Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 148 of 325
Found at i:47620031 original size:43 final size:43
Alignment explanation
Indices: 47619925--47620034 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 43
47619915 ATAGGATTCC
* * * * * *
47619925 TATTTGTAATTTCATGTAAAACCACGTCTGGGACATTGGCATCG
1 TATTTG-ATTTTCGTGTAAGACCACGTCTAGGACATCGACATCG
* *
47619969 -ATTTGAGATTTACGTGTAAGACCATGTCTAGGACATCGACATCG
1 TATTT--GATTTTCGTGTAAGACCACGTCTAGGACATCGACATCG
47620013 TATTTGATTTTCGTGTAAGACC
1 TATTTGATTTTCGTGTAAGACC
47620035 CTGTTTGGGA
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
43 20 0.37
44 29 0.54
45 5 0.09
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (43 bp):
TATTTGATTTTCGTGTAAGACCACGTCTAGGACATCGACATCG
Found at i:47620055 original size:43 final size:41
Alignment explanation
Indices: 47619939--47620065 Score: 119
Period size: 44 Copynumber: 2.9 Consensus size: 41
47619929 TGTAATTTCA
* *
47619939 TGTAAAACCACGTCTGGGACATTGGCATCGATTTGAGATTTACG
1 TGTAAGACCATGTCTGGGACA-TGGCATCGATTT--GATTTACG
* * *
47619983 TGTAAGACCATGTCTAGGACATCGACATCGTATTTGATTTTCG
1 TGTAAGACCATGTCTGGGACAT-GGCATCG-ATTTGATTTACG
* *
47620026 TGTAAGACCCTGTTTGGGACAGTGGCATCGAGATTTGATT
1 TGTAAGACCATGTCTGGGACA-TGGCATC--GATTTGATT
47620066 ACATGTCAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
43 31 0.45
44 33 0.48
45 5 0.07
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATGGCATCGATTTGATTTACG
Found at i:47631023 original size:17 final size:16
Alignment explanation
Indices: 47631001--47631040 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
47630991 TCTTTTTTTC
47631001 TCCTCTCTTCATCTATT
1 TCCTCTCTTCATCT-TT
*
47631018 TCCTCTTCTTCTTCTTT
1 TCCTC-TCTTCATCTTT
47631035 TCCTCT
1 TCCTCT
47631041 ATAGCCGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 12 0.57
18 8 0.38
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.57
Consensus pattern (16 bp):
TCCTCTCTTCATCTTT
Found at i:47635996 original size:17 final size:17
Alignment explanation
Indices: 47635954--47636011 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
47635944 TTCTGACAAT
47635954 TCTTTT-CTCTTCTT--
1 TCTTTTCCTCTTCTTCA
*
47635968 TTTTTCTCCTC-TCTTCA
1 TCTTT-TCCTCTTCTTCA
*
47635985 TCTATTTCCTCTTCTTCT
1 TCT-TTTCCTCTTCTTCA
47636003 TCTTTTCCT
1 TCTTTTCCT
47636012 TTATAGCCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
14 4 0.11
15 5 0.14
16 3 0.09
17 13 0.37
18 10 0.29
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.64
Consensus pattern (17 bp):
TCTTTTCCTCTTCTTCA
Found at i:47640186 original size:68 final size:67
Alignment explanation
Indices: 47640114--47640263 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
47640104 CATCATGTGT
* * * *
47640114 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
47640176 ATGTAG
62 ATGTAG
** * *
47640182 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
47640247 AG
66 AG
47640249 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
47640264 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:47640219 original size:64 final size:64
Alignment explanation
Indices: 47640138--47640320 Score: 192
Period size: 67 Copynumber: 2.8 Consensus size: 64
47640128 AGACATTATG
* *
47640138 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
47640202 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
47640267 AA
63 AA
* * * * *
47640269 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTCAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGC
47640321 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
62 10 0.10
63 9 0.09
64 21 0.22
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:47643586 original size:17 final size:17
Alignment explanation
Indices: 47643556--47643602 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
47643546 TTATTTTTAC
**
47643556 TTTATTTTGCTTTTCCT
1 TTTATTTTTATTTTCCT
* *
47643573 TTTGTTTTTATTTTTCT
1 TTTATTTTTATTTTCCT
47643590 TTTATTTTTATTT
1 TTTATTTTTATTT
47643603 CTATTTCAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.79
Consensus pattern (17 bp):
TTTATTTTTATTTTCCT
Found at i:47643598 original size:11 final size:11
Alignment explanation
Indices: 47643545--47643608 Score: 51
Period size: 11 Copynumber: 5.6 Consensus size: 11
47643535 TTTGAGTCCA
47643545 TTTATTTTTAC-
1 TTTATTTTT-CT
*
47643556 TTTATTTTGCT
1 TTTATTTTTCT
*
47643567 TTTCCTTTTGT-T
1 TTT-ATTTT-TCT
47643579 TTTATTTTTCT
1 TTTATTTTTCT
*
47643590 TTTATTTTTAT
1 TTTATTTTTCT
47643601 TTCTATTT
1 TT-TATTT
47643609 CAGTGTTCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
10 2 0.05
11 28 0.65
12 13 0.30
ACGTcount: A:0.11, C:0.09, G:0.03, T:0.77
Consensus pattern (11 bp):
TTTATTTTTCT
Found at i:47643598 original size:23 final size:23
Alignment explanation
Indices: 47643556--47643608 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
47643546 TTATTTTTAC
* *
47643556 TTTATTTTGCTTTTCCTTTTGTT
1 TTTATTTTGCTTTTACTTTTATT
* *
47643579 TTTATTTTTCTTTTATTTTTATT
1 TTTATTTTGCTTTTACTTTTATT
*
47643602 TCTATTT
1 TTTATTT
47643609 CAGTGTTCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.77
Consensus pattern (23 bp):
TTTATTTTGCTTTTACTTTTATT
Found at i:47660835 original size:18 final size:19
Alignment explanation
Indices: 47660795--47660835 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
47660785 TAATAATCAA
47660795 ATTT-ATGCATATTAAATT
1 ATTTAATGCATATTAAATT
*
47660813 A-TTAATGC-TATTAATTT
1 ATTTAATGCATATTAAATT
47660830 ATTTAA
1 ATTTAA
47660836 ACAAAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (19 bp):
ATTTAATGCATATTAAATT
Found at i:47661173 original size:29 final size:30
Alignment explanation
Indices: 47661117--47661174 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
47661107 CTTTTGAAAA
* * *
47661117 TATTTACAAAAAGAGGCATCTAATTTTTAT
1 TATTTACAAAAAGAGACAACTAAATTTTAT
47661147 TATTTACAAAAAGA-ACAACTAAATTTTA
1 TATTTACAAAAAGAGACAACTAAATTTTA
47661175 AAAATAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.36
Consensus pattern (30 bp):
TATTTACAAAAAGAGACAACTAAATTTTAT
Found at i:47663274 original size:9 final size:9
Alignment explanation
Indices: 47663260--47663332 Score: 61
Period size: 9 Copynumber: 8.6 Consensus size: 9
47663250 GACACCTGCA
47663260 ATTAAACAC
1 ATTAAACAC
47663269 ATTAAA-AC
1 ATTAAACAC
*
47663277 ---AAACAT
1 ATTAAACAC
47663283 ATTAAACAC
1 ATTAAACAC
47663292 ATTTAAACAC
1 A-TTAAACAC
47663302 TTATTAAACAC
1 --ATTAAACAC
47663313 A--AAACAC
1 ATTAAACAC
47663320 ATTAAACAC
1 ATTAAACAC
47663329 -TTAA
1 ATTAA
47663333 CATAAATAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 19
0.72 0.03 0.26
Matches are distributed among these distances:
5 3 0.06
6 1 0.02
7 7 0.13
8 6 0.11
9 19 0.36
10 8 0.15
11 8 0.15
12 1 0.02
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (9 bp):
ATTAAACAC
Found at i:47663308 original size:11 final size:11
Alignment explanation
Indices: 47663260--47663313 Score: 58
Period size: 10 Copynumber: 4.9 Consensus size: 11
47663250 GACACCTGCA
47663260 ATTAAACACAT
1 ATTAAACACAT
*
47663271 -TAAAACAAACAT
1 ATTAAAC--ACAT
47663283 ATTAAACACAT
1 ATTAAACACAT
*
47663294 -TTAAACACTT
1 ATTAAACACAT
47663304 ATTAAACACA
1 ATTAAACACA
47663314 AAACACATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 14 0.40
11 12 0.34
12 4 0.11
13 5 0.14
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.26
Consensus pattern (11 bp):
ATTAAACACAT
Found at i:47663308 original size:21 final size:22
Alignment explanation
Indices: 47663260--47663313 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
47663250 GACACCTGCA
47663260 ATTAAACACATTAAAACAAACAT
1 ATTAAACACATTAAAAC-AACAT
* *
47663283 ATTAAACACATTTAAAC-ACTT
1 ATTAAACACATTAAAACAACAT
47663304 ATTAAACACA
1 ATTAAACACA
47663314 AAACACATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 13 0.45
23 16 0.55
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.26
Consensus pattern (22 bp):
ATTAAACACATTAAAACAACAT
Found at i:47663587 original size:45 final size:47
Alignment explanation
Indices: 47663503--47663593 Score: 109
Period size: 45 Copynumber: 2.0 Consensus size: 47
47663493 TAATTCAATA
*
47663503 ATGCAAACTTAAACTAACATCGAAGTTACGCAAGTCATTA-TTTATG
1 ATGCAAACTTAAACTAACATCGAAGTTACACAAGTCATTACTTTATG
* *
47663549 ATGCATACTT-AACTAACAT-GAAAGTTACATAA-TGCATTACTTTAT
1 ATGCAAACTTAAACTAACATCG-AAGTTACACAAGT-CATTACTTTAT
47663594 TAAATGCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
44 2 0.05
45 23 0.59
46 14 0.36
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (47 bp):
ATGCAAACTTAAACTAACATCGAAGTTACACAAGTCATTACTTTATG
Found at i:47667135 original size:27 final size:27
Alignment explanation
Indices: 47667105--47667282 Score: 106
Period size: 27 Copynumber: 6.6 Consensus size: 27
47667095 ATATTGAGCC
* * *
47667105 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
47667132 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
47667159 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
* ** *** *
47667187 CGCACAGTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
47667214 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
47667241 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
47667268 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47667283 GTACAATTTA
Statistics
Matches: 121, Mismatches: 27, Indels: 6
0.79 0.18 0.04
Matches are distributed among these distances:
27 99 0.82
28 22 0.18
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:47667244 original size:82 final size:81
Alignment explanation
Indices: 47667126--47667281 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
47667116 TGCTATACAA
* * *
47667126 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
*
47667191 CAGTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
47667208 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
47667272 CACTTAGTGC
65 CACTTAGTGC
47667282 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 19 0.30
82 45 0.70
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:47668724 original size:39 final size:39
Alignment explanation
Indices: 47668681--47668758 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
47668671 TGGCAAGTAT
47668681 GACACCCATTTTTTTTTGTTCCCTTTTCTATTATTATCC
1 GACACCCATTTTTTTTTGTTCCCTTTTCTATTATTATCC
47668720 GACACCCATTTTTTTTTGTTCCCTTTTCTATTATTATCC
1 GACACCCATTTTTTTTTGTTCCCTTTTCTATTATTATCC
47668759 CCATCATTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.15, C:0.26, G:0.05, T:0.54
Consensus pattern (39 bp):
GACACCCATTTTTTTTTGTTCCCTTTTCTATTATTATCC
Found at i:47678402 original size:26 final size:26
Alignment explanation
Indices: 47678325--47678403 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 26
47678315 GAGGTCACGT
*
47678325 GTGTAGTACTAAGTGCAGGCTACTAC
1 GTGTAGTACTAAGTGCAGGCTGCTAC
* * *
47678351 --GT-GTACCAGACTG-AGG-TCGC-AT
1 GTGTAGTACTA-AGTGCAGGCT-GCTAC
47678373 GTGTAGTACTAAGTGCAGGCTGCTAC
1 GTGTAGTACTAAGTGCAGGCTGCTAC
47678399 GTGTA
1 GTGTA
47678404 TTAGATGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 16
0.62 0.11 0.26
Matches are distributed among these distances:
22 2 0.05
23 9 0.24
24 10 0.26
25 10 0.26
26 7 0.18
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (26 bp):
GTGTAGTACTAAGTGCAGGCTGCTAC
Found at i:47678437 original size:50 final size:49
Alignment explanation
Indices: 47678313--47678496 Score: 237
Period size: 50 Copynumber: 3.8 Consensus size: 49
47678303 ATGATCTATG
* *
47678313 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGAT
* * * *
47678361 CTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTGCTACGTGTATTAGAT
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGAT
* *
47678410 GGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAGACT
1 -GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGA-T
* * *
47678461 AT-TGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
47678497 TGCGTACCAG
Statistics
Matches: 117, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
48 42 0.36
49 31 0.26
50 43 0.37
51 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (49 bp):
GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGAT
Found at i:47685102 original size:27 final size:26
Alignment explanation
Indices: 47685054--47685105 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
47685044 GTGAGGCTAC
*
47685054 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
47685080 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
47685106 TTGTAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:47685726 original size:11 final size:10
Alignment explanation
Indices: 47685698--47685728 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
47685688 CAGTGTCGAC
47685698 CTTTCGGTCA
1 CTTTCGGTCA
47685708 CTTTCGGTCA
1 CTTTCGGTCA
47685718 CTCTTCGGTCA
1 CT-TTCGGTCA
47685729 TTACGGCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.60
11 8 0.40
ACGTcount: A:0.10, C:0.32, G:0.19, T:0.39
Consensus pattern (10 bp):
CTTTCGGTCA
Found at i:47700704 original size:27 final size:27
Alignment explanation
Indices: 47700674--47700727 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
47700664 ATGTATAATT
47700674 ATTA-TAAAATAGTTAAATTGTACTTAA
1 ATTATTAAAAT-GTTAAATTGTACTTAA
* * *
47700701 ATTATTAACATGTTGAATTTTACTTAA
1 ATTATTAAAATGTTAAATTGTACTTAA
47700728 TTTTATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (27 bp):
ATTATTAAAATGTTAAATTGTACTTAA
Found at i:47702277 original size:43 final size:42
Alignment explanation
Indices: 47702229--47702323 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 42
47702219 CAACGTCCCA
* * *
47702229 GGTCTTACATGTAATCACATAT-CGATGCCACTGTCCCAGACAG
1 GGTCTTACACG-AA-CACATATACAATGCCAATGTCCCAGACAG
* *
47702272 GGTCTTACACGAACTCATATACAATGCCAATGTCCCAGACAT
1 GGTCTTACACGAACACATATACAATGCCAATGTCCCAGACAG
47702314 GGTCTTACAC
1 GGTCTTACAC
47702324 ATAAATCACA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 6 0.13
42 30 0.65
43 10 0.22
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGAACACATATACAATGCCAATGTCCCAGACAG
Found at i:47705319 original size:51 final size:48
Alignment explanation
Indices: 47705196--47705340 Score: 173
Period size: 51 Copynumber: 2.9 Consensus size: 48
47705186 TAGCCAAAGC
***
47705196 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCAAT
1 TATC-GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * * *
47705245 TATCCGTACACGTAGTAGCCTGCACTTGGTACTACACACGTGATCGAAGT
1 TATCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
*
47705295 TATCAGGTATGCATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATC-GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACC
47705341 TCACAATAGA
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
48 32 0.41
49 7 0.09
50 6 0.08
51 34 0.43
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (48 bp):
TATCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:47712547 original size:16 final size:16
Alignment explanation
Indices: 47712526--47712556 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
47712516 CTCATGTACA
47712526 TAATGATTAAGGATTG
1 TAATGATTAAGGATTG
47712542 TAATGATTAAGGATT
1 TAATGATTAAGGATT
47712557 TGATTTGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (16 bp):
TAATGATTAAGGATTG
Found at i:47715597 original size:43 final size:42
Alignment explanation
Indices: 47715479--47715602 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 42
47715469 TCCGATATGT
* *
47715479 ATTATCATGTAAGACCACGTCTGGGACGTTGGCATCGTACTTG
1 ATTA-CATGTAAGACCACGTTTGGGACGTTGGCATTGTACTTG
* * * *
47715522 ATTTCGTGTAAGACC-C-TATCTAGGACAG-TGGCATTGATATTTG
1 ATTACATGTAAGACCACGT-T-TGGGAC-GTTGGCATTG-TACTTG
47715565 ATTACATGTAAGACCACGTTTGGGACGTTGGCATTGTA
1 ATTACATGTAAGACCACGTTTGGGACGTTGGCATTGTA
47715603 TGACCTTTCC
Statistics
Matches: 65, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
40 1 0.02
41 1 0.02
42 25 0.38
43 35 0.54
44 2 0.03
45 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
ATTACATGTAAGACCACGTTTGGGACGTTGGCATTGTACTTG
Found at i:47720466 original size:25 final size:25
Alignment explanation
Indices: 47720366--47720456 Score: 155
Period size: 25 Copynumber: 3.6 Consensus size: 25
47720356 ACTCCACAGG
* **
47720366 TCGTGAGAGGATACTAATTTATAGC
1 TCGTGAGAGCATACCGATTTATAGC
47720391 TCGTGAGAGCATACCGATTTATAGC
1 TCGTGAGAGCATACCGATTTATAGC
47720416 TCGTGAGAGCATACCGATTTATAGC
1 TCGTGAGAGCATACCGATTTATAGC
47720441 TCGTGAGAGCATACCG
1 TCGTGAGAGCATACCG
47720457 GTTCACAGCT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (25 bp):
TCGTGAGAGCATACCGATTTATAGC
Found at i:47720476 original size:50 final size:50
Alignment explanation
Indices: 47720368--47720479 Score: 145
Period size: 50 Copynumber: 2.2 Consensus size: 50
47720358 TCCACAGGTC
* ** * * *
47720368 GTGAGAGGATACTAATTTATAGCTCGTGAGAGCATACCGATTTATAGCTC
1 GTGAGAGCATACCGATTTATAGCTCGTGAGAGCATACCGATTCACAGCTA
*
47720418 GTGAGAGCATACCGATTTATAGCTCGTGAGAGCATACCGGTTCACAGCTA
1 GTGAGAGCATACCGATTTATAGCTCGTGAGAGCATACCGATTCACAGCTA
47720468 GT-ATGAGCATAC
1 GTGA-GAGCATAC
47720480 ATGTATATGA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
49 1 0.02
50 53 0.98
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (50 bp):
GTGAGAGCATACCGATTTATAGCTCGTGAGAGCATACCGATTCACAGCTA
Found at i:47721242 original size:20 final size:20
Alignment explanation
Indices: 47721217--47721255 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
47721207 AAAGGGCATT
47721217 TTGTAAA-GTTGTAAAATAAG
1 TTGTAAATG-TGTAAAATAAG
47721237 TTGTAAATGTGTAAAATAA
1 TTGTAAATGTGTAAAATAA
47721256 TTGAAATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.36
Consensus pattern (20 bp):
TTGTAAATGTGTAAAATAAG
Found at i:47722030 original size:48 final size:48
Alignment explanation
Indices: 47721918--47722130 Score: 220
Period size: 46 Copynumber: 4.5 Consensus size: 48
47721908 TATGTGTGCT
* * * *
47721918 AGTGTAAGACATGTCTGGAACATGCATCGGCCAC-A-TTATGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAT-ACAAGCC
*
47721964 AATGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCC
* * * * ** * *
47722012 GGTGTAAGACATGCCTGGGACATGCATCGGCATTGAGA-CGAGAA-CT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCC
* * *
47722058 AGTGTAAGACATGTCTAGGACATGCATTGGCCTCGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCC
* *
47722106 AGTGTAAAACCTGTCTGGGACATGC
1 AGTGTAAGACATGTCTGGGACATGC
47722131 GTCAGCTTGT
Statistics
Matches: 136, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
46 64 0.47
47 8 0.06
48 64 0.47
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCC
Found at i:47722982 original size:15 final size:15
Alignment explanation
Indices: 47722962--47722991 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47722952 ATTATGAAAT
47722962 ATATGTTTTGGATTG
1 ATATGTTTTGGATTG
*
47722977 ATATGTTTTGTATTG
1 ATATGTTTTGGATTG
47722992 GAATTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTG
Found at i:47723679 original size:56 final size:56
Alignment explanation
Indices: 47723584--47723726 Score: 187
Period size: 56 Copynumber: 2.6 Consensus size: 56
47723574 GAGTAAGACC
* * * *
47723584 ATGGCTTCGATATATGTGTGCGAGTAAGACCATGTTTAATACGTTGGCATCGATAT
1 ATGGTTTCGATATATGTGTACGAGTAAGACCACGTTTAATACGTTGACATCGATAT
* *
47723640 ATGGTTTCAATATATGTGTATGAGTAAGACCACGTTTAATACGTTGACATCGATAT
1 ATGGTTTCGATATATGTGTACGAGTAAGACCACGTTTAATACGTTGACATCGATAT
* * * * *
47723696 GTGATTCCGATATATGTGTGCAAGTAAGACC
1 ATGGTTTCGATATATGTGTACGAGTAAGACC
47723727 CTGTCTGGGA
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 74 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (56 bp):
ATGGTTTCGATATATGTGTACGAGTAAGACCACGTTTAATACGTTGACATCGATAT
Found at i:47723765 original size:43 final size:43
Alignment explanation
Indices: 47723718--47723802 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
47723708 TATGTGTGCA
*
47723718 AGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACG
1 AGTAAGACCCTGTCTGGGACAGTGGCATCAATATGTGATTACG
47723761 AGTAAGACCCTGTCTGGGACAGTGGCATCAATATGTGATTAC
1 AGTAAGACCCTGTCTGGGACAGTGGCATCAATATGTGATTAC
47723803 ATGTAAAACT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (43 bp):
AGTAAGACCCTGTCTGGGACAGTGGCATCAATATGTGATTACG
Found at i:47723823 original size:43 final size:43
Alignment explanation
Indices: 47723718--47723831 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 43
47723708 TATGTGTGCA
* * * *
47723718 AGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACG
1 AGTAAAACACTGTCAGGGACAGTGGCATCAATATGTGATTACG
* * *
47723761 AGTAAGACCCTGTCTGGGACAGTGGCATCAATATGTGATTAC-
1 AGTAAAACACTGTCAGGGACAGTGGCATCAATATGTGATTACG
*
47723803 ATGTAAAACTAC-GTCAGGGACATTGGCAT
1 A-GTAAAAC-ACTGTCAGGGACAGTGGCAT
47723832 TGTACGATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.02
43 62 0.97
44 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (43 bp):
AGTAAAACACTGTCAGGGACAGTGGCATCAATATGTGATTACG
Found at i:47730025 original size:27 final size:27
Alignment explanation
Indices: 47729984--47730156 Score: 222
Period size: 27 Copynumber: 6.4 Consensus size: 27
47729974 TGGATAAGTT
47729984 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
47730011 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
47730038 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
47730065 ATAGAATTACCGAAATA-CCCTCGTAGG
1 GTAGAATTACCGAAATACCCCT-GTAGG
* * *
47730092 GTAGAAATATCGAAATAACCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* ** *
47730119 GTAGAATTACCGAGATACCATTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
47730146 GTAAAATTACC
1 GTAGAATTACC
47730157 ATTTTACTTC
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.03
27 120 0.94
28 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:47730120 original size:81 final size:81
Alignment explanation
Indices: 47729985--47730137 Score: 245
Period size: 81 Copynumber: 1.9 Consensus size: 81
47729975 GGATAAGTTG
* * * *
47729985 TAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACTG
1 TAGAATTACCGAAATACCCCTGTAGGGTAGAAATATCGAAATAACCCTGTAGGGTAGAATTACCG
47730050 AAATACCCCTGTAGGA
66 AAATACCCCTGTAGGA
47730066 TAGAATTACCGAAATA-CCCTCGTAGGGTAGAAATATCGAAATAACCCTGTAGGGTAGAATTACC
1 TAGAATTACCGAAATACCCCT-GTAGGGTAGAAATATCGAAATAACCCTGTAGGGTAGAATTACC
*
47730130 GAGATACC
65 GAAATACC
47730138 ATTGTGGGGT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
80 4 0.06
81 62 0.94
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (81 bp):
TAGAATTACCGAAATACCCCTGTAGGGTAGAAATATCGAAATAACCCTGTAGGGTAGAATTACCG
AAATACCCCTGTAGGA
Found at i:47732221 original size:12 final size:12
Alignment explanation
Indices: 47732200--47732228 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
47732190 TCGTGGAAGA
47732200 GGCCGTGGACGT
1 GGCCGTGGACGT
47732212 GGCCGTGGACGT
1 GGCCGTGGACGT
47732224 GGCCG
1 GGCCG
47732229 AGGTAATGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.28, G:0.52, T:0.14
Consensus pattern (12 bp):
GGCCGTGGACGT
Found at i:47737635 original size:27 final size:27
Alignment explanation
Indices: 47737594--47737740 Score: 224
Period size: 27 Copynumber: 5.5 Consensus size: 27
47737584 TAGATAAGTT
47737594 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
47737621 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
47737648 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
47737675 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
47737702 GTAGAAATACTGAAA-ACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
47737728 GTAGAATTACCGA
1 GTAGAATTACCGA
47737741 GATATCCTTG
Statistics
Matches: 108, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 21 0.19
27 87 0.81
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:47737764 original size:80 final size:81
Alignment explanation
Indices: 47737598--47737765 Score: 250
Period size: 80 Copynumber: 2.1 Consensus size: 81
47737588 TAAGTTGTAG
* *
47737598 AATTACCGAAATACCCCTGTAGGGTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAA
*
47737663 TACCCTTGTAGGATAG
66 TACCCTTGTAGGATAA
* *
47737679 AATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAA-ACCCCTGTAGGGTAGAATTACCGAGA
1 AATTACCGAAATACCCCTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAA
* *
47737743 TATCCTTGT-CGAGTAA
66 TACCCTTGTAGGA-TAA
47737759 AATTACC
1 AATTACC
47737766 ATTTTGCCCC
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
79 2 0.03
80 42 0.53
81 35 0.44
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (81 bp):
AATTACCGAAATACCCCTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAA
TACCCTTGTAGGATAA
Found at i:47739649 original size:10 final size:10
Alignment explanation
Indices: 47739636--47739670 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
47739626 AAGCTCGGTA
47739636 GAGCTCAAAC
1 GAGCTCAAAC
*
47739646 GAGCTGAAAC
1 GAGCTCAAAC
*
47739656 GAGCTCAAAT
1 GAGCTCAAAC
47739666 GAGCT
1 GAGCT
47739671 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:47741146 original size:93 final size:93
Alignment explanation
Indices: 47741018--47741188 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
47741008 GCCCCTAAGT
* *
47741018 GAACTCGGACTCAACTCAATGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47741083 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
47741111 GAACTCGGACTCACCTCAACGAGTTCG-GACATTCGCATCCATAAGTGAACTCGGACTCAACTTA
1 GAACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47741175 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
47741189 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:47741184 original size:46 final size:47
Alignment explanation
Indices: 47741013--47741185 Score: 187
Period size: 46 Copynumber: 3.7 Consensus size: 47
47741003 AACCCGCCCC
* * *
47741013 TAAGTGAACTCGGACTCAACTCAATGAGCTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
* *
47741059 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCATCCA
* * *
47741107 TCA-CGAACTCGGACTCACCTCAACGAGTTCGGA-CATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
*
47741152 TAAGTGAACTCGGACTCAACTTAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47741186 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 56 0.54
47 30 0.29
48 3 0.03
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
Found at i:47741643 original size:30 final size:30
Alignment explanation
Indices: 47741609--47741668 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47741599 ATTTAATACG
47741609 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
47741639 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
47741669 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:47742931 original size:33 final size:32
Alignment explanation
Indices: 47742884--47742945 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
47742874 TCGCTGCAAT
* *
47742884 TGGTGGCTTCGCCACATATATATATATCTGTTC
1 TGGTGGCCTAGCCACA-ATATATATATCTGTTC
* *
47742917 TGGTGGCCTAGCCACAATATCTGTATCTG
1 TGGTGGCCTAGCCACAATATATATATCTG
47742946 GTGACTTCGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 11 0.44
33 14 0.56
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (32 bp):
TGGTGGCCTAGCCACAATATATATATCTGTTC
Found at i:47742934 original size:72 final size:67
Alignment explanation
Indices: 47742797--47742939 Score: 171
Period size: 72 Copynumber: 2.1 Consensus size: 67
47742787 GAGGAAGTGT
* * *
47742797 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATAAATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATAAATCTGTTCTGGTGACCTAGCCACAA
47742862 TA
66 TA
* * *
47742864 TCTGGTAGCCTCGCTGCAAT-TGGTGGCTTCGCCACATATATATATATCTGTTCTGGTGGCCTAG
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCAC----ATA-A-ATCTGTTCTGGTGACCTAG
47742928 CCACAATA
60 CCACAATA
47742936 TCTG
1 TCTG
47742940 TATCTGGTGA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
66 14 0.22
67 19 0.30
70 3 0.05
71 1 0.02
72 27 0.42
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATAAATCTGTTCTGGTGACCTAGCCACAA
TA
Found at i:47742959 original size:27 final size:26
Alignment explanation
Indices: 47742907--47742966 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
47742897 ACATATATAT
*
47742907 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
47742933 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
47742960 ATATCTG
1 ATATCTG
47742967 GTAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:47746067 original size:25 final size:25
Alignment explanation
Indices: 47746029--47746077 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
47746019 TCAACAACAG
*
47746029 CTTATTCTCTGAAATCTTGAATTCT
1 CTTATTCTCCGAAATCTTGAATTCT
47746054 CTTATTCTCCGAAATCTTGAATTC
1 CTTATTCTCCGAAATCTTGAATTC
47746078 GAACAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.45
Consensus pattern (25 bp):
CTTATTCTCCGAAATCTTGAATTCT
Found at i:47757177 original size:13 final size:13
Alignment explanation
Indices: 47757159--47757185 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47757149 GAAAGAAAAT
47757159 AGGAGGGATGATC
1 AGGAGGGATGATC
47757172 AGGAGGGATGATC
1 AGGAGGGATGATC
47757185 A
1 A
47757186 TTTTCTATCC
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:0.33, C:0.07, G:0.44, T:0.15
Consensus pattern (13 bp):
AGGAGGGATGATC
Found at i:47759835 original size:20 final size:20
Alignment explanation
Indices: 47759810--47759850 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
47759800 TTTATCAATC
47759810 TCTTTTTTGAGTTTAATTGT
1 TCTTTTTTGAGTTTAATTGT
47759830 TCTTTTTTGAGTTTAATTGT
1 TCTTTTTTGAGTTTAATTGT
47759850 T
1 T
47759851 GGGTTTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.05, G:0.15, T:0.66
Consensus pattern (20 bp):
TCTTTTTTGAGTTTAATTGT
Found at i:47759857 original size:20 final size:20
Alignment explanation
Indices: 47759814--47759857 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
47759804 TCAATCTCTT
**
47759814 TTTTGAGTTTAATTGTTCTT
1 TTTTGAGTTTAATTGTTCGG
*
47759834 TTTTGAGTTTAATTGTTGGG
1 TTTTGAGTTTAATTGTTCGG
47759854 TTTT
1 TTTT
47759858 CTATGTAGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.02, G:0.20, T:0.64
Consensus pattern (20 bp):
TTTTGAGTTTAATTGTTCGG
Found at i:47759946 original size:32 final size:32
Alignment explanation
Indices: 47759910--47759974 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
47759900 ATTGATTGAT
47759910 TAAGCTTTAATTTTGAGTGAAATGTATAATTG
1 TAAGCTTTAATTTTGAGTGAAATGTATAATTG
*
47759942 TAAGCTTTAATTTTGATTGAAATGTATAATTG
1 TAAGCTTTAATTTTGAGTGAAATGTATAATTG
47759974 T
1 T
47759975 TCTTACATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.46
Consensus pattern (32 bp):
TAAGCTTTAATTTTGAGTGAAATGTATAATTG
Found at i:47761444 original size:20 final size:20
Alignment explanation
Indices: 47761399--47761450 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
47761389 AACAAAGAAA
47761399 AACAGAACAGAAACAAATAG
1 AACAGAACAGAAACAAATAG
* *
47761419 AGCAGAACA-AAACAAGATGG
1 AACAGAACAGAAACAA-ATAG
*
47761439 AACAGAGCAGAA
1 AACAGAACAGAA
47761451 CATAACAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 6 0.23
20 18 0.69
21 2 0.08
ACGTcount: A:0.60, C:0.15, G:0.21, T:0.04
Consensus pattern (20 bp):
AACAGAACAGAAACAAATAG
Found at i:47761445 original size:25 final size:25
Alignment explanation
Indices: 47761417--47761482 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
47761407 AGAAACAAAT
* *
47761417 AGAGCAGAACAAAACAAGATGGAAC
1 AGAGCAGAACAAAACAAAACGGAAC
* *
47761442 AGAGCAGAACATAACAAAACGGAGC
1 AGAGCAGAACAAAACAAAACGGAAC
* *
47761467 ATAGCAGAACAGAACA
1 AGAGCAGAACAAAACA
47761483 TGTATGTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.55, C:0.18, G:0.23, T:0.05
Consensus pattern (25 bp):
AGAGCAGAACAAAACAAAACGGAAC
Found at i:47762459 original size:42 final size:42
Alignment explanation
Indices: 47762379--47762460 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
47762369 ATTCATATGC
*
47762379 CACATAGCCTGGACACATGCCCATGTCCTTGCCAGTGTGGCT
1 CACATAGCCTGGACACATGCCCATGTCCTGGCCAGTGTGGCT
** * *
47762421 CACATAGCCTGGGTACATGCCTATGTTCCTGGTC-GTGTGG
1 CACATAGCCTGGACACATGCCCATG-TCCTGGCCAGTGTGG
47762461 TTCTAATGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 28 0.82
43 6 0.18
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.27
Consensus pattern (42 bp):
CACATAGCCTGGACACATGCCCATGTCCTGGCCAGTGTGGCT
Found at i:47767933 original size:19 final size:19
Alignment explanation
Indices: 47767906--47767967 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
47767896 TCTTTTTCTT
*
47767906 TTTCAATTTTTTTCTCTCA
1 TTTCTATTTTTTTCTCTCA
47767925 TTTCTATTTTTCTTCTCTCAA
1 TTTCTATTTTT-TTCTCTC-A
*
47767946 ATTCT-TTTAGTTTTCTCTCA
1 TTTCTATTT--TTTTCTCTCA
47767966 TT
1 TT
47767968 ATCAACTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
19 10 0.28
20 12 0.33
21 12 0.33
22 2 0.06
ACGTcount: A:0.15, C:0.21, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTCTATTTTTTTCTCTCA
Found at i:47767940 original size:20 final size:19
Alignment explanation
Indices: 47767906--47767944 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
47767896 TCTTTTTCTT
47767906 TTTCAATTTTTTTCTCTCA
1 TTTCAATTTTTTTCTCTCA
*
47767925 TTTCTATTTTTCTTCTCTCA
1 TTTCAATTTTT-TTCTCTCA
47767945 AATTCTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.13, C:0.23, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTCAATTTTTTTCTCTCA
Found at i:47768454 original size:47 final size:47
Alignment explanation
Indices: 47768400--47768536 Score: 238
Period size: 47 Copynumber: 2.9 Consensus size: 47
47768390 CTTGAAGTTT
* *
47768400 AGAATCTGAATGCTCTTCTTAAAACATGATTTATTGAAAAGATGTTC
1 AGAATCTGAAAGCTCTTCTTGAAACATGATTTATTGAAAAGATGTTC
*
47768447 AGAATCTGAAAACTCTTCTTGAAACATGATTTATTGAAAAGATGTTC
1 AGAATCTGAAAGCTCTTCTTGAAACATGATTTATTGAAAAGATGTTC
*
47768494 AGAATTTGAAAGCTCTTCTTGAAACATGATTTATTGAAAAGAT
1 AGAATCTGAAAGCTCTTCTTGAAACATGATTTATTGAAAAGAT
47768537 TGAAAAACAA
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 85 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (47 bp):
AGAATCTGAAAGCTCTTCTTGAAACATGATTTATTGAAAAGATGTTC
Found at i:47768845 original size:18 final size:18
Alignment explanation
Indices: 47768819--47768854 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
47768809 GTTAAAAAAA
*
47768819 TTTTGATCGAAAGATTTC
1 TTTTAATCGAAAGATTTC
47768837 TTTTAATCGAAAGATTTC
1 TTTTAATCGAAAGATTTC
47768855 ATTAGTGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (18 bp):
TTTTAATCGAAAGATTTC
Found at i:47768996 original size:18 final size:18
Alignment explanation
Indices: 47768973--47769011 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
47768963 TCATATTTTT
*
47768973 TTTCAAATTTTTTTAATA
1 TTTCAAATTTTTTAAATA
47768991 TTTCAAATTTTTTAAATA
1 TTTCAAATTTTTTAAATA
47769009 TTT
1 TTT
47769012 TGAAACTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTCAAATTTTTTAAATA
Found at i:47769526 original size:60 final size:60
Alignment explanation
Indices: 47769460--47769582 Score: 246
Period size: 60 Copynumber: 2.0 Consensus size: 60
47769450 AGTCCAAGTA
47769460 AGTTTTTTCAAGAACAATGAGATAGAATTCGAGCAATAACTAAAAAAATTCATTTATCAT
1 AGTTTTTTCAAGAACAATGAGATAGAATTCGAGCAATAACTAAAAAAATTCATTTATCAT
47769520 AGTTTTTTCAAGAACAATGAGATAGAATTCGAGCAATAACTAAAAAAATTCATTTATCAT
1 AGTTTTTTCAAGAACAATGAGATAGAATTCGAGCAATAACTAAAAAAATTCATTTATCAT
47769580 AGT
1 AGT
47769583 CTTCCAAACA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (60 bp):
AGTTTTTTCAAGAACAATGAGATAGAATTCGAGCAATAACTAAAAAAATTCATTTATCAT
Found at i:47769709 original size:26 final size:26
Alignment explanation
Indices: 47769673--47769725 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
47769663 AGCAATTAAG
47769673 TAAGGTTATTACAAGTATTAGTTTCA
1 TAAGGTTATTACAAGTATTAGTTTCA
47769699 TAAGGTTATTACAAGTATTAGTTTCA
1 TAAGGTTATTACAAGTATTAGTTTCA
47769725 T
1 T
47769726 TTTAAACTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.43
Consensus pattern (26 bp):
TAAGGTTATTACAAGTATTAGTTTCA
Found at i:47773457 original size:42 final size:42
Alignment explanation
Indices: 47773342--47773473 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 42
47773332 TCAGAAAGCT
* * * * *
47773342 AGTACAATGCCAACATCCTAGACGTGCTCTTACATGTAATTA
1 AGTACGATGCCAACATCCCAGACGTGGTCTTACATGAAATCA
* **** *
47773384 AATATCGATGCC-ACTATCCCAGAAAAAGTCTTACACGAAATCA
1 AGTA-CGATGCCAAC-ATCCCAGACGTGGTCTTACATGAAATCA
*
47773427 AGTACGATGCCAACATCCCAGACGTGGTCTTACATAAAATCA
1 AGTACGATGCCAACATCCCAGACGTGGTCTTACATGAAATCA
47773469 AGTAC
1 AGTAC
47773474 TTTTCTAATG
Statistics
Matches: 69, Mismatches: 18, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
42 39 0.57
43 30 0.43
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.23
Consensus pattern (42 bp):
AGTACGATGCCAACATCCCAGACGTGGTCTTACATGAAATCA
Found at i:47774939 original size:22 final size:22
Alignment explanation
Indices: 47774895--47774939 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
47774885 AATCAGAATC
*
47774895 CTACTCAACCAGCCTCTATACT
1 CTACTCAACCAGCCTCTACACT
*
47774917 CTACTCCATCCAGCC-CTACACT
1 CTACT-CAACCAGCCTCTACACT
47774939 C
1 C
47774940 CATGTGGGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.24, C:0.47, G:0.04, T:0.24
Consensus pattern (22 bp):
CTACTCAACCAGCCTCTACACT
Found at i:47785664 original size:39 final size:39
Alignment explanation
Indices: 47785621--47785696 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
47785611 TCTTTAATTA
* *
47785621 TCTTTAATTATGTTATAATTTGAACATCATTAGTATGAG
1 TCTTTAATTATGTCATAATTTGAACATCATTAATATGAG
* *
47785660 TCTTTAATTATGTCATAGTTTGAATATCATTAATATG
1 TCTTTAATTATGTCATAATTTGAACATCATTAATATG
47785697 TGTTCTGCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (39 bp):
TCTTTAATTATGTCATAATTTGAACATCATTAATATGAG
Found at i:47785775 original size:50 final size:52
Alignment explanation
Indices: 47785721--47785835 Score: 162
Period size: 52 Copynumber: 2.2 Consensus size: 52
47785711 TAAAATCATT
* *
47785721 CATTATGTAACTCTCATGTAAGTT-AAGTTTGCATCA-TAAATTATGACATG
1 CATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTAAGACATG
* * *
47785771 CATTATGTAACTCCCATGTTAGTTAAAGTTTGTATCATTAAATTAAGTCATG
1 CATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTAAGACATG
*
47785823 CATTAAGTAACTC
1 CATTATGTAACTC
47785836 ATTTGTTCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 22 0.39
51 11 0.19
52 24 0.42
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (52 bp):
CATTATGTAACTCCCATGTAAGTTAAAGTTTGCATCATTAAATTAAGACATG
Found at i:47785833 original size:52 final size:50
Alignment explanation
Indices: 47785716--47785835 Score: 159
Period size: 50 Copynumber: 2.4 Consensus size: 50
47785706 TTTAATAAAA
* * *
47785716 TCATTCATTATGTAACTCTCATGTAAGTTAAGTTTGCATCATAAATTATG
1 TCATGCATTATGTAACTCCCATGTAAGTTAAGTTTGCATCATAAATTAAG
* * *
47785766 ACATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGTATCATTAAATTAAG
1 TCATGCATTATGTAACTCCCATGTAAGTT-AAGTTTGCATCA-TAAATTAAG
*
47785818 TCATGCATTAAGTAACTC
1 TCATGCATTATGTAACTC
47785836 ATTTGTTCAT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 25 0.42
51 11 0.18
52 24 0.40
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (50 bp):
TCATGCATTATGTAACTCCCATGTAAGTTAAGTTTGCATCATAAATTAAG
Found at i:47789374 original size:79 final size:80
Alignment explanation
Indices: 47789206--47789390 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
47789196 GCTACTCGTT
* *
47789206 CAAATGCCTTCGGGGCATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTC-GGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
47789270 GATTTACTAACTCGCAC
64 GATATACTAACTAGCAC
* **
47789287 CAATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
** *
47789350 ATATGGTCACTTAGCA-
65 ATATACTAAC-TAGCAC
47789366 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGG-CTTAGCCCGGA
47789391 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 61 0.69
80 22 0.25
81 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATACTAACTAGCAC
Found at i:47789390 original size:40 final size:40
Alignment explanation
Indices: 47789187--47789390 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
47789177 CGGAATTTAA
** * *
47789187 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGGCATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
47789227 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
47789267 CCGGATTTACTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
47789306 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
47789346 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
47789386 CCGGA
1 CCGGA
47789391 CATCATTCGA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:47794765 original size:20 final size:20
Alignment explanation
Indices: 47794737--47794777 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
47794727 CTTGTATGGG
*
47794737 ATTTGCACTTTGGTGCCTCT
1 ATTTGCACTTCGGTGCCTCT
*
47794757 ATTTTCACTTCGGTGCCTCT
1 ATTTGCACTTCGGTGCCTCT
47794777 A
1 A
47794778 ATTACACATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.27, G:0.17, T:0.44
Consensus pattern (20 bp):
ATTTGCACTTCGGTGCCTCT
Found at i:47797610 original size:93 final size:93
Alignment explanation
Indices: 47797444--47797625 Score: 292
Period size: 93 Copynumber: 2.0 Consensus size: 93
47797434 GGTCTAGTAT
*
47797444 TTCTAGACCTCCCTCATAGAAGACTAAGGCATGCATCTTCTTCAACAAATTTCGATCATTTAGAG
1 TTCTAGACCTCCCTCATAGAAGACTAAGGCATGCATCTTCTTCAACAAATTTCGACCATTTAGAG
* *
47797509 ATTGGGATGGAGCTTGACTCCAAAGATG
66 AGTAGGATGGAGCTTGACTCCAAAGATG
* * * *
47797537 TTCTAGACCTCCCTCGTAGAAGACTAGGGCATGCGTCTTCTTCAACAAATTTTGACCATTTAGAG
1 TTCTAGACCTCCCTCATAGAAGACTAAGGCATGCATCTTCTTCAACAAATTTCGACCATTTAGAG
*
47797602 AGTAGGATGGAGTTTGACTCCAAA
66 AGTAGGATGGAGCTTGACTCCAAA
47797626 TATGCTTTTG
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 81 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (93 bp):
TTCTAGACCTCCCTCATAGAAGACTAAGGCATGCATCTTCTTCAACAAATTTCGACCATTTAGAG
AGTAGGATGGAGCTTGACTCCAAAGATG
Found at i:47802204 original size:25 final size:25
Alignment explanation
Indices: 47802169--47802283 Score: 97
Period size: 25 Copynumber: 4.6 Consensus size: 25
47802159 ACAAACCACA
* *
47802169 GCTCTCTTGAGTTTCCCGATACTTG
1 GCTCTCATGAGCTTCCCGATACTTG
*
47802194 GCTCTCATGAGCTTCCCGATATTTG
1 GCTCTCATGAGCTTCCCGATACTTG
* * * *
47802219 GCTCGCAAGAGCTTCCTGATA-TATA
1 GCTCTCATGAGCTTCCCGATACT-TG
* * * * *
47802244 ACTCACATGAACTTCCCGTTACTTA
1 GCTCTCATGAGCTTCCCGATACTTG
*
47802269 GCTCACATGAGCTTC
1 GCTCTCATGAGCTTC
47802284 TCGTTATATG
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
24 1 0.01
25 71 0.97
26 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATACTTG
Found at i:47802297 original size:25 final size:25
Alignment explanation
Indices: 47802176--47802297 Score: 95
Period size: 25 Copynumber: 4.9 Consensus size: 25
47802166 ACAGCTCTCT
* *
47802176 TGAGTTTCCCGATACT-TGGCTCTCA
1 TGAGCTTCCCGATA-TATGGCTCACA
* *
47802201 TGAGCTTCCCGATATTTGGCTCGCA
1 TGAGCTTCCCGATATATGGCTCACA
* * **
47802226 AGAGCTTCCTGATATATAACTCACA
1 TGAGCTTCCCGATATATGGCTCACA
* * *
47802251 TGAACTTCCCGTTACT-TAGCTCACA
1 TGAGCTTCCCGATA-TATGGCTCACA
* *
47802276 TGAGCTTCTCGTTATATGGCTC
1 TGAGCTTCCCGATATATGGCTC
47802298 CGAAGAGCTT
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
24 2 0.03
25 75 0.96
26 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (25 bp):
TGAGCTTCCCGATATATGGCTCACA
Found at i:47804784 original size:19 final size:19
Alignment explanation
Indices: 47804760--47804796 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
47804750 GTAAGTGTAG
47804760 AAGTGTTAGAAACACCAAT
1 AAGTGTTAGAAACACCAAT
47804779 AAGTGTTAGAAACACCAA
1 AAGTGTTAGAAACACCAA
47804797 ACCCAAGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (19 bp):
AAGTGTTAGAAACACCAAT
Found at i:47810926 original size:23 final size:21
Alignment explanation
Indices: 47810899--47810947 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
47810889 ATACATATTT
47810899 TTTTAATAAAAATATTAAATTA
1 TTTTAATAAAAATA-TAAATTA
*
47810921 TATTT-A-AATAATATAAATTA
1 T-TTTAATAAAAATATAAATTA
47810941 TTTTAAT
1 TTTTAAT
47810948 TATGAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
19 3 0.13
20 9 0.39
21 6 0.26
22 2 0.09
23 3 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTAATAAAAATATAAATTA
Found at i:47810937 original size:20 final size:19
Alignment explanation
Indices: 47810905--47810946 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
47810895 ATTTTTTTAA
47810905 TAAAAATATTAAATTATATT
1 TAAAAATATTAAATTAT-TT
47810925 TAAATAATA-TAAATTATTT
1 TAAA-AATATTAAATTATTT
47810944 TAA
1 TAA
47810947 TTATGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 12 0.57
21 4 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAAATATTAAATTATTT
Found at i:47813480 original size:22 final size:22
Alignment explanation
Indices: 47813455--47813496 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
47813445 AGCAATGAGG
* *
47813455 TATGTATTTTATGTTATTCTGT
1 TATGTATCTTATCTTATTCTGT
47813477 TATGTATCTTATCTTATTCT
1 TATGTATCTTATCTTATTCT
47813497 ATTTGTCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.62
Consensus pattern (22 bp):
TATGTATCTTATCTTATTCTGT
Found at i:47818992 original size:7 final size:7
Alignment explanation
Indices: 47818978--47819025 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
47818968 AAATTTAATG
47818978 ATAATAT
1 ATAATAT
*
47818985 AAAATAT
1 ATAATAT
47818992 ATAATGAT
1 ATAAT-AT
47819000 ATAATAT
1 ATAATAT
*
47819007 ATATTA-
1 ATAATAT
47819013 ATAATAT
1 ATAATAT
47819020 AATAAT
1 -ATAAT
47819026 TAGTTTTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
6 5 0.15
7 17 0.50
8 12 0.35
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (7 bp):
ATAATAT
Found at i:47826855 original size:18 final size:16
Alignment explanation
Indices: 47826823--47826856 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
47826813 TTTATTAAAT
47826823 AAATTTAAATAAATTA
1 AAATTTAAATAAATTA
47826839 AAATTTCAAATTAAATTA
1 AAATTT-AAA-TAAATTA
47826857 TTTTCTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 3 0.19
18 7 0.44
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTTAAATAAATTA
Found at i:47830384 original size:47 final size:47
Alignment explanation
Indices: 47830315--47830588 Score: 213
Period size: 47 Copynumber: 5.9 Consensus size: 47
47830305 TGGGTAAGGT
*
47830315 GTCGATGTCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAA
* * *
47830362 GTCGATGCCATTTCCCAAACATGGTCTTACACT-GACT-ATCATCTCGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCA-CATCTC-AA
* * * * * * *
47830410 GTCGAT-CCACGTCTCAGACAT-GTCTTACACTGGCTTACGTCTTGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATC-TCAA
* * *
47830456 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAA
* * * * * ***
47830501 TGCCGATGCCATGTCCCAGACAAGGTCTTACACTGGCTCTCATAATGTG
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-CTCAA
* * *
47830550 GCCGAT-ACATGTCTCAGACAT-GTCTTACACTAGCTCACA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACA
47830589 AACAAATGAC
Statistics
Matches: 184, Mismatches: 32, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
45 2 0.01
46 74 0.40
47 77 0.42
48 30 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAA
Found at i:47830534 original size:94 final size:93
Alignment explanation
Indices: 47830317--47830585 Score: 251
Period size: 94 Copynumber: 2.9 Consensus size: 93
47830307 GGTAAGGTGT
* * * * * * * * *
47830317 CGATGTCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGTCGATGCCATTTCCCAAAC
1 CGATGCCATGTCCCAGACAAGGTCTTACACTGGCTTACATCTGAGGCCGATG-CATGTCCCAGAC
* * *
47830382 ATGGTCTTACACT-GACTATCATCTCGTAGT
65 AT-GTCTTACACTAG-CTCTCATCTCATAGC
* * * *
47830412 CGAT-CCACGTCTCAGAC-ATGTCTTACACTGGCTTACGTCTTGAGGCCGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACAAGGTCTTACACTGGCTTACATC-TGAGGCCGATGCATGTCCCAGAC
*
47830475 ATGTCTTACACTAGCTCTCGTCTCA-ATGC
65 ATGTCTTACACTAGCTCTCATCTCATA-GC
* * * *
47830504 CGATGCCATGTCCCAGACAAGGTCTTACACTGGCTCT-CATAATGTGGCCGATACATGTCTCAGA
1 CGATGCCATGTCCCAGACAAGGTCTTACACTGGCT-TACAT-CTGAGGCCGATGCATGTCCCAGA
47830568 CATGTCTTACACTAGCTC
64 CATGTCTTACACTAGCTC
47830586 ACAAACAAAT
Statistics
Matches: 142, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
91 1 0.01
92 23 0.16
93 41 0.29
94 72 0.51
95 5 0.04
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (93 bp):
CGATGCCATGTCCCAGACAAGGTCTTACACTGGCTTACATCTGAGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCTCTCATCTCATAGC
Found at i:47830575 original size:140 final size:141
Alignment explanation
Indices: 47830317--47830580 Score: 372
Period size: 140 Copynumber: 1.9 Consensus size: 141
47830307 GGTAAGGTGT
* *
47830317 CGATGTCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGTCGATGCCATTTCCCAAAC
1 CGATGTCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGCCGATGCCATGTCCCAAAC
* * * *
47830382 ATGGTCTTACACTGACTATCATCTCGTAGTCGATCCACGTCTCAGACATGTCTTACACTGGCTTA
66 AAGGTCTTACACTGACTATCATATCGTAGCCGATACACGTCTCAGACATGTCTTACACTGGCTTA
47830447 CGTCTTGAGGC
131 CGTCTTGAGGC
* * *
47830458 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGA
1 CGATGTCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAA-GCCGATGCCATGTCCCAAA
* * * *
47830521 CAAGGTCTTACACTGGCTCTCATAAT-GTGGCCGATACATGTCTCAGACATGTCTTACACT
65 CAAGGTCTTACACTGACTATCAT-ATCGTAGCCGATACACGTCTCAGACATGTCTTACACT
47830581 AGCTCACAAA
Statistics
Matches: 108, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
139 22 0.20
140 80 0.74
141 6 0.06
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (141 bp):
CGATGTCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGCCGATGCCATGTCCCAAAC
AAGGTCTTACACTGACTATCATATCGTAGCCGATACACGTCTCAGACATGTCTTACACTGGCTTA
CGTCTTGAGGC
Found at i:47833303 original size:49 final size:48
Alignment explanation
Indices: 47833196--47833337 Score: 164
Period size: 49 Copynumber: 3.0 Consensus size: 48
47833186 CATACACATA
* * * *
47833196 ATAA-GATGCCAAGGCCATATCCCAGATATGGTCGTACATGGGATCAC
1 ATAACGATGCCAATGCTATGTCCCAGAAATGGTCGTACATGGGATCAC
*
47833243 ATAACGATGCCAATGCTATGTCCCA-AAATGGTCCTACATGGGACCTCAC
1 ATAACGATGCCAATGCTATGTCCCAGAAATGGTCGTACATGGGA--TCAC
* **
47833292 ATATCGATGCCAATG-TCATGTCCCAGGCATGGTCGTACATGGGATC
1 ATAACGATGCCAATGCT-ATGTCCCAGAAATGGTCGTACATGGGATC
47833338 GCATTACTCA
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
47 20 0.25
48 20 0.25
49 26 0.32
50 15 0.19
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (48 bp):
ATAACGATGCCAATGCTATGTCCCAGAAATGGTCGTACATGGGATCAC
Found at i:47833996 original size:21 final size:22
Alignment explanation
Indices: 47833970--47834010 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
47833960 GTGTATATTG
47833970 ATGTTTAATGG-TAGA-AAATAA
1 ATGTTT-ATGGTTAGAGAAATAA
47833991 ATGTTTATGGTTAGAGAAAT
1 ATGTTTATGGTTAGAGAAAT
47834011 GACTTTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (22 bp):
ATGTTTATGGTTAGAGAAATAA
Found at i:47834594 original size:52 final size:51
Alignment explanation
Indices: 47834516--47834613 Score: 178
Period size: 52 Copynumber: 1.9 Consensus size: 51
47834506 ACTAGTGACT
47834516 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCA
*
47834568 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTT
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTT
47834614 CACTACTATG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 10 0.22
52 35 0.78
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.30
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:47839317 original size:27 final size:27
Alignment explanation
Indices: 47839287--47839483 Score: 254
Period size: 27 Copynumber: 7.3 Consensus size: 27
47839277 ACTAAAATGT
**
47839287 CCTCGATTTGTAGAATTACCATTTTAC
1 CCTCGATTTACAGAATTACCATTTTAC
* * *
47839314 CCTCGATTTATAGAATTACCGTTTCAC
1 CCTCGATTTACAGAATTACCATTTTAC
*
47839341 CCTCGATTTACAAAATTA-CAGTTTTAC
1 CCTCGATTTACAGAATTACCA-TTTTAC
*
47839368 CCTCGATTTATAGAATTACCATTTTAC
1 CCTCGATTTACAGAATTACCATTTTAC
*
47839395 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCATTTTAC
* *
47839422 CCTCGATTTACAAAATTACCATTTTCC
1 CCTCGATTTACAGAATTACCATTTTAC
* *
47839449 CCTC-AGTTTAAAAAATTACCATTTTAC
1 CCTCGA-TTTACAGAATTACCATTTTAC
47839476 CCTCGATT
1 CCTCGATT
47839484 GTGAAATTAC
Statistics
Matches: 150, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
26 2 0.01
27 145 0.97
28 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (27 bp):
CCTCGATTTACAGAATTACCATTTTAC
Found at i:47839401 original size:81 final size:81
Alignment explanation
Indices: 47839287--47839483 Score: 308
Period size: 81 Copynumber: 2.4 Consensus size: 81
47839277 ACTAAAATGT
* *
47839287 CCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTAC
1 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTAC
47839352 AAAATTA-CAGTTTTAC
66 AAAATTACCA-TTTTAC
*
47839368 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
1 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTAC
*
47839433 AAAATTACCATTTTCC
66 AAAATTACCATTTTAC
* *
47839449 CCTC-AGTTTAAAAAATTACCATTTTACCCTCGATT
1 CCTCGA-TTTATAGAATTACCATTTTACCCTCGATT
47839484 GTGAAATTAC
Statistics
Matches: 108, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
80 1 0.01
81 105 0.97
82 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (81 bp):
CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTAC
AAAATTACCATTTTAC
Found at i:47839544 original size:27 final size:27
Alignment explanation
Indices: 47839514--47839651 Score: 163
Period size: 27 Copynumber: 5.1 Consensus size: 27
47839504 TGTAGGATAG
*
47839514 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* *
47839541 AATTACCAAAATACCCCTAGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
*
47839568 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
**
47839595 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
* *
47839622 AATTA-CAGAAATACCCTTAACTTTCTAA
1 AATTACCA-AAATACCCCTAA-TTTGTAA
47839650 AA
1 AA
47839652 ATTATAGAAA
Statistics
Matches: 97, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.06
27 80 0.82
28 11 0.11
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:47839583 original size:54 final size:55
Alignment explanation
Indices: 47839514--47839693 Score: 179
Period size: 54 Copynumber: 3.3 Consensus size: 55
47839504 TGTAGGATAG
* * * ***
47839514 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAGTTTGTGA
1 AATTACCGAAATACCCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
47839568 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
1 AATTACCGAAATACCCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
* * * * ** *
47839622 AATTACAGAAATA-CCCTTAACTTTCTAAAAATTA-TAGAAATACCATTGATTTACAA
1 AATTACCGAAATACCCCTCAA-TTTGT-AAAATTACCA-AAATACCCCTAATTTACAA
*
47839678 AATTACTGAAATACCC
1 AATTACCGAAATACCC
47839694 TTGGTTTGTA
Statistics
Matches: 107, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
53 4 0.04
54 61 0.57
55 5 0.05
56 35 0.33
57 2 0.02
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.29
Consensus pattern (55 bp):
AATTACCGAAATACCCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
Found at i:47840650 original size:27 final size:27
Alignment explanation
Indices: 47840620--47840723 Score: 165
Period size: 27 Copynumber: 3.9 Consensus size: 27
47840610 GAGGAAGTGC
47840620 AAAAGGGCTTATGCCCCAGTTTATTGA
1 AAAAGGGCTTATGCCCCAGTTTATTGA
**
47840647 AAAAGGGCTTATGCCCCAGTTTACCGAA
1 AAAAGGGCTTATGCCCCAGTTTATTG-A
*
47840675 AAAAGGGCTTATGCCCAAGTTTATTG-
1 AAAAGGGCTTATGCCCCAGTTTATTGA
47840701 AAAAGGGCTTATGCCCCAGTTTA
1 AAAAGGGCTTATGCCCCAGTTTA
47840724 CCAAAAAAGC
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
26 22 0.31
27 24 0.34
28 24 0.34
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (27 bp):
AAAAGGGCTTATGCCCCAGTTTATTGA
Found at i:47840731 original size:27 final size:27
Alignment explanation
Indices: 47840620--47840745 Score: 152
Period size: 27 Copynumber: 4.8 Consensus size: 27
47840610 GAGGAAGTGC
***
47840620 AAAAGGGCTTATGCCCCAGTTTATTGA
1 AAAAGGGCTTATGCCCCAGTTTACCAA
47840647 AAAAGGGCTTATGCCCCAGTTTACCGAA
1 AAAAGGGCTTATGCCCCAGTTTACC-AA
* ***
47840675 AAAAGGGCTTATGCCCAAGTTTA-TTG
1 AAAAGGGCTTATGCCCCAGTTTACCAA
47840701 AAAAGGGCTTATGCCCCAGTTTACCAA
1 AAAAGGGCTTATGCCCCAGTTTACCAA
47840728 AAAA--GCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
47840746 ATTAAAGAGG
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
24 10 0.12
25 4 0.05
26 22 0.26
27 27 0.31
28 23 0.27
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (27 bp):
AAAAGGGCTTATGCCCCAGTTTACCAA
Found at i:47840731 original size:54 final size:55
Alignment explanation
Indices: 47840620--47840731 Score: 199
Period size: 54 Copynumber: 2.1 Consensus size: 55
47840610 GAGGAAGTGC
* *
47840620 AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGGGCTTATGCCCCAGTTTACCGAA
1 AAAAGGGCTTATGCCCAAGTTTATTGAAAAAGGGCTTATGCCCCAGTTTACCAAA
47840675 AAAAGGGCTTATGCCCAAGTTTATTG-AAAAGGGCTTATGCCCCAGTTTACCAAA
1 AAAAGGGCTTATGCCCAAGTTTATTGAAAAAGGGCTTATGCCCCAGTTTACCAAA
47840729 AAA
1 AAA
47840732 GCTTTGCCCC
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
54 30 0.55
55 25 0.45
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (55 bp):
AAAAGGGCTTATGCCCAAGTTTATTGAAAAAGGGCTTATGCCCCAGTTTACCAAA
Found at i:47840966 original size:42 final size:42
Alignment explanation
Indices: 47840890--47840981 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
47840880 TAGTCTCCCC
* ** *
47840890 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
* *
47840932 AAATGGGCTTGCATATATCCATTTACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
47840974 AAATGGGC
1 AAATGGGC
47840982 CTAAGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:47841040 original size:31 final size:31
Alignment explanation
Indices: 47841005--47841083 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
47840995 CGTTTACAGT
47841005 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
*
47841036 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
47841067 AAAGGCTTCGGCCCAAT
1 AAAGGCTTCGGCCCAAT
47841084 AACCGTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:47848196 original size:21 final size:21
Alignment explanation
Indices: 47848170--47848211 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
47848160 AGCAAAATGA
47848170 GTGTCGAACCCTATCTTAGTC
1 GTGTCGAACCCTATCTTAGTC
47848191 GTGTCGAACCCTATCTTAGTC
1 GTGTCGAACCCTATCTTAGTC
47848212 TTCTTCTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (21 bp):
GTGTCGAACCCTATCTTAGTC
Found at i:47850822 original size:48 final size:44
Alignment explanation
Indices: 47850767--47850923 Score: 165
Period size: 46 Copynumber: 3.4 Consensus size: 44
47850757 TGCCATATTT
*
47850767 CAGACATGGTCTTACACTAACACCTCTATACGTGCCGATGCCATGTCC
1 CAGACAT-GTCTTACACTAACACATCT-TA-GTGCCGATG-CATGTCC
* * *
47850815 CAGACATGGTCTTACACTGACACATC-TAGTAACCGATACATGTCC
1 CAGACAT-GTCTTACACTAACACATCTTAGT-GCCGATGCATGTCC
* *
47850860 CAGGCATGTCTTACACTAGCTTACATCTTGAG-GCCGATGCATGTCC
1 CAGACATGTCTTACACTAAC--ACATCTT-AGTGCCGATGCATGTCC
47850906 CAGACATGTCTTACACTA
1 CAGACATGTCTTACACTA
47850924 GCTCTTGTCT
Statistics
Matches: 94, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
44 11 0.12
45 15 0.16
46 41 0.44
47 1 0.01
48 26 0.28
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (44 bp):
CAGACATGTCTTACACTAACACATCTTAGTGCCGATGCATGTCC
Found at i:47850944 original size:46 final size:43
Alignment explanation
Indices: 47850802--47851016 Score: 137
Period size: 46 Copynumber: 4.7 Consensus size: 43
47850792 CTATACGTGC
* * * **
47850802 CGATGCCATGTCCCAGACATGGTCTTACACT-GACACATCTAGTAAC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTTCTAAT-GT
* * * * * *
47850848 CGATACATGTCCCAGGCATGTCTTACACTAGCTTACATCTTGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-T-CTTC-TAATGT
47850894 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCTCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTC-T-TCT-AATGT
* * *
47850940 CGATGCCATGTCCCAGAAATGGTCTCACACTGGCTC-TCATAATGTGGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTTC-TAA--T-GT
*
47850988 CGATGCATGTCCTAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
47851017 GGCACACAAA
Statistics
Matches: 137, Mismatches: 19, Indels: 26
0.75 0.10 0.14
Matches are distributed among these distances:
44 12 0.09
45 20 0.15
46 58 0.42
47 27 0.20
48 20 0.15
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (43 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTTCTAATGT
Found at i:47856600 original size:6 final size:6
Alignment explanation
Indices: 47856570--47856694 Score: 87
Period size: 6 Copynumber: 20.3 Consensus size: 6
47856560 AAGAAAAATT
* * * *
47856570 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATTAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
47856619 ATCAAA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
47856668 ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
47856695 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
5 5 0.05
6 76 0.83
7 8 0.09
8 3 0.03
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:47856620 original size:37 final size:37
Alignment explanation
Indices: 47856579--47856672 Score: 161
Period size: 37 Copynumber: 2.5 Consensus size: 37
47856569 TATCAGAACT
*
47856579 AGAATCAAAATGAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATTAGGTGAC
47856616 AGAATCAAAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATTAGGTGAC
* *
47856653 AGAATCAGAATCAGTATCAG
1 AGAATCAAAATCAGAATCAG
47856673 GTAACAGAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.19
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATTAGGTGAC
Found at i:47856655 original size:25 final size:25
Alignment explanation
Indices: 47856627--47856694 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
47856617 GAATCAAAAT
* *
47856627 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
47856652 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
47856677 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
47856695 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.19
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:47857320 original size:54 final size:53
Alignment explanation
Indices: 47857258--47857360 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 53
47857248 TAAAATGGTA
* *
47857258 ATTTTACCCCATAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTTACCCAACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* *
47857311 ATTTCTACCCAACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTT
1 ATTT-TACCCAACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTT
47857361 TAGTAAATCT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 4 0.09
54 41 0.91
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (53 bp):
ATTTTACCCAACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
Found at i:47857366 original size:27 final size:27
Alignment explanation
Indices: 47857254--47857388 Score: 144
Period size: 27 Copynumber: 5.0 Consensus size: 27
47857244 GGGGTAAAAT
* * * * *
47857254 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
47857281 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
47857308 GGTATTTCTACCCAACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
47857335 GGTAATTCTATCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * **
47857362 AGTAAATCTACTTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
47857389 AATAATTTTG
Statistics
Matches: 89, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:47859478 original size:18 final size:18
Alignment explanation
Indices: 47859454--47859503 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
47859444 AAGAAACATT
47859454 ATCAGAA-CTAGAATCAAA
1 ATCAGAATC-AGAATCAAA
*
47859472 ATGAGAATCAGAATCAAA
1 ATCAGAATCAGAATCAAA
47859490 ATCAGAATCAGAAT
1 ATCAGAATCAGAAT
47859504 TAGGTGATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 28 0.97
19 1 0.03
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.18
Consensus pattern (18 bp):
ATCAGAATCAGAATCAAA
Found at i:47859484 original size:6 final size:6
Alignment explanation
Indices: 47859454--47859525 Score: 58
Period size: 6 Copynumber: 11.8 Consensus size: 6
47859444 AAGAAACATT
* * *
47859454 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAAA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* *
47859502 ATTAGGTG AT-AGA ATCAGA ATCAG
1 ATCA-G-A ATCAGA ATCAGA ATCAG
47859526 TATTAGGTAC
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
5 3 0.06
6 44 0.85
7 3 0.06
8 2 0.04
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:47859542 original size:25 final size:25
Alignment explanation
Indices: 47859489--47859553 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
47859479 TCAGAATCAA
*
47859489 AATCAGAATCAGAATTAGGTGATAG
1 AATCAGAATCAGAATTAGGTGACAG
* *
47859514 AATCAGAATCAGTATTAGGT-ACCAT
1 AATCAGAATCAGAATTAGGTGA-CAG
*
47859539 AATCAAAATCAGAAT
1 AATCAGAATCAGAAT
47859554 GTGAATGCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 1 0.03
25 33 0.97
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (25 bp):
AATCAGAATCAGAATTAGGTGACAG
Found at i:47860199 original size:27 final size:27
Alignment explanation
Indices: 47860169--47860255 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
47860159 GGGCAAAATG
* * * *
47860169 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
47860196 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
47860223 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
47860250 ATAATT
1 GTAATT
47860256 TTGTAAATCG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:47860270 original size:27 final size:27
Alignment explanation
Indices: 47860240--47860343 Score: 84
Period size: 27 Copynumber: 3.9 Consensus size: 27
47860230 TACCCTACAG
*
47860240 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTGTAAATCGA
*** * *
47860267 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTATTTCAGTAATTTTGTAAATCGA
* ** * *
47860294 GGGTACTTT-GGTAATTTTACAAGTTGA
1 GGGTA-TTTCAGTAATTTTGTAAATCGA
*
47860321 GGGTATTTCAGTAATTTGGTAAA
1 GGGTATTTCAGTAATTTTGTAAA
47860344 CTAAAGTATT
Statistics
Matches: 56, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
26 3 0.05
27 53 0.95
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTGTAAATCGA
Found at i:47864976 original size:40 final size:40
Alignment explanation
Indices: 47864893--47865118 Score: 241
Period size: 40 Copynumber: 5.7 Consensus size: 40
47864883 TTGAATGATG
* * * *
47864893 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
*
47864933 TCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
47864973 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* *
47865013 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
**
47865053 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AA
*
47865094 -CCAGG-CTATGTCCCGAAGGCATTTG
1 TCC-GGACTAAGTCCCGAAGGCATTTG
47865119 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
39 1 0.01
40 149 0.90
41 14 0.08
42 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:47865136 original size:80 final size:79
Alignment explanation
Indices: 47864946--47865151 Score: 206
Period size: 80 Copynumber: 2.6 Consensus size: 79
47864936 GAACTAAGAT
** *
47864946 CCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGG-TTAA-ATCCCGAAGGCATTTGTGCGAGATAC
* *
47865009 TAATTCCGGGCTAAGTC
63 TAATACCAGGCTAAGTC
** * *
47865026 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTTGTGCGAGA-TACT
*
47865090 -ATAACCAGGCTATGTC
64 AAT-ACCAGGCTAAGTC
* *
47865106 CCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
47865152 TACGTGATTT
Statistics
Matches: 109, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
79 20 0.18
80 87 0.80
81 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTGTGCGAGATACTAA
TACCAGGCTAAGTC
Found at i:47865137 original size:120 final size:120
Alignment explanation
Indices: 47864893--47865124 Score: 278
Period size: 120 Copynumber: 1.9 Consensus size: 120
47864883 TTGAATGATG
*
47864893 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGAACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGAACTAAGATCCGAAGGCATTT
**
47864958 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGATACTAAT
* * * ***
47865013 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGAACTAAGAT-CCGAAGGCAT
*
47865076 TTGTGCGA-ATTACTATAA-CCAGG-CTATG-TCCCGAAGGCATTTGAACGAG
64 TTGTGCGAGA-TACTA-AATCC-GGACTAAGAT-CCGAAGGCATTTGAACGAG
47865125 GAGCTATATC
Statistics
Matches: 96, Mismatches: 10, Indels: 12
0.81 0.08 0.10
Matches are distributed among these distances:
119 3 0.03
120 82 0.85
121 11 0.11
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGAACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGATACTAAT
Found at i:47867929 original size:13 final size:13
Alignment explanation
Indices: 47867911--47867935 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47867901 TATATAAATT
47867911 CACAAAAAATAAA
1 CACAAAAAATAAA
47867924 CACAAAAAATAA
1 CACAAAAAATAA
47867936 TTTTTAAATA
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:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (13 bp):
CACAAAAAATAAA
Found at i:47870965 original size:47 final size:47
Alignment explanation
Indices: 47870911--47871054 Score: 189
Period size: 47 Copynumber: 3.1 Consensus size: 47
47870901 TTAGGATTTT
** *
47870911 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * *
47870958 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * *
47871005 ATGTGGTGAATATGAACATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
47871052 ATG
1 ATG
47871055 CGAAATATGT
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 83 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:47871013 original size:25 final size:25
Alignment explanation
Indices: 47870940--47871013 Score: 59
Period size: 23 Copynumber: 3.1 Consensus size: 25
47870930 GTATATATGA
*
47870940 GATAAGGCCGAATGGCCAATGTGAT
1 GATAAGGCCGAATGGCCAATGTGGT
* * *
47870965 GA-ATGTG-AGCAT-G-CATATGT-GT
1 GATAAG-GCCGAATGGCCA-ATGTGGT
47870987 GATAAGGCCGAATGGCCAATGTGGT
1 GATAAGGCCGAATGGCCAATGTGGT
47871012 GA
1 GA
47871014 ATATGAACAT
Statistics
Matches: 35, Mismatches: 7, Indels: 14
0.62 0.12 0.25
Matches are distributed among these distances:
22 6 0.17
23 10 0.29
24 10 0.29
25 9 0.26
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.23
Consensus pattern (25 bp):
GATAAGGCCGAATGGCCAATGTGGT
Found at i:47871196 original size:98 final size:96
Alignment explanation
Indices: 47871028--47871211 Score: 289
Period size: 98 Copynumber: 1.9 Consensus size: 96
47871018 GAACATGTAT
* *
47871028 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGAGATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATGAGAGATGTATATGTGGTAAAGCCAA
47871093 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
* *
47871124 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGCG-AA-ATATATATGAGAGATGTATATGTGGTAAAGC
*
47871188 CAAATGGCTAGTGTGAAATATGTA
63 CAAATGGCTAATGTGAAATATGTA
47871212 GGCGATGTGC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 1 0.01
96 26 0.32
97 2 0.03
98 51 0.64
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.29
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATGAGAGATGTATATGTGGTAAAGCCAA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:47871227 original size:50 final size:48
Alignment explanation
Indices: 47871027--47871211 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
47871017 TGAACATGTA
* *
47871027 TATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGAGATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
47871075 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
47871123 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
* *
47871173 TATATGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
47871212 GGCGATGTGC
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 4 0.03
50 40 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:47871413 original size:37 final size:37
Alignment explanation
Indices: 47871360--47871464 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
47871350 AAATATATTT
47871360 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
* *
47871397 CGGGTAAGACCTGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
* * **
47871434 CGGGTAAGACCCAATAACTTTGTGTGGAGAT
1 CGGGTAAGACCCGATGACTACGTGTGGAGAT
47871465 ATCGTCTGAG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
Found at i:47874903 original size:30 final size:30
Alignment explanation
Indices: 47874867--47874926 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47874857 CATAATTGGG
* * *
47874867 CAAAATGACCATTTTGCCCTTAGTCTTGAA
1 CAAAATGACCATTTTACCCCTAGACTTGAA
47874897 CAAAATGACCATTTTACCCCTAGACTTGAA
1 CAAAATGACCATTTTACCCCTAGACTTGAA
47874927 AATCAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (30 bp):
CAAAATGACCATTTTACCCCTAGACTTGAA
Found at i:47876171 original size:24 final size:24
Alignment explanation
Indices: 47876144--47876241 Score: 151
Period size: 24 Copynumber: 4.0 Consensus size: 24
47876134 AAGGCTGTCA
47876144 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
47876168 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
47876192 GGAGAGGATTTAAGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
47876216 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
47876241 G
1 G
47876242 AGCAGGAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
24 64 0.96
25 3 0.04
ACGTcount: A:0.37, C:0.05, G:0.38, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:47882198 original size:24 final size:23
Alignment explanation
Indices: 47882123--47882199 Score: 109
Period size: 24 Copynumber: 3.2 Consensus size: 23
47882113 AAAGGCTGTC
47882123 AGGAGAAGATTTAGGAGCTGATA
1 AGGAGAAGATTTAGGAGCTGATA
*
47882146 AGGGAGAGGATTTAGGAGCTGATA
1 A-GGAGAAGATTTAGGAGCTGATA
*
47882170 GAGGAGAAGATTTAGGAGCTAATCA
1 -AGGAGAAGATTTAGGAGCTGAT-A
47882195 AGGAG
1 AGGAG
47882200 CAGGAGTTGG
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
23 1 0.02
24 45 0.94
25 2 0.04
ACGTcount: A:0.38, C:0.05, G:0.38, T:0.19
Consensus pattern (23 bp):
AGGAGAAGATTTAGGAGCTGATA
Found at i:47888966 original size:24 final size:25
Alignment explanation
Indices: 47888929--47888985 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
47888919 ATAAAACCTA
*
47888929 AAAATGAAATAGTA-TTAAATG-AGAT
1 AAAAT-AAAAAGTACTTAAA-GAAGAT
47888954 AAAATAAAAAGTACTTAAAGAAGAT
1 AAAATAAAAAGTACTTAAAGAAGAT
47888979 -AAATAAA
1 AAAATAAA
47888986 GATAAAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (25 bp):
AAAATAAAAAGTACTTAAAGAAGAT
Done.