Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 75 of 129
Found at i:14182828 original size:24 final size:24
Alignment explanation
Indices: 14182801--14182851 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
14182791 GTTTGAAATC
14182801 TTTTCACT-TTTCATTTCAAAAGCT
1 TTTTCACTATTT-ATTTCAAAAGCT
* *
14182825 TTTTCACTATTTGTTTCAAAATCT
1 TTTTCACTATTTATTTCAAAAGCT
14182849 TTT
1 TTT
14182852 AGATGTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.24, C:0.18, G:0.04, T:0.55
Consensus pattern (24 bp):
TTTTCACTATTTATTTCAAAAGCT
Found at i:14184699 original size:24 final size:24
Alignment explanation
Indices: 14184679--14184738 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 24
14184669 TTTTTTTTAT
*
14184679 TTTTTTTTCATTTTCTCTTTTCTC
1 TTTTCTTTCATTTTCTCTTTTCTC
14184703 TTTTCTTTCA-TTT-TC-TTTC-C
1 TTTTCTTTCATTTTCTCTTTTCTC
14184723 TTTTCTTT-ATTTTCTC
1 TTTTCTTTCATTTTCTC
14184739 ATTATTTCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 1 0.03
20 12 0.36
21 6 0.18
22 2 0.06
23 3 0.09
24 9 0.27
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTCTTTCATTTTCTCTTTTCTC
Found at i:14184706 original size:44 final size:43
Alignment explanation
Indices: 14184652--14184738 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 43
14184642 ATCATTCATT
* * * * *
14184652 TTTTTTCTTTTCCTTCCTTTTTTTTATTTTTTTTTCATTTTCTC
1 TTTTCTCTTTTCCTTCATTTTCTTTACTTTTCTTT-ATTTTCTC
* *
14184696 TTTTCTCTTTTCTTTCATTTTCTTTCCTTTTCTTTATTTTCTC
1 TTTTCTCTTTTCCTTCATTTTCTTTACTTTTCTTTATTTTCTC
14184739 ATTATTTCAC
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 8 0.22
44 28 0.78
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.75
Consensus pattern (43 bp):
TTTTCTCTTTTCCTTCATTTTCTTTACTTTTCTTTATTTTCTC
Found at i:14184718 original size:10 final size:10
Alignment explanation
Indices: 14184646--14184737 Score: 58
Period size: 10 Copynumber: 10.0 Consensus size: 10
14184636 CACTTAATCA
*
14184646 TTCATTTTTT
1 TTCATTTTCT
*
14184656 TTC-TTTTCC
1 TTCATTTTCT
*
14184665 TTCCTTTT-T
1 TTCATTTTCT
* *
14184674 TTTATTTTTTT
1 TTCA-TTTTCT
14184685 TTCATTTTC-
1 TTCATTTTCT
14184694 -TC-TTTTC-
1 TTCATTTTCT
14184701 -TC-TTTTCT
1 TTCATTTTCT
14184709 TTCATTTTCT
1 TTCATTTTCT
*
14184719 TTCCTTTTCT
1 TTCATTTTCT
14184729 TT-ATTTTCT
1 TTCATTTTCT
14184738 CATTATTTCA
Statistics
Matches: 67, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
7 12 0.18
8 2 0.03
9 17 0.25
10 32 0.48
11 4 0.06
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (10 bp):
TTCATTTTCT
Found at i:14185287 original size:11 final size:11
Alignment explanation
Indices: 14185273--14185297 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14185263 ATTTTCCTTG
14185273 TTTTTTCTTTT
1 TTTTTTCTTTT
14185284 TTTTTTCTTTT
1 TTTTTTCTTTT
14185295 TTT
1 TTT
14185298 GCATGCCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:14187364 original size:79 final size:79
Alignment explanation
Indices: 14187194--14187350 Score: 305
Period size: 79 Copynumber: 2.0 Consensus size: 79
14187184 TGTTAGCTAA
14187194 TATCTTATTTTTTCCAACTCCAAAAACATGAGAATATACGCAAACAGGATCAAATGAAATACAAG
1 TATCTTATTTTTTCCAACTCCAAAAACATGAGAATATACGCAAACAGGATCAAATGAAATACAAG
14187259 GAATGAAACAACAC
66 GAATGAAACAACAC
*
14187273 TATCTTATTTTTTCCAACTCCAAAAACATGAGAATATACGCAAACAGGATCAAATGAAATGCAAG
1 TATCTTATTTTTTCCAACTCCAAAAACATGAGAATATACGCAAACAGGATCAAATGAAATACAAG
14187338 GAATGAAACAACA
66 GAATGAAACAACA
14187351 TTGACTATCT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.23
Consensus pattern (79 bp):
TATCTTATTTTTTCCAACTCCAAAAACATGAGAATATACGCAAACAGGATCAAATGAAATACAAG
GAATGAAACAACAC
Found at i:14189446 original size:3 final size:3
Alignment explanation
Indices: 14189438--14189466 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14189428 TGATTTAATC
14189438 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14189467 TTAGTTAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14189693 original size:18 final size:18
Alignment explanation
Indices: 14189670--14189705 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14189660 GTTGCAAGTC
14189670 AAATTTAGGGTTTGGGTA
1 AAATTTAGGGTTTGGGTA
*
14189688 AAATTTAGGGTTTTGGTA
1 AAATTTAGGGTTTGGGTA
14189706 GGTTTTTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.42
Consensus pattern (18 bp):
AAATTTAGGGTTTGGGTA
Found at i:14190703 original size:23 final size:22
Alignment explanation
Indices: 14190677--14190738 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
14190667 TTTACTTTTG
*
14190677 TTTTGTTTTCTTCTTTTCTTTCA
1 TTTT-TTTTCTTCTTTCCTTTCA
*
14190700 TTTTTTTTTCTTCTTTCCTTTCC
1 -TTTTTTTTCTTCTTTCCTTTCA
14190723 TTATTTTTTCTT-TTTC
1 TT-TTTTTTCTTCTTTC
14190739 TTCACGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 6 0.17
23 25 0.71
24 4 0.11
ACGTcount: A:0.03, C:0.19, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTTTTTCTTCTTTCCTTTCA
Found at i:14190713 original size:26 final size:25
Alignment explanation
Indices: 14190682--14190741 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
14190672 TTTTGTTTTG
* *
14190682 TTTTCTTCTTTTCTTTCATTTTTT-T
1 TTTTCTTCCTTTCCTT-ATTTTTTCT
14190707 TTCTTCTTTCCTTTCCTTATTTTTTCT
1 TT-TTC-TTCCTTTCCTTATTTTTTCT
14190734 TTTTCTTC
1 TTTTCTTC
14190742 ACGAAAAGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 5 0.17
26 13 0.43
27 12 0.40
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTCTTCCTTTCCTTATTTTTTCT
Found at i:14190844 original size:21 final size:21
Alignment explanation
Indices: 14190797--14190850 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
14190787 TGTCAGCTAT
*
14190797 CTTTTTTCTTTTTCTTCCTTC
1 CTTTTTTCTTTTTCTTCCTAC
*
14190818 C-ATTTTCTTTTTCCTT-CTAC
1 CTTTTTTCTTTTT-CTTCCTAC
14190838 TCTTTTTTCTTTT
1 -CTTTTTTCTTTT
14190851 CATCAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 13 0.48
21 5 0.19
22 9 0.33
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (21 bp):
CTTTTTTCTTTTTCTTCCTAC
Found at i:14192084 original size:17 final size:18
Alignment explanation
Indices: 14192049--14192089 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
14192039 CATTTTAATG
*
14192049 TTTAATTTTTTATTTATT
1 TTTAATTTTTTATTGATT
*
14192067 TTTACTTTTTTA-TGA-T
1 TTTAATTTTTTATTGATT
14192083 TTTAATT
1 TTTAATT
14192090 AATTAAAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 7 0.35
17 2 0.10
18 11 0.55
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTAATTTTTTATTGATT
Found at i:14193813 original size:6 final size:6
Alignment explanation
Indices: 14193802--14193828 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
14193792 ATAGTTAAAT
14193802 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
14193829 GAATGCCTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:14195072 original size:84 final size:84
Alignment explanation
Indices: 14194899--14195161 Score: 275
Period size: 84 Copynumber: 3.1 Consensus size: 84
14194889 TTATGCTCAA
* * * * * *
14194899 AGGTCTTACAAATCTCAACTCTACAATAAATTCAACTCGAAAGA-TTACAATTCTTGCTTGAAAG
1 AGGTCTTACAAATCTTAACTCTAAAATAAATTCAGCTCGAAAGATTTGCAAATCTTGCTTGAAGG
*
14194963 ATTTAGAGATTACGCTTGG
66 ACTTAGAGATTACGCTTGG
* * * *
14194982 AGGTCTTATAAATTTTAACTCTAAAATAGATTCAGCTCGAAAGATTTGCAAATCTTGCCTGAAGG
1 AGGTCTTACAAATCTTAACTCTAAAATAAATTCAGCTCGAAAGATTTGCAAATCTTGCTTGAAGG
**
14195047 ACTTAGAGATTACTTTTGG
66 ACTTAGAGATTACGCTTGG
* * * *
14195066 AGGTCTTACAAATCTTGACTCTAAAATATATTTAGTTC-AGAAGACTTATG--AATCTTGCTTGA
1 AGGTCTTACAAATCTTAACTCTAAAATAAATTCAGCTCGA-AAGA-TT-TGCAAATCTTGCTTGA
** *
14195128 ATGG-CTTAGAGATTACGCCCGA
63 A-GGACTTAGAGATTACGCTTGG
14195150 AGGTCTTACAAA
1 AGGTCTTACAAA
14195162 CCAAACTTTG
Statistics
Matches: 150, Mismatches: 25, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
83 39 0.26
84 105 0.70
85 4 0.03
86 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (84 bp):
AGGTCTTACAAATCTTAACTCTAAAATAAATTCAGCTCGAAAGATTTGCAAATCTTGCTTGAAGG
ACTTAGAGATTACGCTTGG
Found at i:14200243 original size:19 final size:19
Alignment explanation
Indices: 14200216--14200256 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
14200206 AATGAATGAA
*
14200216 AATAGATAAACAAACAAAT
1 AATAGATAAACAAAAAAAT
* *
14200235 AATATATAAATAAAAAAAT
1 AATAGATAAACAAAAAAAT
14200254 AAT
1 AAT
14200257 TGCAAACATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AATAGATAAACAAAAAAAT
Found at i:14205559 original size:168 final size:165
Alignment explanation
Indices: 14205273--14205576 Score: 380
Period size: 168 Copynumber: 1.8 Consensus size: 165
14205263 GTCAAAAATG
* * *
14205273 CCTTCAATAATCCATAAACAATAGTTGGAATGGATTCTTAAAGGCATTTTTGGTTCAAAATGCCT
1 CCTTCAATAATCCATAAAAAATAG-TGGAATGGATTATTAAAGGCATTTTTGGCTCAAAATGCCT
* * *
14205338 TTAATATTCCATGCGATAATTTTGAATGGTCAGATTATTGAAGGTAATTTTTTTCAAAAATACCT
65 TCAATAATCCATGCAATAATTTTGAATGGT-A-ATTATTGAAGGTAATTTTTTT-AAAAATACCT
14205403 TCAATAACATTTTGTTAGGGATTATTCAAGGCATTTTGC
127 TCAATAACATTTTGTTAGGGATTATTCAAGGCATTTTGC
* * *
14205442 CCTT-AATAATCCATACGAAAAATA-TGGAATGGATTATTGAAGGCATTTTTGGCTGAAAGTGCC
1 CCTTCAATAATCCATA--AAAAATAGTGGAATGGATTATTAAAGGCATTTTTGGCTCAAAATGCC
* * * * *
14205505 TTCAATAATCCATTCAATTAATTTTTAGTTGGT-ATTATTGAAGGTGATTTTTTTTAAAAATGCC
64 TTCAATAATCCATGCAA-TAATTTTGA-ATGGTAATTATTGAAGGT-AATTTTTTTAAAAATACC
14205569 TTCAATAA
126 TTCAATAA
14205577 TCCATACAAA
Statistics
Matches: 116, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
167 28 0.24
168 66 0.57
169 12 0.10
170 10 0.09
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (165 bp):
CCTTCAATAATCCATAAAAAATAGTGGAATGGATTATTAAAGGCATTTTTGGCTCAAAATGCCTT
CAATAATCCATGCAATAATTTTGAATGGTAATTATTGAAGGTAATTTTTTTAAAAATACCTTCAA
TAACATTTTGTTAGGGATTATTCAAGGCATTTTGC
Found at i:14205700 original size:294 final size:295
Alignment explanation
Indices: 14205148--14205733 Score: 740
Period size: 294 Copynumber: 2.0 Consensus size: 295
14205138 GAGAAATGCT
* * *
14205148 CTTAATAATCCATAGGAAAATATATGGAACCAATTCTTGAAGGCATTTTTGGCCAAATTTGCCTT
1 CTTAATAATCCATACGAAAATATATGGAACCAATTATTGAAGGCATTTTTGGCCAAATGTGCCTT
*
14205213 CAATAATCCAATCAATAAATTTTTAGTTTGCATTATTAAAGGCGATTTTTGTCAAAAATGCCTTC
66 CAATAATCCAATCAATAAATTTTTAGTTGGCATTATTAAAGGCGATTTTTGTCAAAAATGCCTTC
* *
14205278 AATAATCCATAAACAATAGTTGGAATGGATTCTTAAAGGCATTTTTGGTTCAAAATGCCTTTAAT
131 AATAATCCATAAACAAAAGTTGGAATGGATTCTTAAAGGCATTTTTGGTTCAAAATACCTTTAAT
** * * *
14205343 ATTCCATGCGATAATTTTGAATGGTCAGATTATTGAAGGTAATTTTTTTCAAAAATACCTTCAAT
196 ATTCCACACAATAATTTTGAATGGTCAGATTATTGAAGGCAATTTTGTTCAAAAATACCTTCAAT
* *
14205408 AACATTTTGTTAGGGATTATTCAAGGCATTTTGCC
261 AACATTTTGTTAAGGATGATTCAAGGCATTTTGCC
*** *
14205443 CTTAATAATCCATACGAAAA-ATATGGAATGGATTATTGAAGGCATTTTTGGCTGAAA-GTGCCT
1 CTTAATAATCCATACGAAAATATATGGAACCAATTATTGAAGGCATTTTTGGC-CAAATGTGCCT
* * * * * * *
14205506 TCAATAATCCATTCAATTAATTTTTAGTTGGTATTATTGAAGGTGATTTTTTTTAAAAATGCCTT
65 TCAATAATCCAATCAATAAATTTTTAGTTGGCATTATTAAAGGCGATTTTTGTCAAAAATGCCTT
* *
14205571 CAATAATCCATACAA-AAAAGTTGGAATGGATTCTTGAA-G-ATGTTTT-TTTGCCAAAAATACC
130 CAATAATCCATA-AACAAAAGTTGGAATGGATTCTTAAAGGCAT-TTTTGGTT--C-AAAATACC
* * ** * *
14205632 TTTAATATTCCACATAATATATTTT-TA-GGTGGGATTATTGAAGGCAGTTTTGGTT-AAAAATG
190 TTTAATATTCCACACAATA-ATTTTGAATGGTCAGATTATTGAAGGCAATTTT-GTTCAAAAATA
*
14205694 CCTTCAATAACATTTTGTTAAGGATGATTTAAGGCATTTT
253 CCTTCAATAACATTTTGTTAAGGATGATTCAAGGCATTTT
14205734 CTTGCTAAAA
Statistics
Matches: 250, Mismatches: 33, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
292 4 0.02
293 5 0.02
294 187 0.75
295 49 0.20
296 5 0.02
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.38
Consensus pattern (295 bp):
CTTAATAATCCATACGAAAATATATGGAACCAATTATTGAAGGCATTTTTGGCCAAATGTGCCTT
CAATAATCCAATCAATAAATTTTTAGTTGGCATTATTAAAGGCGATTTTTGTCAAAAATGCCTTC
AATAATCCATAAACAAAAGTTGGAATGGATTCTTAAAGGCATTTTTGGTTCAAAATACCTTTAAT
ATTCCACACAATAATTTTGAATGGTCAGATTATTGAAGGCAATTTTGTTCAAAAATACCTTCAAT
AACATTTTGTTAAGGATGATTCAAGGCATTTTGCC
Found at i:14209079 original size:12 final size:12
Alignment explanation
Indices: 14209064--14209088 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14209054 TCAGTATATG
14209064 ATTCAGCATACC
1 ATTCAGCATACC
14209076 ATTCAGCATACC
1 ATTCAGCATACC
14209088 A
1 A
14209089 ATAATATACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.32, G:0.08, T:0.24
Consensus pattern (12 bp):
ATTCAGCATACC
Found at i:14209151 original size:126 final size:126
Alignment explanation
Indices: 14208977--14209217 Score: 320
Period size: 126 Copynumber: 1.9 Consensus size: 126
14208967 ATAAAAACAC
* * * * * *
14208977 CATTAAGCAAATCAATCAATAATGTGGTCAGACACACCCTTCAGCAAACCATTCAAAAACACTAT
1 CATTAAGCAAACCAATCAACAATGTGCTCAGACACACCCATCAACAAACCATTCAAAAACACCAT
* * * ** *
14209042 TTAGCAAACTATTCAGTATATGATTCAGCATACCATTCAGCATACCAATAATATACAATAT
66 TCAGCAAACGATTCAGCATACAATTCAGAATACCATTCAGCATACCAATAATATACAATAT
* * *
14209103 CATTTAGCAAACCAATCAGCAATGTGCTCAGACATACCCATCAACAAACCATTCAAAAACACCAT
1 CATTAAGCAAACCAATCAACAATGTGCTCAGACACACCCATCAACAAACCATTCAAAAACACCAT
* **
14209168 TCAGCATACGATTCAGCATACAATTCAGAATATGATTCAGCATACCAATA
66 TCAGCAAACGATTCAGCATACAATTCAGAATACCATTCAGCATACCAATA
14209218 TCATACGATA
Statistics
Matches: 97, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
126 97 1.00
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.24
Consensus pattern (126 bp):
CATTAAGCAAACCAATCAACAATGTGCTCAGACACACCCATCAACAAACCATTCAAAAACACCAT
TCAGCAAACGATTCAGCATACAATTCAGAATACCATTCAGCATACCAATAATATACAATAT
Found at i:14209183 original size:12 final size:12
Alignment explanation
Indices: 14209166--14209212 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
14209156 CAAAAACACC
14209166 ATTCAGCATACG
1 ATTCAGCATACG
*
14209178 ATTCAGCATACA
1 ATTCAGCATACG
* *
14209190 ATTCAGAATATG
1 ATTCAGCATACG
14209202 ATTCAGCATAC
1 ATTCAGCATAC
14209213 CAATATCATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (12 bp):
ATTCAGCATACG
Found at i:14209194 original size:24 final size:24
Alignment explanation
Indices: 14209166--14209212 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
14209156 CAAAAACACC
*
14209166 ATTCAGCATACGATTCAGCATACA
1 ATTCAGAATACGATTCAGCATACA
*
14209190 ATTCAGAATATGATTCAGCATAC
1 ATTCAGAATACGATTCAGCATAC
14209213 CAATATCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (24 bp):
ATTCAGAATACGATTCAGCATACA
Found at i:14209750 original size:20 final size:20
Alignment explanation
Indices: 14209725--14209762 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14209715 TTTTCTACTA
14209725 AAAAATACCTTTAGTAATCC
1 AAAAATACCTTTAGTAATCC
* *
14209745 AAAAATGCCTTTGGTAAT
1 AAAAATACCTTTAGTAAT
14209763 TCTGAACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (20 bp):
AAAAATACCTTTAGTAATCC
Found at i:14210297 original size:64 final size:63
Alignment explanation
Indices: 14210188--14210487 Score: 175
Period size: 64 Copynumber: 4.7 Consensus size: 63
14210178 CCCAAATATT
* * * *
14210188 TTTAAAAGAAAATTATTGACGGTGTTTGTTCTCAAAAAATGCCTTCAATAATATTAAGCACAAAA
1 TTTAAAAGAAAATTATTGAAGGTATTT-TTCTGAAAAAACGCCTTCAATAATATTAA-CACAAAA
* * **
14210253 TTTAAAAG-AAATTATTGAAGGTATTTTTCTGGAATAAACGCCTTCACTAACTA-T--CTTAAAA
1 TTTAAAAGAAAATTATTGAAGGTATTTTTCT-GAAAAAACGCCTTCAATAA-TATTAACACAAAA
* * **** * * * * * *** * *
14210314 TTTGAATGCTGGTATATTGAAGGCATTTTACACT-AGAAGACGCCTTTAATAATCCCAA-A-TAT
1 TTTAAAAGAAAAT-TATTGAAGGTATTTT--TCTGAAAAAACGCCTTCAATAATATTAACACAAA
*
14210376 T
63 A
* * * *
14210377 TTTAAAAGAAAATTATTGAAGGTGTTTGTTCTAAAAAAATGCCTTCAATAATGTTAAGCACAAAA
1 TTTAAAAGAAAATTATTGAAGGTATTT-TTCTGAAAAAACGCCTTCAATAATATTAA-CACAAAA
* *
14210442 TTTAAAAG-GAATTATTGAAGGTATTTTTCTGGAATAAACGCCTTCA
1 TTTAAAAGAAAATTATTGAAGGTATTTTTCT-GAAAAAACGCCTTCA
14210488 CTAACCATCT
Statistics
Matches: 170, Mismatches: 50, Indels: 31
0.68 0.20 0.12
Matches are distributed among these distances:
61 13 0.08
62 31 0.18
63 44 0.26
64 61 0.36
65 21 0.12
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (63 bp):
TTTAAAAGAAAATTATTGAAGGTATTTTTCTGAAAAAACGCCTTCAATAATATTAACACAAAA
Found at i:14210959 original size:186 final size:186
Alignment explanation
Indices: 14209951--14210963 Score: 1187
Period size: 189 Copynumber: 5.4 Consensus size: 186
14209941 CCCTTAACAT
* * * * *
14209951 TATTGAAGGCGTTTTTATACTAAAAGATGCCTTTAATAATCGTAAATATTTTTAAAAAAAAATTA
1 TATTGAAGGC-ATTTTACACTAGAAGACGCCTTTAATAATCCTAAATATTTTT-AAAAAAAATTA
* * * * * * * * *
14210016 TTGAAAGCATTTATTCTCAAAAGACGTCTTCAATAATTATGTAAAAAAATTAAAACGAATTAGTG
64 TTGAAGGCATTTGTTCTCAAAAAATGCCTTCAATAATTATGTACAAAATTTAAAAAGAATTATTG
* * * * * *
14210081 AAAGCATTTTTCTAGAATAAATGCTTTCACTAACTATGTTAAAATTTGAGTAG-TGGAA
129 AAGGTATTTTTCTAGAATAAATGCCTTCACTAACCATCTTAAAATTTGAGT-GCTGGTA
* ** * * * *
14210139 TATCGAAGGTGTTTTTCATTAGAAGATGCCTTTAATAATCCCAAATATTTTTAAAAGAAAATTAT
1 TATTGAAGGCATTTTACACTAGAAGACGCCTTTAATAATCCTAAATATTTTTAAAA-AAAATTAT
* ** * *
14210204 TGACGGTGTTTGTTCTCAAAAAATGCCTTCAATAATATTAAGCACAAAATTT-AAAAGAAATTAT
65 TGAAGGCATTTGTTCTCAAAAAATGCCTTCAAT-A-ATTATGTACAAAATTTAAAAAG-AATTAT
* * * *
14210268 TGAAGGTATTTTTCTGGAATAAACGCCTTCACTAACTATCTTAAAATTTGAATGCTGGTA
127 TGAAGGTATTTTTCTAGAATAAATGCCTTCACTAACCATCTTAAAATTTGAGTGCTGGTA
*
14210328 TATTGAAGGCATTTTACACTAGAAGACGCCTTTAATAATCCCAAATATTTTTAAAAGAAAATTAT
1 TATTGAAGGCATTTTACACTAGAAGACGCCTTTAATAATCCTAAATATTTTTAAAA-AAAATTAT
** * * * *
14210393 TGAAGGTGTTTGTTCTAAAAAAATGCCTTCAATAATGTTAAGCACAAAATTTAAAAGGAATTATT
65 TGAAGGCATTTGTTCTCAAAAAATGCCTTCAATAA--TTATGTACAAAATTTAAAAAGAATTATT
* * *
14210458 GAAGGTATTTTTCTGGAATAAACGCCTTCACTAACCATCTTAAAATTTGAATGCTGGTA
128 GAAGGTATTTTTCTAGAATAAATGCCTTCACTAACCATCTTAAAATTTGAGTGCTGGTA
*
14210517 TATTGAAGGCATTTTACACTAGAAGACGCCTTTAATAATCCTAAAAATTTTTTAAAAAAAA-TAT
1 TATTGAAGGCATTTTACACTAGAAGACGCCTTTAATAATCCTAAATA-TTTTTAAAAAAAATTAT
** * ** * *
14210581 TGAAGGTGTTTGTTCTCAAAAAATGCCTTCAATAATTATGTACATAAA-TTAGATGGAATCAATG
65 TGAAGGCATTTGTTCTCAAAAAATGCCTTCAATAATTATGTACA-AAATTTAAAAAGAATTATTG
* * * **
14210645 AAGGCATTTTTCTAGAATAAATGCCTTCATTAACCATATTAAAATTTGAGTAG-TGAAA
129 AAGGTATTTTTCTAGAATAAATGCCTTCACTAACCATCTTAAAATTTGAGT-GCTGGTA
* * * * *
14210703 TATTAAAGGTATTTTTCACTGGAAGACGCCTTTAATAAT-CTCAAATATTTTAAAAAAAAATTAT
1 TATTGAAGGCATTTTACACTAGAAGACGCCTTTAATAATCCT-AAATATTTTTAAAAAAAATTAT
* * *
14210767 TGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTACATAATTTAAAAAGAATTATTTA
65 TGAAGGCATTTGTTCTCAAAAAATGCCTTCAATAATTATGTACAAAATTTAAAAAGAATTATTGA
* *
14210832 AGGTATTTTCCTAGAATAAATGCCTTCACTAACCGA-CTTAAAATTTGAGTGCTCGTA
130 AGGTATTTTTCTAGAATAAATGCCTTCACTAACC-ATCTTAAAATTTGAGTGCTGGTA
* *
14210889 TATTGAAGGCATTTTACACTAGAAGACGCCTTTAATAATCCTAAA-ATTTTTAAAATGAAATGAT
1 TATTGAAGGCATTTTACACTAGAAGACGCCTTTAATAATCCTAAATATTTTTAAAA-AAAATTAT
14210953 TGAAGGCATTT
65 TGAAGGCATTT
14210964 TCATTCACTA
Statistics
Matches: 719, Mismatches: 88, Indels: 38
0.85 0.10 0.04
Matches are distributed among these distances:
185 26 0.04
186 266 0.37
187 76 0.11
188 52 0.07
189 286 0.40
190 13 0.02
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.35
Consensus pattern (186 bp):
TATTGAAGGCATTTTACACTAGAAGACGCCTTTAATAATCCTAAATATTTTTAAAAAAAATTATT
GAAGGCATTTGTTCTCAAAAAATGCCTTCAATAATTATGTACAAAATTTAAAAAGAATTATTGAA
GGTATTTTTCTAGAATAAATGCCTTCACTAACCATCTTAAAATTTGAGTGCTGGTA
Found at i:14219376 original size:3 final size:3
Alignment explanation
Indices: 14219368--14219419 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
14219358 TTATGAAGGT
14219368 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14219416 TAA T
1 TAA T
14219420 GAAATTTTCG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:14223895 original size:143 final size:142
Alignment explanation
Indices: 14223645--14223988 Score: 397
Period size: 143 Copynumber: 2.4 Consensus size: 142
14223635 AAAATACCCC
* * * * * **
14223645 AAAATACCCTTAGAG-TATTTTTGTAATTTGACTTTCTCGAGATCGATTTTTTGTGAAACACTCA
1 AAAATACCCTTAGAGATATTTTCGTAATTTGACATTCTTGAGGTTGATTTTTCATGAAACACTCA
* *
14223709 AGATCATGGTTTTACATTATTCCATGATTTTTGGTGCATTAAAAACCTTGATTGCACCTCGAAAG
66 AGATCATCGTTTTACATTATTCCATGATTTTTGGTGCACTAAAAA-CTTGATTGCACCTCGAAAG
14223774 GTATAAAATTACA
130 GTATAAAATTACA
* * * *
14223787 AAAATACCCTTTGAGATATTTTCGTAATTTGACCTTCTTGAGGTTGGTTTTTCATGAAACACTCT
1 AAAATACCCTTAGAGATATTTTCGTAATTTGACATTCTTGAGGTTGATTTTTCATGAAACACTCA
* ** * * * *
14223852 AGATCA-CGTTTTCATATTATTTGATGATTTTTGGTGTACTAAAAATTTGATTGCACCTTGAAAT
66 AGATCATCGTTTT-ACATTATTCCATGATTTTTGGTGCACTAAAAACTTGATTGCACCTCGAAAG
* * *
14223916 GTGTGAAATTACT
130 GTATAAAATTACA
* * *
14223929 AAAATACCCTTAAGGGATAATTTCATAATTTGACATT-TTCGAGGTTGATTTTTCATGAAA
1 AAAATACCCTT-AGAGATATTTTCGTAATTTGACATTCTT-GAGGTTGATTTTTCATGAAA
14223989 ACTTTTAGAT
Statistics
Matches: 170, Mismatches: 28, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
142 58 0.34
143 112 0.66
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (142 bp):
AAAATACCCTTAGAGATATTTTCGTAATTTGACATTCTTGAGGTTGATTTTTCATGAAACACTCA
AGATCATCGTTTTACATTATTCCATGATTTTTGGTGCACTAAAAACTTGATTGCACCTCGAAAGG
TATAAAATTACA
Found at i:14226213 original size:21 final size:22
Alignment explanation
Indices: 14226189--14226239 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
14226179 CACCAACCTT
14226189 TTATGTTGTTC-TCTATATATA
1 TTATGTTGTTCTTCTATATATA
*
14226210 TTATGTTGTTCTTTGTATATATA
1 TTATGTTGTTC-TTCTATATATA
14226233 TTATGTT
1 TTATGTT
14226240 TTTACTAACC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 11 0.41
23 16 0.59
ACGTcount: A:0.22, C:0.06, G:0.12, T:0.61
Consensus pattern (22 bp):
TTATGTTGTTCTTCTATATATA
Found at i:14231402 original size:14 final size:14
Alignment explanation
Indices: 14231379--14231408 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14231369 TTATATGACT
14231379 TTCTCCTATTTTGA
1 TTCTCCTATTTTGA
*
14231393 TTCTCTTATTTTGA
1 TTCTCCTATTTTGA
14231407 TT
1 TT
14231409 GTTCCATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.17, G:0.07, T:0.63
Consensus pattern (14 bp):
TTCTCCTATTTTGA
Found at i:14234682 original size:23 final size:23
Alignment explanation
Indices: 14234656--14234718 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
14234646 AAGATGTTTG
*
14234656 CAAAAAAAAAAAAAAAGCAAAAT
1 CAAAAAAAAAAAAAAAGCAAAAA
**
14234679 CAAAATGAAAAAAAAAGCAAAAA
1 CAAAAAAAAAAAAAAAGCAAAAA
*
14234702 AAAAAAAAAAAAAAAAG
1 CAAAAAAAAAAAAAAAG
14234719 AAAGATTTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.84, C:0.06, G:0.06, T:0.03
Consensus pattern (23 bp):
CAAAAAAAAAAAAAAAGCAAAAA
Found at i:14234736 original size:1 final size:1
Alignment explanation
Indices: 14234657--14234717 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
14234647 AGATGTTTGC
** ** ** **
14234657 AAAAAAAAAAAAAAAGCAAAATCAAAATGAAAAAAAAAGCAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14234718 GAAAGATTTC
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.87, C:0.05, G:0.05, T:0.03
Consensus pattern (1 bp):
A
Found at i:14235798 original size:22 final size:22
Alignment explanation
Indices: 14235764--14235826 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 22
14235754 TGTTGAATGA
* *
14235764 GAATATTTTAAATTTTAATTGT
1 GAATCTTTAAAATTTTAATTGT
*
14235786 GAATCTTTAAAATTTTTTTATTGT
1 GAATCTTTAAAA--TTTTAATTGT
**
14235810 GAATCTTTGCAATTTTA
1 GAATCTTTAAAATTTTA
14235827 GATGCAAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 14 0.42
24 19 0.58
ACGTcount: A:0.32, C:0.05, G:0.10, T:0.54
Consensus pattern (22 bp):
GAATCTTTAAAATTTTAATTGT
Found at i:14235949 original size:89 final size:89
Alignment explanation
Indices: 14235839--14236041 Score: 220
Period size: 89 Copynumber: 2.3 Consensus size: 89
14235829 TGCAAAACTC
14235839 TAAAATTTTTTGAA-AGAGAATCTTTAAAATGTT-GGATGTGAAGCCA-TAAAGTTTTTGAAAGA
1 TAAAATTTTTTGAATA-AGAATCTTTAAAAT-TTAGG-TGTGAA-CCATTAAAGTTTTTGAAAGA
*
14235901 GAACCTTTGAA-TTTAGG-TGTGAATCTT
62 AAACCTTT-AACTTTAGGATGTGAATCTT
* * * * ** *
14235928 TAAAATTTTTTGAATATGAATCTTTGAAGTTTCAGGTGTGAATCATTAACTTTTTTGAATGAAAA
1 TAAAATTTTTTGAATAAGAATCTTTAAAATTT-AGGTGTGAACCATTAAAGTTTTTGAAAGAAAA
* *
14235993 TCTTTAACTTTTGGATGTGAATCTT
65 CCTTTAACTTTAGGATGTGAATCTT
14236018 TAAAA-TTTTTGAATAAGAATCTTT
1 TAAAATTTTTTGAATAAGAATCTTT
14236042 GAACTTTTGA
Statistics
Matches: 97, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
88 6 0.06
89 73 0.75
90 18 0.19
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (89 bp):
TAAAATTTTTTGAATAAGAATCTTTAAAATTTAGGTGTGAACCATTAAAGTTTTTGAAAGAAAAC
CTTTAACTTTAGGATGTGAATCTT
Found at i:14235953 original size:44 final size:45
Alignment explanation
Indices: 14235747--14236048 Score: 199
Period size: 46 Copynumber: 6.7 Consensus size: 45
14235737 GCATAATCAC
* * * * * **
14235747 TAAAATTTGTTGAATGAGAATATTTTAAATTTTAATTGTGAATCTT
1 TAAAATTTTTTGAATAAGAAT-CTTTGAACTTTAGGTGTGAATCTT
* * ** * * ** * *
14235793 TAAAATTTTTTTATTGTGAATCTTTGCAATTTTAGATGCAAAACTC
1 TAAAATTTTTTGAATAAGAATCTTTG-AACTTTAGGTGTGAATCTT
* * * **
14235839 TAAAATTTTTTGAA-AGAGAATCTTTAAAATGTT-GGATGTGAAGCCA
1 TAAAATTTTTTGAATA-AGAATCTTTGAACT-TTAGG-TGTGAATCTT
* *
14235885 T-AAAGTTTTTGAA-AGAGAACCTTTGAA-TTTAGGTGTGAATCTT
1 TAAAATTTTTTGAATA-AGAATCTTTGAACTTTAGGTGTGAATCTT
* * *
14235928 TAAAATTTTTTGAATATGAATCTTTGAAGTTTCAGGTGTGAATCAT
1 TAAAATTTTTTGAATAAGAATCTTTGAACTTT-AGGTGTGAATCTT
* *
14235974 T-AACTTTTTTGAATGAA-AATCTTT-AACTTTTGGATGTGAATCTT
1 TAAAATTTTTTGAAT-AAGAATCTTTGAACTTTAGG-TGTGAATCTT
14236018 TAAAA-TTTTTGAATAAGAATCTTTGAACTTT
1 TAAAATTTTTTGAATAAGAATCTTTGAACTTT
14236049 TGAGGTGAGC
Statistics
Matches: 202, Mismatches: 40, Indels: 29
0.75 0.15 0.11
Matches are distributed among these distances:
43 14 0.07
44 55 0.27
45 61 0.30
46 72 0.36
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.43
Consensus pattern (45 bp):
TAAAATTTTTTGAATAAGAATCTTTGAACTTTAGGTGTGAATCTT
Found at i:14236049 original size:23 final size:22
Alignment explanation
Indices: 14235967--14236049 Score: 71
Period size: 23 Copynumber: 3.7 Consensus size: 22
14235957 TTTCAGGTGT
*
14235967 GAATCATTAACTTTTTTGAATGAA
1 GAATCTTTAAC-TTTTTGAAT-AA
* **
14235991 -AATCTTTAAC-TTTTGGATGT
1 GAATCTTTAACTTTTTGAATAA
*
14236011 GAATCTTTAAAATTTTTGAATAA
1 GAATCTTT-AACTTTTTGAATAA
14236034 GAATCTTTGAACTTTT
1 GAATCTTT-AACTTTT
14236050 GAGGTGAGCC
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
21 14 0.30
22 2 0.04
23 30 0.65
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (22 bp):
GAATCTTTAACTTTTTGAATAA
Found at i:14236270 original size:18 final size:18
Alignment explanation
Indices: 14236219--14236362 Score: 102
Period size: 17 Copynumber: 8.3 Consensus size: 18
14236209 TCTTGCATAT
**
14236219 TTGAAATTCTTACGAA-C
1 TTGAAATTCTTGTGAATC
**
14236236 TTGAAATTCTTACGAATC
1 TTGAAATTCTTGTGAATC
* *
14236254 TTTAAATTTTTGTGAATC
1 TTGAAATTCTTGTGAATC
* *
14236272 TAGAAATTCTTGTAAATC
1 TTGAAATTCTTGTGAATC
14236290 -TGAAATTCTTGTGAATC
1 TTGAAATTCTTGTGAATC
* **
14236307 TT--AATTCCTACGAA-C
1 TTGAAATTCTTGTGAATC
* * *
14236322 CTAAAATTCTTGCGAATC
1 TTGAAATTCTTGTGAATC
* *
14236340 TTTAAATTCTTATGAAT-
1 TTGAAATTCTTGTGAATC
14236357 TTGAAA
1 TTGAAA
14236363 ATTATTGCAA
Statistics
Matches: 101, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
15 2 0.02
16 9 0.09
17 46 0.46
18 44 0.44
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (18 bp):
TTGAAATTCTTGTGAATC
Found at i:14236313 original size:86 final size:86
Alignment explanation
Indices: 14236223--14236407 Score: 219
Period size: 86 Copynumber: 2.1 Consensus size: 86
14236213 GCATATTTGA
* * * * * *
14236223 AATTCTTACGAACTTGAAATTCTTACGAATCTTTAAATTTTTGTGAATCTAG-AAATTCTTGTAA
1 AATTCTTACGAACCTAAAATTCTTACGAATCTTTAAATTCTTATGAAT-TAGAAAATTATTGCAA
* * * *
14236287 ATCTGAAATTCTTGTGAATCTT
65 ATCTAAAATTCATGTGAAACTG
* * *
14236309 AATTCCTACGAACCTAAAATTCTTGCGAATCTTTAAATTCTTATGAATTTGAAAATTATTGCAAA
1 AATTCTTACGAACCTAAAATTCTTACGAATCTTTAAATTCTTATGAATTAGAAAATTATTGCAAA
*
14236374 TTTAAAATTCATGTGAAACTG
66 TCTAAAATTCATGTGAAACTG
14236395 AATTTCTTACGAA
1 AA-TTCTTACGAA
14236408 TCTTAATTCT
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
85 2 0.02
86 71 0.87
87 9 0.11
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (86 bp):
AATTCTTACGAACCTAAAATTCTTACGAATCTTTAAATTCTTATGAATTAGAAAATTATTGCAAA
TCTAAAATTCATGTGAAACTG
Found at i:14236416 original size:86 final size:84
Alignment explanation
Indices: 14236223--14236435 Score: 214
Period size: 86 Copynumber: 2.5 Consensus size: 84
14236213 GCATATTTGA
* * * * *
14236223 AATTCTTACGAACTTGAAATTCTTACGAATCTTTAAATTTTTGTGAATCTAGAAATTCTTGTAAA
1 AATTCTTACGAACTT--AATTCTTGCGAATCTTTAAATTCTTATGAATCTAGAAATTATTGCAAA
* * * *
14236288 TCTGAAATTCTTGTGAATCTT
64 TCTAAAATTCATGTGAAACTG
* * *
14236309 AATTCCTACGAACCTAAAATTCTTGCGAATCTTTAAATTCTTATGAAT-TTGAAAATTATTGCAA
1 AATTCTTACGAA-CT-TAATTCTTGCGAATCTTTAAATTCTTATGAATCTAG-AAATTATTGCAA
*
14236373 ATTTAAAATTCATGTGAAACTG
63 ATCTAAAATTCATGTGAAACTG
* *
14236395 AATTTCTTACGAATCTTAATTCTTGCAAATC-TAAAATTCTT
1 AA-TTCTTACGAA-CTTAATTCTTGCGAATCTTTAAATTCTT
14236436 GCAAATTTGA
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
85 11 0.10
86 81 0.77
87 13 0.12
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (84 bp):
AATTCTTACGAACTTAATTCTTGCGAATCTTTAAATTCTTATGAATCTAGAAATTATTGCAAATC
TAAAATTCATGTGAAACTG
Found at i:14236432 original size:17 final size:17
Alignment explanation
Indices: 14236268--14236441 Score: 77
Period size: 17 Copynumber: 10.2 Consensus size: 17
14236258 AATTTTTGTG
*
14236268 AATCTAGAAATTCTTGTA
1 AATCTA-AAATTCTTGCA
* **
14236286 AATCTGAAATTCTTGTG
1 AATCTAAAATTCTTGCA
* * * *
14236303 AATCT-TAATTCCTACG
1 AATCTAAAATTCTTGCA
* *
14236319 AACCTAAAATTCTTGCG
1 AATCTAAAATTCTTGCA
* ***
14236336 AATCTTTAAATTCTTATG
1 AATC-TAAAATTCTTGCA
* *
14236354 AATTTGAAAATTATTGCA
1 AATCT-AAAATTCTTGCA
*
14236372 AATTTAAAATTCATGTG-A
1 AATCTAAAATTC-T-TGCA
* * * *
14236390 AA-CTGAATTTCTTACG
1 AATCTAAAATTCTTGCA
*
14236406 AATCT-TAATTCTTGCA
1 AATCTAAAATTCTTGCA
14236422 AATCTAAAATTCTTGCA
1 AATCTAAAATTCTTGCA
14236439 AAT
1 AAT
14236442 TTGAGTCATT
Statistics
Matches: 117, Mismatches: 31, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
15 1 0.01
16 26 0.22
17 54 0.46
18 34 0.29
19 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (17 bp):
AATCTAAAATTCTTGCA
Found at i:14236503 original size:34 final size:34
Alignment explanation
Indices: 14236453--14236552 Score: 105
Period size: 33 Copynumber: 3.0 Consensus size: 34
14236443 TGAGTCATTA
* * *
14236453 CGAATCTTCCAATCTTGCGAATTTGAAAATCTTG
1 CGAATCTTTCATTCTTGTGAATTTGAAAATCTTG
*
14236487 CGAATCTTTCATTCTTGTGAATTT--AAGTCTTTG
1 CGAATCTTTCATTCTTGTGAATTTGAAAATC-TTG
* * * *
14236520 CGAAACTTTTATTCTTATGAATCTGAAAATCTT
1 CGAATCTTTCATTCTTGTGAATTTGAAAATCTT
14236553 ATGAATTTGA
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
32 4 0.07
33 23 0.43
34 23 0.43
35 4 0.07
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (34 bp):
CGAATCTTTCATTCTTGTGAATTTGAAAATCTTG
Found at i:14236554 original size:17 final size:17
Alignment explanation
Indices: 14236532--14236569 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
14236522 AAACTTTTAT
14236532 TCTTATGAATCTGAAAA
1 TCTTATGAATCTGAAAA
*
14236549 TCTTATGAATTTGAAAA
1 TCTTATGAATCTGAAAA
14236566 TCTT
1 TCTT
14236570 GCAAATCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (17 bp):
TCTTATGAATCTGAAAA
Found at i:14236635 original size:26 final size:26
Alignment explanation
Indices: 14236600--14236657 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
14236590 ATCTTCCATA
* *
14236600 TGAAAGTCTTGCGAGTCTTTCAAATT
1 TGAAAATCTTGCGAATCTTTCAAATT
* **
14236626 TGAAAATCTTGTGAATCTTTTGAATT
1 TGAAAATCTTGCGAATCTTTCAAATT
14236652 TGAAAA
1 TGAAAA
14236658 CCTCTATGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (26 bp):
TGAAAATCTTGCGAATCTTTCAAATT
Found at i:14236683 original size:18 final size:19
Alignment explanation
Indices: 14236639--14236685 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
14236629 AAATCTTGTG
14236639 AATCTTT-TG-AATTTGAA
1 AATCTTTATGAAATTTGAA
* *
14236656 AACCTCTATGAAATTTG-A
1 AATCTTTATGAAATTTGAA
14236674 AATCTTTATGAA
1 AATCTTTATGAA
14236686 TCTGGAACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 5 0.21
18 13 0.54
19 6 0.25
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (19 bp):
AATCTTTATGAAATTTGAA
Found at i:14238262 original size:21 final size:21
Alignment explanation
Indices: 14238234--14238333 Score: 109
Period size: 21 Copynumber: 4.9 Consensus size: 21
14238224 ATGATTGTTA
* *
14238234 ATTAATTGTATGATACTTTAT
1 ATTAATTGCATGATAATTTAT
*
14238255 -TATAATTGCACGATAATTTAT
1 AT-TAATTGCATGATAATTTAT
14238276 ATTAATTGCATGAT-ATATTAT
1 ATTAATTGCATGATAAT-TTAT
*
14238297 ATT-ATTACATGAT-ATTTAT
1 ATTAATTGCATGATAATTTAT
*
14238316 ATTATTTGCATGATAATT
1 ATTAATTGCATGATAATT
14238334 GTTGTTTAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
19 7 0.10
20 22 0.33
21 37 0.55
22 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.49
Consensus pattern (21 bp):
ATTAATTGCATGATAATTTAT
Found at i:14238280 original size:42 final size:40
Alignment explanation
Indices: 14238234--14238330 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
14238224 ATGATTGTTA
* *
14238234 ATTAATTGTATGATACT-TTATTATAATTGCACGATAATTTAT
1 ATTAATTGCATGATA-TATTA-TATAATTACACGAT-ATTTAT
* *
14238276 ATTAATTGCATGATATATTATATTATTACATGATATTTAT
1 ATTAATTGCATGATATATTATATAATTACACGATATTTAT
*
14238316 ATTATTTGCATGATA
1 ATTAATTGCATGATA
14238331 ATTGTTGTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 20 0.41
41 12 0.24
42 17 0.35
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.48
Consensus pattern (40 bp):
ATTAATTGCATGATATATTATATAATTACACGATATTTAT
Found at i:14239825 original size:25 final size:25
Alignment explanation
Indices: 14239756--14239826 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
14239746 TTAAATAGGA
*
14239756 AAATTGATATTTCAACTTTTCTTTT
1 AAATTGATATTTCAACTTTTTTTTT
* *
14239781 AATCATTCGA-AATT--ATTTTTTTTTT
1 AA--ATT-GATATTTCAACTTTTTTTTT
14239806 AAATTGATATTTCAACTTTTT
1 AAATTGATATTTCAACTTTTT
14239827 CCTCAAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 12
0.67 0.10 0.23
Matches are distributed among these distances:
22 2 0.06
23 6 0.17
25 19 0.54
27 6 0.17
28 2 0.06
ACGTcount: A:0.30, C:0.10, G:0.04, T:0.56
Consensus pattern (25 bp):
AAATTGATATTTCAACTTTTTTTTT
Found at i:14240096 original size:55 final size:54
Alignment explanation
Indices: 14239979--14240131 Score: 143
Period size: 55 Copynumber: 2.8 Consensus size: 54
14239969 TTTTTTTAAA
* *
14239979 AAATTATTTTCTTTTAAGAGAAAATTGATAATTCAACTTTTTTCTTAAAATTTT
1 AAATTATTTCCTTTCAAGAGAAAATTGATAATTCAACTTTTTTCTTAAAATTTT
* * *
14240033 AAATTTATTTCCTTTCAAG-GAAAGATTTATATTTCAACTCTTTCTT-TT-AATTTTT
1 AAA-TTATTTCCTTTCAAGAGAAA-ATTGATAATTCAACT-TTT-TTCTTAAAATTTT
* * *
14240088 GAAATTATTTTCATTTTAAGAAAAAATT-AGTAATTCAACTTTTT
1 -AAATTA-TTTCCTTTCAAGAGAAAATTGA-TAATTCAACTTTTT
14240132 CATTTTTTTG
Statistics
Matches: 82, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
54 8 0.10
55 39 0.48
56 30 0.37
57 5 0.06
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (54 bp):
AAATTATTTCCTTTCAAGAGAAAATTGATAATTCAACTTTTTTCTTAAAATTTT
Found at i:14241111 original size:17 final size:18
Alignment explanation
Indices: 14241089--14241125 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
14241079 TGCTTGAAAC
*
14241089 TGGATTTTTTG-GTTTAT
1 TGGATTTTATGTGTTTAT
14241106 TGGATTTTATGTGTTTAT
1 TGGATTTTATGTGTTTAT
14241124 TG
1 TG
14241126 TGTAATGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.14, C:0.00, G:0.24, T:0.62
Consensus pattern (18 bp):
TGGATTTTATGTGTTTAT
Found at i:14241977 original size:6 final size:6
Alignment explanation
Indices: 14241952--14242010 Score: 54
Period size: 6 Copynumber: 9.8 Consensus size: 6
14241942 TAATAAATAA
14241952 ATAAAG -TAAA- ATTAAA- ATAAAG ATAAAG ATAAATG AATAAA- ATAAAG
1 ATAAAG ATAAAG A-TAAAG ATAAAG ATAAAG ATAAA-G -ATAAAG ATAAAG
14241999 AATAAAG ATAAA
1 -ATAAAG ATAAA
14242011 AAAATAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
5 13 0.28
6 21 0.46
7 7 0.15
8 5 0.11
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.20
Consensus pattern (6 bp):
ATAAAG
Found at i:14241985 original size:16 final size:14
Alignment explanation
Indices: 14241946--14241997 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 14
14241936 CAATAATAAT
14241946 AAATAAATAAAGTA
1 AAATAAATAAAGTA
14241960 AAATTAAAATAAAGATA
1 AAA-T-AAATAAAG-TA
*
14241977 AAGATAAATGAA-TA
1 AA-ATAAATAAAGTA
14241991 AAATAAA
1 AAATAAA
14241998 GAATAAAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
13 5 0.15
14 7 0.21
15 1 0.03
16 14 0.42
17 5 0.15
18 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (14 bp):
AAATAAATAAAGTA
Found at i:14241990 original size:20 final size:20
Alignment explanation
Indices: 14241967--14242004 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14241957 GTAAAATTAA
14241967 AATAAAGATAAAG-ATAAATG
1 AATAAA-ATAAAGAATAAATG
14241987 AATAAAATAAAGAATAAA
1 AATAAAATAAAGAATAAA
14242005 GATAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (20 bp):
AATAAAATAAAGAATAAATG
Found at i:14241998 original size:25 final size:26
Alignment explanation
Indices: 14241959--14242019 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
14241949 TAAATAAAGT
*
14241959 AAAATTAAAATAAAG-ATAAAGATAA
1 AAAAATAAAATAAAGAATAAAGATAA
**
14241984 ATGAATAAAATAAAGAATAAAGATAA
1 AAAAATAAAATAAAGAATAAAGATAA
14242010 AAAAATAAAA
1 AAAAATAAAA
14242020 AAATGGATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 12 0.40
26 18 0.60
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (26 bp):
AAAAATAAAATAAAGAATAAAGATAA
Found at i:14242003 original size:32 final size:32
Alignment explanation
Indices: 14241948--14242018 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
14241938 ATAATAATAA
*
14241948 ATAAATAAAGTAAAATTAAAATAAAGATAAAG
1 ATAAATAAAGTAAAATAAAAATAAAGATAAAG
*
14241980 ATAAATGAA-TAAAATAAAGAATAAAGATAAA-
1 ATAAATAAAGTAAAATAAA-AATAAAGATAAAG
14242011 A-AAATAAA
1 ATAAATAAA
14242019 AAAATGGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 6 0.17
31 9 0.26
32 20 0.57
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (32 bp):
ATAAATAAAGTAAAATAAAAATAAAGATAAAG
Found at i:14242049 original size:29 final size:28
Alignment explanation
Indices: 14242012--14242079 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
14242002 AAAGATAAAA
*
14242012 AAATA-AAAAAATGGATATATACAAAGAT
1 AAATATAAAAAAT-GATATACACAAAGAT
*
14242040 AAATATAAAACAATGATATACACAAATAT
1 AAATATAAAA-AATGATATACACAAAGAT
*
14242069 AAAAATAAAAA
1 AAATATAAAAA
14242080 TAACAAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.17
29 26 0.74
30 3 0.09
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (28 bp):
AAATATAAAAAATGATATACACAAAGAT
Found at i:14242425 original size:13 final size:13
Alignment explanation
Indices: 14242409--14242543 Score: 118
Period size: 13 Copynumber: 10.4 Consensus size: 13
14242399 CCACGAATCC
*
14242409 AAACCCTACACCT
1 AAACCCTAAACCT
*
14242422 AAACCCTAAACCC
1 AAACCCTAAACCT
14242435 AAACCCTAAACCT
1 AAACCCTAAACCT
*
14242448 AAA-TCTAAACCTT
1 AAACCCTAAACC-T
*
14242461 AAATCC-AAACCCT
1 AAACCCTAAA-CCT
14242474 AAACCCTAAACCT
1 AAACCCTAAACCT
* *
14242487 TAA-CCTAAATCTT
1 AAACCCTAAA-CCT
*
14242500 AAACCTTAAATCC-
1 AAACCCTAAA-CCT
14242513 AAACCC-AAACCCT
1 AAACCCTAAA-CCT
*
14242526 AAACCCTAAACGT
1 AAACCCTAAACCT
14242539 AAACC
1 AAACC
14242544 AAAAACCTTA
Statistics
Matches: 100, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
12 18 0.18
13 66 0.66
14 16 0.16
ACGTcount: A:0.45, C:0.36, G:0.01, T:0.18
Consensus pattern (13 bp):
AAACCCTAAACCT
Found at i:14242431 original size:7 final size:7
Alignment explanation
Indices: 14242409--14242536 Score: 112
Period size: 7 Copynumber: 19.6 Consensus size: 7
14242399 CCACGAATCC
14242409 AAACCCT
1 AAACCCT
*
14242416 ACA-CCT
1 AAACCCT
14242422 AAACCCT
1 AAACCCT
14242429 AAACCC-
1 AAACCCT
14242435 AAACCCT
1 AAACCCT
14242442 AAA-CCT
1 AAACCCT
*
14242448 AAA-TCT
1 AAACCCT
*
14242454 AAACCTT
1 AAACCCT
*
14242461 AAATCC-
1 AAACCCT
14242467 AAACCCT
1 AAACCCT
14242474 AAACCCT
1 AAACCCT
14242481 AAA-CCT
1 AAACCCT
*
14242487 TAA-CCT
1 AAACCCT
* *
14242493 AAATCTT
1 AAACCCT
*
14242500 AAACCTT
1 AAACCCT
*
14242507 AAATCC-
1 AAACCCT
14242513 AAACCC-
1 AAACCCT
14242519 AAACCCT
1 AAACCCT
14242526 AAACCCT
1 AAACCCT
14242533 AAAC
1 AAAC
14242537 GTAAACCAAA
Statistics
Matches: 100, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
6 48 0.48
7 52 0.52
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:14242550 original size:46 final size:46
Alignment explanation
Indices: 14242422--14242560 Score: 194
Period size: 46 Copynumber: 3.0 Consensus size: 46
14242412 CCCTACACCT
14242422 AAACCCTAAACCC-AAACCCTAAACCTAAATCTAAACCTTAAATCC
1 AAACCCTAAACCCTAAACCCTAAACCTAAATCTAAACCTTAAATCC
*
14242467 AAACCCTAAACCCTAAA-CCTTAACCTAAATCTTAAACCTTAAATCC
1 AAACCCTAAACCCTAAACCCTAAACCTAAATC-TAAACCTTAAATCC
* * * *
14242513 AAACCC-AAACCCTAAACCCTAAACGTAAACCAAAAACCTTAAAACC
1 AAACCCTAAACCCTAAACCCTAAACCTAAATC-TAAACCTTAAATCC
14242559 AA
1 AA
14242561 CTTGATTCTA
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
45 36 0.43
46 48 0.57
ACGTcount: A:0.48, C:0.34, G:0.01, T:0.17
Consensus pattern (46 bp):
AAACCCTAAACCCTAAACCCTAAACCTAAATCTAAACCTTAAATCC
Found at i:14247276 original size:16 final size:16
Alignment explanation
Indices: 14247227--14247279 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
14247217 AATCCAGCTA
*
14247227 AAAAATTAAAGATAAAT
1 AAAAA-TAAAAATAAAT
* *
14247244 -GAAATAAAAATTGAAT
1 AAAAATAAAAA-TAAAT
14247260 AAAAATAAAAATAAAT
1 AAAAATAAAAATAAAT
14247276 AAAA
1 AAAA
14247280 TTGTACTAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
15 5 0.17
16 15 0.52
17 9 0.31
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAAATAAAAATAAAT
Found at i:14247754 original size:51 final size:50
Alignment explanation
Indices: 14247684--14247800 Score: 126
Period size: 51 Copynumber: 2.3 Consensus size: 50
14247674 ATGTTTTTAT
* * * * * *
14247684 ATTATTTTAATATAATTTTTAACATATTTAAATAGATTTAGGGATAGAAAA
1 ATTATTTTATTTTATTTTTTAACATATTCAAATAGAGTTA-GGATACAAAA
** * *
14247735 ATTATTTTATTTTATTTTTTAATTTATTCAAATAGAGTTAGTATACAATA
1 ATTATTTTATTTTATTTTTTAACATATTCAAATAGAGTTAGGATACAAAA
14247785 ATTATTTTTATTTTAT
1 ATTA-TTTTATTTTAT
14247801 AAAAATTTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 11 0.20
51 44 0.80
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (50 bp):
ATTATTTTATTTTATTTTTTAACATATTCAAATAGAGTTAGGATACAAAA
Found at i:14248674 original size:16 final size:16
Alignment explanation
Indices: 14248635--14248675 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
14248625 AGAGGAAATT
14248635 AGAAG-AAAAAAGTAA
1 AGAAGAAAAAAAGTAA
* *
14248650 AAAAAAAAAAAAGTAA
1 AGAAGAAAAAAAGTAA
14248666 AGAAGAAAAA
1 AGAAGAAAAA
14248676 TAAGAGGCGG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (16 bp):
AGAAGAAAAAAAGTAA
Found at i:14249622 original size:34 final size:34
Alignment explanation
Indices: 14249584--14249696 Score: 131
Period size: 34 Copynumber: 3.3 Consensus size: 34
14249574 TGGATTTCTA
*
14249584 AGAAGCTTTAAAGATTCTC-GAATATCCATTTTTG
1 AGAAGCTTTAAAGATTATCAG-ATATCCATTTTTG
* * *
14249618 AGAAG-TCTTAAAGATTTTCAGATATCCAATTTCG
1 AGAAGCT-TTAAAGATTATCAGATATCCATTTTTG
* * *
14249652 AGAAGCTTTAAAGCTTATTAGATATCAATTTTTG
1 AGAAGCTTTAAAGATTATCAGATATCCATTTTTG
14249686 AGAAGCTTTAA
1 AGAAGCTTTAA
14249697 GTCTTTTGGA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
33 1 0.01
34 64 0.96
35 2 0.03
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.37
Consensus pattern (34 bp):
AGAAGCTTTAAAGATTATCAGATATCCATTTTTG
Found at i:14249750 original size:67 final size:68
Alignment explanation
Indices: 14249607--14249753 Score: 156
Period size: 67 Copynumber: 2.2 Consensus size: 68
14249597 ATTCTCGAAT
* * *
14249607 ATCCATTTTTGAGAAGTCTTAAAGATTTTCAGATATCCAATTTCGAGAAGCTTTAAAGCTTATTA
1 ATCCATTTTTGAGAAGTCTTAAAGATTTTCAGATATCCAATTTCGAAAAGCCTTAAAGCTTATCA
*
14249672 GAT
66 GAA
* * ** ** *
14249675 ATCAATTTTTGAGAAG-CTTTAAG-TCTTTTGGATATTTATTTTCGAAAAGCCTT-AAGTCTTAT
1 ATCCATTTTTGAGAAGTCTTAAAGAT-TTTCAGATATCCAATTTCGAAAAGCCTTAAAG-CTTAT
14249737 CAGAA
64 CAGAA
14249742 ATCCATTTTTGA
1 ATCCATTTTTGA
14249754 AAAACCTTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
66 4 0.06
67 46 0.71
68 15 0.23
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (68 bp):
ATCCATTTTTGAGAAGTCTTAAAGATTTTCAGATATCCAATTTCGAAAAGCCTTAAAGCTTATCA
GAA
Found at i:14249756 original size:34 final size:33
Alignment explanation
Indices: 14249605--14249763 Score: 115
Period size: 34 Copynumber: 4.7 Consensus size: 33
14249595 AGATTCTCGA
*
14249605 ATATCCATTTTTGAGAAGTCTTAAAGAT-TTTCAG
1 ATATCCATTTTTGAGAAGCCTT-AAG-TCTTTCAG
* * * *
14249639 ATATCCAATTTCGAGAAGCTTTAAAG-CTTATTAG
1 ATATCCATTTTTGAGAAGCCTT-AAGTCTT-TCAG
* * **
14249673 ATATCAATTTTTGAGAAGCTTTAAGTCTTTTGG
1 ATATCCATTTTTGAGAAGCCTTAAGTCTTTCAG
** * *
14249706 ATATTTATTTTCGAAAAGCCTTAAGTCTTATCAG
1 ATATCCATTTTTGAGAAGCCTTAAGTCTT-TCAG
* * *
14249740 AAATCCATTTTTGAAAAACCTTAA
1 ATATCCATTTTTGAGAAGCCTTAA
14249764 AACTTTTTAG
Statistics
Matches: 100, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
33 32 0.32
34 68 0.68
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (33 bp):
ATATCCATTTTTGAGAAGCCTTAAGTCTTTCAG
Found at i:14250271 original size:29 final size:30
Alignment explanation
Indices: 14250234--14250297 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
14250224 TGTATTTATT
*
14250234 TTAAGATTAAACGTATTTATTT-TATTAA-A
1 TTAAAATTAAACGTA-TTATTTATATTAATA
* *
14250263 TTAAAATTAAATGTATTATTTATTTTAATA
1 TTAAAATTAAACGTATTATTTATATTAATA
14250293 TTAAA
1 TTAAA
14250298 TGTATTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 6 0.20
29 18 0.60
30 6 0.20
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (30 bp):
TTAAAATTAAACGTATTATTTATATTAATA
Found at i:14250295 original size:24 final size:25
Alignment explanation
Indices: 14250226--14250313 Score: 97
Period size: 24 Copynumber: 3.4 Consensus size: 25
14250216 ACATTTGTTG
* *
14250226 TATTTATTTTAAGATTAAACGTATT
1 TATTTATTTTAAAATTAAATGTATT
14250251 TATTTTATTAAATTAAAATTAAATGTA-T
1 TA-TTTATT---TTAAAATTAAATGTATT
*
14250279 TATTTATTTTAATATTAAATGTATT
1 TATTTATTTTAAAATTAAATGTATT
*
14250304 TATATATTTT
1 TATTTATTTT
14250314 TAGAAATAGA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
24 14 0.26
25 12 0.22
26 6 0.11
27 6 0.11
28 3 0.06
29 13 0.24
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.56
Consensus pattern (25 bp):
TATTTATTTTAAAATTAAATGTATT
Found at i:14250369 original size:34 final size:34
Alignment explanation
Indices: 14250330--14250394 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
14250320 TAGATTTCTG
*
14250330 AGAATTATATTGAATTCTCGAAAATCTATCTCCT
1 AGAATTATATTGAATTCTCGAAAATCCATCTCCT
* * *
14250364 AGAATTATATTGCATTTTTGAAAATCCATCT
1 AGAATTATATTGAATTCTCGAAAATCCATCT
14250395 TCAAAAATGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.40
Consensus pattern (34 bp):
AGAATTATATTGAATTCTCGAAAATCCATCTCCT
Found at i:14252143 original size:62 final size:60
Alignment explanation
Indices: 14252075--14252415 Score: 229
Period size: 62 Copynumber: 5.5 Consensus size: 60
14252065 CCTCATAATT
*
14252075 GTTAAAGGGCATTATTTAAGGCATTTTTGGATAAAAATGCTTTAAATAATGCTCTTTAAAAA
1 GTTAAAGGG-ATTATTTAAGGCATTTTTGGATAAAAATGCCTTAAATAAT-CTCTTTAAAAA
* * ***
14252137 GTTAAAGGAGATTATTTAAGGCATTTTT--ATCCAAAAATGCCTTAAATTATC-CCTTAATTTT
1 GTTAAAGG-GATTATTTAAGGCATTTTTGGAT--AAAAATGCCTTAAATAATCTCTTTAA-AAA
* * * * *
14252198 TTTAAAGGGTTAATATTTAAGGCATTTTGGGATAAAAATGCCATAAATAATATCCTTTAAAAGA
1 GTTAAAGGG--ATTATTTAAGGCATTTTTGGATAAAAATGCCTTAAATAATCT-CTTTAAAA-A
* * * ** * * * * * * * * **
14252262 ATTTATGATATTATTTAAAGTATTTTTGGACAAAAATGACTTAAGTAATCCCCTCATATTA
1 GTTAAAGGGATTATTTAAGGCATTTTTGGATAAAAATGCCTTAAATAATCTCTTTA-AAAA
* * *
14252323 GTTAAAGGGCATTGTTTAAAGCATTTTTGGATCAAAAATGTCTTAAATAATCTCTTTTAAAAA
1 GTTAAAGGG-ATTATTTAAGGCATTTTTGGAT-AAAAATGCCTTAAATAATCTC-TTTAAAAA
** **
14252386 AATAAAGAGGATTATTTAAGGTGTTTTTGG
1 GTTAAAG-GGATTATTTAAGGCATTTTTGG
14252416 TCTAGAAACA
Statistics
Matches: 207, Mismatches: 56, Indels: 31
0.70 0.19 0.11
Matches are distributed among these distances:
60 8 0.04
61 16 0.08
62 126 0.61
63 42 0.20
64 15 0.07
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (60 bp):
GTTAAAGGGATTATTTAAGGCATTTTTGGATAAAAATGCCTTAAATAATCTCTTTAAAAA
Found at i:14252275 original size:124 final size:124
Alignment explanation
Indices: 14251988--14252413 Score: 328
Period size: 124 Copynumber: 3.4 Consensus size: 124
14251978 TCAAAAACAT
*
14251988 CATAAATAATTCCTTTAAAAAATTTTGTGATATTATTTAAGGTATTTTTAGATAAAAAAAAATAC
1 CATAAATAATTCCTTTAAAAAA-TTTATGATATTATTTAAGGTATTTTTA-AT-AAAAAAAATAC
* * *
14252053 CTTAAATAGTCCCCTCATAATTGTTAAAGGGCATTATTTAAGGCATTTTTGGATAAAAATGC
63 CTTAAATAGTCCCCTAATAATTGTTAAAGGGCAATATTTAAGGCATTTTGGGATAAAAATGC
** * * * * * * ** *
14252115 TTTAAATAATGCTCTTTAAAAAGTTAAAGGAGATTATTTAAGGCATTTTT-AT-CCAAAAATGCC
1 CATAAATAATTC-CTTTAAAAAATT-TATGATATTATTTAAGGTATTTTTAATAAAAAAAATACC
* * * *
14252178 TTAAATTA-TCCCTTAAT-TTTTTTAAAGGGTTAATATTTAAGGCATTTTGGGATAAAAATGC
64 TTAAA-TAGTCCCCTAATAATTGTTAAAGGG-CAATATTTAAGGCATTTTGGGATAAAAATGC
* ** *
14252239 CATAAATAATATCCTTTAAAAGAATTTATGATATTATTTAAAGTATTTTT--GGACAAAAATGA-
1 CATAAATAAT-TCCTTTAAAA-AATTTATGATATTATTTAAGGTATTTTTAATAAAAAAAAT-AC
* * * * * * * *
14252301 CTTAAGTAATCCCCTCAT-ATTAGTTAAAGGGCATTGTTTAAAGCATTTTTGGATCAAAAATGT
63 CTTAAATAGTCCCCTAATAATT-GTTAAAGGGCAATATTTAAGGCATTTTGGGAT-AAAAATGC
* * * * * * *
14252364 CTTAAATAATCTCTTTTAAAAAAATAAAGAGGATTATTTAAGGTGTTTTT
1 CATAAATAAT-TCCTTTAAAAAATTTATGA-TATTATTTAAGGTATTTTT
14252414 GGTCTAGAAA
Statistics
Matches: 236, Mismatches: 51, Indels: 26
0.75 0.16 0.08
Matches are distributed among these distances:
123 12 0.05
124 128 0.54
125 55 0.23
126 2 0.01
127 11 0.05
128 28 0.12
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (124 bp):
CATAAATAATTCCTTTAAAAAATTTATGATATTATTTAAGGTATTTTTAATAAAAAAAATACCTT
AAATAGTCCCCTAATAATTGTTAAAGGGCAATATTTAAGGCATTTTGGGATAAAAATGC
Found at i:14252403 original size:125 final size:121
Alignment explanation
Indices: 14252045--14252415 Score: 370
Period size: 124 Copynumber: 3.0 Consensus size: 121
14252035 TTAGATAAAA
*
14252045 AAAAAT-ACCTTAAATAGTCCCCTCATAATTGTTAAAGGGCATTATTTAAGGCATTTTTGGATAA
1 AAAAATGA-CTTAAATAATCCCCTCAT-ATTGTTAAAGGGCATTATTTAAGGCATTTTTGGATAA
* * ***
14252109 AAATGCTTTAAATAATGCTCTTTAAAAAGTTAAAG-GAGATTATTTAAGGCATTTTTATCC
64 AAATGC-TTAAATAAT-CTCTTTAAAAAATTAAAGAG-GATTATTTAAGGTATTTTTGGAC
* * * * * * * * *
14252169 AAAAATGCCTTAAATTATCCCTTAATTTTTTTAAAGGGTTAATATTTAAGGCATTTTGGGATAAA
1 AAAAATGACTTAAATAATCCCCTCATATTGTTAAAGGG-CATTATTTAAGGCATTTTTGGATAAA
* * * * * *
14252234 AATGCCATAAATAATATCCTTTAAAAGAATTTATGA-TATTATTTAAAGTATTTTTGGAC
65 AATG-CTTAAATAATCT-CTTTAAAA-AATTAAAGAGGATTATTTAAGGTATTTTTGGAC
* * *
14252293 AAAAATGACTTAAGTAATCCCCTCATATTAGTTAAAGGGCATTGTTTAAAGCATTTTTGGATCAA
1 AAAAATGACTTAAATAATCCCCTCATATT-GTTAAAGGGCATTATTTAAGGCATTTTTGGAT-AA
* *
14252358 AAATGTCTTAAATAATCTCTTTTAAAAAAATAAAGAGGATTATTTAAGGTGTTTTTGG
64 AAATG-CTTAAATAATCTC-TTTAAAAAATTAAAGAGGATTATTTAAGGTATTTTTGG
14252416 TCTAGAAACA
Statistics
Matches: 195, Mismatches: 42, Indels: 19
0.76 0.16 0.07
Matches are distributed among these distances:
123 11 0.06
124 128 0.66
125 56 0.29
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (121 bp):
AAAAATGACTTAAATAATCCCCTCATATTGTTAAAGGGCATTATTTAAGGCATTTTTGGATAAAA
ATGCTTAAATAATCTCTTTAAAAAATTAAAGAGGATTATTTAAGGTATTTTTGGAC
Found at i:14252413 original size:63 final size:64
Alignment explanation
Indices: 14252364--14252500 Score: 170
Period size: 64 Copynumber: 2.2 Consensus size: 64
14252354 TCAAAAATGT
*
14252364 CTTAAATAAT-C-TCTTTTAAAAAAATAAAGAGGATTATTTAAGGTGTTTTTGGTCTAGAAACAC
1 CTTAAATAATACATCTTTTAAAAAAATAAA-AGGATTATTTAAGGTGTTTTTGGTCTAAAAACAC
* * * ** * * *
14252427 CTTAAATAGTACATTTTTTAAAAAAATAAAAGGGTTATTTAAGACGTTTCTAGACTAAAAACAC
1 CTTAAATAATACATCTTTTAAAAAAATAAAAGGATTATTTAAGGTGTTTTTGGTCTAAAAACAC
14252491 CTTAAATAAT
1 CTTAAATAAT
14252501 TTTCATTAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
63 9 0.15
64 37 0.60
65 16 0.26
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (64 bp):
CTTAAATAATACATCTTTTAAAAAAATAAAAGGATTATTTAAGGTGTTTTTGGTCTAAAAACAC
Found at i:14252489 original size:64 final size:65
Alignment explanation
Indices: 14252377--14252498 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 65
14252367 AAATAATCTC
** * * * *
14252377 TTTTAAAAAAATAAAGAGGATTATTTAAGGTGTTTTTGGTCTAGAAACACCTTAAATAGTACATT
1 TTTTAAAAAAATAAAGAGGATTATTTAAGACGTTTCTAGACTAAAAACACCTTAAATAGTACATT
*
14252442 TTTTAAAAAAATAAA-AGGGTTATTTAAGACGTTTCTAGACTAAAAACACCTTAAATA
1 TTTTAAAAAAATAAAGAGGATTATTTAAGACGTTTCTAGACTAAAAACACCTTAAATA
14252499 ATTTTCATTA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
64 35 0.70
65 15 0.30
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.34
Consensus pattern (65 bp):
TTTTAAAAAAATAAAGAGGATTATTTAAGACGTTTCTAGACTAAAAACACCTTAAATAGTACATT
Found at i:14252596 original size:63 final size:61
Alignment explanation
Indices: 14252526--14252887 Score: 295
Period size: 63 Copynumber: 5.8 Consensus size: 61
14252516 CAGGGGATTT
* * * * *
14252526 ATCCAAAAATACCTTAAATAATACCCTTTAAAAATATTTATGGTATTATTTAAGGCATTTTTT
1 ATCCAAAAACACCTTAAATAATGCCCTTTAAAAA-ATTAAAGG-ATTATTTAAGGCATTTTTG
** * * *
14252589 ATCCAAAAACACCTTAAATAATTTCCTTTAAAAAATGAAAAGATTATTTAAGGCAATTTTG
1 ATCCAAAAACACCTTAAATAATGCCCTTTAAAAAATTAAAGGATTATTTAAGGCATTTTTG
* *** * * * * * *
14252650 GTCCTTCAACACTTTAAATAGTCCCCTTTAAAAAATGAGAGGATTATTT-GGGACATTTTTGG
1 ATCCAAAAACACCTTAAATAATGCCCTTTAAAAAATTAAAGGATTATTTAAGG-CATTTTT-G
* * * *
14252712 AT-CAAAAATACCTTAAATAAT-CCATGTTAAAAAAAATTAAAGAATTATTTAAGGTATTTTT-
1 ATCCAAAAACACCTTAAATAATGCCCT-TT--AAAAAATTAAAGGATTATTTAAGGCATTTTTG
* * * * *
14252773 TTACCTAAAAC-GCTTAAATAATGCGCTTTAAAAAAATAAAGGGAATTATTTAAGGCATTTTTGG
1 AT-CCAAAAACACCTTAAATAATGCCCTTTAAAAAATTAAA-GG-ATTATTTAAGGCATTTTT-G
* *
14252837 AT-CAAAAACACCTTAAATAATGCCCTTTAAAAAATATCATGGATTATTTAA
1 ATCCAAAAACACCTTAAATAATGCCCTTTAAAAAAT-TAAAGGATTATTTAA
14252888 AGTGTGTTGT
Statistics
Matches: 234, Mismatches: 50, Indels: 31
0.74 0.16 0.10
Matches are distributed among these distances:
60 15 0.06
61 79 0.34
62 50 0.21
63 85 0.36
64 5 0.02
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (61 bp):
ATCCAAAAACACCTTAAATAATGCCCTTTAAAAAATTAAAGGATTATTTAAGGCATTTTTG
Found at i:14252804 original size:62 final size:63
Alignment explanation
Indices: 14252528--14252887 Score: 260
Period size: 61 Copynumber: 5.8 Consensus size: 63
14252518 GGGGATTTAT
* * * * * * * *
14252528 CCAAAAATACCTTAAATAATACCCTTTAAAAATATTTATGGTATTATTTAAGGCATTTTT-TA
1 CCAAAAACACCTTAAATAATGCCCTTTAAAAAAAATAAAGGAATTATTTAAGGCATTTTTGGA
** * * *
14252590 TCCAAAAACACCTTAAATAATTTCCTTT--AAAAAATGAAAAG-ATTATTTAAGGCAATTTTGGT
1 -CCAAAAACACCTTAAATAATGCCCTTTAAAAAAAAT-AAAGGAATTATTTAAGGCATTTTTGGA
*** * * * * *
14252652 CCTTCAACACTTTAAATAGTCCCCTTT--AAAAAATGAGAGG-ATTATTT-GGGACATTTTTGGA
1 CCAAAAACACCTTAAATAATGCCCTTTAAAAAAAAT-AAAGGAATTATTTAAGG-CATTTTTGGA
* * * * **
14252713 TCAAAAATACCTTAAATAAT-CCATGTTAAAAAAAATTAAA-GAATTATTTAAGGTATTTTTTTA
1 CCAAAAACACCTTAAATAATGCCCT-TTAAAAAAAA-TAAAGGAATTATTTAAGGCATTTTTGGA
* * *
14252776 CCTAAAAC-GCTTAAATAATGCGCTTT-AAAAAAATAAAGGGAATTATTTAAGGCATTTTTGGA
1 CCAAAAACACCTTAAATAATGCCCTTTAAAAAAAATAAA-GGAATTATTTAAGGCATTTTTGGA
* * * *
14252838 TCAAAAACACCTTAAATAATGCCCTTTAAAAAATATCATGG-ATTATTTAA
1 CCAAAAACACCTTAAATAATGCCCTTTAAAAAAAATAAAGGAATTATTTAA
14252888 AGTGTGTTGT
Statistics
Matches: 231, Mismatches: 52, Indels: 29
0.74 0.17 0.09
Matches are distributed among these distances:
60 9 0.04
61 90 0.39
62 50 0.22
63 71 0.31
64 11 0.05
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (63 bp):
CCAAAAACACCTTAAATAATGCCCTTTAAAAAAAATAAAGGAATTATTTAAGGCATTTTTGGA
Found at i:14254028 original size:21 final size:21
Alignment explanation
Indices: 14254004--14254048 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
14253994 GGGTTATGGT
*
14254004 TTTAAGTTTCAGATTTTGGGG
1 TTTAAGTTTCAGATTTTAGGG
* **
14254025 TTTAGGTTTTTGATTTTAGGG
1 TTTAAGTTTCAGATTTTAGGG
14254046 TTT
1 TTT
14254049 GAGGTTAGGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.02, G:0.27, T:0.56
Consensus pattern (21 bp):
TTTAAGTTTCAGATTTTAGGG
Found at i:14254416 original size:23 final size:23
Alignment explanation
Indices: 14254372--14254417 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
14254362 TTATCAATCA
*
14254372 ATTTTTTATATTTATTATATTTT
1 ATTTTTTATATTTATTACATTTT
*
14254395 ATTTTTTAT-TTTTTTAACATTTT
1 ATTTTTTATATTTATT-ACATTTT
14254418 TATCATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (23 bp):
ATTTTTTATATTTATTACATTTT
Found at i:14254435 original size:31 final size:31
Alignment explanation
Indices: 14254373--14254435 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
14254363 TATCAATCAA
* *
14254373 TTTTTTATATTTATTATATTTTATTTTTTAT
1 TTTTTTACATTTATTATATTTTATTTATTAT
14254404 TTTTTTAACATTT-TTATCATTTT-TTTATTAT
1 TTTTTT-ACATTTATTAT-ATTTTATTTATTAT
14254435 T
1 T
14254436 ATTCTCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 18 0.64
32 10 0.36
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (31 bp):
TTTTTTACATTTATTATATTTTATTTATTAT
Found at i:14256015 original size:37 final size:37
Alignment explanation
Indices: 14255943--14256329 Score: 191
Period size: 37 Copynumber: 10.5 Consensus size: 37
14255933 ATGTAGTCCA
* * *
14255943 AAAAGTAAGAAAAT-G-TCGAGACAACATCGCTAGTCG
1 AAAAGTAA-AAAATCGACCGAGACAACACCGCGAGTCG
** * *
14255979 AGCAGTAAAGAATCGACCGAGACAACACTGCGAGTCG
1 AAAAGTAAAAAATCGACCGAGACAACACCGCGAGTCG
* * *
14256016 AAAAGTAAAAAATTGACTGGGACAACACCGCGAGTCG
1 AAAAGTAAAAAATCGACCGAGACAACACCGCGAGTCG
* * * *
14256053 ATAAGTAAATAATC-AACTAGGACAACACCGCGAGTCG
1 AAAAGTAAAAAATCGACCGA-GACAACACCGCGAGTCG
*** * * *
14256090 AAAAGTAAGAAAA-C-AATTAGGATAACACTGCGAGTTG
1 AAAAGTAA-AAAATCGACCGA-GACAACACCGCGAGTCG
* * * * * *
14256127 AGAAGTAAAAAATTGACTGGGATAACACCGCGAGTCT
1 AAAAGTAAAAAATCGACCGAGACAACACCGCGAGTCG
** * **
14256164 AAAAGTAAGAAAAT-GATTGGGACAACACCTTGAGTCG
1 AAAAGTAA-AAAATCGACCGAGACAACACCGCGAGTCG
* * * ***
14256201 ATAAGTAAAGAATCGATC-AGGACAACACCATAAGTCG
1 AAAAGTAAAAAATCGACCGA-GACAACACCGCGAGTCG
* * * * *
14256238 AAAAGTAAAAAAAT-GATCGGGATAACACTGTGAGTC-
1 AAAAGT-AAAAAATCGACCGAGACAACACCGCGAGTCG
* * *
14256274 AAGAAGTAAAAAAAAT-GATCGAGACAACATCACGAGTCG
1 AA-AAGT--AAAAAATCGACCGAGACAACACCGCGAGTCG
* *
14256313 AGAAGTAAAGAATCGAC
1 AAAAGTAAAAAATCGAC
14256330 TACGACAATA
Statistics
Matches: 273, Mismatches: 63, Indels: 29
0.75 0.17 0.08
Matches are distributed among these distances:
35 4 0.01
36 24 0.09
37 200 0.73
38 44 0.16
39 1 0.00
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (37 bp):
AAAAGTAAAAAATCGACCGAGACAACACCGCGAGTCG
Found at i:14256077 original size:74 final size:74
Alignment explanation
Indices: 14255943--14256286 Score: 309
Period size: 74 Copynumber: 4.7 Consensus size: 74
14255933 ATGTAGTCCA
* * * * ** * *
14255943 AAAAGTAAGAAAATG-TCGAGACAACATCGCTAGTCGAGCAGTAAAGAATCGAC-CGAGACAACA
1 AAAAGTAAGAAAATGATTGGGACAACACCGCGAGTCGATAAGTAAAAAATCGACTAG-GACAACA
*
14256006 CTGCGAGTCG
65 CCGCGAGTCG
* * *
14256016 AAAAGTAA-AAAATTGACTGGGACAACACCGCGAGTCGATAAGTAAATAATCAACTAGGACAACA
1 AAAAGTAAGAAAA-TGATTGGGACAACACCGCGAGTCGATAAGTAAAAAATCGACTAGGACAACA
14256080 CCGCGAGTCG
65 CCGCGAGTCG
** * * * * * * * *
14256090 AAAAGTAAGAAAACAATTAGGATAACACTGCGAGTTGAGAAGTAAAAAATTGACTGGGATAACAC
1 AAAAGTAAGAAAATGATTGGGACAACACCGCGAGTCGATAAGTAAAAAATCGACTAGGACAACAC
*
14256155 CGCGAGTCT
66 CGCGAGTCG
** *
14256164 AAAAGTAAGAAAATGATTGGGACAACACCTTGAGTCGATAAGTAAAGAATCGA-TCAGGACAACA
1 AAAAGTAAGAAAATGATTGGGACAACACCGCGAGTCGATAAGTAAAAAATCGACT-AGGACAACA
***
14256228 CCATAAGTCG
65 CCGCGAGTCG
* * * * * * *
14256238 AAAAGTAAAAAAATGATCGGGATAACACTGTGAGTCAAGAAGTAAAAAA
1 AAAAGTAAGAAAATGATTGGGACAACACCGCGAGTCGATAAGTAAAAAA
14256287 AATGATCGAG
Statistics
Matches: 216, Mismatches: 50, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
72 4 0.02
73 11 0.05
74 196 0.91
75 5 0.02
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.16
Consensus pattern (74 bp):
AAAAGTAAGAAAATGATTGGGACAACACCGCGAGTCGATAAGTAAAAAATCGACTAGGACAACAC
CGCGAGTCG
Found at i:14256337 original size:112 final size:111
Alignment explanation
Indices: 14255943--14256395 Score: 319
Period size: 111 Copynumber: 4.1 Consensus size: 111
14255933 ATGTAGTCCA
* * * * * *
14255943 AAAAGTAAGAAAATG-TCGAGACAACATCGCTAGTCGAGCAGTAAAGAATCGACCGA-GACAACA
1 AAAAGTAAAAAAATGATCGAGACAACACCACGAGTCGAGAAGTAAAGAATCGATC-ACGACAACA
**** * * *
14256006 CTGCGAGTCGAAAAGTAAAAAATTGACTGGGACAACACCGCGAGTCG
65 CCATAAGTCGAAAAGTAAAAAAATGACTGGGATAACACCGCGAGTCT
* * * * * * * * * * * *
14256053 ATAAGT-AAATAATCAACTAGGACAACACCGCGAGTCGAAAAGT-AAGAAAACAATTAGGATAAC
1 AAAAGTAAAAAAATGATCGA-GACAACACCACGAGTCGAGAAGTAAAG-AATCGATCACGACAAC
**** * * *
14256116 ACTGCGAGTTGAGAAGTAAAAAATTGACTGGGATAACACCGCGAGTCT
64 ACCATAAGTCGAAAAGTAAAAAAATGACTGGGATAACACCGCGAGTCT
* * * ** * *
14256164 AAAAGTAAGAAAATGATTGGGACAACACCTTGAGTCGATAAGTAAAGAATCGATCAGGACAACAC
1 AAAAGTAAAAAAATGATCGAGACAACACCACGAGTCGAGAAGTAAAGAATCGATCACGACAACAC
* *
14256229 CATAAGTCGAAAAGTAAAAAAATGA-TCGGGATAACACTGTGAGTC-
66 CATAAGTCGAAAAGTAAAAAAATGACT-GGGATAACACCGCGAGTCT
*
14256274 AAGAAGTAAAAAAAATGATCGAGACAACATCACGAGTCGAGAAGTAAAGAATCGA-CTACGACAA
1 AA-AAGT-AAAAAAATGATCGAGACAACACCACGAGTCGAGAAGTAAAGAATCGATC-ACGACAA
* * * * * * * * *
14256338 TACCATGATTCAAAAAATAAGAAAACGACTAGGACAACACCGCGAGTC-
63 CACCATAAGTCGAAAAGTAAAAAAATGACTGGGATAACACCGCGAGTCT
14256386 AATAAGTAAA
1 AA-AAGTAAA
14256396 GAATGATTAA
Statistics
Matches: 269, Mismatches: 63, Indels: 21
0.76 0.18 0.06
Matches are distributed among these distances:
109 5 0.02
110 14 0.05
111 153 0.57
112 96 0.36
113 1 0.00
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (111 bp):
AAAAGTAAAAAAATGATCGAGACAACACCACGAGTCGAGAAGTAAAGAATCGATCACGACAACAC
CATAAGTCGAAAAGTAAAAAAATGACTGGGATAACACCGCGAGTCT
Found at i:14256409 original size:37 final size:35
Alignment explanation
Indices: 14255999--14256410 Score: 200
Period size: 37 Copynumber: 11.1 Consensus size: 35
14255989 AATCGACCGA
* *
14255999 GACAACACTGCGAGTCGAAAAGTAAAAAATTGACTGG
1 GACAACACCGCGAGTC-AAAAGTAAAAAA-TGACTAG
* * *
14256036 GACAACACCGCGAGTCGATAAGTAAATAATCAACTAG
1 GACAACACCGCGAGTC-AAAAGTAAAAAAT-GACTAG
** *
14256073 GACAACACCGCGAGTCGAAAAGTAAGAAAACAATTAG
1 GACAACACCGCGAGTC-AAAAGTAA-AAAATGACTAG
* * * * *
14256110 GATAACACTGCGAGTTGAGAAGTAAAAAATTGACTGG
1 GACAACACCGCGAG-TCAAAAGTAAAAAA-TGACTAG
* * *
14256147 GATAACACCGCGAGTCTAAAAGTAAGAAAATGATTGG
1 GACAACACCGCGAGTC-AAAAGTAA-AAAATGACTAG
** * *
14256184 GACAACACCTTGAGTCGATAAGTAAAGAATCGA-TCAG
1 GACAACACCGCGAGTC-AAAAGTAAAAAAT-GACT-AG
*** *
14256221 GACAACACCATAAGTCGAAAAGTAAAAAAATGA-TCGG
1 GACAACACCGCGAGTC-AAAAGT-AAAAAATGACT-AG
* * * *
14256258 GATAACACTGTGAGTCAAGAAGTAAAAAAAATGA-TCG
1 GACAACACCGCGAGTCAA-AAGT--AAAAAATGACTAG
* * * * *
14256295 AGACAACATCACGAGTCGAGAAGTAAAGAATCGACTAC
1 -GACAACACCGCGAGTC-AAAAGTAAAAAAT-GACTAG
* ** * * *
14256333 GACAATACCATGATTCAAAAAATAAGAAAACGACTAG
1 GACAACACCGCGAGTC-AAAAGTAA-AAAATGACTAG
* *
14256370 GACAACACCGCGAGTCAATAAGTAAAGAATGATTAAG
1 GACAACACCGCGAGTCAA-AAGTAAAAAATGACT-AG
14256407 GACA
1 GACA
14256411 CACGAAGATC
Statistics
Matches: 292, Mismatches: 65, Indels: 36
0.74 0.17 0.09
Matches are distributed among these distances:
36 27 0.09
37 220 0.75
38 44 0.15
39 1 0.00
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (35 bp):
GACAACACCGCGAGTCAAAAGTAAAAAATGACTAG
Found at i:14256841 original size:33 final size:33
Alignment explanation
Indices: 14256616--14256838 Score: 166
Period size: 33 Copynumber: 6.7 Consensus size: 33
14256606 AAATTTACTA
* *
14256616 AAGGCCAGATAAATTGGGCTTAAACCTTACTTTG
1 AAGGCCAGATAAACTGGGCTTAAAACTT-CTTTG
* * * * * *
14256650 AAGGCCA-ACTATATTAGGCTTAAATCTTTTTTT
1 AAGGCCAGA-TAAACTGGGCTTAAAACTTCTTTG
* * *
14256683 AGGGCCAGATAAACTAGGCTTAAAACATCGTTTG
1 AAGGCCAGATAAACTGGGCTTAAAACTTC-TTTG
* * *
14256717 -GGGCCAGATAAACTAGGCTTAAAACTT-TTTT
1 AAGGCCAGATAAACTGGGCTTAAAACTTCTTTG
** * * *
14256748 AATGGTTAAATAAACTGGGCCTAAAACTTCATT-
1 AA-GGCCAGATAAACTGGGCTTAAAACTTCTTTG
*
14256781 AATGGCCAGATAAACTGGGCTTAAATCTTCTTTG
1 AA-GGCCAGATAAACTGGGCTTAAAACTTCTTTG
* * *
14256815 AAGGCCAAATAAATTGGGTTTAAA
1 AAGGCCAGATAAACTGGGCTTAAA
14256839 TCTGGGAGCC
Statistics
Matches: 152, Mismatches: 30, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
31 3 0.02
33 118 0.78
34 31 0.20
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (33 bp):
AAGGCCAGATAAACTGGGCTTAAAACTTCTTTG
Found at i:14257058 original size:22 final size:23
Alignment explanation
Indices: 14257030--14257075 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
14257020 TATATTTTTT
14257030 CAACTAATCCAAGCTTA-TGTGC
1 CAACTAATCCAAGCTTATTGTGC
**
14257052 CAACTAATCCGGGCTTATTGTGC
1 CAACTAATCCAAGCTTATTGTGC
14257075 C
1 C
14257076 GGTTAAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (23 bp):
CAACTAATCCAAGCTTATTGTGC
Found at i:14257111 original size:22 final size:23
Alignment explanation
Indices: 14257055--14257119 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 23
14257045 TATGTGCCAA
* *
14257055 CTAATCCGGGCTTATTGTGCCGGT
1 CTAATCTGGGCTTA-TATGCCGGT
* *
14257079 -TAAACTAGGCTTATATGCC-GT
1 CTAATCTGGGCTTATATGCCGGT
*
14257100 CTAATCTGGGCTTGTATGCC
1 CTAATCTGGGCTTATATGCC
14257120 AGCTATACTG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 21 0.64
23 10 0.30
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (23 bp):
CTAATCTGGGCTTATATGCCGGT
Found at i:14258192 original size:37 final size:41
Alignment explanation
Indices: 14258114--14258193 Score: 98
Period size: 40 Copynumber: 2.0 Consensus size: 41
14258104 GCTTTCCACC
*
14258114 CATTTATTTTTTTTTCTTTTTTTTTATTCTTCCTTTCCTTT
1 CATTTATTTTTTTTTCTTTTTTTTTATTCTTCCATTCCTTT
*
14258155 CATTT-TTTCTTTTTT-TTTTTTTTT-TT-TTGCATT-CTTT
1 CATTTATTT-TTTTTTCTTTTTTTTTATTCTTCCATTCCTTT
14258192 CA
1 CA
14258194 CTAAACAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
37 6 0.17
38 5 0.14
39 2 0.06
40 12 0.33
41 11 0.31
ACGTcount: A:0.07, C:0.15, G:0.01, T:0.76
Consensus pattern (41 bp):
CATTTATTTTTTTTTCTTTTTTTTTATTCTTCCATTCCTTT
Found at i:14259355 original size:9 final size:9
Alignment explanation
Indices: 14259336--14259404 Score: 66
Period size: 10 Copynumber: 7.2 Consensus size: 9
14259326 GACTCAAAAC
14259336 TTTCTTTTT
1 TTTCTTTTT
14259345 TTTACTTTTT
1 TTT-CTTTTT
*
14259355 TTCTCTCTTT
1 TT-TCTTTTT
14259365 TTTCTTTTTT
1 TTTC-TTTTT
14259375 TTTCTTTTT
1 TTTCTTTTT
* *
14259384 TTGGCCTTTT
1 TT-TCTTTTT
*
14259394 TTTGTTTTT
1 TTTCTTTTT
14259403 TT
1 TT
14259405 AAAGGCATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 18 0.37
10 30 0.61
11 1 0.02
ACGTcount: A:0.01, C:0.13, G:0.04, T:0.81
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:14259371 original size:19 final size:18
Alignment explanation
Indices: 14259342--14259384 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 18
14259332 AAACTTTCTT
14259342 TTTTTTACTTTTTTTCTCTC
1 TTTTTTACTTTTTTT-T-TC
14259362 TTTTTT-CTTTTTTTTTC
1 TTTTTTACTTTTTTTTTC
14259379 TTTTTT
1 TTTTTT
14259385 TGGCCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.35
18 1 0.04
19 8 0.35
20 6 0.26
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTTACTTTTTTTTTC
Found at i:14261070 original size:4 final size:4
Alignment explanation
Indices: 14261044--14261141 Score: 90
Period size: 4 Copynumber: 24.5 Consensus size: 4
14261034 TGCATTATAT
* * * **
14261044 TGAA TGAA T-ACA TAAA TGGA TGAA TGAA TGAA TGAA TGCA CAAA TGAA
1 TGAA TGAA TGA-A TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGAA
* ** * *
14261092 TGAA TGAA TGAA TGCA CAAA TGAA TGAA TAAA TGAA TGAA TGAG TGAA
1 TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGAA TGAA
14261140 TG
1 TG
14261142 CACAACTGAC
Statistics
Matches: 73, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
3 1 0.01
4 71 0.97
5 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.22, T:0.23
Consensus pattern (4 bp):
TGAA
Found at i:14261077 original size:28 final size:28
Alignment explanation
Indices: 14261044--14261134 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 28
14261034 TGCATTATAT
*
14261044 TGAATGAATACATAAATGGATGAATGAA
1 TGAATGAATACATAAATGAATGAATGAA
* *
14261072 TGAATGAATGCACAAATGAATGAATGAA
1 TGAATGAATACATAAATGAATGAATGAA
* * * * *
14261100 TGAATGCACAAATGAATGAATAAATGAA
1 TGAATGAATACATAAATGAATGAATGAA
14261128 TGAATGA
1 TGAATGA
14261135 GTGAATGCAC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.51, C:0.05, G:0.21, T:0.23
Consensus pattern (28 bp):
TGAATGAATACATAAATGAATGAATGAA
Found at i:14261129 original size:24 final size:24
Alignment explanation
Indices: 14261063--14261129 Score: 125
Period size: 24 Copynumber: 2.8 Consensus size: 24
14261053 ACATAAATGG
14261063 ATGAATGAATGAATGAATGCACAA
1 ATGAATGAATGAATGAATGCACAA
14261087 ATGAATGAATGAATGAATGCACAA
1 ATGAATGAATGAATGAATGCACAA
*
14261111 ATGAATGAATAAATGAATG
1 ATGAATGAATGAATGAATG
14261130 AATGAGTGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.51, C:0.06, G:0.21, T:0.22
Consensus pattern (24 bp):
ATGAATGAATGAATGAATGCACAA
Found at i:14264583 original size:21 final size:21
Alignment explanation
Indices: 14264559--14264599 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14264549 AAGGTTTTGA
*
14264559 GTTTTAGATTTTGGGGTTTAG
1 GTTTTAGATTTTAGGGTTTAG
**
14264580 GTTTTTTATTTTAGGGTTTA
1 GTTTTAGATTTTAGGGTTTA
14264600 AGGTCAAGGG
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:0.15, C:0.00, G:0.27, T:0.59
Consensus pattern (21 bp):
GTTTTAGATTTTAGGGTTTAG
Found at i:14264587 original size:44 final size:44
Alignment explanation
Indices: 14264503--14264585 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
14264493 ATTTTGGACT
* *
14264503 TTAAGGTTTTGAATTTTAGGTGTTTAGGATTTTGGATTTTAGGG
1 TTAAGGTTTTGAATTTTAGATGTTTAGGATTTAGGATTTTAGGG
* * * *
14264547 TTAAGGTTTTGAGTTTTAGAT-TTTGGGGTTTAGGTTTTT
1 TTAAGGTTTTGAATTTTAGATGTTTAGGATTTAGGATTTT
14264586 TATTTTAGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 14 0.42
44 19 0.58
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (44 bp):
TTAAGGTTTTGAATTTTAGATGTTTAGGATTTAGGATTTTAGGG
Found at i:14264591 original size:28 final size:27
Alignment explanation
Indices: 14264530--14264621 Score: 76
Period size: 28 Copynumber: 3.3 Consensus size: 27
14264520 AGGTGTTTAG
*
14264530 GATTTTGGATTTTAGGGTTAAGGTTTT
1 GATTTTAGATTTTAGGGTTAAGGTTTT
* *
14264557 GAGTTTTAGATTTTGGGGTTTAGGTTTTT
1 GA-TTTTAGATTTTAGGGTTAAGG-TTTT
* ** * *
14264586 TATTTTAGGGTTTAAGGTCAAGGGTTTT
1 GATTTTAGATTTTAGGGTTAA-GGTTTT
*
14264614 GGTTTTAG
1 GATTTTAG
14264622 GGTTTGAAAG
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
27 2 0.04
28 41 0.82
29 7 0.14
ACGTcount: A:0.17, C:0.01, G:0.30, T:0.51
Consensus pattern (27 bp):
GATTTTAGATTTTAGGGTTAAGGTTTT
Found at i:14264833 original size:3 final size:3
Alignment explanation
Indices: 14264827--14264857 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
14264817 ATCAATTTAT
14264827 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
14264858 AATTTCTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14266497 original size:63 final size:62
Alignment explanation
Indices: 14266426--14266549 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 62
14266416 AAATAAATGG
14266426 GATTATTTAAG-GCATTTTCCATTTAG-AAATGCCTTAAATAAACCATTTATAAAAATATAAAAT
1 GATTATTTAAGTG-ATTTT-CATTT-GCAAATGCCTTAAATAAACCATTTATAAAAATATAAAAT
* * ** *
14266489 GATTATTTAAGTTGGTTTTCATTTGCAAATGCCTTAAATAATCTTTTTATTAAAATATAAA
1 GATTATTTAAG-TGATTTTCATTTGCAAATGCCTTAAATAAACCATTTATAAAAATATAAA
14266550 TGGATCATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
62 1 0.02
63 47 0.89
64 4 0.08
65 1 0.02
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (62 bp):
GATTATTTAAGTGATTTTCATTTGCAAATGCCTTAAATAAACCATTTATAAAAATATAAAAT
Found at i:14266589 original size:62 final size:63
Alignment explanation
Indices: 14266452--14266602 Score: 168
Period size: 63 Copynumber: 2.4 Consensus size: 63
14266442 TTCCATTTAG
* ** * * *
14266452 AAATGCCTTAAATAAACCATTTATAAAAATATAAAATGATTATTTAAGTTGGTTTTCATTTGC
1 AAATGCCTTAAATAATCTTTTTATAAAAATATAAAATGATCATATAAGATGGTTTTCATTTGC
*
14266515 AAATGCCTTAAATAATCTTTTTATTAAAATAT-AAATGGATCATATAAGAT-G-TTTC-TTTAAG
1 AAATGCCTTAAATAATCTTTTTATAAAAATATAAAAT-GATCATATAAGATGGTTTTCATTT--G
14266576 C
63 C
*
14266577 AAATGCCTTAAATGATCTTTTT-TAAA
1 AAATGCCTTAAATAATCTTTTTATAAA
14266603 GGTTCATTCC
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
60 3 0.04
61 7 0.09
62 28 0.37
63 38 0.50
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Consensus pattern (63 bp):
AAATGCCTTAAATAATCTTTTTATAAAAATATAAAATGATCATATAAGATGGTTTTCATTTGC
Found at i:14268736 original size:21 final size:21
Alignment explanation
Indices: 14268692--14268736 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
14268682 ATTCACTTAA
* *
14268692 TATTTATTTGTATTTTATATT
1 TATTGATTTGTATTTTATACT
14268713 TATTGATTTG-ATTTTAATACT
1 TATTGATTTGTATTTT-ATACT
14268734 TAT
1 TAT
14268737 ATTTCATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (21 bp):
TATTGATTTGTATTTTATACT
Found at i:14274429 original size:265 final size:268
Alignment explanation
Indices: 14273926--14274459 Score: 758
Period size: 265 Copynumber: 2.0 Consensus size: 268
14273916 CCTTAAATGA
** * *
14273926 TGGATTGCAATAAAACAAACAAAATATTTAATGATCATTTAAGGTGTTTCTTAATGCCAAATGCC
1 TGGATTGCAATAAAACAAACAAAATATTTAATGATCATTTAAGGCATATCTTAATACCAAATGCC
*
14273991 ATTAATTGCAATAAAAAAAAATTTTTAGTGGAGAAAACATACAACTGAGTTGCAATCACTTCCAC
66 ATTAATTACAATAAAAAAAAATTTTTAGTGGAGAAAACATACAACTGAGTTGCAATCACTTCCAC
* *
14274056 ACATTTTTTTCAAAAGGGTAATAACTATTTCATAATTTTTTATTCAAGTCAAATTTGAAAATAAC
131 ACATGTTTTTCAAAAGGGTAATAACTATTTCATAATTTTTTATTCAAGTCAAATTTAAAAATAAC
* * *
14274121 TTAACTTTTTCCTCCAGAATCCTTAAATGTCACAAGTAGATATGGGTTTTTGATTCCAAGACTTT
196 ATAACTTTTTCCTCCAGAATCCTTAAATATCACAAGTAGATATGGG-TTTTAATTCCAAGACTTT
14274186 GAGTACTAT
260 GAGTACTAT
**
14274195 TGGATTGCAATAAAACAAATGAAATATTTAATGATCATTTAAGGCATATCTTAATACCAAATGCC
1 TGGATTGCAATAAAACAAACAAAATATTTAATGATCATTTAAGGCATATCTTAATACCAAATGCC
* * * *
14274260 ATTAATTACAATAAAAAAAAGTTTTTTAGT-G-G-AAA-A-ACAATTGAGTTGTAGTCACTTCCA
66 ATTAATTACAATAAAAAAAA-ATTTTTAGTGGAGAAAACATACAACTGAGTTGCAATCACTTCCA
* * * *
14274320 TACATGTTTTTCAAAAGGGTAATGACTATTTTATAATTTTTTATTCAAGTTAAATTTAAAAATAA
130 CACATGTTTTTCAAAAGGGTAATAACTATTTCATAATTTTTTATTCAAGTCAAATTTAAAAATAA
* * * *
14274385 CATAACTTTTTCTTCTAGAAT-CTTAAAATATCATAGAG-AGATATGGGTTTTAATTCCGAGACT
195 CATAACTTTTTCCTCCAGAATCCTT-AAATATCACA-AGTAGATATGGGTTTTAATTCCAAGACT
*
14274448 TTGAGTATTAT
258 TTGAGTACTAT
14274459 T
1 T
14274460 AAAAATTTAT
Statistics
Matches: 237, Mismatches: 25, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
264 28 0.12
265 115 0.49
266 3 0.01
267 3 0.01
268 1 0.00
269 79 0.33
270 8 0.03
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.37
Consensus pattern (268 bp):
TGGATTGCAATAAAACAAACAAAATATTTAATGATCATTTAAGGCATATCTTAATACCAAATGCC
ATTAATTACAATAAAAAAAAATTTTTAGTGGAGAAAACATACAACTGAGTTGCAATCACTTCCAC
ACATGTTTTTCAAAAGGGTAATAACTATTTCATAATTTTTTATTCAAGTCAAATTTAAAAATAAC
ATAACTTTTTCCTCCAGAATCCTTAAATATCACAAGTAGATATGGGTTTTAATTCCAAGACTTTG
AGTACTAT
Found at i:14276427 original size:31 final size:32
Alignment explanation
Indices: 14276391--14276461 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
14276381 ACTTTACCTA
*
14276391 AAAGAGTCTTAATTCAACCAAAACTCT-GTCC
1 AAAGAGTCTTAATCCAACCAAAACTCTCGTCC
* * * * *
14276422 TAAGAGTTTTAGTCCAACCAGACCTCTCGTCC
1 AAAGAGTCTTAATCCAACCAAAACTCTCGTCC
14276454 AAAGAGTC
1 AAAGAGTC
14276462 CTAAAGCTCT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
31 21 0.68
32 10 0.32
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (32 bp):
AAAGAGTCTTAATCCAACCAAAACTCTCGTCC
Found at i:14276512 original size:32 final size:32
Alignment explanation
Indices: 14276476--14276576 Score: 127
Period size: 30 Copynumber: 3.2 Consensus size: 32
14276466 AGCTCTCTTG
* *
14276476 AAGAGTTCCATTTTCACCAAAACTCTATCTAA
1 AAGAGTCCCAATTTCACCAAAACTCTATCTAA
*
14276508 AAGAGTCCCAATTTCACCAAAACTCTAT-T-G
1 AAGAGTCCCAATTTCACCAAAACTCTATCTAA
* *
14276538 AAGAGTCCCAATTCCACCAAAATTCTATC-AA
1 AAGAGTCCCAATTTCACCAAAACTCTATCTAA
*
14276569 AAAAGTCC
1 AAGAGTCC
14276577 TTTTTACATA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
30 26 0.43
31 8 0.13
32 26 0.43
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.26
Consensus pattern (32 bp):
AAGAGTCCCAATTTCACCAAAACTCTATCTAA
Found at i:14284523 original size:29 final size:29
Alignment explanation
Indices: 14284474--14284534 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
14284464 TTAACTTCTC
* * *
14284474 AAAACAAATAAATATAATTAAATTATATA
1 AAAACAAATAAAAAAAATTAAATGATATA
*
14284503 AAAACAAA-AAAAAAAAGTTAAATGATTTA
1 AAAACAAATAAAAAAAA-TTAAATGATATA
14284532 AAA
1 AAA
14284535 GTAATATACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (29 bp):
AAAACAAATAAAAAAAATTAAATGATATA
Found at i:14288259 original size:2 final size:2
Alignment explanation
Indices: 14288247--14288280 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
14288237 CACTAAAACA
14288247 AT AT A- AT AT 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 AT AT A
14288281 CATGCAAGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14289994 original size:21 final size:20
Alignment explanation
Indices: 14289970--14290010 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14289960 TAAAAAAATC
* *
14289970 TTTAAAACTTTTAATTAAAAA
1 TTTAAAA-TTTAAAATAAAAA
14289991 TTTAAAATTTAAAATAAAAA
1 TTTAAAATTTAAAATAAAAA
14290011 GTGACACTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
TTTAAAATTTAAAATAAAAA
Found at i:14290512 original size:1 final size:1
Alignment explanation
Indices: 14290502--14290532 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
14290492 TGATTAAATT
*
14290502 AAAAACAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14290533 GAGAACCGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:14291074 original size:2 final size:2
Alignment explanation
Indices: 14291067--14291128 Score: 72
Period size: 2 Copynumber: 31.0 Consensus size: 2
14291057 TACCTAAGTT
* * * *
14291067 TA TA TA TA TA TA TA TA TA TA TA TA TG TG TG TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14291109 TA TA TA TA TA -A CTA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA
14291129 ACTATGCCGG
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
1 1 0.02
2 54 0.96
3 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (2 bp):
TA
Found at i:14291129 original size:10 final size:10
Alignment explanation
Indices: 14291101--14291133 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
14291091 TGTGTGTGTA
14291101 TATATATATA-
1 TATATATA-AC
14291111 TATATATAAC
1 TATATATAAC
14291121 TATATATAAC
1 TATATATAAC
14291131 TAT
1 TAT
14291134 GCCGGTGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 1 0.05
10 21 0.95
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (10 bp):
TATATATAAC
Found at i:14308954 original size:3 final size:3
Alignment explanation
Indices: 14308946--14308982 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14308936 GATTTCAATT
14308946 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
14308983 GTTTACACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:14311391 original size:76 final size:76
Alignment explanation
Indices: 14311265--14311415 Score: 239
Period size: 76 Copynumber: 2.0 Consensus size: 76
14311255 AAATATGATG
* * * * *
14311265 GATTAGATAAAATAACAAACCTTTGAAAACAATAGATAGCAGGTAAATTGATTAGATGAATCTAT
1 GATTAGATAAAAAAACAAACCTTAGAAAACAATAAATAACAAGTAAATTGATTAGATGAATCTAT
14311330 AACAAAAGTAT
66 AACAAAAGTAT
* *
14311341 GATTAGATAAAAAAACAAACCTTAGAACACAATAAATAATAAGTAAATTGATTAGATGAATCTAT
1 GATTAGATAAAAAAACAAACCTTAGAAAACAATAAATAACAAGTAAATTGATTAGATGAATCTAT
14311406 AACAAAAGTA
66 AACAAAAGTA
14311416 CAATAGTTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 68 1.00
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.25
Consensus pattern (76 bp):
GATTAGATAAAAAAACAAACCTTAGAAAACAATAAATAACAAGTAAATTGATTAGATGAATCTAT
AACAAAAGTAT
Found at i:14312833 original size:11 final size:11
Alignment explanation
Indices: 14312819--14312854 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
14312809 GAAGAGGAAA
14312819 AGAAAAAAAAG
1 AGAAAAAAAAG
14312830 AGAAAGAAAAAG
1 AGAAA-AAAAAG
*
14312842 AAAAAAAAAAG
1 AGAAAAAAAAG
14312853 AG
1 AG
14312855 CTTAATAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAG
Found at i:14312850 original size:22 final size:22
Alignment explanation
Indices: 14312807--14312849 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
14312797 TAGATATTAG
*
14312807 GAGAAGAGGAAAAGAAAAAAAA
1 GAGAAGAGAAAAAGAAAAAAAA
14312829 GAGAA-AGAAAAAGAAAAAAAA
1 GAGAAGAGAAAAAGAAAAAAAA
14312850 AAGAGCTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (22 bp):
GAGAAGAGAAAAAGAAAAAAAA
Found at i:14313652 original size:8 final size:8
Alignment explanation
Indices: 14313641--14313693 Score: 72
Period size: 8 Copynumber: 6.6 Consensus size: 8
14313631 TTTTTTTTTT
14313641 TTTTTAAA
1 TTTTTAAA
14313649 TTTTTTAAA
1 -TTTTTAAA
14313658 TTTTTAAA
1 TTTTTAAA
14313666 TTTTTAAA
1 TTTTTAAA
*
14313674 ATTTT-AA
1 TTTTTAAA
*
14313681 TTTTTTAA
1 TTTTTAAA
14313689 TTTTT
1 TTTTT
14313694 TGGTATTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
7 6 0.15
8 27 0.66
9 8 0.20
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
TTTTTAAA
Found at i:14313671 original size:16 final size:16
Alignment explanation
Indices: 14313641--14313693 Score: 72
Period size: 15 Copynumber: 3.3 Consensus size: 16
14313631 TTTTTTTTTT
14313641 TTTTTAAATTTTTTAAA
1 TTTTTAAA-TTTTTAAA
14313658 TTTTTAAATTTTTAAA
1 TTTTTAAATTTTTAAA
* *
14313674 ATTTT-AATTTTTTAA
1 TTTTTAAATTTTTAAA
14313689 TTTTT
1 TTTTT
14313694 TGGTATTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
15 13 0.39
16 12 0.36
17 8 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTAAATTTTTAAA
Found at i:14313694 original size:8 final size:8
Alignment explanation
Indices: 14313640--14313708 Score: 66
Period size: 8 Copynumber: 8.5 Consensus size: 8
14313630 TTTTTTTTTT
14313640 TTTTTTAAA
1 TTTTTT-AA
14313649 TTTTTTAA
1 TTTTTTAA
*
14313657 ATTTTTAA
1 TTTTTTAA
*
14313665 ATTTTTAA
1 TTTTTTAA
**
14313673 AATTTTAA
1 TTTTTTAA
14313681 TTTTTTAA
1 TTTTTTAA
**
14313689 TTTTTTGG
1 TTTTTTAA
*
14313697 TATTTTAA
1 TTTTTTAA
14313705 TTTT
1 TTTT
14313709 AAAAAATTTA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
8 44 0.88
9 6 0.12
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (8 bp):
TTTTTTAA
Found at i:14313744 original size:20 final size:20
Alignment explanation
Indices: 14313697--14313744 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
14313687 AATTTTTTGG
14313697 TATTTTAATTTTAAAAAATT
1 TATTTTAATTTTAAAAAATT
** *
14313717 TAGATTAATTTTAATTAAATT
1 TATTTTAATTTTAA-AAAATT
14313738 T-TTTTAA
1 TATTTTAA
14313745 AATTATTTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTTTAATTTTAAAAAATT
Found at i:14314340 original size:2 final size:2
Alignment explanation
Indices: 14314333--14314367 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
14314323 AGACAGAAAA
*
14314333 AG AG AG AG AG AG AG AG AA AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
14314368 TATTAAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14314352 original size:18 final size:18
Alignment explanation
Indices: 14314321--14314367 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
14314311 TTAGTGATGA
* *
14314321 AGAGACAGAAAAAGAGAG
1 AGAGAGAGAGAAAGAGAG
14314339 AGAGAGAGAGAAAGAGAG
1 AGAGAGAGAGAAAGAGAG
14314357 AGAGAGAGAGA
1 AGAGAGAGAGA
14314368 TATTAAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.57, C:0.02, G:0.40, T:0.00
Consensus pattern (18 bp):
AGAGAGAGAGAAAGAGAG
Found at i:14316042 original size:35 final size:35
Alignment explanation
Indices: 14316002--14316068 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
14315992 GTTTAGGTTT
14316002 AGGTTTAAGGTTTCATGGTTGGTTTAAGGTTTGGG
1 AGGTTTAAGGTTTCATGGTTGGTTTAAGGTTTGGG
* * *
14316037 AGGTTTAGGGTTTTATGGTTGGTTTAGGGTTT
1 AGGTTTAAGGTTTCATGGTTGGTTTAAGGTTT
14316069 TATGATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.15, C:0.01, G:0.37, T:0.46
Consensus pattern (35 bp):
AGGTTTAAGGTTTCATGGTTGGTTTAAGGTTTGGG
Found at i:14316062 original size:19 final size:19
Alignment explanation
Indices: 14316003--14316072 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
14315993 TTTAGGTTTA
*
14316003 GGTTTAAGGTTTCATGGTT
1 GGTTTAAGGTTTTATGGTT
**
14316022 GGTTTAAGG--TT-TGGGA
1 GGTTTAAGGTTTTATGGTT
*
14316038 GGTTTAGGGTTTTATGGTT
1 GGTTTAAGGTTTTATGGTT
*
14316057 GGTTTAGGGTTTTATG
1 GGTTTAAGGTTTTATG
14316073 ATAAATGTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
16 11 0.26
17 1 0.02
18 2 0.05
19 28 0.67
ACGTcount: A:0.14, C:0.01, G:0.37, T:0.47
Consensus pattern (19 bp):
GGTTTAAGGTTTTATGGTT
Found at i:14324882 original size:27 final size:27
Alignment explanation
Indices: 14324844--14324917 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
14324834 TTTTATCATA
*
14324844 AAATAAAATAATAAAATTTATGTGCAT
1 AAATATAATAATAAAATTTATGTGCAT
* *
14324871 AAATATAATAATCAAATTAATGTGCAT
1 AAATATAATAATAAAATTTATGTGCAT
14324898 AAATAT--TAATTAAAATTTAT
1 AAATATAATAA-TAAAATTTAT
14324918 TTATGCAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 3 0.07
26 8 0.20
27 30 0.73
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.36
Consensus pattern (27 bp):
AAATATAATAATAAAATTTATGTGCAT
Found at i:14332679 original size:32 final size:32
Alignment explanation
Indices: 14332643--14332709 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
14332633 AATATCTAAG
* * *
14332643 ACTTAGTGGCATTTGAAGGATGATTTCTTCAT
1 ACTTAATGACATTTGAAGGATAATTTCTTCAT
14332675 ACTTAATGACATTTGAAGGATAATTTCTTCAT
1 ACTTAATGACATTTGAAGGATAATTTCTTCAT
14332707 ACT
1 ACT
14332710 CAAAAGTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.40
Consensus pattern (32 bp):
ACTTAATGACATTTGAAGGATAATTTCTTCAT
Found at i:14337684 original size:10 final size:10
Alignment explanation
Indices: 14337657--14337694 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
14337647 AACAAACATT
*
14337657 TTTAATAAAA
1 TTTATTAAAA
14337667 -TT-TTAAAA
1 TTTATTAAAA
14337675 TTTATTAAAA
1 TTTATTAAAA
14337685 TTTATTAAAA
1 TTTATTAAAA
14337695 AGATATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
8 5 0.20
9 4 0.16
10 16 0.64
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTATTAAAA
Found at i:14340516 original size:144 final size:145
Alignment explanation
Indices: 14340226--14340567 Score: 379
Period size: 144 Copynumber: 2.4 Consensus size: 145
14340216 CTAAAGCATT
* * ** *
14340226 AAAATAATGAAATATTGTAAAATTAAAATCTGAAAAGTTTCATGAAAATCCGAGGTTGTGAAGGT
1 AAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTCATGAAAATCCGAACTTGGGAAGGT
* * * *
14340291 GAAATTACGAAAATACCCTTATAAGGTATTTTAGTAATTTCACATTTTTTAAGGTATTGCTATGA
66 GAAATTACAAAAATACCCTTATAAGGTATTTCAGTAATTTCACATCTTTTAAGGTATGGCTATGA
*
14340356 TTTCAAATGTACC-A
131 TTTCAAATGCACCAA
* * * * *
14340370 AAAATCATGAAATATTATGAAATTAAGATCTGAAAAGTTTGATGAAGATTCGAACTTGGGAAGG-
1 AAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTCATGAAAATCCGAACTTGGGAAGGT
* * * * * **
14340434 GTAAATTATAAAAATA-CCTTTTATGGGTATTTCGGTAAATTTTACA-CTTTTCGGTGTATGGCT
66 G-AAATTACAAAAATACCCTTATA-AGGTATTTCAGT-AATTTCACATCTTTTAAG-GTATGGCT
14340497 ATGATTTCAAATGCA-CAA
127 ATGATTTCAAATGCACCAA
* * * *
14340515 AAAATCATGAAATATTATTAAATTAATATATGAAAAATTTCATGAAAATCCGA
1 AAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTCATGAAAATCCGA
14340568 GCTTAAGAAA
Statistics
Matches: 164, Mismatches: 29, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
143 7 0.04
144 81 0.49
145 76 0.46
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.34
Consensus pattern (145 bp):
AAAATCATGAAATATTATAAAATTAAAATCTGAAAAGTTTCATGAAAATCCGAACTTGGGAAGGT
GAAATTACAAAAATACCCTTATAAGGTATTTCAGTAATTTCACATCTTTTAAGGTATGGCTATGA
TTTCAAATGCACCAA
Done.