATTTAAGAATT
1 AAAAAATAAAAAATTAAAAATT
13857724 AAAAAATAAAAAATTAAAAATT
1 AAAAAATAAAAAATTAAAAATT
13857746 AAA
1 AAA
13857749 CGAAAGGCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (22 bp):
AAAAAATAAAAAATTAAAAATT
Found at i:13858304 original size:17 final size:18
Alignment explanation
Indices: 13858282--13858315 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
13858272 GGCATTTTTT
13858282 TTTTTAGTTTT-ACTTTA
1 TTTTTAGTTTTAACTTTA
13858299 TTTTTAGTTTTAACTTT
1 TTTTTAGTTTTAACTTT
13858316 TAAATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTTTAGTTTTAACTTTA
Found at i:13858972 original size:21 final size:21
Alignment explanation
Indices: 13858952--13858998 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 21
13858942 AATAAAATAT
13858952 TTAAAATCTATA-A-TTTTATA
1 TTAAAAT-TATATATTTTTATA
*
13858972 TTAATATTATATATTTTTATAA
1 TTAAAATTATATATTTTTAT-A
13858994 TTAAA
1 TTAAA
13858999 TTTAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.18
20 7 0.32
21 6 0.27
22 5 0.23
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAAAATTATATATTTTTATA
Found at i:13859918 original size:15 final size:14
Alignment explanation
Indices: 13859892--13859938 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 14
13859882 TTTTTAATTA
13859892 TTTTGAATTTTATTT
1 TTTTG-ATTTTATTT
13859907 TGTTTGATTTTATTT
1 T-TTTGATTTTATTT
*
13859922 TTTTCATTATTATTT
1 TTTTGATT-TTATTT
13859937 TT
1 TT
13859939 AAATGGCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 6 0.21
15 19 0.66
16 4 0.14
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.74
Consensus pattern (14 bp):
TTTTGATTTTATTT
Found at i:13860055 original size:24 final size:25
Alignment explanation
Indices: 13860028--13860075 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
13860018 ATCATTTAAT
13860028 TTTAAA-TAGTTAA-TTATTATGTTG
1 TTTAAATTA-TTAATTTATTATGTTG
*
13860052 TTTAAATTATTAATTTTTTATGTT
1 TTTAAATTATTAATTTATTATGTT
13860076 TATATACTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.60
Consensus pattern (25 bp):
TTTAAATTATTAATTTATTATGTTG
Found at i:13872210 original size:17 final size:17
Alignment explanation
Indices: 13872188--13872221 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13872178 TAGCTGCAAA
13872188 TACTTTTGAACTGAAAC
1 TACTTTTGAACTGAAAC
13872205 TACTTTTGAACTGAAAC
1 TACTTTTGAACTGAAAC
13872222 CTAACACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (17 bp):
TACTTTTGAACTGAAAC
Found at i:13874890 original size:55 final size:55
Alignment explanation
Indices: 13874831--13874980 Score: 237
Period size: 55 Copynumber: 2.7 Consensus size: 55
13874821 GGCCGTGGTC
* * ** * *
13874831 GAACCTGCCAAAACAACACGGGGGCGAGACACGCCCGTGTGGAAGAACCATGGGT
1 GAACCTGCTAAAACAGCACGGACGTGCGACACGCCCGTGTGGAAGAACCATGGGT
13874886 GAACCTGCTAAAACAGCACGGACGTGCGACACGCCCGTGTGGAAGAACCATGGGT
1 GAACCTGCTAAAACAGCACGGACGTGCGACACGCCCGTGTGGAAGAACCATGGGT
*
13874941 GAACCTGTTAAAACAGCACGGACGTGCGACACGCCCGTGT
1 GAACCTGCTAAAACAGCACGGACGTGCGACACGCCCGTGT
13874981 CTAGCACCTG
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 88 1.00
ACGTcount: A:0.29, C:0.28, G:0.31, T:0.12
Consensus pattern (55 bp):
GAACCTGCTAAAACAGCACGGACGTGCGACACGCCCGTGTGGAAGAACCATGGGT
Found at i:13876471 original size:18 final size:18
Alignment explanation
Indices: 13876444--13876485 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
13876434 TTATGGTGTA
*
13876444 TCATCAACTTTGCCTATT
1 TCATCGACTTTGCCTATT
13876462 TCATCGACTTTGCCTATT
1 TCATCGACTTTGCCTATT
13876480 TCATCG
1 TCATCG
13876486 CCCTCGCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.19, C:0.29, G:0.10, T:0.43
Consensus pattern (18 bp):
TCATCGACTTTGCCTATT
Found at i:13879101 original size:45 final size:45
Alignment explanation
Indices: 13879037--13879123 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
13879027 TTAAGGGCTC
* *
13879037 TTAGGCATTCCAGAGCCTATAAATACACCCTAGAGGAGGAAGCTG
1 TTAGGCATTCCAAAGCCTATAAATACACCCTAAAGGAGGAAGCTG
13879082 TTAGGCATTCCAAAGCCTATAAATACACCCTAAAGGAGGAAG
1 TTAGGCATTCCAAAGCCTATAAATACACCCTAAAGGAGGAAG
13879124 AAAAGAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (45 bp):
TTAGGCATTCCAAAGCCTATAAATACACCCTAAAGGAGGAAGCTG
Found at i:13879843 original size:210 final size:210
Alignment explanation
Indices: 13879481--13879900 Score: 840
Period size: 210 Copynumber: 2.0 Consensus size: 210
13879471 TAGACCCTGT
13879481 CTAAGGGTACATTTGTCATAATTAAGCGGAGTTGATTGCGCGCCTAGACATAGGGTGGCAAGATT
1 CTAAGGGTACATTTGTCATAATTAAGCGGAGTTGATTGCGCGCCTAGACATAGGGTGGCAAGATT
13879546 TTGCCGGATTAGGGTGAAACCTAATAAGGGGATCCACAGATCGAGTTAATGCAACCTTAGGGTGT
66 TTGCCGGATTAGGGTGAAACCTAATAAGGGGATCCACAGATCGAGTTAATGCAACCTTAGGGTGT
13879611 TAATTAGAGAAAGGTCTCAATTATTCAATCTAGGGATTAGACGTTATTAGTCTTGAATAGGGATA
131 TAATTAGAGAAAGGTCTCAATTATTCAATCTAGGGATTAGACGTTATTAGTCTTGAATAGGGATA
13879676 ATACCATAACTTAGG
196 ATACCATAACTTAGG
13879691 CTAAGGGTACATTTGTCATAATTAAGCGGAGTTGATTGCGCGCCTAGACATAGGGTGGCAAGATT
1 CTAAGGGTACATTTGTCATAATTAAGCGGAGTTGATTGCGCGCCTAGACATAGGGTGGCAAGATT
13879756 TTGCCGGATTAGGGTGAAACCTAATAAGGGGATCCACAGATCGAGTTAATGCAACCTTAGGGTGT
66 TTGCCGGATTAGGGTGAAACCTAATAAGGGGATCCACAGATCGAGTTAATGCAACCTTAGGGTGT
13879821 TAATTAGAGAAAGGTCTCAATTATTCAATCTAGGGATTAGACGTTATTAGTCTTGAATAGGGATA
131 TAATTAGAGAAAGGTCTCAATTATTCAATCTAGGGATTAGACGTTATTAGTCTTGAATAGGGATA
13879886 ATACCATAACTTAGG
196 ATACCATAACTTAGG
13879901 GATTTTTATG
Statistics
Matches: 210, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
210 210 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (210 bp):
CTAAGGGTACATTTGTCATAATTAAGCGGAGTTGATTGCGCGCCTAGACATAGGGTGGCAAGATT
TTGCCGGATTAGGGTGAAACCTAATAAGGGGATCCACAGATCGAGTTAATGCAACCTTAGGGTGT
TAATTAGAGAAAGGTCTCAATTATTCAATCTAGGGATTAGACGTTATTAGTCTTGAATAGGGATA
ATACCATAACTTAGG
Found at i:13886132 original size:18 final size:20
Alignment explanation
Indices: 13886109--13886150 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
13886099 TTAAAAGCCT
13886109 ATAAT-ATAAAC-AATAATA
1 ATAATAATAAACGAATAATA
13886127 ATAATAGATAAACGAATAATA
1 ATAATA-ATAAACGAATAATA
13886148 ATA
1 ATA
13886151 GGTAAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
20 6 0.29
21 10 0.48
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (20 bp):
ATAATAATAAACGAATAATA
Found at i:13886151 original size:18 final size:18
Alignment explanation
Indices: 13886123--13886157 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13886113 TATAAACAAT
13886123 AATAATAATAGATAAACG
1 AATAATAATAGATAAACG
*
13886141 AATAATAATAGGTAAAC
1 AATAATAATAGATAAAC
13886158 AAATTCGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.06, G:0.11, T:0.23
Consensus pattern (18 bp):
AATAATAATAGATAAACG
Found at i:13886914 original size:54 final size:55
Alignment explanation
Indices: 13886838--13886980 Score: 144
Period size: 54 Copynumber: 2.6 Consensus size: 55
13886828 ATGAAAGCCC
** * * *
13886838 CACGCCCGTGTTCATTTGACAGGTTCGACCACGGGTGTTAGACAC-GACGTGTCA
1 CACGCCCGTGTTGTTTTGACAGGTTCGACCACGGGTCTTACACACGGACATGTCA
* * * * * * * *
13886892 CACGCCCGTGCTGTTTTAACAGGTTTGCCCACGGTTCTTCCACACGGGCATGTCG
1 CACGCCCGTGTTGTTTTGACAGGTTCGACCACGGGTCTTACACACGGACATGTCA
* *
13886947 CACGCCCGTGTTGTTTTGTCAGGCTCGACCACGG
1 CACGCCCGTGTTGTTTTGACAGGTTCGACCACGG
13886981 CCAGGTCGCA
Statistics
Matches: 69, Mismatches: 19, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
54 35 0.51
55 34 0.49
ACGTcount: A:0.16, C:0.31, G:0.27, T:0.26
Consensus pattern (55 bp):
CACGCCCGTGTTGTTTTGACAGGTTCGACCACGGGTCTTACACACGGACATGTCA
Found at i:13887272 original size:14 final size:14
Alignment explanation
Indices: 13887253--13887280 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13887243 AGGAGTTTAT
13887253 ACTCCTCATTCCTG
1 ACTCCTCATTCCTG
13887267 ACTCCTCATTCCTG
1 ACTCCTCATTCCTG
13887281 CTATCAATCT
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:0.14, C:0.43, G:0.07, T:0.36
Consensus pattern (14 bp):
ACTCCTCATTCCTG
Found at i:13889987 original size:46 final size:46
Alignment explanation
Indices: 13889917--13890236 Score: 462
Period size: 46 Copynumber: 7.0 Consensus size: 46
13889907 TTTGACGTGG
* * * * * *
13889917 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* * * ** * * *
13889963 TGTCATGGTATCTTTTAACCATGGTTTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
13890009 AGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
13890055 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
13890101 TGCCATGGTATCTTTCAACCATGGTCTTACACATATCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
13890147 TGCCATGGTATCTTTCAACCATGGTCTTACACATATCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
13890193 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
13890237 AGAGCACACT
Statistics
Matches: 250, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 246 0.98
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:13894468 original size:23 final size:25
Alignment explanation
Indices: 13894442--13894488 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13894432 TATCATTCAT
*
13894442 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
13894465 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
13894489 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:13894809 original size:46 final size:46
Alignment explanation
Indices: 13894749--13894930 Score: 294
Period size: 46 Copynumber: 4.0 Consensus size: 46
13894739 TTTGACGTGA
* * * * * *
13894749 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
13894795 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
13894841 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
13894887 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
13894931 AGAGCACACT
Statistics
Matches: 129, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
45 4 0.03
46 125 0.97
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:13906743 original size:46 final size:46
Alignment explanation
Indices: 13906606--13906869 Score: 182
Period size: 46 Copynumber: 5.7 Consensus size: 46
13906596 TAGGTAAGGT
* * * *
13906606 GCCGATGCCATGTCCCAGACAAGGTCTTACACTGGCTCAT-ATCT-TAA
1 GCCGATG-CATGTCCCAGAC-ATGTCTTACACTGACT-ATCATCTCGAG
* * * *
13906653 GTCAATGCCATATCCCAGACATGGTCTTACACTGACTATTATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AG
* *
13906701 GCCGATGCATGTCCCAAACATGTTTTACACTGACTATCATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAG
* * * * *
13906747 GCTGATGCATGTCCCAGACATGTCTTACACT-AGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGA-CTATCATCTCGAG
* * * *
13906793 GCCGGTGCCATGTCCCAGACATGGTCTCACACTG-CTCTCATAAT-GTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCAT-CTCG-AG
* * *
13906840 GCCGATACTTGTCCCAGACATGTCGTACAC
1 GCCGATGCATGTCCCAGACATGTCTTACAC
13906870 AAGCTCACAC
Statistics
Matches: 176, Mismatches: 30, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
45 9 0.05
46 79 0.45
47 71 0.40
48 16 0.09
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAG
Found at i:13908382 original size:49 final size:49
Alignment explanation
Indices: 13908290--13908383 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 49
13908280 GCTCTTTCGC
* ** *
13908290 CATAAGTCATGTCTAGAAGAATCTCAACCTCTGTTGGCTTAATCACATG
1 CATAAGTCATGTCCAGAAGAATCTCAACCTCTGACGGCGTAATCACATG
*
13908339 CATAAGTCATGTCCGGATA-AATCTCAACCTCTGACGGCGTAATCA
1 CATAAGTCATGTCCAGA-AGAATCTCAACCTCTGACGGCGTAATCA
13908384 TATGTGAAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 38 0.97
50 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (49 bp):
CATAAGTCATGTCCAGAAGAATCTCAACCTCTGACGGCGTAATCACATG
Found at i:13909383 original size:26 final size:26
Alignment explanation
Indices: 13909353--13909404 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
13909343 TCTTTTCATA
13909353 CCCAACCACCAATACATTTTCTTGAG
1 CCCAACCACCAATACATTTTCTTGAG
13909379 CCCAACCACCAATACATTTTCTTGAG
1 CCCAACCACCAATACATTTTCTTGAG
13909405 GTCACTGTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.35, G:0.08, T:0.27
Consensus pattern (26 bp):
CCCAACCACCAATACATTTTCTTGAG
Found at i:13913410 original size:47 final size:46
Alignment explanation
Indices: 13913342--13913554 Score: 175
Period size: 47 Copynumber: 4.6 Consensus size: 46
13913332 TTTGTACGCC
* * * *
13913342 AGTGTAAGACATGTTTGGGACATGCTTCGGCCA-CATTATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACCA-GACGAGAGCT
* *
13913388 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAACCAGACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACCAGACGAGAGCT
* * * *
13913436 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACA-AAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC--CAGACGAGAGCT
* * ** * * * *
13913483 AGTGTAAGACGTGTCTAGGACACACATTGGCTA--AGA-GTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACCAGACG-AGAGCT
13913527 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
13913555 AGCACGTGTA
Statistics
Matches: 132, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
43 2 0.02
44 26 0.20
46 18 0.14
47 58 0.44
48 26 0.20
49 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACCAGACGAGAGCT
Found at i:13913441 original size:48 final size:46
Alignment explanation
Indices: 13913342--13913609 Score: 168
Period size: 47 Copynumber: 5.7 Consensus size: 46
13913332 TTTGTACGCC
* * * * *
13913342 AGTGTAAGACATGTTTGGGACATGCTTCGGCCACATTATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCAACATGACGAGAGCT
*
13913388 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAACCA-GACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAA-CATGACGAGAGCT
** ** * * *
13913436 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAAAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCAAC-ATGACGAGAGCT
* * ** * * * *
13913483 AGTGTAAGACGTGTCTAGGACACACATTGGCTA-A-GA-GTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCAACATGACG-AGAGCT
* * * *
13913527 AGTGTAAGACATGTCTGGGACATGCATCAGC-ACGTGTATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCAACATG---ACGAGAGCT
* *
13913575 ACTGTAAGACCATGTCTGAGACATGGCATCGGCAA
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAA
13913610 TATATCCCAT
Statistics
Matches: 169, Mismatches: 38, Indels: 25
0.73 0.16 0.11
Matches are distributed among these distances:
43 2 0.01
44 28 0.17
45 3 0.02
46 18 0.11
47 58 0.34
48 36 0.21
49 16 0.09
50 7 0.04
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCAACATGACGAGAGCT
Found at i:13913504 original size:94 final size:91
Alignment explanation
Indices: 13913342--13913554 Score: 223
Period size: 94 Copynumber: 2.3 Consensus size: 91
13913332 TTTGTACGCC
* * ** * * *
13913342 AGTGTAAGACATGTTTGGGACATGCTTCGGCCACATTATGAGAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACACAAAGAGAGCCAGTGTAAGACCATGTCTAG
**
13913407 GACATGGCATCGGCAACCAGACG-AGGGCT
66 GACA-CACATCGGCAA--AGA-GTAGGGCT
* * *
13913436 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAAAGATAGCCAGTGTAAGA-CGTGTCTA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ACAAAGAGAGCCAGTGTAAGACCATGTCTA
* * * *
13913500 GGACACACATTGGCTAAGAGTTGTGCT
65 GGACACACATCGGCAAAGAGTAGGGCT
13913527 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
13913555 AGCACGTGTA
Statistics
Matches: 101, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
90 1 0.01
91 35 0.35
93 7 0.07
94 42 0.42
95 16 0.16
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (91 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACACAAAGAGAGCCAGTGTAAGACCATGTCTAG
GACACACATCGGCAAAGAGTAGGGCT
Found at i:13917859 original size:79 final size:82
Alignment explanation
Indices: 13917748--13917932 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
13917738 GCTACTCGTT
* *
13917748 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
13917811 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
13917828 CAAATGCCTTCGAG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
13917891 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
13917908 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13917933 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.60
80 33 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:13917932 original size:40 final size:40
Alignment explanation
Indices: 13917729--13917932 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
13917719 CGGAATTTAA
** *
13917729 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13917769 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13917809 CCGGATTTAGTAACTCGCACAAATGCCTTCGAG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13917848 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
13917888 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
13917928 CCGGA
1 CCGGA
13917933 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 33 0.24
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:13918206 original size:25 final size:25
Alignment explanation
Indices: 13918178--13918254 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
13918168 ACCACTCTTT
13918178 CCTTCCCTTTATCGGATTTAGTTCC
1 CCTTCCCTTTATCGGATTTAGTTCC
** * * * **
13918203 CCTTTGCTCT-T--GAGCTTAATTTT
1 CCTTCCCTTTATCGGA-TTTAGTTCC
13918226 CCTTCCCTTTATCGGATTTAGTTCC
1 CCTTCCCTTTATCGGATTTAGTTCC
13918251 CCTT
1 CCTT
13918255 TGCTCTTGAG
Statistics
Matches: 34, Mismatches: 14, Indels: 8
0.61 0.25 0.14
Matches are distributed among these distances:
22 2 0.06
23 12 0.35
24 2 0.06
25 16 0.47
26 2 0.06
ACGTcount: A:0.12, C:0.30, G:0.12, T:0.47
Consensus pattern (25 bp):
CCTTCCCTTTATCGGATTTAGTTCC
Found at i:13918246 original size:48 final size:48
Alignment explanation
Indices: 13918175--13918271 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
13918165 TCGACCACTC
13918175 TTTCCTTCCCTTTATCGGATTTAGTTCCCCTTTGCTCTTGAGCTTAAT
1 TTTCCTTCCCTTTATCGGATTTAGTTCCCCTTTGCTCTTGAGCTTAAT
13918223 TTTCCTTCCCTTTATCGGATTTAGTTCCCCTTTGCTCTTGAGCTTAAT
1 TTTCCTTCCCTTTATCGGATTTAGTTCCCCTTTGCTCTTGAGCTTAAT
13918271 T
1 T
13918272 AAACAAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.12, C:0.27, G:0.12, T:0.48
Consensus pattern (48 bp):
TTTCCTTCCCTTTATCGGATTTAGTTCCCCTTTGCTCTTGAGCTTAAT
Found at i:13925874 original size:79 final size:82
Alignment explanation
Indices: 13925763--13925947 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
13925753 GCTACTCGTT
* *
13925763 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
13925826 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
13925843 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
13925906 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
13925923 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13925948 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:13925947 original size:40 final size:40
Alignment explanation
Indices: 13925744--13925947 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
13925734 CGAAATTTAA
** *
13925744 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13925784 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
13925824 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13925863 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
13925903 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
13925943 CCGGA
1 CCGGA
13925948 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:13927304 original size:18 final size:20
Alignment explanation
Indices: 13927281--13927321 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13927271 GTTTTCATCA
13927281 TATTCCC-T-CTCATTATTT
1 TATTCCCATGCTCATTATTT
*
13927299 TATTCCCATGCTCCTTATTT
1 TATTCCCATGCTCATTATTT
13927319 TAT
1 TAT
13927322 CATACTTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 1 0.05
20 12 0.60
ACGTcount: A:0.17, C:0.27, G:0.02, T:0.54
Consensus pattern (20 bp):
TATTCCCATGCTCATTATTT
Found at i:13928079 original size:46 final size:45
Alignment explanation
Indices: 13927944--13928255 Score: 295
Period size: 46 Copynumber: 6.7 Consensus size: 45
13927934 TGGGTAAGGT
* * *
13927944 GCCGATGCCATGTCCTAGACAAGGTCTTACACTGGCTCAT-ATCTCAA
1 GCCGATG-CATGTCCCAGAC-ATGTCTTACACTGACT-ATCATCTCAA
* * *
13927991 GTCGATGCCATGTCCCAGGCATGGTCTTACATTGACTATCATCTCATA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCA-A
* *
13928039 GCCGATGCATGTCCCAGACATGTTTTACACTGACTATCATCTCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATCT-CAA
* * * *
13928085 GTCGATGCATGTCCCAGACATATTTTACACTGACTATCATCTCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATCT-CAA
* * *
13928131 GTCGATGCATGTCCCAGACATGTCTTACACT-AGCTCTCGTCTCAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGA-CTATCATCTCAA
* * * * ***
13928176 TACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCAT-CTCAA
13928225 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
13928256 AGCTCACACT
Statistics
Matches: 228, Mismatches: 27, Indels: 21
0.83 0.10 0.08
Matches are distributed among these distances:
45 3 0.01
46 117 0.51
47 78 0.34
48 29 0.13
49 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCAA
Found at i:13930594 original size:24 final size:24
Alignment explanation
Indices: 13930552--13930602 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
13930542 CCACTTTTCC
* *
13930552 CAAAAAGAAAAGAAGAAGAAGAAG
1 CAAAAAGAAAACAAGAAGAAAAAG
13930576 CAAAAAGAAAACCAA-AAGAAAAAG
1 CAAAAAGAAAA-CAAGAAGAAAAAG
13930600 CAA
1 CAA
13930603 TCAAAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.73, C:0.10, G:0.18, T:0.00
Consensus pattern (24 bp):
CAAAAAGAAAACAAGAAGAAAAAG
Found at i:13931814 original size:2 final size:2
Alignment explanation
Indices: 13931807--13931843 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13931797 AGGGTGTTAT
13931807 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13931844 TGGTGAAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13932697 original size:21 final size:21
Alignment explanation
Indices: 13932671--13932710 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13932661 TACCCCTGAA
13932671 TAGGGATATCCCAACCAGGGC
1 TAGGGATATCCCAACCAGGGC
*
13932692 TAGGGATATCCCTACCAGG
1 TAGGGATATCCCAACCAGG
13932711 AATAAGTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.17
Consensus pattern (21 bp):
TAGGGATATCCCAACCAGGGC
Found at i:13933646 original size:23 final size:23
Alignment explanation
Indices: 13933626--13933670 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
13933616 ACCGAAACAC
13933626 AAGCATAACATAAGCCCAAACCT
1 AAGCATAACATAAGCCCAAACCT
* *
13933649 AAGCATAACATGAGTCCAAACC
1 AAGCATAACATAAGCCCAAACC
13933671 AATACCCACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.29, G:0.11, T:0.13
Consensus pattern (23 bp):
AAGCATAACATAAGCCCAAACCT
Found at i:13944603 original size:3 final size:3
Alignment explanation
Indices: 13944595--13944706 Score: 224
Period size: 3 Copynumber: 37.3 Consensus size: 3
13944585 CTTAATTTAC
13944595 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13944643 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13944691 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
13944707 CACTATTGTT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 109 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13958188 original size:87 final size:87
Alignment explanation
Indices: 13957777--13958150 Score: 685
Period size: 87 Copynumber: 4.3 Consensus size: 87
13957767 AATTTCAGCC
* * *
13957777 CATATTGCGAGAGATGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTGCTTTTCAAT
1 CATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTAAGGTATTTTCAATTTCTGCTTTTCAAT
*
13957842 TTATGTGTTTTAAAAATCAACT
66 TTAGGTGTTTTAAAAATCAACT
13957864 CATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTAAGGTATTTTCAATTTCTGCTTTTCAAT
1 CATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTAAGGTATTTTCAATTTCTGCTTTTCAAT
*
13957929 TTATGTGTTTTAAAAATCAACT
66 TTAGGTGTTTTAAAAATCAACT
13957951 CATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTAAGGTATTTTCAATTTCTGCTTTTCAAT
1 CATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTAAGGTATTTTCAATTTCTGCTTTTCAAT
13958016 TTAGGTGTTTTAAAAATCAACT
66 TTAGGTGTTTTAAAAATCAACT
13958038 CATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTAAGGTATTTTCAATTTCTGCTTTTCAAT
1 CATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTAAGGTATTTTCAATTTCTGCTTTTCAAT
13958103 TTAGGTGTTTTAAAAATCAACT
66 TTAGGTGTTTTAAAAATCAACT
* *
13958125 CATATTACGAGAGATGAGTTGAGCCT
1 CATATTGCGAGAGGTGAGTTGAGCCT
13958151 CGGGTCACAC
Statistics
Matches: 281, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 281 1.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (87 bp):
CATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTAAGGTATTTTCAATTTCTGCTTTTCAAT
TTAGGTGTTTTAAAAATCAACT
Found at i:13958350 original size:77 final size:76
Alignment explanation
Indices: 13958114--13958357 Score: 262
Period size: 77 Copynumber: 3.2 Consensus size: 76
13958104 TAGGTGTTTT
* * * * *
13958114 AAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTCGGGTCACACACCGAGGTA-TTTCAATT
1 AAAAATCAACTCATATTACGAGAGATGAGTTGAGCTTCGGATCACGCACTGAGGTATTTTTAATT
*
13958178 TCTATTTTCAAAAA
66 TCTTTTTTC---AA
* * * * *
13958192 AAAAATCAACTCATACTACGAGAGGTGAGTTGAGCCTTGGGAT---GCGCTGAGGTATTTTTAGT
1 AAAAATCAACTCATATTACGAGAGATGAGTTGAG-CTTCGGATCACGCACTGAGGTATTTTTAAT
*
13958254 CTCTATTTTTCAA
65 TTCT-TTTTTCAA
* * *
13958267 ACAAATCAACTCATATTACGAGAGATGAGCTGAGCTTCAGATCACGCACTGAGGTATTTTTAATT
1 AAAAATCAACTCATATTACGAGAGATGAGTTGAGCTTCGGATCACGCACTGAGGTATTTTTAATT
*
13958332 TATGTTTTTCAA
66 TCT-TTTTTCAA
13958344 AAAAATCAACTCAT
1 AAAAATCAACTCAT
13958358 TGAGCCTTGG
Statistics
Matches: 136, Mismatches: 24, Indels: 13
0.79 0.14 0.08
Matches are distributed among these distances:
74 6 0.04
75 32 0.24
76 8 0.06
77 48 0.35
78 37 0.27
79 5 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (76 bp):
AAAAATCAACTCATATTACGAGAGATGAGTTGAGCTTCGGATCACGCACTGAGGTATTTTTAATT
TCTTTTTTCAA
Found at i:13958414 original size:13 final size:14
Alignment explanation
Indices: 13958384--13958418 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
13958374 TGTCGAGGTA
13958384 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
13958398 TTTTCAAATTCTG-
1 TTTTCAAATTCTGT
13958411 TTTTCAAA
1 TTTTCAAA
13958419 AATCAACTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.26, C:0.14, G:0.06, T:0.54
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:13958512 original size:87 final size:87
Alignment explanation
Indices: 13958357--13958537 Score: 233
Period size: 87 Copynumber: 2.1 Consensus size: 87
13958347 AATCAACTCA
* *
13958357 TTGAGCCTTGGGTCACATGTCGAGGTATTTTCAAATTCTGTTTTTCAAATTCTGTTTTCAAAAAT
1 TTGAGCCTTGGCTCACATGTCGAGCTATTTTCAAATTCTGTTTTT-AAATTCTGTTTTCAAAAAT
* *
13958422 CAACTCATATTGCGAGAGGTGAG
65 CAACTCATATTGCGAAAAGTGAG
* * *
13958445 TTGAGCC-TGGCTCACGTGTTGAGCTATTTTCAAATTTTTGTTTTT-AATGTCTGTTTT-AAAGA
1 TTGAGCCTTGGCTCACATGTCGAGCTATTTTCAAA-TTCTGTTTTTAAAT-TCTGTTTTCAAA-A
*
13958507 GTCAACTCATATTGCGAAAAGTGAG
63 ATCAACTCATATTGCGAAAAGTGAG
13958532 TTGAGC
1 TTGAGC
13958538 TCAGGATCAC
Statistics
Matches: 82, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
86 6 0.07
87 60 0.73
88 16 0.20
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (87 bp):
TTGAGCCTTGGCTCACATGTCGAGCTATTTTCAAATTCTGTTTTTAAATTCTGTTTTCAAAAATC
AACTCATATTGCGAAAAGTGAG
Found at i:13960675 original size:3 final size:3
Alignment explanation
Indices: 13960667--13960709 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
13960657 CTTAATTTAC
13960667 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13960710 CACTATTGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13965673 original size:16 final size:17
Alignment explanation
Indices: 13965652--13965685 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
13965642 ATTATCTTGG
*
13965652 ATTTTTGG-GTATTTCT
1 ATTTTTGGTATATTTCT
13965668 ATTTTTGGTATATTTCT
1 ATTTTTGGTATATTTCT
13965685 A
1 A
13965686 ATGAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.18, C:0.06, G:0.15, T:0.62
Consensus pattern (17 bp):
ATTTTTGGTATATTTCT
Found at i:13970691 original size:27 final size:27
Alignment explanation
Indices: 13970641--13970693 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
13970631 TTTTATAATC
* ***
13970641 AAAAGTTTATCTTAATTTTGGCAGCAA
1 AAAAGTTGATCTTAATTCACGCAGCAA
13970668 AAAAGTTGATCTTAATTCACGCAGCA
1 AAAAGTTGATCTTAATTCACGCAGCA
13970694 TTTGCTAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (27 bp):
AAAAGTTGATCTTAATTCACGCAGCAA
Found at i:13973376 original size:30 final size:31
Alignment explanation
Indices: 13973331--13973390 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
13973321 AAAATGTTTT
13973331 TTTATCTTATAATTTT-ATAATTTTGAAGGGA
1 TTTATCTTATAATTTTAAT-ATTTTGAAGGGA
* *
13973362 TTTATC-TCTAATTTTAATATTTTTAAGGG
1 TTTATCTTATAATTTTAATATTTTGAAGGG
13973391 GACAAGATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (31 bp):
TTTATCTTATAATTTTAATATTTTGAAGGGA
Found at i:13974481 original size:17 final size:18
Alignment explanation
Indices: 13974450--13974483 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13974440 ACTTTAAAAT
13974450 TATAATTATTATATTTAC
1 TATAATTATTATATTTAC
*
13974468 TATAA-TATTTTATTTA
1 TATAATTATTATATTTA
13974484 TTAGTATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TATAATTATTATATTTAC
Found at i:13975637 original size:16 final size:15
Alignment explanation
Indices: 13975616--13975671 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 15
13975606 CAATGGTTGC
13975616 TAGAATTAAAAAAAGT
1 TAGAATTAAAAAAA-T
*
13975632 TAGAA-TATAAAAAT
1 TAGAATTAAAAAAAT
*
13975646 TA-AATTAAAAATAT
1 TAGAATTAAAAAAAT
*
13975660 TA-AAATAAAAAA
1 TAGAATTAAAAAA
13975672 TGGCTAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
13 2 0.06
14 20 0.59
15 7 0.21
16 5 0.15
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (15 bp):
TAGAATTAAAAAAAT
Found at i:13975666 original size:28 final size:28
Alignment explanation
Indices: 13975619--13975672 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
13975609 TGGTTGCTAG
*
13975619 AATTAAAAAAAGTTAGAATATAAAAATTA
1 AATTAAAAAAAGTTAAAATA-AAAAATTA
*
13975648 AATTAAAAATA-TTAAAATAAAAAAT
1 AATTAAAAAAAGTTAAAATAAAAAAT
13975673 GGCTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 7 0.30
29 10 0.43
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.28
Consensus pattern (28 bp):
AATTAAAAAAAGTTAAAATAAAAAATTA
Found at i:13978224 original size:38 final size:37
Alignment explanation
Indices: 13978182--13978824 Score: 492
Period size: 38 Copynumber: 17.6 Consensus size: 37
13978172 AAACCTAATC
* * * *
13978182 AAGGCCAACCTTTGAAAAAGATTGGTATAGACCCGTCT
1 AAGG-CAACCTTTAAAAAAGGTTGGGATAGACCTGTCT
* * *
13978220 AAGGCAACC-TT-AAAGAGGTTGAGATAGACCAGTCT
1 AAGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCT
** *
13978255 AAGATAACCTTTTAAAAAA-GTTAGGATAGACCCTGTCT
1 AAGGCAACC-TTTAAAAAAGGTTGGGATAGA-CCTGTCT
*
13978293 AAGACAACCTTTAAGAAAA-GTTGGGATAGACCTGGTCT
1 AAGGCAACCTTTAA-AAAAGGTTGGGATAGACCT-GTCT
* ** **
13978331 ATA-ACAACCTTTAAAAAATATTGGGATAGAATTGTCT
1 A-AGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCT
*
13978368 AAGGCAACC-TT-AAAAAGGTTGGAATAGACCTTGTCT
1 AAGGCAACCTTTAAAAAAGGTTGGGATAGACC-TGTCT
* *
13978404 AAGGCAACTTTTAAAAAAGGTTGGGATAGACCAGTCT
1 AAGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCT
* * *
13978441 AAGGTAACCTTTTAACAAA-GTTGGGATAGACCTTGGCT
1 AAGGCAACC-TTTAAAAAAGGTTGGGATAGACC-TGTCT
* * *
13978479 AAGGCAACCTTTAAAAAAGGTTGAGATAGATCAGTCT
1 AAGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCT
* *
13978516 AAGGCAACTTTTTAAAAAA-GTTGGGATAGACCTTGTTT
1 AAGGCAAC-CTTTAAAAAAGGTTGGGATAGACC-TGTCT
* * *
13978554 AAGGCAACCTTAAAAAAAGGTTAGGATAGACTTGTCT
1 AAGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCT
*
13978591 AAAGCAACC-TT-AAAAAGGTTGGGATAGA-CTCGTCT
1 AAGGCAACCTTTAAAAAAGGTTGGGATAGACCT-GTCT
* * * * * *
13978626 AAGGTAACC--TCAAAAAGATTAGGATAGATCTTATCT
1 AAGGCAACCTTTAAAAAAGGTTGGGATAGA-CCTGTCT
* * *
13978662 AAGGCAA-CTTTTAAAAAGGTTGGGATTGA-CTCGTTT
1 AAGGCAACCTTTAAAAAAGGTTGGGATAGACCT-GTCT
* * * *
13978698 AAGACAACC-TTAAAGATA--TTGGGATAGACCTATTT
1 AAGGCAACCTTTAAA-AAAGGTTGGGATAGACCTGTCT
* * * *
13978733 AAAGCAACC-TT-AAAAAGGTTGGGATAGACTTTTTCC
1 AAGGCAACCTTTAAAAAAGGTTGGGATAGAC-CTGTCT
* *
13978769 AAGGCAA--TTTAAAAAAAGTTGGGATAAACTCAT-T-T
1 AAGGCAACCTTTAAAAAAGGTTGGGATAGAC-C-TGTCT
13978804 AAGGCAACC-TTAAAAAAGGTT
1 AAGGCAACCTTTAAAAAAGGTT
13978825 AGGGTAAACT
Statistics
Matches: 487, Mismatches: 82, Indels: 74
0.76 0.13 0.12
Matches are distributed among these distances:
33 2 0.00
34 4 0.01
35 125 0.26
36 79 0.16
37 134 0.28
38 142 0.29
39 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (37 bp):
AAGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCT
Found at i:13978341 original size:111 final size:111
Alignment explanation
Indices: 13978187--13978628 Score: 263
Period size: 111 Copynumber: 4.0 Consensus size: 111
13978177 TAATCAAGGC
* * * * * * *
13978187 CAACCTTTGAAAAAGATTGGTATAGACC-CGTCTA-AGGCAACC-TT-AAAGAGGTTGAGATAGA
1 CAACCTTTAAAAAAGGTTGGGATAGACCTGGTCTATA-ACAACCTTTAAAAAAGATTGAGATAGA
* *
13978248 CCAGTCTAAGATAACCTTTTAAAAAAGTTAGG-ATAGACCCTGTCTAAGA
65 ACAGTCTAAGACAACC--TTAAAAAAGTT-GGAATAGACCCTGTCTAAGA
* *
13978297 CAACCTTTAAGAAAA-GTTGGGATAGACCTGGTCTATAACAACCTTTAAAAAATATTGGGATAGA
1 CAACCTTTAA-AAAAGGTTGGGATAGACCTGGTCTATAACAACCTTTAAAAAAGATTGAGATAGA
** * * * *
13978361 ATTGTCTAAGGCAACCTTAAAAAGGTTGGAATAGACCTTGTCTAAGG
65 ACAGTCTAAGACAACCTTAAAAAAGTTGGAATAGACCCTGTCTAAGA
* * ** * *
13978408 CAACTTTTAAAAAAGGTTGGGATAGACC-AGTCTA-AGGTAACCTTTTAACAAAG-TTGGGATAG
1 CAACCTTTAAAAAAGGTTGGGATAGACCTGGTCTATA-ACAACC-TTTAAAAAAGATTGAGATAG
* * * * * * *
13978470 ACCTTGGCTAAGGCAACCTTTAAAAAAGGTT-GAGATAGA-TCAGTCTAAGG
64 AAC-AGTCTAAGACAACC-TTAAAAAA-GTTGGA-ATAGACCCTGTCTAAGA
* * * *
13978520 CAACTTTTTAAAAAA-GTTGGGATAGACCTTGT-T-TAAGGCAACCTTAAAAAAAGGTT-AGGAT
1 CAAC-CTTTAAAAAAGGTTGGGATAGACCTGGTCTATAA--CAACCTTTAAAAAAGATTGA-GAT
* * * *
13978581 AG-ACTTGTCTAA-AGCAACCTTAAAAAGGTTGGGATAGACTC-GTCTAAG
62 AGAAC-AGTCTAAGA-CAACCTTAAAAAAGTTGGAATAGACCCTGTCTAAG
13978629 GTAACCTCAA
Statistics
Matches: 268, Mismatches: 41, Indels: 46
0.75 0.12 0.13
Matches are distributed among these distances:
109 1 0.00
110 60 0.22
111 92 0.34
112 60 0.22
113 55 0.21
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (111 bp):
CAACCTTTAAAAAAGGTTGGGATAGACCTGGTCTATAACAACCTTTAAAAAAGATTGAGATAGAA
CAGTCTAAGACAACCTTAAAAAAGTTGGAATAGACCCTGTCTAAGA
Found at i:13978369 original size:75 final size:74
Alignment explanation
Indices: 13978187--13978821 Score: 419
Period size: 75 Copynumber: 8.7 Consensus size: 74
13978177 TAATCAAGGC
* * * *** * * *
13978187 CAACCTTTGAAAAAGATTGGTATAGACCCGTCTAAGGCAACC-TTAAAGAGGTTGAGATAGACC-
1 CAACCTTTAAAAAAGGTTGGGATAGAATTGTCTAAGGCAACCTTTAAAAAAGTTGGGATAGACCT
*
13978250 AGTCTAAGA
66 GGTCTAAGA
* * ** *
13978259 TAACCTTTTAAAAAA-GTTAGGATAGACCCTGTCTAAGACAACCTTTAAGAAAAGTTGGGATAGA
1 CAACC-TTTAAAAAAGGTTGGGATAGA-ATTGTCTAAGGCAACCTTTAA-AAAAGTTGGGATAGA
13978323 CCTGGTCTATA-A
63 CCTGGTCTA-AGA
** * *
13978335 CAACCTTTAAAAAATATTGGGATAGAATTGTCTAAGGCAACC-TTAAAAAGGTTGGAATAGACCT
1 CAACCTTTAAAAAAGGTTGGGATAGAATTGTCTAAGGCAACCTTTAAAAAAGTTGGGATAGACCT
* *
13978399 TGTCTAAGG
66 GGTCTAAGA
* *** * *
13978408 CAACTTTTAAAAAAGGTTGGGATAGACCAGTCTAAGGTAACCTTTTAACAAAGTTGGGATAGACC
1 CAACCTTTAAAAAAGGTTGGGATAGAATTGTCTAAGGCAACC-TTTAAAAAAGTTGGGATAGACC
*
13978473 TTGG-CTAAGG
65 -TGGTCTAAGA
* * *
13978483 CAACCTTTAAAAAAGGTTGAGATAG-ATCAGTCTAAGGCAACTTTTTAAAAAAGTTGGGATAGAC
1 CAACCTTTAAAAAAGGTTGGGATAGAAT-TGTCTAAGGCAAC-CTTTAAAAAAGTTGGGATAGAC
* * *
13978547 CTTGTTTAAGG
64 CTGGTCTAAGA
* * * * *
13978558 CAACCTTAAAAAAAGGTTAGGATAGACTTGTCTAAAGCAACC-TTAAAAAGGTTGGGATAGA-CT
1 CAACCTTTAAAAAAGGTTGGGATAGAATTGTCTAAGGCAACCTTTAAAAAAGTTGGGATAGACCT
* *
13978621 CGTCTAAGG
66 GGTCTAAGA
* * * * * * * * *
13978630 TAACC--TCAAAAAGATTAGGATAGATCTTATCTAAGGCAACTTTTAAAAAGGTTGGGATTGA-C
1 CAACCTTTAAAAAAGGTTGGGATAGA-ATTGTCTAAGGCAACCTTTAAAAAAGTTGGGATAGACC
* *
13978692 TCGTTTAAGA
65 TGGTCTAAGA
* ** * * * * *
13978702 CAACC-TTAAAGATA--TTGGGATAGACCTATTTAAAGCAACC-TTAAAAAGGTTGGGATAGACT
1 CAACCTTTAAA-AAAGGTTGGGATAGAATTGTCTAAGGCAACCTTTAAAAAAGTTGGGATAGACC
** * *
13978763 TTTTCCAAGG
65 TGGTCTAAGA
* ** *
13978773 CAA--TTTAAAAAAAGTTGGGATA-AACTCATTTAAGGCAACC-TTAAAAAAG
1 CAACCTTTAAAAAAGGTTGGGATAGAA-TTGTCTAAGGCAACCTTTAAAAAAG
13978822 GTTAGGGTAA
Statistics
Matches: 457, Mismatches: 82, Indels: 49
0.78 0.14 0.08
Matches are distributed among these distances:
69 2 0.00
70 40 0.09
71 61 0.13
72 66 0.14
73 99 0.22
74 12 0.03
75 154 0.34
76 22 0.05
77 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (74 bp):
CAACCTTTAAAAAAGGTTGGGATAGAATTGTCTAAGGCAACCTTTAAAAAAGTTGGGATAGACCT
GGTCTAAGA
Found at i:13978387 original size:148 final size:147
Alignment explanation
Indices: 13978187--13978684 Score: 473
Period size: 148 Copynumber: 3.4 Consensus size: 147
13978177 TAATCAAGGC
* * *** * *
13978187 CAACCTTTGAAAAAGATTGGTATAGACCCGTCTAAGGCAACCTTAAAGAGGTTGAGATAGACC-A
1 CAACCTTTAAAAAAGATTGGGATAGAATAGTCTAAGGCAACCTTAAAAAGGTTG-GATAGACCTT
**
13978251 GTCTAAGATAACCTTTTAAAAAA-GTTAGGATAGACCCTGTCTAAGACAACCTTTAAGAAAAGTT
65 GTCTAAGGCAACCTTTTAAAAAAGGTTAGGATAGA-CCTGTCTAAGACAACCTTTAA-AAAAGTT
13978315 GGGATAGACC-TGGTCTATA-A
128 GGGATAGACCTTGG-CTA-AGA
* *
13978335 CAACCTTTAAAAAATATTGGGATAGAATTGTCTAAGGCAACCTTAAAAAGGTTGGAATAGACCTT
1 CAACCTTTAAAAAAGATTGGGATAGAATAGTCTAAGGCAACCTTAAAAAGGTTGG-ATAGACCTT
* * ** *
13978400 GTCTAAGGCAA-CTTTTAAAAAAGGTTGGGATAGACCAGTCTAAGGTAACCTTTTAACAAAGTTG
65 GTCTAAGGCAACCTTTTAAAAAAGGTTAGGATAGACCTGTCTAAGACAACC-TTTAAAAAAGTTG
*
13978464 GGATAGACCTTGGCTAAGG
129 GGATAGACCTTGGCTAAGA
* * * *
13978483 CAACCTTTAAAAAAGGTTGAGATAG-ATCAGTCTAAGGCAACTTTTTAAAAAAGTTGGGATAGAC
1 CAACCTTTAAAAAAGATTGGGATAGAAT-AGTCTAAGGCAAC--CTTAAAAAGGTT-GGATAGAC
* * * *
13978547 CTTGTTTAAGGCAACC-TTAAAAAAAGGTTAGGATAGACTTGTCTAA-AGCAACC-TTAAAAAGG
62 CTTGTCTAAGGCAACCTTTTAAAAAAGGTTAGGATAGACCTGTCTAAGA-CAACCTTTAAAAAAG
* * *
13978609 TTGGGATAGA-CTCGTCTAAGG
126 TTGGGATAGACCTTGGCTAAGA
* * * * *
13978630 TAACC--TCAAAAAGATTAGGATAGATCTTA-TCTAAGGCAACTTTTAAAAAGGTTGG
1 CAACCTTTAAAAAAGATTGGGATAGA--ATAGTCTAAGGCAAC-CTTAAAAAGGTTGG
13978685 GATTGACTCG
Statistics
Matches: 295, Mismatches: 40, Indels: 34
0.80 0.11 0.09
Matches are distributed among these distances:
144 2 0.01
145 26 0.09
146 11 0.04
147 18 0.06
148 149 0.51
149 27 0.09
150 59 0.20
151 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (147 bp):
CAACCTTTAAAAAAGATTGGGATAGAATAGTCTAAGGCAACCTTAAAAAGGTTGGATAGACCTTG
TCTAAGGCAACCTTTTAAAAAAGGTTAGGATAGACCTGTCTAAGACAACCTTTAAAAAAGTTGGG
ATAGACCTTGGCTAAGA
Found at i:13978720 original size:107 final size:105
Alignment explanation
Indices: 13978217--13978819 Score: 292
Period size: 107 Copynumber: 5.5 Consensus size: 105
13978207 TATAGACCCG
* * * * * *
13978217 TCTAAGGCAACCTT-AAAGAGGTTGAGATAGAC-CAGTCTAAGATAACCTTTTAAAAA-AGTTAG
1 TCTAAGGCAACTTTAAAAAAGGTTGGGATAGACTC-GTTTAAGACAACC--TTAAAAAGA-TTGG
* * **
13978279 GATAGACCCTGTCT-AAGACAACCTTTAAGAAAAGTTGGGATAGACCTGG
62 GATAGA-CCTATCTAAAG-CAACC--TCA-AAAAGTTGGGATAGA-CTTA
* ** * * * * * *
13978328 TCTATA-ACAACCTTTAAAAAATATTGGGATAGAATTGTCTAAGGCAACCTTAAAAAGGTTGGAA
1 TCTA-AGGCAA-CTTTAAAAAAGGTTGGGATAGACTCGTTTAAGACAACCTTAAAAAGATTGGGA
* * * * *
13978392 TAGACCTTGTCTAAGGCAACTTTTAAAAAAGGTTGGGATAGAC-CA
64 TAGACC-TATCTAAAGCAAC--CTCAAAAA-GTTGGGATAGACTTA
* * * ** * *
13978437 GTCTAAGGTAACCTTTTAACAAA-GTTGGGATAGACCTTGGCTAAGGCAACCTTTAAAAAAGGTT
1 -TCTAAGGCAA-C-TTTAAAAAAGGTTGGGATAGA-CTCGTTTAAGACAACC-TT-AAAAAGATT
* * * * * *
13978501 GAGATAGATC-AGTCTAAGGCAACTTTTTAAAAAAGTTGGGATAGACCTTG
60 GGGATAGACCTA-TCTAAAGCAAC---CTCAAAAAGTTGGGATAGA-CTTA
* * * * * *
13978551 TTTAAGGCAACCTTAAAAAAAGGTTAGGATAGACTTGTCTAA-AGCAACCTTAAAAAGGTTGGGA
1 TCTAAGGCAA-CTTTAAAAAAGGTTGGGATAGACTCGTTTAAGA-CAACCTTAAAAAGATTGGGA
* * * *
13978615 TAGA-CTCGTCTAAGGTAACCTCAAAAAGATTAGGATAGATCTTA
64 TAGACCT-ATCTAAAGCAACCTCAAAAAG-TTGGGATAGA-CTTA
* * * *
13978659 TCTAAGGCAACTTTTAAAAAGGTTGGGATTGACTCGTTTAAGACAACCTTAAAGATATTGGGATA
1 TCTAAGGCAACTTTAAAAAAGGTTGGGATAGACTCGTTTAAGACAACCTTAAAAAGATTGGGATA
* * *
13978724 GACCTATTTAAAGCAACCTTAAAAAGGTTGGGATAGACTTTT
66 GACCTATCTAAAGCAACCTCAAAAA-GTTGGGATAGAC-TTA
* * * * *
13978766 TCCAAGGCAA-TTTAAAAAAAGTTGGGATAAACTCATTTAAGGCAACCTTAAAAA
1 TCTAAGGCAACTTTAAAAAAGGTTGGGATAGACTCGTTTAAGACAACCTTAAAAA
13978820 AGGTTAGGGT
Statistics
Matches: 394, Mismatches: 69, Indels: 63
0.75 0.13 0.12
Matches are distributed among these distances:
106 38 0.10
107 88 0.22
108 25 0.06
109 2 0.01
110 51 0.13
111 69 0.18
112 50 0.13
113 71 0.18
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (105 bp):
TCTAAGGCAACTTTAAAAAAGGTTGGGATAGACTCGTTTAAGACAACCTTAAAAAGATTGGGATA
GACCTATCTAAAGCAACCTCAAAAAGTTGGGATAGACTTA
Found at i:13978781 original size:35 final size:35
Alignment explanation
Indices: 13978351--13978872 Score: 235
Period size: 35 Copynumber: 14.4 Consensus size: 35
13978341 TTAAAAAATA
* *
13978351 TTGGGATAGA-ATTGTCTAAGGCAACCTTAAAAAGG
1 TTGGGATAGACTTTTTC-AAGGCAACCTTAAAAAGG
* * * *
13978386 TTGGAATAGACCTTGTCTAAGGCAACTTTTAAAAAAGG
1 TTGGGATAGACTTTTTC-AAGGCAAC-CTT-AAAAAGG
*** *
13978424 TTGGGATAGAC-CAGTCTAAGGTAACCTTTTAACAAA-G
1 TTGGGATAGACTTTTTC-AAGGCAACC--TTAA-AAAGG
* **
13978461 TTGGGATAGACCTTGGCTAAGGCAACCTTTAAAAAAGG
1 TTGGGATAGACTTTTTC-AAGGCAACC-TT-AAAAAGG
* *** * *
13978499 TTGAGATAGA-TCAGTCTAAGGCAACTTTTTAAAAAAG
1 TTGGGATAGACTTTTTC-AAGGCAAC--CTTAAAAAGG
13978536 TTGGGATAGACCTTGTTT-AAGGCAACCTTAAAAAAAGG
1 TTGGGATAGA-CTT-TTTCAAGGCAACCTT--AAAAAGG
* * *
13978574 TTAGGATAGAC-TTGTCTAAAGCAACCTTAAAAAGG
1 TTGGGATAGACTTTTTC-AAGGCAACCTTAAAAAGG
** * * *
13978609 TTGGGATAGAC-TCGTCTAAGGTAACCTCAAAAAGA
1 TTGGGATAGACTTTTTC-AAGGCAACCTTAAAAAGG
* * *
13978644 TTAGGATAGA-TCTTATCTAAGGCAACTTTTAAAAAGG
1 TTGGGATAGACT-TTTTC-AAGGCAAC-CTTAAAAAGG
* * * * **
13978681 TTGGGATTGACTCGTTT-AAGACAACCTTAAAGATA
1 TTGGGATAGACT-TTTTCAAGGCAACCTTAAAAAGG
* *
13978716 TTGGGATAGACCTATTT-AAAGCAACCTTAAAAAGG
1 TTGGGATAGA-CTTTTTCAAGGCAACCTTAAAAAGG
* *
13978751 TTGGGATAGACTTTTTCCAAGGCAA-TTTAAAAAAAG
1 TTGGGATAGACTTTTT-CAAGGCAACCTT-AAAAAGG
* *
13978787 TTGGGATAAACTCATTT-AAGGCAACCTTAAAAAAGG
1 TTGGGATAGACT-TTTTCAAGGCAACCTT-AAAAAGG
* * * *
13978823 TTAGGG-TAAACTCGTTT-AAGGCAAACTTAAAAATG
1 TT-GGGATAGACT-TTTTCAAGGCAACCTTAAAAAGG
*
13978858 TTAGGATAGATCTTT
1 TTGGGATAGA-CTTT
13978873 GTCTCATGTC
Statistics
Matches: 385, Mismatches: 71, Indels: 62
0.74 0.14 0.12
Matches are distributed among these distances:
34 7 0.02
35 118 0.31
36 93 0.24
37 91 0.24
38 74 0.19
39 1 0.00
40 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (35 bp):
TTGGGATAGACTTTTTCAAGGCAACCTTAAAAAGG
Found at i:13978783 original size:142 final size:142
Alignment explanation
Indices: 13978365--13978867 Score: 412
Period size: 142 Copynumber: 3.5 Consensus size: 142
13978355 GATAGAATTG
* * * * * *
13978365 TCTAAGGCAAC-CTTAAAAAGGTTGGAATAGACCTTGTCTAAGGCAACTTTTAAAAA-AGGTTGG
1 TCTAAGGCAACTTTTAAAAAGGTTGGGATAGA-CTCGTTTAAGGCAAC-CTTAAAAATA--TTAG
* * * * * *
13978428 GATAGACC-AGTCTAAGGTAACCTTTTAACAAA-GTTGGGATAGACCTTGGCTAAGGCAACCTTT
62 GATAGACCTA-TCTAAAGCAACC--TTAA-AAAGGTTGGGATAGA-CTCGTCCAAGGCAACC-TC
* *
13978491 AAAAAAGGTT-GAGATAGA-TCA
121 AAAAAAAGTTAG-GATAAACTCA
* * *
13978512 GTCTAAGGCAACTTTTTAAAAAAGTTGGGATAGACCTTGTTTAAGGCAACCTTAAAAAAAGGTTA
1 -TCTAAGGCAAC-TTTTAAAAAGGTTGGGATAGA-CTCGTTTAAGGCAACCTTAAAAATA--TTA
* * * *
13978577 GGATAGACTTGTCTAAAGCAACCTTAAAAAGGTTGGGATAGACTCGTCTAAGGTAACCTCAAAAA
61 GGATAGACCTATCTAAAGCAACCTTAAAAAGGTTGGGATAGACTCGTCCAAGGCAACCTCAAAAA
* * *
13978642 GA-TTAGGATAGATCTTA
126 AAGTTAGGATA-AACTCA
* * * *
13978659 TCTAAGGCAACTTTTAAAAAGGTTGGGATTGACTCGTTTAAGACAACCTTAAAGATATTGGGATA
1 TCTAAGGCAACTTTTAAAAAGGTTGGGATAGACTCGTTTAAGGCAACCTTAAAAATATTAGGATA
* ** * *
13978724 GACCTATTTAAAGCAACCTTAAAAAGGTTGGGATAGACTTTTTCCAAGGCAA-TTTAAAAAAAGT
66 GACCTATCTAAAGCAACCTTAAAAAGGTTGGGATAGAC-TCGTCCAAGGCAACCTCAAAAAAAGT
*
13978788 TGGGATAAACTCA
130 TAGGATAAACTCA
* * * * * *
13978801 TTTAAGGCAACCTTAAAAAAGGTTAGGG-TAAACTCGTTTAAGGCAAACTTAAAAATGTTAGGAT
1 TCTAAGGCAACTTTTAAAAAGGTT-GGGATAGACTCGTTTAAGGCAACCTTAAAAATATTAGGAT
13978865 AGA
65 AGA
13978868 TCTTTGTCTC
Statistics
Matches: 295, Mismatches: 49, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
142 106 0.36
143 19 0.06
144 21 0.07
145 25 0.08
146 18 0.06
147 18 0.06
148 26 0.09
149 7 0.02
150 55 0.19
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (142 bp):
TCTAAGGCAACTTTTAAAAAGGTTGGGATAGACTCGTTTAAGGCAACCTTAAAAATATTAGGATA
GACCTATCTAAAGCAACCTTAAAAAGGTTGGGATAGACTCGTCCAAGGCAACCTCAAAAAAAGTT
AGGATAAACTCA
Found at i:13978841 original size:107 final size:108
Alignment explanation
Indices: 13978339--13978872 Score: 401
Period size: 107 Copynumber: 4.9 Consensus size: 108
13978329 CTATAACAAC
* * * * *
13978339 CTTTAAAAAATA-TTGGGATAGAATTGTCTAAGGCAACCTT-AAAAAGGTTGGAATAGACCTTGT
1 CTTTAAAAAA-AGTTGGGATAGACTCGTTTAAGGCAACCTTAAAAAAGGTTGGGATAGA-CTCGT
* * * ** * *
13978402 CTAAGGCAACTTTTAAAAAAGGTTGGGATAGACCAGTCT-AAGGTAA
64 TTAAGGCAAC-CTT-AAAAAGGTTAGGATAGACCTTTTTCAAGGCAA
* * * ** *
13978448 CCTTTTAACAAAGTTGGGATAGACCTTGGCTAAGGCAACCTTTAAAAAAGGTTGAGATAGA-TCA
1 -CTTTAAAAAAAGTTGGGATAGA-CTCGTTTAAGGCAACC-TTAAAAAAGGTTGGGATAGACTC-
* * * *
13978512 GTCTAAGGCAACTTTTTAAAAAAGTTGGGATAGACCTTGTTT-AAGGCAA
62 GTTTAAGGCAAC--CTTAAAAAGGTTAGGATAGACCTT-TTTCAAGGCAA
* * * * * *
13978561 CCTTAAAAAAAGGTTAGGATAGACTTGTCTAAAGCAACCTT-AAAAAGGTTGGGATAGACTCGTC
1 CTTTAAAAAAA-GTTGGGATAGACTCGTTTAAGGCAACCTTAAAAAAGGTTGGGATAGACTCGTT
* * * * *
13978625 TAAGGTAACCTCAAAAAGATTAGGATAGATC-TTATCTAAGGCAA
65 TAAGGCAACCTTAAAAAGGTTAGGATAGACCTTTTTC-AAGGCAA
* * * * * *
13978669 CTTTTAAAAAGGTTGGGATTGACTCGTTTAAGACAACCTTAAAGATA--TTGGGATAGAC-CTAT
1 CTTTAAAAAAAGTTGGGATAGACTCGTTTAAGGCAACCTTAAA-AAAGGTTGGGATAGACTC-GT
* *
13978731 TTAAAGCAACCTTAAAAAGGTTGGGATAGA-CTTTTTCCAAGGCAA
64 TTAAGGCAACCTTAAAAAGGTTAGGATAGACCTTTTT-CAAGGCAA
* * *
13978776 -TTTAAAAAAAGTTGGGATAAACTCATTTAAGGCAACCTTAAAAAAGGTTAGGG-TAAACTCGTT
1 CTTTAAAAAAAGTTGGGATAGACTCGTTTAAGGCAACCTTAAAAAAGGTT-GGGATAGACTCGTT
* * *
13978839 TAAGGCAAACTTAAAAATGTTAGGATAGATCTTT
65 TAAGGCAACCTTAAAAAGGTTAGGATAGACCTTT
13978873 GTCTCATGTC
Statistics
Matches: 345, Mismatches: 58, Indels: 44
0.77 0.13 0.10
Matches are distributed among these distances:
105 2 0.01
106 40 0.12
107 103 0.30
108 42 0.12
109 3 0.01
110 45 0.13
111 19 0.06
112 54 0.16
113 37 0.11
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (108 bp):
CTTTAAAAAAAGTTGGGATAGACTCGTTTAAGGCAACCTTAAAAAAGGTTGGGATAGACTCGTTT
AAGGCAACCTTAAAAAGGTTAGGATAGACCTTTTTCAAGGCAA
Found at i:13979183 original size:75 final size:75
Alignment explanation
Indices: 13979060--13979212 Score: 256
Period size: 75 Copynumber: 2.0 Consensus size: 75
13979050 TAGTAATTTA
* *
13979060 TATACAAAATCCTAATAGAAGTAGTCAACAAGTTGTAAACATGTTGTCAACCTGTTTCAC-ATGA
1 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATGTTGTCAACCTGTTTC-CTATGA
13979124 CATCAAAAAAT
65 CATCAAAAAAT
13979135 TATACAAAATCCTAATAGAAGCAGTCAACACA-TTGCAAACATGTTGTCAACCTGTTTCCTATGA
1 TATACAAAATCCTAATAGAAGCAGTCAACA-AGTTGCAAACATGTTGTCAACCTGTTTCCTATGA
13979199 CATCAAAAAAT
65 CATCAAAAAAT
13979210 TAT
1 TAT
13979213 GGGGCAACTG
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
74 1 0.01
75 72 0.97
76 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (75 bp):
TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATGTTGTCAACCTGTTTCCTATGAC
ATCAAAAAAT
Found at i:13985070 original size:22 final size:22
Alignment explanation
Indices: 13985039--13985080 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13985029 TCCCCACAGG
*
13985039 AAGTGTAGGGATGGACGGAGGC
1 AAGTGCAGGGATGGACGGAGGC
* *
13985061 AAGTGCAGGGTTGGATGGAG
1 AAGTGCAGGGATGGACGGAG
13985081 TTATCATGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.07, G:0.50, T:0.17
Consensus pattern (22 bp):
AAGTGCAGGGATGGACGGAGGC
Found at i:13991750 original size:17 final size:17
Alignment explanation
Indices: 13991728--13991763 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
13991718 CACCCTGAGC
13991728 TTGGATGTTATACTAGG
1 TTGGATGTTATACTAGG
13991745 TTGGATGTTATACTAGG
1 TTGGATGTTATACTAGG
13991762 TT
1 TT
13991764 AGATTGCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.06, G:0.28, T:0.44
Consensus pattern (17 bp):
TTGGATGTTATACTAGG
Found at i:13992502 original size:9 final size:9
Alignment explanation
Indices: 13992484--13992556 Score: 52
Period size: 9 Copynumber: 8.6 Consensus size: 9
13992474 TTTATTTAAG
13992484 TTAA-GTGT
1 TTAATGTGT
13992492 TTAATGTGT
1 TTAATGTGT
*
13992501 TT--TATGT
1 TTAATGTGT
13992508 TTAATAAGTGT
1 TTAAT--GTGT
13992519 TTAAATGTGT
1 TT-AATGTGT
*
13992529 TTAATATG-
1 TTAATGTGT
13992537 TT--TGT-T
1 TTAATGTGT
13992543 TTAATGTGT
1 TTAATGTGT
13992552 TTAAT
1 TTAAT
13992557 TGCAGGTGTC
Statistics
Matches: 51, Mismatches: 4, Indels: 19
0.69 0.05 0.26
Matches are distributed among these distances:
6 4 0.08
7 6 0.12
8 9 0.18
9 18 0.35
10 6 0.12
11 5 0.10
12 3 0.06
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (9 bp):
TTAATGTGT
Found at i:13992530 original size:10 final size:11
Alignment explanation
Indices: 13992505--13992556 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 11
13992495 ATGTGTTTTA
*
13992505 TGTTTAATAAG
1 TGTTTAATATG
13992516 TGTTTAA-ATG
1 TGTTTAATATG
13992526 TGTTTAATATG
1 TGTTTAATATG
*
13992537 TTTGTTTTA-ATG
1 --TGTTTAATATG
13992549 TGTTTAAT
1 TGTTTAAT
13992557 TGCAGGTGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 15 0.44
11 10 0.29
12 3 0.09
13 6 0.18
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (11 bp):
TGTTTAATATG
Found at i:13992531 original size:21 final size:22
Alignment explanation
Indices: 13992505--13992556 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
13992495 ATGTGTTTTA
13992505 TGTTTAATAAG-TGTTTAAATG
1 TGTTTAATAAGTTGTTTAAATG
* *
13992526 TGTTTAATATGTTTGTTTTAATG
1 TGTTTAATAAG-TTGTTTAAATG
13992549 TGTTTAAT
1 TGTTTAAT
13992557 TGCAGGTGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 10 0.37
23 17 0.63
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (22 bp):
TGTTTAATAAGTTGTTTAAATG
Found at i:13994607 original size:21 final size:22
Alignment explanation
Indices: 13994560--13994613 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
13994550 AAAGGAAGCG
* *
13994560 AGAAAAAGAAATTGAGAGAAGA
1 AGAAAAAGAAATGGAGAGAAAA
*
13994582 A-AAAAAGACATGGA-AGAAAA
1 AGAAAAAGAAATGGAGAGAAAA
*
13994602 AGAAAAGGAAAT
1 AGAAAAAGAAAT
13994614 AAAAAGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 6 0.23
21 19 0.73
22 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.07
Consensus pattern (22 bp):
AGAAAAAGAAATGGAGAGAAAA
Found at i:13996084 original size:29 final size:29
Alignment explanation
Indices: 13996042--13996099 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
13996032 AAAAAGTAAG
13996042 CTCGATTTCTATTTTTGATCCCGGCATAA
1 CTCGATTTCTATTTTTGATCCCGGCATAA
*
13996071 CTCGATTTCTATTTTTGATCTCGGCATAA
1 CTCGATTTCTATTTTTGATCCCGGCATAA
13996100 GAACATTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.43
Consensus pattern (29 bp):
CTCGATTTCTATTTTTGATCCCGGCATAA
Found at i:13996107 original size:29 final size:29
Alignment explanation
Indices: 13996044--13996107 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
13996034 AAAGTAAGCT
**
13996044 CGATTTCTATTTTTGATCCCGGCATAACT
1 CGATTTCTATTTTTGATCCCGGCATAAAA
*
13996073 CGATTTCTATTTTTGATCTCGGCATAAGAA
1 CGATTTCTATTTTTGATCCCGGCATAA-AA
13996103 C-ATTT
1 CGATTT
13996108 GTTCAAATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 30 0.97
30 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.42
Consensus pattern (29 bp):
CGATTTCTATTTTTGATCCCGGCATAAAA
Found at i:13996846 original size:9 final size:9
Alignment explanation
Indices: 13996828--13996901 Score: 54
Period size: 9 Copynumber: 8.6 Consensus size: 9
13996818 TTTATTTAAG
13996828 TTAA-GTGT
1 TTAATGTGT
13996836 TTAATGTGT
1 TTAATGTGT
13996845 TT--TGTGT
1 TTAATGTGT
13996852 TTAATAAGTGT
1 TTAAT--GTGT
13996863 TTAAAATGTGT
1 TT--AATGTGT
*
13996874 TTAATATG-
1 TTAATGTGT
13996882 TT--TGT-T
1 TTAATGTGT
13996888 TTAATGTGT
1 TTAATGTGT
13996897 TTAAT
1 TTAAT
13996902 TGCAAGTGTC
Statistics
Matches: 53, Mismatches: 2, Indels: 21
0.70 0.03 0.28
Matches are distributed among these distances:
6 4 0.08
7 7 0.13
8 9 0.17
9 18 0.34
11 12 0.23
13 3 0.06
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (9 bp):
TTAATGTGT
Found at i:13996864 original size:11 final size:12
Alignment explanation
Indices: 13996847--13996901 Score: 57
Period size: 11 Copynumber: 4.8 Consensus size: 12
13996837 TAATGTGTTT
13996847 TGTGTTTAATAA
1 TGTGTTTAATAA
13996859 -GTGTTTAA-AA
1 TGTGTTTAATAA
13996869 TGTGTTTAAT-A
1 TGTGTTTAATAA
13996880 TGTTTGTTT--TAA
1 TG--TGTTTAATAA
13996892 TGTGTTTAAT
1 TGTGTTTAAT
13996902 TGCAAGTGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 14
0.72 0.00 0.28
Matches are distributed among these distances:
10 7 0.19
11 20 0.56
12 4 0.11
13 5 0.14
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (12 bp):
TGTGTTTAATAA
Found at i:13997056 original size:23 final size:23
Alignment explanation
Indices: 13997012--13997056 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13997002 ATTATTCTTC
*
13997012 ATTAAAAGAAGCTATTATCATCA
1 ATTAAAAGAAGCTATTAACATCA
*
13997035 ATTAAAGGAAGC-ATTACACATC
1 ATTAAAAGAAGCTATTA-ACATC
13997057 CTTAAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.27
Consensus pattern (23 bp):
ATTAAAAGAAGCTATTAACATCA
Found at i:14009238 original size:39 final size:39
Alignment explanation
Indices: 14009164--14009242 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 39
14009154 AAATTTCGTA
* *
14009164 AAAAATTCTCTGAGTTCCCGATTTAGTCCTGATTTGATT
1 AAAAATTCTCTAAGTTCCCGATTTAGTCCTAATTTGATT
14009203 AAAAATTCTCTAAGTTCCCGATTTAGT-CTCAATTTGATT
1 AAAAATTCTCTAAGTTCCCGATTTAGTCCT-AATTTGATT
14009242 A
1 A
14009243 TAATACTCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 2 0.05
39 35 0.95
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.41
Consensus pattern (39 bp):
AAAAATTCTCTAAGTTCCCGATTTAGTCCTAATTTGATT
Found at i:14016463 original size:3 final size:3
Alignment explanation
Indices: 14016450--14016479 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
14016440 ACATGAAAAA
14016450 ATT ATTT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT AT
14016480 ATATAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:14017348 original size:40 final size:41
Alignment explanation
Indices: 14017297--14017445 Score: 180
Period size: 40 Copynumber: 3.7 Consensus size: 41
14017287 GCAAAAATTG
*
14017297 TAAAACACAGAGCAATAGCGGCG-TTTTATCAAAAACACCGC
1 TAAAA-ACAGAGCAATAGCGGCGCTTTTATCAAAAACGCCGC
* *
14017338 TAAAAACAGAGCAATAGGGGCG-TTTTACCAAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTTATCAAAAACGCCGC
* *
14017378 TAAAAACAGAGCATTAGCGGCGCTTTTGGT--AAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTT-ATCAAAAACGCCGC
* *
14017418 TAAAAACTAAAGCATTAGCGGCGCTTTT
1 TAAAAAC-AGAGCAATAGCGGCGCTTTT
14017446 TGTGCCGCTA
Statistics
Matches: 97, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
40 69 0.71
41 28 0.29
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (41 bp):
TAAAAACAGAGCAATAGCGGCGCTTTTATCAAAAACGCCGC
Found at i:14017682 original size:25 final size:25
Alignment explanation
Indices: 14017652--14017762 Score: 81
Period size: 25 Copynumber: 4.6 Consensus size: 25
14017642 TGGTTTAGGA
14017652 TTTAAGGTTTATGAGTTAACTATGG
1 TTTAAGGTTTATGAGTTAACTATGG
* * *
14017677 TTTAAGATATAT-AGTT---TAGGG
1 TTTAAGGTTTATGAGTTAACTATGG
* *
14017698 TTTAAGGTTTAGGAGTTAACTA-GTA
1 TTTAAGGTTTATGAGTTAACTATG-G
* *
14017723 TTTGAAGGTTTATGA-TAAATTATGGG
1 TTT-AAGGTTTATGAGTTAACTAT-GG
*
14017749 TTTAAGGATTATGA
1 TTTAAGGTTTATGA
14017763 TTTAGGGGTT
Statistics
Matches: 66, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
21 13 0.20
22 4 0.06
24 5 0.08
25 30 0.45
26 13 0.20
27 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.24, T:0.42
Consensus pattern (25 bp):
TTTAAGGTTTATGAGTTAACTATGG
Found at i:14017781 original size:14 final size:14
Alignment explanation
Indices: 14017763--14017861 Score: 60
Period size: 14 Copynumber: 7.0 Consensus size: 14
14017753 AGGATTATGA
14017763 TTTAGGGGTTAGGG
1 TTTAGGGGTTAGGG
*
14017777 GTTA-GGGTT-GGTG
1 TTTAGGGGTTAGG-G
* *
14017790 TTTAAGGTGTAAGGG
1 TTT-AGGGGTTAGGG
*
14017805 TTTTGGGGTTAAGGG
1 TTTAGGGGTT-AGGG
*
14017820 -TTAAGGGTTAAGGG
1 TTTAGGGGTT-AGGG
* *
14017834 TTTAGGGTTTAGTG
1 TTTAGGGGTTAGGG
* *
14017848 TTTATGGGATAGGG
1 TTTAGGGGTTAGGG
14017862 GTTAAGAGGT
Statistics
Matches: 63, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
12 2 0.03
13 8 0.13
14 33 0.52
15 18 0.29
16 2 0.03
ACGTcount: A:0.18, C:0.00, G:0.44, T:0.37
Consensus pattern (14 bp):
TTTAGGGGTTAGGG
Found at i:14017817 original size:15 final size:15
Alignment explanation
Indices: 14017789--14017881 Score: 61
Period size: 14 Copynumber: 6.3 Consensus size: 15
14017779 TAGGGTTGGT
14017789 GTTTAA-GGTGTAAGG
1 GTTTAAGGGT-TAAGG
**
14017804 GTTTTGGGGTTAAGG
1 GTTTAAGGGTTAAGG
14017819 G-TTAAGGGTTAAGG
1 GTTTAAGGGTTAAGG
* *
14017833 GTTT-AGGGTTTAGT
1 GTTTAAGGGTTAAGG
* *
14017847 GTTTATGGGAT-AGG
1 GTTTAAGGGTTAAGG
*
14017861 GGTTAAGAGGTTTAA-G
1 GTTTAAG-GG-TTAAGG
14017877 GTTTA
1 GTTTA
14017882 GATTAATTAG
Statistics
Matches: 59, Mismatches: 13, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
14 31 0.53
15 18 0.31
16 9 0.15
17 1 0.02
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.38
Consensus pattern (15 bp):
GTTTAAGGGTTAAGG
Found at i:14022200 original size:43 final size:42
Alignment explanation
Indices: 14022114--14022215 Score: 132
Period size: 43 Copynumber: 2.4 Consensus size: 42
14022104 AAATTTTATA
*
14022114 ACCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAAAGGCCATG
1 ACCTTTAGCGGCGTTTTGGGAAAAGCGCCGCTAAAGGCCATG
** * * *
14022156 ACCTTTAGTTGCGTTTGTGGGAAGAGTGCCGCTAAAGGCTATG
1 ACCTTTAGCGGCGTTT-TGGGAAAAGCGCCGCTAAAGGCCATG
*
14022199 ACCTTTAGCGGCCTTTT
1 ACCTTTAGCGGCGTTTT
14022216 TAAAAATAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 15 0.30
43 35 0.70
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (42 bp):
ACCTTTAGCGGCGTTTTGGGAAAAGCGCCGCTAAAGGCCATG
Found at i:14023843 original size:19 final size:21
Alignment explanation
Indices: 14023821--14023868 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
14023811 TCCCATTAGG
14023821 AAATTC-AA-GTTGGCACTTA
1 AAATTCTAATGTTGGCACTTA
*
14023840 AAA-TCTAATGTTGGTACTTA
1 AAATTCTAATGTTGGCACTTA
14023860 AAA-TCTAAT
1 AAATTCTAAT
14023869 TGAACTGCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 5 0.19
20 19 0.73
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (21 bp):
AAATTCTAATGTTGGCACTTA
Found at i:14023858 original size:20 final size:20
Alignment explanation
Indices: 14023829--14023868 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
14023819 GGAAATTCAA
14023829 GTTGGCACTTAAAATCTAAT
1 GTTGGCACTTAAAATCTAAT
*
14023849 GTTGGTACTTAAAATCTAAT
1 GTTGGCACTTAAAATCTAAT
14023869 TGAACTGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (20 bp):
GTTGGCACTTAAAATCTAAT
Found at i:14024014 original size:31 final size:29
Alignment explanation
Indices: 14023945--14024018 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
14023935 ACAAAATAAT
**
14023945 AACATAAGTGACTAAAATGTAACATTTCA
1 AACATAAGTGACTAAAATGTAACATAACA
*
14023974 AACATAAGTGACTAAAATGTAACCTGAAACA
1 AACATAAGTGACTAAAATGTAACAT--AACA
*
14024005 AACAAAAGTGACTA
1 AACATAAGTGACTA
14024019 TTTTTGTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (29 bp):
AACATAAGTGACTAAAATGTAACATAACA
Found at i:14037291 original size:39 final size:39
Alignment explanation
Indices: 14037248--14037324 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
14037238 GAAGTCTAGC
*
14037248 TGAAGCACATAAGTGCTAAACGA-AAGCCCGAAGACTAAT
1 TGAAGCACACAAGTGCTAAA-GAGAAGCCCGAAGACTAAT
* *
14037287 TGAAGCACACAAGTGCTAAATAGAAGCCCGAAGGCTAA
1 TGAAGCACACAAGTGCTAAAGAGAAGCCCGAAGACTAA
14037325 CTAAAGCTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 1 0.03
39 33 0.97
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.14
Consensus pattern (39 bp):
TGAAGCACACAAGTGCTAAAGAGAAGCCCGAAGACTAAT
Found at i:14049222 original size:27 final size:27
Alignment explanation
Indices: 14049162--14049222 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
14049152 ATCTATTCTC
* *
14049162 ATTTATTCTTTATATATTTAGAATTTA
1 ATTTATTATTTATATATTTAGAAATTA
* * * *
14049189 GTCTATTATTTTTATTTTTAGAAATTA
1 ATTTATTATTTATATATTTAGAAATTA
14049216 ATTTATT
1 ATTTATT
14049223 TCTATTTCAC
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (27 bp):
ATTTATTATTTATATATTTAGAAATTA
Found at i:14061882 original size:14 final size:15
Alignment explanation
Indices: 14061863--14061891 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14061853 TCTTGAGCAA
14061863 GTGAATGA-TTATGT
1 GTGAATGACTTATGT
14061877 GTGAATGACTTATGT
1 GTGAATGACTTATGT
14061892 ACTTTGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.28, C:0.03, G:0.28, T:0.41
Consensus pattern (15 bp):
GTGAATGACTTATGT
Found at i:14067473 original size:20 final size:19
Alignment explanation
Indices: 14067450--14067513 Score: 53
Period size: 20 Copynumber: 3.5 Consensus size: 19
14067440 AATCCCTTTT
*
14067450 AAAATTTTAAAATATTTTAA
1 AAAATTTTAAAATATTAT-A
** *
14067470 AAAATAATAAAAAATTATA
1 AAAATTTTAAAATATTATA
14067489 AAAA-TTT-AAA-ATTATA
1 AAAATTTTAAAATATTATA
*
14067505 AAATTTTTA
1 AAAATTTTA
14067514 TTAAAGAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
16 9 0.26
17 6 0.17
18 1 0.03
19 5 0.14
20 14 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTTTAAAATATTATA
Found at i:14079390 original size:79 final size:79
Alignment explanation
Indices: 14079244--14079463 Score: 234
Period size: 79 Copynumber: 2.8 Consensus size: 79
14079234 CCAAATCACG
* * ** * *
14079244 TACCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTAT
1 TACCTTCGGGACTTAACCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATAT
14079308 AGTAACTCGCACAAA
65 AGTAACTCGCACAAA
*
14079323 TACCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT-
1 TACCTTCGGGACTTAA-CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATA
*
14079386 TAGTATCTCGCACAAA
64 TAGTAACTCGCACAAA
* * * *
14079402 TGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TACCTTCGGGA-CTTA-ACCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
14079464 CATCATTCGA
Statistics
Matches: 120, Mismatches: 14, Indels: 13
0.82 0.10 0.09
Matches are distributed among these distances:
78 3 0.03
79 69 0.57
80 48 0.40
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
TACCTTCGGGACTTAACCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATA
GTAACTCGCACAAA
Found at i:14079463 original size:40 final size:40
Alignment explanation
Indices: 14079260--14079463 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
14079250 CGGAATTTAA
** *
14079260 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
14079300 CCGGTTATAGTAACTCGCACAAATACCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
14079340 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
14079379 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
14079419 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
14079459 CCGGA
1 CCGGA
14079464 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:14080658 original size:56 final size:56
Alignment explanation
Indices: 14080591--14080764 Score: 300
Period size: 56 Copynumber: 3.1 Consensus size: 56
14080581 TATTAGTTTA
14080591 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
* *
14080647 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCAT-A-GT-TT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
14080700 ATTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 -TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
14080757 TTGCCCAT
1 TTGCCCAT
14080765 CATCCCTTGT
Statistics
Matches: 110, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
53 2 0.02
54 48 0.44
55 2 0.02
56 56 0.51
57 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Done.