Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 145 of 373
Found at i:48048107 original size:27 final size:26
Alignment explanation
Indices: 48048059--48048131 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 26
48048049 TATATGTATT
*
48048059 AAAATATATATGTAATAATAAAAATA
1 AAAATATATATATAATAATAAAAATA
* *
48048085 AAAAT-TATATAT-ATAGT---ATTA
1 AAAATATATATATAATAATAAAAATA
*
48048106 AAAATATATACATAATAATAAAAATA
1 AAAATATATATATAATAATAAAAATA
48048132 CAATATTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
21 8 0.22
22 6 0.17
23 4 0.11
24 4 0.11
25 6 0.17
26 8 0.22
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (26 bp):
AAAATATATATATAATAATAAAAATA
Found at i:48048113 original size:20 final size:20
Alignment explanation
Indices: 48048076--48048131 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
48048066 ATATGTAATA
* *
48048076 ATAAAAATAAAAATTATATAT
1 ATAATAATAAAAA-TATATAC
* *
48048097 ATAGTATTAAAAATATATAC
1 ATAATAATAAAAATATATAC
48048117 ATAATAATAAAAATA
1 ATAATAATAAAAATA
48048132 CAATATTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
ATAATAATAAAAATATATAC
Found at i:48048192 original size:24 final size:23
Alignment explanation
Indices: 48048146--48048207 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
48048136 ATTAAAAGAT
*
48048146 ATATATACGTAATAT-ATAAAAA
1 ATATATACATAATATAATAAAAA
* *
48048168 ATGTATACATAATATAATATTAAA
1 ATATATACATAATATAATA-AAAA
* *
48048192 ATATTTACATAGTATA
1 ATATATACATAATATA
48048208 TACATATAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 13 0.41
23 3 0.09
24 16 0.50
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (23 bp):
ATATATACATAATATAATAAAAA
Found at i:48048755 original size:19 final size:19
Alignment explanation
Indices: 48048733--48048772 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
48048723 ATACTAATGC
48048733 TAATAAATAAT-AAATATAA
1 TAAT-AATAATAAAATATAA
*
48048752 TAATAGTAATAAAATATAA
1 TAATAATAATAAAATATAA
48048771 TA
1 TA
48048773 GTATATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
TAATAATAATAAAATATAA
Found at i:48048770 original size:25 final size:28
Alignment explanation
Indices: 48048733--48048784 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 28
48048723 ATACTAATGC
48048733 TAATAAATAATAA-A-TATA-ATAATAG
1 TAATAAATAATAATAGTATATATAATAG
48048758 TAATAAA-ATATAATAGTATATATAATA
1 TAATAAATA-ATAATAGTATATATAATA
48048785 TTAAAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
24 1 0.04
25 11 0.48
26 1 0.04
27 4 0.17
28 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (28 bp):
TAATAAATAATAATAGTATATATAATAG
Found at i:48050330 original size:23 final size:24
Alignment explanation
Indices: 48050290--48050351 Score: 90
Period size: 23 Copynumber: 2.5 Consensus size: 24
48050280 ATTTATCAAA
*
48050290 AAAATTTAACATAATTAAAAATAACT
1 AAAATTTAA-A-AATTAAAAATAACG
48050316 AAAA-TTAAAAATTAAAAATAACG
1 AAAATTTAAAAATTAAAAATAACG
48050339 AAAATTTAAAAAT
1 AAAATTTAAAAAT
48050352 AACGAATTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
23 17 0.50
24 9 0.26
25 4 0.12
26 4 0.12
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (24 bp):
AAAATTTAAAAATTAAAAATAACG
Found at i:48050342 original size:17 final size:17
Alignment explanation
Indices: 48050322--48050357 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
48050312 AACTAAAATT
48050322 AAAAATTAAAAATAACG
1 AAAAATTAAAAATAACG
*
48050339 AAAATTTAAAAATAACG
1 AAAAATTAAAAATAACG
48050356 AA
1 AA
48050358 TTACCATTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (17 bp):
AAAAATTAAAAATAACG
Found at i:48050528 original size:10 final size:10
Alignment explanation
Indices: 48050513--48050550 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
48050503 AATAAAAAGC
48050513 TTGAGAGAGT
1 TTGAGAGAGT
48050523 TTGAGAGAGT
1 TTGAGAGAGT
**
48050533 TAAAGAGAGT
1 TTGAGAGAGT
48050543 TTGAGAGA
1 TTGAGAGA
48050551 ATGATGTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.26
Consensus pattern (10 bp):
TTGAGAGAGT
Found at i:48051337 original size:17 final size:17
Alignment explanation
Indices: 48051315--48051348 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
48051305 ATTATGGGTA
*
48051315 TGATATTTCAAATATTT
1 TGATATGTCAAATATTT
*
48051332 TGATATGTGAAATATTT
1 TGATATGTCAAATATTT
48051349 CAAATATCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (17 bp):
TGATATGTCAAATATTT
Found at i:48051531 original size:20 final size:20
Alignment explanation
Indices: 48051516--48051570 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
48051506 TATAAATAAA
48051516 AAATTTATTAATTAAAAAAAT
1 AAATTTATTAATT-AAAAAAT
* **
48051537 AAATTAAAAAATTAAAAAAT
1 AAATTTATTAATTAAAAAAT
*
48051557 ATATTTATTAATTA
1 AAATTTATTAATTA
48051571 TAAACATTAA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATTTATTAATTAAAAAAT
Found at i:48053467 original size:68 final size:68
Alignment explanation
Indices: 48053358--48053491 Score: 268
Period size: 68 Copynumber: 2.0 Consensus size: 68
48053348 ATTAAATGAA
48053358 AATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTATCTTTCCTT
1 AATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTATCTTTCCTT
48053423 TAT
66 TAT
48053426 AATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTATCTTTCCTT
1 AATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTATCTTTCCTT
48053491 T
66 T
48053492 TTTTCCTTTT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (68 bp):
AATTTACTTCAATTTTGAACTTTTCTATTTTTTATCAAATAAAATGATTTTTTTTATCTTTCCTT
TAT
Found at i:48053476 original size:35 final size:35
Alignment explanation
Indices: 48053369--48053476 Score: 91
Period size: 35 Copynumber: 3.1 Consensus size: 35
48053359 ATTTACTTCA
48053369 ATTTTGAACTTTTCTATTTTTTATCAAATAAAATG
1 ATTTTGAACTTTTCTATTTTTTATCAAATAAAATG
* * * * ** *
48053404 ATTTT---TTTTATCT-TTCCTTTAT-AATTTACTTCA
1 ATTTTGAACTTT-TCTATT-TTTTATCAAATAAAAT-G
48053437 ATTTTGAACTTTTCTATTTTTTATCAAATAAAATG
1 ATTTTGAACTTTTCTATTTTTTATCAAATAAAATG
48053472 ATTTT
1 ATTTT
48053477 TTTTATCTTT
Statistics
Matches: 51, Mismatches: 14, Indels: 16
0.63 0.17 0.20
Matches are distributed among these distances:
32 10 0.20
33 13 0.25
35 18 0.35
36 10 0.20
ACGTcount: A:0.30, C:0.10, G:0.04, T:0.56
Consensus pattern (35 bp):
ATTTTGAACTTTTCTATTTTTTATCAAATAAAATG
Found at i:48056306 original size:25 final size:24
Alignment explanation
Indices: 48056278--48056324 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
48056268 TAATATTAAT
*
48056278 TAAATATAATACTTGAAAATAAAGA
1 TAAAT-TAAAACTTGAAAATAAAGA
*
48056303 TAAATTAAAATTTGAAAATAAA
1 TAAATTAAAACTTGAAAATAAA
48056325 AAAAATACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (24 bp):
TAAATTAAAACTTGAAAATAAAGA
Found at i:48056755 original size:21 final size:21
Alignment explanation
Indices: 48056718--48056757 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
48056708 AAGTTGAATT
*
48056718 AATTTAATAATAGTACAAATA
1 AATTTAATAATAATACAAATA
48056739 AATTTAAT-ATGAATACAAA
1 AATTTAATAAT-AATACAAA
48056758 GTGTGAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
AATTTAATAATAATACAAATA
Found at i:48057961 original size:76 final size:75
Alignment explanation
Indices: 48057867--48058009 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 75
48057857 ATACACTCAG
* * * * * *
48057867 ACTATAAATACTATATTAAATTTTCTGTTTGGGGAGTTAATTTTAGGGTTTTCGCTTGTAGTTTA
1 ACTATAAATACTACATTAAACTATCAGTTTGGGGAGTTAATTTTAGGGTTCTAGCTTGTA-TTTA
48057932 GTTGGACTTAA
65 GTTGGACTTAA
*
48057943 ACTATAAATACTACATTAAACTATCAGTTTGGGGAGTTCATTTTAGGGTTCTAGCTTGTATTTAG
1 ACTATAAATACTACATTAAACTATCAGTTTGGGGAGTTAATTTTAGGGTTCTAGCTTGTATTTAG
48058008 TT
66 TT
48058010 AGCTTTCAGA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
75 7 0.12
76 53 0.88
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (75 bp):
ACTATAAATACTACATTAAACTATCAGTTTGGGGAGTTAATTTTAGGGTTCTAGCTTGTATTTAG
TTGGACTTAA
Found at i:48061108 original size:20 final size:20
Alignment explanation
Indices: 48061083--48061127 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
48061073 AGGGACTAAA
*
48061083 ATGAAAAGTTATAAAATTTG
1 ATGAAAAATTATAAAATTTG
* *
48061103 ATGAAAAATTATGAAATTTT
1 ATGAAAAATTATAAAATTTG
48061123 ATGAA
1 ATGAA
48061128 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTATAAAATTTG
Found at i:48063298 original size:20 final size:20
Alignment explanation
Indices: 48063273--48063331 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
48063263 TTGTAAGGGA
*
48063273 TTGCACTTCGGTACCTCTGG
1 TTGCACTTCGGTGCCTCTGG
48063293 TTGCACTTCGGTGCCTCT-G
1 TTGCACTTCGGTGCCTCTGG
*
48063312 TAAGCACTTCGGTGCCTCTG
1 T-TGCACTTCGGTGCCTCTG
48063332 TTACAATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 2 0.06
20 33 0.94
ACGTcount: A:0.10, C:0.31, G:0.25, T:0.34
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTGG
Found at i:48067288 original size:56 final size:54
Alignment explanation
Indices: 48067226--48067400 Score: 244
Period size: 56 Copynumber: 3.1 Consensus size: 54
48067216 TTGGCGCTAC
*
48067226 GTGTGCGGGTTTAAATTGTGCAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAA
1 GTGTGCGAGTTT-AATTGTG-AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAA
* * *
48067282 GTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAA
1 GTGTGCGAGTTTAATTGTG-AGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAA
*
48067338 GTGTGCGAGTTTGACTATGT-AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAA
1 GTGTGCGAGTTT-AAT-TGTGAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAA
48067393 GTGTGCGA
1 GTGTGCGA
48067401 CGCTATTGAG
Statistics
Matches: 107, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
55 47 0.44
56 57 0.53
57 1 0.01
58 2 0.02
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (54 bp):
GTGTGCGAGTTTAATTGTGAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAA
Found at i:48067304 original size:28 final size:28
Alignment explanation
Indices: 48067247--48067400 Score: 276
Period size: 28 Copynumber: 5.6 Consensus size: 28
48067237 TAAATTGTGC
48067247 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
48067274 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
48067302 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
48067330 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
48067358 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
48067385 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
48067401 CGCTATTGAG
Statistics
Matches: 124, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
27 43 0.35
28 81 0.65
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:48071133 original size:42 final size:42
Alignment explanation
Indices: 48071072--48071181 Score: 148
Period size: 43 Copynumber: 2.6 Consensus size: 42
48071062 GTTGAGAATA
* **
48071072 CGTGTAAGACCATATCTGGGATATGGCATCGATATAAGATTT
1 CGTGTAAGACCATATCTGGGATATGGCACCGATATAAGATCC
* * *
48071114 CGTGTAAGACCATAGCTGGGCTATTGGCACCGATATGAGATCC
1 CGTGTAAGACCATATCTGGGATA-TGGCACCGATATAAGATCC
*
48071157 CATGTAAGACCATATCTGGGATATG
1 CGTGTAAGACCATATCTGGGATATG
48071182 ACATTGGTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 23 0.40
43 35 0.60
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCACCGATATAAGATCC
Found at i:48072467 original size:20 final size:21
Alignment explanation
Indices: 48072439--48072477 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
48072429 CTATTTTGAT
48072439 GAAAATTTTCT-AAGTTTTGG
1 GAAAATTTTCTAAAGTTTTGG
* *
48072459 GAAACTTTTTTAAAGTTTT
1 GAAAATTTTCTAAAGTTTT
48072478 CGGTTTAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (21 bp):
GAAAATTTTCTAAAGTTTTGG
Found at i:48073105 original size:24 final size:26
Alignment explanation
Indices: 48073061--48073109 Score: 75
Period size: 24 Copynumber: 1.9 Consensus size: 26
48073051 CAAGGTAAGT
48073061 TTGTATGTTAAATAAGCTTTAATATAA
1 TTGTATGTTAAAT-AGCTTTAATATAA
48073088 TTGTAT-TTAAAT-GCTTTAATAT
1 TTGTATGTTAAATAGCTTTAATAT
48073110 TGCATGAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
26 6 0.27
27 6 0.27
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (26 bp):
TTGTATGTTAAATAGCTTTAATATAA
Found at i:48077268 original size:41 final size:42
Alignment explanation
Indices: 48077223--48077375 Score: 141
Period size: 41 Copynumber: 3.6 Consensus size: 42
48077213 AGATTACATG
48077223 TAAGACCATATCTGGGATATGGCATT-AGTATGAGACTTCG-A
1 TAAGACCATATCTGGGATATGGCATTGA-TATGAGACTTCGTA
* * * *
48077264 TAAGACCATATCTGGCATATGGCATTGATATGAGATTTTGTG
1 TAAGACCATATCTGGGATATGGCATTGATATGAGACTTCGTA
* * * * * * * *
48077306 TAAGACCATAGCTGGGCTATTGACATCGATACGGGA-TTACATG
1 TAAGACCATATCTGGGATA-TGGCATTGATATGAGACTT-CGTA
*
48077349 TAAGACCATATCTAGGATATGGCATTG
1 TAAGACCATATCTGGGATATGGCATTG
48077376 GTACAGTACC
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
41 35 0.39
42 25 0.28
43 30 0.33
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATTGATATGAGACTTCGTA
Found at i:48081574 original size:49 final size:49
Alignment explanation
Indices: 48081469--48081640 Score: 224
Period size: 49 Copynumber: 3.5 Consensus size: 49
48081459 AGATGCCGAC
* *
48081469 GCCATGTCCCAGACATGGTCTTACACTAG--TT-AGTACATTAAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTAGCTTTCA-TATATCAAAGTCGAT
* * *
48081517 GCCGTGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAGGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCAAAGTCGAT
* * *
48081566 GCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCAATGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCAAAGTCGAT
*
48081615 GCCATGTCCCAGATAGGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
48081641 GACACATAAC
Statistics
Matches: 110, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
47 13 0.12
48 14 0.13
49 82 0.75
50 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCAAAGTCGAT
Found at i:48088023 original size:20 final size:21
Alignment explanation
Indices: 48087998--48088037 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
48087988 CACTTGGAAT
48087998 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
48088018 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
48088038 TCCTGTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.30, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:48090238 original size:21 final size:22
Alignment explanation
Indices: 48090200--48090240 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
48090190 AATACCTAAA
*
48090200 AATGTGTTTGTGGATTAAATTG
1 AATGTGTTGGTGGATTAAATTG
48090222 AATGTGTTGGT-GATTAAAT
1 AATGTGTTGGTGGATTAAAT
48090241 AAGTTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (22 bp):
AATGTGTTGGTGGATTAAATTG
Found at i:48100077 original size:11 final size:11
Alignment explanation
Indices: 48100061--48100087 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
48100051 CGAATCTGAG
48100061 ATTTTAAATTT
1 ATTTTAAATTT
48100072 ATTTTAAATTT
1 ATTTTAAATTT
48100083 ATTTT
1 ATTTT
48100088 TAGTGTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTTTAAATTT
Found at i:48100675 original size:52 final size:52
Alignment explanation
Indices: 48100598--48100712 Score: 214
Period size: 52 Copynumber: 2.2 Consensus size: 52
48100588 AATTACGATG
*
48100598 ATAAATCG-ACTATGTTTGGCACTTAGTGCGCATTTCAAAATAGCTTCGACT
1 ATAAATAGCACTATGTTTGGCACTTAGTGCGCATTTCAAAATAGCTTCGACT
48100649 ATAAATAGCACTATGTTTGGCACTTAGTGCGCATTTCAAAATAGCTTCGACT
1 ATAAATAGCACTATGTTTGGCACTTAGTGCGCATTTCAAAATAGCTTCGACT
48100701 ATAAATAGCACT
1 ATAAATAGCACT
48100713 TAGTGTACGA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
51 7 0.11
52 55 0.89
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (52 bp):
ATAAATAGCACTATGTTTGGCACTTAGTGCGCATTTCAAAATAGCTTCGACT
Found at i:48106398 original size:20 final size:20
Alignment explanation
Indices: 48106373--48106411 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
48106363 AGAGACTAAA
* *
48106373 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
48106393 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
48106412 TGTGTAACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:48108927 original size:30 final size:30
Alignment explanation
Indices: 48108893--48108953 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
48108883 TCCTTAACTC
48108893 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
48108923 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
48108953 A
1 A
48108954 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:48116754 original size:28 final size:28
Alignment explanation
Indices: 48116691--48116788 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
48116681 ATATTAAGTC
*
48116691 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
48116718 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
48116746 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
48116775 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48116789 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:48125040 original size:28 final size:28
Alignment explanation
Indices: 48124977--48125074 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
48124967 ATATTAAGTC
*
48124977 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
48125004 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
48125032 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
48125061 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48125075 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:48131353 original size:104 final size:104
Alignment explanation
Indices: 48131168--48131375 Score: 380
Period size: 104 Copynumber: 2.0 Consensus size: 104
48131158 ATATCCTTAA
* * * *
48131168 GTACTTGTGAAGGACTAAGGATGCATTCCTTATATATGGAGGGTAGGAAGAGCTGAGTGTAAAAG
1 GTACCTGTGAAGGACTAAGGATACATTCCTCATATATGGAGGGTAGGAAAAGCTGAGTGTAAAAG
48131233 GTTACACTGATGCCAACTTCTAAACCTACAAGGATGATT
66 GTTACACTGATGCCAACTTCTAAACCTACAAGGATGATT
48131272 GTACCTGTGAAGGACTAAGGATACATTCCTCATATATGGAGGGTAGGAAAAGCTGAGTGTAAAAG
1 GTACCTGTGAAGGACTAAGGATACATTCCTCATATATGGAGGGTAGGAAAAGCTGAGTGTAAAAG
48131337 GTTACACTGATGCCAACTTCTAAACCTACAAGGATGATT
66 GTTACACTGATGCCAACTTCTAAACCTACAAGGATGATT
48131376 CACGATCGCA
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
104 100 1.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (104 bp):
GTACCTGTGAAGGACTAAGGATACATTCCTCATATATGGAGGGTAGGAAAAGCTGAGTGTAAAAG
GTTACACTGATGCCAACTTCTAAACCTACAAGGATGATT
Found at i:48140357 original size:38 final size:40
Alignment explanation
Indices: 48140224--48140483 Score: 332
Period size: 40 Copynumber: 6.8 Consensus size: 40
48140214 ATGAACATTG
48140224 GATATATCC-GG-TAAGA-CCGAA-GCAA-TATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
48140259 GACATAT-CGGGCTAAGACCCGAAGGC-ATTAT-CGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
48140296 GATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
48140336 GACATAT-CGGGCTAAGA-CCGAA-GCAA-TATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
48140372 GATATATCCGGGCT-AGACCCGAA-GCAATTATGCGGGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
48140410 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * * *
48140450 CATATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATG
48140484 TTGCGGCTGT
Statistics
Matches: 196, Mismatches: 16, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
34 1 0.01
35 8 0.04
36 24 0.12
37 37 0.19
38 49 0.25
39 22 0.11
40 55 0.28
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:48140390 original size:113 final size:113
Alignment explanation
Indices: 48140227--48140449 Score: 344
Period size: 114 Copynumber: 2.0 Consensus size: 113
48140217 AACATTGGAT
48140227 ATATCCGGTAAGACCGAAGCAATATGCGAGTTGACATATCGGGCTAAGACCCGAAGGC-ATTAT-
1 ATATCCGGTAAGACCGAAGCAATATGCGAGTTGACATATCGGGCTAAGACCCGAA-GCAATTATG
* * *
48140290 CGAGTTGATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTGAC
65 CGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGAC
* *
48140339 ATATCGGGCTAAGACCGAAGCAATATGCGAGTTGATATATCCGGGCT-AGACCCGAAGCAATTAT
1 ATATCCGG-TAAGACCGAAGCAATATGCGAGTTGACATAT-CGGGCTAAGACCCGAAGCAATTAT
*
48140403 GCGGGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
64 GCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
48140450 CATATGTCCG
Statistics
Matches: 101, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
112 9 0.09
113 44 0.44
114 48 0.48
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (113 bp):
ATATCCGGTAAGACCGAAGCAATATGCGAGTTGACATATCGGGCTAAGACCCGAAGCAATTATGC
GAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGAC
Found at i:48154408 original size:80 final size:79
Alignment explanation
Indices: 48154324--48154495 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
48154314 GGACTAAGAT
*
48154324 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
48154388 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
48154404 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
48154469 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
48154483 CCGAAGGCATTTG
1 CCGAAGGCATTTG
48154496 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:48154475 original size:39 final size:39
Alignment explanation
Indices: 48154271--48154493 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
48154261 TTGAATGCTG
* * * * *
48154271 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
48154311 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
48154350 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
48154391 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
48154431 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
48154470 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
48154494 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:48154513 original size:79 final size:80
Alignment explanation
Indices: 48154351--48154528 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
48154341 AGATACAAAT
* * * *
48154351 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
48154416 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
48154431 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
48154495 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
48154510 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
48154529 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:48158779 original size:21 final size:21
Alignment explanation
Indices: 48158755--48158795 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
48158745 TCATCAGATC
*
48158755 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
48158776 TACAGGTTGAGGAATCGGGG
1 TACACCTTGAGGAATCGGGG
48158796 AAGGTGGGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.17, G:0.41, T:0.20
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:48159728 original size:30 final size:30
Alignment explanation
Indices: 48159682--48159742 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
48159672 TTCCTGAGCC
48159682 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * * *
48159712 TAGGGGTAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
48159742 T
1 T
48159743 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:48162334 original size:43 final size:43
Alignment explanation
Indices: 48162273--48162359 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
48162263 TAAAGTATGT
48162273 TTTGGGCTTCGTAGACTCAAATAAGGGACTATGTGTAAGTGAA
1 TTTGGGCTTCGTAGACTCAAATAAGGGACTATGTGTAAGTGAA
48162316 TTTGGGCTTCGTAGACTCAAATAAGGGACTATGTGTAAGTGAA
1 TTTGGGCTTCGTAGACTCAAATAAGGGACTATGTGTAAGTGAA
48162359 T
1 T
48162360 GAATGTTTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.31
Consensus pattern (43 bp):
TTTGGGCTTCGTAGACTCAAATAAGGGACTATGTGTAAGTGAA
Found at i:48165481 original size:43 final size:42
Alignment explanation
Indices: 48165349--48165507 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 42
48165339 TCGGGATATT
* * * **
48165349 ACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATA
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCA-ATA
* * * * * * *
48165391 TCGATGCGACTGTCCCAGACAGGGTTTTACACGAAATCGATGA
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAT-A
*
48165434 ACAATGGCAATGTCCCAGACATGGTCTTACACGAAATCTCAAT-
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGAAA--TCAATA
*
48165477 ACAATGCCAATGTCCTAGACATGGTCTTACA
1 ACAATGCCAATGTCCCAGACATGGTCTTACA
48165508 TGTAATCACA
Statistics
Matches: 91, Mismatches: 22, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
42 7 0.08
43 80 0.88
45 4 0.04
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
ACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAATA
Found at i:48174693 original size:39 final size:39
Alignment explanation
Indices: 48174613--48174696 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
48174603 TTCGATACTT
*
48174613 AATG-TGTAACAACCACATTTTAACTTGGAAATAGGTAC
1 AATGATGTAACAACCACATTTTAACTTGGAAATAAGTAC
48174651 AATGATGTAACAACCACATTTTAACTTGGAAATAAG-AGC
1 AATGATGTAACAACCACATTTTAACTTGGAAATAAGTA-C
48174690 AATGATG
1 AATGATG
48174697 GACTGAGTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
38 5 0.12
39 38 0.88
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (39 bp):
AATGATGTAACAACCACATTTTAACTTGGAAATAAGTAC
Found at i:48181805 original size:46 final size:46
Alignment explanation
Indices: 48181738--48181909 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
48181728 TGTAACCCGC
*
48181738 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* * * *
48181784 CCATAAGTGAACTTGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
48181834 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
48181877 CCATAAGTGAACTCAGACTCAACTCAACGAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT
48181910 TGGATGCTCA
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 56 0.55
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:48181853 original size:93 final size:93
Alignment explanation
Indices: 48181745--48181916 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
48181735 CGCCCATAAG
* * **
48181745 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
48181810 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
48181838 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
48181903 ACGAGTTTGGATGC
66 ACGAGTTCGGATGC
48181917 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:48188955 original size:93 final size:93
Alignment explanation
Indices: 48188846--48189017 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
48188836 CGCCCATAAG
* ***
48188846 CGAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
48188911 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
48188939 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48189004 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
48189018 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:48189014 original size:46 final size:46
Alignment explanation
Indices: 48188839--48189014 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
48188829 TGTAACCCGC
* * ***
48188839 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
48188885 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
48188935 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
48188978 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
48189015 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 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 63 0.58
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48194139 original size:20 final size:18
Alignment explanation
Indices: 48194101--48194146 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
48194091 CCACATGTTG
48194101 CATACA-CAATCATATTT
1 CATACATCAATCATATTT
48194118 CATACATCAATCATACATTT
1 CATACATCAATCAT--ATTT
*
48194138 CATCCATCA
1 CATACATCA
48194147 CACCATAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 6 0.24
18 7 0.28
20 12 0.48
ACGTcount: A:0.39, C:0.28, G:0.00, T:0.33
Consensus pattern (18 bp):
CATACATCAATCATATTT
Found at i:48198561 original size:43 final size:42
Alignment explanation
Indices: 48198513--48198677 Score: 126
Period size: 43 Copynumber: 3.9 Consensus size: 42
48198503 TACCGAGATG
48198513 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACA-TGGCATTGTATTA
* * * * *
48198556 TGATTACGTGTAAGACCATGTCTAGGACAATGGGATCGT-TAA
1 TGATTACATGTAAGACCATGTCTGGGAC-ATGGCATTGTATTA
* * * *
48198598 TCGATTTCATGTAAGATTC-TGTTTGGGACAGTGGC---G-ATATG
1 T-GATTACATGTAAGA-CCATGTCTGGGACA-TGGCATTGTAT-TA
* * *
48198639 TGATAACATGTAAGACCATATCTGGGATATGGCATTGTA
1 TGATTACATGTAAGACCATGTCTGGGACATGGCATTGTA
48198678 CGAGCTATAT
Statistics
Matches: 92, Mismatches: 19, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
39 5 0.05
40 22 0.24
41 1 0.01
42 5 0.05
43 57 0.62
44 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.33
Consensus pattern (42 bp):
TGATTACATGTAAGACCATGTCTGGGACATGGCATTGTATTA
Found at i:48206511 original size:19 final size:19
Alignment explanation
Indices: 48206487--48206523 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
48206477 GGTATTTTTG
*
48206487 ATATGGTTGTTAGAAATGT
1 ATATGGTTATTAGAAATGT
*
48206506 ATATGGTTATTTGAAATG
1 ATATGGTTATTAGAAATG
48206524 GCTTATTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.43
Consensus pattern (19 bp):
ATATGGTTATTAGAAATGT
Found at i:48208715 original size:79 final size:78
Alignment explanation
Indices: 48208615--48208837 Score: 258
Period size: 79 Copynumber: 2.8 Consensus size: 78
48208605 GCTCCTCGTT
* *
48208615 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
48208680 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
48208695 CAAATGCCTTCAGG-CTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTC-GGACTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCG
*
48208757 GAATTAGTATCTCGCA
63 GAATTAGTAACTCGCA
* * * *
48208773 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
48208836 GA
63 GA
48208838 CATCATTCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
77 2 0.02
78 45 0.36
79 57 0.46
80 19 0.15
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:48208732 original size:39 final size:40
Alignment explanation
Indices: 48208615--48208837 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
48208605 GCTCCTCGTT
* *
48208615 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
48208655 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
48208695 CAAATGCCTTCAGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
48208734 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
48208773 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
48208814 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48208838 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 88 0.54
40 63 0.38
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:48216704 original size:79 final size:78
Alignment explanation
Indices: 48216604--48216826 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
48216594 GCTCCTCGTT
* *
48216604 CAAATGCCTTCGAGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCG-GACTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
48216669 ATTTAGTAACTTGCA
64 AATTAGTAACTCGCA
* *
48216684 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGACTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
48216747 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * *
48216762 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
48216825 GA
63 GA
48216827 CATCATTCAA
Statistics
Matches: 123, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
78 46 0.37
79 58 0.47
80 18 0.15
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:48216724 original size:39 final size:39
Alignment explanation
Indices: 48216604--48216826 Score: 233
Period size: 39 Copynumber: 5.6 Consensus size: 39
48216594 GCTCCTCGTT
* * *
48216604 CAAATGCCTTCGAGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCG-GGCTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
48216644 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
48216684 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
48216723 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
48216762 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
48216803 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
48216827 CATCATTCAA
Statistics
Matches: 161, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 93 0.58
40 57 0.35
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:48237736 original size:23 final size:21
Alignment explanation
Indices: 48237676--48237736 Score: 54
Period size: 23 Copynumber: 2.8 Consensus size: 21
48237666 CCTGATCAGC
*
48237676 ATACGACACATAAGTGTTTGA
1 ATACGACACATAAGTGCTTGA
*
48237697 A-ACGACAC-TCGAGGTGCTTGAA
1 ATACGACACAT--AAGTGCTTG-A
48237719 ATACGACACATAAAGTGC
1 ATACGACACAT-AAGTGC
48237737 CTGATTGGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
19 1 0.03
20 7 0.23
21 8 0.26
22 2 0.06
23 12 0.39
24 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (21 bp):
ATACGACACATAAGTGCTTGA
Found at i:48239510 original size:13 final size:13
Alignment explanation
Indices: 48239492--48239518 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48239482 CACTAGACTC
48239492 ATAAATATTTTTA
1 ATAAATATTTTTA
48239505 ATAAATATTTTTA
1 ATAAATATTTTTA
48239518 A
1 A
48239519 ACTCCATTTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATAAATATTTTTA
Found at i:48242810 original size:40 final size:40
Alignment explanation
Indices: 48242723--48242815 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
48242713 GGCTATTTGT
* * *
48242723 GGCATTTAGTGTGCGATTTGACATAGCTTCGGCGATATAT
1 GGCACTTAGTGTGCAATTTGACATAGCTTCGGCGATATAC
* * * *
48242763 GGCACTTAGTGTGCAATTTGAGATAGTTTCGGCTATGTAC
1 GGCACTTAGTGTGCAATTTGACATAGCTTCGGCGATATAC
*
48242803 GGTACTTAGTGTG
1 GGCACTTAGTGTG
48242816 TAAGATATCG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.35
Consensus pattern (40 bp):
GGCACTTAGTGTGCAATTTGACATAGCTTCGGCGATATAC
Found at i:48245804 original size:27 final size:26
Alignment explanation
Indices: 48245769--48245826 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
48245759 AGGACTACCG
* *
48245769 ATTTACCCCTGGAGCGTAAAATGACTA
1 ATTTGCCCCTCGAGCGT-AAATGACTA
* *
48245796 TTTTGCCCCTCGTGCGTAAATGACTA
1 ATTTGCCCCTCGAGCGTAAATGACTA
48245822 ATTTG
1 ATTTG
48245827 TGTGATGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (26 bp):
ATTTGCCCCTCGAGCGTAAATGACTA
Found at i:48246523 original size:31 final size:32
Alignment explanation
Indices: 48246485--48246546 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
48246475 CTCGCTGCAA
* *
48246485 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
48246516 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
48246547 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:48253239 original size:47 final size:47
Alignment explanation
Indices: 48253168--48253573 Score: 652
Period size: 47 Copynumber: 8.6 Consensus size: 47
48253158 CCCTTCGGGA
* * * * * *
48253168 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
48253215 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48253262 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48253309 CTTATCACATAAATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48253356 CTTATCACATATATATACACTTTCACATTCATCACATCGG-CTTTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48253404 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48253451 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48253500 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48253547 CTTATCACATATATACACTGTCACATT
1 CTTATCACATATATACACTTTCACATT
48253574 TATTCAAATA
Statistics
Matches: 339, Mismatches: 15, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
46 30 0.09
47 219 0.65
48 15 0.04
49 75 0.22
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48253246 original size:25 final size:25
Alignment explanation
Indices: 48253218--48253296 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
48253208 ACTCGGCCCT
48253218 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
48253243 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
48253265 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
48253290 ATCACAT
1 ATCACAT
48253297 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:48253539 original size:191 final size:190
Alignment explanation
Indices: 48253168--48253573 Score: 651
Period size: 191 Copynumber: 2.2 Consensus size: 190
48253158 CCCTTCGGGA
* * * *
48253168 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
* *
48253231 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
48253296 TCGGCCATTAGGCCTTATCACATAAATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATAAATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
48253356 CTTATCACATATATATACACTTTCACATTCATCACATCGG-CTTTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
48253420 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
* *
48253485 CATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 CATCGGCCATTAGGCCTTATCACATAAATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48253547 CTTATCAC--ATATATACACTGTCACATT
1 CTTATCACATATATATACACTTTCACATT
48253574 TATTCAAATA
Statistics
Matches: 202, Mismatches: 12, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
188 10 0.05
189 76 0.38
190 24 0.12
191 92 0.46
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATAAATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48258476 original size:40 final size:40
Alignment explanation
Indices: 48258383--48258640 Score: 337
Period size: 40 Copynumber: 6.5 Consensus size: 40
48258373 TGGATGATAA
*
48258383 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* * *
48258424 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48258464 CCGGGCTAAGTCTCGAAGACATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48258504 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48258544 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
48258584 CCGGCCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
48258623 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48258641 TACTTGGCTT
Statistics
Matches: 196, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
38 14 0.07
39 15 0.08
40 140 0.71
41 23 0.12
42 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48272240 original size:28 final size:28
Alignment explanation
Indices: 48272177--48272274 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
48272167 ATATTAAGTC
*
48272177 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
48272204 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
48272232 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
48272261 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48272275 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:48277721 original size:32 final size:32
Alignment explanation
Indices: 48277677--48277738 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
48277667 TAATAGGCCA
*
48277677 CATTTTTCAGGCTCTTCTTTTGTTTTACTAGC
1 CATTTTTCAGGCTCTTCTTTTATTTTACTAGC
*
48277709 CATTTTTTAGGCTCTTCTTTTATTTTACTA
1 CATTTTTCAGGCTCTTCTTTTATTTTACTA
48277739 CTTCTCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.15, C:0.19, G:0.10, T:0.56
Consensus pattern (32 bp):
CATTTTTCAGGCTCTTCTTTTATTTTACTAGC
Found at i:48279408 original size:41 final size:42
Alignment explanation
Indices: 48279342--48279440 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 42
48279332 AAACACCGTA
* * * * *
48279342 AAAAACTGAGCAATAGCGGCTTTTTTAGTCC-AAACGCCGCT
1 AAAAACTGAGCAATAACGACGTTTTTAGACCAAAACCCCGCT
* *
48279383 AAAAACTGAGCAATAATGACGTTTTTGGACCAAAAACCCCGCT
1 AAAAACTGAGCAATAACGACGTTTTTAGACC-AAAACCCCGCT
*
48279426 AAAAACTGAACAATA
1 AAAAACTGAGCAATA
48279441 GCGGTGCTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 25 0.52
43 23 0.48
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.21
Consensus pattern (42 bp):
AAAAACTGAGCAATAACGACGTTTTTAGACCAAAACCCCGCT
Found at i:48279452 original size:43 final size:43
Alignment explanation
Indices: 48279373--48279454 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 43
48279363 TTTTTAGTCC
* * * *
48279373 AAACGCCGCTAAAAACTGAGCAATAATGACGTTTTTGGACCAA
1 AAACCCCGCTAAAAACTGAACAATAACGACGCTTTTGGACCAA
* **
48279416 AAACCCCGCTAAAAACTGAACAATAGCGGTGCTTTTGGA
1 AAACCCCGCTAAAAACTGAACAATAACGACGCTTTTGGA
48279455 AAAACGCCGC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 32 1.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (43 bp):
AAACCCCGCTAAAAACTGAACAATAACGACGCTTTTGGACCAA
Found at i:48279521 original size:50 final size:50
Alignment explanation
Indices: 48279446--48279546 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
48279436 CAATAGCGGT
*
48279446 GCTTTTGGAAAAACGCCGCTATAGATCAAGGTTTTAGCGGCGCTTCTGGA
1 GCTTTTGGAAAAACGCCGCTATAGATCAAGGTTTTAGCGACGCTTCTGGA
* * *
48279496 GCTTTTGGAGAAACGCCGCTATAGATCGAGGTTTTAGCGACGCTTTTGGA
1 GCTTTTGGAAAAACGCCGCTATAGATCAAGGTTTTAGCGACGCTTCTGGA
48279546 G
1 G
48279547 AAACGCCGCT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (50 bp):
GCTTTTGGAAAAACGCCGCTATAGATCAAGGTTTTAGCGACGCTTCTGGA
Found at i:48279553 original size:41 final size:41
Alignment explanation
Indices: 48279496--48279624 Score: 224
Period size: 41 Copynumber: 3.1 Consensus size: 41
48279486 CGCTTCTGGA
48279496 GCTTTTGGAGAAACGCCGCTATAGATCGAGGTTTTAGCGAC
1 GCTTTTGGAGAAACGCCGCTATAGATCGAGGTTTTAGCGAC
*
48279537 GCTTTTGGAGAAACGCCGCTATAGATTGAGGTTTTAGC-AGC
1 GCTTTTGGAGAAACGCCGCTATAGATCGAGGTTTTAGCGA-C
*
48279578 GCTTTTGGAGAAACGCCGCTATAGATCGAGGTTTTAGCGGC
1 GCTTTTGGAGAAACGCCGCTATAGATCGAGGTTTTAGCGAC
48279619 GCTTTT
1 GCTTTT
48279625 TGAAAAATGC
Statistics
Matches: 83, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
40 1 0.01
41 82 0.99
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (41 bp):
GCTTTTGGAGAAACGCCGCTATAGATCGAGGTTTTAGCGAC
Found at i:48280301 original size:14 final size:14
Alignment explanation
Indices: 48280268--48280302 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
48280258 ATTATTTTGG
*
48280268 GGTTTAAGATTTAT
1 GGTTTAAGATTTAA
*
48280282 GATTTAAGATTTAA
1 GGTTTAAGATTTAA
48280296 GGTTTAA
1 GGTTTAA
48280303 TGTCCATGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (14 bp):
GGTTTAAGATTTAA
Found at i:48280357 original size:14 final size:14
Alignment explanation
Indices: 48280347--48280399 Score: 79
Period size: 14 Copynumber: 3.8 Consensus size: 14
48280337 AATGTTTATT
48280347 GTTTTTGGTTTAGA
1 GTTTTTGGTTTAGA
* *
48280361 GTTTTTGATTTAGG
1 GTTTTTGGTTTAGA
*
48280375 GTTTATGGTTTAGA
1 GTTTTTGGTTTAGA
48280389 GTTTTTGGTTT
1 GTTTTTGGTTT
48280400 TTTGTTTTAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.13, C:0.00, G:0.28, T:0.58
Consensus pattern (14 bp):
GTTTTTGGTTTAGA
Found at i:48280372 original size:28 final size:28
Alignment explanation
Indices: 48280341--48280407 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
48280331 TGATATAATG
48280341 TTTATTGTTTTTGGTTTAGAGTTTTTGA
1 TTTATTGTTTTTGGTTTAGAGTTTTTGA
** * *
48280369 TTTAGGGTTTATGGTTTAGAGTTTTTGG
1 TTTATTGTTTTTGGTTTAGAGTTTTTGA
*
48280397 TTTTTTGTTTT
1 TTTATTGTTTT
48280408 ACAGTTAGGA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.12, C:0.00, G:0.24, T:0.64
Consensus pattern (28 bp):
TTTATTGTTTTTGGTTTAGAGTTTTTGA
Found at i:48280832 original size:17 final size:18
Alignment explanation
Indices: 48280812--48280848 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
48280802 AATATTTATT
48280812 TTAATATA-TTAAAATTA
1 TTAATATAGTTAAAATTA
*
48280829 TTAATATAGTTTAAATTA
1 TTAATATAGTTAAAATTA
48280847 TT
1 TT
48280849 TAAGAGGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTAATATAGTTAAAATTA
Found at i:48280851 original size:19 final size:18
Alignment explanation
Indices: 48280811--48280851 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
48280801 TAATATTTAT
48280811 TTTAATATATTAAAATTA
1 TTTAATATATTAAAATTA
*
48280829 -TTAATATAGTTTAAATTA
1 TTTAATATA-TTAAAATTA
48280847 TTTAA
1 TTTAA
48280852 GAGGTGATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 8 0.40
19 4 0.20
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TTTAATATATTAAAATTA
Found at i:48285652 original size:40 final size:40
Alignment explanation
Indices: 48285597--48285804 Score: 301
Period size: 40 Copynumber: 5.2 Consensus size: 40
48285587 CGGATGATAA
* *
48285597 CCGGGCTAAAACCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
48285637 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
48285677 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * *
48285717 CCGGGCTAAGTCCCGAAGGCATTTGGGCTAGTTACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * *
48285757 CCGGGCTAAGACCTGAAGGCATTTATGCAAGTTGCTTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
48285797 CC-GGCTAA
1 CCGGGCTAA
48285805 ATTCCGAAGG
Statistics
Matches: 155, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 6 0.04
40 149 0.96
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:48289000 original size:31 final size:33
Alignment explanation
Indices: 48288962--48289034 Score: 93
Period size: 31 Copynumber: 2.3 Consensus size: 33
48288952 TTGTTGTATT
48288962 TTATTTATTTTTA-TATTT-AATCTA-ATTTTTA
1 TTATTTATTTTTAGT-TTTGAATCTATATTTTTA
*
48288993 TTATTTA-TTTTAGTTTTGATTCTATATTTTTA
1 TTATTTATTTTTAGTTTTGAATCTATATTTTTA
48289025 TT-TTTATTTT
1 TTATTTATTTT
48289035 AATTTGATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
30 8 0.22
31 17 0.46
32 12 0.32
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (33 bp):
TTATTTATTTTTAGTTTTGAATCTATATTTTTA
Found at i:48289009 original size:19 final size:18
Alignment explanation
Indices: 48288961--48289032 Score: 58
Period size: 19 Copynumber: 3.9 Consensus size: 18
48288951 CTTGTTGTAT
48288961 TTTA-TTTATTTTTA-TA
1 TTTATTTTATTTTTATTA
* *
48288977 TTTAATCTAATTTTTATTA
1 TTT-ATTTTATTTTTATTA
* *
48288996 TTTATTTTAGTTTTGATTC
1 TTTATTTTA-TTTTTATTA
*
48289015 TATATTTTTATTTTTATT
1 TTTA-TTTTATTTTTATT
48289033 TTAATTTGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
16 3 0.07
17 1 0.02
18 12 0.28
19 22 0.51
20 5 0.12
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTATTTTATTTTTATTA
Found at i:48289026 original size:6 final size:6
Alignment explanation
Indices: 48288965--48289039 Score: 53
Period size: 6 Copynumber: 12.2 Consensus size: 6
48288955 TTGTATTTTA
* * * * *
48288965 TTTATT TTTATA TTTAAT CTAATT TTTATT ATTTA-T TTTAGTT TTGATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT -TTTATT TTTA-TT TTTATT
* *
48289014 CTATATT TTTATT TTTATT TTAATT T
1 -TTTATT TTTATT TTTATT TTTATT T
48289040 GATAATGAAT
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
5 4 0.08
6 36 0.69
7 12 0.23
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (6 bp):
TTTATT
Found at i:48289075 original size:12 final size:11
Alignment explanation
Indices: 48289042--48289075 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
48289032 TTTAATTTGA
48289042 TAAT-GAATTT
1 TAATAGAATTT
48289052 TAATAGAATTT
1 TAATAGAATTT
48289063 TAATAGAAATTT
1 TAATAG-AATTT
48289075 T
1 T
48289076 TTATATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.18
11 12 0.55
12 6 0.27
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (11 bp):
TAATAGAATTT
Found at i:48290755 original size:12 final size:12
Alignment explanation
Indices: 48290738--48290762 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48290728 TCTTGTAGAA
48290738 TAATCATATTAT
1 TAATCATATTAT
48290750 TAATCATATTAT
1 TAATCATATTAT
48290762 T
1 T
48290763 TTTAGGACAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATCATATTAT
Found at i:48297045 original size:213 final size:216
Alignment explanation
Indices: 48296693--48297097 Score: 636
Period size: 213 Copynumber: 1.9 Consensus size: 216
48296683 GTCGAAGTAA
48296693 ACAACAACATTATAATAATAAAAAACATAAGAAAAAGTCCAAAATACAATAGAAACCTACACCAC
1 ACAACAACATTATAATAATAAAAAACATAAGAAAAAGTCCAAAATACAATAGAAACCTACACCAC
* * *
48296758 TCCAAACAAAAAAAAAAAAAAGAACACAACAAAAGTTCAATTAACCAATAACAATAACAAACCAA
66 TCC--AC--AAAAAAAAAAAAGAACACAACAAAAGCTCAATTAACCAACAACAAAAACAAACCAA
* * *
48296823 ACCAAACTAACAACAATAACACACCAGTTTAAAAACCATTATAGAATAGTTTAAATTTCTTCATG
127 ACCAAACTAACAACAATAACACACCAGTTCAAAAACCATTAAAGAATAATTTAAATTTCTTCATG
48296888 AGTCCAAATAAATAACAAAAACAAT
192 AGTCCAAATAAATAACAAAAACAAT
* * *
48296913 ACAACAACATTGTAATAA-AAAAAACATAAGCAAAAGTCCAAAATACAATAGAAACCTACACCAG
1 ACAACAACATTATAATAATAAAAAACATAAGAAAAAGTCCAAAATACAATAGAAACCTACACCAC
*
48296977 TCC-C-AAAAAAAAAAAGAACACAACAAAAGCTCAATTATCCAACAACAAAAACAAACCAAACCA
66 TCCACAAAAAAAAAAAAGAACACAACAAAAGCTCAATTAACCAACAACAAAAACAAACCAAACCA
* * *
48297040 AACTAATAACAATAACACATCAGTTCAAAAACCATTAAAGAATAATTTAACTTTCTTC
131 AACTAACAACAATAACACACCAGTTCAAAAACCATTAAAGAATAATTTAAATTTCTTC
48297098 TTGTGCTTCA
Statistics
Matches: 172, Mismatches: 13, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
213 107 0.62
216 1 0.01
219 47 0.27
220 17 0.10
ACGTcount: A:0.57, C:0.21, G:0.05, T:0.17
Consensus pattern (216 bp):
ACAACAACATTATAATAATAAAAAACATAAGAAAAAGTCCAAAATACAATAGAAACCTACACCAC
TCCACAAAAAAAAAAAAGAACACAACAAAAGCTCAATTAACCAACAACAAAAACAAACCAAACCA
AACTAACAACAATAACACACCAGTTCAAAAACCATTAAAGAATAATTTAAATTTCTTCATGAGTC
CAAATAAATAACAAAAACAAT
Found at i:48300279 original size:277 final size:265
Alignment explanation
Indices: 48299791--48300322 Score: 868
Period size: 277 Copynumber: 2.0 Consensus size: 265
48299781 TAGCTAATTC
48299791 ATAAGGATACTAATTCATATTTGTTAAGGGTTATTATACATCAAGTGGATAAAGCTAAAATCCCC
1 ATAAGGATACTAATTCATATTTGTTAAGGGTTATTATACATCAAGTGGATAAAGCTAAAATCCCC
* * *
48299856 TGAACCCCCATCGTCCACTGTTATAGGTTTTTTCTTCTTCAATCATTGAAGAAAAATTAGCTAAT
66 GGAACCCCCATCGCCCACTGCTATAGGTTTTTTCTTCTTCAATCATTGAAGAAAAATTAGCTAAT
48299921 TCATAAGGATAAAAATCATACAAGAATTTACTAATTACAACTTGAACAGTAATACAAAATTAATT
131 TCATAAGGATAAAAATCATACAAGAATTTACTAATTACAACTTGAACAGTAATACAAAATTAATT
48299986 AACTAAGTTTTTAAAAAAATTCTTATAAATTAGTAAACCCCTAGGAAATAGATAACACTTAATAA
196 AACTAAGTTTTTAAAAAAA-TCTTATAAATTAGTAAACCCCTAGGAAATAGATAACACTTAATAA
48300051 CACATT
260 CACATT
* *
48300057 ATAATGATACTAATTCATATTTGTTAAGGGTTATTGTACATCAAGTGGAATAGTGGATAAAGCTA
1 ATAAGGATACTAATTCATATTTGTTAAGGGTTATTATACATC-------A-AGTGGATAAAGCTA
*
48300122 AAATCCCCGGAACCCCCATCATCGCCCACTGCTGTAGGTTTTTTCTTCTTCAATCATTGAAGAAA
58 AAATCCCCGGAA-CCCC--CATCGCCCACTGCTATAGGTTTTTTCTTCTTCAATCATTGAAGAAA
* *
48300187 AATTAGCTAATTCATGAGGATAAAAATCATACGAGAATTTACTAATTACAACTTGAACCAGTAAT
120 AATTAGCTAATTCATAAGGATAAAAATCATACAAGAATTTACTAATTACAACTTGAA-CAGTAAT
48300252 ACAAAATTAATTAACTAAG-TTTTAAAAAAATCTTATAAATTAGTAAACCCCTAGGAAATAGATA
184 ACAAAATTAATTAACTAAGTTTTTAAAAAAATCTTATAAATTAGTAAACCCCTAGGAAATAGATA
48300316 ACACTTA
249 ACACTTA
48300323 TTCACTTAAT
Statistics
Matches: 246, Mismatches: 8, Indels: 14
0.92 0.03 0.05
Matches are distributed among these distances:
266 40 0.16
273 1 0.00
274 25 0.10
275 4 0.02
276 41 0.17
277 109 0.44
278 26 0.11
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.32
Consensus pattern (265 bp):
ATAAGGATACTAATTCATATTTGTTAAGGGTTATTATACATCAAGTGGATAAAGCTAAAATCCCC
GGAACCCCCATCGCCCACTGCTATAGGTTTTTTCTTCTTCAATCATTGAAGAAAAATTAGCTAAT
TCATAAGGATAAAAATCATACAAGAATTTACTAATTACAACTTGAACAGTAATACAAAATTAATT
AACTAAGTTTTTAAAAAAATCTTATAAATTAGTAAACCCCTAGGAAATAGATAACACTTAATAAC
ACATT
Found at i:48301663 original size:26 final size:27
Alignment explanation
Indices: 48301612--48301663 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
48301602 ATTCGCTAGA
*
48301612 TAAGTTGCGAACTGAAGGGTTTGCCAGT
1 TAAGTTGCAAACT-AAGGGTTTGCCAGT
48301640 TAAGTTGCAAACT-AGGGTTTGCCA
1 TAAGTTGCAAACTAAGGGTTTGCCA
48301664 ATCACAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 11 0.48
28 12 0.52
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
TAAGTTGCAAACTAAGGGTTTGCCAGT
Found at i:48302283 original size:14 final size:14
Alignment explanation
Indices: 48302264--48302309 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
48302254 TGAACCTATG
48302264 TTTTAAGATATGTT
1 TTTTAAGATATGTT
*
48302278 TTTTAAGATACGATT
1 TTTTAAGATATG-TT
*
48302293 TTATAA-AT-TGTT
1 TTTTAAGATATGTT
48302305 TTTTA
1 TTTTA
48302310 CAAACTTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 6 0.22
13 1 0.04
14 13 0.48
15 7 0.26
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (14 bp):
TTTTAAGATATGTT
Found at i:48305311 original size:41 final size:41
Alignment explanation
Indices: 48305281--48305541 Score: 344
Period size: 41 Copynumber: 6.4 Consensus size: 41
48305271 CGTTTTAGTA
* * *
48305281 AAAAATGCAGCGAAAAA-CAGAGAATTAGCGGCGCTTTTGG
1 AAAAACGCAGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
* *
48305321 CAAAACGCAGCTAAAAACCAGAGCATTAGTGGCGCTTTTGG
1 AAAAACGCAGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
*
48305362 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCAGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
* * * *
48305403 AAAAACGCCGCTAAAAACTAGAGCATTAGAGGCGCTTTTCG
1 AAAAACGCAGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
* *
48305444 CAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCAGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
* * * * *
48305485 CAAAACTCCGCTAAAAATCAGAGCATTAGCGACGCTTTTGG
1 AAAAACGCAGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
* *
48305526 CAAAACGCCGCTAAAA
1 AAAAACGCAGCTAAAA
48305542 GTCATATAAC
Statistics
Matches: 201, Mismatches: 19, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
40 14 0.07
41 187 0.93
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (41 bp):
AAAAACGCAGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
Found at i:48305384 original size:82 final size:82
Alignment explanation
Indices: 48305293--48305541 Score: 392
Period size: 82 Copynumber: 3.0 Consensus size: 82
48305283 AAATGCAGCG
* * *
48305293 AAAAA-CAGAGAATTAGCGGCGCTTTTGGCAAAACGCAGCTAAAAACCAGAGCATTAGTGGCGCT
1 AAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCCGCTAAAAACCAGAGCATTAGAGGCGCT
*
48305357 TTTGGAAAAACGCCGCT
66 TTTGGCAAAACGCCGCT
* *
48305374 AAAAACCAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGCTAAAAACTAGAGCATTAGAGGCGCT
1 AAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCCGCTAAAAACCAGAGCATTAGAGGCGCT
*
48305439 TTTCGCAAAACGCCGCT
66 TTTGGCAAAACGCCGCT
* * * *
48305456 AAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACTCCGCTAAAAATCAGAGCATTAGCGACGCT
1 AAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCCGCTAAAAACCAGAGCATTAGAGGCGCT
48305521 TTTGGCAAAACGCCGCT
66 TTTGGCAAAACGCCGCT
48305538 AAAA
1 AAAA
48305542 GTCATATAAC
Statistics
Matches: 153, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
81 5 0.03
82 148 0.97
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (82 bp):
AAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAACGCCGCTAAAAACCAGAGCATTAGAGGCGCT
TTTGGCAAAACGCCGCT
Found at i:48305469 original size:123 final size:122
Alignment explanation
Indices: 48305293--48305541 Score: 399
Period size: 123 Copynumber: 2.0 Consensus size: 122
48305283 AAATGCAGCG
* * *
48305293 AAAAACAGAGAATTAGCGGCGCTTTTGGCAAAACGCAGCTAAAAACCAGAGCATTAGTGGCGCTT
1 AAAAACAGAGAATTAGAGGCGCTTTTCGCAAAACGCAGCTAAAAACCAGAGCATTAGCGGCGCTT
*
48305358 TTGGAAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGCT
66 TTGGAAAAACGCCGCTAAAAACCAGAGCATTAGCGACGCTTTTGGAAAAACGCCGCT
* *
48305415 AAAAACTAGAGCATTAGAGGCGCTTTTCGCAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCT
1 AAAAAC-AGAGAATTAGAGGCGCTTTTCGCAAAACGCAGCTAAAAACCAGAGCATTAGCGGCGCT
* * * *
48305480 TTTGGCAAAACTCCGCTAAAAATCAGAGCATTAGCGACGCTTTTGGCAAAACGCCGCT
65 TTTGGAAAAACGCCGCTAAAAACCAGAGCATTAGCGACGCTTTTGGAAAAACGCCGCT
48305538 AAAA
1 AAAA
48305542 GTCATATAAC
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
122 6 0.05
123 110 0.95
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (122 bp):
AAAAACAGAGAATTAGAGGCGCTTTTCGCAAAACGCAGCTAAAAACCAGAGCATTAGCGGCGCTT
TTGGAAAAACGCCGCTAAAAACCAGAGCATTAGCGACGCTTTTGGAAAAACGCCGCT
Found at i:48305734 original size:21 final size:21
Alignment explanation
Indices: 48305710--48305790 Score: 81
Period size: 21 Copynumber: 3.7 Consensus size: 21
48305700 ATAGTTTATG
*
48305710 GTTTATGGTTTAAGATATATA
1 GTTTAGGGTTTAAGATATATA
* *
48305731 GTTTAGGGTTTAAGATTTTTGA
1 GTTTAGGGTTTAAGATATAT-A
* *
48305753 GTTAACTATGGTTTAAGATATATG
1 GTT---TAGGGTTTAAGATATATA
48305777 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
48305791 GTTTAGGAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
21 27 0.56
22 4 0.08
24 3 0.06
25 14 0.29
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.46
Consensus pattern (21 bp):
GTTTAGGGTTTAAGATATATA
Found at i:48305781 original size:46 final size:46
Alignment explanation
Indices: 48305713--48305806 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
48305703 GTTTATGGTT
**
48305713 TATGGTTTAAGATATATAGTTTAGGGTTTAAGATTTTTGAGTTAAC
1 TATGGTTTAAGATATATAGTTTAGGGTTTAAGATTTAGGAGTTAAC
* *
48305759 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
1 TATGGTTTAAGATATATAGTTTAGGGTTTAAGATTTAGGAGTTAAC
48305805 TA
1 TA
48305807 GTATTTGAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.44
Consensus pattern (46 bp):
TATGGTTTAAGATATATAGTTTAGGGTTTAAGATTTAGGAGTTAAC
Found at i:48305862 original size:7 final size:7
Alignment explanation
Indices: 48305850--48305923 Score: 53
Period size: 7 Copynumber: 10.6 Consensus size: 7
48305840 GGGATTATAA
48305850 TTTAGGG
1 TTTAGGG
48305857 TTTAGGG
1 TTTAGGG
*
48305864 GTTAGGG
1 TTTAGGG
48305871 -TT-GGAG
1 TTTAGG-G
*
48305877 TTTAAGG
1 TTTAGGG
*
48305884 TGTAAGGG
1 T-TTAGGG
*
48305892 TTTGGGG
1 TTTAGGG
*
48305899 TTAAGGG
1 TTTAGGG
*
48305906 TTAAGGG
1 TTTAGGG
*
48305913 TTTAGAG
1 TTTAGGG
48305920 TTTA
1 TTTA
48305924 TAAAAATAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
5 2 0.04
6 3 0.06
7 42 0.79
8 6 0.11
ACGTcount: A:0.20, C:0.00, G:0.42, T:0.38
Consensus pattern (7 bp):
TTTAGGG
Found at i:48305892 original size:21 final size:22
Alignment explanation
Indices: 48305856--48305923 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 22
48305846 ATAATTTAGG
*
48305856 GTTTAGGGGTT-AGGG-TTGGA
1 GTTTAAGGGTTAAGGGTTTGGA
48305876 GTTTAA-GGTGTAAGGGTTTGG-
1 GTTTAAGGGT-TAAGGGTTTGGA
* *
48305897 GGTTAAGGGTTAAGGGTTTAGA
1 GTTTAAGGGTTAAGGGTTTGGA
48305919 GTTTA
1 GTTTA
48305924 TAAAAATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 3 0.08
20 6 0.15
21 19 0.49
22 11 0.28
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.37
Consensus pattern (22 bp):
GTTTAAGGGTTAAGGGTTTGGA
Found at i:48306441 original size:23 final size:23
Alignment explanation
Indices: 48306380--48306442 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
48306370 TAATATCCTA
*
48306380 TATATGTAATTGTATTTAAATTT
1 TATATGTAATTGTATTAAAATTT
*
48306403 T-TAATTTATATT-TATTAAAATTT
1 TAT-ATGTA-ATTGTATTAAAATTT
48306426 TATATGTAATTGTATTA
1 TATATGTAATTGTATTA
48306443 GCATTTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
22 4 0.12
23 25 0.76
24 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (23 bp):
TATATGTAATTGTATTAAAATTT
Found at i:48310666 original size:40 final size:40
Alignment explanation
Indices: 48310620--48310729 Score: 186
Period size: 40 Copynumber: 2.8 Consensus size: 40
48310610 GCTCCTCGTT
* *
48310620 CAAATGCCTTCGGGACATAGCCCGG-TTGTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
48310660 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
48310700 CAAATGCCTTCGGGACTTAACCCGGATTTA
1 CAAATGCCTTCGGGACTTAACCCGGATTTA
48310730 CCTTCGGGAC
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 65 0.97
41 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:48310733 original size:24 final size:24
Alignment explanation
Indices: 48310706--48310753 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
48310696 CGCACAAATG
48310706 CCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACTTAACCCGGATTTA
48310730 CCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACTTAACCCGGATTTA
48310754 GTATCTCGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (24 bp):
CCTTCGGGACTTAACCCGGATTTA
Found at i:48310767 original size:64 final size:64
Alignment explanation
Indices: 48310666--48310793 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
48310656 CGCACAAATG
48310666 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
*
48310730 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
48310794 GTATCTCGCA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (64 bp):
CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
Found at i:48310830 original size:40 final size:40
Alignment explanation
Indices: 48310730--48310816 Score: 165
Period size: 40 Copynumber: 2.2 Consensus size: 40
48310720 CCCGGATTTA
*
48310730 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
48310770 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
48310810 CCTTCGG
1 CCTTCGG
48310817 ATCTTAGTCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
Found at i:48310830 original size:104 final size:104
Alignment explanation
Indices: 48310626--48310816 Score: 321
Period size: 104 Copynumber: 1.8 Consensus size: 104
48310616 CGTTCAAATG
*
48310626 CCTTCGGGACATAGCCCGGTTGTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
1 CCTTCGGGACATAACCCGGTTGTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
*
48310691 TAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
66 TAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATTTA
* *
48310730 CCTTCGGGACTTAACCCGGATT-TAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACATAACCCGG-TTGTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
*
48310794 GTATCTCGCACAAAGGCCTTCGG
65 GTAACTCGCACAAAGGCCTTCGG
48310817 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
104 79 0.98
105 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (104 bp):
CCTTCGGGACATAACCCGGTTGTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
TAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATTTA
Found at i:48319391 original size:40 final size:40
Alignment explanation
Indices: 48319345--48319454 Score: 186
Period size: 40 Copynumber: 2.8 Consensus size: 40
48319335 GCTCCTCGTT
* *
48319345 CAAATGCCTTCGGGACATAGCCCGG-TTGTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
48319385 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
48319425 CAAATGCCTTCGGGACTTAACCCGGATTTA
1 CAAATGCCTTCGGGACTTAACCCGGATTTA
48319455 CCTTCGGGAC
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 65 0.97
41 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:48319458 original size:24 final size:24
Alignment explanation
Indices: 48319431--48319478 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
48319421 CGCACAAATG
48319431 CCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACTTAACCCGGATTTA
*
48319455 CCTTCGGGACTTAACTCGGATTTA
1 CCTTCGGGACTTAACCCGGATTTA
48319479 GTATCTCGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (24 bp):
CCTTCGGGACTTAACCCGGATTTA
Found at i:48319492 original size:64 final size:64
Alignment explanation
Indices: 48319391--48319518 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
48319381 CGCACAAATG
48319391 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
* *
48319455 CCTTCGGGACTTAACTCGGATTTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
48319519 GTATCTCGCA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (64 bp):
CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
Found at i:48319555 original size:40 final size:40
Alignment explanation
Indices: 48319455--48319541 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 40
48319445 CCCGGATTTA
* *
48319455 CCTTCGGGACTTAACTCGGATTTAGTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
48319495 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
48319535 CCTTCGG
1 CCTTCGG
48319542 ATCTTAGTCC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
Found at i:48319555 original size:104 final size:104
Alignment explanation
Indices: 48319351--48319541 Score: 312
Period size: 104 Copynumber: 1.8 Consensus size: 104
48319341 CGTTCAAATG
*
48319351 CCTTCGGGACATAGCCCGGTTGTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
1 CCTTCGGGACATAACCCGGTTGTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
*
48319416 TAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
66 TAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATTTA
* * *
48319455 CCTTCGGGACTTAACTCGGATT-TAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACATAACCCGG-TTGTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
*
48319519 GTATCTCGCACAAAGGCCTTCGG
65 GTAACTCGCACAAAGGCCTTCGG
48319542 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
104 78 0.98
105 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (104 bp):
CCTTCGGGACATAACCCGGTTGTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
TAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATTTA
Found at i:48324258 original size:46 final size:49
Alignment explanation
Indices: 48324175--48324270 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 49
48324165 TTCTTCTTCT
*
48324175 CAATATTTTGATAATGAATTTTAATTTTTTTATAATTTTTAGGACTTTTA
1 CAATATTTTGATAAT-AATTTTAATTTTTTTATAATTTTTAGGACCTTTA
* *
48324225 CAATATTTT-ATAAT-ATTTT-ATTTTTTTTTAATTTTTATGACCTTTA
1 CAATATTTTGATAATAATTTTAATTTTTTTATAATTTTTAGGACCTTTA
48324271 GCGGCGTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
46 24 0.56
47 5 0.12
49 5 0.12
50 9 0.21
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (49 bp):
CAATATTTTGATAATAATTTTAATTTTTTTATAATTTTTAGGACCTTTA
Found at i:48324330 original size:43 final size:43
Alignment explanation
Indices: 48324261--48324364 Score: 163
Period size: 43 Copynumber: 2.4 Consensus size: 43
48324251 TTTAATTTTT
* *
48324261 ATGACCTTTAGCGGCGTTTTTTGGAAAAACGCCGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTC
* * *
48324304 CTGACCTTTGGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTC
48324347 ATGACCTTTAGCGGCGTT
1 ATGACCTTTAGCGGCGTT
48324365 GTTTTTAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (43 bp):
ATGACCTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTC
Found at i:48327617 original size:18 final size:18
Alignment explanation
Indices: 48327594--48327630 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
48327584 CGTCTTCTCG
48327594 AGCAAAAGAAACTCACCA
1 AGCAAAAGAAACTCACCA
48327612 AGCAAAAGAAACTCACCA
1 AGCAAAAGAAACTCACCA
48327630 A
1 A
48327631 ACATTTTCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.27, G:0.11, T:0.05
Consensus pattern (18 bp):
AGCAAAAGAAACTCACCA
Found at i:48330615 original size:30 final size:30
Alignment explanation
Indices: 48330581--48330640 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
48330571 ATTTAATACG
48330581 AACTTTGGAAAAATTAAACTTTTGCCCCTA
1 AACTTTGGAAAAATTAAACTTTTGCCCCTA
* * * **
48330611 AACTTTTGCATAATTACGCTTTTGCCCCTA
1 AACTTTGGAAAAATTAAACTTTTGCCCCTA
48330641 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTAAACTTTTGCCCCTA
Found at i:48335578 original size:21 final size:22
Alignment explanation
Indices: 48335552--48335593 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
48335542 AATGTAATCT
48335552 AGTTATTTAAATC-GA-GTTTTA
1 AGTTA-TTAAATCTGAGGTTTTA
48335573 AGTTATTAAATCTGAGGTTTT
1 AGTTATTAAATCTGAGGTTTT
48335594 GTGTAAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 7 0.37
22 5 0.26
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.48
Consensus pattern (22 bp):
AGTTATTAAATCTGAGGTTTTA
Found at i:48337911 original size:24 final size:24
Alignment explanation
Indices: 48337884--48337954 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
48337874 CAGCTCGAAA
* *
48337884 GAGCATCCCGTTATTAGCTCTTAT
1 GAGCTTCCCGTTATTAGCTCTTAC
* * * *
48337908 GAGCTTCCTGTTATATGGTTCTTGC
1 GAGCTTCCCGTTAT-TAGCTCTTAC
*
48337933 GAGCTTCCCGTTAATAGCTCTT
1 GAGCTTCCCGTTATTAGCTCTT
48337955 TGGAGTATCT
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
24 18 0.50
25 18 0.50
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (24 bp):
GAGCTTCCCGTTATTAGCTCTTAC
Found at i:48338109 original size:23 final size:24
Alignment explanation
Indices: 48338064--48338115 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
48338054 CTTGCTTGAA
* **
48338064 CTTCCCAAGATTGGCTCGTATGAG
1 CTTCCCAACATTGGCTCACATGAG
48338088 CTTCCCAACA-TGGCTCACATGAG
1 CTTCCCAACATTGGCTCACATGAG
48338111 CTTCC
1 CTTCC
48338116 TGTTATATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.21, C:0.33, G:0.19, T:0.27
Consensus pattern (24 bp):
CTTCCCAACATTGGCTCACATGAG
Found at i:48339833 original size:39 final size:39
Alignment explanation
Indices: 48339790--48339930 Score: 212
Period size: 39 Copynumber: 3.6 Consensus size: 39
48339780 CATATTCACT
* *
48339790 TTTAAGCA-AGTATCACATTACACATATAATCACATAACA
1 TTTAAGCATA-TATCACAATACTCATATAATCACATAACA
48339829 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * *
48339868 TTTAAGCATATATCACAATGCTCATATAATAACATAACG
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
48339907 TTCAAGCATATATCACAATACTCA
1 TTTAAGCATATATCACAATACTCA
48339931 AAAACATGTT
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 93 0.99
40 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.30
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:48341160 original size:24 final size:24
Alignment explanation
Indices: 48341128--48341174 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
48341118 CTGTCAGGAG
**
48341128 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
48341152 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
48341175 GGAAATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.23
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:48342697 original size:54 final size:54
Alignment explanation
Indices: 48342593--48342704 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
48342583 AGGAAGCGTC
*
48342593 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTAATCTGGTGACTCTGCCACATATATCTGTT
* * * * *
48342647 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCT-AATCTGGTGACTCTGCCACATATATCTGTT
48342701 CTGG
1 CTGG
48342705 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTAATCTGGTGACTCTGCCACATATATCTGTT
Found at i:48342698 original size:27 final size:26
Alignment explanation
Indices: 48342593--48342704 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
48342583 AGGAAGCGTC
* **
48342593 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
48342620 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
48342647 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
48342675 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
48342701 CTGG
1 CTGG
48342705 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.09
27 52 0.69
28 16 0.21
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:48346794 original size:51 final size:51
Alignment explanation
Indices: 48346701--48346800 Score: 128
Period size: 51 Copynumber: 2.0 Consensus size: 51
48346691 CTACCTTATA
** ** *
48346701 ACATGTAACACATCCATAATGAACTCGGACCTTTCAATGAGCTCAGATGTT
1 ACATGTAACACATCCATAATGAACTAAGACCACTCAACGAGCTCAGATGTT
* * *
48346752 ACATGTATCACATCCATTATGAACTAAGACCACTCAACGAGCTCGGATG
1 ACATGTAACACATCCATAATGAACTAAGACCACTCAACGAGCTCAGATG
48346801 CCACATATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (51 bp):
ACATGTAACACATCCATAATGAACTAAGACCACTCAACGAGCTCAGATGTT
Found at i:48346812 original size:51 final size:51
Alignment explanation
Indices: 48346709--48346812 Score: 118
Period size: 51 Copynumber: 2.0 Consensus size: 51
48346699 TAACATGTAA
** ** * ** *
48346709 CACATCCATAATGAACTCGGACCTTTCAATGAGCTCAGATGTTACATGTAT
1 CACATCCATAATGAACTAAGACCACTCAACGAGCTCAGATGCCACATATAT
* *
48346760 CACATCCATTATGAACTAAGACCACTCAACGAGCTCGGATGCCACATATAT
1 CACATCCATAATGAACTAAGACCACTCAACGAGCTCAGATGCCACATATAT
48346811 CA
1 CA
48346813 TGAACTTGGA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (51 bp):
CACATCCATAATGAACTAAGACCACTCAACGAGCTCAGATGCCACATATAT
Found at i:48362113 original size:23 final size:23
Alignment explanation
Indices: 48362069--48362113 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
48362059 ATTTTTCATA
*
48362069 AATTATTTCACAATGAATAACAC
1 AATTATTTCACAATGAAGAACAC
*
48362092 AATTATATT-ACAATTAAGAACA
1 AATTAT-TTCACAATGAAGAACA
48362114 TACATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.31
Consensus pattern (23 bp):
AATTATTTCACAATGAAGAACAC
Found at i:48373349 original size:46 final size:46
Alignment explanation
Indices: 48373299--48373474 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
48373289 TGGTTGAGCA
* *
48373299 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
48373345 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
48373392 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
48373438 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48373475 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 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:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:48373455 original size:93 final size:93
Alignment explanation
Indices: 48373296--48373467 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
48373286 GGATGGTTGA
* * * *
48373296 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
*
48373361 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* *
48373389 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
48373454 TGAGTCCAAGTTCG
66 TGAGTCCAAGTTCG
48373468 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:48375104 original size:40 final size:40
Alignment explanation
Indices: 48375011--48375227 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
48375001 AAGCCAAGTA
* * *
48375011 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
48375049 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48375089 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
48375129 CCTTTGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
48375169 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
48375209 CCTTCAGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48375228 TTATCATCCA
Statistics
Matches: 161, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
38 12 0.07
39 18 0.11
40 131 0.81
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48379783 original size:15 final size:15
Alignment explanation
Indices: 48379763--48379824 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
48379753 TCTTGGGTTT
48379763 CTTTATTCTGGATTC
1 CTTTATTCTGGATTC
*
48379778 CTTTATTCTGGATTT
1 CTTTATTCTGGATTC
* *
48379793 CTCTA-TCTTGGATTT
1 CTTTATTC-TGGATTC
*
48379808 CTTTATTC-GGTTTC
1 CTTTATTCTGGATTC
48379822 CTT
1 CTT
48379825 GTTATCTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 9 0.22
15 29 0.73
16 2 0.05
ACGTcount: A:0.11, C:0.19, G:0.13, T:0.56
Consensus pattern (15 bp):
CTTTATTCTGGATTC
Done.