Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 19 of 297
Found at i:6258863 original size:46 final size:46
Alignment explanation
Indices: 6258813--6259169 Score: 285
Period size: 46 Copynumber: 7.8 Consensus size: 46
6258803 TGGTTGAGCA
6258813 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** *
6258859 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GGGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
6258904 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
6258952 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG--GCGGGT-
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
6258995 TAC-ATGA-TTGCTTGA-TTGCA-T-CGAGTTCACTTATGGATGCGAATG
1 TCCGA--ACTCG-TTGAGTTG-AGTCCGAGTTCACTTATGGATGCGAATG
* **** * * *
6259040 TCCGAACTCGTTGAGTTGCGTCCGAGTTCGGGAGATGTAACTGGGCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-TGCGAATG
*
6259087 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
6259133 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6259170 GCGGGTTACA
Statistics
Matches: 242, Mismatches: 41, Indels: 56
0.71 0.12 0.17
Matches are distributed among these distances:
42 17 0.07
43 11 0.05
44 22 0.09
45 13 0.05
46 106 0.44
47 60 0.25
48 3 0.01
49 4 0.02
50 4 0.02
51 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:6258969 original size:93 final size:93
Alignment explanation
Indices: 6258810--6259162 Score: 458
Period size: 93 Copynumber: 3.8 Consensus size: 93
6258800 GGATGGTTGA
*
6258810 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
*
6258875 TGAGTCCGAGTTCGGGAGATGTAACTAG
66 TGAGTCCGAGTTCGGGAGATGTAACTGG
*
6258903 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*** **
6258967 TTGAGTCCGAGTTC-GCTTATG-GGC-GG
65 TTGAGTCCGAGTTCGGGAGATGTAACTGG
* *
6258993 GTTACAT--G-A-TTGCTTGA-TTGCA-T-CGAGTTCACTTATGGATGCGAATGTCCGAACTCGT
1 G---CATCCGAACTCG-TTGAGTTG-AGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGT
*
6259051 TGAGTTGCGTCCGAGTTCGGGAGATGTAACTGG
61 TGAGTTGAGTCCGAGTTCGGGAGATGTAACTGG
* *
6259084 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
6259149 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
6259163 CTTATGGGCG
Statistics
Matches: 221, Mismatches: 22, Indels: 34
0.80 0.08 0.12
Matches are distributed among these distances:
88 50 0.23
89 12 0.05
90 10 0.05
91 11 0.05
92 12 0.05
93 126 0.57
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGGGAGATGTAACTGG
Found at i:6259050 original size:88 final size:88
Alignment explanation
Indices: 6258926--6259196 Score: 311
Period size: 93 Copynumber: 3.0 Consensus size: 88
6258916 TTGAGTTGAG
6258926 TCCGAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGGC
1 TCCGAGTTCACTTATGGATGCGAACGCC-GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGGC
6258991 GGGTTACATGATTGCTTGATTGCA
65 GGGTTACATGATTGCTTGATTGCA
* * * *** *
6259015 T-CGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGCGTCCGAGTTCGGGAGATGTA
1 TCCGAGTTCACTTATGGATGCGAACG-CCGAGCTCGTTGAGTTGAGTCCGAGTTC-GCTTATG-G
* *
6259079 ACTGGG---CATCCGAACT-CGTTGAGTTG-A
63 GC-GGGTTACAT--G-ATTGC-TTGA-TTGCA
6259106 GTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGG
1 -TCCGAGTTCACTTATGGATGCGAACG-CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGG
6259171 CGGGTTACATGATTGCTTGATTGCA
64 CGGGTTACATGATTGCTTGATTGCA
6259196 T
1 T
6259197 ATATGGCACT
Statistics
Matches: 147, Mismatches: 19, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
88 50 0.34
89 11 0.07
90 13 0.09
91 13 0.09
92 8 0.05
93 52 0.35
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (88 bp):
TCCGAGTTCACTTATGGATGCGAACGCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGGCG
GGTTACATGATTGCTTGATTGCA
Found at i:6259142 original size:181 final size:181
Alignment explanation
Indices: 6258835--6259196 Score: 697
Period size: 181 Copynumber: 2.0 Consensus size: 181
6258825 GAGTTGAGTC
6258835 CGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGGGAGATGTAAC
1 CGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGGGAGATGTAAC
*
6258900 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTG
66 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTG
6258965 AGTTGAGTCCGAGTTCGCTTATGGGCGGGTTACATGATTGCTTGATTGCAT
131 AGTTGAGTCCGAGTTCGCTTATGGGCGGGTTACATGATTGCTTGATTGCAT
*
6259016 CGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGCGTCCGAGTTCGGGAGATGTAAC
1 CGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGGGAGATGTAAC
*
6259081 TGGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTG
66 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTG
6259146 AGTTGAGTCCGAGTTCGCTTATGGGCGGGTTACATGATTGCTTGATTGCAT
131 AGTTGAGTCCGAGTTCGCTTATGGGCGGGTTACATGATTGCTTGATTGCAT
6259197 ATATGGCACT
Statistics
Matches: 178, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
181 178 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.30
Consensus pattern (181 bp):
CGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGGGAGATGTAAC
TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTG
AGTTGAGTCCGAGTTCGCTTATGGGCGGGTTACATGATTGCTTGATTGCAT
Found at i:6261555 original size:43 final size:42
Alignment explanation
Indices: 6261486--6261571 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 42
6261476 AATCTCAGAA
6261486 TACTTCTGCAGCCAGTGTAGGGAACTCGAGATTTGTTAAACC
1 TACTTCTGCAGCCAGTGTAGGGAACTCGAGATTTGTTAAACC
*
6261528 NTACTTCTGCAGCTAGTGT-GGGAAACTCGAGATTTGTTAAACC
1 -TACTTCTGCAGCCAGTGTAGGG-AACTCGAGATTTGTTAAACC
6261571 T
1 T
6261572 GAGTGCCAGC
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
42 4 0.10
43 37 0.90
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.30
Consensus pattern (42 bp):
TACTTCTGCAGCCAGTGTAGGGAACTCGAGATTTGTTAAACC
Found at i:6266533 original size:46 final size:46
Alignment explanation
Indices: 6266483--6266658 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
6266473 TGGTTGAGCA
6266483 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
6266529 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
6266574 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
6266622 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6266659 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:6266639 original size:93 final size:93
Alignment explanation
Indices: 6266480--6266651 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
6266470 GGATGGTTGA
* *
6266480 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
6266545 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
6266573 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
6266638 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
6266652 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:6272953 original size:97 final size:97
Alignment explanation
Indices: 6272782--6272971 Score: 290
Period size: 97 Copynumber: 2.0 Consensus size: 97
6272772 GTAATATCCA
* * ** *
6272782 GAATTAGGGCTTAACCGGAATAGTGGTTTTGTGACCAAAAATCCGAGATAGAAATAATTATTTTA
1 GAATTAGGGCTTAACCAGAATACTGGTTTCATGACCAAAAATCCGAGATAGAAATAATTACTTTA
* *
6272847 TAATTATTTTGATGATTATGATATGATTTCCT
66 CAATGATTTTGATGATTATGATATGATTTCCT
* *
6272879 GAATTAGGGCTTAATCAGAATACTGGTTTCATGACCAAAAATCTGAGATAGAAATAATTACTTTA
1 GAATTAGGGCTTAACCAGAATACTGGTTTCATGACCAAAAATCCGAGATAGAAATAATTACTTTA
*
6272944 CAATGATTTTGATGTTTATGATATGATT
66 CAATGATTTTGATGATTATGATATGATT
6272972 GCATGATTGT
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
97 83 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.37
Consensus pattern (97 bp):
GAATTAGGGCTTAACCAGAATACTGGTTTCATGACCAAAAATCCGAGATAGAAATAATTACTTTA
CAATGATTTTGATGATTATGATATGATTTCCT
Found at i:6273725 original size:30 final size:30
Alignment explanation
Indices: 6273679--6273739 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
6273669 ATCCCGAGCC
6273679 TAGGGGCAAAAATGTAAATATGCAAAAATT
1 TAGGGGCAAAAATGTAAATATGCAAAAATT
* * * * *
6273709 TAGGGGTAAAATTGTAATTTTGCCAAAATT
1 TAGGGGCAAAAATGTAAATATGCAAAAATT
6273739 T
1 T
6273740 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATGCAAAAATT
Found at i:6274207 original size:46 final size:46
Alignment explanation
Indices: 6274157--6274332 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
6274147 TGGTTGAGCA
6274157 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
6274203 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
6274248 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
6274296 -CTCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6274333 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 60 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:6274313 original size:93 final size:93
Alignment explanation
Indices: 6274154--6274325 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
6274144 GGATGGTTGA
*
6274154 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
6274219 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
6274247 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCATTGAG
*
6274311 TTGAGTCTGAGTTCG
65 TTGAGTCCGAGTTCG
6274326 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:6277444 original size:27 final size:27
Alignment explanation
Indices: 6277371--6277444 Score: 64
Period size: 27 Copynumber: 2.8 Consensus size: 27
6277361 AAATGAAAAT
* *
6277371 TTATTATAAAATTA-ATTA-AAATTAA
1 TTATTTTATAATTATATTATAAATTAA
* * *
6277396 ATATTTTGATAATT-TGAGTATAATTTAA
1 TTATTTT-ATAATTAT-ATTATAAATTAA
6277424 TTATTTTATAATTATATTATA
1 TTATTTTATAATTATATTATA
6277445 TTTTTTGACA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
25 5 0.14
26 5 0.14
27 14 0.38
28 13 0.35
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (27 bp):
TTATTTTATAATTATATTATAAATTAA
Found at i:6280513 original size:17 final size:17
Alignment explanation
Indices: 6280488--6280520 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6280478 ATAACAATCG
*
6280488 CATATATATTCATATTT
1 CATACATATTCATATTT
6280505 CATACATATTCATATT
1 CATACATATTCATATT
6280521 ATATGGCCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
CATACATATTCATATTT
Found at i:6283935 original size:27 final size:26
Alignment explanation
Indices: 6283897--6283956 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
6283887 CCACATATAT
* *
6283897 ATATATGTTCTGGTGGCTTAGGCACA
1 ATATCTGTTCTGGTGACTTAGGCACA
* *
6283923 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACTTAGGCACA
6283950 ATATCTG
1 ATATCTG
6283957 GCAGCCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACTTAGGCACA
Found at i:6285036 original size:12 final size:13
Alignment explanation
Indices: 6285002--6285041 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
6284992 ATTTTTTAAG
6285002 TAGTTTATTGATA
1 TAGTTTATTGATA
6285015 TAGTCATTATT-ATA
1 TAGT--TTATTGATA
6285029 TAGTTTATTGATA
1 TAGTTTATTGATA
6285042 AAAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.21
13 7 0.29
14 7 0.29
15 5 0.21
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.53
Consensus pattern (13 bp):
TAGTTTATTGATA
Found at i:6297455 original size:20 final size:20
Alignment explanation
Indices: 6297440--6297477 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6297430 AATCAGCTCA
*
6297440 CTTGAGCTTATTTCAGCTAG
1 CTTGAGCTCATTTCAGCTAG
*
6297460 TTTGAGCTCATTTCAGCT
1 CTTGAGCTCATTTCAGCT
6297478 TCTATCCAAC
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:0.18, C:0.21, G:0.18, T:0.42
Consensus pattern (20 bp):
CTTGAGCTCATTTCAGCTAG
Found at i:6300215 original size:21 final size:22
Alignment explanation
Indices: 6300162--6300215 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
6300152 CAAATAAAGT
*
6300162 TCATGTA-CAAATATCATCATC
1 TCATGTATCATATATCATCATC
* *
6300183 TCATGTTTTCATATATCAT-ATG
1 TCATG-TATCATATATCATCATC
6300205 TCATGTATCAT
1 TCATGTATCAT
6300216 CATTTACTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 10 0.37
22 8 0.30
23 9 0.33
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.43
Consensus pattern (22 bp):
TCATGTATCATATATCATCATC
Found at i:6309163 original size:18 final size:18
Alignment explanation
Indices: 6309140--6309184 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
6309130 ATTCTAGAAT
* * *
6309140 TATGGGCTCACATGCCCG
1 TATGGGCCCACACGACCG
6309158 TATGGGCCCACACGACCG
1 TATGGGCCCACACGACCG
6309176 TAT-GGCCCA
1 TATGGGCCCA
6309185 TACGGCCTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.20, C:0.36, G:0.27, T:0.18
Consensus pattern (18 bp):
TATGGGCCCACACGACCG
Found at i:6314745 original size:22 final size:22
Alignment explanation
Indices: 6314720--6314761 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6314710 TTGGGGAAGT
*
6314720 GTGGGAGCG-AATTTAGGGATAA
1 GTGGGAG-GAAATTAAGGGATAA
6314742 GTGGGAGGAAATTAAGGGAT
1 GTGGGAGGAAATTAAGGGAT
6314762 TATGGGGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.33, C:0.02, G:0.43, T:0.21
Consensus pattern (22 bp):
GTGGGAGGAAATTAAGGGATAA
Found at i:6315015 original size:23 final size:23
Alignment explanation
Indices: 6314983--6315027 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
6314973 CATTTCCGTT
*
6314983 TGTTCGGTAAGTGAAATAAGGTC
1 TGTTCAGTAAGTGAAATAAGGTC
6315006 TGTTCAGTAAGTGAAATAAGGT
1 TGTTCAGTAAGTGAAATAAGGT
6315028 AGAATTGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (23 bp):
TGTTCAGTAAGTGAAATAAGGTC
Found at i:6318354 original size:28 final size:28
Alignment explanation
Indices: 6318314--6318369 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
6318304 ACAAGTAACT
6318314 CAGTACACTCCATTGGTGCTTTGTGCAA
1 CAGTACACTCCATTGGTGCTTTGTGCAA
6318342 CAGTACACTCCATTGGTGCTTTGTGCAA
1 CAGTACACTCCATTGGTGCTTTGTGCAA
6318370 ACTCGTGTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (28 bp):
CAGTACACTCCATTGGTGCTTTGTGCAA
Found at i:6328449 original size:28 final size:30
Alignment explanation
Indices: 6328392--6328459 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 30
6328382 TCAAAATTTC
*
6328392 AAAATAAA-T-AAAAATAAAATATATCGAT
1 AAAATAAATTAAAAAATAAAATATATCAAT
*
6328420 AAAATAAATTAAAAAATTAAA-A-ATCAAT
1 AAAATAAATTAAAAAATAAAATATATCAAT
*
6328448 AAAGT-AATTAAA
1 AAAATAAATTAAA
6328460 TTTTGTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 7 0.20
28 17 0.49
29 2 0.06
30 9 0.26
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (30 bp):
AAAATAAATTAAAAAATAAAATATATCAAT
Found at i:6330537 original size:15 final size:15
Alignment explanation
Indices: 6330517--6330546 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6330507 AATACTTTTC
*
6330517 TTAAAATTCTAAATT
1 TTAAAATTATAAATT
6330532 TTAAAATTATAAATT
1 TTAAAATTATAAATT
6330547 CTAACGCACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAAATTATAAATT
Found at i:6330636 original size:14 final size:14
Alignment explanation
Indices: 6330617--6330649 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6330607 ATTATTTTTT
6330617 TTAATTTT-TTTATA
1 TTAATTTTATTTA-A
6330631 TTAATTTTATTTAA
1 TTAATTTTATTTAA
6330645 TTAAT
1 TTAAT
6330650 CAAAACTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTAATTTTATTTAA
Found at i:6334239 original size:49 final size:49
Alignment explanation
Indices: 6334167--6334354 Score: 250
Period size: 49 Copynumber: 3.8 Consensus size: 49
6334157 TGAGGTCACG
*
6334167 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * * *
6334216 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
*
6334267 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* *
6334316 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
6334355 GCTTCGGCTA
Statistics
Matches: 117, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 76 0.65
50 2 0.02
51 39 0.33
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:6334337 original size:100 final size:100
Alignment explanation
Indices: 6334162--6334349 Score: 349
Period size: 100 Copynumber: 1.9 Consensus size: 100
6334152 TATTGTGAGG
*
6334162 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
6334227 AAGTGTAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
*
6334262 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
6334327 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
6334350 AGATAGCTTC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:6343798 original size:40 final size:40
Alignment explanation
Indices: 6343426--6343791 Score: 698
Period size: 40 Copynumber: 9.2 Consensus size: 40
6343416 AACCCAAGTA
* *
6343426 CCTTCGGGATTTAG-CCGGATATAGCAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
6343465 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
6343505 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
6343545 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
6343585 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
6343625 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
6343665 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
6343705 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
6343745 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
6343785 CCTTCGG
1 CCTTCGG
6343792 ATCTTAGTCC
Statistics
Matches: 323, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
39 13 0.04
40 310 0.96
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:6352145 original size:40 final size:40
Alignment explanation
Indices: 6351733--6352138 Score: 627
Period size: 40 Copynumber: 10.2 Consensus size: 40
6351723 AACCCAAGTA
* *
6351733 CCTTCGGGATTTAG-CCGGATATAG-CAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
6351772 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
6351812 CCTTTGGCACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
6351852 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
6351892 CCTTTGGCACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
6351932 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
6351972 CCTTTGGCACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
6352012 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
6352052 CCTTTGGCACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
6352092 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
6352132 CCTTCGG
1 CCTTCGG
6352139 ATCTTAGTCC
Statistics
Matches: 331, Mismatches: 34, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
39 13 0.04
40 317 0.96
41 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:6352145 original size:80 final size:80
Alignment explanation
Indices: 6351743--6352135 Score: 752
Period size: 80 Copynumber: 4.9 Consensus size: 80
6351733 CCTTCGGGAT
* *
6351743 TTAG-CCGGATATAGCAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAC
6351807 AAATGCCTTTGGCAC
66 AAATGCCTTTGGCAC
6351822 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAC
6351887 AAATGCCTTTGGCAC
66 AAATGCCTTTGGCAC
6351902 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAC
6351967 AAATGCCTTTGGCAC
66 AAATGCCTTTGGCAC
6351982 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAC
6352047 AAATGCCTTTGGCAC
66 AAATGCCTTTGGCAC
*
6352062 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAC
6352127 AAATGCCTT
66 AAATGCCTT
6352136 CGGATCTTAG
Statistics
Matches: 310, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
79 4 0.01
80 306 0.99
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAC
AAATGCCTTTGGCAC
Found at i:6356618 original size:27 final size:27
Alignment explanation
Indices: 6356588--6356765 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
6356578 ATATTGAGTC
* * * *
6356588 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
6356615 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
6356642 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
6356670 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
6356697 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
6356724 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
6356751 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
6356766 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:6356727 original size:82 final size:81
Alignment explanation
Indices: 6356609--6356764 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
6356599 TGCTATATAA
* *
6356609 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
6356674 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
6356691 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
6356755 CACTTAGTGC
65 CACTTAGTGC
6356765 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:6364811 original size:27 final size:27
Alignment explanation
Indices: 6364781--6364958 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
6364771 ATATTGAGTC
* * * *
6364781 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
6364808 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
6364835 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
6364863 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
6364890 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
6364917 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
6364944 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
6364959 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:6364920 original size:82 final size:81
Alignment explanation
Indices: 6364802--6364957 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
6364792 TGCTATATAA
* *
6364802 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
6364867 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
6364884 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
6364948 CACTTAGTGC
65 CACTTAGTGC
6364958 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:6372087 original size:47 final size:47
Alignment explanation
Indices: 6371970--6372087 Score: 200
Period size: 47 Copynumber: 2.5 Consensus size: 47
6371960 CGAATGTCTG
* * *
6371970 AGCTCGTTGAGTTGAGTCTAAGTTTGTGAGATGTAACTAGGCATCCG
1 AGCTCATTGAGTTGAGTCTGAGTTTGTGAGATGTAACTAGGCATCCA
6372017 AGCTCATTGAGTTGAGTCTGAGTTTGTGAGATGTAACTAGGCATCCA
1 AGCTCATTGAGTTGAGTCTGAGTTTGTGAGATGTAACTAGGCATCCA
*
6372064 AGCTCATTGAGTTGAGTCCGAGTT
1 AGCTCATTGAGTTGAGTCTGAGTT
6372088 CGCTTATGGG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (47 bp):
AGCTCATTGAGTTGAGTCTGAGTTTGTGAGATGTAACTAGGCATCCA
Found at i:6375969 original size:64 final size:63
Alignment explanation
Indices: 6375889--6376070 Score: 183
Period size: 64 Copynumber: 2.9 Consensus size: 63
6375879 AGACATTATG
*
6375889 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * *
6375952 TATGTAGCTAGGTCGCATGTG-GCT-CCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 -ATGTAGCTAGGTCGCATGGGTGATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
6376015 TA
62 TA
* * * * *
6376017 ATTTGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
6376071 CGAACTCTAT
Statistics
Matches: 96, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
62 3 0.03
63 21 0.22
64 38 0.40
65 32 0.33
66 1 0.01
67 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.24
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:6393129 original size:31 final size:31
Alignment explanation
Indices: 6393094--6393153 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
6393084 ATTTGGAGAC
6393094 ACCATTTGTATGGTAAGACATGCCGTGTATT
1 ACCATTTGTATGGTAAGACATGCCGTGTATT
*
6393125 ACCATTTGTATGGTGAGACATGCCGTGTA
1 ACCATTTGTATGGTAAGACATGCCGTGTA
6393154 ATCACCAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (31 bp):
ACCATTTGTATGGTAAGACATGCCGTGTATT
Found at i:6404051 original size:40 final size:40
Alignment explanation
Indices: 6403995--6404132 Score: 185
Period size: 40 Copynumber: 3.5 Consensus size: 40
6403985 CGGATGATAA
*
6403995 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
*
6404035 CCGGGCTAAG-CTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTC-CCGAAGGCATTTGTGCGAGTGACTATAT
*
6404075 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATAT
*
6404115 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
6404133 TACTTGGTTT
Statistics
Matches: 90, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
39 17 0.19
40 71 0.79
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:6426045 original size:24 final size:25
Alignment explanation
Indices: 6426018--6426064 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
6426008 AATGACCCAA
*
6426018 ATTTTGAAAAATAAT-CAATTCAAC
1 ATTTTGAAAAAAAATCCAATTCAAC
6426042 ATTTTGAAAAAAAATCCAATTCA
1 ATTTTGAAAAAAAATCCAATTCA
6426065 TTAATTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (25 bp):
ATTTTGAAAAAAAATCCAATTCAAC
Found at i:6426949 original size:21 final size:21
Alignment explanation
Indices: 6426923--6426963 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6426913 CTTGCAAAGA
*
6426923 AAAAAAAATTCTTCTCGTCGG
1 AAAAAAAATTCCTCTCGTCGG
*
6426944 AAAAAAATTTCCTCTCGTCG
1 AAAAAAAATTCCTCTCGTCG
6426964 AATTAGATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (21 bp):
AAAAAAAATTCCTCTCGTCGG
Found at i:6427763 original size:13 final size:13
Alignment explanation
Indices: 6427745--6427769 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6427735 TCAAAGAAAC
6427745 ATTGTTGTCAAAA
1 ATTGTTGTCAAAA
6427758 ATTGTTGTCAAA
1 ATTGTTGTCAAA
6427770 CGGTCAAAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
ATTGTTGTCAAAA
Found at i:6435175 original size:17 final size:17
Alignment explanation
Indices: 6435153--6435277 Score: 70
Period size: 17 Copynumber: 7.5 Consensus size: 17
6435143 TATCAAGATA
*
6435153 AATATTAGATTAAATTT
1 AATATTAAATTAAATTT
6435170 AATATTAAATTAAA-TT
1 AATATTAAATTAAATTT
6435186 AA-ATT-AA-TAGAATATT
1 AATATTAAATTA-AAT-TT
* * * *
6435202 TATA-TACA--AGA-TA
1 AATATTAAATTAAATTT
*
6435215 AAAATTAAATTAAATTT
1 AATATTAAATTAAATTT
*
6435232 AATAATAAGA-TAATCACTTT
1 AATATTAA-ATTAA--A-TTT
6435252 AATATTAAATTAAATTT
1 AATATTAAATTAAATTT
6435269 AATATTAAA
1 AATATTAAA
6435278 CCTATTAAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 28
0.66 0.11 0.23
Matches are distributed among these distances:
13 5 0.06
14 7 0.09
15 4 0.05
16 11 0.14
17 37 0.46
18 2 0.02
19 2 0.02
20 13 0.16
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.40
Consensus pattern (17 bp):
AATATTAAATTAAATTT
Found at i:6438951 original size:9 final size:9
Alignment explanation
Indices: 6438935--6438968 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
6438925 TTTATTAACA
6438935 AATTAATTT
1 AATTAATTT
*
6438944 AGTTAATTT
1 AATTAATTT
*
6438953 AAATAATTT
1 AATTAATTT
6438962 AATTAAT
1 AATTAAT
6438969 ACATTAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (9 bp):
AATTAATTT
Found at i:6440275 original size:13 final size:13
Alignment explanation
Indices: 6440259--6440283 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6440249 CAAGAATTGC
6440259 ACACAAGTGCCAT
1 ACACAAGTGCCAT
6440272 ACACAAGTGCCA
1 ACACAAGTGCCA
6440284 ACTATATTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.32, G:0.16, T:0.12
Consensus pattern (13 bp):
ACACAAGTGCCAT
Found at i:6441721 original size:28 final size:29
Alignment explanation
Indices: 6441672--6441727 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
6441662 TATAGGGGTT
6441672 TTCACACAGCCAAGCACACGCCTGTGTCC
1 TTCACACAGCCAAGCACACGCCTGTGTCC
* *
6441701 TTCACACGGCCTAG-ACACGCCTGTGTC
1 TTCACACAGCCAAGCACACGCCTGTGTC
6441728 TAAAAACTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.21, C:0.39, G:0.20, T:0.20
Consensus pattern (29 bp):
TTCACACAGCCAAGCACACGCCTGTGTCC
Found at i:6443320 original size:13 final size:13
Alignment explanation
Indices: 6443302--6443326 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6443292 GTATTGATCA
6443302 TGTGTTCACACCT
1 TGTGTTCACACCT
6443315 TGTGTTCACACC
1 TGTGTTCACACC
6443327 ATGATGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:6445318 original size:16 final size:16
Alignment explanation
Indices: 6445297--6445328 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6445287 ACATTACCCA
6445297 AGCCTAGCCGAATGTT
1 AGCCTAGCCGAATGTT
6445313 AGCCTAGCCGAATGTT
1 AGCCTAGCCGAATGTT
6445329 CTTTCCTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (16 bp):
AGCCTAGCCGAATGTT
Found at i:6453344 original size:49 final size:49
Alignment explanation
Indices: 6453270--6453472 Score: 220
Period size: 49 Copynumber: 4.2 Consensus size: 49
6453260 TATGTGTCAA
** * *
6453270 TGTAAGACCTGCCTGGGACACGGCATCGAGACAGATAAGTGAGAGCCAG
1 TGTAAGACCTATCTGGGACATGGCATCGACACAGATAAGTGAGAGCCAG
* *
6453319 TGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTGAGAGCCAA
1 TGTAAGACCTATCTGGGACATGGCATCGACACAGATAAGTGAGAGCCAG
* * *
6453368 TGTAAGACCTATCTGGGACATGGCATC-AGC-CTTGATGTACGT-A-AGTCAG
1 TGTAAGACCTATCTGGGACATGGCATCGA-CAC-AGA--TAAGTGAGAGCCAG
** *
6453417 TGTAAGACCTATCTGGGACATGGCATCGACTTAGAT--GTAAGAGCCAG
1 TGTAAGACCTATCTGGGACATGGCATCGACACAGATAAGTGAGAGCCAG
6453464 TGTAAGACC
1 TGTAAGACC
6453473 ATGTTTGAAA
Statistics
Matches: 134, Mismatches: 12, Indels: 18
0.82 0.07 0.11
Matches are distributed among these distances:
45 2 0.01
46 1 0.01
47 15 0.11
48 2 0.01
49 108 0.81
50 2 0.01
51 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.21
Consensus pattern (49 bp):
TGTAAGACCTATCTGGGACATGGCATCGACACAGATAAGTGAGAGCCAG
Found at i:6465675 original size:24 final size:24
Alignment explanation
Indices: 6465643--6465693 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
6465633 ATAGGCTATG
*
6465643 ACAGGTGCACGAGCCTCGGGTCTA
1 ACAGGTGCACGAGCCTCGAGTCTA
*
6465667 ACAGGTGCATGAGCCTCGAGTCTA
1 ACAGGTGCACGAGCCTCGAGTCTA
6465691 ACA
1 ACA
6465694 ATTGTATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.27, G:0.29, T:0.18
Consensus pattern (24 bp):
ACAGGTGCACGAGCCTCGAGTCTA
Found at i:6470881 original size:142 final size:142
Alignment explanation
Indices: 6470620--6470895 Score: 353
Period size: 142 Copynumber: 1.9 Consensus size: 142
6470610 TGGGTGATAT
* * **
6470620 GTGTGTCAGTGTAATACCTGTCTGGGACATGGCATCGACACAGCTAAGTGCGAGCCAGTGTAAGA
1 GTGTGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTAAGAGCCAGTGTAAGA
* * **
6470685 CTAGTCTAGAACATGGCATCGGCCTCAAGATATGCAAGCTAGTGTAAGGTCTGTCTGGAACATGG
66 CTAGTCTAGAACATGACATCGACCTCAAGATATGCAAGCTAGTGTAAGACCTGTCTGGAACATGG
6470750 CATCGGCTTAAG
131 CATCGGCTTAAG
* * *
6470762 GTGTGTTAGTGTAAGACCTGTTTGGGACATGGCATTGACACAGATAAGTAAGAGCCCA-TGTAAG
1 GTGTGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTAAGAG-CCAGTGTAAG
* * * *
6470826 ACCT-GTCTAGGACATGACATCGACCTCGATG-TATGTAAG-TCAGTGTAAGACCTGTCTGGGAC
65 A-CTAGTCTAGAACATGACATCGACCTC-AAGATATGCAAGCT-AGTGTAAGACCTGTCTGGAAC
6470888 ATGGCATC
127 ATGGCATC
6470896 AACTTAGATG
Statistics
Matches: 115, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
141 1 0.01
142 107 0.93
143 7 0.06
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (142 bp):
GTGTGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTAAGAGCCAGTGTAAGA
CTAGTCTAGAACATGACATCGACCTCAAGATATGCAAGCTAGTGTAAGACCTGTCTGGAACATGG
CATCGGCTTAAG
Found at i:6478004 original size:41 final size:41
Alignment explanation
Indices: 6477957--6478076 Score: 118
Period size: 41 Copynumber: 3.2 Consensus size: 41
6477947 CATCTTCTTT
6477957 TTTTTCATTCTTCTTCCCATTTCCTTCCAACCTTCTCTCTC
1 TTTTTCATTCTTCTTCCCATTTCCTTCCAACCTTCTCTCTC
* * * *
6477998 TTTTTCA---TTC-TCACA--T-C-T-AAAGCATCT-TCT-
1 TTTTTCATTCTTCTTCCCATTTCCTTCCAACCTTCTCTCTC
*
6478028 TTTTTCATTCTTCTTCCCATTTCCTTCCAACCTTCTCCCTC
1 TTTTTCATTCTTCTTCCCATTTCCTTCCAACCTTCTCTCTC
6478069 TTTTTCAT
1 TTTTTCAT
6478077 GCTTTTATCC
Statistics
Matches: 59, Mismatches: 9, Indels: 22
0.66 0.10 0.24
Matches are distributed among these distances:
30 7 0.12
31 3 0.05
32 6 0.10
33 4 0.07
34 5 0.08
35 1 0.02
36 1 0.02
37 5 0.08
38 4 0.07
39 6 0.10
40 2 0.03
41 15 0.25
ACGTcount: A:0.13, C:0.35, G:0.01, T:0.51
Consensus pattern (41 bp):
TTTTTCATTCTTCTTCCCATTTCCTTCCAACCTTCTCTCTC
Found at i:6478064 original size:71 final size:72
Alignment explanation
Indices: 6477914--6478076 Score: 265
Period size: 71 Copynumber: 2.3 Consensus size: 72
6477904 TCAACTTTAC
* ** *
6477914 CCTTCTCCCTCTTTTTTATTCTCATGTCTGAAGCATCTTCTTTTTTTTCATTCTTCTTCCCATTT
1 CCTTCTCCCTCTTTTTCATTCTCACATCTAAAGCATCTTC-TTTTTTTCATTCTTCTTCCCATTT
6477979 CCTTCCAA
65 CCTTCCAA
*
6477987 CCTTCTCTCTCTTTTTCATTCTCACATCTAAAGCATCTTC-TTTTTTCATTCTTCTTCCCATTTC
1 CCTTCTCCCTCTTTTTCATTCTCACATCTAAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTC
6478051 CTTCCAA
66 CTTCCAA
6478058 CCTTCTCCCTCTTTTTCAT
1 CCTTCTCCCTCTTTTTCAT
6478077 GCTTTTATCC
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
71 49 0.58
73 35 0.42
ACGTcount: A:0.13, C:0.34, G:0.02, T:0.51
Consensus pattern (72 bp):
CCTTCTCCCTCTTTTTCATTCTCACATCTAAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTC
CTTCCAA
Found at i:6481196 original size:33 final size:33
Alignment explanation
Indices: 6481156--6481219 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
6481146 AACTCTTGTT
6481156 TCCATCATGGATGTTTGAACTTGATCAAATTGG
1 TCCATCATGGATGTTTGAACTTGATCAAATTGG
* *
6481189 TCCATCATGGATGTTTGGATTTGATCAAATT
1 TCCATCATGGATGTTTGAACTTGATCAAATT
6481220 CGTTGGTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (33 bp):
TCCATCATGGATGTTTGAACTTGATCAAATTGG
Found at i:6481705 original size:16 final size:16
Alignment explanation
Indices: 6481684--6481715 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6481674 ATAAAAAATG
6481684 TTATTAAATTATATTT
1 TTATTAAATTATATTT
6481700 TTATTAAATTATATTT
1 TTATTAAATTATATTT
6481716 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATTAAATTATATTT
Found at i:6481714 original size:26 final size:26
Alignment explanation
Indices: 6481666--6481748 Score: 67
Period size: 26 Copynumber: 3.1 Consensus size: 26
6481656 AATTCATATA
* *
6481666 ATAATTATATAAAAAATGTTATTAAATT
1 ATAATTATAT-TAAAAT-ATATTAAATT
* * * * *
6481694 ATATTTTTATTAAATTATATTTAATA
1 ATAATTATATTAAAATATATTAAATT
*
6481720 ATAATTATATTAAAATATGGTTAAATT
1 ATAATTATATTAAAATAT-ATTAAATT
6481747 AT
1 AT
6481749 TAAATTATTT
Statistics
Matches: 41, Mismatches: 13, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
26 22 0.54
27 11 0.27
28 8 0.20
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (26 bp):
ATAATTATATTAAAATATATTAAATT
Found at i:6481935 original size:16 final size:16
Alignment explanation
Indices: 6481914--6481968 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
6481904 TGAATTACTG
*
6481914 ATTACAACTCTGTTCA
1 ATTACAACTCTATTCA
* *
6481930 ATTACAGCCCTATTCA
1 ATTACAACTCTATTCA
* *
6481946 AATACAACTCTATTCC
1 ATTACAACTCTATTCA
6481962 ATTACAA
1 ATTACAA
6481969 TAAACCAAAC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (16 bp):
ATTACAACTCTATTCA
Found at i:6484003 original size:40 final size:40
Alignment explanation
Indices: 6483919--6484182 Score: 331
Period size: 40 Copynumber: 6.6 Consensus size: 40
6483909 TTGAATGCTG
* *
6483919 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
** * *
6483958 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
6483999 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
6484039 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
6484079 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* ** *
6484119 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT-AAT
6484159 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
6484183 GTATGAGTTA
Statistics
Matches: 204, Mismatches: 14, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.01
40 189 0.93
41 12 0.06
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:6494978 original size:17 final size:19
Alignment explanation
Indices: 6494956--6495003 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
6494946 AATTCATGTC
6494956 TAAAATTACT-AATT-AAG
1 TAAAATTACTCAATTCAAG
*
6494973 TAAAATTCACTCATTTCAAG
1 TAAAATT-ACTCAATTCAAG
*
6494993 TATAATTACTC
1 TAAAATTACTC
6495004 GAGTAAAGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 7 0.27
18 3 0.12
19 7 0.27
20 9 0.35
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.38
Consensus pattern (19 bp):
TAAAATTACTCAATTCAAG
Found at i:6505566 original size:24 final size:24
Alignment explanation
Indices: 6505519--6505567 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
6505509 TTAACATCCT
**
6505519 TTTGTAACAACCTTGTCATTGGAG
1 TTTGTAACAACCTTGTCACCGGAG
6505543 TTTGTAACAACCTTGTCACCGGAG
1 TTTGTAACAACCTTGTCACCGGAG
6505567 T
1 T
6505568 GGCTATCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (24 bp):
TTTGTAACAACCTTGTCACCGGAG
Found at i:6524837 original size:46 final size:46
Alignment explanation
Indices: 6524770--6524937 Score: 200
Period size: 46 Copynumber: 3.6 Consensus size: 46
6524760 CCCGCCCCTC
* *
6524770 AGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATA
* * *
6524816 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TC
1 AGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC--GTTCGCATCCATA
* *
6524864 A-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATA
6524909 AGTGAACTCGGACTCAACTCAACGAGTTC
1 AGTGAACTCGGACTCAACTCAACGAGTTC
6524938 GGATGCTCAA
Statistics
Matches: 103, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 3 0.03
46 54 0.52
47 26 0.25
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATA
Found at i:6524885 original size:93 final size:93
Alignment explanation
Indices: 6524773--6524943 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
6524763 GCCCCTCAGT
* *
6524773 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
6524838 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
6524866 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
6524931 CGAGTTCGGATGC
66 CGAGTTCGGATGC
6524944 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:6528048 original size:41 final size:40
Alignment explanation
Indices: 6527921--6528065 Score: 186
Period size: 40 Copynumber: 3.6 Consensus size: 40
6527911 CTCACACAAG
* * * * *
6527921 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
6527961 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
6528001 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCAC-AAT
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
6528041 AGCCTTCGGGACTTAGCCCGGATAT
1 -GCCTTCGGGACTTAGCCCGGATAT
6528066 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
39 3 0.03
40 62 0.67
41 24 0.26
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:6530962 original size:52 final size:52
Alignment explanation
Indices: 6530884--6530983 Score: 191
Period size: 52 Copynumber: 1.9 Consensus size: 52
6530874 ACCACTGCAG
6530884 CCAATTCCAAATCGTGAGTAGGATAATTCCTCTCATGAGGTTTTAACTACAA
1 CCAATTCCAAATCGTGAGTAGGATAATTCCTCTCATGAGGTTTTAACTACAA
*
6530936 CCAATTCCAGATCGTGAGTAGGATAATTCCTCTCATGAGGTTTTAACT
1 CCAATTCCAAATCGTGAGTAGGATAATTCCTCTCATGAGGTTTTAACT
6530984 GCCTCGAAGC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (52 bp):
CCAATTCCAAATCGTGAGTAGGATAATTCCTCTCATGAGGTTTTAACTACAA
Found at i:6535358 original size:46 final size:45
Alignment explanation
Indices: 6535260--6535350 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 45
6535250 AATCCGCCCC
* * *
6535260 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGA-ATGCGCAACCA
*
6535306 TAAGTGAACTCGGACTCAACTCAACAAGTTCGG-ATGCTCAACCA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGAATGCGCAACCA
6535350 T
1 T
6535351 CCTAGTGACA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 9 0.22
46 32 0.78
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACAAGTTCGGAATGCGCAACCA
Found at i:6535758 original size:30 final size:30
Alignment explanation
Indices: 6535724--6535783 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
6535714 ATTTAATACG
6535724 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
6535754 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
6535784 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:6539457 original size:37 final size:37
Alignment explanation
Indices: 6539407--6539521 Score: 176
Period size: 37 Copynumber: 3.1 Consensus size: 37
6539397 ACCTTTAGCT
* * *
6539407 CGGACGAAATCTCCACACGAAGTAATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
6539444 CGGACAAAATCTCCACATGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* *
6539481 CGGACATAATATCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
6539518 CGGA
1 CGGA
6539522 ATATATTTCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:6540592 original size:40 final size:40
Alignment explanation
Indices: 6540535--6540830 Score: 411
Period size: 40 Copynumber: 7.4 Consensus size: 40
6540525 AATGATAACG
* * *
6540535 GGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
* * *
6540575 GCGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
6540615 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
6540655 GGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
6540695 GGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
**
6540735 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
6540775 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
6540815 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
6540831 TACTTGGTTT
Statistics
Matches: 237, Mismatches: 17, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
39 16 0.07
40 220 0.93
41 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:6548730 original size:40 final size:40
Alignment explanation
Indices: 6548675--6548982 Score: 492
Period size: 40 Copynumber: 7.7 Consensus size: 40
6548665 GATGACAACG
* **
6548675 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGACATTTGTGCGAACTACTATATCC
6548715 GGGCTAAGTCCCGAAGACATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGACATTTGTGCGAACTACTATATCC
6548755 GGGCTAAGTCCCGAAGACATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGACATTTGTGCGAACTACTATATCC
6548795 GGGCTAAGTCCCGAAGACATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGACATTTGTGCGAACTACTATATCC
6548835 GGGCTAAGTCCCGAAGACATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGACATTTGTGCGAACTACTATATCC
* **
6548875 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGACATTTGTGCGAACTACTATATCC
** * **
6548915 TTGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGACATTTGTGCGAACTACTATA-TCC
*
6548955 GGGCTAAGTCCCGAAGGCATTTGTGCGA
1 GGGCTAAGTCCCGAAGACATTTGTGCGA
6548983 NNNNNNNNNN
Statistics
Matches: 257, Mismatches: 10, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
39 1 0.00
40 256 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGACATTTGTGCGAACTACTATATCC
Found at i:6561149 original size:40 final size:40
Alignment explanation
Indices: 6561092--6561197 Score: 194
Period size: 40 Copynumber: 2.6 Consensus size: 40
6561082 GATGATAACG
6561092 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
**
6561132 GGGCTAAGTCCTAAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
6561172 GGGCTAAGTCCCGAAGGCATTTGTGC
1 GGGCTAAGTCCCGAAGGCATTTGTGC
6561198 ATACCGTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
Found at i:6565186 original size:36 final size:37
Alignment explanation
Indices: 6565141--6565216 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 37
6565131 CACACCCACC
* * *
6565141 AAATGATAAGATATTTCATTTAT-TTTTTTAAATAAT
1 AAATGATAAGATATTTAATTTATAATTTTTAAAAAAT
* * *
6565177 AAATTATAAGTTCTTTAATTTATAATTTTTAAAAAAT
1 AAATGATAAGATATTTAATTTATAATTTTTAAAAAAT
6565214 AAA
1 AAA
6565217 CAATTCTTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
36 19 0.58
37 14 0.42
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (37 bp):
AAATGATAAGATATTTAATTTATAATTTTTAAAAAAT
Found at i:6566956 original size:35 final size:38
Alignment explanation
Indices: 6566886--6566962 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 38
6566876 AATATACGGG
*
6566886 ATATATTAAGATTCAGTTAATATTTTAAACTATTTTTA
1 ATATATTAAGATTCAGTTAATATTTTAAACTATTTTAA
6566924 ATAT-TTAA-ATT-AGTT-ATATTTTAATA-TAATTTTAA
1 ATATATTAAGATTCAGTTAATATTTTAA-ACT-ATTTTAA
6566959 ATAT
1 ATAT
6566963 GAATTTATAG
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
34 10 0.28
35 15 0.42
36 3 0.08
37 4 0.11
38 4 0.11
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.52
Consensus pattern (38 bp):
ATATATTAAGATTCAGTTAATATTTTAAACTATTTTAA
Found at i:6566957 original size:34 final size:38
Alignment explanation
Indices: 6566886--6566962 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 38
6566876 AATATACGGG
*
6566886 ATATATTAAGATTCAGTTAATATTTTAAACTATTTTTA
1 ATATATTAAGATTCAGTTAATATTTTAAACTAATTTTA
6566924 ATAT-TTAA-ATT-AGTT-ATATTTTAATA-TAATTTTA
1 ATATATTAAGATTCAGTTAATATTTTAA-ACTAATTTTA
6566958 A-ATAT
1 ATATAT
6566963 GAATTTATAG
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
33 2 0.06
34 18 0.50
35 5 0.14
36 3 0.08
37 4 0.11
38 4 0.11
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.52
Consensus pattern (38 bp):
ATATATTAAGATTCAGTTAATATTTTAAACTAATTTTA
Found at i:6566995 original size:12 final size:13
Alignment explanation
Indices: 6566945--6566995 Score: 54
Period size: 12 Copynumber: 4.0 Consensus size: 13
6566935 AGTTATATTT
6566945 TAATATAATTTTA
1 TAATATAATTTTA
6566958 -AATATGAA-TTTA
1 TAATAT-AATTTTA
*
6566970 TAGATACAATTTTA
1 TA-ATATAATTTTA
6566984 TAATAT-ATTTTA
1 TAATATAATTTTA
6566996 ATTAATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
12 15 0.47
13 8 0.25
14 9 0.28
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (13 bp):
TAATATAATTTTA
Found at i:6567553 original size:19 final size:19
Alignment explanation
Indices: 6567509--6567557 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
6567499 ATTATTATAG
6567509 CATTAAATCAATTAAAATTAA
1 CATTAAA-C-ATTAAAATTAA
*
6567530 GATTAAACATTATAAA-TAA
1 CATTAAACATTA-AAATTAA
6567549 CATTAAACA
1 CATTAAACA
6567558 AAAATGAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 15 0.60
20 4 0.16
21 6 0.24
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
CATTAAACATTAAAATTAA
Found at i:6574165 original size:22 final size:22
Alignment explanation
Indices: 6574123--6574165 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6574113 ATCATTTGTA
*
6574123 ATTTATAATCATTCAAGTTCAT
1 ATTTATAATCATTCAACTTCAT
*
6574145 ATTTGATAATCA-TGAACTTCA
1 ATTT-ATAATCATTCAACTTCA
6574166 AAACATTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (22 bp):
ATTTATAATCATTCAACTTCAT
Found at i:6575284 original size:21 final size:21
Alignment explanation
Indices: 6575245--6575284 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6575235 TATCATATAA
*
6575245 CTCAATTCACATTCTATTTTT
1 CTCAATTCACATTCAATTTTT
6575266 CTCAATTCA-ATATCAATTT
1 CTCAATTCACAT-TCAATTT
6575285 CACTATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (21 bp):
CTCAATTCACATTCAATTTTT
Found at i:6579303 original size:93 final size:93
Alignment explanation
Indices: 6579191--6579362 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
6579181 GCCCATAAGT
* *
6579191 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
6579256 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
6579284 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
6579349 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
6579363 CAAACATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:6579358 original size:46 final size:46
Alignment explanation
Indices: 6579183--6579358 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
6579173 TGTAACCCGC
* *
6579183 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
6579229 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
6579275 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
6579322 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
6579359 TGCCCAAACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:6581794 original size:30 final size:30
Alignment explanation
Indices: 6581750--6581838 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
6581740 CAAAGATAAC
6581750 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
6581779 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
6581809 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
6581839 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:6581798 original size:15 final size:15
Alignment explanation
Indices: 6581750--6581829 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
6581740 CAAAGATAAC
*
6581750 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
6581764 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
6581779 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
6581794 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
6581809 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
6581824 AAGAAA
1 AAGAAA
6581830 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:6581838 original size:15 final size:15
Alignment explanation
Indices: 6581761--6581838 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
6581751 AGAAAACCGA
6581761 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
6581776 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
6581790 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
6581805 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
6581821 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
6581836 ATA
1 ATA
6581839 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:6584146 original size:19 final size:20
Alignment explanation
Indices: 6584122--6584159 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
6584112 GGTACCACCA
6584122 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
6584141 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
6584160 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:6584546 original size:46 final size:46
Alignment explanation
Indices: 6584383--6584555 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
6584373 AACCTGCCCC
* * * *
6584383 TAAGTGAACTCGGACTCAACTCAACGCGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * * *
6584429 TAAATGAACTCAGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
6584477 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
6584522 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
6584556 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.55
47 27 0.26
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:6584551 original size:93 final size:93
Alignment explanation
Indices: 6584388--6584558 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
6584378 GCCCCTAAGT
* *
6584388 GAACTCGGACTCAACTCAACGCGCTCGGGCATTCGCATCCATAAATGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
*
6584453 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
6584481 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
6584546 CGAGTTCGGATGC
66 CGAGTTCGGATGC
6584559 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:6588742 original size:48 final size:48
Alignment explanation
Indices: 6588690--6588845 Score: 172
Period size: 48 Copynumber: 3.2 Consensus size: 48
6588680 TGTTAACCCG
6588690 CACACATAGTGCCTTAGTAATTCACATACGTATTGACATTTAAATCCA
1 CACACATAGTGCCTTAGTAATTCACATACGTATTGACATTTAAATCCA
* * * * * * * ** * * *
6588738 CACACATAGTG-CTATA-CAAGTCCGCAGACATAGTGCCATACAATTTCG
1 CACACATAGTGCCT-TAGTAA-TTCACATACGTATTGACATTTAAATCCA
6588786 CACACATAGTGCCTTAGTAATTCACATACGTATTGACATTTAAATCCA
1 CACACATAGTGCCTTAGTAATTCACATACGTATTGACATTTAAATCCA
6588834 CACACATAGTGC
1 CACACATAGTGC
6588846 TATACAAGTC
Statistics
Matches: 80, Mismatches: 24, Indels: 8
0.71 0.21 0.07
Matches are distributed among these distances:
47 4 0.05
48 72 0.90
49 4 0.05
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.28
Consensus pattern (48 bp):
CACACATAGTGCCTTAGTAATTCACATACGTATTGACATTTAAATCCA
Found at i:6588834 original size:96 final size:96
Alignment explanation
Indices: 6588688--6588894 Score: 414
Period size: 96 Copynumber: 2.2 Consensus size: 96
6588678 CATGTTAACC
6588688 CGCACACATAGTGCCTTAGTAATTCACATACGTATTGACATTTAAATCCACACACATAGTGCTAT
1 CGCACACATAGTGCCTTAGTAATTCACATACGTATTGACATTTAAATCCACACACATAGTGCTAT
6588753 ACAAGTCCGCAGACATAGTGCCATACAATTT
66 ACAAGTCCGCAGACATAGTGCCATACAATTT
6588784 CGCACACATAGTGCCTTAGTAATTCACATACGTATTGACATTTAAATCCACACACATAGTGCTAT
1 CGCACACATAGTGCCTTAGTAATTCACATACGTATTGACATTTAAATCCACACACATAGTGCTAT
6588849 ACAAGTCCGCAGACATAGTGCCATACAATTT
66 ACAAGTCCGCAGACATAGTGCCATACAATTT
6588880 CGCACACATAGTGCC
1 CGCACACATAGTGCC
6588895 GAAGTCAATT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 111 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (96 bp):
CGCACACATAGTGCCTTAGTAATTCACATACGTATTGACATTTAAATCCACACACATAGTGCTAT
ACAAGTCCGCAGACATAGTGCCATACAATTT
Found at i:6588886 original size:48 final size:48
Alignment explanation
Indices: 6588738--6588893 Score: 172
Period size: 48 Copynumber: 3.2 Consensus size: 48
6588728 TTTAAATCCA
6588738 CACACATAGTGCTATACAAGTCCGCAGACATAGTGCCATACAATTTCG
1 CACACATAGTGCTATACAAGTCCGCAGACATAGTGCCATACAATTTCG
* * * * * * * ** * * *
6588786 CACACATAGTGCCT-TAGTAA-TTCACATACGTATTGACATTTAAATCCA
1 CACACATAGTG-CTATA-CAAGTCCGCAGACATAGTGCCATACAATTTCG
6588834 CACACATAGTGCTATACAAGTCCGCAGACATAGTGCCATACAATTTCG
1 CACACATAGTGCTATACAAGTCCGCAGACATAGTGCCATACAATTTCG
6588882 CACACATAGTGC
1 CACACATAGTGC
6588894 CGAAGTCAAT
Statistics
Matches: 80, Mismatches: 24, Indels: 8
0.71 0.21 0.07
Matches are distributed among these distances:
47 4 0.05
48 72 0.90
49 4 0.05
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (48 bp):
CACACATAGTGCTATACAAGTCCGCAGACATAGTGCCATACAATTTCG
Found at i:6588894 original size:24 final size:24
Alignment explanation
Indices: 6588738--6588894 Score: 118
Period size: 24 Copynumber: 6.5 Consensus size: 24
6588728 TTTAAATCCA
*
6588738 CACACATAGTGCTATACAAGTCCG
1 CACACATAGTGCCATACAAGTCCG
* * *
6588762 CAGACATAGTGCCATACAATTTCG
1 CACACATAGTGCCATACAAGTCCG
* * * *
6588786 CACACATAGTGCCTTAGTAA-TTCA
1 CACACATAGTGCCATA-CAAGTCCG
* * * * ** * *
6588810 CATACGTATTGACATTTAAATCCA
1 CACACATAGTGCCATACAAGTCCG
*
6588834 CACACATAGTGCTATACAAGTCCG
1 CACACATAGTGCCATACAAGTCCG
* * *
6588858 CAGACATAGTGCCATACAATTTCG
1 CACACATAGTGCCATACAAGTCCG
6588882 CACACATAGTGCC
1 CACACATAGTGCC
6588895 GAAGTCAATT
Statistics
Matches: 102, Mismatches: 29, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
23 3 0.03
24 97 0.95
25 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.25
Consensus pattern (24 bp):
CACACATAGTGCCATACAAGTCCG
Found at i:6589074 original size:18 final size:18
Alignment explanation
Indices: 6589051--6589086 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6589041 ATTTTAGACT
6589051 TACTTTGTGTTGGATGAA
1 TACTTTGTGTTGGATGAA
6589069 TACTTTGTGTTGGATGAA
1 TACTTTGTGTTGGATGAA
6589087 ACAGTTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.28, T:0.44
Consensus pattern (18 bp):
TACTTTGTGTTGGATGAA
Found at i:6596920 original size:24 final size:23
Alignment explanation
Indices: 6596889--6596970 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 23
6596879 TTTAAATCCA
*
6596889 CACACATAGTGCTATAAAAGTCCG
1 CACACATAGTGCTATAAAA-TTCG
* *
6596913 CACACATAGTGCCATACAATTTCG
1 CACACATAGTGCTATA-AAATTCG
*
6596937 CACACATAGTGCTATTCAAATTCG
1 CACACATAGTGCTA-TAAAATTCG
6596961 CACACATAGT
1 CACACATAGT
6596971 ACCGAAGTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 47 0.94
25 3 0.06
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.24
Consensus pattern (23 bp):
CACACATAGTGCTATAAAATTCG
Found at i:6601773 original size:76 final size:76
Alignment explanation
Indices: 6601682--6601835 Score: 272
Period size: 76 Copynumber: 2.0 Consensus size: 76
6601672 TTAGGCAGCG
* *
6601682 GCGATGGATTGAACTACTTAAAGATTATGACTGCACCATTTAGTATCATCCTAGTAAGGATAATA
1 GCGATGGATTGAACTACTTAAAGATTATGACTACACCATTGAGTATCATCCTAGTAAGGATAATA
*
6601747 TAGTAGTCGAT
66 TAGTAGCCGAT
*
6601758 GCGATGGATTGAACTACTTAAAGATTATGACTACACCATTGAGTATCATCCTAGTAAGGCTAATA
1 GCGATGGATTGAACTACTTAAAGATTATGACTACACCATTGAGTATCATCCTAGTAAGGATAATA
6601823 TAGTAGCCGAT
66 TAGTAGCCGAT
6601834 GC
1 GC
6601836 TCTAAGTCGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (76 bp):
GCGATGGATTGAACTACTTAAAGATTATGACTACACCATTGAGTATCATCCTAGTAAGGATAATA
TAGTAGCCGAT
Found at i:6605507 original size:19 final size:19
Alignment explanation
Indices: 6605448--6605508 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
6605438 AAATTATATT
* *
6605448 TAATAAATAATTTTAAATATT
1 TAATTAATAA-TTTAAAT-TG
* **
6605469 TTATTAATAATTTAGGTTG
1 TAATTAATAATTTAAATTG
*
6605488 TAATTAATTATTTAAATTG
1 TAATTAATAATTTAAATTG
6605507 TA
1 TA
6605509 TAAATTTTAT
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
19 18 0.58
20 5 0.16
21 8 0.26
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.51
Consensus pattern (19 bp):
TAATTAATAATTTAAATTG
Found at i:6615516 original size:40 final size:40
Alignment explanation
Indices: 6615470--6615598 Score: 118
Period size: 40 Copynumber: 3.2 Consensus size: 40
6615460 GTTTTCGAGC
* * *
6615470 AAGGCATTTAAGCTAG-TGGCTAATTTCGGGCTAAGTCCCA
1 AAGGCATTTAAGCGAGCT-ACTAATTCCGGGCTAAGTCCCA
** *
6615510 AAGGCATTTGTGCGAGCTACTAATTCCGGGCTAAGTCCCG
1 AAGGCATTTAAGCGAGCTACTAATTCCGGGCTAAGTCCCA
** * * * *
6615550 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCG
1 AAGGCATTTAAGCGAGCTACTAAT-TCCGGGCTAAGTCCCA
6615590 AAGGCATTT
1 AAGGCATTT
6615599 GAACGAGTAG
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.03
40 75 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
AAGGCATTTAAGCGAGCTACTAATTCCGGGCTAAGTCCCA
Found at i:6615613 original size:40 final size:40
Alignment explanation
Indices: 6615496--6615618 Score: 160
Period size: 40 Copynumber: 3.1 Consensus size: 40
6615486 TGGCTAATTT
*
6615496 CGGGCTAAGTCCCAAAGGCATTTGTGCGAGCTACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATA-TC
* *
6615536 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
* **
6615576 CGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTA-CTATATC
6615616 CGG
1 CGG
6615619 TTAAATTCCG
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 2 0.03
40 71 0.96
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATC
Found at i:6620901 original size:536 final size:536
Alignment explanation
Indices: 6619889--6620960 Score: 2144
Period size: 536 Copynumber: 2.0 Consensus size: 536
6619879 TTTCATTGCC
6619889 CTACCGATTCAGTACCAGACGGAGCGGCATCGAAAGGGGGTCATCTCCATTGGCCCCATGTGACT
1 CTACCGATTCAGTACCAGACGGAGCGGCATCGAAAGGGGGTCATCTCCATTGGCCCCATGTGACT
6619954 AGGCTGGCGCGACACTTCGGGCTCCTCAACATCGTAGCCCAAGAATCATCCCTCACCCTCATCGG
66 AGGCTGGCGCGACACTTCGGGCTCCTCAACATCGTAGCCCAAGAATCATCCCTCACCCTCATCGG
6620019 TCAGATGTCTCCACAAGGCATCTCGAGCATGCTTAGCATGAGGATGATCGAGAGGCACCGAGGAA
131 TCAGATGTCTCCACAAGGCATCTCGAGCATGCTTAGCATGAGGATGATCGAGAGGCACCGAGGAA
6620084 CCTACGCTCCCCACTATCGTCTCGTCCAATCTACTAAGGAGGAGGCCTACGAGGACATTCCTGAT
196 CCTACGCTCCCCACTATCGTCTCGTCCAATCTACTAAGGAGGAGGCCTACGAGGACATTCCTGAT
6620149 GATGTCCCCCCACAGCACGAGGACCCACCGACTCAGCCACCACCACCCTCTCGTCCAGTTTATGC
261 GATGTCCCCCCACAGCACGAGGACCCACCGACTCAGCCACCACCACCCTCTCGTCCAGTTTATGC
6620214 GGCGGCTTCATATGCTGACATCTTTAAGTGCCTCACATGATTCGAGCAGTAGTATTTTTAGCGAT
326 GGCGGCTTCATATGCTGACATCTTTAAGTGCCTCACATGATTCGAGCAGTAGTATTTTTAGCGAT
6620279 TTGACAACATTGATGCTACTCTACAGCAGATTTGTCAACACCTTTACATCTCATCGCCAGTCCCA
391 TTGACAACATTGATGCTACTCTACAGCAGATTTGTCAACACCTTTACATCTCATCGCCAGTCCCA
6620344 CCTCGCGAACCATCCAGCGATGAAGATGTTTAGAAATATTTATTTATTATTTTATTATTTTAATT
456 CCTCGCGAACCATCCAGCGATGAAGATGTTTAGAAATATTTATTTATTATTTTATTATTTTAATT
6620409 TTTATTGAAACTACTT
521 TTTATTGAAACTACTT
6620425 CTACCGATTCAGTACCAGACGGAGCGGCATCGAAAGGGGGTCATCTCCATTGGCCCCATGTGACT
1 CTACCGATTCAGTACCAGACGGAGCGGCATCGAAAGGGGGTCATCTCCATTGGCCCCATGTGACT
6620490 AGGCTGGCGCGACACTTCGGGCTCCTCAACATCGTAGCCCAAGAATCATCCCTCACCCTCATCGG
66 AGGCTGGCGCGACACTTCGGGCTCCTCAACATCGTAGCCCAAGAATCATCCCTCACCCTCATCGG
6620555 TCAGATGTCTCCACAAGGCATCTCGAGCATGCTTAGCATGAGGATGATCGAGAGGCACCGAGGAA
131 TCAGATGTCTCCACAAGGCATCTCGAGCATGCTTAGCATGAGGATGATCGAGAGGCACCGAGGAA
6620620 CCTACGCTCCCCACTATCGTCTCGTCCAATCTACTAAGGAGGAGGCCTACGAGGACATTCCTGAT
196 CCTACGCTCCCCACTATCGTCTCGTCCAATCTACTAAGGAGGAGGCCTACGAGGACATTCCTGAT
6620685 GATGTCCCCCCACAGCACGAGGACCCACCGACTCAGCCACCACCACCCTCTCGTCCAGTTTATGC
261 GATGTCCCCCCACAGCACGAGGACCCACCGACTCAGCCACCACCACCCTCTCGTCCAGTTTATGC
6620750 GGCGGCTTCATATGCTGACATCTTTAAGTGCCTCACATGATTCGAGCAGTAGTATTTTTAGCGAT
326 GGCGGCTTCATATGCTGACATCTTTAAGTGCCTCACATGATTCGAGCAGTAGTATTTTTAGCGAT
6620815 TTGACAACATTGATGCTACTCTACAGCAGATTTGTCAACACCTTTACATCTCATCGCCAGTCCCA
391 TTGACAACATTGATGCTACTCTACAGCAGATTTGTCAACACCTTTACATCTCATCGCCAGTCCCA
6620880 CCTCGCGAACCATCCAGCGATGAAGATGTTTAGAAATATTTATTTATTATTTTATTATTTTAATT
456 CCTCGCGAACCATCCAGCGATGAAGATGTTTAGAAATATTTATTTATTATTTTATTATTTTAATT
6620945 TTTATTGAAACTACTT
521 TTTATTGAAACTACTT
6620961 TTTATTTTTG
Statistics
Matches: 536, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
536 536 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (536 bp):
CTACCGATTCAGTACCAGACGGAGCGGCATCGAAAGGGGGTCATCTCCATTGGCCCCATGTGACT
AGGCTGGCGCGACACTTCGGGCTCCTCAACATCGTAGCCCAAGAATCATCCCTCACCCTCATCGG
TCAGATGTCTCCACAAGGCATCTCGAGCATGCTTAGCATGAGGATGATCGAGAGGCACCGAGGAA
CCTACGCTCCCCACTATCGTCTCGTCCAATCTACTAAGGAGGAGGCCTACGAGGACATTCCTGAT
GATGTCCCCCCACAGCACGAGGACCCACCGACTCAGCCACCACCACCCTCTCGTCCAGTTTATGC
GGCGGCTTCATATGCTGACATCTTTAAGTGCCTCACATGATTCGAGCAGTAGTATTTTTAGCGAT
TTGACAACATTGATGCTACTCTACAGCAGATTTGTCAACACCTTTACATCTCATCGCCAGTCCCA
CCTCGCGAACCATCCAGCGATGAAGATGTTTAGAAATATTTATTTATTATTTTATTATTTTAATT
TTTATTGAAACTACTT
Found at i:6621977 original size:37 final size:37
Alignment explanation
Indices: 6621927--6622000 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
6621917 TATCTGTAAT
6621927 TTCATATTCTGAGAGAAGCTCGGTTGTACGCAAATGA
1 TTCATATTCTGAGAGAAGCTCGGTTGTACGCAAATGA
6621964 TTCATATTCTGAGAGAAGCTCGGTTGTACGCAAATGA
1 TTCATATTCTGAGAGAAGCTCGGTTGTACGCAAATGA
6622001 AGACTAACTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (37 bp):
TTCATATTCTGAGAGAAGCTCGGTTGTACGCAAATGA
Found at i:6631304 original size:49 final size:49
Alignment explanation
Indices: 6631236--6631516 Score: 332
Period size: 49 Copynumber: 5.7 Consensus size: 49
6631226 TCTATTGTGA
* * *
6631236 GGTCACGTATGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATTATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
* * * * *
6631285 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCG-ATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGAATAA-TT
* * **
6631335 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGA-ATAATT
*
6631385 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
**
6631435 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTGAATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
* * * *
6631484 GGTCGCATGTGTAGAACTAAGTTCAGGCTACTA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
6631517 TGCGTACGGA
Statistics
Matches: 198, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
49 112 0.57
50 51 0.26
51 35 0.18
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
Found at i:6631471 original size:99 final size:101
Alignment explanation
Indices: 6631236--6631523 Score: 370
Period size: 99 Copynumber: 2.9 Consensus size: 101
6631226 TCTATTGTGA
* * * * *
6631236 GGTCACGTATGTAGTACTAAGTGCAGGCTACTATGTGTA-CCGAATTATTGGTCGCATGTGTAGT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAATGATTGGTCACATGTGTAGT
* *
6631300 ACTAAGTGTAGGCTACTATGCGTACCCGATAACTTC
66 ACTAAGTGCAGGCTACTACGCGTACCCGATAACTTC
* * *
6631336 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG-ATGGTTAGGTCACGTGTGTAG
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAATGATT-GGTCACATGTGTAG
* *
6631400 TACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-
65 TACTAAGTGCAGGCTACTACGCGTACCCGATAACTTC
* * * *
6631435 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAT-TGAATAATTGGTCGCATGTGTAGA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAATGATTGGTCACATGTGTAGT
* *
6631499 ACTAAGTTCAGGCTACTATGCGTAC
66 ACTAAGTGCAGGCTACTACGCGTAC
6631524 GGATAGCTTT
Statistics
Matches: 163, Mismatches: 22, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
98 35 0.21
99 43 0.26
100 42 0.26
101 43 0.26
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (101 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAATGATTGGTCACATGTGTAGT
ACTAAGTGCAGGCTACTACGCGTACCCGATAACTTC
Found at i:6631546 original size:150 final size:150
Alignment explanation
Indices: 6631235--6631522 Score: 357
Period size: 150 Copynumber: 1.9 Consensus size: 150
6631225 ATCTATTGTG
* * * * *
6631235 AGGTCACGTATGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATTATTGGTCGCATGTGTAGT
1 AGGTCAAGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCACATGTGTAGT
* * * *
6631300 ACTAAGTGTAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTACGCGTACCCGATAACTTCGATCACATGTGTAGAACTAAGTGCAGGCT
* *
6631365 ACTACGTGTATCAGATGGTT
131 ACTACGCGTATCAGATGCTT
* * *
6631385 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTGTGTAGT
1 AGGTCAAGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCACATGTGTAGT
* ** * * *
6631450 ACTAAGTGCAGGCTACTACGTGTA-TTGAATAA-TT-GGTCGCATGTGTAGAACTAAGTTCAGGC
66 ACTAAGTGCAGGCTACTACGCGTACCCG-ATAACTTCGATCACATGTGTAGAACTAAGTGCAGGC
*
6631512 TACTATGCGTA
130 TACTACGCGTA
6631523 CGGATAGCTT
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
148 32 0.27
149 3 0.03
150 84 0.71
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (150 bp):
AGGTCAAGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCACATGTGTAGT
ACTAAGTGCAGGCTACTACGCGTACCCGATAACTTCGATCACATGTGTAGAACTAAGTGCAGGCT
ACTACGCGTATCAGATGCTT
Found at i:6648612 original size:24 final size:25
Alignment explanation
Indices: 6648565--6648627 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
6648555 CTATATAATA
* *
6648565 GGAAGCTCA-TAAGAGCCATAATTG
1 GGAAGCTCACAAAGAACCATAATTG
*
6648589 GGAAGTTCACAAAGAACCAT-ATTG
1 GGAAGCTCACAAAGAACCATAATTG
*
6648613 GGAAGCTCACGAAGA
1 GGAAGCTCACAAAGA
6648628 GCTTATCATG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 25 0.76
25 8 0.24
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.17
Consensus pattern (25 bp):
GGAAGCTCACAAAGAACCATAATTG
Found at i:6653841 original size:22 final size:21
Alignment explanation
Indices: 6653780--6653837 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
6653770 AAGGGAGAGC
* *
6653780 AAAAACATAAAGTACAGAAGA
1 AAAAACGTAAAGTGCAGAAGA
* * **
6653801 AAAAATGCAAACCGCAGAAGA
1 AAAAACGTAAAGTGCAGAAGA
6653822 AAAAACGTAAAGTGCA
1 AAAAACGTAAAGTGCA
6653838 AGAAATAACC
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.60, C:0.14, G:0.17, T:0.09
Consensus pattern (21 bp):
AAAAACGTAAAGTGCAGAAGA
Found at i:6660400 original size:37 final size:38
Alignment explanation
Indices: 6660359--6660446 Score: 119
Period size: 37 Copynumber: 2.3 Consensus size: 38
6660349 AAAAAATAGT
6660359 ATTATTTTAATAGT-TTATTATTAAATTTAAT-TTAAAA-
1 ATTATTTTAATAGTATT-TTATT-AATTTAATATTAAAAG
6660396 ATTATTTTAATAGTATTTTATTAATTTAATATTAAAATG
1 ATTATTTTAATAGTATTTTATTAATTTAATATTAAAA-G
*
6660435 ATTATCTTAATA
1 ATTATTTTAATA
6660447 TTGAAACGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
36 8 0.17
37 25 0.54
38 2 0.04
39 11 0.24
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (38 bp):
ATTATTTTAATAGTATTTTATTAATTTAATATTAAAAG
Found at i:6661552 original size:36 final size:36
Alignment explanation
Indices: 6661498--6661568 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
6661488 CATTGTTGAT
6661498 ATTCAGTTCAGCAAGCTTTTGGATCTATTCTGACTA
1 ATTCAGTTCAGCAAGCTTTTGGATCTATTCTGACTA
* * *
6661534 ATTCAGTTCAGTAGGCTTTTGGATCTATTTTGACT
1 ATTCAGTTCAGCAAGCTTTTGGATCTATTCTGACT
6661569 GATGCGTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (36 bp):
ATTCAGTTCAGCAAGCTTTTGGATCTATTCTGACTA
Found at i:6664323 original size:27 final size:27
Alignment explanation
Indices: 6664269--6664323 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
6664259 CATCTCATAA
* *
6664269 GGGCATATCGGTCATTTTACCATGTAG
1 GGGCATATCAGTCATTTTACAATGTAG
*
6664296 GGGCATTTCAGTCATTTTATCAAT-TAG
1 GGGCATATCAGTCATTTTA-CAATGTAG
6664323 G
1 G
6664324 AGGTCTAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (27 bp):
GGGCATATCAGTCATTTTACAATGTAG
Found at i:6666082 original size:79 final size:81
Alignment explanation
Indices: 6665946--6666130 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
6665936 TTGAATGATG
*
6665946 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
6666010 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
6666025 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
6666087 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
6666105 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
6666131 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:6666144 original size:40 final size:40
Alignment explanation
Indices: 6665947--6666130 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
6665937 TGAATGATGT
* * * *
6665947 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
6665987 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
6666027 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
6666065 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
6666106 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
6666131 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:6666152 original size:79 final size:79
Alignment explanation
Indices: 6665999--6666163 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
6665989 GGACTAAGAT
* **
6665999 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
6666064 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
6666078 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
6666141 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
6666157 CCGAAGG
1 CCGAAGG
6666164 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:6667666 original size:17 final size:18
Alignment explanation
Indices: 6667644--6667678 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
6667634 GTTAACCCGT
6667644 GTGGGGCCCACGT-GCTC
1 GTGGGGCCCACGTAGCTC
6667661 GTGGGGCCCACGTAGCTC
1 GTGGGGCCCACGTAGCTC
6667679 AATTCGGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.09, C:0.34, G:0.40, T:0.17
Consensus pattern (18 bp):
GTGGGGCCCACGTAGCTC
Found at i:6675305 original size:27 final size:27
Alignment explanation
Indices: 6675248--6675307 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
6675238 ATACATCTCA
* *
6675248 TAGGGGCATATTGGTCATTTTACCATG
1 TAGGGGCATATTAGTCATTTTACAATG
*
6675275 TAGGGGCATTTTAGTCATTTTATCAAT-
1 TAGGGGCATATTAGTCATTTTA-CAATG
6675302 TAGGGG
1 TAGGGG
6675308 GTCTAGGTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.23, C:0.12, G:0.27, T:0.38
Consensus pattern (27 bp):
TAGGGGCATATTAGTCATTTTACAATG
Found at i:6679676 original size:12 final size:12
Alignment explanation
Indices: 6679653--6679696 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
6679643 AAGACAAAGA
*
6679653 TAAAAATGAAAAT
1 TAAAAAT-AAAAC
6679666 TAAAAATAAAAC
1 TAAAAATAAAAC
*
6679678 TAAAACTAAAAC
1 TAAAAATAAAAC
6679690 TAAAAAT
1 TAAAAAT
6679697 TTTAAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 21 0.75
13 7 0.25
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.20
Consensus pattern (12 bp):
TAAAAATAAAAC
Found at i:6679707 original size:6 final size:6
Alignment explanation
Indices: 6679661--6679694 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
6679651 GATAAAAATG
* *
6679661 AAAATT AAAAAT AAAACT AAAACT AAAACT AAAA
1 AAAACT AAAACT AAAACT AAAACT AAAACT AAAA
6679695 ATTTTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAACT
Found at i:6685568 original size:42 final size:43
Alignment explanation
Indices: 6685507--6685605 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 43
6685497 GTTGAAATTA
* * **
6685507 CGTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTT
1 CGTGTAAGACCATAGCTGGGATATTGGCATCGATATAAGATCC
6685549 CGTGTAAGACCATAGCTGGGATATTGGCATCGATATAAGATCC
1 CGTGTAAGACCATAGCTGGGATATTGGCATCGATATAAGATCC
*
6685592 CATGTAAGACCATA
1 CGTGTAAGACCATA
6685606 TGGCATTGGT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 22 0.43
43 29 0.57
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (43 bp):
CGTGTAAGACCATAGCTGGGATATTGGCATCGATATAAGATCC
Found at i:6687552 original size:92 final size:92
Alignment explanation
Indices: 6687393--6687578 Score: 318
Period size: 92 Copynumber: 2.0 Consensus size: 92
6687383 GTAGTCAATA
** * *
6687393 TAGATTCTCCAACCTGTGGCAGTTCTCATTGGGATTAACTCGTTACGTTCATTCTTGACAATCGT
1 TAGATTCTCCAACCCATGACAGTTCTCATTGGGATTAACTCATTACGTTCATTCTTGACAATCGT
6687458 GATTCCTCCTTTCTTTGGTACACATTG
66 GATTCCTCCTTTCTTTGGTACACATTG
*
6687485 TAGATTCTCCAACCCATGACAGTTCTCATTGGGATTAACTCATTACGTTCATTCTTGACAATTGT
1 TAGATTCTCCAACCCATGACAGTTCTCATTGGGATTAACTCATTACGTTCATTCTTGACAATCGT
*
6687550 GATTCCTCCTTTCTTTGGTACGCATTG
66 GATTCCTCCTTTCTTTGGTACACATTG
6687577 TA
1 TA
6687579 CTGGACTTAC
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 88 1.00
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (92 bp):
TAGATTCTCCAACCCATGACAGTTCTCATTGGGATTAACTCATTACGTTCATTCTTGACAATCGT
GATTCCTCCTTTCTTTGGTACACATTG
Found at i:6696164 original size:37 final size:37
Alignment explanation
Indices: 6696114--6696187 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
6696104 GACGAAGTCT
6696114 GCTCACTTCATTCCGGTTCGAACGAACTACTCTCTAC
1 GCTCACTTCATTCCGGTTCGAACGAACTACTCTCTAC
6696151 GCTCACTTCATTCCGGTTCGAACGAACTACTCTCTAC
1 GCTCACTTCATTCCGGTTCGAACGAACTACTCTCTAC
6696188 AGAAGTTAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.22, C:0.35, G:0.14, T:0.30
Consensus pattern (37 bp):
GCTCACTTCATTCCGGTTCGAACGAACTACTCTCTAC
Found at i:6697498 original size:10 final size:10
Alignment explanation
Indices: 6697483--6697517 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
6697473 TGAGAAGTCA
*
6697483 TAAGTTATGG
1 TAAGTTGTGG
6697493 TAAGTTGTGG
1 TAAGTTGTGG
6697503 TAAGTTGTGG
1 TAAGTTGTGG
6697513 TAAGT
1 TAAGT
6697518 GGTCTCTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.40
Consensus pattern (10 bp):
TAAGTTGTGG
Found at i:6697957 original size:40 final size:41
Alignment explanation
Indices: 6697877--6697962 Score: 95
Period size: 40 Copynumber: 2.1 Consensus size: 41
6697867 CTCGTGTGGT
* * * * *
6697877 AGGCCGTGTGTGAGTACACGGTCGTGTGGTCGACGAAGGCA
1 AGGCCGTGTGTCAGCACACGGCCGTGTGGGCCACGAAGGCA
*
6697918 TGGCCGTGTG-CAGCACACGGCCGTGTGGGCCAC-ACAGGCA
1 AGGCCGTGTGTCAGCACACGGCCGTGTGGGCCACGA-AGGCA
6697958 AGGCC
1 AGGCC
6697963 AATCTTGGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
39 1 0.03
40 27 0.73
41 9 0.24
ACGTcount: A:0.19, C:0.27, G:0.40, T:0.15
Consensus pattern (41 bp):
AGGCCGTGTGTCAGCACACGGCCGTGTGGGCCACGAAGGCA
Found at i:6704680 original size:19 final size:19
Alignment explanation
Indices: 6704656--6704716 Score: 113
Period size: 19 Copynumber: 3.2 Consensus size: 19
6704646 GACAATGTGG
*
6704656 AAGTAGACTCGATACGGTT
1 AAGTAGACTCGATACAGTT
6704675 AAGTAGACTCGATACAGTT
1 AAGTAGACTCGATACAGTT
6704694 AAGTAGACTCGATACAGTT
1 AAGTAGACTCGATACAGTT
6704713 AAGT
1 AAGT
6704717 CTATCCACTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (19 bp):
AAGTAGACTCGATACAGTT
Found at i:6716435 original size:33 final size:33
Alignment explanation
Indices: 6716398--6716493 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 33
6716388 TGCAAAGGTT
6716398 AGGTATACTTTGTGTATACCA-TATGAAAAGGAA
1 AGGTATACTTTGTGTATACCACT-TGAAAAGGAA
6716431 AGGTATACTTTGTGTATACCACTTGAAAAGGAA
1 AGGTATACTTTGTGTATACCACTTGAAAAGGAA
* * * *
6716464 AGGTACACTATATGTGTA-CACTTGAAAAGG
1 AGGTATACTTTGTGTATACCACTTGAAAAGG
6716494 CTATGTGCAC
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
32 12 0.21
33 45 0.78
34 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (33 bp):
AGGTATACTTTGTGTATACCACTTGAAAAGGAA
Found at i:6716506 original size:65 final size:66
Alignment explanation
Indices: 6716437--6716598 Score: 175
Period size: 66 Copynumber: 2.5 Consensus size: 66
6716427 GGAAAGGTAT
* * *
6716437 ACTTTGTGTATACCACTTGAAAAGGAAAGGTACACTAT-ATGTGTA-CACTTGAAAAGGCTATGT
1 ACTTTGTGTGTACAACTTGAAAAGGAAAGGTACACT-TCATGTGTACCACTTGAAAAGGCAATGT
6716500 GC
65 GC
* ** * * * *
6716502 ACTTTGTGTGTACAAATTGAAAAGGGTATGTACACTTCGTGTGTACCATTTGAAAAGGGAATGTG
1 ACTTTGTGTGTACAACTTGAAAAGGAAAGGTACACTTCATGTGTACCACTTGAAAAGGCAATGTG
6716567 C
66 C
* * * *
6716568 ACCTCGGGTGTACAACTAGAAAAGGAAAGGT
1 ACTTTGTGTGTACAACTTGAAAAGGAAAGGT
6716599 CCATCGAAAA
Statistics
Matches: 77, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
64 1 0.01
65 36 0.47
66 40 0.52
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (66 bp):
ACTTTGTGTGTACAACTTGAAAAGGAAAGGTACACTTCATGTGTACCACTTGAAAAGGCAATGTG
C
Found at i:6716525 original size:33 final size:33
Alignment explanation
Indices: 6716476--6716592 Score: 137
Period size: 33 Copynumber: 3.6 Consensus size: 33
6716466 GTACACTATA
* *
6716476 TGTGTAC-ACTTGAAAAGGCTATGTGCACTTTG
1 TGTGTACAACTTGAAAAGGGTATGTGCACTTCG
* *
6716508 TGTGTACAAATTGAAAAGGGTATGTACACTTCG
1 TGTGTACAACTTGAAAAGGGTATGTGCACTTCG
* * * *
6716541 TGTGTACCATTTGAAAAGGGAATGTGCACCTCG
1 TGTGTACAACTTGAAAAGGGTATGTGCACTTCG
* *
6716574 GGTGTACAACTAGAAAAGG
1 TGTGTACAACTTGAAAAGG
6716593 AAAGGTCCAT
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
32 7 0.10
33 64 0.90
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (33 bp):
TGTGTACAACTTGAAAAGGGTATGTGCACTTCG
Found at i:6724000 original size:33 final size:33
Alignment explanation
Indices: 6723963--6724058 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 33
6723953 TGCAAAGGTT
6723963 AGGTATACTTTGTGTATACCA-TATGAAAAGGAA
1 AGGTATACTTTGTGTATACCACT-TGAAAAGGAA
6723996 AGGTATACTTTGTGTATACCACTTGAAAAGGAA
1 AGGTATACTTTGTGTATACCACTTGAAAAGGAA
* * * *
6724029 AGGTACACTATATGTGTA-CACTTGAAAAGG
1 AGGTATACTTTGTGTATACCACTTGAAAAGG
6724059 CTATGTGCAC
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
32 12 0.21
33 45 0.78
34 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (33 bp):
AGGTATACTTTGTGTATACCACTTGAAAAGGAA
Done.