Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 109 of 290
Found at i:37201862 original size:13 final size:13
Alignment explanation
Indices: 37201787--37201907 Score: 84
Period size: 13 Copynumber: 9.3 Consensus size: 13
37201777 ATATCTATCT
*
37201787 ATATAAACATTTC
1 ATATAATCATTTC
* * *
37201800 GTATAAACACTTC
1 ATATAATCATTTC
*
37201813 ATATAATTATTTCC
1 ATATAATCATTT-C
*
37201827 ATATAATCAATTC
1 ATATAATCATTTC
* *
37201840 AAACAATCATTTC
1 ATATAATCATTTC
* *
37201853 ATATATTCATTTT
1 ATATAATCATTTC
*
37201866 ATATAACCA-TT-
1 ATATAATCATTTC
* * *
37201877 AGTATAACCGTCTC
1 A-TATAATCATTTC
37201891 ATATAATCATTTC
1 ATATAATCATTTC
37201904 ATAT
1 ATAT
37201908 TACACATTTA
Statistics
Matches: 82, Mismatches: 22, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
11 1 0.01
12 9 0.11
13 60 0.73
14 12 0.15
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATAATCATTTC
Found at i:37204681 original size:14 final size:14
Alignment explanation
Indices: 37204662--37204689 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37204652 TAACAATGTT
37204662 CGAAAATACTTCTA
1 CGAAAATACTTCTA
37204676 CGAAAATACTTCTA
1 CGAAAATACTTCTA
37204690 TGCAACTCAA
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:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (14 bp):
CGAAAATACTTCTA
Found at i:37205640 original size:6 final size:6
Alignment explanation
Indices: 37205622--37205741 Score: 88
Period size: 6 Copynumber: 19.3 Consensus size: 6
37205612 AAGAAACATT
*
37205622 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* *
37205671 ATCAGA ATCA-A TATCAGGTA AT-AGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA -ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
37205722 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
37205742 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 28
0.72 0.06 0.22
Matches are distributed among these distances:
5 9 0.10
6 65 0.71
7 12 0.13
8 5 0.05
9 1 0.01
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:37205667 original size:31 final size:31
Alignment explanation
Indices: 37205631--37205741 Score: 152
Period size: 31 Copynumber: 3.5 Consensus size: 31
37205621 TATCAGAACT
* *
37205631 AGAATCAGAATCAGAATCAGAATTAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
* *
37205662 AGAATCAGAATCAGAATCA-ATATCAGGTAAT
1 AGAATCAAAATCAGAATCAGA-ATCAGGTAAC
*
37205693 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
37205724 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
37205742 GTGAATGCAA
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
30 1 0.01
31 60 0.83
32 11 0.15
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:37205977 original size:27 final size:27
Alignment explanation
Indices: 37205878--37205977 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
37205868 GCTCAGTTAT
* *
37205878 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGACAGAGCCACCAGAAA
*
37205905 CAGATATTGTGGCAGAGCCACCAG-AA
1 CAGATATTGTGACAGAGCCACCAGAAA
* * * *
37205931 TAGATATTTGTGGCATAGCCATCAGAAA
1 CAGATA-TTGTGACAGAGCCACCAGAAA
* *
37205959 CAGATAATGTGACAAAGCC
1 CAGATATTGTGACAGAGCC
37205978 GCTTAACAGA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
26 6 0.10
27 48 0.79
28 7 0.11
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGACAGAGCCACCAGAAA
Found at i:37206166 original size:22 final size:22
Alignment explanation
Indices: 37206138--37206203 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
37206128 ACAAATACGT
*
37206138 TTGGCACACAGCCATAATCAGA
1 TTGGCACAAAGCCATAATCAGA
* * *
37206160 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGA
*
37206182 TTGACACAAAGCCATAATCAGA
1 TTGGCACAAAGCCATAATCAGA
37206204 AGGCTTTAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGA
Found at i:37206717 original size:27 final size:27
Alignment explanation
Indices: 37206654--37207017 Score: 566
Period size: 27 Copynumber: 13.4 Consensus size: 27
37206644 CAAGGTATCT
* *
37206654 CGGTAATTCCACCCTACAGGGGTATTATTT
1 CGGTAATTCTACCCTACAGGGG---TATTC
** *
37206684 TAGTAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTC
* *
37206711 CGATAATTCTACCCTACAGGGGTATTA
1 CGGTAATTCTACCCTACAGGGGTATTC
37206738 CGGTAATTCTACCCTACAGGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTC
* * *
37206765 CGGTAATTTTACCCTATAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTC
37206792 CGGTAATTCTACCCTACAGGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTC
* * *
37206819 TGATAATTCTACCTTACAGGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTC
* *
37206846 TGGTAATTCTACCCTATAGGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTC
37206873 CGGTAATTCTACCCTACAGGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTC
37206900 CGGTAATTCTACCCTACAGGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTC
37206927 CGGTAATTCTACCCTACAGGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTC
37206954 CGGTAATTCTACCCTACAGGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTC
37206981 CGGTAATTCTACCCTACAGGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTC
37207008 CGGTAATTCT
1 CGGTAATTCT
37207018 CGGTAATTCT
Statistics
Matches: 311, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
27 292 0.94
30 19 0.06
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (27 bp):
CGGTAATTCTACCCTACAGGGGTATTC
Found at i:37206772 original size:54 final size:54
Alignment explanation
Indices: 37206654--37207133 Score: 611
Period size: 54 Copynumber: 8.6 Consensus size: 54
37206644 CAAGGTATCT
* ** *
37206654 CGGTAATTCCACCCTACAGGGGTATTATTTTAGTAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTA---CGGTAATTCTACCCTACAGGGGTATTC
*
37206711 CGATAATTCTACCCTACAGGGGTATTACGGTAATTCTACCCTACAGGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTACGGTAATTCTACCCTACAGGGGTATTC
* * *
37206765 CGGTAATTTTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTACGGTAATTCTACCCTACAGGGGTATTC
* * * *
37206819 TGATAATTCTACCTTACAGGGGTATT-CTGGTAATTCTACCCTATAGGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTAC-GGTAATTCTACCCTACAGGGGTATTC
*
37206873 CGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTACGGTAATTCTACCCTACAGGGGTATTC
*
37206927 CGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTACGGTAATTCTACCCTACAGGGGTATTC
* *
37206981 CGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTCGGTAATTCTACCCTACAAGGGTATTG
1 CGGTAATTCTACCCTACAGGGGTA-T----T-A----CGGTAATTCTACCCTACAGGGGTATTC
* * * * *
37207045 CGATAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTATAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTACGGTAATTCTACCCTACAGGGGTATTC
* * *
37207099 CGGTAATTCTACCCTACAAGGGTATTTCGATAATT
1 CGGTAATTCTACCCTACAGGGGTATTACGGTAATT
37207134 TTGTAAATCG
Statistics
Matches: 381, Mismatches: 30, Indels: 27
0.87 0.07 0.06
Matches are distributed among these distances:
53 1 0.00
54 302 0.79
55 2 0.01
57 25 0.07
59 2 0.01
63 1 0.00
64 48 0.13
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (54 bp):
CGGTAATTCTACCCTACAGGGGTATTACGGTAATTCTACCCTACAGGGGTATTC
Found at i:37206799 original size:81 final size:81
Alignment explanation
Indices: 37206654--37207133 Score: 627
Period size: 81 Copynumber: 5.8 Consensus size: 81
37206644 CAAGGTATCT
* ***
37206654 CGGTAATTCCACCCTACAGGGGTATTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATAATT
1 CGGTAATTCTACCCTACAGGGG---TATTCCGGTAATTCTACCCTACAGGGGTATTTCGATAATT
*
37206719 CTACCCTACAGGGGTATTA
63 CTACCCTACAGGGGTATTC
* * *
37206738 CGGTAATTCTACCCTACAGGGGTATTCCGGTAATTTTACCCTATAGGGGTATTTCGGTAATTCTA
1 CGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
37206803 CCCTACAGGGGTATTC
66 CCCTACAGGGGTATTC
* * * * * * *
37206819 TGATAATTCTACCTTACAGGGGTATTCTGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTA
1 CGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
37206884 CCCTACAGGGGTATTC
66 CCCTACAGGGGTATTC
* *
37206900 CGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTA
1 CGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
37206965 CCCTACAGGGGTATTC
66 CCCTACAGGGGTATTC
* *
37206981 CGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTCGGTAATTCTACCCTACAAGGGTATTGC
1 CGGTAATTCTACCCTACA--GG------GGT-ATTC-CGGTAATTCTACCCTACAGGGGTATTTC
*
37207046 GATAATTCTACCCTACAGGGGTATTT
56 GATAATTCTACCCTACAGGGGTATTC
* * * *
37207072 CGATAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATT
1 CGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCGATAATT
37207134 TTGTAAATCG
Statistics
Matches: 359, Mismatches: 27, Indels: 23
0.88 0.07 0.06
Matches are distributed among these distances:
81 255 0.71
82 3 0.01
83 5 0.01
84 21 0.06
89 5 0.01
90 4 0.01
91 66 0.18
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (81 bp):
CGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA
CCCTACAGGGGTATTC
Found at i:37207031 original size:37 final size:37
Alignment explanation
Indices: 37206977--37207054 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
37206967 CTACAGGGGT
* *
37206977 ATTC-CGGTAATTCTACCCTACAGGGGTATTCCGGTA
1 ATTCTCGGTAATTCTACCCTACAAGGGTATTCCGATA
*
37207013 ATTCTCGGTAATTCTACCCTACAAGGGTATTGCGATA
1 ATTCTCGGTAATTCTACCCTACAAGGGTATTCCGATA
37207050 ATTCT
1 ATTCT
37207055 ACCCTACAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 4 0.11
37 34 0.89
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (37 bp):
ATTCTCGGTAATTCTACCCTACAAGGGTATTCCGATA
Found at i:37207051 original size:27 final size:27
Alignment explanation
Indices: 37207021--37207133 Score: 181
Period size: 27 Copynumber: 4.2 Consensus size: 27
37207011 TAATTCTCGG
*
37207021 TAATTCTACCCTACAAGGGTATTGCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
*
37207048 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
37207075 TAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
37207102 TAATTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
37207129 TAATT
1 TAATT
37207134 TTGTAAATCG
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:37207055 original size:64 final size:64
Alignment explanation
Indices: 37206950--37207081 Score: 212
Period size: 64 Copynumber: 2.1 Consensus size: 64
37206940 CTACAGGGGT
* * *
37206950 ATTC-CGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTA
1 ATTCTCGGTAATTCTACCCTACAAGGGTATTCCGATAATTCTACCCTACAGGGGTATTCCGATA
* *
37207013 ATTCTCGGTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGATA
1 ATTCTCGGTAATTCTACCCTACAAGGGTATTCCGATAATTCTACCCTACAGGGGTATTCCGATA
37207077 ATTCT
1 ATTCT
37207082 ACCCTATAGG
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
63 4 0.06
64 59 0.94
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (64 bp):
ATTCTCGGTAATTCTACCCTACAAGGGTATTCCGATAATTCTACCCTACAGGGGTATTCCGATA
Found at i:37207082 original size:91 final size:91
Alignment explanation
Indices: 37206923--37207108 Score: 302
Period size: 91 Copynumber: 2.1 Consensus size: 91
37206913 CTACAGGGGT
* * *
37206923 ATTC-CGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAA
1 ATTCTCGGTAATTCTACCCTACAAGGGTATTCCGATAATTCTACCCTACAGGGGTATTCCGATAA
37206987 TTCTACCCTACAGGGGTATTCCGGTA
66 TTCTACCCTACAGGGGTATTCCGGTA
* *
37207013 ATTCTCGGTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGATAA
1 ATTCTCGGTAATTCTACCCTACAAGGGTATTCCGATAATTCTACCCTACAGGGGTATTCCGATAA
* *
37207078 TTCTACCCTATAGGGGTATTTCGGTA
66 TTCTACCCTACAGGGGTATTCCGGTA
37207104 ATTCT
1 ATTCT
37207109 ACCCTACAAG
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
90 4 0.05
91 84 0.95
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (91 bp):
ATTCTCGGTAATTCTACCCTACAAGGGTATTCCGATAATTCTACCCTACAGGGGTATTCCGATAA
TTCTACCCTACAGGGGTATTCCGGTA
Found at i:37207108 original size:118 final size:117
Alignment explanation
Indices: 37206896--37207133 Score: 377
Period size: 118 Copynumber: 2.0 Consensus size: 117
37206886 CTACAGGGGT
* * *
37206896 ATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAAT
1 ATTCCGGTAATTCTACCCTACAAGGGTATTCCGATAATTCTACCCTACAGGGGTATTCCGATAAT
* *
37206961 TCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTA
66 TCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAAGGGTATTCCGATA
* *
37207013 ATTCTCGGTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGATAA
1 ATTC-CGGTAATTCTACCCTACAAGGGTATTCCGATAATTCTACCCTACAGGGGTATTCCGATAA
* * *
37207078 TTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATA
65 TTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAAGGGTATTCCGATA
37207131 ATT
1 ATT
37207134 TTGTAAATCG
Statistics
Matches: 110, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
117 4 0.04
118 106 0.96
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.32
Consensus pattern (117 bp):
ATTCCGGTAATTCTACCCTACAAGGGTATTCCGATAATTCTACCCTACAGGGGTATTCCGATAAT
TCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAAGGGTATTCCGATA
Found at i:37207147 original size:27 final size:27
Alignment explanation
Indices: 37207117--37207410 Score: 96
Period size: 27 Copynumber: 10.9 Consensus size: 27
37207107 CTACCCTACA
*
37207117 AGGGTATTTCGATAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTGTAAATCG
*** * *
37207144 AGGGTAAAACGGTAATTCTGTAAATCA
1 AGGGTATTTCGGTAATTTTGTAAATCG
** *
37207171 AGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCGGTAATTTTGTAAATCG
** ** **
37207198 AGGGTATTTTAGTAATTTTACAGGTCG
1 AGGGTATTTCGGTAATTTTGTAAATCG
* ***
37207225 AGGGTATTTCAGTAATTTCACAAATC-
1 AGGGTATTTCGGTAATTTTGTAAATCG
* ** *
37207251 AGGAGTATTTTGGTAATTTTACAAA-CT
1 AGG-GTATTTCGGTAATTTTGTAAATCG
* * ** *
37207278 AGGGGTATTTTGATAATTTTACAAA-CC
1 A-GGGTATTTCGGTAATTTTGTAAATCG
* ** *
37207305 AGTGGTATTTTGGTAATTTTACAAA-CT
1 AG-GGTATTTCGGTAATTTTGTAAATCG
* * * *
37207332 AGGGTTATTTTGGTAATTTTATAAACCA
1 AGGG-TATTTCGGTAATTTTGTAAATCG
* ** ** *
37207360 AGCGTATTTTAGTAATTTTACAAA-CC
1 AGGGTATTTCGGTAATTTTGTAAATCG
* *
37207386 AGGGGTATTTTGGTAATTTGGTAAA
1 A-GGGTATTTCGGTAATTTTGTAAA
37207411 CTAAAGTATT
Statistics
Matches: 220, Mismatches: 38, Indels: 18
0.80 0.14 0.07
Matches are distributed among these distances:
26 12 0.05
27 202 0.92
28 6 0.03
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTGTAAATCG
Found at i:37207157 original size:145 final size:145
Alignment explanation
Indices: 37206869--37207162 Score: 389
Period size: 145 Copynumber: 2.0 Consensus size: 145
37206859 CTATAGGGGT
* * *
37206869 ATTC-CGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAA
1 ATTCTCGGTAATTCTACCCTACAAGGGTATTCCGATAATTCTACCCTACAGGGGTATTCCGATAA
* * **
37206933 TTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTAC
66 TTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAAGGGTATTCCGATAATTCTACAATAC
***
37206998 AGGGGTATTCCGGTA
131 AGGGGTAAAACGGTA
* *
37207013 ATTCTCGGTAATTCTACCCTACAAGGGTATTGCGATAATTCTACCCTACAGGGGTATTTCGATAA
1 ATTCTCGGTAATTCTACCCTACAAGGGTATTCCGATAATTCTACCCTACAGGGGTATTCCGATAA
* * * *
37207078 TTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTTTGTA-AAT
66 TTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAAGGGTATTCCGATAA--TTCTACAAT
37207142 -C-GAGGGTAAAACGGTA
129 ACAG-GGGTAAAACGGTA
37207158 ATTCT
1 ATTCT
37207163 GTAAATCAAG
Statistics
Matches: 130, Mismatches: 16, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
144 5 0.04
145 120 0.92
146 1 0.01
147 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (145 bp):
ATTCTCGGTAATTCTACCCTACAAGGGTATTCCGATAATTCTACCCTACAGGGGTATTCCGATAA
TTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAAGGGTATTCCGATAATTCTACAATAC
AGGGGTAAAACGGTA
Found at i:37207411 original size:27 final size:27
Alignment explanation
Indices: 37207172--37207404 Score: 245
Period size: 27 Copynumber: 8.6 Consensus size: 27
37207162 TGTAAATCAA
* **
37207172 GGGTACTTTGGTAATTTTACAAGTC-G
1 GGGTATTTTGGTAATTTTACAAACCAG
* ***
37207198 AGGGTATTTTAGTAATTTTACAGGTC-G
1 -GGGTATTTTGGTAATTTTACAAACCAG
** * *
37207225 AGGGTATTTCAGTAATTTCACAAATCAG
1 -GGGTATTTTGGTAATTTTACAAACCAG
* *
37207253 GAGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
37207280 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
37207307 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
37207334 GGTTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
37207361 GCGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
37207388 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
37207405 GGTAAACTAA
Statistics
Matches: 174, Mismatches: 31, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
27 173 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:37212273 original size:219 final size:217
Alignment explanation
Indices: 37211875--37212289 Score: 697
Period size: 219 Copynumber: 1.9 Consensus size: 217
37211865 GTTTTAATTA
37211875 GAAGTATATATGGTTAGGTTATAAAATGGGATTTAAAGTGTTAAAAATCGGGTTAAATGAAGAGT
1 GAAGTATATATGGTTAGGTTATAAAATGGGATTTAAAGTGTTAAAAATCGGGTTAAATGAAGAGT
* * *
37211940 AAGTCATCGAGTTACGCGATTGGGCTGGGTCAACCTTGCAGAAAATTGTAGCAAAGTCACGACAC
66 AAGTCACCGAGTTACGCGATTGGGCTGCGTCAACCCTGCAGAAAATTGTAGCAAAGTCACGACAC
* * * *
37212005 AGGGGTTCTATGTCGAGACATCCTTGGCAGTACACCGATATTGCAACATAGGGGTTTTGTGTCAT
131 AGGGGTTCCATGTCGAGACATCCCTGGCAGTACACCGATATTACAACATAGGGGTTTTATGTCAT
37212070 GATACGTCTGTCAATTTTATAG
196 GATACGTCTGTCAATTTTATAG
37212092 GAAGTATATATGGTTTTAGGTTATAAAATGGGATTTAAAGTGTTAAAAATCGGGTTAAATGAAGA
1 GAAGTATATATGG--TTAGGTTATAAAATGGGATTTAAAGTGTTAAAAATCGGGTTAAATGAAGA
* *
37212157 GTAAGTCACCGGGTTACGCGATTGGG-TCGCGTCAACCCTGCAGAAAATTGTAGCGAAGTCACGA
64 GTAAGTCACCGAGTTACGCGATTGGGCT-GCGTCAACCCTGCAGAAAATTGTAGCAAAGTCACGA
* *
37212221 CACAGGGGTTCCATGTCGCGACATCCCTGGTAGTACACCGATATTACAACATAGGGGTTTTATGT
128 CACAGGGGTTCCATGTCGAGACATCCCTGGCAGTACACCGATATTACAACATAGGGGTTTTATGT
37212286 CATG
193 CATG
37212290 GCACTGACTT
Statistics
Matches: 184, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
217 13 0.07
218 1 0.01
219 170 0.92
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (217 bp):
GAAGTATATATGGTTAGGTTATAAAATGGGATTTAAAGTGTTAAAAATCGGGTTAAATGAAGAGT
AAGTCACCGAGTTACGCGATTGGGCTGCGTCAACCCTGCAGAAAATTGTAGCAAAGTCACGACAC
AGGGGTTCCATGTCGAGACATCCCTGGCAGTACACCGATATTACAACATAGGGGTTTTATGTCAT
GATACGTCTGTCAATTTTATAG
Found at i:37216360 original size:43 final size:42
Alignment explanation
Indices: 37216243--37216396 Score: 184
Period size: 42 Copynumber: 3.6 Consensus size: 42
37216233 TAAGTTTATG
* * * *
37216243 TGTAAGACCATATCTGGGATATGGCATC-AGTGTGAGACTTCG
1 TGTAAAACCATATCTGGGATATGGCATCGA-TATGAGATTTCA
* *
37216285 TGTAAAATCATATCTAGGATATGGCATCGATATGAGATTTCA
1 TGTAAAACCATATCTGGGATATGGCATCGATATGAGATTTCA
* * *
37216327 TGTAAAACCATAGCTGGGCTATTGGCATCGATATGAGATTACA
1 TGTAAAACCATATCTGGGATA-TGGCATCGATATGAGATTTCA
* *
37216370 TGTAAGACCATATCTGGGAAATGGCAT
1 TGTAAAACCATATCTGGGATATGGCAT
37216397 TGGTATTGTA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 57 0.60
43 38 0.40
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (42 bp):
TGTAAAACCATATCTGGGATATGGCATCGATATGAGATTTCA
Found at i:37231479 original size:37 final size:39
Alignment explanation
Indices: 37231420--37231523 Score: 94
Period size: 37 Copynumber: 2.8 Consensus size: 39
37231410 CAAAAATAAA
* *
37231420 ATTATTTTAATAGTTTAATATTAAATTAA-ATTTAA-T-
1 ATTATCTTAATAGTTTAATATTAAATTAATATTAAATTG
* *
37231456 ACTTATCTTAATAGTATT-TTATTAATTTAATATTAAATTG
1 A-TTATCTTAATAGT-TTAATATTAAATTAATATTAAATTG
* *
37231496 ATTATCTTAATA-TTAAAT-TTAATTTAAT
1 ATTATCTTAATAGTTTAATATTAAATTAAT
37231524 TTTATCTTGT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
36 1 0.02
37 33 0.59
38 9 0.16
39 12 0.21
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (39 bp):
ATTATCTTAATAGTTTAATATTAAATTAATATTAAATTG
Found at i:37232559 original size:9 final size:9
Alignment explanation
Indices: 37232545--37232577 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
37232535 TTATATTTGT
37232545 TTTATAATA
1 TTTATAATA
37232554 TTTATAATA
1 TTTATAATA
37232563 TTTATAATA
1 TTTATAATA
37232572 TTTATA
1 TTTATA
37232578 TTATGTAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTATAATA
Found at i:37233014 original size:45 final size:46
Alignment explanation
Indices: 37232960--37233052 Score: 161
Period size: 45 Copynumber: 2.0 Consensus size: 46
37232950 ATTAGGTAAG
37232960 AATGCCACTAGAACTATTGTATAATCATTC-TAAAATTTGGGATAA
1 AATGCCACTAGAACTATTGTATAATCATTCTTAAAATTTGGGATAA
* *
37233005 AATGTCACTAGAACTATTGTATAATCATTCTTGAAATTTGGGATAA
1 AATGCCACTAGAACTATTGTATAATCATTCTTAAAATTTGGGATAA
37233051 AA
1 AA
37233053 AACCTTGTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 29 0.64
46 16 0.36
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (46 bp):
AATGCCACTAGAACTATTGTATAATCATTCTTAAAATTTGGGATAA
Found at i:37240272 original size:27 final size:27
Alignment explanation
Indices: 37240234--37240386 Score: 137
Period size: 27 Copynumber: 5.7 Consensus size: 27
37240224 CCCTAATTGA
*
37240234 TAAAATGACTGTTTTGCTCTGATGTGG
1 TAAAATGACTGTTTTGCCCTGATGTGG
* ** *
37240261 TAAAATTACTGTTTTGCCCTTTTATGG
1 TAAAATGACTGTTTTGCCCTGATGTGG
* *
37240288 TAAAATGACTATTTTGCCCTTG-TGTAG
1 TAAAATGACTGTTTTGCCC-TGATGTGG
* * *
37240315 TAAAATGGCTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTGATGTGG
* * * * *
37240342 TAAAATTACTGTTTCGCCCTTATATGA
1 TAAAATGACTGTTTTGCCCTGATGTGG
* *
37240369 TAAATTAACTGTTTTGCC
1 TAAAATGACTGTTTTGCC
37240387 TCTATTTGAT
Statistics
Matches: 102, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 1 0.01
27 100 0.98
28 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTGATGTGG
Found at i:37240297 original size:54 final size:54
Alignment explanation
Indices: 37240234--37240386 Score: 157
Period size: 54 Copynumber: 2.8 Consensus size: 54
37240224 CCCTAATTGA
* *
37240234 TAAAATGACTGTTTTGCTCTGATGTGGTAAAATTACTGTTTTGCCCTTTTATGG
1 TAAAATGACTGTTTTGCCCTGATGTGGTAAAATTACTGTTTTGCCCTTATATGG
* * ** * *
37240288 TAAAATGACTATTTTGCCCTTG-TGTAGTAAAATGGCTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCC-TGATGTGGTAAAATTACTGTTTTGCCCTTATATGG
* * * * *
37240342 TAAAATTACTGTTTCGCCCTTATATGAT-AAATTAACTGTTTTGCC
1 TAAAATGACTGTTTTGCCCTGATGTGGTAAAATT-ACTGTTTTGCC
37240387 TCTATTTGAT
Statistics
Matches: 78, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
53 5 0.06
54 71 0.91
55 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (54 bp):
TAAAATGACTGTTTTGCCCTGATGTGGTAAAATTACTGTTTTGCCCTTATATGG
Found at i:37240384 original size:81 final size:81
Alignment explanation
Indices: 37240234--37240386 Score: 216
Period size: 81 Copynumber: 1.9 Consensus size: 81
37240224 CCCTAATTGA
* * * * * *
37240234 TAAAATGACTGTTTTGCTCTGATGTGGTAAAATTACTGTTTTGCCCTTTTATGGTAAAATGACTA
1 TAAAATGACTATTTTGCCCTGATGTGGTAAAATTACTGTTTCGCCCTTATATGATAAAATAACTA
37240299 TTTTGCCCTTGTGTAG
66 TTTTGCCCTTGTGTAG
* * * *
37240315 TAAAATGGCTATTTTGCCCTTATGTGGTAAAATTACTGTTTCGCCCTTATATGATAAATTAACTG
1 TAAAATGACTATTTTGCCCTGATGTGGTAAAATTACTGTTTCGCCCTTATATGATAAAATAACTA
37240380 TTTTGCC
66 TTTTGCC
37240387 TCTATTTGAT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 62 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (81 bp):
TAAAATGACTATTTTGCCCTGATGTGGTAAAATTACTGTTTCGCCCTTATATGATAAAATAACTA
TTTTGCCCTTGTGTAG
Found at i:37240739 original size:18 final size:18
Alignment explanation
Indices: 37240716--37240752 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
37240706 GGAGTTGCAT
*
37240716 ACTGTTCACTGTTCCTGC
1 ACTGTTCACTGTTACTGC
*
37240734 ACTGTTTACTGTTACTGC
1 ACTGTTCACTGTTACTGC
37240752 A
1 A
37240753 ATGGGCCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.16, C:0.27, G:0.16, T:0.41
Consensus pattern (18 bp):
ACTGTTCACTGTTACTGC
Found at i:37244543 original size:16 final size:16
Alignment explanation
Indices: 37244522--37244552 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37244512 TTCACTATTA
*
37244522 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
37244538 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
37244553 GCGTGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:37259568 original size:16 final size:16
Alignment explanation
Indices: 37259505--37259572 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
37259495 CAAATAATAT
* *
37259505 TATTTTAATAGTTTAA
1 TATTTTATTAATTTAA
**
37259521 TATTAAATTTAATTTAA
1 TATTTTA-TTAATTTAA
37259538 TACTTATT-TT-A-TTAA
1 TA-TT-TTATTAATTTAA
37259553 TATTTTATTAATTTAA
1 TATTTTATTAATTTAA
37259569 TATT
1 TATT
37259573 AAAGTAATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
13 2 0.05
14 4 0.10
15 7 0.17
16 14 0.35
17 11 0.28
18 2 0.05
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (16 bp):
TATTTTATTAATTTAA
Found at i:37259632 original size:11 final size:11
Alignment explanation
Indices: 37259616--37259642 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
37259606 ATAAACATTC
37259616 TATTATTTTAA
1 TATTATTTTAA
37259627 TATTATTTTAA
1 TATTATTTTAA
37259638 TATTA
1 TATTA
37259643 AAGTGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTATTTTAA
Found at i:37259744 original size:30 final size:30
Alignment explanation
Indices: 37259708--37259768 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
37259698 GCCTTGGGTT
*
37259708 ATTATTTTTTACACACTTGAATTTAAGAGA
1 ATTATTTTTTACACACTTGAATTCAAGAGA
37259738 ATTATTTTTTACACACTTGAATTCAAGAGA
1 ATTATTTTTTACACACTTGAATTCAAGAGA
37259768 A
1 A
37259769 AGTTGTAGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (30 bp):
ATTATTTTTTACACACTTGAATTCAAGAGA
Found at i:37263562 original size:40 final size:40
Alignment explanation
Indices: 37263479--37263699 Score: 243
Period size: 40 Copynumber: 5.5 Consensus size: 40
37263469 CCCAAGTAAT
** * *
37263479 CTTCGGGAT-TTAG-CCGGATATAACCACTTGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
37263517 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
37263557 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
37263597 CTTCTGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * * *
37263637 CTTCGGATCTTAGTCCGGTTATAGTCACCTAACACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAATGC
*
37263678 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
37263700 CATTCGAATA
Statistics
Matches: 152, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.11
40 95 0.62
41 29 0.19
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:37266731 original size:42 final size:42
Alignment explanation
Indices: 37266644--37266801 Score: 115
Period size: 42 Copynumber: 3.7 Consensus size: 42
37266634 TAGGGTTACC
* * * * *
37266644 GAGACTATGTGTAAGAACATATTTGGGATATGGCGTCAATAT
1 GAGACTTTGTGTAAGACCATATCTGGGATATAGCATCAATAT
* * *
37266686 GAGACTTTGTGTAAGACCATATCTGGGATATAGTATCGATGT
1 GAGACTTTGTGTAAGACCATATCTGGGATATAGCATCAATAT
* * * * * *
37266728 GAGA-TTTCGTGTAAGACTATAGT-TAGGCTATTGGCATCGATAC
1 GAGACTTT-GTGTAAGACCATA-TCTGGGATA-TAGCATCAATAT
**
37266771 GAGA-TTACATGTAAGACCATATCTGGGATAT
1 GAGACTT-TGTGTAAGACCATATCTGGGATAT
37266802 GACATTGGCA
Statistics
Matches: 91, Mismatches: 20, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
41 3 0.03
42 57 0.63
43 31 0.34
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (42 bp):
GAGACTTTGTGTAAGACCATATCTGGGATATAGCATCAATAT
Found at i:37268791 original size:22 final size:23
Alignment explanation
Indices: 37268766--37268830 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 23
37268756 AGTCGTTATA
37268766 GTATAATATTTTATAA-AAATAT
1 GTATAATATTTTATAATAAATAT
* *
37268788 GTATTTATAGTTTTTATAATATATAT
1 GTA-TAATA--TTTTATAATAAATAT
*
37268814 TTATAAT-TTTTATAATA
1 GTATAATATTTTATAATA
37268831 TAATTTCATA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
22 13 0.37
23 4 0.11
25 11 0.31
26 7 0.20
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54
Consensus pattern (23 bp):
GTATAATATTTTATAATAAATAT
Found at i:37268831 original size:22 final size:22
Alignment explanation
Indices: 37268783--37268861 Score: 85
Period size: 22 Copynumber: 3.7 Consensus size: 22
37268773 ATTTTATAAA
* *
37268783 AATATGTATTTATAGTTTTTAT
1 AATATATATTTATAATTTTTAT
37268805 AATATATATTTATAATTTTTAT
1 AATATATATTTATAATTTTTAT
*
37268827 AATATA-ATTTCATAA--ATTAT
1 AATATATATTT-ATAATTTTTAT
*
37268847 AATATAGATTT-TAAT
1 AATATATATTTATAAT
37268862 AATATATGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
19 3 0.06
20 10 0.20
21 8 0.16
22 30 0.59
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (22 bp):
AATATATATTTATAATTTTTAT
Found at i:37268846 original size:20 final size:21
Alignment explanation
Indices: 37268801--37268867 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 21
37268791 TTTATAGTTT
* *
37268801 TTATAATATATATTTATAATTT
1 TTATAATATAGATTTATAA-TA
37268823 TTATAATATA-ATTTCATAA-A
1 TTATAATATAGATTT-ATAATA
37268843 TTATAATATAGATTT-TAATA
1 TTATAATATAGATTTATAATA
*
37268863 ATATA
1 TTATA
37268868 TGTTTTATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 3 0.08
20 15 0.38
21 8 0.20
22 14 0.35
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (21 bp):
TTATAATATAGATTTATAATA
Found at i:37268946 original size:22 final size:21
Alignment explanation
Indices: 37268907--37268953 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
37268897 TTTATAATAT
*
37268907 ATTTTTAATACATATTTATAG
1 ATTTTTAATACATATTTATAA
* *
37268928 ATTTTGTAATATATTTTTATAA
1 ATTTT-TAATACATATTTATAA
37268950 ATTT
1 ATTT
37268954 ATATTTTATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (21 bp):
ATTTTTAATACATATTTATAA
Found at i:37271232 original size:22 final size:22
Alignment explanation
Indices: 37271197--37271238 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
37271187 TAACCGATTG
*
37271197 TAGGCTACTTGTGTGTGGAATA
1 TAGGCTACTCGTGTGTGGAATA
*
37271219 TAGGCTGCTCGTGTGTGGAA
1 TAGGCTACTCGTGTGTGGAA
37271239 CTCGTCAACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.12, G:0.36, T:0.33
Consensus pattern (22 bp):
TAGGCTACTCGTGTGTGGAATA
Found at i:37276946 original size:26 final size:26
Alignment explanation
Indices: 37276911--37276974 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 26
37276901 CATACCTTAA
*
37276911 CTCTTATGAGCATCCCGA-TATA-TGG
1 CTCTTATGAGCATCCC-ATTAAATTGG
*
37276936 CTCTTCATGAGCTTCCCATTAAATTGG
1 CTCTT-ATGAGCATCCCATTAAATTGG
37276963 CTCTTTATGAGC
1 CTC-TTATGAGC
37276975 TTTCTGACAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 6 0.18
26 13 0.39
27 12 0.36
28 2 0.06
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (26 bp):
CTCTTATGAGCATCCCATTAAATTGG
Found at i:37277093 original size:24 final size:25
Alignment explanation
Indices: 37276997--37277122 Score: 77
Period size: 24 Copynumber: 5.2 Consensus size: 25
37276987 CTCGCTTGAA
* * *
37276997 CTTCTCGATATATGGCTATTCG-GAG
1 CTTCCCGAT-TATGGCTCTTTGTGAG
37277022 CTTCCC-ATTACATGGCTCTTAT-TGAG
1 CTTCCCGATT--ATGGCTCTT-TGTGAG
* * *
37277048 TTTCCCGA-T-GGGCTCTTCGTGAG
1 CTTCCCGATTATGGCTCTTTGTGAG
* * *
37277071 CTTCCTGA-TATGGTTCTTTGTGAA
1 CTTCCCGATTATGGCTCTTTGTGAG
*
37277095 CTTCCCGATTATGGCTC-TTATGAG
1 CTTCCCGATTATGGCTCTTTGTGAG
37277119 CTTC
1 CTTC
37277123 TCGTTACATA
Statistics
Matches: 77, Mismatches: 16, Indels: 17
0.70 0.15 0.15
Matches are distributed among these distances:
23 19 0.25
24 28 0.36
25 20 0.26
26 9 0.12
27 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.39
Consensus pattern (25 bp):
CTTCCCGATTATGGCTCTTTGTGAG
Found at i:37281937 original size:5 final size:5
Alignment explanation
Indices: 37281927--37281971 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
37281917 GAACCAAAAC
* * *
37281927 AAAGA AGAGA AAGAGA AGAGA AAAGA AAAGA AAAGA AAAGG AAAG
1 AAAGA AAAGA AA-AGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAG
37281972 TCCCTATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
5 30 0.88
6 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:37293257 original size:26 final size:26
Alignment explanation
Indices: 37293227--37293369 Score: 111
Period size: 26 Copynumber: 5.7 Consensus size: 26
37293217 CTTATGAGCG
*
37293227 TCCCG-TTATATGGCTCTTCGTGAACT
1 TCCCGATTA-ATGGCTCTTCCTGAACT
* ** *
37293253 TCCCGATTAAAGGCTCTTTGTGAGCT
1 TCCCGATTAATGGCTCTTCCTGAACT
* **
37293279 TCCTGATTAATGGCT-TTCCAAAACT
1 TCCCGATTAATGGCTCTTCCTGAACT
* *
37293304 TCCCGA-T-ATGGCTC-GCTTGAACT
1 TCCCGATTAATGGCTCTTCCTGAACT
* *
37293327 TCCCGA-TATATGGCT-ATCCAGAACT
1 TCCCGATTA-ATGGCTCTTCCTGAACT
37293352 TCCCGATTAATGGCTCTT
1 TCCCGATTAATGGCTCTT
37293370 TGGAGCTACC
Statistics
Matches: 91, Mismatches: 19, Indels: 14
0.73 0.15 0.11
Matches are distributed among these distances:
23 18 0.20
24 1 0.01
25 34 0.37
26 35 0.38
27 3 0.03
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (26 bp):
TCCCGATTAATGGCTCTTCCTGAACT
Found at i:37293350 original size:25 final size:25
Alignment explanation
Indices: 37293288--37293366 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
37293278 TTCCTGATTA
* *
37293288 ATGGCTTTCCAAAACTTCCCG--AT
1 ATGGCTATCCAGAACTTCCCGATAT
** **
37293311 ATGGCTCGCTTGAACTTCCCGATAT
1 ATGGCTATCCAGAACTTCCCGATAT
37293336 ATGGCTATCCAGAACTTCCCGAT-T
1 ATGGCTATCCAGAACTTCCCGATAT
37293360 AATGGCT
1 -ATGGCT
37293367 CTTTGGAGCT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
23 16 0.36
24 1 0.02
25 27 0.61
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (25 bp):
ATGGCTATCCAGAACTTCCCGATAT
Found at i:37293399 original size:24 final size:24
Alignment explanation
Indices: 37293372--37293483 Score: 82
Period size: 25 Copynumber: 4.6 Consensus size: 24
37293362 TGGCTCTTTG
*
37293372 GAGCTACCCGTTATTAGCTCATAT
1 GAGCTTCCCGTTATTAGCTCATAT
* * *
37293396 GAGCTTCCTGATTA-TGGCTCTTAT
1 GAGCTTCCCG-TTATTAGCTCATAT
* **
37293420 GAGCTTCCCGTTATACAGCTCGGAT
1 GAGCTTCCCGTTAT-TAGCTCATAT
* * * *
37293445 AAGCTTCCCATTATACAGCTCACAT
1 GAGCTTCCCGTTAT-TAGCTCATAT
*
37293470 GAGCTTCTCGTTAT
1 GAGCTTCCCGTTAT
37293484 ATGGCTCGAG
Statistics
Matches: 69, Mismatches: 16, Indels: 5
0.77 0.18 0.06
Matches are distributed among these distances:
23 3 0.04
24 25 0.36
25 41 0.59
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGTTATTAGCTCATAT
Found at i:37293458 original size:48 final size:49
Alignment explanation
Indices: 37293350--37293512 Score: 125
Period size: 48 Copynumber: 3.3 Consensus size: 49
37293340 CTATCCAGAA
* * ** *
37293350 CTTCCCGATTAATGGCTCTT-TGGAGCTACCCGTTAT-TAGCTCATATGAG
1 CTTCCCAATT-ATGGCTCTTAT-GAGCTTCCCGTTATATAGCTCGGATAAG
** *
37293399 CTTCCTGATTATGGCTCTTATGAGCTTCCCGTTATACAGCTCGGATAAG
1 CTTCCCAATTATGGCTCTTATGAGCTTCCCGTTATATAGCTCGGATAAG
* ** * * *
37293448 CTTCCC-ATTATACAGCTCACATGAGCTTCTCGTTATATGGCTCGAGAAAGAG
1 CTTCCCAATTAT--GGCTCTTATGAGCTTCCCGTTATATAGCTCG-GATA-AG
37293500 CTTCCCAATTATG
1 CTTCCCAATTATG
37293513 TACTTTAATA
Statistics
Matches: 92, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
48 27 0.29
49 24 0.26
50 25 0.27
51 3 0.03
52 8 0.09
53 5 0.05
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (49 bp):
CTTCCCAATTATGGCTCTTATGAGCTTCCCGTTATATAGCTCGGATAAG
Found at i:37293490 original size:25 final size:25
Alignment explanation
Indices: 37293418--37293484 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
37293408 TATGGCTCTT
**
37293418 ATGAGCTTCCCGTTATACAGCTCGG
1 ATGAGCTTCCCGTTATACAGCTCAC
* *
37293443 ATAAGCTTCCCATTATACAGCTCAC
1 ATGAGCTTCCCGTTATACAGCTCAC
*
37293468 ATGAGCTTCTCGTTATA
1 ATGAGCTTCCCGTTATA
37293485 TGGCTCGAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATACAGCTCAC
Found at i:37298606 original size:31 final size:29
Alignment explanation
Indices: 37298571--37298673 Score: 98
Period size: 31 Copynumber: 3.4 Consensus size: 29
37298561 AATTAAATTA
* *
37298571 AATTTAATATTTATCTAGATAGTATTTTATT
1 AATTTAATATTTATAT-GA-AATATTTTATT
* **
37298602 AATTTAATATTAATATGAAATATTAAATTT
1 AATTTAATATTTATATGAAATATTTTA-TT
* *
37298632 AATTTAATATTTATTTGGAAAATATTTTAGT
1 AATTTAATATTTATAT-G-AAATATTTTATT
37298663 AATTTAATATT
1 AATTTAATATT
37298674 AATGTAATTA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
29 6 0.10
30 18 0.31
31 27 0.46
32 8 0.14
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (29 bp):
AATTTAATATTTATATGAAATATTTTATT
Found at i:37298636 original size:61 final size:61
Alignment explanation
Indices: 37298562--37298676 Score: 176
Period size: 61 Copynumber: 1.9 Consensus size: 61
37298552 TGAATTTATA
* * *
37298562 ATTAAATTAAATTTAATATTTATCTAGATAGTATTTTATTAATTTAATATTAATATGAAAT
1 ATTAAATTAAATTTAATATTTATCTAGAAAATATTTTAGTAATTTAATATTAATATGAAAT
* * *
37298623 ATTAAATTTAATTTAATATTTATTTGGAAAATATTTTAGTAATTTAATATTAAT
1 ATTAAATTAAATTTAATATTTATCTAGAAAATATTTTAGTAATTTAATATTAAT
37298677 GTAATTAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.50
Consensus pattern (61 bp):
ATTAAATTAAATTTAATATTTATCTAGAAAATATTTTAGTAATTTAATATTAATATGAAAT
Found at i:37299979 original size:17 final size:19
Alignment explanation
Indices: 37299940--37299981 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
37299930 TTAAAATAAG
*
37299940 TAAATTAATCAATGTACAT
1 TAAATTAATCAATGTAAAT
37299959 TAAATTAA-CAA-GTAAAT
1 TAAATTAATCAATGTAAAT
37299976 TAAATT
1 TAAATT
37299982 TTTTGTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.50
18 3 0.14
19 8 0.36
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (19 bp):
TAAATTAATCAATGTAAAT
Found at i:37301750 original size:32 final size:33
Alignment explanation
Indices: 37301699--37301795 Score: 81
Period size: 32 Copynumber: 2.8 Consensus size: 33
37301689 ACAGTGTATT
* * * *
37301699 TAATATTATTATTTTAATATATTTATGTTTTTA
1 TAATTTTATTATATAAATATATTTATGTATTTA
*
37301732 -AATTTTATTATATAAATAT-TTTAATCTATTTA
1 TAATTTTATTATATAAATATATTT-ATGTATTTA
*
37301764 TAATTTTAATATCATATATATATATATTATGT
1 TAATTTT-AT-T-ATATAAATATAT-TTATGT
37301796 GTTATTAAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
31 3 0.06
32 23 0.46
33 6 0.12
34 2 0.04
35 1 0.02
36 9 0.18
37 4 0.08
38 2 0.04
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (33 bp):
TAATTTTATTATATAAATATATTTATGTATTTA
Found at i:37301784 original size:40 final size:40
Alignment explanation
Indices: 37301708--37301791 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
37301698 TTAATATTAT
** **
37301708 TATTTTAATATATTTATGTTTTTAAATTTTATTATATAAA
1 TATTTTAATATATTTATAATTTTAAATCATATTATATAAA
* *
37301748 TATTTTAATCTATTTATAATTTTAATATCATA-TATATATA
1 TATTTTAATATATTTATAATTTTAA-ATCATATTATATAAA
37301788 TATT
1 TATT
37301792 ATGTGTTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
40 33 0.89
41 4 0.11
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (40 bp):
TATTTTAATATATTTATAATTTTAAATCATATTATATAAA
Found at i:37305414 original size:40 final size:40
Alignment explanation
Indices: 37305320--37305544 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
37305310 TATTCGAATG
* *
37305320 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * *
37305361 ATAACCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* * *
37305401 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
37305441 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
37305481 ATATCCGGGCTAAGTCGCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
37305521 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
37305545 CTTGCGCAAG
Statistics
Matches: 157, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 126 0.80
41 30 0.19
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:37305491 original size:80 final size:80
Alignment explanation
Indices: 37305320--37305580 Score: 294
Period size: 80 Copynumber: 3.3 Consensus size: 80
37305310 TATTCGAATG
* * * *
37305320 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
37305385 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTCGCT
* * * * *
37305401 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
37305466 TTTGTGCTAG-CGACT
66 TTTGTGCGAGTCG-CT
* * * *
37305481 ATATCCGGGCTAAGTCGCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGC-
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * * * *
37305545 CTTGCGCAAGTAGTT
66 TTTGTGCGAGTCGCT
*
37305560 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
37305581 ATTACTTGAG
Statistics
Matches: 151, Mismatches: 27, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
78 13 0.09
79 15 0.10
80 92 0.61
81 31 0.21
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTCGCT
Found at i:37305534 original size:120 final size:121
Alignment explanation
Indices: 37305320--37305544 Score: 312
Period size: 120 Copynumber: 1.9 Consensus size: 121
37305310 TATTCGAATG
** * *
37305320 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * *
37305385 ATTTGTGCGAGTTGCTATATTCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 ATTTATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
* *
37305441 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCGCGAAGG
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATC-CGAAGG
*
37305504 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGC
65 CATTTATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGC
37305545 CTTGCGCAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
119 4 0.04
120 56 0.62
121 31 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (121 bp):
ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTTATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
Found at i:37310725 original size:21 final size:21
Alignment explanation
Indices: 37310701--37310742 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
37310691 AAATTGGTAT
37310701 TTGGT-TTCTTGGGTGCTTTTG
1 TTGGTGTT-TTGGGTGCTTTTG
*
37310722 TTGGTGTTTTGGTTGCTTTTG
1 TTGGTGTTTTGGGTGCTTTTG
37310743 CACTGATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.00, C:0.07, G:0.33, T:0.60
Consensus pattern (21 bp):
TTGGTGTTTTGGGTGCTTTTG
Found at i:37314691 original size:40 final size:40
Alignment explanation
Indices: 37314647--37314760 Score: 100
Period size: 35 Copynumber: 3.0 Consensus size: 40
37314637 CAATTCACCG
37314647 TTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCA
1 TTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCA
* * * *
37314687 TTGGTTAATCCGACTAGCA-C-GGGGTGCA-AA-TA-T-T-G
1 TTGGTTTATCCAACTAG-AGCTGGGCT-CACAATTATTATCA
*
37314722 TTGGTTTATCCAACTAGAGTTGGGCTCAC-ATTCATTATC
1 TTGGTTTATCCAACTAGAGCTGGGCTCACAATT-ATTATC
37314761 GTCGATTAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 20
0.67 0.10 0.24
Matches are distributed among these distances:
34 1 0.02
35 18 0.32
36 6 0.11
37 2 0.04
38 3 0.05
39 7 0.12
40 18 0.32
41 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (40 bp):
TTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCA
Found at i:37314733 original size:75 final size:75
Alignment explanation
Indices: 37314646--37314854 Score: 312
Period size: 75 Copynumber: 2.8 Consensus size: 75
37314636 GCAATTCACC
* * * * *
37314646 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATT-ATTATCATTGGTTAATCCGACTAGCACGGG
1 GTTGGTTTATCCAACTAGAGTTGGGCTCAC-ATTCATTATCGTCGATTAATCCGACTAGCACGAG
37314710 GTGCAAATATT
65 GTGCAAATATT
* * *
37314721 GTTGGTTTATCCAACTAGAGTTGGGCTCACATTCATTATCGTCGATTAATCCAACTAACACTAGG
1 GTTGGTTTATCCAACTAGAGTTGGGCTCACATTCATTATCGTCGATTAATCCGACTAGCACGAGG
37314786 TGCAAATATT
66 TGCAAATATT
* *
37314796 GTTGGTTTATCCAACTAGAGTTGGACTCACATTCATTACCGTCGATTAATCCGACTAGC
1 GTTGGTTTATCCAACTAGAGTTGGGCTCACATTCATTATCGTCGATTAATCCGACTAGC
37314855 GTTGGGCGCA
Statistics
Matches: 121, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
74 3 0.02
75 118 0.98
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (75 bp):
GTTGGTTTATCCAACTAGAGTTGGGCTCACATTCATTATCGTCGATTAATCCGACTAGCACGAGG
TGCAAATATT
Found at i:37316849 original size:11 final size:12
Alignment explanation
Indices: 37316824--37316853 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
37316814 GCACAAATGG
37316824 AAAAATGGACAA
1 AAAAATGGACAA
37316836 AAAAATGGACAA
1 AAAAATGGACAA
37316848 AAAAAT
1 AAAAAT
37316854 AATAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.70, C:0.07, G:0.13, T:0.10
Consensus pattern (12 bp):
AAAAATGGACAA
Found at i:37322026 original size:11 final size:11
Alignment explanation
Indices: 37322010--37322034 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
37322000 AATTTGTGAA
37322010 AAAAATAAAAT
1 AAAAATAAAAT
37322021 AAAAATAAAAT
1 AAAAATAAAAT
37322032 AAA
1 AAA
37322035 GAACACATAG
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:37323234 original size:3 final size:3
Alignment explanation
Indices: 37323208--37323277 Score: 56
Period size: 3 Copynumber: 23.7 Consensus size: 3
37323198 TATATTTAAA
* * *
37323208 TAT TAT ATAT AAT TAT TAT AAT TAT TAAT TAT GAT T-T TA- TAT TA-
1 TAT TAT -TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* *
37323252 GAT TAT TAT TAT TAG TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
37323278 AATAAATTAA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
2 5 0.10
3 41 0.79
4 6 0.12
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:37323426 original size:27 final size:27
Alignment explanation
Indices: 37323374--37323426 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
37323364 CAAATTACTT
* *
37323374 ATAATTTAAGTATAAATATATTTTATA
1 ATAATTAAAGTATAAATATATATTATA
*
37323401 ATAATTAAATGTATTAAT-TATATTAT
1 ATAATTAAA-GTATAAATATATATTAT
37323427 GAGATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (27 bp):
ATAATTAAAGTATAAATATATATTATA
Found at i:37323829 original size:12 final size:12
Alignment explanation
Indices: 37323814--37323844 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
37323804 AAAGCAGGGG
37323814 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
37323826 AGAAAAAGGGAA
1 AGAAAAAGAGAA
37323838 AGAAAAA
1 AGAAAAA
37323845 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:37348573 original size:31 final size:31
Alignment explanation
Indices: 37348538--37348602 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
37348528 TAACAGCCCA
* * *
37348538 TGACTTCAATAAAAACTTTTCAATAATTTAG
1 TGACTTAAATAAAAACTTTTAAATAATTCAG
* * *
37348569 TGACTTAAATGAAAATTTTTAAATAGTTCAG
1 TGACTTAAATAAAAACTTTTAAATAATTCAG
37348600 TGA
1 TGA
37348603 TCAAATTATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTAAATAATTCAG
Found at i:37349517 original size:7 final size:7
Alignment explanation
Indices: 37349500--37349535 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
37349490 TTTAAGAATC
37349500 AAATAATT
1 AAAT-ATT
37349508 AAATATT
1 AAATATT
37349515 AAATATT
1 AAATATT
37349522 AAATA-T
1 AAATATT
37349528 AAATATT
1 AAATATT
37349535 A
1 A
37349536 TGTTTAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.22
7 17 0.63
8 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAATATT
Found at i:37349524 original size:14 final size:13
Alignment explanation
Indices: 37349500--37349535 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 13
37349490 TTTAAGAATC
37349500 AAATAATTAAATATT
1 AAAT-ATTAAATA-T
37349515 AAATATTAAATAT
1 AAATATTAAATAT
37349528 AAATATTA
1 AAATATTA
37349536 TGTTTAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.43
14 8 0.38
15 4 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AAATATTAAATAT
Found at i:37352101 original size:22 final size:23
Alignment explanation
Indices: 37352044--37352107 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
37352034 CAATATAGAA
*
37352044 ATATACATACAATAGTATAAAAGGT
1 ATATACAT--AATAGTATAAAAGAT
*
37352069 ATATA-ACTAATAGTAT-TAAGAT
1 ATATACA-TAATAGTATAAAAGAT
37352091 ATATACATAATAGTATA
1 ATATACATAATAGTATA
37352108 TGAAAACATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
22 18 0.53
23 9 0.26
24 1 0.03
25 6 0.18
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (23 bp):
ATATACATAATAGTATAAAAGAT
Found at i:37353180 original size:24 final size:24
Alignment explanation
Indices: 37353153--37353199 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
37353143 TATAGCCCTT
37353153 TTTACATG-ATTTTCTCCTATTCTA
1 TTTAC-TGTATTTTCTCCTATTCTA
* *
37353177 TTTACTGTCTTTTCTCCTTTTCT
1 TTTACTGTATTTTCTCCTATTCT
37353200 GAAAACGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.13, C:0.23, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTACTGTATTTTCTCCTATTCTA
Found at i:37356099 original size:70 final size:70
Alignment explanation
Indices: 37355994--37356627 Score: 675
Period size: 70 Copynumber: 9.1 Consensus size: 70
37355984 AAGCTCACGT
* * * * * *
37355994 TAACTATTTGG-GGTTGCGGTATCAAATCTACGAGCCTTAGAATGATAGCTGGGAGCTTTTAACT
1 TAACTGTTTGGAGGCTGCGGTATTAAACCTGCGAGCCTTAGAATGAAAGCTGGGAGCTTTTAACT
37356058 CTTGC
66 CTTGC
* * * * **
37356063 TAACTATTTGGAGACTGCGGTATTAAACCTGTGAGCCTTAGAATGACA-CTTAAGAGCTTTTAAC
1 TAACTGTTTGGAGGCTGCGGTATTAAACCTGCGAGCCTTAGAATGAAAGC-TGGGAGCTTTTAAC
*
37356127 TCTCGC
65 TCTTGC
* * * * * ***
37356133 TAACTGTTTAGAAGCTACGATATTAAACCTGCGAGCCTTAGAATGAAAACTAAAAGCTTTTAACT
1 TAACTGTTTGGAGGCTGCGGTATTAAACCTGCGAGCCTTAGAATGAAAGCTGGGAGCTTTTAACT
*
37356198 CTCGC
66 CTTGC
* * *
37356203 TAACTGTTTGGAGGCTGCGGTATTAAACCTGCGAACCTTAGAATGATAGTTGGGAGCTTTTAACT
1 TAACTGTTTGGAGGCTGCGGTATTAAACCTGCGAGCCTTAGAATGAAAGCTGGGAGCTTTTAACT
**
37356268 CTCAC
66 CTTGC
* * * *
37356273 TAACTGTATGGAGGCTGCGGTATTAAACTTGCAAGCCTTAGAATGACAGCTGGGAGCTTTTAACT
1 TAACTGTTTGGAGGCTGCGGTATTAAACCTGCGAGCCTTAGAATGAAAGCTGGGAGCTTTTAACT
* *
37356338 CTCGT
66 CTTGC
* * * * *
37356343 TAACTATTTAGAGGCTGCGGTATTAAACCTGCGAGCTTTAGAATGAAAGTTGAGAGCTTTTAACT
1 TAACTGTTTGGAGGCTGCGGTATTAAACCTGCGAGCCTTAGAATGAAAGCTGGGAGCTTTTAACT
37356408 CTTGC
66 CTTGC
* * * *
37356413 TAATTGTTTGGAGG-TCGCGGTATTAAACCTGTGAGCCTTATAATGACAA-TTGGGAGCTTTTAA
1 TAACTGTTTGGAGGCT-GCGGTATTAAACCTGCGAGCCTTAGAATGA-AAGCTGGGAGCTTTTAA
37356476 CTCTTGC
64 CTCTTGC
* * * * *
37356483 TAAACTGTATGGAGGGC-ACGGTATTAAACCTGCAAGCCTTAGAATGATAGCTAGGAGCTTTTAA
1 T-AACTGTTTGGA-GGCTGCGGTATTAAACCTGCGAGCCTTAGAATGAAAGCTGGGAGCTTTTAA
*
37356547 CTCTTGG
64 CTCTTGC
*** * * * * *
37356554 TAACTGTTTGGAGGCCATGGTATTAAACTTGTGAGACTTAGAATGAAAGTTAGGAGCTTTTAACT
1 TAACTGTTTGGAGGCTGCGGTATTAAACCTGCGAGCCTTAGAATGAAAGCTGGGAGCTTTTAACT
*
37356619 ATTGC
66 CTTGC
37356624 TAAC
1 TAAC
37356628 CATTTCAAGG
Statistics
Matches: 478, Mismatches: 77, Indels: 19
0.83 0.13 0.03
Matches are distributed among these distances:
69 16 0.03
70 403 0.84
71 57 0.12
72 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (70 bp):
TAACTGTTTGGAGGCTGCGGTATTAAACCTGCGAGCCTTAGAATGAAAGCTGGGAGCTTTTAACT
CTTGC
Found at i:37356370 original size:210 final size:209
Alignment explanation
Indices: 37355994--37356601 Score: 763
Period size: 210 Copynumber: 2.9 Consensus size: 209
37355984 AAGCTCACGT
* * * * *
37355994 TAACTATTTGG-GGTTGCGGTATCAAATCTACGAGCCTTAGAATGATAGCTGGGAGCTTTTAACT
1 TAACTGTTTGGAGG-TGCGGTATTAAACCTGCGAGCCTTAGAATGATAGTTGGGAGCTTTTAACT
* * * ** *
37356058 CTTGCTAACTATTTGGAGACTGCGGTATTAAACCTGTGAGCCTTAGAATGACA-CTTAAGAGCTT
65 CTTGCTAACTGTATGGAGGCTGCGGTATTAAACCTGCAAGCCTTAGAATGACAGC-TAGGAGCTT
* *
37356122 TTAACTCTCGCTAACTGTTTAGAAGCTACGATATTAAACCTGCGAGCCTTAGAATGAAAACTAAA
129 TTAACTCTCGCTAACTGTTTAGAGGCTACGGTATTAAACCTGCGAGCCTTAGAATGAAAACTAAA
37356187 AGCTTTTAACTCTCGC
194 AGCTTTTAACTCTCGC
*
37356203 TAACTGTTTGGAGGCTGCGGTATTAAACCTGCGAACCTTAGAATGATAGTTGGGAGCTTTTAACT
1 TAACTGTTTGGAGG-TGCGGTATTAAACCTGCGAGCCTTAGAATGATAGTTGGGAGCTTTTAACT
** * *
37356268 CTCACTAACTGTATGGAGGCTGCGGTATTAAACTTGCAAGCCTTAGAATGACAGCTGGGAGCTTT
65 CTTGCTAACTGTATGGAGGCTGCGGTATTAAACCTGCAAGCCTTAGAATGACAGCTAGGAGCTTT
* * * * ** * *
37356333 TAACTCTCGTTAACTATTTAGAGGCTGCGGTATTAAACCTGCGAGCTTTAGAATGAAAGTTGAGA
130 TAACTCTCGCTAACTGTTTAGAGGCTACGGTATTAAACCTGCGAGCCTTAGAATGAAAACTAAAA
*
37356398 GCTTTTAACTCTTGC
195 GCTTTTAACTCTCGC
* * * * *
37356413 TAATTGTTTGGAGGTCGCGGTATTAAACCTGTGAGCCTTATAATGACAATTGGGAGCTTTTAACT
1 TAACTGTTTGGAGGT-GCGGTATTAAACCTGCGAGCCTTAGAATGATAGTTGGGAGCTTTTAACT
* *
37356478 CTTGCTAAACTGTATGGAGGGC-ACGGTATTAAACCTGCAAGCCTTAGAATGATAGCTAGGAGCT
65 CTTGCT-AACTGTATGGA-GGCTGCGGTATTAAACCTGCAAGCCTTAGAATGACAGCTAGGAGCT
* * * * * * * *
37356542 TTTAACTCTTGGTAACTGTTTGGAGGCCATGGTATTAAACTTGTGAGACTTAGAATGAAA
128 TTTAACTCTCGCTAACTGTTTAGAGGCTACGGTATTAAACCTGCGAGCCTTAGAATGAAA
37356602 GTTAGGAGCT
Statistics
Matches: 343, Mismatches: 51, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
209 11 0.03
210 230 0.67
211 99 0.29
212 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (209 bp):
TAACTGTTTGGAGGTGCGGTATTAAACCTGCGAGCCTTAGAATGATAGTTGGGAGCTTTTAACTC
TTGCTAACTGTATGGAGGCTGCGGTATTAAACCTGCAAGCCTTAGAATGACAGCTAGGAGCTTTT
AACTCTCGCTAACTGTTTAGAGGCTACGGTATTAAACCTGCGAGCCTTAGAATGAAAACTAAAAG
CTTTTAACTCTCGC
Found at i:37361761 original size:23 final size:22
Alignment explanation
Indices: 37361735--37361794 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 22
37361725 TTTAATTAGA
37361735 TAATTATTATTTATTTAATATTT
1 TAATTA-TATTTATTTAATATTT
* *
37361758 TAATAAGATATTTA-TTATTATTT
1 TAAT--TATATTTATTTAATATTT
37361781 T-ATTAT-TTTATTTA
1 TAATTATATTTATTTA
37361795 GTATATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
19 4 0.13
20 5 0.16
22 2 0.06
23 13 0.42
24 6 0.19
25 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TAATTATATTTATTTAATATTT
Found at i:37361767 original size:31 final size:31
Alignment explanation
Indices: 37361725--37361790 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
37361715 TTTATAGTTA
*
37361725 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
* *
37361756 TTTAATAAGATATTTATTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
37361787 TTTA
1 TTTA
37361791 TTTAGTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:37364858 original size:27 final size:28
Alignment explanation
Indices: 37364826--37364878 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
37364816 ACCTATAAAA
*
37364826 GTTAGTAT-AAAAAAAAGTTTAAAAACG
1 GTTAGTATAAAAAAAAAATTTAAAAACG
37364853 GTTAGTATAAAAAAAAAATTTAAAAA
1 GTTAGTATAAAAAAAAAATTTAAAAA
37364879 AAGAAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.60, C:0.02, G:0.11, T:0.26
Consensus pattern (28 bp):
GTTAGTATAAAAAAAAAATTTAAAAACG
Found at i:37367634 original size:18 final size:18
Alignment explanation
Indices: 37367612--37367667 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
37367602 AAAATTACAA
*
37367612 AAAAATCAAAATAATTTAT
1 AAAATTCAAAAT-ATTTAT
*
37367631 AAAATTTAAAATATTTAT
1 AAAATTCAAAATATTTAT
*
37367649 AAAAATTCCAAA-ATTTAT
1 -AAAATTCAAAATATTTAT
37367667 A
1 A
37367668 TATTATTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 1 0.03
18 12 0.38
19 19 0.59
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:37369591 original size:22 final size:22
Alignment explanation
Indices: 37369566--37369609 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
37369556 ATGCTGANTA
37369566 ATTTATTAAAATAATAAATTAT
1 ATTTATTAAAATAATAAATTAT
* * *
37369588 ATTTATTATATTAATAATTTAT
1 ATTTATTAAAATAATAAATTAT
37369610 TATATGACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTATTAAAATAATAAATTAT
Found at i:37371018 original size:30 final size:30
Alignment explanation
Indices: 37370960--37371018 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
37370950 AATCATTGTC
* *
37370960 GATGTAGATGCCCATGCAGTAGTTGATGCT
1 GATGTAGATGCCCATGCAGCAGTCGATGCT
*
37370990 GATGTAGATGCCCATGTAGCAGTCGATGC
1 GATGTAGATGCCCATGCAGCAGTCGATGC
37371019 CAATGTCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.27
Consensus pattern (30 bp):
GATGTAGATGCCCATGCAGCAGTCGATGCT
Found at i:37382799 original size:50 final size:50
Alignment explanation
Indices: 37382680--37382923 Score: 254
Period size: 50 Copynumber: 4.8 Consensus size: 50
37382670 CCGTTGTGAA
* *** *
37382680 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT--TGTTAGGT
* * *
37382732 CACGTGTGTAGTACTAAGTGCATGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
** ** * * * *
37382782 TGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG-TTAGGT
*
37382833 CACATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
** * * * *
37382883 CGTATGTGTAGTATTAAGTGTAGGATACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
37382924 GAGCTTCGGT
Statistics
Matches: 158, Mismatches: 33, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
50 82 0.52
51 41 0.26
52 35 0.22
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
Found at i:37382874 original size:101 final size:101
Alignment explanation
Indices: 37382731--37382931 Score: 294
Period size: 101 Copynumber: 2.0 Consensus size: 101
37382721 TAGTTTTAGG
* * *
37382731 TCACGTGTGTAGTACTAAGTGCATGCTACTACGTGTACCAGATTGTTAGGTTGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTAC
* * *
37382796 TAAGTGCAGGCTACTATGCATACCCGATAGCTTCGA
66 TAAGTGCAGGATACTATGCATACCAGAGAGCTTCGA
* * * *
37382832 TCACATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATTGTTAGGTCGTATGTGTAGTAT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTAC
* *
37382897 TAAGTGTAGGATACTATGCGTACCAGAGAGCTTCG
66 TAAGTGCAGGATACTATGCATACCAGAGAGCTTCG
37382932 GTTACAAGGG
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 88 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (101 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTAC
TAAGTGCAGGATACTATGCATACCAGAGAGCTTCGA
Found at i:37384141 original size:45 final size:45
Alignment explanation
Indices: 37384092--37384186 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
37384082 TGAATATGTT
* *
37384092 TGTTTGCCATGCATCGTTGGTAATATGTCATGTGTGTTGAATGCA
1 TGTTTGCCATGCATCGTTGGTAATATGTCATGTGTGTTAAAAGCA
*
37384137 TGTTTGCCATGCATGGTTGGTAATATGTCATGTGTGTTAAAAGCA
1 TGTTTGCCATGCATCGTTGGTAATATGTCATGTGTGTTAAAAGCA
37384182 TGTTT
1 TGTTT
37384187 TATGACCAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.41
Consensus pattern (45 bp):
TGTTTGCCATGCATCGTTGGTAATATGTCATGTGTGTTAAAAGCA
Found at i:37385826 original size:29 final size:29
Alignment explanation
Indices: 37385791--37385846 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
37385781 CTTTAGATGG
37385791 ATCAAACTTGATTTATTTGAACGATGAGT
1 ATCAAACTTGATTTATTTGAACGATGAGT
*
37385820 ATCAAACTTGATTTATTTGAATGATGA
1 ATCAAACTTGATTTATTTGAACGATGA
37385847 TTGTAACACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (29 bp):
ATCAAACTTGATTTATTTGAACGATGAGT
Found at i:37387809 original size:13 final size:13
Alignment explanation
Indices: 37387773--37387809 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
37387763 AAACTTAAGA
37387773 AAAGAGAAAATCT
1 AAAGAGAAAATCT
**
37387786 AAAGACTAAATCT
1 AAAGAGAAAATCT
37387799 AAAGAGAAAAT
1 AAAGAGAAAAT
37387810 TATATAATAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.62, C:0.08, G:0.14, T:0.16
Consensus pattern (13 bp):
AAAGAGAAAATCT
Found at i:37394825 original size:24 final size:25
Alignment explanation
Indices: 37394781--37394828 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
37394771 ATAAAACATA
37394781 ATAACATATATCATATGCATGCTCGT
1 ATAACATATATCATA-GCATGCTCGT
37394807 ATAACATATACTCA-A-CATGCTC
1 ATAACATATA-TCATAGCATGCTC
37394829 TTACATAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 7 0.33
26 11 0.52
27 3 0.14
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (25 bp):
ATAACATATATCATAGCATGCTCGT
Found at i:37407028 original size:54 final size:54
Alignment explanation
Indices: 37406922--37407097 Score: 173
Period size: 54 Copynumber: 3.3 Consensus size: 54
37406912 GTCCACACAA
* * * *
37406922 GCACAGAGAGTTACACGGCCTAGTG--ACAGCCGTGTGACCCTGAGGC-ATACGG
1 GCACAGAGAGTTACACGGCCTGGCGACACAGCCGTGTGACCCT-AAGCTACACGG
* *
37406974 GCACAGAAAGTTACATGGCCTGGCGACACAGCCGTGTGACCCTAAGCTACACGG
1 GCACAGAGAGTTACACGGCCTGGCGACACAGCCGTGTGACCCTAAGCTACACGG
* * * * *
37407028 GCACAGTGAGTTAAACGGCCTGGCGACAC-GACCGTGTGTCCTTTTA-CTACACGG
1 GCACAGAGAGTTACACGGCCTGGCGACACAG-CCGTGTGACC-CTAAGCTACACGG
**
37407082 GCACAGTTAGTTACAC
1 GCACAGAGAGTTACAC
37407098 AGTCTGTGAA
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 21 0.20
53 4 0.04
54 77 0.74
55 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (54 bp):
GCACAGAGAGTTACACGGCCTGGCGACACAGCCGTGTGACCCTAAGCTACACGG
Found at i:37413272 original size:24 final size:24
Alignment explanation
Indices: 37413225--37413272 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
37413215 ATTACTAATA
* * *
37413225 TGTCCTCGACCACGTCCCCCACTT
1 TGTCCACGACCACGACCACCACTT
*
37413249 TGTCCACGACCACGACCACGACTT
1 TGTCCACGACCACGACCACCACTT
37413273 ATATATTTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.19, C:0.46, G:0.15, T:0.21
Consensus pattern (24 bp):
TGTCCACGACCACGACCACCACTT
Found at i:37415562 original size:30 final size:30
Alignment explanation
Indices: 37415528--37415587 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
37415518 TTAAAATATG
37415528 AATGCGATTGAGTTTAAACACATATTCTAT
1 AATGCGATTGAGTTTAAACACATATTCTAT
37415558 AATGCGATTGAGTTTAAACACATATTCTAT
1 AATGCGATTGAGTTTAAACACATATTCTAT
37415588 CACTTATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (30 bp):
AATGCGATTGAGTTTAAACACATATTCTAT
Found at i:37417046 original size:15 final size:15
Alignment explanation
Indices: 37417026--37417054 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37417016 AATAGGATTT
37417026 ATAAATAATTTAATA
1 ATAAATAATTTAATA
37417041 ATAAATAATTTAAT
1 ATAAATAATTTAAT
37417055 CATATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAAATAATTTAATA
Found at i:37417181 original size:36 final size:36
Alignment explanation
Indices: 37417133--37417209 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 36
37417123 ATTATATTAA
37417133 AATACTTAAAATATTTTATTTACTACATTTTAAAAT
1 AATACTTAAAATATTTTATTTACTACATTTTAAAAT
*
37417169 AATATTTAAAATATTTTATTTACTACATTTTAAAAT
1 AATACTTAAAATATTTTATTTACTACATTTTAAAAT
37417205 AATAC
1 AATAC
37417210 ACTATTATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (36 bp):
AATACTTAAAATATTTTATTTACTACATTTTAAAAT
Found at i:37424060 original size:46 final size:45
Alignment explanation
Indices: 37423867--37424137 Score: 170
Period size: 46 Copynumber: 5.7 Consensus size: 45
37423857 GTAAGTTGCT
** * *
37423867 GATGCCATGTCCTGAACATGGTCTTACACTGGCTATCATCATCGAGGCC
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TCGTC-TCAAGGCC
* * * * *
37423916 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAAATC-CGTGCT
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TCGT--CTCAAG-GCC
* * * * * *
37423966 GATGCCATATCCCAGACATGGTCTGACACTGAC-ACATCTCATA-GCC
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCTTCGTCTCA-AGGCC
* * *
37424012 GATGCATGTCCCAGACATGTCTTACACGGGCTTACGTCTCGAGGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGCTT-CGTCTCAAGGCC
* * * *
37424058 GATGCATGTCCCAAAAATGTCTTACACTAGCACTCGTCTCAATGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGC-TTCGTCTCAAGGCC
37424104 GATGCCATGTCCCAAACATGGTCTTACACTGGCT
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCT
37424138 CACACCAACG
Statistics
Matches: 176, Mismatches: 35, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
44 10 0.06
45 14 0.08
46 57 0.32
47 14 0.08
48 14 0.08
49 34 0.19
50 33 0.19
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (45 bp):
GATGCATGTCCCAAACATGTCTTACACTGGCTTCGTCTCAAGGCC
Found at i:37428127 original size:23 final size:23
Alignment explanation
Indices: 37428097--37428142 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
37428087 TATATTTTAA
37428097 GTTCGTATATAACTAGTCAATAT
1 GTTCGTATATAACTAGTCAATAT
37428120 GTTCGTATATAACTAGTCAATAT
1 GTTCGTATATAACTAGTCAATAT
37428143 CTAATATCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (23 bp):
GTTCGTATATAACTAGTCAATAT
Found at i:37430775 original size:17 final size:17
Alignment explanation
Indices: 37430753--37430785 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37430743 AACTAACATG
*
37430753 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
37430770 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
37430786 GTGTACTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:37435809 original size:27 final size:27
Alignment explanation
Indices: 37435777--37435984 Score: 168
Period size: 27 Copynumber: 7.7 Consensus size: 27
37435767 CTCAATTTGT
*
37435777 AAAATTACCAAAGTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTCGATTTAC
* ****
37435804 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTCGATTTAC
* * *
37435831 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTCGATTTAC
* **
37435858 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTAC
* * **
37435885 AAAATTACAAAAATACCACTAG-TTTGT
1 AAAATTACCAAAATACC-CTCGATTTAC
* ** * **
37435912 GAAATTACTGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTCGATTTAC
*
37435939 AAAATTACCAAAATACCCTTGATTTAC
1 AAAATTACCAAAATACCCTCGATTTAC
*
37435966 AAAATTACAAAAATACCCT
1 AAAATTACCAAAATACCCT
37435985 TGACTTTCTA
Statistics
Matches: 142, Mismatches: 35, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
26 2 0.01
27 139 0.98
28 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTAC
Found at i:37435875 original size:54 final size:55
Alignment explanation
Indices: 37435817--37436042 Score: 194
Period size: 54 Copynumber: 4.1 Consensus size: 55
37435807 ATTACCGTTT
* *
37435817 TACCCTCGA-TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGACTTTGCAAAATTACTAAAATACCCTTGGTTTACAAAATTACTAAAA
* * * * * *** *
37435871 TACCC-CTAGTTTGTAAAATTACAAAAATACCAC-TAGTTTGTGAAATTACTGAAA
1 TACCCTCGACTTTGCAAAATTACTAAAATACC-CTTGGTTTACAAAATTACTAAAA
* * * * *
37435925 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACAAAAA
1 TACCCTCGACTTTGCAAAATTACTAAAATACCCTTGGTTTACAAAATTACTAAAA
* * * *
37435979 TACCCTTGACTTT-CTAAAAATTA-TAGAAATACCATTTGTTTACAAAATTACTGAAA
1 TACCCTCGACTTTGC--AAAATTACTA-AAATACCCTTGGTTTACAAAATTACTAAAA
37436035 TACCCTCG
1 TACCCTCG
37436043 GTTTGTAGAT
Statistics
Matches: 135, Mismatches: 29, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
53 3 0.02
54 86 0.64
55 7 0.05
56 39 0.29
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (55 bp):
TACCCTCGACTTTGCAAAATTACTAAAATACCCTTGGTTTACAAAATTACTAAAA
Found at i:37435918 original size:81 final size:84
Alignment explanation
Indices: 37435831--37436039 Score: 214
Period size: 81 Copynumber: 2.5 Consensus size: 84
37435821 CTCGATTTAC
* **
37435831 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACAA
1 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTAGATTTACAAAATTACAA
* *
37435895 AAATACCAC-T-AGTTTGT-
66 AAATACC-CTTGACTTTCTA
* * * * ** *
37435912 GAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATA-CCCTTGATTTACAAAATTACAA
1 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTAGATTTACAAAATTACAA
37435976 AAATACCCTTGACTTTCTA
66 AAATACCCTTGACTTTCTA
* * **
37435995 AAAATTA-TAGAAATACCATTTGTTTACAAAATTACTGAAATACCC
1 AAAATTACTA-AAATACCCTTAGTTTACAAAATTACCAAAATACCC
37436040 TCGGTTTGTA
Statistics
Matches: 100, Mismatches: 22, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
80 6 0.06
81 56 0.56
82 6 0.06
83 30 0.30
84 2 0.02
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.31
Consensus pattern (84 bp):
AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTAGATTTACAAAATTACAA
AAATACCCTTGACTTTCTA
Found at i:37436008 original size:29 final size:27
Alignment explanation
Indices: 37435817--37436040 Score: 159
Period size: 27 Copynumber: 8.2 Consensus size: 27
37435807 ATTACCGTTT
* *
37435817 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACAAAAA
* *
37435844 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACAAAAA
* **
37435871 TACCCCT-AGTTTGTAAAATTACAAAAA
1 TACCCTTGA-TTTACAAAATTACAAAAA
* *** **
37435898 TACCACTAG-TTTGTGAAATTACTGAAA
1 TACC-CTTGATTTACAAAATTACAAAAA
** ** *
37435925 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACAAAAA
37435952 TACCCTTGATTTACAAAATTACAAAAA
1 TACCCTTGATTTACAAAATTACAAAAA
* *
37435979 TACCCTTGACTTT-CTAAAAATTATAGAAA
1 TACCCTTGA-TTTAC--AAAATTACAAAAA
* **
37436008 TACCATTTG-TTTACAAAATTACTGAAA
1 TACC-CTTGATTTACAAAATTACAAAAA
37436035 TACCCT
1 TACCCT
37436041 CGGTTTGTAG
Statistics
Matches: 159, Mismatches: 29, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
26 3 0.02
27 130 0.82
28 7 0.04
29 16 0.10
30 3 0.02
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACAAAAA
Found at i:37436057 original size:110 final size:108
Alignment explanation
Indices: 37435817--37436069 Score: 299
Period size: 110 Copynumber: 2.3 Consensus size: 108
37435807 ATTACCGTTT
* ** * * * *
37435817 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACAAAAATACCCCTACTT
* ***
37435882 TGTAAAATTACAAAAATACCACTAGTTTGTGAAATTACTGAAA
66 TCTAAAATTACAAAAATACCACTAGTTTACAAAATTACTGAAA
*
37435925 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACAAAAATACCCTTGACT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACAAAAATACCCCT-ACT
* * * *
37435990 TTCTAAAAATTATAGAAATACCATTTGTTTACAAAATTACTGAAA
65 TTCT-AAAATTACAAAAATACCACTAGTTTACAAAATTACTGAAA
** * * *
37436035 TACCCTCGGTTTGTAGATTTACCAAAACACCCTTG
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTG
37436070 TAGGATGAAA
Statistics
Matches: 122, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
108 54 0.44
109 5 0.04
110 63 0.52
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (108 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACAAAAATACCCCTACTT
TCTAAAATTACAAAAATACCACTAGTTTACAAAATTACTGAAA
Found at i:37436148 original size:27 final size:27
Alignment explanation
Indices: 37436087--37436149 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
37436077 AAATAACTAA
*
37436087 AATACCCCTAATAGGTAAAAAGATCGT
1 AATACCCCTAATAGGTAAAAAGACCGT
**
37436114 AA-AGCCCCT-ATAGGTTAAAGTGACCGT
1 AATA-CCCCTAATAGG-TAAAAAGACCGT
37436141 AATACCCCT
1 AATACCCCT
37436150 GTATGGTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
26 6 0.20
27 23 0.77
28 1 0.03
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (27 bp):
AATACCCCTAATAGGTAAAAAGACCGT
Found at i:37436854 original size:43 final size:43
Alignment explanation
Indices: 37436793--37436880 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
37436783 ATGTGAAAAA
*
37436793 TGATTGTTTTGCCTTTGTGGGCAAGTGACTGACTTGGACTGTG
1 TGATTGTTTTGCCCTTGTGGGCAAGTGACTGACTTGGACTGTG
37436836 TGATTGTTTTGCCCTTGTGGGCAAGTGACTGACTTGGACTGTG
1 TGATTGTTTTGCCCTTGTGGGCAAGTGACTGACTTGGACTGTG
37436879 TG
1 TG
37436881 GTTGACAGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.14, C:0.15, G:0.33, T:0.39
Consensus pattern (43 bp):
TGATTGTTTTGCCCTTGTGGGCAAGTGACTGACTTGGACTGTG
Found at i:37436976 original size:16 final size:16
Alignment explanation
Indices: 37436955--37436985 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37436945 CAAATATGGG
*
37436955 CATGACATTTTGCATA
1 CATGACATGTTGCATA
37436971 CATGACATGTTGCAT
1 CATGACATGTTGCAT
37436986 TGGGTTGGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:37437052 original size:26 final size:27
Alignment explanation
Indices: 37437023--37437089 Score: 100
Period size: 26 Copynumber: 2.5 Consensus size: 27
37437013 AAGTGCAAAT
37437023 GGGCTTATGCCCCAATTTACCG-AAAA
1 GGGCTTATGCCCCAATTTACCGAAAAA
* **
37437049 GGGCTTATGCCCCAGTTTATTGAAAAA
1 GGGCTTATGCCCCAATTTACCGAAAAA
37437076 GGGCTTATGCCCCA
1 GGGCTTATGCCCCA
37437090 GTTATTAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 19 0.51
27 18 0.49
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (27 bp):
GGGCTTATGCCCCAATTTACCGAAAAA
Found at i:37437083 original size:27 final size:26
Alignment explanation
Indices: 37437023--37437092 Score: 104
Period size: 27 Copynumber: 2.7 Consensus size: 26
37437013 AAGTGCAAAT
*
37437023 GGGCTTATGCCCCAATTTACCGAAAA
1 GGGCTTATGCCCCAGTTTACCGAAAA
**
37437049 GGGCTTATGCCCCAGTTTATTGAAAAA
1 GGGCTTATGCCCCAGTTTACCG-AAAA
37437076 GGGCTTATGCCCCAGTT
1 GGGCTTATGCCCCAGTT
37437093 ATTAAAGAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 19 0.47
27 21 0.52
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (26 bp):
GGGCTTATGCCCCAGTTTACCGAAAA
Found at i:37437295 original size:41 final size:42
Alignment explanation
Indices: 37437237--37437327 Score: 157
Period size: 41 Copynumber: 2.2 Consensus size: 42
37437227 TAGTCTCCCC
* *
37437237 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTACATGTGATATTG
37437279 AAATGGG-TTGCATACATTCATTGATATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTACATGTGATATTG
37437320 AAATGGGC
1 AAATGGGC
37437328 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
41 39 0.85
42 7 0.15
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTACATGTGATATTG
Found at i:37437428 original size:31 final size:31
Alignment explanation
Indices: 37437351--37437429 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
37437341 CATTTACAGT
* * *
37437351 AAAGGCTTCGACCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATAA
37437382 AAAGGCTTCGGCCCAGTGATATGATTTATAA
1 AAAGGCTTCGGCCCAGTGATATGATTTATAA
37437413 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
37437430 AACTGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATAA
Found at i:37441075 original size:31 final size:31
Alignment explanation
Indices: 37441037--37441098 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
37441027 TTCACATAAG
37441037 CATAAGCATCTTTAAATAGTGTAAACCAACA
1 CATAAGCATCTTTAAATAGTGTAAACCAACA
*
37441068 CATAAGCATCTTTCAATAGTGTAAACCAACA
1 CATAAGCATCTTTAAATAGTGTAAACCAACA
37441099 GTGTAACACC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.26
Consensus pattern (31 bp):
CATAAGCATCTTTAAATAGTGTAAACCAACA
Found at i:37443265 original size:48 final size:48
Alignment explanation
Indices: 37443135--37443754 Score: 613
Period size: 48 Copynumber: 12.9 Consensus size: 48
37443125 AAAAGGGAAA
* * * ** **
37443135 AATGCCGATGCCATGTTCCAGATATGGTCTTACGTTGGCTCTTATACATC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATA-A-C
** * *
37443185 GGTGCTGATGCCAT-TCCCAGACATGGTCTTACACTGGCTCACATAAC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
* * ** **
37443232 AATGCCCATGCCATGTTCCAAACATGGTCTTACACTGGCTGGCATATT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
* * * *
37443280 AAAGCCGATGCCAT-TCCCAGACATGGTCTTACACTAGCTCTCATAAC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
* **
37443327 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGA-ATATT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-ACATAAC
* * * * * *
37443375 GAGGCCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCATAAC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
* **
37443423 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGA-ATATT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-ACATAAC
* * * * * *
37443471 GAGGCCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCATAAC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
* **
37443519 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGA-ATATT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-ACATAAC
* * * * * *
37443567 GAGGCCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCATAAC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
* **
37443615 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGA-ATATT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-ACATAAC
* * * * * *
37443663 GAGGCCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCATAAC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
* *
37443711 AATGCCGATGCCATGTTCTAAACATGGTCTTACACTGGCTCACA
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACA
37443755 CATAACCCTA
Statistics
Matches: 454, Mismatches: 106, Indels: 22
0.78 0.18 0.04
Matches are distributed among these distances:
47 50 0.11
48 368 0.81
49 25 0.06
50 11 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAC
Found at i:37443439 original size:96 final size:96
Alignment explanation
Indices: 37443135--37443751 Score: 1024
Period size: 96 Copynumber: 6.4 Consensus size: 96
37443125 AAAAGGGAAA
* * ** * * * *
37443135 AATGCCGATGCCATGTTCCAGATATGGTCTTACGTTGGCTCTTATACATCG-GTGCTGATGCCAT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTC-GA-ATATTGAG-GCCGATGCCAT
* * *
37443199 -TCCCAGACATGGTCTTACACTGGCTCACATAAC
63 GTCCCAGACATGGTCTTATACTAGCTCTCATAAC
* * * * *
37443232 AATGCCCATGCCATGTTCCAAACATGGTCTTACACTGGCTGGCATATTAAAGCCGATGCCAT-TC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGAATATTGAGGCCGATGCCATGTC
*
37443296 CCAGACATGGTCTTACACTAGCTCTCATAAC
66 CCAGACATGGTCTTATACTAGCTCTCATAAC
37443327 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGAATATTGAGGCCGATGCCATGTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGAATATTGAGGCCGATGCCATGTC
37443392 CCAGACATGGTCTTATACTAGCTCTCATAAC
66 CCAGACATGGTCTTATACTAGCTCTCATAAC
37443423 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGAATATTGAGGCCGATGCCATGTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGAATATTGAGGCCGATGCCATGTC
37443488 CCAGACATGGTCTTATACTAGCTCTCATAAC
66 CCAGACATGGTCTTATACTAGCTCTCATAAC
37443519 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGAATATTGAGGCCGATGCCATGTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGAATATTGAGGCCGATGCCATGTC
37443584 CCAGACATGGTCTTATACTAGCTCTCATAAC
66 CCAGACATGGTCTTATACTAGCTCTCATAAC
37443615 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGAATATTGAGGCCGATGCCATGTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGAATATTGAGGCCGATGCCATGTC
37443680 CCAGACATGGTCTTATACTAGCTCTCATAAC
66 CCAGACATGGTCTTATACTAGCTCTCATAAC
*
37443711 AATGCCGATGCCATGTTCTAAACATGGTCTTACACTGGCTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTC
37443752 ACACATAACC
Statistics
Matches: 496, Mismatches: 22, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
95 101 0.20
96 360 0.73
97 35 0.07
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (96 bp):
AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGAATATTGAGGCCGATGCCATGTC
CCAGACATGGTCTTATACTAGCTCTCATAAC
Found at i:37450148 original size:48 final size:48
Alignment explanation
Indices: 37450032--37450350 Score: 363
Period size: 48 Copynumber: 6.6 Consensus size: 48
37450022 TAAAATGTCA
* * * * * * **
37450032 ATGCGATGTTCCAGACATCGTCTTACGCTGGCTCTTATATATCGGTGCCG
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATA-A-CAATGCCG
* *
37450082 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCG
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCG
* * *** * *
37450130 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGCTG
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCG
*
37450178 ATGCCATG-TCCTAAACATGGTCTTACACTAGCTCTCATAACAATTCCG
1 ATGCCATGTTCC-AAACATGGTCTTACACTAGCTCTCATAACAATGCCG
* * *** * *
37450226 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGCTG
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCG
37450274 ATGCCATG-TCCTAAACATGGTCTTACACTAGCTCTCATAACAATGCCG
1 ATGCCATGTTCC-AAACATGGTCTTACACTAGCTCTCATAACAATGCCG
37450322 ATGCCATGTTCCAAACATGGTCTTACACT
1 ATGCCATGTTCCAAACATGGTCTTACACT
37450351 GGCGCACACA
Statistics
Matches: 225, Mismatches: 40, Indels: 10
0.82 0.15 0.04
Matches are distributed among these distances:
47 6 0.03
48 179 0.80
49 7 0.03
50 33 0.15
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (48 bp):
ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCG
Found at i:37450203 original size:96 final size:96
Alignment explanation
Indices: 37450032--37450353 Score: 520
Period size: 96 Copynumber: 3.3 Consensus size: 96
37450022 TAAAATGTCA
* * * * ** * * *
37450032 ATGCGATGTTCCAGACATCGTCTTACGCTGGCTCTTATATATCG-GTGCCGATGCCATGTCCCAG
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATAT-T-GAG-GCTGATGCCATGTCCTAA
37450096 ACATGGTCTTACACTAGCTCTCATAACAATGCCG
63 ACATGGTCTTACACTAGCTCTCATAACAATGCCG
37450130 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGCTGATGCCATGTCCTAAACA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGCTGATGCCATGTCCTAAACA
*
37450195 TGGTCTTACACTAGCTCTCATAACAATTCCG
66 TGGTCTTACACTAGCTCTCATAACAATGCCG
37450226 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGCTGATGCCATGTCCTAAACA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGCTGATGCCATGTCCTAAACA
37450291 TGGTCTTACACTAGCTCTCATAACAATGCCG
66 TGGTCTTACACTAGCTCTCATAACAATGCCG
37450322 ATGCCATGTTCCAAACATGGTCTTACACTGGC
1 ATGCCATGTTCCAAACATGGTCTTACACTGGC
37450354 GCACACATAA
Statistics
Matches: 212, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
96 176 0.83
97 2 0.01
98 34 0.16
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (96 bp):
ATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGCTGATGCCATGTCCTAAACA
TGGTCTTACACTAGCTCTCATAACAATGCCG
Found at i:37457447 original size:7 final size:7
Alignment explanation
Indices: 37457437--37457467 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
37457427 AAGAGAGAAT
37457437 GATGAGG
1 GATGAGG
37457444 GATGAGG
1 GATGAGG
*
37457451 GATGATG
1 GATGAGG
37457458 GATGAGG
1 GATGAGG
37457465 GAT
1 GAT
37457468 CAAATGAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.52, T:0.19
Consensus pattern (7 bp):
GATGAGG
Found at i:37473180 original size:11 final size:12
Alignment explanation
Indices: 37473159--37473199 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
37473149 TCAAATGTAC
37473159 ACATATTTATAA
1 ACATATTTATAA
37473171 ACAT-TTTAT-A
1 ACATATTTATAA
* *
37473181 TCATATTAATAA
1 ACATATTTATAA
37473193 ACATATT
1 ACATATT
37473200 AAATCCAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
10 4 0.17
11 9 0.38
12 11 0.46
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (12 bp):
ACATATTTATAA
Found at i:37476240 original size:38 final size:38
Alignment explanation
Indices: 37476172--37476325 Score: 139
Period size: 38 Copynumber: 4.0 Consensus size: 38
37476162 AACATTTACT
*** * *
37476172 ACACTGACA-TCAAGCCTACTAGGCTTTAAGCTTGAGTA
1 ACACTGACACT-AAGCCTACTAGGCACAAAGCCTGAATA
* * *
37476210 ACACTGACACTAAGCCTGCTAGGCACTAAGCCTAAATA
1 ACACTGACACTAAGCCTACTAGGCACAAAGCCTGAATA
* * * *
37476248 ACATTGGCACTAAGTCTTCTAGGCACAAAGCCTGAATCAA
1 ACACTGACACTAAGCCTACTAGGCACAAAGCCTGAAT--A
* *
37476288 TACACCGGCACTAAGCCTACTAGGCACAAAGCCTGAAT
1 -ACACTGACACTAAGCCTACTAGGCACAAAGCCTGAAT
37476326 TAATACGCCT
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
38 61 0.64
39 1 0.01
40 1 0.01
41 33 0.34
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (38 bp):
ACACTGACACTAAGCCTACTAGGCACAAAGCCTGAATA
Found at i:37476311 original size:41 final size:40
Alignment explanation
Indices: 37476217--37476331 Score: 135
Period size: 41 Copynumber: 2.9 Consensus size: 40
37476207 GTAACACTGA
* * * **
37476217 CACTAAGCCTGCTAGGCACTAAGCCTAAAT-A-ACATTGG
1 CACTAAGCCTACTAGGCACAAAGCCTGAATAATACACCGG
* *
37476255 CACTAAGTCTTCTAGGCACAAAGCCTGAATCAATACACCGG
1 CACTAAGCCTACTAGGCACAAAGCCTGAAT-AATACACCGG
37476296 CACTAAGCCTACTAGGCACAAAGCCTGAATTAATAC
1 CACTAAGCCTACTAGGCACAAAGCCTGAA-TAATAC
37476332 GCCTTAATTA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
38 26 0.40
40 1 0.02
41 37 0.57
42 1 0.02
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.20
Consensus pattern (40 bp):
CACTAAGCCTACTAGGCACAAAGCCTGAATAATACACCGG
Found at i:37476355 original size:55 final size:55
Alignment explanation
Indices: 37476277--37476380 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 55
37476267 TAGGCACAAA
* *
37476277 GCCTGAATCAATACACCGGCACTAAGCCTACTAGGCACAAAGCCTGAATTAATAC
1 GCCTGAATCAATACACCGACACTAAGCCTACTAGGCACAAAACCTGAATTAATAC
* * *
37476332 GCCTTAATTAATACACCGACACTAAGCCTGCTAGGCACAAAACCTGAAT
1 GCCTGAATCAATACACCGACACTAAGCCTACTAGGCACAAAACCTGAAT
37476381 AACACCCTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.37, C:0.29, G:0.15, T:0.19
Consensus pattern (55 bp):
GCCTGAATCAATACACCGACACTAAGCCTACTAGGCACAAAACCTGAATTAATAC
Found at i:37479829 original size:27 final size:27
Alignment explanation
Indices: 37479745--37479840 Score: 122
Period size: 27 Copynumber: 3.6 Consensus size: 27
37479735 GGAAGTACTA
*
37479745 TACTGGTGGCTCTGCCACA-ATTACTGT
1 TACTGGTGGCTTTGCCACATA-TACTGT
* *
37479772 TACCGGTGGCTTTGCCACATATACTGA
1 TACTGGTGGCTTTGCCACATATACTGT
*
37479799 TACTGGTGGCTTTGCAACATATACTGT
1 TACTGGTGGCTTTGCCACATATACTGT
**
37479826 TACTGGCAGCTTTGC
1 TACTGGTGGCTTTGC
37479841 TGAGAAATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 59 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (27 bp):
TACTGGTGGCTTTGCCACATATACTGT
Found at i:37491605 original size:39 final size:38
Alignment explanation
Indices: 37491551--37491628 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 38
37491541 AGAATACGTG
* *
37491551 TAGGGATAGGTTAATTATAAGATGAATTTGTGGGTTTT
1 TAGGGATAGGGTAATTAAAAGATGAATTTGTGGGTTTT
37491589 NTAGGGATAGGGTAATTAAAAGATGAATTTGTGGGTTTT
1 -TAGGGATAGGGTAATTAAAAGATGAATTTGTGGGTTTT
37491628 T
1 T
37491629 TTCCTAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
38 1 0.03
39 36 0.97
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.40
Consensus pattern (38 bp):
TAGGGATAGGGTAATTAAAAGATGAATTTGTGGGTTTT
Found at i:37491918 original size:27 final size:27
Alignment explanation
Indices: 37491880--37491971 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 27
37491870 GTATGGGGTA
* ** *
37491880 GGTGGCGCCTATCTATTAAGCGTGACT
1 GGTGGAGCCTATCTAACAAGCGCGACT
* *
37491907 GGTGGAGCCTATTTAACAGGCGCGACT
1 GGTGGAGCCTATCTAACAAGCGCGACT
* *
37491934 GGTTGAGCCTATCGT-ACAGGCGCGACT
1 GGTGGAGCCTATC-TAACAAGCGCGACT
*
37491961 GGTGGGGCCTA
1 GGTGGAGCCTA
37491972 CAGGCGCAAC
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.35, T:0.24
Consensus pattern (27 bp):
GGTGGAGCCTATCTAACAAGCGCGACT
Found at i:37495137 original size:72 final size:76
Alignment explanation
Indices: 37495014--37495161 Score: 205
Period size: 72 Copynumber: 2.0 Consensus size: 76
37495004 AAGTTAGTAT
* **
37495014 AAAGTTTATTTATTTAAATTGAAAAAAAAAGTCATAAAATTGATAAATAAAATGGGAAAAAAGTC
1 AAAGTTTATCTATTTAAATTGAAAAAAAAAGT-AT-AAATTGATAAATAAAATGACAAAAAAGTC
37495079 ATTAAATAAATAC
64 ATTAAATAAATAC
*
37495092 AAAGTTTA-CTATTTAAATTGAAAAAAAAA-T-T-AATTGATAAATAAAATGACAAAAAATTCAT
1 AAAGTTTATCTATTTAAATTGAAAAAAAAAGTATAAATTGATAAATAAAATGACAAAAAAGTCAT
*
37495153 TACATAAAT
66 TAAATAAAT
37495162 GAAGTTATTT
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
72 35 0.54
74 1 0.02
76 1 0.02
77 20 0.31
78 8 0.12
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.30
Consensus pattern (76 bp):
AAAGTTTATCTATTTAAATTGAAAAAAAAAGTATAAATTGATAAATAAAATGACAAAAAAGTCAT
TAAATAAATAC
Found at i:37495448 original size:33 final size:34
Alignment explanation
Indices: 37495374--37495448 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 34
37495364 GGAGTACAAG
* *
37495374 GGTGGATACGGGCAGGGAGGAGTGGAGTATGGCA
1 GGTGGATACGGGCAGAGAGAAGTGGAGTATGGCA
* * * *
37495408 -GTAGATACGGGCCGAGAGAAGTGGGGTATTG-A
1 GGTGGATACGGGCAGAGAGAAGTGGAGTATGGCA
37495440 GGTGGATAC
1 GGTGGATAC
37495449 AAGCTGGGAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
32 1 0.03
33 32 0.97
ACGTcount: A:0.25, C:0.09, G:0.48, T:0.17
Consensus pattern (34 bp):
GGTGGATACGGGCAGAGAGAAGTGGAGTATGGCA
Found at i:37497759 original size:31 final size:31
Alignment explanation
Indices: 37497710--37497832 Score: 194
Period size: 31 Copynumber: 4.0 Consensus size: 31
37497700 TTTCCATAAA
37497710 TCAT-AATCATATCACTGGGCCGAAGCCTTT
1 TCATAAATCATATCACTGGGCCGAAGCCTTT
* * *
37497740 TCATAAATCAGATCCCTGGGTCGAAGCCTTT
1 TCATAAATCATATCACTGGGCCGAAGCCTTT
*
37497771 TCATAAATCATATCACTGGGCCAAAGCCTTT
1 TCATAAATCATATCACTGGGCCGAAGCCTTT
*
37497802 TCATAAATCATATCACTAGGCCGAAGCCTTT
1 TCATAAATCATATCACTGGGCCGAAGCCTTT
37497833 ACTGTAAACG
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
30 4 0.05
31 79 0.95
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (31 bp):
TCATAAATCATATCACTGGGCCGAAGCCTTT
Found at i:37497903 original size:42 final size:42
Alignment explanation
Indices: 37497856--37497947 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
37497846 TGGCCTTTAG
**
37497856 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATAAATGTATGCAA
37497898 GCCCATTTCAATATCACATGTAATGTCAATAAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATAAATGTATGCAA
*
37497940 GCCTATTT
1 GCCCATTT
37497948 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.33
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATAAATGTATGCAA
Found at i:37498123 original size:25 final size:25
Alignment explanation
Indices: 37498095--37498164 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
37498085 CTCTTTTAAT
37498095 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
37498120 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
37498145 AACTAGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
37498165 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:37499122 original size:27 final size:27
Alignment explanation
Indices: 37499091--37499286 Score: 111
Period size: 27 Copynumber: 7.2 Consensus size: 27
37499081 GGTAAATCTA
37499091 CAAACCAAGGGTATTTCAGTAATTTTG
1 CAAACCAAGGGTATTTCAGTAATTTTG
* *
37499118 TAAACCAATGGTATTTCTA-TAATTTTTAG
1 CAAACCAAGGGTATTTC-AGTAA-TTTT-G
*
37499147 -AAAGTCAAGGGTATTTCTA-TAATTTTG
1 CAAA-CCAAGGGTATTTC-AGTAATTTTG
* * * ** *
37499174 TAAATCAGGGGTATTTTGGTAATTTTA
1 CAAACCAAGGGTATTTCAGTAATTTTG
***
37499201 CAAATTGAGGGTATTTC-GATAA-TTTG
1 CAAACCAAGGGTATTTCAG-TAATTTTG
*
37499227 ACAAACC-AGTGGTATTTCGGTAA-TTTG
1 -CAAACCAAG-GGTATTTCAGTAATTTTG
* *
37499254 ACAAACC-AGTGGTATTTCGGTAATTTTA
1 -CAAACCAAG-GGTATTTCAGTAATTTTG
37499282 CAAAC
1 CAAAC
37499287 TAGGGTAATT
Statistics
Matches: 141, Mismatches: 17, Indels: 22
0.78 0.09 0.12
Matches are distributed among these distances:
26 6 0.04
27 99 0.70
28 19 0.13
29 17 0.12
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (27 bp):
CAAACCAAGGGTATTTCAGTAATTTTG
Found at i:37499197 original size:56 final size:54
Alignment explanation
Indices: 37499089--37499252 Score: 163
Period size: 56 Copynumber: 3.0 Consensus size: 54
37499079 TTGGTAAATC
* * *
37499089 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCA-TAATTTTGTAAACCAGTGGTATTT-TGGTAATTTT
* * *
37499144 TAGAAAGTCAAGGGTATTTCTATAATTTTGTAAATCAGGGGTATTTTGGTAA-TTT
1 TACAAA-TCAAGGGTATTTC-ATAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
** * *
37499199 TACAAATTGAGGGTATTTCGATAA-TTTGACAAACCAGTGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTC-ATAATTTTG-TAAACCAGTGGTATTTTGGTAATTT
37499253 GACAAACCAG
Statistics
Matches: 90, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
53 4 0.04
54 33 0.37
55 16 0.18
56 36 0.40
57 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCATAATTTTGTAAACCAGTGGTATTTTGGTAATTTT
Done.