Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 147 of 310
Found at i:48005573 original size:78 final size:79
Alignment explanation
Indices: 48005363--48005575 Score: 196
Period size: 76 Copynumber: 2.7 Consensus size: 79
48005353 TTATTAGTCG
* *
48005363 TTTTTTTATTCTTAATATGTATATATTATGTAAATATTTTAATATTATATTATATATATTGTTCA
1 TTTTTTTATTTTTAATATGTATATATTATGTATATATTTTAATA-TATA-T-TATATATTGTTCA
48005428 TAGATTATATAGATGTT
63 TAGATTATATAGATGTT
* * *
48005445 TTTAATATTATATTTT-ATA--TAT-TATTATGTATAT-TTTTAGTATATA-TATAT-TTG-TGA
1 TTT--TTTTAT-TTTTAATATGTATATATTATGTATATATTTTAATATATATTATATATTGTTCA
48005502 -AGTATTATCAATAG-T-TT
63 TAG-ATTAT--ATAGATGTT
* *
48005519 TTTTTTTATTTTTAATATGTATATATTGTGTATATATTTTAATACTACATTATATAT
1 TTTTTTTATTTTTAATATGTATATATTATGTATATATTTTAATA-TATATTATATAT
48005576 ATTTTTTATA
Statistics
Matches: 108, Mismatches: 9, Indels: 31
0.73 0.06 0.21
Matches are distributed among these distances:
71 4 0.04
72 8 0.07
73 2 0.02
74 15 0.14
75 15 0.14
76 16 0.15
77 3 0.03
78 5 0.05
79 5 0.05
80 7 0.06
81 11 0.10
82 6 0.06
84 8 0.07
85 3 0.03
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (79 bp):
TTTTTTTATTTTTAATATGTATATATTATGTATATATTTTAATATATATTATATATTGTTCATAG
ATTATATAGATGTT
Found at i:48006421 original size:15 final size:15
Alignment explanation
Indices: 48006403--48006436 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
48006393 TTTATACTAT
*
48006403 GTATATATATATTTA
1 GTATATATATATTCA
*
48006418 GTATGTATATATTCA
1 GTATATATATATTCA
48006433 GTAT
1 GTAT
48006437 TATTATGCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (15 bp):
GTATATATATATTCA
Found at i:48006443 original size:21 final size:20
Alignment explanation
Indices: 48006383--48006443 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
48006373 ATTCCTAATA
48006383 TATATATTCAT-TTATACTATG
1 TATATATTCATATTAT--TATG
*
48006404 TATATA-T-ATATTTAGTATG
1 TATATATTCATA-TTATTATG
48006423 TATATATTCAGTATTATTATG
1 TATATATTCA-TATTATTATG
48006444 CGTGTATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
19 12 0.36
20 2 0.06
21 17 0.52
22 2 0.06
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.52
Consensus pattern (20 bp):
TATATATTCATATTATTATG
Found at i:48010314 original size:16 final size:16
Alignment explanation
Indices: 48010293--48010328 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
48010283 GTATAACTAA
48010293 CATTCATTTATGCATT
1 CATTCATTTATGCATT
*
48010309 CATTCATTTATTCATT
1 CATTCATTTATGCATT
48010325 CATT
1 CATT
48010329 GCATATCCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
CATTCATTTATGCATT
Found at i:48018753 original size:68 final size:74
Alignment explanation
Indices: 48018631--48018813 Score: 234
Period size: 68 Copynumber: 2.6 Consensus size: 74
48018621 TATTTCTGTT
* * ** * *
48018631 TTCAAAATTCGACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAAAAGTTGAGGTATTTTC-A-
1 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAAAAGCTGAGGTAATTTCAAT
48018694 A-T-T-TTG
66 ATTCTATTG
* * *
48018700 TT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAAAAGCTGAGGTAATTTCAAT
*
48018764 ATTCTATTT
66 ATTCTATTG
48018773 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
48018814 GGCTCACATG
Statistics
Matches: 98, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
68 50 0.51
69 3 0.03
70 1 0.01
71 1 0.01
72 1 0.01
73 4 0.04
74 38 0.39
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (74 bp):
TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAAAAGCTGAGGTAATTTCAAT
ATTCTATTG
Found at i:48019008 original size:172 final size:165
Alignment explanation
Indices: 48018702--48019015 Score: 414
Period size: 172 Copynumber: 1.9 Consensus size: 165
48018692 CAATTTTGTT
* *
48018702 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAAAATT
* * *
48018767 CTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTTGAGGTA
66 CTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTA
*
48018832 TTTTCAGTTTCTGTTTTTTTTAATTTATATTTTTC
131 TTTTCAATTTCTGTTTTTTTTAATTTATATTTTTC
* * * * * *
48018867 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAATCTCGGGTCATATGTTGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGG--ACACGCTGAGGTAATTTCAAAA
* * *
48018932 TCTGCTTTTAAGTTTCAAAAAACCAACTCATATTGCG-GAGGTGAGTTGAGCCTTGGCTCACGTG
64 T-T-CTATT---TTTC-AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
48018996 CTGAGCTATTTTCAATTTCT
123 CTGAGCTATTTTCAATTTCT
48019016 ACTTTAATGT
Statistics
Matches: 126, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
165 38 0.30
167 18 0.14
168 1 0.01
169 4 0.03
172 46 0.37
173 19 0.15
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (165 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTAATTTCAAAATT
CTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTA
TTTTCAATTTCTGTTTTTTTTAATTTATATTTTTC
Found at i:48020143 original size:21 final size:21
Alignment explanation
Indices: 48020113--48020163 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
48020103 CCACCGGAAA
48020113 TCCCCTTCTCCCCACTCTCC-TT
1 TCCCC-TCTCCCCACTC-CCATT
*
48020135 TCCCCTCTCCCCTCTCCCATT
1 TCCCCTCTCCCCACTCCCATT
*
48020156 TCCTCTCT
1 TCCCCTCT
48020164 TCTTTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 2 0.08
21 19 0.73
22 5 0.19
ACGTcount: A:0.04, C:0.59, G:0.00, T:0.37
Consensus pattern (21 bp):
TCCCCTCTCCCCACTCCCATT
Found at i:48020976 original size:20 final size:19
Alignment explanation
Indices: 48020953--48021149 Score: 86
Period size: 20 Copynumber: 10.6 Consensus size: 19
48020943 ATTTTAATAT
48020953 TATATTATATATATTTTTCA
1 TATATTATATATATTTTT-A
48020973 TATATTATATATATGTTTT-
1 TATATTATATATAT-TTTTA
48020992 TA-A-TAT-TATATTTTATA
1 TATATTATATATATTTT-TA
*
48021009 TATCATTATGTATATTTTTA
1 TAT-ATTATATATATTTTTA
* *
48021029 -ATA-TATATAT-TTGTGA
1 TATATTATATATATTTTTA
*
48021045 -AGTATTATCA-ATAGTTTT-
1 TA-TATTAT-ATATATTTTTA
48021063 T-TATTAT-TATTATTTTTA
1 TATATTATATA-TATTTTTA
* *
48021081 -ATATGTATATAT-TGTGTA
1 TATAT-TATATATATTTTTA
* **
48021099 TATATTTTA-ATACTACATTA
1 TATATTATATATA-T-TTTTA
48021119 TATA-TATATAT-TTTTTA
1 TATATTATATATATTTTTA
48021136 TATTATGTATATAT
1 TA-TAT-TATATAT
48021150 TTCAAGTATT
Statistics
Matches: 135, Mismatches: 16, Indels: 52
0.67 0.08 0.26
Matches are distributed among these distances:
15 3 0.02
16 12 0.09
17 32 0.24
18 20 0.15
19 20 0.15
20 36 0.27
21 12 0.09
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.58
Consensus pattern (19 bp):
TATATTATATATATTTTTA
Found at i:48020981 original size:25 final size:23
Alignment explanation
Indices: 48020929--48021011 Score: 89
Period size: 22 Copynumber: 3.6 Consensus size: 23
48020919 CTAATATGTA
* *
48020929 TATATTATGTAAATATTTTAATAT
1 TATATTATATATAT-TTTTAATAT
*
48020953 TATATTATATATATTTTTCATA-
1 TATATTATATATATTTTTAATAT
*
48020975 TAT-TATATATATGTTTTTAATAT
1 TATAT-TATATATATTTTTAATAT
*
48020998 TATATTTTATATAT
1 TATATTATATATAT
48021012 CATTATGTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
21 1 0.02
22 18 0.37
23 17 0.35
24 13 0.27
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.59
Consensus pattern (23 bp):
TATATTATATATATTTTTAATAT
Found at i:48021032 original size:35 final size:36
Alignment explanation
Indices: 48020958--48021040 Score: 109
Period size: 36 Copynumber: 2.3 Consensus size: 36
48020948 AATATTATAT
48020958 TATATATATTTTTCATATATTATATATATGTTTTTAA
1 TATATATATTTTTCATATATTATATATA-GTTTTTAA
*
48020995 TAT-TATATTTTAT-ATATCATTATGTATA-TTTTTAA
1 TATATATATTTT-TCATAT-ATTATATATAGTTTTTAA
48021030 TATATATATTT
1 TATATATATTT
48021041 GTGAAGTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
35 10 0.24
36 19 0.45
37 13 0.31
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (36 bp):
TATATATATTTTTCATATATTATATATAGTTTTTAA
Found at i:48021093 original size:26 final size:27
Alignment explanation
Indices: 48021064--48021150 Score: 63
Period size: 27 Copynumber: 3.1 Consensus size: 27
48021054 AATAGTTTTT
48021064 TATTAT-TATTATTTTTAATATGTATA
1 TATTATATATTATTTTTAATATGTATA
* * **
48021090 TATTGTGTA-TATATTTTAATACTACATTA
1 TATTATATATTAT-TTTTAATA-TGTA-TA
*
48021119 TATATATATATT-TTTTATATTATGTATA
1 TAT-TATATATTATTTT-TAATATGTATA
48021147 TATT
1 TATT
48021151 TCAAGTATTA
Statistics
Matches: 46, Mismatches: 8, Indels: 13
0.69 0.12 0.19
Matches are distributed among these distances:
26 8 0.17
27 11 0.24
28 7 0.15
29 10 0.22
30 9 0.20
31 1 0.02
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (27 bp):
TATTATATATTATTTTTAATATGTATA
Found at i:48021954 original size:21 final size:19
Alignment explanation
Indices: 48021930--48021981 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
48021920 TAATATGTAT
48021930 TGTATATATTTATTTATACTA
1 TGTATATATTTA-TT-TACTA
* *
48021951 TGTATATATATATTTAGTA
1 TGTATATATTTATTTACTA
48021970 TGTATATATTTA
1 TGTATATATTTA
48021982 GTATTATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 15 0.54
20 2 0.07
21 11 0.39
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (19 bp):
TGTATATATTTATTTACTA
Found at i:48021970 original size:15 final size:15
Alignment explanation
Indices: 48021952--48021985 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
48021942 TTTATACTAT
48021952 GTATATATATATTTA
1 GTATATATATATTTA
*
48021967 GTATGTATATATTTA
1 GTATATATATATTTA
48021982 GTAT
1 GTAT
48021986 TATTATGCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
GTATATATATATTTA
Found at i:48021992 original size:21 final size:19
Alignment explanation
Indices: 48021930--48021992 Score: 72
Period size: 21 Copynumber: 3.1 Consensus size: 19
48021920 TAATATGTAT
48021930 TGTATATATTTATTTATACTA
1 TGTATATATTTATTTAT--TA
* *
48021951 TGTATATATATATTTAGTA
1 TGTATATATTTATTTATTA
48021970 TGTATATATTTAGTATTATTA
1 TGTATATATTTA-T-TTATTA
48021991 TG
1 TG
48021993 CGTGTATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 13 0.36
20 1 0.03
21 22 0.61
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.56
Consensus pattern (19 bp):
TGTATATATTTATTTATTA
Found at i:48022239 original size:34 final size:34
Alignment explanation
Indices: 48022186--48022251 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
48022176 TACTATCGCA
**
48022186 CGTATATTGTTAATGTTTTA-TATATTGTCTATTT
1 CGTATATTGTTAACCTTTTATTAT-TTGTCTATTT
*
48022220 CGTATATTTTTAACCTTTTATTATTTGTCTAT
1 CGTATATTGTTAACCTTTTATTATTTGTCTAT
48022252 CCCGAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 25 0.89
35 3 0.11
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.59
Consensus pattern (34 bp):
CGTATATTGTTAACCTTTTATTATTTGTCTATTT
Found at i:48026524 original size:3 final size:3
Alignment explanation
Indices: 48026516--48026884 Score: 134
Period size: 3 Copynumber: 121.7 Consensus size: 3
48026506 TAATTTAATA
* * *
48026516 TAT TAT TAT TACT TAT TAT T-T TAC TAT TAT TGT CTAA TA- TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * * * * *
48026561 TAT CAC TAT TAT TAT TAC T-T TAC TAT TGT AATT TAT GGTAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT --TAT TAT TAT
* *
48026608 TAC TCT TAT T-T TCAT TAT TAT TAT TAT TAT TAT TAT TATT TAT T-T
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * * * * * * *
48026653 TCT T-T T-T TAC TAT TGT TAT TAGT GACC TAT TAC TAT TCT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT
* * * * * *
48026698 CA- TAC TAT TAT T-T CCTAT T-T TA- TAT TAT TAT TGT TAT CAA CAT
1 TAT TAT TAT TAT TAT --TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * **
48026741 ATAT TAT TAT CAT TAAT GTAT TGT TAT TCCC TAT TAT TAT TAT TAT TAT
1 -TAT TAT TAT TAT T-AT -TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * *
48026790 TAT TAT TAT TCCT T-T TAT TATT TAT TAT CAA TA- TAT TAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * ** *
48026835 TAT TGT TAT TAT TGT TAT TGT TGT TAT TGT TAT TGC TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
48026883 TA
1 TA
48026885 CCACCTTATT
Statistics
Matches: 268, Mismatches: 70, Indels: 56
0.68 0.18 0.14
Matches are distributed among these distances:
2 23 0.09
3 213 0.79
4 27 0.10
5 5 0.02
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:48026997 original size:17 final size:17
Alignment explanation
Indices: 48026975--48027008 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
48026965 TTTTATTATC
48026975 ATTATTACTATCATATT
1 ATTATTACTATCATATT
*
48026992 ATTATTACTATTATATT
1 ATTATTACTATCATATT
48027009 TTCATCTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTACTATCATATT
Found at i:48027236 original size:13 final size:14
Alignment explanation
Indices: 48027220--48027284 Score: 55
Period size: 13 Copynumber: 4.7 Consensus size: 14
48027210 TTTAATTTCA
48027220 ATTT-TTTTAGCTT
1 ATTTATTTTAGCTT
*
48027233 ATTTATTATT-TCTTT
1 ATTTATT-TTAGC-TT
*
48027248 TTTTATTTTAGCTT
1 ATTTATTTTAGCTT
*
48027262 ATTCATTTTA-CTT
1 ATTTATTTTAGCTT
*
48027275 ATTTGTTTTA
1 ATTTATTTTA
48027285 TCTTTTCTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
13 15 0.37
14 15 0.37
15 11 0.27
ACGTcount: A:0.18, C:0.08, G:0.05, T:0.69
Consensus pattern (14 bp):
ATTTATTTTAGCTT
Found at i:48030024 original size:15 final size:15
Alignment explanation
Indices: 48030006--48030036 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48029996 TTTTAATAAA
48030006 TTTTTTAAAAAAAAT
1 TTTTTTAAAAAAAAT
*
48030021 TTTTTTAAAAATAAT
1 TTTTTTAAAAAAAAT
48030036 T
1 T
48030037 AATAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTTTAAAAAAAAT
Found at i:48030155 original size:16 final size:16
Alignment explanation
Indices: 48030134--48030164 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48030124 GATGAGTTCA
48030134 AAATTAAAAAAAATAG
1 AAATTAAAAAAAATAG
*
48030150 AAATTATAAAAAATA
1 AAATTAAAAAAAATA
48030165 TTAATAATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAATTAAAAAAAATAG
Found at i:48034004 original size:28 final size:29
Alignment explanation
Indices: 48033972--48034051 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 29
48033962 GTTGAGAGAT
48033972 GAAGAGCCTTGATGAAAGA-ATGAAAGAC
1 GAAGAGCCTTGATGAAAGAGATGAAAGAC
* * *
48034000 GAAGAGCTTTGATAAAAGAGATGAGAGAC
1 GAAGAGCCTTGATGAAAGAGATGAAAGAC
* * *
48034029 GAAGAGTCTAGATGAAAGGGATG
1 GAAGAGCCTTGATGAAAGAGATG
48034052 TGAGAGGGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 17 0.40
29 26 0.60
ACGTcount: A:0.44, C:0.07, G:0.33, T:0.16
Consensus pattern (29 bp):
GAAGAGCCTTGATGAAAGAGATGAAAGAC
Found at i:48034033 original size:29 final size:28
Alignment explanation
Indices: 48033964--48034034 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
48033954 GCAGCCAAGT
* *
48033964 TGAGAGATGAAGAGCCTTGATGAAAGAA
1 TGAGAGACGAAGAGCCTTGATAAAAGAA
* *
48033992 TGAAAGACGAAGAGCTTTGATAAAAGAGA
1 TGAGAGACGAAGAGCCTTGATAAAAGA-A
48034021 TGAGAGACGAAGAG
1 TGAGAGACGAAGAG
48034035 TCTAGATGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 23 0.62
29 14 0.38
ACGTcount: A:0.45, C:0.07, G:0.32, T:0.15
Consensus pattern (28 bp):
TGAGAGACGAAGAGCCTTGATAAAAGAA
Found at i:48034046 original size:29 final size:28
Alignment explanation
Indices: 48033964--48034056 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 28
48033954 GCAGCCAAGT
*
48033964 TGAGAGATGAAGAGCCTTGATGAAAGA-A
1 TGAGAGACGAAGAG-CTTGATGAAAGAGA
* *
48033992 TGAAAGACGAAGAGCTTTGATAAAAGAGA
1 TGAGAGACGAAGAGC-TTGATGAAAGAGA
* *
48034021 TGAGAGACGAAGAGTCTAGATGAAAGGGA
1 TGAGAGACGAAGAG-CTTGATGAAAGAGA
*
48034050 TGTGAGA
1 TGAGAGA
48034057 GGGATTTTCA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 1 0.02
28 22 0.41
29 30 0.56
30 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.33, T:0.17
Consensus pattern (28 bp):
TGAGAGACGAAGAGCTTGATGAAAGAGA
Found at i:48035660 original size:25 final size:26
Alignment explanation
Indices: 48035632--48035687 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
48035622 TTGAAACTTG
* *
48035632 ATTTTTTT-TAGTTTTTAAATTTTTA
1 ATTTTTTTATAATTTCTAAATTTTTA
*
48035657 ATTTTTTTATAATTTCTAATTTTTTA
1 ATTTTTTTATAATTTCTAAATTTTTA
*
48035683 GTTTT
1 ATTTT
48035688 GAACTCATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (26 bp):
ATTTTTTTATAATTTCTAAATTTTTA
Found at i:48035664 original size:18 final size:18
Alignment explanation
Indices: 48035643--48035681 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
48035633 TTTTTTTTAG
*
48035643 TTTTTA-AATTTTTAATT
1 TTTTTATAATTTCTAATT
48035660 TTTTTATAATTTCTAATT
1 TTTTTATAATTTCTAATT
48035678 TTTT
1 TTTT
48035682 AGTTTTGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTATAATTTCTAATT
Found at i:48038528 original size:19 final size:19
Alignment explanation
Indices: 48038493--48038534 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
48038483 AATTAAACTT
* *
48038493 GAAAATTAGACCTAAGATG
1 GAAAATTAGACCCAAGATC
48038512 GAAAATT-GAACCCAAGATC
1 GAAAATTAG-ACCCAAGATC
48038531 GAAA
1 GAAA
48038535 CCCAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.50, C:0.14, G:0.19, T:0.17
Consensus pattern (19 bp):
GAAAATTAGACCCAAGATC
Found at i:48039057 original size:32 final size:32
Alignment explanation
Indices: 48039020--48039091 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
48039010 CGATGGTTGT
48039020 GACGACAACGATCCGGCGACCGACAGATGGTC
1 GACGACAACGATCCGGCGACCGACAGATGGTC
* * ****
48039052 GACGACAATGGTTTTTCGACCGACAGATGGTC
1 GACGACAACGATCCGGCGACCGACAGATGGTC
*
48039084 GGCGACAA
1 GACGACAA
48039092 TAATTCTTTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.26, G:0.31, T:0.15
Consensus pattern (32 bp):
GACGACAACGATCCGGCGACCGACAGATGGTC
Found at i:48039692 original size:12 final size:12
Alignment explanation
Indices: 48039671--48039721 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
48039661 TGACGTGGCA
*
48039671 GAGGAGGACGAT
1 GAGGATGACGAT
* *
48039683 GAGGAAGACGAA
1 GAGGATGACGAT
*
48039695 GATGATGACGAT
1 GAGGATGACGAT
*
48039707 GACGATGACGAT
1 GAGGATGACGAT
48039719 GAG
1 GAG
48039722 CTATATGGCG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.37, C:0.10, G:0.41, T:0.12
Consensus pattern (12 bp):
GAGGATGACGAT
Found at i:48039707 original size:6 final size:6
Alignment explanation
Indices: 48039677--48039720 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
48039667 GGCAGAGGAG
* * * *
48039677 GACGAT GAGGAA GACGAA GATGAT GACGAT GACGAT GACGAT GA
1 GACGAT GACGAT GACGAT GACGAT GACGAT GACGAT GACGAT GA
48039721 GCTATATGGC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.39, C:0.11, G:0.36, T:0.14
Consensus pattern (6 bp):
GACGAT
Found at i:48048930 original size:2 final size:2
Alignment explanation
Indices: 48048923--48048961 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
48048913 GACCAATTAT
48048923 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
48048962 TATAATTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:48055985 original size:15 final size:15
Alignment explanation
Indices: 48055963--48056010 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
48055953 TTTTTTAAGA
48055963 TTACATTTTAATCAC
1 TTACATTTTAATCAC
* *
48055978 TTATATTTGAAAT-A-
1 TTACATTT-TAATCAC
48055992 TTACATTTTAATCAC
1 TTACATTTTAATCAC
48056007 TTAC
1 TTAC
48056011 GTTATCATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
13 3 0.12
14 8 0.31
15 12 0.46
16 3 0.12
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (15 bp):
TTACATTTTAATCAC
Found at i:48060233 original size:35 final size:37
Alignment explanation
Indices: 48060188--48060258 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
48060178 AGAACAACTA
*
48060188 AATTATACAAAAC-ATAAAGAAATCATGACACTGGTT
1 AATTATACAAAACTAAAAAGAAATCATGACACTGGTT
48060224 AATT-TACAAAACTTAAAAAGAAATCATGACACTGG
1 AATTATACAAAAC-TAAAAAGAAATCATGACACTGG
48060259 AAGCTATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 8 0.25
36 4 0.12
37 20 0.62
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (37 bp):
AATTATACAAAACTAAAAAGAAATCATGACACTGGTT
Found at i:48068072 original size:39 final size:39
Alignment explanation
Indices: 48068029--48068129 Score: 139
Period size: 39 Copynumber: 2.6 Consensus size: 39
48068019 ATCGTGATCT
* *
48068029 GAAGCCCGAAATCTAGCTAAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAAGCTAACTAAAGCACATAAGTGCTAAACG
* *
48068068 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAAGCTAACTAAAGCACATAAGTGCTAAACG
* * *
48068107 GAAGCCCGGAGGCTAACTGAAGC
1 GAAGCCCGAAAGCTAACTAAAGC
48068130 TCATCAGAGC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAAGCTAACTAAAGCACATAAGTGCTAAACG
Found at i:48068111 original size:21 final size:21
Alignment explanation
Indices: 48068048--48068111 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
48068038 AATCTAGCTA
48068048 AAGCACATAAGTGCTAAACGG
1 AAGCACATAAGTGCTAAACGG
** *
48068069 AAGC-CCGAAG-GCT-AACTG
1 AAGCACATAAGTGCTAAACGG
48068087 AAGCACATAAGTGCTAAACGG
1 AAGCACATAAGTGCTAAACGG
48068108 AAGC
1 AAGC
48068112 CCGGAGGCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.24
19 7 0.21
20 7 0.21
21 12 0.35
ACGTcount: A:0.41, C:0.22, G:0.25, T:0.12
Consensus pattern (21 bp):
AAGCACATAAGTGCTAAACGG
Found at i:48071934 original size:25 final size:25
Alignment explanation
Indices: 48071900--48071989 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
48071890 ATATTATTAT
*
48071900 TATTTTTTATTTTAAGTTTTTCTTA
1 TATTATTTATTTTAAGTTTTTCTTA
* *
48071925 TATTATTTATTTTAAATTGTT-TTA
1 TATTATTTATTTTAAGTTTTTCTTA
* ***
48071949 TTATTTTTTATTTTAAGTTTTTCACG
1 -TATTATTTATTTTAAGTTTTTCTTA
*
48071975 TATTATGTATTTTAA
1 TATTATTTATTTTAA
48071990 ACTATTATCC
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
24 3 0.06
25 49 0.94
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (25 bp):
TATTATTTATTTTAAGTTTTTCTTA
Found at i:48071950 original size:50 final size:50
Alignment explanation
Indices: 48071896--48071990 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
48071886 AACTATATTA
** *
48071896 TTATTATTTTTTATTTTAAGTTTTTCTTATATTATTTATTTTAAATTGTT
1 TTATTATTTTTTATTTTAAGTTTTTCACATATTATGTATTTTAAATTGTT
*
48071946 TTATTATTTTTTATTTTAAGTTTTTCACGTATTATGTATTTTAAA
1 TTATTATTTTTTATTTTAAGTTTTTCACATATTATGTATTTTAAA
48071991 CTATTATCCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.66
Consensus pattern (50 bp):
TTATTATTTTTTATTTTAAGTTTTTCACATATTATGTATTTTAAATTGTT
Found at i:48072072 original size:27 final size:28
Alignment explanation
Indices: 48072019--48072145 Score: 102
Period size: 28 Copynumber: 4.5 Consensus size: 28
48072009 ATTTTAAAGG
48072019 TTATTTATTTTAAA--ATTTTTATATATA
1 TTATTTATTTTAAATTATTTTT-TATATA
*
48072046 TTATTTATTTTGAATTATTTTTTTATATA
1 TTATTTATTTTAAATTA-TTTTTTATATA
* * * *
48072075 TATCTTTTATTTTTAAACTA--TTTTGTACA
1 T-T-ATTTA-TTTTAAATTATTTTTTATATA
*
48072104 TTATTTATTTTAAATT-TCTTTTTACATA
1 TTATTTATTTTAAATTAT-TTTTTATATA
*
48072132 TTATTTATCTTAAA
1 TTATTTATTTTAAA
48072146 CTCTTTTATA
Statistics
Matches: 79, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
26 8 0.10
27 17 0.22
28 20 0.25
29 16 0.20
30 6 0.08
31 4 0.05
32 8 0.10
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (28 bp):
TTATTTATTTTAAATTATTTTTTATATA
Found at i:48072129 original size:26 final size:26
Alignment explanation
Indices: 48072019--48072286 Score: 162
Period size: 26 Copynumber: 10.2 Consensus size: 26
48072009 ATTTTAAAGG
48072019 TTATTTATTTTAAAATTT-TTATATATA
1 TTATTTATTTT-AAATTTCTT-TATATA
*
48072046 TTATTTATTTTGAATTATTTTTTTATATA
1 TTATTTATTTT-AA--ATTTCTTTATATA
* * * *
48072075 TATCTTTTATTTTTAAACTAT-TTTGTACA
1 T-T-ATTTA-TTTTAAA-TTTCTTTATATA
*
48072104 TTATTTATTTTAAATTTCTTTTTACATA
1 TTATTTATTTTAAATTTC--TTTATATA
* *
48072132 TTATTTATCTTAAA-CTCTTT-TATA
1 TTATTTATTTTAAATTTCTTTATATA
* *
48072156 -T-GTTATTTTAAAGTGTC-TTATATA
1 TTATTTATTTTAAA-TTTCTTTATATA
* * *
48072180 TTATCTATTTTAAATTGCTTTGTATA
1 TTATTTATTTTAAATTTCTTTATATA
* *
48072206 TTATCTATTTT-AATTTGTTTATATA
1 TTATTTATTTTAAATTTCTTTATATA
* * *
48072231 TTATTTATTTTAAA-ATGTTT-TATG
1 TTATTTATTTTAAATTTCTTTATATA
* *
48072255 GTATTTACTTTAAATTGT-TTTATATA
1 TTATTTATTTTAAATT-TCTTTATATA
48072281 TTATTT
1 TTATTT
48072287 TGTTTTGTTT
Statistics
Matches: 189, Mismatches: 32, Indels: 41
0.72 0.12 0.16
Matches are distributed among these distances:
22 9 0.05
23 3 0.02
24 24 0.13
25 37 0.20
26 44 0.23
27 19 0.10
28 19 0.10
29 19 0.10
30 5 0.03
31 6 0.03
32 4 0.02
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (26 bp):
TTATTTATTTTAAATTTCTTTATATA
Found at i:48072285 original size:50 final size:48
Alignment explanation
Indices: 48072103--48072286 Score: 165
Period size: 50 Copynumber: 3.7 Consensus size: 48
48072093 TATTTTGTAC
* * * * *
48072103 ATTATTTATTTTAAATTTCTTTTTACATATTATTTATCTTAAACTCTTTT
1 ATTATTTATTTTAAA-TT-GTTTTATATATTATTTATTTTAAAATGTTTT
* * * *
48072153 A-TATGTTATTTTAAAGTGTCTTATATATTATCTATTTTAAATTGCTTTGTAT
1 ATTAT-TTATTTTAAATTGTTTTATATATTATTTATTTTAAAATG--TT-T-T
* *
48072205 ATTATCTATTTTAATTTG-TTTATATATTATTTATTTTAAAATGTTTT
1 ATTATTTATTTTAAATTGTTTTATATATTATTTATTTTAAAATGTTTT
*
48072252 ATGGTATTTACTTTAAATTGTTTTATATATTATTT
1 AT--TATTTATTTTAAATTGTTTTATATATTATTT
48072287 TGTTTTGTTT
Statistics
Matches: 108, Mismatches: 17, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
47 3 0.03
48 21 0.19
49 19 0.18
50 27 0.25
51 23 0.21
52 12 0.11
53 3 0.03
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.60
Consensus pattern (48 bp):
ATTATTTATTTTAAATTGTTTTATATATTATTTATTTTAAAATGTTTT
Found at i:48074152 original size:470 final size:470
Alignment explanation
Indices: 48073272--48074214 Score: 1868
Period size: 470 Copynumber: 2.0 Consensus size: 470
48073262 TCTACCGAAT
48073272 CAACTTCATCGATACATTTCTTCTTATTTCATTTCAATCTTCAATAGTTCCATTGACATTCTAAC
1 CAACTTCATCGATACATTTCTTCTTATTTCATTTCAATCTTCAATAGTTCCATTGACATTCTAAC
48073337 TTTTTTGTTCCATGGTTTATTTACCTTGAGCTGGATTTTATTTTGACAAAACTAGTTCATGCAAA
66 TTTTTTGTTCCATGGTTTATTTACCTTGAGCTGGATTTTATTTTGACAAAACTAGTTCATGCAAA
48073402 TTTGGATTCTTCAATAAACAAATAAATTGCTTCCGATCTCAGTCGAGACGCTGTCATCATCGTTG
131 TTTGGATTCTTCAATAAACAAATAAATTGCTTCCGATCTCAGTCGAGACGCTGTCATCATCGTTG
48073467 TTGCAAATTATGAAGACAAAGCAGCCAAGGCGTTTGAACACCTGAACCTGATGATTGTTTGTACT
196 TTGCAAATTATGAAGACAAAGCAGCCAAGGCGTTTGAACACCTGAACCTGATGATTGTTTGTACT
*
48073532 AGTAAACATTGTGTATGGTATGGATTAATTAATTTCTTATTCCTTGTGATGGTAAATGTTGGTGG
261 AGTAAACATTGTGTATGGTATGGATTAATTAATTTCTTATTCCTTGTGATGGTAAAAGTTGGTGG
48073597 GATTTGATTGTCACCTACAACCTTAACGTCTTCTAGCATAGCATGTTATGGTCTTGCTTGAGATC
326 GATTTGATTGTCACCTACAACCTTAACGTCTTCTAGCATAGCATGTTATGGTCTTGCTTGAGATC
48073662 TGTTTGATGTCATGTGCATGATGTTGGAGTTTCATTTAATTTCTTCACTCTTTGGATAGGTTTTG
391 TGTTTGATGTCATGTGCATGATGTTGGAGTTTCATTTAATTTCTTCACTCTTTGGATAGGTTTTG
48073727 AGATGCTGATTTCCG
456 AGATGCTGATTTCCG
48073742 CAACTTCATCGATACATTTCTTCTTATTTCATTTCAATCTTCAATAGTTCCATTGACATTCTAAC
1 CAACTTCATCGATACATTTCTTCTTATTTCATTTCAATCTTCAATAGTTCCATTGACATTCTAAC
48073807 TTTTTTGTTCCATGGTTTATTTACCTTGAGCTGGATTTTATTTTGACAAAACTAGTTCATGCAAA
66 TTTTTTGTTCCATGGTTTATTTACCTTGAGCTGGATTTTATTTTGACAAAACTAGTTCATGCAAA
48073872 TTTGGATTCTTCAATAAACAAATAAATTGCTTCCGATCTCAGTCGAGACGCTGTCATCATCGTTG
131 TTTGGATTCTTCAATAAACAAATAAATTGCTTCCGATCTCAGTCGAGACGCTGTCATCATCGTTG
48073937 TTGCAAATTATGAAGACAAAGCAGCCAAGGCGTTTGAACACCTGAACCTGATGATTGTTTGTACT
196 TTGCAAATTATGAAGACAAAGCAGCCAAGGCGTTTGAACACCTGAACCTGATGATTGTTTGTACT
*
48074002 AGTAAACATTGTGTATGGTATGGATTAATTAATTTCTTATTCCTTGTGATGTTAAAAGTTGGTGG
261 AGTAAACATTGTGTATGGTATGGATTAATTAATTTCTTATTCCTTGTGATGGTAAAAGTTGGTGG
48074067 GATTTGATTGTCACCTACAACCTTAACGTCTTCTAGCATAGCATGTTATGGTCTTGCTTGAGATC
326 GATTTGATTGTCACCTACAACCTTAACGTCTTCTAGCATAGCATGTTATGGTCTTGCTTGAGATC
48074132 TGTTTGATGTCATGTGCATGATGTTGGAGTTTCATTTAATTTCTTCACTCTTTGGATAGGTTTTG
391 TGTTTGATGTCATGTGCATGATGTTGGAGTTTCATTTAATTTCTTCACTCTTTGGATAGGTTTTG
48074197 AGATGCTGATTTCCG
456 AGATGCTGATTTCCG
48074212 CAA
1 CAA
48074215 TTTTCCTTTT
Statistics
Matches: 471, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
470 471 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.40
Consensus pattern (470 bp):
CAACTTCATCGATACATTTCTTCTTATTTCATTTCAATCTTCAATAGTTCCATTGACATTCTAAC
TTTTTTGTTCCATGGTTTATTTACCTTGAGCTGGATTTTATTTTGACAAAACTAGTTCATGCAAA
TTTGGATTCTTCAATAAACAAATAAATTGCTTCCGATCTCAGTCGAGACGCTGTCATCATCGTTG
TTGCAAATTATGAAGACAAAGCAGCCAAGGCGTTTGAACACCTGAACCTGATGATTGTTTGTACT
AGTAAACATTGTGTATGGTATGGATTAATTAATTTCTTATTCCTTGTGATGGTAAAAGTTGGTGG
GATTTGATTGTCACCTACAACCTTAACGTCTTCTAGCATAGCATGTTATGGTCTTGCTTGAGATC
TGTTTGATGTCATGTGCATGATGTTGGAGTTTCATTTAATTTCTTCACTCTTTGGATAGGTTTTG
AGATGCTGATTTCCG
Found at i:48076550 original size:15 final size:17
Alignment explanation
Indices: 48076519--48076553 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
48076509 CTACACGTGG
48076519 TAATTTTATTTTAGTTT
1 TAATTTTATTTTAGTTT
48076536 TAATTTT-TTTT-GTTT
1 TAATTTTATTTTAGTTT
48076551 TAA
1 TAA
48076554 AATATTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 4 0.22
17 7 0.39
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TAATTTTATTTTAGTTT
Found at i:48089630 original size:22 final size:21
Alignment explanation
Indices: 48089590--48089643 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
48089580 GTGTTTGAGG
* * *
48089590 TCTCGAAACAATTGTTCTTAGA
1 TCTCGAGACAAGTGGTCTT-GA
*
48089612 TCTCGAGACAAGTGGTCTTTA
1 TCTCGAGACAAGTGGTCTTGA
48089633 TCTCGAGACAA
1 TCTCGAGACAA
48089644 AAGAACATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (21 bp):
TCTCGAGACAAGTGGTCTTGA
Found at i:48095076 original size:13 final size:13
Alignment explanation
Indices: 48095058--48095105 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
48095048 TTCTTCCTTC
48095058 TCTTCTCTTCTCT
1 TCTTCTCTTCTCT
* *
48095071 TCTTCTATTTTCT
1 TCTTCTCTTCTCT
* *
48095084 TTTTCTCATTCTTT
1 TCTTCTC-TTCTCT
48095098 TCTTCTCT
1 TCTTCTCT
48095106 AGCCGAAACA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.04, C:0.29, G:0.00, T:0.67
Consensus pattern (13 bp):
TCTTCTCTTCTCT
Found at i:48096569 original size:46 final size:45
Alignment explanation
Indices: 48096516--48096691 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 45
48096506 TATTTGGGCA
48096516 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
** * *
48096562 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATAT-AACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC---ACTTATGGA-T-GCGAAG
*
48096609 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
48096655 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48096692 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
43 1 0.01
44 7 0.06
45 1 0.01
46 65 0.59
47 28 0.25
48 1 0.01
49 7 0.06
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:48096671 original size:93 final size:93
Alignment explanation
Indices: 48096512--48096683 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
48096502 AGGATATTTG
* *
48096512 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
48096577 TTGAGTCCGAGTTCGAGAGATATAACTA
66 TTGAGTCCGAGTTCGAGAGATATAACTA
* *
48096605 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
48096670 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
48096684 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATATAACTA
Found at i:48097579 original size:55 final size:55
Alignment explanation
Indices: 48097508--48097617 Score: 166
Period size: 55 Copynumber: 2.0 Consensus size: 55
48097498 TTTGTGAAAC
* **
48097508 AGGGCCAGAGCGATTTCTGGATCCCCTATTCTGAATTTGGAAATTCACCATAAAT
1 AGGGCCAGAGCAATTTCTGGATCCCCTATTCTGAATTTAAAAATTCACCATAAAT
* * *
48097563 AGGGCCAGAGCAATTTCTGGATCCCCTGTTCTGACTTTAAAAATTCATCATAAAT
1 AGGGCCAGAGCAATTTCTGGATCCCCTATTCTGAATTTAAAAATTCACCATAAAT
48097618 TTTGCAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (55 bp):
AGGGCCAGAGCAATTTCTGGATCCCCTATTCTGAATTTAAAAATTCACCATAAAT
Found at i:48098991 original size:131 final size:130
Alignment explanation
Indices: 48098847--48099239 Score: 466
Period size: 131 Copynumber: 3.0 Consensus size: 130
48098837 AAATCAATTG
* * * * * * *
48098847 ACTCAAATAAAATTATTCATAATCTTGAAATTATTGAACTTAGGTTGCTATCTTGAATTAGTGAA
1 ACTCGAATAAAATTGTTCATGATCTTG-AATTAATGAACTTAGGTTGCAATCTTGAATCAGAGAA
* * * * * **
48098912 CCTTAATAATATCAACCACGATCTTAAATCAACGAGTTGTTCAAAGTAACGATATTAAATTAGCT
65 CCTTAATAATATCAACAACGATATTAAATTAGCGAGATGTTTGAAGTAACGATATTAAATTAGCT
48098977 A
130 A
*
48098978 ACTCGAATAAAATTGTTCATGATTTTGAATCTAATGAACTTAGGTTGCAATCTTGAATCAGAGAA
1 ACTCGAATAAAATTGTTCATGATCTTGAAT-TAATGAACTTAGGTTGCAATCTTGAATCAGAGAA
* * * * * *
48099043 CCTTAATAATATCAA-AAGTGGTATTAAATTAGCGAGATGTTTGCAGTAGCAATATTAAATCAGC
65 CCTTAATAATATCAACAA-CGATATTAAATTAGCGAGATGTTTGAAGTAACGATATTAAATTAGC
48099107 TA
129 TA
* * *
48099109 ACTCGAATAAAATTGGTGATGATCTTGAATTGAATGAACTTAAGTTGCAATCTTGAATCA-ACGA
1 ACTCGAATAAAATTGTTCATGATCTTGAATT-AATGAACTTAGGTTGCAATCTTGAATCAGA-GA
* * * * *
48099173 ACCTTAATAATATCAACTACGATATTAAATTAGCGAGCTGTTTGGAGTAATGATCTTAAATTAGC
64 ACCTTAATAATATCAACAACGATATTAAATTAGCGAGATGTTTGAAGTAACGATATTAAATTAGC
48099238 TA
129 TA
48099240 TCACAAAGAG
Statistics
Matches: 222, Mismatches: 35, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
130 6 0.03
131 215 0.97
132 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (130 bp):
ACTCGAATAAAATTGTTCATGATCTTGAATTAATGAACTTAGGTTGCAATCTTGAATCAGAGAAC
CTTAATAATATCAACAACGATATTAAATTAGCGAGATGTTTGAAGTAACGATATTAAATTAGCTA
Found at i:48102172 original size:42 final size:43
Alignment explanation
Indices: 48102090--48102275 Score: 188
Period size: 42 Copynumber: 4.4 Consensus size: 43
48102080 CAACGTCTCG
* * * * *
48102090 GACATGGTCTTACATGT-AATTCAGTATTGATGCCTCTGTCCCA
1 GACACGGTCTTACACGTAAATTCAATA-CGATGCCTGTGTCCCA
* *
48102133 GACAGGGTCTTATACG-AAA-TCAGATACGATGCC-GATGTCCCA
1 GACACGGTCTTACACGTAAATTCA-ATACGATGCCTG-TGTCCCA
* *
48102175 GACATGGTCTTACACGTAAATTTCAATTCGATGCCTGTGTCCCA
1 GACACGGTCTTACACGTAAA-TTCAATACGATGCCTGTGTCCCA
*
48102219 GA-ACGGTCTT-CACGTAAATTTCAATTCGATGCCTGTGTCCCA
1 GACACGGTCTTACACGTAAA-TTCAATACGATGCCTGTGTCCCA
48102261 GA-ACGGTCTTACACG
1 GACACGGTCTTACACG
48102276 ATAGTTCAGA
Statistics
Matches: 125, Mismatches: 10, Indels: 16
0.83 0.07 0.11
Matches are distributed among these distances:
42 72 0.58
43 31 0.25
44 18 0.14
45 4 0.03
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (43 bp):
GACACGGTCTTACACGTAAATTCAATACGATGCCTGTGTCCCA
Found at i:48102250 original size:86 final size:84
Alignment explanation
Indices: 48102090--48102286 Score: 208
Period size: 85 Copynumber: 2.3 Consensus size: 84
48102080 CAACGTCTCG
* * *
48102090 GACATGGTCTTACATGTAATTCAGTATTGATGCCTCTGTCCCAGACAGGGTCTTATACGAAATCA
1 GACATGGTCTTACACGTAATTCAG-ATTGATGCCTCTGTCCCAGACACGGTCTTACACGAAATCA
48102155 GATACGATGCC-GATGTCCCA
65 GATACGATGCCTG-TGTCCCA
*
48102175 GACATGGTCTTACACGTAAATTTCA-ATTCGATGCCTGTGTCCCAGA-ACGGTCTT-CACGTAAA
1 GACATGGTCTTACACGT-AA-TTCAGATT-GATGCCTCTGTCCCAGACACGGTCTTACACG-AAA
*
48102237 TTTCA-ATTCGATGCCTGTGTCCCA
62 --TCAGATACGATGCCTGTGTCCCA
* *
48102261 GA-ACGGTCTTACACGATAGTTCAGAT
1 GACATGGTCTTACACG-TAATTCAGAT
48102287 CAATACCAAC
Statistics
Matches: 96, Mismatches: 7, Indels: 18
0.79 0.06 0.15
Matches are distributed among these distances:
84 7 0.07
85 44 0.46
86 37 0.39
87 8 0.08
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (84 bp):
GACATGGTCTTACACGTAATTCAGATTGATGCCTCTGTCCCAGACACGGTCTTACACGAAATCAG
ATACGATGCCTGTGTCCCA
Found at i:48104620 original size:48 final size:48
Alignment explanation
Indices: 48104549--48104741 Score: 314
Period size: 48 Copynumber: 4.0 Consensus size: 48
48104539 NNNNNNNNNN
*
48104549 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGT
* **
48104597 ATGAGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATACAT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGT
* * *
48104645 ATGAGATATGTACATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGT
*
48104693 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGT
48104741 A
1 A
48104742 NNNNNNNNNN
Statistics
Matches: 133, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 133 1.00
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGT
Found at i:48106697 original size:27 final size:24
Alignment explanation
Indices: 48106603--48106715 Score: 95
Period size: 27 Copynumber: 4.3 Consensus size: 24
48106593 AACACTCCAG
*
48106603 GAAAGGAACACCTTTGTGGAATAATAT
1 GAAAGGAACA-CTTTGTGG--CAATAT
48106630 GAAAGGAATGCA-TTTGTGGCAATAT
1 GAAAGGAA--CACTTTGTGGCAATAT
*
48106655 GAAAGGAACACCTTGTGGCGTAATATT
1 GAAAGGAACACTTTGTGGC--AATA-T
48106682 GAAA-GAACACTTTTGTGGCAGATTAT
1 GAAAGGAACAC-TTTGTGGCA-A-TAT
48106708 GAAAGGAA
1 GAAAGGAA
48106716 TTCTTTTGTG
Statistics
Matches: 73, Mismatches: 3, Indels: 20
0.76 0.03 0.21
Matches are distributed among these distances:
23 2 0.03
24 7 0.10
25 14 0.19
26 16 0.22
27 32 0.44
29 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.26
Consensus pattern (24 bp):
GAAAGGAACACTTTGTGGCAATAT
Found at i:48106697 original size:51 final size:54
Alignment explanation
Indices: 48106603--48106715 Score: 144
Period size: 51 Copynumber: 2.1 Consensus size: 54
48106593 AACACTCCAG
**
48106603 GAAAGGAACACCTTTGTGGAATAATATGAAAGGAATGCATTTGTGGCA-A-TAT
1 GAAAGGAACACCTTTGTGGAATAATATGAAAGGAACACATTTGTGGCAGATTAT
** *
48106655 GAAAGGAACACC-TTGTGGCGTAATATTGAAA-GAACACTTTTGTGGCAGATTAT
1 GAAAGGAACACCTTTGTGGAATAATA-TGAAAGGAACACATTTGTGGCAGATTAT
48106708 GAAAGGAA
1 GAAAGGAA
48106716 TTCTTTTGTG
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
51 24 0.45
52 18 0.34
53 11 0.21
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.26
Consensus pattern (54 bp):
GAAAGGAACACCTTTGTGGAATAATATGAAAGGAACACATTTGTGGCAGATTAT
Found at i:48113163 original size:21 final size:21
Alignment explanation
Indices: 48113139--48113181 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
48113129 ACTGTCAAGC
48113139 TATCGTTATTGATGTAAGTGA
1 TATCGTTATTGATGTAAGTGA
48113160 TATCGTTATTGATGTAAGTGA
1 TATCGTTATTGATGTAAGTGA
48113181 T
1 T
48113182 TTCAAGTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (21 bp):
TATCGTTATTGATGTAAGTGA
Found at i:48122283 original size:43 final size:44
Alignment explanation
Indices: 48122126--48122284 Score: 159
Period size: 43 Copynumber: 3.7 Consensus size: 44
48122116 GGTGTGATAT
* * *
48122126 CGTGTAAGACCACGTCTGGGACGTTGTCATTG--ATTTGAAATTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTG-AA-TTA
* * *
48122170 CGTGTAAGACCATGTATGGGACATTGGCATC-ATATATGAATT-
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGAATTA
* * *
48122212 TGTGTAAGACCCTGTCTGGGGCAG-TGGCATCGATATTTG-ATTA
1 CGTGTAAGACCATGTCTGGGAC-GTTGGCATCGATATTTGAATTA
*
48122255 CATGTAAGACCATGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACGTTGGCAT
48122285 TGTACGAGTT
Statistics
Matches: 93, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
42 29 0.31
43 32 0.34
44 28 0.30
45 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (44 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGAATTA
Found at i:48131035 original size:13 final size:13
Alignment explanation
Indices: 48131017--48131043 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48131007 AGAGTAATCG
48131017 CACACGGGCGTGT
1 CACACGGGCGTGT
48131030 CACACGGGCGTGT
1 CACACGGGCGTGT
48131043 C
1 C
48131044 CTTGCTGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:48131893 original size:14 final size:14
Alignment explanation
Indices: 48131874--48131912 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
48131864 TAAATTTTTA
48131874 TTTTCTTTTCTAAG
1 TTTTCTTTTCTAAG
48131888 TTTTCTTTTCTAAG
1 TTTTCTTTTCTAAG
48131902 TTTTCTTTTCT
1 TTTTCTTTTCT
48131913 TCGTTCCTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.10, C:0.15, G:0.05, T:0.69
Consensus pattern (14 bp):
TTTTCTTTTCTAAG
Found at i:48152359 original size:25 final size:25
Alignment explanation
Indices: 48152330--48152377 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
48152320 TTATAATATG
* * *
48152330 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
48152355 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
48152378 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:48152503 original size:20 final size:20
Alignment explanation
Indices: 48152414--48152495 Score: 139
Period size: 20 Copynumber: 4.2 Consensus size: 20
48152404 ATTTTGATAA
48152414 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
48152434 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
48152454 AGATGACAT-TATGATATGC
1 ACATGATATGTATGATATGC
48152473 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
48152493 ACA
1 ACA
48152496 CGAGATGTTC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
19 17 0.30
20 40 0.70
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:48152618 original size:47 final size:47
Alignment explanation
Indices: 48152549--48152646 Score: 171
Period size: 47 Copynumber: 2.1 Consensus size: 47
48152539 AGGAAGTGCA
48152549 AAAGGGCTTATGCCCCAGTTATT-AAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTT-TGCCCCAGTTATT
48152596 AAAGGGCTTATGCCCCAGTTATTAAAAAAGGGCTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT-AAAAAGGGCTTTGCCCCAGTTATT
48152644 AAA
1 AAA
48152647 AGAGGCTAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
47 23 0.47
48 16 0.33
49 10 0.20
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCCAGTTATT
Found at i:48152663 original size:25 final size:24
Alignment explanation
Indices: 48152548--48152667 Score: 174
Period size: 24 Copynumber: 5.0 Consensus size: 24
48152538 GAGGAAGTGC
48152548 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
48152572 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
48152596 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
48152619 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
48152644 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
48152668 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 1, Indels: 11
0.88 0.01 0.11
Matches are distributed among these distances:
23 29 0.33
24 30 0.34
25 21 0.24
26 9 0.10
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:48152896 original size:31 final size:31
Alignment explanation
Indices: 48152861--48152924 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
48152851 CGTTTACAGT
48152861 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
48152892 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
48152923 AA
1 AA
48152925 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:48161711 original size:39 final size:40
Alignment explanation
Indices: 48161616--48161877 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
48161606 TTGAATGATG
*
48161616 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
48161654 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
48161695 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
48161734 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
48161773 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
48161812 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
48161851 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
48161878 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:48164765 original size:43 final size:42
Alignment explanation
Indices: 48164699--48164868 Score: 132
Period size: 43 Copynumber: 4.0 Consensus size: 42
48164689 AACTCATACA
* *
48164699 ATGCCAATGTCCTAGAC-GAGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGAAATCAAATAT-G
* * * *
48164742 ATGCTATTGTCCCAGATAGGGTCTTACATGAAATCATATATG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGAAATCAAATATG
* * *
48164784 ATGCCAATGTTCCAGACATGGTCTTACACAT-AAATCTCAAAT-CG
1 ATGCCAATGTCCCAGACAGGGTCTT--ACATGAAA--TCAAATATG
* * * *
48164828 ATTCCAACGTCCCAGAC-GTGGTCTTACACGAAATCACATAT
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGAAATCAAATAT
48164869 CGGAATCCTA
Statistics
Matches: 99, Mismatches: 20, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
41 5 0.05
42 24 0.24
43 39 0.39
44 26 0.26
45 5 0.05
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGAAATCAAATATG
Found at i:48165971 original size:13 final size:13
Alignment explanation
Indices: 48165953--48165977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48165943 ACAAACGATA
48165953 AAATTTTCACATG
1 AAATTTTCACATG
48165966 AAATTTTCACAT
1 AAATTTTCACAT
48165978 ATATCACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (13 bp):
AAATTTTCACATG
Found at i:48174814 original size:16 final size:16
Alignment explanation
Indices: 48174793--48174827 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
48174783 GAATTTGGAC
48174793 CTCGTAGTGACCGTAT
1 CTCGTAGTGACCGTAT
48174809 CTCGTAGTGACCGTAT
1 CTCGTAGTGACCGTAT
48174825 CTC
1 CTC
48174828 ATTCTGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.29, G:0.23, T:0.31
Consensus pattern (16 bp):
CTCGTAGTGACCGTAT
Found at i:48178053 original size:39 final size:40
Alignment explanation
Indices: 48178010--48178225 Score: 291
Period size: 39 Copynumber: 5.5 Consensus size: 40
48178000 CTTCGGAACT
* * ** * *
48178010 TTAAGCCCGGA-TATATTTCCAGCACGTAACCTGCGAACC
1 TTAAGTCCGGATTATAATTCCAGCATATAGCCTGCGGACC
* *
48178049 TTAAGTTCAGATTATAATTCCAGCATATAGCCTGCGGACC
1 TTAAGTCCGGATTATAATTCCAGCATATAGCCTGCGGACC
*
48178089 TTAAGTCCGGA-TATATTTCCAGCATATAGCCTGCGGACC
1 TTAAGTCCGGATTATAATTCCAGCATATAGCCTGCGGACC
* *
48178128 TTAAGTCTGGA-TATAA-TCCAGCATATAGCCTGTGGA-C
1 TTAAGTCCGGATTATAATTCCAGCATATAGCCTGCGGACC
48178165 TTAAGTCCGGATTATAATT-CAGCATATAGCCTGCGGACC
1 TTAAGTCCGGATTATAATTCCAGCATATAGCCTGCGGACC
48178204 TTAAGTCCGGATTATAATTCCA
1 TTAAGTCCGGATTATAATTCCA
48178226 AATATCATCC
Statistics
Matches: 156, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
37 11 0.07
38 41 0.26
39 70 0.45
40 34 0.22
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (40 bp):
TTAAGTCCGGATTATAATTCCAGCATATAGCCTGCGGACC
Found at i:48178191 original size:76 final size:78
Alignment explanation
Indices: 48178010--48178221 Score: 279
Period size: 76 Copynumber: 2.7 Consensus size: 78
48178000 CTTCGGAACT
* * ** * * *
48178010 TTAAGCCCGGATATATTTCCAGCACGTAACCTGCGAACCTTAAGT-TCAGATTATAATTCCAGCA
1 TTAAGTCCGGATATAATTCCAGCATATAGCCTGCGGACCTTAAGTCT-GGATTATAA-TCCAGCA
48178074 TATAGCCTGCGGACC
64 TATAGCCTGCGGACC
*
48178089 TTAAGTCCGGATATATTTCCAGCATATAGCCTGCGGACCTTAAGTCTGGA-TATAATCCAGCATA
1 TTAAGTCCGGATATAATTCCAGCATATAGCCTGCGGACCTTAAGTCTGGATTATAATCCAGCATA
*
48178153 TAGCCTGTGGA-C
66 TAGCCTGCGGACC
*
48178165 TTAAGTCCGGATTATAATT-CAGCATATAGCCTGCGGACCTTAAGTCCGGATTATAAT
1 TTAAGTCCGGA-TATAATTCCAGCATATAGCCTGCGGACCTTAAGTCTGGATTATAAT
48178222 TCCAAATATC
Statistics
Matches: 121, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
76 42 0.35
77 31 0.26
78 5 0.04
79 42 0.35
80 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (78 bp):
TTAAGTCCGGATATAATTCCAGCATATAGCCTGCGGACCTTAAGTCTGGATTATAATCCAGCATA
TAGCCTGCGGACC
Found at i:48182683 original size:41 final size:43
Alignment explanation
Indices: 48182576--48182713 Score: 149
Period size: 43 Copynumber: 3.2 Consensus size: 43
48182566 ATATCGTACA
**
48182576 ATGCCAACT-TCCCAGATGTGGTCTTACATGCAATCACATATCG
1 ATGCCAA-TGTCCCAGACATGGTCTTACATGCAATCACATATCG
* * * * *
48182619 ATGCCACTATCCCAGACAGGGTCTTACACG-AATCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACATGCAATCACATATCG
*
48182660 ATGCCAATGTCCC-GAACATGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAG-ACATGGTCTTACATGCAATCACATATCG
48182703 ATGCCCAATGT
1 ATG-CCAATGT
48182714 TCTAGACGTG
Statistics
Matches: 79, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
40 1 0.01
41 26 0.33
42 17 0.22
43 28 0.35
44 7 0.09
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGCAATCACATATCG
Found at i:48185866 original size:21 final size:21
Alignment explanation
Indices: 48185824--48185866 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
48185814 TATACCCACA
* *
48185824 TGGTGTGTTGGTTCGTACGGG
1 TGGTGTATTGGTTCGGACGGG
48185845 TGGTGTATTGGTT-GGACTGGG
1 TGGTGTATTGGTTCGGAC-GGG
48185866 T
1 T
48185867 TGGATATCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.07, C:0.07, G:0.47, T:0.40
Consensus pattern (21 bp):
TGGTGTATTGGTTCGGACGGG
Found at i:48185930 original size:27 final size:27
Alignment explanation
Indices: 48185899--48185960 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
48185889 CATCTGATAT
* *
48185899 TGATTCTG-TATTGGGCTTAGGCCCACC
1 TGATTCTGTTAATGGGCTAAGG-CCACC
48185926 TGATTCTGTTAATGGGCTAAGGCCACC
1 TGATTCTGTTAATGGGCTAAGGCCACC
48185953 TGATTCTG
1 TGATTCTG
48185961 GTTCAATGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 21 0.66
28 11 0.34
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.34
Consensus pattern (27 bp):
TGATTCTGTTAATGGGCTAAGGCCACC
Found at i:48187515 original size:16 final size:16
Alignment explanation
Indices: 48187494--48187528 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
48187484 TTTCTAAATA
48187494 CGAGGCAGAATTTTTG
1 CGAGGCAGAATTTTTG
48187510 CGAGGCAGAATTTTTG
1 CGAGGCAGAATTTTTG
48187526 CGA
1 CGA
48187529 CTTAGCCGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (16 bp):
CGAGGCAGAATTTTTG
Found at i:48193905 original size:15 final size:14
Alignment explanation
Indices: 48193890--48193919 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
48193880 GAAAAATATT
48193890 TTTC-GGAAAATGA
1 TTTCTGGAAAATGA
48193903 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
48193917 TTT
1 TTT
48193920 ACTTTTCGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (14 bp):
TTTCTGGAAAATGA
Found at i:48203371 original size:31 final size:31
Alignment explanation
Indices: 48203333--48203394 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
48203323 TATACATAAA
48203333 ATAACTTTCTTTTTACTCATCAATACCTATC
1 ATAACTTTCTTTTTACTCATCAATACCTATC
*
48203364 ATAACTTTCTTTTTACTGATCAATACCTATC
1 ATAACTTTCTTTTTACTCATCAATACCTATC
48203395 TCACCTTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.24, G:0.02, T:0.45
Consensus pattern (31 bp):
ATAACTTTCTTTTTACTCATCAATACCTATC
Found at i:48207218 original size:14 final size:15
Alignment explanation
Indices: 48207199--48207228 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
48207189 CCTTGAACAA
48207199 ATTTTATTAAA-ATC
1 ATTTTATTAAACATC
48207213 ATTTTATTAAACATC
1 ATTTTATTAAACATC
48207228 A
1 A
48207229 ATAAAACACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTTATTAAACATC
Found at i:48217509 original size:21 final size:23
Alignment explanation
Indices: 48217483--48217528 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
48217473 ACCCACGCCC
*
48217483 CACGCCCGTGC-TCGCCAT-CAA
1 CACGCCCGTGCGCCGCCATACAA
48217504 CACGCCCGTGCGCCGCCATACAA
1 CACGCCCGTGCGCCGCCATACAA
48217527 CA
1 CA
48217529 GTTTTTGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.50
22 6 0.27
23 5 0.23
ACGTcount: A:0.22, C:0.48, G:0.20, T:0.11
Consensus pattern (23 bp):
CACGCCCGTGCGCCGCCATACAA
Found at i:48219054 original size:6 final size:6
Alignment explanation
Indices: 48219036--48219080 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
48219026 TCCTCTTATC
* * *
48219036 TTTTTA TTGTTA TTTTTA TTTTTA TTTTTC TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
48219081 CAATTTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:48219087 original size:30 final size:31
Alignment explanation
Indices: 48219034--48219100 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
48219024 AATCCTCTTA
**
48219034 TCTTTTTATTGTTATTTTTA-TTT-TTATTTT
1 TCTTTTTATTGTTATTTCAATTTTATTA-TTT
48219064 TCTTTTTATT-TTCATTTCAATTTTATTATTT
1 TCTTTTTATTGTT-ATTTCAATTTTATTATTT
48219095 TCTTTT
1 TCTTTT
48219101 GAAAGACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 2 0.06
30 15 0.47
31 12 0.38
32 3 0.09
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.76
Consensus pattern (31 bp):
TCTTTTTATTGTTATTTCAATTTTATTATTT
Found at i:48222014 original size:13 final size:13
Alignment explanation
Indices: 48221992--48222024 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
48221982 TTGCTTTAGT
48221992 TTAG-TTAGTTAA
1 TTAGTTTAGTTAA
48222004 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
*
48222017 TTACTTTA
1 TTAGTTTA
48222025 ATAAACAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.30, C:0.03, G:0.12, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:48230938 original size:69 final size:69
Alignment explanation
Indices: 48230827--48230964 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
48230817 GTTCATTCCC
48230827 GAATCACGTACCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCC
1 GAATCACGTACCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCC
48230892 CGGT
66 CGGT
48230896 GAATCACGTACCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCC
1 GAATCACGTACCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCC
48230961 CGGT
66 CGGT
48230965 TATAGTAACT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (69 bp):
GAATCACGTACCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCC
CGGT
Found at i:48239785 original size:6 final size:6
Alignment explanation
Indices: 48239760--48239857 Score: 109
Period size: 6 Copynumber: 17.0 Consensus size: 6
48239750 TGACTCCTCC
* * *
48239760 TATTTT T-TATT TATTCT TATTTT TA-TTT TA-TTT TA-TTT TA-TTC
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
48239803 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TA-TTT TATTATTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TA-T-TTT
48239852 TATTTT
1 TATTTT
48239858 GAAAGATATA
Statistics
Matches: 81, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
5 28 0.35
6 47 0.58
7 1 0.01
8 5 0.06
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (6 bp):
TATTTT
Found at i:48244443 original size:14 final size:15
Alignment explanation
Indices: 48244426--48244454 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48244416 TTACGAAAAT
48244426 TTCACACAT-ATAAA
1 TTCACACATAATAAA
48244440 TTCACACATAATAAA
1 TTCACACATAATAAA
48244455 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:48251290 original size:6 final size:6
Alignment explanation
Indices: 48251281--48251358 Score: 113
Period size: 6 Copynumber: 12.8 Consensus size: 6
48251271 TATTAGAACT
48251281 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
* *
48251329 AGTATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
48251359 GGGAATGCAA
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
5 2 0.03
6 59 0.91
7 3 0.05
8 1 0.02
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:48251865 original size:27 final size:27
Alignment explanation
Indices: 48251760--48251873 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 27
48251750 AGGGGCAAAA
* * ** *
48251760 TGGTAATTTTACCCCACAAAGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
48251787 CGGTAATTCCACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
48251814 CGCTAATTCTACCC--CAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
48251839 TGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
48251866 TGGTAATT
1 TGGTAATT
48251874 TCACAAATTA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
25 23 0.31
27 51 0.69
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:48251913 original size:54 final size:53
Alignment explanation
Indices: 48251829--48251982 Score: 157
Period size: 54 Copynumber: 2.9 Consensus size: 53
48251819 ATTCTACCCC
* * **
48251829 AGGGGTATTTTGGTAATTCTACCCTA-CAGGGGTATTTTGGTAATTTCACAAATT
1 AGGGGTATTTTGCTAATTTTA-CAAACCAGGGGTATTTTGGTAATTTCACAAA-T
* **
48251883 AGGGGTATTTTGCTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATTAAT
1 AGGGGTATTTTGCTAATTTTACAAACCAGGGGTATTTTGGTAATTTCACAAAT
* ** * **
48251936 CGAGGGTATTTTGCTAATTTTGTAAACCAAGGGTATTTCAGTAATTT
1 AG-GGGTATTTTGCTAATTTTACAAACCAGGGGTATTTTGGTAATTT
48251983 TGTAAATCGA
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 4 0.05
54 81 0.95
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.41
Consensus pattern (53 bp):
AGGGGTATTTTGCTAATTTTACAAACCAGGGGTATTTTGGTAATTTCACAAAT
Found at i:48251929 original size:27 final size:27
Alignment explanation
Indices: 48251827--48251983 Score: 138
Period size: 27 Copynumber: 5.8 Consensus size: 27
48251817 TAATTCTACC
* **
48251827 CCAGGGGTATTTTGGTAATTCTACCCTA
1 CCAGGGGTATTTTGGTAATTTTA-CAAA
*
48251855 -CAGGGGTATTTTGGTAATTTCACAAA
1 CCAGGGGTATTTTGGTAATTTTACAAA
** *
48251881 TTAGGGGTATTTTGCTAATTTTACAAA
1 CCAGGGGTATTTTGGTAATTTTACAAA
**
48251908 CCAGGGGTATTTTGGTAATTTTATTAA
1 CCAGGGGTATTTTGGTAATTTTACAAA
* * **
48251935 TC-GAGGGTATTTTGCTAATTTTGTAAA
1 CCAG-GGGTATTTTGGTAATTTTACAAA
* **
48251962 CCAAGGGTATTTCAGTAATTTT
1 CCAGGGGTATTTTGGTAATTTT
48251984 GTAAATCGAG
Statistics
Matches: 105, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
26 3 0.03
27 102 0.97
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (27 bp):
CCAGGGGTATTTTGGTAATTTTACAAA
Found at i:48251983 original size:54 final size:54
Alignment explanation
Indices: 48251885--48252015 Score: 163
Period size: 54 Copynumber: 2.4 Consensus size: 54
48251875 CACAAATTAG
** * ** *
48251885 GGGTATTTTGCTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATTAATCGA
1 GGGTATTTTGCTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTATAAATCGA
*
48251939 GGGTATTTTGCTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCGA
1 GGGTATTTTGCTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTATAAATCGA
*** *
48251993 GGGTAAAATGATAATTTTGTAAA
1 GGGTATTTTGCTAATTTTGTAAA
48252016 TTGAGGGTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGCTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTATAAATCGA
Found at i:48251984 original size:27 final size:26
Alignment explanation
Indices: 48251885--48251997 Score: 82
Period size: 27 Copynumber: 4.2 Consensus size: 26
48251875 CACAAATTAG
* * *
48251885 GGGTATTTTGCTAATTTTACAAACCAG
1 GGGTATTTAG-TAATTTTATAAACCAA
* * * *
48251912 GGGTATTTTGGTAATTTTATTAATCGA
1 GGGTA-TTTAGTAATTTTATAAACCAA
* *
48251939 GGGTATTTTGCTAATTTTGTAAACCAA
1 GGGTATTTAG-TAATTTTATAAACCAA
* * *
48251966 GGGTATTTCAGTAATTTTGTAAATCGA
1 GGGTATTT-AGTAATTTTATAAACCAA
48251993 GGGTA
1 GGGTA
48251998 AAATGATAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
26 4 0.06
27 60 0.87
28 5 0.07
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (26 bp):
GGGTATTTAGTAATTTTATAAACCAA
Found at i:48252007 original size:27 final size:27
Alignment explanation
Indices: 48251950--48252089 Score: 147
Period size: 27 Copynumber: 5.2 Consensus size: 27
48251940 GGTATTTTGC
* ** *
48251950 TAATTTTGTAAACCAAGGGT-ATTTCAG
1 TAATTTTGTAAATCAAGGGTAAAAT-GG
* *
48251977 TAATTTTGTAAATCGAGGGTAAAATGA
1 TAATTTTGTAAATCAAGGGTAAAATGG
**
48252004 TAATTTTGTAAATTGAGGGTAAAATGG
1 TAATTTTGTAAATCAAGGGTAAAATGG
* * *
48252031 TAATTTCGTAAATCAAAGGTAAAACGG
1 TAATTTTGTAAATCAAGGGTAAAATGG
* *
48252058 TAATTTTATAAATCAAGAGTAAAATGG
1 TAATTTTGTAAATCAAGGGTAAAATGG
48252085 TAATT
1 TAATT
48252090 CTATCTTATT
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
27 92 0.98
28 2 0.02
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.34
Consensus pattern (27 bp):
TAATTTTGTAAATCAAGGGTAAAATGG
Found at i:48252126 original size:27 final size:27
Alignment explanation
Indices: 48252096--48252190 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 27
48252086 AATTCTATCT
*
48252096 TATTTTGGTAATTTTACAAATCGAGGA
1 TATTTTGGTAATTTTACAAATCGAGGG
* * *
48252123 TATTTGGGTAATTTTATAAATCGGGGG
1 TATTTTGGTAATTTTACAAATCGAGGG
* *
48252150 TACTTTGGTAATTTTACAAGTCGAGGG
1 TATTTTGGTAATTTTACAAATCGAGGG
**
48252177 TATTTCAGTAATTT
1 TATTTTGGTAATTT
48252191 GGTAAACTAA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.42
Consensus pattern (27 bp):
TATTTTGGTAATTTTACAAATCGAGGG
Found at i:48275296 original size:29 final size:29
Alignment explanation
Indices: 48275233--48275300 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
48275223 TAATCACCCA
* *
48275233 CGCACACTCAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTACCATGCACTTTAAACT
* **
48275262 CACACACTTAGTACCATGCA-TTTCAAGTT
1 CGCACACTTAGTACCATGCACTTT-AAACT
48275291 CGCACACTTA
1 CGCACACTTA
48275301 CCTTTTTCCG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTACCATGCACTTTAAACT
Found at i:48275442 original size:29 final size:30
Alignment explanation
Indices: 48275403--48275481 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
48275393 CTTAATAATC
48275403 AACCGCGCACACTTAGTGCCATGTAC-TGTA
1 AACC-CGCACACTTAGTGCCATGTACATGTA
* *
48275433 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATGTA
48275462 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
48275482 ATCTCATGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 32 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.24
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATGTA
Found at i:48278479 original size:45 final size:45
Alignment explanation
Indices: 48278383--48278645 Score: 332
Period size: 45 Copynumber: 5.8 Consensus size: 45
48278373 TCATTTTTCG
* ** * * ** * *
48278383 TCGTGTTGCCATAGTGTCTTTCAGCCATGGTCTTATTCTTTTGAT
1 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCAATAGAA
* *
48278428 TGGTGATTCCA-AAGCGTCTTTCAG-CTATGGTCTTACTCAATAGAA
1 TCGTGATGCCATAA-CGTCTTTCAGTC-ATGGTCTTACTCAATAGAA
* *
48278473 TCGTGATGCCATAACGTCTTTTAGTTATGGTCTTACTCAATAGAA
1 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCAATAGAA
* *
48278518 TTGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTTAATAGAA
1 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCAATAGAA
* **
48278563 TCGTGATGCCATAACATCTTTCAGTCATGGTCTTACTTGATAGAA
1 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCAATAGAA
48278608 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTC
1 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTC
48278646 GTTTCTGGTA
Statistics
Matches: 191, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
44 2 0.01
45 187 0.98
46 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (45 bp):
TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCAATAGAA
Found at i:48280443 original size:24 final size:24
Alignment explanation
Indices: 48280415--48280463 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
48280405 TCAAACAATA
48280415 TCATTTAAATATAAATGTAATAGT
1 TCATTTAAATATAAATGTAATAGT
48280439 TCATTTAAATATAAATGTAATAGT
1 TCATTTAAATATAAATGTAATAGT
48280463 T
1 T
48280464 GTAACTATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (24 bp):
TCATTTAAATATAAATGTAATAGT
Found at i:48285692 original size:45 final size:45
Alignment explanation
Indices: 48285643--48285810 Score: 239
Period size: 45 Copynumber: 3.7 Consensus size: 45
48285633 GTTTGATTGG
* *
48285643 TGATGTCATAGCATCTTTCAAAT-ATGGTCTTACTCGATAGAATCA
1 TGATGTCATAACATCTTTC-AGTCATGGTCTTACTCGATAGAATCA
* * * *
48285688 TGATGTCATAACGTCTTTCAGTCATGGTTTTACCCGATAGAATCG
1 TGATGTCATAACATCTTTCAGTCATGGTCTTACTCGATAGAATCA
*
48285733 TGATGCCATAACATCTTTCAGTCATGGTCTTACTCGATAGAATCA
1 TGATGTCATAACATCTTTCAGTCATGGTCTTACTCGATAGAATCA
* *
48285778 TAATGTCATAACGTCTTTCAGTCATGGTCTTAC
1 TGATGTCATAACATCTTTCAGTCATGGTCTTAC
48285811 CCATTTCTGG
Statistics
Matches: 108, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 2 0.02
45 106 0.98
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (45 bp):
TGATGTCATAACATCTTTCAGTCATGGTCTTACTCGATAGAATCA
Found at i:48285854 original size:90 final size:90
Alignment explanation
Indices: 48285642--48285812 Score: 281
Period size: 90 Copynumber: 1.9 Consensus size: 90
48285632 CGTTTGATTG
* * *
48285642 GTGATGTCATAGCATCTTTCAAATATGGTCTTACTCGATAGAATCATGATGTCATAACGTCTTTC
1 GTGATGCCATAACATCTTTCAAATATGGTCTTACTCGATAGAATCATAATGTCATAACGTCTTTC
*
48285707 AGTCATGGTTTTACCCGATAGAATC
66 AGTCATGGTCTTACCCGATAGAATC
*
48285732 GTGATGCCATAACATCTTTC-AGTCATGGTCTTACTCGATAGAATCATAATGTCATAACGTCTTT
1 GTGATGCCATAACATCTTTCAAAT-ATGGTCTTACTCGATAGAATCATAATGTCATAACGTCTTT
48285796 CAGTCATGGTCTTACCC
65 CAGTCATGGTCTTACCC
48285813 ATTTCTGGTA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
89 2 0.03
90 73 0.97
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (90 bp):
GTGATGCCATAACATCTTTCAAATATGGTCTTACTCGATAGAATCATAATGTCATAACGTCTTTC
AGTCATGGTCTTACCCGATAGAATC
Found at i:48290994 original size:23 final size:23
Alignment explanation
Indices: 48290965--48291012 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
48290955 TTTAAAATTT
*
48290965 AAAATTTCTTTAGA-TTTTTTTAA
1 AAAATTT-TATAGACTTTTTTTAA
*
48290988 AAAATTTTATATACTTTTTTTAA
1 AAAATTTTATAGACTTTTTTTAA
48291011 AA
1 AA
48291013 TATAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (23 bp):
AAAATTTTATAGACTTTTTTTAA
Found at i:48291051 original size:19 final size:18
Alignment explanation
Indices: 48291013--48291051 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
48291003 TTTTTTAAAA
**
48291013 TATAAATTTTTGAATTTT
1 TATAAATTTTTGAAAATT
48291031 TATAAATATTTTGAAAATT
1 TATAAAT-TTTTGAAAATT
48291050 TA
1 TA
48291052 AAAGTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
TATAAATTTTTGAAAATT
Found at i:48296012 original size:53 final size:53
Alignment explanation
Indices: 48295921--48296092 Score: 176
Period size: 53 Copynumber: 3.3 Consensus size: 53
48295911 NNNNNNNNNN
* * * * *
48295921 CATGGCATTGATAAGTTACTATAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGG
1 CATGGCAATGGTAAGTT-C-ATAAGGC-AAGGATACCATGTAAGACCATGACAAGA
* * *
48295976 CATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATGTCAAGA
1 CATGGCAATGGTAAGTTCATAAGGCAAGGATACCATGTAAGACCATGACAAGA
* *
48296029 CATGGCAATGGTAAGTT--TCAA---AAGGATACCACGTAAGACCATGACAAGT
1 CATGGCAATGGTAAGTTCAT-AAGGCAAGGATACCATGTAAGACCATGACAAGA
48296078 CATGGCAATGGTAAG
1 CATGGCAATGGTAAG
48296093 GTACCCGTGT
Statistics
Matches: 105, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
49 40 0.38
51 1 0.01
52 6 0.06
53 42 0.40
54 1 0.01
55 15 0.14
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (53 bp):
CATGGCAATGGTAAGTTCATAAGGCAAGGATACCATGTAAGACCATGACAAGA
Found at i:48296305 original size:16 final size:16
Alignment explanation
Indices: 48296284--48296314 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48296274 ATAAATTTGA
48296284 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
48296300 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
48296315 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:48299708 original size:46 final size:46
Alignment explanation
Indices: 48299658--48299832 Score: 314
Period size: 46 Copynumber: 3.8 Consensus size: 46
48299648 TGGTTGAGCA
48299658 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
48299704 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
48299750 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48299796 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48299833 GCGGGTTACA
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:48307287 original size:46 final size:46
Alignment explanation
Indices: 48307237--48307409 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
48307227 TGGTTGAGCA
*
48307237 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
48307283 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
48307330 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
48307376 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
48307410 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:48307393 original size:93 final size:93
Alignment explanation
Indices: 48307234--48307404 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
48307224 GGATGGTTGA
* *
48307234 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
48307299 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
48307327 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
48307392 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
48307405 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:48311168 original size:134 final size:134
Alignment explanation
Indices: 48310992--48311263 Score: 499
Period size: 134 Copynumber: 2.0 Consensus size: 134
48310982 GAGGCAAAGA
*
48310992 AGATGTTTAGAGTTAATTAAAGATTATGAGCTAGTGATCGATTATCACCCAGGTAAGGCAAACGT
1 AGATGTTTAGAGTTAATTAAAGATTATGAGCTAGTGATCGATTATCACACAGGTAAGGCAAACGT
*
48311057 TGTTGCTGATGCTTTGAGTAGGAAATCTTTGTTTGCATTAAGAGCTTTGAACACTAGTCTAGCCT
66 TGTTGCTGATGCTTTGAGTAGGAAATCTTTATTTGCATTAAGAGCTTTGAACACTAGTCTAGCCT
48311122 TATC
131 TATC
* *
48311126 AGATGTTTAGAGTTGATTAAAGATTATGAGCTAGTGATCGATTATCACACAGGTAAGGTAAACGT
1 AGATGTTTAGAGTTAATTAAAGATTATGAGCTAGTGATCGATTATCACACAGGTAAGGCAAACGT
*
48311191 TGTTGCTGATGCTTTGAGTAGGAAATCTTTATTTGTATTAAGAGCTTTGAACACTAGTCTAGCCT
66 TGTTGCTGATGCTTTGAGTAGGAAATCTTTATTTGCATTAAGAGCTTTGAACACTAGTCTAGCCT
48311256 TATC
131 TATC
48311260 AGAT
1 AGAT
48311264 AATGGTTTTA
Statistics
Matches: 133, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 133 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (134 bp):
AGATGTTTAGAGTTAATTAAAGATTATGAGCTAGTGATCGATTATCACACAGGTAAGGCAAACGT
TGTTGCTGATGCTTTGAGTAGGAAATCTTTATTTGCATTAAGAGCTTTGAACACTAGTCTAGCCT
TATC
Found at i:48313884 original size:55 final size:52
Alignment explanation
Indices: 48313761--48314016 Score: 204
Period size: 55 Copynumber: 4.8 Consensus size: 52
48313751 CATTAGGGTT
* *
48313761 CAAGGATACCATGTAAGACCATG-CTAAGGTATGGAAATTGGTAAGGTTTC-TAAGG
1 CAAGGATACCATGTAAGACCATGTC-AA-GCATGG-CATTGGTAA-G-TTCATAAGG
* * * * *
48313816 TAAGGAAATCATGTAAGACCATGTCAACGCATGGCATTGATAAGTTACTATAAGT
1 CAAGGATACCATGTAAGACCATGTCAA-GCATGGCATTGGTAAGTT-C-ATAAGG
* * *
48313871 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGG
1 C-AAGGATACCATGTAAGACCATGTCAA-GCATGGCATTGGTAAGTTCATAAGG
* *
48313924 CAAGGATACCATGTAAGGCCATGTCAAGACATGGCAATGGTAAGTT--TCAA--
1 CAAGGATACCATGTAAGACCATGTCAAG-CATGGCATTGGTAAGTTCAT-AAGG
* * *
48313974 -AAGGATAGCATGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 CAAGGATACCATGTAAGACCATGTCAAG-CATGGCATTGGTAAG
48314017 GTACCCGTGT
Statistics
Matches: 167, Mismatches: 26, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
49 39 0.23
51 1 0.01
52 9 0.05
53 41 0.25
54 8 0.05
55 64 0.38
56 5 0.03
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (52 bp):
CAAGGATACCATGTAAGACCATGTCAAGCATGGCATTGGTAAGTTCATAAGG
Found at i:48313968 original size:108 final size:110
Alignment explanation
Indices: 48313769--48313969 Score: 266
Period size: 108 Copynumber: 1.8 Consensus size: 110
48313759 TTCAAGGATA
* * * *
48313769 CCATGTAAGACCATGCTAAGGTATGGAAATTGGTAAGGTTTCTAAGGTAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
48313834 CCATGTCAACGCATGGCATTGATAAGTTACTATAAGTCAAAGGTC
66 CCATGTCAACGCATGGCAATGATAAGTTACTATAAGTCAAAGGTC
* * *
48313879 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* *
48313941 GCCATGTCAA-GACATGGCAATGGTAAGTT
65 ACCATGTCAACG-CATGGCAATGATAAGTT
48313970 TCAAAAGGAT
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
107 4 0.05
108 44 0.56
109 7 0.09
110 24 0.30
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAACGCATGGCAATGATAAGTTACTATAAGTCAAAGGTC
Found at i:48314229 original size:16 final size:16
Alignment explanation
Indices: 48314208--48314238 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48314198 ATAAATTTGA
48314208 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
48314224 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
48314239 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:48318000 original size:44 final size:44
Alignment explanation
Indices: 48317932--48318017 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
48317922 ATTATATGTA
*
48317932 TCGCATCCATTATAAACTCAGACCAACTCAACGAGCTCGGATGC
1 TCGCATCCATAATAAACTCAGACCAACTCAACGAGCTCGGATGC
* *
48317976 TCGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGAT
1 TCGCATCCATAATAAACTCAGACCAACTCAACGAGCTCGGAT
48318018 ACCTCATACA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.20
Consensus pattern (44 bp):
TCGCATCCATAATAAACTCAGACCAACTCAACGAGCTCGGATGC
Found at i:48325508 original size:44 final size:43
Alignment explanation
Indices: 48325338--48325603 Score: 138
Period size: 47 Copynumber: 5.8 Consensus size: 43
48325328 TGGGGTTATG
* * *
48325338 TGAGAGCCAGTATGAGACCATGTCTGGGACATGGCATCGACATTGAGA
1 TGAGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACA---AGA
** * * * * **
48325386 CAAGGGCTAGTGTAAGACGTGTCTGGGACATGCATCAGCTGCATCA
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATC-G--ACAAGA
* * * * * *
48325432 TGA-TAACCCGTGTAAGACCACGTTTGGGACATGGCATCGACGAGG
1 TGAGT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACAAGA
* **
48325477 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGTCTCGA
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATC-GACAAGA
* * * *
48325521 TGATGTTAGCCAGTGTAAGACGTGTCTGGGACATCCATCGGCTAAGT
1 TGA-G-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGAC-AAGA
** *
48325568 TTTGTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATC
48325604 AGCACGTGTA
Statistics
Matches: 163, Mismatches: 43, Indels: 28
0.70 0.18 0.12
Matches are distributed among these distances:
43 5 0.03
44 46 0.28
45 16 0.10
46 21 0.13
47 57 0.35
48 16 0.10
49 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (43 bp):
TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGACAAGA
Found at i:48325510 original size:91 final size:90
Alignment explanation
Indices: 48325394--48325606 Score: 232
Period size: 91 Copynumber: 2.3 Consensus size: 90
48325384 GACAAGGGCT
* * *
48325394 AGTGTAAGACGTGTCTGGGACATGCATCAGCT-GCATCATGATAACCCGTGTAAGACCACGTTTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTCG-ATCATGATAACCAGTGTAAGA-CACGTCTG
* *
48325458 GGACATGGCATCGAC-GAGGTGAGTGCC
64 GGACAT-CCATCGACTAAGGTGAGTGCC
* * * * **
48325485 AGTGTAAGACATGTCTGGGACATGCATCGGTCTCGATGATGTTAGCCAGTGTAAGACGTGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CTCGATCATGATAACCAGTGTAAGACACGTCTGG
* * ** *
48325550 GACATCCATCGGCTAAGTTTTGTGCT
65 GACATCCATCGACTAAGGTGAGTGCC
48325576 AGTGTAAGACATGTCTGGGACATGCATCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
48325607 ACGTGTACAC
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
90 7 0.07
91 75 0.74
92 19 0.19
93 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (90 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTCGATCATGATAACCAGTGTAAGACACGTCTGGG
ACATCCATCGACTAAGGTGAGTGCC
Found at i:48325537 original size:47 final size:44
Alignment explanation
Indices: 48325482--48325603 Score: 147
Period size: 47 Copynumber: 2.7 Consensus size: 44
48325472 CGAGGTGAGT
*
48325482 GCCAGTGTAAGACATGTCTGGGACATGCATCGGTCTCGATGATGTT-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CT--AAG-TGTTGA
* * * *
48325529 GCCAGTGTAAGACGTGTCTGGGACATCCATCGGCTAAGTTTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGTGTTGA
*
48325573 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
48325604 AGCACGTGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
43 3 0.05
44 30 0.45
46 2 0.03
47 31 0.47
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGTGTTGA
Found at i:48332325 original size:44 final size:46
Alignment explanation
Indices: 48332123--48332340 Score: 160
Period size: 47 Copynumber: 4.7 Consensus size: 46
48332113 TAAAACGAGG
* * * * ** *
48332123 GCCAGTGTAAGACATGTCAGGAACATGCATCAGCCGCATCATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGGCTCAAGATGTTA
* ** *
48332169 GCCCGTGTAAGACCGCGTCTAGGACATGGCATC-GG--CATAGA-GTTGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGGCTCA-AGATGTT-A
* * *
48332215 GTGCCAGTGTAAGACATGTTTGGGACATGCATCAGTCTCGATGATGTTA
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCAGGCTC-AAGATGTTA
* * * *
48332264 GCCAGTGTAAGAAATGTCTGGGACATGCATC-GGCT-AAGTTTTTT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGGCTCAAGATGTTA
*
48332308 GCTAGTGTAAGACATGTCTGGGACATGCATCAG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG
48332341 CACGTATACA
Statistics
Matches: 134, Mismatches: 26, Indels: 25
0.72 0.14 0.14
Matches are distributed among these distances:
44 34 0.25
45 5 0.04
46 21 0.16
47 50 0.37
48 16 0.12
49 4 0.03
50 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGGCTCAAGATGTTA
Found at i:48332330 original size:91 final size:94
Alignment explanation
Indices: 48332123--48332392 Score: 262
Period size: 94 Copynumber: 2.9 Consensus size: 94
48332113 TAAAACGAGG
* * * **
48332123 GCCAGTGTAAGACATGTCAGGAACATGCATCAGCCGCATCATGATAGCCCGTGTAAGACCGCGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCGCATCATGATAGCCAGTGTAAGACAACGTC
48332188 TAGGACATGGCATCGGCATAGAGTTGAGT
66 TAGGACATGGCATCGGCATAGAGTTGAGT
* * * *
48332217 GCCAGTGTAAGACATGTTTGGGACATGCATCAGTCTCG-ATGATGTTAGCCAGTGTAAGA-AATG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG-C-CGCATCATGATAGCCAGTGTAAGACAACG
* ***
48332280 TCTGGGACAT-GCATCGGC-TA-AGTTTTTT
64 TCTAGGACATGGCATCGGCATAGAGTTGAGT
* * * * * * * *
48332308 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATACACGAAAGCTAGTGTATGACCATG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC-CGCAT-CATGATAGCCAGTGTAAGACAACG
* *
48332373 TCTGGGACATGGCAGCGGCA
64 TCTAGGACATGGCATCGGCA
48332393 ACTTAACCCA
Statistics
Matches: 145, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
90 3 0.02
91 38 0.26
92 15 0.10
93 21 0.14
94 47 0.32
95 19 0.13
96 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCGCATCATGATAGCCAGTGTAAGACAACGTC
TAGGACATGGCATCGGCATAGAGTTGAGT
Found at i:48333230 original size:55 final size:55
Alignment explanation
Indices: 48333150--48333270 Score: 144
Period size: 55 Copynumber: 2.2 Consensus size: 55
48333140 CTTAAACTTT
*
48333150 TAAA-TCAGTATTGTCCATGGTTAAGCCACAC-GGACGTGTGCCATAGCCGTG-TC
1 TAAAGTCAGTATTGTCCATGGTTAAGCCACACAGGA-GTGTGCCATAGCCGTGCCC
* *
48333203 TATAAGTCAGTATTGCTCACA-GG-TAAGCCACACAGGAGTGTGTCATAGGCGTGCCC
1 TA-AAGTCAGTATTG-TC-CATGGTTAAGCCACACAGGAGTGTGCCATAGCCGTGCCC
48333259 TAAAGTCAGTAT
1 TAAAGTCAGTAT
48333271 CGCACATGGG
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
53 2 0.03
54 2 0.03
55 43 0.73
56 10 0.17
57 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (55 bp):
TAAAGTCAGTATTGTCCATGGTTAAGCCACACAGGAGTGTGCCATAGCCGTGCCC
Found at i:48337167 original size:93 final size:93
Alignment explanation
Indices: 48337055--48337225 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
48337045 GCCCATAAGT
* *
48337055 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48337120 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
48337148 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48337213 CGAGTTCGGATGC
66 CGAGTTCGGATGC
48337226 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:48337222 original size:46 final size:46
Alignment explanation
Indices: 48337047--48337222 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
48337037 TGTAACCCGC
* * *
48337047 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
48337093 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
48337143 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
48337186 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48337223 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48341341 original size:49 final size:49
Alignment explanation
Indices: 48341283--48341409 Score: 166
Period size: 49 Copynumber: 2.6 Consensus size: 49
48341273 CATTAAAGTA
*
48341283 GATGCCATGTCCCAAATAGGTCTTACACTGACTTTCATATAATGAGT-TC
1 GATGCCATGTCCCAAATAGGTCTTACACTGACTCTCAT-TAATGAGTGTC
* * * **
48341332 GATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCATTTATTTGTGTC
1 GATGCCATGTCCCAAATAGGTCTTACACTGACTCTCATTAATGAGTGTC
* *
48341381 GATGTCATGTCCCAGATAGGTCTTACACT
1 GATGCCATGTCCCAAATAGGTCTTACACT
48341410 AGCTTGTATA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
48 5 0.07
49 63 0.93
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (49 bp):
GATGCCATGTCCCAAATAGGTCTTACACTGACTCTCATTAATGAGTGTC
Found at i:48341452 original size:48 final size:45
Alignment explanation
Indices: 48341380--48341553 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 45
48341370 TTATTTGTGT
* *
48341380 CGATGTCATGTCCCAGATAGGTCTTACACTAGCTTGTATATCTCGAGGC
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTT-TATAT-T-GAGGC
* * * * *
48341429 CGATGCATGTCCCAGATATGTCTTAAACTAGCTCTTATTTTAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT-TTATATTGAGGC
* * * *
48341475 CGATGCATGTCCTAGACATGTCTTACACTGGCTTTCATAATGTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTT-ATATTGAGGC
* * *
48341521 CAATACATGTCCTAGACATGTCTTACACTAGCT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT
48341554 CACATACCAC
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
45 2 0.02
46 67 0.63
47 1 0.01
48 30 0.28
49 6 0.06
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTTATATTGAGGC
Found at i:48342240 original size:20 final size:18
Alignment explanation
Indices: 48342203--48342253 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
48342193 CTATAACAAC
48342203 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
48342220 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
48342240 TTACAACTTTACAA
1 TCACAA-TTTACAA
48342254 AATAGCCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:48345667 original size:17 final size:18
Alignment explanation
Indices: 48345647--48345680 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48345637 AATATGCATG
48345647 AAAAA-CTGATTTTTATC
1 AAAAATCTGATTTTTATC
*
48345664 AAAAATGTGATTTTTAT
1 AAAAATCTGATTTTTAT
48345681 ACAATTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (18 bp):
AAAAATCTGATTTTTATC
Found at i:48349071 original size:17 final size:18
Alignment explanation
Indices: 48349051--48349084 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48349041 AATATGCATG
48349051 AAAAA-CTGATTTTTATC
1 AAAAATCTGATTTTTATC
*
48349068 AAAAATGTGATTTTTAT
1 AAAAATCTGATTTTTAT
48349085 ACAATTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (18 bp):
AAAAATCTGATTTTTATC
Done.