Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 52 of 78
Found at i:10296974 original size:10 final size:9
Alignment explanation
Indices: 10296953--10296987 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
10296943 AATATTAGAT
*
10296953 AAAAAATGA
1 AAAAAATAA
10296962 AAAAAATAA
1 AAAAAATAA
10296971 AAAAAATAA
1 AAAAAATAA
*
10296980 AGAAAATA
1 AAAAAATA
10296988 TGGTAAAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (9 bp):
AAAAAATAA
Found at i:10297041 original size:9 final size:9
Alignment explanation
Indices: 10297027--10297173 Score: 55
Period size: 9 Copynumber: 16.6 Consensus size: 9
10297017 ATAGGGAAGC
10297027 AAATAAAAT
1 AAATAAAAT
10297036 AAATAAAAT
1 AAATAAAAT
*
10297045 AAAGATAAA-
1 AAATA-AAAT
*
10297054 AAATAACAT
1 AAATAAAAT
10297063 AAA-AATAAT
1 AAATAA-AAT
10297072 -AATAATAAT
1 AAATAA-AAT
*
10297081 ATAAGAAAAT
1 A-AATAAAAT
10297091 -AATAATAAT
1 AAATAA-AAT
* **
10297100 ATATACCAT
1 AAATAAAAT
10297109 AAAT-AAAT
1 AAATAAAAT
10297117 AAATGAGAACA-
1 AAAT-A-AA-AT
10297128 AGAAT-AAA-
1 A-AATAAAAT
10297136 AAATAAAA-
1 AAATAAAAT
*
10297144 ATA-AAAAT
1 AAATAAAAT
*
10297152 AAAT-AAAG
1 AAATAAAAT
*
10297160 GAATAAAAT
1 AAATAAAAT
10297169 AAATA
1 AAATA
10297174 TAAAGGTTAA
Statistics
Matches: 103, Mismatches: 18, Indels: 34
0.66 0.12 0.22
Matches are distributed among these distances:
7 7 0.07
8 31 0.30
9 45 0.44
10 9 0.09
11 7 0.07
12 4 0.04
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (9 bp):
AAATAAAAT
Found at i:10297058 original size:13 final size:14
Alignment explanation
Indices: 10297027--10297173 Score: 51
Period size: 14 Copynumber: 10.0 Consensus size: 14
10297017 ATAGGGAAGC
10297027 AAATAAAATAAATA
1 AAATAAAATAAATA
10297041 AAATAAAGAT-AA-A
1 AAATAAA-ATAAATA
*
10297054 AAATAACATAAA-A
1 AAATAAAATAAATA
10297067 ATAATAATAATAATATA
1 A-AATAA-AATAA-ATA
10297084 AGAA-AATAAT-AATA
1 A-AATAA-AATAAATA
**
10297098 ATATATACCATAAAT-
1 A-A-ATAAAATAAATA
*
10297113 AAAT-AAATGAGAACA
1 AAATAAAAT-A-AATA
10297128 AGAAT-AAA-AAATAA
1 A-AATAAAATAAAT-A
10297142 AAATAAAAATAAATAA
1 AAAT-AAAATAAAT-A
10297158 AGGAATAAAATAAATA
1 A--AATAAAATAAATA
10297174 TAAAGGTTAA
Statistics
Matches: 104, Mismatches: 10, Indels: 36
0.69 0.07 0.24
Matches are distributed among these distances:
12 4 0.04
13 19 0.18
14 25 0.24
15 15 0.14
16 25 0.24
17 13 0.12
18 3 0.03
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (14 bp):
AAATAAAATAAATA
Found at i:10297092 original size:22 final size:21
Alignment explanation
Indices: 10297064--10297104 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
10297054 AAATAACATA
10297064 AAAATAATAATAATAATATAAG
1 AAAATAATAATAAT-ATATAAG
10297086 AAAATAATAATAATATATA
1 AAAATAATAATAATATATA
10297105 CCATAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAATAATAATAATATATAAG
Found at i:10297112 original size:22 final size:22
Alignment explanation
Indices: 10297064--10297114 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
10297054 AAATAACATA
*
10297064 AAAATAATAATAATAATATAAG
1 AAAATAATAATAATAATATAAC
*
10297086 AAAATAATAATAAT-ATATACC
1 AAAATAATAATAATAATATAAC
10297107 ATAAATAA
1 A-AAATAA
10297115 ATAAATGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (22 bp):
AAAATAATAATAATAATATAAC
Found at i:10297156 original size:23 final size:23
Alignment explanation
Indices: 10297027--10297225 Score: 87
Period size: 23 Copynumber: 8.6 Consensus size: 23
10297017 ATAGGGAAGC
10297027 AAAT-AAAATAAAT--AAAATAA
1 AAATAAAAATAAATAAAAAATAA
*
10297047 AGATAAAAAATAACAT-AAAAATAA
1 AAAT-AAAAATAA-ATAAAAAATAA
* *
10297071 TAATAATAAT--ATAAGAAAATAA
1 AAATAAAAATAAATAA-AAAATAA
* * *
10297093 TAATAATATATACCATAAATAAATAA
1 AAATAA-AAATA-AATAAA-AAATAA
* * * *
10297119 ATGAGAACAA-GAATAAAAAATAA
1 A-AATAAAAATAAATAAAAAATAA
*
10297142 AAATAAAAATAAATAAAGGAAT-A
1 AAATAAAAATAAATAAA-AAATAA
*
10297165 AAATAAATATAAAGGTTAAAAAAGTAA
1 AAATAAAAATAAA---TAAAAAA-TAA
*
10297192 AAATAAAGAAT--ATAAAAAATAG
1 AAATAAA-AATAAATAAAAAATAA
10297214 AAAT-AAAATAAA
1 AAATAAAAATAAA
10297226 GAGAGAGAAA
Statistics
Matches: 135, Mismatches: 22, Indels: 42
0.68 0.11 0.21
Matches are distributed among these distances:
20 8 0.06
21 3 0.02
22 32 0.24
23 42 0.31
24 17 0.13
25 3 0.02
26 17 0.13
27 11 0.08
28 2 0.01
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (23 bp):
AAATAAAAATAAATAAAAAATAA
Found at i:10297208 original size:21 final size:20
Alignment explanation
Indices: 10297134--10297208 Score: 61
Period size: 21 Copynumber: 4.0 Consensus size: 20
10297124 AACAAGAATA
10297134 AAAAATAAA-AATA-AAAAT
1 AAAAATAAAGAATATAAAAT
*
10297152 --AAATAAAGGA-ATAAAAT
1 AAAAATAAAGAATATAAAAT
* ** *
10297169 AAATATAAAGGTTAAAAAAGT
1 AAAAATAAAGAATATAAAA-T
10297190 AAAAATAAAGAATATAAAA
1 AAAAATAAAGAATATAAAA
10297209 AATAGAAATA
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
16 8 0.19
17 6 0.14
19 8 0.19
20 5 0.12
21 16 0.37
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (20 bp):
AAAAATAAAGAATATAAAAT
Found at i:10297223 original size:50 final size:50
Alignment explanation
Indices: 10297131--10297265 Score: 129
Period size: 50 Copynumber: 2.7 Consensus size: 50
10297121 GAGAACAAGA
*
10297131 ATAAAAAA-TAAAAATAAA-AATAAATAAAGGAATA-AAATAAATATAA-AG-G
1 ATAAAAAAGTAAAAATAAAGAAT--ATAAA-AAATAGAAATAAATA-AAGAGAG
*
10297180 TTAAAAAAGTAAAAATAAAGAATATAAAAAATAGAAATAAAATAAAGAGAG
1 ATAAAAAAGTAAAAATAAAGAATATAAAAAATAGAAAT-AAATAAAGAGAG
* * * *
10297231 AGAAAAAAGTAAAAAGAAAGAAAAT-AATAATAGAA
1 ATAAAAAAGTAAAAATAAAGAATATAAAAAATAGAA
10297266 TACATGTATA
Statistics
Matches: 73, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
48 4 0.05
49 18 0.25
50 26 0.36
51 25 0.34
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (50 bp):
ATAAAAAAGTAAAAATAAAGAATATAAAAAATAGAAATAAATAAAGAGAG
Found at i:10297243 original size:18 final size:18
Alignment explanation
Indices: 10297203--10297260 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
10297193 AATAAAGAAT
*
10297203 ATAAAAA-ATAGAAATAAA
1 ATAAAAAGAAAGAAA-AAA
* *
10297221 ATAAAGAGAGAGAAAAAA
1 ATAAAAAGAAAGAAAAAA
* *
10297239 GTAAAAAGAAAGAAAATA
1 ATAAAAAGAAAGAAAAAA
10297257 ATAA
1 ATAA
10297261 TAGAATACAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
18 26 0.81
19 6 0.19
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (18 bp):
ATAAAAAGAAAGAAAAAA
Found at i:10297481 original size:8 final size:8
Alignment explanation
Indices: 10297470--10297499 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
10297460 AATAAAATAA
10297470 TATATATG
1 TATATATG
10297478 TATATATG
1 TATATATG
*
10297486 TATATATA
1 TATATATG
10297494 TATATA
1 TATATA
10297500 CATAAAACGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (8 bp):
TATATATG
Found at i:10297526 original size:3 final size:3
Alignment explanation
Indices: 10297520--10297607 Score: 58
Period size: 3 Copynumber: 28.7 Consensus size: 3
10297510 TAGGAGAAGA
* * *
10297520 AAT AAT AAT AAT AAT AAT AAT AAAT AGT -AT AA- AAA AGAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT A-AT AAT AAT
*
10297565 AAAT AAT -AT ATAT ATAT ATAT AA- AGT AAT AAT AAT AAT AAT AA
1 -AAT AAT AAT A-AT A-AT A-AT AAT AAT AAT AAT AAT AAT AAT AA
10297608 AGGTAAAATA
Statistics
Matches: 70, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
2 6 0.09
3 45 0.64
4 19 0.27
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10298884 original size:19 final size:20
Alignment explanation
Indices: 10298848--10298885 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
10298838 TCTTATAATA
*
10298848 TATAGTATAATATATTTATG
1 TATAGTATAACATATTTATG
*
10298868 TATA-TATAACATGTTTAT
1 TATAGTATAACATATTTAT
10298886 TAACACTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (20 bp):
TATAGTATAACATATTTATG
Found at i:10299958 original size:6 final size:6
Alignment explanation
Indices: 10299949--10299977 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
10299939 TAAATTTTAT
10299949 TATATG TATATG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATAT
10299978 AAAAGTGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:10301109 original size:21 final size:21
Alignment explanation
Indices: 10301065--10301161 Score: 104
Period size: 21 Copynumber: 4.6 Consensus size: 21
10301055 AACAATTATC
* * * *
10301065 TTCATAAAAAGATTAAATCAT
1 TTCATCAAAAGGTTAAGTCCT
* *
10301086 TTCATGAAAAGGTTAAGCCCT
1 TTCATCAAAAGGTTAAGTCCT
* *
10301107 TTCATCAAAAGGATAAGTCAT
1 TTCATCAAAAGGTTAAGTCCT
*
10301128 TTAATCAAAAGGTTAAGTCCT
1 TTCATCAAAAGGTTAAGTCCT
*
10301149 TTCATCGAAAGGT
1 TTCATCAAAAGGT
10301162 CTTAACCCTT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (21 bp):
TTCATCAAAAGGTTAAGTCCT
Found at i:10301117 original size:42 final size:41
Alignment explanation
Indices: 10301065--10301159 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 41
10301055 AACAATTATC
* * *
10301065 TTCATAAAAAGATTAAATCATTTCATGAAAAGGTTAAGCCCT
1 TTCATCAAAAGA-TAAATCATTTAATCAAAAGGTTAAGCCCT
* *
10301107 TTCATCAAAAGGATAAGTCATTTAATCAAAAGGTTAAGTCCT
1 TTCATCAAAA-GATAAATCATTTAATCAAAAGGTTAAGCCCT
*
10301149 TTCATCGAAAG
1 TTCATCAAAAG
10301160 GTCTTAACCC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.02
42 43 0.93
43 2 0.04
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.31
Consensus pattern (41 bp):
TTCATCAAAAGATAAATCATTTAATCAAAAGGTTAAGCCCT
Found at i:10302197 original size:51 final size:51
Alignment explanation
Indices: 10302101--10302197 Score: 122
Period size: 51 Copynumber: 1.9 Consensus size: 51
10302091 ATGTTCGGAT
* * * *
10302101 TTTAATTTACTAAATTCCCATCGTTTAACAGAAGTTGGTTTTGTTTCGAGA
1 TTTAATTTACTAAATTCCCATCGTTCAACAGAAATTGGATCTGTTTCGAGA
* * * *
10302152 TTTAATTTATTAAATTCTCGTCGTTCAACATAAATTGGATCTGTTT
1 TTTAATTTACTAAATTCCCATCGTTCAACAGAAATTGGATCTGTTT
10302198 TGGGTTTTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 38 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.45
Consensus pattern (51 bp):
TTTAATTTACTAAATTCCCATCGTTCAACAGAAATTGGATCTGTTTCGAGA
Found at i:10302207 original size:51 final size:51
Alignment explanation
Indices: 10302100--10302208 Score: 119
Period size: 51 Copynumber: 2.1 Consensus size: 51
10302090 TATGTTCGGA
* * * *
10302100 TTTTAATTTACTAAATTCCCATCGTTTAACAGAAGTTGGTTTTGTTTCGAG
1 TTTTAATTTACTAAATTCCCATCGTTCAACAGAAATTGGATCTGTTTCGAG
* * * * * * *
10302151 ATTTAATTTATTAAATTCTCGTCGTTCAACATAAATTGGATCTGTTTTGGG
1 TTTTAATTTACTAAATTCCCATCGTTCAACAGAAATTGGATCTGTTTCGAG
10302202 TTTTAAT
1 TTTTAAT
10302209 CTTGTTATTC
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.47
Consensus pattern (51 bp):
TTTTAATTTACTAAATTCCCATCGTTCAACAGAAATTGGATCTGTTTCGAG
Found at i:10303652 original size:21 final size:21
Alignment explanation
Indices: 10303626--10303673 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
10303616 ATTCTCATCT
*
10303626 TGAAAAGATTAAATCATTTCA
1 TGAAAAGATTAAACCATTTCA
* *
10303647 TGAAAAGGTTAAGCCATTTCA
1 TGAAAAGATTAAACCATTTCA
*
10303668 TTAAAA
1 TGAAAA
10303674 AGATAAGTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.31
Consensus pattern (21 bp):
TGAAAAGATTAAACCATTTCA
Found at i:10303680 original size:21 final size:21
Alignment explanation
Indices: 10303640--10303680 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10303630 AAGATTAAAT
* *
10303640 CATTTCATGAAAAGGTTAAGC
1 CATTTCATGAAAAAGATAAGC
*
10303661 CATTTCATTAAAAAGATAAG
1 CATTTCATGAAAAAGATAAG
10303681 TCATGTAATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (21 bp):
CATTTCATGAAAAAGATAAGC
Found at i:10304844 original size:111 final size:111
Alignment explanation
Indices: 10304662--10305004 Score: 483
Period size: 111 Copynumber: 3.1 Consensus size: 111
10304652 CAGAAAAGCA
* *
10304662 TGAGGCATCTCAA-AGTTCTTCGATCAGGTAGAGAAGGA-AACTTAGTCTACAAAAATGCACTAT
1 TGAGGCATCTCAACA-CTCTTCGATCAGGTAGAGAA-GACAAATTAGTCTACAAAAATGCACTAT
* * *
10304725 GGTAGGGGTGGAGGCATCTCAATGTCTACCATTCAGAACAGGTAGAAC
64 GGTGGGGGTGGAGGCATCTCAATGTCTACCATTCATAGCAGGTAGAAC
*
10304773 TGAGGCATCTCAACACTCTTTGATCAGGTAGAGAAGACAAATTAGTCTACAAAAATGCACTATGG
1 TGAGGCATCTCAACACTCTTCGATCAGGTAGAGAAGACAAATTAGTCTACAAAAATGCACTATGG
*
10304838 TGGGGGTGGAGGCATCTCAATGTCTACCATTCATAGCAGGTAGAAT
66 TGGGGGTGGAGGCATCTCAATGTCTACCATTCATAGCAGGTAGAAC
* * * * * * * * *
10304884 TGAGGCATTTTAACGCTCTTCAATTAGGTAGAGAAGACAAAATAGTGTACAGAAATGCATTATGG
1 TGAGGCATCTCAACACTCTTCGATCAGGTAGAGAAGACAAATTAGTCTACAAAAATGCACTATGG
*
10304949 TGGAGGTGGAGGCATCTCAATGTCTACCATTCATAGCAGGTAGAAC
66 TGGGGGTGGAGGCATCTCAATGTCTACCATTCATAGCAGGTAGAAC
* *
10304995 TAACGCATCT
1 TGAGGCATCT
10305005 TTGTCTTGGC
Statistics
Matches: 208, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
110 2 0.01
111 205 0.99
112 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (111 bp):
TGAGGCATCTCAACACTCTTCGATCAGGTAGAGAAGACAAATTAGTCTACAAAAATGCACTATGG
TGGGGGTGGAGGCATCTCAATGTCTACCATTCATAGCAGGTAGAAC
Found at i:10306961 original size:19 final size:22
Alignment explanation
Indices: 10306937--10306976 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
10306927 TCATTAATTC
10306937 AAATAT-CTTA-AT-TTTTAAA
1 AAATATACTTATATATTTTAAA
10306956 AAATATACTTATATATTTTAA
1 AAATATACTTATATATTTTAA
10306977 GTTAGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 2 0.11
22 6 0.33
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATATACTTATATATTTTAAA
Found at i:10308998 original size:54 final size:52
Alignment explanation
Indices: 10308894--10309022 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 52
10308884 ATAATATTTC
* * * *
10308894 AATAAATAAACTAAATACATTTTTACAATTACTTTTAAATGATTCAAAATTTTT
1 AATAAATAAATTAAATAC-TTTTTACAATTACTTTTAAATAACTCAAAA-TTCT
10308948 AATAAATAAATTAAATTACTTTTTACAATTA-TTTTAAATAACTCAGAAATTCT
1 AATAAATAAATTAAA-TACTTTTTACAATTACTTTTAAATAACTCA-AAATTCT
*
10309001 AAT-AATTAATTAAACTA-TTTTT
1 AATAAATAAATTAAA-TACTTTTT
10309023 CTGTTTTACA
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
51 5 0.07
52 12 0.18
53 18 0.27
54 29 0.43
55 3 0.04
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.43
Consensus pattern (52 bp):
AATAAATAAATTAAATACTTTTTACAATTACTTTTAAATAACTCAAAATTCT
Found at i:10309966 original size:18 final size:18
Alignment explanation
Indices: 10309953--10309988 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10309943 ACCCGACATC
10309953 ACCCGTTGACCCGACCCG
1 ACCCGTTGACCCGACCCG
10309971 ACCCGTTGACCCGACCCG
1 ACCCGTTGACCCGACCCG
10309989 TTTACCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.50, G:0.22, T:0.11
Consensus pattern (18 bp):
ACCCGTTGACCCGACCCG
Found at i:10309969 original size:13 final size:13
Alignment explanation
Indices: 10309965--10310001 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
10309955 CCGTTGACCC
10309965 GACCCGACCCGTT
1 GACCCGACCCGTT
10309978 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
10309991 TACCCAACCCG
1 GACCCGACCCG
10310002 ACCCGTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.19, C:0.49, G:0.19, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:10310001 original size:31 final size:31
Alignment explanation
Indices: 10309953--10310026 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
10309943 ACCCGACATC
*
10309953 ACCCGTTGACCCGACCCGACCCGTTGACCCG
1 ACCCGTTGACCCAACCCGACCCGTTGACCCG
* *
10309984 ACCCGTTTACCCAACCCGACCCGTTGACTCG
1 ACCCGTTGACCCAACCCGACCCGTTGACCCG
*
10310015 ACCAGTTGACCC
1 ACCCGTTGACCC
10310027 GTTGACCGTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.19, C:0.46, G:0.19, T:0.16
Consensus pattern (31 bp):
ACCCGTTGACCCAACCCGACCCGTTGACCCG
Found at i:10311350 original size:18 final size:18
Alignment explanation
Indices: 10311324--10311358 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10311314 TCGAAATGAC
*
10311324 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
10311342 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
10311359 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:10315159 original size:8 final size:8
Alignment explanation
Indices: 10315146--10315217 Score: 50
Period size: 8 Copynumber: 9.6 Consensus size: 8
10315136 CAACCCGACC
10315146 TGACCCGT
1 TGACCCGT
10315154 TGACCC--
1 TGACCCGT
10315160 -GACCCGT
1 TGACCCGT
*
10315167 TGACCCGACC
1 TGACCCG--T
*
10315177 CGACCCGT
1 TGACCCGT
10315185 TGA--C-T
1 TGACCCGT
*
10315190 CGACCCGT
1 TGACCCGT
10315198 TGA-CCGT
1 TGACCCGT
10315205 TGACCCGT
1 TGACCCGT
10315213 TGACC
1 TGACC
10315218 GTCATTGAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
5 8 0.16
6 1 0.02
7 8 0.16
8 26 0.53
10 6 0.12
ACGTcount: A:0.15, C:0.42, G:0.24, T:0.19
Consensus pattern (8 bp):
TGACCCGT
Found at i:10315161 original size:18 final size:17
Alignment explanation
Indices: 10315138--10315194 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 17
10315128 ACCGGTCACA
10315138 ACCCGACCTGACCCGTTG
1 ACCCGACC-GACCCGTTG
10315156 A--C--CCGACCCGTTG
1 ACCCGACCGACCCGTTG
10315169 ACCCGACCCGACCCGTTG
1 ACCCGA-CCGACCCGTTG
*
10315187 ACTCGACC
1 ACCCGACC
10315195 CGTTGACCGT
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
13 10 0.30
14 2 0.06
15 1 0.03
16 1 0.03
17 2 0.06
18 17 0.52
ACGTcount: A:0.18, C:0.47, G:0.21, T:0.14
Consensus pattern (17 bp):
ACCCGACCGACCCGTTG
Found at i:10315163 original size:13 final size:13
Alignment explanation
Indices: 10315142--10315178 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
10315132 GTCACAACCC
*
10315142 GACCTGACCCGTT
1 GACCCGACCCGTT
10315155 GACCCGACCCGTT
1 GACCCGACCCGTT
10315168 GACCCGACCCG
1 GACCCGACCCG
10315179 ACCCGTTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.16, C:0.46, G:0.24, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:10315174 original size:31 final size:31
Alignment explanation
Indices: 10315138--10315217 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 31
10315128 ACCGGTCACA
10315138 ACCCGACCTGACCCGTTGACCCGACCCGTTG
1 ACCCGACCTGACCCGTTGACCCGACCCGTTG
* *
10315169 ACCCGACCCGACCCGTTGACTCGACCCGTTG
1 ACCCGACCTGACCCGTTGACCCGACCCGTTG
*
10315200 A-CCG--TTGACCCGTTGACC
1 ACCCGACCTGACCCGTTGACC
10315218 GTCATTGAGC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
28 11 0.25
30 3 0.07
31 30 0.68
ACGTcount: A:0.16, C:0.44, G:0.23, T:0.17
Consensus pattern (31 bp):
ACCCGACCTGACCCGTTGACCCGACCCGTTG
Found at i:10315195 original size:18 final size:18
Alignment explanation
Indices: 10315155--10315196 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
10315145 CTGACCCGTT
10315155 GACCCGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
*
10315173 GACCCGACCCGTTGACTC
1 GACCCGACCCGTTGACCC
10315191 GACCCG
1 GACCCG
10315197 TTGACCGTTG
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:0.17, C:0.48, G:0.24, T:0.12
Consensus pattern (18 bp):
GACCCGACCCGTTGACCC
Found at i:10315211 original size:15 final size:15
Alignment explanation
Indices: 10315147--10315220 Score: 75
Period size: 13 Copynumber: 5.0 Consensus size: 15
10315137 AACCCGACCT
10315147 GACCCGTTGACC--C
1 GACCCGTTGACCGTC
*
10315160 GACCCGTTGACCCGACCC
1 GACCCGTTGA-CCG--TC
10315178 GACCCGTTGA-C-TC
1 GACCCGTTGACCGTC
*
10315191 GACCCGTTGACCGTT
1 GACCCGTTGACCGTC
10315206 GACCCGTTGACCGTC
1 GACCCGTTGACCGTC
10315221 ATTGAGCAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
13 21 0.41
14 3 0.06
15 15 0.29
16 1 0.02
18 11 0.22
ACGTcount: A:0.15, C:0.42, G:0.24, T:0.19
Consensus pattern (15 bp):
GACCCGTTGACCGTC
Found at i:10322698 original size:21 final size:21
Alignment explanation
Indices: 10322672--10322711 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10322662 CCCCCTTTGA
*
10322672 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
10322693 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
10322712 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:10328949 original size:41 final size:42
Alignment explanation
Indices: 10328859--10328949 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
10328849 CGAGTTGACT
* * *
10328859 GACCCGACCCGACCTGACTCAAAAATTATATATCCTCCACCC
1 GACCCGACCCGACCCGACTCAAAAATTATACACCCTCCACCC
10328901 GACCCGACCCGACCCGAC-CAGAAAA-TATACACCCTCCA-CC
1 GACCCGACCCGACCCGACTCA-AAAATTATACACCCTCCACCC
10328941 GAACCCGAC
1 G-ACCCGAC
10328950 GTTTTGAGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
40 3 0.07
41 20 0.45
42 21 0.48
ACGTcount: A:0.32, C:0.44, G:0.12, T:0.12
Consensus pattern (42 bp):
GACCCGACCCGACCCGACTCAAAAATTATACACCCTCCACCC
Found at i:10332839 original size:101 final size:103
Alignment explanation
Indices: 10332722--10332978 Score: 374
Period size: 101 Copynumber: 2.5 Consensus size: 103
10332712 TTTAGTTTAT
* *
10332722 TTTTTTTATTTTAAATATATATTATTAGACTATTTGTTTTGATTTTACATATCAAATCATATTTG
1 TTTTTTTATTTTAAATATAAATTATTAGACTATTTATTTTGATTTTACATATCAAATCATATTTG
* *
10332787 GGTGGTCTGGTAAGTTTAGTTTAAATTGTATTGTTT-A
66 AGTGGTCTGGAAAGTTTAGTTTAAATTGTATTGTTTCA
* *
10332824 -TTTTTTATTTTAAATATAAATTATTAGACTATTTATTTTGATTTTACATATTAAATCGTATTTG
1 TTTTTTTATTTTAAATATAAATTATTAGACTATTTATTTTGATTTTACATATCAAATCATATTTG
*
10332888 AGTGGTCTGGAAAGTTTAGTTTAAATTTTATTGTTTCA
66 AGTGGTCTGGAAAGTTTAGTTTAAATTGTATTGTTTCA
*
10332926 TTTAATGTTTAATTTTAAATTTAAAATTAATTAGACTATTTATTTTGATTTTA
1 TTT--T-TTT-ATTTTAAATAT-AAATT-ATTAGACTATTTATTTTGATTTTA
10332979 GAGATTATTT
Statistics
Matches: 139, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
101 93 0.67
102 1 0.01
103 2 0.01
105 1 0.01
106 3 0.02
107 10 0.07
108 5 0.04
109 24 0.17
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.54
Consensus pattern (103 bp):
TTTTTTTATTTTAAATATAAATTATTAGACTATTTATTTTGATTTTACATATCAAATCATATTTG
AGTGGTCTGGAAAGTTTAGTTTAAATTGTATTGTTTCA
Found at i:10335426 original size:27 final size:27
Alignment explanation
Indices: 10335384--10335513 Score: 161
Period size: 27 Copynumber: 4.8 Consensus size: 27
10335374 AGTTCAACAA
* * *
10335384 ATATCCATCACGTTCATTTAAATATGG
1 ATATCAATCACATTCATTCAAATATGG
* *
10335411 ATATTAATCACATTCATTAAAATATGG
1 ATATCAATCACATTCATTCAAATATGG
* *
10335438 CTATCCATCACATTCATTCAAATATGG
1 ATATCAATCACATTCATTCAAATATGG
* *
10335465 ATATTAATCGCATTCATTCAAATATGG
1 ATATCAATCACATTCATTCAAATATGG
* *
10335492 TTATCCATCACATTCATTCAAA
1 ATATCAATCACATTCATTCAAA
10335514 AAATAAATAG
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (27 bp):
ATATCAATCACATTCATTCAAATATGG
Found at i:10335467 original size:54 final size:54
Alignment explanation
Indices: 10335385--10335513 Score: 213
Period size: 54 Copynumber: 2.4 Consensus size: 54
10335375 GTTCAACAAA
* *
10335385 TATCCATCACGTTCATTTAAATATGGATATTAATCACATTCATTAAAATATGGC
1 TATCCATCACATTCATTCAAATATGGATATTAATCACATTCATTAAAATATGGC
* * *
10335439 TATCCATCACATTCATTCAAATATGGATATTAATCGCATTCATTCAAATATGGT
1 TATCCATCACATTCATTCAAATATGGATATTAATCACATTCATTAAAATATGGC
10335493 TATCCATCACATTCATTCAAA
1 TATCCATCACATTCATTCAAA
10335514 AAATAAATAG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (54 bp):
TATCCATCACATTCATTCAAATATGGATATTAATCACATTCATTAAAATATGGC
Found at i:10338200 original size:23 final size:23
Alignment explanation
Indices: 10338174--10338227 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
10338164 TAGCACTTCG
*
10338174 GTGCATTTCTATGCGGCACTACA
1 GTGCATTTCTACGCGGCACTACA
* * * *
10338197 GTGCAATTCTACGTGGCACTTCG
1 GTGCATTTCTACGCGGCACTACA
10338220 GTGCATTT
1 GTGCATTT
10338228 ATTTGAGCTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (23 bp):
GTGCATTTCTACGCGGCACTACA
Found at i:10338283 original size:16 final size:17
Alignment explanation
Indices: 10338262--10338295 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10338252 GTGCACAACC
10338262 TCTATAG-ACTCACATA
1 TCTATAGTACTCACATA
*
10338278 TCTATAGTTCTCACATA
1 TCTATAGTACTCACATA
10338295 T
1 T
10338296 GTACATAGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (17 bp):
TCTATAGTACTCACATA
Found at i:10345959 original size:2 final size:2
Alignment explanation
Indices: 10345947--10345978 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
10345937 CAAAACAAAC
10345947 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT A
10345979 CACACACGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10347150 original size:23 final size:23
Alignment explanation
Indices: 10347124--10347182 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
10347114 TAGCACTTCG
*
10347124 GTGCATTTCTATGCGGCACTACA
1 GTGCATTTCTACGCGGCACTACA
* * * *
10347147 GTGCAATTCTACGTGGCACTTCG
1 GTGCATTTCTACGCGGCACTACA
*
10347170 GTGCATTTATACG
1 GTGCATTTCTACG
10347183 AGCTGTGGTG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (23 bp):
GTGCATTTCTACGCGGCACTACA
Found at i:10350601 original size:16 final size:16
Alignment explanation
Indices: 10350568--10350602 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10350558 ATATATTCAG
*
10350568 AATAAATAAAAAATAA
1 AATAAATAAAAAAGAA
*
10350584 AATAAATAAATAAGAA
1 AATAAATAAAAAAGAA
10350600 AAT
1 AAT
10350603 TTGTGACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (16 bp):
AATAAATAAAAAAGAA
Found at i:10350832 original size:28 final size:28
Alignment explanation
Indices: 10350777--10350832 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
10350767 TATTAACTAT
*
10350777 AATAAATACTATTAAAGTTATTACTAAA
1 AATAAATACTATTAAAGTTATGACTAAA
*
10350805 AATAAATACTATTAAAGTTATGATTAAA
1 AATAAATACTATTAAAGTTATGACTAAA
10350833 TTTATTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (28 bp):
AATAAATACTATTAAAGTTATGACTAAA
Found at i:10351522 original size:14 final size:16
Alignment explanation
Indices: 10351505--10351536 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
10351495 TGGATGCTCC
10351505 CTCTTCT-AAT-TGCT
1 CTCTTCTCAATCTGCT
10351519 CTCTTCTCAATCTGCT
1 CTCTTCTCAATCTGCT
10351535 CT
1 CT
10351537 TTTTTGTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 3 0.19
16 6 0.38
ACGTcount: A:0.12, C:0.34, G:0.06, T:0.47
Consensus pattern (16 bp):
CTCTTCTCAATCTGCT
Found at i:10367695 original size:579 final size:577
Alignment explanation
Indices: 10366570--10367726 Score: 2206
Period size: 579 Copynumber: 2.0 Consensus size: 577
10366560 TGTCTCCTCC
10366570 TCCAAAAGGTTTTATAAAACTAAATGTATGCAGCTGTGAGTGGAGATTGGAGGAAAAGTGGTGTT
1 TCCAAAAGGTTTTATAAAACTAAATGTATGCAGCTGTGAGTGGAGATTGGAGGAAAAGTGGTGTT
*
10366635 GGTGGCTTACTAAGAGTTGAGGATGGCTCGGTGATGGGTTCTTTCCAAGAGGCTGCTGGTCCAGG
66 GGTGGCTTACTAAGAGTTGAGGATGGCTCGGTGATGGGTTCTTTCCAAGAGACTGCTGGTCCAGG
10366700 TCCTCCTATTTTGATAGAGCTTAAGGCAATTAAGAAGGGTTTAATCTTCTTTGATTCGTTCCAAC
131 TCCTCCTATTTTGATAGAGCTTAAGGCAATTAAGAAGGGTTTAATCTTCTTTGATTCGTTCCAAC
*
10366765 AGCGGTTCAAGGAATGTTTGATTGTTGAAAGTGACAGTAAACAATGGATTGGGTTAAGAATTACG
196 AGCGGTTCAAGGAATGTTTGATTGTTGAAAGTGACAGTAAACAATGGATTGAGTTAAGAATTACG
10366830 ATTGTTGTCCCTATGTCTATATAGATTTAGTGAAAGACATTGTTGCTTACTCAAGGGATTTGCAG
261 ATTGTTGTCCCTATGTCTATATAGATTTAGTGAAAGACATTGTTGCTTACTCAAGGGATTTGCAG
10366895 GGTGTTATTAGATGGGTTGCTAGGTCAGCCAATATTGAGGTTGATTGCTTAGCTAAGGCTGGTAT
326 GGTGTTATTAGATGGGTTGCTAGGTCAGCCAATATTGAGGTTGATTGCTTAGCTAAGGCTGGTAT
*
10366960 TGGTTAGTTTCACTGTTTTGTTAAGGATATTTTTTATACTAGGGGTTGGTCATTGTAAAGGGAGT
391 TGGTTAGTTTCACTGTTTTGTTAAGGATATTTTTTAAACTAGGGGTTGGTCATTGTAAAGGGAGT
10367025 GTGTATGTTTGCTTTTTTAAACATTATGTAACTTTCGGTTATTAATGAATTCTAAGGCACTCTTT
456 GTGTATGTTTGCTTTTTTAAACATTATGTAACTTTCGGTTATTAATGAATTCTAAGGCACTCTTT
*
10367090 TCCTCCTTCCGCTGATTAAGGAGCACATTGTGATTCATTAATCATGAAGGGGGTTTT
521 TCCTCCTTCCGCTAATTAAGGAGCACATTGTGATTCATTAATCATGAAGGGGGTTTT
*
10367147 TCCAAAGGGTTTTATAAAACTAAATGTGGATGCAGCTGTGAGTGGAGATTGGAGGAAAAGTGGTG
1 TCCAAAAGGTTTTATAAAACTAAATGT--ATGCAGCTGTGAGTGGAGATTGGAGGAAAAGTGGTG
10367212 TTGGTGGCTTACTAAGAGTTGAGGATGGCTCGGTGATGGGTTCTTTCCAAGAGACTGCTGGTCCA
64 TTGGTGGCTTACTAAGAGTTGAGGATGGCTCGGTGATGGGTTCTTTCCAAGAGACTGCTGGTCCA
10367277 GGTCCTCCTATTTTGATAGAGCTTAAGGCAATTAAGAAGGGTTTAATCTTCTTTGATTCGTTCCA
129 GGTCCTCCTATTTTGATAGAGCTTAAGGCAATTAAGAAGGGTTTAATCTTCTTTGATTCGTTCCA
10367342 ACAGCGGTTCAAGGAATGTTTGATTGTTGAAAGTGACAGTAAACAATGGATTGAGTTAAGAATTA
194 ACAGCGGTTCAAGGAATGTTTGATTGTTGAAAGTGACAGTAAACAATGGATTGAGTTAAGAATTA
* *
10367407 CGATTGTTGTTCCTATTTCTATATAGATTTAGTGAAAGACATTGTTGCTTACTCAAGGGATTTGC
259 CGATTGTTGTCCCTATGTCTATATAGATTTAGTGAAAGACATTGTTGCTTACTCAAGGGATTTGC
10367472 AGGGTGTTATTAGATGGGTTGCTAGGTCAGCCAATATTGAGGTTGATTGCTTAGCTAAGGCTGGT
324 AGGGTGTTATTAGATGGGTTGCTAGGTCAGCCAATATTGAGGTTGATTGCTTAGCTAAGGCTGGT
10367537 ATTGGTTAGTTTCACTGTTTTGTTAAGGATATTTTTTAAACTAGGGGTTGGTCATTGTAAAGGGA
389 ATTGGTTAGTTTCACTGTTTTGTTAAGGATATTTTTTAAACTAGGGGTTGGTCATTGTAAAGGGA
* *
10367602 GTGTGTATGTTTGCTTTTTTAAACATTATTTAACTTTCGGTTATTAATGAATTCTAAGGCACTTT
454 GTGTGTATGTTTGCTTTTTTAAACATTATGTAACTTTCGGTTATTAATGAATTCTAAGGCACTCT
*
10367667 TTTCCTCCTTCCGCTAATTAAGGAGCACATTGTGATTCATTAATCATGAATGGGGTTTT
519 TTTCCTCCTTCCGCTAATTAAGGAGCACATTGTGATTCATTAATCATGAAGGGGGTTTT
10367726 T
1 T
10367727 AATAAGGCCT
Statistics
Matches: 568, Mismatches: 10, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
577 26 0.05
579 542 0.95
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.37
Consensus pattern (577 bp):
TCCAAAAGGTTTTATAAAACTAAATGTATGCAGCTGTGAGTGGAGATTGGAGGAAAAGTGGTGTT
GGTGGCTTACTAAGAGTTGAGGATGGCTCGGTGATGGGTTCTTTCCAAGAGACTGCTGGTCCAGG
TCCTCCTATTTTGATAGAGCTTAAGGCAATTAAGAAGGGTTTAATCTTCTTTGATTCGTTCCAAC
AGCGGTTCAAGGAATGTTTGATTGTTGAAAGTGACAGTAAACAATGGATTGAGTTAAGAATTACG
ATTGTTGTCCCTATGTCTATATAGATTTAGTGAAAGACATTGTTGCTTACTCAAGGGATTTGCAG
GGTGTTATTAGATGGGTTGCTAGGTCAGCCAATATTGAGGTTGATTGCTTAGCTAAGGCTGGTAT
TGGTTAGTTTCACTGTTTTGTTAAGGATATTTTTTAAACTAGGGGTTGGTCATTGTAAAGGGAGT
GTGTATGTTTGCTTTTTTAAACATTATGTAACTTTCGGTTATTAATGAATTCTAAGGCACTCTTT
TCCTCCTTCCGCTAATTAAGGAGCACATTGTGATTCATTAATCATGAAGGGGGTTTT
Found at i:10369528 original size:387 final size:387
Alignment explanation
Indices: 10368814--10369590 Score: 1536
Period size: 387 Copynumber: 2.0 Consensus size: 387
10368804 TTTAAAATGC
10368814 TCCGAAGAAGATGTTGACATTGAAGCAACCAACCTTGAAAAAGTTTCATTACTGAAGTGTGCCAA
1 TCCGAAGAAGATGTTGACATTGAAGCAACCAACCTTGAAAAAGTTTCATTACTGAAGTGTGCCAA
10368879 AGATGTTGAGAATTCGAATAAAAACTAGATTTAGGGTTTCATTCAACGGAGGCTTTGGATCATTC
66 AGATGTTGAGAATTCGAATAAAAACTAGATTTAGGGTTTCATTCAACGGAGGCTTTGGATCATTC
*
10368944 AAACATAAATTTTGTGAAGCACCCAATTGATAAATCAGTTGACCACTTTGATGGAGTCAACCCCC
131 AAACATAAATTTTGTGAAGCACCCAATTGATAAATCAATTGACCACTTTGATGGAGTCAACCCCC
*
10369009 ATGCCTCGGAAGATGTTCTTATTATAAGTCTTTTCCCTTCTAATGGTATATCTGGGGACGCAATA
196 ATGCCTCGGAAGATGTTCTTATTATAAGTCTTTTCCCTTCTAATGGTATATCCGGGGACGCAATA
10369074 CAACTATAGGAAGGTACTTCAAAAGTGCCCCCTCCCCCTGGGAAACTTAGAAGAAATCGTGTGGT
261 CAACTATAGGAAGGTACTTCAAAAGTGCCCCCTCCCCCTGGGAAACTTAGAAGAAATCGTGTGGT
10369139 TAAGAAATGCAAGCAAAAGAGATGAGTTTTCAATAAAGTTGCAAGGACAGATTAATTGATGG
326 TAAGAAATGCAAGCAAAAGAGATGAGTTTTCAATAAAGTTGCAAGGACAGATTAATTGATGG
10369201 TCCGAAGAAGATGTTGACATTGAAGCAACCAACCTTGAAAAAGTTTCATTACTGAAGTGTGCCAA
1 TCCGAAGAAGATGTTGACATTGAAGCAACCAACCTTGAAAAAGTTTCATTACTGAAGTGTGCCAA
10369266 AGATGTTGAGAATTCGAATAAAAACTAGATTTAGGGTTTCATTCAACGGAGGCTTTGGATCATTC
66 AGATGTTGAGAATTCGAATAAAAACTAGATTTAGGGTTTCATTCAACGGAGGCTTTGGATCATTC
10369331 AAACATAAATTTTGTGAAGCACCCAATTGATAAATCAATTGACCACTTTGATGGAGTCAACCCCC
131 AAACATAAATTTTGTGAAGCACCCAATTGATAAATCAATTGACCACTTTGATGGAGTCAACCCCC
10369396 ATGCCTCGGAAGATGTTCTTATTATAAGTCTTTTCCCTTCTAATGGTATATCCGGGGACGCAATA
196 ATGCCTCGGAAGATGTTCTTATTATAAGTCTTTTCCCTTCTAATGGTATATCCGGGGACGCAATA
10369461 CAACTATAGGAAGGTACTTCAAAAGTGCCCCCTCCCCCTGGGAAACTTAGAAGAAATCGTGTGGT
261 CAACTATAGGAAGGTACTTCAAAAGTGCCCCCTCCCCCTGGGAAACTTAGAAGAAATCGTGTGGT
10369526 TAAGAAATGCAAGCAAAAGAGATGAGTTTTCAATAAAGTTGCAAGGACAGATTAATTGATGG
326 TAAGAAATGCAAGCAAAAGAGATGAGTTTTCAATAAAGTTGCAAGGACAGATTAATTGATGG
10369588 TCC
1 TCC
10369591 AATTAGTGTT
Statistics
Matches: 388, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
387 388 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (387 bp):
TCCGAAGAAGATGTTGACATTGAAGCAACCAACCTTGAAAAAGTTTCATTACTGAAGTGTGCCAA
AGATGTTGAGAATTCGAATAAAAACTAGATTTAGGGTTTCATTCAACGGAGGCTTTGGATCATTC
AAACATAAATTTTGTGAAGCACCCAATTGATAAATCAATTGACCACTTTGATGGAGTCAACCCCC
ATGCCTCGGAAGATGTTCTTATTATAAGTCTTTTCCCTTCTAATGGTATATCCGGGGACGCAATA
CAACTATAGGAAGGTACTTCAAAAGTGCCCCCTCCCCCTGGGAAACTTAGAAGAAATCGTGTGGT
TAAGAAATGCAAGCAAAAGAGATGAGTTTTCAATAAAGTTGCAAGGACAGATTAATTGATGG
Found at i:10375822 original size:20 final size:20
Alignment explanation
Indices: 10375797--10375851 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
10375787 TTTACACTTA
10375797 GGGAACCGATTCCCCATGAG
1 GGGAACCGATTCCCCATGAG
10375817 GGGAACCGATTCCCCATGAG
1 GGGAACCGATTCCCCATGAG
* *
10375837 GGGTACTGATTCCCC
1 GGGAACCGATTCCCC
10375852 CCACGCTCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.22, C:0.31, G:0.29, T:0.18
Consensus pattern (20 bp):
GGGAACCGATTCCCCATGAG
Found at i:10381205 original size:21 final size:20
Alignment explanation
Indices: 10381140--10381214 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 20
10381130 TGCAAAGAAT
*
10381140 ATCGATACCCCCATGAGGGA
1 ATCGATACCCCCTTGAGGGA
* *
10381160 ACCGATTCCCCCTTTGAATGGGA
1 ATCGATACCCCC-TTG-A-GGGA
*
10381183 ATCGATTCCCCC-TGTAGGGGA
1 ATCGATACCCCCTTG-A-GGGA
10381204 ATCGATACCCC
1 ATCGATACCCC
10381215 AATGGGGTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
20 10 0.22
21 19 0.42
22 1 0.02
23 15 0.33
ACGTcount: A:0.24, C:0.32, G:0.23, T:0.21
Consensus pattern (20 bp):
ATCGATACCCCCTTGAGGGA
Found at i:10382968 original size:16 final size:17
Alignment explanation
Indices: 10382936--10382968 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10382926 AACAAAAAAT
10382936 GGGAGAAGTGTTTAAAG
1 GGGAGAAGTGTTTAAAG
10382953 GGGAGAAGTG-TTAAAG
1 GGGAGAAGTGTTTAAAG
10382969 TAAGGGGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.36, C:0.00, G:0.42, T:0.21
Consensus pattern (17 bp):
GGGAGAAGTGTTTAAAG
Found at i:10385243 original size:29 final size:29
Alignment explanation
Indices: 10385163--10385244 Score: 69
Period size: 29 Copynumber: 2.8 Consensus size: 29
10385153 AAATTACTGA
*
10385163 AAAATAAAGGGCAGAAAATTAAAATAAATGG
1 AAAATAAA-GG-ACAAAATTAAAATAAATGG
** * *
10385194 AATTTTATGGACTAAAA-TAAAATAAA-GG
1 AAAATAAAGGAC-AAAATTAAAATAAATGG
10385222 AAAATAAAGGACACAAATTAAAA
1 AAAATAAAGGACA-AAATTAAAA
10385245 GGTGCATAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
27 1 0.03
28 13 0.33
29 15 0.38
30 6 0.15
31 4 0.10
ACGTcount: A:0.61, C:0.05, G:0.15, T:0.20
Consensus pattern (29 bp):
AAAATAAAGGACAAAATTAAAATAAATGG
Found at i:10392502 original size:3 final size:3
Alignment explanation
Indices: 10392496--10392668 Score: 81
Period size: 3 Copynumber: 58.0 Consensus size: 3
10392486 GATGATGATG
* *
10392496 ATA ATA ATA ATA ATA ATA ATA GATA ATA ATA ATA GT- ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * ***
10392541 ATGC TTA ATAA ATA ACA A-A ATC TTA ATA CTA AT- ATA AAA ATGA GCG
1 AT-A ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* *
10392587 ATA ATA ATA AGTA ATA GT- ATA ATA ATA ATA ATA ACA GAT- ATA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * * *
10392632 GT- ATA ATA ATA ATA ATC CTA AT- ATA ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10392669 GTACTAATAT
Statistics
Matches: 122, Mismatches: 35, Indels: 26
0.67 0.19 0.14
Matches are distributed among these distances:
2 11 0.09
3 99 0.81
4 12 0.10
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10392653 original size:23 final size:23
Alignment explanation
Indices: 10392587--10392678 Score: 82
Period size: 23 Copynumber: 4.0 Consensus size: 23
10392577 AAAATGAGCG
*
10392587 ATAATAATAAGTAATAGT-ATAATA
1 ATAATAATAA-TAATACTAAT-ATA
*
10392611 ATAATAATAACAGATA-TAATAGT-
1 ATAATAATAATA-ATACTAATA-TA
*
10392634 ATAATAATAATAATCCTAATATA
1 ATAATAATAATAATACTAATATA
* *
10392657 ATATTAATAATAGTACTAATAT
1 ATAATAATAATAATACTAATAT
10392679 TAGGTAATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
22 3 0.05
23 38 0.67
24 16 0.28
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.35
Consensus pattern (23 bp):
ATAATAATAATAATACTAATATA
Found at i:10392712 original size:23 final size:22
Alignment explanation
Indices: 10392661--10392716 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
10392651 AATATAATAT
* *
10392661 TAATAATAGTACTAATATTAGG
1 TAATAATATTACTAATAGTAGG
10392683 TAATAATATTACTTAAATAGTA-G
1 TAATAATATTAC-T-AATAGTAGG
10392706 TAATAATATTA
1 TAATAATATTA
10392717 GGATCGAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 11 0.37
23 13 0.43
24 6 0.20
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (22 bp):
TAATAATATTACTAATAGTAGG
Found at i:10397643 original size:3 final size:3
Alignment explanation
Indices: 10397632--10397662 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
10397622 TTTAAAAAAA
10397632 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10397663 ATTAAACAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:10399060 original size:31 final size:30
Alignment explanation
Indices: 10399025--10399111 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
10399015 CAGTTTAGTC
* * *
10399025 CTTTAACTTTATTAT-CTTTTCTATTTTGGTA
1 CTTTAACTTT-TTATAATTATC-ATTTTGGGA
*
10399056 CTTTAAGTTTTTATAATTATCATTTTGGGA
1 CTTTAACTTTTTATAATTATCATTTTGGGA
* * *
10399086 CTTTAAGTTTCTATAATTACCATTTT
1 CTTTAACTTTTTATAATTATCATTTT
10399112 AGTCCCTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
30 36 0.73
31 13 0.27
ACGTcount: A:0.24, C:0.11, G:0.08, T:0.56
Consensus pattern (30 bp):
CTTTAACTTTTTATAATTATCATTTTGGGA
Found at i:10399082 original size:30 final size:30
Alignment explanation
Indices: 10399047--10399126 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
10399037 TATCTTTTCT
* *
10399047 ATTTTGGTACTTTAAGTTTTTATAATTATC
1 ATTTTGGTACTTTAAGTTTCTATAATTACC
*
10399077 ATTTTGGGACTTTAAGTTTCTATAATTACC
1 ATTTTGGTACTTTAAGTTTCTATAATTACC
* * *
10399107 ATTTTAGTCCCTTAAGTTTC
1 ATTTTGGTACTTTAAGTTTC
10399127 CATTTTTACT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.51
Consensus pattern (30 bp):
ATTTTGGTACTTTAAGTTTCTATAATTACC
Found at i:10399141 original size:30 final size:30
Alignment explanation
Indices: 10399088--10399151 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
10399078 TTTTGGGACT
*
10399088 TTAAGTTTCTATAATTACCATTTTAGTCCC
1 TTAAGTTTCCATAATTACCATTTTAGTCCC
** * *
10399118 TTAAGTTTCCATTTTTACTATTTTAGTCCT
1 TTAAGTTTCCATAATTACCATTTTAGTCCC
10399148 TTAA
1 TTAA
10399152 CTTTATGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.52
Consensus pattern (30 bp):
TTAAGTTTCCATAATTACCATTTTAGTCCC
Found at i:10399163 original size:30 final size:30
Alignment explanation
Indices: 10399102--10399193 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 30
10399092 GTTTCTATAA
* * ***
10399102 TTACCATTTTAGTCCCTTAAGTTTCCATTT
1 TTACTATTTTAGTCCTTTAAGTTTATGTTT
*
10399132 TTACTATTTTAGTCCTTTAACTTTATGTTT
1 TTACTATTTTAGTCCTTTAAGTTTATGTTT
* *
10399162 TTGA-TATTTTAATCCTTTAAGTTTTTGTTT
1 TT-ACTATTTTAGTCCTTTAAGTTTATGTTT
10399192 TT
1 TT
10399194 TAATTTTGGT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 51 0.98
31 1 0.02
ACGTcount: A:0.20, C:0.14, G:0.08, T:0.59
Consensus pattern (30 bp):
TTACTATTTTAGTCCTTTAAGTTTATGTTT
Found at i:10399194 original size:23 final size:24
Alignment explanation
Indices: 10399152--10399197 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
10399142 AGTCCTTTAA
*
10399152 CTTTATGTTTTTGATATTTTAATC
1 CTTTAAGTTTTTGATATTTTAATC
*
10399176 CTTTAAGTTTTTG-TTTTTTAAT
1 CTTTAAGTTTTTGATATTTTAAT
10399198 TTTGGTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.20, C:0.07, G:0.09, T:0.65
Consensus pattern (24 bp):
CTTTAAGTTTTTGATATTTTAATC
Found at i:10412394 original size:22 final size:22
Alignment explanation
Indices: 10412355--10412419 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 22
10412345 TAAACAGATG
* *
10412355 AAAAAAGGAAAAT-AA-AAATA
1 AAAAAAGAAAAATGAAGAAAAA
*
10412375 AAAAAAGAAAAA-GATGAAAAA
1 AAAAAAGAAAAATGAAGAAAAA
* *
10412396 AGAAATGAAAAATGAAGAAAAA
1 AAAAAAGAAAAATGAAGAAAAA
10412418 AA
1 AA
10412420 GAAGGGTTCG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
20 12 0.34
21 14 0.40
22 9 0.26
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (22 bp):
AAAAAAGAAAAATGAAGAAAAA
Found at i:10413445 original size:105 final size:106
Alignment explanation
Indices: 10413263--10413914 Score: 738
Period size: 105 Copynumber: 5.9 Consensus size: 106
10413253 AATGCTATGA
* *
10413263 TCCACCGTAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAA
1 TCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCTAA
*
10413328 AGGATA-AAGTTCATAATGAGAAGAACTTGTTCCTTTCAAG
66 AGGAGAGAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAG
* *
10413368 TCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTGATAATGAGAAGAACTCGTCCTAA
1 TCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCTAA
*
10413433 AGGAGA-AAGTTCATAATGAGAATAACTTGTTCCTTTCAAG
66 AGGAGAGAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAG
* * *
10413473 TCCACCGCAGTAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCTTAA
1 TCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCTAA
10413538 AGGAGA-AAGTTCATAATGAGAAGAACTTGTTCCTTTCAAG
66 AGGAGAGAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAG
* * * *
10413578 TCCACCGCAGAAGGAAGTGAATCAACATTTTCAGTGGAGAGTTCATAATGAGAAGAACTCAT-CT
1 TCCACCGCAGAAGGAGGTGAACCAACATTTCCA--GAAGAGTTCATAATGAGAAGAACTCATCCT
** *
10413642 AATGAGGGAGGAGAAGTTCATAATGAGAAGAACTTGTTCAACATTGGTTTGAT
64 AA--A-GGA-GAGAAGTTCATAATGAGAAGAACTTGTTC--C--T--TTCAAG
* * * * * * *
10413695 TCCATCACAGAAGGAGGTGGATCAACATTTTCAGTGGAGAGTTCATAATGAGAAGAAGTCATCC-
1 TCCACCGCAGAAGGAGGTGAACCAACATTTCCA--GAAGAGTTCATAATGAGAAGAACTCATCCT
* *
10413759 AATGAGGGAGGAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTGGTTCGAT
64 AA--A-GGA-GAGAAGTTCATAATGAGAAGAACTTGTT---CC-T--TTCAAG
* * * * *
10413812 TCCATCACAGAAGGAGGTGGATCAACATTTCCAGTAGAGAGTTCATAATGAGAAGAACTCATCCA
1 TCCACCGCAGAAGGAGGTGAACCAACATTTCCAG-A-AGAGTTCATAATGAGAAGAACTCATCCT
10413877 ACAAGAGAGAAGAAGTTCATAATGAGAAGAACTTGTTC
64 A-AAG-GAG-AGAAGTTCATAATGAGAAGAACTTGTTC
10413915 AATCTAACAA
Statistics
Matches: 497, Mismatches: 27, Indels: 37
0.89 0.05 0.07
Matches are distributed among these distances:
105 231 0.46
106 3 0.01
107 25 0.05
108 1 0.00
109 3 0.01
110 2 0.00
111 26 0.05
113 1 0.00
114 1 0.00
115 2 0.00
116 2 0.00
117 195 0.39
118 3 0.01
119 1 0.00
120 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (106 bp):
TCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCTAA
AGGAGAGAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAG
Found at i:10413953 original size:117 final size:116
Alignment explanation
Indices: 10413585--10413916 Score: 515
Period size: 117 Copynumber: 2.8 Consensus size: 116
10413575 AAGTCCACCG
* *
10413585 CAGAAGGAAGTGAATCAACATTTTCAGTGGAGAGTTCATAATGAGAAGAACTCATCTAATGAGGG
1 CAGAAGGAGGTG-ATCAACATTTTCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGG
*
10413650 AGGAGAAGTTCATAATGAGAAGAACTTGTTCAACA-TTGGTTTGATTCCATCA
65 AGGAGAAGTTCATAATGAGAAGAACTTGTTCAACACTTGGTTCGATTCCA-CA
*
10413702 CAGAAGGAGGTGGATCAACATTTTCAGTGGAGAGTTCATAATGAGAAGAAGTCATCCAATGAGGG
1 CAGAAGGAGGT-GATCAACATTTTCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGG
10413767 AGGAGAAGTTCATAATGAGAAGAACTTGTTCAAC-CTTGGTTCGATTCCATCA
65 AGGAGAAGTTCATAATGAGAAGAACTTGTTCAACACTTGGTTCGATTCCA-CA
* * ** *
10413819 CAGAAGGAGGTGGATCAACATTTCCAGTAGAGAGTTCATAATGAGAAGAACTCATCCAACAAGAG
1 CAGAAGGAGGT-GATCAACATTTTCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGG
*
10413884 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
65 AGGAGAAGTTCATAATGAGAAGAACTTGTTCAA
10413917 TCTAACAAAG
Statistics
Matches: 202, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
117 201 1.00
118 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (116 bp):
CAGAAGGAGGTGATCAACATTTTCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGA
GGAGAAGTTCATAATGAGAAGAACTTGTTCAACACTTGGTTCGATTCCACA
Found at i:10415611 original size:30 final size:30
Alignment explanation
Indices: 10415489--10415664 Score: 101
Period size: 30 Copynumber: 5.9 Consensus size: 30
10415479 TTAATACCAG
* *
10415489 TTTAGTCCTTTAACTTTATTATTTTTGCTAT
1 TTTAGTCCTTTAAGTTT-CTATTTTTGCTAT
* * * *
10415520 TTTGGTAC-TTAAGTTTTTATAATTAT-C-AT
1 TTTAGTCCTTTAAGTTTCTAT--TTTTGCTAT
* ** ** * *
10415549 TTTGGGACTTTAAGTTTCTATAGTTACCAT
1 TTTAGTCCTTTAAGTTTCTATTTTTGCTAT
*
10415579 TTTAGTCCCTTAAGTTTCTATTTTTGCTAT
1 TTTAGTCCTTTAAGTTTCTATTTTTGCTAT
* * * *
10415609 TTTAGTCCTTTAACTTTATTTTTTTTGATAT
1 TTTAGTCCTTTAAGTTT-CTATTTTTGCTAT
*
10415640 TTT-GATCCTTTAAGTTT-TTTTTTTG
1 TTTAG-TCCTTTAAGTTTCTATTTTTG
10415665 GTTTTTATAA
Statistics
Matches: 115, Mismatches: 23, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
28 1 0.01
29 22 0.19
30 59 0.51
31 33 0.29
ACGTcount: A:0.20, C:0.11, G:0.10, T:0.59
Consensus pattern (30 bp):
TTTAGTCCTTTAAGTTTCTATTTTTGCTAT
Found at i:10415641 original size:31 final size:30
Alignment explanation
Indices: 10415577--10415663 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
10415567 TATAGTTACC
* * * *
10415577 ATTTTAGTCCCTTAAGTTTCTATTTTTGCT
1 ATTTTAGTCCTTTAAGTTTTTTTTTTTGAT
*
10415607 ATTTTAGTCCTTTAACTTTATTTTTTTTGAT
1 ATTTTAGTCCTTTAAGTTT-TTTTTTTTGAT
10415638 ATTTT-GATCCTTTAAGTTTTTTTTTT
1 ATTTTAG-TCCTTTAAGTTTTTTTTTT
10415664 GGTTTTTATA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
30 25 0.51
31 24 0.49
ACGTcount: A:0.17, C:0.11, G:0.08, T:0.63
Consensus pattern (30 bp):
ATTTTAGTCCTTTAAGTTTTTTTTTTTGAT
Found at i:10422429 original size:20 final size:19
Alignment explanation
Indices: 10422404--10422489 Score: 75
Period size: 20 Copynumber: 4.3 Consensus size: 19
10422394 TTTTGGTGCA
*
10422404 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCC-T
*
10422424 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATACCCCC--T
*
10422445 GAAGGGGAACCGATTCCCCCT
1 G-A-GGGAACCGATACCCCCT
*
10422466 -AGGAGAATCGATACCCCCT
1 GAGG-GAACCGATACCCCCT
10422485 GAGGG
1 GAGGG
10422490 TTCTGGTTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
18 2 0.04
19 15 0.27
20 19 0.34
21 3 0.05
22 1 0.02
23 16 0.29
ACGTcount: A:0.26, C:0.30, G:0.28, T:0.16
Consensus pattern (19 bp):
GAGGGAACCGATACCCCCT
Found at i:10422970 original size:15 final size:15
Alignment explanation
Indices: 10422950--10422978 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10422940 AACTATACAT
10422950 ATATTATTTTTCAAA
1 ATATTATTTTTCAAA
10422965 ATATTATTTTTCAA
1 ATATTATTTTTCAA
10422979 TAGTTTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTATTTTTCAAA
Found at i:10424916 original size:13 final size:13
Alignment explanation
Indices: 10424898--10424922 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10424888 AATGAATTTT
10424898 AAGATTTTCTAAA
1 AAGATTTTCTAAA
10424911 AAGATTTTCTAA
1 AAGATTTTCTAA
10424923 GTATATTCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
AAGATTTTCTAAA
Found at i:10425998 original size:12 final size:12
Alignment explanation
Indices: 10425981--10426013 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
10425971 ATACGTAGCG
10425981 ATATATATATAC
1 ATATATATATAC
10425993 ATATATATATAC
1 ATATATATATAC
10426005 ATAGTATAT
1 ATA-TATAT
10426014 TTTTATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (12 bp):
ATATATATATAC
Found at i:10426002 original size:18 final size:18
Alignment explanation
Indices: 10425981--10426041 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
10425971 ATACGTAGCG
10425981 ATATATATA-TACATATAT
1 ATATATATAGTACAT-TAT
* *
10425999 ATATACATAGTATATT-T
1 ATATATATAGTACATTAT
*
10426016 TTATTATATAGTACATTAT
1 ATA-TATATAGTACATTAT
10426035 -TATATAT
1 ATATATAT
10426042 TACTATTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 8 0.23
18 22 0.63
19 5 0.14
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (18 bp):
ATATATATAGTACATTAT
Found at i:10426036 original size:15 final size:16
Alignment explanation
Indices: 10426016--10426053 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
10426006 TAGTATATTT
10426016 TTATTATATAGTAC-A
1 TTATTATATAGTACTA
*
10426031 TTATTATATATTACTA
1 TTATTATATAGTACTA
10426047 TTATTAT
1 TTATTAT
10426054 TTTATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (16 bp):
TTATTATATAGTACTA
Found at i:10436337 original size:15 final size:15
Alignment explanation
Indices: 10436303--10436339 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
10436293 AGTAGGTGTC
10436303 AAATCAA-AGATCAG
1 AAATCAAGAGATCAG
10436317 AAATCAAGA-ATCAG
1 AAATCAAGAGATCAG
10436331 AAAATCAAG
1 -AAATCAAG
10436340 TTTGTCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (15 bp):
AAATCAAGAGATCAG
Found at i:10437405 original size:15 final size:16
Alignment explanation
Indices: 10437385--10437420 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
10437375 TAGTATATTT
10437385 TTATTATATAATAC-A
1 TTATTATATAATACTA
*
10437400 TTATTATATATTACTA
1 TTATTATATAATACTA
10437416 TTATT
1 TTATT
10437421 TTATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATTATATAATACTA
Found at i:10441783 original size:21 final size:21
Alignment explanation
Indices: 10441757--10441813 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 21
10441747 TTAATTAATT
10441757 AATTATAACATATTT-TATTCA
1 AATTATAA-ATATTTATATTCA
10441778 AATTATAAATATTTATATTACTTA
1 AATTATAAATATTTATATT-C--A
10441802 AATTA-AAATATT
1 AATTATAAATATT
10441814 AAAAATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.19
21 12 0.38
22 1 0.03
23 7 0.22
24 6 0.19
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTATAAATATTTATATTCA
Found at i:10443001 original size:193 final size:194
Alignment explanation
Indices: 10442648--10443122 Score: 671
Period size: 193 Copynumber: 2.4 Consensus size: 194
10442638 GCTCCAAATC
10442648 TTCTCAAATTACATGCATAATATTAAAATTATATTAACATTTCTCAACAATCAAATTAACTATAA
1 TTCTCAAATTACATGCATAATATTAAAATTATATTAACATTTCTCAACAATCAAATTAACTATAA
*
10442713 TAATCATTTAAAAATTAAAAAAATTAATGATATAATATTAATTAGTTAAAAAAATAAAATATACA
66 TAATCATTTAAAAATT-AAAAAATTAATGA-ATAATATTAATTAATTAAAAAAATAAAATATACA
* * *
10442778 TCTACTTGCTATTATTTTCTCA-T-TCTTC-T-TCCTTCTTCTTCTTCTTTTAC-AATTTTTTCC
129 TCTACTTACTAATATTTTCTCATTCTCTTCTTCTCCTTCTTCTTCTTCTTTTACTAA--TTTTCA
10442838 TTA
192 TTA
*
10442841 TTCTCAAATTACATACATAATATTAAAATTATATTAACA-TTCATCAACAATCAAATTAACTATA
1 TTCTCAAATTACATGCATAATATTAAAATTATATTAACATTTC-TCAACAATCAAATTAACTATA
* * *
10442905 ATATATAATTTAAAAATTAAAAAA-TAATG-AT-ATATTACTTAATTAAAAAATTAAAATATACA
65 ATA-ATCATTTAAAAATTAAAAAATTAATGAATAATATTAATTAATTAAAAAAATAAAATATACA
* *
10442967 TCTACTTACTAATATTTTCTACTTCTTCCTTCTTCTTCTCCTTCTTCTTCTTTTTTTACTAATTT
129 TCTACTTACTAATATTTTCT-C--ATT-C-TCTTCTTCTCCTTCTTCTTCTTCTTTTACTAATTT
*
10443032 TCATTC
189 TCATTA
* *
10443038 TTCTCAAATTACATGCAAAATGTTAAAATTATATTAACATTTCTCAACAATCAAATTAACTATAA
1 TTCTCAAATTACATGCATAATATTAAAATTATATTAACATTTCTCAACAATCAAATTAACTATAA
10443103 TAATCATTTAAAAATTAAAA
66 TAATCATTTAAAAATTAAAA
10443123 GTTAATTAAA
Statistics
Matches: 254, Mismatches: 15, Indels: 23
0.87 0.05 0.08
Matches are distributed among these distances:
189 46 0.18
190 3 0.01
192 8 0.03
193 69 0.27
194 13 0.05
196 22 0.09
197 68 0.27
198 23 0.09
199 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.01, T:0.42
Consensus pattern (194 bp):
TTCTCAAATTACATGCATAATATTAAAATTATATTAACATTTCTCAACAATCAAATTAACTATAA
TAATCATTTAAAAATTAAAAAATTAATGAATAATATTAATTAATTAAAAAAATAAAATATACATC
TACTTACTAATATTTTCTCATTCTCTTCTTCTCCTTCTTCTTCTTCTTTTACTAATTTTCATTA
Found at i:10443010 original size:12 final size:12
Alignment explanation
Indices: 10442983--10443017 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
10442973 TACTAATATT
*
10442983 TTCTACTTCTTCC
1 TTCTTCTTC-TCC
10442996 TTCTTCTTCTCC
1 TTCTTCTTCTCC
10443008 TTCTTCTTCT
1 TTCTTCTTCT
10443018 TTTTTTACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.03, C:0.37, G:0.00, T:0.60
Consensus pattern (12 bp):
TTCTTCTTCTCC
Found at i:10443176 original size:3 final size:3
Alignment explanation
Indices: 10443168--10443247 Score: 76
Period size: 3 Copynumber: 25.7 Consensus size: 3
10443158 AAATTTCTCT
10443168 TTC TTC TTCC TTC TTC TTCC TTC TTC TTCC TTC TTC -TC TTCC TT- TTC
1 TTC TTC TT-C TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TT-C TTC TTC
*
10443215 TTC TTCC TTC TTC -TC TTCC TTT TTC TTC TTC TT
1 TTC TT-C TTC TTC TTC TT-C TTC TTC TTC TTC TT
10443248 TTACAAACTT
Statistics
Matches: 66, Mismatches: 2, Indels: 18
0.77 0.02 0.21
Matches are distributed among these distances:
2 6 0.09
3 42 0.64
4 18 0.27
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:10443183 original size:10 final size:10
Alignment explanation
Indices: 10443168--10443247 Score: 90
Period size: 10 Copynumber: 7.5 Consensus size: 10
10443158 AAATTTCTCT
10443168 TTCTTCTTCC
1 TTCTTCTTCC
10443178 TTCTTCTTCC
1 TTCTTCTTCC
10443188 TTCTTCTTCC
1 TTCTTCTTCC
10443198 TTCTTCTCTTCC
1 TTC-T-TCTTCC
10443210 TTTTCTTCTTCC
1 --TTCTTCTTCC
10443222 TTCTTCTCTTCC
1 TTC-T-TCTTCC
*
10443234 TTTTTCTT-C
1 TTCTTCTTCC
10443243 TTCTT
1 TTCTT
10443248 TTACAAACTT
Statistics
Matches: 62, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
9 5 0.08
10 30 0.48
11 3 0.05
12 20 0.32
13 1 0.02
14 3 0.05
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:10443200 original size:24 final size:22
Alignment explanation
Indices: 10443167--10443245 Score: 99
Period size: 24 Copynumber: 3.5 Consensus size: 22
10443157 GAAATTTCTC
10443167 TTTCTTCTTCCTTCTTCTTCC-
1 TTTCTTCTTCCTTCTTCTTCCT
10443188 -TTCTTCTTCCTTCTTCTCTTCCT
1 TTTCTTCTTCCTTC-T-TCTTCCT
10443211 TTTCTTCTTCCTTCTTCTCTTCCTT
1 TTTCTTCTTCCTTC-T-TCTTCC-T
10443236 TTTCTTCTTC
1 TTTCTTCTTC
10443246 TTTTACAAAC
Statistics
Matches: 53, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.25
21 1 0.02
22 6 0.11
24 22 0.42
25 11 0.21
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTCTTCTTCCTTCTTCTTCCT
Found at i:10443816 original size:53 final size:53
Alignment explanation
Indices: 10443704--10443818 Score: 167
Period size: 53 Copynumber: 2.2 Consensus size: 53
10443694 AACAATTGAA
* * * * *
10443704 AGTTTTTTTTTGTGAACAGTGAAGACGGGTTGTAATCCTACCGTCTTGATTGT
1 AGTTTTTTTTTGTAAACAGTGAAGACGGGTTGTAATCCCACCGTCTTCACTAT
* *
10443757 ATTTTTTTTTTGTAAATAGTGAAGACGGGTTGTAATCCCACCGTCTTCACTAT
1 AGTTTTTTTTTGTAAACAGTGAAGACGGGTTGTAATCCCACCGTCTTCACTAT
10443810 AGTTTTTTT
1 AGTTTTTTT
10443819 AGTGAATAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.44
Consensus pattern (53 bp):
AGTTTTTTTTTGTAAACAGTGAAGACGGGTTGTAATCCCACCGTCTTCACTAT
Found at i:10444551 original size:28 final size:28
Alignment explanation
Indices: 10444515--10444578 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
10444505 CTTCTCCAGT
10444515 GTTTAGACCTTGATTGTTCCATCAAGTG
1 GTTTAGACCTTGATTGTTCCATCAAGTG
10444543 GTTTAGACCTTGATTGTTCCATCAAGTG
1 GTTTAGACCTTGATTGTTCCATCAAGTG
*
10444571 ATTTAGAC
1 GTTTAGAC
10444579 GGTTAGTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.39
Consensus pattern (28 bp):
GTTTAGACCTTGATTGTTCCATCAAGTG
Found at i:10445256 original size:23 final size:23
Alignment explanation
Indices: 10445229--10445292 Score: 119
Period size: 23 Copynumber: 2.8 Consensus size: 23
10445219 AATTTAAACA
10445229 CTACCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAAGCG
10445252 CTACCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAAGCG
*
10445275 CTACCTATTACATCATAT
1 CTACCTATTACATTATAT
10445293 TTTTACCTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.36
Consensus pattern (23 bp):
CTACCTATTACATTATATAAGCG
Found at i:10445746 original size:23 final size:23
Alignment explanation
Indices: 10445711--10445783 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
10445701 ATACTTTACA
*
10445711 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
10445734 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
10445757 ATATAAGTGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
10445780 ATAT
1 ATAT
10445784 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:10446234 original size:23 final size:23
Alignment explanation
Indices: 10446199--10446271 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
10446189 ATACTTTACA
*
10446199 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
10446222 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
10446245 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
10446268 ATAT
1 ATAT
10446272 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:10446314 original size:21 final size:22
Alignment explanation
Indices: 10446289--10446333 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
10446279 TATTATATTG
*
10446289 AAAATGTTC-ATACTTTTTATA
1 AAAATGATCGATACTTTTTATA
*
10446310 AAAATGATCGATACTTTTTTTA
1 AAAATGATCGATACTTTTTATA
10446332 AA
1 AA
10446334 GTTATGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (22 bp):
AAAATGATCGATACTTTTTATA
Found at i:10446684 original size:22 final size:21
Alignment explanation
Indices: 10446645--10446689 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
10446635 TTCCACAGTG
* *
10446645 AAAAAAGTATGGACACTTTTAT
1 AAAAAAGGATAGACAC-TTTAT
*
10446667 AAAAAAGGATAGATACTTTAT
1 AAAAAAGGATAGACACTTTAT
10446688 AA
1 AA
10446690 TATAAGCACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.51, C:0.07, G:0.13, T:0.29
Consensus pattern (21 bp):
AAAAAAGGATAGACACTTTAT
Found at i:10446724 original size:23 final size:23
Alignment explanation
Indices: 10446689--10446761 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
10446679 ATACTTTATA
*
10446689 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
10446712 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
10446735 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
10446758 ATAT
1 ATAT
10446762 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:10447205 original size:23 final size:23
Alignment explanation
Indices: 10447170--10447242 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
10447160 ATACTTTACA
*
10447170 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
10447193 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
10447216 ATATAAGTGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
10447239 ATAT
1 ATAT
10447243 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:10447688 original size:23 final size:23
Alignment explanation
Indices: 10447660--10447723 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
10447650 AATTTAAACA
10447660 CTACCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAAGCG
*
10447683 TTACCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAAGCG
*
10447706 CTACCTATTACATCATAT
1 CTACCTATTACATTATAT
10447724 TTTTACCTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (23 bp):
CTACCTATTACATTATATAAGCG
Found at i:10448166 original size:23 final size:23
Alignment explanation
Indices: 10448140--10448212 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
10448130 ATATTTTACA
*
10448140 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
10448163 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
10448186 ATATAAGTGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
10448209 ATAT
1 ATAT
10448213 TTTTATCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:10448364 original size:490 final size:489
Alignment explanation
Indices: 10444826--10448636 Score: 6751
Period size: 489 Copynumber: 7.8 Consensus size: 489
10444816 TTATAATATG
10444826 TTGAAAGTGTCCATACTTTTTTATAAAAAGGATCGATAC-TTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATAC-TTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
*
10444890 TTCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
65 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
10444954 CAAAAAATTATTTAATTGTTTTGATATTTTAT--AA-A--ATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
* * *
10445014 TAACCAAAGATAATAATAAATATGAAATATATATATTTTTTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
10445079 --CGTAACGTAAAAAATAAATCATTAGACGTCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
10445142 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAATGA
325 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
* * *
10445207 TAGATACTTTACAATTTAAACACTACCTATTACATTATATAAGCGCTACCTATTACATTATATAA
390 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
10445272 GCGCTACCTATTACATCATATTTTTACCTATTATA
455 GCGCTACCTATTACATCATATTTTTACCTATTATA
10445307 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTCTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACT-TTTTTTAAAGTTATGTAATTTATGT
* *
10445372 TTCAATTTTTTTTAATAATGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
10445437 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATA
129 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATA
*
10445502 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTTTTTTTAATTTAATAATAATATA
194 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
*
10445567 TACCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
259 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
* * *
10445632 TCAAAAGATAATCTTAAATTAATGTTTTCCATAGTGAAAAAAGTATGGACACTTTTATAAAAATG
324 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
10445697 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
389 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
*
10445762 AGTGCTACCTATTACATCATATTTTTACCTATTATA
454 AGCGCTACCTATTACATCATATTTTTACCTATTATA
* *
10445798 TTGAAAGTGTTCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
10445863 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
* *
10445928 AAAACATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAAAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
10445993 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
*
10446058 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAATTCACTC
261 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
*
10446123 AAAATATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
10446188 -GATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
10446252 CGCTACCTATTACATCATATTTTTACCTATTATA
456 CGCTACCTATTACATCATATTTTTACCTATTATA
* * *
10446286 TTGAAAATGTTCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
10446351 TCAATTTTTTTAATAGTGTTTCATATTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
10446416 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
10446481 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
10446546 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
*
10446611 CAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGGA
326 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTAT-AAAAAGGA
*
10446676 TAGATACTTTATAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
390 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
10446741 GCGCTACCTATTACATCATATTTTTACCTATTATA
455 GCGCTACCTATTACATCATATTTTTACCTATTATA
* * *
10446776 TTGAAAGTGTTCATACTTTTTATAAAAATGATCGATACTTATTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
10446841 TCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
* * *
10446905 AAAAATTTATTTAATTATTTTGATATTTTAT--AA-A--ATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
* * *
10446965 AACCAAAGATAATAATAAATATGAAATATATATATTTTTTGTTTTTAATTTAATAATAATATAT-
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
*
10447029 -CGTAACGTAAAAAATAAATCATTAGACGTCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
10447093 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
10447158 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
*
10447223 TGCTACCTATTACATCATATTTTTACCTATTATA
456 CGCTACCTATTACATCATATTTTTACCTATTATA
* * *
10447257 TTGAAAGTGTTCATACTTTTTATAAAAATGATCGATACTTATTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
10447322 TCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
*
10447386 AAAAAATTATTTAATTGTTTTGATATTTTAT--AA-A--ATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
10447446 AACCAAAGATAATAATAAATATGATATATATATAT-TTT-TTGTTTTTAATTTAATAATAATATA
196 AACCAAAGATAATAATAAATATG-TA-ATATATATGTTTATTGTTTTTAATTTAATAATAATATA
*
10447509 T--CGTAACGTAAAAAATAAATCATTAGACGTCTATAATTACTAAATTAATATCTTAAAACTCAC
259 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
*
10447572 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAATG
324 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
* * * *
10447637 ATAGATACTTTACAATTTAAACACTACCTATTACATTATATAAGCGTTACCTATTACATTATATA
389 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
10447702 AGCGCTACCTATTACATCATATTTTTACCTATTATA
454 AGCGCTACCTATTACATCATATTTTTACCTATTATA
10447738 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
* *
10447803 TCAATTTTTTTAATAATGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTACAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
10447868 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
*
10447933 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTTTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
10447998 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
*
10448063 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAATGAT
326 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
*
10448128 AGATATTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
* *
10448193 TGCTACCTATTACATCATATTTTTATCTATTATA
456 CGCTACCTATTACATCATATTTTTACCTATTATA
*
10448227 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTAAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
10448292 TCAATTTTTTTTAATGGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
10448357 CAAAAAATTATTTGAATGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
* *
10448422 TAACCAAAGATAATAATAAATAAGTAATATATATTTTTATTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
10448487 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACA
260 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* *
10448552 CAAAAGATAACCTTATATTAATGTTTTCCACAGTGAAAAAAGAATGGACACTTTTATAAAAAGGA
325 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
10448617 TAGATACTTTACAATATAAG
390 TAGATACTTTACAATATAAG
10448637 AGGTAAAAAT
Statistics
Matches: 3214, Mismatches: 90, Indels: 43
0.96 0.03 0.01
Matches are distributed among these distances:
480 22 0.01
481 646 0.20
482 239 0.07
483 8 0.00
484 176 0.05
485 9 0.00
486 8 0.00
487 77 0.02
488 471 0.15
489 779 0.24
490 522 0.16
491 257 0.08
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.41
Consensus pattern (489 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
CGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:10448890 original size:11 final size:11
Alignment explanation
Indices: 10448874--10448899 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10448864 ATCCGGTAAT
10448874 ACCGTATATTA
1 ACCGTATATTA
10448885 ACCGTATATTA
1 ACCGTATATTA
10448896 ACCG
1 ACCG
10448900 GCATTTCCGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (11 bp):
ACCGTATATTA
Found at i:10449111 original size:17 final size:17
Alignment explanation
Indices: 10449089--10449122 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10449079 TTGAGTCCCC
10449089 TCCAAATCGGTGAGTTT
1 TCCAAATCGGTGAGTTT
*
10449106 TCCAAATCGGTGGGTTT
1 TCCAAATCGGTGAGTTT
10449123 AGACATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (17 bp):
TCCAAATCGGTGAGTTT
Found at i:10450110 original size:16 final size:16
Alignment explanation
Indices: 10450084--10450126 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
10450074 TTGTAACTAA
* *
10450084 AATTTTATATTACAAT
1 AATTTTTTATTAAAAT
*
10450100 TATTTTTTATTAAAAT
1 AATTTTTTATTAAAAT
10450116 AATTTTATTAT
1 AATTTT-TTAT
10450127 ACTCATTGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTTTTTATTAAAAT
Found at i:10456953 original size:37 final size:37
Alignment explanation
Indices: 10456904--10456990 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 37
10456894 GAGCAAGAAT
10456904 GAATATTTTTAGAGTGAGAGGAACGAACGACTAGAGA
1 GAATATTTTTAGAGTGAGAGGAACGAACGACTAGAGA
* * *
10456941 GAATATTTTTAGAGTGAGAGGGACGAATGGCTAGAGA
1 GAATATTTTTAGAGTGAGAGGAACGAACGACTAGAGA
10456978 GAATAGTTTTTAG
1 GAATA-TTTTTAG
10456991 GGTTTGAGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
37 39 0.85
38 7 0.15
ACGTcount: A:0.37, C:0.06, G:0.31, T:0.26
Consensus pattern (37 bp):
GAATATTTTTAGAGTGAGAGGAACGAACGACTAGAGA
Found at i:10464304 original size:27 final size:27
Alignment explanation
Indices: 10464259--10464323 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
10464249 TAATAAAATA
*
10464259 AAAT-ATATAATAATAAATAAAAAGAG
1 AAATAATAAAATAATAAATAAAAAGAG
* *
10464285 AAATAATAAAATAATAAATATAAATAG
1 AAATAATAAAATAATAAATAAAAAGAG
*
10464312 TAATAAATAAAA
1 AAAT-AATAAAA
10464324 AAGGGGTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 4 0.12
27 22 0.67
28 7 0.21
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.25
Consensus pattern (27 bp):
AAATAATAAAATAATAAATAAAAAGAG
Found at i:10465123 original size:6 final size:5
Alignment explanation
Indices: 10465015--10465122 Score: 56
Period size: 5 Copynumber: 20.8 Consensus size: 5
10465005 AGGCAACCCC
* * * **
10465015 TTTTG TTTTA TTTTA TTTTCA TTTTAA TTTTG TTTTA TTTTTA GTAAA
1 TTTTA TTTTA TTTTA TTTT-A TTTT-A TTTTA TTTTA -TTTTA TTTTA
* * ** ***
10465063 ATTTA TTTCA TTCCA -TTTA TTTTA TTTTA TTTTA TCAGA TGTTTAA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTT-A TTTTA
10465114 TTTTA TTTT
1 TTTTA TTTT
10465123 TCTCTGAACA
Statistics
Matches: 77, Mismatches: 21, Indels: 10
0.71 0.19 0.09
Matches are distributed among these distances:
4 2 0.03
5 55 0.71
6 18 0.23
7 2 0.03
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.69
Consensus pattern (5 bp):
TTTTA
Found at i:10466864 original size:72 final size:71
Alignment explanation
Indices: 10466640--10466865 Score: 265
Period size: 76 Copynumber: 3.1 Consensus size: 71
10466630 TAAACTCAAG
* **
10466640 TTTAGGATAATATTTTAAACATTTATTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTATTT
1 TTTAGGATATTATTTTAAA-ATTTATTTT-T-TAGGTATTTTAGTTTAAATAGGTTTTAGTATTT
*
10466705 TAATTAAGT
63 TAATTAAGA
* *
10466714 TTTAGGATATTATTTTTATATTTTATCGTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTAT
1 TTTAGGATATTA-TTTTAAAATTTA---TT-TTTTAGGTATTTTAGTTTAAATAGGTTTTAGTAT
*
10466779 TTTAATTAGGA
61 TTTAATTAAGA
* *
10466790 TTTAGAATATTATTTTAAAATATTATTTTTTAGGTATTTTAGTTTAAATA-GTTTTAAGTGTTTT
1 TTTAGGATATTATTTTAAAAT-TTATTTTTTAGGTATTTTAGTTTAAATAGGTTTT-AGTATTTT
*
10466854 AATTATGA
64 AATTAAGA
10466862 TTTA
1 TTTA
10466866 AGATGTTTTA
Statistics
Matches: 133, Mismatches: 12, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
71 5 0.04
72 41 0.31
73 2 0.02
74 15 0.11
75 13 0.10
76 52 0.39
77 3 0.02
78 2 0.02
ACGTcount: A:0.30, C:0.01, G:0.12, T:0.56
Consensus pattern (71 bp):
TTTAGGATATTATTTTAAAATTTATTTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAA
TTAAGA
Found at i:10467597 original size:19 final size:19
Alignment explanation
Indices: 10467556--10467610 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 19
10467546 TTTATTACTA
10467556 TTAATATTTAT-TATTTTA-
1 TTAATA-TTATCTATTTTAT
*
10467574 TT-AT-TTTTCT-TTTTAT
1 TTAATATTATCTATTTTAT
10467590 TTAATATTATCTATTTTAT
1 TTAATATTATCTATTTTAT
10467609 TT
1 TT
10467611 TATTAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
15 8 0.27
16 3 0.10
17 4 0.13
18 7 0.23
19 8 0.27
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (19 bp):
TTAATATTATCTATTTTAT
Found at i:10467631 original size:24 final size:24
Alignment explanation
Indices: 10467584--10467631 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10467574 TTATTTTTCT
* * *
10467584 TTTTATTTAATATTATCTATTTTA
1 TTTTATTAAATATTATCAACTTTA
*
10467608 TTTTATTAAATATTTTCAACTTTA
1 TTTTATTAAATATTATCAACTTTA
10467632 CGTGGAACTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTATTAAATATTATCAACTTTA
Found at i:10471287 original size:11 final size:11
Alignment explanation
Indices: 10471273--10471299 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10471263 AATATTTTAT
10471273 AATTATTAAAA
1 AATTATTAAAA
10471284 AATTATTAAAA
1 AATTATTAAAA
10471295 AATTA
1 AATTA
10471300 ATTTTGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AATTATTAAAA
Found at i:10471313 original size:35 final size:36
Alignment explanation
Indices: 10471244--10471313 Score: 85
Period size: 35 Copynumber: 2.0 Consensus size: 36
10471234 CAATAAATTA
10471244 AAAACAATTATAAATAAATAATATTTTATAATTATT
1 AAAACAATTATAAATAAATAATATTTTATAATTATT
10471280 AAAA-AATTATTAAA-AAATTAAT-TTTGTAT-ATTAT
1 AAAACAATTA-TAAATAAA-TAATATTT-TATAATTAT
10471314 ATATAAAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
35 16 0.52
36 15 0.48
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (36 bp):
AAAACAATTATAAATAAATAATATTTTATAATTATT
Found at i:10476764 original size:29 final size:29
Alignment explanation
Indices: 10476704--10476788 Score: 116
Period size: 29 Copynumber: 2.9 Consensus size: 29
10476694 GTATCAGACC
* * *
10476704 TGTACCTTTCACTTTATTCATTTTATAGCA
1 TGTACCATTCACTTT-TTCATTTCATAACA
*
10476734 TGTACTATTCACTTTTTCATTTCATAACA
1 TGTACCATTCACTTTTTCATTTCATAACA
*
10476763 TGTTCCATTCACTTTTTCATTTCATA
1 TGTACCATTCACTTTTTCATTTCATA
10476789 GCCAATGTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
29 36 0.73
30 13 0.27
ACGTcount: A:0.24, C:0.21, G:0.05, T:0.51
Consensus pattern (29 bp):
TGTACCATTCACTTTTTCATTTCATAACA
Found at i:10477390 original size:21 final size:22
Alignment explanation
Indices: 10477366--10477415 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 22
10477356 TTACTCATAA
*
10477366 GAAATCATTAA-AAAA-TAATAT
1 GAAATCATTAATAAAACAAAT-T
10477387 GAAAT-A-TAATAAAACAAATT
1 GAAATCATTAATAAAACAAATT
10477407 GAAATCATT
1 GAAATCATT
10477416 TTCTTTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
19 3 0.12
20 11 0.46
21 9 0.38
22 1 0.04
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (22 bp):
GAAATCATTAATAAAACAAATT
Found at i:10479151 original size:31 final size:29
Alignment explanation
Indices: 10479102--10479174 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 29
10479092 CAAATTACAT
*
10479102 AACTTTTTAAAATTATACTTTGGTCC-CTA
1 AACTTTTTAAAATTATACTTTAG-CCACTA
*
10479131 AACTTTTCTAAAGTTTATACTTTAGCCACTA
1 AACTTTT-TAAA-ATTATACTTTAGCCACTA
10479162 AAC-TTTTAAAATT
1 AACTTTTTAAAATT
10479175 TTCATTTTGG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 2 0.05
29 11 0.29
30 9 0.24
31 16 0.42
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.44
Consensus pattern (29 bp):
AACTTTTTAAAATTATACTTTAGCCACTA
Found at i:10479964 original size:9 final size:9
Alignment explanation
Indices: 10479950--10480071 Score: 61
Period size: 9 Copynumber: 13.2 Consensus size: 9
10479940 ATATATTTAC
10479950 TATTTTTTT
1 TATTTTTTT
10479959 TA-TTTTTT
1 TATTTTTTT
* *
10479967 TATTTATTA
1 TATTTTTTT
* * *
10479976 TATATATAT
1 TATTTTTTT
10479985 TATTTTTACTT
1 TATTTTT--TT
*
10479996 T-TTTATTAT
1 TATTT-TTTT
*
10480005 TATTTTATT
1 TATTTTTTT
*
10480014 TATTTGTTT
1 TATTTTTTT
* *
10480023 TA-TTTATA
1 TATTTTTTT
10480031 TATTTTTTCT
1 TATTTTTT-T
*
10480041 TCTTTTTCTT
1 TATTTTT-TT
10480051 TATTTTTTT
1 TATTTTTTT
*
10480060 ATATTTATTT
1 -TATTTTTTT
10480070 TA
1 TA
10480072 CTTACTATTT
Statistics
Matches: 83, Mismatches: 21, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
8 13 0.16
9 38 0.46
10 27 0.33
11 5 0.06
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.75
Consensus pattern (9 bp):
TATTTTTTT
Found at i:10479977 original size:88 final size:88
Alignment explanation
Indices: 10479857--10480062 Score: 220
Period size: 92 Copynumber: 2.3 Consensus size: 88
10479847 TCTTTTTTAC
* *
10479857 TTTAGTATATTTTTTTATTTTTTT-TAGATTATATATATA-TA-TTATTTTTTTATTATCAATTT
1 TTTACTAT-TTTTTTTATTTTTTTATAGATTATATATATATTATTTACTTTTTTATTAT-AATTT
10479919 TATTAATTTATATATATATATATATA
64 TATTAATTTAT-TATATATATATATA
** *
10479945 TTTACTATTTTTTTTATTTTTTTATTTATTATATATATATTATTTTTACTTTTTTATTATTATTT
1 TTTACTATTTTTTTTATTTTTTTATAGATTATATATATATTA--TTTACTTTTTTATTATAATTT
* * * * *
10480010 TATTTATTTGTTTTATTTATATATT
64 TATTAATTTATTATATATATATATA
* *
10480035 TTTTCTTCTTTTTCTTTATTTTTTTATA
1 TTTAC-TATTTTT-TTTATTTTTTTATA
10480063 TTTATTTTAC
Statistics
Matches: 98, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
87 15 0.15
88 20 0.20
89 2 0.02
90 15 0.15
91 19 0.19
92 27 0.28
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (88 bp):
TTTACTATTTTTTTTATTTTTTTATAGATTATATATATATTATTTACTTTTTTATTATAATTTTA
TTAATTTATTATATATATATATA
Found at i:10479980 original size:49 final size:47
Alignment explanation
Indices: 10479864--10480061 Score: 169
Period size: 49 Copynumber: 4.2 Consensus size: 47
10479854 TACTTTAGTA
* *
10479864 TATTTTTTTATTT-TTTTTAGAT-TATATATATATATTA-TTTTTTTAT
1 TATTTTTTTATTTATTTATATATATATATATATAT-TTACTTTTTTT-T
** *
10479910 TATCAATTTTATTAATTTATATATATATATATATATTTACTATTTTTTT
1 TAT-TTTTTTATTTATTTATATATATATATATATATTTACT-TTTTTTT
*
10479959 TATTTTTTTATTTA-TTATATATATAT-TAT-T-TTTACTTTTTTAT
1 TATTTTTTTATTTATTTATATATATATATATATATTTACTTTTTTTT
* * * * * *
10480002 TATTATTTTATTTATTTGT-TTTATTTATATATTTTTTCTTCTTTTTCTT
1 TATTTTTTTATTTATTTATATATATATATATATATTTAC-T-TTTTT-TT
10480051 TATTTTTTTAT
1 TATTTTTTTAT
10480062 ATTTATTTTA
Statistics
Matches: 124, Mismatches: 16, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
43 24 0.19
44 12 0.10
45 2 0.02
46 10 0.08
47 20 0.16
48 23 0.19
49 27 0.22
50 6 0.05
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (47 bp):
TATTTTTTTATTTATTTATATATATATATATATATTTACTTTTTTTT
Found at i:10480005 original size:31 final size:33
Alignment explanation
Indices: 10479941--10480007 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 33
10479931 TATATATATA
* * *
10479941 TATATTTACTATTTTTTTTATTTTTTTATTTAT
1 TATATATACTATTATTTTTACTTTTTTATTTAT
10479974 TATATATA-TATTATTTTTACTTTTTTA-TTAT
1 TATATATACTATTATTTTTACTTTTTTATTTAT
10480005 TAT
1 TAT
10480008 TTTATTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 7 0.23
32 17 0.55
33 7 0.23
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (33 bp):
TATATATACTATTATTTTTACTTTTTTATTTAT
Found at i:10480055 original size:92 final size:90
Alignment explanation
Indices: 10479857--10480123 Score: 224
Period size: 88 Copynumber: 2.9 Consensus size: 90
10479847 TCTTTTTTAC
* ** *
10479857 TTTAGTATATTTTTTTATTTTTTT-TAGATTATATATATA-TA--TTATTTTTTTATTATCA-AT
1 TTTACTAT-TTTTTTTATTTTTTTATTTATTATATATATATTATTTTACTTTTTTATTAT-ATAT
* * *
10479917 TTTATTAATTTATATATATATATATATA
64 TTTATTTATTTGT-TTTATATATATATA
10479945 TTTACTATTTTTTTTATTTTTTTATTTATTATATATATATTATTTTTACTTTTTTATTAT-TATT
1 TTTACTATTTTTTTTATTTTTTTATTTATTATATATATATTA-TTTTACTTTTTTATTATATATT
* *
10480009 TTATTTATTTGTTTTATTTATATATT
65 TTATTTATTTGTTTTATATATATATA
* * * *
10480035 TTTTCTTCTTTTTCTTTATTTTTTTATATTTATTTTACTTACTATTTTATCTTTACTTTCTTTAT
1 TTTAC-TATTTTT-TTTA-TTTTTT-TATTTATTATA--TA-TATATTAT-TTTACTTT-TTTAT
*
10480100 CT-TATCTTTTATTTAATTTGTTTT
57 -TATATATTTTATTT-ATTTGTTTT
10480124 TTCTTCATTT
Statistics
Matches: 147, Mismatches: 14, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
87 15 0.10
88 20 0.14
89 2 0.01
90 15 0.10
91 19 0.13
92 18 0.12
93 6 0.04
94 10 0.07
96 3 0.02
97 14 0.10
98 6 0.04
99 10 0.07
100 9 0.06
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (90 bp):
TTTACTATTTTTTTTATTTTTTTATTTATTATATATATATTATTTTACTTTTTTATTATATATTT
TATTTATTTGTTTTATATATATATA
Found at i:10480070 original size:23 final size:23
Alignment explanation
Indices: 10479950--10480099 Score: 71
Period size: 23 Copynumber: 6.5 Consensus size: 23
10479940 ATATATTTAC
*
10479950 TATTTTTTTTATT-TTTT-TATT
1 TATTTTCTTTATTATTTTATATT
* * *
10479971 TATTATATATATATTATTTT-TACT
1 TATT-T-TCTTTATTATTTTATATT
*
10479995 T-TTTT-ATTATTATTTTATTTATT
1 TATTTTCTTTATTATTTTA--TATT
* * * *
10480018 TGTTTTATTTATATATTTTTTCTT
1 TATTTTCTTTAT-TATTTTATATT
*
10480042 CT-TTTTCTTTATTTTTTTATATT
1 -TATTTTCTTTATTATTTTATATT
* *
10480065 TATTTTAC-TTACTATTTTATCTT
1 TATTTT-CTTTATTATTTTATATT
*
10480088 TACTTTCTTTAT
1 TATTTTCTTTAT
10480100 CTTATCTTTT
Statistics
Matches: 98, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
20 9 0.09
21 5 0.05
22 4 0.04
23 44 0.45
24 25 0.26
25 5 0.05
26 6 0.06
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.73
Consensus pattern (23 bp):
TATTTTCTTTATTATTTTATATT
Found at i:10483204 original size:14 final size:14
Alignment explanation
Indices: 10483185--10483233 Score: 68
Period size: 13 Copynumber: 3.7 Consensus size: 14
10483175 ATCAAAGCAT
10483185 AAAGAGAAAAAAAC
1 AAAGAGAAAAAAAC
*
10483199 AAAGAGAAAATAA-
1 AAAGAGAAAAAAAC
10483212 AAAGAG-AAAAAAC
1 AAAGAGAAAAAAAC
10483225 AAAG-GAAAA
1 AAAGAGAAAA
10483234 TTGAAGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 6 0.19
13 13 0.42
14 12 0.39
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.02
Consensus pattern (14 bp):
AAAGAGAAAAAAAC
Found at i:10483228 original size:26 final size:26
Alignment explanation
Indices: 10483185--10483234 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
10483175 ATCAAAGCAT
10483185 AAAGAGAAAAAAACAAAGAGAAAATAA
1 AAAGAGAAAAAAACAAAG-GAAAATAA
10483212 AAAGAG-AAAAAACAAAGGAAAAT
1 AAAGAGAAAAAAACAAAGGAAAAT
10483235 TGAAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 6 0.26
26 11 0.48
27 6 0.26
ACGTcount: A:0.76, C:0.04, G:0.16, T:0.04
Consensus pattern (26 bp):
AAAGAGAAAAAAACAAAGGAAAATAA
Found at i:10483424 original size:69 final size:69
Alignment explanation
Indices: 10483306--10483443 Score: 222
Period size: 69 Copynumber: 2.0 Consensus size: 69
10483296 GATTCAAACT
* * *
10483306 ATGAGATTGATCAAGCACAATCATTTCTGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATCGATCAAGCACAATCATTTCTAAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
10483371 TCAA
66 TCAA
* * *
10483375 ATGAGATCGATCAAGCACAATCATTTCTAAATTACTGAATCACTCCACTCGAAGATCATGGAGCA
1 ATGAGATCGATCAAGCACAATCATTTCTAAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
10483440 TCAA
66 TCAA
10483444 GAGAGAGACA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (69 bp):
ATGAGATCGATCAAGCACAATCATTTCTAAATCACTGAACCACTCCACTCGAAGATCATAGAGCA
TCAA
Found at i:10484427 original size:32 final size:32
Alignment explanation
Indices: 10484382--10484487 Score: 113
Period size: 32 Copynumber: 3.3 Consensus size: 32
10484372 ATCTTTGAAG
**
10484382 ATTCAACATCAAATGTTGGGGTATTTTTTAAA
1 ATTCAACATCAAATGTTGGGACATTTTTTAAA
* * *
10484414 ATTTAACATCAAATGTTGGGACATTTTTTTAT
1 ATTCAACATCAAATGTTGGGACATTTTTTAAA
* * * ***
10484446 ATTCAACATCGAATATTGGGACATCTTTGGGA
1 ATTCAACATCAAATGTTGGGACATTTTTTAAA
10484478 ATTCAACATC
1 ATTCAACATC
10484488 CTGATGCAAA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (32 bp):
ATTCAACATCAAATGTTGGGACATTTTTTAAA
Found at i:10485186 original size:106 final size:106
Alignment explanation
Indices: 10485064--10485386 Score: 448
Period size: 106 Copynumber: 3.0 Consensus size: 106
10485054 ATATCGTGCC
* * *
10485064 ACTCGAGACAACACAAGTTCAACTCCACAATGAAGGGATGACTGGTTGTCAACAAACAATTTCTC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCTC
*
10485129 AATTTTAGAGCCAATTTTAACTTCACATCGAAGGATATTGG
66 AATTTTAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
* *
10485170 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTAGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCTC
** *
10485235 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTTAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
** * * * * * * *
10485276 ACTCGAGACAACTTAAGCTCAACTTCATAGCGAAGGGGCGGCTGGCTGTCAACAAACAATTTCTT
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCTC
* * * *
10485341 AGTTCTAGAGCCAATTTTAACTTCACGGCGGAGGATATTGG
66 AATTTTAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
10485382 ACTCG
1 ACTCG
10485387 GAACAATACA
Statistics
Matches: 190, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
106 190 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCTC
AATTTTAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
Found at i:10485758 original size:51 final size:47
Alignment explanation
Indices: 10485703--10485825 Score: 149
Period size: 47 Copynumber: 2.5 Consensus size: 47
10485693 ATTGAGATAG
* *
10485703 TTTCCCTTGAAACGAAATTTTGTCTCCTTTGAAACATAAACATTGAAAACA
1 TTTCCCTTGAAA-GAAATTTTATCTCCATTG--ACAT-AACATTGAAAACA
* *
10485754 TTTCCCTTGAAATG-AATTTTATCTCGATTGAGATAACATTGAAAACA
1 TTTCCCTTGAAA-GAAATTTTATCTCCATTGACATAACATTGAAAACA
*
10485801 TTTCCCTTGAAATAAATTTTATCTC
1 TTTCCCTTGAAAGAAATTTTATCTC
10485826 GCTTGGGGTA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
47 36 0.55
48 3 0.05
50 13 0.20
51 13 0.20
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (47 bp):
TTTCCCTTGAAAGAAATTTTATCTCCATTGACATAACATTGAAAACA
Found at i:10485876 original size:37 final size:37
Alignment explanation
Indices: 10485801--10485888 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 37
10485791 ATTGAAAACA
* * * **
10485801 TTTCCCTTGAAA-TAAATTTTATCTCGCTTGGGGTAG
1 TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
*
10485837 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
*
10485874 TTTCTCTTGAAACAA
1 TTTCCCTTGAAACAA
10485889 TTTCTCTTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 12 0.27
37 32 0.73
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
Found at i:10485892 original size:15 final size:15
Alignment explanation
Indices: 10485864--10485902 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
10485854 TTTTGTCTCC
* *
10485864 CTTGAGACAGTTTCT
1 CTTGAAACAATTTCT
10485879 CTTGAAACAATTTCT
1 CTTGAAACAATTTCT
*
10485894 CTTAAAACA
1 CTTGAAACA
10485903 TAAACATTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (15 bp):
CTTGAAACAATTTCT
Found at i:10485965 original size:36 final size:36
Alignment explanation
Indices: 10485917--10486004 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 36
10485907 CATTGAAAAC
* * *
10485917 ATTTCCTTTGAAATTAATTTTGTCTCTCTTGAGATA
1 ATTTCCCTTGAAATAAATTTTGTCTCCCTTGAGATA
* *
10485953 GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATA
1 ATTTCCCTTGAAA-TAAATTTTGTCTCCCTTGAGATA
*
10485990 ATTTCTCTTGAAATA
1 ATTTCCCTTGAAATA
10486005 TAAACCTTGA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 12 0.28
37 31 0.72
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.44
Consensus pattern (36 bp):
ATTTCCCTTGAAATAAATTTTGTCTCCCTTGAGATA
Found at i:10485979 original size:37 final size:37
Alignment explanation
Indices: 10485932--10486002 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
10485922 CTTTGAAATT
* *
10485932 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAA
1 AATTTTGTCTCCCTTGAGATAATTTCCCTTGAAACAA
*
10485969 AATTTTGTCTCCCTTGAGATAATTTCTCTTGAAA
1 AATTTTGTCTCCCTTGAGATAATTTCCCTTGAAA
10486003 TATAAACCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGATAATTTCCCTTGAAACAA
Done.