Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 39 of 276
Found at i:12304965 original size:21 final size:18
Alignment explanation
Indices: 12304934--12304972 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 18
12304924 TAAAATAGAT
12304934 AATATATAAAATAGTTTAA
1 AATATATAAAATA-TTTAA
12304953 AATATATGAAAAATATTTAA
1 AATATAT--AAAATATTTAA
12304973 TAAATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
AATATATAAAATATTTAA
Found at i:12306279 original size:12 final size:12
Alignment explanation
Indices: 12306262--12306300 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
12306252 TGTAGAACTT
12306262 TTTTATTTTTGG
1 TTTTATTTTTGG
12306274 TTTTA-TTTT-G
1 TTTTATTTTTGG
12306284 TTTTATTTTTTGG
1 TTTTA-TTTTTGG
12306297 TTTT
1 TTTT
12306301 TGGGCCCCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.25
11 4 0.17
12 9 0.38
13 5 0.21
ACGTcount: A:0.08, C:0.00, G:0.13, T:0.79
Consensus pattern (12 bp):
TTTTATTTTTGG
Found at i:12308321 original size:21 final size:21
Alignment explanation
Indices: 12308295--12308337 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
12308285 AATGAGGAGC
12308295 ATTAGGAGAAGGTTGAACTCA
1 ATTAGGAGAAGGTTGAACTCA
12308316 ATTAGGAGAAGGTTGAACTCA
1 ATTAGGAGAAGGTTGAACTCA
12308337 A
1 A
12308338 GGGACAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.23
Consensus pattern (21 bp):
ATTAGGAGAAGGTTGAACTCA
Found at i:12314223 original size:19 final size:20
Alignment explanation
Indices: 12314181--12314225 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
12314171 TTGGGCCTTA
12314181 CCCATATTAACACAGTTGGG
1 CCCATATTAACACAGTTGGG
* *
12314201 CCCATTTTAATACAGTT-GG
1 CCCATATTAACACAGTTGGG
12314220 CCCATA
1 CCCATA
12314226 ACAAAACAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (20 bp):
CCCATATTAACACAGTTGGG
Found at i:12317939 original size:132 final size:132
Alignment explanation
Indices: 12317729--12318065 Score: 507
Period size: 132 Copynumber: 2.6 Consensus size: 132
12317719 TGAAAAATCG
* * * ** * **
12317729 CAACCCAGCACGATAGGGCACAATT-CTCGAATCACCAAACATCGAACATTTCCTTCGTTTCAAA
1 CAACCCAGCACGTTAGGGCACGATTCCACGAATTGCCAAATATCGAACATCGCCTTCGTTTCAAA
12317793 GAGTTTTTAGGAAACATGAATGAAATTCTAAAGGGACATTCAATTATTTTGAGCAAACGAGAAAT
66 GAGTTTTTAGGAAACATGAATGAAATTCTAAAGGGACATTCAATTATTTTGAGCAAACGAGAAAT
12317858 TA
131 TA
*
12317860 CAACCCAGCACGTTAGGGCACGATTCCACCAATTGCCAAATATCGAACATCGCCTTCGTTTCAAA
1 CAACCCAGCACGTTAGGGCACGATTCCACGAATTGCCAAATATCGAACATCGCCTTCGTTTCAAA
**
12317925 GAGTTTTTAGGAAACATGAATGAAATTCTAAAGGGACATTTGATTATTTTGAGCAAACGAGAAAT
66 GAGTTTTTAGGAAACATGAATGAAATTCTAAAGGGACATTCAATTATTTTGAGCAAACGAGAAAT
*
12317990 TG
131 TA
* * *
12317992 CAACCCAGCACGTTAGGGCACGATTCCGA-GAATTGTCAAATATCGAACATCGCCTTCATTTTAA
1 CAACCCAGCACGTTAGGGCACGATTCC-ACGAATTGCCAAATATCGAACATCGCCTTCGTTTCAA
*
12318056 AGAATTTTTA
65 AGAGTTTTTA
12318066 AATGAATAAA
Statistics
Matches: 187, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
131 23 0.12
132 163 0.87
133 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (132 bp):
CAACCCAGCACGTTAGGGCACGATTCCACGAATTGCCAAATATCGAACATCGCCTTCGTTTCAAA
GAGTTTTTAGGAAACATGAATGAAATTCTAAAGGGACATTCAATTATTTTGAGCAAACGAGAAAT
TA
Found at i:12321056 original size:133 final size:133
Alignment explanation
Indices: 12320830--12321089 Score: 387
Period size: 133 Copynumber: 2.0 Consensus size: 133
12320820 ATCTGTAATA
* * *
12320830 TTCAGCCTACTCCGCTACAACTTTAGAGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACT
1 TTCAGCCTACTCCACTACAACTTTAGAGAGATAGGATGATGGCTTAAATCTACTTCACTGCAACT
*
12320895 TCAAAAAGACAAGATTCACCGTTTTCGATCTACTCCACTGCAACTTCAGGGAAACAAGATCTACA
66 TCAAAAAGACAAGATTCACCGTCTTCGATCTACTCCACTGCAACTTCAGGGAAACAAGATCTACA
12320960 ATC
131 ATC
* * * *
12320963 TTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGATGGCTTAAATCTACTTTATTGCAACT
1 TTCAGCCTACTCCACTACAACTTTAGAGAGATAGGATGATGGCTTAAATCTACTTCACTGCAACT
* * * * *
12321028 TCAGGAAA-ACTAGATTCGCTGTCTTCGATCTACTCCACTGCAACTTCAGGGAGACAAGATCT
66 TCA-AAAAGACAAGATTCACCGTCTTCGATCTACTCCACTGCAACTTCAGGGAAACAAGATCT
12321090 GTAGAATTCA
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
133 110 0.97
134 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (133 bp):
TTCAGCCTACTCCACTACAACTTTAGAGAGATAGGATGATGGCTTAAATCTACTTCACTGCAACT
TCAAAAAGACAAGATTCACCGTCTTCGATCTACTCCACTGCAACTTCAGGGAAACAAGATCTACA
ATC
Found at i:12340630 original size:44 final size:44
Alignment explanation
Indices: 12340582--12340720 Score: 133
Period size: 44 Copynumber: 3.1 Consensus size: 44
12340572 TACTGCAACT
12340582 TTAGGGAGATAAGACTTGCAATTTTCAGCCTGTTACCCTACTAC
1 TTAGGGAGATAAGACTTGCAATTTTCAGCCTGTTACCCTACTAC
* * * * * *
12340626 TTAGGG-GATTA-ACGTT-CAGTGTCTTCAGTCTGCT-CCACTGCAAC
1 TTAGGGAGATAAGAC-TTGCAAT-T-TTCAGCCTGTTACC-CTACTAC
* *
12340670 TTCAGGGAGATAAGACTTGTAATTTTCAACCTGTTACCCTACTAC
1 TT-AGGGAGATAAGACTTGCAATTTTCAGCCTGTTACCCTACTAC
12340715 TTAGGG
1 TTAGGG
12340721 GATTTACGCT
Statistics
Matches: 72, Mismatches: 14, Indels: 18
0.69 0.13 0.17
Matches are distributed among these distances:
42 5 0.07
43 9 0.12
44 26 0.36
45 19 0.26
46 9 0.12
47 4 0.06
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.32
Consensus pattern (44 bp):
TTAGGGAGATAAGACTTGCAATTTTCAGCCTGTTACCCTACTAC
Found at i:12340670 original size:89 final size:89
Alignment explanation
Indices: 12340573--12340879 Score: 406
Period size: 89 Copynumber: 3.4 Consensus size: 89
12340563 GATCTACTCT
* *
12340573 ACTGCAACTTTAGGGAGATAAGA-CTTGCAATTTTCAGCCTGTTACCCTACTACTTAGGGGATTA
1 ACTGCAACTTCAGGGAGATAAGATC-TGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGATTA
* *
12340637 ACGTTCAGTGTCTTCAGTCTGCTCC
65 ACGTTCAATGTCTTCAGTTTGCTCC
* * * *
12340662 ACTGCAACTTCAGGGAGATAAGA-CTTGTAATTTTCAACCTGTTACCCTACTACTTAGGGGATTT
1 ACTGCAACTTCAGGGAGATAAGATC-TGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGATTA
*
12340726 ACGCTCAATGTCTTC-GATTTGCTCC
65 ACGTTCAATGTCTTCAG-TTTGCTCC
* *
12340751 ACTGCAACTTCAGGGAGATAAGATCTGCAATCTTCGGCCTGTTACCCTACTACTTAGGGGGTTAA
1 ACTGCAACTTCAGGGAGATAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGATTAA
* *
12340816 -GTCTCATTGTCTTCAATTTGCTCC
66 CGT-TCAATGTCTTCAGTTTGCTCC
* * *
12340840 ACTACAACTTCAGGGAGAAAAGATCTACAATCTTCAGCCT
1 ACTGCAACTTCAGGGAGATAAGATCTGCAATCTTCAGCCT
12340880 ACTCCACTAC
Statistics
Matches: 194, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
88 2 0.01
89 191 0.98
90 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (89 bp):
ACTGCAACTTCAGGGAGATAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGATTAA
CGTTCAATGTCTTCAGTTTGCTCC
Found at i:12340952 original size:88 final size:87
Alignment explanation
Indices: 12340830--12341038 Score: 294
Period size: 88 Copynumber: 2.4 Consensus size: 87
12340820 CATTGTCTTC
* * *
12340830 AATTTGCTCCACTACAACTTCAGGGAGAAAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
1 AATTTGCTTCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAAC-T
* * *
12340895 TAGGGAGATA-GAGTGGTGGCTTA
65 TAAGAAGATAGGA-TGGTAGCTTA
* *
12340918 AATTTGCTTCACTGCAACTTCAGGGAGACGAGATCTACAATCTTTAGCCTACTCCACTACAACTT
1 AATTTGCTTCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
12340983 AAGAAGATAGGATGGTAGCTTA
66 AAGAAGATAGGATGGTAGCTTA
* * *
12341005 AATCTGCTTCATTGCAACTTCAGGAAGACAAGAT
1 AATTTGCTTCACTGCAACTTCAGGGAGACAAGAT
12341039 TCGCCGTCTT
Statistics
Matches: 108, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
87 48 0.44
88 60 0.56
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (87 bp):
AATTTGCTTCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTT
AAGAAGATAGGATGGTAGCTTA
Found at i:12353060 original size:262 final size:263
Alignment explanation
Indices: 12352676--12353196 Score: 647
Period size: 262 Copynumber: 2.0 Consensus size: 263
12352666 ATTTAAAGAG
* *
12352676 CATGAGTGAAATTCTAAAGGAATCTTCGATTATTTTGGACAAACAAGAAACCGCAACCCAGCACG
1 CATGAATGAAATTCTAAAGGAATCTTCGATTATTTTGGACAAACAAGAAACCGCAACACAGCACG
* * * **
12352741 ATAGGGCACAATTCCCCGAATTGCCAAACATCGAATATTACCTTTGTTTTGAAGAGTTTTTA-AA
66 ATAGGGCACAATTCCCCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTAGAA
* * * *
12352805 GACATGAGTGAAATTCCAAAGGAATC-TTTGATTGTTTTGAACAAATGAAAAATCGCAACCCAGC
131 -ACATGAATGAAATTCCAAAGGAA-CATTCGATTATTTTGAACAAATGAAAAATCGCAACACAGC
* ** *
12352869 ACGATAGGGCACAATT-CTCGAATCGCCAAACATCGAACATTTCCTTCGTTTCAAAGAGTTTTTA
194 ACGATAGGGCACAATTCCGCGAATCGCCAAACATCGAACATCGCCTTCGTTTCAAAGAATTTTTA
12352933 GGAAA
259 GGAAA
* ** **
12352938 CATGAATGAAATTCTAAAGGGA-CATTCGATTATTTT-GAGCAAATGAGAAATTGCAACACAGCA
1 CATGAATGAAATTCTAAAGGAATC-TTCGATTATTTTGGA-CAAACAAGAAACCGCAACACAGCA
* * * * *
12353001 CGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCCCCTTCGTTTCAAAGAGTTTTTAG
64 CGATAGGGCACAATTCCCCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTA-
* * * * *
12353066 GAAACATGAATGAAATTCTAAAGGGACATTCGATTATTTTGAGCAAATGAGAAATTGCAACACAG
128 GAAACATGAATGAAATTCCAAAGGAACATTCGATTATTTTGAACAAATGAAAAATCGCAACACAG
* * * * *
12353131 CACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTT
193 CACGATAGGGCACAATTCCGCGAATCGCCAAACATCGAACATCGCCTTCGTTTCAAAGAATTTTT
12353196 A
258 A
12353197 AATGAATAAT
Statistics
Matches: 218, Mismatches: 35, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
261 3 0.01
262 106 0.49
263 66 0.30
264 43 0.20
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (263 bp):
CATGAATGAAATTCTAAAGGAATCTTCGATTATTTTGGACAAACAAGAAACCGCAACACAGCACG
ATAGGGCACAATTCCCCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTAGAA
ACATGAATGAAATTCCAAAGGAACATTCGATTATTTTGAACAAATGAAAAATCGCAACACAGCAC
GATAGGGCACAATTCCGCGAATCGCCAAACATCGAACATCGCCTTCGTTTCAAAGAATTTTTAGG
AAA
Found at i:12353073 original size:132 final size:132
Alignment explanation
Indices: 12352676--12353196 Score: 640
Period size: 132 Copynumber: 4.0 Consensus size: 132
12352666 ATTTAAAGAG
* ** * *
12352676 CATGAGTGAAATTCTAAAGGAATCTTCGATTATTTTG-GACAAACAAGAAACCGCAACCCAGCAC
1 CATGAATGAAATTCTAAAGGAATCTTCGATTATTTTGAG-CAAATGAGAAATCGCAACACAGCAC
* * * * **
12352740 GATAGGGCACAATTCCCCGAATTGCCAAACATCGAATATTACCTTTGTTTTGAAGAGTTTTTA--
65 GATAGGGCACAATTCCGCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTAGG
12352803 AAGA
130 AA-A
* * * * * * *
12352807 CATGAGTGAAATTCCAAAGGAATCTTTGATTGTTTTGAACAAATGAAAAATCGCAACCCAGCACG
1 CATGAATGAAATTCTAAAGGAATCTTCGATTATTTTGAGCAAATGAGAAATCGCAACACAGCACG
* * **
12352872 ATAGGGCACAATT-CTCGAATCGCCAAACATCGAACATTTCCTTCGTTTCAAAGAGTTTTTAGGA
66 ATAGGGCACAATTCCGCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTAGGA
12352936 AA
131 AA
* *
12352938 CATGAATGAAATTCTAAAGGGA-CATTCGATTATTTTGAGCAAATGAGAAATTGCAACACAGCAC
1 CATGAATGAAATTCTAAAGGAATC-TTCGATTATTTTGAGCAAATGAGAAATCGCAACACAGCAC
* * * *
12353002 GTTAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCCCCTTCGTTTCAAAGAGTTTTTAGG
65 GATAGGGCACAATTCCGCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTAGG
12353067 AAA
130 AAA
* *
12353070 CATGAATGAAATTCTAAAGGGA-CATTCGATTATTTTGAGCAAATGAGAAATTGCAACACAGCAC
1 CATGAATGAAATTCTAAAGGAATC-TTCGATTATTTTGAGCAAATGAGAAATCGCAACACAGCAC
* * * * * *
12353134 GTTAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTA
65 GATAGGGCACAATTCCGCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTA
12353197 AATGAATAAT
Statistics
Matches: 351, Mismatches: 34, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
130 42 0.12
131 135 0.38
132 174 0.50
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (132 bp):
CATGAATGAAATTCTAAAGGAATCTTCGATTATTTTGAGCAAATGAGAAATCGCAACACAGCACG
ATAGGGCACAATTCCGCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTAGGA
AA
Found at i:12357198 original size:12 final size:12
Alignment explanation
Indices: 12357181--12357205 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12357171 TACACCGTAT
12357181 CGGTAATAGTAA
1 CGGTAATAGTAA
12357193 CGGTAATAGTAA
1 CGGTAATAGTAA
12357205 C
1 C
12357206 AGTAGCGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (12 bp):
CGGTAATAGTAA
Found at i:12358179 original size:15 final size:15
Alignment explanation
Indices: 12358161--12358190 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12358151 TCATGTTCTA
12358161 TTCTTTCTATTATTT
1 TTCTTTCTATTATTT
*
12358176 TTCTTTCTTTTATTT
1 TTCTTTCTATTATTT
12358191 AACTATTATA
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:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (15 bp):
TTCTTTCTATTATTT
Found at i:12358255 original size:19 final size:19
Alignment explanation
Indices: 12358231--12358269 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12358221 AATACTTATT
*
12358231 TATTATTTA-TACATGTGTA
1 TATTA-TTAGTACATATGTA
12358250 TATTATTAGTACATATGTA
1 TATTATTAGTACATATGTA
12358269 T
1 T
12358270 CCATATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TATTATTAGTACATATGTA
Found at i:12358317 original size:15 final size:14
Alignment explanation
Indices: 12358294--12358332 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
12358284 ACACTTGTCT
12358294 TTTATTTATTATAC
1 TTTATTTATTATAC
*
12358308 TTTATATTATTATATT
1 TTTAT-TTATTATA-C
12358324 TTTATTTAT
1 TTTATTTAT
12358333 AATTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 12 0.55
16 5 0.23
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTTATTATAC
Found at i:12359160 original size:21 final size:21
Alignment explanation
Indices: 12359109--12359163 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
12359099 CCTCTATCTA
*
12359109 TCAATTCTTGTAACTAAGCTT
1 TCAATTCTTTTAACTAAGCTT
12359130 TCAATTCTTTTAACTAAGCTT
1 TCAATTCTTTTAACTAAGCTT
12359151 TCAATTCTTTTAA
1 TCAATTCTTTTAA
12359164 TTCAGTAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.47
Consensus pattern (21 bp):
TCAATTCTTTTAACTAAGCTT
Found at i:12363544 original size:15 final size:15
Alignment explanation
Indices: 12363524--12363555 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
12363514 GATATTTTAA
*
12363524 TTATATTATAATATG
1 TTATATTATAACATG
12363539 TTATATTATAACATG
1 TTATATTATAACATG
12363554 TT
1 TT
12363556 TTTTTTAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (15 bp):
TTATATTATAACATG
Found at i:12366114 original size:26 final size:25
Alignment explanation
Indices: 12366069--12366117 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
12366059 CAAGTTGGCT
12366069 TCTTATTTATTTTATAATTAATTAA
1 TCTTATTTATTTTATAATTAATTAA
* *
12366094 TCTTTTTTACTTTTATCATTAATT
1 TCTTATTTA-TTTTATAATTAATT
12366118 GTTATATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (25 bp):
TCTTATTTATTTTATAATTAATTAA
Found at i:12368677 original size:22 final size:22
Alignment explanation
Indices: 12368649--12368692 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
12368639 ATATTAGTTC
12368649 AACCTATTATAAAACTATCCAT
1 AACCTATTATAAAACTATCCAT
12368671 AACCTATTATAAAACTATCCAT
1 AACCTATTATAAAACTATCCAT
12368693 TTTCGTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (22 bp):
AACCTATTATAAAACTATCCAT
Found at i:12369712 original size:22 final size:22
Alignment explanation
Indices: 12369667--12369709 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
12369657 ACCTACACAA
12369667 CATAACATAACACCAATTTAAG
1 CATAACATAACACCAATTTAAG
*
12369689 CATATACATACCACCAATTTA
1 CATA-ACATAACACCAATTTA
12369710 GCAACAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.26
Consensus pattern (22 bp):
CATAACATAACACCAATTTAAG
Found at i:12370446 original size:43 final size:43
Alignment explanation
Indices: 12370366--12370484 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 43
12370356 ATACCAATGT
* ** * *
12370366 CATATCCCAGATATGGTCTTACATGT-GATCTCGTATCGATGC
1 CATAGCCCAGATATGGTCTTACACATAAATCTCATATCGATGC
** *
12370408 CAATAGCCCATCTATGGTCTTACACA-AAGTCTCATATCGATGC
1 C-ATAGCCCAGATATGGTCTTACACATAAATCTCATATCGATGC
* *
12370451 CATATCCTAGATATGGTCTTACACATAAATCTCA
1 CATAGCCCAGATATGGTCTTACACATAAATCTCA
12370485 GTAACCCTAA
Statistics
Matches: 61, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
42 21 0.34
43 40 0.66
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (43 bp):
CATAGCCCAGATATGGTCTTACACATAAATCTCATATCGATGC
Found at i:12376867 original size:31 final size:31
Alignment explanation
Indices: 12376829--12376889 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
12376819 TTTTTTGGAG
*
12376829 AATGAAAGGTCAAGATTCATTGGTTTATGGC
1 AATGAAAGGTCAAGAGTCATTGGTTTATGGC
12376860 AATGAAAGGTCAAGAGTCATTGGTTTATGG
1 AATGAAAGGTCAAGAGTCATTGGTTTATGG
12376890 TTTTTTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (31 bp):
AATGAAAGGTCAAGAGTCATTGGTTTATGGC
Found at i:12381232 original size:31 final size:31
Alignment explanation
Indices: 12381186--12381246 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
12381176 TTTTTAAGAG
* *
12381186 AATGAAAAGTTAAGAGTCATTGGTTTATGGC
1 AATGAAAAGTCAAGAGTCATTGGTTAATGGC
*
12381217 AATGAAAGGTCAAGAGTCATTGGTTAATGG
1 AATGAAAAGTCAAGAGTCATTGGTTAATGG
12381247 TTTTTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.30
Consensus pattern (31 bp):
AATGAAAAGTCAAGAGTCATTGGTTAATGGC
Found at i:12386929 original size:16 final size:16
Alignment explanation
Indices: 12386910--12386966 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
12386900 CATCTTGTTA
12386910 GCCGAATTTCTTTGTG
1 GCCGAATTTCTTTGTG
* * *
12386926 GCCGAATCCTCTATTTTA
1 GCCGAAT-TTCT-TTGTG
*
12386944 GCCAAATTTCTTTGTG
1 GCCGAATTTCTTTGTG
*
12386960 GCTGAAT
1 GCCGAAT
12386967 CCTCTATTAT
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
16 15 0.50
17 6 0.20
18 9 0.30
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (16 bp):
GCCGAATTTCTTTGTG
Found at i:12386952 original size:34 final size:34
Alignment explanation
Indices: 12386907--12386974 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
12386897 TCACATCTTG
*
12386907 TTAGCCGAATTTCTTTGTGGCCGAATCCTCTATT
1 TTAGCCAAATTTCTTTGTGGCCGAATCCTCTATT
*
12386941 TTAGCCAAATTTCTTTGTGGCTGAATCCTCTATT
1 TTAGCCAAATTTCTTTGTGGCCGAATCCTCTATT
12386975 ATTTCCTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (34 bp):
TTAGCCAAATTTCTTTGTGGCCGAATCCTCTATT
Found at i:12388132 original size:60 final size:62
Alignment explanation
Indices: 12388062--12388195 Score: 177
Period size: 60 Copynumber: 2.2 Consensus size: 62
12388052 TATCTCAACT
*
12388062 TGTAATAGGGCTAAGGCCAAGATTGATACTGATATGGGCT-AGGCCCAG-TATACTCTGATAC
1 TGTAATAGGGCTAAGGCCAAGATTAATACTGATATGGGCTAAGGCCCAGTTA-ACTCTGATAC
* * * *
12388123 TGTAA-AGGGCTATGGCCCAGATTAATATTGATATGGGCTAAGGCCCAGTTAACTCTGATTTC
1 TGTAATAGGGCTAAGGCCAAGATTAATACTGATATGGGCTAAGGCCCAGTTAACTCTGA-TAC
12388185 TG-AATAGGGCT
1 TGTAATAGGGCT
12388196 TAAGCCCAGT
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
60 30 0.47
61 22 0.34
62 12 0.19
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (62 bp):
TGTAATAGGGCTAAGGCCAAGATTAATACTGATATGGGCTAAGGCCCAGTTAACTCTGATAC
Found at i:12389474 original size:320 final size:320
Alignment explanation
Indices: 12388892--12389531 Score: 1280
Period size: 320 Copynumber: 2.0 Consensus size: 320
12388882 TATTTTACAA
12388892 GGTATACATATTTTAAGGTTCAATCTTAAAATGGTTTAAGTTTTTCTAGGTTTCTGAAATATTGA
1 GGTATACATATTTTAAGGTTCAATCTTAAAATGGTTTAAGTTTTTCTAGGTTTCTGAAATATTGA
12388957 TAACCGAAGAAGTGGCACATTGAATCCCCGGCACCAAGTCTGTAAGTATTTCTGTTACTCATACT
66 TAACCGAAGAAGTGGCACATTGAATCCCCGGCACCAAGTCTGTAAGTATTTCTGTTACTCATACT
12389022 ACATTTTATTAAGATATTACTGTAGATAGAACTGAGACCATATCATGACATTATAGCTAGGGCAA
131 ACATTTTATTAAGATATTACTGTAGATAGAACTGAGACCATATCATGACATTATAGCTAGGGCAA
12389087 TACTAAAAACCCTAGACTACTGAGACTATAGCTAGACTATGATTCTGTAAAAATAGAAACTTTAA
196 TACTAAAAACCCTAGACTACTGAGACTATAGCTAGACTATGATTCTGTAAAAATAGAAACTTTAA
12389152 AATACTATCTCTGCATAAAACATATGAATAAGTACTAAAATTTTTTAATCGAGATCTTGG
261 AATACTATCTCTGCATAAAACATATGAATAAGTACTAAAATTTTTTAATCGAGATCTTGG
12389212 GGTATACATATTTTAAGGTTCAATCTTAAAATGGTTTAAGTTTTTCTAGGTTTCTGAAATATTGA
1 GGTATACATATTTTAAGGTTCAATCTTAAAATGGTTTAAGTTTTTCTAGGTTTCTGAAATATTGA
12389277 TAACCGAAGAAGTGGCACATTGAATCCCCGGCACCAAGTCTGTAAGTATTTCTGTTACTCATACT
66 TAACCGAAGAAGTGGCACATTGAATCCCCGGCACCAAGTCTGTAAGTATTTCTGTTACTCATACT
12389342 ACATTTTATTAAGATATTACTGTAGATAGAACTGAGACCATATCATGACATTATAGCTAGGGCAA
131 ACATTTTATTAAGATATTACTGTAGATAGAACTGAGACCATATCATGACATTATAGCTAGGGCAA
12389407 TACTAAAAACCCTAGACTACTGAGACTATAGCTAGACTATGATTCTGTAAAAATAGAAACTTTAA
196 TACTAAAAACCCTAGACTACTGAGACTATAGCTAGACTATGATTCTGTAAAAATAGAAACTTTAA
12389472 AATACTATCTCTGCATAAAACATATGAATAAGTACTAAAATTTTTTAATCGAGATCTTGG
261 AATACTATCTCTGCATAAAACATATGAATAAGTACTAAAATTTTTTAATCGAGATCTTGG
12389532 TAGTTATTTT
Statistics
Matches: 320, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
320 320 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (320 bp):
GGTATACATATTTTAAGGTTCAATCTTAAAATGGTTTAAGTTTTTCTAGGTTTCTGAAATATTGA
TAACCGAAGAAGTGGCACATTGAATCCCCGGCACCAAGTCTGTAAGTATTTCTGTTACTCATACT
ACATTTTATTAAGATATTACTGTAGATAGAACTGAGACCATATCATGACATTATAGCTAGGGCAA
TACTAAAAACCCTAGACTACTGAGACTATAGCTAGACTATGATTCTGTAAAAATAGAAACTTTAA
AATACTATCTCTGCATAAAACATATGAATAAGTACTAAAATTTTTTAATCGAGATCTTGG
Found at i:12391312 original size:19 final size:19
Alignment explanation
Indices: 12391275--12391313 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
12391265 AAAGCCGAAT
**
12391275 TCTTTCTTCTTCTTTTCTC
1 TCTTTCTTCTTCTCATCTC
*
12391294 TCTTTCTTTTTCTCATCTC
1 TCTTTCTTCTTCTCATCTC
12391313 T
1 T
12391314 TCCTTCCTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.67
Consensus pattern (19 bp):
TCTTTCTTCTTCTCATCTC
Found at i:12392497 original size:20 final size:20
Alignment explanation
Indices: 12392454--12392499 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
12392444 ATTGTTTTGT
12392454 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
12392474 -ATGGGTCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
12392493 TATGGGC
1 TATGGGC
12392500 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:12392566 original size:60 final size:58
Alignment explanation
Indices: 12392492--12392630 Score: 145
Period size: 60 Copynumber: 2.3 Consensus size: 58
12392482 AACTGTGTTA
* *
12392492 ATATGGGCAAGGCCCAATACATCTCA-ACTTGTAATAGGGCTACGACCAAGATTTATACTG
1 ATATGGGCTAGGCCCAATAC-TCTCATA-TTGTAA-AGGGCTACGACCAAGATTAATACTG
* * * * * *
12392552 ATATGGGCTAGGCCCAGTATACTCTGATATTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCA--ATACTCTCATATTGTAAAGGGCTACGACCAAGATTAATACTG
12392612 ATATGGGCTAAGGCCCAAT
1 ATATGGGCT-AGGCCCAAT
12392631 TAACTCTGAT
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
59 2 0.03
60 43 0.64
61 17 0.25
62 5 0.07
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (58 bp):
ATATGGGCTAGGCCCAATACTCTCATATTGTAAAGGGCTACGACCAAGATTAATACTG
Found at i:12393914 original size:18 final size:18
Alignment explanation
Indices: 12393870--12393934 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
12393860 TTGGCACTCT
* *
12393870 ATAACAGTCAGTTATGCA
1 ATAACAGTCAATTATTCA
* * *
12393888 GTAATAGTCATTTATTCA
1 ATAACAGTCAATTATTCA
*
12393906 ATAACAGTCAATTATTCC
1 ATAACAGTCAATTATTCA
*
12393924 ATAGCAGTCAA
1 ATAACAGTCAA
12393935 CCTTTAATAC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:12394726 original size:21 final size:21
Alignment explanation
Indices: 12394702--12394745 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
12394692 TTCTTCTCTG
12394702 TTTCTTTCTA-TTTGTTTTCTT
1 TTTCTTT-TACTTTGTTTTCTT
*
12394723 TTTCTTTTACTTTGTTTTGTT
1 TTTCTTTTACTTTGTTTTCTT
12394744 TT
1 TT
12394746 ATAATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.05, C:0.11, G:0.07, T:0.77
Consensus pattern (21 bp):
TTTCTTTTACTTTGTTTTCTT
Found at i:12394801 original size:3 final size:3
Alignment explanation
Indices: 12394746--12394787 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
12394736 GTTTTGTTTT
12394746 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12394788 TACTTATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12395887 original size:16 final size:16
Alignment explanation
Indices: 12395866--12395897 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
12395856 TAATGTGTTT
12395866 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
12395882 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
12395898 ATGCAGAATG
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:0.12, C:0.12, G:0.25, T:0.50
Consensus pattern (16 bp):
TGCTGCTGTTGTTTAA
Found at i:12396079 original size:45 final size:45
Alignment explanation
Indices: 12396011--12396184 Score: 249
Period size: 45 Copynumber: 3.9 Consensus size: 45
12396001 AAGAGGTGGA
**
12396011 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAACAAATTAAGGAAGCATTTGAC
* * *
12396056 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAACAAATTAAGGAAGCATTTGAC
* * *
12396101 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAACAAATTAAGGAAGCATTTGAC
* * *
12396146 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAACAAATTAAGGAAGCA
12396185 CCATGGCCGA
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 117 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAACAAATTAAGGAAGCATTTGAC
Found at i:12402923 original size:58 final size:58
Alignment explanation
Indices: 12402827--12402993 Score: 182
Period size: 58 Copynumber: 2.9 Consensus size: 58
12402817 TTTTTATAAT
12402827 ATTATATATTATGATTTT-TT-AATTCATA--TAATAATAATTTTATTAAGAATTTGATTAA
1 ATTATATATTAT--TTTTATTAAATT-ATATTTAATAATAATTTTATTAA-AATTTGATTAA
* * * * * *
12402885 ATTATATATTA-TTTTATTAAATTATATTTAGTACTAATTATGTTAAAATATGGTTAA
1 ATTATATATTATTTTTATTAAATTATATTTAATAATAATTTTATTAAAATTTGATTAA
* * *
12402942 ATTATTTATTATTTTTATTAAATTATTTTTAATAATAATCTTATTAAAATTT
1 ATTATATATTATTTTTATTAAATTATATTTAATAATAATTTTATTAAAATTT
12402994 AATAACAACA
Statistics
Matches: 90, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
55 4 0.04
56 5 0.06
57 23 0.26
58 58 0.64
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (58 bp):
ATTATATATTATTTTTATTAAATTATATTTAATAATAATTTTATTAAAATTTGATTAA
Found at i:12404182 original size:110 final size:109
Alignment explanation
Indices: 12403989--12404202 Score: 374
Period size: 110 Copynumber: 2.0 Consensus size: 109
12403979 TGCTCGAAAT
* *
12403989 TTCGAGTTAATCTAATCGACTTTCGAATTTGAATAGAATTAAATTTTACAATTCGAATAACAAAT
1 TTCGAGTCAATCTAATCGACTTTCGAATTTGAATAGAATTAAATCTTACAATTCGAATAACAAAT
*
12404054 TTATGTAAATATCTATTTGATTCCTATCAGGTTTTAAAAAAAAAA
66 TTATGTAAATATCTATTTGATTCCTATCAAG-TTTAAAAAAAAAA
* *
12404099 TTCGAGTCAATCTAATCGAGTTTCGAATTTGAATAGAATTAAATCTTACAATTCGAATAACATAT
1 TTCGAGTCAATCTAATCGACTTTCGAATTTGAATAGAATTAAATCTTACAATTCGAATAACAAAT
12404164 TTATGTAAATATCTATTTGATTCCTATCAAGTTTAAAAA
66 TTATGTAAATATCTATTTGATTCCTATCAAGTTTAAAAA
12404203 TAAGTAAATT
Statistics
Matches: 99, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
109 8 0.08
110 91 0.92
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (109 bp):
TTCGAGTCAATCTAATCGACTTTCGAATTTGAATAGAATTAAATCTTACAATTCGAATAACAAAT
TTATGTAAATATCTATTTGATTCCTATCAAGTTTAAAAAAAAAA
Found at i:12404280 original size:19 final size:19
Alignment explanation
Indices: 12404238--12404289 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
12404228 AAATTACAAA
*
12404238 AAAAATTAAAAATAATTTT
1 AAAAATTTAAAATAATTTT
*
12404257 TAAAATTTAAAAT-ATTTAT
1 AAAAATTTAAAATAATTT-T
12404276 AAAAATTCTAAAAT
1 AAAAATT-TAAAAT
12404290 TTATATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 4 0.14
19 18 0.64
20 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTTAAAATAATTTT
Found at i:12404301 original size:27 final size:26
Alignment explanation
Indices: 12404257--12404317 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
12404247 AAATAATTTT
* *
12404257 TAAAATTTAAAATATTTATAAAAATTC
1 TAAAATTTAAAATATTTA-AAAAAATA
* * *
12404284 TAAAATTTATATTTTTTAAAAAAATA
1 TAAAATTTAAAATATTTAAAAAAATA
12404310 TAAAATTT
1 TAAAATTT
12404318 TCAAAAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 14 0.48
27 15 0.52
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
TAAAATTTAAAATATTTAAAAAAATA
Found at i:12404318 original size:19 final size:19
Alignment explanation
Indices: 12404296--12404333 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12404286 AAATTTATAT
*
12404296 TTTTTAAAAAAATATAAAA
1 TTTTCAAAAAAATATAAAA
*
12404315 TTTTCAAAAAAATCTAAAA
1 TTTTCAAAAAAATATAAAA
12404334 AATATATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
TTTTCAAAAAAATATAAAA
Found at i:12406710 original size:28 final size:27
Alignment explanation
Indices: 12406674--12406729 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
12406664 ATATATTTTC
* *
12406674 TAATTTTTA-AAAAATATATAAATAATA
1 TAATTTTTATAAAAA-ATAAAAAAAATA
12406701 TAATATTTTATAAAAAATAAAAAAAATA
1 TAAT-TTTTATAAAAAATAAAAAAAATA
12406729 T
1 T
12406730 CGATTTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 16 0.64
29 5 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
TAATTTTTATAAAAAATAAAAAAAATA
Found at i:12407143 original size:16 final size:17
Alignment explanation
Indices: 12407122--12407153 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
12407112 CCCAATTCAT
12407122 TTTATATTT-TATATAG
1 TTTATATTTATATATAG
12407138 TTTATATTTATATATA
1 TTTATATTTATATATA
12407154 AAAGTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTATATTTATATATAG
Found at i:12407398 original size:20 final size:20
Alignment explanation
Indices: 12407375--12407422 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
12407365 AAATCTAAAT
12407375 TAAAATACTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
* *
12407395 TAAAATCCTGAAATTCGGGA
1 TAAAATACTGAAATTCAGGA
12407415 TAAGAATA
1 TAA-AATA
12407423 TTGATGTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.25
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:12407785 original size:19 final size:19
Alignment explanation
Indices: 12407750--12407787 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12407740 AAATCTAAAA
**
12407750 TAAAATTAAACTTTAAATT
1 TAAAATTAAACCCTAAATT
12407769 TAAAATTAAACCCTAAATT
1 TAAAATTAAACCCTAAATT
12407788 CAATTGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAAATTAAACCCTAAATT
Found at i:12411678 original size:29 final size:29
Alignment explanation
Indices: 12411644--12411717 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
12411634 TAATCAACCG
*
12411644 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
12411673 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
12411702 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
12411718 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:12415439 original size:26 final size:25
Alignment explanation
Indices: 12415391--12415442 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
12415381 TAACTCATAA
12415391 ATTTCACATTTCACAAATTAGTCCCT
1 ATTTCACATTTCACAAA-TAGTCCCT
12415417 ATTTCACATTTTCATCAAA-AGTCCCT
1 ATTTCACA-TTTCA-CAAATAGTCCCT
12415443 TAACAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 15 0.62
27 5 0.21
28 4 0.17
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (25 bp):
ATTTCACATTTCACAAATAGTCCCT
Found at i:12419187 original size:21 final size:21
Alignment explanation
Indices: 12419161--12419201 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
12419151 AACTTCTCTC
12419161 CTAAATATATTATTTACATAA
1 CTAAATATATTATTTACATAA
12419182 CTAAATATATTATTTACATA
1 CTAAATATATTATTTACATA
12419202 TTTAACATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (21 bp):
CTAAATATATTATTTACATAA
Found at i:12429937 original size:31 final size:29
Alignment explanation
Indices: 12429897--12429960 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 29
12429887 ATTTTAAAAT
*
12429897 TATAAATAAACTATGATTTAATGTGTAATTG
1 TATAAATAAACTATAATTT--TGTGTAATTG
* * *
12429928 TATATATAAACTTTAATTTTGTGTAATTT
1 TATAAATAAACTATAATTTTGTGTAATTG
12429957 TATA
1 TATA
12429961 CATGAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 13 0.45
31 16 0.55
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.48
Consensus pattern (29 bp):
TATAAATAAACTATAATTTTGTGTAATTG
Found at i:12429950 original size:29 final size:30
Alignment explanation
Indices: 12429918--12429976 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
12429908 TATGATTTAA
*
12429918 TGTGTAATTGTATATAT-AAACTTTAATTT
1 TGTGTAATTGTATACATGAAACTTTAATTT
* *
12429947 TGTGTAATTTTATACATGAAATTTTAATTT
1 TGTGTAATTGTATACATGAAACTTTAATTT
12429977 GATCCAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (30 bp):
TGTGTAATTGTATACATGAAACTTTAATTT
Found at i:12433781 original size:21 final size:21
Alignment explanation
Indices: 12433752--12433791 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12433742 TTATTAATAT
12433752 TTTAACAAT-TCAATTATAAAA
1 TTTAACAATAT-AATTATAAAA
*
12433773 TTTATCAATATAATTATAA
1 TTTAACAATATAATTATAA
12433792 TTATCATGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTAACAATATAATTATAAAA
Found at i:12446855 original size:13 final size:13
Alignment explanation
Indices: 12446837--12447014 Score: 158
Period size: 13 Copynumber: 14.9 Consensus size: 13
12446827 CAACCACTGC
*
12446837 AACCACTTCACTA
1 AACCACTCCACTA
*
12446850 AACCACTCCATTA
1 AACCACTCCACTA
*
12446863 AACCACTACACTA
1 AACCACTCCACTA
12446876 AACCACTCCACTA
1 AACCACTCCACTA
12446889 AACCAC-CC-C--
1 AACCACTCCACTA
12446898 AACCAC-CCTACTA
1 AACCACTCC-ACTA
12446911 AACCACTCCACTA
1 AACCACTCCACTA
12446924 AACCAC-CC-C--
1 AACCACTCCACTA
*
12446933 AACCACTCCACTT
1 AACCACTCCACTA
**
12446946 GCCCACTCCACTA
1 AACCACTCCACTA
12446959 AACCAC-CC-C--
1 AACCACTCCACTA
12446968 AACCAC-CCTACTA
1 AACCACTCC-ACTA
12446981 AACCACTCCACTA
1 AACCACTCCACTA
12446994 AACCAC-CC-C--
1 AACCACTCCACTA
12447003 AACCACTCCACT
1 AACCACTCCACT
12447015 TGCCTACAAA
Statistics
Matches: 138, Mismatches: 10, Indels: 35
0.75 0.05 0.19
Matches are distributed among these distances:
9 28 0.20
10 4 0.03
11 8 0.06
12 8 0.06
13 86 0.62
14 4 0.03
ACGTcount: A:0.36, C:0.49, G:0.01, T:0.14
Consensus pattern (13 bp):
AACCACTCCACTA
Found at i:12446902 original size:35 final size:35
Alignment explanation
Indices: 12446863--12447014 Score: 236
Period size: 35 Copynumber: 4.3 Consensus size: 35
12446853 CACTCCATTA
*
12446863 AACCACTACACTAAACCACTCCACTAAACCACCCC
1 AACCACTCCACTAAACCACTCCACTAAACCACCCC
12446898 AACCAC-CCTACTAAACCACTCCACTAAACCACCCC
1 AACCACTCC-ACTAAACCACTCCACTAAACCACCCC
***
12446933 AACCACTCCACTTGCCCACTCCACTAAACCACCCC
1 AACCACTCCACTAAACCACTCCACTAAACCACCCC
12446968 AACCAC-CCTACTAAACCACTCCACTAAACCACCCC
1 AACCACTCC-ACTAAACCACTCCACTAAACCACCCC
12447003 AACCACTCCACT
1 AACCACTCCACT
12447015 TGCCTACAAA
Statistics
Matches: 106, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
34 3 0.03
35 99 0.93
36 4 0.04
ACGTcount: A:0.36, C:0.51, G:0.01, T:0.12
Consensus pattern (35 bp):
AACCACTCCACTAAACCACTCCACTAAACCACCCC
Found at i:12446910 original size:22 final size:24
Alignment explanation
Indices: 12446837--12447014 Score: 137
Period size: 22 Copynumber: 7.5 Consensus size: 24
12446827 CAACCACTGC
* *
12446837 AACCACTTCACTAAACCACTCCATTA
1 AACCACTCCACT-AACCAC-CCACTA
*
12446863 AACCACTACACTAAACCACTCCACTA
1 AACCACTCCACT-AACCAC-CCACTA
12446889 AACCAC-CC-C-AACCACCCTACTA
1 AACCACTCCACTAACCACCC-ACTA
12446911 AACCACTCCACTAAACCACCC-C--
1 AACCACTCCACT-AACCACCCACTA
**
12446933 AACCACTCCACTTGCCCACTCCACTA
1 AACCACTCCAC-TAACCAC-CCACTA
12446959 AACCAC-CC-C-AACCACCCTACTA
1 AACCACTCCACTAACCACCC-ACTA
12446981 AACCACTCCACTAAACCACCC-C--
1 AACCACTCCACT-AACCACCCACTA
12447003 AACCACTCCACT
1 AACCACTCCACT
12447015 TGCCTACAAA
Statistics
Matches: 130, Mismatches: 7, Indels: 34
0.76 0.04 0.20
Matches are distributed among these distances:
21 4 0.03
22 57 0.44
23 7 0.05
24 7 0.05
25 3 0.02
26 52 0.40
ACGTcount: A:0.36, C:0.49, G:0.01, T:0.14
Consensus pattern (24 bp):
AACCACTCCACTAACCACCCACTA
Found at i:12447015 original size:70 final size:70
Alignment explanation
Indices: 12446878--12447018 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
12446868 CTACACTAAA
12446878 CCACTCCACTAAACCACCCCAACCACCCTACTAAACCACTCCACTAAACCACCCCAACCACTCCA
1 CCACTCCACTAAACCACCCCAACCACCCTACTAAACCACTCCACTAAACCACCCCAACCACTCCA
12446943 CTTGC
66 CTTGC
12446948 CCACTCCACTAAACCACCCCAACCACCCTACTAAACCACTCCACTAAACCACCCCAACCACTCCA
1 CCACTCCACTAAACCACCCCAACCACCCTACTAAACCACTCCACTAAACCACCCCAACCACTCCA
12447013 CTTGC
66 CTTGC
12447018 C
1 C
12447019 TACAAAAAAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.33, C:0.53, G:0.01, T:0.13
Consensus pattern (70 bp):
CCACTCCACTAAACCACCCCAACCACCCTACTAAACCACTCCACTAAACCACCCCAACCACTCCA
CTTGC
Found at i:12447414 original size:3 final size:3
Alignment explanation
Indices: 12447400--12447485 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
12447390 GAGCTTTGTT
* *
12447400 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
12447444 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
12447486 ATATGCCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 7 0.10
3 52 0.76
4 7 0.10
5 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:12447438 original size:27 final size:27
Alignment explanation
Indices: 12447399--12447485 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
12447389 AGAGCTTTGT
12447399 TTTATTATT-TTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTTTTACTATTA
*
12447426 TTTATATTATTATTATTATTT-C--TCA
1 TTTATATTATTATTATT-TTTACTATTA
* * *
12447451 TGTATA-TATTATTATTTATATTATTA
1 TTTATATTATTATTATTTTTACTATTA
12447477 -TTATATTAT
1 TTTATATTAT
12447486 ATATGCCCTC
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 9 0.19
27 13 0.27
28 3 0.06
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (27 bp):
TTTATATTATTATTATTTTTACTATTA
Found at i:12447460 original size:21 final size:18
Alignment explanation
Indices: 12447400--12447489 Score: 92
Period size: 18 Copynumber: 4.7 Consensus size: 18
12447390 GAGCTTTGTT
*
12447400 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
12447420 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
12447438 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
12447459 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
12447477 TTA-TATTATATAT
1 TTATTATT-TATAT
12447490 GCCCTCTCCA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.07
18 26 0.43
19 9 0.15
20 10 0.16
21 12 0.20
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:12447566 original size:3 final size:3
Alignment explanation
Indices: 12447560--12447610 Score: 50
Period size: 3 Copynumber: 16.0 Consensus size: 3
12447550 TTCTGACTAC
*
12447560 TAT TAT TAT ATAT ATAT GTAT TAT TGT T-T GTAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
12447608 TAT
1 TAT
12447611 CACCCCTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 1 0.02
3 31 0.72
4 11 0.26
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:12447735 original size:18 final size:19
Alignment explanation
Indices: 12447699--12447755 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 19
12447689 ACTATTACTA
*
12447699 TTATATATTAGTGTATATTT
1 TTATATA-TAGTATATATTT
*
12447719 TTATGTATA-TATATA-TT
1 TTATATATAGTATATATTT
12447736 TTATATATAGTAT-TATTT
1 TTATATATAGTATATATTT
12447754 TT
1 TT
12447756 TATTACTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 12 0.38
18 12 0.38
19 2 0.06
20 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTATATATAGTATATATTT
Found at i:12450340 original size:19 final size:19
Alignment explanation
Indices: 12450318--12450364 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
12450308 CTTCCTTTCT
12450318 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
12450337 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
12450356 TTTGCATTA
1 TTTGCATTA
12450365 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:12458332 original size:13 final size:13
Alignment explanation
Indices: 12458305--12458341 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
12458295 AAAGAGAGCC
*
12458305 CAAAAAAAC-ACA
1 CAAAAAAACAAAA
12458317 CAAAAAAACAAAA
1 CAAAAAAACAAAA
12458330 C-AAAAAACAAAA
1 CAAAAAAACAAAA
12458342 AATTCTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 20 0.87
13 3 0.13
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (13 bp):
CAAAAAAACAAAA
Found at i:12458779 original size:53 final size:52
Alignment explanation
Indices: 12458676--12458779 Score: 136
Period size: 53 Copynumber: 2.0 Consensus size: 52
12458666 GTCCAAATTA
* * * * *
12458676 ATTTTCTTCTTATTGCATTGCTATCTTTGATTAAATCATTCGTTTTGAGTTG
1 ATTTCCTTCTTATTGCATTGCAATCTTTGATTAAATCATCCATTTCGAGTTG
* *
12458728 ATTTCCTTCTTATTGCATTTGCAATCTTTGATTAATTTATCCATTTCGAGTT
1 ATTTCCTTCTTATTGCA-TTGCAATCTTTGATTAAATCATCCATTTCGAGTT
12458780 ATGCTCCTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
52 16 0.36
53 28 0.64
ACGTcount: A:0.20, C:0.15, G:0.12, T:0.53
Consensus pattern (52 bp):
ATTTCCTTCTTATTGCATTGCAATCTTTGATTAAATCATCCATTTCGAGTTG
Found at i:12460021 original size:44 final size:44
Alignment explanation
Indices: 12459973--12460734 Score: 652
Period size: 44 Copynumber: 17.4 Consensus size: 44
12459963 GGCGGAGAGT
* *
12459973 AGATCGAAGATTGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
1 AGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
* * * *
12460017 AGATCGAAGATAGCAGATCTGACATTCCTATGCTTAT-GGTGAAGC
1 AGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG-GAA-C
** * *
12460062 AGATCGAAGATTTCACA--TGGCATCCCTGTACTTATAGGGAAC
1 AGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
*
12460104 A-AGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
1 AGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
* * * *
12460148 AGATCGAAGATAGCAGATCTGACATTCCTATGCTTAT-GGTGAAGC
1 AGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG-GAA-C
** * *
12460193 AGATCGAAGATTTCACA--TGGCATCCCTGTACTTATAGGGAAC
1 AGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
*
12460235 A-AGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
1 AGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
* * * *
12460279 AGATCGAAGATAGCAGATCTGACATTCCTATGCTTAT-GGTGAAGC
1 AGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG-GAA-C
** *
12460324 AGATCGAAGATTTCAGCA--TGACATCCCTGTGCTTATAGGGAAC
1 AGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAAC
* * * * * *
12460367 A-AGTTGAAAACAGTAGATTTGACATCCTTGTGCTTATAGGGAAC
1 AGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
* * * * * *
12460411 AGATAGAAGATATCAGATCTGACATTCCTGTGCTTA-CGGTGAAGC
1 AGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGG-GAA-C
**
12460456 AGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAAC
1 AGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAAC
**
12460499 A-AGTTAAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
1 AGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
* * * * * * *
12460543 AGATCAAAGATAGCAGATCTGACATTCCTATGCTTA-CGATGAAGC
1 AGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAG-GGAA-C
** *
12460588 AGATCGAAGATTTCAGCA--TGGAATCCCTGTGCTTATAGGGAAC
1 AGATCGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAAC
* *
12460631 A-AGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAAC
1 AGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
* * * * *
12460675 A-AGTTGAA-ACAACAGATTTGGCATCCCTGTGTTTATGGGGAAC
1 AGA-TCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
12460718 AGATCGAAGA-AGCAGAT
1 AGATCGAAGATAGCAGAT
12460735 CAAGAACTCA
Statistics
Matches: 584, Mismatches: 95, Indels: 79
0.77 0.13 0.10
Matches are distributed among these distances:
41 2 0.00
42 30 0.05
43 118 0.20
44 348 0.60
45 83 0.14
46 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
AGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
Found at i:12460452 original size:132 final size:132
Alignment explanation
Indices: 12459978--12460675 Score: 1202
Period size: 132 Copynumber: 5.3 Consensus size: 132
12459968 AGAGTAGATC
* *
12459978 GAAGATTGCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
*
12460043 CCTATGCTTATGGTGAAGCAGATCGAAGATTTCA-CATGGCATCCCTGTACTTATAGGGAACAAG
66 CCTATGCTTATGGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAG
12460107 TT
131 TT
12460109 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
*
12460174 CCTATGCTTATGGTGAAGCAGATCGAAGATTTCA-CATGGCATCCCTGTACTTATAGGGAACAAG
66 CCTATGCTTATGGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAG
12460238 TT
131 TT
12460240 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
*
12460305 CCTATGCTTATGGTGAAGCAGATCGAAGATTTCAGCATGACATCCCTGTGCTTATAGGGAACAAG
66 CCTATGCTTATGGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAG
12460370 TT
131 TT
* * * * * * *
12460372 GAAAACAGTAGATTTGACATCCTTGTGCTTATAGGGAACAGATAGAAGATATCAGATCTGACATT
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
* *
12460437 CCTGTGCTTACGGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAG
66 CCTATGCTTATGGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAG
12460502 TT
131 TT
* *
12460504 AAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCAAAGATAGCAGATCTGACATT
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
* * *
12460569 CCTATGCTTACGATGAAGCAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGGAACAAG
66 CCTATGCTTATGGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAG
12460634 TT
131 TT
*
12460636 GAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACA
1 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACA
12460676 AGTTGAAACA
Statistics
Matches: 538, Mismatches: 28, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
131 228 0.42
132 310 0.58
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
CCTATGCTTATGGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAG
TT
Found at i:12461024 original size:13 final size:13
Alignment explanation
Indices: 12461008--12461078 Score: 99
Period size: 13 Copynumber: 5.5 Consensus size: 13
12460998 AAACCACTCT
*
12461008 AACCACTTCACTA
1 AACCACTACACTA
*
12461021 AACCACT-CTATTA
1 AACCACTAC-ACTA
12461034 AACCACTACACTA
1 AACCACTACACTA
12461047 AACCACTACACTA
1 AACCACTACACTA
*
12461060 AACCACTCCACTA
1 AACCACTACACTA
12461073 AACCAC
1 AACCAC
12461079 CCCAACCACC
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
12 1 0.02
13 51 0.96
14 1 0.02
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.18
Consensus pattern (13 bp):
AACCACTACACTA
Found at i:12461095 original size:35 final size:35
Alignment explanation
Indices: 12460990--12461128 Score: 138
Period size: 35 Copynumber: 3.9 Consensus size: 35
12460980 AAATATCTTT
* * *
12460990 ACTCCACTAAACCACTCTAACCA-CTTCACTAAACC
1 ACTCCACTAAACCACCCCAACCACCCT-ACTAAACC
* * * *
12461025 ACTCTATTAAACCACTACACTAAACCACTAC-ACTAAACC
1 ACTCCACTAAACCAC--C-C-CAACCAC-CCTACTAAACC
12461064 ACTCCACTAAACCACCCCAACCACCCTACTAAACC
1 ACTCCACTAAACCACCCCAACCACCCTACTAAACC
*
12461099 ACTCCACTAAACCACCCCAACCACTCTACT
1 ACTCCACTAAACCACCCCAACCACCCTACT
12461129 TGCCTACAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
34 1 0.01
35 56 0.65
36 1 0.01
37 1 0.01
38 1 0.01
39 26 0.30
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (35 bp):
ACTCCACTAAACCACCCCAACCACCCTACTAAACC
Found at i:12461115 original size:26 final size:26
Alignment explanation
Indices: 12460990--12461113 Score: 131
Period size: 26 Copynumber: 5.1 Consensus size: 26
12460980 AAATATCTTT
12460990 ACTCCACTAAACCACT---CT-AACC
1 ACTCCACTAAACCACTCCACTAAACC
* * *
12461012 ACTTCACTAAACCACTCTATTAAACC
1 ACTCCACTAAACCACTCCACTAAACC
* *
12461038 ACTACACTAAACCACTACACTAAACC
1 ACTCCACTAAACCACTCCACTAAACC
12461064 ACTCCACTAAACCAC-CC-C--AACC
1 ACTCCACTAAACCACTCCACTAAACC
12461086 AC-CCTACTAAACCACTCCACTAAACC
1 ACTCC-ACTAAACCACTCCACTAAACC
12461112 AC
1 AC
12461114 CCCAACCACT
Statistics
Matches: 85, Mismatches: 8, Indels: 14
0.79 0.07 0.13
Matches are distributed among these distances:
21 2 0.02
22 31 0.36
23 2 0.02
24 2 0.02
25 2 0.02
26 46 0.54
ACGTcount: A:0.40, C:0.44, G:0.00, T:0.17
Consensus pattern (26 bp):
ACTCCACTAAACCACTCCACTAAACC
Found at i:12461526 original size:3 final size:3
Alignment explanation
Indices: 12461512--12461594 Score: 66
Period size: 3 Copynumber: 27.3 Consensus size: 3
12461502 GAGCTTTGTT
* *
12461512 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA -TTA
*
12461557 TCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 TTA T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
12461595 ATATGCCCTC
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
2 6 0.09
3 49 0.75
4 10 0.15
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:12463475 original size:13 final size:13
Alignment explanation
Indices: 12463445--12463469 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12463435 ACCAGGGGAC
12463445 ACACAACCGTGTA
1 ACACAACCGTGTA
12463458 ACACAACCGTGT
1 ACACAACCGTGT
12463470 GTCACACACG
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:0.32, G:0.16, T:0.16
Consensus pattern (13 bp):
ACACAACCGTGTA
Found at i:12467862 original size:15 final size:14
Alignment explanation
Indices: 12467842--12467888 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
12467832 GCAACCCAAT
12467842 TTTTATTTTTATTTA
1 TTTTATTTTTA-TTA
*
12467857 TTTTA-TCTTATTA
1 TTTTATTTTTATTA
12467870 TTTTATTATTTATTA
1 TTTTATT-TTTATTA
12467885 TTTT
1 TTTT
12467889 TAGATATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 8 0.29
14 5 0.18
15 15 0.54
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTTTTATTA
Found at i:12469554 original size:13 final size:15
Alignment explanation
Indices: 12469520--12469556 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
12469510 AATATTAAGA
12469520 TAATTATTAGGATATT
1 TAATT-TTAGGATATT
12469536 TAATTTTAGGAT-TT
1 TAATTTTAGGATATT
12469550 T-ATTTTA
1 TAATTTTA
12469557 ATTATTAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.29
14 3 0.14
15 7 0.33
16 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (15 bp):
TAATTTTAGGATATT
Found at i:12469572 original size:18 final size:17
Alignment explanation
Indices: 12469520--12469573 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
12469510 AATATTAAGA
12469520 TAATTATTAGGATA-TT
1 TAATTATTAGGATATTT
12469536 TAATT-TTAGGATTTTATTT
1 TAATTATTAGGA---TATTT
12469555 TAATTATTAGGATAATTT
1 TAATTATTAGGAT-ATTT
12469573 T
1 T
12469574 CACAATGGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
15 6 0.19
16 5 0.16
17 1 0.03
18 7 0.22
19 7 0.22
20 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (17 bp):
TAATTATTAGGATATTT
Found at i:12469920 original size:405 final size:405
Alignment explanation
Indices: 12469162--12469973 Score: 1615
Period size: 405 Copynumber: 2.0 Consensus size: 405
12469152 TGGCAGGATT
12469162 TAATTTTCACAATGGATACGAACCATACTTGAGGGCAAGCATGGGCTAAGTAGGGAAAATTTGAT
1 TAATTTTCACAATGGATACGAACCATACTTGAGGGCAAGCATGGGCTAAGTAGGGAAAATTTGAT
12469227 AATGCTATAAAATAACGTATTTTTATGAATTAATCATATGTTTATACTGGGCTTGATCCTACTAA
66 AATGCTATAAAATAACGTATTTTTATGAATTAATCATATGTTTATACTGGGCTTGATCCTACTAA
12469292 TTTGAGCTATTTATGTCTTTTTATTGATTAGGGACTGATTTGGAGGCAAAAGCAAAATTAATGGA
131 TTTGAGCTATTTATGTCTTTTTATTGATTAGGGACTGATTTGGAGGCAAAAGCAAAATTAATGGA
12469357 CAAATGTGAGAATTTGGAGACACAATGGGCTGATATACGACACAGGAAAAAGATTGTGCCAAAAG
196 CAAATGTGAGAATTTGGAGACACAATGGGCTGATATACGACACAGGAAAAAGATTGTGCCAAAAG
12469422 TGCGAGCATGGAAGACACAAGGACTAAAAACGCAAAAAAGAAGAGATTTTATTTTATAAGACTCC
261 TGCGAGCATGGAAGACACAAGGACTAAAAACGCAAAAAAGAAGAGATTTTATTTTATAAGACTCC
12469487 ATTTTATTTATATTAGGATAAATAATATTAAGATAATTATTAGGATATTTAATTTTAGGATTTTA
326 ATTTTATTTATATTAGGATAAATAATATTAAGATAATTATTAGGATATTTAATTTTAGGATTTTA
12469552 TTTTAATTATTAGGA
391 TTTTAATTATTAGGA
12469567 TAATTTTCACAATGGATACGAACCATACTTGAGGGCAAGCATGGGCTAAGTAGGGAAAATTTGAT
1 TAATTTTCACAATGGATACGAACCATACTTGAGGGCAAGCATGGGCTAAGTAGGGAAAATTTGAT
12469632 AATGCTATAAAATAACGTATTTTTATGAATTAATCATATGTTTATACTGGGCTTGATCCTACTAA
66 AATGCTATAAAATAACGTATTTTTATGAATTAATCATATGTTTATACTGGGCTTGATCCTACTAA
12469697 TTTGAGCTATTTATGTCTTTTTATTGATTAGGGACTGATTTGGAGGCAAAAGCAAAATTAATGGA
131 TTTGAGCTATTTATGTCTTTTTATTGATTAGGGACTGATTTGGAGGCAAAAGCAAAATTAATGGA
12469762 CAAATGTGAGAATTTGGAGACACAATGGGCTGATATACGACACAGGAAAAAGATTGTGCCAAAAG
196 CAAATGTGAGAATTTGGAGACACAATGGGCTGATATACGACACAGGAAAAAGATTGTGCCAAAAG
12469827 TGCGAGCATGGAAGACACAAGGACTAAAAACGCAAAAAAGAAGAGATTTTATTTTATAAGACTCC
261 TGCGAGCATGGAAGACACAAGGACTAAAAACGCAAAAAAGAAGAGATTTTATTTTATAAGACTCC
*
12469892 ATTTTATTTATATTAGGATAATTAATATTAAGATAATTATTAGGATATTTAATTTTAGGATTTTA
326 ATTTTATTTATATTAGGATAAATAATATTAAGATAATTATTAGGATATTTAATTTTAGGATTTTA
12469957 TTTTAATTATTAGGA
391 TTTTAATTATTAGGA
12469972 TA
1 TA
12469974 TTTAATTTTA
Statistics
Matches: 406, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
405 406 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (405 bp):
TAATTTTCACAATGGATACGAACCATACTTGAGGGCAAGCATGGGCTAAGTAGGGAAAATTTGAT
AATGCTATAAAATAACGTATTTTTATGAATTAATCATATGTTTATACTGGGCTTGATCCTACTAA
TTTGAGCTATTTATGTCTTTTTATTGATTAGGGACTGATTTGGAGGCAAAAGCAAAATTAATGGA
CAAATGTGAGAATTTGGAGACACAATGGGCTGATATACGACACAGGAAAAAGATTGTGCCAAAAG
TGCGAGCATGGAAGACACAAGGACTAAAAACGCAAAAAAGAAGAGATTTTATTTTATAAGACTCC
ATTTTATTTATATTAGGATAAATAATATTAAGATAATTATTAGGATATTTAATTTTAGGATTTTA
TTTTAATTATTAGGA
Found at i:12469921 original size:15 final size:15
Alignment explanation
Indices: 12469901--12469952 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
12469891 CATTTTATTT
12469901 ATATTAGGATAATTA
1 ATATTAGGATAATTA
*
12469916 ATATTAAGATAA-T-
1 ATATTAGGATAATTA
*
12469929 -TATTAGGATATTTA
1 ATATTAGGATAATTA
*
12469943 ATTTTAGGAT
1 ATATTAGGAT
12469953 TTTATTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 9 0.30
13 1 0.03
14 1 0.03
15 19 0.63
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (15 bp):
ATATTAGGATAATTA
Found at i:12469964 original size:35 final size:35
Alignment explanation
Indices: 12469925--12470001 Score: 145
Period size: 35 Copynumber: 2.2 Consensus size: 35
12469915 AATATTAAGA
*
12469925 TAATTATTAGGATATTTAATTTTAGGATTTTATTT
1 TAATTATTAGGATATTTAATTTTAGGATTTAATTT
12469960 TAATTATTAGGATATTTAATTTTAGGATTTAATTT
1 TAATTATTAGGATATTTAATTTTAGGATTTAATTT
12469995 TAATTAT
1 TAATTAT
12470002 CTTTATTTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (35 bp):
TAATTATTAGGATATTTAATTTTAGGATTTAATTT
Found at i:12469981 original size:22 final size:19
Alignment explanation
Indices: 12469939--12469999 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
12469929 TATTAGGATA
12469939 TTTAATTTTAGGATTTTAT
1 TTTAATTTTAGGATTTTAT
12469958 TTTAATTATTAGGA---TA-
1 TTTAATT-TTAGGATTTTAT
*
12469974 TTTAATTTTAGGATTTAAT
1 TTTAATTTTAGGATTTTAT
12469993 TTTAATT
1 TTTAATT
12470000 ATCTTTATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
15 6 0.17
16 7 0.19
17 2 0.06
18 1 0.03
19 14 0.39
20 6 0.17
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (19 bp):
TTTAATTTTAGGATTTTAT
Found at i:12472364 original size:21 final size:20
Alignment explanation
Indices: 12472338--12472376 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
12472328 TTGTTTATCA
*
12472338 ATCATCAAGCATTCAAAATCT
1 ATCATCAAACA-TCAAAATCT
12472359 ATCATCAAACATCAAAAT
1 ATCATCAAACATCAAAAT
12472377 AAACATGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (20 bp):
ATCATCAAACATCAAAATCT
Found at i:12477623 original size:22 final size:23
Alignment explanation
Indices: 12477581--12477623 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
12477571 TTTCAAAAAT
*
12477581 TAAACATAATATAATATTTAACA
1 TAAAAATAATATAATATTTAACA
*
12477604 TAAAAATAA-ATATTATTTAA
1 TAAAAATAATATAATATTTAA
12477624 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAAAATAATATAATATTTAACA
Found at i:12477697 original size:43 final size:43
Alignment explanation
Indices: 12477644--12477799 Score: 267
Period size: 43 Copynumber: 3.6 Consensus size: 43
12477634 ATAATTTTTT
* * *
12477644 TAAAGTTCATGATTTTTAGCGGCGTTTGTAAAAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTAAAAAAAGCGCCGC
*
12477687 TAAAGGTCATGGTCTTTAGCGGCATTTGTAAAAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTAAAAAAAGCGCCGC
12477730 TAAAGGTCATGGTCTTTAGCGGCGTTTGTAAAAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTAAAAAAAGCGCCGC
*
12477773 TAAAAGTCATGGTCTTTAGCGGCGTTT
1 TAAAGGTCATGGTCTTTAGCGGCGTTT
12477800 TTTTAAATAA
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (43 bp):
TAAAGGTCATGGTCTTTAGCGGCGTTTGTAAAAAAAGCGCCGC
Found at i:12486818 original size:18 final size:18
Alignment explanation
Indices: 12486791--12486829 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
12486781 AGGAATAGAA
*
12486791 AATTTCATTAGGTTAATT
1 AATTTAATTAGGTTAATT
*
12486809 AATTTAATTAGTTTAATT
1 AATTTAATTAGGTTAATT
12486827 AAT
1 AAT
12486830 ACCTTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (18 bp):
AATTTAATTAGGTTAATT
Found at i:12490963 original size:46 final size:48
Alignment explanation
Indices: 12490796--12490966 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 48
12490786 TGTGTGGGCT
* *
12490796 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-ATGA-GAG-CC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-C-TATTGA-GACGAGAAC
*
12490842 AGTATAAGACCATGTCTGGGACATGGCATCGG-TATTGAGACGAGAAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTATTGAGACGAGAAC
* * *
12490889 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-TGAGATGTG-TC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCTATTGAGACGAGAAC
*
12490934 AGTGTAAGACCATGTCTGAGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
12490967 ATTATACGCT
Statistics
Matches: 108, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
44 9 0.08
45 19 0.18
46 34 0.31
47 31 0.29
48 15 0.14
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTATTGAGACGAGAAC
Found at i:12495066 original size:30 final size:30
Alignment explanation
Indices: 12495032--12495093 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
12495022 TTCTGAGTGT
*
12495032 AAGATTATCTGTCTGTATTCTGTTTGTCTG
1 AAGATTATCTGTCTGTATTCTCTTTGTCTG
*
12495062 AAGATTATCTGTTTGTATTCTCTTTGTCTG
1 AAGATTATCTGTCTGTATTCTCTTTGTCTG
12495092 AA
1 AA
12495094 CTGCATTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.19, C:0.13, G:0.18, T:0.50
Consensus pattern (30 bp):
AAGATTATCTGTCTGTATTCTCTTTGTCTG
Found at i:12495116 original size:14 final size:15
Alignment explanation
Indices: 12495084--12495123 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
12495074 TTGTATTCTC
12495084 TTTGT-CTGAACTGCA
1 TTTGTGCTGAA-TGCA
12495099 TTTGTGCTGAAT-CA
1 TTTGTGCTGAATGCA
12495113 TTTGTG-TGAAT
1 TTTGTGCTGAAT
12495124 TTGATGTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.21
14 8 0.33
15 6 0.25
16 5 0.21
ACGTcount: A:0.20, C:0.12, G:0.23, T:0.45
Consensus pattern (15 bp):
TTTGTGCTGAATGCA
Found at i:12498021 original size:75 final size:75
Alignment explanation
Indices: 12497898--12498047 Score: 282
Period size: 75 Copynumber: 2.0 Consensus size: 75
12497888 AGAGTAATAG
*
12497898 TGGAGAGTAACAATTCAGCATCATCACCTACAGAAACCAAGTCTAGTGTGGAGGAGAATTCGTCT
1 TGGAGAATAACAATTCAGCATCATCACCTACAGAAACCAAGTCTAGTGTGGAGGAGAATTCGTCT
*
12497963 GCTGCTGATT
66 GATGCTGATT
12497973 TGGAGAATAACAATTCAGCATCATCACCTACAGAAACCAAGTCTAGTGTGGAGGAGAATTCGTCT
1 TGGAGAATAACAATTCAGCATCATCACCTACAGAAACCAAGTCTAGTGTGGAGGAGAATTCGTCT
12498038 GATGCTGATT
66 GATGCTGATT
12498048 CCTCAATGAT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (75 bp):
TGGAGAATAACAATTCAGCATCATCACCTACAGAAACCAAGTCTAGTGTGGAGGAGAATTCGTCT
GATGCTGATT
Found at i:12502780 original size:12 final size:13
Alignment explanation
Indices: 12502763--12502791 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
12502753 TCTGGGCCAG
12502763 AAATTTA-AAGAA
1 AAATTTAGAAGAA
12502775 AAATTTAGAAGAA
1 AAATTTAGAAGAA
12502788 AAAT
1 AAAT
12502792 AAAAGGGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (13 bp):
AAATTTAGAAGAA
Found at i:12505893 original size:13 final size:14
Alignment explanation
Indices: 12505868--12505913 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
12505858 CGCGGGCATT
12505868 ACAAACAAATCAAA
1 ACAAACAAATCAAA
*
12505882 ACAAAC-AATCAAT
1 ACAAACAAATCAAA
12505895 ACAAACAAATCAAA
1 ACAAACAAATCAAA
*
12505909 GCAAA
1 ACAAA
12505914 TAATCAATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 12 0.43
14 16 0.57
ACGTcount: A:0.67, C:0.22, G:0.02, T:0.09
Consensus pattern (14 bp):
ACAAACAAATCAAA
Found at i:12505905 original size:27 final size:27
Alignment explanation
Indices: 12505867--12505921 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
12505857 CCGCGGGCAT
12505867 TACAAACAAATCAAAACAAACAATCAA
1 TACAAACAAATCAAAACAAACAATCAA
* *
12505894 TACAAACAAATCAAAGCAAATAATCAA
1 TACAAACAAATCAAAACAAACAATCAA
12505921 T
1 T
12505922 CATAATCAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.64, C:0.20, G:0.02, T:0.15
Consensus pattern (27 bp):
TACAAACAAATCAAAACAAACAATCAA
Found at i:12506438 original size:42 final size:42
Alignment explanation
Indices: 12506392--12506483 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
12506382 TCGAAGTTGG
* *
12506392 GACACATGGCCATGTCTCAGCCCGTGTAACTCACTGACTTGA
1 GACACACGGCCATGTCTCAGCCCGCGTAACTCACTGACTTGA
* *
12506434 GACACACGGTCATGTCTCAGCCCGCGTAACTCACTGACTTGG
1 GACACACGGCCATGTCTCAGCCCGCGTAACTCACTGACTTGA
*
12506476 GTCACACG
1 GACACACG
12506484 ACCGTGTCCC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.23, C:0.33, G:0.23, T:0.22
Consensus pattern (42 bp):
GACACACGGCCATGTCTCAGCCCGCGTAACTCACTGACTTGA
Found at i:12511436 original size:7 final size:7
Alignment explanation
Indices: 12511424--12511462 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
12511414 AAAATATATA
12511424 AATTAAT
1 AATTAAT
12511431 AATTAAT
1 AATTAAT
12511438 AATTAAT
1 AATTAAT
12511445 AATTAAT
1 AATTAAT
12511452 AATTAAT
1 AATTAAT
12511459 AATT
1 AATT
12511463 CTTTGAGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTAAT
Found at i:12512222 original size:31 final size:32
Alignment explanation
Indices: 12512161--12512234 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
12512151 ATGTTAAAAA
* * *
12512161 TATTCTTTATAATTTTTTTTTTACAGTTTTTAT
1 TATT-TTTATAATATTTCTTTTACAATTTTTAT
12512194 TATTTTTA-AATATTTCTTTTACAATTTTTAT
1 TATTTTTATAATATTTCTTTTACAATTTTTAT
*
12512225 AATATTTTAT
1 TAT-TTTTAT
12512235 TAGAAAAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
31 22 0.63
32 9 0.26
33 4 0.11
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.66
Consensus pattern (32 bp):
TATTTTTATAATATTTCTTTTACAATTTTTAT
Found at i:12518071 original size:65 final size:65
Alignment explanation
Indices: 12517967--12518096 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
12517957 CAATAAATAT
12517967 ATAACTTGAGTTCTCTACAACCTATTACTTGAATACGGACAAATATTAATTTCTAAGGTTTCTTA
1 ATAACTTGAGTTCTCTACAACCTATTACTTGAATACGGACAAATATTAATTTCTAAGGTTTCTTA
*
12518032 ATAACTTGAGTTCTCTACAGCCTATTACTTGAATACGGACAAATATTAATTTCTAAGGTTTCTTA
1 ATAACTTGAGTTCTCTACAACCTATTACTTGAATACGGACAAATATTAATTTCTAAGGTTTCTTA
12518097 CTTACATATT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (65 bp):
ATAACTTGAGTTCTCTACAACCTATTACTTGAATACGGACAAATATTAATTTCTAAGGTTTCTTA
Found at i:12519520 original size:13 final size:13
Alignment explanation
Indices: 12519502--12519526 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12519492 AGGTGTTCTT
12519502 TTTATTCGTTTTC
1 TTTATTCGTTTTC
12519515 TTTATTCGTTTT
1 TTTATTCGTTTT
12519527 TATTTTGTTC
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:0.08, C:0.12, G:0.08, T:0.72
Consensus pattern (13 bp):
TTTATTCGTTTTC
Found at i:12520273 original size:31 final size:31
Alignment explanation
Indices: 12520238--12520310 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
12520228 GTTTAAACTT
* * *
12520238 TAATTTAGTCCTTCAGGCATTTATTTTCTTA
1 TAATTTAGGCCTTCAAGCATTTATTTTATTA
*
12520269 TAATTTAGGCCTTCAAGCCTTTATTTTATTA
1 TAATTTAGGCCTTCAAGCATTTATTTTATTA
12520300 TAATTTAGGCC
1 TAATTTAGGCC
12520311 CAAAATCTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (31 bp):
TAATTTAGGCCTTCAAGCATTTATTTTATTA
Found at i:12521090 original size:22 final size:23
Alignment explanation
Indices: 12521048--12521090 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
12521038 CCGAATATCC
* *
12521048 TTTTAAAATCAAAATACATAAGA
1 TTTTAAAATCAAAAAAAATAAGA
12521071 TTTTAAAAT-AAAAAAAATAA
1 TTTTAAAATCAAAAAAAATAA
12521091 AGGCAAGCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (23 bp):
TTTTAAAATCAAAAAAAATAAGA
Found at i:12524993 original size:10 final size:10
Alignment explanation
Indices: 12524978--12525025 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
12524968 AATTTTCCAT
12524978 TTTCTTTTTC
1 TTTCTTTTTC
12524988 TTTCTTTTTC
1 TTTCTTTTTC
* *
12524998 TTTCCTTTCTA
1 TTT-CTTTTTC
*
12525009 TTTCGTTTTC
1 TTTCTTTTTC
*
12525019 ATTCTTT
1 TTTCTTT
12525026 GTTCCCTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.04, C:0.21, G:0.02, T:0.73
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:12525005 original size:15 final size:16
Alignment explanation
Indices: 12524977--12525018 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
12524967 TAATTTTCCA
*
12524977 TTTTCTTTTTCTTTCT
1 TTTTCTTTTCCTTTCT
12524993 TTTTC-TTTCCTTTCT
1 TTTTCTTTTCCTTTCT
*
12525008 ATTTCGTTTTC
1 TTTTC-TTTTC
12525019 ATTCTTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 13 0.59
16 5 0.23
17 4 0.18
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTTCTTTTCCTTTCT
Found at i:12525076 original size:5 final size:5
Alignment explanation
Indices: 12525066--12525098 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
12525056 TACTTTTAAG
12525066 TATTA TATTA TATTA TTATTA TATTA TA-TA TAT
1 TATTA TATTA TATTA -TATTA TATTA TATTA TAT
12525099 GCTTAAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:12534301 original size:40 final size:40
Alignment explanation
Indices: 12534246--12534465 Score: 363
Period size: 40 Copynumber: 5.5 Consensus size: 40
12534236 TATTAAAGCN
12534246 GGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGTATATCC
1 GGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGTATATCC
12534286 GGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGTATATCC
1 GGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGTATATCC
12534326 GGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGTATATCC
1 GGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGTATATCC
*
12534366 GGGTTAAATCTCGCAGGCTTCGTGCTGGTAATGTATATCC
1 GGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGTATATCC
* * *
12534406 GGGTTAAATCCCGCAGGCTTAGTGCTGGT-A-CTATATCT
1 GGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGTATATCC
*
12534444 GGGCTTAAAGTTCCGCAGGCTT
1 GGG-TTAAA-TCCCGCAGGCTT
12534466 TGAGCTAGTA
Statistics
Matches: 172, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
38 9 0.05
39 6 0.03
40 157 0.91
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (40 bp):
GGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGTATATCC
Found at i:12541153 original size:40 final size:40
Alignment explanation
Indices: 12541109--12541184 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
12541099 GATATATTAA
*
12541109 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGT
1 ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATGT
12541149 ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
1 ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
12541185 CTATATTCGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (40 bp):
ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATGT
Found at i:12541209 original size:40 final size:40
Alignment explanation
Indices: 12541109--12541214 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 40
12541099 GATATATTAA
* * *
12541109 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATGT
1 ATATCCGGGCTAAATCCCGCAGGCTTAGTGCTGGTAATCT
*
12541149 ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGT-A-CT
1 ATATCCGGGCTAAATCCCGCAGGCTTAGTGCTGGTAATCT
* *
12541187 ATATTCGGGCCTAAAGTTCCGCAGGCTT
1 ATATCCGGG-CTAAA-TCCCGCAGGCTT
12541215 TGAGCTTGTA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 9 0.15
39 5 0.08
40 45 0.76
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAATCCCGCAGGCTTAGTGCTGGTAATCT
Found at i:12544514 original size:26 final size:26
Alignment explanation
Indices: 12544485--12544535 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
12544475 ACACAAACAA
* *
12544485 ATTTAAAAGATAATATATATATAAAG
1 ATTTAAAAGAAAATATATACATAAAG
*
12544511 ATTTAAAAGAAAATATTTACATAAA
1 ATTTAAAAGAAAATATATACATAAA
12544536 ATAATATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (26 bp):
ATTTAAAAGAAAATATATACATAAAG
Found at i:12547396 original size:10 final size:10
Alignment explanation
Indices: 12547381--12547430 Score: 57
Period size: 10 Copynumber: 4.7 Consensus size: 10
12547371 TTCACTTTAG
12547381 AAAAAAAGAA
1 AAAAAAAGAA
12547391 AAAAAAAGAA
1 AAAAAAAGAA
12547401 AACAAAAA-AA
1 AA-AAAAAGAA
12547411 TAAAATAAAGAA
1 -AAAA-AAAGAA
12547423 AAATAAAA
1 AAA-AAAA
12547431 AGAACAAGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
10 16 0.46
11 16 0.46
12 3 0.09
ACGTcount: A:0.86, C:0.02, G:0.06, T:0.06
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:12547402 original size:18 final size:19
Alignment explanation
Indices: 12547379--12547415 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
12547369 ACTTCACTTT
12547379 AGAAAA-AAAGAAAA-AAAA
1 AGAAAACAAA-AAAATAAAA
12547397 AGAAAACAAAAAAATAAAA
1 AGAAAACAAAAAAATAAAA
12547416 TAAAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.86, C:0.03, G:0.08, T:0.03
Consensus pattern (19 bp):
AGAAAACAAAAAAATAAAA
Found at i:12547421 original size:32 final size:35
Alignment explanation
Indices: 12547381--12547444 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
12547371 TTCACTTTAG
12547381 AAAAAAAG-AAAA-AAAAAGAA-AA-CAAAAAAAT
1 AAAAAAAGAAAAATAAAAAGAACAAGCAAAAAAAT
12547412 AAAATAAAGAAAAATAAAAAGAACAAGCAAAAA
1 AAAA-AAAGAAAAATAAAAAGAACAAGCAAAAA
12547445 GGAGAGGCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
31 4 0.14
32 4 0.14
33 4 0.14
34 8 0.29
35 2 0.07
36 6 0.21
ACGTcount: A:0.83, C:0.05, G:0.08, T:0.05
Consensus pattern (35 bp):
AAAAAAAGAAAAATAAAAAGAACAAGCAAAAAAAT
Found at i:12547425 original size:23 final size:23
Alignment explanation
Indices: 12547381--12547434 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
12547371 TTCACTTTAG
12547381 AAAAAAAGAAAAAAAAAGAAAAC
1 AAAAAAAGAAAAAAAAAGAAAAC
* *
12547404 AAAAAAA-TAAAATAAAGAAAA-
1 AAAAAAAGAAAAAAAAAGAAAAC
*
12547425 ATAAAAAGAA
1 AAAAAAAGAA
12547435 CAAGCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 6 0.23
22 13 0.50
23 7 0.27
ACGTcount: A:0.85, C:0.02, G:0.07, T:0.06
Consensus pattern (23 bp):
AAAAAAAGAAAAAAAAAGAAAAC
Found at i:12548593 original size:44 final size:44
Alignment explanation
Indices: 12548530--12548734 Score: 187
Period size: 44 Copynumber: 4.6 Consensus size: 44
12548520 GGCAAATCTT
* * * * *
12548530 ATCTCCCTAAAGTTACAGTGGAACATATTAAAGCTATTAACCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAACCTC
** * * * *
12548574 ATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATAGCAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-TAAACCTC
* * ** *
12548619 ATCTCTCTGAAATTGCAGAAGAGCAGATTAAAGCTATAAACCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAACCTC
* * * * **
12548663 ATCTCCCTGAAGTTGCGGTGGAGCATG-TTGAAGTTACAAGTCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCA-GATTAAAGCTATAAACCTC
12548707 ATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGAT
12548735 GAAGATAGCG
Statistics
Matches: 126, Mismatches: 32, Indels: 6
0.77 0.20 0.04
Matches are distributed among these distances:
43 1 0.01
44 91 0.72
45 34 0.27
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAACCTC
Found at i:12548652 original size:89 final size:89
Alignment explanation
Indices: 12548521--12548687 Score: 237
Period size: 89 Copynumber: 1.9 Consensus size: 89
12548511 ATCTACCGTG
** * *
12548521 GCAAATCTTATCTCCCTAAAGTTACAGTGGAACATATTAAAGCTATTAACCTCATCTCCCTGAAG
1 GCAAATCTTATCTCCCTAAAGTTACAGAAGAACAGATTAAAGCTATAAACCTCATCTCCCTGAAG
12548586 TTGCAGTGGAGCAGATCGAAGATA
66 TTGCAGTGGAGCAGATCGAAGATA
* * * *
12548610 GCAAATCTTATCTCTCTGAAA-TTGCAGAAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGAA
1 GCAAATCTTATCTCCCT-AAAGTTACAGAAGAACAGATTAAAGCTATAAACCTCATCTCCCTGAA
*
12548674 GTTGCGGTGGAGCA
65 GTTGCAGTGGAGCA
12548688 TGTTGAAGTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
89 65 0.96
90 3 0.04
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (89 bp):
GCAAATCTTATCTCCCTAAAGTTACAGAAGAACAGATTAAAGCTATAAACCTCATCTCCCTGAAG
TTGCAGTGGAGCAGATCGAAGATA
Found at i:12548752 original size:88 final size:89
Alignment explanation
Indices: 12548568--12548769 Score: 203
Period size: 88 Copynumber: 2.3 Consensus size: 89
12548558 TAAAGCTATT
* * *
12548568 AACCTCATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATAGCAAATCTTATCTCTCTGAAATT
1 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATAGCAAATCTCATCTCCCTGAAATT
* *
12548633 GCAGAAGAGCAGATTAAAGCTATA
66 GCAGAAGAGCAGATTAAAGATACA
* * * * *
12548657 AACCTTATCTCCCTGAAGTTGCGGTGGAGCATG-TTGAAGTTA-CAAGTCTCATCTCCCTGAAGT
1 AACCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATCGAAGATAGCAAATCTCATCTCCCTGAAAT
** * *
12548720 TGCAGTGGAGCAGA-TGAAGATAGCG
65 TGCAGAAGAGCAGATTAAAGATA-CA
* * * *
12548745 AATCTTATTTCCCTAAAGTTACAGT
1 AACCTTATCTCCCTGAAGTTGCAGT
12548770 AGAATAGATT
Statistics
Matches: 92, Mismatches: 19, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
87 6 0.07
88 49 0.53
89 36 0.39
90 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (89 bp):
AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATAGCAAATCTCATCTCCCTGAAATT
GCAGAAGAGCAGATTAAAGATACA
Found at i:12548758 original size:44 final size:45
Alignment explanation
Indices: 12548521--12549384 Score: 433
Period size: 45 Copynumber: 18.7 Consensus size: 45
12548511 ATCTACCGTG
* * * * * *
12548521 GCAAATCTTATCTCCCTAAAGTTACAGTGGAACATATTAAAGCTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
** * * *
12548566 -TTAACCTCATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * ** * *
12548610 GCAAATCTTATCTCTCTGAAATTGCAGAAGAGCAGATTAAAGCTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
12548655 -TAAACCTTATCTCCCTGAAGTTGCGGTGGAGCATG-TTGAAGTTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGATA
* *
12548699 -CAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * ** * *
12548742 GCGAATCTTATTTCCCTAAAGTTACAGTAGAATAGATTAAAGCTACCA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TA
* * **
12548790 GACACAAATCTTATAC-CTCTGAAGTTGCAGTAAGTTGGATCA-AGTCT-ACCATA
1 G---CAAATCTTAT-CTCCCTGAAGTTGC----AG-TGGAGCAGA-T-TGAAGATA
* * * * *
12548843 GCAAATCTGATCTCTCTGAAGTTACAGTGGAGCAAACTGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * *
12548888 GCAAATCTTATTTCTCTAAAGTTACAGTGGAACAGATTAAGGCTACAAATTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--A-AGA-TA
* * * *
12548940 -CAAATCTGATCTCCATGAAGTTGTAGTGGAGCAGATTGAAGAAA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
12548984 GCAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGAGTGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * *
12549029 GCAAATCTTACCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGTTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * * *
12549074 -TAAGTCTTATTTTCCTAAAGTTGCAGTAGAGCAGATTGAATATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * **
12549118 GCGAATCTTATTTCCCTGAAGTTACAGTGGAATAGATT-AAGACTA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TA
* * * *
12549163 -CAAATTACAGATCTTATCTCCTTGAAGTTACAGTGGACCAGACTGAAGATA
1 GC-----A-A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * *
12549214 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAACTGATTAAAGCTATAAA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A
* * * *
12549263 TTACAAATCTTATCTCCCTGAAGTTGCAATGGAGCATG-TCGAAGTTA
1 --GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGATA
** * * * * *
12549310 -CAGGTCTTATCTCCTTGAAGTTGTAGTGGAGTAAACTGAAGATA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
12549354 GCGAATCTTATTTCCCTAAAGTTGTAGTGGA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGGA
12549385 ATAGATTAAA
Statistics
Matches: 611, Mismatches: 158, Indels: 100
0.70 0.18 0.12
Matches are distributed among these distances:
43 8 0.01
44 193 0.32
45 239 0.39
46 5 0.01
47 4 0.01
48 4 0.01
49 3 0.00
50 22 0.04
51 112 0.18
52 8 0.01
53 2 0.00
54 1 0.00
55 3 0.00
56 6 0.01
57 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (45 bp):
GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
Found at i:12549221 original size:96 final size:96
Alignment explanation
Indices: 12548985--12549287 Score: 282
Period size: 96 Copynumber: 3.2 Consensus size: 96
12548975 TTGAAGAAAG
* * ** * * ** *
12548985 CAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGAGTGAAGATAGCAAATCTTACCTCTCTGAAG
1 CAAATCTTATCTCCCTGAAGTTACAGTAGACCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
* * * *
12549050 TTGCAGTAGAGCAGATTAAAG-------TTA
66 TTACAGTGGAACTGATTAAAGCTACAAATTA
* * * * * * * * *
12549074 TAAGTCTTATTTTCCTAAAGTTGCAGTAGAGCAGATTGAATATAGCGAATCTTATTTCCCTGAAG
1 CAAATCTTATCTCCCTGAAGTTACAGTAGACCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
12549139 TTACAGTGGAA-TAGATT-AAGACTACAAATTA
66 TTACAGTGGAACT-GATTAAAG-CTACAAATTA
* * *
12549170 CAGATCTTATCTCCTTGAAGTTACAGTGGACCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
1 CAAATCTTATCTCCCTGAAGTTACAGTAGACCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
* *
12549235 TTGCAGTGGAACTGATTAAAGCTATAAATTA
66 TTACAGTGGAACTGATTAAAGCTACAAATTA
12549266 CAAATCTTATCTCCCTGAAGTT
1 CAAATCTTATCTCCCTGAAGTT
12549288 GCAATGGAGC
Statistics
Matches: 170, Mismatches: 33, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
88 3 0.02
89 64 0.38
96 99 0.58
97 4 0.02
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (96 bp):
CAAATCTTATCTCCCTGAAGTTACAGTAGACCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
TTACAGTGGAACTGATTAAAGCTACAAATTA
Found at i:12549385 original size:236 final size:231
Alignment explanation
Indices: 12548696--12549401 Score: 701
Period size: 230 Copynumber: 3.0 Consensus size: 231
12548686 CATGTTGAAG
* * *
12548696 TTACAAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGATGAAGATAGCGAATCTTATTTCCCTAA
1 TTACAAATCTGATCTCCATGAAGTTGCAGTGGAGCAGATGAAGATAGCGAATCTTATTTCCCTAA
* *
12548761 AGTTACAGTAGAATAGATTAAAGCTACCAGACACAAATCTTATAC-CTCTGAAGTTGCAGTAAGT
66 AGTTACAGTGGAAT-GATTAAAGCTA--AGATACAAATCTTAT-CTCTCTGAAGTTGC---AA--
* * *** * * *
12548825 TGGATCAAGTCTACCATAGCAAATCTGATCT-CTCTGAAGTTACAGTGGAGCAAACTGAAGATAG
122 TGGAGC-AGTCAAAGTTA-CAAGTCTTATCTCCT-TGAAGTTGCAGTGGAGCAAACTGAAGATAG
* * * *
12548889 CAAATCTTATTTCTCTAAAGTTACAGTGGAACAGATTAAGGCTACAAA
184 CGAATCTTATTTCCCTAAAGTTACAGTGGAATAGATTAAGACTACAAA
* * * *
12548937 TTACAAATCTGATCTCCATGAAGTTGTAGTGGAGCAGATTGAAGAAAGCAAATCTTATCTCCCTA
1 TTACAAATCTGATCTCCATGAAGTTGCAGTGGAGCAGA-TGAAGATAGCGAATCTTATTTCCCTA
* * * *
12549002 AAGTTACAGTGG-A-G--TAGAG-TGAAGATAGCAAATCTTACCTCTCTGAAGTTGCAGTAGAGC
65 AAGTTACAGTGGAATGATTAAAGCT-AAGATA-CAAATCTTATCTCTCTGAAGTTGCAATGGAGC
* * * * * * * *
12549062 AGATTAAAGTTATAAGTCTTATTTTCC-TAAAGTTGCAGTAGAGCAGATTGAATATAGCGAATCT
128 AG-TCAAAGTTACAAGTCTTA-TCTCCTTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCT
*
12549126 TATTTCCCTGAAGTTACAGTGGAATAGATTAAGACTACAAA
191 TATTTCCCTAAAGTTACAGTGGAATAGATTAAGACTACAAA
* * * * * *
12549167 TTACAGATCTTATCTCCTTGAAGTTACAGTGGACCAGACTGAAGATAGCGAATCTTATTTCCCTG
1 TTACAAATCTGATCTCCATGAAGTTGCAGTGGAGCAGA-TGAAGATAGCGAATCTTATTTCCCTA
* * *
12549232 AAGTTGCAGTGGAACTGATTAAAGCTATAAATTACAAATCTTATCTCCCTGAAGTTGCAATGGAG
65 AAGTTACAGTGGAA-TGATTAAAGCTA-AGA-TACAAATCTTATCTCTCTGAAGTTGCAATGGAG
* * * *
12549297 CATGTCGAAGTTACAGGTCTTATCTCCTTGAAGTTGTAGTGGAGTAAACTGAAGATAGCGAATCT
127 CA-GTCAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCT
**
12549362 TATTTCCCTAAAGTTGTAGTGGAATAGATTAA-AGCTACAA
191 TATTTCCCTAAAGTTACAGTGGAATAGATTAAGA-CTACAA
12549402 GTTATCATGG
Statistics
Matches: 380, Mismatches: 67, Indels: 41
0.78 0.14 0.08
Matches are distributed among these distances:
230 140 0.37
231 11 0.03
232 1 0.00
233 2 0.01
235 15 0.04
236 133 0.35
237 8 0.02
239 1 0.00
241 35 0.09
242 34 0.09
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (231 bp):
TTACAAATCTGATCTCCATGAAGTTGCAGTGGAGCAGATGAAGATAGCGAATCTTATTTCCCTAA
AGTTACAGTGGAATGATTAAAGCTAAGATACAAATCTTATCTCTCTGAAGTTGCAATGGAGCAGT
CAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCTTATTT
CCCTAAAGTTACAGTGGAATAGATTAAGACTACAAA
Found at i:12549543 original size:44 final size:44
Alignment explanation
Indices: 12549478--12549591 Score: 120
Period size: 44 Copynumber: 2.6 Consensus size: 44
12549468 CTTATCTTCA
* * * * *
12549478 TGAAGTTGCAGTGAAGAAGATTGAAGATACGAGTCTCATTTCCT
1 TGAAGTTGCAGTGGAGAAGATTGAAGATACAAGTCTAATCTCCC
* * *
12549522 TGAAGTTGCAGTGGAGCAGATTAAAGCTACAAGTCTAATCTCCC
1 TGAAGTTGCAGTGGAGAAGATTGAAGATACAAGTCTAATCTCCC
* * * *
12549566 TGAAGTTACAGTAGAGTAGATCGAAG
1 TGAAGTTGCAGTGGAGAAGATTGAAG
12549592 CGCCAATTTC
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.26
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGAAGATTGAAGATACAAGTCTAATCTCCC
Found at i:12551154 original size:12 final size:12
Alignment explanation
Indices: 12551137--12551174 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
12551127 GGTGTATTCC
12551137 TTATATATATAT
1 TTATATATATAT
*
12551149 TTATATATATTT
1 TTATATATATAT
*
12551161 TTATATACATAT
1 TTATATATATAT
12551173 TT
1 TT
12551175 TTATTTCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (12 bp):
TTATATATATAT
Found at i:12551736 original size:22 final size:23
Alignment explanation
Indices: 12551694--12551736 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
12551684 CCGAATATCC
* *
12551694 TTTTAAAATCAAAATACATAAGA
1 TTTTAAAATCAAAAAAAATAAGA
12551717 TTTTAAAAT-AAAAAAAATAA
1 TTTTAAAATCAAAAAAAATAA
12551737 AGGCAAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (23 bp):
TTTTAAAATCAAAAAAAATAAGA
Found at i:12563130 original size:16 final size:16
Alignment explanation
Indices: 12563109--12563139 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12563099 AATGATTTAA
12563109 ATGAAATGCGTTTGTC
1 ATGAAATGCGTTTGTC
*
12563125 ATGAAATGCTTTTGT
1 ATGAAATGCGTTTGT
12563140 TCACTCTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (16 bp):
ATGAAATGCGTTTGTC
Found at i:12572220 original size:105 final size:106
Alignment explanation
Indices: 12572022--12572229 Score: 312
Period size: 106 Copynumber: 2.0 Consensus size: 106
12572012 TGTTGTTCTA
*
12572022 AAAAAATATTTCCCATACCATAAAAAAGGTTGGGTCATACTAACATATTGAGTATTTTTATAATT
1 AAAAAATATTTCCCATACCATAAAAAAGGTTGGGTCATACTAACATATTGAGTATTCTTATAATT
*
12572087 TCAATTAAAGGTAGAATTGAGATAATCCATACTTTAAATCT
66 TCAATCAAAGGTAGAATTGAGATAATCCATACTTTAAATCT
* ** * *
12572128 AAAAAATATTTCCCATAGCATAAAAAAGGTTGGGTTGTACTGATATATTGCA-TA-TCTTATAAT
1 AAAAAATATTTCCCATACCATAAAAAAGGTTGGGTCATACTAACATATTG-AGTATTCTTATAAT
* *
12572191 TTCAATCATAGGTAGAATTGAGATGATCCATACTTTAAA
65 TTCAATCAAAGGTAGAATTGAGATAATCCATACTTTAAA
12572230 GAGTACATGA
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
105 44 0.48
106 47 0.51
107 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (106 bp):
AAAAAATATTTCCCATACCATAAAAAAGGTTGGGTCATACTAACATATTGAGTATTCTTATAATT
TCAATCAAAGGTAGAATTGAGATAATCCATACTTTAAATCT
Found at i:12572753 original size:13 final size:13
Alignment explanation
Indices: 12572735--12572764 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
12572725 AGACTAAAGA
12572735 ATGGAGCATTGGC
1 ATGGAGCATTGGC
12572748 ATGGAGCATTGGC
1 ATGGAGCATTGGC
12572761 ATGG
1 ATGG
12572765 GGTTTTAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.13, G:0.40, T:0.23
Consensus pattern (13 bp):
ATGGAGCATTGGC
Found at i:12574848 original size:22 final size:21
Alignment explanation
Indices: 12574822--12574874 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 21
12574812 TTTTTGAAAG
12574822 TGTTGATGATTTTGAAAGGTTT
1 TGTTGATGATTTTGAAA-GTTT
12574844 TGTTGATGATTTTGAAAGTTT
1 TGTTGATGATTTTGAAAGTTT
*
12574865 TCATTGATGA
1 T-GTTGATGA
12574875 ATCAATGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 5 0.17
22 24 0.83
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.49
Consensus pattern (21 bp):
TGTTGATGATTTTGAAAGTTT
Found at i:12574850 original size:19 final size:18
Alignment explanation
Indices: 12574813--12574862 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 18
12574803 ATGTCTCAAT
12574813 TTTTGAAAGTGTTGATGA
1 TTTTGAAAGTGTTGATGA
12574831 TTTTGAAAGGTTTTGTTGATGA
1 TTTTGAAA-G---TGTTGATGA
12574853 TTTTGAAAGT
1 TTTTGAAAGT
12574863 TTTCATTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 9 0.32
19 1 0.04
21 1 0.04
22 17 0.61
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (18 bp):
TTTTGAAAGTGTTGATGA
Found at i:12575498 original size:40 final size:41
Alignment explanation
Indices: 12575446--12575564 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 41
12575436 GCGTTTTGAG
* *
12575446 ATAGCTTT-GGCTATATAGAGCACTTAGTGTGCGAG-TCGGA
1 ATAG-TTTCGGCTATATATAGCACTTAGTGTGCGAGATCAGA
* *
12575486 ATAGTTTCGGCTATATATATGGCACTTAGTGTGCGAGATTATA
1 ATAGTTTCGGCTATATATA--GCACTTAGTGTGCGAGATCAGA
* * *
12575529 ATAGCTTCGGCTATGCTTTAGCACTTAGTGTGCGAG
1 ATAGTTTCGGCTAT-ATATAGCACTTAGTGTGCGAG
12575565 GTATCGAGTA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
39 3 0.04
40 14 0.21
42 32 0.48
43 15 0.22
44 3 0.04
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (41 bp):
ATAGTTTCGGCTATATATAGCACTTAGTGTGCGAGATCAGA
Done.