Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 133 of 211
Found at i:39004028 original size:42 final size:43
Alignment explanation
Indices: 39003932--39004125 Score: 197
Period size: 42 Copynumber: 4.6 Consensus size: 43
39003922 CAATGTCATA
* * * *
39003932 TCCCAGATATGGTCTTACATG-CTATCATATATCGATGCCAATAG
1 TCCCAGACATGGTCTTACACGAATCTCATA-ATCGATGCCAAT-G
39003976 --CCA-ACTATGGTCTTACACGAATCTCATAAT-GATGCCAATG
1 TCCCAGAC-ATGGTCTTACACGAATCTCATAATCGATGCCAATG
*
39004016 TCCCAGACATGGTCTTACACGAATCTCAT-ATCAATGCCAATG
1 TCCCAGACATGGTCTTACACGAATCTCATAATCGATGCCAATG
* * *
39004058 TCCCAGACATGGTCTTACATGAATCAT-GTAA-CGATGTCAATG
1 TCCCAGACATGGTCTTACACGAATC-TCATAATCGATGCCAATG
* *
39004100 TCCCAAACATGATCTTACACGTAATC
1 TCCCAGACATGGTCTTACACG-AATC
39004126 ACATCAAAGT
Statistics
Matches: 129, Mismatches: 12, Indels: 19
0.81 0.08 0.12
Matches are distributed among these distances:
40 1 0.01
41 12 0.09
42 102 0.79
43 14 0.11
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGAATCTCATAATCGATGCCAATG
Found at i:39010953 original size:42 final size:42
Alignment explanation
Indices: 39010907--39011041 Score: 155
Period size: 42 Copynumber: 3.2 Consensus size: 42
39010897 GCTAGCTATG
**
39010907 GTCTTACATGAATCTTATATCGATACCAATGTCCCAGACATA
1 GTCTTACACAAATCTTATATCGATACCAATGTCCCAGACATA
* * *
39010949 GTCTTACACAAATCTTATATCGATGCCAATGTCCCAGGCATG
1 GTCTTACACAAATCTTATATCGATACCAATGTCCCAGACATA
** * * * *
39010991 GTCTTACACAAATCACATAAT-GATGCCAAAGTCCAAGACATG
1 GTCTTACACAAATCTTAT-ATCGATACCAATGTCCCAGACATA
39011033 GTCTTACAC
1 GTCTTACAC
39011042 GTAATCACAT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 80 0.98
43 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.27
Consensus pattern (42 bp):
GTCTTACACAAATCTTATATCGATACCAATGTCCCAGACATA
Found at i:39018803 original size:28 final size:29
Alignment explanation
Indices: 39018750--39018805 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
39018740 AACTAATATT
* *
39018750 TTTTTAGGTCGATTTTGAAATTTATTTAA
1 TTTTTAGGCCGATTTTGAAAATTATTTAA
*
39018779 TTTTTAGGCCGGTTTT-AAAATTATTTA
1 TTTTTAGGCCGATTTTGAAAATTATTTA
39018806 GGGAAATAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.54
Consensus pattern (29 bp):
TTTTTAGGCCGATTTTGAAAATTATTTAA
Found at i:39018919 original size:14 final size:14
Alignment explanation
Indices: 39018900--39018927 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
39018890 CACGTGTTAA
39018900 GAAAGCTTGCCTAG
1 GAAAGCTTGCCTAG
39018914 GAAAGCTTGCCTAG
1 GAAAGCTTGCCTAG
39018928 CTAGACGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (14 bp):
GAAAGCTTGCCTAG
Found at i:39020660 original size:14 final size:14
Alignment explanation
Indices: 39020641--39020670 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
39020631 TGGATTTGAT
39020641 GTTGGCTCTATAGG
1 GTTGGCTCTATAGG
39020655 GTTGGCTCTATAGG
1 GTTGGCTCTATAGG
39020669 GT
1 GT
39020671 GCCCCTAATT
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:0.13, C:0.13, G:0.37, T:0.37
Consensus pattern (14 bp):
GTTGGCTCTATAGG
Found at i:39024399 original size:3 final size:3
Alignment explanation
Indices: 39024391--39024419 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
39024381 GTTCCTAGAT
39024391 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
39024420 TATTTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:39025156 original size:40 final size:39
Alignment explanation
Indices: 39025104--39025199 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 39
39025094 AAAACATCGG
*
39025104 TAAAAATCGAGCATTAGCGGTGTTTTATGGAAATCGCCAC
1 TAAAAAT-GAGCATTAGCGGTGTTTTATGAAAATCGCCAC
* * * *
39025144 TAAAGATGGAGCATTAGCGGTGTTTTTTGAAAATTGCCGC
1 TAAAAAT-GAGCATTAGCGGTGTTTTATGAAAATCGCCAC
39025184 TAAAAATGAGCATTAG
1 TAAAAATGAGCATTAG
39025200 TGACGTTCCA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 9 0.18
40 40 0.82
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (39 bp):
TAAAAATGAGCATTAGCGGTGTTTTATGAAAATCGCCAC
Found at i:39025702 original size:15 final size:14
Alignment explanation
Indices: 39025682--39025716 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
39025672 AGTATTTTAA
39025682 GGTTTAGGGAGTAT
1 GGTTTAGGGAGTAT
*
39025696 GGATTTAGGGATTAT
1 GG-TTTAGGGAGTAT
39025711 GGTTTA
1 GGTTTA
39025717 ATGGTTGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (14 bp):
GGTTTAGGGAGTAT
Found at i:39025743 original size:15 final size:15
Alignment explanation
Indices: 39025723--39025758 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
39025713 TTTAATGGTT
*
39025723 GGGGTTAGTGGTTTA
1 GGGGTTAGGGGTTTA
39025738 GGGGTTAGGGGTTTA
1 GGGGTTAGGGGTTTA
*
39025753 AGGGTT
1 GGGGTT
39025759 TAGAGGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.00, G:0.50, T:0.36
Consensus pattern (15 bp):
GGGGTTAGGGGTTTA
Found at i:39025743 original size:21 final size:22
Alignment explanation
Indices: 39025700--39025750 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
39025690 GAGTATGGAT
* *
39025700 TTAGGGATTA-TGGTTTAATGG
1 TTAGGGGTTAGTGGTTTAAGGG
*
39025721 TT-GGGGTTAGTGGTTTAGGGG
1 TTAGGGGTTAGTGGTTTAAGGG
39025742 TTAGGGGTT
1 TTAGGGGTT
39025751 TAAGGGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 6 0.24
21 13 0.52
22 6 0.24
ACGTcount: A:0.16, C:0.00, G:0.43, T:0.41
Consensus pattern (22 bp):
TTAGGGGTTAGTGGTTTAAGGG
Found at i:39025789 original size:7 final size:7
Alignment explanation
Indices: 39025727--39025824 Score: 51
Period size: 8 Copynumber: 13.6 Consensus size: 7
39025717 ATGGTTGGGG
39025727 TTAGTGGT
1 TTAG-GGT
*
39025735 TTAGGGG
1 TTAGGGT
39025742 TTAGGGGT
1 TTA-GGGT
39025750 TTAAGGGT
1 TT-AGGGT
39025758 TTAGAGG-
1 TTAG-GGT
** *
39025765 TTAATGA
1 TTAGGGT
39025772 TTAGGGAT
1 TTAGGG-T
39025780 TTAGGGT
1 TTAGGGT
*
39025787 TTAAGGAT
1 TT-AGGGT
39025795 TTATGGG-
1 TTA-GGGT
39025802 TT-GGG-
1 TTAGGGT
39025807 TTAGGGT
1 TTAGGGT
*
39025814 TTTGGGT
1 TTAGGGT
39025821 TTAG
1 TTAG
39025825 ATTAATTATT
Statistics
Matches: 70, Mismatches: 11, Indels: 19
0.70 0.11 0.19
Matches are distributed among these distances:
5 5 0.07
6 4 0.06
7 29 0.41
8 31 0.44
9 1 0.01
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.41
Consensus pattern (7 bp):
TTAGGGT
Found at i:39025790 original size:22 final size:21
Alignment explanation
Indices: 39025753--39025795 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
39025743 TAGGGGTTTA
*
39025753 AGGGTTTAGAGGTTAATGATT
1 AGGGTTTAGAGGTTAAGGATT
39025774 AGGGATTTAG-GGTTTAAGGATT
1 AGGG-TTTAGAGG-TTAAGGATT
39025796 TATGGGTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.37
Consensus pattern (21 bp):
AGGGTTTAGAGGTTAAGGATT
Found at i:39025865 original size:24 final size:24
Alignment explanation
Indices: 39025825--39025883 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
39025815 TTGGGTTTAG
* *
39025825 ATTAATTAT-TTTTTAATTTATAT
1 ATTAAATATATTTTTAATCTATAT
*
39025848 TTTAAATATATTTTTAATCTATAT
1 ATTAAATATATTTTTAATCTATAT
39025872 ATTAAATA-ATTT
1 ATTAAATATATTT
39025884 CACATAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 11 0.35
24 20 0.65
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
ATTAAATATATTTTTAATCTATAT
Found at i:39026084 original size:20 final size:21
Alignment explanation
Indices: 39026059--39026099 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
39026049 TTATGGCTTA
*
39026059 GTGA-TTATGGTTTAAGGGTT
1 GTGATTTAAGGTTTAAGGGTT
*
39026079 GTGATTTAAGGTTTAGGGGTT
1 GTGATTTAAGGTTTAAGGGTT
39026100 AGGAGTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.44
Consensus pattern (21 bp):
GTGATTTAAGGTTTAAGGGTT
Found at i:39026108 original size:21 final size:21
Alignment explanation
Indices: 39026067--39026141 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
39026057 TAGTGATTAT
*
39026067 GGTTTAAGGGTT-GTGATTTAA
1 GGTTTAAGGGTTAG-GAGTTAA
*
39026088 GGTTTAGGGGTTAGGAGTTAA
1 GGTTTAAGGGTTAGGAGTTAA
* * * *
39026109 TGATTAAGGGTTAAGAGTTAG
1 GGTTTAAGGGTTAGGAGTTAA
39026130 GGATTT-AGGGTT
1 GG-TTTAAGGGTT
39026142 TCAAGGGTCG
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
21 40 0.93
22 3 0.07
ACGTcount: A:0.25, C:0.00, G:0.37, T:0.37
Consensus pattern (21 bp):
GGTTTAAGGGTTAGGAGTTAA
Found at i:39026411 original size:9 final size:9
Alignment explanation
Indices: 39026397--39026423 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
39026387 AATCTAAACC
39026397 ATTTGATAT
1 ATTTGATAT
39026406 ATTTGATAT
1 ATTTGATAT
39026415 ATTTGATAT
1 ATTTGATAT
39026424 GGATATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (9 bp):
ATTTGATAT
Found at i:39030152 original size:43 final size:43
Alignment explanation
Indices: 39030087--39030357 Score: 389
Period size: 43 Copynumber: 6.3 Consensus size: 43
39030077 AGTGCATGTT
* *
39030087 TTTAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
39030130 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTGAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
39030173 TTTACCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
39030216 TTTAGCGGCGTTTGTGGGAAAAGTGCTGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * *
39030259 TTTAGCGGCGTTTATGGGAAAAGCGCCGCTAATGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * ** * *
39030302 TTTAGTGGCATTTGTGGGAAAAGCGTTGCTAAATGTCCTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
39030345 TTTAGTGGCGTTT
1 TTTAGCGGCGTTT
39030358 ATTTATAAAA
Statistics
Matches: 205, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 205 1.00
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:39033333 original size:61 final size:59
Alignment explanation
Indices: 39033226--39033341 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 59
39033216 ATCATTTTAA
* * *
39033226 TATTAAATTAATATAATATTTATCAAGATAAAAATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCAAGATAAAAATTAAATTAAATTTAATATTAAATCT
* *
39033285 TATTAAAATAATAGAATATTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATT-TAT-CAAGATAAAAATTAAATTAAATTTAATATTAA
39033342 GATAATCTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
59 18 0.36
60 2 0.04
61 30 0.60
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (59 bp):
TATTAAAATAATAGAATATTTATCAAGATAAAAATTAAATTAAATTTAATATTAAATCT
Found at i:39044588 original size:31 final size:31
Alignment explanation
Indices: 39044548--39044920 Score: 287
Period size: 31 Copynumber: 12.2 Consensus size: 31
39044538 CAACAATATA
* *
39044548 TATATTCATATACGAATCAGA-TTCGGCAATG
1 TATAATCATATACAAATCA-ATTTCGGCAATG
39044579 TATAATCATATACAAATCAATTT-GGCAATG
1 TATAATCATATACAAATCAATTTCGGCAATG
* * ** * *
39044609 GATAACCATATATGAATCAAGTTCGGAAATG
1 TATAATCATATACAAATCAATTTCGGCAATG
* *
39044640 TATAATCATATACAAATTAA-TTCAGCAACT-
1 TATAATCATATACAAATCAATTTCGGCAA-TG
* * ** *
39044670 TAT-ATCCACATACAATTCAATTTCAACAATT
1 TATAAT-CATATACAAATCAATTTCGGCAATG
* * * * *
39044701 TATAACCATTTACAAATTAATTTCAGCAAAG
1 TATAATCATATACAAATCAATTTCGGCAATG
39044732 TATAATCATATACAAATCAA-TTCGGCAACT-
1 TATAATCATATACAAATCAATTTCGGCAA-TG
** *
39044762 TATTTTCATATACAAATCAATTTCGACAATG
1 TATAATCATATACAAATCAATTTCGGCAATG
* * *
39044793 TATAACCATATACAAATAAATTTCAGCAATG
1 TATAATCATATACAAATCAATTTCGGCAATG
* * *
39044824 TATAATTATATACGAATCAA-TTCGACAACT-
1 TATAATCATATACAAATCAATTTCGGCAA-TG
** * * **
39044854 TATCTTCATAAATAAATCAATTTCGATAATG
1 TATAATCATATACAAATCAATTTCGGCAATG
* * **
39044885 TATAACCATATACAAATAAATTTCAACAATG
1 TATAATCATATACAAATCAATTTCGGCAATG
39044916 TATAA
1 TATAA
39044921 AACAATCAAA
Statistics
Matches: 267, Mismatches: 62, Indels: 26
0.75 0.17 0.07
Matches are distributed among these distances:
29 2 0.01
30 94 0.35
31 170 0.64
32 1 0.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.33
Consensus pattern (31 bp):
TATAATCATATACAAATCAATTTCGGCAATG
Found at i:39044626 original size:61 final size:62
Alignment explanation
Indices: 39044528--39044920 Score: 295
Period size: 61 Copynumber: 6.4 Consensus size: 62
39044518 CCTTTATCAT
* * * *
39044528 CAAATCAA-TTCAACAATATATATATTCATATACGAATCAGA-TTCGGCAATGTATAATCATATA
1 CAAATCAATTTCAGCAATGTATA-A-CCATATACAAATCA-ATTTCGGCAATGTATAATCATATA
* * ** * *
39044591 CAAATCAATTT-GGCAATGGATAACCATATATGAATCAAGTTCGGAAATGTATAATCATATA
1 CAAATCAATTTCAGCAATGTATAACCATATACAAATCAATTTCGGCAATGTATAATCATATA
* * * * ** * * *
39044652 CAAATTAA-TTCAGCAACT-TATATCCACATACAATTCAATTTCAACAATTTATAACCATTTA
1 CAAATCAATTTCAGCAA-TGTATAACCATATACAAATCAATTTCGGCAATGTATAATCATATA
* * * **
39044713 CAAATTAATTTCAGCAAAGTATAATCATATACAAATCAA-TTCGGCAACT-TATTTTCATATA
1 CAAATCAATTTCAGCAATGTATAACCATATACAAATCAATTTCGGCAA-TGTATAATCATATA
* * *
39044774 CAAATCAATTTC-GACAATGTATAACCATATACAAATAAATTTCAGCAATGTATAATTATATA
1 CAAATCAATTTCAG-CAATGTATAACCATATACAAATCAATTTCGGCAATGTATAATCATATA
* *** * * ** *
39044836 CGAATCAA-TTC-GACAACT-TATCTTCATAAATAAATCAATTTCGATAATGTATAACCATATA
1 CAAATCAATTTCAG-CAA-TGTATAACCATATACAAATCAATTTCGGCAATGTATAATCATATA
* *
39044897 CAAATAAATTTCAACAATGTATAA
1 CAAATCAATTTCAGCAATGTATAA
39044921 AACAATCAAA
Statistics
Matches: 258, Mismatches: 58, Indels: 29
0.75 0.17 0.08
Matches are distributed among these distances:
60 4 0.02
61 177 0.69
62 60 0.23
63 15 0.06
64 2 0.01
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.32
Consensus pattern (62 bp):
CAAATCAATTTCAGCAATGTATAACCATATACAAATCAATTTCGGCAATGTATAATCATATA
Found at i:39044909 original size:92 final size:92
Alignment explanation
Indices: 39044548--39044920 Score: 428
Period size: 92 Copynumber: 4.1 Consensus size: 92
39044538 CAACAATATA
* * * * * *
39044548 TATATTCATATACGAATCAGATTCGGCAA-TGTATAATCATATACAAATCAATTT-GGCAATGGA
1 TATAATCATATACAAATCA-ATTCGACAACT-TATATTCATATACAAATCAATTTCGACAATGTA
** * * * *
39044611 TAACCATATATGAATCAAGTTCGGAAATG
64 TAACCATATACAAATAAATTTCAGCAATG
* * * * * *
39044640 TATAATCATATACAAATTAATTC-AGCAACTTATATCCACATACAATTCAATTTCAACAATTTAT
1 TATAATCATATACAAATCAATTCGA-CAACTTATATTCATATACAAATCAATTTCGACAATGTAT
* * *
39044704 AACCATTTACAAATTAATTTCAGCAAAG
65 AACCATATACAAATAAATTTCAGCAATG
* *
39044732 TATAATCATATACAAATCAATTCGGCAACTTATTTTCATATACAAATCAATTTCGACAATGTATA
1 TATAATCATATACAAATCAATTCGACAACTTATATTCATATACAAATCAATTTCGACAATGTATA
39044797 ACCATATACAAATAAATTTCAGCAATG
66 ACCATATACAAATAAATTTCAGCAATG
* * * * * *
39044824 TATAATTATATACGAATCAATTCGACAACTTATCTTCATAAATAAATCAATTTCGATAATGTATA
1 TATAATCATATACAAATCAATTCGACAACTTATATTCATATACAAATCAATTTCGACAATGTATA
*
39044889 ACCATATACAAATAAATTTCAACAATG
66 ACCATATACAAATAAATTTCAGCAATG
39044916 TATAA
1 TATAA
39044921 AACAATCAAA
Statistics
Matches: 238, Mismatches: 39, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
91 26 0.11
92 212 0.89
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.33
Consensus pattern (92 bp):
TATAATCATATACAAATCAATTCGACAACTTATATTCATATACAAATCAATTTCGACAATGTATA
ACCATATACAAATAAATTTCAGCAATG
Found at i:39058445 original size:21 final size:21
Alignment explanation
Indices: 39058421--39058464 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
39058411 GTCGTGTTGA
39058421 TATATAAAATCGGTTCTTTTC
1 TATATAAAATCGGTTCTTTTC
*
39058442 TATATAACATCGGTTCTTTTC
1 TATATAAAATCGGTTCTTTTC
39058463 TA
1 TA
39058465 GTTCATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.48
Consensus pattern (21 bp):
TATATAAAATCGGTTCTTTTC
Found at i:39063357 original size:26 final size:26
Alignment explanation
Indices: 39063324--39063379 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
39063314 TTTTTACATG
39063324 ATAA-AATTAGGGTTAAATTTCAGTT
1 ATAATAATTAGGGTTAAATTTCAGTT
39063349 ATAATAATTAGGGTTAAATTTCAGTT
1 ATAATAATTAGGGTTAAATTTCAGTT
39063375 ATAAT
1 ATAAT
39063380 CCCTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.13
26 26 0.87
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (26 bp):
ATAATAATTAGGGTTAAATTTCAGTT
Found at i:39076843 original size:18 final size:19
Alignment explanation
Indices: 39076820--39076860 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
39076810 TTTGAGAAAC
* *
39076820 TTTTG-AATTTGTATATGT
1 TTTTGAAATTTATATATAT
39076838 TTTTGAAATTTATATATAT
1 TTTTGAAATTTATATATAT
39076857 TTTT
1 TTTT
39076861 TATTTAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (19 bp):
TTTTGAAATTTATATATAT
Found at i:39079344 original size:7 final size:7
Alignment explanation
Indices: 39079332--39079360 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
39079322 ATTATTTTTA
39079332 AAAAAAT
1 AAAAAAT
39079339 AAAAAAT
1 AAAAAAT
39079346 -AAAAAT
1 AAAAAAT
39079352 AAAAAAT
1 AAAAAAT
39079359 AA
1 AA
39079361 TATTAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:39079369 original size:13 final size:13
Alignment explanation
Indices: 39079333--39079360 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
39079323 TTATTTTTAA
39079333 AAAAATAAAAAAT
1 AAAAATAAAAAAT
39079346 AAAAATAAAAAAT
1 AAAAATAAAAAAT
39079359 AA
1 AA
39079361 TATTAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:39081296 original size:14 final size:14
Alignment explanation
Indices: 39081258--39081299 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
39081248 TTTTGGTATT
*
39081258 TTTTA-TTATTTGT
1 TTTTATTTATTTGG
39081271 TTTTATTTTATTTGG
1 TTTTA-TTTATTTGG
39081286 TTTTATTTATTTGG
1 TTTTATTTATTTGG
39081300 GCTCTAGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 5 0.19
14 9 0.35
15 12 0.46
ACGTcount: A:0.14, C:0.00, G:0.12, T:0.74
Consensus pattern (14 bp):
TTTTATTTATTTGG
Found at i:39082434 original size:360 final size:357
Alignment explanation
Indices: 39081771--39082496 Score: 1220
Period size: 360 Copynumber: 2.0 Consensus size: 357
39081761 TTTTTCCACC
* * *
39081771 AAAAAACCACCATTTCCCTCCACTTTCACCAAATCACCACCACGACATCACCAAAACTTCCCTTT
1 AAAACACCACCATTTCCCGCCACTTTCACCAAATCACCACCACGACATCACCAAAACTTCCCTCT
39081836 CTTCCACACCTCACCATCATCGCACCACCGTCGTGCCGCCATCATAGCACTGCACCACCACCGCC
66 CTTCCACACCTCACCATCATCGCACCACCGTCGTGCCGCCATCATAGCACTGCACCACCACCGCC
* * * *
39081901 GTTAGTTACTATTTTCACCGATTTTCATTTTATTTTCATTTCTTTAGTCATAATTGAATTACTAA
131 GTTAGTCACCATTTTCACCGATTTTCATTTTATCTTCATTTCTTTAGTCATAATTGAACTACTAA
**
39081966 TCCTCCTCTCCTAATTTCATAGATTATTTCTATGTTCTAATATATTATTTTATTTTATTTGGATG
196 TCCTCCTCTCCTAATTTCATAGACCATTTCTATGTTCTAATATATTATTTTATTTTATTTGGATG
*
39082031 ATGAACTTCTCCTTAGATAAATCTCCTCCATCAAACAATTATTCTAGCTATTGCTGATCTCTCCA
261 ATGAACTTCTCCTTAGATAAATCTCCTCAATCAAACAATTATTCTAGCTATTGCTGATCTCTCCA
39082096 ACTTAATATTAGTAACATAAGTATCTATAGGG
326 ACTTAATATTAGTAACATAAGTATCTATAGGG
* *
39082128 AAAACACCACCATTTCCCGCCATTTTTACCAAATCACCACCACGACATCACCAAAACTTCCCTCT
1 AAAACACCACCATTTCCCGCCACTTTCACCAAATCACCACCACGACATCACCAAAACTTCCCTCT
* * *
39082193 CTTCCACACCTCACCATCGTTGCACCACCGTCGTGCCGCCATCGTAGCACTGCACCACCACCACC
66 CTTCCACACCTCACCATCATCGCACCACCGTCGTGCCGCCATCATAGCACTG---CACCACCACC
*
39082258 GCCGTTAGTCACCATTTTCACCGATTTTCATTTTCTCTTCATTTCTTTAGTCATAATTGAACTAC
128 GCCGTTAGTCACCATTTTCACCGATTTTCATTTTATCTTCATTTCTTTAGTCATAATTGAACTAC
* * * *
39082323 TAATCCTTCTCTCCTAATTTCATAGACCATTTTTATGTTCTAATCTATTATTTTCTTTTATTTGG
193 TAATCCTCCTCTCCTAATTTCATAGACCATTTCTATGTTCTAATATATTATTTTATTTTATTTGG
* *
39082388 ATGATGAACTTCTCCTTAGATAAATCTCCTCAATCGAACAATTATTCTAGCTATTGTTGATCTCT
258 ATGATGAACTTCTCCTTAGATAAATCTCCTCAATCAAACAATTATTCTAGCTATTGCTGATCTCT
39082453 CCAACTTAATATTAGTAACATAAGTATCTATAGGG
323 CCAACTTAATATTAGTAACATAAGTATCTATAGGG
39082488 AAAAC-CCAC
1 AAAACACCAC
39082497 ATCAATTTCT
Statistics
Matches: 344, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
357 109 0.32
359 4 0.01
360 231 0.67
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.35
Consensus pattern (357 bp):
AAAACACCACCATTTCCCGCCACTTTCACCAAATCACCACCACGACATCACCAAAACTTCCCTCT
CTTCCACACCTCACCATCATCGCACCACCGTCGTGCCGCCATCATAGCACTGCACCACCACCGCC
GTTAGTCACCATTTTCACCGATTTTCATTTTATCTTCATTTCTTTAGTCATAATTGAACTACTAA
TCCTCCTCTCCTAATTTCATAGACCATTTCTATGTTCTAATATATTATTTTATTTTATTTGGATG
ATGAACTTCTCCTTAGATAAATCTCCTCAATCAAACAATTATTCTAGCTATTGCTGATCTCTCCA
ACTTAATATTAGTAACATAAGTATCTATAGGG
Found at i:39083642 original size:13 final size:13
Alignment explanation
Indices: 39083624--39083649 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39083614 CGAAATCTTA
39083624 ATTATAATAATTT
1 ATTATAATAATTT
39083637 ATTATAATAATTT
1 ATTATAATAATTT
39083650 CGATAAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:39084932 original size:63 final size:63
Alignment explanation
Indices: 39084833--39084982 Score: 183
Period size: 63 Copynumber: 2.4 Consensus size: 63
39084823 AGTTTTACTA
* * *
39084833 CAATATTGAATGGCTTGGCCACAACATCATTAAGTGGCTTGTCCACAATGTGCAGTTTGTCAG
1 CAATATTGAGTGGCTTGGCCACAACATCATTAAGTGGCTTGACCACAATGTGCAGCTTGTCAG
* * * * * * * * * *
39084896 CGATATTGAGCGGCTTGGGCACAACGTTATTGAGTGGTTTGACCATAATGTGTAGCTTGTCTG
1 CAATATTGAGTGGCTTGGCCACAACATCATTAAGTGGCTTGACCACAATGTGCAGCTTGTCAG
39084959 CAATATTGAGTGGCTTGGCCACAA
1 CAATATTGAGTGGCTTGGCCACAA
39084983 TGTGGAGTGT
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 71 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (63 bp):
CAATATTGAGTGGCTTGGCCACAACATCATTAAGTGGCTTGACCACAATGTGCAGCTTGTCAG
Found at i:39087913 original size:37 final size:36
Alignment explanation
Indices: 39087793--39087928 Score: 110
Period size: 37 Copynumber: 3.6 Consensus size: 36
39087783 CAATGTTTAT
* **
39087793 TGATTATACTGAAAGTTGCTCAAACGAGTGATATTCAC
1 TGATTATACTGAAAGTT-CTCAAAAGAGAAATATT-AC
* ** * *
39087831 TGATTATACTGAATGGGCTCAAATGAGAAATATCTAA
1 TGATTATACTGAAAGTTCTCAAAAGAGAAATAT-TAC
* * *
39087868 TGAATATACTGAACGTTCTCAAAAGAGAAATGTATAC
1 TGATTATACTGAAAGTTCTCAAAAGAGAAATAT-TAC
* *
39087905 TGATTATACTAAAAATTGCTCAAA
1 TGATTATACTGAAAGTT-CTCAAA
39087929 CAAACGATAT
Statistics
Matches: 77, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
37 56 0.73
38 21 0.27
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (36 bp):
TGATTATACTGAAAGTTCTCAAAAGAGAAATATTAC
Found at i:39087988 original size:112 final size:112
Alignment explanation
Indices: 39087747--39087978 Score: 284
Period size: 112 Copynumber: 2.1 Consensus size: 112
39087737 ACAAGCGAGC
* * * * * * * * * * *
39087747 AATATCTATTGAATCTACTAAACGTGCTTAAAATAGCAATGTTTATTGATTATACTGAAAGTTGC
1 AATATCTAATGAATATACTGAACGTTCTCAAAAGAGAAATGTATACTGATTATACTAAAAATTGC
* ** * * *
39087812 TCAAACGAGTGATATTCACTGATTATACTGAATGGGCTCAAATGAGA
66 TCAAACAAACGATATCCACTGATTATACTAAATGGACTCAAATGAGA
39087859 AATATCTAATGAATATACTGAACGTTCTCAAAAGAGAAATGTATACTGATTATACTAAAAATTGC
1 AATATCTAATGAATATACTGAACGTTCTCAAAAGAGAAATGTATACTGATTATACTAAAAATTGC
* *
39087924 TCAAACAAACGATATCCACTGATTATATTAAATGGACTCAAATGAGT
66 TCAAACAAACGATATCCACTGATTATACTAAATGGACTCAAATGAGA
*
39087971 GATATCTA
1 AATATCTA
39087979 CTAATTATAC
Statistics
Matches: 100, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
112 100 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (112 bp):
AATATCTAATGAATATACTGAACGTTCTCAAAAGAGAAATGTATACTGATTATACTAAAAATTGC
TCAAACAAACGATATCCACTGATTATACTAAATGGACTCAAATGAGA
Found at i:39093310 original size:11 final size:11
Alignment explanation
Indices: 39093246--39093311 Score: 52
Period size: 10 Copynumber: 6.2 Consensus size: 11
39093236 AAAAATAAAT
39093246 AAATTATA-AA
1 AAATTATATAA
39093256 AAATTGA-A-AA
1 AAATT-ATATAA
*
39093266 AAACTTATTTAA
1 AAA-TTATATAA
*
39093278 AAACTA-ATAGA
1 AAATTATATA-A
39093289 AAATTAT-TAA
1 AAATTATATAA
39093299 AAATTATATAA
1 AAATTATATAA
39093310 AA
1 AA
39093312 TTTTAAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
10 22 0.49
11 18 0.40
12 5 0.11
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (11 bp):
AAATTATATAA
Found at i:39096691 original size:4 final size:4
Alignment explanation
Indices: 39096682--39096708 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
39096672 CTTTTCTTTT
39096682 CTCA CTCA CTCA CTCA CTCA CTCA CTC
1 CTCA CTCA CTCA CTCA CTCA CTCA CTC
39096709 TTTCTTTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.52, G:0.00, T:0.26
Consensus pattern (4 bp):
CTCA
Found at i:39098916 original size:50 final size:54
Alignment explanation
Indices: 39098862--39098991 Score: 151
Period size: 50 Copynumber: 2.4 Consensus size: 54
39098852 CGGTGGCCAT
** * *
39098862 GCCATGTCCCAGACATGGTCTTGTGGGGGACCTCTC-T-TCTC-GT-TTCCAAC
1 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATATCTCAATATGCCAAC
* * *
39098912 GCCATGTCCTAGACATGGTCTTACGTGGGACCTCTCATAATCTCAATAATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCAT-ATCTCAAT-ATGCCAAC
39098968 GCCATGTCCCAGACATGGTCTTAC
1 GCCATGTCCCAGACATGGTCTTAC
39098992 ATGGGATCTC
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
50 32 0.48
51 1 0.02
53 4 0.06
54 1 0.02
56 28 0.42
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (54 bp):
GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATATCTCAATATGCCAAC
Found at i:39108260 original size:15 final size:16
Alignment explanation
Indices: 39108240--39108280 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
39108230 TTGTAAATCG
39108240 TCTTTTCTTTCC-CTT
1 TCTTTTCTTTCCTCTT
*
39108255 TCTTTTTCTCTCCTCTT
1 TC-TTTTCTTTCCTCTT
39108272 T-TTTTCTTT
1 TCTTTTCTTT
39108281 TTCTTCTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 9 0.41
17 4 0.18
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TCTTTTCTTTCCTCTT
Found at i:39113970 original size:50 final size:50
Alignment explanation
Indices: 39113891--39113988 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 50
39113881 AGGCTTAATT
*
39113891 AGATGCAAACTAAATAAACAAATGAGTTACATAATGCATGACATAATTTA
1 AGATGCAAACTAAATAAACAAAGGAGTTACATAATGCATGACATAATTTA
* * * *
39113941 AGATGCAAACTTAATTAACATAGGTGTTACATAATGCATGACATAATT
1 AGATGCAAACTAAATAAACAAAGGAGTTACATAATGCATGACATAATT
39113989 AAAACACAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (50 bp):
AGATGCAAACTAAATAAACAAAGGAGTTACATAATGCATGACATAATTTA
Found at i:39114125 original size:19 final size:20
Alignment explanation
Indices: 39114088--39114125 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
39114078 CAGATAAATA
* *
39114088 ATGCAAGACATTAATTAAAG
1 ATGCAAGACATAAACTAAAG
39114108 ATGCAA-ACATAAACTAAA
1 ATGCAAGACATAAACTAAA
39114126 CTAAAACTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.55, C:0.13, G:0.11, T:0.21
Consensus pattern (20 bp):
ATGCAAGACATAAACTAAAG
Found at i:39122354 original size:30 final size:30
Alignment explanation
Indices: 39122318--39122379 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
39122308 TGAATTATTT
*
39122318 TTAAAAATTTAAT-TGCTCTTTTTGTAATTA
1 TTAAAAATTTAATGT-CTCTTTTTGTAAATA
*
39122348 TTAAAAATTTGATGTCTCTTTTTGTAAATA
1 TTAAAAATTTAATGTCTCTTTTTGTAAATA
39122378 TT
1 TT
39122380 TTCAAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.53
Consensus pattern (30 bp):
TTAAAAATTTAATGTCTCTTTTTGTAAATA
Found at i:39127246 original size:13 final size:13
Alignment explanation
Indices: 39127211--39127246 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
39127201 ATGCAAACGT
*
39127211 CAAAATTTCCTAA
1 CAAAATTTCTTAA
39127224 CAAAATTTCTTAA
1 CAAAATTTCTTAA
39127237 CAAAATTTCT
1 CAAAATTTCT
39127247 ATACGACCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.36
Consensus pattern (13 bp):
CAAAATTTCTTAA
Found at i:39131472 original size:11 final size:11
Alignment explanation
Indices: 39131456--39131480 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
39131446 CGTCAAAAAA
39131456 ATTATTTTAAT
1 ATTATTTTAAT
39131467 ATTATTTTAAT
1 ATTATTTTAAT
39131478 ATT
1 ATT
39131481 TACAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATTTTAAT
Found at i:39140537 original size:15 final size:14
Alignment explanation
Indices: 39140503--39140533 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
39140493 TAGATTTTGT
39140503 TGATTTTTGAGTCA
1 TGATTTTTGAGTCA
39140517 TGATTTTTGAGTCA
1 TGATTTTTGAGTCA
39140531 TGA
1 TGA
39140534 ATTTAGCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (14 bp):
TGATTTTTGAGTCA
Found at i:39150444 original size:236 final size:236
Alignment explanation
Indices: 39150031--39150504 Score: 939
Period size: 236 Copynumber: 2.0 Consensus size: 236
39150021 GATTAAAATT
39150031 AAAATTTATTATATTATGAATTAATACACATAATTTGGACTGTCTTAGGCTGAAAAATTAATTCA
1 AAAATTTATTATATTATGAATTAATACACATAATTTGGACTGTCTTAGGCTGAAAAATTAATTCA
*
39150096 CCTTGGTGTTTCAAAATTGCTTCTCGGTTTTGCGCTTCTACCAGTGTCGGCGGAGCTGTTTTTTG
66 CCTTGGTGCTTCAAAATTGCTTCTCGGTTTTGCGCTTCTACCAGTGTCGGCGGAGCTGTTTTTTG
39150161 CCCTCTGTGCAAATCTGTCGAAAATAATCAAAATTAATTAAAATTGAACATGTTTATAATTTGAG
131 CCCTCTGTGCAAATCTGTCGAAAATAATCAAAATTAATTAAAATTGAACATGTTTATAATTTGAG
39150226 TGCAATATAATTATTTTATAATTATTATATATTTTTCGAAA
196 TGCAATATAATTATTTTATAATTATTATATATTTTTCGAAA
39150267 AAAATTTATTATATTATGAATTAATACACATAATTTGGACTGTCTTAGGCTGAAAAATTAATTCA
1 AAAATTTATTATATTATGAATTAATACACATAATTTGGACTGTCTTAGGCTGAAAAATTAATTCA
39150332 CCTTGGTGCTTCAAAATTGCTTCTCGGTTTTGCGCTTCTACCAGTGTCGGCGGAGCTGTTTTTTG
66 CCTTGGTGCTTCAAAATTGCTTCTCGGTTTTGCGCTTCTACCAGTGTCGGCGGAGCTGTTTTTTG
39150397 CCCTCTGTGCAAATCTGTCGAAAATAATCAAAATTAATTAAAATTGAACATGTTTATAATTTGAG
131 CCCTCTGTGCAAATCTGTCGAAAATAATCAAAATTAATTAAAATTGAACATGTTTATAATTTGAG
39150462 TGCAATATAATTATTTTATAATTATTATATATTTTTCGAAA
196 TGCAATATAATTATTTTATAATTATTATATATTTTTCGAAA
39150503 AA
1 AA
39150505 TTTTTTATCG
Statistics
Matches: 237, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
236 237 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.40
Consensus pattern (236 bp):
AAAATTTATTATATTATGAATTAATACACATAATTTGGACTGTCTTAGGCTGAAAAATTAATTCA
CCTTGGTGCTTCAAAATTGCTTCTCGGTTTTGCGCTTCTACCAGTGTCGGCGGAGCTGTTTTTTG
CCCTCTGTGCAAATCTGTCGAAAATAATCAAAATTAATTAAAATTGAACATGTTTATAATTTGAG
TGCAATATAATTATTTTATAATTATTATATATTTTTCGAAA
Found at i:39157883 original size:39 final size:38
Alignment explanation
Indices: 39157829--39158051 Score: 250
Period size: 39 Copynumber: 5.7 Consensus size: 38
39157819 TAGAAAACTG
* *
39157829 TTGTACTTCGGTACCCCTGAAT-TCACTTACGTGAACCTA
1 TTGTACTTCGGTACCCCTG-ATCGCACTTACGTG-CCCTA
* *
39157868 TTGTACTTCGGTACCCCTGATCGCACTTACATGCCCCA
1 TTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCTA
* * *
39157906 GTTGTACTTCGATACCCCTGATCGCACTTAAGTGCCCTTG
1 -TTGTACTTCGGTACCCCTGATCGCACTTACGTGCCC-TA
* * *
39157946 TTGTACTTCAGTACCTCTGATCACACTTACGTGCCCCTA
1 TTGTACTTCGGTACCCCTGATCGCACTTACGTG-CCCTA
* *
39157985 TTGTACTTCAGTACCCCTGATCGCACTTACGTGCCCCTG
1 TTGTACTTCGGTACCCCTGATCGCACTTACGTG-CCCTA
* * *
39158024 TTGTACTTCGCTACCCTTGATTGCACTT
1 TTGTACTTCGGTACCCCTGATCGCACTT
39158052 TCATTTCGTG
Statistics
Matches: 158, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
38 5 0.03
39 150 0.95
40 3 0.02
ACGTcount: A:0.18, C:0.32, G:0.16, T:0.33
Consensus pattern (38 bp):
TTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCTA
Found at i:39157904 original size:20 final size:20
Alignment explanation
Indices: 39157881--39158023 Score: 66
Period size: 20 Copynumber: 7.3 Consensus size: 20
39157871 TACTTCGGTA
39157881 CCCCTGATCGCACTTACATG
1 CCCCTGATCGCACTTACATG
* * * *
39157901 CCCCAG-TTGTACTT-CGATA
1 CCCCTGATCGCACTTAC-ATG
39157920 CCCCTGATCGCACTTA-AGTG
1 CCCCTGATCGCACTTACA-TG
* * * *
39157940 CCCTTG-TTGTACTT-CAGTA
1 CCCCTGATCGCACTTACA-TG
* * *
39157959 CCTCTGATCACACTTACGTG
1 CCCCTGATCGCACTTACATG
* * *
39157979 CCCCT-ATTGTACTT-CAGTA
1 CCCCTGATCGCACTTACA-TG
*
39157998 CCCCTGATCGCACTTACGTG
1 CCCCTGATCGCACTTACATG
39158018 CCCCTG
1 CCCCTG
39158024 TTGTACTTCG
Statistics
Matches: 84, Mismatches: 29, Indels: 20
0.63 0.22 0.15
Matches are distributed among these distances:
18 2 0.02
19 39 0.46
20 41 0.49
21 2 0.02
ACGTcount: A:0.18, C:0.36, G:0.16, T:0.30
Consensus pattern (20 bp):
CCCCTGATCGCACTTACATG
Found at i:39158001 original size:19 final size:19
Alignment explanation
Indices: 39157864--39158002 Score: 52
Period size: 19 Copynumber: 7.2 Consensus size: 19
39157854 CTTACGTGAA
*
39157864 CCTATTGTACTTCGGTACC
1 CCTATTGTACTTCAGTACC
* * *
39157883 CCTGATCGCACTTACA-TGCC
1 CCT-ATTGTACTT-CAGTACC
39157903 CC-AGTTGTACTTC-GATACC
1 CCTA-TTGTACTTCAG-TACC
* * * *
39157922 CCTGATCGCACTTAAGTGCC
1 CCT-ATTGTACTTCAGTACC
* *
39157942 CTTGTTGTACTTCAGTACC
1 CCTATTGTACTTCAGTACC
* *** *
39157961 TCTGATCACACTT-ACGTGCC
1 CCT-ATTGTACTTCA-GTACC
39157981 CCTATTGTACTTCAGTACC
1 CCTATTGTACTTCAGTACC
39158000 CCT
1 CCT
39158003 GATCGCACTT
Statistics
Matches: 80, Mismatches: 29, Indels: 22
0.61 0.22 0.17
Matches are distributed among these distances:
18 2 0.03
19 40 0.50
20 35 0.44
21 3 0.04
ACGTcount: A:0.19, C:0.34, G:0.15, T:0.32
Consensus pattern (19 bp):
CCTATTGTACTTCAGTACC
Found at i:39158033 original size:117 final size:117
Alignment explanation
Indices: 39157827--39158051 Score: 335
Period size: 117 Copynumber: 1.9 Consensus size: 117
39157817 AGTAGAAAAC
* * *
39157827 TGTTGTACTTCGGTACCCCTGAATTCACTTACGTGAACCTATTGTACTTCGGTACCCCTGATCGC
1 TGTTGTACTTCAGTACCCCTGAATACACTTACGTGAACCTATTGTACTTCAGTACCCCTGATCGC
39157892 ACTTACATGCCCCAGTTGTACTTCGATACCCCTGATCGCACTTAAGTGCCCT
66 ACTTACATGCCCCAGTTGTACTTCGATACCCCTGATCGCACTTAAGTGCCCT
* **
39157944 TGTTGTACTTCAGTACCTCTG-ATCACACTTACGTGCCCCTATTGTACTTCAGTACCCCTGATCG
1 TGTTGTACTTCAGTACCCCTGAAT-ACACTTACGTGAACCTATTGTACTTCAGTACCCCTGATCG
* * * * *
39158008 CACTTACGTGCCCCTGTTGTACTTCGCTACCCTTGATTGCACTT
65 CACTTACATGCCCCAGTTGTACTTCGATACCCCTGATCGCACTT
39158052 TCATTTCGTG
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
116 2 0.02
117 94 0.98
ACGTcount: A:0.18, C:0.32, G:0.16, T:0.33
Consensus pattern (117 bp):
TGTTGTACTTCAGTACCCCTGAATACACTTACGTGAACCTATTGTACTTCAGTACCCCTGATCGC
ACTTACATGCCCCAGTTGTACTTCGATACCCCTGATCGCACTTAAGTGCCCT
Found at i:39162513 original size:70 final size:70
Alignment explanation
Indices: 39162426--39162638 Score: 248
Period size: 70 Copynumber: 3.0 Consensus size: 70
39162416 AGATCATTGG
* * * * *
39162426 TGTGCCTAGCACTAGTCGAATGATTTGACAAATTATTACGCCTAGCGCTAGTAGGATAACCGACG
1 TGTGCCCATCACTAGTCGAATGAGTTGACAAATTATTACGCCCAGCGCTAGTAGGATAACTGACG
*
39162491 ATACT
66 ATAGT
* * *
39162496 TGTGCCCATCACTAGTCGAATGAGTTGACAAATTATTACGCCCAGTGCTACTCA-GATAACTGGC
1 TGTGCCCATCACTAGTCGAATGAGTTGACAAATTATTACGCCCAGCGCTAGT-AGGATAACTGAC
*
39162560 AATAGT
65 GATAGT
* * * ** * * *
39162566 TATGTCCATCACTAGTCAAACAAGTTAACAAATTATTGCGCCCAGCGCTAGTCGGATAACTGACG
1 TGTGCCCATCACTAGTCGAATGAGTTGACAAATTATTACGCCCAGCGCTAGTAGGATAACTGACG
39162631 ATAGT
66 ATAGT
39162636 TGT
1 TGT
39162639 CATCCGCAAT
Statistics
Matches: 118, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
70 117 0.99
71 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (70 bp):
TGTGCCCATCACTAGTCGAATGAGTTGACAAATTATTACGCCCAGCGCTAGTAGGATAACTGACG
ATAGT
Found at i:39169930 original size:42 final size:43
Alignment explanation
Indices: 39169882--39169973 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 43
39169872 AATATTATTA
**
39169882 TTTAATATTTACGCTTCAATTATAATATTATATTGAATTTTAG
1 TTTAATATTTACGAGTCAATTATAATATTATATTGAATTTTAG
* *
39169925 -TTAATATTTATGAGTCAATTATAATATTATATTGAATTTTTG
1 TTTAATATTTACGAGTCAATTATAATATTATATTGAATTTTAG
39169967 TTTAATA
1 TTTAATA
39169974 ATTTTTGCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 38 0.86
43 6 0.14
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.52
Consensus pattern (43 bp):
TTTAATATTTACGAGTCAATTATAATATTATATTGAATTTTAG
Found at i:39175617 original size:16 final size:17
Alignment explanation
Indices: 39175580--39175629 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 17
39175570 CCTCACACTC
*
39175580 TCTTTTCTCAATTTCTT
1 TCTTCTCTCAATTTCTT
*
39175597 T-TTCTCTC-ATTTTTT
1 TCTTCTCTCAATTTCTT
* *
39175612 TCTTCTTTCAGTTTCTT
1 TCTTCTCTCAATTTCTT
39175629 T
1 T
39175630 TATTTTTCTC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
15 7 0.27
16 12 0.46
17 7 0.27
ACGTcount: A:0.08, C:0.22, G:0.02, T:0.68
Consensus pattern (17 bp):
TCTTCTCTCAATTTCTT
Found at i:39175638 original size:21 final size:21
Alignment explanation
Indices: 39175606--39175648 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
39175596 TTTTCTCTCA
*
39175606 TTTTTTTCTTCTTTCAGTTTC
1 TTTTTTTCTTCTCTCAGTTTC
*
39175627 TTTTATTT-TTCTCTCATTTTC
1 TTTT-TTTCTTCTCTCAGTTTC
39175648 T
1 T
39175649 CTCATTATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.07, C:0.19, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTTTTCTTCTCTCAGTTTC
Found at i:39186311 original size:22 final size:22
Alignment explanation
Indices: 39186283--39186330 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
39186273 CCACTACCAA
*
39186283 ACCATCATACCACTACCTTAGC
1 ACCATCATACCACAACCTTAGC
* *
39186305 ACCATCATACTACAACCTTTGC
1 ACCATCATACCACAACCTTAGC
39186327 ACCA
1 ACCA
39186331 CCTTGAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.40, G:0.04, T:0.23
Consensus pattern (22 bp):
ACCATCATACCACAACCTTAGC
Found at i:39186676 original size:18 final size:19
Alignment explanation
Indices: 39186653--39186688 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
39186643 TCCTCCAATG
39186653 ATTAGATTCTCAA-AATCC
1 ATTAGATTCTCAACAATCC
*
39186671 ATTAGATTGTCAACAATC
1 ATTAGATTCTCAACAATC
39186689 ATAGCAGCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (19 bp):
ATTAGATTCTCAACAATCC
Found at i:39188941 original size:29 final size:28
Alignment explanation
Indices: 39188857--39189023 Score: 104
Period size: 29 Copynumber: 5.7 Consensus size: 28
39188847 TGTTATGTCT
* *
39188857 CTTTTCATATTCGATGGTCGAAACCATCA
1 CTTTTCATATT-GATGGTCGTAACCATCC
* * * *
39188886 CTTTCCATTAATCGATTGTCGTCACCATCC
1 CTTTTCA-T-ATTGATGGTCGTAACCATCC
*
39188916 CTTTTCATAGTTGATGGTCGTTACCATCC
1 CTTTTCATA-TTGATGGTCGTAACCATCC
* * * *
39188945 CTTTTCGCA-ATAGATAGCCG-AAGCTATCC
1 CTTTT--CATATTGATGGTCGTAA-CCATCC
* * *
39188974 CGTTTCATATTCGATGGTCATCACCATCC
1 CTTTTCATATT-GATGGTCGTAACCATCC
*
39189003 CTTTTCACAGTTGATGGTCGT
1 CTTTTCATA-TTGATGGTCGT
39189024 CACCCTCTAT
Statistics
Matches: 103, Mismatches: 25, Indels: 20
0.70 0.17 0.14
Matches are distributed among these distances:
27 2 0.02
28 4 0.04
29 69 0.67
30 24 0.23
31 4 0.04
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.36
Consensus pattern (28 bp):
CTTTTCATATTGATGGTCGTAACCATCC
Found at i:39189026 original size:29 final size:29
Alignment explanation
Indices: 39188903--39189027 Score: 110
Period size: 29 Copynumber: 4.3 Consensus size: 29
39188893 TTAATCGATT
*
39188903 GTCGTCACCATCCCTTTTCATAGTTGATG
1 GTCGTCACCATCCCTTTTCACAGTTGATG
* * * * *
39188932 GTCGTTACCATCCCTTTTCGCAATAGATA
1 GTCGTCACCATCCCTTTTCACAGTTGATG
* * * * *
39188961 GCCG-AAGCTATCCCGTTTCATA-TTCGATG
1 GTCGTCA-CCATCCCTTTTCACAGTT-GATG
*
39188990 GTCATCACCATCCCTTTTCACAGTTGATG
1 GTCGTCACCATCCCTTTTCACAGTTGATG
39189019 GTCGTCACC
1 GTCGTCACC
39189028 CTCTATTTTC
Statistics
Matches: 71, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
28 2 0.03
29 66 0.93
30 3 0.04
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.34
Consensus pattern (29 bp):
GTCGTCACCATCCCTTTTCACAGTTGATG
Found at i:39189048 original size:87 final size:87
Alignment explanation
Indices: 39188897--39189068 Score: 236
Period size: 87 Copynumber: 2.0 Consensus size: 87
39188887 TTTCCATTAA
* * * * * *
39188897 TCGATTGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTTACCATCCCTTTTCGCAATAGATAG
1 TCGATGGTCATCACCATCCCTTTTCACAGTTGATGGTCGTCACCATCCATTTTCACAATAGATAG
39188962 CCGAAGCTATCCCGTTTCATAT
66 CCGAAGCTATCCCGTTTCATAT
* * * *
39188984 TCGATGGTCATCACCATCCCTTTTCACAGTTGATGGTCGTCACCCTCTATTTTCATAATCGATAG
1 TCGATGGTCATCACCATCCCTTTTCACAGTTGATGGTCGTCACCATCCATTTTCACAATAGATAG
* *
39189049 CCGAAGCTATCTCTTTTCAT
66 CCGAAGCTATCCCGTTTCAT
39189069 TGGTCGATGA
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (87 bp):
TCGATGGTCATCACCATCCCTTTTCACAGTTGATGGTCGTCACCATCCATTTTCACAATAGATAG
CCGAAGCTATCCCGTTTCATAT
Found at i:39193193 original size:23 final size:23
Alignment explanation
Indices: 39193162--39193283 Score: 181
Period size: 23 Copynumber: 5.3 Consensus size: 23
39193152 ATAAGTGCCA
*
39193162 CACTAATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
39193185 CACTGATATGTAGTCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
39193208 CACTAAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
39193231 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
39193254 CACTGATATGTATCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
39193277 CACTGAT
1 CACTGAT
39193284 CAATAACACT
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 87 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:39193229 original size:46 final size:46
Alignment explanation
Indices: 39193162--39193283 Score: 208
Period size: 46 Copynumber: 2.7 Consensus size: 46
39193152 ATAAGTGCCA
*
39193162 CACTAATATGTAGCCGAAGCTACCACTGATATGTAGTCGTAGCTAC
1 CACTAATATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
*
39193208 CACTAAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
1 CACTAATATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
* *
39193254 CACTGATATGTATCCGAAGCTACCACTGAT
1 CACTAATATGTAGCCGAAGCTACCACTGAT
39193284 CAATAACACT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (46 bp):
CACTAATATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
Found at i:39197606 original size:12 final size:12
Alignment explanation
Indices: 39197589--39197628 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
39197579 TCACACGCCC
39197589 GTGTGCTAGGCT
1 GTGTGCTAGGCT
39197601 GTGTGCTAGGCT
1 GTGTGCTAGGCT
* *
39197613 ATGTGCTAGGAT
1 GTGTGCTAGGCT
39197625 GTGT
1 GTGT
39197629 AACAACCTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.12, C:0.12, G:0.40, T:0.35
Consensus pattern (12 bp):
GTGTGCTAGGCT
Found at i:39201727 original size:39 final size:40
Alignment explanation
Indices: 39201677--39201887 Score: 264
Period size: 40 Copynumber: 5.3 Consensus size: 40
39201667 TCTTCGGAAT
*
39201677 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
39201716 TTAGCCC-GATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
39201755 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * * * *
39201795 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * * *
39201835 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
39201875 TTAGCCCGGATAT
1 TTAGCCCGGATAT
39201888 CATTCAAATG
Statistics
Matches: 142, Mismatches: 28, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 39 0.27
40 103 0.73
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:39201838 original size:80 final size:80
Alignment explanation
Indices: 39201677--39201887 Score: 336
Period size: 80 Copynumber: 2.7 Consensus size: 80
39201667 TCTTCGGAAT
* * * * *
39201677 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCC-GATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
39201740 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
39201755 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
39201820 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
39201835 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
39201888 CATTCAAATG
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
78 4 0.03
79 37 0.31
80 80 0.66
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:39209764 original size:40 final size:39
Alignment explanation
Indices: 39209700--39209911 Score: 264
Period size: 40 Copynumber: 5.3 Consensus size: 39
39209690 TCTTCGGAAT
* *
39209700 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
39209739 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
39209779 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
39209819 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
39209859 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
39209899 TTAGCCCGGATAT
1 TTAGCCCGGATAT
39209912 CATTCAAATG
Statistics
Matches: 148, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
39 10 0.07
40 131 0.89
41 7 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:39209827 original size:80 final size:80
Alignment explanation
Indices: 39209700--39209911 Score: 345
Period size: 80 Copynumber: 2.7 Consensus size: 80
39209690 TCTTCGGAAT
* * * * *
39209700 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
39209764 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
39209779 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
39209844 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
39209859 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
39209912 CATTCAAATG
Statistics
Matches: 122, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
79 4 0.03
80 118 0.97
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:39217480 original size:36 final size:36
Alignment explanation
Indices: 39217417--39217486 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
39217407 ATTAAACTCT
** *
39217417 ATTCAGTTAAGCAACCTTTCGGTTCTATTTTGACTG
1 ATTCAGTTAAGCAACCTTTCGAATCTATTCTGACTG
*
39217453 ATTCAGTTCAGCAACCTTTCGAATCTATTCTGAC
1 ATTCAGTTAAGCAACCTTTCGAATCTATTCTGAC
39217487 AAATGCGCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (36 bp):
ATTCAGTTAAGCAACCTTTCGAATCTATTCTGACTG
Found at i:39224894 original size:25 final size:26
Alignment explanation
Indices: 39224859--39224914 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
39224849 TTTGAGGTGC
* *
39224859 ATATGAGCAAA-ATGAGTTTGTTTTG
1 ATATGAGCAAATATGAATATGTTTTG
39224884 AATATGA-CAAATATGAATATGTTTTG
1 -ATATGAGCAAATATGAATATGTTTTG
39224910 ATATG
1 ATATG
39224915 TTGGATTGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 9 0.33
26 18 0.67
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.39
Consensus pattern (26 bp):
ATATGAGCAAATATGAATATGTTTTG
Found at i:39227647 original size:12 final size:13
Alignment explanation
Indices: 39227623--39227651 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
39227613 GGGCTATAAC
39227623 TATTGCATTTATT
1 TATTGCATTTATT
39227636 TATTGC-TTTATT
1 TATTGCATTTATT
39227648 TATT
1 TATT
39227652 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:39232775 original size:34 final size:34
Alignment explanation
Indices: 39232732--39232801 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
39232722 ATTTTGATAC
*
39232732 AGTCAAACGTACACCGTAACTGGTTATTCTATAA
1 AGTCAAACGTACACCATAACTGGTTATTCTATAA
* *
39232766 AGTCAAACGTACACCATAATTGGTTGTTCTATAA
1 AGTCAAACGTACACCATAACTGGTTATTCTATAA
39232800 AG
1 AG
39232802 GCTGATGTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.30
Consensus pattern (34 bp):
AGTCAAACGTACACCATAACTGGTTATTCTATAA
Found at i:39236077 original size:13 final size:14
Alignment explanation
Indices: 39236059--39236087 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
39236049 TTTCTACTTG
39236059 TTTAATT-TTCTTT
1 TTTAATTCTTCTTT
39236072 TTTAATTCTTCTTT
1 TTTAATTCTTCTTT
39236086 TT
1 TT
39236088 GCACTTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTAATTCTTCTTT
Found at i:39244271 original size:22 final size:22
Alignment explanation
Indices: 39244239--39244293 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
39244229 TACAGAGGCA
* *
39244239 ATGTTGCGACACCCCAAGTCCT
1 ATGTTGTGACACACCAAGTCCT
39244261 ATGTTGTGACACACCAAGTCCT
1 ATGTTGTGACACACCAAGTCCT
39244283 ATGTTGTGACA
1 ATGTTGTGACA
39244294 TCCTTAGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (22 bp):
ATGTTGTGACACACCAAGTCCT
Found at i:39248943 original size:36 final size:35
Alignment explanation
Indices: 39248896--39249065 Score: 153
Period size: 36 Copynumber: 4.7 Consensus size: 35
39248886 TTTAACACAG
*
39248896 TGACATGCTTAACATGCAAATCAGAATCAGAAATAA
1 TGACATGCTTAACATGCGAATCAGAATCA-AAATAA
* **
39248932 TGACATGCTTAACATGTGAATCAGAAAAAAAAATAA
1 TGACATGCTTAACATGCGAATCAG-AATCAAAATAA
* * * * *
39248968 TGGCATGTTTAACATGCGAGTCAAAATCAAATTAA
1 TGACATGCTTAACATGCGAATCAGAATCAAAATAA
* *
39249003 T-AGCATGCTTAACATGCGAATCAGAATATCATAATAT
1 TGA-CATGCTTAACATGCGAATCAG-A-ATCAAAATAA
* * * *
39249040 TAACATGTTTAACATGTGAATTAGAA
1 TGACATGCTTAACATGCGAATCAGAA
39249066 CATCAACAAT
Statistics
Matches: 107, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
35 28 0.26
36 49 0.46
37 29 0.27
38 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.27
Consensus pattern (35 bp):
TGACATGCTTAACATGCGAATCAGAATCAAAATAA
Found at i:39249050 original size:72 final size:72
Alignment explanation
Indices: 39248898--39249055 Score: 176
Period size: 72 Copynumber: 2.2 Consensus size: 72
39248888 TAACACAGTG
* * *
39248898 ACATGCTTAACATGCAAATCAGAATCAGAAATAATGACATGCTTAACATGTGAATCAGAAAAAAA
1 ACATGTTTAACATGCAAATCAAAATCAGAAATAATGACATGCTTAACATGCGAATCAGAAAAAAA
*
39248963 AATAATG
66 AATAATA
* * * * **
39248970 GCATGTTTAACATGCGAGTCAAAATCA-AATTAAT-AGCATGCTTAACATGCGAATCAGAATATC
1 ACATGTTTAACATGCAAATCAAAATCAGAAATAATGA-CATGCTTAACATGCGAATCAGAA-AAA
* *
39249033 ATAATATTA
64 AAAATAATA
39249042 ACATGTTTAACATG
1 ACATGTTTAACATG
39249056 TGAATTAGAA
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
70 1 0.01
71 28 0.39
72 42 0.59
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.27
Consensus pattern (72 bp):
ACATGTTTAACATGCAAATCAAAATCAGAAATAATGACATGCTTAACATGCGAATCAGAAAAAAA
AATAATA
Found at i:39250192 original size:19 final size:19
Alignment explanation
Indices: 39250168--39250205 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
39250158 AAAAAGAGAA
*
39250168 GGGAAGAAATATGTTTTAG
1 GGGAAGAAATATGTCTTAG
39250187 GGGAAGAAATATGTCTTAG
1 GGGAAGAAATATGTCTTAG
39250206 ATAAATAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.03, G:0.32, T:0.29
Consensus pattern (19 bp):
GGGAAGAAATATGTCTTAG
Found at i:39253169 original size:26 final size:25
Alignment explanation
Indices: 39253103--39253169 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
39253093 ATATGTTATA
39253103 TATTATTTATTTATTTTAAACTATTT
1 TATTATTT-TTTATTTTAAACTATTT
* * * *
39253129 TATTATTATTCATTTT-AAGTTTTCT
1 TATTATTTTTTATTTTAAACTATT-T
39253154 TATGTATTTTTTATTT
1 TAT-TATTTTTTATTT
39253170 GAAATCTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 5 0.15
25 11 0.33
26 17 0.52
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.67
Consensus pattern (25 bp):
TATTATTTTTTATTTTAAACTATTT
Found at i:39259176 original size:143 final size:143
Alignment explanation
Indices: 39258847--39259503 Score: 825
Period size: 143 Copynumber: 4.6 Consensus size: 143
39258837 GATTGAAGTC
* * *
39258847 ATTATGGTGGATCTTATCTTCCTAAAGTTACAGTGGAGCTGATTGAAGCCACCAGCCTTATCTTC
1 ATTATGGCGGATCTTATCTTCCTAAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * * * * * *
39258912 CAGAACTTGTAG-CAGAGCAAACTGAAGACGGCAAATCTTATTTCCTTGACGTTGTAGTGGAAC-
66 CTGAAGTTGTAGTGA-AGCAGACTGAAGACAGCGAATCTTATTTCCTTGGCATTGCAGTGGAACA
*
39258975 GATTAAAGCTACCA
130 GATTAAAGCTACAA
* * *
39258989 ATTATGGCAGATCTTATCTTCCTAAAGTTACAGTGGAGTAGATTGAAGCCACTAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTAAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * *
39259054 CTGAAGTTGCAGTGAAGTAGACTGAAGACAGCGAATCTTATTTCCTTGGCATTGCAGTGGAACAA
66 CTGAAGTTGTAGTGAAGCAGACTGAAGACAGCGAATCTTATTTCCTTGGCATTGCAGTGGAACAG
*
39259119 ATTAAAGCTACCA
131 ATTAAAGCTACAA
* * * * *
39259132 ATTATGGCGAATCTTATCTTTCTAAAGTTACAGTGGAGCAGATTGGAGCCACAAGCCTTATATCC
1 ATTATGGCGGATCTTATCTTCCTAAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * *
39259197 CTGAAGTTGTAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCTTGGCGTTGCAATAGAACAG
66 CTGAAGTTGTAGTGAAGCAGACTGAAGACAGCGAATCTTATTTCCTTGGCATTGCAGTGGAACAG
39259262 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* * * * * * *
39259275 ATTGTGGCGGATCTTATCTTCTTAAAATTGCAGTGTAGTAGATTAAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTAAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * * * * *
39259340 CTGAAGTTGCAGCGGAGTAGACTGAAGACAGCGAATCTTACTTCCCTAGCATTGGAGTGGAACAG
66 CTGAAGTTGTAGTGAAGCAGACTGAAGACAGCGAATCTTATTTCCTTGGCATTGCAGTGGAACAG
39259405 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* * * *
39259418 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCGATCC-TATCTC
1 ATTATGGCGGATCTTATCTTCCTAAAGTTACAGTGGAGCAGATTGAAGCCACC-AGCCTTATCTC
* *
39259482 CCTGAAATTGTAGTGGAGCAGA
65 CCTGAAGTTGTAGTGAAGCAGA
39259504 ATAAAACGAC
Statistics
Matches: 444, Mismatches: 68, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
142 109 0.25
143 332 0.75
144 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (143 bp):
ATTATGGCGGATCTTATCTTCCTAAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
CTGAAGTTGTAGTGAAGCAGACTGAAGACAGCGAATCTTATTTCCTTGGCATTGCAGTGGAACAG
ATTAAAGCTACAA
Found at i:39259361 original size:286 final size:285
Alignment explanation
Indices: 39258847--39259503 Score: 911
Period size: 286 Copynumber: 2.3 Consensus size: 285
39258837 GATTGAAGTC
* * * *
39258847 ATTATGGTGGATCTTATCTTCCTAAAGTTACAGTGGAGCTGATTGAAGCCACCAGCCTTATCTTC
1 ATTATGGCGGATCTTATCTTCCTAAAGTTACAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCC
* * ** * * * * *
39258912 CAGAACTTGTAGCAGAGCAAACTGAAGACGGCAAATCTTATTTCCTTGACGTTGTAGTGGAACGA
66 CTGAAATTGTAGTGGAGCAGACTGAAGACAGCAAATCTTATTTCCTTGACGTTGCAATAGAACGA
* * * *
39258977 TTAAAGCTACCAATTATGGCAGATCTTATCTTCCTAAAGTTACAGTGGAGTAGATTGAAGCCACT
131 TTAAAGCTACAAATTATGGCAGATCTTATCTTCCTAAAATTACAGTGGAGTAGATTAAAGCCACC
* * * *
39259042 AGCCTTATCTCCCTGAAGTTGCAGTGAAGTAGACTGAAGACAGCGAATCTTATTTCCTTGGCATT
196 AGCCTTATCTCCCTGAAGTTGCAGCGAAGTAGACTGAAGACAGCGAATCTTACTTCCCTAGCATT
*
39259107 GCAGTGGAACAAATTAAAGCTACCA
261 GCAGTGGAACAAATTAAAGCTACAA
* * * *
39259132 ATTATGGCGAATCTTATCTTTCTAAAGTTACAGTGGAGCAGATTGGAGCCACAAGCCTTATATCC
1 ATTATGGCGGATCTTATCTTCCTAAAGTTACAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCC
* * *
39259197 CTGAAGTTGTAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCTTGGCGTTGCAATAGAACAG
66 CTGAAATTGTAGTGGAGCAGACTGAAGACAGCAAATCTTATTTCCTTGACGTTGCAATAGAAC-G
* * * * *
39259262 ATTAAAGCTACAAATTGTGGCGGATCTTATCTTCTTAAAATTGCAGTGTAGTAGATTAAAGCCAC
130 ATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTAAAATTACAGTGGAGTAGATTAAAGCCAC
*
39259327 CAGCCTTATCTCCCTGAAGTTGCAGCGGAGTAGACTGAAGACAGCGAATCTTACTTCCCTAGCAT
195 CAGCCTTATCTCCCTGAAGTTGCAGCGAAGTAGACTGAAGACAGCGAATCTTACTTCCCTAGCAT
* *
39259392 TGGAGTGGAACAGATTAAAGCTACAA
260 TGCAGTGGAACAAATTAAAGCTACAA
* * * * *
39259418 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCGATCC-TATCTC
1 ATTATGGCGGATCTTATCTTCCTAAAGTTACAGTGGAGCAGATTGAAGCCA-CAAGCCTTATCTC
39259482 CCTGAAATTGTAGTGGAGCAGA
65 CCTGAAATTGTAGTGGAGCAGA
39259504 ATAAAACGAC
Statistics
Matches: 324, Mismatches: 46, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
285 109 0.34
286 211 0.65
287 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (285 bp):
ATTATGGCGGATCTTATCTTCCTAAAGTTACAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCC
CTGAAATTGTAGTGGAGCAGACTGAAGACAGCAAATCTTATTTCCTTGACGTTGCAATAGAACGA
TTAAAGCTACAAATTATGGCAGATCTTATCTTCCTAAAATTACAGTGGAGTAGATTAAAGCCACC
AGCCTTATCTCCCTGAAGTTGCAGCGAAGTAGACTGAAGACAGCGAATCTTACTTCCCTAGCATT
GCAGTGGAACAAATTAAAGCTACAA
Found at i:39261110 original size:22 final size:22
Alignment explanation
Indices: 39261085--39261126 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
39261075 GTTTATTTTT
39261085 ATTATATTATT-TATTTTAAACA
1 ATTATA-TATTATATTTTAAACA
*
39261107 ATTATATATTATCTTTTAAA
1 ATTATATATTATATTTTAAA
39261127 ATTCTCTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTATATATTATATTTTAAACA
Found at i:39261243 original size:26 final size:24
Alignment explanation
Indices: 39261177--39261260 Score: 69
Period size: 26 Copynumber: 3.3 Consensus size: 24
39261167 ATATGTTATA
*
39261177 TATTATTTATTTATTTTAAACTATTT
1 TATTATTT-TTTATTTT-AAGTATTT
* * *
39261203 TATTATTATTCATTTTAAGTTTTCT
1 TATTATTTTTTATTTTAAGTATT-T
* *
39261228 TATGTATTTTTTATTTGAAGTCTTT
1 TAT-TATTTTTTATTTTAAGTATTT
*
39261253 TATCATTT
1 TATTATTT
39261261 ATTTTGAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
24 9 0.19
25 15 0.32
26 23 0.49
ACGTcount: A:0.25, C:0.06, G:0.05, T:0.64
Consensus pattern (24 bp):
TATTATTTTTTATTTTAAGTATTT
Found at i:39262468 original size:19 final size:19
Alignment explanation
Indices: 39262426--39262470 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
39262416 TTTTACGGAA
*
39262426 AATGTTTTATACATTTTCC
1 AATGTTTTATACATTTTAC
*
39262445 AATGTTTTATATATTTTAC
1 AATGTTTTATACATTTTAC
*
39262464 TATGTTT
1 AATGTTT
39262471 ACTTCAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.27, C:0.09, G:0.07, T:0.58
Consensus pattern (19 bp):
AATGTTTTATACATTTTAC
Found at i:39262641 original size:9 final size:9
Alignment explanation
Indices: 39262627--39262651 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
39262617 TTTATTTTTA
39262627 AAAATATTT
1 AAAATATTT
39262636 AAAATATTT
1 AAAATATTT
39262645 AAAATAT
1 AAAATAT
39262652 CAATATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAATATTT
Found at i:39271369 original size:82 final size:81
Alignment explanation
Indices: 39271253--39271408 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
39271243 AAATTGTACA
* * * *
39271253 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
39271317 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
39271334 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
39271399 TGCGAGTTGA
65 TGCGAATTGA
39271409 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39271376 original size:55 final size:52
Alignment explanation
Indices: 39271252--39271405 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
39271242 TAAATTGTAC
* *
39271252 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
39271305 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
39271360 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
39271406 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:39271410 original size:27 final size:27
Alignment explanation
Indices: 39271253--39271408 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
39271243 AAATTGTACA
*
39271253 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
39271280 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
39271307 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
39271334 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
39271362 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
39271389 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
39271409 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:39271419 original size:27 final size:27
Alignment explanation
Indices: 39271245--39271429 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
39271235 GCGGGATTAA
*
39271245 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
39271272 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
39271299 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
39271326 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
39271354 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
39271381 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
39271408 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
39271430 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:39271420 original size:82 final size:81
Alignment explanation
Indices: 39271245--39271429 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
39271235 GCGGGATTAA
* * * *
39271245 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
39271310 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
39271326 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
39271390 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
39271408 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
39271430 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:39279448 original size:82 final size:81
Alignment explanation
Indices: 39279332--39279487 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
39279322 AAATTGTACA
* * * *
39279332 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
39279396 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
39279413 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
39279478 TGCGAGTTGA
65 TGCGAATTGA
39279488 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39279455 original size:55 final size:52
Alignment explanation
Indices: 39279331--39279484 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
39279321 TAAATTGTAC
* *
39279331 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
39279384 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
39279439 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
39279485 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:39279489 original size:27 final size:27
Alignment explanation
Indices: 39279332--39279487 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
39279322 AAATTGTACA
*
39279332 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
39279359 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
39279386 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
39279413 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
39279441 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
39279468 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
39279488 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:39279498 original size:27 final size:27
Alignment explanation
Indices: 39279324--39279508 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
39279314 GCGGGATTAA
*
39279324 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
39279351 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
39279378 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
39279405 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
39279433 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
39279460 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
39279487 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
39279509 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:39279499 original size:82 final size:81
Alignment explanation
Indices: 39279324--39279508 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
39279314 GCGGGATTAA
* * * *
39279324 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
39279389 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
39279405 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
39279469 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
39279487 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
39279509 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:39283967 original size:101 final size:102
Alignment explanation
Indices: 39283848--39284032 Score: 295
Period size: 101 Copynumber: 1.8 Consensus size: 102
39283838 AAAGTGATGG
**
39283848 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-CTAGA-A-TGATAGGTTGCATGTGTAG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATC-AGATAGTGAT-GGTCACATGTGTAG
39283910 TACTATGTGCAGGCTACTATGCGTACCGGATAGGTTCGA
64 TACTATGTGCAGGCTACTATGCGTACCGGATAGGTTCGA
* *
39283949 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATTGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTGATGGTCACATGTGTAGTA
39284014 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
39284033 TGAACCAGTA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
101 39 0.51
102 34 0.44
103 4 0.05
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGGTTCGA
Found at i:39283978 original size:51 final size:49
Alignment explanation
Indices: 39283847--39284030 Score: 230
Period size: 51 Copynumber: 3.7 Consensus size: 49
39283837 GAAAGTGATG
*
39283847 GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTAGAATGATAGGTT
1 GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTAC-CG---GATAGGTT
* *
39283900 G-CA--TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGGTT
1 GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGGTT
*
39283946 CGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATT
1 -G-TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-G-TT
*
39283999 GTCACATGTGTAGTACTATGTGCAGGCTACTA
1 GTCACGTGTGTAGTACTATGTGCAGGCTACTA
39284031 TGTGAACCAG
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
46 8 0.07
47 1 0.01
49 3 0.03
50 31 0.26
51 67 0.57
52 4 0.03
53 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (49 bp):
GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGGTT
Found at i:39290884 original size:20 final size:23
Alignment explanation
Indices: 39290845--39290885 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
39290835 AATGCAATAT
39290845 TAAAAGTGCTAACTAAAATGTCC
1 TAAAAGTGCTAACTAAAATGTCC
39290868 TAAAA-TGC-AAC-AAAATGT
1 TAAAAGTGCTAACTAAAATGT
39290886 ACTTAAGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 3 0.17
23 5 0.28
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (23 bp):
TAAAAGTGCTAACTAAAATGTCC
Found at i:39292140 original size:17 final size:18
Alignment explanation
Indices: 39292106--39292141 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
39292096 TACCGACTAA
*
39292106 TTTCAATAAGCTATAATG
1 TTTCAATAAGCTAAAATG
39292124 TTTCAAT-AGCTAAAATG
1 TTTCAATAAGCTAAAATG
39292141 T
1 T
39292142 GGATCCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (18 bp):
TTTCAATAAGCTAAAATG
Found at i:39293058 original size:82 final size:82
Alignment explanation
Indices: 39292958--39293120 Score: 299
Period size: 82 Copynumber: 2.0 Consensus size: 82
39292948 GGATTGTATT
39292958 AATTTTTGGATAAACTTTAATTTTTTAGGGGTATGAGAAACAATAGATTTTTATTTGTTTCTGTG
1 AATTTTTGGATAAACTTTAATTTTTTAGGGGTATGAGAAACAATAGATTTTTATTTGTTTCTGTG
39293023 CTGTTTTAGAATTTTAG
66 CTGTTTTAGAATTTTAG
* *
39293040 AATTTTTGGATAAACTTTAATTTTTTAGGGGTATGAGCAGCAATAGATTTTTATTTGTTTCTGTG
1 AATTTTTGGATAAACTTTAATTTTTTAGGGGTATGAGAAACAATAGATTTTTATTTGTTTCTGTG
*
39293105 TTGTTTTAGAATTTTA
66 CTGTTTTAGAATTTTA
39293121 TATGTAGGAA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.27, C:0.05, G:0.18, T:0.50
Consensus pattern (82 bp):
AATTTTTGGATAAACTTTAATTTTTTAGGGGTATGAGAAACAATAGATTTTTATTTGTTTCTGTG
CTGTTTTAGAATTTTAG
Found at i:39303506 original size:40 final size:40
Alignment explanation
Indices: 39303451--39303594 Score: 225
Period size: 40 Copynumber: 3.6 Consensus size: 40
39303441 AGCTTTATTG
*
39303451 GCATTAGCAGCGCTTTTTGAAAAATGCCGCTATAGGTCGA
1 GCATTAGCGGCGCTTTTTGAAAAATGCCGCTATAGGTCGA
* * *
39303491 GCATTAGTGGCGCTTTTTGAAAAATGCCGCTATAGATTGA
1 GCATTAGCGGCGCTTTTTGAAAAATGCCGCTATAGGTCGA
*
39303531 GCATTAGCGGCGCTTATTGAAAAATGCCGCTATAGGTCGA
1 GCATTAGCGGCGCTTTTTGAAAAATGCCGCTATAGGTCGA
* *
39303571 CCATTAGCGGTGCTTTTTGAAAAA
1 GCATTAGCGGCGCTTTTTGAAAAA
39303595 CATCGTAAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 93 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAATGCCGCTATAGGTCGA
Found at i:39303746 original size:40 final size:40
Alignment explanation
Indices: 39303451--39303749 Score: 177
Period size: 40 Copynumber: 7.6 Consensus size: 40
39303441 AGCTTTATTG
* ** *
39303451 GCATTAGCAGCGCTTTTTGAAAAATGCCGCTATAGGTCGA
1 GCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGA
* ** *
39303491 GCATTAGTGGCGCTTTTTGAAAAATGCCGCTATAGATTGA
1 GCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGA
* ** *
39303531 GCATTAGCGGCGCTTATTGAAAAATGCCGCTATAGGTCGA
1 GCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGA
* * * * * **
39303571 CCATTAGCGGTGCTTTTTGAAAAACATCG-TAAAAAAATTAA
1 GCATTAGCGGCGCTTTTTGAAAAACACCGCT--ATAGATCGA
** * *** *
39303612 GCACAATGTCGACG-TTTTATG---TTGA--GCTTTAG-T-G-
1 GCATTA-G-CGGCGCTTTT-TGAAAAACACCGCTATAGATCGA
* * * *
39303646 GCATTAGCGGCGCTTTCTGAAAAACGCCGTTATAGGTCGA
1 GCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGA
* *
39303686 GCATTAGCGGCGCTTCTTGAAAAACACTGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGA
**
39303726 GCATTAGCGGCATTTTTTGAAAAA
1 GCATTAGCGGCGCTTTTTGAAAAA
39303750 TGCCACAAAA
Statistics
Matches: 194, Mismatches: 50, Indels: 30
0.71 0.18 0.11
Matches are distributed among these distances:
32 6 0.03
33 4 0.02
34 4 0.02
36 1 0.01
37 6 0.03
38 2 0.01
39 3 0.02
40 151 0.78
41 7 0.04
42 5 0.03
43 5 0.03
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGA
Found at i:39303748 original size:195 final size:194
Alignment explanation
Indices: 39303378--39303753 Score: 538
Period size: 195 Copynumber: 1.9 Consensus size: 194
39303368 ATAGATTTTG
* *
39303378 CATTCGCGGCGCTTTTTGAAAAACACCGAAAAAATTTAAGCACAACGCCATCATTTTATGTTGAG
1 CATTAGCGGCGCTTTTTGAAAAACACCGAAAAAAATTAAGCACAACGCCATCATTTTATGTTGAG
* * * * *
39303443 CTTTATTGGCATTAGCAGCGCTTTTTGAAAAATGCCGCTATAGGTCGAGCATTAGTGGCGCTTTT
66 CTTTAGTGGCATTAGCAGCGCTTTCTGAAAAACGCCGCTATAGGTCGAGCATTAGCGGCGCTTCT
** * *
39303508 TGAAAAATGCCGCTATAGATTGAGCATTAGCGGCGCTTATTGAAAAATGCCGCTATAGGTCGAC
131 TGAAAAACACCGCTATAGATCGAGCATTAGCGGCACTTATTGAAAAATGCCGCTATAGGTCGAC
* * * * *
39303572 CATTAGCGGTGCTTTTTGAAAAACATCGTAAAAAAATTAAGCACAATGTCGA-CGTTTTATGTTG
1 CATTAGCGGCGCTTTTTGAAAAACACCG-AAAAAAATTAAGCACAACG-CCATCATTTTATGTTG
* *
39303636 AGCTTTAGTGGCATTAGCGGCGCTTTCTGAAAAACGCCGTTATAGGTCGAGCATTAGCGGCGCTT
64 AGCTTTAGTGGCATTAGCAGCGCTTTCTGAAAAACGCCGCTATAGGTCGAGCATTAGCGGCGCTT
* * *
39303701 CTTGAAAAACACTGCTATAGATCGAGCATTAGCGGCATTTTTTGAAAAATGCC
129 CTTGAAAAACACCGCTATAGATCGAGCATTAGCGGCACTTATTGAAAAATGCC
39303754 ACAAAAAATT
Statistics
Matches: 159, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
194 25 0.16
195 132 0.83
196 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (194 bp):
CATTAGCGGCGCTTTTTGAAAAACACCGAAAAAAATTAAGCACAACGCCATCATTTTATGTTGAG
CTTTAGTGGCATTAGCAGCGCTTTCTGAAAAACGCCGCTATAGGTCGAGCATTAGCGGCGCTTCT
TGAAAAACACCGCTATAGATCGAGCATTAGCGGCACTTATTGAAAAATGCCGCTATAGGTCGAC
Found at i:39304183 original size:7 final size:7
Alignment explanation
Indices: 39304171--39304312 Score: 74
Period size: 7 Copynumber: 19.9 Consensus size: 7
39304161 TATCATTATA
39304171 GTTTAGG
1 GTTTAGG
39304178 GTTTAGG
1 GTTTAGG
39304185 GTTTAGG
1 GTTTAGG
*
39304192 GTTTAAG
1 GTTTAGG
*
39304199 ATTTAGG
1 GTTTAGG
39304206 AGTTACTA--
1 -GTT--TAGG
* *
39304214 TTTTAAG
1 GTTTAGG
**
39304221 GTTTATA
1 GTTTAGG
*
39304228 GATTATGG
1 GTTTA-GG
39304236 GTTTAGG
1 GTTTAGG
* *
39304243 GATTATG
1 GTTTAGG
*
39304250 GTTTATG
1 GTTTAGG
*
39304257 GTTTATG
1 GTTTAGG
39304264 GTTTAAGG
1 GTTT-AGG
* *
39304272 GTTAAAG
1 GTTTAGG
*
39304279 GTTAAGG
1 GTTTAGG
*
39304286 GTTAAGG
1 GTTTAGG
39304293 G-TTAGGG
1 GTTTA-GG
39304300 GTTTAGG
1 GTTTAGG
39304307 GTTTAG
1 GTTTAG
39304313 ATTAATTAGT
Statistics
Matches: 106, Mismatches: 20, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
5 2 0.02
6 2 0.02
7 86 0.81
8 14 0.13
10 2 0.02
ACGTcount: A:0.23, C:0.01, G:0.34, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:39305209 original size:19 final size:20
Alignment explanation
Indices: 39305173--39305214 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
39305163 GTCATTTTAT
39305173 CCCCAAATTTCACCCTGAAA
1 CCCCAAATTTCACCCTGAAA
*
39305193 CCCCTAATTTC-CCCTGAAA
1 CCCCAAATTTCACCCTGAAA
39305212 CCC
1 CCC
39305215 TTAACTTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.29, C:0.45, G:0.05, T:0.21
Consensus pattern (20 bp):
CCCCAAATTTCACCCTGAAA
Found at i:39305869 original size:3 final size:3
Alignment explanation
Indices: 39305861--39305886 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
39305851 TGAACACTAA
39305861 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
39305887 GGAATACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:39312581 original size:10 final size:9
Alignment explanation
Indices: 39312548--39312612 Score: 73
Period size: 10 Copynumber: 7.3 Consensus size: 9
39312538 AACTAAGGTC
39312548 AATTTTTAT
1 AATTTTTAT
39312557 -ATTTTTAT
1 AATTTTTAT
* *
39312565 AAATTTAAT
1 AATTTTTAT
39312574 AATTTTTAAT
1 AATTTTT-AT
39312584 AATTTTT-T
1 AATTTTTAT
39312592 -ATTTTTAT
1 AATTTTTAT
39312600 AATTTTTTAT
1 AA-TTTTTAT
39312610 AAT
1 AAT
39312613 ATTCTTTATA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
7 6 0.13
8 10 0.21
9 13 0.28
10 18 0.38
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
AATTTTTAT
Found at i:39312622 original size:12 final size:11
Alignment explanation
Indices: 39312591--39312629 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
39312581 AATAATTTTT
39312591 TATTTTTATAA
1 TATTTTTATAA
39312602 T-TTTTTATAA
1 TATTTTTATAA
39312612 TATTCTTTATATA
1 TATT-TTTATA-A
39312625 TATTT
1 TATTT
39312630 AAAATAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 10 0.40
11 3 0.12
12 7 0.28
13 5 0.20
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTTTTATAA
Found at i:39312626 original size:26 final size:25
Alignment explanation
Indices: 39312572--39312639 Score: 59
Period size: 26 Copynumber: 2.7 Consensus size: 25
39312562 TATAAATTTA
*
39312572 ATAATTTTTAATAATTTTTTATTTTT
1 ATAATTTTTAATAATTTTTTA-TTAT
*
39312598 ATAATTTTTTATAATATTCTTTA-TAT
1 ATAATTTTTAATAAT-TT-TTTATTAT
**
39312624 AT-ATTTAAAATAATTT
1 ATAATTTTTAATAATTT
39312640 GGAAAATTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
24 2 0.06
25 9 0.26
26 18 0.51
27 2 0.06
28 4 0.11
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (25 bp):
ATAATTTTTAATAATTTTTTATTAT
Found at i:39313774 original size:19 final size:19
Alignment explanation
Indices: 39313750--39313787 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
39313740 TCTTATAAAA
*
39313750 CTAATTAGAAATTTTTATT
1 CTAATTAGAAAATTTTATT
39313769 CTAATTAGAAAATTTTATT
1 CTAATTAGAAAATTTTATT
39313788 AATTACAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.50
Consensus pattern (19 bp):
CTAATTAGAAAATTTTATT
Found at i:39317040 original size:110 final size:110
Alignment explanation
Indices: 39316847--39317119 Score: 341
Period size: 110 Copynumber: 2.5 Consensus size: 110
39316837 TTATAATGCT
* * ** *
39316847 AATCAGACTAGTAGTTCATGACATGAAGATATGTGTAAGACCATGTGGTAGAGACCCATGACATT
1 AATCAGACTGGTAGATCACAACATGAAGATATGTGTAAGACCATGTGGTAGAAACCCATGACATT
*
39316912 ATATGACAATGAGGATATTCATGGTGTAGCCTACGGTGAGATGTA
66 ATATGACAATGAGGATATTCATGGTGTAGCCTACAGTGAGATGTA
* * * *
39316957 AATCAGACTGGTAGATCACAACATTAAGATATGTGTAAGACCACGTGGTATAAACCCATGGCATT
1 AATCAGACTGGTAGATCACAACATGAAGATATGTGTAAGACCATGTGGTAGAAACCCATGACATT
** * * *
39317022 ATATGACAATGAGGATATTCATTTTGTATCGTCCAGTGAGATGTA
66 ATATGACAATGAGGATATTCATGGTGTAGCCTACAGTGAGATGTA
* * * * * *
39317067 AA-CCGAACTGTTGGATCACAATATGAAGATATGTATAAGACCATGTGGGAGAA
1 AATCAG-ACTGGTAGATCACAACATGAAGATATGTGTAAGACCATGTGGTAGAA
39317120 GCCCCACGGT
Statistics
Matches: 138, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
109 2 0.01
110 136 0.99
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.27
Consensus pattern (110 bp):
AATCAGACTGGTAGATCACAACATGAAGATATGTGTAAGACCATGTGGTAGAAACCCATGACATT
ATATGACAATGAGGATATTCATGGTGTAGCCTACAGTGAGATGTA
Found at i:39342340 original size:16 final size:16
Alignment explanation
Indices: 39342319--39342353 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
39342309 TATCGGTTAG
39342319 AATAAAAAATATT-AAA
1 AATAAAAAA-ATTCAAA
39342335 AATAAAAAAATTCAAA
1 AATAAAAAAATTCAAA
39342351 AAT
1 AAT
39342354 TTCGGTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAAAAAAATTCAAA
Found at i:39343633 original size:20 final size:20
Alignment explanation
Indices: 39343588--39343637 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
39343578 ATGCAATACT
39343588 AAAATTTTTAACAAATATCG
1 AAAATTTTTAACAAATATCG
* *
39343608 -ATATTTTTAACATGATAT-G
1 AAAATTTTTAACA-AATATCG
39343627 AAAATTTTTAA
1 AAAATTTTTAA
39343638 TTGATGCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (20 bp):
AAAATTTTTAACAAATATCG
Found at i:39343725 original size:20 final size:20
Alignment explanation
Indices: 39343700--39343751 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
39343690 AGATACACAG
39343700 AGAAATTTTGATACTCG-ATT
1 AGAAATTTTGATACT-GTATT
*
39343720 AGAAA-TTTGATACTGTGTT
1 AGAAATTTTGATACTGTATT
*
39343739 AGAAATATTGATA
1 AGAAATTTTGATA
39343752 TCACGTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 1 0.04
19 16 0.57
20 11 0.39
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.38
Consensus pattern (20 bp):
AGAAATTTTGATACTGTATT
Found at i:39344539 original size:17 final size:18
Alignment explanation
Indices: 39344517--39344550 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39344507 GGTGATAAGT
39344517 AAAAG-AATAAGAAAATA
1 AAAAGAAATAAGAAAATA
*
39344534 AAAAGAAATGAGAAAAT
1 AAAAGAAATAAGAAAAT
39344551 CTAATCTAAA
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:0.74, C:0.00, G:0.15, T:0.12
Consensus pattern (18 bp):
AAAAGAAATAAGAAAATA
Found at i:39346767 original size:50 final size:50
Alignment explanation
Indices: 39346713--39346818 Score: 131
Period size: 50 Copynumber: 2.1 Consensus size: 50
39346703 CATTGAGATT
* * * * *
39346713 ATGAGAGGTATCATATAAGACCATGTTTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTACCACATAAGACCATGTCTGGGACATGGCATGGGCACCGAG
* * * *
39346763 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTACCACATAAGACCATGTCTGGGACATGGCATGGGCACCGAG
39346813 ATGAGA
1 ATGAGA
39346819 ACTCCTATGT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTACCACATAAGACCATGTCTGGGACATGGCATGGGCACCGAG
Found at i:39346831 original size:50 final size:50
Alignment explanation
Indices: 39346728--39346852 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 50
39346718 AGGTATCATA
* * * ** *
39346728 TAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCCCACG
* * *
39346778 TAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCTATG
1 TAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCCCACG
* *
39346828 TAAGACCATATCTGGGATATGGCAT
1 TAAGACCATGTCTGGGACATGGCAT
39346853 TGGAAGTAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCCCACG
Found at i:39347158 original size:20 final size:20
Alignment explanation
Indices: 39347120--39347158 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
39347110 TAAGCAAGCA
*
39347120 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
39347140 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
39347159 AAAGATTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:39350637 original size:5 final size:5
Alignment explanation
Indices: 39350627--39350659 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
39350617 GCCTAAAATG
39350627 TGAAT TGAAT TGAAT TGAAT TGAAT ATGAAT TG
1 TGAAT TGAAT TGAAT TGAAT TGAAT -TGAAT TG
39350660 TATTAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (5 bp):
TGAAT
Found at i:39351152 original size:25 final size:25
Alignment explanation
Indices: 39351124--39351223 Score: 93
Period size: 25 Copynumber: 4.1 Consensus size: 25
39351114 AAGAGTGTCT
39351124 CGATATATGGCTCTTCGGAGCTTCC
1 CGATATATGGCTCTTCGGAGCTTCC
*
39351149 CG--ATATGGCTTGCTT--GAACTTCC
1 CGATATATGGC-T-CTTCGGAGCTTCC
* * *
39351172 CGATATATGGCTATTCGAAGCTTCT
1 CGATATATGGCTCTTCGGAGCTTCC
*
39351197 CGAT-TAATGGCTCTTCGGAGCTACC
1 CGATAT-ATGGCTCTTCGGAGCTTCC
39351222 CG
1 CG
39351224 TCATTGACTC
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
23 18 0.31
24 3 0.05
25 38 0.64
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (25 bp):
CGATATATGGCTCTTCGGAGCTTCC
Found at i:39357014 original size:79 final size:79
Alignment explanation
Indices: 39356919--39357068 Score: 239
Period size: 79 Copynumber: 1.9 Consensus size: 79
39356909 TCGGAAAAAA
* * * *
39356919 TGGTTTTGGGCCCACAAATTCGACGAGTAAGTT-TGTAAATATTATTATTTAATATTTATGAGTC
1 TGGTTTCGGGCCCACAAATCCGACAAGTAAGTTCAG-AAATATTATTATTTAATATTTATGAGTC
39356983 AAATATGGGAAACAG
65 AAATATGGGAAACAG
*
39356998 TGGTTTCGGGGCCACAAATCCGACAAGTAAGTTCAGAAATATTATTATTTAATATTTATGAGTCA
1 TGGTTTCGGGCCCACAAATCCGACAAGTAAGTTCAGAAATATTATTATTTAATATTTATGAGTCA
39357063 AATATG
66 AATATG
39357069 ATTTTAAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
79 64 0.98
80 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (79 bp):
TGGTTTCGGGCCCACAAATCCGACAAGTAAGTTCAGAAATATTATTATTTAATATTTATGAGTCA
AATATGGGAAACAG
Found at i:39357812 original size:50 final size:50
Alignment explanation
Indices: 39357717--39357813 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
39357707 TTGATGGATC
* *
39357717 TTTGTGATTTTAGATGATAAATGATGAATTTGAAGTGTTTCTTAGTAATA
1 TTTGTGATTTTAGATGATAAATGACGAATTTGAAGTGTTGCTTAGTAATA
* *
39357767 TTTGTGATTTTAGATGTTAAATGACGAATTTGAAGTGTTGGTTAGTA
1 TTTGTGATTTTAGATGATAAATGACGAATTTGAAGTGTTGCTTAGTA
39357814 TATAAAAGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.30, C:0.02, G:0.23, T:0.45
Consensus pattern (50 bp):
TTTGTGATTTTAGATGATAAATGACGAATTTGAAGTGTTGCTTAGTAATA
Found at i:39357827 original size:50 final size:50
Alignment explanation
Indices: 39357720--39357827 Score: 137
Period size: 50 Copynumber: 2.2 Consensus size: 50
39357710 ATGGATCTTT
* * ***
39357720 GTGATTTTAGATGATAAATGATGAATTTGAAGTGTTTCTTAGTAATATTT
1 GTGATTTTAGATGATAAATGACGAATTTGAAGTGTTGCTTAGTAATAAAA
* *
39357770 GTGATTTTAGATGTTAAATGACGAATTTGAAGTGTTGGTTAGTATATAAAA
1 GTGATTTTAGATGATAAATGACGAATTTGAAGTGTTGCTTAGTA-ATAAAA
39357821 GT-ATTTT
1 GTGATTTT
39357828 GTTAAGTGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 45 0.90
51 5 0.10
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.44
Consensus pattern (50 bp):
GTGATTTTAGATGATAAATGACGAATTTGAAGTGTTGCTTAGTAATAAAA
Found at i:39358663 original size:138 final size:137
Alignment explanation
Indices: 39358411--39358667 Score: 313
Period size: 138 Copynumber: 1.9 Consensus size: 137
39358401 GTTTTCATGT
* *
39358411 TTTAGGTGCTGGTCCTGAATGTTCTACCGATGGCTGAGGTCTCACATTTGTTACGGATACTCATC
1 TTTAGGTGCTGGTCCTGAATGTCCAACCGATGGCTGAGGTCTCACATTTGTTACGGATACTCATC
* * * * * * **
39358476 AGCTTTTGTGAGCAACATCGTGTAACTTACATTTCGACAGTTAGTTTGTGTGAGCAGACCCAGAG
66 AGCTTGTATAAGCAACATCATGTAACTTACATTCCGACAGTCAACTTGTGTGAGCAGACCCAGAG
39358541 TACAATG
131 TACAATG
* *
39358548 TTTAGGGTGCTGGTCCTGAATGTCCAACCGATGGCTTA-GT-TACGACATTTTTTTACGGATACT
1 TTTA-GGTGCTGGTCCTGAATGTCCAACCGATGGCTGAGGTCT-C-ACA-TTTGTTACGGATACT
* * **
39358611 CATCAGCTTGTATAAGCTACATCATGTAGC-TACATTCCGATTGTCAACTTGTGTGAG
62 CATCAGCTTGTATAAGCAACATCATGTAACTTACATTCCGACAGTCAACTTGTGTGAG
39358668 TAGAGCCATT
Statistics
Matches: 100, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
136 1 0.01
137 7 0.07
138 54 0.54
139 38 0.38
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (137 bp):
TTTAGGTGCTGGTCCTGAATGTCCAACCGATGGCTGAGGTCTCACATTTGTTACGGATACTCATC
AGCTTGTATAAGCAACATCATGTAACTTACATTCCGACAGTCAACTTGTGTGAGCAGACCCAGAG
TACAATG
Found at i:39364518 original size:12 final size:12
Alignment explanation
Indices: 39364503--39364527 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39364493 CCCAATCAAA
39364503 TAATCAATTAAT
1 TAATCAATTAAT
39364515 TAATCAATTAAT
1 TAATCAATTAAT
39364527 T
1 T
39364528 CATACAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATCAATTAAT
Found at i:39366119 original size:40 final size:40
Alignment explanation
Indices: 39366074--39366258 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
39366064 AGCACAAAAT
* * *
39366074 CCTGCTAGGCACTAAGCTTGAATAACACACCGACACGAAG
1 CCTGCTAGGCACTAAGCCTGAATAACACACAGGCACGAAG
* * *
39366114 TCTGCTAGGCACTAAGCCTAAATAACACACAGGCATGAAG
1 CCTGCTAGGCACTAAGCCTGAATAACACACAGGCACGAAG
* * *
39366154 CCTGCTAGGCACTAAGCTTGAATAACACACTGGCAGGAAG
1 CCTGCTAGGCACTAAGCCTGAATAACACACAGGCACGAAG
* *
39366194 CCTGCTAGGCACTAAGCCTGAATAACACACTGGCATGAAG
1 CCTGCTAGGCACTAAGCCTGAATAACACACAGGCACGAAG
* * * *
39366234 CCTCCTAAGTACTAAGCCTAAATAA
1 CCTGCTAGGCACTAAGCCTGAATAA
39366259 TCATAAGGTA
Statistics
Matches: 128, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 128 1.00
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (40 bp):
CCTGCTAGGCACTAAGCCTGAATAACACACAGGCACGAAG
Done.