Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 138 of 214
Found at i:41815131 original size:134 final size:134
Alignment explanation
Indices: 41814973--41815248 Score: 482
Period size: 134 Copynumber: 2.1 Consensus size: 134
41814963 GCCATCTTTG
* *
41814973 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCATTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
* * *
41815038 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGAAAAGCAAGATC
41815103 TGCA-
131 TG-AT
41815107 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
*
41815172 TTGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGAAAAGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGAAAAGCAAGATC
41815237 TGAT
131 TGAT
41815241 ATCTTCAA
1 ATCTTCAA
41815249 CCAGCTCTGC
Statistics
Matches: 135, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
133 1 0.01
134 134 0.99
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (134 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
TGGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGAAAAGCAAGATC
TGAT
Found at i:41815180 original size:229 final size:229
Alignment explanation
Indices: 41814773--41815205 Score: 758
Period size: 229 Copynumber: 1.9 Consensus size: 229
41814763 TTCTTGCCCC
41814773 GGGAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAACCTGCCATCTTC
1 GGGAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAACCTGCCATCTTC
*
41814838 GATCTGCTTTGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
*
41814903 TACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
131 TACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
*
41814968 CTTTGATCTTCAATCTATTCCACTGCCAAATACA
196 CTTCGATCTTCAATCTATTCCACTGCCAAATACA
** * * ** * *
41815002 GGGAGATAGAGTTATCGGCTTCAATGTACTCCATTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAACCTGCCATCTTC
41815067 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
*
41815132 TACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTTGTCAGGGAGGTAAAATCTGCCAT
131 TACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
41815197 CTTCGATCT
196 CTTCGATCT
41815206 GCTTCGCTGC
Statistics
Matches: 192, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
229 192 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (229 bp):
GGGAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAACCTGCCATCTTC
GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
TACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCAT
CTTCGATCTTCAATCTATTCCACTGCCAAATACA
Found at i:41815318 original size:42 final size:42
Alignment explanation
Indices: 41815272--41815405 Score: 105
Period size: 42 Copynumber: 3.1 Consensus size: 42
41815262 AAACGAGAGT
41815272 GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
1 GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
* * * * * * * * *
41815314 GGCAAGATCTGCTATCTTCAACCAGC-TCTACT-ACAA-AC-GAGAGT
1 GGCAAGGT-T--TGTCTTCGATCTGCTTC-GCTGTCAATGCAG-GA-A
41815358 GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
1 GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
41815400 GGCAAG
1 GGCAAG
41815406 ATCTGATAAC
Statistics
Matches: 64, Mismatches: 18, Indels: 20
0.63 0.18 0.20
Matches are distributed among these distances:
41 12 0.19
42 19 0.30
43 8 0.12
44 13 0.20
45 12 0.19
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (42 bp):
GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
Found at i:41815334 original size:86 final size:86
Alignment explanation
Indices: 41815196--41815459 Score: 420
Period size: 86 Copynumber: 3.1 Consensus size: 86
41815186 AAATCTGCCA
* * * *
41815196 TCTTCGATCTGCTTCGCTGCCAAATACAGAAAAGCAAGATCTGATATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTA
41815261 CAAACGAGAGTGGCAAGGTTTG
65 CAAACGAGAGTGGCAAGGTTTG
* *
41815283 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAC
41815348 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGTGGCAAGGTTTG
*
41815369 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAC
* * * *
41815434 GACCGAGAGAGGCAAGGTTTA
66 AAACGAGAGTGGCAAGGTTTG
41815455 TCTTC
1 TCTTC
41815460 AATTTTTACT
Statistics
Matches: 164, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 144 0.88
87 20 0.12
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTGCTAC
AAACGAGAGTGGCAAGGTTTG
Found at i:41819588 original size:19 final size:20
Alignment explanation
Indices: 41819564--41819607 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
41819554 CGTGAAAGTC
* *
41819564 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
41819583 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
41819603 -AATGC
1 TAATGC
41819608 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:41821668 original size:14 final size:14
Alignment explanation
Indices: 41821651--41821677 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
41821641 TAATAGGAAA
41821651 ATAATAAAAAAATG
1 ATAATAAAAAAATG
41821665 ATAATAAAAAAAT
1 ATAATAAAAAAAT
41821678 AGTAACATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
ATAATAAAAAAATG
Found at i:41825315 original size:19 final size:19
Alignment explanation
Indices: 41825291--41825328 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
41825281 CGAATACCTA
41825291 TAAAATAAATCCATATGTT
1 TAAAATAAATCCATATGTT
*
41825310 TAAAATAAATCTATATGTT
1 TAAAATAAATCCATATGTT
41825329 ATTCCCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAAATAAATCCATATGTT
Found at i:41826731 original size:26 final size:26
Alignment explanation
Indices: 41826680--41826731 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
41826670 TAGGCGCCAA
**
41826680 TGAATAAAATAATAATATATTTTTTT
1 TGAATAAAATAATAATATATAATTTT
*
41826706 TGAATAAAAT-ATAATTTTATAATTTT
1 TGAATAAAATAATAA-TATATAATTTT
41826732 AATATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (26 bp):
TGAATAAAATAATAATATATAATTTT
Found at i:41826829 original size:27 final size:27
Alignment explanation
Indices: 41826799--41826863 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
41826789 CCTATCCGGT
41826799 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
*
41826826 AGGCGCCAATGAAGGTGCCTCATTGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
41826853 AGGCGCCAATG
1 AGGCGCCAATG
41826864 GTGCCTTCTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.28, C:0.23, G:0.34, T:0.15
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCATAGAG
Found at i:41827116 original size:12 final size:12
Alignment explanation
Indices: 41827099--41827124 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
41827089 TTTGTGAAAT
41827099 TTTTAGAAGATA
1 TTTTAGAAGATA
41827111 TTTTAGAAGATA
1 TTTTAGAAGATA
41827123 TT
1 TT
41827125 GTGAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (12 bp):
TTTTAGAAGATA
Found at i:41827328 original size:27 final size:25
Alignment explanation
Indices: 41827255--41827466 Score: 236
Period size: 27 Copynumber: 8.7 Consensus size: 25
41827245 TATTGTAATG
41827255 TTGTATGAATATTGT-A-A-TT-TT
1 TTGTATGAATATTGTAATATTTATT
41827276 TTGTATGAATATTGT-A-ATTT-TT
1 TTGTATGAATATTGTAATATTTATT
41827298 TTGTATGAATATTGTAATATTATAGTT
1 TTGTATGAATATTGTAATATT-TA-TT
*
41827325 TTGTATGAATATTG-CA-ATTT-TT
1 TTGTATGAATATTGTAATATTTATT
41827347 TTGTATGAATATTGTAATATTGTAATT
1 TTGTATGAATATTGTAATATT-T-ATT
41827374 TTGTATGAATATTGTAATATTATAATT
1 TTGTATGAATATTGTAATATT-T-ATT
*
41827401 TTGTATGAATATTG-CA-A-TT-TT
1 TTGTATGAATATTGTAATATTTATT
41827422 TTGTATGAATATTGTAATATTGTAATT
1 TTGTATGAATATTGTAATATT-T-ATT
41827449 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
41827467 GTCGGGATAT
Statistics
Matches: 169, Mismatches: 5, Indels: 28
0.84 0.02 0.14
Matches are distributed among these distances:
21 33 0.20
22 36 0.21
23 4 0.02
24 9 0.05
25 7 0.04
26 2 0.01
27 78 0.46
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (25 bp):
TTGTATGAATATTGTAATATTTATT
Found at i:41827333 original size:49 final size:48
Alignment explanation
Indices: 41827224--41827511 Score: 232
Period size: 49 Copynumber: 6.0 Consensus size: 48
41827214 TTTTTGTATG
* * *
41827224 AATATTGTAATTTTTTATGAATATTGTAA---TGTTGTATGAATATTGT
1 AATATTAT-ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
41827270 -A-A-T-T-TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
1 AATATTATATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
*
41827313 AATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATA-TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
*
41827362 AATATTGTAATTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTG-
1 AATATTAT-ATTTTGTATGAATATTGT-A-ATT-T--TTTTGTATGAATATTGT
*
41827415 CA-A-T-T-TTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGT
1 AATATTATATTTTGTATGAATATTGT-A-ATT-T--TTTTGTATGAATATTGT
* * *
41827464 AATGTCGGGATATATTG--T-AATATTGTAA-TTTTTTGTATGAATATTGT
1 AATAT---TATATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
41827511 A
1 A
41827512 CTTATTTTAT
Statistics
Matches: 208, Mismatches: 11, Indels: 45
0.79 0.04 0.17
Matches are distributed among these distances:
40 18 0.09
42 1 0.00
43 17 0.08
44 2 0.01
45 2 0.01
46 1 0.00
47 19 0.09
48 42 0.20
49 63 0.30
50 4 0.02
51 5 0.02
52 3 0.01
53 9 0.04
54 17 0.08
55 1 0.00
56 4 0.02
ACGTcount: A:0.32, C:0.01, G:0.15, T:0.52
Consensus pattern (48 bp):
AATATTATATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
Found at i:41827367 original size:8 final size:8
Alignment explanation
Indices: 41827354--41827492 Score: 59
Period size: 8 Copynumber: 16.4 Consensus size: 8
41827344 TTTTTGTATG
41827354 AATATTGT
1 AATATTGT
41827362 AATATTGT
1 AATATTGT
*
41827370 AATTTTGTAT
1 AATATTG--T
41827380 GAATATTGT
1 -AATATTGT
*
41827389 AATATTAT
1 AATATTGT
*
41827397 AATTTTGTAT
1 AATATTG--T
*
41827407 GAATATTGC
1 -AATATTGT
*
41827416 AAT-TTTT
1 AATATTGT
**
41827423 TGTA-TG-
1 AATATTGT
41827429 AATATTGT
1 AATATTGT
41827437 AATATTGT
1 AATATTGT
*
41827445 AATTTTGTAT
1 AATATTG--T
41827455 GAATATTGT
1 -AATATTGT
* * *
41827464 AATGTCGGG
1 AATAT-TGT
41827473 ATATATTGT
1 A-ATATTGT
41827482 AATATTGT
1 AATATTGT
41827490 AAT
1 AAT
41827493 TTTTTGTATG
Statistics
Matches: 95, Mismatches: 22, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
6 2 0.02
7 6 0.06
8 57 0.60
9 6 0.06
10 6 0.06
11 18 0.19
ACGTcount: A:0.34, C:0.01, G:0.15, T:0.50
Consensus pattern (8 bp):
AATATTGT
Found at i:41827466 original size:19 final size:19
Alignment explanation
Indices: 41827191--41827445 Score: 169
Period size: 19 Copynumber: 13.5 Consensus size: 19
41827181 TTTAGATTAG
*
41827191 AATTTTGTATGAATATTCT
1 AATTTTGTATGAATATTGT
41827210 AATTTTTTTGTATGAATATTGT
1 AA---TTTTGTATGAATATTGT
*
41827232 AATTTTTTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
41827251 AATGTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
41827270 AATTTTTTGTATGAATATTGT
1 AA--TTTTGTATGAATATTGT
*
41827291 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
41827305 AATATTG--T-AATATTAT
1 AATTTTGTATGAATATTGT
* *
41827321 AGTTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGT
41827340 AATTTTTTTGTATGAATATTGT
1 AA---TTTTGTATGAATATTGT
* *
41827362 AATATTG--T-AATTTTGTAT
1 AATTTTGTATGAATATTG--T
* *
41827380 GAATATTG--T-AATATTAT
1 -AATTTTGTATGAATATTGT
*
41827397 AATTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGT
41827416 AATTTTTTGTATGAATATTGT
1 AA--TTTTGTATGAATATTGT
*
41827437 AATATTGTA
1 AATTTTGTA
41827446 ATTTTGTATG
Statistics
Matches: 189, Mismatches: 23, Indels: 48
0.73 0.09 0.18
Matches are distributed among these distances:
13 1 0.01
14 7 0.04
15 3 0.02
16 19 0.10
17 2 0.01
18 6 0.03
19 79 0.42
21 36 0.19
22 36 0.19
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:41827466 original size:75 final size:76
Alignment explanation
Indices: 41827296--41827466 Score: 326
Period size: 75 Copynumber: 2.3 Consensus size: 76
41827286 ATTGTAATTT
*
41827296 TTTTGTATGAATATTGTAATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTG
1 TTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTG
41827361 TAATATTGTAA
66 TAATATTGTAA
41827372 TTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAA-TTTTTTGTATGAATATTG
1 TTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTG
41827436 TAATATTGTAA
66 TAATATTGTAA
41827447 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
41827467 GTCGGGATAT
Statistics
Matches: 94, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
75 49 0.52
76 45 0.48
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (76 bp):
TTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTG
TAATATTGTAA
Found at i:41827497 original size:75 final size:74
Alignment explanation
Indices: 41827296--41827511 Score: 294
Period size: 75 Copynumber: 2.9 Consensus size: 74
41827286 ATTGTAATTT
* * *
41827296 TTTTGTATGAATATTGTAATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTG
1 TTTTGTATGAATATTGTAATATGATAATATTG-ATGAATATTGCAA-TTTTTTGTATGAATATTG
41827361 TAATATTGTAA
64 TAATATTGTAA
* *
41827372 TTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTGTATGAATATTGT
1 TTTTGTATGAATATTGTAATATGATAATATTG-ATGAATATTGCAATTTTTTGTATGAATATTGT
41827437 AATATTGTAA
65 AATATTGTAA
* *
41827447 TTTTGTATGAATATTGTAATGTCGGGAT-ATATTG-T-AATATTGTAATTTTTTGTATGAATATT
1 TTTTGTATGAATATTGTAATAT---GATAATATTGATGAATATTGCAATTTTTTGTATGAATATT
41827509 GTA
63 GTA
41827512 CTTATTTTAT
Statistics
Matches: 132, Mismatches: 5, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
74 29 0.22
75 51 0.39
76 45 0.34
77 5 0.04
78 2 0.02
ACGTcount: A:0.31, C:0.01, G:0.15, T:0.52
Consensus pattern (74 bp):
TTTTGTATGAATATTGTAATATGATAATATTGATGAATATTGCAATTTTTTGTATGAATATTGTA
ATATTGTAA
Found at i:41827712 original size:38 final size:38
Alignment explanation
Indices: 41827659--41827779 Score: 224
Period size: 38 Copynumber: 3.2 Consensus size: 38
41827649 CATATAAAGT
41827659 TTATAAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTAT-AAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
41827698 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
41827736 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
41827774 TTATAA
1 TTATAA
41827780 CTGACTTTTT
Statistics
Matches: 81, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
38 77 0.95
39 4 0.05
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:41829045 original size:22 final size:23
Alignment explanation
Indices: 41829020--41829079 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 23
41829010 AATACCTTAT
41829020 TTTTTCTTCT-TTTCCTTCCTTC
1 TTTTTCTTCTGTTTCCTTCCTTC
*
41829042 -TTTTCTTCTGCTTCCTTCCTTC
1 TTTTTCTTCTGTTTCCTTCCTTC
*
41829064 TTATTTCCTCTGTTTC
1 TT-TTTCTTCTGTTTC
41829080 TCTAGTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 9 0.28
22 11 0.34
23 1 0.03
24 11 0.34
ACGTcount: A:0.02, C:0.32, G:0.03, T:0.63
Consensus pattern (23 bp):
TTTTTCTTCTGTTTCCTTCCTTC
Found at i:41831135 original size:93 final size:97
Alignment explanation
Indices: 41831021--41831256 Score: 275
Period size: 101 Copynumber: 2.4 Consensus size: 97
41831011 AAATAATATT
*
41831021 TTTTGGGTGCTGGCCTGTCAATGGTCGGCACCCA-ACAA-TAAA-AAAAAAATT-TGTCAGAATA
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGACAATTAAATAAAAAAATTCTGTCAGAATA
41831082 AGATATAAATATACGAAAAAAATAAAAAAAAA-
66 AGATATAAATATAC-AAAAAAATAAAAAAAAAC
******* *
41831114 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTAAATTTTTTTTTTCGTGTCAGAG
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG-ACAATTAAATAAAAAAATTC-TGTCAGAA
* * *
41831179 TCAGATATAATTATACTAAAAAATAAAAAAAAATCC
64 TAAGATATAAATATACAAAAAAATAAAAAAAAA--C
41831215 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG-ACAATT
41831257 TAAAATTTTC
Statistics
Matches: 122, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
93 33 0.27
95 4 0.03
96 4 0.03
97 2 0.02
98 16 0.13
99 21 0.17
101 42 0.34
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (97 bp):
TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGACAATTAAATAAAAAAATTCTGTCAGAATA
AGATATAAATATACAAAAAAATAAAAAAAAAC
Found at i:41831279 original size:111 final size:112
Alignment explanation
Indices: 41831161--41831725 Score: 685
Period size: 111 Copynumber: 4.9 Consensus size: 112
41831151 CAATTAAATT
* * * *
41831161 TTTTTTTTCGTGTCAGAGTCAGATATAATTATAC-TAAAAAATAAAAAAAAATCCTTTTGGGTGC
1 TTTTTTTTCGTGTCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAAT-TTTTTGGGTGC
*
41831225 TGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAATTTTCTTTTCT-T
65 TGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAATTTT-TTTT-TAC
* **
41831274 TTTTTTTTCATGTCAGAGTCAGATATAAATATACGAAAAAAA-TAAAAAAAA-AATTTGGGTGCT
1 TTTTTTTTCGTGTCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAATTTTTTGGGTGCT
41831337 GGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAATTTTTTTTTAC
66 GGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAATTTTTTTTTAC
*
41831384 TTTTTTTTCGTGTCAGAGTCAGATATAAATATACG-AAAAAATTAAAAAAAATGTTTTGGGTGCT
1 TTTTTTTTCGTGTCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAATTTTTTGGGTGCT
* * * *
41831448 GGCCTATCAATGGCCGGCA-CCTGATAGGCCGGCACCCA-GTACAATTTAATTTTTTTTAC
66 GGCCTGTCAATGGCCGGCACCCAG-TA------CA---ATTTA-AA---ATTTTTTTTTAC
*
41831507 TTTTTTTTCCGTGTCAGAGTTAGATATAAATATACGAAAAAAATTAAAAAAAATTTTTTGGGTGC
1 TTTTTTTT-CGTGTCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAATTTTTTGGGTGC
* *
41831572 TGGCCTATCAATGGCCGGCACCCAGTACAATTAAAAAATTTTTTTTTTTTAC
65 TGGCCTGTCAATGGCCGGCACCCAGTACAATT-TAAAA---TTTTTTTTTAC
* ***
41831624 TTTTTTTTCGTGTCAGAGTCAGATATAAATATACGAAAAAAATTTTAAAATTTTTTTTTGGGTGC
1 TTTTTTTTCGTGTCAGAGTCAGATATAAATATACGAAAAAAA-TTAAAAAAAATTTTTTGGGTGC
*
41831689 TGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAA
65 TGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAA
41831726 AAAAAAATTT
Statistics
Matches: 397, Mismatches: 28, Indels: 51
0.83 0.06 0.11
Matches are distributed among these distances:
109 7 0.02
110 50 0.13
111 80 0.20
113 40 0.10
114 7 0.02
116 38 0.10
117 70 0.18
118 1 0.00
119 4 0.01
120 3 0.01
123 19 0.05
124 26 0.07
125 49 0.12
126 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (112 bp):
TTTTTTTTCGTGTCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAATTTTTTGGGTGCT
GGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAATTTTTTTTTAC
Found at i:41831587 original size:125 final size:124
Alignment explanation
Indices: 41831348--41831715 Score: 486
Period size: 117 Copynumber: 3.0 Consensus size: 124
41831338 GCCTGTCAAT
41831348 GGCCGGCACCCAGTACAATTTAAAATTTTTTTTTACTTTTTTTTCGTGTCAGAGTCAGATATAAA
1 GGCCGGCACCCAGTACAATTT--AA-TTTTTTTTACTTTTTTTTCGTGTCAGAGTCAGATATAAA
* *
41831413 TATACG-AAAAAATTAAAAAAAATGTTTTGGGTGCTGGCCTATCAATGGCCGGCA-CCTGATA
63 TATACGAAAAAAATTAAAAAAAATTTTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAG-TA
*
41831474 GGCCGGCACCCAGTACAATTTAATTTTTTTTACTTTTTTTTCCGTGTCAGAGTTAGATATAAATA
1 GGCCGGCACCCAGTACAATTTAATTTTTTTTACTTTTTTTT-CGTGTCAGAGTCAGATATAAATA
41831539 TACGAAAAAAATTAAAAAAAATTTTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTA
65 TACGAAAAAAATTAAAAAAAATTTTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTA
*** * * *
41831599 ------CAATTA-AAAAATTT-TTTTTTTTTACTTTTTTTTCGTGTCAGAGTCAGATATAAATAT
1 GGCCGGCACCCAGTACAATTTAATTTTTTTTACTTTTTTTTCGTGTCAGAGTCAGATATAAATAT
* *** *
41831656 ACGAAAAAAATTTTAAAATTTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTA
66 ACGAAAAAAA-TTAAAAAAAATTTTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTA
41831716 CAAATTAAAA
Statistics
Matches: 223, Mismatches: 15, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
116 33 0.15
117 62 0.28
118 6 0.03
119 3 0.01
123 18 0.08
124 28 0.13
125 49 0.22
126 24 0.11
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (124 bp):
GGCCGGCACCCAGTACAATTTAATTTTTTTTACTTTTTTTTCGTGTCAGAGTCAGATATAAATAT
ACGAAAAAAATTAAAAAAAATTTTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTA
Found at i:41831906 original size:109 final size:107
Alignment explanation
Indices: 41831761--41832147 Score: 577
Period size: 109 Copynumber: 3.6 Consensus size: 107
41831751 ATATAAATAT
*
41831761 ACGAAAAAAATTAAATTTTTTTTAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAA
1 ACGAAAAAAAATAAATTTTTTTTAAA-TTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAA
41831826 AATTTTTTTTTATTTTTTTCGTATAATTATATCTGACTCTGAC
65 AATTTTTTTTTATTTTTTTCGTATAATTATATCTGACTCTGAC
* *
41831869 ACGAAAAAAAATAATTTTTTTTTTAAATTTGTACTGGGTGCCGGCCATTGACAGGCCATCACCC-
1 ACGAAAAAAAATAA-ATTTTTTTTAAA-TTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCA
41831933 AAATTTTTTTTTATTTTTTTCGTATAATTATATCTGACTCTGAC
64 AAATTTTTTTTTATTTTTTTCGTATAATTATATCTGACTCTGAC
41831977 ACGAAAAAAAAATAAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAA
1 ACG-AAAAAAAATAAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAA
* * * *
41832042 AATTTTTTTTTTATTTTTTTCGTATATTTATATCTTATTCTGAT
65 AA-TTTTTTTTTATTTTTTTCGTATAATTATATCTGACTCTGAC
* ** ** *
41832086 A--AAAGAAAAGGAATTTTTTTTTTACTGT--TGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
1 ACGAAAAAAAATAAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
41832147 A
66 A
41832148 AATAATTTTT
Statistics
Matches: 260, Mismatches: 15, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
104 34 0.13
106 21 0.08
107 35 0.13
108 74 0.28
109 96 0.37
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.39
Consensus pattern (107 bp):
ACGAAAAAAAATAAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
ATTTTTTTTTATTTTTTTCGTATAATTATATCTGACTCTGAC
Found at i:41834699 original size:11 final size:11
Alignment explanation
Indices: 41834686--41834724 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
41834676 TTTTAATATG
*
41834686 TAAAAAATAAG
1 TAAAAAATAAA
*
41834697 TAATAAATAAA
1 TAAAAAATAAA
41834708 TAAACAAATAAA
1 TAAA-AAATAAA
41834720 TAAAA
1 TAAAA
41834725 TAAAAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (11 bp):
TAAAAAATAAA
Found at i:41834741 original size:17 final size:17
Alignment explanation
Indices: 41834698--41834733 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
41834688 AAAAATAAGT
*
41834698 AATAAAT-AAATAAACA
1 AATAAATAAAATAAAAA
41834714 AATAAATAAAATAAAAA
1 AATAAATAAAATAAAAA
41834731 AAT
1 AAT
41834734 TTATAAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (17 bp):
AATAAATAAAATAAAAA
Found at i:41836282 original size:89 final size:88
Alignment explanation
Indices: 41836184--41836658 Score: 320
Period size: 89 Copynumber: 5.3 Consensus size: 88
41836174 AGTTTGCTTC
* *
41836184 ACTGCAACTTCAGGGAGATAAGATTCACTATATTCAATCTGATCCACTCAAACTTCAGGGAAATA
1 ACTGCAACTTCAGAGAGATAAGATTCACTATATTCAATCTGATCCACTC-AACTTCAGGGAGATA
*
41836249 AGATTTGTAGCTTCAATCTACTCT
65 AGATTTGTAGCTTCAATCTGCTCT
* * * * * * * * *
41836273 ACTGCAACTTCAGAGAGATAATATTCGCTATCTTCAATCTGCTACATTGCAACTTTAGGGCGATG
1 ACTGCAACTTCAGAGAGATAAGATTCACTATATTCAATCTGATCCACT-CAACTTCAGGGAGATA
*
41836338 AGGTTTGTAGCTTCAATCTGCT-T
65 AGATTTGTAGCTTCAATCTGCTCT
* * * * * * ** * *
41836361 CATTGTAACTTTAGGGAG-TAAGATTTGTAACT-TGATTTAATCCAACCCACTGTAACTTCAGAG
1 -ACTGCAACTTCAGAGAGATAAGA--T-TCACTAT-ATTCAATCTGATCCACT-CAACTTCAG-G
* * * * * * *
41836424 G-TATAGGA-TT-TAGTTTTAGTCTACTCC
59 GAGATAAGATTTGTAGCTTCAATCTGCTCT
* * * * *
41836451 ACTGCAACTTCAGGGAGATAAAACTT--GTA-ACTTCAATCTGTTCCACTACAATTTCAGGGAGA
1 ACTGCAACTTCAGAGAGATAAGA-TTCACTATA-TTCAATCTGATCCACT-CAACTTCAGGGAGA
*
41836513 TAAGATTTGTTATGTAGCTTTAATCTGCTCT
63 TAAGA----TT-TGTAGCTTCAATCTGCTCT
* * * * *
41836544 ACTGCAACTTCAGAGAGATAAGATTCGCTATCTTCAATCCGCTCTACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGAGAGATAAGATTCACTATATTCAATCTGATCCACT-CAACTTCAGGGAGATA
* *
41836609 AGATTTGTTATCTTCAATCTGCTCC
65 AGATTTG-TAGCTTCAATCTGCTCT
*
41836634 ACTGCAACTTCAGAAAGATAAGATT
1 ACTGCAACTTCAGAGAGATAAGATT
41836659 TGTGGTTTCA
Statistics
Matches: 291, Mismatches: 72, Indels: 45
0.71 0.18 0.11
Matches are distributed among these distances:
85 3 0.01
86 24 0.08
88 6 0.02
89 113 0.39
90 49 0.17
91 24 0.08
92 5 0.02
93 34 0.12
94 33 0.11
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (88 bp):
ACTGCAACTTCAGAGAGATAAGATTCACTATATTCAATCTGATCCACTCAACTTCAGGGAGATAA
GATTTGTAGCTTCAATCTGCTCT
Found at i:41836659 original size:45 final size:44
Alignment explanation
Indices: 41836178--41836661 Score: 352
Period size: 45 Copynumber: 10.8 Consensus size: 44
41836168 CGCTTCAGTT
* ** *
41836178 TGCTTCACTGCAACTTCAGGGAGATAAGATTCACTATATTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATT-TGTATCTTCAATC
* * *
41836223 TGATCCACT-CAAACTTCAGGGAAATAAGATTTGTAGCTTCAATC
1 TGCTCCACTGC-AACTTCAGGGAGATAAGATTTGTATCTTCAATC
* * * * *
41836267 TACTCTACTGCAACTTCAGAGAGATAATATTCGCTATCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATC
* * * * * * *
41836312 TGCTACATTGCAACTTTAGGGCGATGAGGTTTGTAGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATC
* * * * * *
41836356 TGCTTCATTGTAACTTTAGGGAG-TAAGATTTGTAACTTGATTTAATCC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-A--T-CTTCAAT-C
** * * * *
41836404 AAC-CCACTGTAACTTCAGAGG-TATAGGATTTAGT-T-TT-AGTC
1 TGCTCCACTGCAACTTCAG-GGAGATAAGATTT-GTATCTTCAATC
* * * *
41836445 TACTCCACTGCAACTTCAGGGAGATAAAACTTGTAACTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATC
* * * *
41836489 TGTTCCACTACAATTTCAGGGAGATAAGATTTGTTATGTAGCTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TA--T--CTTCAATC
* * *
41836538 TGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATC
* *
41836583 CGCTCTACTGCAACTTCAGGGAGATAAGATTTGTTATCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATC
**
41836628 TGCTCCACTGCAACTTCAGAAAGATAAGATTTGT
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
41836662 GGTTTCACTA
Statistics
Matches: 343, Mismatches: 75, Indels: 43
0.74 0.16 0.09
Matches are distributed among these distances:
41 7 0.02
42 22 0.06
43 12 0.03
44 96 0.28
45 139 0.41
47 18 0.05
48 11 0.03
49 38 0.11
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATC
Found at i:41846570 original size:21 final size:20
Alignment explanation
Indices: 41846531--41846570 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
41846521 AATTAGAAAG
*
41846531 ATGAAAAATAAAGATGATAA
1 ATGAAAAATAAAGAAGATAA
*
41846551 ATGATAAAATAATGAAGATA
1 ATGA-AAAATAAAGAAGATA
41846571 TCATCATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (20 bp):
ATGAAAAATAAAGAAGATAA
Found at i:41855482 original size:26 final size:26
Alignment explanation
Indices: 41855453--41855536 Score: 114
Period size: 26 Copynumber: 3.2 Consensus size: 26
41855443 CTTGATATAT
41855453 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
* * *
41855479 GGCTCTTCATAAGCTTCCCGGTTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
* * *
41855505 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTCGTGAGCTTCCCGATTAAA
41855531 GGCTCT
1 GGCTCT
41855537 CCAGAGCTTC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCGATTAAA
Found at i:41855613 original size:24 final size:24
Alignment explanation
Indices: 41855577--41855631 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
41855567 TTTTCGATAT
* * *
41855577 ATGGCTATCCGGAGTTTCCCGTTA
1 ATGGCTCTCCGGAGCTACCCGTTA
*
41855601 ATGGCTCTTCGGAGCTACCCGTTA
1 ATGGCTCTCCGGAGCTACCCGTTA
*
41855625 TTGGCTC
1 ATGGCTC
41855632 GCATAAGCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.15, C:0.27, G:0.25, T:0.33
Consensus pattern (24 bp):
ATGGCTCTCCGGAGCTACCCGTTA
Found at i:41858706 original size:13 final size:13
Alignment explanation
Indices: 41858688--41858784 Score: 54
Period size: 13 Copynumber: 6.8 Consensus size: 13
41858678 ATTTAGTCTC
*
41858688 ATTATTGTTATTT
1 ATTATTATTATTT
41858701 ATTATTATTATTAGACT
1 ATTATTATTATT----T
41858718 AATTAGTTATTA-TT
1 -ATTA-TTATTATTT
*
41858732 ATTATTACTATTACT
1 ATTATTATTATT--T
*
41858747 AGTATTA-TATTT
1 ATTATTATTATTT
*
41858759 ATTATTATTACTT
1 ATTATTATTATTT
41858772 ACCTTATTATTAT
1 A--TTATTATTAT
41858785 AATAATTATT
Statistics
Matches: 66, Mismatches: 6, Indels: 22
0.70 0.06 0.23
Matches are distributed among these distances:
12 12 0.18
13 21 0.32
14 5 0.08
15 16 0.24
17 1 0.02
18 5 0.08
19 6 0.09
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (13 bp):
ATTATTATTATTT
Found at i:41858707 original size:3 final size:3
Alignment explanation
Indices: 41858688--41858794 Score: 65
Period size: 3 Copynumber: 34.0 Consensus size: 3
41858678 ATTTAGTCTC
* * *
41858688 ATT ATT GTT ATTT ATT ATT ATT ATT A-G ACTA ATT AGTT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT A-TT ATT A-TT ATT ATT ATT
* * *
41858735 ATT ACT ATT ACT AGT ATT A-T ATTT ATT ATT ATT ACTT ACCTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT A-TT A--TT ATT ATT
* *
41858783 ATA ATA ATT ATT
1 ATT ATT ATT ATT
41858795 TACGGCCAAT
Statistics
Matches: 84, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
2 3 0.04
3 65 0.77
4 12 0.14
5 4 0.05
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:41859631 original size:124 final size:125
Alignment explanation
Indices: 41859155--41859673 Score: 772
Period size: 125 Copynumber: 4.2 Consensus size: 125
41859145 TAAGTCGCAA
* * * * * *
41859155 CGTGTACGCACTTTTGCTACAGTAGGTCCT-GAAAAAATAATTTTGAGTTGACGTTTCTGAGAAA
1 CGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAA
* * * *
41859219 ATAGTATAAAATCGCTTCTAGCAGGATGCTGTTTCATAAGAATTTGTGAAATCGCACCCT
66 ATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCT
*
41859279 CGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTCCGACTTGACGTTTCTGAGCAA
1 CGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAA
* * * *
41859344 ATAGTATAAAATTGTTTCAAGCAGGATGTTATTTGAGAAGAATTTGTGAAATCGCGCCCT
66 ATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCT
* * * * *
41859404 TGTGAATGCGCTTTTGCTACAGTAGTTCCTGGAAGAAATAATTTCGACTTGAAGTTTCTGAGCAA
1 CGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAA
* *
41859469 ATAGTATAAAATCGCTTCTAGCAGGATGTTATTTGAGAAGAATTTATGAAATCGCGCCCT
66 ATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCT
*
41859529 CGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTCAACTTGACGTTTCTGAGCAA
1 CGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAA
* *
41859593 ATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCACGCCTT
66 ATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCT
* * *
41859653 CGTGGACACACTTTTGTTACA
1 CGTGGACGCGCTTTTGCTACA
41859674 TTAGCATGTT
Statistics
Matches: 356, Mismatches: 38, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
124 130 0.37
125 226 0.63
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (125 bp):
CGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGACTTGACGTTTCTGAGCAA
ATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCT
Found at i:41860236 original size:16 final size:16
Alignment explanation
Indices: 41860215--41860246 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
41860205 AGCGGTGTTG
41860215 AATGCACATCCCCCAC
1 AATGCACATCCCCCAC
41860231 AATGCACATCCCCCAC
1 AATGCACATCCCCCAC
41860247 GATACCTTTA
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:0.31, C:0.50, G:0.06, T:0.12
Consensus pattern (16 bp):
AATGCACATCCCCCAC
Found at i:41861728 original size:21 final size:21
Alignment explanation
Indices: 41861689--41863324 Score: 1608
Period size: 21 Copynumber: 76.2 Consensus size: 21
41861679 AAAACCTTAA
41861689 GGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAA-GGTTTAG
41861711 GGTTTTTAAGTTAAGGTTTTAG
1 GGTTTTTAAGTTAAGG-TTTAG
*
41861733 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
41861754 GGTTATTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
41861775 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
41861796 GGTTTTTAAGTTAAGGGTTAT
1 GGTTTTTAAGTTAAGGTTTAG
*
41861817 GGTTTTTAATTTAATGG-TTAG
1 GGTTTTTAAGTTAA-GGTTTAG
41861838 GGTTTTTAAGTTAAGAG-TTAG
1 GGTTTTTAAGTTAAG-GTTTAG
* *
41861859 AGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
41861880 GGTTTTTAATTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
41861901 GGTTTTTAATTTAATGGTTAGGATTAG
1 GGTTTTTAAGTTAA-GG-T----TTAG
41861928 GGTTTTTAAGTTAAAGGTTTAG
1 GGTTTTTAAGTT-AAGGTTTAG
* *
41861950 GGTATAATTGT-AGTAAAGGTTTGG
1 GGT-T--TT-TAAGTTAAGGTTTAG
* *
41861974 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
41861995 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
41862016 GGTTTTTAAGTTAAGGGTTT-G
1 GGTTTTTAAGTTAA-GGTTTAG
*
41862037 GGTTTTTAAGTGAAGGGTTTAG
1 GGTTTTTAAGTTAA-GGTTTAG
*
41862059 GGTTTTTAAGTTAAGATTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
41862080 GGTTATTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
41862101 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* * *
41862122 AG-TTTTAA-TTAAGGGTTAA
1 GGTTTTTAAGTTAAGGTTTAG
* * *
41862141 AGTTTTTTAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
41862162 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
41862183 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
41862204 GG---TTAGGATTAAGGTTTAA
1 GGTTTTTAAG-TTAAGGTTTAG
* *
41862223 GGTTTTTAATTTAAGGGTTTAT
1 GGTTTTTAAGTTAA-GGTTTAG
*
41862245 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
41862266 GGTTATTAAGTTAAGTTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* * *
41862287 GGATTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
41862308 GGTTTTTAAGTTAAGGGTTAT
1 GGTTTTTAAGTTAAGGTTTAG
* *
41862329 AGTTTTTAATTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
41862350 GGTTTTTAATTTAATGGTTAGGTTTAG
1 GGTTTTTAAGTT-A-----AGGTTTAG
*
41862377 GGTTTTTAAGTTAATGG-TTAT
1 GGTTTTTAAGTTAA-GGTTTAG
*
41862398 GGTTTTTAA-TTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
41862418 TGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
41862439 GGTTTTTAATTTAAGGTTTAT
1 GGTTTTTAAGTTAAGGTTTAG
* * *
41862460 TGTTTTTAATTTAATAG-TTAG
1 GGTTTTTAAGTTAA-GGTTTAG
* * *
41862481 GGTTTTAAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* * *
41862502 AGTTTTTAAGTTTAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* * *
41862523 TGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
41862544 GGTTTTTAATTTAAGGGTTTAG
1 GGTTTTTAAGTTAA-GGTTTAG
* *
41862566 GGTTTTTAAGTTAAGGATTAA
1 GGTTTTTAAGTTAAGGTTTAG
*
41862587 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
41862608 GGTTTTTAA-TTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
41862628 AGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
41862649 GGTTTTTAA-TATAAGGTTTAG
1 GGTTTTTAAGT-TAAGGTTTAG
*
41862670 GATTTTTAA-TATAATGGTGTTAG
1 GGTTTTTAAGT-TAA-GGT-TTAG
41862693 GGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAA-GGTTTAG
* * * *
41862715 AGTTTTTAATTTAAGGGTTAT
1 GGTTTTTAAGTTAAGGTTTAG
*
41862736 GGTTTTTAA-TTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
41862756 GGTTTTTAAGTTAAGAGTTTAT
1 GGTTTTTAAGTTAAG-GTTTAG
* * *
41862778 GGTTTTAAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
41862799 GGTTTTTAAGTTAAGAG-TTAG
1 GGTTTTTAAGTTAAG-GTTTAG
*
41862820 GGTTATTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* * *
41862841 GATTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
41862862 GGTTTTTAA-TTAAGGATTAG
1 GGTTTTTAAGTTAAGGTTTAG
41862882 GGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAA-GGTTTAG
*
41862904 GGTTTTTAAATTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
41862925 GGTTTTTAATTTAATGGTTAGAGTTAG
1 GGTTTTTAAGTTAA-GG-T----TTAG
*
41862952 GGTTTTTAAGTTAAAGGTTTAT
1 GGTTTTTAAGTT-AAGGTTTAG
41862974 GGTTTTTAAGTTAATGGTTTAG
1 GGTTTTTAAGTTAA-GGTTTAG
* * *
41862996 AGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
41863017 GGTTTTTATA-TTAAGGGTTAG
1 GGTTTTTA-AGTTAAGGTTTAG
41863038 GGTTTTTAAGTTAAGAG-TTAG
1 GGTTTTTAAGTTAAG-GTTTAG
*
41863059 GGTTATTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
41863080 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
41863101 GGTTTTTAA-TTAAGGATTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
41863121 GGTTTTTAAGTTAAGGGTTTAT
1 GGTTTTTAAGTTAA-GGTTTAG
*
41863143 GGTTTTTAATTTAATGG-TTAG
1 GGTTTTTAAGTTAA-GGTTTAG
*
41863164 GGTTTTTAATTTAATGGTTAGGGTTAG
1 GGTTTTTAAGTTAA-GG-T----TTAG
*
41863191 GGTTTTTAAGTTGAAGGTTTAT
1 GGTTTTTAAGTT-AAGGTTTAG
*
41863213 GGTTTTTAAGTTAAGGGTTTAT
1 GGTTTTTAAGTTAA-GGTTTAG
* * *
41863235 GGTTATTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* * *
41863256 GGTTATTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
41863277 GGTTTTTAAGTTAAGAGTTTAG
1 GGTTTTTAAGTTAAG-GTTTAG
* *
41863299 GATTTTTAATTTAAGGGTTT-G
1 GGTTTTTAAGTTAA-GGTTTAG
41863320 GGTTT
1 GGTTT
41863325 GGGTTTTTTT
Statistics
Matches: 1390, Mismatches: 152, Indels: 145
0.82 0.09 0.09
Matches are distributed among these distances:
18 4 0.00
19 25 0.02
20 110 0.08
21 853 0.61
22 277 0.20
23 23 0.02
24 12 0.01
25 5 0.00
26 5 0.00
27 70 0.05
28 6 0.00
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.47
Consensus pattern (21 bp):
GGTTTTTAAGTTAAGGTTTAG
Found at i:41861813 original size:63 final size:63
Alignment explanation
Indices: 41861689--41863324 Score: 1819
Period size: 63 Copynumber: 25.4 Consensus size: 63
41861679 AAAACCTTAA
* * *
41861689 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGTTTTAGGGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAATTTAA-GGTTTAGGGTTTTTAATTTAAGG-GTTAGGGTTTTTAAGTTAAGGGTTAG
* * *
41861754 GGTTATTAAGTTAAGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAT
1 GGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAG
* * *
41861817 GGTTTTTAATTTAATGG-TTAGGGTTTTTAAGTTAAGAGTTAGAGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAATTTAA-GGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAG
41861880 GGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAATGGTTAGGATTAGGGTTTTTAAGTTAAAGG
1 GGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAA--G---GG-TTAGGGTTTTTAAGTT-AAGG
*
41861945 TTTAG
59 GTTAG
* * *
41861950 GGTATAATTGT-AGTAAAGGTTTGGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTT
1 GGT-T--TT-TAATTTAAGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTT
41862014 AG
62 AG
* * * **
41862016 GGTTTTTAAGTTAAGGGTTT-GGGTTTTTAAGTGAAGGGTTTAGGGTTTTTAAGTTAAGATTTAG
1 GGTTTTTAATTTAA-GGTTTAGGGTTTTTAATTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAG
* * * *
41862080 GGTTATTAAGTTAAGGTTTAGGGTTTTTAATTTAAGGGTTAGAG-TTTTAA-TTAAGGGTTAA
1 GGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAG
* * * *
41862141 AGTTTTTTAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAG
*** * *
41862204 GG-TTAGGA-TTAAGGTTTAAGGTTTTTAATTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAG
* * * * *
41862266 GGTTATTAAGTTAAGTTTTAGGGATTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAT
1 GGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAG
* *
41862329 AGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAATGGTTAGGTTTAGGGTTTTTAAGTTAATGG
1 GGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAA--G---GG-TTAGGGTTTTTAAGTTAAGGG
*
41862394 TTAT
60 TTAG
* * * * * *
41862398 GGTTTTTAA-TTAAGGGTTAGTGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAAGGTTTAT
1 GGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAG
* * * * *
41862460 TGTTTTTAATTTAATAG-TTAGGGTTTTAAATTTAAGGGTTAGAGTTTTTAAGTTTAGGGTTAG
1 GGTTTTTAATTTAA-GGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAG
* * * *
41862523 TGTTTTTAATTTAAGGGTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAAGTTAAGGATTAA
1 GGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAG
* * *
41862587 GGTTTTTAAGTTAAGGGTTAGGGTTTTTAA-TTAAGGGTTAGAGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAG
* * *
41862649 GGTTTTTAATATAAGGTTTAGGATTTTTAATATAATGGTGTTAGGGTTTTTAAGTTAAGGGTTTA
1 GGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAA-GG-GTTAGGGTTTTTAAGTTAAGGG-TTA
41862714 G
63 G
* * * * *
41862715 AGTTTTTAATTTAAGGGTTATGGTTTTTAA-TTAAGGGTTAGGGTTTTTAAGTTAAGAGTTTAT
1 GGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAG-GGTTAG
* * * * * *
41862778 GGTTTTAAATTTAAGGGTTAGGGTTTTTAAGTTAAGAGTTAGGGTTATTAAGTTAAGGTTTAG
1 GGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAG
* * *
41862841 GATTTTTAATTTAAGGGTTAGGGTTTTTAA-TTAAGGATTAGGGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAG
*
41862904 GGTTTTTAAATTAAGGTTTAGGGTTTTTAATTTAATGGTTAGAGTTAGGGTTTTTAAGTTAAAGG
1 GGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAA--G---G-GTTAGGGTTTTTAAGTT-AAGG
* *
41862969 TTTAT
59 GTTAG
* *
41862974 GGTTTTTAAGTTAATGGTTTAGAGTTTTTAATTTAAGGGTTAGGGTTTTTATA-TTAAGGGTTAG
1 GGTTTTTAATTTAA-GGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTA-AGTTAAGGGTTAG
* * * * *
41863038 GGTTTTTAAGTTAAGAG-TTAGGGTTATTAAGTTAAGGTTTAGGGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAATTTAAG-GTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAG
* * * * *
41863101 GGTTTTTAA-TTAAGGATTAGGGTTTTTAAGTTAAGGGTTTATGGTTTTTAATTTAATGGTTAG
1 GGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAG
* * *
41863164 GGTTTTTAATTTAATGGTTAGGGTTAGGGTTTTTAAGTTGAAGGTTTATGGTTTTTAAGTTAAGG
1 GGTTTTTAATTTAA-GG-T----TTAGGGTTTTTAA-TTTAAGGGTTAGGGTTTTTAAGTTAAGG
*
41863229 GTTTAT
59 G-TTAG
* * * *
41863235 GGTTATTAATTTAAGGGTTAGGGTTATTAATTTAAGGGTTAGGGTTTTTAAGTTAAGAGTTTAG
1 GGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAG-GGTTAG
*
41863299 GATTTTTAATTTAAGGGTTT-GGGTTT
1 GGTTTTTAATTTAA-GGTTTAGGGTTT
41863325 GGGTTTTTTT
Statistics
Matches: 1358, Mismatches: 149, Indels: 129
0.83 0.09 0.08
Matches are distributed among these distances:
61 74 0.05
62 172 0.13
63 492 0.36
64 259 0.19
65 74 0.05
66 44 0.03
67 16 0.01
68 27 0.02
69 49 0.04
70 77 0.06
71 47 0.03
73 26 0.02
74 1 0.00
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.47
Consensus pattern (63 bp):
GGTTTTTAATTTAAGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAG
Found at i:41862372 original size:27 final size:27
Alignment explanation
Indices: 41862342--41862402 Score: 104
Period size: 27 Copynumber: 2.2 Consensus size: 27
41862332 TTTTAATTTA
*
41862342 AGGTTTAGGGTTTTTAATTTAATGGTT
1 AGGTTTAGGGTTTTTAAGTTAATGGTT
41862369 AGGTTTAGGGTTTTTAAGTTAATGGTT
1 AGGTTTAGGGTTTTTAAGTTAATGGTT
41862396 ATGGTTT
1 A-GGTTT
41862403 TTAATTAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 27 0.84
28 5 0.16
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (27 bp):
AGGTTTAGGGTTTTTAAGTTAATGGTT
Found at i:41863209 original size:27 final size:27
Alignment explanation
Indices: 41863158--41863209 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
41863148 TTAATTTAAT
*
41863158 GGTTAGGGTTTTTAATTTAATGGTTAG
1 GGTTAGGGTTTTTAATTGAATGGTTAG
41863185 GGTTAGGGTTTTTAAGTTGAA-GGTT
1 GGTTAGGGTTTTTAA-TTGAATGGTT
41863210 TATGGTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (27 bp):
GGTTAGGGTTTTTAATTGAATGGTTAG
Found at i:41863359 original size:38 final size:38
Alignment explanation
Indices: 41863315--41863393 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
41863305 TAATTTAAGG
41863315 GTTTGGGTTTGGGTTTTTTTGTTAAGAGTTTAAGGTTT
1 GTTTGGGTTTGGGTTTTTTTGTTAAGAGTTTAAGGTTT
*
41863353 GTTTGGGTTTGGGTTTTTTTGTTAAGGGTTTAAGGTTT
1 GTTTGGGTTTGGGTTTTTTTGTTAAGAGTTTAAGGTTT
41863391 GTT
1 GTT
41863394 AATTAAATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.11, C:0.00, G:0.33, T:0.56
Consensus pattern (38 bp):
GTTTGGGTTTGGGTTTTTTTGTTAAGAGTTTAAGGTTT
Found at i:41863414 original size:17 final size:19
Alignment explanation
Indices: 41863392--41863430 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
41863382 TTAAGGTTTG
*
41863392 TTAATTA-AA-TTATATAT
1 TTAATTATAATTTATAAAT
41863409 TTAATTATAATTTATAAAT
1 TTAATTATAATTTATAAAT
41863428 TTA
1 TTA
41863431 TAAATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 2 0.11
19 10 0.53
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTAATTATAATTTATAAAT
Found at i:41864634 original size:7 final size:7
Alignment explanation
Indices: 41864624--41864649 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
41864614 TTATATACAT
41864624 AATACTA
1 AATACTA
41864631 AATACTA
1 AATACTA
41864638 AATACTA
1 AATACTA
41864645 AATAC
1 AATAC
41864650 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:41864855 original size:20 final size:20
Alignment explanation
Indices: 41864817--41864855 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
41864807 TTTTATTTTT
*
41864817 TAAAATCTACATAATAATTG
1 TAAAATCTACATAAAAATTG
41864837 TAAAATCTA-ATATAAAATT
1 TAAAATCTACATA-AAAATT
41864856 TACCTCGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (20 bp):
TAAAATCTACATAAAAATTG
Found at i:41865882 original size:12 final size:12
Alignment explanation
Indices: 41865844--41865886 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
41865834 TTAAATATGG
41865844 ATTTGAGA-GAA
1 ATTTGAGAGGAA
41865855 ATTTG-GAAGG-A
1 ATTTGAG-AGGAA
41865866 ATTTGAGAGGAA
1 ATTTGAGAGGAA
41865878 ATTTGAGAG
1 ATTTGAGAG
41865887 ATGATTAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 1 0.04
11 15 0.54
12 12 0.43
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.28
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:41866060 original size:40 final size:41
Alignment explanation
Indices: 41866016--41866115 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 41
41866006 ATCGCCCCCT
*
41866016 CGTGGACGCGATTTGTTGCCACGTCAAC-AAAGCGCGCTGA
1 CGTGGACGCGATTTGCTGCCACGTCAACGAAAGCGCGCTGA
* * * * ** * *
41866056 CGTGGTCACGATTTCCTGGCACGTCCCCTGACATCGCGCTGA
1 CGTGGACGCGATTTGCTGCCACGTCAAC-GAAAGCGCGCTGA
41866098 CGTGGACGCGATTTGCTG
1 CGTGGACGCGATTTGCTG
41866116 GAAAAGGCAC
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
40 21 0.46
42 25 0.54
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (41 bp):
CGTGGACGCGATTTGCTGCCACGTCAACGAAAGCGCGCTGA
Found at i:41866371 original size:34 final size:33
Alignment explanation
Indices: 41866317--41866381 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
41866307 TATTTATATA
*
41866317 TATATACATACATACTTATATATATATTTTAATT
1 TATATACATACATAC-TATATATACATTTTAATT
41866351 TATATACATATCTATA-TATATATACATTTTA
1 TATATACATA-C-ATACTATATATACATTTTA
41866382 TTTTCATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 24 0.86
35 1 0.04
36 3 0.11
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (33 bp):
TATATACATACATACTATATATACATTTTAATT
Found at i:41866372 original size:18 final size:18
Alignment explanation
Indices: 41866311--41866377 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
41866301 ACAACTTATT
41866311 TATATATATATACATA-C
1 TATATATATATACATATC
*
41866328 -ATACT-TATATATATAT-
1 TATA-TATATATACATATC
* *
41866344 TTTAATTTATATACATATC
1 TAT-ATATATATACATATC
41866363 TATATATATATACAT
1 TATATATATATACAT
41866378 TTTATTTTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
16 12 0.31
17 3 0.08
18 22 0.56
19 2 0.05
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TATATATATATACATATC
Found at i:41866424 original size:53 final size:53
Alignment explanation
Indices: 41866366--41866501 Score: 134
Period size: 53 Copynumber: 2.6 Consensus size: 53
41866356 ACATATCTAT
* * *
41866366 ATATATATACATTTTAT-TTTCAT-TTTTTTATTTTCATGAATATATATACATAC
1 ATATATATACATTTTATATTTCATAATTTTTATATACAT--ATATATATACATAC
* ** *
41866419 GTATATATATTTTTTATATTTTATAATTTTTATATACATATATATATACATAC
1 ATATATATACATTTTATATTTCATAATTTTTATATACATATATATATACATAC
* * *
41866472 ATATATAT-CTTTTTACATTTTTATAATTTT
1 ATATATATACATTTTATA-TTTCATAATTTT
41866502 AGTCATTTTC
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
52 7 0.10
53 47 0.67
54 5 0.07
55 11 0.16
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.57
Consensus pattern (53 bp):
ATATATATACATTTTATATTTCATAATTTTTATATACATATATATATACATAC
Found at i:41866466 original size:12 final size:12
Alignment explanation
Indices: 41866449--41866478 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
41866439 TTATAATTTT
*
41866449 TATATACATATA
1 TATATACATACA
41866461 TATATACATACA
1 TATATACATACA
41866473 TATATA
1 TATATA
41866479 TCTTTTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (12 bp):
TATATACATACA
Found at i:41867215 original size:189 final size:188
Alignment explanation
Indices: 41866874--41867240 Score: 538
Period size: 189 Copynumber: 1.9 Consensus size: 188
41866864 TTTTAAATGA
* * *
41866874 TCTCGGGAATTAACAAAAGATCGTGTTCTAACTTACTGGGCATGATCCCTTTTTTAATCCGAGAT
1 TCTCGGGAATTAACAAAAGATCGTGTTCTAACTTACGGGGCATGATCCCTTTTTAAACCCGAGAT
* ***
41866939 AGCTAAATATCTTTTAAATAAGTAAATTTTTGGCATCCATTTTGCGCATCAGGAATTCAAGACAT
66 AACTAAATATCTTTTAAATAAGTAAATTTTCACCATCCATTTTGCGCATCAGGAATTCAAGACAT
* * *
41867004 TGTGTCTTAACTTACTGGATATAATTCTCTTTCTCGATTAACGTGAAATATGCCCTTT
131 TGTGTCCTAACTTACGGGATATAATTCTCTTTCCCGATTAACGTGAAATATGCCCTTT
*
41867062 TCTCGGGAATTAACAAAAGATCGTGTTCTAACTTACGGGGCATGATCTCTTTTCTAAACCCGAGA
1 TCTCGGGAATTAACAAAAGATCGTGTTCTAACTTACGGGGCATGATCCCTTTT-TAAACCCGAGA
* * * ** * * *
41867127 TAATTAAATATCTTTTTAAATAAGTAAGTTTTCACCGTTTA-TTTGCGTATCGGGACTTCAAGAC
65 TAACTAAATATC-TTTTAAATAAGTAAATTTTCACCATCCATTTTGCGCATCAGGAATTCAAGAC
41867191 ATTGTGTCCTAACTTACGGGATATAATTCTCTTTCCCGATTAACGTGAAA
129 ATTGTGTCCTAACTTACGGGATATAATTCTCTTTCCCGATTAACGTGAAA
41867241 CATTCCCCTT
Statistics
Matches: 158, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
188 51 0.32
189 86 0.54
190 21 0.13
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.36
Consensus pattern (188 bp):
TCTCGGGAATTAACAAAAGATCGTGTTCTAACTTACGGGGCATGATCCCTTTTTAAACCCGAGAT
AACTAAATATCTTTTAAATAAGTAAATTTTCACCATCCATTTTGCGCATCAGGAATTCAAGACAT
TGTGTCCTAACTTACGGGATATAATTCTCTTTCCCGATTAACGTGAAATATGCCCTTT
Found at i:41869620 original size:17 final size:17
Alignment explanation
Indices: 41869578--41869620 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
41869568 TTTTAATATG
41869578 TAAAAAAATAAAATAAA
1 TAAAAAAATAAAATAAA
**
41869595 TAAGCAAAT-AAATAAAA
1 TAAAAAAATAAAAT-AAA
41869612 TAAAAAAAT
1 TAAAAAAAT
41869621 TATAAAAGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (17 bp):
TAAAAAAATAAAATAAA
Found at i:41875837 original size:14 final size:15
Alignment explanation
Indices: 41875820--41875854 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
41875810 TTAATTAATT
41875820 AATTTTAC-ATTTTC
1 AATTTTACAATTTTC
41875834 AATTTT-CAATTTTC
1 AATTTTACAATTTTC
41875848 AATTTTA
1 AATTTTA
41875855 ATAATCTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.05
14 18 0.95
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (15 bp):
AATTTTACAATTTTC
Found at i:41875838 original size:7 final size:7
Alignment explanation
Indices: 41875828--41875853 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
41875818 TTAATTTTAC
41875828 ATTTTCA
1 ATTTTCA
41875835 ATTTTCA
1 ATTTTCA
41875842 ATTTTCA
1 ATTTTCA
41875849 ATTTT
1 ATTTT
41875854 AATAATCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTTCA
Found at i:41876679 original size:28 final size:29
Alignment explanation
Indices: 41876647--41876705 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
41876637 TAAATAGATA
*
41876647 GACAAAATGAAAGTA-AGGTACCACATTG
1 GACAAAATGAAAGTATAGATACCACATTG
* *
41876675 GACAAATTGAAATTATAGATACCACATTG
1 GACAAAATGAAAGTATAGATACCACATTG
41876704 GA
1 GA
41876706 AATTTTGCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.22
Consensus pattern (29 bp):
GACAAAATGAAAGTATAGATACCACATTG
Found at i:41879327 original size:20 final size:20
Alignment explanation
Indices: 41879302--41879341 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
41879292 AATATTTTCC
*
41879302 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
41879322 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
41879342 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:41879347 original size:34 final size:35
Alignment explanation
Indices: 41879290--41879356 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
41879280 CAAACACCAA
*
41879290 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
41879325 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
41879357 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:41881545 original size:104 final size:104
Alignment explanation
Indices: 41881353--41881715 Score: 404
Period size: 104 Copynumber: 3.5 Consensus size: 104
41881343 TAATACGAAA
* * * * * *
41881353 AATCGGAGGCTACGATTTTAAATTAGCTAGCCTTAATAAAATTAACTGTGAATGTAGGTCAGCGA
1 AATCAGAGGCTGCGATCTTAAATTAGCTAGCCTTAATAAAATTAGCTGTGAACGTAGGTCAACGA
*
41881418 GCTGTTAGGAGTTGCAATATTAAATCAGCTAACTCAAAT
66 GCTGTTAGGAGTTGCAATCTTAAATCAGCTAACTCAAAT
* * * * *
41881457 TATCAGAGGCTGCGATCTTAAATTAGCTA-CCTTCAGTAAAATTAGCTGTTAGCGTAGTTCAACG
1 AATCAGAGGCTGCGATCTTAAATTAGCTAGCCTT-AATAAAATTAGCTGTGAACGTAGGTCAACG
* * * *
41881521 AGCTATTAAGAGTTGCGATCTTAAATCAGCTAACTCGAAT
65 AGCTGTTAGGAGTTGCAATCTTAAATCAGCTAACTCAAAT
* * * * * **
41881561 AATCGGAGGTTGCGATCTTAAATCAGCTAGCCTTAGTAAAATTAGTTGTGAACGTAGGTCAATAA
1 AATCAGAGGCTGCGATCTTAAATTAGCTAGCCTTAATAAAATTAGCTGTGAACGTAGGTCAACGA
* * * *
41881626 GCTGTTAGGAGTTGTAATCTTAAATTAACTAACTCACAT
66 GCTGTTAGGAGTTGCAATCTTAAATCAGCTAACTCAAAT
* * * * * * *
41881665 GATCAGAGACTGCGATTTTAAATAAGCTAACCTTAATAAAATCAGTTGTGA
1 AATCAGAGGCTGCGATCTTAAATTAGCTAGCCTTAATAAAATTAGCTGTGA
41881716 GAATCGAACG
Statistics
Matches: 214, Mismatches: 43, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
103 4 0.02
104 206 0.96
105 4 0.02
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (104 bp):
AATCAGAGGCTGCGATCTTAAATTAGCTAGCCTTAATAAAATTAGCTGTGAACGTAGGTCAACGA
GCTGTTAGGAGTTGCAATCTTAAATCAGCTAACTCAAAT
Found at i:41888304 original size:16 final size:16
Alignment explanation
Indices: 41888278--41888324 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
41888268 GCTATGCTGC
41888278 TGCTGGGGCTGCCTGGG
1 TGCTGGGGCTG-CTGGG
41888295 TGCT-GGGCTGCTGGG
1 TGCTGGGGCTGCTGGG
* *
41888310 AGCGTGGGCCTGCTG
1 TGC-TGGGGCTGCTG
41888325 TTTTTTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 7 0.27
16 7 0.27
17 12 0.46
ACGTcount: A:0.02, C:0.23, G:0.51, T:0.23
Consensus pattern (16 bp):
TGCTGGGGCTGCTGGG
Found at i:41888472 original size:9 final size:9
Alignment explanation
Indices: 41888458--41888526 Score: 60
Period size: 9 Copynumber: 8.2 Consensus size: 9
41888448 GTTATGTTTT
41888458 TTTTTCTTC
1 TTTTTCTTC
41888467 TTTTTC--C
1 TTTTTCTTC
*
41888474 TTTTTCCT-
1 TTTTTCTTC
*
41888482 TTTTTCCT-
1 TTTTTCTTC
41888490 TTTTTCTTC
1 TTTTTCTTC
*
41888499 TTCTTCTTC
1 TTTTTCTTC
41888508 -TTTTCTT-
1 TTTTTCTTC
41888515 TCTTTTCTTC
1 T-TTTTCTTC
41888525 TT
1 TT
41888527 CTTTTCAAAC
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
7 7 0.14
8 21 0.41
9 22 0.43
10 1 0.02
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:41888501 original size:3 final size:3
Alignment explanation
Indices: 41888493--41888529 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
41888483 TTTTCCTTTT
41888493 TTC TTC TTC TTC TTC TT- TTC TTTC TT- TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TT
41888530 TTCAAACCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.13
3 24 0.77
4 3 0.10
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TTC
Found at i:41888513 original size:8 final size:8
Alignment explanation
Indices: 41888459--41888526 Score: 61
Period size: 8 Copynumber: 8.2 Consensus size: 8
41888449 TTATGTTTTT
41888459 TTTTCTTC
1 TTTTCTTC
41888467 TTTTTCCTT-
1 -TTTT-CTTC
*
41888476 TTTCCTT-
1 TTTTCTTC
41888483 TTTTCCTT-
1 TTTT-CTTC
41888491 TTTTCTTC
1 TTTTCTTC
41888499 TTCTTCTTC
1 TT-TTCTTC
41888508 TTTTCTTTC
1 TTTTC-TTC
41888517 TTTTCTTC
1 TTTTCTTC
41888525 TT
1 TT
41888527 CTTTTCAAAC
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
7 9 0.17
8 20 0.38
9 20 0.38
10 3 0.06
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTCTTC
Found at i:41888524 original size:20 final size:21
Alignment explanation
Indices: 41888461--41888532 Score: 75
Period size: 20 Copynumber: 3.7 Consensus size: 21
41888451 ATGTTTTTTT
*
41888461 TTCTTCTT-TTTCCTTT-TTCC
1 TTCTTCTTCTTTTCTTTCTT-C
*
41888481 TT-TT-TTCCTTT-TTTCTTC
1 TTCTTCTTCTTTTCTTTCTTC
41888499 TTCTTCTTCTTTTCTTTCTT-
1 TTCTTCTTCTTTTCTTTCTTC
41888519 TTCTTCTTCTTTTC
1 TTCTTCTTCTTTTC
41888533 AAACCCTAGC
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
18 8 0.18
19 8 0.18
20 22 0.50
21 6 0.14
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (21 bp):
TTCTTCTTCTTTTCTTTCTTC
Found at i:41888528 original size:15 final size:16
Alignment explanation
Indices: 41888459--41888530 Score: 68
Period size: 15 Copynumber: 4.9 Consensus size: 16
41888449 TTATGTTTTT
41888459 TTTTCTTCTT-TTTCC
1 TTTTCTTCTTCTTTCC
* *
41888474 TTTT-TCCTTTTTTCC
1 TTTTCTTCTTCTTTCC
41888489 TTTT-TTCTTC-TT-C
1 TTTTCTTCTTCTTTCC
41888502 TTCTTCTT-TTCTTT-C
1 TT-TTCTTCTTCTTTCC
41888517 TTTTCTTCTTCTTT
1 TTTTCTTCTTCTTT
41888531 TCAAACCCTA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
13 3 0.06
14 16 0.33
15 30 0.61
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTCTTCTTCTTTCC
Found at i:41888636 original size:28 final size:29
Alignment explanation
Indices: 41888601--41888678 Score: 101
Period size: 28 Copynumber: 2.8 Consensus size: 29
41888591 TCTTTCTCTG
41888601 TCTTCTTTCTCTCCTTT-TCTT-TTTTTTC
1 TCTTCTTTCTCT-CTTTCTCTTCTTTTTTC
*
41888629 TCTTCTTTCT-TCTTTCCCTTCTTTTTTC
1 TCTTCTTTCTCTCTTTCTCTTCTTTTTTC
*
41888657 T-TTCCTTCTCTCTTTCTCTTCT
1 TCTTCTTTCTCTCTTTCTCTTCT
41888679 ATTTCGACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
26 4 0.09
27 11 0.25
28 29 0.66
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (29 bp):
TCTTCTTTCTCTCTTTCTCTTCTTTTTTC
Found at i:41888649 original size:16 final size:16
Alignment explanation
Indices: 41888617--41888670 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 16
41888607 TTCTCTCCTT
*
41888617 TTCTTT-TT-TTTCTC
1 TTCTTTCTTCTTTCCC
41888631 TTCTTTCTTCTTTCCC
1 TTCTTTCTTCTTTCCC
*
41888647 TTCTTTTTTCTTT-CC
1 TTCTTTCTTCTTTCCC
*
41888662 TTCTCTCTT
1 TTCTTTCTT
41888671 TCTCTTCTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 6 0.18
15 11 0.32
16 17 0.50
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTTTCTTCTTTCCC
Found at i:41888671 original size:35 final size:34
Alignment explanation
Indices: 41888590--41888673 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 34
41888580 CGCTCCTCCC
* *
41888590 TTCTT-TCTCTGTCTTCTTTCTCTCCTTTTCTTT
1 TTCTTCTCTCTTTCTTCTTTCCCTCCTTTTCTTT
* *
41888623 TTTTTCTCTTCTTTCTTCTTTCCCTTCTTTT-TTCT
1 TTCTTCTC-TCTTTCTTCTTTCCCTCCTTTTCTT-T
41888658 TTCCTTCTCTCTTTCT
1 TT-CTTCTCTCTTTCT
41888674 CTTCTATTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
33 4 0.10
34 4 0.10
35 29 0.69
36 5 0.12
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.68
Consensus pattern (34 bp):
TTCTTCTCTCTTTCTTCTTTCCCTCCTTTTCTTT
Found at i:41888883 original size:26 final size:26
Alignment explanation
Indices: 41888854--41888905 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
41888844 TTGGCTTTTA
* * *
41888854 GGTGGTGGTGCGACGGTTGCGGTGGC
1 GGTGGTGGCGCGACGGTGGCGATGGC
*
41888880 GGTGGTTGCGCGACGGTGGCGATGGC
1 GGTGGTGGCGCGACGGTGGCGATGGC
41888906 CTTTGGCTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.06, C:0.17, G:0.56, T:0.21
Consensus pattern (26 bp):
GGTGGTGGCGCGACGGTGGCGATGGC
Found at i:41889195 original size:29 final size:29
Alignment explanation
Indices: 41889154--41889238 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 29
41889144 CTTTCTGGGG
* *
41889154 CAAAATCGAAATTTTAGAAAAATAT-AGGGC
1 CAAAAT-GTAATTTTAGAAAAAT-TGAAGGC
*
41889184 CAAAATGTAATTTTA-AAAAATTGAAGGT
1 CAAAATGTAATTTTAGAAAAATTGAAGGC
* *
41889212 TAAAATGTAATTTT-GAAAAATTTAAGG
1 CAAAATGTAATTTTAGAAAAATTGAAGG
41889239 GTCATGTAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
27 1 0.02
28 33 0.69
29 8 0.17
30 6 0.12
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (29 bp):
CAAAATGTAATTTTAGAAAAATTGAAGGC
Found at i:41889216 original size:28 final size:28
Alignment explanation
Indices: 41889185--41889238 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
41889175 ATATAGGGCC
41889185 AAAATGTAATTTTAAAAAATTGAAGGTT
1 AAAATGTAATTTTAAAAAATTGAAGGTT
* *
41889213 AAAATGTAATTTTGAAAAATTTAAGG
1 AAAATGTAATTTTAAAAAATTGAAGG
41889239 GTCATGTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (28 bp):
AAAATGTAATTTTAAAAAATTGAAGGTT
Found at i:41890695 original size:12 final size:12
Alignment explanation
Indices: 41890678--41890702 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41890668 TATTAACATG
41890678 ATAAATGAATAA
1 ATAAATGAATAA
41890690 ATAAATGAATAA
1 ATAAATGAATAA
41890702 A
1 A
41890703 CAAAATAAAA
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
ATAAATGAATAA
Found at i:41891251 original size:13 final size:12
Alignment explanation
Indices: 41891221--41891260 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 12
41891211 ATTGCACAAA
41891221 AAAAATAAAAGGGC
1 AAAAATAAAA--GC
41891235 AAAAATAAAAGC
1 AAAAATAAAAGC
41891247 AAAAATAATAAGC
1 AAAAATAA-AAGC
41891260 A
1 A
41891261 GTAGGACGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 10 0.40
13 5 0.20
14 10 0.40
ACGTcount: A:0.70, C:0.07, G:0.12, T:0.10
Consensus pattern (12 bp):
AAAAATAAAAGC
Found at i:41896467 original size:17 final size:17
Alignment explanation
Indices: 41896437--41896478 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
41896427 GCATCACAAT
41896437 TTTTATTT-TGTCATCTA
1 TTTTATTTATGTCAT-TA
41896454 TTTTATTTAT-TCATTA
1 TTTTATTTATGTCATTA
41896470 -TTTATTTAT
1 TTTTATTTAT
41896479 CTATCGTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.38
16 2 0.08
17 12 0.50
18 1 0.04
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTTATTTATGTCATTA
Found at i:41908682 original size:44 final size:44
Alignment explanation
Indices: 41908578--41908708 Score: 118
Period size: 44 Copynumber: 3.0 Consensus size: 44
41908568 CACCATAACA
* * **
41908578 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACG
1 AATCTTATCTCCTTGAAATTGCAGTGGAACAGATTAAAGCTACG
* * * * * *
41908622 AACCTCATGTCCTTGAAATTGCAGTGGAACAGGTTGAAGTTACG
1 AATCTTATCTCCTTGAAATTGCAGTGGAACAGATTAAAGCTACG
* * * * * *
41908666 AATCTTATCTCTTTGAAGTTGTAATGGAGCAGATTGAAGCTAC
1 AATCTTATCTCCTTGAAATTGCAGTGGAACAGATTAAAGCTAC
41908709 AATTTCTATA
Statistics
Matches: 67, Mismatches: 20, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
44 67 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCTTGAAATTGCAGTGGAACAGATTAAAGCTACG
Found at i:41908748 original size:44 final size:44
Alignment explanation
Indices: 41908700--41908845 Score: 127
Period size: 44 Copynumber: 3.2 Consensus size: 44
41908690 TGGAGCAGAT
*
41908700 TGAAGCTACAATTTCTATACCCCTGAAGTTGCAGTGGGTTAGAA
1 TGAAGCTACAATTTCTATACCCCTGAAGTTGCAGTGAGTTAGAA
* * * **
41908744 TGAAGCTACAACAACGAATCCTAT-CTCCATGAAGTTGCAGTAGAGCAAG-A
1 TGAAGCT---AC-A--ATTTCTATAC-CCCTGAAGTTGCAGT-GAGTTAGAA
*
41908794 TGAAGCTAC-ATTTCCTATACCCCTGAAGTTGCAGTGAGTTCGAA
1 TGAAGCTACAATTT-CTATACCCCTGAAGTTGCAGTGAGTTAGAA
41908838 TGAAGCTA
1 TGAAGCTA
41908846 AAACTACAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
43 6 0.08
44 34 0.43
45 1 0.01
47 4 0.05
48 1 0.01
49 1 0.01
50 28 0.35
51 4 0.05
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (44 bp):
TGAAGCTACAATTTCTATACCCCTGAAGTTGCAGTGAGTTAGAA
Found at i:41908790 original size:94 final size:94
Alignment explanation
Indices: 41908663--41908874 Score: 277
Period size: 94 Copynumber: 2.3 Consensus size: 94
41908653 GGTTGAAGTT
* * * *
41908663 ACGAATCTTATCTCTTTGAAGTTGTAATGGAGC-AGATTGAAGCTACAATTT-CTATACCCCTGA
1 ACGAATCCTATCTCCTTGAAGTTGCAATAGAGCAAGA-TGAAGCTAC-ATTTCCTATACCCCTGA
* *
41908726 AGTTGCAGTGGGTTAGAATGAAGCTACAACA
64 AGTTGCAGTGAGTTAGAATGAAGCTAAAACA
* *
41908757 ACGAATCCTATCTCCATGAAGTTGCAGTAGAGCAAGATGAAGCTACATTTCCTATACCCCTGAAG
1 ACGAATCCTATCTCCTTGAAGTTGCAATAGAGCAAGATGAAGCTACATTTCCTATACCCCTGAAG
* *
41908822 TTGCAGTGAGTTCGAATGAAGCTAAAACT
66 TTGCAGTGAGTTAGAATGAAGCTAAAACA
*
41908851 ACAAATCCTATAC-CCTTGAAGTTG
1 ACGAATCCTAT-CTCCTTGAAGTTG
41908875 TAGTGGGTTG
Statistics
Matches: 103, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
93 4 0.04
94 95 0.92
95 4 0.04
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (94 bp):
ACGAATCCTATCTCCTTGAAGTTGCAATAGAGCAAGATGAAGCTACATTTCCTATACCCCTGAAG
TTGCAGTGAGTTAGAATGAAGCTAAAACA
Found at i:41908874 original size:50 final size:50
Alignment explanation
Indices: 41908705--41908879 Score: 150
Period size: 50 Copynumber: 3.6 Consensus size: 50
41908695 CAGATTGAAG
* * * * *
41908705 CTACAATTTCTATACCCCTGAAGTTGCAGTGGGTTAGAATGAAGCTACAA
1 CTACAAATCCTATACCCCTGAAGTTGCAGTGAGTTCGAATGAAGCTAAAA
* * * * *
41908755 CAACGAATCCTAT-CTCCATGAAGTTGCAGTAGAG--C-AA-G-A--TGAAG
1 CTACAAATCCTATAC-CCCTGAAGTTGCAGT-GAGTTCGAATGAAGCTAAAA
**
41908799 CTACATTTCCTATACCCCTGAAGTTGCAGTGAGTTCGAATGAAGCTAAAA
1 CTACAAATCCTATACCCCTGAAGTTGCAGTGAGTTCGAATGAAGCTAAAA
* *
41908849 CTACAAATCCTATACCCTTGAAGTTGTAGTG
1 CTACAAATCCTATACCCCTGAAGTTGCAGTG
41908880 GGTTGGATTG
Statistics
Matches: 94, Mismatches: 21, Indels: 20
0.70 0.16 0.15
Matches are distributed among these distances:
43 3 0.03
44 25 0.27
45 2 0.02
46 3 0.03
47 2 0.02
48 3 0.03
49 1 0.01
50 53 0.56
51 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (50 bp):
CTACAAATCCTATACCCCTGAAGTTGCAGTGAGTTCGAATGAAGCTAAAA
Found at i:41909031 original size:44 final size:44
Alignment explanation
Indices: 41908902--41909060 Score: 167
Period size: 44 Copynumber: 3.6 Consensus size: 44
41908892 TCTACCATAG
* * * * * * *
41908902 CAAACCTTATCTCCCTGAAGCTACAGTGAAGCAGATTAAAACTA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * *
41908946 CGAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATCGAAGCTG
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTA
* *
41908990 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTA
* *
41909034 CAATTCCTATAC-CCCTAAAGTTGCAGT
1 CAAATCTTAT-CTCCCTAAAGTTGCAGT
41909061 AGGTTAGAAT
Statistics
Matches: 94, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
44 93 0.99
45 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (44 bp):
CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTA
Found at i:41912409 original size:63 final size:63
Alignment explanation
Indices: 41912310--41912463 Score: 245
Period size: 63 Copynumber: 2.4 Consensus size: 63
41912300 GCGAGCATCC
* * * **
41912310 TGATCGGTAGTGATCTTGCATGTATTGCGGACTACCGCAACTCTTTGTGAGCGTCTTGTTATA
1 TGATCGGTTGTGATCCTGCATATATTGCGGACTACCGCAACTCTTTGTGAGCGTCCAGTTATA
* *
41912373 TGATCGGTTGTGATCCTGCATATATTGCGGACTACCGCAGCTCTTTGTGAGTGTCCAGTTATA
1 TGATCGGTTGTGATCCTGCATATATTGCGGACTACCGCAACTCTTTGTGAGCGTCCAGTTATA
41912436 TGATCGGTTGTGATCCTGCATATATTGC
1 TGATCGGTTGTGATCCTGCATATATTGC
41912464 AAACACAAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 84 1.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.36
Consensus pattern (63 bp):
TGATCGGTTGTGATCCTGCATATATTGCGGACTACCGCAACTCTTTGTGAGCGTCCAGTTATA
Found at i:41912500 original size:63 final size:61
Alignment explanation
Indices: 41912310--41912501 Score: 206
Period size: 63 Copynumber: 3.0 Consensus size: 61
41912300 GCGAGCATCC
* * * ** * *
41912310 TGATCGGTAGTGATCTTGCATGTATTGCGGACTACCGCAACTCTTTGTGAGCGTCTTGTTATA
1 TGATCGGTTGTGATCCTGCATATATTGCAAACTACCGCAGCTCTTTGTGAGCGTCCTG--ATA
** * *
41912373 TGATCGGTTGTGATCCTGCATATATTGCGGACTACCGCAGCTCTTTGTGAGTGTCCAGTTATA
1 TGATCGGTTGTGATCCTGCATATATTGCAAACTACCGCAGCTCTTTGTGAGCGTCC--TGATA
*
41912436 TGATCGGTTGTGATCCTGCATATATTGCAAAC-ACAAATGCAGCTCTTTGTGAGCGTCCTGATA
1 TGATCGGTTGTGATCCTGCATATATTGCAAACTAC---CGCAGCTCTTTGTGAGCGTCCTGATA
41912499 TGA
1 TGA
41912502 CTCGCTTGAA
Statistics
Matches: 112, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
62 2 0.02
63 90 0.80
65 20 0.18
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.34
Consensus pattern (61 bp):
TGATCGGTTGTGATCCTGCATATATTGCAAACTACCGCAGCTCTTTGTGAGCGTCCTGATA
Found at i:41913157 original size:16 final size:17
Alignment explanation
Indices: 41913120--41913167 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 17
41913110 GATATGATTT
41913120 GTATATGTTATAT-G-AA
1 GTATATG-TATATGGAAA
*
41913136 -TATATG-ATGTGGAAA
1 GTATATGTATATGGAAA
41913151 GTATATGTATATGGAAA
1 GTATATGTATATGGAAA
41913168 TCTAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
13 3 0.12
14 1 0.04
15 8 0.31
16 6 0.23
17 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.38
Consensus pattern (17 bp):
GTATATGTATATGGAAA
Found at i:41922258 original size:17 final size:17
Alignment explanation
Indices: 41922236--41922274 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
41922226 ACGATTTCTT
41922236 ATTCTATTGAAATCAAA
1 ATTCTATTGAAATCAAA
*
41922253 ATTCTATTGAAATCGAA
1 ATTCTATTGAAATCAAA
41922270 ATTCT
1 ATTCT
41922275 TTCTCTCCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (17 bp):
ATTCTATTGAAATCAAA
Found at i:41923954 original size:44 final size:44
Alignment explanation
Indices: 41923509--41923945 Score: 691
Period size: 44 Copynumber: 9.9 Consensus size: 44
41923499 AAAAGTAGCA
* *
41923509 GATCTTGTCTTCATGTATTGACATGAAATAGATCGAGGATAATG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
*
41923553 GATCTTGTCTTCATGTATTGACATGAAGTAGATC-AGAGATAGTG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGATAATG
*
41923597 GATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
* *
41923641 GATCTTGTCTTCATGTATTGACATGAAATAGATCAGAA-ATAGTG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATC-GAAGATAATG
*
41923685 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGACAATG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
* * *
41923729 GATCTTGTCTTCATGTATTGACATGAAGTAAAT-TAGAGATAGTG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGATAATG
*
41923773 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATATTG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
*
41923817 GATCTTGTCTTCATGTATTGACATGAAGTAAATCGAAGATAATG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
* *
41923861 GATCTTGTCTTCATGTTTTGACATGAAGTAAATCGAAGATAATG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
*
41923905 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATA
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATA
41923946 GCAAATCTTT
Statistics
Matches: 363, Mismatches: 24, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
43 5 0.01
44 353 0.97
45 5 0.01
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (44 bp):
GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
Found at i:41924808 original size:20 final size:20
Alignment explanation
Indices: 41924785--41924822 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
41924775 TTTCAATTTC
*
41924785 TTTTCTCGATTTTTTTTCCT
1 TTTTCTCGATTGTTTTTCCT
*
41924805 TTTTCTCTATTGTTTTTC
1 TTTTCTCGATTGTTTTTC
41924823 TTTAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.05, C:0.18, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTTCTCGATTGTTTTTCCT
Found at i:41925182 original size:3 final size:3
Alignment explanation
Indices: 41925174--41925208 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
41925164 TAATCCCCAT
*
41925174 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
41925209 GTATTTTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:41927278 original size:104 final size:104
Alignment explanation
Indices: 41927164--41927638 Score: 509
Period size: 104 Copynumber: 4.6 Consensus size: 104
41927154 AAAAATTATC
* *
41927164 TTTTTACTTTTGATGTGTCAATGGCCGACACCAGTATGCGAAAAAAGTTAAAAAAAAAATTTAGG
1 TTTTTACTTTTGGTGTGTCAATGGCCGACACCAGTATACGAAAAAAG-TAAAAAAAAAATTTA-G
* * ****
41927229 GGGTGGCCTGGCAATGGCCGGCA-CCCCTTTATAC-ACTTT
64 GGGTGGCCAGGCAATGGCTGGCACCCCCTTTATACAAAAAA
* * * * * *
41927268 TTTTTACTTTTGATTTGTCAAT-GTCTAGCACTAGTATACAAAAAAAGTAAAAAAAAAATTT---
1 TTTTTACTTTTGGTGTGTCAATGGCCGA-CACCAGTATACGAAAAAAGTAAAAAAAAAATTTAGG
** * * **
41927329 GGTGGCTTGTCAATGGTTGGCACCCCCTTTATACAAAATTTT
65 GGTGGCCAGGCAATGGCTGGCACCCCCTTTATACAAAA--AA
41927371 TTTTCTACTTTTGGTGTGTCAATGGCCGACACCAGTATACGAAAAAAGTAAAAAAAAAATTTGAG
1 TTTT-TACTTTTGGTGTGTCAATGGCCGACACCAGTATACGAAAAAAGTAAAAAAAAAATTT-A-
* *
41927436 GGGGTGGCCAGACAATGGCTGTCACCCCCTTTATACAAAAAA
63 GGGGTGGCCAGGCAATGGCTGGCACCCCCTTTATACAAAAAA
** * * * *
41927478 -AATTACTTTTGGTGTGTTAATGGCTGGCACCAATATACGAAAAAAGT-AAAAAAAAA-TTAGGG
1 TTTTTACTTTTGGTGTGTCAATGGCCGACACCAGTATACGAAAAAAGTAAAAAAAAAATTTAGGG
41927540 GTGGCCAGGCAATGGCTGGCACCCCCTTTATACAAAAAA
66 GTGGCCAGGCAATGGCTGGCACCCCCTTTATACAAAAAA
*** * * *
41927579 AAATTACTTTTGGTGTGTCAATGGCTGGCACCAGTATACGAAAAAAGTAAAATAAAAATT
1 TTTTTACTTTTGGTGTGTCAATGGCCGACACCAGTATACGAAAAAAGTAAAAAAAAAATT
41927639 ACTTTTGGTG
Statistics
Matches: 320, Mismatches: 36, Indels: 30
0.83 0.09 0.08
Matches are distributed among these distances:
99 18 0.06
100 11 0.03
101 41 0.13
102 46 0.14
103 33 0.10
104 94 0.29
105 43 0.13
106 1 0.00
109 33 0.10
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (104 bp):
TTTTTACTTTTGGTGTGTCAATGGCCGACACCAGTATACGAAAAAAGTAAAAAAAAAATTTAGGG
GTGGCCAGGCAATGGCTGGCACCCCCTTTATACAAAAAA
Found at i:41927398 original size:208 final size:208
Alignment explanation
Indices: 41927155--41927638 Score: 573
Period size: 208 Copynumber: 2.3 Consensus size: 208
41927145 TCTACAATAA
* * *
41927155 AAAATTATCTTTTTACTTTTGATGTGTCAATGGCCGACACCAGTATGCGAAAAAAGTTAAAAAAA
1 AAAATT-TATTTTTACTTTTGGTGTGTCAATGGCCGACACCAGTATACGAAAAAAG-TAAAAAAA
* * ******* *
41927220 AAATTT-AGGGGGTGGCCTGGCAATGGCCGGCA-CCCCTTTATACACTTTTTTTTACTTTTGATT
64 AAATTTGAGGGGGTGGCCAGACAATGGCCGGCACCCCCTTTATACAAAAAAAATTACTTTTGATG
* * * * ** * *
41927283 TGTCAATGTCTAGCACTAGTATACAAAAAAAGTAAAAAAAAAATT-TGGTGGCTTGTCAATGGTT
129 TGTCAATGGCTAGCACCAATATACAAAAAAAGT-AAAAAAAAATTAGGGTGGCCAGGCAATGGCT
41927347 GGCACCCCCTTTATAC
193 GGCACCCCCTTTATAC
*
41927363 AAAATTTTTTTTCTACTTTTGGTGTGTCAATGGCCGACACCAGTATACGAAAAAAGTAAAAAAAA
1 AAAATTTATTTT-TACTTTTGGTGTGTCAATGGCCGACACCAGTATACGAAAAAAGTAAAAAAAA
* * *
41927428 AATTTGAGGGGGTGGCCAGACAATGGCTGTCACCCCCTTTATACAAAAAAAATTACTTTTGGTGT
65 AATTTGAGGGGGTGGCCAGACAATGGCCGGCACCCCCTTTATACAAAAAAAATTACTTTTGATGT
* * *
41927493 GTTAATGGCTGGCACCAATATACGAAAAAAGTAAAAAAAAATTAGGGGTGGCCAGGCAATGGCTG
130 GTCAATGGCTAGCACCAATATACAAAAAAAGTAAAAAAAAATTA-GGGTGGCCAGGCAATGGCTG
41927558 GCACCCCCTTTATAC
194 GCACCCCCTTTATAC
* *** * * *
41927573 AAAA--AAAAATTACTTTTGGTGTGTCAATGGCTGGCACCAGTATACGAAAAAAGTAAAATAAAA
1 AAAATTTATTTTTACTTTTGGTGTGTCAATGGCCGACACCAGTATACGAAAAAAGTAAAAAAAAA
41927636 ATT
66 ATT
41927639 ACTTTTGGTG
Statistics
Matches: 236, Mismatches: 35, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
207 72 0.31
208 81 0.34
209 49 0.21
210 34 0.14
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (208 bp):
AAAATTTATTTTTACTTTTGGTGTGTCAATGGCCGACACCAGTATACGAAAAAAGTAAAAAAAAA
ATTTGAGGGGGTGGCCAGACAATGGCCGGCACCCCCTTTATACAAAAAAAATTACTTTTGATGTG
TCAATGGCTAGCACCAATATACAAAAAAAGTAAAAAAAAATTAGGGTGGCCAGGCAATGGCTGGC
ACCCCCTTTATAC
Found at i:41927533 original size:55 final size:55
Alignment explanation
Indices: 41927472--41927689 Score: 211
Period size: 55 Copynumber: 4.1 Consensus size: 55
41927462 CCCTTTATAC
* *
41927472 AAAAAAAATTACTTTTGGTGTGTTAATGGCTGGCACCAATATACGAAAAAAGT-A
1 AAAAAAAATTACTTTTGGTGTGTCAATGGCTGGCACCAGTATACGAAAAAAGTAA
**** *** * ** * * *
41927526 AAAAAAAATTAGGGGTGGCCAGGCAATGGCTGGCACCCCCT-T-----TATA-CAA
1 AAAAAAAATTACTTTTGGTGTGTCAATGGCTGGCA-CCAGTATACGAAAAAAGTAA
41927575 A-AAAAAATTACTTTTGGTGTGTCAATGGCTGGCACCAGTATACGAAAAAAGTAA
1 AAAAAAAATTACTTTTGGTGTGTCAATGGCTGGCACCAGTATACGAAAAAAGTAA
* *
41927629 AATAAAAATTACTTTTGGTGTGTCAATGGCTGACACCAGTATACGAAAAAAGTAA
1 AAAAAAAATTACTTTTGGTGTGTCAATGGCTGGCACCAGTATACGAAAAAAGTAA
41927684 AAAAAA
1 AAAAAA
41927690 TTGTATAAAG
Statistics
Matches: 124, Mismatches: 30, Indels: 19
0.72 0.17 0.11
Matches are distributed among these distances:
47 3 0.02
48 26 0.21
49 4 0.03
53 2 0.02
54 30 0.24
55 59 0.48
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (55 bp):
AAAAAAAATTACTTTTGGTGTGTCAATGGCTGGCACCAGTATACGAAAAAAGTAA
Found at i:41927679 original size:102 final size:102
Alignment explanation
Indices: 41927376--41927640 Score: 343
Period size: 102 Copynumber: 2.6 Consensus size: 102
41927366 ATTTTTTTTC
* * * *
41927376 TACTTTTGGTGTGTCAATGGCCGACACCAGTATACGAAAAAAGTAAAAAAAAAATTTGAGGGGGT
1 TACTTTTGGTGTGTCAATGGCTGGCACCAATATACGAAAAAAGT-AAAAAAAAA-TT-A-CGGGT
* * * **
41927441 GGCCAGACAATGGCTGTCACCCCCTTTATAC-AAAAAAAAT
62 GGCCAGGCAATGGCTGGCACCACCAGTATACAAAAAAAAAT
* *
41927481 TACTTTTGGTGTGTTAATGGCTGGCACCAATATACGAAAAAAGTAAAAAAAAATTAGGGGTGGCC
1 TACTTTTGGTGTGTCAATGGCTGGCACCAATATACGAAAAAAGTAAAAAAAAATTACGGGTGGCC
* **
41927546 AGGCAATGGCTGGCACCCCCTTTATACAAAAAAAAAT
66 AGGCAATGGCTGGCACCACCAGTATACAAAAAAAAAT
*
41927583 TACTTTTGGTGTGTCAATGGCTGGCACCAGTATACGAAAAAAGTAAAATAAAAATTAC
1 TACTTTTGGTGTGTCAATGGCTGGCACCAATATACGAAAAAAGTAAAA-AAAAATTAC
41927641 TTTTGGTGTG
Statistics
Matches: 149, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
101 34 0.23
102 56 0.38
103 10 0.07
104 9 0.06
105 40 0.27
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (102 bp):
TACTTTTGGTGTGTCAATGGCTGGCACCAATATACGAAAAAAGTAAAAAAAAATTACGGGTGGCC
AGGCAATGGCTGGCACCACCAGTATACAAAAAAAAAT
Found at i:41931906 original size:3 final size:3
Alignment explanation
Indices: 41931892--41931934 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
41931882 CAAATGAGTA
* *
41931892 AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
41931935 CAAAATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:41934895 original size:14 final size:14
Alignment explanation
Indices: 41934878--41934912 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
41934868 AAAATTTTAA
41934878 AATTTTTTTAAAAT
1 AATTTTTTTAAAAT
41934892 AATTTTTTTAAAAT
1 AATTTTTTTAAAAT
41934906 AATTTTT
1 AATTTTT
41934913 ATTTTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
AATTTTTTTAAAAT
Found at i:41934919 original size:18 final size:19
Alignment explanation
Indices: 41934896--41934932 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
41934886 TAAAATAATT
41934896 TTTTTAAAAT-AATTTTTA
1 TTTTTAAAATAAATTTTTA
41934914 TTTTTAAAATAAATTTTTA
1 TTTTTAAAATAAATTTTTA
41934933 GTGTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTAAAATAAATTTTTA
Found at i:41934931 original size:14 final size:13
Alignment explanation
Indices: 41934872--41934912 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
41934862 AATTTTAAAA
41934872 TTTTAAAAT--TT
1 TTTTAAAATAATT
41934883 TTTTAAAATAATTT
1 TTTTAAAATAA-TT
41934897 TTTTAAAATAATT
1 TTTTAAAATAATT
41934910 TTT
1 TTT
41934913 ATTTTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 9 0.33
13 5 0.19
14 13 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTTAAAATAATT
Found at i:41941685 original size:32 final size:32
Alignment explanation
Indices: 41941648--41941712 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
41941638 TTTAAATATA
* *
41941648 GTTACTAGGTATGGAACAACTTTAAAACTTAT
1 GTTACTAAGTATGAAACAACTTTAAAACTTAT
41941680 GTTACTAAGTATGAAACAACTTTAAAACTTAT
1 GTTACTAAGTATGAAACAACTTTAAAACTTAT
41941712 G
1 G
41941713 GCCAGCATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (32 bp):
GTTACTAAGTATGAAACAACTTTAAAACTTAT
Found at i:41941743 original size:45 final size:45
Alignment explanation
Indices: 41941677--41941769 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
41941667 CTTTAAAACT
41941677 TATGTTACTAAGTATGAAACAACTTTAAAACTTATGGCCAGCATC
1 TATGTTACTAAGTATGAAACAACTTTAAAACTTATGGCCAGCATC
* *
41941722 TATGTTACTGAGTATGGAACAACTTTAAAACTTATGGCCAGCATC
1 TATGTTACTAAGTATGAAACAACTTTAAAACTTATGGCCAGCATC
41941767 TAT
1 TAT
41941770 CCCTAACCTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.32
Consensus pattern (45 bp):
TATGTTACTAAGTATGAAACAACTTTAAAACTTATGGCCAGCATC
Found at i:41946637 original size:16 final size:16
Alignment explanation
Indices: 41946618--41946669 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
41946608 AATAAAGCTA
*
41946618 TAATTAAATAGAGTTG
1 TAATTGAATAGAGTTG
*
41946634 TAATTGAATAGAGCTG
1 TAATTGAATAGAGTTG
* *
41946650 TAATGGAATAAAGTTG
1 TAATTGAATAGAGTTG
41946666 TAAT
1 TAAT
41946670 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.42, C:0.02, G:0.21, T:0.35
Consensus pattern (16 bp):
TAATTGAATAGAGTTG
Found at i:41946643 original size:32 final size:32
Alignment explanation
Indices: 41946600--41946669 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
41946590 TTTGGTTCAC
* *
41946600 TGTAATGGAATAAAGCTATAATTAAATAGAGT
1 TGTAATGGAATAAAGCTATAATGAAATAAAGT
* * * *
41946632 TGTAATTGAATAGAGCTGTAATGGAATAAAGT
1 TGTAATGGAATAAAGCTATAATGAAATAAAGT
41946664 TGTAAT
1 TGTAAT
41946670 CAGTAATTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.43, C:0.03, G:0.21, T:0.33
Consensus pattern (32 bp):
TGTAATGGAATAAAGCTATAATGAAATAAAGT
Found at i:41946753 original size:39 final size:40
Alignment explanation
Indices: 41946651--41946756 Score: 99
Period size: 44 Copynumber: 2.5 Consensus size: 40
41946641 ATAGAGCTGT
* *
41946651 AATGGAATAAAGTTGTAATCAGTAATTCAATTGTTTGGTTG
1 AATGGAATGATGTTGTAAT-AGTAATTCAATTGTTTGGTTG
* *
41946692 AATGGAATGGAATAGAACTGTAATAGT-ATTC-TTGTGTTTGGTTG
1 AATGGAAT-G-AT-G--TTGTAATAGTAATTCAAT-TGTTTGGTTG
41946736 AATGGAATGATGTTGTAATAG
1 AATGGAATGATGTTGTAATAG
41946757 CATAAGGAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
39 8 0.15
41 9 0.17
42 2 0.04
43 3 0.06
44 23 0.43
45 3 0.06
46 6 0.11
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (40 bp):
AATGGAATGATGTTGTAATAGTAATTCAATTGTTTGGTTG
Found at i:41946926 original size:58 final size:58
Alignment explanation
Indices: 41946847--41946972 Score: 191
Period size: 58 Copynumber: 2.2 Consensus size: 58
41946837 TTTTAAGAAG
* *
41946847 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAATAAAATTCTTAACATA
* * *
41946905 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATA
41946963 ATTATTATTA
1 ATTATTATTA
41946973 TATGAATTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
57 23 0.37
58 39 0.63
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATA
Found at i:41946993 original size:58 final size:56
Alignment explanation
Indices: 41946834--41947000 Score: 178
Period size: 58 Copynumber: 2.9 Consensus size: 56
41946824 TATTATTATT
* * * *
41946834 AAATTTTAAGA-AGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAATC
1 AAATTTTAACATA-ATTATTATT-AATATAATTTAA-AAAAATAATATATAATTTAATA
* *
41946892 ATATTTTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATA
1 AAATTTTAACATAATTATTATT-AATATAATTTAAAAAAATAATATATAATTTAATA
*
41946949 AAATTCTTAATATAATTATTATT-ATATGAA-TTAAAAAATCATAATATATAAT
1 AAATT-TTAACATAATTATTATTAATAT-AATTTAAAAAA--ATAATATATAAT
41947001 ACTATAAAAA
Statistics
Matches: 95, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
56 11 0.12
57 25 0.26
58 58 0.61
59 1 0.01
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (56 bp):
AAATTTTAACATAATTATTATTAATATAATTTAAAAAAATAATATATAATTTAATA
Found at i:41950956 original size:47 final size:47
Alignment explanation
Indices: 41950905--41950996 Score: 175
Period size: 47 Copynumber: 2.0 Consensus size: 47
41950895 TTTTGTAGTG
41950905 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
1 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
*
41950952 TTAATTATAATTTTTAATCAAACAATATAAGTAGTATAAAACATT
1 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATT
41950997 ATTTGAAGAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (47 bp):
TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAACATTGT
Found at i:41955459 original size:23 final size:24
Alignment explanation
Indices: 41955424--41955479 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
41955414 TTTTTTTGAG
*
41955424 TAATTTGTGAGTTTAGATTTAAA-TAA
1 TAATTT-T-AGTTT-GAATTAAATTAA
41955450 -AATTTTAGTTTGAATTAAATTAA
1 TAATTTTAGTTTGAATTAAATTAA
41955473 TAATTTT
1 TAATTTT
41955480 TCAATTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 7 0.26
23 8 0.30
24 7 0.26
25 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (24 bp):
TAATTTTAGTTTGAATTAAATTAA
Found at i:41957851 original size:18 final size:18
Alignment explanation
Indices: 41957816--41957849 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
41957806 TAATAATTAA
41957816 ATTTAAAATTTTATAAAT
1 ATTTAAAATTTTATAAAT
41957834 ATTTAAAA-TTTATAAA
1 ATTTAAAATTTTATAAA
41957850 ATCAATTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTAAAATTTTATAAAT
Found at i:41959735 original size:45 final size:45
Alignment explanation
Indices: 41959684--41959780 Score: 106
Period size: 45 Copynumber: 2.1 Consensus size: 45
41959674 CCTGCAAATA
* * **
41959684 TGTTGTGCA-TCTATAGCCTAGTAGAAAATTTTATCTTTGATATTT
1 TGTTGTGCATTC-ACAGCCCAGTAGAAAATTTTATCTGCGATATTT
* * *
41959729 TGTTGTGTATTCACAGCCCAGTGGAAGATTTTATCTGCGATATTT
1 TGTTGTGCATTCACAGCCCAGTAGAAAATTTTATCTGCGATATTT
41959774 TGCTTGT
1 TG-TTGT
41959781 TGACACCATT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
45 37 0.86
46 6 0.14
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.44
Consensus pattern (45 bp):
TGTTGTGCATTCACAGCCCAGTAGAAAATTTTATCTGCGATATTT
Found at i:41960926 original size:19 final size:18
Alignment explanation
Indices: 41960902--41960939 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
41960892 ATGAAGTGTA
41960902 AAGTATATATATATCATAT
1 AAGTATATATATAT-ATAT
*
41960921 AAGTATTTATATATATAT
1 AAGTATATATATATATAT
41960939 A
1 A
41960940 TTATAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (18 bp):
AAGTATATATATATATAT
Found at i:41961061 original size:3 final size:3
Alignment explanation
Indices: 41961002--41961041 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
41960992 CAAGACATAG
*
41961002 ATA ATA ATA ATA ATA ATA ATA ATC ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
41961042 GTTATTAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:41961794 original size:5 final size:5
Alignment explanation
Indices: 41961777--41961813 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
41961767 TAAAGATTTG
41961777 TAAAA T-AAA -AAAA TAAAA TAAAA TAAAA TGAAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T-AAAA TAA
41961814 CAAGAAACGC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 6 0.21
5 18 0.62
6 5 0.17
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:41962645 original size:49 final size:49
Alignment explanation
Indices: 41962587--41962916 Score: 161
Period size: 49 Copynumber: 6.9 Consensus size: 49
41962577 TACACCGCAA
* * * *
41962587 GGAAATGAGATTCGCCGTTATGGCTTCAATCTTTTAATTGCAATGTCGG
1 GGAAGTGAGACTCGCCGTTGTAGCTTCAATCTTTTAATTGCAATGTCGG
* **** **
41962636 GGAAGTGAGACTCGCTGTTGTAGCTTCAATCTGTTCCGCTGC-ATCG-CCT
1 GGAAGTGAGACTCGCCGTTGTAGCTTCAATCT-TTTAATTGCAAT-GTCGG
* * * * *
41962685 GGAAGTAAGATTCGCCATTGTGGCTTCGA---TTT-ATTGCAA--T-GG
1 GGAAGTGAGACTCGCCGTTGTAGCTTCAATCTTTTAATTGCAATGTCGG
**** **
41962727 GGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGC-ATCG-CTT
1 GGAAGTGAGACTCGCCGTTGTAGCTTCAATCT-TTTAATTGCAAT-GTCGG
* * * *
41962776 GGAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGCAA--T-GG
1 GGAAGTGAGACTCGCCGTTGTAGCTTCAATCTTTT-AATTGCAATGTCGG
**** **
41962823 GGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGC-ATCG-CCT
1 GGAAGTGAGACTCGCCGTTGTAGCTTCAATCT-TTTAATTGCAAT-GTCGG
* * *
41962872 GGAAGTAAGATTCGCCGTTGTAGCTTCGATCTTTTAAATTGCAAT
1 GGAAGTGAGACTCGCCGTTGTAGCTTCAATCTTTT-AATTGCAAT
41962917 CTATGGTTAC
Statistics
Matches: 199, Mismatches: 59, Indels: 45
0.66 0.19 0.15
Matches are distributed among these distances:
42 24 0.12
44 3 0.02
45 3 0.02
46 4 0.02
47 34 0.17
48 6 0.03
49 116 0.58
50 9 0.05
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (49 bp):
GGAAGTGAGACTCGCCGTTGTAGCTTCAATCTTTTAATTGCAATGTCGG
Found at i:41962864 original size:96 final size:95
Alignment explanation
Indices: 41962449--41962916 Score: 541
Period size: 96 Copynumber: 4.9 Consensus size: 95
41962439 AAAACAAGGT
* * * * * * * *
41962449 TCGCCATTGTAGCTTCAATCTGTTCCACTGTATCGCCAAT-GATGTGAGATTCACTGTTGTAGCT
1 TCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC--TGGAAGTAAGATTCGCCGTTGTGGCT
* * * * * *
41962513 TCAATCTAGTTGACTGCAATGTTGGGGAAGCGAGAT
64 TCGATCT-TTTAATTGCAA---TGGGGAAGTGAGAC
* * * * * ** * * *
41962549 TCGCCATCGTAGCTTCAATCTGTTCCACTACACCGCAAGGAAATGAGATTCGCCGTTATGGCTTC
1 TCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAGTAAGATTCGCCGTTGTGGCTTC
*
41962614 AATCTTTTAATTGCAATGTCGGGGAAGTGAGAC
66 GATCTTTTAATTGCAA--T-GGGGAAGTGAGAC
* *
41962647 TCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAGTAAGATTCGCCATTGTGGCTTC
1 TCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAGTAAGATTCGCCGTTGTGGCTTC
41962712 GA---TTT-ATTGCAATGGGGAAGTGAGAC
66 GATCTTTTAATTGCAATGGGGAAGTGAGAC
*
41962738 TCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCTTGGAAGTAAGATTCGCCGTTGTGGCTTC
1 TCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAGTAAGATTCGCCGTTGTGGCTTC
41962803 GATCTTTTAAATTGCAATGGGGAAGTGAGAC
66 GATCTTTT-AATTGCAATGGGGAAGTGAGAC
*
41962834 TCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAGTAAGATTCGCCGTTGTAGCTTC
1 TCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAGTAAGATTCGCCGTTGTGGCTTC
41962899 GATCTTTTAAATTGCAAT
66 GATCTTTT-AATTGCAAT
41962917 CTATGGTTAC
Statistics
Matches: 324, Mismatches: 37, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
91 77 0.24
92 1 0.00
94 10 0.03
95 3 0.01
96 102 0.31
97 1 0.00
98 73 0.23
99 25 0.08
100 32 0.10
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (95 bp):
TCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAGTAAGATTCGCCGTTGTGGCTTC
GATCTTTTAATTGCAATGGGGAAGTGAGAC
Found at i:41973939 original size:35 final size:34
Alignment explanation
Indices: 41973887--41973953 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
41973877 CTATTTTCCC
* * *
41973887 ATATATATATACTAAAAAAATATAAAAAATAACA
1 ATATATATAAACAAAAAAAATAAAAAAAATAACA
41973921 ATATAATATAAACAAAAAAAATAAAAAAAATAA
1 ATAT-ATATAAACAAAAAAAATAAAAAAAATAA
41973954 AAAAAAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 4 0.14
35 25 0.86
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (34 bp):
ATATATATAAACAAAAAAAATAAAAAAAATAACA
Found at i:41973943 original size:20 final size:20
Alignment explanation
Indices: 41973905--41973943 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
41973895 ATACTAAAAA
*
41973905 AATATAAAAAATAACAATAT
1 AATATAAAAAATAAAAATAT
41973925 AATATAAACAAA-AAAAATA
1 AATATAAA-AAATAAAAATA
41973944 AAAAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (20 bp):
AATATAAAAAATAAAAATAT
Found at i:41973959 original size:9 final size:9
Alignment explanation
Indices: 41973900--41973959 Score: 59
Period size: 9 Copynumber: 6.8 Consensus size: 9
41973890 TATATATACT
41973900 AAAAAAATA
1 AAAAAAATA
*
41973909 TAAAAAAT-
1 AAAAAAATA
* *
41973917 AACAATATA
1 AAAAAAATA
* * *
41973926 ATATAAACA
1 AAAAAAATA
41973935 AAAAAAATA
1 AAAAAAATA
41973944 AAAAAAATA
1 AAAAAAATA
41973953 AAAAAAA
1 AAAAAAA
41973960 ATATTTTTTT
Statistics
Matches: 38, Mismatches: 12, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
8 5 0.13
9 33 0.87
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (9 bp):
AAAAAAATA
Found at i:41973959 original size:10 final size:10
Alignment explanation
Indices: 41973934--41973962 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
41973924 TAATATAAAC
41973934 AAAAAAAAT-
1 AAAAAAAATA
41973943 AAAAAAAATA
1 AAAAAAAATA
41973953 AAAAAAAATA
1 AAAAAAAATA
41973963 TTTTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:41974087 original size:11 final size:11
Alignment explanation
Indices: 41974071--41974105 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
41974061 TCCTTCCCCC
41974071 CTCCCTTCTCT
1 CTCCCTTCTCT
41974082 CTCCCTTCTCT
1 CTCCCTTCTCT
41974093 CTTCCC-TCTCT
1 C-TCCCTTCTCT
41974104 CT
1 CT
41974106 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:41974595 original size:3 final size:3
Alignment explanation
Indices: 41974571--41974638 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
41974561 AATATCCTTG
* * * *
41974571 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA GTA TTA TTA TTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
41974619 TTA GTA TATA TTT TTA TTA T
1 TTA TTA T-TA TTA TTA TTA T
41974639 GTACGTGTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:41974648 original size:23 final size:23
Alignment explanation
Indices: 41974578--41974649 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
41974568 TTGTTATTTT
* *
41974578 TATATTATTAGTAT-TATTAGTA
1 TATATTATTATTATGTAGTAGTA
*
41974600 TTAGTATTATTATTATGTATTAGTA
1 -TA-TATTATTATTATGTAGTAGTA
*
41974625 TATATTTTTATTATGTACGT-GTA
1 TATATTATTATTATGTA-GTAGTA
41974648 TA
1 TA
41974650 CATATATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
23 21 0.49
24 14 0.33
25 8 0.19
ACGTcount: A:0.32, C:0.01, G:0.11, T:0.56
Consensus pattern (23 bp):
TATATTATTATTATGTAGTAGTA
Found at i:41974752 original size:3 final size:3
Alignment explanation
Indices: 41974739--41974777 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
41974729 TATTCCAATG
* *
41974739 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
41974778 GTTTATGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:41975087 original size:17 final size:18
Alignment explanation
Indices: 41975025--41975102 Score: 72
Period size: 17 Copynumber: 4.3 Consensus size: 18
41975015 CATATATCTT
*
41975025 TTATATATATTATCATT-
1 TTATATATTTTATCATTA
* *
41975042 GTATATATTTTATTATTA
1 TTATATATTTTATCATTA
41975060 TTAGTTATATTTTA-CATTA
1 TTA--TATATTTTATCATTA
*
41975079 TTATATATTTT-TCTAATA
1 TTATATATTTTATC-ATTA
41975097 TTATAT
1 TTATAT
41975103 TGTATATACT
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
17 23 0.46
18 11 0.22
19 7 0.14
20 9 0.18
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (18 bp):
TTATATATTTTATCATTA
Found at i:41975515 original size:18 final size:19
Alignment explanation
Indices: 41975456--41975551 Score: 58
Period size: 18 Copynumber: 5.1 Consensus size: 19
41975446 ATATACGTAC
*
41975456 TTATACATACTTAAATATAT
1 TTAT-CATACTTACATATAT
* * *
41975476 TTTTCATA-TTTCATAATTT
1 TTATCATACTTACAT-ATAT
41975495 TTAT-ATACTTACATATAT
1 TTATCATACTTACATATAT
*
41975513 TTATGCATATTTTACATCATA-
1 TTAT-CATA-CTTACAT-ATAT
*
41975534 -TA-CATACTTATATATAT
1 TTATCATACTTACATATAT
41975551 T
1 T
41975552 CTTTATATTC
Statistics
Matches: 58, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
16 3 0.05
17 5 0.09
18 18 0.31
19 15 0.26
20 8 0.14
21 6 0.10
22 3 0.05
ACGTcount: A:0.36, C:0.11, G:0.01, T:0.51
Consensus pattern (19 bp):
TTATCATACTTACATATAT
Found at i:41975541 original size:38 final size:36
Alignment explanation
Indices: 41975457--41975551 Score: 93
Period size: 38 Copynumber: 2.6 Consensus size: 36
41975447 TATACGTACT
* *
41975457 TATACATACTTAAATATATTTTTCATATTTCATAATT
1 TATACATACTTAAATATATTTTGCATATTT-ATAATA
* * *
41975494 TTTATATACTTACATATATTTATGCATATTT-TACATCA
1 TATACATACTTAAATATATTT-TGCATATTTATA-AT-A
*
41975532 TATACATACTTATATATATT
1 TATACATACTTAAATATATT
41975552 CTTTATATTC
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
36 2 0.04
37 20 0.43
38 25 0.53
ACGTcount: A:0.37, C:0.12, G:0.01, T:0.51
Consensus pattern (36 bp):
TATACATACTTAAATATATTTTGCATATTTATAATA
Found at i:41988206 original size:133 final size:134
Alignment explanation
Indices: 41987872--41988333 Score: 416
Period size: 133 Copynumber: 3.5 Consensus size: 134
41987862 AAAATTTCAG
* * * * * *
41987872 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-GAGATCTTATCTCCCTGAGATTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA-ATCCTATCTCCCTGAGATTA
* * * * *** * * * *
41987936 CAGCGGAGCAGATC-AAAGATAGTA-ATCCTATCTCCTTGAGATTACAATGAAGCGGATT-AA-A
65 CAGTGGAACAGACCGAAAAATTCCAGATCTTATCTCCCTGAGATTACAATGGAGCAGATTGAAGA
41987997 -AG--
130 CAGTA
* ** * * * * *
41987999 ATCTTATCTCTCTGA-AGTTACAGTAGAGAAGATC----ACA-TCAGGTCTTATTTCCCTGAGGT
1 ATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACACT-A-ATCCTATCTCCCTGAGAT
** * * * *
41988058 TACAGTGGAGTAGACCGGAGAATTCCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAA
63 TACAGTGGAACAGACCGAAAAATTCCAGATCTTATCTCCCTGAGATTACAATGGAGCAGATTGAA
*
41988123 GCCAG-A
128 GACAGTA
41988129 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGAGATTA
1 -ATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTAATCCTATCTCCCTGAGATTA
*
41988193 CAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTACAATGGAGCAGATTGAAGA
65 CAGTGGAACAGACCGAAAAATTCCAGATCTTATCTCCCTGAGATTACAATGGAGCAGATTGAAGA
*
41988258 TAGTA
130 CAGTA
* * * * *
41988263 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGATAGTAATCCTATCTGCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTAATCCTATCTCCCTGAGATTAC
41988328 AGTGGA
66 AGTGGA
41988334 GTGGATTAAA
Statistics
Matches: 270, Mismatches: 48, Indels: 27
0.78 0.14 0.08
Matches are distributed among these distances:
123 2 0.01
124 30 0.11
125 4 0.01
126 28 0.10
127 30 0.11
129 2 0.01
131 28 0.10
132 1 0.00
133 114 0.42
134 27 0.10
135 3 0.01
136 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (134 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTAATCCTATCTCCCTGAGATTAC
AGTGGAACAGACCGAAAAATTCCAGATCTTATCTCCCTGAGATTACAATGGAGCAGATTGAAGAC
AGTA
Found at i:41988335 original size:44 final size:44
Alignment explanation
Indices: 41987827--41988334 Score: 355
Period size: 44 Copynumber: 11.6 Consensus size: 44
41987817 ATTATACAGG
* ** * * *
41987827 TCTTATCTCCCTGAGATTACAGTGGAACAGA-CCAAAAAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACA-GT-A-A
* *
41987873 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG-AGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGTA-A
* ** *
41987917 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGTAA
* * * * *
41987961 TCCTATCTCCTTGAGATTACAATGAAGCGGATT-AA-A-AG--A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGTAA
* * * * * *
41988000 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCACA-TCAG--G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGA-AGACAGTAA
* * * ** * *
41988041 TCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGA-ATTCCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGT--A-A
* *
41988087 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG-AGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGTA-A
* * *
41988131 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGTAA
* * ** * *
41988174 TCCTATCTCCCTGAGATTACAGTGGAACAGACCGAA-AAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACA-GT-A-A
* *
41988220 TCTTATCTCCCTGAGATTACAATGGAGCAGATTGAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGTAA
* * *
41988264 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGTAA
* *
41988308 TCCTATCTGCCTGAGATTACAGTGGAG
1 TCTTATCTCCCTGAGATTACAGTGGAG
41988335 TGGATTAAAA
Statistics
Matches: 368, Mismatches: 73, Indels: 44
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.01
39 23 0.06
40 1 0.00
41 31 0.08
42 3 0.01
43 36 0.10
44 170 0.46
45 2 0.01
46 94 0.26
47 6 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAGTAA
Found at i:41989297 original size:34 final size:34
Alignment explanation
Indices: 41989246--41989311 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
41989236 CTATTTTCCC
* *
41989246 ATATATATATACTAAAAAAATATAAAAAATAACA
1 ATATATATAAACTAAAAAAATAAAAAAAATAACA
41989280 ATATAATATAAAC-AAAAAAATAAAAAAAATAA
1 ATAT-ATATAAACTAAAAAAATAAAAAAAATAA
41989312 AAAATATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 22 0.76
35 7 0.24
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (34 bp):
ATATATATAAACTAAAAAAATAAAAAAAATAACA
Done.