Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 227 of 332
Found at i:75388770 original size:20 final size:20
Alignment explanation
Indices: 75388731--75388770 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
75388721 TGATTTCATA
*
75388731 AAATTTTTATAAGTGTTTGG
1 AAATTTTTATAAGTGATTGG
*
75388751 AAATTTTTATATGTGATTGG
1 AAATTTTTATAAGTGATTGG
75388771 TTTAGTCCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (20 bp):
AAATTTTTATAAGTGATTGG
Found at i:75392962 original size:42 final size:42
Alignment explanation
Indices: 75392910--75393039 Score: 215
Period size: 42 Copynumber: 3.1 Consensus size: 42
75392900 CTAAGTCCGG
* * *
75392910 ATATAGTACCAGCACTAAGCATGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
*
75392952 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCTGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
*
75392994 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGTATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
75393036 ATAT
1 ATAT
75393040 TATATCGAGA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (42 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
Found at i:75399536 original size:42 final size:42
Alignment explanation
Indices: 75399484--75399695 Score: 356
Period size: 42 Copynumber: 5.1 Consensus size: 42
75399474 CAAAGTCCAG
* * * *
75399484 ATATAGTACCAGTACTAAGCCCGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
75399526 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
*
75399568 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGTATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
75399610 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG--AT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
*
75399650 ATATATGACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
75399692 ATAT
1 ATAT
75399696 TATATCGAGA
Statistics
Matches: 161, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
40 39 0.24
42 122 0.76
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (42 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
Found at i:75401498 original size:93 final size:93
Alignment explanation
Indices: 75401339--75401509 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
75401329 GGATGGTTGA
* * *
75401339 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATAGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
75401404 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
75401432 GCATCCGAGCTCGTTGAGTTGAGTAC-GAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGT-CTGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAG
*
75401496 TTGAGTTCGAGTTC
65 TTGAGTCCGAGTTC
75401510 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 69 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:75401516 original size:46 final size:46
Alignment explanation
Indices: 75401343--75401517 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 46
75401333 GGTTGAGCAT
* * *
75401343 CCGAACTCGTTGAGTTGAG-TCTGAGTTCACTTATAGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTTC-GAGTTCACTTATGGATGCGAACGC
* * *** * * * *
75401389 CCGAACTTGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGC
1 CCGAACTCGTTGAGTTGAGTTCGAGTTC-ACTTATGGATGCGAACGC
* *
75401434 ATCCGAGCTCGTTGAGTTGAGTACGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGC
*
75401482 CCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGG
75401518 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
45 2 0.02
46 65 0.64
47 31 0.31
48 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGC
Found at i:75409760 original size:16 final size:16
Alignment explanation
Indices: 75409739--75409770 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
75409729 AAGGCAGTAA
75409739 GGTATTCGGTGTAGGG
1 GGTATTCGGTGTAGGG
75409755 GGTATTCGGTGTAGGG
1 GGTATTCGGTGTAGGG
75409771 AGCAAAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.50, T:0.31
Consensus pattern (16 bp):
GGTATTCGGTGTAGGG
Found at i:75418573 original size:37 final size:37
Alignment explanation
Indices: 75418523--75418601 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
75418513 TTATTACGAA
* *
75418523 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
75418560 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
75418597 GTCTT
1 GTCTT
75418602 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:75418798 original size:47 final size:47
Alignment explanation
Indices: 75418720--75419255 Score: 901
Period size: 47 Copynumber: 11.4 Consensus size: 47
75418710 CCCTTCGGGA
* * * * * * *
75418720 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
75418767 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75418814 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75418861 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
75418908 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
75418955 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
75419002 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
75419049 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* **
75419096 TTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
75419143 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
75419190 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75419237 CTTATCACATATATACACT
1 CTTATCACATATATACACT
75419256 GTCTTGGCTG
Statistics
Matches: 460, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 460 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:75424268 original size:27 final size:27
Alignment explanation
Indices: 75424236--75424415 Score: 159
Period size: 27 Copynumber: 6.6 Consensus size: 27
75424226 TTAAATGTAC
75424236 AGCACTAAG-GTGCGATTTGACTATGCT
1 AGCACTAAGTGTGCGATTTGACTATG-T
* ** *
75424263 TGCACTAAGTTGTGCGAAAATGAATATG-
1 AGCACTAAG-TGTGCG-ATTTGACTATGT
* * *
75424291 AGCACTAAGTGTGCGAGATTGACCATGC
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
75424319 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
75424347 AG-ACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
75424373 AGCACTAAGTGTGCGAGTTGATTAATAT
1 AGCACTAAGTGTGCGATTTGACT-ATGT
*
75424401 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
75424416 GACTCATAAC
Statistics
Matches: 127, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
26 12 0.09
27 53 0.42
28 49 0.39
29 5 0.04
30 8 0.06
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:75424296 original size:55 final size:56
Alignment explanation
Indices: 75424236--75424388 Score: 163
Period size: 55 Copynumber: 2.8 Consensus size: 56
75424226 TTAAATGTAC
*
75424236 AGCACTAAG-GTGCGATTTGACTATGCTTGCACTAAGTTGTGCGAAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGCTAGCACTAAG-TGTGCGAAAATGAATATGT
* * * *** *
75424291 AGCACTAAGTGTGCGAGATTGACCATGC-GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGCTAGCACTAAGTGTGCGAAAATGAATATGT
* *
75424347 AG-ACTAAGTGTGCGATTTGATTACG-TAGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGATTTGACTATGCTAGCACTAAGTGTGCGA
75424389 GTTGATTAAT
Statistics
Matches: 82, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
54 21 0.26
55 36 0.44
56 16 0.20
57 9 0.11
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (56 bp):
AGCACTAAGTGTGCGATTTGACTATGCTAGCACTAAGTGTGCGAAAATGAATATGT
Found at i:75431314 original size:27 final size:27
Alignment explanation
Indices: 75431283--75431459 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
75431273 TAAATTGTAC
*
75431283 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
75431310 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
75431336 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
75431364 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
75431392 AGCACTAAGTGTGCG-ATTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
75431418 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
75431445 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
75431460 GACTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 23 0.18
27 81 0.64
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:75431429 original size:81 final size:81
Alignment explanation
Indices: 75431284--75431438 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 81
75431274 AAATTGTACA
* *
75431284 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
75431349 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* *
75431365 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG-ATTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
75431428 GTGCGAGTTGA
64 GTGCGAATTGA
75431439 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 1 0.01
81 41 0.61
82 25 0.37
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:75431450 original size:81 final size:81
Alignment explanation
Indices: 75431280--75431459 Score: 229
Period size: 81 Copynumber: 2.2 Consensus size: 81
75431270 GATTAAATTG
* *
75431280 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
75431345 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * *
75431361 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG-ATTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
75431424 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
75431442 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
75431460 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.01
81 58 0.69
82 25 0.30
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:75442693 original size:27 final size:27
Alignment explanation
Indices: 75442637--75442697 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
75442627 TACCATACAT
* * *
75442637 GGGTATTACGGTCATTTTACACTATTG
1 GGGTATTACGATCATTTTACACAATGG
75442664 GGGTATTACGATCATTTTACA-AATCGG
1 GGGTATTACGATCATTTTACACAAT-GG
75442691 GGGTATT
1 GGGTATT
75442698 TTGGTACTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.38
Consensus pattern (27 bp):
GGGTATTACGATCATTTTACACAATGG
Found at i:75458225 original size:68 final size:67
Alignment explanation
Indices: 75458153--75458302 Score: 157
Period size: 71 Copynumber: 2.2 Consensus size: 67
75458143 ATACTATGTA
* *
75458153 GTAGCTAGGTCACATGTGTGA-TAC-AG-GATGTATC-CCATGTAGACAAGAGAGCTACGGGAGA
1 GTAGCTAGGTCACATGTGTGATTACAAGTGAAGGA-CACCATGTAGACAAGAGAGCTAC---A-A
75458214 GATAAAT
61 GATAAAT
** * *
75458221 GTAGCTAGGTCGTAGGTGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACAAGATAA
1 GTAGCTAGGTCACATGTGTGATTACAAGTGAAGGACACCATGTAGACAAGAGAGCTACAAGATAA
75458286 AT
66 AT
*
75458288 -TGGCTAGGTCACATG
1 GTAGCTAGGTCACATG
75458303 GGTGGTACTA
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
66 11 0.16
67 8 0.12
68 19 0.28
69 2 0.03
70 3 0.04
71 25 0.37
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.22
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATTACAAGTGAAGGACACCATGTAGACAAGAGAGCTACAAGATAA
AT
Found at i:75462077 original size:30 final size:30
Alignment explanation
Indices: 75462043--75462104 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
75462033 CTCTTTATTT
75462043 ATTTTACTTAGTTAAAAATCTTAGTTTTTA
1 ATTTTACTTAGTTAAAAATCTTAGTTTTTA
75462073 ATTTTACTTAGTTAAAAATCTTAGTTTTTA
1 ATTTTACTTAGTTAAAAATCTTAGTTTTTA
75462103 AT
1 AT
75462105 CACCTCGTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (30 bp):
ATTTTACTTAGTTAAAAATCTTAGTTTTTA
Found at i:75462372 original size:15 final size:15
Alignment explanation
Indices: 75462352--75462382 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
75462342 CGTCAAGCCA
75462352 CTTAATAACCTCTTT
1 CTTAATAACCTCTTT
*
75462367 CTTAATAACTTCTTT
1 CTTAATAACCTCTTT
75462382 C
1 C
75462383 ATGATCAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (15 bp):
CTTAATAACCTCTTT
Found at i:75469971 original size:29 final size:29
Alignment explanation
Indices: 75469934--75470011 Score: 129
Period size: 29 Copynumber: 2.7 Consensus size: 29
75469924 AATCTTATTA
*
75469934 ATATGGCCCATCAAGCCCAATTCATACTC
1 ATATGGCCCATCAGGCCCAATTCATACTC
*
75469963 ATATGGCCCATCAGGCCCAATTCATATTC
1 ATATGGCCCATCAGGCCCAATTCATACTC
*
75469992 ATATGGCCCATTAGGCCCAA
1 ATATGGCCCATCAGGCCCAA
75470012 ATCACCTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.24
Consensus pattern (29 bp):
ATATGGCCCATCAGGCCCAATTCATACTC
Found at i:75470024 original size:29 final size:29
Alignment explanation
Indices: 75469900--75470027 Score: 107
Period size: 29 Copynumber: 4.4 Consensus size: 29
75469890 ATCCCTACAT
* *
75469900 ACATGCATATGGCCCA-CTTGGCCC-AATC
1 ACATTCATATGGCCCATC-AGGCCCAAATC
** * * *
75469928 TTATTAATATGGCCCATCAAGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAAATC
* * *
75469957 ATACTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAAATC
* *
75469986 ATATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAAATC
* *
75470015 ACCTTTATATGGC
1 ACATTCATATGGC
75470028 TGATGCGTGA
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
28 16 0.20
29 65 0.80
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATCAGGCCCAAATC
Found at i:75470027 original size:58 final size:57
Alignment explanation
Indices: 75469905--75470015 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 57
75469895 TACATACATG
* * *
75469905 CATATGGCCCACTTGGCCCAATCTTATTAATATGGCCCATCAAGCCCAATTCATACT
1 CATATGGCCCACTAGGCCCAATCATATTAATATGGCCCATCAAGCCCAAATCATACT
* * *
75469962 CATATGGCCCA-TCAGGCCCAATTCATATTCATATGGCCCATTAGGCCCAAATCA
1 CATATGGCCCACT-AGGCCCAA-TCATATTAATATGGCCCATCAAGCCCAAATCA
75470016 CCTTTATATG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 1 0.02
57 18 0.39
58 27 0.59
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.26
Consensus pattern (57 bp):
CATATGGCCCACTAGGCCCAATCATATTAATATGGCCCATCAAGCCCAAATCATACT
Found at i:75470835 original size:15 final size:17
Alignment explanation
Indices: 75470805--75470837 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
75470795 GAAAACATCT
75470805 CAAAAGCATAAAGAAAA
1 CAAAAGCATAAAGAAAA
75470822 CAAAA-CAT-AAGAAAA
1 CAAAAGCATAAAGAAAA
75470837 C
1 C
75470838 CCAAAACTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.70, C:0.15, G:0.09, T:0.06
Consensus pattern (17 bp):
CAAAAGCATAAAGAAAA
Found at i:75486172 original size:43 final size:43
Alignment explanation
Indices: 75486113--75486237 Score: 184
Period size: 42 Copynumber: 3.0 Consensus size: 43
75486103 ATTGTATAAT
75486113 TAAT-TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
75486155 TAATATCGGGCCTCGAGCCTAGCAAGCT-TAATGCAGGTGAAA
1 TAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
75486197 TAATATCGGGCTTCGAGCCTAGTAGGCGA-AATGCCGGTGAA
1 TAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
75486238 TGAATTCAGA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 52 0.71
43 21 0.29
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (43 bp):
TAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:75487908 original size:27 final size:27
Alignment explanation
Indices: 75487859--75487910 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
75487849 CTATTCAGAA
* *
75487859 ATCAATGTTAATTGGGCCTTAGCCCAT
1 ATCAATATTAATTGGGCCATAGCCCAT
75487886 ATCAATATTAATATGGG-CATAGCCC
1 ATCAATATTAAT-TGGGCCATAGCCC
75487911 CTTATAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (27 bp):
ATCAATATTAATTGGGCCATAGCCCAT
Found at i:75488053 original size:19 final size:20
Alignment explanation
Indices: 75488011--75488053 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
75488001 CCATATTAAC
** *
75488011 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
75488031 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
75488050 ACAG
1 ACAG
75488054 CCTCATATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:75489507 original size:27 final size:27
Alignment explanation
Indices: 75489477--75489658 Score: 127
Period size: 27 Copynumber: 6.8 Consensus size: 27
75489467 CAAATTGTAA
** *
75489477 AATTACTAAAGTACCCTCGATTTATAG
1 AATTACTAATTTACCCTCGATTTACAG
*
75489504 AATTATCGT--TTTACCCTCGATTTATAG
1 AATTA-C-TAATTTACCCTCGATTTACAG
*** *
75489531 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACTAATTTACCCTCGATTTACAG
**
75489558 AATTACTGTTTTACCCT-GATTTACAG
1 AATTACTAATTTACCCTCGATTTACAG
** * *
75489584 AATTACTGTTTTACCCTTGATTTACAA
1 AATTACTAATTTACCCTCGATTTACAG
** * * *
75489611 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACTAATTTACCCTCGATTTACAG
* **
75489638 AATTACCAAAATACCCTCGAT
1 AATTACTAATTTACCCTCGAT
75489659 CAGTAAAATT
Statistics
Matches: 136, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
26 26 0.19
27 108 0.79
28 1 0.01
29 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.38
Consensus pattern (27 bp):
AATTACTAATTTACCCTCGATTTACAG
Found at i:75489536 original size:54 final size:53
Alignment explanation
Indices: 75489477--75489590 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 53
75489467 CAAATTGTAA
*
75489477 AATTACTAAAGTACCCTCGATTTATAGAATTA-TCGTTTTACCCTCGATTTATAG
1 AATTACTAAAGTACCCTCGATTTATAGAATTACT-GTTTTACCCT-GATTTACAG
*****
75489531 AATTACCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTGATTTACAG
1 AATTACTAAAGTACCCTCGATTTATAGAATTACTGTTTTACCCTGATTTACAG
75489584 AATTACT
1 AATTACT
75489591 GTTTTACCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 14 0.27
54 37 0.71
55 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (53 bp):
AATTACTAAAGTACCCTCGATTTATAGAATTACTGTTTTACCCTGATTTACAG
Found at i:75489606 original size:53 final size:55
Alignment explanation
Indices: 75489488--75489617 Score: 194
Period size: 53 Copynumber: 2.4 Consensus size: 55
75489478 ATTACTAAAG
*
75489488 TACCCTCGATTTATAGAATTA-TCGTTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTCGTTTTACCCTCGATTTACAGAATTACCGTTT
*
75489542 TACCCTCGATTTATAGAATTACT-GTTTTACCCT-GATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTCGTTTTACCCTCGATTTACAGAATTACCGTTT
* * *
75489595 TACCCTTGATTTACAAAATTACT
1 TACCCTCGATTTATAGAATTACT
75489618 AAAATACCCT
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
53 38 0.54
54 31 0.44
55 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (55 bp):
TACCCTCGATTTATAGAATTACTCGTTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:75489626 original size:53 final size:53
Alignment explanation
Indices: 75489515--75489644 Score: 143
Period size: 53 Copynumber: 2.4 Consensus size: 53
75489505 ATTATCGTTT
* * * ****
75489515 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCT-GATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
* *
75489569 TACCCTGATTTACAGAATTACTGTTTTACCCTTGATTTACAAAATTACTAAAA
1 TACCCTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
* *
75489622 TACCCTTGGTTTACAAAATTACC
1 TACCC-TGATTTACAGAATTACC
75489645 AAAATACCCT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
53 43 0.68
54 20 0.32
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (53 bp):
TACCCTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
Found at i:75489666 original size:27 final size:27
Alignment explanation
Indices: 75489595--75489841 Score: 214
Period size: 27 Copynumber: 9.2 Consensus size: 27
75489585 ATTACTGTTT
* ** *
75489595 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * **
75489622 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
**
75489649 TACCCTCGATCAGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * * *
75489676 TACCCTAG-CTTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * *
75489702 TACCC-CTGGTTTGTAAAATTATCGAAA
1 TACCCTC-GATTTGTAAAATTACCAAAA
** *
75489729 TTTCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
75489756 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
* *
75489783 TACCACT-GGTTTGTGAAATTACCAAAA
1 TACC-CTCGATTTGTAAAATTACCAAAA
* *
75489810 TACCCTCAATTTTTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
75489837 TACCC
1 TACCC
75489842 CTGATTTACA
Statistics
Matches: 177, Mismatches: 36, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
26 23 0.13
27 152 0.86
28 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:75489667 original size:54 final size:54
Alignment explanation
Indices: 75489595--75489954 Score: 237
Period size: 54 Copynumber: 6.6 Consensus size: 54
75489585 ATTACTGTTT
* ** *
75489595 TACCCTTGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
** * * * *
75489649 TACCCTCGATCAGTAAAATTACCAAAATACCCTAGCTTGT--AAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTGGTT-TACAAAATTACCAAAA
* * * ** *** **
75489702 TACCC-CTGGTTTGTAAAATTATCGAAATTTCCTCAATTTGTAAAATTACCAAAA
1 TACCCTC-GATTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
* ***
75489756 TACCC-CTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAATACC-CTTGGTTTACAAAATTACCAAAA
* * * * *
75489810 TACCCTCAATTTTTAAAATTACCAAAATACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCA-AAA
* * *** * **
75489864 TACCCTTGACTTTCTAAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTGT-AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
* * * * *
75489920 TACCCTTGGTTTGTAGATTTACCAAAACACCCTTG
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTG
75489955 TAGGATGAAA
Statistics
Matches: 234, Mismatches: 60, Indels: 24
0.74 0.19 0.08
Matches are distributed among these distances:
52 2 0.01
53 40 0.17
54 142 0.61
55 12 0.05
56 38 0.16
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
Found at i:75489865 original size:81 final size:80
Alignment explanation
Indices: 75489609--75489869 Score: 305
Period size: 81 Copynumber: 3.2 Consensus size: 80
75489599 CTTGATTTAC
** * **
75489609 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCC-TGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
*
75489674 AATA-CCCTAGCTTGT
65 AATACCCCTAGATTGT
* * * **
75489689 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTATCGAAATTTCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATA-CCCTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
*
75489754 AATACCCCTAGTTTGT
65 AATACCCCTAGATTGT
* * *
75489770 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCAAAATACCCTCAATTTTTAAAATTACCAA
1 AAAATTACTAAAATACC-CTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
75489835 AATACCCCT-GATT-T
65 AATACCCCTAGATTGT
75489849 ACAAAGTTAC-AGAAATACCCT
1 A-AAA-TTACTA-AAATACCCT
75489870 TGACTTTCTA
Statistics
Matches: 155, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
79 2 0.01
80 66 0.43
81 87 0.56
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAA
ATACCCCTAGATTGT
Found at i:75489919 original size:27 final size:27
Alignment explanation
Indices: 75489880--75489931 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
75489870 TGACTTTCTA
75489880 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
75489907 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
75489932 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:75490015 original size:27 final size:27
Alignment explanation
Indices: 75489985--75490076 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
75489975 ACCCCTATTA
*
75489985 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
75490012 GGTAAAGTGACCGTAAAGCCACTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
75490039 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
75490066 GGTAAAATGAC
1 GGTAAAATGAC
75490077 GAATATGCCT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:75490720 original size:25 final size:25
Alignment explanation
Indices: 75490692--75490739 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
75490682 TTATAGTATG
* * *
75490692 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
75490717 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
75490740 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:75490800 original size:20 final size:21
Alignment explanation
Indices: 75490765--75490821 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
75490755 TGATACGTGG
75490765 GATATGATAT--ACATGAT-T
1 GATATGATATGCACATGATAT
75490783 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
*
75490804 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
75490822 GTATTCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Found at i:75490949 original size:52 final size:51
Alignment explanation
Indices: 75490871--75490992 Score: 219
Period size: 52 Copynumber: 2.4 Consensus size: 51
75490861 GAGGAAGTGT
75490871 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
*
75490923 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
75490974 AAAAGGGCTT-TGCCCCAGT
1 AAAAGGGCTTATGCCCCAGT
75490993 AATTAAAAGA
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
50 8 0.12
51 25 0.37
52 35 0.51
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:75490968 original size:25 final size:26
Alignment explanation
Indices: 75490871--75490992 Score: 185
Period size: 26 Copynumber: 4.8 Consensus size: 26
75490861 GAGGAAGTGT
**
75490871 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
75490897 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
75490923 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
75490949 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
75490974 AAAAGGGCTT-TGCCCCAGT
1 AAAAGGGCTTATGCCCCAGT
75490993 AATTAAAAGA
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 31 0.35
26 57 0.65
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:75491198 original size:42 final size:42
Alignment explanation
Indices: 75491139--75491230 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
75491129 TAGTCTCCCC
* ** *
75491139 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
75491181 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
75491223 AAATGGGC
1 AAATGGGC
75491231 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:75493385 original size:12 final size:12
Alignment explanation
Indices: 75493370--75493394 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
75493360 ACAGCAAATA
75493370 ATAAAAATTTTC
1 ATAAAAATTTTC
75493382 ATAAAAATTTTC
1 ATAAAAATTTTC
75493394 A
1 A
75493395 AACATACATA
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:75500646 original size:13 final size:13
Alignment explanation
Indices: 75500628--75500653 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
75500618 TCTCTACGTC
75500628 AATTCAAACAATT
1 AATTCAAACAATT
75500641 AATTCAAACAATT
1 AATTCAAACAATT
75500654 TCTACCTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
AATTCAAACAATT
Found at i:75512792 original size:25 final size:24
Alignment explanation
Indices: 75512724--75512805 Score: 112
Period size: 24 Copynumber: 3.4 Consensus size: 24
75512714 CTGGAGGCCT
*
75512724 AGCCTCTTTTAAT-AACTAGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
75512748 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTAATAAACTGGGGCAA
*
75512772 AGCCCTTTTCAATAAACTGGGGCAT
1 AGCCCTTTT-AATAAACTGGGGCAA
75512797 AGCCCTTTT
1 AGCCCTTTT
75512806 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
23 7 0.13
24 23 0.44
25 22 0.42
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:75512880 original size:20 final size:20
Alignment explanation
Indices: 75512855--75512911 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
75512845 TTATGATTAC
*
75512855 ATCATGTGCATTTCATA-CA
1 ATCATGTGCATATCATATCA
75512874 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
75512895 ATCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
75512912 CCACGTATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:75515939 original size:24 final size:24
Alignment explanation
Indices: 75515906--75516066 Score: 110
Period size: 24 Copynumber: 6.6 Consensus size: 24
75515896 ATCGATTTCA
*
75515906 CACACATAGTGCTATTCAAATCTG
1 CACACATAGTGCTATTCAAATCCG
* * * * *
75515930 CACACTTAGTGCCATGCTAACCCG
1 CACACATAGTGCTATTCAAATCCG
** *
75515954 CACACATAGTGCCT-TAGAAATCCA
1 CACACATAGTG-CTATTCAAATCCG
* * *
75515978 CACACTCGTATTGAC-ATTCAAATCAG
1 CACA--CATAGTG-CTATTCAAATCCG
*
75516004 CACACATAGTGCTATTCAATTCCG
1 CACACATAGTGCTATTCAAATCCG
* *
75516028 CACACATAGTTCCATTCAAAATCCG
1 CACACATAGTGCTATTC-AAATCCG
**
75516053 CACATTTAGTGCTA
1 CACACATAGTGCTA
75516067 ATGTCATTTC
Statistics
Matches: 100, Mismatches: 31, Indels: 11
0.70 0.22 0.08
Matches are distributed among these distances:
23 1 0.01
24 66 0.66
25 17 0.17
26 16 0.16
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.26
Consensus pattern (24 bp):
CACACATAGTGCTATTCAAATCCG
Found at i:75516032 original size:50 final size:48
Alignment explanation
Indices: 75515906--75516037 Score: 122
Period size: 50 Copynumber: 2.7 Consensus size: 48
75515896 ATCGATTTCA
* * * *
75515906 CACACATAGTGCTATTCAAATCTGCACACTTAGTGCCATGCTAACCCG
1 CACACATAGTGCTATTCAAATCCGCACACTTAGTGACATGCAAACCAG
** * * * *
75515954 CACACATAGTGCCT-TAGAAATCCACACACTCGTATTGACATTCAAATCAG
1 CACACATAGTG-CTATTCAAATCCGCACACT--TAGTGACATGCAAACCAG
* *
75516004 CACACATAGTGCTATTCAATTCCGCACACATAGT
1 CACACATAGTGCTATTCAAATCCGCACACTTAGT
75516038 TCCATTCAAA
Statistics
Matches: 64, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
48 26 0.41
49 4 0.06
50 34 0.53
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.25
Consensus pattern (48 bp):
CACACATAGTGCTATTCAAATCCGCACACTTAGTGACATGCAAACCAG
Found at i:75523318 original size:24 final size:24
Alignment explanation
Indices: 75523285--75523443 Score: 115
Period size: 24 Copynumber: 6.5 Consensus size: 24
75523275 ATCGATTTCA
75523285 CACACATAGTGCTATTCAAATCCG
1 CACACATAGTGCTATTCAAATCCG
* * * * *
75523309 CACACTTAGTGCCATGCTAACCCG
1 CACACATAGTGCTATTCAAATCCG
** *
75523333 CACACATAGTGCCT-TAGAAATCCA
1 CACACATAGTG-CTATTCAAATCCG
* * *
75523357 CACACTCGTATTGAC-ATTCAAATCGG
1 CACA--CATAGTG-CTATTCAAATCCG
*
75523383 CACACATAGTGCTATTCAATTCCG
1 CACACATAGTGCTATTCAAATCCG
* * *
75523407 CACACATAGTACCATTCAAAATTCG
1 CACACATAGTGCTATTC-AAATCCG
*
75523432 CACACTTAGTGC
1 CACACATAGTGC
75523444 CAATGTCATT
Statistics
Matches: 100, Mismatches: 29, Indels: 11
0.71 0.21 0.08
Matches are distributed among these distances:
23 1 0.01
24 67 0.67
25 16 0.16
26 16 0.16
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (24 bp):
CACACATAGTGCTATTCAAATCCG
Found at i:75523411 original size:50 final size:48
Alignment explanation
Indices: 75523285--75523416 Score: 131
Period size: 50 Copynumber: 2.7 Consensus size: 48
75523275 ATCGATTTCA
* *
75523285 CACACATAGTGCTATTCAAATCCGCACACTTAGTGCCATGCTAACCCG
1 CACACATAGTGCTATTCAAATCCGCACACTTAGTGACATGCAAACCCG
** * * * * *
75523333 CACACATAGTGCCT-TAGAAATCCACACACTCGTATTGACATTCAAATCGG
1 CACACATAGTG-CTATTCAAATCCGCACACT--TAGTGACATGCAAACCCG
* *
75523383 CACACATAGTGCTATTCAATTCCGCACACATAGT
1 CACACATAGTGCTATTCAAATCCGCACACTTAGT
75523417 ACCATTCAAA
Statistics
Matches: 65, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
48 27 0.42
49 4 0.06
50 34 0.52
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (48 bp):
CACACATAGTGCTATTCAAATCCGCACACTTAGTGACATGCAAACCCG
Found at i:75527652 original size:43 final size:42
Alignment explanation
Indices: 75527597--75527711 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 42
75527587 AGCATATACA
* *
75527597 ATGCCGAC-GTCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCC-ACTGTCCCAGACGTGGTCTTACACGAAATCAAACAT-G
* *
75527640 ATGCCACTGTCCCAGATAG-GGTCTTACACGAAATCAAATATG
1 ATGCCACTGTCCCAGA-CGTGGTCTTACACGAAATCAAACATG
* * *
75527682 ATGCCAATGTCCTAGACATGGTCTTACACG
1 ATGCCACTGTCCCAGACGTGGTCTTACACG
75527712 CAAAACAGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 28 0.46
43 32 0.52
44 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACGTGGTCTTACACGAAATCAAACATG
Found at i:75527705 original size:42 final size:42
Alignment explanation
Indices: 75527605--75527711 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 42
75527595 CAATGCCGAC
* * * * *
75527605 GTCCCAGACGTGGTCTTACATGTAATCAAACATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATCAAATAT-GATGCCAAT
* *
75527648 GTCCCAGATAGGGTCTTACACGAAATCAAATATGATGCCAAT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATGATGCCAAT
*
75527690 GTCCTAGACATGGTCTTACACG
1 GTCCCAGACATGGTCTTACACG
75527712 CAAAACAGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 27 0.50
43 27 0.50
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATATGATGCCAAT
Found at i:75535231 original size:79 final size:81
Alignment explanation
Indices: 75535122--75535304 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
75535112 TACTCGTTCA
* *
75535122 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
75535185 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
75535202 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
75535265 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
75535281 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
75535305 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:75535304 original size:40 final size:40
Alignment explanation
Indices: 75535101--75535304 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
75535091 CGGAATTTAA
** *
75535101 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
75535141 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
75535181 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
75535220 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
75535260 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
75535300 CCGGA
1 CCGGA
75535305 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 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:75537795 original size:28 final size:28
Alignment explanation
Indices: 75537755--75537824 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
75537745 ATAGTAAGTC
*
75537755 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
75537783 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
*
75537811 CGGACACTTAGTGC
1 CGCACACTTAGTGC
75537825 CAATCTCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:75544502 original size:28 final size:28
Alignment explanation
Indices: 75544466--75544558 Score: 105
Period size: 28 Copynumber: 3.3 Consensus size: 28
75544456 AAAGCATAAC
*
75544466 TATGGATGTGATTGGGCCTAATGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
* **
75544494 TATGAATGTGATTTGGTTTAATGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
* * * *
75544522 TATGATTGAGATTGAGCCTAGTGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
75544550 TATGCATGT
1 TATGAATGT
75544559 ATATAGGCTT
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.33
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:75548280 original size:13 final size:13
Alignment explanation
Indices: 75548262--75548286 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75548252 TATGTGATAT
75548262 GTGTGAAAATTTC
1 GTGTGAAAATTTC
75548275 GTGTGAAAATTT
1 GTGTGAAAATTT
75548287 TATCGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:75549468 original size:44 final size:43
Alignment explanation
Indices: 75549415--75549552 Score: 124
Period size: 42 Copynumber: 3.2 Consensus size: 43
75549405 TGTGATTTTG
75549415 TGTAAGACCATGTCTGGGACGTTGGCATCGGTTTGAGATTTACA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGGTTT-AGATTTACA
* * * ** *
75549459 TGTAAGACCAAGCCTGGGACATTGGCATC-GCATATGATTT-CG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGGTTTA-GATTTACA
* *
75549501 TGTAAGACCCTGTCTGGGACAG-TGGCATCGATATTTA-A-TTACA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATCG--GTTTAGATTTACA
75549544 TGTAAGACC
1 TGTAAGACC
75549553 TCGTCTGAGA
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
42 28 0.38
43 18 0.24
44 26 0.35
45 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGGTTTAGATTTACA
Found at i:75549518 original size:42 final size:41
Alignment explanation
Indices: 75549407--75549534 Score: 139
Period size: 42 Copynumber: 3.0 Consensus size: 41
75549397 TTCCAGTATG
* * * *
75549407 TGATTTTGTGTAAGACCATGTCTGGGACGTTGGCATCGGTT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATA
* * *
75549448 TGAGATTTACATGTAAGACCAAGCCTGGGACATTGGCATCGCATA
1 T--GATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCG-ATA
* *
75549493 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATA
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATA
75549534 T
1 T
75549535 TTAATTACAT
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
41 5 0.07
42 27 0.38
43 10 0.14
44 27 0.38
45 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATA
Found at i:75555109 original size:47 final size:47
Alignment explanation
Indices: 75555057--75555557 Score: 815
Period size: 47 Copynumber: 10.6 Consensus size: 47
75555047 GATAATTGTG
* *
75555057 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
75555104 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
75555151 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
75555200 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
75555247 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-ATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
75555293 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
75555342 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
75555391 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
75555438 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
75555485 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
75555532 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
75555558 TCCCGAAGGG
Statistics
Matches: 429, Mismatches: 20, Indels: 10
0.93 0.04 0.02
Matches are distributed among these distances:
46 20 0.05
47 269 0.63
48 26 0.06
49 114 0.27
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:75555338 original size:238 final size:238
Alignment explanation
Indices: 75555057--75555557 Score: 843
Period size: 238 Copynumber: 2.1 Consensus size: 238
75555047 GATAATTGTG
75555057 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATA
75555119 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
66 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA
*
75555184 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
129 ATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
75555249 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-ATGTGATGA
194 GTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGA
75555293 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATAT
* *
75555358 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
65 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
*
75555423 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATG
130 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
* * *
75555488 TGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
195 TGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGA
75555532 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
75555558 TCCCGAAGGG
Statistics
Matches: 250, Mismatches: 10, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
236 5 0.02
237 12 0.05
238 166 0.66
239 22 0.09
240 45 0.18
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (238 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATA
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
AGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
GAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGA
Found at i:75555346 original size:191 final size:190
Alignment explanation
Indices: 75555057--75555557 Score: 864
Period size: 191 Copynumber: 2.6 Consensus size: 190
75555047 GATAATTGTG
* *
75555057 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
75555122 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
*
75555187 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
131 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
75555247 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
* *
75555311 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
64 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
75555376 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
129 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
*
75555438 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * *
75555503 GTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
75555558 TCCCGAAGGG
Statistics
Matches: 295, Mismatches: 13, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
188 10 0.03
189 21 0.07
190 79 0.27
191 165 0.56
192 20 0.07
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (190 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
Found at i:75559823 original size:13 final size:13
Alignment explanation
Indices: 75559805--75559833 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
75559795 GCAGCCCACA
75559805 CCCTGGACACACG
1 CCCTGGACACACG
75559818 CCCTGGACACACG
1 CCCTGGACACACG
75559831 CCC
1 CCC
75559834 ATGTCCTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.52, G:0.21, T:0.07
Consensus pattern (13 bp):
CCCTGGACACACG
Found at i:75561718 original size:47 final size:47
Alignment explanation
Indices: 75561640--75562231 Score: 1008
Period size: 47 Copynumber: 12.6 Consensus size: 47
75561630 CCCTTCGGGA
* * * * * *
75561640 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
75561687 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
75561734 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75561781 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75561828 CTTATCACATATATATACACTTTCACATTCATCACAT-GGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75561876 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75561923 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75561970 CTTATCACATATATACACTTTCACATTCATCACAT-GGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75562016 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75562063 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
75562110 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75562159 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
75562206 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
75562232 CACAATTATC
Statistics
Matches: 519, Mismatches: 20, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
46 73 0.14
47 355 0.68
48 19 0.04
49 72 0.14
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:75562126 original size:189 final size:187
Alignment explanation
Indices: 75561640--75562231 Score: 1006
Period size: 189 Copynumber: 3.1 Consensus size: 187
75561630 CCCTTCGGGA
* * * * * * *
75561640 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCAC-ATGGCCATTAGGCCTTATCACATATATACAC
*
75561705 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
65 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
75561770 GGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
130 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75561828 CTTATCACATATATATACACTTTCACATTCATCACATGGCCATTAGGCCTTATCACATATATACA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATGGCCATTAGGCCTTATCACATATATACA
75561893 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
64 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
75561958 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT-GGCCATTAGGC
129 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75562016 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACAT-GGCCATTAGGCCTTATCACATATATACAC
75562081 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
65 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
* *
75562146 TTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
128 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
75562206 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
75562232 CACAATTATC
Statistics
Matches: 385, Mismatches: 13, Indels: 10
0.94 0.03 0.02
Matches are distributed among these distances:
186 27 0.07
187 66 0.17
188 27 0.07
189 207 0.54
190 58 0.15
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (187 bp):
CTTATCACATATATACACTTTCACATTCATCACATGGCCATTAGGCCTTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:75562126 original size:236 final size:237
Alignment explanation
Indices: 75561640--75562231 Score: 1025
Period size: 236 Copynumber: 2.5 Consensus size: 237
75561630 CCCTTCGGGA
* * * * *
75561640 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
75561703 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
75561768 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
75561833 CACATATATATACACTTTCACATTCATCACATGGCCATTAGGC
196 CACA-ATATATACACTTTCACATTCATCACATGGCCATTAGGC
* *
75561876 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
75561939 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
75562004 T-GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
75562068 CAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CACAATATATACACTTTCACATTCATCACAT-GGCCATTAGGC
75562110 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
75562175 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTCACAT
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
75562232 CACAATTATC
Statistics
Matches: 338, Mismatches: 13, Indels: 10
0.94 0.04 0.03
Matches are distributed among these distances:
233 27 0.08
234 19 0.06
235 66 0.20
236 226 0.67
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (237 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACAATATATACACTTTCACATTCATCACATGGCCATTAGGC
Found at i:75567950 original size:43 final size:43
Alignment explanation
Indices: 75567868--75568001 Score: 173
Period size: 43 Copynumber: 3.1 Consensus size: 43
75567858 CTTACATGTT
* * * * *
75567868 ATCAC-ATATCGATGCCAATTTCCCAAACATAGTCCTACACGTA
1 ATCACAATAT-GATGCCAATGTCCCAGACATGGTCTTACACATA
*
75567911 ATCGCAATATGATGCCAATGTCCCAGACATGGTCTTACACATA
1 ATCACAATATGATGCCAATGTCCCAGACATGGTCTTACACATA
*
75567954 ATCATAATATGATGCCAATGGT-CCAGACATGGTCTTACACATA
1 ATCACAATATGATGCCAAT-GTCCCAGACATGGTCTTACACATA
75567997 ATCAC
1 ATCAC
75568002 GTCTCCTTAA
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
43 74 0.93
44 6 0.08
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (43 bp):
ATCACAATATGATGCCAATGTCCCAGACATGGTCTTACACATA
Found at i:75574111 original size:43 final size:42
Alignment explanation
Indices: 75573966--75574122 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 42
75573956 TGTGTTATCG
* ** *
75573966 TGTAAGACCACGTCTGGAACTTTGGCATCA--ACTTATGATTTACG
1 TGTAAGACCACGTCTGGGACAGTGGCAT-AGTA-TT-TGA-TTACA
* * * *
75574010 TGTAAGACCACGTATGGGA-ATTTGGCATCGTATTTGATTTCA
1 TGTAAGACCACGTCTGGGACA-GTGGCATAGTATTTGATTACA
75574052 TGTAAGACC-CTGTCTGGGACAGTGGCATAGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATAG-TATTTGATTACA
*
75574095 TGTAAGACCACATCTGGGAC-GTTGGCAT
1 TGTAAGACCACGTCTGGGACAG-TGGCAT
75574123 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
41 1 0.01
42 27 0.29
43 38 0.40
44 27 0.29
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATAGTATTTGATTACA
Found at i:75581982 original size:40 final size:40
Alignment explanation
Indices: 75581791--75581975 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
75581781 TCGAATGATG
* * * * *
75581791 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
75581831 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
75581871 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
75581910 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
75581951 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
75581976 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 33 0.27
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:75581997 original size:79 final size:79
Alignment explanation
Indices: 75581844--75582008 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
75581834 GGACTAAGAT
* * **
75581844 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
* *
75581909 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
* * *
75581923 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-C
* *
75581986 TATATC-CGGTTAAATT
63 TAAATCTCGGTTAAATC
75582002 CCGAAGG
1 CCGAAGG
75582009 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.67
80 22 0.31
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
ATCTCGGTTAAATC
Found at i:75587192 original size:44 final size:42
Alignment explanation
Indices: 75587128--75587225 Score: 135
Period size: 44 Copynumber: 2.3 Consensus size: 42
75587118 ATATGTGTTA
75587128 TCGTGTAAGACCACGTCTGGGACTTTAGCATC-AACTTATGATT
1 TCGTGTAAGACCACGTCTGGGACTTTAGCATCGAA-TT-TGATT
* * *
75587171 TACGTGTAAGACCATGTCTGGGACTTTGGCATCGTATTTGATT
1 T-CGTGTAAGACCACGTCTGGGACTTTAGCATCGAATTTGATT
75587214 TCGTGTAAGACC
1 TCGTGTAAGACC
75587226 CTGCCCGGGA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
42 11 0.22
43 7 0.14
44 31 0.62
45 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACTTTAGCATCGAATTTGATT
Found at i:75587236 original size:42 final size:44
Alignment explanation
Indices: 75587166--75587269 Score: 115
Period size: 42 Copynumber: 2.4 Consensus size: 44
75587156 CATCAACTTA
* * ** *
75587166 TGATTTACGTGTAAGACCATGTCTGGGACTTTGGCATCG-TATT
1 TGATTTACGTGTAAGACCATGCCCGGGACAGTGGCATAGATATT
*
75587209 TGATTT-CGTGTAAGACCCTGCCCGGGACAGTGGCATAGATATT
1 TGATTTACGTGTAAGACCATGCCCGGGACAGTGGCATAGATATT
* *
75587252 TGA-TTACATTTAAGACCA
1 TGATTTACGTGTAAGACCA
75587270 CGTCTAGGAC
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
42 28 0.56
43 22 0.44
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (44 bp):
TGATTTACGTGTAAGACCATGCCCGGGACAGTGGCATAGATATT
Found at i:75598704 original size:39 final size:40
Alignment explanation
Indices: 75598581--75598705 Score: 157
Period size: 40 Copynumber: 3.1 Consensus size: 40
75598571 GGACTAAGAT
* * **
75598581 CCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAATC
* *
75598621 CCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGA-C
1 CCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGCTAA-ATC
75598661 CCGAAGGCATTTGTGCGAGTTGTTATAT-CGGGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAATC
75598700 CCGAAG
1 CCGAAG
75598706 ATACTTGGGT
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
38 1 0.01
39 17 0.23
40 53 0.73
41 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAATC
Found at i:75599790 original size:48 final size:48
Alignment explanation
Indices: 75599720--75599920 Score: 330
Period size: 48 Copynumber: 4.2 Consensus size: 48
75599710 TATGTATGAG
75599720 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
1 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
* * *
75599768 ATATATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTC
1 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
* * *
75599816 ATACATATTTCATATTAGCCATTCGACTTTACCACATATACATATCTC
1 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
*
75599864 ATACATATTTCACACTAGCCATTCCGCTTTACCACATATACATATCTC
1 ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
*
75599912 ATATATATT
1 ATACATATT
75599921 ACCCCTATCC
Statistics
Matches: 141, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 141 1.00
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (48 bp):
ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
Found at i:75601596 original size:28 final size:28
Alignment explanation
Indices: 75601545--75601635 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
75601535 GTGACAGAGT
*
75601545 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
* *
75601574 CACCAGAACAGATAATTTCTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
75601602 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
75601630 CACCAG
1 CACCAG
75601636 GACGCTTCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
28 49 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:75601788 original size:28 final size:28
Alignment explanation
Indices: 75601741--75601832 Score: 141
Period size: 28 Copynumber: 3.3 Consensus size: 28
75601731 AAATTAACAC
*
75601741 TAGGGGTATAGA-GGTTATTTTGTATACA
1 TAGGGGTATA-ATGGTAATTTTGTATACA
*
75601769 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGTATACA
*
75601797 TAGGGATATAATGGTAATTTTGTATACA
1 TAGGGGTATAATGGTAATTTTGTATACA
75601825 TAGGGGTA
1 TAGGGGTA
75601833 CTCTAGTACA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 1 0.02
28 57 0.98
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.37
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGTATACA
Found at i:75609458 original size:28 final size:28
Alignment explanation
Indices: 75609410--75609500 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
75609400 GTGACAGAGT
*
75609410 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
75609439 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
75609467 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
75609495 CACCAG
1 CACCAG
75609501 GACGCTTCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:75609653 original size:28 final size:28
Alignment explanation
Indices: 75609606--75609690 Score: 131
Period size: 28 Copynumber: 3.1 Consensus size: 28
75609596 AAATTAACCC
*
75609606 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
75609634 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
75609662 TAGGGGTATAATGGTAA--TTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
75609688 TAG
1 TAG
75609691 TACTAGTACA
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
26 12 0.22
27 1 0.02
28 42 0.76
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:75611513 original size:37 final size:37
Alignment explanation
Indices: 75611440--75611576 Score: 231
Period size: 37 Copynumber: 3.7 Consensus size: 37
75611430 GCTCGAATAG
* * *
75611440 TCCACACGTAGTTATCGGGTC-TACCCGGACAAAATC
1 TCCACACATAGTCATCGGGTCTTACCCGGACATAATC
75611476 TCCACACATAGTCATCGGGTCTTACCCGGACATAATC
1 TCCACACATAGTCATCGGGTCTTACCCGGACATAATC
75611513 TCCACACATAGTCATCGGGTCTTACCCGGACATAATC
1 TCCACACATAGTCATCGGGTCTTACCCGGACATAATC
*
75611550 TCCACACGTAGTCATCGGGTCTTACCC
1 TCCACACATAGTCATCGGGTCTTACCC
75611577 AGAATACATT
Statistics
Matches: 96, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 19 0.20
37 77 0.80
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.24
Consensus pattern (37 bp):
TCCACACATAGTCATCGGGTCTTACCCGGACATAATC
Found at i:75611829 original size:48 final size:48
Alignment explanation
Indices: 75611717--75612091 Score: 637
Period size: 48 Copynumber: 7.8 Consensus size: 48
75611707 ATATACACAC
* *
75611717 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC-ATATACAT
* *
75611766 ATCTCATATATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
75611814 ATCTCATACATATTTCACATTAGCCATTCGGCTTTA-CACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
75611861 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
75611909 ATCTCATACATATTTCACATTAGCCACTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
75611957 ATCTCATATATATTTCACATTAGCCATTCAGCTTTACCACAT-TATCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA-CAT
*
75612005 ATCTTATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
75612053 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
75612092 ACACATATAT
Statistics
Matches: 308, Mismatches: 15, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
47 49 0.16
48 221 0.72
49 38 0.12
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:75622767 original size:22 final size:22
Alignment explanation
Indices: 75622739--75622814 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
75622729 GTGTGTATAT
75622739 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
75622761 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
75622785 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
75622808 ATGTGAT
1 ATGTGAT
75622815 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:75622800 original size:47 final size:47
Alignment explanation
Indices: 75622685--75623222 Score: 851
Period size: 47 Copynumber: 11.3 Consensus size: 47
75622675 CAGAGTAGTA
*
75622685 TATATATGTGTTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTG
* *
75622734 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
75622781 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
75622828 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
75622877 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
75622924 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
75622971 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
75623020 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
75623067 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
75623114 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
75623161 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
75623208 TATAAATGTGATAAG
1 TATATATGTGATAAG
75623223 TCCCGAAGGG
Statistics
Matches: 460, Mismatches: 25, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
47 328 0.71
49 132 0.29
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:75622853 original size:96 final size:94
Alignment explanation
Indices: 75622685--75623222 Score: 851
Period size: 96 Copynumber: 5.7 Consensus size: 94
75622675 CAGAGTAGTA
* * *
75622685 TATATATGTGTTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--GTGTATATATGTGATAAGG
* *
75622750 CCGAATGGCCAATGTGATGAATGTGAAAGTG
64 CCTAATGGCCGATGTGATGAATGTGAAAGTG
75622781 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
75622846 CCTAATGGCCGATGTGATGAATGTGAAAGTG
64 CCTAATGGCCGATGTGATGAATGTGAAAGTG
75622877 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
75622942 TAATAGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
* *
75622971 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 --TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
*
75623036 CCTAATAGCCGATGTGATGAATGTGAAAGTG
64 CCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
75623067 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCC
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
75623132 TAATGGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * *
75623161 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
75623223 TCCCGAAGGG
Statistics
Matches: 417, Mismatches: 21, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
94 192 0.46
96 225 0.54
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:75622955 original size:143 final size:143
Alignment explanation
Indices: 75622682--75623222 Score: 924
Period size: 143 Copynumber: 3.8 Consensus size: 143
75622672 GGTCAGAGTA
*
75622682 GTATATATATGTGTTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATA
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATATATGTGATA
* * *
75622747 AGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGT
64 AGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGT
75622812 GATGAATGTGAAAGT
129 GATGAATGTGAAAGT
75622827 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
75622892 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
66 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
75622957 TGAATGTGAAAGT
131 TGAATGTGAAAGT
75622970 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* * *
75623035 GCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
66 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
75623100 TGAATGTGAAAGT
131 TGAATGTGAAAGT
* * *
75623113 G--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGG
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* * * *
75623176 GCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
75623223 TCCCGAAGGG
Statistics
Matches: 379, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
141 99 0.26
143 234 0.62
145 46 0.12
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
TGAATGTGAAAGT
Found at i:75626454 original size:40 final size:40
Alignment explanation
Indices: 75626375--75626500 Score: 148
Period size: 40 Copynumber: 3.2 Consensus size: 40
75626365 CGGATGATAA
* * ** *
75626375 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
* * *
75626415 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-TTATAT
*
75626455 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
75626495 -CGGGCT
1 CCGGGCT
75626501 TAATCCCGAA
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
39 8 0.11
40 62 0.86
41 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGTTATAT
Found at i:75626779 original size:22 final size:22
Alignment explanation
Indices: 75626739--75626780 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
75626729 GAATGTGCAT
*
75626739 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
75626761 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
75626781 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:75630901 original size:14 final size:14
Alignment explanation
Indices: 75630884--75630922 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
75630874 AATTCCTTAC
75630884 CCCCTATTCTCTAT
1 CCCCTATTCTCTAT
75630898 CCCCTATTCTCTAT
1 CCCCTATTCTCTAT
*
75630912 CTCCCTTTTCT
1 C-CCCTATTCT
75630923 TCCTCCTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.10, C:0.44, G:0.00, T:0.46
Consensus pattern (14 bp):
CCCCTATTCTCTAT
Found at i:75631617 original size:46 final size:45
Alignment explanation
Indices: 75631549--75631721 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 45
75631539 ATATCTCGAG
*
75631549 GTCGATGCATGTCCCAGTCATGTCTTACACTAGCTCTCGTCTCAAT
1 GTCGATGCATGTCCCAGACATGTCTTACACTAGCTCTC-TCTCAAT
* * * * *
75631595 GTTGATGCATGTCCCAGACATGTCTTACAC-AGGCTTTATATCTCGAG
1 GTCGATGCATGTCCCAGACATGTCTTACACTA-GC--TCTCTCTCAAT
* * * * *
75631642 GACGATGAATGTCCCAGACATGTCTTATACTGGCTCTC-AT-AAT
1 GTCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCTCTCAAT
75631685 GTAGCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GT---CGATGCATGTCCCAGACATGTCTTACACTAGC
75631722 ACACATATCA
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 2 0.02
44 1 0.01
45 3 0.03
46 59 0.59
47 33 0.33
48 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (45 bp):
GTCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCTCTCAAT
Found at i:75631648 original size:93 final size:91
Alignment explanation
Indices: 75631538--75631717 Score: 245
Period size: 93 Copynumber: 1.9 Consensus size: 91
75631528 CAGTAGCTGA
* * * * *
75631538 TATATCTCGAGGTCGATGCATGTCCCAGTCATGTCTTACACTAGCTCTCGTCTCAATGT-TGATG
1 TATATCTCGAGGACGATGAATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AATGTACGATG
75631602 CATGTCCCAGACATGTCTTACACAGGCTT
63 CATGTCCCAGACATGTCTTACACAGGCTT
* *
75631631 TATATCTCGAGGACGATGAATGTCCCAGACATGTCTTATACTGGCTCTCATAATGTAGCCGATGC
1 TATATCTCGAGGACGATGAATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTA--CGATGC
75631696 ATGTCCCAGACATGTCTTACAC
64 ATGTCCCAGACATGTCTTACAC
75631718 TAGCACACAT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
90 5 0.06
91 1 0.01
93 71 0.92
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (91 bp):
TATATCTCGAGGACGATGAATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTACGATGCAT
GTCCCAGACATGTCTTACACAGGCTT
Found at i:75632400 original size:20 final size:20
Alignment explanation
Indices: 75632375--75632413 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
75632365 AAAATTTCAA
75632375 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
75632395 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
75632414 AATAGCCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:75647711 original size:43 final size:42
Alignment explanation
Indices: 75647648--75647812 Score: 178
Period size: 43 Copynumber: 3.9 Consensus size: 42
75647638 AGCTCGTACA
* *
75647648 ATGCC-ATATCCCAGATATGGTCTTACACGATATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGATATCACATAT-G
* * *
75647690 ATGCCAATGTCCCATACATGGTCTTACACGAAATCATATAATG
1 ATGCCAATGTCCCAGACATGGTCTTACACGATATCACAT-ATG
*
75647733 ATGCCAATGTCCCAGACATGGTCTTACA-TA-ATCGTA-ATATG
1 ATGCCAATGTCCCAGACATGGTCTTACACGATATC--ACATATG
* *
75647774 ATGCCACTGTTCCAGACATGGTCTTACAC-ATAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGAT-ATCACAT
75647813 CTCGTTAATC
Statistics
Matches: 106, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
41 34 0.32
42 10 0.09
43 60 0.57
44 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGATATCACATATG
Found at i:75650177 original size:13 final size:13
Alignment explanation
Indices: 75650159--75650185 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
75650149 GAAGTAATCG
75650159 CACACGGGCGTGT
1 CACACGGGCGTGT
75650172 CACACGGGCGTGT
1 CACACGGGCGTGT
75650185 C
1 C
75650186 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:75650293 original size:14 final size:14
Alignment explanation
Indices: 75650274--75650300 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
75650264 ACCTTAGAAT
75650274 AGGAGAATAGGGGA
1 AGGAGAATAGGGGA
75650288 AGGAGAATAGGGG
1 AGGAGAATAGGGG
75650301 GTAAGGAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.52, T:0.07
Consensus pattern (14 bp):
AGGAGAATAGGGGA
Found at i:75652889 original size:37 final size:37
Alignment explanation
Indices: 75652839--75652917 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
75652829 TTATTACGAA
* * *
75652839 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
75652876 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
75652913 GTCTT
1 GTCTT
75652918 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:75653114 original size:47 final size:47
Alignment explanation
Indices: 75653036--75653341 Score: 540
Period size: 47 Copynumber: 6.5 Consensus size: 47
75653026 CCCTTCGGGA
* * * * * *
75653036 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
75653083 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75653130 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75653177 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75653224 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75653271 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
75653318 CTTATCACATATATACACTTTCAC
1 CTTATCACATATATACACTTTCAC
75653342 GTATACACAC
Statistics
Matches: 249, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 249 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:75662034 original size:19 final size:19
Alignment explanation
Indices: 75662006--75662046 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
75661996 GGAGAGCGAA
75662006 AAAAACGAG-AAACGGGCC
1 AAAAACGAGAAAACGGGCC
*
75662024 AAAAACAGAGAAAATGGGCC
1 AAAAAC-GAGAAAACGGGCC
75662044 AAA
1 AAA
75662047 GTACGAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 3 0.15
20 11 0.55
ACGTcount: A:0.56, C:0.17, G:0.24, T:0.02
Consensus pattern (19 bp):
AAAAACGAGAAAACGGGCC
Found at i:75676489 original size:20 final size:22
Alignment explanation
Indices: 75676456--75676496 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
75676446 ACACCTACCC
75676456 AATAAAATAATGAGA-GAGAAG
1 AATAAAATAATGAGAGGAGAAG
75676477 AATAAAA-AATGAGAGGAGAA
1 AATAAAATAATGAGAGGAGAA
75676497 TTTGTGTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.63, C:0.00, G:0.24, T:0.12
Consensus pattern (22 bp):
AATAAAATAATGAGAGGAGAAG
Found at i:75678696 original size:42 final size:41
Alignment explanation
Indices: 75678599--75678702 Score: 129
Period size: 41 Copynumber: 2.5 Consensus size: 41
75678589 TGAAGCTATA
* * * * *
75678599 TCGATCTCGCACACTAAGTGCCAGTATATAGTCGAGCTATC
1 TCGATCTCGCACACTAAGTGCAAATATATAGCCAAGCAATC
75678640 TC-AGTCTCGCACACTAAGTGCAAATATATAGCCAAAGCAATC
1 TCGA-TCTCGCACACTAAGTGCAAATATATAGCC-AAGCAATC
*
75678682 TCGATTTCGCACACTAAGTGC
1 TCGATCTCGCACACTAAGTGC
75678703 CCATAATTAG
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
40 1 0.02
41 28 0.52
42 24 0.44
43 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (41 bp):
TCGATCTCGCACACTAAGTGCAAATATATAGCCAAGCAATC
Found at i:75691023 original size:42 final size:42
Alignment explanation
Indices: 75690964--75691082 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 42
75690954 TAGGGTTAGT
*
75690964 TGAGATTACGTGTAAGACCATATTTGGGATATGGAATCAATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGAATCAATA
** * * * *
75691006 TGAGATTTTGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATA-TGGAATCAATA
** *
75691049 TGAGATCCCATGTAAGACCATATCTGGGATATGG
1 TGAGATTACGTGTAAGACCATATCTGGGATATGG
75691083 CATTGGTACA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
42 29 0.46
43 34 0.54
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGAATCAATA
Found at i:75697610 original size:14 final size:14
Alignment explanation
Indices: 75697591--75697623 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
75697581 CCAATTTGAG
75697591 AAAAAAATAAAATA
1 AAAAAAATAAAATA
75697605 AAAAAAATAAAATA
1 AAAAAAATAAAATA
75697619 AAAAA
1 AAAAA
75697624 CTTATAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAAAAATAAAATA
Found at i:75707921 original size:12 final size:12
Alignment explanation
Indices: 75707904--75707944 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
75707894 GGAGACAGGA
75707904 AAAACAGGTTCC
1 AAAACAGGTTCC
*
75707916 AAAACAGG---A
1 AAAACAGGTTCC
75707925 AAAACAGGTTCC
1 AAAACAGGTTCC
75707937 AAAACAGG
1 AAAACAGG
75707945 AAAAACAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
9 8 0.33
12 16 0.67
ACGTcount: A:0.51, C:0.20, G:0.20, T:0.10
Consensus pattern (12 bp):
AAAACAGGTTCC
Found at i:75707923 original size:21 final size:21
Alignment explanation
Indices: 75707898--75707952 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
75707888 AACAGTGGAG
75707898 ACAGGAAAAACAGGTTCCAAA
1 ACAGGAAAAACAGGTTCCAAA
75707919 ACAGGAAAAACAGGTTCCAAA
1 ACAGGAAAAACAGGTTCCAAA
75707940 ACAGGAAAAACAG
1 ACAGGAAAAACAG
75707953 TGGCTGTAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.55, C:0.18, G:0.20, T:0.07
Consensus pattern (21 bp):
ACAGGAAAAACAGGTTCCAAA
Found at i:75708212 original size:45 final size:45
Alignment explanation
Indices: 75708148--75708238 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
75708138 AGAGTAGCAC
75708148 TTGTACCCTTTTTGTGTAGGTGAGTAACCAATAAAGACACAAGTG
1 TTGTACCCTTTTTGTGTAGGTGAGTAACCAATAAAGACACAAGTG
75708193 TTGTACCCTTTTTGTGTAGGTGAGTAACCAATAAAGACACAAGTG
1 TTGTACCCTTTTTGTGTAGGTGAGTAACCAATAAAGACACAAGTG
75708238 T
1 T
75708239 GGGCTCTAGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (45 bp):
TTGTACCCTTTTTGTGTAGGTGAGTAACCAATAAAGACACAAGTG
Found at i:75713042 original size:23 final size:23
Alignment explanation
Indices: 75712975--75713044 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
75712965 TTCGTTTAAG
*
75712975 TTAAATGAACTTGTTTGTGAACA
1 TTAAATGAACATGTTTGTGAACA
* *
75712998 TTAAA-CAATCATGTTTGCGAACA
1 TTAAATGAA-CATGTTTGTGAACA
**
75713021 TTAAATGAACATGTTCATGAACA
1 TTAAATGAACATGTTTGTGAACA
75713044 T
1 T
75713045 ATACTTGAGC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 2 0.05
23 34 0.89
24 2 0.05
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (23 bp):
TTAAATGAACATGTTTGTGAACA
Found at i:75713100 original size:11 final size:11
Alignment explanation
Indices: 75713084--75713117 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
75713074 CTGAATAATG
75713084 AACAAACAAAC
1 AACAAACAAAC
75713095 AACAAACAAAC
1 AACAAACAAAC
* *
75713106 AATAAATAAAC
1 AACAAACAAAC
75713117 A
1 A
75713118 TATATCTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.74, C:0.21, G:0.00, T:0.06
Consensus pattern (11 bp):
AACAAACAAAC
Found at i:75713855 original size:2 final size:2
Alignment explanation
Indices: 75713848--75713880 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
75713838 GGGAGGATCC
75713848 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
75713881 AATGACCTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:75714200 original size:7 final size:7
Alignment explanation
Indices: 75714190--75714216 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
75714180 TGTTGGCGCT
75714190 TTATTTA
1 TTATTTA
75714197 TTATTTA
1 TTATTTA
75714204 TTATTTA
1 TTATTTA
75714211 TTATTT
1 TTATTT
75714217 TTACCTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTATTTA
Found at i:75722669 original size:38 final size:38
Alignment explanation
Indices: 75722613--75722802 Score: 254
Period size: 38 Copynumber: 4.9 Consensus size: 38
75722603 ATATTTGATG
75722613 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
** *
75722651 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
* ** * *
75722689 TATATCTGGGTTTTATCCTGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
75722727 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
* * * *
75722765 TATATTCGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 TATATCCG-GGTTAAA-TCCCGCAGGCTTAGTGCTGGT
75722803 GACTAAATTC
Statistics
Matches: 136, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
38 111 0.82
39 6 0.04
40 19 0.14
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.36
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
Found at i:75730379 original size:26 final size:26
Alignment explanation
Indices: 75730343--75730450 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
75730333 TGAAATTCCA
75730343 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
75730369 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
75730395 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
75730421 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
75730447 ATCA
1 ATCA
75730451 ATTTGTACCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:75731860 original size:40 final size:38
Alignment explanation
Indices: 75731712--75731863 Score: 214
Period size: 38 Copynumber: 3.9 Consensus size: 38
75731702 ATATTTGATG
75731712 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
** *
75731750 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
*
75731788 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTAGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
* * * *
75731826 TATATTCGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 TATATCCG-GGTTAAA-TCCCGCAGGCTTAGTGCTGGT
75731864 GACTGGATTT
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
38 76 0.76
39 6 0.06
40 18 0.18
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
Found at i:75734038 original size:78 final size:78
Alignment explanation
Indices: 75733905--75734056 Score: 243
Period size: 78 Copynumber: 1.9 Consensus size: 78
75733895 GAGTCACATC
* *
75733905 TCATGTAACTGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
75733970 AATGAATCATAAA
66 AATGAATCATAAA
* *
75733983 TCATGTAAC-GTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCGCCTTAAGTTACCG
1 TCATGTAACTGTAGCGAATCAGGATTA-CCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCA
*
75734047 TAGTGAATCA
65 TAATGAATCA
75734057 GGAATAAATC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
77 16 0.24
78 52 0.76
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (78 bp):
TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
AATGAATCATAAA
Found at i:75734066 original size:40 final size:40
Alignment explanation
Indices: 75734021--75734158 Score: 195
Period size: 40 Copynumber: 3.5 Consensus size: 40
75734011 CTTTTCAGGT
* * *
75734021 CAAATCCTATCCGCCTTAAGTTACCGTAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* * *
75734061 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* **
75734101 CAAATCCTATCCACTTTAAGGTATTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
75734141 CAAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
75734159 TATTCTCGAG
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
Found at i:75735820 original size:7 final size:7
Alignment explanation
Indices: 75735800--75735840 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
75735790 TTATATATTA
75735800 AATAAATT
1 AATAAA-T
75735808 AAT-AAT
1 AATAAAT
75735814 AA-ATAAT
1 AATA-AAT
75735821 AATAAAT
1 AATAAAT
75735828 AATAAAT
1 AATAAAT
75735835 AATAAA
1 AATAAA
75735841 ATATCTCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
6 3 0.10
7 23 0.77
8 4 0.13
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATAAAT
Found at i:75735839 original size:10 final size:10
Alignment explanation
Indices: 75735800--75735832 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
75735790 TTATATATTA
75735800 AATAAATTAAT
1 AATAAA-TAAT
75735811 AATAAATAAT
1 AATAAATAAT
75735821 AATAAATAAT
1 AATAAATAAT
75735831 AA
1 AA
75735833 ATAATAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 16 0.73
11 6 0.27
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AATAAATAAT
Found at i:75736651 original size:13 final size:13
Alignment explanation
Indices: 75736633--75736666 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
75736623 CCATGTTCTC
75736633 CACACGGCTGAGA
1 CACACGGCTGAGA
*
75736646 CACACGGCTGATA
1 CACACGGCTGAGA
75736659 CACACGGC
1 CACACGGC
75736667 CGTGTCTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.29, C:0.35, G:0.26, T:0.09
Consensus pattern (13 bp):
CACACGGCTGAGA
Found at i:75737745 original size:49 final size:50
Alignment explanation
Indices: 75737651--75737880 Score: 225
Period size: 49 Copynumber: 4.7 Consensus size: 50
75737641 GGATAAGACA
* * *
75737651 CCGACGCCATGTCCCAGACAGGTTTTACACTGACTTTCATATATCGAG-G
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGTG
* * * * *
75737700 CCGATGCCGTGTCCTAGATAGGTCTTACACTGGCTCTCATCTATCG-GTG
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGTG
* * * * * * * *
75737749 TCGATTCTATATCCCAGACAGGTCTTATACTAACTTTTATATATCGAG-G
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGTG
* * * *
75737798 CCGATGCCGTGTCCCAGACAGTTCTTACACTGGCTCTCATCTATC-AGTG
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGTG
* * *
75737847 TCGATGCCATGTCCCAAATAGGTCTTACACTGAC
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGAC
75737881 ACACAATAAG
Statistics
Matches: 139, Mismatches: 39, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
48 3 0.02
49 135 0.97
50 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (50 bp):
CCGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGTG
Found at i:75737831 original size:98 final size:98
Alignment explanation
Indices: 75737662--75737877 Score: 315
Period size: 98 Copynumber: 2.2 Consensus size: 98
75737652 CGACGCCATG
* * * *
75737662 TCCCAGACAGGTTTTACACTGACTTTCATATATCGAGGCCGATGCCGTGTCCTAGATAGGTCTTA
1 TCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCGTGTCCCAGACAGGTCTTA
*
75737727 CACTGGCTCTCATCTATCGGTGTCGATTCTATA
66 CACTGGCTCTCATCTATCAGTGTCGATTCTATA
* * *
75737760 TCCCAGACAGGTCTTATACTAACTTTTATATATCGAGGCCGATGCCGTGTCCCAGACAGTTCTTA
1 TCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCGTGTCCCAGACAGGTCTTA
* * *
75737825 CACTGGCTCTCATCTATCAGTGTCGATGCCATG
66 CACTGGCTCTCATCTATCAGTGTCGATTCTATA
* *
75737858 TCCCAAATAGGTCTTACACT
1 TCCCAGACAGGTCTTACACT
75737878 GACACACAAT
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
98 104 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (98 bp):
TCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCGTGTCCCAGACAGGTCTTA
CACTGGCTCTCATCTATCAGTGTCGATTCTATA
Found at i:75739995 original size:18 final size:18
Alignment explanation
Indices: 75739971--75740012 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
75739961 GCTAAATTTT
*
75739971 ATAATTTAAATAACTCAA
1 ATAATTTAAACAACTCAA
* *
75739989 GTAATTTGAACAACTCAA
1 ATAATTTAAACAACTCAA
75740007 ATAATT
1 ATAATT
75740013 CGAACAACAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (18 bp):
ATAATTTAAACAACTCAA
Found at i:75740017 original size:18 final size:18
Alignment explanation
Indices: 75739982--75740020 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
75739972 TAATTTAAAT
* *
75739982 AACTCAAGTAATTTGAAC
1 AACTCAAATAATTCGAAC
75740000 AACTCAAATAATTCGAAC
1 AACTCAAATAATTCGAAC
75740018 AAC
1 AAC
75740021 AAATCGATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.21, G:0.08, T:0.23
Consensus pattern (18 bp):
AACTCAAATAATTCGAAC
Found at i:75740174 original size:18 final size:19
Alignment explanation
Indices: 75740153--75740194 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
75740143 TATATTTTTG
75740153 TAAAAA-ATTATAAAAAAT-
1 TAAAAAGATT-TAAAAAATA
*
75740171 TAAAAAGATTTAAAGAATA
1 TAAAAAGATTTAAAAAATA
75740190 TAAAA
1 TAAAA
75740195 GAAAGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (19 bp):
TAAAAAGATTTAAAAAATA
Found at i:75745284 original size:7 final size:7
Alignment explanation
Indices: 75745263--75745322 Score: 56
Period size: 6 Copynumber: 8.9 Consensus size: 7
75745253 AAAAATGTTT
75745263 TTTAATA
1 TTTAATA
75745270 TTTAAATA
1 TTT-AATA
75745278 TTTAATA
1 TTTAATA
*
75745285 TTATAATT
1 TT-TAATA
*
75745293 TTTTAT-
1 TTTAATA
75745299 TTTAA-A
1 TTTAATA
75745305 TTTAA-A
1 TTTAATA
75745311 TTTAA-A
1 TTTAATA
75745317 TTTAAT
1 TTTAAT
75745323 GTTTTTATTC
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
6 21 0.46
7 12 0.26
8 13 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TTTAATA
Found at i:75746200 original size:11 final size:11
Alignment explanation
Indices: 75746184--75746218 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
75746174 CTTATTGCAA
75746184 AAAAAAAGAAG
1 AAAAAAAGAAG
*
75746195 AAAAAAAGAAA
1 AAAAAAAGAAG
75746206 AAAAAAAGAAG
1 AAAAAAAGAAG
75746217 AA
1 AA
75746219 GACAAAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAG
Found at i:75748310 original size:47 final size:47
Alignment explanation
Indices: 75748230--75748362 Score: 212
Period size: 47 Copynumber: 2.8 Consensus size: 47
75748220 CCGGGATAAG
* * *
75748230 CACATAGTGCTTCATCTGAACAAATCCGAAACTTTAACATTATAATA
1 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACATTATAATA
* *
75748277 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACATTATAATA
*
75748324 CACAAAGTACTTCATCGGAACAAATCTGAAACTTTAACA
1 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACA
75748363 GTAGTCGACA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 79 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (47 bp):
CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACATTATAATA
Found at i:75756161 original size:43 final size:43
Alignment explanation
Indices: 75756114--75756221 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
75756104 GATTAACGAG
*
75756114 ATGTGAATATATGTAAGACCATGTCTAGAACATTGGCATCATT
1 ATGTGAATACATGTAAGACCATGTCTAGAACATTGGCATCATT
* * * * *
75756157 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 ATGTGAATACATGTAAGACCATGTCTAGAACATTGGCATCATT
* * * *
75756200 ATTTGATTTCGTGTAAGACCAT
1 ATGTGAATACATGTAAGACCAT
75756222 AGCTGGGCTA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (43 bp):
ATGTGAATACATGTAAGACCATGTCTAGAACATTGGCATCATT
Done.