Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 107 of 320
Found at i:34752619 original size:16 final size:16
Alignment explanation
Indices: 34752598--34752629 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
34752588 GTGGCATGTA
34752598 TAGGAAGTTGGTTTGT
1 TAGGAAGTTGGTTTGT
34752614 TAGGAAGTTGGTTTGT
1 TAGGAAGTTGGTTTGT
34752630 GATATGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.44
Consensus pattern (16 bp):
TAGGAAGTTGGTTTGT
Found at i:34760717 original size:46 final size:48
Alignment explanation
Indices: 34760666--34760888 Score: 227
Period size: 46 Copynumber: 4.8 Consensus size: 48
34760656 ATGGTTGAGC
34760666 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTAG
* * *
34760713 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA-G
*
34760758 CATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTAG
* * * * *
34760806 -TCCGAACTTGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA-G
34760851 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
34760889 TGAAAATTAT
Statistics
Matches: 142, Mismatches: 17, Indels: 31
0.75 0.09 0.16
Matches are distributed among these distances:
42 4 0.03
43 10 0.07
45 6 0.04
46 55 0.39
47 55 0.39
48 5 0.04
50 5 0.04
51 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTAG
Found at i:34760833 original size:93 final size:93
Alignment explanation
Indices: 34760664--34760888 Score: 423
Period size: 93 Copynumber: 2.4 Consensus size: 93
34760654 GGATGGTTGA
34760664 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
34760729 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
34760757 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
*
34760822 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
34760850 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
34760889 TGAAAATTAT
Statistics
Matches: 128, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 128 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:34764868 original size:16 final size:17
Alignment explanation
Indices: 34764835--34764868 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
34764825 GTATAAGGAA
*
34764835 ATTTTGTGTAATTTGGG
1 ATTTTGTGTAATTAGGG
34764852 ATTTTGT-TAATTAGGG
1 ATTTTGTGTAATTAGGG
34764868 A
1 A
34764869 CTAAAATGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (17 bp):
ATTTTGTGTAATTAGGG
Found at i:34765381 original size:43 final size:43
Alignment explanation
Indices: 34765244--34765402 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
34765234 TATGTGATTT
* * * * *
34765244 CGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 CGTGTAAGACCATGTTTGGGAC-ATGGCATCGATATT-TGACTTA
*
34765288 CGTGTAAGACCATGTTTGGGACATCGACATCG-TATTTGACTT-
1 CGTGTAAGACCATGTTTGGGACAT-GGCATCGATATTTGACTTA
* *
34765330 CGTGTAAGACCCTGTTTGGGGCAGTGGCATCGATATTTGA-TTA
1 CGTGTAAGACCATGTTTGGGACA-TGGCATCGATATTTGACTTA
* * *
34765373 CATGTAAGACCACGTCTGGGACATTGGCAT
1 CGTGTAAGACCATGTTTGGGACA-TGGCAT
34765403 TTTACAAGCT
Statistics
Matches: 95, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 29 0.31
43 38 0.40
44 28 0.29
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCATGTTTGGGACATGGCATCGATATTTGACTTA
Found at i:34778114 original size:45 final size:45
Alignment explanation
Indices: 34778014--34778142 Score: 158
Period size: 45 Copynumber: 2.9 Consensus size: 45
34778004 TTTTCTCAAA
* * *
34778014 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATTAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAATAGT
34778056 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAATA-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAATAGT
** * *
34778100 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATAAT
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAAT
34778143 CCAGTCAACA
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
42 11 0.14
43 14 0.18
44 8 0.11
45 43 0.57
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAATAGT
Found at i:34778518 original size:43 final size:43
Alignment explanation
Indices: 34778457--34778753 Score: 477
Period size: 43 Copynumber: 6.9 Consensus size: 43
34778447 ACATATCATT
* * *
34778457 TCACCGGCATTACGCCTGCTAGGCATGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
34778500 TCACCGGCACGAAGCCTGCTAGGCATGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
34778543 TCACCGGCACGAAGCCTGCTAGGTACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
34778586 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCTGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
34778629 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* * *
34778672 TCATCGGCACTTAGCCTGCTAGGCACGAAGGCCTGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
34778715 TCACCGGCACTAGGCCTGCTAGGCATGAAGGCCCGAATA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
34778754 ATACCAGCAC
Statistics
Matches: 237, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 237 1.00
ACGTcount: A:0.29, C:0.32, G:0.25, T:0.14
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:34785317 original size:49 final size:47
Alignment explanation
Indices: 34785169--34785334 Score: 142
Period size: 49 Copynumber: 3.5 Consensus size: 47
34785159 TGTGCAAGCT
* * * *
34785169 AGTGTAAGACCTATCTTGGACATGGCATCG-GCTTGA-GGTG-TGTT
1 AGTGTAAGACCTATCTGGGACATGGCATCGACCTTGATGGTGAAGTC
** ** * *
34785213 AGTGTAAGACCTGCCTGGGACATGGCATCGACAC-AAATAAGTGAGAGCC
1 AGTGTAAGACCTATCTGGGACATGGCATCGAC-CTTGAT-GGTGA-AGTC
34785262 AGTGTAAGACCTATCTGGGACATGGCATCGACCTTGATGTGTGGAAGTC
1 AGTGTAAGACCTATCTGGGACATGGCATCGACCTTGATG-GT-GAAGTC
* * *
34785311 AATGTAAGACCTGTCTAGGACATG
1 AGTGTAAGACCTATCTGGGACATG
34785335 ACATTGACTG
Statistics
Matches: 94, Mismatches: 19, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
44 27 0.29
45 1 0.01
46 1 0.01
47 3 0.03
48 1 0.01
49 59 0.63
50 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCTATCTGGGACATGGCATCGACCTTGATGGTGAAGTC
Found at i:34787133 original size:6 final size:6
Alignment explanation
Indices: 34787122--34787232 Score: 84
Period size: 6 Copynumber: 17.8 Consensus size: 6
34787112 TATCAAAGCT
*
34787122 AGAATC AGAATC AGAATC AGAATT AGGTAA-C AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
* * * *
34787171 AGTATC AGGTAA-C AGAATC AAAATC AAAATC AGTATC AGGTAA-C AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
*
34787221 AAAAATC AGAAT
1 -AGAATC AGAAT
34787233 GTGAATGCAA
Statistics
Matches: 85, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
5 6 0.07
6 62 0.73
7 13 0.15
8 4 0.05
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:34787158 original size:31 final size:31
Alignment explanation
Indices: 34787122--34787232 Score: 168
Period size: 31 Copynumber: 3.5 Consensus size: 31
34787112 TATCAAAGCT
* * *
34787122 AGAATCAGAATCAGAATCAGAATTAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
34787153 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
34787184 AGAATCAAAATCAAAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
34787215 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
34787233 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 64 0.86
32 10 0.14
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:34787670 original size:27 final size:27
Alignment explanation
Indices: 34787640--34787889 Score: 349
Period size: 27 Copynumber: 9.3 Consensus size: 27
34787630 GGGGCAAAAT
* * *
34787640 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
34787667 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
34787694 AGTATTTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
34787721 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
34787748 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
34787775 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
34787802 GGTAATTCTACCCTAC-AGGTGTATCTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
* *
34787829 AGTAATTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
34787856 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
34787883 GGTAATT
1 GGTAATT
34787890 TCACAAATCA
Statistics
Matches: 198, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 2 0.01
27 193 0.97
28 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:34787763 original size:81 final size:81
Alignment explanation
Indices: 34787640--34787889 Score: 394
Period size: 81 Copynumber: 3.1 Consensus size: 81
34787630 GGGGCAAAAT
* * * * *
34787640 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTAC
1 GGTAATTCTACCCTACAAGGGTATCTCGGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTAC
34787705 CCTATAGGGGTATTTC
66 CCTATAGGGGTATTTC
*
34787721 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATCTCGGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTAC
34787786 CCTATAGGGGTATTTC
66 CCTATAGGGGTATTTC
* *
34787802 GGTAATTCTACCCTAC-AGGTGTATCTCAGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTA
1 GGTAATTCTACCCTACAAGG-GTATCTCGGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTA
* *
34787866 CCCTACAAGGGTATTTC
65 CCCTATAGGGGTATTTC
34787883 GGTAATT
1 GGTAATT
34787890 TCACAAATCA
Statistics
Matches: 157, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
80 3 0.02
81 154 0.98
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATCTCGGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTAC
CCTATAGGGGTATTTC
Found at i:34787905 original size:27 final size:27
Alignment explanation
Indices: 34787871--34788106 Score: 139
Period size: 27 Copynumber: 8.7 Consensus size: 27
34787861 TTCTACCCTA
* *
34787871 CAAGGGTATTTCGGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTCACAAAC
* *
34787898 CAATGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTCACAAAC
* * *** *
34787925 CAGGGGTATTTTGGTAATTTTATTGAT
1 CAAGGGTATTTTGGTAATTTCACAAAC
* * ***
34787952 CGAGGGTATTTTGGTGATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTCACAAAC
* *
34787979 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTCACAAAC
** * * * **
34788006 TGAGGGTATTTCGATAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTCACAAAC
* * * * * *
34788033 CGAGGATATTTGGGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTCACAAAC
** * * *
34788060 CGGGGGTACTTTGGTAATTTTACAAGC
1 CAAGGGTATTTTGGTAATTTCACAAAC
* *
34788087 CGAGGGAATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
34788107 GGTAAACTAA
Statistics
Matches: 164, Mismatches: 45, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 164 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTCACAAAC
Found at i:34787915 original size:81 final size:80
Alignment explanation
Indices: 34787640--34787943 Score: 362
Period size: 81 Copynumber: 3.8 Consensus size: 80
34787630 GGGGCAAAAT
* * * * * *
34787640 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTAC
1 GGTAATTCTA-CCCTCAAGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTAC
34787705 CCTATAGGGGTATTTC
65 CCTATAGGGGTATTTC
34787721 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCT-CAAGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTAC
34787786 CCTATAGGGGTATTTC
65 CCTATAGGGGTATTTC
* * *
34787802 GGTAATTCTACCCT-ACAGGTGTATCTCAGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTA
1 GGTAATTCTACCCTCA-AGG-GTATTTCGGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTA
* *
34787866 CCCTACAAGGGTATTTC
64 CCCTATAGGGGTATTTC
** * * ** *
34787883 GGTAATT-TCACAAATCAATGGTATTTTGGTAATTTTA-CAAACCAGGGGTATTTTGGTAATT
1 GGTAATTCT-AC-CCTCAAGGGTATTTCGGTAATTTTACCCTA-CAGGGGTATTTCGGTAATT
34787944 TTATTGATCG
Statistics
Matches: 195, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
79 1 0.01
80 9 0.05
81 181 0.93
82 3 0.02
83 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (80 bp):
GGTAATTCTACCCTCAAGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACC
CTATAGGGGTATTTC
Found at i:34787932 original size:54 final size:54
Alignment explanation
Indices: 34787873--34788106 Score: 229
Period size: 54 Copynumber: 4.3 Consensus size: 54
34787863 CTACCCTACA
* * * *
34787873 AGGGTATTTCGGTAATTTCACAAATCAATGGTATTTTGGTAATTTTACAAACC-
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCG
*** * ** *
34787926 AGGGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTGATTTTGTAAACCA
1 A-GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCG
* * * **
34787981 AGGGTATTTTAGTAATTTTACAAA-CTGAGGGTATTTCGATAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAAATC-GAGGGTATTTTGGTAATTTTACAAACCG
* * * * * *
34788035 AGGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAGCCG
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCG
*
34788089 AGGGAATTTTGGTAATTT
1 AGGGTATTTTGGTAATTT
34788107 GGTAAACTAA
Statistics
Matches: 143, Mismatches: 34, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
53 2 0.01
54 139 0.97
55 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.40
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAACCG
Found at i:34787958 original size:81 final size:81
Alignment explanation
Indices: 34787873--34788106 Score: 256
Period size: 81 Copynumber: 2.9 Consensus size: 81
34787863 CTACCCTACA
* * *
34787873 AGGGTATTTCGGTAATTTCACAAATCAATGGTATTTTGGTAATTTTACAAACC-AGGGGTATTTT
1 AGGGTATTTCGGTAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAAACCGA-GGGTATTTT
**
34787937 GGTAATTTTA-TTGATCG
65 GGTAATTTTACAAG-TCG
* * * * * * *
34787954 AGGGTATTTTGGTGATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACTGAGGGTATTTCG
1 AGGGTATTTCGGTAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTG
*
34788019 ATAATTTTACAAGTCG
66 GTAATTTTACAAGTCG
* * ** * * *
34788035 AGGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAGCCGAGGGAATTTTG
1 AGGGTATTTCGGTAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTG
34788100 GTAATTT
66 GTAATTT
34788107 GGTAAACTAA
Statistics
Matches: 124, Mismatches: 27, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
81 122 0.98
82 2 0.02
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.40
Consensus pattern (81 bp):
AGGGTATTTCGGTAATTTTATAAATCAAGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTG
GTAATTTTACAAGTCG
Found at i:34790063 original size:18 final size:17
Alignment explanation
Indices: 34790035--34790068 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
34790025 GGCTTGAACC
34790035 CATTACAGAATAAGAAA
1 CATTACAGAATAAGAAA
*
34790052 CATTATCAGAATTAGAA
1 CATTA-CAGAATAAGAA
34790069 TCAGAATCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (17 bp):
CATTACAGAATAAGAAA
Found at i:34790068 original size:6 final size:6
Alignment explanation
Indices: 34790056--34790175 Score: 50
Period size: 6 Copynumber: 19.3 Consensus size: 6
34790046 AAGAAACATT
* * * * *
34790056 ATCAGA ATTAGA ATCAGA ATCAGA ATC-GAA ATTAG- GTGACAAA ATCAAA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAG-A ATCAGA AT--CAGA ATCAGA
* * * *
34790105 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATTAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
34790156 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
34790176 GTGAATGCAA
Statistics
Matches: 84, Mismatches: 18, Indels: 24
0.67 0.14 0.19
Matches are distributed among these distances:
5 6 0.07
6 62 0.74
7 13 0.15
8 3 0.04
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:34790108 original size:31 final size:31
Alignment explanation
Indices: 34790065--34790175 Score: 143
Period size: 31 Copynumber: 3.5 Consensus size: 31
34790055 TATCAGAATT
* * * *
34790065 AGAATCAGAATCAGAATC-GAAATTAGGTGAC
1 AGAATCAAAATCAGAATCAG-TATCAGGTAAC
*
34790096 AAAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
34790127 AGAATCAAAATTAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
34790158 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
34790176 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
31 59 0.84
32 11 0.16
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:34790613 original size:27 final size:27
Alignment explanation
Indices: 34790583--34790859 Score: 346
Period size: 27 Copynumber: 10.3 Consensus size: 27
34790573 GGGGCAAAAT
* * *
34790583 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
34790610 GGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
34790637 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
34790664 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
34790691 GGTATTTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
34790718 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
34790745 GGTAATTCTACCCTAC-AGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
34790772 GGTAATTCTACCCTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
34790799 AGTAATTCTACCCTAC-AGGTGTATCTT-
1 GGTAATTCTACCCTACAAGG-GTAT-TTC
* *
34790826 AGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
34790853 GGTAATT
1 GGTAATT
34790860 TTGTAAACCA
Statistics
Matches: 225, Mismatches: 19, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.02
27 214 0.95
28 6 0.03
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:34791090 original size:27 final size:27
Alignment explanation
Indices: 34790843--34791103 Score: 231
Period size: 27 Copynumber: 9.7 Consensus size: 27
34790833 CTACCCTACA
** * *
34790843 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
34790870 AGGGTATTTTGGTAATTTCACAAAT-T
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
34790896 AGGGATATTTTGGTAATTTTATAAA-CC
1 AGGG-TATTTTGGTAATTTTACAAATCG
***
34790923 AGGGGTATTTTGGTAATTTTATTGATCG
1 A-GGGTATTTTGGTAATTTTACAAATCG
** * *
34790951 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
34790978 AGGGTATTTTAGTAATTTTGCAAA-CTG
1 AGGGTATTTTGGTAATTTTACAAATC-G
* *
34791005 AGGGTATTTCGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* * *
34791032 AGGATATTTGGGTAATTTTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* * *
34791059 GGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAAATCG
**
34791086 AGGGTATTTCAGTAATTT
1 AGGGTATTTTGGTAATTT
34791104 GGTAAACTAA
Statistics
Matches: 191, Mismatches: 37, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
26 5 0.03
27 180 0.94
28 6 0.03
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.41
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATCG
Found at i:34795638 original size:10 final size:10
Alignment explanation
Indices: 34795619--34795650 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
34795609 TTTTAGGATT
34795619 TTAT-TTTAA
1 TTATCTTTAA
34795628 TTATCTTTAA
1 TTATCTTTAA
34795638 TTATCTTTAA
1 TTATCTTTAA
34795648 TTA
1 TTA
34795651 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:34798156 original size:46 final size:48
Alignment explanation
Indices: 34798052--34798171 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
34798042 TGTCTTCGAC
** * *
34798052 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * *
34798100 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
*
34798146 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
34798172 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 35 0.56
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:34805658 original size:15 final size:15
Alignment explanation
Indices: 34805638--34805667 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34805628 CATTTTATTT
*
34805638 ATATTAGGATAATTA
1 ATATTAAGATAATTA
34805653 ATATTAAGATAATTA
1 ATATTAAGATAATTA
34805668 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:34806976 original size:30 final size:30
Alignment explanation
Indices: 34806883--34806969 Score: 129
Period size: 30 Copynumber: 2.9 Consensus size: 30
34806873 AGACAAGGGT
* *
34806883 GTGTCTCATGGCCGTGTATGTCACACGGGC
1 GTGTCTCTTGGCCGTGTGTGTCACACGGGC
* * *
34806913 ATGTCTCTTGGCTGTGTGCGTCACACGGGC
1 GTGTCTCTTGGCCGTGTGTGTCACACGGGC
34806943 GTGTCTCTTGGCCGTGTGTGTCACACG
1 GTGTCTCTTGGCCGTGTGTGTCACACG
34806970 ACCGTGTGAC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.10, C:0.26, G:0.33, T:0.30
Consensus pattern (30 bp):
GTGTCTCTTGGCCGTGTGTGTCACACGGGC
Found at i:34809723 original size:176 final size:177
Alignment explanation
Indices: 34809418--34809768 Score: 641
Period size: 176 Copynumber: 2.0 Consensus size: 177
34809408 AACATAGACT
*
34809418 AACTATTTCAATTCAAATCTTGACAAAAATAGGGATCAAATTAATTTAGGGGATTTCAACAATAA
1 AACTATTTCAATTCAAATCTCGACAAAAATAGGGATCAAATTAATTTAGGGGATTTCAACAATAA
34809483 TGGGTTAAGGGTTAATATTAAGGGTAATACAAGAAATGGTTTGTTAAGCTCAAGGGGATTTACTA
66 TGGGTTAAGGGTTAATATTAAGGGTAATACAAGAAATGGTTTGTTAAGCTCAAGGGGATTTACTA
*
34809548 GGGGTTAATCGTGGAGGTAGGCTTTTCATGGAATGAGTGGGTTAAGC
131 GGGGTTAATCGTGGAGGTAGACTTTTCATGGAATGAGTGGGTTAAGC
*
34809595 AACTATTTCAATTCAAATCTCGACAAAAATTGGGATCAAATTAATTTAGGGGATTTCAACAAT-A
1 AACTATTTCAATTCAAATCTCGACAAAAATAGGGATCAAATTAATTTAGGGGATTTCAACAATAA
* *
34809659 TGGGTTAAGGGTTAATATTAAGGGTAATACAAGAAATGGTTTGTTAGGCTCAAGGGGGTTTACTA
66 TGGGTTAAGGGTTAATATTAAGGGTAATACAAGAAATGGTTTGTTAAGCTCAAGGGGATTTACTA
*
34809724 GGGGTTAATCGTGGAGGTAGACTTTTCATGGCATGAGTGGGTTAA
131 GGGGTTAATCGTGGAGGTAGACTTTTCATGGAATGAGTGGGTTAA
34809769 TCTTAAGTTC
Statistics
Matches: 168, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
176 107 0.64
177 61 0.36
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (177 bp):
AACTATTTCAATTCAAATCTCGACAAAAATAGGGATCAAATTAATTTAGGGGATTTCAACAATAA
TGGGTTAAGGGTTAATATTAAGGGTAATACAAGAAATGGTTTGTTAAGCTCAAGGGGATTTACTA
GGGGTTAATCGTGGAGGTAGACTTTTCATGGAATGAGTGGGTTAAGC
Found at i:34810731 original size:19 final size:19
Alignment explanation
Indices: 34810692--34810731 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
34810682 AAGTAGTCTT
*
34810692 AAAATAAAATAAAAGTAAA
1 AAAATAAAATAAAAATAAA
34810711 AAAATAAAATAATAAATAAA
1 AAAATAAAATAA-AAATAAA
34810731 A
1 A
34810732 TTTTTTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAATAAAATAAAAATAAA
Found at i:34817264 original size:9 final size:10
Alignment explanation
Indices: 34817239--34817265 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
34817229 TAAGTATGGG
34817239 GTAAAAATAT
1 GTAAAAATAT
34817249 GTAAAAATAT
1 GTAAAAATAT
34817259 GTAAAAA
1 GTAAAAA
34817266 AAATTTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (10 bp):
GTAAAAATAT
Found at i:34834771 original size:43 final size:43
Alignment explanation
Indices: 34834628--34834831 Score: 163
Period size: 43 Copynumber: 4.9 Consensus size: 43
34834618 TTTTATCAAA
* * * *
34834628 TCACCGGCATT-TAGCCTGCTAGGTTTTAAACCCGA-ATTCA-
1 TCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATACTCAT
** * * * *
34834668 TCACCGGCACGA-AGCCTGCTAGACTTTAAGTCTGA-ACTCAT
1 TCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATACTCAT
** *
34834709 TCACCGATATT-TCGCCTGCTAGGCTTGAAGCCCGATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATACTCA-T
*** * *
34834751 TCACCGGCATTATAGCCTGCTAGGCCCAAAGCCTGATA-TTAT
1 TCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATACTCAT
*
34834793 CTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATA
1 -TCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATA
34834832 ATATTATTCA
Statistics
Matches: 129, Mismatches: 28, Indels: 11
0.77 0.17 0.07
Matches are distributed among these distances:
40 31 0.24
41 28 0.22
42 12 0.09
43 58 0.45
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATACTCAT
Found at i:34834862 original size:44 final size:45
Alignment explanation
Indices: 34834722--34834872 Score: 122
Period size: 43 Copynumber: 3.5 Consensus size: 45
34834712 CCGATATTTC
* * *
34834722 GCCTGCTAGGCTTGAAGCCCGAT-ATCA-T-T-TCACCGGCATTATA
1 GCCTGCTAGGC-CGAAGCCCGATAAT-ATTATCTCACCAGCATTAAA
* * * *
34834765 GCCTGCTAGGCCCAAAG-CC--TGATATTATCTCACCGGCATTATA
1 GCCTGCTAGG-CCGAAGCCCGATAATATTATCTCACCAGCATTAAA
34834808 GCCTGCTAGGCCTGAAGCCCGATAATATTAT-TCACCAGC-TTAAA
1 GCCTGCTAGGCC-GAAGCCCGATAATATTATCTCACCAGCATTAAA
* *
34834852 GCTTGCTAGGCCGAGGCCCGA
1 GCCTGCTAGGCCGAAGCCCGA
34834873 ATATCACATT
Statistics
Matches: 91, Mismatches: 8, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
40 2 0.02
41 3 0.03
42 5 0.05
43 48 0.53
44 18 0.20
45 7 0.08
46 8 0.09
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (45 bp):
GCCTGCTAGGCCGAAGCCCGATAATATTATCTCACCAGCATTAAA
Found at i:34837735 original size:53 final size:54
Alignment explanation
Indices: 34837670--34837870 Score: 183
Period size: 53 Copynumber: 3.7 Consensus size: 54
34837660 CTTTTTAAAA
* *
34837670 TTACCATTGCCATGTCTTGACATGGTCTTATATGGTATCCTTGCCTTAT-GAAC
1 TTACCAATGCCATGCCTTGACATGGTCTTATATGGTATCCTTGCCTTATAGAAC
* * * * * * **
34837723 TCACCATTGCCATGCCTTGGCATGGTCTTACACAGG-ATCTTTGCCTTATAGTAGT
1 TTACCAATGCCATGCCTTGACATGGTCTTATA-TGGTATCCTTGCCTTATAG-AAC
* * * * * * *
34837778 TTATCAATGCCATGTCTTGACATGGTCTTAAATGATTTCCTTGCCTTGTAAAAC
1 TTACCAATGCCATGCCTTGACATGGTCTTATATGGTATCCTTGCCTTATAGAAC
* *
34837832 TTTCCAATGCCATGCCTTGGCATGGTCTTACT-TGGTATC
1 TTACCAATGCCATGCCTTGACATGGTCTTA-TATGGTATC
34837871 GTTAAACCCT
Statistics
Matches: 114, Mismatches: 29, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
53 40 0.35
54 36 0.32
55 38 0.33
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (54 bp):
TTACCAATGCCATGCCTTGACATGGTCTTATATGGTATCCTTGCCTTATAGAAC
Found at i:34842690 original size:41 final size:45
Alignment explanation
Indices: 34842588--34842744 Score: 159
Period size: 41 Copynumber: 3.6 Consensus size: 45
34842578 ATATCATACA
* * *
34842588 ATGCCAACGTCCCAGACGTGGTCTTACATGC-T-ACCTC--ATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACA--CATAACCACATATATCG
* * * *
34842631 ATGCCACTATCCCAGACATGGTCTTACACA-AATC-TA-ATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAACCACATATATCG
* *
34842672 ATTCCAATGTCCCAGACATAGTCTTACACATAACCACATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAACCACATATATCG
34842717 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
34842745 TGAAAACATA
Statistics
Matches: 93, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 29 0.31
42 8 0.09
43 25 0.27
44 3 0.03
45 28 0.30
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.25
Consensus pattern (45 bp):
ATGCCAATGTCCCAGACATGGTCTTACACATAACCACATATATCG
Found at i:34843904 original size:14 final size:15
Alignment explanation
Indices: 34843887--34843915 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
34843877 TCACAAAAAT
34843887 TTCACACAT-ATAAA
1 TTCACACATAATAAA
34843901 TTCACACATAATAAA
1 TTCACACATAATAAA
34843916 CACAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:34845518 original size:24 final size:25
Alignment explanation
Indices: 34845486--34845546 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
34845476 AAAAAGTAAA
*
34845486 AGAACAAGAACAAGAAAA-AAAGATCG
1 AGAA-AAGAAAAAGAAAAGAAA-ATCG
34845512 A-AAAAGAAAAAGAAAAGAAAATCG
1 AGAAAAGAAAAAGAAAAGAAAATCG
34845536 AGAAAAAGAAA
1 AG-AAAAGAAA
34845547 GGAAAAACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 17 0.55
25 5 0.16
26 9 0.29
ACGTcount: A:0.72, C:0.07, G:0.18, T:0.03
Consensus pattern (25 bp):
AGAAAAGAAAAAGAAAAGAAAATCG
Found at i:34845542 original size:21 final size:21
Alignment explanation
Indices: 34845516--34845562 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
34845506 AGATCGAAAA
*
34845516 AGAAAAAGAAAAGAAAATC-G
1 AGAAAAAGAAAAGAAAAACTG
*
34845536 AGAAAAAGAAAGGAAAAACTG
1 AGAAAAAGAAAAGAAAAACTG
34845557 AGAAAA
1 AGAAAA
34845563 GTGAGGCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.70, C:0.04, G:0.21, T:0.04
Consensus pattern (21 bp):
AGAAAAAGAAAAGAAAAACTG
Found at i:34845724 original size:14 final size:14
Alignment explanation
Indices: 34845705--34845735 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
34845695 AGAATGTCTT
*
34845705 TTTGAAACTAATGA
1 TTTGAAACTAACGA
34845719 TTTGAAACTAACGA
1 TTTGAAACTAACGA
34845733 TTT
1 TTT
34845736 TGACCAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (14 bp):
TTTGAAACTAACGA
Found at i:34848566 original size:13 final size:14
Alignment explanation
Indices: 34848548--34848584 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
34848538 ACCTCTTGTA
*
34848548 AAAAGAAAATGA-G
1 AAAAGAAAAAGACG
34848561 AAAAGAAAAAGACG
1 AAAAGAAAAAGACG
34848575 AAAAGAAAAA
1 AAAAGAAAAA
34848585 AGAGATCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.03
Consensus pattern (14 bp):
AAAAGAAAAAGACG
Found at i:34848570 original size:14 final size:13
Alignment explanation
Indices: 34848548--34848614 Score: 62
Period size: 14 Copynumber: 4.7 Consensus size: 13
34848538 ACCTCTTGTA
*
34848548 AAAAGAAAATGAG
1 AAAAGAAAAAGAG
34848561 AAAAGAAAAAGACG
1 AAAAGAAAAAGA-G
34848575 AAAAGAAAAAAGAG
1 AAAAG-AAAAAGAG
34848589 ATCAAAAGAAAAGAGAG
1 ---AAAAGAAAA-AGAG
*
34848606 GAAAGAAAA
1 AAAAGAAAA
34848615 GATTATGAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
13 11 0.24
14 15 0.33
15 7 0.15
16 4 0.09
17 9 0.20
ACGTcount: A:0.72, C:0.03, G:0.22, T:0.03
Consensus pattern (13 bp):
AAAAGAAAAAGAG
Found at i:34850733 original size:10 final size:10
Alignment explanation
Indices: 34850720--34850755 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
34850710 AACTCAATTC
34850720 AGCTCATTTG
1 AGCTCATTTG
*
34850730 AGCTCATTTC
1 AGCTCATTTG
*
34850740 AGCTCGTTTG
1 AGCTCATTTG
34850750 AGCTCA
1 AGCTCA
34850756 ACCAAGCTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (10 bp):
AGCTCATTTG
Found at i:34850735 original size:20 final size:20
Alignment explanation
Indices: 34850712--34850756 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
34850702 CTCCGTCCAA
34850712 CTCAATTCAGCTCATTTGAG
1 CTCAATTCAGCTCATTTGAG
* *
34850732 CTCATTTCAGCTCGTTTGAG
1 CTCAATTCAGCTCATTTGAG
34850752 CTCAA
1 CTCAA
34850757 CCAAGCTTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.36
Consensus pattern (20 bp):
CTCAATTCAGCTCATTTGAG
Found at i:34851538 original size:55 final size:55
Alignment explanation
Indices: 34851474--34851586 Score: 199
Period size: 55 Copynumber: 2.1 Consensus size: 55
34851464 CAATGGAGAT
* *
34851474 GTAGGAGTATTAAAGGGTTGCACATTCATGAACTATGGCTTTTCTTCTAGGCTAA
1 GTAGGAGTATTAAAGGGCTACACATTCATGAACTATGGCTTTTCTTCTAGGCTAA
*
34851529 GTAGGAGTATTAAAGGGCTACACATTCATGGACTATGGCTTTTCTTCTAGGCTAA
1 GTAGGAGTATTAAAGGGCTACACATTCATGAACTATGGCTTTTCTTCTAGGCTAA
34851584 GTA
1 GTA
34851587 TGCATGAATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (55 bp):
GTAGGAGTATTAAAGGGCTACACATTCATGAACTATGGCTTTTCTTCTAGGCTAA
Found at i:34858677 original size:42 final size:43
Alignment explanation
Indices: 34858569--34858726 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 43
34858559 AGCTCGTACA
* ***
34858569 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACAAAATCAAATATCG
* * *
34858612 ATGCCACTGTCCCAAACAGGGTCTTACACAAAATCATATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACACAAAATCAAATATCG
* *
34858654 ATGTCGA-TGTCCCAGACATGGTCTTACACATAAATCTCAA-ATCG
1 ATG-CCACTGTCCCAGACATGGTCTTACACA-AAATC-AAATATCG
* * *
34858698 ATTCCAAC-GTCCCAAACGTGGTCTTACAC
1 ATGCC-ACTGTCCCAGACATGGTCTTACAC
34858727 GATAACACAT
Statistics
Matches: 92, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
42 28 0.30
43 39 0.42
44 25 0.27
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACAAAATCAAATATCG
Found at i:34860222 original size:19 final size:19
Alignment explanation
Indices: 34860183--34860219 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
34860173 TAATACAGCC
*
34860183 ATTTAATTTGTCTTGAGTT
1 ATTTAATCTGTCTTGAGTT
34860202 ATTTAATCTGTCTT-AGTT
1 ATTTAATCTGTCTTGAGTT
34860220 TATACAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.22, C:0.08, G:0.14, T:0.57
Consensus pattern (19 bp):
ATTTAATCTGTCTTGAGTT
Found at i:34861426 original size:16 final size:17
Alignment explanation
Indices: 34861394--34861426 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34861384 AATATCATAG
*
34861394 ATTAAATTGTGATGTTA
1 ATTAAATTGTAATGTTA
34861411 ATTAAATTG-AATGTTA
1 ATTAAATTGTAATGTTA
34861427 TAGTTGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (17 bp):
ATTAAATTGTAATGTTA
Found at i:34877156 original size:15 final size:17
Alignment explanation
Indices: 34877126--34877157 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
34877116 TTGATACTTG
34877126 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
34877143 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
34877158 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:34886831 original size:18 final size:19
Alignment explanation
Indices: 34886804--34886842 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
34886794 AATAAATCCT
*
34886804 AACTACAAAAGAAAACTAA
1 AACTACAAAACAAAACTAA
34886823 AACTA-AAAACAAAACTAA
1 AACTACAAAACAAAACTAA
34886841 AA
1 AA
34886843 GGAAAATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.72, C:0.15, G:0.03, T:0.10
Consensus pattern (19 bp):
AACTACAAAACAAAACTAA
Found at i:34886848 original size:18 final size:18
Alignment explanation
Indices: 34886810--34886848 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
34886800 TCCTAACTAC
* *
34886810 AAAAGAAAACTAAAACTA
1 AAAACAAAACTAAAACGA
*
34886828 AAAACAAAACTAAAAGGA
1 AAAACAAAACTAAAACGA
34886846 AAA
1 AAA
34886849 TTCTAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.74, C:0.10, G:0.08, T:0.08
Consensus pattern (18 bp):
AAAACAAAACTAAAACGA
Found at i:34890433 original size:15 final size:15
Alignment explanation
Indices: 34890387--34890421 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
34890377 ATATTTTTGG
*
34890387 TTATTGTTATTAATT
1 TTATTATTATTAATT
*
34890402 TTATTATTATTACTT
1 TTATTATTATTAATT
34890417 TTATT
1 TTATT
34890422 TCTATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (15 bp):
TTATTATTATTAATT
Found at i:34890445 original size:21 final size:21
Alignment explanation
Indices: 34890399--34890439 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34890389 ATTGTTATTA
34890399 ATTT-TATTATTATTACTTTT
1 ATTTCTATTATTATTACTTTT
*
34890419 ATTTCTATTATTTTTCACTTT
1 ATTTCTATTATTATT-ACTTT
34890440 CTTTCTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (21 bp):
ATTTCTATTATTATTACTTTT
Found at i:34892584 original size:40 final size:39
Alignment explanation
Indices: 34892529--34892775 Score: 277
Period size: 40 Copynumber: 6.2 Consensus size: 39
34892519 CGGATGATAA
* * *
34892529 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTGAT-T
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-ACT-ATAT
*
34892569 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* * *
34892609 CTGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
*
34892649 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
34892688 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* * *
34892728 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATAT
34892768 CC-GGCTAA
1 CCGGGCTAA
34892776 ACTCCGAAGG
Statistics
Matches: 185, Mismatches: 17, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
39 46 0.25
40 136 0.74
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:34892733 original size:79 final size:79
Alignment explanation
Indices: 34892528--34892752 Score: 292
Period size: 79 Copynumber: 2.8 Consensus size: 79
34892518 TCGGATGATA
* * **
34892528 ACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTGAT-TCCGGGCTAAGTCCCGAAGGCAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTTACT-ATATCCGGGCTAAGTCCCGAAGGCAT
*
34892591 TCGTGCGAGCTACTAT
64 TTGTGCGAGCTACTAT
* * * * *
34892607 ATCTGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATATCCGGGCTAAGTCCCGAAGGCATT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
* *
34892672 TGTGCGAGTTATTAT
65 TGTGCGAGCTACTAT
*
34892687 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
34892752 G
66 G
34892753 AGCTAGTGGC
Statistics
Matches: 126, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
79 62 0.49
80 62 0.49
81 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (79 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGCTACTAT
Found at i:34892741 original size:119 final size:120
Alignment explanation
Indices: 34892529--34892752 Score: 317
Period size: 119 Copynumber: 1.9 Consensus size: 120
34892519 CGGATGATAA
* * *
34892529 CCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGGCTGATTCCGGGCTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATGATACCGGGCTAAGTCCCGAAGGCATTCG
* * * *
34892594 TGCGAGCTACTATATCTGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
66 TGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAT
* * * *
34892649 CCGGGCTAAGTCCCGA-AGGCATTTGTGCGAGT-TATTATACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAGA-GCATTTGAGCGAGTGGATGATACCGGGCTAAGTCCCGAAGGCATTC
*
34892712 GTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
65 GTGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
34892753 AGCTAGTGGC
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
119 63 0.69
120 28 0.31
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATGATACCGGGCTAAGTCCCGAAGGCATTCG
TGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAT
Found at i:34892785 original size:79 final size:78
Alignment explanation
Indices: 34892569--34892775 Score: 263
Period size: 79 Copynumber: 2.6 Consensus size: 78
34892559 GTGGCTGATT
* * *
34892569 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCTGGGCTAAGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATC-CGGCTAAGTCCCGAAGGCATTTG
* * *
34892634 TGCGAGCTATTATAT
64 TGCAAGCTACTATAA
*
34892649 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCC-GGCTAAGTCCCGAAGGCATTTG
*
34892713 TGCAAGTTACTATAA
64 TGCAAGCTACTATAA
* * *
34892728 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCCGGCTAA
34892776 ACTCCGAAGG
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
78 1 0.01
79 72 0.65
80 38 0.34
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGCTAAGTCCCGAAGGCATTTGTG
CAAGCTACTATAA
Found at i:34894477 original size:21 final size:21
Alignment explanation
Indices: 34894449--34894501 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
34894439 AGTTACACGG
* *
34894449 CCTG-TTCACACGGTCGTGTC
1 CCTGCTTCACACGGCCGTATC
34894469 CCTGCTTCACACGGCCGTATC
1 CCTGCTTCACACGGCCGTATC
34894490 CCTGCTTCACAC
1 CCTGCTTCACAC
34894502 AGGCATGTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.13, C:0.42, G:0.19, T:0.26
Consensus pattern (21 bp):
CCTGCTTCACACGGCCGTATC
Found at i:34897881 original size:20 final size:19
Alignment explanation
Indices: 34897845--34897895 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
34897835 AAGGGCTATT
*
34897845 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
34897864 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
34897884 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
34897896 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:34898801 original size:49 final size:49
Alignment explanation
Indices: 34898721--34898852 Score: 160
Period size: 49 Copynumber: 2.7 Consensus size: 49
34898711 TTGTTATGTG
* *
34898721 TCAGTGTAAGACCTGTCTAGGACATGGCATCGACAC-CGATAGATG-AGA
1 TCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAA
* * * *
34898769 GCTAGTGTAAGACCTGTCTGGGACACGACATCGACCTCGATATATGAAAA
1 TC-AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAA
* *
34898819 TCAGTGTAAAACCTATCTGGGACATGGCATCGAC
1 TCAGTGTAAGACCTGTCTGGGACATGGCATCGAC
34898853 TTTGATGTAC
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
48 2 0.03
49 65 0.93
50 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (49 bp):
TCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAA
Found at i:34900054 original size:65 final size:65
Alignment explanation
Indices: 34899947--34900077 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
34899937 AGTCCCATGC
34899947 ATCAGATAATAATAACATGGCATGAAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGAAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
* *
34900012 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAATAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGAAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
34900077 A
1 A
34900078 ACCTTAGGGG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (65 bp):
ATCAGATAATAATAACATGGCATGAAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
Found at i:34900059 original size:30 final size:30
Alignment explanation
Indices: 34899960--34900060 Score: 73
Period size: 30 Copynumber: 3.2 Consensus size: 30
34899950 AGATAATAAT
* *
34899960 AACATGGCATGAAGTAAATAGTAACAGTCA
1 AACATGGCATGCAGTAAATAGTAATAGTCA
* *
34899990 AACAT-GCATTCAGGTCAACCTTATCAGATAATAAT--
1 AACATGGCATGCA-GT-AA----AT-AG-TAATAGTCA
34900025 AACATGGCATGCAGTAAATAGTAATAGTCA
1 AACATGGCATGCAGTAAATAGTAATAGTCA
34900055 AACATG
1 AACATG
34900061 CATTCAGGTC
Statistics
Matches: 54, Mismatches: 6, Indels: 22
0.66 0.07 0.27
Matches are distributed among these distances:
28 6 0.11
29 7 0.13
30 15 0.28
31 2 0.04
34 2 0.04
35 9 0.17
36 8 0.15
37 5 0.09
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.24
Consensus pattern (30 bp):
AACATGGCATGCAGTAAATAGTAATAGTCA
Found at i:34902234 original size:25 final size:25
Alignment explanation
Indices: 34902200--34902252 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
34902190 AGGAAAGTGA
34902200 GTAAGTTATGCTTATGACCATCCAT
1 GTAAGTTATGCTTATGACCATCCAT
34902225 GTAAGTTATGCTTATGACCATCCAT
1 GTAAGTTATGCTTATGACCATCCAT
34902250 GTA
1 GTA
34902253 TTTTACATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (25 bp):
GTAAGTTATGCTTATGACCATCCAT
Found at i:34903677 original size:14 final size:14
Alignment explanation
Indices: 34903658--34903699 Score: 84
Period size: 14 Copynumber: 3.0 Consensus size: 14
34903648 AATGGTTAAA
34903658 CATGAGTGCTTGAT
1 CATGAGTGCTTGAT
34903672 CATGAGTGCTTGAT
1 CATGAGTGCTTGAT
34903686 CATGAGTGCTTGAT
1 CATGAGTGCTTGAT
34903700 GTATAAGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (14 bp):
CATGAGTGCTTGAT
Found at i:34914391 original size:45 final size:45
Alignment explanation
Indices: 34914327--34914420 Score: 179
Period size: 45 Copynumber: 2.1 Consensus size: 45
34914317 AGAAACAACA
34914327 GATAAAGCACCAAGTTTAAAACGGATTAAAGCATTCTTACCATCT
1 GATAAAGCACCAAGTTTAAAACGGATTAAAGCATTCTTACCATCT
*
34914372 GATAAAGCACCAAGTTTAAAGCGGATTAAAGCATTCTTACCATCT
1 GATAAAGCACCAAGTTTAAAACGGATTAAAGCATTCTTACCATCT
34914417 GATA
1 GATA
34914421 TTGCTTGAGC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (45 bp):
GATAAAGCACCAAGTTTAAAACGGATTAAAGCATTCTTACCATCT
Found at i:34916199 original size:190 final size:190
Alignment explanation
Indices: 34915876--34916253 Score: 729
Period size: 190 Copynumber: 2.0 Consensus size: 190
34915866 ATAATTGAGA
34915876 TGGCGAGAGCTGTAAGCAAGAAAAAGTGTAACCTGTATATTAGAGCTCGGTAACCTCTTGTATTG
1 TGGCGAGAGCTGTAAGCAAGAAAAAGTGTAACCTGTATATTAGAGCTCGGTAACCTCTTGTATTG
34915941 AGACATAGATGATAGCTTACAACACTAGCAACATCATAGTCATAATCCATGCTTTTGTTACATCT
66 AGACATAGATGATAGCTTACAACACTAGCAACATCATAGTCATAATCCATGCTTTTGTTACATCT
*
34916006 TACCCATTCTTTGATTGTTCCCTGGTATTCAACATCAACAATTCATTAATTTAACTTAGC
131 TACCCATTCTTTGATTGTTCCCTGGTATTCAACATCAACAAGTCATTAATTTAACTTAGC
* *
34916066 TGGCGAGTGCTGTAAGCAAGCAAAAGTGTAACCTGTATATTAGAGCTCGGTAACCTCTTGTATTG
1 TGGCGAGAGCTGTAAGCAAGAAAAAGTGTAACCTGTATATTAGAGCTCGGTAACCTCTTGTATTG
34916131 AGACATAGATGATAGCTTACAACACTAGCAACATCATAGTCATAATCCATGCTTTTGTTACATCT
66 AGACATAGATGATAGCTTACAACACTAGCAACATCATAGTCATAATCCATGCTTTTGTTACATCT
34916196 TACCCATTCTTTGATTGTTCCCTGGTATTCAACATCAACAAGTCATTAATTTAACTTA
131 TACCCATTCTTTGATTGTTCCCTGGTATTCAACATCAACAAGTCATTAATTTAACTTA
34916254 CTAAGTTACC
Statistics
Matches: 185, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
190 185 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (190 bp):
TGGCGAGAGCTGTAAGCAAGAAAAAGTGTAACCTGTATATTAGAGCTCGGTAACCTCTTGTATTG
AGACATAGATGATAGCTTACAACACTAGCAACATCATAGTCATAATCCATGCTTTTGTTACATCT
TACCCATTCTTTGATTGTTCCCTGGTATTCAACATCAACAAGTCATTAATTTAACTTAGC
Found at i:34936840 original size:26 final size:27
Alignment explanation
Indices: 34936811--34936865 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
34936801 AAGACACATA
34936811 AAGGGAATTATCCAACGCATGAT-TTG
1 AAGGGAATTATCCAACGCATGATCTTG
*
34936837 AAGGGAATTATCCAATGCATGATCTTG
1 AAGGGAATTATCCAACGCATGATCTTG
34936864 AA
1 AA
34936866 TTGGCTGCGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (27 bp):
AAGGGAATTATCCAACGCATGATCTTG
Found at i:34938432 original size:20 final size:20
Alignment explanation
Indices: 34938407--34938446 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
34938397 TTATCTTTTT
34938407 CCTGAAATGGATCCTGGGGG
1 CCTGAAATGGATCCTGGGGG
34938427 CCTGAAATGGATCCTGGGGG
1 CCTGAAATGGATCCTGGGGG
34938447 AAGAGTGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.40, T:0.20
Consensus pattern (20 bp):
CCTGAAATGGATCCTGGGGG
Found at i:34941113 original size:18 final size:19
Alignment explanation
Indices: 34941090--34941128 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
34941080 TGCTTAATTA
* *
34941090 TGGTTTT-ATTTGAGATTT
1 TGGTTTTCAATTGAGAGTT
34941108 TGGTTTTCAATTGAGAGTT
1 TGGTTTTCAATTGAGAGTT
34941127 TG
1 TG
34941129 TACTTTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.18, C:0.03, G:0.26, T:0.54
Consensus pattern (19 bp):
TGGTTTTCAATTGAGAGTT
Found at i:34944063 original size:24 final size:25
Alignment explanation
Indices: 34944036--34944082 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
34944026 TAATAAAAAA
*
34944036 ACTTCAAAATAAT-TGTTTTATAAT
1 ACTTCAAAAAAATATGTTTTATAAT
* *
34944060 ACTTTAAAAAAATATTTTTTATA
1 ACTTCAAAAAAATATGTTTTATA
34944083 GGAATTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (25 bp):
ACTTCAAAAAAATATGTTTTATAAT
Found at i:34944363 original size:31 final size:30
Alignment explanation
Indices: 34944326--34944437 Score: 84
Period size: 31 Copynumber: 3.6 Consensus size: 30
34944316 TAGAATTAGA
34944326 ACTAAATTGATAAATTTTGTAAATATTGAGG
1 ACTAAATTGATAAATTTTGTAAA-ATTGAGG
* * * *
34944357 ACTAAATTTATTGAATTTTTTTAGAACTT-A-G
1 ACTAAATTGA-T-AAATTTTGTA-AAATTGAGG
* *
34944388 ACTAAAATGAAAAATTTTGTAAACATTGAGG
1 ACTAAATTGATAAATTTTGTAAA-ATTGAGG
* *
34944419 GCTAAATTTGTTAAATTTT
1 ACTAAA-TTGATAAATTTT
34944438 TTAGATTTAG
Statistics
Matches: 60, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
28 2 0.03
29 10 0.17
30 1 0.02
31 24 0.40
32 11 0.18
33 10 0.17
34 2 0.03
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.41
Consensus pattern (30 bp):
ACTAAATTGATAAATTTTGTAAAATTGAGG
Found at i:34944392 original size:62 final size:60
Alignment explanation
Indices: 34944313--34944475 Score: 193
Period size: 62 Copynumber: 2.6 Consensus size: 60
34944303 CTTTTGAAAA
*
34944313 TTTTAGAATTAGAACTAAATTGATAAATTTTGTAAATATTGAGGACTAAATTTATTGAATTT
1 TTTTAGAATTAG-ACTAAATTGATAAATTTTGTAAATATTGAGGACTAAATTTATT-AAATT
* * * * *
34944375 TTTTAGAACTTAGACTAAAATGAAAAATTTTGTAAACATTGAGGGCTAAATTTGTTAAATT
1 TTTTAGAA-TTAGACTAAATTGATAAATTTTGTAAATATTGAGGACTAAATTTATTAAATT
* * *
34944436 TTTTAGATTTAGAATCAAATTGATAGAA-TGTGTAAATATT
1 TTTTAGAATTAGACT-AAATTGATA-AATTTTGTAAATATT
34944476 AGATAGCTAA
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
60 6 0.07
61 28 0.33
62 48 0.56
63 4 0.05
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.41
Consensus pattern (60 bp):
TTTTAGAATTAGACTAAATTGATAAATTTTGTAAATATTGAGGACTAAATTTATTAAATT
Found at i:34948878 original size:52 final size:52
Alignment explanation
Indices: 34948800--34948906 Score: 187
Period size: 52 Copynumber: 2.1 Consensus size: 52
34948790 ACAATGCCAA
*
34948800 CATGGTAGCAAACAAATAGGCACACATTTAACATATAAAAATACATTTAATC
1 CATGGTAACAAACAAATAGGCACACATTTAACATATAAAAATACATTTAATC
* *
34948852 CATGGTAACAAACCAATAGGCACACATTTAACATATAAAAATACTTTTAATC
1 CATGGTAACAAACAAATAGGCACACATTTAACATATAAAAATACATTTAATC
34948904 CAT
1 CAT
34948907 ACAAGAACTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.47, C:0.19, G:0.08, T:0.26
Consensus pattern (52 bp):
CATGGTAACAAACAAATAGGCACACATTTAACATATAAAAATACATTTAATC
Found at i:34950801 original size:18 final size:18
Alignment explanation
Indices: 34950778--34950813 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
34950768 CCTTAGGTGG
*
34950778 ATTACTCTCAATTTTGTT
1 ATTACTCTCAACTTTGTT
34950796 ATTACTCTCAACTTTGTT
1 ATTACTCTCAACTTTGTT
34950814 TCAATCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (18 bp):
ATTACTCTCAACTTTGTT
Found at i:34953495 original size:33 final size:33
Alignment explanation
Indices: 34953452--34953519 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
34953442 TGATAAGGCC
*
34953452 TAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TAATAGCCGATGTGATGAATGTGAAAGTGTATA
34953485 TAATAGCCGATGTGATGAATGTGAAAGTGTATA
1 TAATAGCCGATGTGATGAATGTGAAAGTGTATA
34953518 TA
1 TA
34953520 TGTGATAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (33 bp):
TAATAGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:34953543 original size:47 final size:47
Alignment explanation
Indices: 34953485--34953859 Score: 588
Period size: 47 Copynumber: 7.9 Consensus size: 47
34953475 AAAGTGTATA
34953485 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
34953532 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
* *
34953581 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
1 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
34953628 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
34953675 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
34953722 TAATAGCCGATGTGATGAATATGAAAGTGTATATATGTAATAAGGCC
1 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * *
34953769 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * * * *
34953816 GAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
34953860 TCCCGAAGGG
Statistics
Matches: 306, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 259 0.85
49 47 0.15
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:34954034 original size:37 final size:37
Alignment explanation
Indices: 34953978--34954056 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
34953968 CCGAGCTCTA
* *
34953978 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
34954015 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
34954052 AAGAC
1 AAGAC
34954057 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:34958155 original size:42 final size:42
Alignment explanation
Indices: 34958037--34958167 Score: 117
Period size: 42 Copynumber: 3.0 Consensus size: 42
34958027 CAATATGTGT
* *
34958037 TTTCGTGTAAGACCAC-ATCTGGGAC-GTTGGCATTG-ATTTGAGA
1 TTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGTATTT--GA
* * * *
34958080 TTTATGTGTAAGACCATGTTTGGAACA-TCGGCATCGTATTTGA
1 TTT-CGTGTAAGACCCTGTCTGGGACAGT-GGCATCGTATTTGA
34958123 TTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGA
1 TTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-TATTTGA
34958166 TT
1 TT
34958168 ACAAGTAAGA
Statistics
Matches: 71, Mismatches: 10, Indels: 14
0.75 0.11 0.15
Matches are distributed among these distances:
42 26 0.37
43 19 0.27
44 22 0.31
45 4 0.06
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (42 bp):
TTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGTATTTGA
Found at i:34958177 original size:43 final size:42
Alignment explanation
Indices: 34958087--34958180 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
34958077 AGATTTATGT
* * **
34958087 GTAAGACCATGTTTGGAACATCGGCATCGTATTTGATTTCGT
1 GTAAGACCATGTCTGGAACATCGGCATCGTATTTGATTACAA
* *
34958129 GTAAGACCCTGTCTGGGACAGT-GGCATCGATATTTGATTACAA
1 GTAAGACCATGTCTGGAACA-TCGGCATCG-TATTTGATTACAA
34958172 GTAAGACCA
1 GTAAGACCA
34958181 CATCTGGGAC
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 24 0.56
43 19 0.44
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (42 bp):
GTAAGACCATGTCTGGAACATCGGCATCGTATTTGATTACAA
Found at i:34958187 original size:43 final size:42
Alignment explanation
Indices: 34958109--34958190 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
34958099 TTGGAACATC
* ** *
34958109 GGCATCGTATTTGATTTCGTGTAAGACCCTGTCTGGGACAGT
1 GGCATCGTATTTGATTACAAGTAAGACCCTATCTGGGACAGT
34958151 GGCATCGATATTTGATTACAAGTAAGACCAC-ATCTGGGAC
1 GGCATCG-TATTTGATTACAAGTAAGACC-CTATCTGGGAC
34958191 GATGAAATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 7 0.21
43 26 0.76
44 1 0.03
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (42 bp):
GGCATCGTATTTGATTACAAGTAAGACCCTATCTGGGACAGT
Found at i:34962814 original size:46 final size:46
Alignment explanation
Indices: 34962691--34962817 Score: 218
Period size: 46 Copynumber: 2.8 Consensus size: 46
34962681 TGTAACCCGC
* * * *
34962691 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34962737 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34962783 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
34962818 AATGCTCAAC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:34962838 original size:46 final size:45
Alignment explanation
Indices: 34962699--34962838 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 45
34962689 GCCCATAAGC
* *** * *
34962699 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAATGCTCACCATCC-T-AGT
*
34962745 GAACTCGGACTCAACTCAACGAGTTCGGACAT--TC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTC-GA-ATGCTCACCATCC-T-AGT
34962791 GAACTCGGACTCAACTCAACGAGTTCGAATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGAATGCTC-ACCATCCTAGT
34962837 GA
1 GA
34962839 CATGTCACTT
Statistics
Matches: 83, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
44 2 0.02
45 2 0.02
46 72 0.87
47 2 0.02
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGAATGCTCACCATCCTAGT
Found at i:34970337 original size:93 final size:93
Alignment explanation
Indices: 34970224--34970395 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
34970214 CGCCCATAAG
* *
34970224 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
34970289 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
34970317 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
34970382 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
34970396 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:34970392 original size:46 final size:46
Alignment explanation
Indices: 34970217--34970392 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
34970207 TGTAACCCGC
* * *
34970217 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
34970263 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
34970313 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
34970356 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
34970393 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:34972450 original size:28 final size:24
Alignment explanation
Indices: 34972396--34972446 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
34972386 AAACAACTCC
*
34972396 TAAAAAAAACTCAAGAGCAATTCT
1 TAAAAAAAACTCAAGAGCAATTAT
34972420 TAAAGAAAAACTCAAAGAGC-ATTAT
1 TAAA-AAAAACTC-AAGAGCAATTAT
34972445 TA
1 TA
34972447 TTAACTCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 14 0.58
26 6 0.25
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.22
Consensus pattern (24 bp):
TAAAAAAAACTCAAGAGCAATTAT
Found at i:34977339 original size:26 final size:26
Alignment explanation
Indices: 34977293--34977367 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
34977283 TCTCATCCCT
* * *
34977293 ATTTTACCC-CAACAAAATTTTGGCA
1 ATTTTACCCTTAATAAAATTTTGACA
* * *
34977318 ATTTTACCTTTGATAAAATTTTGACG
1 ATTTTACCCTTAATAAAATTTTGACA
*
34977344 ATTTTCCCCTTAATAAAATTTTGA
1 ATTTTACCCTTAATAAAATTTTGA
34977368 TGACTTTGCC
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 8 0.20
26 32 0.80
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.41
Consensus pattern (26 bp):
ATTTTACCCTTAATAAAATTTTGACA
Found at i:34977390 original size:26 final size:26
Alignment explanation
Indices: 34977330--34977380 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
34977320 TTTACCTTTG
*
34977330 ATAAAATTTTGACGATTTTCCCCTTA
1 ATAAAATTTTGACGATTTGCCCCTTA
*
34977356 ATAAAATTTTGATGACTTTGCCCCT
1 ATAAAATTTTGACGA-TTTGCCCCT
34977381 GGTAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (26 bp):
ATAAAATTTTGACGATTTGCCCCTTA
Found at i:34977554 original size:6 final size:6
Alignment explanation
Indices: 34977539--34977579 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
34977529 GCAAACGGAT
* *
34977539 CATTTC CATTTT CATTTC CATTTC CATTTT CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
34977580 TCTGGAAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.17, C:0.27, G:0.00, T:0.56
Consensus pattern (6 bp):
CATTTC
Found at i:34977562 original size:18 final size:18
Alignment explanation
Indices: 34977539--34977579 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
34977529 GCAAACGGAT
34977539 CATTTCCATTTTCATTTC
1 CATTTCCATTTTCATTTC
34977557 CATTTCCATTTTCATTTC
1 CATTTCCATTTTCATTTC
34977575 CATTT
1 CATTT
34977580 TCTGGAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.27, G:0.00, T:0.56
Consensus pattern (18 bp):
CATTTCCATTTTCATTTC
Found at i:34979659 original size:23 final size:26
Alignment explanation
Indices: 34979633--34979684 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
34979623 GGGATAATAA
*
34979633 TTTTT-AA-TTAATATTCAACTGATT
1 TTTTTGAAGTTAATATTCAACTAATT
34979657 TTTTTGAAGTTAATATTCAACTAATT
1 TTTTTGAAGTTAATATTCAACTAATT
34979683 TT
1 TT
34979685 GAAAACAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 5 0.20
25 2 0.08
26 18 0.72
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.54
Consensus pattern (26 bp):
TTTTTGAAGTTAATATTCAACTAATT
Found at i:34982619 original size:44 final size:43
Alignment explanation
Indices: 34982540--34982640 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 43
34982530 CTGATATGTG
* * * *
34982540 TTATCGTGTAAGACCACTTCTGGGACGTTGGCATCG-ACTTATGAT
1 TTAT-GTGTAAGACCACATCTAGGACATTGACATCGTA-TT-TGAT
34982585 TTATGTGTAAGACCACATCTAGGACATTGACATCGTATTTGAT
1 TTATGTGTAAGACCACATCTAGGACATTGACATCGTATTTGAT
*
34982628 TT-CGTGTAAGACC
1 TTATGTGTAAGACC
34982641 CTGTCTGGGA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
42 10 0.20
43 6 0.12
44 29 0.58
45 5 0.10
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.34
Consensus pattern (43 bp):
TTATGTGTAAGACCACATCTAGGACATTGACATCGTATTTGAT
Found at i:34983985 original size:34 final size:34
Alignment explanation
Indices: 34983941--34984061 Score: 125
Period size: 34 Copynumber: 3.5 Consensus size: 34
34983931 GGGGCCTAAA
* * **
34983941 CCCATATCAGTAACAGTGGCAATCTGGGCATTAG
1 CCCATTTCAGTAACAGTAGCAATCTGGGTTTTAG
** *
34983975 CCCATTTCAGTAACAGTAGCAGCCTGGGTTTTAA
1 CCCATTTCAGTAACAGTAGCAATCTGGGTTTTAG
* * * *
34984009 CCCAGTTCAGTAATAGTAATCAATCTAGGTTTTAG
1 CCCATTTCAGTAACAGT-AGCAATCTGGGTTTTAG
*
34984044 CCCATTTCAGTAATAGTA
1 CCCATTTCAGTAACAGTA
34984062 ATCAGTGCAG
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
34 43 0.61
35 28 0.39
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (34 bp):
CCCATTTCAGTAACAGTAGCAATCTGGGTTTTAG
Found at i:34984053 original size:35 final size:35
Alignment explanation
Indices: 34983971--34984065 Score: 120
Period size: 35 Copynumber: 2.7 Consensus size: 35
34983961 AATCTGGGCA
* * * *
34983971 TTAGCCCATTTCAGTAACAGT-AGCAGCCTGGGTT
1 TTAGCCCATTTCAGTAATAGTAATCAACCTAGGTT
* * *
34984005 TTAACCCAGTTCAGTAATAGTAATCAATCTAGGTT
1 TTAGCCCATTTCAGTAATAGTAATCAACCTAGGTT
34984040 TTAGCCCATTTCAGTAATAGTAATCA
1 TTAGCCCATTTCAGTAATAGTAATCA
34984066 GTGCAGTAAC
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
34 18 0.35
35 33 0.65
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.33
Consensus pattern (35 bp):
TTAGCCCATTTCAGTAATAGTAATCAACCTAGGTT
Found at i:34984074 original size:18 final size:18
Alignment explanation
Indices: 34984051--34984109 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
34984041 TAGCCCATTT
*
34984051 CAGTAATAGTAATCAGTG
1 CAGTAACAGTAATCAGTG
* *
34984069 CAGTAACCA-TGATCAATG
1 CAGTAA-CAGTAATCAGTG
34984087 CAGTAACAGTAATCAGTG
1 CAGTAACAGTAATCAGTG
34984105 CAGTA
1 CAGTA
34984110 TGCAAACAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
17 2 0.06
18 31 0.91
19 1 0.03
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (18 bp):
CAGTAACAGTAATCAGTG
Found at i:34984500 original size:27 final size:27
Alignment explanation
Indices: 34984453--34984514 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
34984443 AACAAATCTA
* *
34984453 TCATTTTACCTTACTGAGGTATTACAG
1 TCATTTTACCCTACAGAGGTATTACAG
* * *
34984480 TCATTTTACCCTACAGGGGTATTTCGG
1 TCATTTTACCCTACAGAGGTATTACAG
34984507 TCATTTTA
1 TCATTTTA
34984515 TCACATAAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTACAGAGGTATTACAG
Found at i:34984526 original size:27 final size:27
Alignment explanation
Indices: 34984507--34984823 Score: 382
Period size: 27 Copynumber: 11.7 Consensus size: 27
34984497 GGTATTTCGG
34984507 TCATTTTATCACATAAGGGTAAAATCA
1 TCATTTTATCACATAAGGGTAAAATCA
* **
34984534 TCATTTTATCACATAAGGGAAAAATTG
1 TCATTTTATCACATAAGGGTAAAATCA
* * *
34984561 TCATTTTATCACCTAAAGGCAAAATCA
1 TCATTTTATCACATAAGGGTAAAATCA
* * *
34984588 TCATTTTATCACCTAAGGGCAAAATCG
1 TCATTTTATCACATAAGGGTAAAATCA
* * *
34984615 TCATTTTATCACATGAGGGCAAAATCG
1 TCATTTTATCACATAAGGGTAAAATCA
* *
34984642 TCATTTTATCACATAAGGGCAAAATCG
1 TCATTTTATCACATAAGGGTAAAATCA
* *
34984669 TCATTTTATCACTTAAGGGAAAAATCA
1 TCATTTTATCACATAAGGGTAAAATCA
* * *
34984696 TAATTTTATCACATGAGGGCAAAATCA
1 TCATTTTATCACATAAGGGTAAAATCA
* * *
34984723 TCATTTTATCACATAAAGGCAAAATCG
1 TCATTTTATCACATAAGGGTAAAATCA
**
34984750 TCATTTTATCACATAAGGACAAAATCA
1 TCATTTTATCACATAAGGGTAAAATCA
* *
34984777 TCATTTTATCACATAAGGGCAAAATCG
1 TCATTTTATCACATAAGGGTAAAATCA
* *
34984804 TCATTTTATCAAATGAGGGT
1 TCATTTTATCACATAAGGGT
34984824 TTAGGTACGC
Statistics
Matches: 258, Mismatches: 32, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 258 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.31
Consensus pattern (27 bp):
TCATTTTATCACATAAGGGTAAAATCA
Found at i:34984541 original size:54 final size:54
Alignment explanation
Indices: 34984506--34984814 Score: 456
Period size: 54 Copynumber: 5.7 Consensus size: 54
34984496 GGGTATTTCG
* * *
34984506 GTCATTTTATCACATAAGGGTAAAATCATCATTTTATCACATAAGGGAAAAATT
1 GTCATTTTATCACATAAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATC
* * *
34984560 GTCATTTTATCACCTAAAGGCAAAATCATCATTTTATCACCTAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATC
* *
34984614 GTCATTTTATCACATGAGGGCAAAATCGTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATC
* * * *
34984668 GTCATTTTATCACTTAAGGGAAAAATCATAATTTTATCACATGAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATC
* * * *
34984722 ATCATTTTATCACATAAAGGCAAAATCGTCATTTTATCACATAAGGACAAAATC
1 GTCATTTTATCACATAAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATC
* *
34984776 ATCATTTTATCACATAAGGGCAAAATCGTCATTTTATCA
1 GTCATTTTATCACATAAGGGCAAAATCATCATTTTATCA
34984815 AATGAGGGTT
Statistics
Matches: 229, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 229 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (54 bp):
GTCATTTTATCACATAAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATC
Found at i:34984592 original size:81 final size:81
Alignment explanation
Indices: 34984506--34984814 Score: 483
Period size: 81 Copynumber: 3.8 Consensus size: 81
34984496 GGGTATTTCG
* * *
34984506 GTCATTTTATCACATAAGGGTAAAATCATCATTTTATCACATAAGGGAAAAATTGTCATTTTATC
1 GTCATTTTATCACATAAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
*
34984571 ACCTAAAGGCAAAATC
66 ACATAAAGGCAAAATC
* * * *
34984587 ATCATTTTATCACCTAAGGGCAAAATCGTCATTTTATCACATGAGGGCAAAATCGTCATTTTATC
1 GTCATTTTATCACATAAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
*
34984652 ACATAAGGGCAAAATC
66 ACATAAAGGCAAAATC
* * * * *
34984668 GTCATTTTATCACTTAAGGGAAAAATCATAATTTTATCACATGAGGGCAAAATCATCATTTTATC
1 GTCATTTTATCACATAAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
34984733 ACATAAAGGCAAAATC
66 ACATAAAGGCAAAATC
*
34984749 GTCATTTTATCACATAAGGACAAAATCATCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
1 GTCATTTTATCACATAAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
34984814 A
66 A
34984815 AATGAGGGTT
Statistics
Matches: 206, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 206 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (81 bp):
GTCATTTTATCACATAAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATCGTCATTTTATC
ACATAAAGGCAAAATC
Found at i:34987935 original size:27 final size:27
Alignment explanation
Indices: 34987904--34988081 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34987894 TAAATTGTAC
34987904 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34987931 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34987957 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34987985 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34988013 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34988040 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34988067 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34988082 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34988018 original size:82 final size:81
Alignment explanation
Indices: 34987905--34988060 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34987895 AAATTGTACA
* *
34987905 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
34987969 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
34987986 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
34988051 TGCGAGTTGA
65 TGCGAATTGA
34988061 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:34988072 original size:82 final size:81
Alignment explanation
Indices: 34987901--34988081 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
34987891 GATTAAATTG
* *
34987901 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34987966 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
34987982 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
34988046 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
34988064 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
34988082 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35003303 original size:48 final size:48
Alignment explanation
Indices: 35003232--35003453 Score: 225
Period size: 48 Copynumber: 4.6 Consensus size: 48
35003222 TATGTGTGCC
*
35003232 AGTGTAAGACCATGTCT-AGGACATGGCATTAGCCACATTATAAGAGCT
1 AGTGTAAGACCATGTCTGA-GACATGGCATCAGCCACATTATAAGAGCT
* * *
35003280 AGTGTAAGACCATGTCTGAGACATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGAGACATGGCATCAGCCACATTATAAGAGCT
* * ***** ** *
35003328 AGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGCTATGTGTGCT
1 AGTGTAAGACCATGTCTGAGACATGGCATCAGCCACATTATAAGAGCT
* * * *
35003376 AGTGTAAGACCGTGTCTGGGACATGACATCAGCGACATTATAAGAGCCT
1 AGTGTAAGACCATGTCTGAGACATGGCATCAGCCACATTATAAGAG-CT
*
35003425 A-TGTAAGACCACGTCT-AGGACATGGCATC
1 AGTGTAAGACCATGTCTGA-GACATGGCATC
35003454 GGCCTCGACA
Statistics
Matches: 144, Mismatches: 27, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
48 140 0.97
49 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGAGACATGGCATCAGCCACATTATAAGAGCT
Found at i:35003478 original size:96 final size:96
Alignment explanation
Indices: 35003229--35003501 Score: 282
Period size: 96 Copynumber: 2.8 Consensus size: 96
35003219 TGATATGTGT
* ** * ** * *
35003229 GCCAGTGTAAGACCATGTCTAGGACATGGCATTAGCCACATTATA-AGAGCTAGTGTAAGACCAT
1 GCCAGTGTAAGACCACGTCTAGGACATGGCATCGGCCTCGCTA-AGTGAGCCAGTGTAAGACCAT
* * *
35003293 GTCTGAGACATGGCATCGGCCACATTATGAGA
65 GTCTGGGACATGGCATCAGCCACATTATAAGA
* * * * * * * *
35003325 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGCTATGTGTGCTAGTGTAAGACCGTG
1 GCCAGTGTAAGACCACGTCTAGGACATGGCATCGGCCTCGCTAAGTGAGCCAGTGTAAGACCATG
* *
35003390 TCTGGGACATGACATCAGCGACATTATAAGA
66 TCTGGGACATGGCATCAGCCACATTATAAGA
*
35003421 GCCTA-TGTAAGACCACGTCTAGGACATGGCATCGGCCTCGAC-AAGTGAGCCATTGTAAGACCA
1 GCC-AGTGTAAGACCACGTCTAGGACATGGCATCGGCCTCG-CTAAGTGAGCCAGTGTAAGACCA
* *
35003484 TATCTGGGATATGGCATC
64 TGTCTGGGACATGGCATC
35003502 GGCAATTTAC
Statistics
Matches: 145, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
96 143 0.99
97 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (96 bp):
GCCAGTGTAAGACCACGTCTAGGACATGGCATCGGCCTCGCTAAGTGAGCCAGTGTAAGACCATG
TCTGGGACATGGCATCAGCCACATTATAAGA
Found at i:35003482 original size:144 final size:144
Alignment explanation
Indices: 35003222--35003504 Score: 392
Period size: 144 Copynumber: 2.0 Consensus size: 144
35003212 AATTGGGTGA
* *
35003222 TATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATTAGCCACATTATAAGAGCTAGTGTAA
1 TATGTGTGCCAGTGTAAGACCATGTCTAGGACATGACATCAGCCACATTATAAGAGCTAGTGTAA
* * * *
35003287 GACCATGTCTGAGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACAT
66 GACCACGTCTGAGACATGGCATCGGCCACATCAAGAGAGCCAGTGTAAGACCATATCTGGGACAT
35003352 GGCATCGGCGTTGC
131 GGCATCGGCGTTGC
* * * *
35003366 TATGTGTGCTAGTGTAAGACCGTGTCTGGGACATGACATCAGCGACATTATAAGAGCCTA-TGTA
1 TATGTGTGCCAGTGTAAGACCATGTCTAGGACATGACATCAGCCACATTATAAGAG-CTAGTGTA
* * *
35003430 AGACCACGTCT-AGGACATGGCATCGGCCTCGA-CAAGTGAGCCATTGTAAGACCATATCTGGGA
65 AGACCACGTCTGA-GACATGGCATCGGCCAC-ATCAAGAGAGCCAGTGTAAGACCATATCTGGGA
*
35003493 TATGGCATCGGC
128 CATGGCATCGGC
35003505 AATTTACCCT
Statistics
Matches: 122, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
143 1 0.01
144 117 0.96
145 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (144 bp):
TATGTGTGCCAGTGTAAGACCATGTCTAGGACATGACATCAGCCACATTATAAGAGCTAGTGTAA
GACCACGTCTGAGACATGGCATCGGCCACATCAAGAGAGCCAGTGTAAGACCATATCTGGGACAT
GGCATCGGCGTTGC
Found at i:35011245 original size:16 final size:15
Alignment explanation
Indices: 35011218--35011254 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
35011208 ATAATTCATG
*
35011218 TATAATTATATTTAT
1 TATAATTATATTAAT
35011233 TATAATATATATTAAT
1 TATAAT-TATATTAAT
35011249 TATAAT
1 TATAAT
35011255 CAACTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:35011966 original size:17 final size:18
Alignment explanation
Indices: 35011937--35011971 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
35011927 TTCTCCTAAA
*
35011937 TTTCAATTTTATTTAATT
1 TTTCAATTTTATTGAATT
35011955 TTTCAA-TTTATTGAATT
1 TTTCAATTTTATTGAATT
35011972 GTTAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTCAATTTTATTGAATT
Found at i:35014161 original size:5 final size:5
Alignment explanation
Indices: 35014151--35014183 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
35014141 TGCTCGTAAA
35014151 AAAAG AAAAG AAAAG AAAAG AAAA- AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
35014184 AAGAGAGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:35017767 original size:27 final size:27
Alignment explanation
Indices: 35017727--35017892 Score: 179
Period size: 27 Copynumber: 6.1 Consensus size: 27
35017717 GGTCGTTATC
35017727 TGACCGTAATACCCCTGTAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* * *
35017754 TGACCGTAACACCCCTGTTGGCTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* **
35017781 TGATCGTAATACCTTTGTAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* * *
35017808 TGATCGTAATACCCTTATAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* * * *
35017835 TCATCGTAATGCCCCGGTAGGGTAAAA
1 TGACCGTAATACCCCTGTAGGGTAAAA
* * * *
35017862 TGACTGTAATACTCCTGTATGGTAACA
1 TGACCGTAATACCCCTGTAGGGTAAAA
35017889 TGAC
1 TGAC
35017893 GATTATGCCT
Statistics
Matches: 115, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 115 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (27 bp):
TGACCGTAATACCCCTGTAGGGTAAAA
Found at i:35018067 original size:27 final size:26
Alignment explanation
Indices: 35018027--35018104 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 26
35018017 ATGGAGGAAG
*
35018027 TACTGTACTGGTGGCTATGTCAC-AT
1 TACTGTACTGGTGGCTATGCCACAAT
35018052 TCACTGTTACTGGTGGCTATGCCACAAT
1 T-ACTG-TACTGGTGGCTATGCCACAAT
35018080 TACTGATACTGGTGGC-ATTGCCACA
1 TACTG-TACTGGTGGCTA-TGCCACA
35018105 TTTATTGTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
25 1 0.02
26 5 0.11
27 38 0.81
28 3 0.06
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (26 bp):
TACTGTACTGGTGGCTATGCCACAAT
Found at i:35019371 original size:20 final size:18
Alignment explanation
Indices: 35019333--35019372 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
35019323 ACATGTTATG
*
35019333 TTAATATGTTTAATTTAA
1 TTAATATGCTTAATTTAA
35019351 TTAATATGGCTTAAGTTTAA
1 TTAATAT-GCTTAA-TTTAA
35019371 TT
1 TT
35019373 TTTGTTAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 5 0.26
20 7 0.37
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.53
Consensus pattern (18 bp):
TTAATATGCTTAATTTAA
Found at i:35026756 original size:14 final size:13
Alignment explanation
Indices: 35026736--35026767 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
35026726 AATATTTAAC
35026736 TTGTTCTTAATTA
1 TTGTTCTTAATTA
35026749 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
35026763 TTGTT
1 TTGTT
35026768 TTGATATCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:35028644 original size:27 final size:27
Alignment explanation
Indices: 35028614--35028791 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
35028604 ATATTGAGTC
* *
35028614 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
35028641 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
35028668 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
35028696 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
35028723 CTCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
35028750 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
35028777 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35028792 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:35029292 original size:14 final size:14
Alignment explanation
Indices: 35029273--35029302 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
35029263 ATGGCATACT
35029273 TATGTATATATATA
1 TATGTATATATATA
35029287 TATGTATATATATA
1 TATGTATATATATA
35029301 TA
1 TA
35029303 CTTCGGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:35030822 original size:44 final size:47
Alignment explanation
Indices: 35030723--35031021 Score: 206
Period size: 47 Copynumber: 6.4 Consensus size: 47
35030713 ACGCGTTTAC
* * * *
35030723 CATGTCCCAGACATGGTCTTATACTAGCTCTCATATATACGT-GCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTATCA-ACAT-CTTAGCTGATG
35030772 CATGTCCCAGACATGTCTTACACTAGC-A-CAAC-TCTTAGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCAACATCTTAGCTGATG
** * ** * * * **
35030816 TGTGTCCTAGACACATATTACACTGGCTATCATCATCGAAGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCAACATCTTAGCTGATG
* * *
35030863 CATGTCCCAGACATGTCATACACTGGC-A-CAAC-TCTTAGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCAACATCTTAGCTGATG
* * * ** * *
35030907 CGTATCCTAGACACATCTTACACTAGCTATCATCATC-GAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCAACATCTTA-GCTGATG
* * *
35030954 CATGTCCCAGACATGTCTTACACT-GGTA-C-TCATCTCTACGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCAACATCT-TA-GCTGATG
35031000 CCATGTCCCAGACATGGTCTTA
1 -CATGTCCCAGACAT-GTCTTA
35031022 TACAGTCACT
Statistics
Matches: 194, Mismatches: 44, Indels: 25
0.74 0.17 0.10
Matches are distributed among these distances:
43 2 0.01
44 62 0.32
45 7 0.04
46 20 0.10
47 71 0.37
48 18 0.09
49 14 0.07
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTATCAACATCTTAGCTGATG
Found at i:35030978 original size:91 final size:91
Alignment explanation
Indices: 35030765--35030979 Score: 358
Period size: 91 Copynumber: 2.4 Consensus size: 91
35030755 ATATATACGT
* * * *
35030765 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCTGATGTGTGTCCTAGACAC
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTAGCCGATGCGTATCCTAGACAC
*
35030830 ATATTACACTGGCTATCATCATCGAA
66 ATATTACACTAGCTATCATCATCGAA
*
35030856 GCTGATGCATGTCCCAGACATGTCATACACTGGCACAACTCTTAGCCGATGCGTATCCTAGACAC
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTAGCCGATGCGTATCCTAGACAC
* *
35030921 ATCTTACACTAGCTATCATCATCGAG
66 ATATTACACTAGCTATCATCATCGAA
35030947 GCTGATGCATGTCCCAGACATGTCTTACACTGG
1 GCTGATGCATGTCCCAGACATGTCTTACACTGG
35030980 TACTCATCTC
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 115 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (91 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTAGCCGATGCGTATCCTAGACAC
ATATTACACTAGCTATCATCATCGAA
Found at i:35031014 original size:47 final size:45
Alignment explanation
Indices: 35030765--35031071 Score: 178
Period size: 47 Copynumber: 6.7 Consensus size: 45
35030755 ATATATACGT
* * *
35030765 GCTGATGCATGTCCCAGACATGTCTTACACTAG--CACAACTCTTA
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGTACTCATCTC-TA
** * ** * *
35030809 GCTGATGTGTGTCCTAGACACATATTACACTGGCTA-TCATCATCGAA
1 GCTGATGCATGTCCCAGACATGTCTTACACTGG-TACTCATC-TC-TA
* * *
35030856 GCTGATGCATGTCCCAGACATGTCATACACTGG--CACAACTCTTA
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGTACTCATCTC-TA
* * * * ** * *
35030900 GCCGATGCGTATCCTAGACACATCTTACACTAGCTA-TCATCATCGA
1 GCTGATGCATGTCCCAGACATGTCTTACACT-GGTACTCATC-TCTA
35030946 GGCTGATGCATGTCCCAGACATGTCTTACACTGGTACTCATCTCTA
1 -GCTGATGCATGTCCCAGACATGTCTTACACTGGTACTCATCTCTA
* * * * * *
35030992 CGCCGATGCCATGTCCCAGACATGGTCTTATAC-AGTCACTCATAATGTG
1 -GCTGATG-CATGTCCCAGACAT-GTCTTACACTGGT-ACTCAT-CTCTA
** *
35031041 GCCAATCCATGTCCCAGACATGTCTTACACT
1 GCTGATGCATGTCCCAGACATGTCTTACACT
35031072 AGCACACAAG
Statistics
Matches: 196, Mismatches: 51, Indels: 29
0.71 0.18 0.11
Matches are distributed among these distances:
44 53 0.27
45 4 0.02
46 27 0.14
47 91 0.46
48 19 0.10
49 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (45 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTGGTACTCATCTCTA
Found at i:35036858 original size:47 final size:47
Alignment explanation
Indices: 35036779--35037118 Score: 286
Period size: 47 Copynumber: 7.2 Consensus size: 47
35036769 GTCCCAAAAA
*
35036779 GGTCTTACACT-G-ACACATGTCAAGCCGATGCCATGTCCCAGACAT
1 GGTCTTACACTAGCACACATCTCAAGCCGATGCCATGTCCCAGACAT
* * * *
35036824 GGTCTTACACTAGCTCACATCTCAAGTCGGTGCCATGTCCCAGATAT
1 GGTCTTACACTAGCACACATCTCAAGCCGATGCCATGTCCCAGACAT
* * *
35036871 GGTCTTACACT-G-ACTATCATCATCGAGGCCGATG-CGTGTCCTAGACA-
1 GGTCTTACACTAGCAC-A-CATC-TC-AAGCCGATGCCATGTCCCAGACAT
* ***
35036918 CGTCTTACACTAGCACTTGTCTCAATGCCGATGCCATGTCCCAGACAT
1 GGTCTTACACTAGCACACATCTCAA-GCCGATGCCATGTCCCAGACAT
* * * * *
35036966 TGTCTTACACAAGCACACATATCTTGAGGCTGATG-CATGTCCCAGACAT
1 GGTCTTACACTAGCACAC--ATC-TCAAGCCGATGCCATGTCCCAGACAT
* * * * * *
35037015 -GTCTTACACTGGCTCTCGTCTCAAAGCCGAAG-CATGTCCCAAACAT
1 GGTCTTACACTAGCACACATCTC-AAGCCGATGCCATGTCCCAGACAT
* * *
35037061 -GTCTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCTAGACAT
1 GGTCTTACACTAGCACACATCTCAA-GCCGATGCCATGTCCCAGACAT
35037108 GGTCTTACACT
1 GGTCTTACACT
35037119 GGCTCTCATT
Statistics
Matches: 235, Mismatches: 42, Indels: 33
0.76 0.14 0.11
Matches are distributed among these distances:
45 16 0.07
46 59 0.25
47 78 0.33
48 50 0.21
49 22 0.09
50 8 0.03
51 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
GGTCTTACACTAGCACACATCTCAAGCCGATGCCATGTCCCAGACAT
Found at i:35036956 original size:142 final size:141
Alignment explanation
Indices: 35036768--35037165 Score: 412
Period size: 142 Copynumber: 2.8 Consensus size: 141
35036758 GTTGATACTG
* * * * *
35036768 TGTCCCAAAAAGGTCTTACACT-G-ACACATGTCAA-GCCGATGCCATGTCCCAGACATGGTCTT
1 TGTCCCAAACACGTCTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCCAGACATGGTCTT
* * *
35036830 ACACTAGCTCAC-ATCTCAAGTC-GGTGCCATGTCCCAGATATGGTCTTACACTGACTATCATCA
66 ACACTAGCTCACAATCTCAAGGCTGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATC-
* * * *
35036893 TCGAGGCCGATGCG
128 TCAAAGCCGAAGCA
* * * *
35036907 TGTCCTAGACACGTCTTACACTAGCACTTGTCTCAATGCCGATGCCATGTCCCAGACATTGTCTT
1 TGTCCCAAACACGTCTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCCAGACATGGTCTT
* * ** * * *
35036972 ACACAAGCACACATATCTTGAGGCTGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTC
66 ACACTAGCTCACA-ATCTCAAGGCTGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTC
35037037 AAAGCCGAAGCA
130 AAAGCCGAAGCA
* *
35037049 TGTCCCAAACATGTCTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCTAGACATGGTCTT
1 TGTCCCAAACACGTCTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCCAGACATGGTCTT
* * * * ** * * *
35037114 ACACTGGCTCTCATTAT-GTGGTTGATGCATGTCCCAAACATGTCTAACACTG
66 ACACTAGCTCACAATCTCAAGGCTGATGCATGTCCCAGACATGTCTTACACTG
35037166 GAGCACATAT
Statistics
Matches: 214, Mismatches: 39, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
139 18 0.08
140 32 0.15
141 9 0.04
142 115 0.54
143 17 0.08
144 20 0.09
145 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (141 bp):
TGTCCCAAACACGTCTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCCAGACATGGTCTT
ACACTAGCTCACAATCTCAAGGCTGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCA
AAGCCGAAGCA
Found at i:35037115 original size:94 final size:92
Alignment explanation
Indices: 35036768--35037125 Score: 312
Period size: 96 Copynumber: 3.8 Consensus size: 92
35036758 GTTGATACTG
* * *
35036768 TGTCCCAAAAAGGTCTTACACTGACACATGTCAA-GCCGATGCCATGTCCCAGACATGGTCTTAC
1 TGTCCCAAACATGTCTTACACTGACACATCTCAAGGCCGATG-CATGTCCCAGACATGGTCTTAC
* * * *
35036832 ACTAGCTCACATCTC-AAGTCGGTGCCA
65 ACTAGCTCTCGTCTCAAAGCCGATGCCA
* * * * * *
35036859 TGTCCCAGATATGGTCTTACACTGACTATCATCATCGAGGCCGATGCGTGTCCTAGACA-CGTCT
1 TGTCCCAAACAT-GTCTTACACTGAC-A-CATC-TCAAGGCCGATGCATGTCCCAGACATGGTCT
* * *
35036923 TACACTAGCACTTGTCTCAATGCCGATGCCA
62 TACACTAGCTCTCGTCTCAAAGCCGATGCCA
* * ** *
35036954 TGTCCCAGACATTGTCTTACACAAGCACACATATCTTGAGGCTGATGCATGTCCCAGACAT-GTC
1 TGTCCCAAACA-TGTCTTACAC-TG-ACAC--ATCTCAAGGCCGATGCATGTCCCAGACATGGTC
* *
35037018 TTACACTGGCTCTCGTCTCAAAGCCGAAG-CA
61 TTACACTAGCTCTCGTCTCAAAGCCGATGCCA
* * * *
35037049 TGTCCCAAACATGTCTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCTAGACATGGTCTT
1 TGTCCCAAACATGTCTTACACT-G-ACACATCTCAAGGCCGATG-CATGTCCCAGACATGGTCTT
*
35037114 ACACTGGCTCTC
63 ACACTAGCTCTC
35037126 ATTATGTGGT
Statistics
Matches: 217, Mismatches: 35, Indels: 27
0.78 0.13 0.10
Matches are distributed among these distances:
91 9 0.04
92 23 0.11
93 14 0.06
94 53 0.24
95 55 0.25
96 58 0.27
97 5 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (92 bp):
TGTCCCAAACATGTCTTACACTGACACATCTCAAGGCCGATGCATGTCCCAGACATGGTCTTACA
CTAGCTCTCGTCTCAAAGCCGATGCCA
Found at i:35042460 original size:47 final size:47
Alignment explanation
Indices: 35042373--35042728 Score: 277
Period size: 47 Copynumber: 7.6 Consensus size: 47
35042363 GTCGATACCG
* * *
35042373 TGTCCCAAACA-GGTCTTACACT-G-ACACATGTCAAGCCGATGCCA
1 TGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGCCGATGCCA
* *
35042417 TGTCCCAAACATGGTCTTACACTAGCTCACATCTCAAGTCGATGCCA
1 TGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGCCGATGCCA
* *
35042464 TGTCCCAGATATGGTCTTACACT-GACT-ATCATCATCGAGGCCGATG-CA
1 TGTCCCAGACATGGTCTTACACTAG-CTCA-CATC-TC-AAGCCGATGCCA
* * * * * * * *
35042512 TGTCCTAGACA-CGTCTTACACTCGCACTCGTCTCAATGTCAATGCCA
1 TGTCCCAGACATGGTCTTACACTAGCTCACATCTCAA-GCCGATGCCA
* * * * * * *
35042559 TGGCCCAGATATGGTCTTACACTAGCACGCATATCTCGAGGCGGATG-TA
1 TGTCCCAGACATGGTCTTACACTAG--CTCACATCTC-AAGCCGATGCCA
* *
35042608 TGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCAAAGCCGATG-CA
1 TGTCCCAGACATGGTCTTACACTAGCTCACATCTC-AAGCCGATGCCA
* * *
35042654 TGTCCCAGACAT-GTCTTACACTAGCAT-TCGTCTCTATGCCGATGCCA
1 TGTCCCAGACATGGTCTTACACTAGC-TCACATCTC-AAGCCGATGCCA
*
35042701 TGTCCCAGACATGGTCTTACACTGGCTC
1 TGTCCCAGACATGGTCTTACACTAGCTC
35042729 TCATTATGTG
Statistics
Matches: 248, Mismatches: 45, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
44 11 0.04
45 12 0.05
46 63 0.25
47 85 0.34
48 48 0.19
49 18 0.07
50 10 0.04
51 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
TGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGCCGATGCCA
Found at i:35042573 original size:142 final size:140
Alignment explanation
Indices: 35042373--35042770 Score: 412
Period size: 142 Copynumber: 2.8 Consensus size: 140
35042363 GTCGATACCG
* * * * * * *
35042373 TGTCCCAAACAGGTCTTACACT-G-ACACATGTCAA-GCCGATGCCATGTCCCAAACATGGTCTT
1 TGTCCCAGACACGTCTTACACTAGCACTCGTCTCAATGCCAATGCCATGTCCCAGACATGGTCTT
* *
35042435 ACACTAGCTCACATCTCAAGTC-GATGCCATGTCCCAGATATGGTCTTACACTGACTATCATCAT
66 ACACTAGCTCACATCTCAAGGCGGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATC-T
* *
35042499 CGAGGCCGATGCA
128 CAAAGCCGATGCA
* * * * *
35042512 TGTCCTAGACACGTCTTACACTCGCACTCGTCTCAATGTCAATGCCATGGCCCAGATATGGTCTT
1 TGTCCCAGACACGTCTTACACTAGCACTCGTCTCAATGCCAATGCCATGTCCCAGACATGGTCTT
* * * * * *
35042577 ACACTAGCACGCATATCTCGAGGCGGATGTATGTCCCAGACATGTCTTACACTGGCTCTCATCTC
66 ACACTAG--CTCACATCTCAAGGCGGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTC
35042642 AAAGCCGATGCA
129 AAAGCCGATGCA
* * * *
35042654 TGTCCCAGACATGTCTTACACTAGCATTCGTCTCTATGCCGATGCCATGTCCCAGACATGGTCTT
1 TGTCCCAGACACGTCTTACACTAGCACTCGTCTCAATGCCAATGCCATGTCCCAGACATGGTCTT
* * * * *
35042719 ACACTGGCTCTCAT-T-ATGTGGTGGATGCATGTCCCAGACATGTCTAACACTG
66 ACACTAGCTCACATCTCA--AGGCGGATGCATGTCCCAGACATGTCTTACACTG
35042771 GCGCACATAT
Statistics
Matches: 212, Mismatches: 39, Indels: 15
0.80 0.15 0.06
Matches are distributed among these distances:
139 20 0.09
140 35 0.17
141 8 0.04
142 104 0.49
143 18 0.08
144 23 0.11
145 4 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (140 bp):
TGTCCCAGACACGTCTTACACTAGCACTCGTCTCAATGCCAATGCCATGTCCCAGACATGGTCTT
ACACTAGCTCACATCTCAAGGCGGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCAA
AGCCGATGCA
Found at i:35042718 original size:94 final size:95
Alignment explanation
Indices: 35042407--35042732 Score: 360
Period size: 95 Copynumber: 3.4 Consensus size: 95
35042397 CACATGTCAA
* * *
35042407 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATCTC-AAGTCGATGCCATGTCCCA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAAAGTCGATGCCATGTCCCA
35042471 GATATGGTCTTACACT-G-ACTATCATCATCGAG
65 GATATGGTCTTACACTAGCA-T-TCATC-TCGAG
* * * * * * * *
35042503 GCCGATGCATGTCCTAGACA-CGTCTTACACTCGCACTCGTCTCAATGTCAATGCCATGGCCCAG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAAAGTCGATGCCATGTCCCAG
**
35042567 ATATGGTCTTACACTAGCACGCATATCTCGAG
66 ATATGGTCTTACACTAGCATTC--ATCTCGAG
* * *
35042599 GCGGATGTATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCAAAGCCGATG-CATGTCCCAG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAAAGTCGATGCCATGTCCCAG
* * * *
35042662 ACAT-GTCTTACACTAGCATTCGTCTCTAT
66 ATATGGTCTTACACTAGCATTCATCTCGAG
35042691 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCAT
35042733 TATGTGGTGG
Statistics
Matches: 192, Mismatches: 30, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
92 11 0.06
93 13 0.07
94 52 0.27
95 56 0.29
96 56 0.29
97 4 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (95 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAAAGTCGATGCCATGTCCCAG
ATATGGTCTTACACTAGCATTCATCTCGAG
Found at i:35042750 original size:47 final size:49
Alignment explanation
Indices: 35042407--35042772 Score: 248
Period size: 47 Copynumber: 7.7 Consensus size: 49
35042397 CACATGTCAA
* * *
35042407 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATCTCA--A-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCT-ATGAG
* * * *
35042454 GTCGATGCCATGTCCCAGATATGGTCTTACACTGACTATCATC-ATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTAT-GAG
* * * * * *
35042503 GCCGATG-CATGTCCTAGACA-CGTCTTACACTCGCACTCGTCTCA--AT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCT-ATGAG
* * * * * * * * *
35042549 GTCAATGCCATGGCCCAGATATGGTCTTACACTAGCACGCATATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTAT-GAG
* * *
35042599 GCGGATG-TATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCA--AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCT-ATGAG
* * * *
35042645 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCAT-TCGTCTCT-AT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATCTATGAG
*
35042691 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-TATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATGAG
** *
35042739 GTGGATG-CATGTCCCAGACAT-GTCTAACACTGGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
35042773 GCACATATCT
Statistics
Matches: 246, Mismatches: 55, Indels: 37
0.73 0.16 0.11
Matches are distributed among these distances:
45 1 0.00
46 63 0.26
47 93 0.38
48 66 0.27
49 18 0.07
50 5 0.02
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATGAG
Found at i:35046173 original size:5 final size:5
Alignment explanation
Indices: 35046165--35046203 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
35046155 AAAATAAAAA
35046165 TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
35046204 GGTTGGTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 29 0.88
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Done.