Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 97 of 325
Found at i:31232846 original size:24 final size:23
Alignment explanation
Indices: 31232819--31232900 Score: 67
Period size: 24 Copynumber: 3.5 Consensus size: 23
31232809 TCGTTCTAGT
31232819 CAAGCCACTCATTAGTGTTGTGGA
1 CAAGCCACTCA-TAGTGTTGTGGA
* * * *
31232843 CAAGCCATTCACAGCGTTATGGA
1 CAAGCCACTCATAGTGTTGTGGA
* *
31232866 CATGCCACTCAATA-TCATTGTGGA
1 CAAGCCACTC-ATAGT-GTTGTGGA
*
31232890 CAAGTCACTCA
1 CAAGCCACTCA
31232901 ATTTTGGAGT
Statistics
Matches: 44, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
23 18 0.41
24 26 0.59
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (23 bp):
CAAGCCACTCATAGTGTTGTGGA
Found at i:31234457 original size:42 final size:42
Alignment explanation
Indices: 31234293--31234446 Score: 173
Period size: 42 Copynumber: 3.6 Consensus size: 42
31234283 TACCATACCA
* * * *
31234293 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * * * *
31234335 ATGCTAATAGCCTAGCTATGGTCTTACACGAAGTCTCATATTG
1 ATGC-CATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
31234378 ATGCCATATCCCAAATATGGTCCTACACAAAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*
31234420 ATGCCATATGCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
31234447 TGTAGTCTCA
Statistics
Matches: 89, Mismatches: 22, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 57 0.64
43 32 0.36
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:31235669 original size:42 final size:42
Alignment explanation
Indices: 31235606--31235715 Score: 148
Period size: 42 Copynumber: 2.6 Consensus size: 42
31235596 TTTATCAGTA
* *
31235606 GGCATGCTTAACATGCGAATCAAATCTAAGATCAACATAGTT
1 GGCATGCTTAACATGCAAATCAAATCTAAGATCAACATAGTC
* * * *
31235648 GGCATGCTTAACATGCCAATCAAATCTAAGTTTATCATAGTC
1 GGCATGCTTAACATGCAAATCAAATCTAAGATCAACATAGTC
**
31235690 AACATGCTTAACATGCAAATCAAATC
1 GGCATGCTTAACATGCAAATCAAATC
31235716 CTAGTTAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (42 bp):
GGCATGCTTAACATGCAAATCAAATCTAAGATCAACATAGTC
Found at i:31237955 original size:19 final size:19
Alignment explanation
Indices: 31237931--31237967 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
31237921 AAAATGTGTA
31237931 AGTTATGCCTATAAATTTT
1 AGTTATGCCTATAAATTTT
*
31237950 AGTTATGCCTATGAATTT
1 AGTTATGCCTATAAATTT
31237968 ATGATGACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (19 bp):
AGTTATGCCTATAAATTTT
Found at i:31244751 original size:27 final size:27
Alignment explanation
Indices: 31244720--31244897 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
31244710 TAAATTGTAC
*
31244720 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * * *
31244747 TGCACTAAGTGTGTGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
31244773 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
31244801 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
31244828 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
31244856 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
31244883 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31244898 GACTTAATAT
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:31244870 original size:55 final size:54
Alignment explanation
Indices: 31244720--31244897 Score: 223
Period size: 54 Copynumber: 3.3 Consensus size: 54
31244710 TAAATTGTAC
* * **
31244720 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGTGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGT
* * * *
31244773 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATGT
1 A-GCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGT
* * *
31244828 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGT
*
31244883 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31244898 GACTTAATAT
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 59 0.55
55 47 0.44
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGT
Found at i:31247390 original size:21 final size:21
Alignment explanation
Indices: 31247366--31247415 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
31247356 GGTTGTTTAG
*
31247366 ATGTTTTATGATAGATTATTA
1 ATGTTTTATGATAGATTAATA
* * *
31247387 ATGTTTGAAGCTAGATTAATA
1 ATGTTTTATGATAGATTAATA
31247408 A-GTTTTAT
1 ATGTTTTAT
31247416 AAAGTGACTT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (21 bp):
ATGTTTTATGATAGATTAATA
Found at i:31248058 original size:23 final size:24
Alignment explanation
Indices: 31247998--31248060 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 24
31247988 GACTCACCAC
31247998 AGCTCATAT-GAGCTTACTAATTT
1 AGCTCATATGGAGCTTACTAATTT
* * *
31248021 AGCTCGTAAGG-GCTTACTATTTT
1 AGCTCATATGGAGCTTACTAATTT
31248044 AGCTCAT-TGGAGCTTAC
1 AGCTCATATGGAGCTTAC
31248061 CGATTCAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 2 0.06
23 30 0.91
24 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (24 bp):
AGCTCATATGGAGCTTACTAATTT
Found at i:31248100 original size:22 final size:23
Alignment explanation
Indices: 31248053--31248107 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
31248043 TAGCTCATTG
*
31248053 GAGCTTACCGATTCAATTCGAA-A
1 GAGCTTACCGATTCAACTC-AATA
*
31248076 GAGCTTACTG-TTCAACTCAATA
1 GAGCTTACCGATTCAACTCAATA
*
31248098 GAGATTACCG
1 GAGCTTACCG
31248108 TTTGTAGCTC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.07
22 16 0.59
23 9 0.33
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (23 bp):
GAGCTTACCGATTCAACTCAATA
Found at i:31254620 original size:23 final size:23
Alignment explanation
Indices: 31254570--31254662 Score: 73
Period size: 23 Copynumber: 4.1 Consensus size: 23
31254560 GGACTCACCA
* *
31254570 CAGCTCGTATGAGCTTATTGATT
1 CAGCTCGTAAGAGCTTACTGATT
* *
31254593 CAGCTCGTAAGAGCTTGCTGTTT
1 CAGCTCGTAAGAGCTTACTGATT
* * ** *
31254616 TAGCTCATTGGAGATTATCT-ATT
1 CAGCTCGTAAGAGCTTA-CTGATT
*
31254639 CAGCTCGAAAGAGCTTACTG-TT
1 CAGCTCGTAAGAGCTTACTGATT
31254661 CA
1 CA
31254663 ACTCAATAAA
Statistics
Matches: 51, Mismatches: 17, Indels: 5
0.70 0.23 0.07
Matches are distributed among these distances:
22 6 0.12
23 43 0.84
24 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (23 bp):
CAGCTCGTAAGAGCTTACTGATT
Found at i:31259724 original size:24 final size:24
Alignment explanation
Indices: 31259692--31259739 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
31259682 TGAAATTGTG
31259692 CTAAGTGAAATAAGTCCATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
31259716 CTAAGTGAAATAAGTCCATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
31259740 TGTGCTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (24 bp):
CTAAGTGAAATAAGTCCATGGCAT
Found at i:31259829 original size:51 final size:51
Alignment explanation
Indices: 31259774--31259921 Score: 235
Period size: 51 Copynumber: 2.9 Consensus size: 51
31259764 TTGAACCTTA
31259774 GGAATAAAATAGCTTTAGACACAAGTGTGGTACTATGTGAAGGCCACTTTG
1 GGAATAAAATAGCTTTAGACACAAGTGTGGTACTATGTGAAGGCCACTTTG
* *
31259825 GGAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTG
1 GGAATAAAATAGCTTTAGACACAAGTGTGGTACTATGTGAAGGCCACTTTG
* * *
31259876 TGAATAAAATAGCTTTTG-CTACAAGGGTGGTACTATGTGAAGGCCA
1 GGAATAAAATAGCTTTAGAC-ACAAGTGTGGTACTATGTGAAGGCCA
31259922 TCGTGTATCC
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 1 0.01
51 89 0.99
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (51 bp):
GGAATAAAATAGCTTTAGACACAAGTGTGGTACTATGTGAAGGCCACTTTG
Found at i:31266405 original size:43 final size:43
Alignment explanation
Indices: 31266344--31266437 Score: 161
Period size: 43 Copynumber: 2.2 Consensus size: 43
31266334 CAAATAGTAT
* * *
31266344 CCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGG
1 CCCGAATACACATCACCGGCACAAAGCATGCTAGGCACGAAGA
31266387 CCCGAATACACATCACCGGCACAAAGCATGCTAGGCACGAAGA
1 CCCGAATACACATCACCGGCACAAAGCATGCTAGGCACGAAGA
31266430 CCCGAATA
1 CCCGAATA
31266438 TAATACCAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.34, C:0.34, G:0.22, T:0.10
Consensus pattern (43 bp):
CCCGAATACACATCACCGGCACAAAGCATGCTAGGCACGAAGA
Found at i:31284474 original size:46 final size:46
Alignment explanation
Indices: 31284308--31284483 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 46
31284298 TGTAACCCGC
* * * ** *
31284308 CCATAAGTGAACTCGGACTCAATTCAATGAGCTCGGGCATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
* * *
31284354 CCATAAGTGAACTCGGGCTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTAGCAT
* *** * * *
31284400 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
*
31284447 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
31284484 TGCCCAAATA
Statistics
Matches: 103, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 69 0.67
47 34 0.33
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
Found at i:31284502 original size:46 final size:45
Alignment explanation
Indices: 31284359--31284502 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 45
31284349 TGCATCCATA
* * * *
31284359 AGTGAACTCGGGCTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
31284407 --TCGAACTCAGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGT-GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
31284452 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
31284498 AGTGA
1 AGTGA
31284503 CATGTCACTT
Statistics
Matches: 74, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
43 4 0.05
46 37 0.50
47 29 0.39
48 4 0.05
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:31286586 original size:15 final size:15
Alignment explanation
Indices: 31286528--31286607 Score: 67
Period size: 15 Copynumber: 5.4 Consensus size: 15
31286518 CAAAGATAAC
*
31286528 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
31286542 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
31286557 GAGAAA-CCCGAAATA
1 AAGAAATCCAG-AATA
31286572 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* * *
31286587 AATAGATCCAGGATA
1 AAGAAATCCAGAATA
31286602 AAGAAA
1 AAGAAA
31286608 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
14 11 0.22
15 36 0.71
16 4 0.08
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:31286616 original size:15 final size:15
Alignment explanation
Indices: 31286539--31286616 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
31286529 AGAAAACCGA
31286539 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
31286554 ATAGAGAAACCCGAA-
1 ATAAAGAAATCC-AAG
31286569 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* * *
31286583 AATAAATAGATCCAGG
1 -ATAAAGAAATCCAAG
*
31286599 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
31286614 ATA
1 ATA
31286617 CGATACTATG
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
13 1 0.02
15 44 0.92
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:31293266 original size:40 final size:40
Alignment explanation
Indices: 31293211--31293434 Score: 344
Period size: 40 Copynumber: 5.6 Consensus size: 40
31293201 TATTCGAATG
*
31293211 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
31293251 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * *
31293291 ATATCAGGGCTAGGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
31293331 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
31293371 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
31293411 ATATCC-GGCTAAATCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCA
31293435 CTTGGGTTTG
Statistics
Matches: 168, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 16 0.10
40 149 0.89
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:31301417 original size:40 final size:40
Alignment explanation
Indices: 31301362--31301545 Score: 255
Period size: 40 Copynumber: 4.6 Consensus size: 40
31301352 TATTCGAATG
* *
31301362 ATATCCGAGCTAAGTCCCAAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
31301402 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
31301442 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* **
31301482 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGGGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-TATTGACT
* *
31301522 ATATCC-AGCTAAATCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCA
31301546 CTTGGGTTTG
Statistics
Matches: 129, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 15 0.12
40 111 0.86
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:31305709 original size:79 final size:78
Alignment explanation
Indices: 31305607--31305830 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 78
31305597 GCTCCTCGTT
* *
31305607 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
31305672 ATTTAATAACTCGCA
64 AATTAATAACTCGCA
* * *
31305687 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-TTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
* *
31305751 ATTAGTATCTCGCA
65 ATTAATAACTCGCA
* * * * *
31305765 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
31305829 GA
63 GA
31305831 CATCATTCAA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
78 34 0.28
79 56 0.46
80 33 0.27
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAATAACTCGCA
Found at i:31305724 original size:39 final size:40
Alignment explanation
Indices: 31305607--31305830 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
31305597 GCTCCTCGTT
* *
31305607 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
31305647 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
31305687 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
31305726 CAAATGCCTTCGGG-TTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
31305765 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
31305806 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31305831 CATCATTCAA
Statistics
Matches: 164, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
38 2 0.01
39 70 0.43
40 76 0.46
41 16 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:31308105 original size:41 final size:42
Alignment explanation
Indices: 31308043--31308150 Score: 130
Period size: 41 Copynumber: 2.6 Consensus size: 42
31308033 TTTATAAAAT
* * *
31308043 CACCAGCATTTAGCCTACTAGGTTTTAAACCTGA-ATTCA-TC
1 CACCAGCATTTAGCCTGCTAGGCTTGAAACCTGATA-TCATTC
* * *
31308084 CACCAGCATTTCGCCTGCTAGGCTTGAAGCCTGATATCATTT
1 CACCAGCATTTAGCCTGCTAGGCTTGAAACCTGATATCATTC
31308126 CACCAGCATTATAGCCTGCTAGGCT
1 CACCAGCATT-TAGCCTGCTAGGCT
31308151 CGAAGGCCCG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 32 0.56
42 12 0.21
43 13 0.23
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.30
Consensus pattern (42 bp):
CACCAGCATTTAGCCTGCTAGGCTTGAAACCTGATATCATTC
Found at i:31308182 original size:45 final size:45
Alignment explanation
Indices: 31308125--31308257 Score: 221
Period size: 45 Copynumber: 3.0 Consensus size: 45
31308115 TGATATCATT
* *
31308125 TCACCAGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
31308170 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
31308215 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCTCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
31308258 CCGTACAATA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 82 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:31316981 original size:35 final size:35
Alignment explanation
Indices: 31316942--31317030 Score: 115
Period size: 35 Copynumber: 2.5 Consensus size: 35
31316932 AATCGACTCA
* * * *
31316942 AAAAATGTTGGGATAGACCATTCTATGCCAACCAT
1 AAAAAGGTTGGGATAGACCAGTCTAAGACAACCAT
* * *
31316977 AAAAAGGTTGAGATAGACCGGTCTAAGACAACCTT
1 AAAAAGGTTGGGATAGACCAGTCTAAGACAACCAT
31317012 AAAAAGGTTGGGATAGACC
1 AAAAAGGTTGGGATAGACC
31317031 TTGTCTACAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.21
Consensus pattern (35 bp):
AAAAAGGTTGGGATAGACCAGTCTAAGACAACCAT
Found at i:31318573 original size:26 final size:26
Alignment explanation
Indices: 31318544--31318603 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
31318534 GGGTGTAATG
*
31318544 GTAATTTTGC-ACCTAGGGGTATATC-A
1 GTAATTTT-CAACATAGGGGTAT-TCAA
31318570 GTAATTTTCATACATAGGGGTATTCAA
1 GTAATTTTCA-ACATAGGGGTATTCAA
31318597 GTAATTT
1 GTAATTT
31318604 AACTATTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 1 0.03
26 10 0.33
27 19 0.63
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (26 bp):
GTAATTTTCAACATAGGGGTATTCAA
Found at i:31325784 original size:17 final size:17
Alignment explanation
Indices: 31325764--31325802 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
31325754 CTTTTATTAA
31325764 GTTTTTAAGATTCATTC
1 GTTTTTAAGATTCATTC
*
31325781 GTTTTTAAGATTCATTT
1 GTTTTTAAGATTCATTC
31325798 GTTTT
1 GTTTT
31325803 CCTTTTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.59
Consensus pattern (17 bp):
GTTTTTAAGATTCATTC
Found at i:31331086 original size:16 final size:16
Alignment explanation
Indices: 31331065--31331104 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
31331055 AAGGAAAAAG
31331065 TAAATTAATAAATAAT
1 TAAATTAATAAATAAT
31331081 TAAATTAATAAATAAT
1 TAAATTAATAAATAAT
31331097 TAAATTAA
1 TAAATTAA
31331105 ATTAAATTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAATTAATAAATAAT
Found at i:31332254 original size:12 final size:12
Alignment explanation
Indices: 31332225--31332256 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
31332215 CGAGTACTAA
31332225 CAATTTTAAATT
1 CAATTTTAAATT
31332237 --ATTTTAAATT
1 CAATTTTAAATT
31332247 CAATTTTAAA
1 CAATTTTAAA
31332257 ACATTTAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.56
12 8 0.44
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (12 bp):
CAATTTTAAATT
Found at i:31336601 original size:140 final size:139
Alignment explanation
Indices: 31336348--31336715 Score: 461
Period size: 140 Copynumber: 2.6 Consensus size: 139
31336338 TCAACATGTG
* *
31336348 TATCCCAACCCTTATACAAATAGTTGGACAAA-CTGTATATCCGCAAGTCTATCCCAAAACTTAG
1 TATCCCAACCCTTATACAAATAGTTGGACAAAGC-GTATGTCCGCAAGTCTATCCCAACACTTAG
* * ***
31336412 GAAAACGTTAG-CCCAAAAGTGTCGGCATAGTGTTGGACAAAGCCAACTCTTATTTACGTGTTGC
65 G-AAA-GTTCGACCCAAAAGTGTCGACATAGTGTTGGACAAAGCCAACTCTTATTTAAACGTTGC
*
31336476 CTTAGGCATGCA
128 CTAAGGCATGCA
* * * **
31336488 TATCCCTACCCTTATAAAAATAGTTGGACAAAGCATATGTAGGCAAGTCTATCCCAACACTTAGG
1 TATCCCAACCCTTATACAAATAGTTGGACAAAGCGTATGTCCGCAAGTCTATCCCAACACTTAGG
* *
31336553 AAAGTATCGACCCAAAAGTGTCGACATAGTGTTGGACAAAGTCGACTCTTATTTAAACGTTGCCT
66 AAAGT-TCGACCCAAAAGTGTCGACATAGTGTTGGACAAAGCCAACTCTTATTTAAACGTTGCCT
*
31336618 AAGGCATGGA
130 AAGGCATGCA
* * * * * *
31336628 TATCCCGACCCTTGTACAAAGAGTTAGCCAAAGCGTATGTCTGCAAGTCTATCCCAACACTTAGG
1 TATCCCAACCCTTATACAAATAGTTGGACAAAGCGTATGTCCGCAAGTCTATCCCAACACTTAGG
**
31336693 AAAGTGTCGACAGAAAAGTGTCG
66 AAAGT-TCGACCCAAAAGTGTCG
31336716 TCTTAGGACT
Statistics
Matches: 197, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
138 2 0.01
139 5 0.03
140 189 0.96
141 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (139 bp):
TATCCCAACCCTTATACAAATAGTTGGACAAAGCGTATGTCCGCAAGTCTATCCCAACACTTAGG
AAAGTTCGACCCAAAAGTGTCGACATAGTGTTGGACAAAGCCAACTCTTATTTAAACGTTGCCTA
AGGCATGCA
Found at i:31339121 original size:46 final size:46
Alignment explanation
Indices: 31339052--31339184 Score: 171
Period size: 46 Copynumber: 2.9 Consensus size: 46
31339042 ATAATTTCAC
*
31339052 CCATAATGAACTCGGAATGCAACTCAACGAGCTCAGG-TG-TTCACAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGCTC-GGATGCTT-ACAT
* * * *
31339098 CCATAATGAACTCGAAACACAACTCAACGAGTTCGGATGCTTGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGATGCTTACAT
*
31339144 CCATAAGTGAACTCGGAACGCAACTCAACGAGTTCGGATGC
1 CCATAA-TGAACTCGGAACGCAACTCAACGAGCTCGGATGC
31339185 CTCATAATTC
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
45 2 0.03
46 41 0.53
47 34 0.44
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGATGCTTACAT
Found at i:31339173 original size:47 final size:47
Alignment explanation
Indices: 31339052--31339225 Score: 185
Period size: 47 Copynumber: 3.7 Consensus size: 47
31339042 ATAATTTCAC
* *
31339052 CCATAATGAACTCGGAATGCAACTCAACGAGCTCAGG-TG-TTCACAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTC-GGATGCTTCACAT
* * *
31339098 CCATAATGAACTCGAAACACAACTCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
* *
31339144 CCATAAGTGAACTCGGAACGCAACTCAACGAGTTCGGATGCCTCATAAT
1 CCATAA-TGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCA-CAT
* * * **
31339193 TC-TCACGAACTCGGAACATAACTCAACGAGTTC
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTC
31339226 AGATCTCAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
45 2 0.02
46 41 0.38
47 60 0.56
48 2 0.02
49 3 0.03
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.21
Consensus pattern (47 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
Found at i:31355235 original size:19 final size:19
Alignment explanation
Indices: 31355213--31355251 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
31355203 TTCAAACATC
31355213 TCACAAAAGATCATAAGCA
1 TCACAAAAGATCATAAGCA
31355232 TCACAAAAGATCATAAGCA
1 TCACAAAAGATCATAAGCA
31355251 T
1 T
31355252 ATAGATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.21, G:0.10, T:0.18
Consensus pattern (19 bp):
TCACAAAAGATCATAAGCA
Found at i:31357439 original size:25 final size:27
Alignment explanation
Indices: 31357384--31357447 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
31357374 CTGCCGTCCA
*
31357384 TTTTCCTTTTCTTCTCATGTCTGTTTTT
1 TTTTCCTTTTCTTCT-ATGTCTGTTTAT
31357412 TTTTCCTTTTCTTCT-TG-CT-TTCTAT
1 TTTTCCTTTTCTTCTATGTCTGTT-TAT
*
31357437 TTTTTCTTTTC
1 TTTTCCTTTTC
31357448 ATTTTTGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 2 0.06
25 14 0.42
26 2 0.06
28 15 0.45
ACGTcount: A:0.03, C:0.22, G:0.05, T:0.70
Consensus pattern (27 bp):
TTTTCCTTTTCTTCTATGTCTGTTTAT
Found at i:31359270 original size:10 final size:10
Alignment explanation
Indices: 31359257--31359288 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
31359247 TTTTTAGAAT
31359257 AATAACATAA
1 AATAACATAA
31359267 AATAACATAA
1 AATAACATAA
31359277 AATAA-ATAA
1 AATAACATAA
31359286 AAT
1 AAT
31359289 TCAGGAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 7 0.32
10 15 0.68
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (10 bp):
AATAACATAA
Found at i:31360343 original size:20 final size:21
Alignment explanation
Indices: 31360318--31360360 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
31360308 CACATTAGTG
31360318 AACAAATATAAATAT-AAATA
1 AACAAATATAAATATAAAATA
**
31360338 AACAAATATTTATATAAAATA
1 AACAAATATAAATATAAAATA
31360359 AA
1 AA
31360361 ATAAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
AACAAATATAAATATAAAATA
Found at i:31360373 original size:22 final size:20
Alignment explanation
Indices: 31360329--31360374 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
31360319 ACAAATATAA
*
31360329 ATATAAATAAACAAATATTT
1 ATATAAATAAACAAAAATTT
*
31360349 ATATAAAATAAAATAAAAATTT
1 ATAT-AAAT-AAACAAAAATTT
31360371 ATAT
1 ATAT
31360375 TTAAAATATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 4 0.18
22 14 0.64
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
ATATAAATAAACAAAAATTT
Found at i:31363610 original size:77 final size:77
Alignment explanation
Indices: 31363526--31364090 Score: 451
Period size: 77 Copynumber: 7.1 Consensus size: 77
31363516 TAAATTTCTA
* * * * * * *
31363526 AAACAAAATTAAAAT-TAATTCTGTTGAATAGTAGGATTAAATCCTGAAACATAATTATTTAATT
1 AAACAAAATCAAAATAAAATT-TGTTAAATAGCAGGAATAAATCCCGAAACAAAATTATTTAATT
31363590 AAATCTTATTTGG
65 AAATCTTATTTGG
* * *
31363603 AAACAAAATCAAAATAAAATTTGTTAAATGGCGGGAATAAATCCCGAAACAAAATTATTTGATTA
1 AAACAAAATCAAAATAAAATTTGTTAAATAGCAGGAATAAATCCCGAAACAAAATTATTTAATTA
31363668 AATCTTATTTGG
66 AATCTTATTTGG
* * ** * * * * *
31363680 AAACAAAGTCAAAATAAAAATTGTTAAACGGCGGGAATAAATCTCAAAACAGAATTATTTGATTA
1 AAACAAAATCAAAATAAAATTTGTTAAATAGCAGGAATAAATCCCGAAACAAAATTATTTAATTA
*
31363745 AATCTTGTTTGG
66 AATCTTATTTGG
* * * ** * * * * *
31363757 AAACAAAAACGAAATAAAATATGTTAAGCAGC-TGAATAAATCCCAAAATAGAATTATTCAATTA
1 AAACAAAATCAAAATAAAATTTGTTAAATAGCAGGAATAAATCCCGAAACAAAATTATTTAATTA
*
31363821 AATCTTCTTGTTTGG
66 AA---TCTTATTTGG
* * * *
31363836 AAATAAAATCAAAATCGAATAAAATTTGTTAAACAGCAGGAATAAATCTCGAAACAGAATTATTT
1 AAACAAAATC--AA---AATAAAATTTGTTAAATAGCAGGAATAAATCCCGAAACAAAATTATTT
* * *
31363901 GATTCAATCTTGTTTGG
61 AATTAAATCTTATTTGG
** *
31363918 AAACAAAATCAAAATAAAATTTGTT-AAGCGTC-GGAATAAATCCCGAAAAAAAATTATTTAATT
1 AAACAAAATCAAAATAAAATTTGTTAAATAG-CAGGAATAAATCCCGAAACAAAATTATTTAATT
*
31363981 AAATCTTCTCGTTTGG
65 AAATC-T-T-ATTTGG
* * * *
31363997 AAAAAATCAAAATC-GAATAAAATCTT-CTAAATGGCAGGAATAAATCTCGAAAC-AAATTATAT
1 ---AAA-CAAAATCAAAATAAAAT-TTGTTAAATAGCAGGAATAAATCCCGAAACAAAATTAT-T
* *
31364059 TCAATTTTAATCCTCATTTGG
60 T-AA-TTAAAT-CTTATTTGG
31364080 AAACAAAATCA
1 AAACAAAATCA
31364091 TAATGGAATA
Statistics
Matches: 404, Mismatches: 58, Indels: 49
0.79 0.11 0.10
Matches are distributed among these distances:
76 63 0.16
77 172 0.43
78 5 0.01
79 31 0.08
80 5 0.01
81 1 0.00
82 39 0.10
83 34 0.08
84 20 0.05
85 33 0.08
86 1 0.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (77 bp):
AAACAAAATCAAAATAAAATTTGTTAAATAGCAGGAATAAATCCCGAAACAAAATTATTTAATTA
AATCTTATTTGG
Found at i:31363896 original size:161 final size:158
Alignment explanation
Indices: 31363558--31364056 Score: 610
Period size: 161 Copynumber: 3.2 Consensus size: 158
31363548 GTTGAATAGT
* * * *
31363558 AGGATTAAATC-CTGAAACATAATTATTTAATTAAATCTTATTTGGAAACAAAATCAAAATAAAA
1 AGGAATAAATCTC-GAAACAGAATTATTTGATTAAATCTTGTTTGGAAACAAAATCAAAATAAAA
* * *
31363622 TTTGTTAAATG-GCGGGAATAAATCCCGAAACAAAATTATTTGATTAAA---TCTTATTTGGAAA
65 TTTGTT-AA-GCGC-GGAATAAATCCC-AAAAAAAATTATTTAATTAAATCTTCTTGTTTGGAAA
*
31363683 CAAAGTCAAAAT---A-AAAA-TTGTTAAACGGC
126 -AAAATCAAAATCGAATAAAATTTGTTAAACGGC
* * * *
31363712 GGGAATAAATCTCAAAACAGAATTATTTGATTAAATCTTGTTTGGAAACAAAAACGAAATAAAAT
1 AGGAATAAATCTCGAAACAGAATTATTTGATTAAATCTTGTTTGGAAACAAAATCAAAATAAAAT
* * * *
31363777 ATGTTAAGCAGCTGAATAAATCCCAAAATAGAATTATTCAATTAAATCTTCTTGTTTGGAAATAA
66 TTGTTAAGC-GCGGAATAAATCCCAAAA-AAAATTATTTAATTAAATCTTCTTGTTTGGAAA-AA
*
31363842 AATCAAAATCGAATAAAATTTGTTAAACAGC
128 AATCAAAATCGAATAAAATTTGTTAAACGGC
*
31363873 AGGAATAAATCTCGAAACAGAATTATTTGATTCAATCTTGTTTGGAAACAAAATCAAAATAAAAT
1 AGGAATAAATCTCGAAACAGAATTATTTGATTAAATCTTGTTTGGAAACAAAATCAAAATAAAAT
*
31363938 TTGTTAAGCGTCGGAATAAATCCCGAAAAAAAATTATTTAATTAAATCTTCTCGTTTGG-AAAAA
66 TTGTTAAGCG-CGGAATAAATCCC-AAAAAAAATTATTTAATTAAATCTTCTTGTTTGGAAAAAA
* *
31364002 ATCAAAATCGAATAAAATCTT-CTAAATGGC
129 ATCAAAATCGAATAAAAT-TTGTTAAACGGC
31364032 AGGAATAAATCTCGAAACA-AATTAT
1 AGGAATAAATCTCGAAACAGAATTAT
31364057 ATTCAATTTT
Statistics
Matches: 299, Mismatches: 31, Indels: 26
0.84 0.09 0.07
Matches are distributed among these distances:
152 4 0.01
153 27 0.09
154 61 0.20
155 1 0.00
156 22 0.07
158 6 0.02
159 47 0.16
160 9 0.03
161 118 0.39
162 4 0.01
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.30
Consensus pattern (158 bp):
AGGAATAAATCTCGAAACAGAATTATTTGATTAAATCTTGTTTGGAAACAAAATCAAAATAAAAT
TTGTTAAGCGCGGAATAAATCCCAAAAAAAATTATTTAATTAAATCTTCTTGTTTGGAAAAAAAT
CAAAATCGAATAAAATTTGTTAAACGGC
Found at i:31364089 original size:238 final size:231
Alignment explanation
Indices: 31363563--31364090 Score: 552
Period size: 238 Copynumber: 2.2 Consensus size: 231
31363553 ATAGTAGGAT
** * *
31363563 TAAATCCTGAAACATAATTATTTAATTAAATCT-T-ATTTGGAAACAAAATCAAAATAAAATTTG
1 TAAATCCCAAAACAGAATTATTCAATTAAATCTCTCATTTGGAAACAAAATCAAAATAAAATTTG
** * *
31363626 TTAAATGGCGGGAATAAATCCCGAAACAAAATTATTTGATTAAATCTTATTTGGAAACAAAGTCA
66 TTAAACAGCAGGAATAAATCCCGAAACAAAATTATTTGATTAAATCTTATTTGGAAACAAAATCA
* * *
31363691 AAATAAAAATTGTTAAACGGCGGGAATAAATCTCAAAACAGAATTATTTGATTAAATCTTGTTTG
131 AAATAAAAATTGTTAAACGGCGGGAATAAATCCCAAAACAAAATTATTTAATTAAATCTTGTTTG
31363756 GAAACAAAAACGAAATAAAATATGTTAAGCAGCTGAA
196 GAAACAAAAACGAAATAAAATATGTTAAGCAGC-GAA
* ** *
31363793 TAAATCCCAAAATAGAATTATTCAATTAAATCTTCTTGTTTGGAAATAAAATCAAAATCGAATAA
1 TAAATCCCAAAACAGAATTATTCAATTAAATC-TCTCATTTGGAAACAAAATC--AA---AATAA
* * * *
31363858 AATTTGTTAAACAGCAGGAATAAATCTCGAAACAGAATTATTTGATTCAATCTTGTTTGGAAACA
60 AATTTGTTAAACAGCAGGAATAAATCCCGAAACAAAATTATTTGATTAAATCTTATTTGGAAACA
* * *
31363923 AAATCAAAATAAAATTTGTTAAGCGTC-GGAATAAATCCCGAAAA-AAAATTATTTAATTAAATC
125 AAATCAAAATAAAAATTGTTAAACGGCGGGAATAAATCCC-AAAACAAAATTATTTAATTAAATC
* *
31363986 TTCTCGTTTGGAAAAAATCAAAATCG-AATAAAATCT-TCTAAATGGCAG-GAA
189 -T-T-GTTTGG---AAA-CAAAAACGAAATAAAATATGT-T-AA--GCAGCGAA
* * *
31364037 TAAATCTCGAAACA-AATTATATTCAATTTTAATC-CTCATTTGGAAACAAAATCA
1 TAAATCCCAAAACAGAA-T-TATTCAA-TTAAATCTCTCATTTGGAAACAAAATCA
31364091 TAATGGAATA
Statistics
Matches: 245, Mismatches: 30, Indels: 34
0.79 0.10 0.11
Matches are distributed among these distances:
230 27 0.11
231 1 0.00
232 1 0.00
233 14 0.06
235 2 0.01
237 28 0.11
238 91 0.37
239 1 0.00
240 6 0.02
242 2 0.01
243 15 0.06
244 40 0.16
245 7 0.03
246 10 0.04
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (231 bp):
TAAATCCCAAAACAGAATTATTCAATTAAATCTCTCATTTGGAAACAAAATCAAAATAAAATTTG
TTAAACAGCAGGAATAAATCCCGAAACAAAATTATTTGATTAAATCTTATTTGGAAACAAAATCA
AAATAAAAATTGTTAAACGGCGGGAATAAATCCCAAAACAAAATTATTTAATTAAATCTTGTTTG
GAAACAAAAACGAAATAAAATATGTTAAGCAGCGAA
Found at i:31365020 original size:26 final size:26
Alignment explanation
Indices: 31364991--31365098 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
31364981 TGGTACAAAT
31364991 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
31365017 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31365043 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
31365069 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31365095 TGAT
1 TGAT
31365099 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:31367960 original size:27 final size:27
Alignment explanation
Indices: 31367920--31367975 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
31367910 CTGTAAGTAT
31367920 TATTCTGAACTCTTCTGAATATTTTTC
1 TATTCTGAACTCTTCTGAATATTTTTC
*
31367947 TATTCTGAATTCTTCTGAATATTTTTC
1 TATTCTGAACTCTTCTGAATATTTTTC
31367974 TA
1 TA
31367976 ACTTATCTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.23, C:0.16, G:0.07, T:0.54
Consensus pattern (27 bp):
TATTCTGAACTCTTCTGAATATTTTTC
Found at i:31372135 original size:26 final size:26
Alignment explanation
Indices: 31372106--31372212 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
31372096 TGGTACAAAT
31372106 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
31372132 TGATAATGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
31372157 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
31372183 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31372209 TGAT
1 TGAT
31372213 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:31372166 original size:51 final size:52
Alignment explanation
Indices: 31372106--31372212 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
31372096 TGGTACAAAT
31372106 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
31372157 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
31372209 TGAT
1 TGAT
31372213 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 47 0.89
52 6 0.11
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:31376474 original size:21 final size:21
Alignment explanation
Indices: 31376427--31376481 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
31376417 CATATAAGTA
31376427 ATTTT-ATTATAAATTTTAAG
1 ATTTTCATTATAAATTTTAAG
31376447 ATTTTCATT-TAAATTTTAAG
1 ATTTTCATTATAAATTTTAAG
*
31376467 ATTTTTCATAATAAA
1 A-TTTTCATTATAAA
31376482 AATATTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 17 0.55
21 10 0.32
22 4 0.13
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (21 bp):
ATTTTCATTATAAATTTTAAG
Found at i:31376934 original size:70 final size:70
Alignment explanation
Indices: 31376819--31376962 Score: 270
Period size: 70 Copynumber: 2.1 Consensus size: 70
31376809 TTTAATTAAA
*
31376819 AATACATGGGAGGAAAGTGGTTAACTATGTGTTAATTAACGAGATAATTTCTATATAAATCAATG
1 AATACATGGGAGGAAAGTGGTTAACTATGTGTTAATTAACCAGATAATTTCTATATAAATCAATG
31376884 GTTCT
66 GTTCT
*
31376889 AATACATGGGAGGAAAGTGGTTAATTATGTGTTAATTAACCAGATAATTTCTATATAAATCAATG
1 AATACATGGGAGGAAAGTGGTTAACTATGTGTTAATTAACCAGATAATTTCTATATAAATCAATG
31376954 GTTCT
66 GTTCT
31376959 AATA
1 AATA
31376963 GCCCTTTTCA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (70 bp):
AATACATGGGAGGAAAGTGGTTAACTATGTGTTAATTAACCAGATAATTTCTATATAAATCAATG
GTTCT
Found at i:31377954 original size:43 final size:43
Alignment explanation
Indices: 31377906--31378002 Score: 140
Period size: 43 Copynumber: 2.3 Consensus size: 43
31377896 TTAAAAAAAT
* * * * *
31377906 GCCGCTAAAGACCATGACCTTTAGCGGCGTTTTTTTCACAAAC
1 GCCGCTAAAAACCATGACCTTTAACGACGCTTTTCTCACAAAC
*
31377949 GCCGCTAAAAACCATGACCTTTAATGACGCTTTTCTCACAAAC
1 GCCGCTAAAAACCATGACCTTTAACGACGCTTTTCTCACAAAC
31377992 GCCGCTAAAAA
1 GCCGCTAAAAA
31378003 ATATAACCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (43 bp):
GCCGCTAAAAACCATGACCTTTAACGACGCTTTTCTCACAAAC
Found at i:31378654 original size:24 final size:24
Alignment explanation
Indices: 31378626--31378672 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
31378616 CTTCAACACC
31378626 TGCCTCTTCCTATGTTTCCCTTAT
1 TGCCTCTTCCTATGTTTCCCTTAT
* *
31378650 TGCCTTTTCCTATGTTTCTCTTA
1 TGCCTCTTCCTATGTTTCCCTTA
31378673 CTAAGTTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.09, C:0.30, G:0.09, T:0.53
Consensus pattern (24 bp):
TGCCTCTTCCTATGTTTCCCTTAT
Found at i:31381945 original size:20 final size:19
Alignment explanation
Indices: 31381907--31381947 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
31381897 TTTCCAACAG
* *
31381907 TAAACCCTAAACCTAAACC
1 TAAACCCCAAACATAAACC
31381926 TAAACCCCAAACTATAAACC
1 TAAACCCCAAAC-ATAAACC
31381946 TA
1 TA
31381948 TATCCTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (19 bp):
TAAACCCCAAACATAAACC
Found at i:31382155 original size:14 final size:14
Alignment explanation
Indices: 31382136--31382167 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
31382126 AAAAAAACAC
*
31382136 AAACTCTAAACCAT
1 AAACTCTAAACCAA
31382150 AAACTCTAAACCAA
1 AAACTCTAAACCAA
31382164 AAAC
1 AAAC
31382168 AATAAACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACTCTAAACCAA
Found at i:31382934 original size:41 final size:41
Alignment explanation
Indices: 31382889--31383030 Score: 230
Period size: 41 Copynumber: 3.5 Consensus size: 41
31382879 CCAAAAGCGC
* * *
31382889 TTTTCTAAAAGCGCCACTAAAACCTCGATCTATAGCAGCAT
1 TTTTCCAAAAGCGCCACTAAAACCTCGACCTATAGCGGCAT
31382930 TTTTCCAAAAGCGCCACTAAAACCTCGACCTATAGCGGCAT
1 TTTTCCAAAAGCGCCACTAAAACCTCGACCTATAGCGGCAT
* * *
31382971 TTTTCCAAAAGCGCCTCTAAAACCTTGACCTATAGCGGCGT
1 TTTTCCAAAAGCGCCACTAAAACCTCGACCTATAGCGGCAT
31383012 TTTTCCAAAAGCGCCACTA
1 TTTTCCAAAAGCGCCACTA
31383031 TTGTTCAGTT
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.25
Consensus pattern (41 bp):
TTTTCCAAAAGCGCCACTAAAACCTCGACCTATAGCGGCAT
Found at i:31383061 original size:41 final size:41
Alignment explanation
Indices: 31383003--31383135 Score: 160
Period size: 41 Copynumber: 3.3 Consensus size: 41
31382993 CCTTGACCTA
** * * *
31383003 TAGCGGCGTTT-TTCCAAAAGCGCCACTATTGTTCAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
31383043 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
* ** * *
31383084 TAGTGGCGTTTGGATAAAAAATGCTGCTATTGCTCAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
*
31383125 TTGCGGCGTTT
1 TAGCGGCGTTT
31383136 TATTGCAAAC
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 11 0.14
41 69 0.86
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (41 bp):
TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
Found at i:31385880 original size:13 final size:13
Alignment explanation
Indices: 31385860--31385899 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
31385850 TTTTACTCTT
*
31385860 GATTTTACAAAAA
1 GATTTTACTAAAA
*
31385873 GGTTTTACTAAAA
1 GATTTTACTAAAA
*
31385886 TATTTTACTAAAA
1 GATTTTACTAAAA
31385899 G
1 G
31385900 TACGATTTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (13 bp):
GATTTTACTAAAA
Found at i:31389245 original size:42 final size:42
Alignment explanation
Indices: 31389121--31389284 Score: 143
Period size: 42 Copynumber: 3.9 Consensus size: 42
31389111 TAAGATGCCA
* * ****
31389121 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCG
1 ATGCCATATCCCAGACATGGACTTACACAAAATCACATATCG
* * ** *
31389163 ATGCCGATAGCCCAG-CTATGGTCTTACA-AGATGTCTCATATCG
1 ATGCC-ATATCCCAGAC-ATGGACTTACACA-AAATCACATATCG
* *
31389206 ATGCCATGTCCTAGACATGGACTTACACAAAATCACATATCG
1 ATGCCATATCCCAGACATGGACTTACACAAAATCACATATCG
* * *
31389248 ATGCCATATCCCAGATATGGTCTTACACGAAATCACA
1 ATGCCATATCCCAGACATGGACTTACACAAAATCACA
31389285 CATAACCCTA
Statistics
Matches: 98, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
42 63 0.64
43 35 0.36
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (42 bp):
ATGCCATATCCCAGACATGGACTTACACAAAATCACATATCG
Found at i:31391817 original size:34 final size:33
Alignment explanation
Indices: 31391779--31391869 Score: 94
Period size: 34 Copynumber: 2.7 Consensus size: 33
31391769 TTTCTACAGA
*
31391779 ATTGATCTATTATAAGCATATT-TTTTGCTATTAT
1 ATTGATATATTATAAGCATATTATTTT-C-ATTAT
*
31391813 ATTGAAATATTATAAGCATATTGATTTTCATTAT
1 ATTGATATATTATAAGCATATT-ATTTTCATTAT
* * * *
31391847 ATTGTTTTATTAAAACCATATTA
1 ATTGATATATTATAAGCATATTA
31391870 AATGCTACCG
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
33 1 0.02
34 42 0.88
35 1 0.02
36 4 0.08
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.49
Consensus pattern (33 bp):
ATTGATATATTATAAGCATATTATTTTCATTAT
Found at i:31392626 original size:17 final size:16
Alignment explanation
Indices: 31392601--31392643 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
31392591 TTTTAGGATC
* *
31392601 ATTAATTTGTTATTTT
1 ATTATTTTGTTATTGT
*
31392617 ATTTATTTTGATATTGT
1 A-TTATTTTGTTATTGT
31392634 ATTATTTTGT
1 ATTATTTTGT
31392644 GTTGAATTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.67
Consensus pattern (16 bp):
ATTATTTTGTTATTGT
Found at i:31394484 original size:63 final size:63
Alignment explanation
Indices: 31394395--31394526 Score: 165
Period size: 63 Copynumber: 2.1 Consensus size: 63
31394385 GTCTTGCCCA
* * * * * * * *
31394395 TGTGTCTCTATTAGGAACTCAGTGAGTTACACGGCCTGAACACATACTCGTGTGTCTCACCTG
1 TGTGACTCTAATAGGAACTCAATGAGTTACACGACCTAAACACACACCCGTGTGTCTCACCCG
* * *
31394458 TGTGACTCTAATATGAACTCAATGAGTTACATGACCTAAACACACGCCCGTGTGTCTCACCCG
1 TGTGACTCTAATAGGAACTCAATGAGTTACACGACCTAAACACACACCCGTGTGTCTCACCCG
31394521 TGTGAC
1 TGTGAC
31394527 CTGTACATAT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (63 bp):
TGTGACTCTAATAGGAACTCAATGAGTTACACGACCTAAACACACACCCGTGTGTCTCACCCG
Found at i:31395133 original size:10 final size:10
Alignment explanation
Indices: 31395118--31395150 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
31395108 TTATGACAAA
31395118 GGGATAGATT
1 GGGATAGATT
31395128 GGGATAGATT
1 GGGATAGATT
31395138 GGGATAGATT
1 GGGATAGATT
31395148 GGG
1 GGG
31395151 CCAGCTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.45, T:0.27
Consensus pattern (10 bp):
GGGATAGATT
Found at i:31397984 original size:19 final size:19
Alignment explanation
Indices: 31397920--31397994 Score: 71
Period size: 21 Copynumber: 3.8 Consensus size: 19
31397910 GAATGAAGTT
**
31397920 GAAAAAGAAAGAAAAGAAAA
1 GAAAAAGAAAGAAAA-ATGA
* *
31397940 TAAAACAGAAAAAAGAAATGA
1 GAAAA-AGAAAGAA-AAATGA
31397961 GAAAAAGAAAGCAAAAAT-A
1 GAAAAAGAAAG-AAAAATGA
31397980 GAAAAAGAAAGAAAA
1 GAAAAAGAAAGAAAA
31397995 GAGAATACGA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
18 4 0.09
19 12 0.26
20 13 0.28
21 15 0.33
22 2 0.04
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.04
Consensus pattern (19 bp):
GAAAAAGAAAGAAAAATGA
Found at i:31401371 original size:17 final size:18
Alignment explanation
Indices: 31401349--31401386 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
31401339 CCTACAGCCG
31401349 AATTTA-TG-TTGTGTCTT
1 AATTTATTGTTTGTGT-TT
31401366 AATTTATTGTTTGTGTTT
1 AATTTATTGTTTGTGTTT
31401384 AAT
1 AAT
31401387 ATGTCTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 7 0.37
19 6 0.32
ACGTcount: A:0.21, C:0.03, G:0.16, T:0.61
Consensus pattern (18 bp):
AATTTATTGTTTGTGTTT
Found at i:31403189 original size:15 final size:16
Alignment explanation
Indices: 31403169--31403206 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
31403159 AATTGGAAAG
31403169 ATGAAAAGTT-ATTAA
1 ATGAAAAGTTAATTAA
*
31403184 ATGAAAATTTAATTAA
1 ATGAAAAGTTAATTAA
31403200 ATGAAAA
1 ATGAAAA
31403207 AGAAAACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (16 bp):
ATGAAAAGTTAATTAA
Found at i:31410736 original size:40 final size:40
Alignment explanation
Indices: 31410666--31410847 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
31410656 CTACTCGTTC
* *
31410666 AATGCCTTC-GGACATAGCCCGG-TTATAGTAACTCACACA
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACA
* *
31410705 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
*
31410745 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
* ** * * *
31410784 AATGCCTTC-GGATCTTAGTCCATATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACA
*
31410825 AA-GCCTTCGGGACTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
31410848 CATCATTTGA
Statistics
Matches: 121, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 42 0.35
40 64 0.53
41 13 0.11
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
Found at i:31410831 original size:79 final size:80
Alignment explanation
Indices: 31410669--31410847 Score: 186
Period size: 79 Copynumber: 2.2 Consensus size: 80
31410659 CTCGTTCAAT
* * * * *
31410669 GCCTTCGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGCTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCAGATATA
* *
31410733 GTAACTCGCACCAAT
66 GTAACTAGCACCAAA
* ** *
31410748 GCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCATATAT
1 GCCTTCGGGCTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCAGATAT
*
31410811 AGTCACTTAGCA-CAAA
65 AGTAAC-TAGCACCAAA
*
31410827 GCCTTCGGGACTTAGTCCGGA
1 GCCTTCGGG-CTTAGCCCGGA
31410848 CATCATTTGA
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
78 3 0.04
79 65 0.78
80 15 0.18
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGCTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCAGATATA
GTAACTAGCACCAAA
Found at i:31417412 original size:68 final size:66
Alignment explanation
Indices: 31417223--31417421 Score: 192
Period size: 68 Copynumber: 3.0 Consensus size: 66
31417213 CTAGCCAATT
* * * *
31417223 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACATGGAACCATACATGCGACCTAGCT--A
1 TATCTCGTAGCTCTCTTGTCTACATGATG---TACACATAGCACCATACATGCGACCTAGCTACA
31417286 TATA
63 TATA
* * *
31417290 TATCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCA-ACCATGCGACCTAGCTACATC
1 TATCTCGTAGCTCTCTTGTCTACATGATGTACACATAGCACCATA-CATGCGACCTAGCTACAT-
31417354 ATAA
64 AT-A
* * * *
31417358 TTTCTTGTAGCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACAT
1 TATCTCGTAGCTCTCTTGT-CTACATGATGTACACAT-AGCACCATACATGCGACCTAGCTACAT
31417421 A
64 A
31417422 CTATCTGTAT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
63 1 0.01
64 24 0.21
66 2 0.02
67 33 0.29
68 51 0.45
69 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (66 bp):
TATCTCGTAGCTCTCTTGTCTACATGATGTACACATAGCACCATACATGCGACCTAGCTACATAT
A
Found at i:31420154 original size:40 final size:40
Alignment explanation
Indices: 31420050--31420313 Score: 194
Period size: 40 Copynumber: 6.6 Consensus size: 40
31420040 TATTCGAATG
* * * *
31420050 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTA-GCGACT
* * * * *
31420091 ACAACCGGACTAAGATCCGAAGGCATTCGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCT-AG-CGACT
* *
31420131 ATATCCGGGCTGAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAGCGACT
* ** * *
31420171 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAGCGACT
* * * * * * *
31420211 ACATCCGGGCTAAGACCAGAAGGCCTT-GCGCAAG-TAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAGCGA-CT
* ** * *
31420250 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAGCGACT
* *
31420290 ACATCCGGGCTCAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
31420314 CTTGCGCAAG
Statistics
Matches: 174, Mismatches: 42, Indels: 15
0.75 0.18 0.06
Matches are distributed among these distances:
38 1 0.01
39 28 0.16
40 116 0.67
41 29 0.17
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAGCGACT
Found at i:31420272 original size:39 final size:39
Alignment explanation
Indices: 31420213--31420349 Score: 136
Period size: 39 Copynumber: 3.5 Consensus size: 39
31420203 TAGTGACCAC
*
31420213 ATCCGGGCTAAGACCAGAAGGCCTTGCGCAAGTAGTTAT
1 ATCCGGGCTAAGACCCGAAGGCCTTGCGCAAGTAGTTAT
* * ** * ** *
31420252 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGT-GACCAC
1 ATCCGGGCTAAGACCCGAAGGC-CTTGCGCAAGTAG-TTAT
*
31420292 ATCCGGGCTCAGACCCGAAGGCCTTGCGCAAGTAGTTAT
1 ATCCGGGCTAAGACCCGAAGGCCTTGCGCAAGTAGTTAT
31420331 ATCC-GGCTAA-ATCCCGAAG
1 ATCCGGGCTAAGA-CCCGAAG
31420350 ATTACTTGAG
Statistics
Matches: 75, Mismatches: 19, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
37 1 0.01
38 12 0.16
39 33 0.44
40 29 0.39
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCCTTGCGCAAGTAGTTAT
Found at i:31420277 original size:79 final size:79
Alignment explanation
Indices: 31420170--31420349 Score: 326
Period size: 79 Copynumber: 2.3 Consensus size: 79
31420160 TGCTAGCGAC
31420170 TATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCAGAAGGC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCAGAAGGC
31420235 CTTGCGCAAGTAGT
66 CTTGCGCAAGTAGT
* *
31420249 TATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTCAGACCCGAAGGC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCAGAAGGC
31420314 CTTGCGCAAGTAGT
66 CTTGCGCAAGTAGT
*
31420328 TATATCC-GGCTAAATCCCGAAG
1 TATATCCGGGCTAAGTCCCGAAG
31420350 ATTACTTGAG
Statistics
Matches: 98, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
78 14 0.14
79 84 0.86
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.22
Consensus pattern (79 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCAGAAGGC
CTTGCGCAAGTAGT
Found at i:31420283 original size:119 final size:121
Alignment explanation
Indices: 31420050--31420313 Score: 327
Period size: 119 Copynumber: 2.2 Consensus size: 121
31420040 TATTCGAATG
* * *
31420050 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTACAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGGTGACCACAACCGGACTAAGATCCGAAGGC
* ** * * * *
31420115 ATTCGTGTGAGTTGCTATATCCGGGCTGAGACCCGAAGGCATTTGTGCTAGCGACT
66 ATTCGCGCAAGTAGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACC
* *
31420171 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTA-GTGACCACATCCGGGCTAAGA-CCAGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGGTGACCACAACCGGACTAAGATCC-GAAGG
* * * *
31420234 CCTT-GCGCAAGTAGTTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
65 CATTCGCGCAAGTAGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACC
* * *
31420290 ACATCCGGGCTCAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
31420314 CTTGCGCAAG
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
119 65 0.53
120 26 0.21
121 32 0.26
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (121 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGGTGACCACAACCGGACTAAGATCCGAAGGC
ATTCGCGCAAGTAGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACC
Found at i:31427154 original size:17 final size:17
Alignment explanation
Indices: 31427132--31427166 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
31427122 AATAATTAAC
31427132 TAAATTAGAAATTAAAT
1 TAAATTAGAAATTAAAT
*
31427149 TAAATTGGAAATTAAAT
1 TAAATTAGAAATTAAAT
31427166 T
1 T
31427167 CAGATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (17 bp):
TAAATTAGAAATTAAAT
Found at i:31429709 original size:27 final size:27
Alignment explanation
Indices: 31429677--31430167 Score: 538
Period size: 27 Copynumber: 18.2 Consensus size: 27
31429667 AAAGTACTCC
31429677 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * * **
31429704 CAATTTTTAAAATTACTATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
31429731 CGACTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
31429758 CGATTTGTCA-AATTACCGTTTTACCCT
1 CGATTTAT-AGAATTACCGTTTTACCCT
*
31429785 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
31429812 CAATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * **
31429839 CGATTTGTAAAATTACTATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
31429866 CGATTTATAGAATTATCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
31429893 -TAGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
31429920 CGATTTATAGAATTGCCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* **
31429947 CGATTTATAAAATTACTATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
31429974 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* ** *
31430001 CAATTTATAGAATTACTATTTTACCGT
1 CGATTTATAGAATTACCGTTTTACCCT
**
31430028 CGATTTATAGAATTACTATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
31430055 CGATTTGTAAAATTACTGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * * *
31430082 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * * * *
31430109 -TAGTTTACAAAATTATCATTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
31430136 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
31430163 TGATT
1 CGATT
31430168 GTGAAATTAC
Statistics
Matches: 388, Mismatches: 70, Indels: 12
0.83 0.15 0.03
Matches are distributed among these distances:
26 3 0.01
27 382 0.98
28 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
CGATTTATAGAATTACCGTTTTACCCT
Found at i:31430202 original size:27 final size:27
Alignment explanation
Indices: 31430172--31430364 Score: 242
Period size: 27 Copynumber: 7.1 Consensus size: 27
31430162 TTGATTGTGA
*
31430172 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
31430199 AATTTCCAAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
31430226 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
31430253 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
31430280 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
31430307 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
31430334 AATTACCGAGATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
31430361 AATT
1 AATT
31430365 GCCATTTTTC
Statistics
Matches: 140, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:31430240 original size:54 final size:54
Alignment explanation
Indices: 31430172--31430364 Score: 271
Period size: 54 Copynumber: 3.6 Consensus size: 54
31430162 TTGATTGTGA
* * * *
31430172 AATTACTGAAATACCCCTGTAGGGTAGAATTTCCAAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* *
31430226 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* *
31430280 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * *
31430334 AATTACCGAGATACCCTTGTAGGGTAAAATT
1 AATTACTGAAATACCCTTGTAGGGTAGAATT
31430365 GCCATTTTTC
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 122 0.99
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
Found at i:31430604 original size:27 final size:26
Alignment explanation
Indices: 31430566--31430648 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 26
31430556 CGGAGGAAGC
*
31430566 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCAGGTGGCTATGCCAC-AATATCT
*
31430593 GTTCAGGTGGCTCTGCCACAATATCT
1 GTTCAGGTGGCTATGCCACAATATCT
** * * *
31430619 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCAGGTGGCTATGCCACAATATCT
31430646 GTT
1 GTT
31430649 GACCGATCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 10 0.20
27 39 0.80
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCAGGTGGCTATGCCACAATATCT
Found at i:31430768 original size:22 final size:22
Alignment explanation
Indices: 31430736--31430794 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
31430726 CCCGTTATTA
*
31430736 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
31430758 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
31430780 ATGGCTTTGTGCCAA
1 ATGGCTTTGTGCCAA
31430795 ACGTATTTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:31430981 original size:27 final size:27
Alignment explanation
Indices: 31430959--31431032 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
31430949 TAGGTGGGTT
*
31430959 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
31430986 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
31431013 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
31431033 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:31431159 original size:6 final size:6
Alignment explanation
Indices: 31431150--31431342 Score: 157
Period size: 6 Copynumber: 31.8 Consensus size: 6
31431140 TTGCATTTAC
* *
31431150 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
31431199 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG
* * *
31431248 ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTA
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
* *
31431296 ATAT-TG ACTCTA ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
31431343 CATTTTGGTT
Statistics
Matches: 149, Mismatches: 22, Indels: 32
0.73 0.11 0.16
Matches are distributed among these distances:
5 11 0.07
6 126 0.85
7 9 0.06
8 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:31431245 original size:61 final size:61
Alignment explanation
Indices: 31431150--31431342 Score: 318
Period size: 61 Copynumber: 3.2 Consensus size: 61
31431140 TTGCATTTAC
31431150 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTG
31431211 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTG
* * * * *
31431272 ATTCTGATTCTGATTCTGTTAC-TAATAT-TGACTCTAATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTCACGTAAT-TCTGATTCTGATTCTGATTCTGTTACTAATACTG
31431332 ATTCTGATTCT
1 ATTCTGATTCT
31431343 CATTTTGGTT
Statistics
Matches: 126, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
60 43 0.34
61 83 0.66
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (61 bp):
ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:31431360 original size:30 final size:30
Alignment explanation
Indices: 31431150--31431342 Score: 289
Period size: 30 Copynumber: 6.4 Consensus size: 30
31431140 TTGCATTTAC
*
31431150 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
*
31431181 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
31431211 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
*
31431242 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
31431272 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
* * *
31431302 ACTCTAATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
31431332 ATTCTGATTCT
1 ATTCTGATTCT
31431343 CATTTTGGTT
Statistics
Matches: 147, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
29 1 0.01
30 97 0.66
31 49 0.33
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:31443789 original size:10 final size:10
Alignment explanation
Indices: 31443774--31443798 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
31443764 ACTTGTTCTT
31443774 AAAAAAATAA
1 AAAAAAATAA
31443784 AAAAAAATAA
1 AAAAAAATAA
31443794 AAAAA
1 AAAAA
31443799 CTATGTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:31451837 original size:127 final size:127
Alignment explanation
Indices: 31451611--31451862 Score: 486
Period size: 127 Copynumber: 2.0 Consensus size: 127
31451601 AGCGAGCATA
*
31451611 TCATGTTAAGGCTTTGGGGTGCAGGTGCTGACCTTGTGTACAGACCCGTGAGTAGCTCAAATGCG
1 TCATGTTAAGGCTTTGGGGTACAGGTGCTGACCTTGTGTACAGACCCGTGAGTAGCTCAAATGCG
*
31451676 AGCATTACATAATATGTGGTAGCTTTAGTTACATACGTTACGTGCTATGAGTTGGTTCTATC
66 AGCATTACATAATATGTGGTAGCTTTAGCTACATACGTTACGTGCTATGAGTTGGTTCTATC
31451738 TCATGTTAAGGCTTTGGGGTACAGGTGCTGACCTTGTGTACAGACCCGTGAGTAGCTCAAATGCG
1 TCATGTTAAGGCTTTGGGGTACAGGTGCTGACCTTGTGTACAGACCCGTGAGTAGCTCAAATGCG
31451803 AGCATTACATAATATGTGGTAGCTTTAGCTACATACGTTACGTGCTATGAGTTGGTTCTA
66 AGCATTACATAATATGTGGTAGCTTTAGCTACATACGTTACGTGCTATGAGTTGGTTCTA
31451863 GCTGCGTATA
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 123 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (127 bp):
TCATGTTAAGGCTTTGGGGTACAGGTGCTGACCTTGTGTACAGACCCGTGAGTAGCTCAAATGCG
AGCATTACATAATATGTGGTAGCTTTAGCTACATACGTTACGTGCTATGAGTTGGTTCTATC
Found at i:31462656 original size:17 final size:17
Alignment explanation
Indices: 31462634--31462667 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
31462624 GTATAAGTTA
31462634 AAAAAATAATTATTCAT
1 AAAAAATAATTATTCAT
31462651 AAAAAATAATTATTCAT
1 AAAAAATAATTATTCAT
31462668 TTATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAAAATAATTATTCAT
Found at i:31462681 original size:20 final size:19
Alignment explanation
Indices: 31462633--31462681 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 19
31462623 AGTATAAGTT
*
31462633 AAAAAAATAATTATTCATA
1 AAAAAAATTATTATTCATA
*
31462652 AAAAATAATTATTCATTTATA
1 AAAAA-AATTATT-ATTCATA
31462673 AAAAAAATT
1 AAAAAAATT
31462682 TAACGGTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 5 0.19
20 10 0.38
21 11 0.42
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAAAATTATTATTCATA
Found at i:31467364 original size:22 final size:21
Alignment explanation
Indices: 31467334--31467399 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
31467324 TACAAATTAA
31467334 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
31467356 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
31467377 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
31467396 ATCT
1 ATCT
31467400 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:31467386 original size:19 final size:19
Alignment explanation
Indices: 31467351--31467448 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
31467341 AGATTACAAG
31467351 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
31467372 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
31467391 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
31467408 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
31467427 ATCATATCTACGATTGCAT
1 ATCATATCTAAGATTGCAT
31467446 ATC
1 ATC
31467449 CTTAAAGATT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:31467393 original size:14 final size:15
Alignment explanation
Indices: 31467373--31467429 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
31467363 AGATTGCATA
31467373 TCATATCTAAGATTG
1 TCATATCTAAGATTG
31467388 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
31467407 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
31467424 -CATATC
1 TCATATC
31467430 ATATCTACGA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:31467415 original size:36 final size:37
Alignment explanation
Indices: 31467351--31467448 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
31467341 AGATTACAAG
31467351 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
31467391 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
*
31467427 ATCATATCTACGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
31467449 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:31468021 original size:83 final size:84
Alignment explanation
Indices: 31467699--31468126 Score: 707
Period size: 84 Copynumber: 5.1 Consensus size: 84
31467689 TATAAAAGGA
31467699 GATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCT
1 GATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCT
*
31467764 GTTACCCAACTGCTTAGGG
66 GTTACCCTACTGCTTAGGG
*
31467783 GATTAAGGCGAGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCT
1 GATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCT
31467848 GTTACCCTACTGCTTAGGG
66 GTTACCCTACTGCTTAGGG
*
31467867 GATTAAGGCGAGTCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCT
1 GATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCT
*
31467932 GTTACCCTACCGCTTAGGG
66 GTTACCCTACTGCTTAGGG
* * * *
31467951 GATTAAGACGAGTC-TCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCCGCAGATTTAACCT
1 GATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCT
* **
31468015 GCTACCCTACTGCTTAATG
66 GTTACCCTACTGCTTAGGG
** *
31468034 GATTAAAAC-AGTCTTCGATCTGCTCCAATACTGCTTAGGGAGATAAGATCTGCAAATTTAACCT
1 GATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCT
*
31468098 GTTACCCTACTGCTTAAGG
66 GTTACCCTACTGCTTAGGG
31468117 GATTAAGGCG
1 GATTAAGGCG
31468127 CTGAATTTTG
Statistics
Matches: 319, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
82 4 0.01
83 139 0.44
84 176 0.55
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (84 bp):
GATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCT
GTTACCCTACTGCTTAGGG
Found at i:31469107 original size:20 final size:19
Alignment explanation
Indices: 31469084--31469137 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
31469074 TTTTTTTTTC
31469084 TTTTTCTTTTTCTTTTCTCT
1 TTTTTCTTTTTCTTTTCT-T
31469104 TTTTTCTTTTTCTTTTCTT
1 TTTTTCTTTTTCTTTTCTT
*
31469123 TTTTCCTTTTT-TTTT
1 TTTTTCTTTTTCTTTT
31469138 GAAATAGAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
18 4 0.12
19 11 0.33
20 18 0.55
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTCTTTTTCTTTTCTT
Found at i:31469113 original size:26 final size:26
Alignment explanation
Indices: 31469077--31469134 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
31469067 CTCTCCATTT
31469077 TTTTTTCTTTTTCTTTTTCTTTTCT-C
1 TTTTTTCTTTTTC-TTTTCTTTTCTCC
*
31469103 TTTTTTCTTTTTCTTTTCTTTTTTCC
1 TTTTTTCTTTTTCTTTTCTTTTCTCC
31469129 TTTTTT
1 TTTTTT
31469135 TTTGAAATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (26 bp):
TTTTTTCTTTTTCTTTTCTTTTCTCC
Found at i:31469132 original size:6 final size:6
Alignment explanation
Indices: 31469074--31469125 Score: 72
Period size: 6 Copynumber: 8.7 Consensus size: 6
31469064 GGCCTCTCCA
31469074 TTTT-T TTTTCT TTTTCT TTTTCT TTTCTCTT TTTTCT TTTTC- TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTT-TC-T TTTTCT TTTTCT TTTTCT
31469122 TTTT
1 TTTT
31469126 TCCTTTTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
5 9 0.21
6 26 0.60
7 4 0.09
8 4 0.09
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:31474791 original size:19 final size:19
Alignment explanation
Indices: 31474767--31474853 Score: 160
Period size: 19 Copynumber: 4.7 Consensus size: 19
31474757 CCATATCTTC
31474767 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
31474786 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
31474805 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCT
31474822 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
31474841 AAGATTGCATATC
1 AAGATTGCATATC
31474854 CTTAAAGATT
Statistics
Matches: 66, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
17 17 0.26
19 49 0.74
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:31474818 original size:36 final size:37
Alignment explanation
Indices: 31474758--31474853 Score: 149
Period size: 36 Copynumber: 2.5 Consensus size: 37
31474748 ATTACAAGAC
31474758 CATATCTTCAAGATTGCATATCATATCTAAGATTGCATAT
1 CATATC-T-AAGATTG-ATATCATATCTAAGATTGCATAT
31474798 CATATCTAAGATTG-TATCATATCTAAGATTGCATAT
1 CATATCTAAGATTGATATCATATCTAAGATTGCATAT
31474834 CATATCTAAGATTGCATATC
1 CATATCTAAGATTG-ATATC
31474854 CTTAAAGATT
Statistics
Matches: 54, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
36 36 0.67
38 11 0.20
39 1 0.02
40 6 0.11
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCTAAGATTGATATCATATCTAAGATTGCATAT
Found at i:31477005 original size:15 final size:15
Alignment explanation
Indices: 31476962--31476995 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
31476952 CGGTTCAAAG
*
31476962 AAAAT-AAACTATTA
1 AAAATCAAAATATTA
31476976 AAAATCAAAATATTA
1 AAAATCAAAATATTA
31476991 AAAAT
1 AAAAT
31476996 TATAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATCAAAATATTA
Found at i:31492967 original size:17 final size:17
Alignment explanation
Indices: 31492945--31492979 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
31492935 TATTTCGCAG
* *
31492945 TTGGCGAGTTTCTTATT
1 TTGGCGAGATCCTTATT
31492962 TTGGCGAGATCCTTATT
1 TTGGCGAGATCCTTATT
31492979 T
1 T
31492980 GACGGACTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.49
Consensus pattern (17 bp):
TTGGCGAGATCCTTATT
Found at i:31499158 original size:15 final size:15
Alignment explanation
Indices: 31499134--31499163 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31499124 AGATCAGAAG
31499134 GTCATCAATGAACAC
1 GTCATCAATGAACAC
*
31499149 GTCATTAATGAACAC
1 GTCATCAATGAACAC
31499164 AACTATAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (15 bp):
GTCATCAATGAACAC
Found at i:31501452 original size:55 final size:52
Alignment explanation
Indices: 31501352--31501597 Score: 193
Period size: 55 Copynumber: 4.7 Consensus size: 52
31501342 TTAAGGATAC
* * *
31501352 CATGTAAGACCATGCCAA-AGCATGGAAATTGGTACGGTTTC-TAAGGCAAGGAAAT
1 CATGTAAGACCATGTCAAGA-CATGG-CATTGGTA-AG-TTCATAAGGCAAGG-AAT
* * *
31501407 CATGTAAGACCATGTTAAGACATGGCATTGATAAGTTACTATAAGGCAAAGG-TT
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGC-AAGGAAT
* * * *
31501461 CCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATAC
1 -CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGCAAGGA-AT
* *
31501515 CATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---AAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCAT-AAGGCAAGGA-AT
* * *
31501564 CATGTAAGACCATGACAAGTCATGGCAATGGTAA
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAA
31501598 AGTACCCACG
Statistics
Matches: 163, Mismatches: 19, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
49 40 0.25
51 1 0.01
52 8 0.05
53 42 0.26
54 8 0.05
55 59 0.36
56 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (52 bp):
CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGCAAGGAAT
Found at i:31501550 original size:108 final size:109
Alignment explanation
Indices: 31501351--31501551 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 109
31501341 TTTAAGGATA
*
31501351 CCATGTAAGACCATGCCAAAGCATGGAAATTGGTACGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAAGCATGGAAATTGGTAC-GTTTCTAAGGCAAGGAAACCATGTAAGA
* *
31501416 CCATGTTAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTT
65 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTT
* * *
31501461 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAAGCATGGAAATTGGT-ACGTTTC-TAAGGCAAGGAAACCATGTAAG
*
31501523 ACCATGTCAAGACATGGCAATGGTAAGTT
64 ACCATGTCAAGACATGGCAATGATAAGTT
31501552 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 6 0.07
110 26 0.32
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (109 bp):
CCATGTAAGACCATGCCAAAGCATGGAAATTGGTACGTTTCTAAGGCAAGGAAACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTT
Found at i:31508918 original size:55 final size:53
Alignment explanation
Indices: 31508831--31509064 Score: 221
Period size: 55 Copynumber: 4.4 Consensus size: 53
31508821 ATTAGGGTTT
* *
31508831 AAGGATGCCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * * * *
31508886 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * *
31508941 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGGC
* *
31508994 AATGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTTTCTAAGGC
*
31509043 AAGGATACCACGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
31509065 AAAAGTCATG
Statistics
Matches: 148, Mismatches: 24, Indels: 20
0.77 0.12 0.10
Matches are distributed among these distances:
49 20 0.14
52 6 0.04
53 40 0.27
54 12 0.08
55 66 0.45
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:31509014 original size:53 final size:53
Alignment explanation
Indices: 31508838--31509038 Score: 224
Period size: 55 Copynumber: 3.7 Consensus size: 53
31508828 TTTAAGGATG
* * * *
31508838 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAA
1 CCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-G-TTCATAAGGCAAAGATA
* * * * *
31508893 TCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
1 CCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGCAAAGATA
* * *
31508948 CCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAATGATA
1 CCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAAAGATA
* *
31509001 CCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 CCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
31509039 TCAAAAGGAT
Statistics
Matches: 122, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.02
53 47 0.39
54 8 0.07
55 65 0.53
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (53 bp):
CCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAAAGATA
Found at i:31509037 original size:108 final size:110
Alignment explanation
Indices: 31508838--31509038 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
31508828 TTTAAGGATG
*
31508838 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
31508903 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * *
31508948 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAATGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
31509010 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
31509039 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:31515225 original size:29 final size:29
Alignment explanation
Indices: 31515162--31515229 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
31515152 TAATCAACCA
31515162 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
31515191 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
31515220 CGCACACTTA
1 CGCACACTTA
31515230 CCTTTTTCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:31515373 original size:29 final size:30
Alignment explanation
Indices: 31515334--31515412 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
31515324 CTTAATAATC
31515334 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
31515364 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
31515393 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
31515413 ATCTCATGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:31523554 original size:29 final size:29
Alignment explanation
Indices: 31523491--31523558 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
31523481 TAATCAACCA
31523491 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
31523520 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
31523549 CGCACACTTA
1 CGCACACTTA
31523559 CCTTTTTCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:31523702 original size:29 final size:30
Alignment explanation
Indices: 31523663--31523741 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
31523653 CTTAATAATC
31523663 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
31523693 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
31523722 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
31523742 ATCTCATGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:31535836 original size:55 final size:53
Alignment explanation
Indices: 31535771--31535878 Score: 180
Period size: 55 Copynumber: 2.0 Consensus size: 53
31535761 GCACTTTAGG
31535771 AGCTTGAATACATGCACTTTTGTTAAGTTTTAGCTAAGTTTTTTTTTAATTCTAT
1 AGCTTGAATACATGCACTTTTGTTAAGTTTTAGCTAAG--TTTTTTTAATTCTAT
* *
31535826 AGCTTGAATACATGCACTTTTGTTATGTTTTAGTTAAGTTTTTTTAATTCTAT
1 AGCTTGAATACATGCACTTTTGTTAAGTTTTAGCTAAGTTTTTTTAATTCTAT
31535879 CTAAATTTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
53 15 0.29
55 36 0.71
ACGTcount: A:0.25, C:0.10, G:0.13, T:0.52
Consensus pattern (53 bp):
AGCTTGAATACATGCACTTTTGTTAAGTTTTAGCTAAGTTTTTTTAATTCTAT
Found at i:31540452 original size:54 final size:54
Alignment explanation
Indices: 31540394--31540577 Score: 228
Period size: 54 Copynumber: 3.4 Consensus size: 54
31540384 TTGGTAAGAT
* *
31540394 AAGGATATCATGTAAGACCATGACAAGGCATGGCATTGATAAGTTCTGTAAGGC
1 AAGGATATCATGTAAGACCATGACAAGGCATGGCATTGATGAGTTCTATAAGGC
* * * * *
31540448 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATGAGTTACTACAAGGC
1 AAGGATATCATGTAAGACCATGACAAGGCATGGCATTGATGAGTT-CTATAAGGC
* * * *
31540503 AAAGG-TCTCATGTAAGACCATGCCAAGGCATTGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATATCATGTAAGACCATGACAAGGCATGGCATTGATGAGTTCTATAAGGC
*
31540556 AAGGATACCATGTAAGACCATG
1 AAGGATATCATGTAAGACCATG
31540578 TCAAAACATG
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 4 0.04
53 21 0.19
54 41 0.37
55 40 0.36
56 4 0.04
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGACAAGGCATGGCATTGATGAGTTCTATAAGGC
Found at i:31542144 original size:40 final size:40
Alignment explanation
Indices: 31542100--31542324 Score: 315
Period size: 40 Copynumber: 5.6 Consensus size: 40
31542090 AACCCAATTA
* * ** *
31542100 CCTTCGGGATTTAGCCCGGATGTAACAACCAGCACAAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* * *
31542140 CCTTCGGGACTTAACCCGTAAATAGCAACCAGCATGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
*
31542180 CCTTCGGGACTTAACCCGGAAATAACAACCAGAACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* *
31542220 CCTTCGGTACTTAACCCGGGAATAACAACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* * *
31542260 CCTTCGGGACATAACCCGAAAATAACAACCAGCATGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
*
31542300 CCTTCGGGACTTAACCCGGATATAA
1 CCTTCGGGACTTAACCCGGAAATAA
31542325 TCCTCAATTG
Statistics
Matches: 162, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 162 1.00
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.18
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
Found at i:31550355 original size:40 final size:40
Alignment explanation
Indices: 31550311--31550535 Score: 324
Period size: 40 Copynumber: 5.6 Consensus size: 40
31550301 AACCCAATTA
* * ** *
31550311 CCTTCGGGATTTAGCCCGGATGTAACAACCAGCACAAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* * *
31550351 CCTTCGGGACTTAACCCGAAAATAGCAACCAGCATGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
31550391 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* *
31550431 CCTTCGGGACTTAATCCGGGAATAACAACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* * *
31550471 CCTTTGGGACTTAACCCAGAAATAACAACCAGCATGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
*
31550511 CCTTCGGGACTTAACCCGGATATAA
1 CCTTCGGGACTTAACCCGGAAATAA
31550536 TCTGCAATTG
Statistics
Matches: 164, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 164 1.00
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
Found at i:31559714 original size:18 final size:18
Alignment explanation
Indices: 31559681--31559723 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
31559671 TTACACATGT
*
31559681 AGGCCCATTGGCCCATCG
1 AGGCCCATTAGCCCATCG
31559699 -GGCCCATTCAGCCCATCG
1 AGGCCCATT-AGCCCATCG
31559717 AGGCCCA
1 AGGCCCA
31559724 AGTCCACGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 8 0.36
18 8 0.36
19 6 0.27
ACGTcount: A:0.19, C:0.42, G:0.26, T:0.14
Consensus pattern (18 bp):
AGGCCCATTAGCCCATCG
Found at i:31576160 original size:68 final size:68
Alignment explanation
Indices: 31576076--31576232 Score: 174
Period size: 68 Copynumber: 2.3 Consensus size: 68
31576066 CTTAAAATTA
* * * * *
31576076 AGCTGTTCGAATGTGTTAGATTCACTATTCAAAGCA-TCATCATTTATGCTGTTTTATTTGGTAA
1 AGCTGTCCGAATGTGTTAGATTCACTATTCAAAGCACT-ACCATATATGCTATTTTATTTAGTAA
31576140 ATGC
65 ATGC
* * * * *
31576144 AGCTGTCCGAATGTGTTAAATTCATTGTTCGATGCACTACCATATATGCTATTTTATTTAGTAAA
1 AGCTGTCCGAATGTGTTAGATTCACTATTCAAAGCACTACCATATATGCTATTTTATTTAGTAAA
*
31576209 TGT
66 TGC
* *
31576212 AGCTTTCCGAATCTGTT-GATT
1 AGCTGTCCGAATGTGTTAGATT
31576233 TCACATTTAA
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
67 3 0.04
68 70 0.95
69 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.41
Consensus pattern (68 bp):
AGCTGTCCGAATGTGTTAGATTCACTATTCAAAGCACTACCATATATGCTATTTTATTTAGTAAA
TGC
Found at i:31579014 original size:42 final size:43
Alignment explanation
Indices: 31578943--31579060 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 43
31578933 GCATGAAACT
*
31578943 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
31578986 CGGTGATGTGTATT-GGGCCTTCGTGCCTAGTAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* * *
31579028 CAGTGATGTGTATTCGGGTCATCGTGCCTAGCA
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCA
31579061 TAATGCCGGT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 39 0.57
43 29 0.43
ACGTcount: A:0.12, C:0.22, G:0.34, T:0.32
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:31579298 original size:58 final size:58
Alignment explanation
Indices: 31579227--31579395 Score: 259
Period size: 58 Copynumber: 2.9 Consensus size: 58
31579217 CGAATGATTA
* *
31579227 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTATGCAAGATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
** * *
31579285 GAGGCACTGTGTGTGTGAATTCCTTTAACCGAGCACTATTTGTTCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* *
31579343 GAGGCACTGTGTGTGCAAGTT-CTTCAACCGAGCACTATGTGTGCGAGATCGGT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGT
31579396 CAGTGGGCAC
Statistics
Matches: 99, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
57 29 0.29
58 70 0.71
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
Found at i:31581729 original size:68 final size:68
Alignment explanation
Indices: 31581645--31581790 Score: 177
Period size: 68 Copynumber: 2.1 Consensus size: 68
31581635 TTAAGCTATT
* * * *
31581645 CGAATGTGTTAGATTCACTATTCAAAGCA-TCATCATTTATGCTGTTTTATTTGGTAAATGCAGC
1 CGAATGTGTTAAATTCACTATTCAAAGCACT-ACCATATATGCTGTTTTATTTAGTAAATGCAGC
31581709 TGTC
65 TGTC
* * * * *
31581713 CGAATGTGTTAAATTCATTGTTCGATGCACTACCATATATGCTGTTTTATTTAGTAAATGTAGCT
1 CGAATGTGTTAAATTCACTATTCAAAGCACTACCATATATGCTGTTTTATTTAGTAAATGCAGCT
31581778 GTC
66 GTC
* *
31581781 TGAATCTGTT
1 CGAATGTGTT
31581791 GATTTCACAG
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
68 65 0.98
69 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (68 bp):
CGAATGTGTTAAATTCACTATTCAAAGCACTACCATATATGCTGTTTTATTTAGTAAATGCAGCT
GTC
Found at i:31584860 original size:26 final size:26
Alignment explanation
Indices: 31584824--31584875 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
31584814 TTTATAATTC
31584824 ACACAATTAACATACTCATAGGACAT
1 ACACAATTAACATACTCATAGGACAT
31584850 ACACAATTAACATACTCATAGGACAT
1 ACACAATTAACATACTCATAGGACAT
31584876 CGTATTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (26 bp):
ACACAATTAACATACTCATAGGACAT
Found at i:31585384 original size:35 final size:35
Alignment explanation
Indices: 31585345--31585438 Score: 134
Period size: 35 Copynumber: 2.7 Consensus size: 35
31585335 ATAACAAAAA
* *
31585345 AGGTTCGCATAACATCATGGGTTCCCATATAGCAT
1 AGGTTCGCATAACAACATGAGTTCCCATATAGCAT
* * *
31585380 AGGTTCACATAACAACATAAGTTCGCATATAGCAT
1 AGGTTCGCATAACAACATGAGTTCCCATATAGCAT
*
31585415 AGGTTTGCATAACAACATGAGTTC
1 AGGTTCGCATAACAACATGAGTTC
31585439 ACACAATCAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (35 bp):
AGGTTCGCATAACAACATGAGTTCCCATATAGCAT
Found at i:31585390 original size:17 final size:17
Alignment explanation
Indices: 31585364--31585419 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
31585354 TAACATCATG
*
31585364 GGTTCCCATATAGCATA
1 GGTTCACATATAGCATA
* *
31585381 GGTTCACATAACAACATA
1 GGTTCACAT-ATAGCATA
* *
31585399 AGTTCGCATATAGCATA
1 GGTTCACATATAGCATA
31585416 GGTT
1 GGTT
31585420 TGCATAACAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (17 bp):
GGTTCACATATAGCATA
Found at i:31585403 original size:18 final size:18
Alignment explanation
Indices: 31585377--31585441 Score: 51
Period size: 18 Copynumber: 3.7 Consensus size: 18
31585367 TCCCATATAG
*
31585377 CATAGGTTCACATAACAA
1 CATAAGTTCACATAACAA
* * *
31585395 CATAAGTTCGCAT-ATAG
1 CATAAGTTCACATAACAA
* **
31585412 CATAGGTTTGCATAACAA
1 CATAAGTTCACATAACAA
*
31585430 CATGAGTTCACA
1 CATAAGTTCACA
31585442 CAATCATTGT
Statistics
Matches: 34, Mismatches: 12, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
17 13 0.38
18 21 0.62
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.26
Consensus pattern (18 bp):
CATAAGTTCACATAACAA
Found at i:31585424 original size:17 final size:17
Alignment explanation
Indices: 31585307--31585425 Score: 78
Period size: 18 Copynumber: 6.9 Consensus size: 17
31585297 TTTAAGCATG
31585307 GCATA-GTTCGCATATA
1 GCATAGGTTCGCATATA
* *
31585323 GCATATGTTCGCATAACA
1 GCATAGGTTCGCAT-ATA
** * *
31585341 AAAAAGGTTCGCATAACA
1 GCATAGGTTCGCAT-ATA
* * *
31585359 TCATGGGTTCCCATATA
1 GCATAGGTTCGCATATA
* *
31585376 GCATAGGTTCACATAACA
1 GCATAGGTTCGCAT-ATA
* *
31585394 ACATAAGTTCGCATATA
1 GCATAGGTTCGCATATA
*
31585411 GCATAGGTTTGCATA
1 GCATAGGTTCGCATA
31585426 ACAACATGAG
Statistics
Matches: 78, Mismatches: 22, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
16 5 0.06
17 35 0.45
18 38 0.49
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (17 bp):
GCATAGGTTCGCATATA
Found at i:31591305 original size:40 final size:40
Alignment explanation
Indices: 31591188--31591410 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
31591178 GCTCCTCGTT
*
31591188 CAAATGCCTTCGGGACATAGCCCGG--TTATGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTA-GTAACTCGCA
*
31591227 CAAATGCCTTCGGGACTTAACCC--ATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
31591265 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
31591305 CAAATGCCTT-TGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
31591345 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
31591386 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31591411 CATCATTCAA
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
38 33 0.20
39 27 0.16
40 95 0.57
41 11 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:31594724 original size:37 final size:37
Alignment explanation
Indices: 31594651--31594726 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 37
31594641 TTATTACGAA
* * * *
31594651 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAACCCCCACACGAAGTCATCGG
* *
31594688 GTCTTACCCGGACAAAACCCCCGCACGTAGTCATCGG
1 GTCTTACCCGGACAAAACCCCCACACGAAGTCATCGG
31594725 GT
1 GT
31594727 ATTTAGAGCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (37 bp):
GTCTTACCCGGACAAAACCCCCACACGAAGTCATCGG
Found at i:31594926 original size:47 final size:47
Alignment explanation
Indices: 31594848--31595046 Score: 326
Period size: 47 Copynumber: 4.2 Consensus size: 47
31594838 CCCTTCGGGA
* * * * * *
31594848 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31594895 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31594942 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31594989 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31595036 CTTATCACATA
1 CTTATCACATA
31595047 AATGTACACT
Statistics
Matches: 142, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 142 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Done.