Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 65 of 345
Found at i:20312202 original size:43 final size:42
Alignment explanation
Indices: 20312137--20312292 Score: 188
Period size: 43 Copynumber: 3.7 Consensus size: 42
20312127 AACTAGTACA
* *
20312137 ATGCC-ATATCCCAGACATGGTCTTACATGTTATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAA-ATCG
* * ** * * *
20312179 ATGCCACTGTCCCAGACAGGGTCTTACACATAATCTTAGATCA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATC-AAAATCG
*
20312222 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATC-AAAATCG
20312265 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
20312293 CAATATCACA
Statistics
Matches: 96, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
42 5 0.05
43 90 0.94
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAAATCG
Found at i:20312290 original size:86 final size:85
Alignment explanation
Indices: 20312135--20312294 Score: 250
Period size: 86 Copynumber: 1.9 Consensus size: 85
20312125 TAAACTAGTA
* *
20312135 CAATGCCATATCCCAGACATGGTCTTACATGTTATCAAATATCGATGCCACTGTCCCAGACAGGG
1 CAATGCCATATCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCAATGTCCCAGACAGGG
20312200 TCTTACACATAATCTTAGAT
66 TCTTACACATAATCTTAGAT
* * *
20312220 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAA-ATCGATGCCAATGTCCCAGACAT
1 CAATGCC-ATATCCCAGACATGGTCTTACATGTAATC-AAATATCGATGCCAATGTCCCAGACAG
20312284 GGTCTTACACA
64 GGTCTTACACA
20312295 ATATCACATC
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
85 7 0.10
86 59 0.87
87 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (85 bp):
CAATGCCATATCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCAATGTCCCAGACAGGG
TCTTACACATAATCTTAGAT
Found at i:20322001 original size:54 final size:54
Alignment explanation
Indices: 20321915--20322098 Score: 271
Period size: 54 Copynumber: 3.4 Consensus size: 54
20321905 AAAAACAATC
* * * *
20321915 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGT
20321968 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGT
* * *
20322022 ATTTTTACCCTACAAGGGTATTTCAGTAACTCTCCCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGT
* * *
20322076 AATTCTACCCTATAGGGGTATTT
1 ATTTCTACCCTACAAGGGTATTT
20322099 TGGTAATTTT
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 4 0.03
54 115 0.97
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGT
Found at i:20322106 original size:27 final size:27
Alignment explanation
Indices: 20321919--20322098 Score: 243
Period size: 27 Copynumber: 6.7 Consensus size: 27
20321909 ACAATCATTT
* * * *
20321919 TACCCCACAAGGGTATCTCGGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* *
20321946 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCAGTAATTC
*
20321973 TACCCTACAAGGGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* *
20322000 TACCCTACAGGGGTATTTCAGTATTTT
1 TACCCTACAGGGGTATTTCAGTAATTC
* *
20322027 TACCCTACAAGGGTATTTCAGTAACTC
1 TACCCTACAGGGGTATTTCAGTAATTC
*
20322054 TCCCCTACAGGGGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
*
20322081 TACCCTATAGGGGTATTT
1 TACCCTACAGGGGTATTT
20322099 TGGTAATTTT
Statistics
Matches: 134, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 134 1.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCAGTAATTC
Found at i:20322119 original size:27 final size:27
Alignment explanation
Indices: 20322089--20322756 Score: 594
Period size: 27 Copynumber: 24.7 Consensus size: 27
20322079 TCTACCCTAT
20322089 AGGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
20322116 AGGGGTATTTTGGTAATTTTACAAGTCT
1 AGGGGTATTTTGGTAATTTTACAA-ACC
** * *
20322144 A-GGGTATTTCAGTAATTTCACAAATC
1 AGGGGTATTTTGGTAATTTTACAAACC
**
20322170 AGGGGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
20322197 AAGGGTATTTTGGTAATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
**
20322224 AGGGGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
20322251 AAGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
20322278 AGGGGTATTTTGGTAATTTT-CTAAACC
1 AGGGGTATTTTGGTAATTTTAC-AAACC
* ** *
20322305 AAGGGTATTTTGGTAATTTTGTAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
* * ***
20322332 AAGGGTATTTTGGTAATTCTACATGTC
1 AGGGGTATTTTGGTAATTTTACAAACC
* * **
20322359 -GAGGGTATTTTAGTAATTTCACAAATT
1 AG-GGGTATTTTGGTAATTTTACAAACC
* **
20322386 AAGGGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
20322413 AAGGGTATTTTGCTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
**
20322440 AGGGGT-TTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
*
20322466 AAGGGTATTTTGGTAATTTT-CTAAACC
1 AGGGGTATTTTGGTAATTTTAC-AAACC
* **
20322493 AAGGGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
** * * **
20322520 AAAGATATTTTGGTAATTCTA-AAGGTC
1 AGGGGTATTTTGGTAATTTTACAA-ACC
* ** * * **
20322547 -GAGGGAATTTCAGAAATTTCACAAATT
1 AG-GGGTATTTTGGTAATTTTACAAACC
**
20322574 AGGGGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
** *
20322601 AATGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
* ** *
20322628 AGAGGTATTTTGGTAATTTTGTAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
* * *
20322655 AAGGGTATTTTGGTAATTTCACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
* * *
20322682 AGGGGTATTTTTGTAGTTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
* * *
20322709 AGGGGTATTTTGGTAATTTTGCTAATCG
1 AGGGGTATTTTGGTAATTTTAC-AAACC
*
20322737 ATGGGTATTTTGGTAATTTT
1 AGGGGTATTTTGGTAATTTT
20322757 GCTAATCGAG
Statistics
Matches: 519, Mismatches: 108, Indels: 27
0.79 0.17 0.04
Matches are distributed among these distances:
26 26 0.05
27 466 0.90
28 27 0.05
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:20322122 original size:81 final size:81
Alignment explanation
Indices: 20321919--20322125 Score: 227
Period size: 81 Copynumber: 2.6 Consensus size: 81
20321909 ACAATCATTT
* * * * * ** * **
20321919 TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAG
1 TACCCTACAGGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTCAGTAACTCTACCCTACAAG
20321984 GGTATTTCAGTAATTC
66 GGTATTTCAGTAATTC
* ** * * *
20322000 TACCCTACAGGGGTATTTCAGTATTTTTACCCTACAAGGGTATTTCAGTAACTCTCCCCTACAGG
1 TACCCTACAGGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTCAGTAACTCTACCCTACAAG
20322065 GGTATTTCAGTAATTC
66 GGTATTTCAGTAATTC
* **
20322081 TACCCTATAGGGGTATTTTGGTAATTTTA-CAAACCAGGGGTATTT
1 TACCCTACAGGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTT
20322126 TGGTAATTTT
Statistics
Matches: 106, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 2 0.02
81 104 0.98
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (81 bp):
TACCCTACAGGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTCAGTAACTCTACCCTACAAG
GGTATTTCAGTAATTC
Found at i:20325020 original size:26 final size:26
Alignment explanation
Indices: 20324975--20325044 Score: 117
Period size: 25 Copynumber: 2.8 Consensus size: 26
20324965 CTCTTTTAAT
20324975 AACTGGGGC-AAACCCTTTTTTGGTA
1 AACTGGGGCAAAACCCTTTTTTGGTA
20325000 AACTGGGGCAAAACCC-TTTTTGGTA
1 AACTGGGGCAAAACCCTTTTTTGGTA
*
20325025 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAACCCTTTT
20325045 CGCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
25 33 0.79
26 9 0.21
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (26 bp):
AACTGGGGCAAAACCCTTTTTTGGTA
Found at i:20325260 original size:27 final size:27
Alignment explanation
Indices: 20325230--20325444 Score: 270
Period size: 27 Copynumber: 8.0 Consensus size: 27
20325220 ACAGTCATTT
* *
20325230 TACCCCACAAGGGTATCTCGGTAATTC
1 TACCCTACAAGGGTATTTCGGTAATTC
* *
20325257 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAAGGGTATTTCGGTAATTC
20325284 TACCCTACAAGGGTATTTCGGTAATTC
1 TACCCTACAAGGGTATTTCGGTAATTC
* * *
20325311 TACCCTATAGGGGTATTTCGGTATTTC
1 TACCCTACAAGGGTATTTCGGTAATTC
* *
20325338 TACCCTACAAGGGTATTTCGATATTTC
1 TACCCTACAAGGGTATTTCGGTAATTC
*
20325365 TACCCTACAAGGGTATTTCGGTAACTC
1 TACCCTACAAGGGTATTTCGGTAATTC
* * *
20325392 T-CCTCTATAGGGGTATTTCAGTAATTC
1 TACC-CTACAAGGGTATTTCGGTAATTC
* * *
20325419 TACTCTACAGGGGTATTTTGGTAATT
1 TACCCTACAAGGGTATTTCGGTAATT
20325445 TTACAAACCA
Statistics
Matches: 163, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 160 0.98
28 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (27 bp):
TACCCTACAAGGGTATTTCGGTAATTC
Found at i:20325462 original size:81 final size:81
Alignment explanation
Indices: 20325240--20325441 Score: 316
Period size: 81 Copynumber: 2.5 Consensus size: 81
20325230 TACCCCACAA
*
20325240 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGG
*
20325305 TAATTCTACCCTATAG
66 TAACTCTACCCTATAG
* * *
20325321 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCGG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGG
20325386 TAACTCT-CCTCTATAG
66 TAACTCTACC-CTATAG
* * *
20325402 GGGTATTTCAGTAATTCTACTCTACAGGGGTATTTTGGTA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTA
20325442 ATTTTACAAA
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 2 0.02
81 107 0.98
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (81 bp):
GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGG
TAACTCTACCCTATAG
Found at i:20327112 original size:68 final size:67
Alignment explanation
Indices: 20327040--20327189 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
20327030 CATCATGTGT
* * * *
20327040 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
20327102 ATGTAG
62 ATGTAG
** * *
20327108 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
20327173 AG
66 AG
20327175 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
20327190 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:20327145 original size:64 final size:64
Alignment explanation
Indices: 20327064--20327247 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
20327054 AGACATTATG
* *
20327064 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
20327128 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
20327193 AA
63 AA
* * * *
20327195 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
20327248 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:20329225 original size:81 final size:79
Alignment explanation
Indices: 20329050--20329825 Score: 654
Period size: 81 Copynumber: 9.6 Consensus size: 79
20329040 CACAAATCAG
** * *
20329050 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTAC-AAA-CTAGGTTATTTTG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTT-CTAAACCAAGGGTATTTTG
*
20329113 GTAATTTTGTAAACTAA
65 GTAA-TTT-TAAACCAA
* *
20329130 GGGTATTTTGGTAATTCTACAAACCAGGGGTATTTTGGTAATTTTCTAAACCAAGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTCTAAACCAAGGGTATTTTGG
20329195 TAATTTCGTAAACCAA
66 TAATTT--TAAACCAA
* * *** * ** * * *
20329211 GGATATTTTGGTAATTCTACAGGTCGAGGGTATTTCAGTAA-TTTCACAAATCAGGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTC-TAAACCAAGGGTATTTTG
*
20329275 GAAATTTTGTAAACCAA
65 GTAA-TTT-TAAACCAA
* * * *
20329292 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACGAATGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTCTAAACCAAGGGTATTTTGG
* *
20329357 TAATTTTACAAGTCGA
66 TAATTTTA-AA-CCAA
*** * * * *
20329373 GGGTATTTCAATAATTTCACAAATC-AGAGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAACCAAG-GGTATTTTGGTAATTTTCTAAACCAAGGGTATTTTG
* *
20329437 ATAATTTTACAAACCAG
65 GTAATTTT--AAACCAA
** * * * * *
20329454 GGGTATTTTGGTAATTTTGTAAACTAAAGGTATTTTGGTAATCCTGC-AAACCAGGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAAT-TTTCTAAACCAAGGGTATTTTG
20329518 GTAATTTTCTAAACCAA
65 GTAA-TTT-TAAACCAA
* ** * *
20329535 GGGTATTTTGGTAATTTT-TAAACCAAGGGTATTTTGGTAA--TTCTACAGGTCGAGGGTATTTC
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTCTA-A-ACCAAGGGTATTTT
* * * *
20329597 AGTAATTTCACAAATCAG
64 GGTAATTT--TAAACCAA
** *
20329615 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTAC-AAACCAGGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTT-CTAAACCAAGGGTATTTTG
* *
20329679 GTAATTTTACAAGTCGA
65 GTAATTTTA-AA-CCAA
* * * * * *
20329696 GGGT-TTTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTGTAAACCAATGGTATTTTG
1 GGGTATTTT-GGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTCTAAACCAAGGGTATTTTG
*
20329760 GTAATTTTACAACCAG
65 GTAATTTTA-AACCAA
* ** *
20329776 GGGTATGTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTGCTAA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTT-CTAA
20329826 TCGAGGGTTA
Statistics
Matches: 559, Mismatches: 108, Indels: 57
0.77 0.15 0.08
Matches are distributed among these distances:
77 2 0.00
78 1 0.00
79 8 0.01
80 153 0.27
81 375 0.67
82 14 0.03
83 5 0.01
84 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (79 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTCTAAACCAAGGGTATTTTGG
TAATTTTAAACCAA
Found at i:20329821 original size:27 final size:27
Alignment explanation
Indices: 20329050--20329883 Score: 565
Period size: 27 Copynumber: 31.0 Consensus size: 27
20329040 CACAAATCAG
*
20329050 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACTAA
**
20329077 GGGTATTTTGGTAATTTTACAAACT-A
1 GGGTATTTTGGTAATTTTGTAAACTAA
*
20329103 GGTTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTGTAAACTAA
* ** * *
20329130 GGGTATTTTGGTAATTCTACAAACCAG
1 GGGTATTTTGGTAATTTTGTAAACTAA
* *
20329157 GGGTATTTTGGTAATTTTCTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACTAA
* *
20329184 GGGTATTTTGGTAATTTCGTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACTAA
* * ** *
20329211 GGATATTTTGGTAA--TTCTACAGGTCGA
1 GGGTATTTTGGTAATTTTGTA-AACT-AA
** *** *
20329238 GGGTATTTCAGTAATTTCACAAA-TCAG
1 GGGTATTTTGGTAATTTTGTAAACT-AA
* *
20329265 GGGTATTTTGGAAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACTAA
** * *
20329292 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTGTAAACTAA
*
20329319 GGGTATTTTGGTAATTTTGTAAACGAA
1 GGGTATTTTGGTAATTTTGTAAACTAA
* * *
20329346 TGGTATTTTGGTAA-TTT-TACAAGTCGA
1 GGGTATTTTGGTAATTTTGTA-AACT-AA
*** *** *
20329373 GGGTATTTCAATAATTTCACAAA-TCA
1 GGGTATTTTGGTAATTTTGTAAACTAA
20329399 GAGGTATTTTGGTAATTTTGTAAACTAA
1 G-GGTATTTTGGTAATTTTGTAAACTAA
* ** * *
20329427 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTGTAAACTAA
20329454 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTGTAAACTAA
* ** * * *
20329481 AGGTATTTTGGTAATCCTGCAAACCAG
1 GGGTATTTTGGTAATTTTGTAAACTAA
* *
20329508 GGGTATTTTGGTAATTTTCTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACTAA
*
20329535 GGGTATTTTGGTAATTTT-TAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACTAA
* ** *
20329561 GGGTATTTTGGTAA--TTCTACAGGTCGA
1 GGGTATTTTGGTAATTTTGTA-AACT-AA
** *** *
20329588 GGGTATTTCAGTAATTTCACAAA-TCAG
1 GGGTATTTTGGTAATTTTGTAAACT-AA
*
20329615 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACTAA
** * *
20329642 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTGTAAACTAA
* *
20329669 GGGTATTTTGGTAA-TTT-TACAAGTCGA
1 GGGTATTTTGGTAATTTTGTA-AACT-AA
* *** *
20329696 GGGT-TTTTCAGTAATTTCACAAA-TCAG
1 GGGTATTTT-GGTAATTTTGTAAACT-AA
*
20329723 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACTAA
* * *
20329750 TGGTATTTTGGTAA-TTT-TACAACCAG
1 GGGTATTTTGGTAATTTTGTA-AACTAA
*
20329776 GGGTATGTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTGTAAACTAA
* *
20329803 GGGTATTTTGGTAATTTTGCTAATC-GA
1 GGGTATTTTGGTAATTTTG-TAAACTAA
*** *
20329830 GGGT-TAAACGGTAATTTTGTAAA-TCGA
1 GGGTAT-TTTGGTAATTTTGTAAACT-AA
* *
20329857 GGGTACTTTGGTAATTTAGTAAACTAA
1 GGGTATTTTGGTAATTTTGTAAACTAA
20329884 AGTATTCTAA
Statistics
Matches: 626, Mismatches: 147, Indels: 68
0.74 0.17 0.08
Matches are distributed among these distances:
24 2 0.00
25 10 0.02
26 87 0.14
27 497 0.79
28 24 0.04
29 6 0.01
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGTAAACTAA
Found at i:20333073 original size:43 final size:41
Alignment explanation
Indices: 20332942--20333076 Score: 132
Period size: 43 Copynumber: 3.2 Consensus size: 41
20332932 TACATGCTAT
20332942 CACATATCGATGCCACTATCCCAGACAG-GGTCTTACAC-AAA
1 CACATATCGATGCCAC-ATCCCAGAC-GTGGTCTTACACGAAA
* ** * *
20332983 C-CAAATACGATGCCGATGTCCCAGACATGGTCTTACACGTAAT
1 CACATAT-CGATGCC-ACATCCCAGACGTGGTCTTACACG-AAA
*
20333026 CACATATCGATGCCAACATCCCAGACGTGGTCTTACTCGAGAA
1 CACATATCGATGCC-ACATCCCAGACGTGGTCTTACACGA-AA
20333069 CACATATC
1 CACATATC
20333077 TAAAATCCTA
Statistics
Matches: 75, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
40 4 0.05
41 26 0.35
42 2 0.03
43 39 0.52
44 4 0.05
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.21
Consensus pattern (41 bp):
CACATATCGATGCCACATCCCAGACGTGGTCTTACACGAAA
Found at i:20339591 original size:30 final size:30
Alignment explanation
Indices: 20339557--20339617 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
20339547 TTCCCGAGCC
20339557 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
20339587 TAGGGGCAAAATTGTAACTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
20339617 T
1 T
20339618 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:20344271 original size:43 final size:43
Alignment explanation
Indices: 20344131--20344284 Score: 154
Period size: 43 Copynumber: 3.6 Consensus size: 43
20344121 ATATCGTACA
* * * *
20344131 ATGCCAACGTCCCAGACGTGGTCTTACATGCT-ACCTCATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-TAATCACATATCG
* * *
20344174 ATGCC-ACTGTCCCAAACAGGGTCTTACACG-AATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCACATATCG
*** *
20344215 ATGTTGATGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
*
20344258 ATGCCAACGTCCCAGATATGGTCTTAC
1 ATGCCAACGTCCCAGACATGGTCTTAC
20344285 TTGAGAAAAC
Statistics
Matches: 88, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
41 25 0.28
42 16 0.18
43 47 0.53
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:20349765 original size:30 final size:30
Alignment explanation
Indices: 20349731--20349792 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
20349721 TTTTATTTTA
20349731 TTTTATTTAATATAAATAT-AAAATAATAAT
1 TTTTATTTAATATAAATATGAAAATAA-AAT
* *
20349761 TTTTATTTAATATTAATATGAATATAAAAT
1 TTTTATTTAATATAAATATGAAAATAAAAT
20349791 TT
1 TT
20349793 AATTTATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 23 0.79
31 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (30 bp):
TTTTATTTAATATAAATATGAAAATAAAAT
Found at i:20349810 original size:36 final size:35
Alignment explanation
Indices: 20349726--20349810 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 35
20349716 AGAGTTTTTA
20349726 TTTTATTT-TATTTAATATAAATATAAAATAATAAT
1 TTTTATTTATA-TTAATATAAATATAAAATAATAAT
* *
20349761 TTTTATTTAATATTAATATGAATATAAAAT-TTAAT
1 TTTTATTT-ATATTAATATAAATATAAAATAATAAT
20349796 TTATTATTATATATT
1 TT-TTATT-TATATT
20349811 TTTTAAAACA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
35 14 0.32
36 27 0.61
37 3 0.07
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (35 bp):
TTTTATTTATATTAATATAAATATAAAATAATAAT
Found at i:20350936 original size:28 final size:28
Alignment explanation
Indices: 20350873--20350937 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
20350863 ATATATTTAT
* * *
20350873 ATTAATTTTTCTATTATTAAATAAATTA
1 ATTAAATTTTATACTATTAAATAAATTA
20350901 ATTAAAATTTTATACTATTAAAT-AATTAA
1 ATT-AAATTTTATACTATTAAATAAATT-A
20350930 ATTAAATT
1 ATTAAATT
20350938 AAATTAGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 12 0.38
29 20 0.62
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (28 bp):
ATTAAATTTTATACTATTAAATAAATTA
Found at i:20376019 original size:21 final size:22
Alignment explanation
Indices: 20375981--20376021 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
20375971 ATTACTTATA
*
20375981 TGTATTTATGATATACAAATAT
1 TGTATTTATGATAAACAAATAT
*
20376003 TGTATTTA-GGTAAACAAAT
1 TGTATTTATGATAAACAAAT
20376022 GCTATAGTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.41
Consensus pattern (22 bp):
TGTATTTATGATAAACAAATAT
Found at i:20397063 original size:24 final size:25
Alignment explanation
Indices: 20397036--20397083 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
20397026 TATTCAACTC
*
20397036 AATAGATCTTACTGTTT-TCAGCTG
1 AATAGAGCTTACTGTTTATCAGCTG
20397060 AATAGAGCTTACTGTTTATCAGCT
1 AATAGAGCTTACTGTTTATCAGCT
20397084 CAGGAGGAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (25 bp):
AATAGAGCTTACTGTTTATCAGCTG
Found at i:20397099 original size:26 final size:24
Alignment explanation
Indices: 20396971--20397099 Score: 81
Period size: 23 Copynumber: 5.5 Consensus size: 24
20396961 ACTGCTTGTA
* *
20396971 AGAGCTTACTGTTTT-AGCTTATTG
1 AGAGCTTACTGTTTTCAGCTCA-AG
* *
20396995 -GAGCTTACCGATTT-AGCTCGAAG
1 AGAGCTTACTGTTTTCAGCTC-AAG
* * *
20397018 -GAGCTTAC--TATTCAACTCAAT
1 AGAGCTTACTGTTTTCAGCTCAAG
* * *
20397039 AGATCTTACTGTTTTCAGCTGAAT
1 AGAGCTTACTGTTTTCAGCTCAAG
*
20397063 AGAGCTTACTGTTTATCAGCTCAGG
1 AGAGCTTACTGTTT-TCAGCTCAAG
20397088 AGGAGCTTACTG
1 A-GAGCTTACTG
20397100 ACCATGACTC
Statistics
Matches: 82, Mismatches: 16, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
21 4 0.05
22 11 0.13
23 25 0.30
24 24 0.29
25 8 0.10
26 10 0.12
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (24 bp):
AGAGCTTACTGTTTTCAGCTCAAG
Found at i:20399960 original size:27 final size:26
Alignment explanation
Indices: 20399930--20400011 Score: 119
Period size: 27 Copynumber: 3.1 Consensus size: 26
20399920 AATCTCATAT
* *
20399930 CTGTAGGCTAGTATTACTGAAATAACC
1 CTGTAGGGTAGAATTACTGAAAT-ACC
*
20399957 CTGTAGGGTAGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAAT-ACC
20399984 CTGTAGGGTAGAATTACTGAAATACC
1 CTGTAGGGTAGAATTACTGAAATACC
20400010 CT
1 CT
20400012 TAGTTTACAA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 4 0.08
27 46 0.92
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (26 bp):
CTGTAGGGTAGAATTACTGAAATACC
Found at i:20400033 original size:26 final size:27
Alignment explanation
Indices: 20399995--20400051 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
20399985 TGTAGGGTAG
*
20399995 AATTACTGAAATACCCTTAGTTTACAA
1 AATTACTGAAATACCCTTAGCTTACAA
*
20400022 AATTACTG-AATACCCTTGGCTTACAA
1 AATTACTGAAATACCCTTAGCTTACAA
20400048 AATT
1 AATT
20400052 TCCAAAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
AATTACTGAAATACCCTTAGCTTACAA
Found at i:20402250 original size:27 final size:27
Alignment explanation
Indices: 20402220--20402302 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
20402210 AATCTCATAT
*
20402220 CTGTAAGCTAGAATTACTGAAATACCC
1 CTGTAAGGTAGAATTACTGAAATACCC
* *
20402247 CTGTATGGTAGAATTACTGAAATGCCC
1 CTGTAAGGTAGAATTACTGAAATACCC
* * *
20402274 TTGGAGGGTAGAATTACT-AAATACCC
1 CTGTAAGGTAGAATTACTGAAATACCC
20402300 CTG
1 CTG
20402303 GTTTGTAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 9 0.19
27 39 0.81
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (27 bp):
CTGTAAGGTAGAATTACTGAAATACCC
Found at i:20402315 original size:53 final size:53
Alignment explanation
Indices: 20402228--20402383 Score: 154
Period size: 54 Copynumber: 2.9 Consensus size: 53
20402218 ATCTGTAAGC
* * *
20402228 TAGAATTACTGAAATACCCCT-GTATGGTAGAATTACTGAAATGCCCTTGGAGGG
1 TAGAATTACT-AAATACCCCTGGT-TTGTAAAATTACTGAAATACCCTTGGAGGG
* ***
20402282 TAGAATTACTAAATACCCCTGGTTTGTAAAATTAC-CAATATACCCTTGGTTTG
1 TAGAATTACTAAATACCCCTGGTTTGTAAAATTACTGAA-ATACCCTTGGAGGG
* * * * *
20402335 TAAAATTACCAAAATACCCCTGATTTGTGAAATTATTGAAATACCCTTG
1 TAGAATTA-CTAAATACCCCTGGTTTGTAAAATTACTGAAATACCCTTG
20402384 ACCTGTAAAA
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
52 2 0.02
53 37 0.44
54 44 0.52
55 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (53 bp):
TAGAATTACTAAATACCCCTGGTTTGTAAAATTACTGAAATACCCTTGGAGGG
Found at i:20402376 original size:27 final size:27
Alignment explanation
Indices: 20402292--20402634 Score: 185
Period size: 27 Copynumber: 12.7 Consensus size: 27
20402282 TAGAATTACT
* *
20402292 AAATACCCCTGGTTTGTAAAATTA-CC
1 AAATACCCCTGATTTGTAAAATTATCG
* * * *
20402318 AATATACCCTTGGTTTGTAAAATTACCA
1 AA-ATACCCCTGATTTGTAAAATTATCG
* *
20402346 AAATACCCCTGATTTGTGAAATTATTG
1 AAATACCCCTGATTTGTAAAATTATCG
* ** *
20402373 AAATACCCTTGACCTGTAAAATTGTCG
1 AAATACCCCTGATTTGTAAAATTATCG
* ** *
20402400 AAATACCCTTGACCTATAAAATTA-CTG
1 AAATACCCCTGATTTGTAAAATTATC-G
* * *
20402427 -AATAACCTTCGACTTGTAAAATTATCG
1 AAATACCCCT-GATTTGTAAAATTATCG
* * *
20402454 AAATA-TCCTCGATTTGTAAAATTAACA
1 AAATACCCCT-GATTTGTAAAATTATCG
* * * *
20402481 AAATACCCTTAATTTGGAAAATTATCA
1 AAATACCCCTGATTTGTAAAATTATCG
* * *
20402508 AAATACACTTGATTTGGAAAATTA-CAG
1 AAATACCCCTGATTTGTAAAATTATC-G
* ** *
20402535 AAATACCCCTAATTTACAAAATTATAG
1 AAATACCCCTGATTTGTAAAATTATCG
* **
20402562 AAATACCCTTGACTTTCAAAAATTA-CAG
1 AAATACCCCTGA-TTTGTAAAATTATC-G
** * * * *
20402590 AAATACCATTGGTTTGCAAAATTACCA
1 AAATACCCCTGATTTGTAAAATTATCG
* *
20402617 AAATACCCTTGGTTTGTA
1 AAATACCCCTGATTTGTA
20402635 GATTTACCAA
Statistics
Matches: 255, Mismatches: 50, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
26 12 0.05
27 211 0.83
28 32 0.13
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATACCCCTGATTTGTAAAATTATCG
Found at i:20402379 original size:54 final size:54
Alignment explanation
Indices: 20402292--20402634 Score: 280
Period size: 54 Copynumber: 6.3 Consensus size: 54
20402282 TAGAATTACT
* * * * *
20402292 AAATACCCCTGGTTTGTAAAATTACCA-ATATACCCTTGGTTTGTAAAATTACCA
1 AAATACCCTTGATTTGTAAAATTA-CAGAAATACCCTTGATTTGTAAAATTATCA
* * ** ** * *
20402346 AAATACCCCTGATTTGTGAAATTATTGAAATACCCTTGACCTGTAAAATTGTCG
1 AAATACCCTTGATTTGTAAAATTACAGAAATACCCTTGATTTGTAAAATTATCA
** * * * * *
20402400 AAATACCCTTGACCTATAAAATTACTG-AATAACCTTCGACTTGTAAAATTATCG
1 AAATACCCTTGATTTGTAAAATTACAGAAATACCCTT-GATTTGTAAAATTATCA
* * * *
20402454 AAATATCCTCGATTTGTAAAATTAACA-AAATACCCTTAATTTGGAAAATTATCA
1 AAATACCCTTGATTTGTAAAATT-ACAGAAATACCCTTGATTTGTAAAATTATCA
* * * * **
20402508 AAATACACTTGATTTGGAAAATTACAGAAATACCCCTAATTTACAAAATTAT-A
1 AAATACCCTTGATTTGTAAAATTACAGAAATACCCTTGATTTGTAAAATTATCA
** * * * *
20402561 GAAATACCCTTGACTTTCAAAAATTACAGAAATACCATTGGTTTGCAAAATTACCA
1 -AAATACCCTTGA-TTTGTAAAATTACAGAAATACCCTTGATTTGTAAAATTATCA
*
20402617 AAATACCCTTGGTTTGTA
1 AAATACCCTTGATTTGTA
20402635 GATTTACCAA
Statistics
Matches: 231, Mismatches: 50, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
53 12 0.05
54 165 0.71
55 53 0.23
56 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (54 bp):
AAATACCCTTGATTTGTAAAATTACAGAAATACCCTTGATTTGTAAAATTATCA
Found at i:20402529 original size:81 final size:80
Alignment explanation
Indices: 20402304--20402634 Score: 215
Period size: 81 Copynumber: 4.1 Consensus size: 80
20402294 ATACCCCTGG
* * * * *
20402304 TTTGTAAAATTACCAATATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTG-AAAT
1 TTTGTAAAATTAACAAAATACCCTTGATTTGTAAAATTA-CAAAATACACTTGATTTG-GAAAAT
* *
20402368 TATTGAAATACCCTTGA
64 TATCGAAATACCCTCGA
** ** * ** * ** * *
20402385 CCTGTAAAATTGTCGAAATACCCTTGACCTATAAAATTACTGAATA-ACCTTCGACTTGTAAAAT
1 TTTGTAAAATTAACAAAATACCCTTGATTTGTAAAATTACAAAATACA-CTT-GATTTGGAAAAT
*
20402449 TATCGAAATATCCTCGA
64 TATCGAAATACCCTCGA
* *
20402466 TTTGTAAAATTAACAAAATACCCTTAATTTGGAAAATTATCAAAATACACTTGATTTGGAAAATT
1 TTTGTAAAATTAACAAAATACCCTTGATTTGTAAAATTA-CAAAATACACTTGATTTGGAAAATT
*
20402531 A-CAGAAATACCC-CTAA
65 ATC-GAAATACCCTC-GA
** * ** * *
20402547 TTTACAAAATTATA-GAAATACCCTTGACTTTCAAAAATTACAGAAATAC-CATTGGTTTGCAAA
1 TTTGTAAAATTA-ACAAAATACCCTTGA-TTTGTAAAATTACA-AAATACAC-TTGATTTGGAAA
* * * *
20402610 ATTACCAAAATACCCTTGG
62 ATTATCGAAATACCCTCGA
20402629 TTTGTA
1 TTTGTA
20402635 GATTTACCAA
Statistics
Matches: 188, Mismatches: 49, Indels: 25
0.72 0.19 0.10
Matches are distributed among these distances:
80 9 0.05
81 126 0.67
82 51 0.27
83 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.33
Consensus pattern (80 bp):
TTTGTAAAATTAACAAAATACCCTTGATTTGTAAAATTACAAAATACACTTGATTTGGAAAATTA
TCGAAATACCCTCGA
Found at i:20402937 original size:41 final size:41
Alignment explanation
Indices: 20402892--20403055 Score: 258
Period size: 41 Copynumber: 4.0 Consensus size: 41
20402882 GGAGGAAGAA
20402892 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
* * * *
20402933 ATTGAGGATTGCATGGTTGCTTGACAACCGTGGATCCACAG
1 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
*
20402974 ATTGAGGATTGCATGGTTGCTTGACGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
*
20403015 ATTAAGGATCGCATGGTTGCTTGACGA-CTGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGATC-GTGGATCCACCG
20403056 GTAGCTTTTA
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 1 0.01
41 112 0.99
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
Found at i:20405214 original size:40 final size:40
Alignment explanation
Indices: 20405159--20405353 Score: 275
Period size: 40 Copynumber: 4.8 Consensus size: 40
20405149 TATTCGGATG
* *
20405159 ATATCCGGGCTAAGTCCTGAAGGCATTTGTG-TAGGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACT
**
20405199 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGTTTCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTGACT
*
20405242 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
20405282 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
20405322 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
20405354 GAGTTGTTAT
Statistics
Matches: 140, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
40 102 0.73
43 36 0.26
44 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:20405302 original size:83 final size:81
Alignment explanation
Indices: 20405163--20405353 Score: 269
Period size: 83 Copynumber: 2.3 Consensus size: 81
20405153 CGGATGATAT
* * *
20405163 CCGGGCTAAGTCCTGAAGGCATTTGTG-TAGGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGGTGACTATATCCGGGCTAAGTCCCGAAGGCATTC
* **
20405227 GTGCAAGTAGTTTCTATAC
66 ATGC---TAGTGACTATAC
20405246 CCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGGTGACTATATCCGGGCTAAGTCCCGAAGGCATTC
*
20405310 ATGCTAGTGACTATAT
66 ATGCTAGTGACTATAC
*
20405326 CCGGGCTAAGACCCGAAGGCATTTGTGC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC
20405354 GAGTTGTTAT
Statistics
Matches: 99, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
80 36 0.36
83 61 0.62
84 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGGTGACTATATCCGGGCTAAGTCCCGAAGGCATTC
ATGCTAGTGACTATAC
Found at i:20406315 original size:11 final size:11
Alignment explanation
Indices: 20406299--20406324 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
20406289 CTGACTTTGG
20406299 AAATTTACCAT
1 AAATTTACCAT
20406310 AAATTTACCAT
1 AAATTTACCAT
20406321 AAAT
1 AAAT
20406325 AATTAGTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATTTACCAT
Found at i:20407044 original size:27 final size:27
Alignment explanation
Indices: 20407013--20407072 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
20407003 TTTGATACTA
* *
20407013 ATTCTG-TACTAGGCTTAGGCCCACCTG
1 ATTCTGTTAATAGGC-TAGGCCCAACTG
* *
20407040 ATTCTGTTAATGGGCTAGGCCCAATTG
1 ATTCTGTTAATAGGCTAGGCCCAACTG
20407067 ATTCTG
1 ATTCTG
20407073 ATGAGGGCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
ATTCTGTTAATAGGCTAGGCCCAACTG
Found at i:20407641 original size:19 final size:18
Alignment explanation
Indices: 20407619--20407661 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
20407609 AATGGCCGGA
20407619 GGTTTTAAAT-AGCAAGAAT
1 GGTTTTAAATGAG-AA-AAT
*
20407638 GGTTTTCAATGAGAAAAT
1 GGTTTTAAATGAGAAAAT
20407656 GGTTTT
1 GGTTTT
20407662 CAAAAAACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 9 0.41
19 11 0.50
20 2 0.09
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (18 bp):
GGTTTTAAATGAGAAAAT
Found at i:20409970 original size:81 final size:80
Alignment explanation
Indices: 20409742--20410081 Score: 240
Period size: 80 Copynumber: 4.2 Consensus size: 80
20409732 TTGGTTTACG
* * *** * *
20409742 AAATTACCAAAATACCCCCGATTTGTAAAGTTATCAAAATACCTAAGGTTT-GTAAATTACCAAA
1 AAATTACCAAAATA-CCCCGATTTGTAAAATTACCAAAATACCCCTGATTTGGAAAATTACCAAA
**
20409806 ATACCCCTGGTTTGTA
65 ATACCCCTGACTTGTA
* * * * ***
20409822 AAATTACCAAAATACCCCTGATTTGTGAAATTACCGAAATA-CCCTCGACTTGTAAAATTATTGA
1 AAATTACCAAAATACCCC-GATTTGTAAAATTACCAAAATACCCCT-GATTTGGAAAATTACCAA
20409886 AATA-CCCTCGACTTGTA
64 AATACCCCT-GACTTGTA
* * *
20409903 AAATTACTAAAATACCCTCAATTTTTAAAATTACCAAAATACCCCTGATTTGGAAAATTACCAAA
1 AAATTACCAAAATACCC-CGATTTGTAAAATTACCAAAATACCCCTGATTTGGAAAATTACCAAA
** ** *
20409968 ATA-CTTTGGTTTGGA
65 ATACCCCTGACTTGTA
* ** * * * **
20409983 AAATTACAAAAATACCCCTGATTTAAAAAATTACAAAAATACTCTTGACTTTTAAAAATTA-CAG
1 AAATTACCAAAATACCCC-GATTTGTAAAATTACCAAAATACCCCTGA-TTTGGAAAATTACCA-
** **
20410047 AAATACCATTGGTTTGTA
63 AAATACCCCTGACTTGTA
*
20410065 AAATTACCGAAATACCC
1 AAATTACCAAAATACCC
20410082 TTGGTTTGTA
Statistics
Matches: 206, Mismatches: 44, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
79 6 0.03
80 85 0.41
81 85 0.41
82 30 0.15
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.30
Consensus pattern (80 bp):
AAATTACCAAAATACCCCGATTTGTAAAATTACCAAAATACCCCTGATTTGGAAAATTACCAAAA
TACCCCTGACTTGTA
Found at i:20410085 original size:27 final size:27
Alignment explanation
Indices: 20409742--20410111 Score: 300
Period size: 27 Copynumber: 13.7 Consensus size: 27
20409732 TTGGTTTACG
**
20409742 AAATTACCAAAATACCCCCGATTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* * * *
20409769 AAGTTATCAAAATA-CCTAAGGTTTGT-
1 AAATTACCAAAATACCCT-TGATTTGTA
* *
20409795 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
20409822 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
20409849 AAATTACCGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
*** * *
20409876 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* ** *
20409903 AAATTACTAAAATACCCTCAATTTTTA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
20409930 AAATTACCAAAATACCCCTGATTTGGA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
20409957 AAATTACCAAAATA-CTTTGGTTTGGA
1 AAATTACCAAAATACCCTTGATTTGTA
* * **
20409983 AAATTACAAAAATACCCCTGATTTAAA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
20410010 AAATTACAAAAATACTCTTGACTTT-TAA
1 AAATTACCAAAATACCCTTGA-TTTGT-A
* *
20410038 AAATTA-CAGAAATACCATTGGTTTGTA
1 AAATTACCA-AAATACCCTTGATTTGTA
* *
20410065 AAATTACCGAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* * * *
20410092 GATTTACCAAGACACCCTTG
1 AAATTACCAAAATACCCTTG
20410112 TAAGGTGAAA
Statistics
Matches: 282, Mismatches: 52, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
26 43 0.15
27 218 0.77
28 21 0.07
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGATTTGTA
Found at i:20410239 original size:20 final size:20
Alignment explanation
Indices: 20410216--20410260 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
20410206 GACTATGTTT
20410216 TGATTGAGAATG-TGTGACTG
1 TGATTG-GAATGTTGTGACTG
*
20410236 TGATTGGACTGTTGTGACTG
1 TGATTGGAATGTTGTGACTG
20410256 TGATT
1 TGATT
20410261 TGTATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.20, C:0.07, G:0.33, T:0.40
Consensus pattern (20 bp):
TGATTGGAATGTTGTGACTG
Found at i:20410394 original size:41 final size:41
Alignment explanation
Indices: 20410348--20410471 Score: 185
Period size: 41 Copynumber: 3.0 Consensus size: 41
20410338 CGGAGGAAGA
*
20410348 AATTGAGGATTGCATGGTTGCTTGGTGATCGTGGATCCACC
1 AATTGAGGATTGCATGGTTGCTTGATGATCGTGGATCCACC
* * * * *
20410389 GATTGAGGATTGCATGGTTTCTTGACGATCATGGATCCATC
1 AATTGAGGATTGCATGGTTGCTTGATGATCGTGGATCCACC
*
20410430 AATTAAGGATTGCATGGTTGCTTGATGATCGTGGATCCACC
1 AATTGAGGATTGCATGGTTGCTTGATGATCGTGGATCCACC
20410471 A
1 A
20410472 GTGGCTTTTA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (41 bp):
AATTGAGGATTGCATGGTTGCTTGATGATCGTGGATCCACC
Found at i:20411078 original size:27 final size:27
Alignment explanation
Indices: 20411047--20411099 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
20411037 GCATTTGATA
*
20411047 CTGATTCTG-TATTGGGCTTAGGCCCAC
1 CTGATTCTGTTAATGGGC-TAGGCCCAC
20411074 CTGATTCTGTTAATGGGCTAGGCCCA
1 CTGATTCTGTTAATGGGCTAGGCCCA
20411100 ACTGTTACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.17, C:0.25, G:0.26, T:0.32
Consensus pattern (27 bp):
CTGATTCTGTTAATGGGCTAGGCCCAC
Found at i:20415240 original size:23 final size:24
Alignment explanation
Indices: 20415160--20415242 Score: 80
Period size: 26 Copynumber: 3.4 Consensus size: 24
20415150 TGATATATGT
* *
20415160 TAAAATATATATTAATATGATAATA
1 TAAAATATA-AGTAACATGATAATA
*
20415185 GAAAAATATGAAGTAACATGAT-ATAA
1 -TAAAATAT-AAGTAACATGATAAT-A
*
20415211 TAAAATATAAGTAA-ATAATAATA
1 TAAAATATAAGTAACATGATAATA
20415234 TAAAATATA
1 TAAAATATA
20415243 TAATACACAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
23 14 0.29
24 8 0.16
25 9 0.18
26 17 0.35
27 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.31
Consensus pattern (24 bp):
TAAAATATAAGTAACATGATAATA
Found at i:20415260 original size:26 final size:24
Alignment explanation
Indices: 20415187--20415283 Score: 67
Period size: 26 Copynumber: 3.9 Consensus size: 24
20415177 TGATAATAGA
*
20415187 AAAATATGAAGTAACATGATATA-AT
1 AAAATAT-AAATAACAT-ATATATAT
*
20415212 AAAATATAAGTAA-ATA-ATAATAT
1 AAAATATAAATAACATATAT-ATAT
20415235 AAAATATATAATACACATATATATAT
1 AAAATATA-AATA-ACATATATATAT
*
20415261 ATTAAA-ATAAAATAATATATATA
1 A--AAATAT-AAATAACATATATA
20415284 CAATTTAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 17
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.03
22 2 0.03
23 12 0.20
24 9 0.15
25 8 0.13
26 16 0.26
27 8 0.13
28 4 0.07
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (24 bp):
AAAATATAAATAACATATATATAT
Found at i:20415262 original size:28 final size:24
Alignment explanation
Indices: 20415187--20415300 Score: 74
Period size: 24 Copynumber: 4.7 Consensus size: 24
20415177 TGATAATAGA
* *
20415187 AAAATATGAAGTAACATGATATA-AT
1 AAAATAT-AAATAA-ATAATATATAT
*
20415212 AAAATATAAGTAAATAATA-ATAT
1 AAAATATAAATAAATAATATATAT
* *
20415235 AAAATATATAATACA-CATATATAT
1 AAAATATA-AATAAATAATATATAT
* *
20415259 ATATTA-AAATAAAATAATATATAT
1 AAAATATAAAT-AAATAATATATAT
* *
20415283 ACAATTTAAAATAAATAA
1 AAAATAT-AAATAAATAA
20415301 GTTATAAATA
Statistics
Matches: 71, Mismatches: 11, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
22 4 0.06
23 21 0.30
24 29 0.41
25 13 0.18
26 4 0.06
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (24 bp):
AAAATATAAATAAATAATATATAT
Found at i:20415313 original size:25 final size:27
Alignment explanation
Indices: 20415262--20415319 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
20415252 TATATATATA
*
20415262 TTAAAATAAAATAATATATATACAA-T
1 TTAAAATAAAATAATATATAAACAATT
*
20415288 TTAAAAT-AAATAAGT-TATAAATAATT
1 TTAAAATAAAATAA-TATATAAACAATT
20415314 TTAAAA
1 TTAAAA
20415320 AGGATAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
TTAAAATAAAATAATATATAAACAATT
Found at i:20416950 original size:43 final size:44
Alignment explanation
Indices: 20416868--20416950 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 44
20416858 CATGTTGATA
* *
20416868 TCTTCGATTTGCTCTCCGTCGAATACAGAGACGCTAAATCTGTT
1 TCTTCGATTTGCTCTCCGACGAATACAGAGACGCCAAATCTGTT
* * *
20416912 TCTTCGATTTGTTCTCTGAC-AATACAGAGATGCCAAATC
1 TCTTCGATTTGCTCTCCGACGAATACAGAGACGCCAAATC
20416951 ATCTTAGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 17 0.50
44 17 0.50
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (44 bp):
TCTTCGATTTGCTCTCCGACGAATACAGAGACGCCAAATCTGTT
Found at i:20417274 original size:206 final size:206
Alignment explanation
Indices: 20416913--20417674 Score: 1161
Period size: 206 Copynumber: 3.7 Consensus size: 206
20416903 AAATCTGTTT
*
20416913 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
* * ** *
20416978 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATAG-CAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTATTCCTTGTAAACACAAGGAT-GCCAAACCATCT
* * * ** * * *
20417042 TGGATCTGGTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
130 TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGTTATGTATCTGCTCTCCGTCGAATAT
*
20417107 GGAGATGCCAAA
195 GGAGACGCCAAA
* *
20417119 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGTGTAAGCAG
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
* * *
20417184 GTGAAAGCTAAATCAGCTATGAT-TTTGATTTATTCCTTGTAAACACAAGGATGCCAAATCATCT
66 GTGAAAGCCAAATCAGCTATG-TCTTCGATTTATTCCTTGTAAACACAAGGATGCCAAACCATCT
* *
20417248 TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGTTATGTATCTGCTCTCGGTCAAATAT
130 TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGTTATGTATCTGCTCTCCGTCGAATAT
*
20417313 GGGGACGCCAAA
195 GGAGACGCCAAA
20417325 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
* * *
20417390 GTGAAAGCTAAATCAGCTATGAT-TTCGATTTATTCCTTATAAACACAAGGATGCCAAATCATCT
66 GTGAAAGCCAAATCAGCTATG-TCTTCGATTTATTCCTTGTAAACACAAGGATGCCAAACCATCT
* *
20417454 TGGATCGGCTTCAGTATAAACATCTGAAGGCCAGATCTGTTATGTATCTACTCTCCGTCGAATAT
130 TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGTTATGTATCTGCTCTCCGTCGAATAT
20417519 GGAGACGCCAAA
195 GGAGACGCCAAA
* * *
20417531 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
* * *
20417596 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATATT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTATTCCTTGTAAACACAAGGATGCCAAACCATCTT
20417661 GGATCTTGCTTCAG
131 GGATC-TGCTTCAG
20417675 CCAGATCTGC
Statistics
Matches: 510, Mismatches: 42, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
205 2 0.00
206 500 0.98
207 8 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTATTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGTTATGTATCTGCTCTCCGTCGAATATG
GAGACGCCAAA
Found at i:20418555 original size:9 final size:9
Alignment explanation
Indices: 20418541--20418602 Score: 69
Period size: 8 Copynumber: 7.3 Consensus size: 9
20418531 GGCCTCTCCA
20418541 TTTTTCTCT
1 TTTTTCTCT
20418550 TTTTTC-CT
1 TTTTTCTCT
* *
20418558 CTTCTCTCT
1 TTTTTCTCT
20418567 TTTTTCT-T
1 TTTTTCTCT
20418575 TTTTT-TCT
1 TTTTTCTCT
*
20418583 TTTTTTTCT
1 TTTTTCTCT
20418592 TTTTTCT-T
1 TTTTTCTCT
20418600 TTT
1 TTT
20418603 GTTTTGTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
7 1 0.02
8 22 0.49
9 22 0.49
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTCTCT
Found at i:20418570 original size:1 final size:1
Alignment explanation
Indices: 20418566--20418648 Score: 67
Period size: 1 Copynumber: 83.0 Consensus size: 1
20418556 CTCTTCTCTC
* * * * * * * * *
20418566 TTTTTTCTTTTTTTTCTTTTTTTTCTTTTTTCTTTTTGTTTTGTTTTTTATTTTTTTATTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
20418631 TTTGTTTTTTTTTATTTT
1 TTTTTTTTTTTTTTTTTT
20418649 CGAAACCTCA
Statistics
Matches: 60, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.04, C:0.05, G:0.05, T:0.87
Consensus pattern (1 bp):
T
Found at i:20418579 original size:25 final size:25
Alignment explanation
Indices: 20418541--20418602 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
20418531 GGCCTCTCCA
20418541 TTTTTCTCTTTTTTCCTCTTCTCTCT
1 TTTTTCT-TTTTTTCCTCTTCTCTCT
* * * *
20418567 TTTTTCTTTTTTTTCTTTTTTTTCT
1 TTTTTCTTTTTTTCCTCTTCTCTCT
20418592 TTTTTCTTTTT
1 TTTTTCTTTTT
20418603 GTTTTGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 25 0.78
26 7 0.22
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (25 bp):
TTTTTCTTTTTTTCCTCTTCTCTCT
Found at i:20418612 original size:26 final size:24
Alignment explanation
Indices: 20418566--20418649 Score: 98
Period size: 26 Copynumber: 3.3 Consensus size: 24
20418556 CTCTTCTCTC
20418566 TTTTTTCTTTTTTTTCT-TTTTTTT
1 TTTTTTCTTTTTTTT-TGTTTTTTT
20418590 CTTTTTTCTTTTTGTTTTGTTTTTTAT
1 -TTTTTTCTTTTT-TTTTGTTTTTT-T
*
20418617 TTTTTTATTTTTTGTTTGTTTTTTT
1 TTTTTTCTTTTTT-TTTGTTTTTTT
20418642 TTATTTTC
1 TT-TTTTC
20418650 GAAACCTCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
25 17 0.33
26 34 0.65
27 1 0.02
ACGTcount: A:0.04, C:0.06, G:0.05, T:0.86
Consensus pattern (24 bp):
TTTTTTCTTTTTTTTTGTTTTTTT
Found at i:20427239 original size:39 final size:40
Alignment explanation
Indices: 20427162--20427308 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
20427152 TAGCTCCTCG
* * *
20427162 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
20427202 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
20427241 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
20427281 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
20427309 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:20427319 original size:80 final size:80
Alignment explanation
Indices: 20427208--20427388 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
20427198 CTCATTCAAT
* * *
20427208 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
20427271 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
20427287 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
20427351 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
20427368 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
20427389 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:20427348 original size:40 final size:40
Alignment explanation
Indices: 20427205--20427388 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
20427195 TAACTCATTC
* *
20427205 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
20427245 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
20427285 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
20427325 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
20427366 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20427389 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:20435084 original size:39 final size:40
Alignment explanation
Indices: 20435007--20435153 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
20434997 TAGCTCCTCG
* * *
20435007 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
20435047 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
20435086 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
20435126 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
20435154 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:20435164 original size:80 final size:80
Alignment explanation
Indices: 20435053--20435233 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
20435043 CTCATTCAAT
* * *
20435053 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
20435116 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
20435132 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
20435196 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
20435213 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
20435234 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:20435193 original size:40 final size:40
Alignment explanation
Indices: 20435050--20435233 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
20435040 TAACTCATTC
* *
20435050 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
20435090 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
20435130 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
20435170 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
20435211 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20435234 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:20440510 original size:21 final size:22
Alignment explanation
Indices: 20440477--20440520 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
20440467 ATAAAATAAT
*
20440477 AAACATATTTAA-TAATACATGA
1 AAACATATGTAATTAATA-ATGA
20440499 AAACATA-GTAATTAATAATGA
1 AAACATATGTAATTAATAATGA
20440520 A
1 A
20440521 TTTTGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
AAACATATGTAATTAATAATGA
Found at i:20440851 original size:5 final size:5
Alignment explanation
Indices: 20440841--20440924 Score: 57
Period size: 5 Copynumber: 16.4 Consensus size: 5
20440831 AAATATGAAG
* *
20440841 TAATA TAATA TAATA AAATA TAAGTA -AATAA TAATA TAAAA T-ATA TAATA
1 TAATA TAATA TAATA TAATA TAA-TA TAAT-A TAATA TAATA TAATA TAATA
* * *
20440891 CACATA TATATA TTAAAA TAAAA TAATA T-ATA TA
1 TA-ATA TA-ATA -TAATA TAATA TAATA TAATA TA
20440925 CAATTTAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
4 8 0.13
5 39 0.62
6 14 0.22
7 2 0.03
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (5 bp):
TAATA
Found at i:20440886 original size:25 final size:24
Alignment explanation
Indices: 20440767--20440910 Score: 86
Period size: 25 Copynumber: 5.7 Consensus size: 24
20440757 TTATGTGATA
20440767 AAATATAATATAATAA-ATAATAAGT
1 AAATATAATATAA-AATAT-ATAAGT
*
20440792 -AATGATATATGTTAAAATATAT-A-T
1 AAAT-ATA-AT-ATAAAATATATAAGT
*
20440816 AATATGATAATAGAAAA-ATATGAAGT
1 AA-AT-ATAATATAAAATATAT-AAGT
*
20440842 -AATATAATATAATAAAATATAAGT
1 AAATATAATATAA-AATATATAAGT
20440866 AAATAATAATATAAAATATATAA-T
1 AAAT-ATAATATAAAATATATAAGT
20440890 ACACATATATATATTAAAATA
1 A-A-ATATA-ATA-TAAAATA
20440911 AAATAATATA
Statistics
Matches: 97, Mismatches: 5, Indels: 32
0.72 0.04 0.24
Matches are distributed among these distances:
23 12 0.12
24 18 0.19
25 28 0.29
26 27 0.28
27 12 0.12
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (24 bp):
AAATATAATATAAAATATATAAGT
Found at i:20440908 original size:50 final size:51
Alignment explanation
Indices: 20440796--20440920 Score: 127
Period size: 50 Copynumber: 2.5 Consensus size: 51
20440786 ATAAGTAATG
* * *
20440796 ATATATGTTAAAATATATATAATATGATAATAGAAAAATATGAAGTAATAT
1 ATATATATTAAAATATATATAATATAATAATAGAAAAATATGAAGTAACAT
* *
20440847 A-ATATAATAAAATATA-AGTAA-ATAATAATATAAAATATAT-AA-TACACAT
1 ATATATATTAAAATATATA-TAATATAATAATAGAAAA-ATATGAAGTA-ACAT
*
20440896 ATATATATTAAAATA-AAATAATATA
1 ATATATATTAAAATATATATAATATA
20440921 TATACAATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
48 2 0.03
49 23 0.37
50 36 0.58
51 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.34
Consensus pattern (51 bp):
ATATATATTAAAATATATATAATATAATAATAGAAAAATATGAAGTAACAT
Found at i:20440954 original size:25 final size:27
Alignment explanation
Indices: 20440903--20440960 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
20440893 CATATATATA
*
20440903 TTAAAATAAAATAATATATATACAA-T
1 TTAAAATAAAATAATATATAAACAATT
*
20440929 TTAAAAT-AAATAAGT-TATAAATAATT
1 TTAAAATAAAATAA-TATATAAACAATT
20440955 TTAAAA
1 TTAAAA
20440961 GGGATAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
TTAAAATAAAATAATATATAAACAATT
Found at i:20443232 original size:13 final size:13
Alignment explanation
Indices: 20443214--20443255 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 13
20443204 TTATCCTCAC
20443214 ATGGTGTGTAGGG
1 ATGGTGTGTAGGG
*
20443227 ATGGTGTG--GAG
1 ATGGTGTGTAGGG
20443238 ATGGTGTGTAGCGG
1 ATGGTGTGTAG-GG
20443252 ATGG
1 ATGG
20443256 ATTGGGTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
11 10 0.42
13 9 0.38
14 5 0.21
ACGTcount: A:0.17, C:0.02, G:0.52, T:0.29
Consensus pattern (13 bp):
ATGGTGTGTAGGG
Found at i:20443338 original size:34 final size:34
Alignment explanation
Indices: 20443290--20443376 Score: 111
Period size: 34 Copynumber: 2.5 Consensus size: 34
20443280 TATTGTTCTA
20443290 AAATGGGCTAAGGCCCAGACTGCCACTACTACTG
1 AAATGGGCTAAGGCCCAGACTGCCACTACTACTG
* ** *
20443324 AAATGGGCTCAGGCCCAGACTGTTACTGCTACTG
1 AAATGGGCTAAGGCCCAGACTGCCACTACTACTG
*
20443358 AAAGAGGGGCTAAGGCCCA
1 -AA-ATGGGCTAAGGCCCA
20443377 AATTGTGTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 30 0.67
35 2 0.04
36 13 0.29
ACGTcount: A:0.29, C:0.26, G:0.28, T:0.17
Consensus pattern (34 bp):
AAATGGGCTAAGGCCCAGACTGCCACTACTACTG
Found at i:20450957 original size:22 final size:22
Alignment explanation
Indices: 20450922--20450966 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
20450912 GGTTGTAATT
20450922 AGGACAGCAAATAGCCATAAAC
1 AGGACAGCAAATAGCCATAAAC
* *
20450944 AGGACATCACATAGCCATAAAC
1 AGGACAGCAAATAGCCATAAAC
20450966 A
1 A
20450967 TCGTAGCAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.11
Consensus pattern (22 bp):
AGGACAGCAAATAGCCATAAAC
Found at i:20451197 original size:22 final size:21
Alignment explanation
Indices: 20451169--20451233 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
20451159 GCAAATACGT
20451169 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
* *
20451191 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AACCATAAT-CAGG
*
20451213 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAA-CCATAATCAG
20451234 AATAATTGGC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 29 0.85
23 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:20451724 original size:27 final size:27
Alignment explanation
Indices: 20451653--20451972 Score: 99
Period size: 27 Copynumber: 11.8 Consensus size: 27
20451643 TTTCACCCTA
* * * *
20451653 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
20451680 CAAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * **
20451707 CAATGGTATTTCTGTAATTTTGA-AAGT
1 CAAGGGTATTTCGGTAATTTT-ACAAAC
** * ** *
20451734 CAAGGGTATTTTTGAAATTTTTTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * *** **
20451761 TAGGGGTATTTATATAATTTTTGAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * * ** *
20451788 TTAAGGGTATTTCTGAAATTTTGTAAAT
1 -CAAGGGTATTTCGGTAATTTTACAAAC
*** *
20451816 C-AGGGATATTTTTATAATTTT-CTAAAT
1 CAAGGG-TATTTCGGTAATTTTAC-AAAC
* * *
20451843 CAAGTGTATTTCGATAATTTT-CTAAAT
1 CAAGGGTATTTCGGTAATTTTAC-AAAC
* ** **
20451870 CAGGGGTATTTTAGTAATTTTACAAGT
1 CAAGGGTATTTCGGTAATTTTACAAAC
** ***
20451897 TGAGGGTATTTCGGTAATTTTACAGGT
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * * * *
20451924 CGAGGGTATTTCAGTAATTTAAAAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * *
20451951 TAGGGGTATTTTGGTAATTTTA
1 CAAGGGTATTTCGGTAATTTTA
20451973 TAGGTCGAGG
Statistics
Matches: 227, Mismatches: 59, Indels: 14
0.76 0.20 0.05
Matches are distributed among these distances:
26 4 0.02
27 198 0.87
28 25 0.11
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAC
Found at i:20451738 original size:54 final size:53
Alignment explanation
Indices: 20451680--20451972 Score: 180
Period size: 54 Copynumber: 5.4 Consensus size: 53
20451670 ATCTACAAAC
* * *
20451680 CAAGGGTATTTCGGTAATTTTACAAACCAATGGTATTTCTGTAATTTTGAAAGT
1 CAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTT-TATAATTTTGAAAGT
** * ** * * *
20451734 CAAGGGTATTTTTGAAATTTTTTAAATTAGGGGTATTTATATAATTTTTGAAACT
1 CAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTT-TATAA-TTTTGAAAGT
* * * ** *
20451789 TAAGGGTATTTCTGAAATTTTGTAAATC-AGGGATATTTTTATAATTTTCTAAA-T
1 CAAGGGTATTTCGGTAATTTTACAAATCAAGGG-TA-TTTTATAATTTT-GAAAGT
* * *
20451843 CAAGTGTATTTCGATAATTTT-CTAAATCAGGGGTATTTTAGTAATTTT-ACAAGT
1 CAAGGGTATTTCGGTAATTTTAC-AAATCAAGGGTATTTTA-TAATTTTGA-AAGT
** ** * * ** *
20451897 TGAGGGTATTTCGGTAATTTTACAGGTCGAGGGTATTTCAGTAATTTAAAAAAT
1 CAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTA-TAATTTTGAAAGT
* * *
20451951 TAGGGGTATTTTGGTAATTTTA
1 CAAGGGTATTTCGGTAATTTTA
20451973 TAGGTCGAGG
Statistics
Matches: 189, Mismatches: 39, Indels: 22
0.76 0.16 0.09
Matches are distributed among these distances:
52 1 0.01
53 7 0.04
54 130 0.69
55 48 0.25
56 3 0.02
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (53 bp):
CAAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTATAATTTTGAAAGT
Found at i:20451852 original size:82 final size:82
Alignment explanation
Indices: 20451680--20451863 Score: 196
Period size: 82 Copynumber: 2.3 Consensus size: 82
20451670 ATCTACAAAC
* * ** * * *
20451680 CAAGGGTATTTCGGTAATTTTACAAAC-CAATGGTATTTCTGTAATTTTGAAAGTCAAGGGTATT
1 CAAGGGTATTTAGATAATTTTTGAAACTTAAGGGTATTTCTGAAATTTTGAAAGTCAAGGGTATT
*
20451744 TTTGAAATTTTTTAAAT
66 TTTGAAATTTTCTAAAT
* * *
20451761 TAGGGGTATTTATATAATTTTTGAAACTTAAGGGTATTTCTGAAATTTTGTAAA-TC-AGGGATA
1 CAAGGGTATTTAGATAATTTTTGAAACTTAAGGGTATTTCTGAAATTTTG-AAAGTCAAGGG-TA
20451824 TTTTT-ATAATTTTCTAAAT
64 TTTTTGA-AATTTTCTAAAT
* *
20451843 CAAGTGTATTTCGATAATTTT
1 CAAGGGTATTTAGATAATTTT
20451864 CTAAATCAGG
Statistics
Matches: 83, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
81 25 0.30
82 55 0.66
83 3 0.04
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.45
Consensus pattern (82 bp):
CAAGGGTATTTAGATAATTTTTGAAACTTAAGGGTATTTCTGAAATTTTGAAAGTCAAGGGTATT
TTTGAAATTTTCTAAAT
Found at i:20468656 original size:42 final size:41
Alignment explanation
Indices: 20468592--20468687 Score: 138
Period size: 42 Copynumber: 2.3 Consensus size: 41
20468582 TGATTCTGTT
* *
20468592 GCAATAAAGCCTGATATGATACACCGGCATAAAGCCTGCTAA
1 GCAATAAAGCCCGATATAATACACCGGCATAAAGCCTGCT-A
*
20468634 GCAATAAAGCCCGATATAATACACTGGCATAAAGCCTGCTA
1 GCAATAAAGCCCGATATAATACACCGGCATAAAGCCTGCTA
*
20468675 GAAAATAAAGCCC
1 G-CAATAAAGCCC
20468688 AAATATCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 2 0.04
42 47 0.96
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (41 bp):
GCAATAAAGCCCGATATAATACACCGGCATAAAGCCTGCTA
Found at i:20470380 original size:27 final size:26
Alignment explanation
Indices: 20470345--20470456 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
20470335 AGCATAGCTG
* *
20470345 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
20470371 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
20470399 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
20470426 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
20470453 CCAG
1 CCAG
20470457 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:20470437 original size:54 final size:54
Alignment explanation
Indices: 20470345--20470456 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
20470335 AGCATAGCTG
* *
20470345 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
20470399 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
20470453 CCAG
1 CCAG
20470457 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:20471901 original size:24 final size:24
Alignment explanation
Indices: 20471874--20471944 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
20471864 CTAGATTTCC
** * *
20471874 TCCCTTATCTGCTCCTAAATTCTG
1 TCCCTTATCAACTCCTAAATCCTA
20471898 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
20471922 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
20471945 CTCCTGACAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.24, C:0.37, G:0.03, T:0.37
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:20472401 original size:34 final size:35
Alignment explanation
Indices: 20472341--20472412 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 35
20472331 AGTTACATAC
20472341 CTTAATTTTGGACAACCATGGCCGAATAACTAAAG
1 CTTAATTTTGGACAACCATGGCCGAATAACTAAAG
*
20472376 CTTAATTTTGGACAA-CATGGTCGAATAACTAAAG
1 CTTAATTTTGGACAACCATGGCCGAATAACTAAAG
20472410 CTT
1 CTT
20472413 TCTTTCTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 21 0.58
35 15 0.42
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (35 bp):
CTTAATTTTGGACAACCATGGCCGAATAACTAAAG
Found at i:20474474 original size:29 final size:30
Alignment explanation
Indices: 20474440--20474503 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
20474430 CAAGTAGTCG
20474440 AAGCTAG-TTAAATTGCACACTTAGTGCCA
1 AAGCTAGTTTAAATTGCACACTTAGTGCCA
20474469 AAGCTAGTTTAAATTGCACACTTAGTGCCA
1 AAGCTAGTTTAAATTGCACACTTAGTGCCA
20474499 AAGCT
1 AAGCT
20474504 TCCGATTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (30 bp):
AAGCTAGTTTAAATTGCACACTTAGTGCCA
Found at i:20480871 original size:42 final size:43
Alignment explanation
Indices: 20480771--20480927 Score: 117
Period size: 43 Copynumber: 3.7 Consensus size: 43
20480761 CTGTTTTGCA
* * *
20480771 TGTAAGACCAC-GTCTGGGACATTGGCATCGACTTCTGTTTTATG
1 TGTAAGACC-CTGTCTGGGACATTGGCATCGAC-TATGATTTACG
* *
20480815 TGTAAGACCATGTCTGGGACATTGGCTTCGTA-TATGATTT-CG
1 TGTAAGACCCTGTCTGGGACATTGGCATCG-ACTATGATTTACG
* * * * * *
20480857 TGTAAGACCCTGTCTGGGATAGTGACATCGATGTTTGA-TTACA
1 TGTAAGACCCTGTCTGGGACATTGGCATCGA-CTATGATTTACG
* *
20480900 TGTAAGACCAC-ATCTGGGACGTTGGCAT
1 TGTAAGACC-CTGTCTGGGACATTGGCAT
20480928 TGTATTTACT
Statistics
Matches: 90, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
41 1 0.01
42 28 0.31
43 32 0.36
44 28 0.31
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCCTGTCTGGGACATTGGCATCGACTATGATTTACG
Found at i:20482735 original size:34 final size:34
Alignment explanation
Indices: 20482692--20482759 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
20482682 TTTATGGCAT
*
20482692 TATTGATACTATTACTG-TAATAGGCTAAGGCCCA
1 TATTGATACTACTACTGCT-ATAGGCTAAGGCCCA
* *
20482726 TATTGATACTGCTACTGCTATGGGCTAAGGCCCA
1 TATTGATACTACTACTGCTATAGGCTAAGGCCCA
20482760 CACTAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (34 bp):
TATTGATACTACTACTGCTATAGGCTAAGGCCCA
Found at i:20498100 original size:40 final size:39
Alignment explanation
Indices: 20498055--20498156 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 39
20498045 TCTCGGTATT
*
20498055 GCACACTTAGCGCCTCATATAGCCGAAGCTATTTC-AACTC
1 GCACACTTAGCGCCT-ATATAGCCAAAGCTATTTCGAAC-C
* * *
20498095 GCACACTTAGTGCCATTTGTAGCCAAAGCTATTTCGAACC
1 GCACACTTAGCGCC-TATATAGCCAAAGCTATTTCGAACC
20498135 GCACACTTA-CTGCCTAATATAG
1 GCACACTTAGC-GCCT-ATATAG
20498157 TCGATAATCA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
39 1 0.02
40 46 0.90
41 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (39 bp):
GCACACTTAGCGCCTATATAGCCAAAGCTATTTCGAACC
Found at i:20507509 original size:46 final size:47
Alignment explanation
Indices: 20507459--20507584 Score: 118
Period size: 47 Copynumber: 2.7 Consensus size: 47
20507449 CATCGGCATG
20507459 CATCGGCCTA-GAGACG-TAAGCCAGTGTAAGA-CATATCTGGGACATT
1 CATCGG-CTACGAGACGAT-AGCCAGTGTAAGACCATATCTGGGACATT
* * * *
20507505 CATCGGCTACGAGATGATAGTCAGTGTAAGACCATGTCTGGGACATGG
1 CATCGGCTACGAGACGATAGCCAGTGTAAGACCATATCTGGGACAT-T
* * *
20507553 CATCGACT-TGAGA-TATGAGCCAGTGTAAGACC
1 CATCGGCTACGAGACGAT-AGCCAGTGTAAGACC
20507585 GTGTCTAGGA
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
45 3 0.04
46 25 0.37
47 32 0.48
48 7 0.10
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (47 bp):
CATCGGCTACGAGACGATAGCCAGTGTAAGACCATATCTGGGACATT
Found at i:20507566 original size:47 final size:48
Alignment explanation
Indices: 20507477--20507604 Score: 147
Period size: 47 Copynumber: 2.7 Consensus size: 48
20507467 TAGAGACGTA
* * *
20507477 AGCCAGTGTAAGA-CATATCTGGGACAT-TCATCGGCTACGAGATGAT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTACGAGAT-ATG
* *
20507523 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGATATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTACGAGATATG
* * *
20507570 AGCCAGTGTAAGACCGTGTCTAGGACATGGAATCG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
20507605 GCACCTTACC
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
46 14 0.20
47 49 0.70
48 7 0.10
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTACGAGATATG
Found at i:20511685 original size:43 final size:42
Alignment explanation
Indices: 20511515--20511687 Score: 143
Period size: 43 Copynumber: 4.0 Consensus size: 42
20511505 ATATCGTACA
* * * *
20511515 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAACACATATCG
* * * * *
20511558 ATGCC-ACTATCCCAAATAAGGTCTTACACGAATCACA-ATTACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAACACATA-T-CG
* * * *
20511601 ATGCCGATGTCCCAGACATGGTCTTACTCGAAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAA-CACATATCG
**
20511644 ATGCCAACGTCCCAGATGTGGTCTTACACGAGAACACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGA-AACACATATCG
20511687 A
1 A
20511688 AAATCCTATG
Statistics
Matches: 102, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
42 10 0.10
43 84 0.82
44 7 0.07
45 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAACACATATCG
Found at i:20514822 original size:55 final size:54
Alignment explanation
Indices: 20514762--20514878 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 54
20514752 TGTGCGACAT
* * *
20514762 TGACTTTAGGGCAAGGCCATGACACACACCCATGTGGCCTACCCGTGGGCAATAC
1 TGACTTTA-GGCAAGACCATGACACACACCCATGTGGCCTAACCGTGGACAATAC
* * * * *
20514817 TGACTTATAGGCACGACTATGGCACACGCCCGTGTGGCCTAACCGTGGACAATAC
1 TGACTT-TAGGCAAGACCATGACACACACCCATGTGGCCTAACCGTGGACAATAC
20514872 TGA-TTTA
1 TGACTTTA
20514879 AAAGTTTAAG
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 47 0.89
56 2 0.04
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.21
Consensus pattern (54 bp):
TGACTTTAGGCAAGACCATGACACACACCCATGTGGCCTAACCGTGGACAATAC
Found at i:20515747 original size:49 final size:49
Alignment explanation
Indices: 20515642--20515769 Score: 145
Period size: 49 Copynumber: 2.6 Consensus size: 49
20515632 AAGTTACCGC
* *
20515642 TGCCATGTCCCAAACATGGTCTTACGCTGGCTATCTCCATCGAGGCCGA
1 TGCCATGTCCCAAACATGGTCTTACACTAGCTATCTCCATCGAGGCCGA
* * * * *
20515691 TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGCATACG-TGCTGA
1 TGCCATGTCCCAAACATGGTCTTACACTAGCTATC-TCCAT-CGAGGCCGA
*
20515741 TG-CATGTCCCAAACAT-GTATTACACTAGC
1 TGCCATGTCCCAAACATGGTCTTACACTAGC
20515770 ACGAAACTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
48 12 0.18
49 44 0.65
50 10 0.15
51 2 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (49 bp):
TGCCATGTCCCAAACATGGTCTTACACTAGCTATCTCCATCGAGGCCGA
Found at i:20515933 original size:94 final size:91
Alignment explanation
Indices: 20515687--20515945 Score: 245
Period size: 94 Copynumber: 2.8 Consensus size: 91
20515677 TCCATCGAGG
* * *
20515687 CCGATGCCATGTCCCAGACATGGTCTTACACTA-GCTCTCGTGCATACGTGCTGATGCATGTCCC
1 CCGATGCCATGTCCCAGAC-TGGTCTTACAC-AGGCTATCATG-ATGCG-GCTGATGCATGTCCC
* *
20515751 AAACATGTATTACACTAGCACGAAACTTAG
62 AAACATGTCTTACACTAGCACGAAACTTAA
* *** * * * *
20515781 CCAATG-CATGTCCCAGACACATCTTACACTGGCTAAT-ATCATCGAGGCTGATGCATGTCCCAG
1 CCGATGCCATGTCCCAGACTGGTCTTACACAGGCT-ATCATGAT-GCGGCTGATGCATGTCCCAA
* ** *
20515844 ACATGTCTTACACTGGCACTCACCTCTACA
64 ACATGTCTTACACTAGCACGAAACT-TA-A
*
20515874 CCGATGCCATGTCCCAGACGTGGTCTTACACAGGCTATCATGATGCGGTTGATGCATGTCCCAAA
1 CCGATGCCATGTCCCAGAC-TGGTCTTACACAGGCTATCATGATGCGGCTGATGCATGTCCCAAA
*
20515939 CACGTCT
65 CATGTCT
20515946 AATAGTAGCC
Statistics
Matches: 130, Mismatches: 27, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
91 38 0.29
92 15 0.12
93 18 0.14
94 43 0.33
95 16 0.12
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (91 bp):
CCGATGCCATGTCCCAGACTGGTCTTACACAGGCTATCATGATGCGGCTGATGCATGTCCCAAAC
ATGTCTTACACTAGCACGAAACTTAA
Found at i:20517077 original size:17 final size:18
Alignment explanation
Indices: 20517038--20517080 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
20517028 GTAACTTTTT
20517038 CCTTTTTTGCGATTTATG
1 CCTTTTTTGCGATTTATG
20517056 CCTTTTTTGCGATTTA-G
1 CCTTTTTTGCGATTTATG
*
20517073 TCTTTTTT
1 CCTTTTTT
20517081 CGCAATCGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.09, C:0.16, G:0.14, T:0.60
Consensus pattern (18 bp):
CCTTTTTTGCGATTTATG
Found at i:20520557 original size:111 final size:111
Alignment explanation
Indices: 20520361--20520583 Score: 392
Period size: 111 Copynumber: 2.0 Consensus size: 111
20520351 AATAACATCA
* * ** *
20520361 AGTTGGTTATAAAGCAATGGCCTTTAATCATCAAAGGATAGTTTCTACATACTTGGTCCACTAAT
1 AGTTGGCTAGAAAGCAATAACCTTTAATCATCAAAGGACAGTTTCTACATACTTGGTCCACTAAT
20520426 ACATGCTTGCCTAACAGGTTAGACACTTTTATTACAAACTTAGTGG
66 ACATGCTTGCCTAACAGGTTAGACACTTTTATTACAAACTTAGTGG
20520472 AGTTGGCTAGAAAGCAATAACCTTTAATCATCAAAGGACAGTTTCTACATACTTGGTCCACTAAT
1 AGTTGGCTAGAAAGCAATAACCTTTAATCATCAAAGGACAGTTTCTACATACTTGGTCCACTAAT
*
20520537 ACATGCTTGCCTAACGGGTTAGACACTTTTATTACAAACTTAGTGG
66 ACATGCTTGCCTAACAGGTTAGACACTTTTATTACAAACTTAGTGG
20520583 A
1 A
20520584 CTCTACTAAC
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 106 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (111 bp):
AGTTGGCTAGAAAGCAATAACCTTTAATCATCAAAGGACAGTTTCTACATACTTGGTCCACTAAT
ACATGCTTGCCTAACAGGTTAGACACTTTTATTACAAACTTAGTGG
Found at i:20522467 original size:55 final size:54
Alignment explanation
Indices: 20522408--20522526 Score: 141
Period size: 55 Copynumber: 2.2 Consensus size: 54
20522398 CGTGTATGAC
* * * *
20522408 ACTGACTTTAGGGCACGGCCATGACACACGCCTATGTGGCCTATCCATGGGCAAT
1 ACTGACTTTA-GACACGGCCATGACACACGCCCATGTGGCCTAACCATGGACAAT
* * * *
20522463 ACTGACTTATAGACACGGCTATGGCACACGCCCGTGTGGCCTAACCGTGGACAAT
1 ACTGACTT-TAGACACGGCCATGACACACGCCCATGTGGCCTAACCATGGACAAT
20522518 ACTGA-TTTA
1 ACTGACTTTA
20522527 AAAGTTTAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 49 0.89
56 2 0.04
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (54 bp):
ACTGACTTTAGACACGGCCATGACACACGCCCATGTGGCCTAACCATGGACAAT
Found at i:20523319 original size:49 final size:49
Alignment explanation
Indices: 20523247--20523517 Score: 201
Period size: 49 Copynumber: 5.7 Consensus size: 49
20523237 AAGTTGCTAC
*
20523247 TGCCATGTCCCAGACATGGTCTTACGCTGGCTATCTCCATCGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTATCTCCATCGAGGCCGA
* * ** * *
20523296 TGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATGTATACG-TGCTGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTATC-TCCAT-CGAGGCCGA
* * ** * *
20523346 TG-CATGTCCTAGACAT-GTCTTACACTAGC-A-C-GAAACTTA-GCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTATCTCCATC-GAGGCCGA
* *
20523390 T-CCATGTCCCAGACA-CGTCTTACACTGGCTAACAT-CATCGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTATC-TCCATCGAGGCCGA
* * * * *
20523437 TG-CATGTCCCAGAGAT-GTCTTACACTGGC-A-CTCACCTCTACGCCAA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTATCTC-CATCGAGGCCGA
* *
20523483 TGCCATGTCCCAGACGTGGTCTTACACGGGCTATC
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTATC
20523518 ATGATGCGGC
Statistics
Matches: 177, Mismatches: 26, Indels: 37
0.74 0.11 0.15
Matches are distributed among these distances:
43 1 0.01
44 32 0.18
45 2 0.01
46 14 0.08
47 45 0.25
48 25 0.14
49 46 0.26
50 10 0.06
51 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (49 bp):
TGCCATGTCCCAGACATGGTCTTACACTGGCTATCTCCATCGAGGCCGA
Found at i:20523447 original size:47 final size:47
Alignment explanation
Indices: 20523250--20523543 Score: 160
Period size: 47 Copynumber: 6.2 Consensus size: 47
20523240 TTGCTACTGC
* *
20523250 CATGTCCCAGACATGGTCTTACGCTGGCTATC-TCCATCGAGGCCGATG
1 CATGTCCCAGACA-GGTCTTACACTGGCTAACAT-CATCGAGGCCGATG
* ** * * *
20523298 CCATGTCCCAGACATGGTCTTACACTAGCTTTCATGTATACG-TGCTGATG
1 -CATGTCCCAGACA-GGTCTTACACTGGCTAACAT-CAT-CGAGGCCGATG
* * * * * *
20523348 CATGTCCTAGACATGTCTTACACTAGC--ACGA--AACTTA-GCCGATC
1 CATGTCCCAGACAGGTCTTACACTGGCTAAC-ATCATC-GAGGCCGATG
*
20523392 CATGTCCCAGACACGTCTTACACTGGCTAACATCATCGAGGCCGATG
1 CATGTCCCAGACAGGTCTTACACTGGCTAACATCATCGAGGCCGATG
* * * * *
20523439 CATGTCCCAGAGATGTCTTACACTGGC--AC-TCACCTCTACGCCAATG
1 CATGTCCCAGACAGGTCTTACACTGGCTAACATCA--TCGAGGCCGATG
* * * * * **
20523485 CCATGTCCCAGACGTGGTCTTACACGGGCTATCATGAT-GCGGCTAATG
1 -CATGTCCCAGAC-AGGTCTTACACTGGCTAACATCATCGAGGCCGATG
20523533 CATGTCCCAGA
1 CATGTCCCAGA
20523544 TACATCTTAC
Statistics
Matches: 193, Mismatches: 35, Indels: 36
0.73 0.13 0.14
Matches are distributed among these distances:
43 1 0.01
44 33 0.17
45 3 0.02
46 13 0.07
47 56 0.29
48 31 0.16
49 42 0.22
50 10 0.05
51 4 0.02
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.25
Consensus pattern (47 bp):
CATGTCCCAGACAGGTCTTACACTGGCTAACATCATCGAGGCCGATG
Found at i:20523552 original size:94 final size:91
Alignment explanation
Indices: 20523295--20523557 Score: 267
Period size: 94 Copynumber: 2.8 Consensus size: 91
20523285 ATCGAGGCCG
* * * *
20523295 ATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATGTATACGTGCTGATGCATGTCCTAGAC
1 ATGCCATGTCCCAGAC-TGGTCTTACACTGGCTATCATG-ATGCG-GCTGATGCATGTCCCAGAC
*
20523360 ATGTCTTACACTAGCACGAAACTTAGCCG
63 ATGTCTTACACTAGCACGAAACTTAGCCA
** * * * * *
20523389 AT-CCATGTCCCAGACACGTCTTACACTGGCTAACATCATCGAGGCCGATGCATGTCCCAGAGAT
1 ATGCCATGTCCCAGACTGGTCTTACACTGGCTATCATGAT-GCGGCTGATGCATGTCCCAGACAT
* ** *
20523453 GTCTTACACTGGCACTCACCTCTACGCCA
65 GTCTTACACTAGCACGAAACT-TA-GCCA
* * * *
20523482 ATGCCATGTCCCAGACGTGGTCTTACACGGGCTATCATGATGCGGCTAATGCATGTCCCAGATAC
1 ATGCCATGTCCCAGAC-TGGTCTTACACTGGCTATCATGATGCGGCTGATGCATGTCCCAGACAT
*
20523547 ATCTTACACTA
65 GTCTTACACTA
20523558 TCCCTCATCT
Statistics
Matches: 136, Mismatches: 28, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
91 37 0.27
92 19 0.14
93 18 0.13
94 43 0.32
95 19 0.14
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (91 bp):
ATGCCATGTCCCAGACTGGTCTTACACTGGCTATCATGATGCGGCTGATGCATGTCCCAGACATG
TCTTACACTAGCACGAAACTTAGCCA
Found at i:20529031 original size:43 final size:42
Alignment explanation
Indices: 20528876--20529031 Score: 129
Period size: 43 Copynumber: 3.6 Consensus size: 42
20528866 ATATCGTACA
* * *
20528876 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAATCACATGTCG
1 ATGCCAATGTCCCAGACGTGGTCTTAC-TCG-AATCACATATTG
* * * *
20528919 ATGCCACTGTCCTAGACAG-GGTCTTGCACGAATCACA-ATTACG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACTCGAATCACATATT--G
** * *
20528962 ATGCTGATGTCCCAGACCTGGACTTACTCGAAATCACATATTG
1 ATGCCAATGTCCCAGACGTGGTCTTACTCG-AATCACATATTG
*
20529005 ATGCCAATGTCCCAGACGTAGTCTTAC
1 ATGCCAATGTCCCAGACGTGGTCTTAC
20529032 ACAAGAACAC
Statistics
Matches: 86, Mismatches: 20, Indels: 14
0.72 0.17 0.12
Matches are distributed among these distances:
41 1 0.01
42 7 0.08
43 67 0.78
44 8 0.09
45 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACTCGAATCACATATTG
Found at i:20531092 original size:34 final size:33
Alignment explanation
Indices: 20531029--20531093 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
20531019 GTGTTTGCAT
* *
20531029 ACTGTACTGAAATAGGCTAAGGTCTAGACTGCC
1 ACTGTACTGAAATAGGCTAAGGCCCAGACTGCC
* *
20531062 ACTGATACTGCAATAGGCTTAGGCCCAGACTG
1 ACTG-TACTGAAATAGGCTAAGGCCCAGACTG
20531094 TTATTACTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (33 bp):
ACTGTACTGAAATAGGCTAAGGCCCAGACTGCC
Found at i:20533984 original size:40 final size:40
Alignment explanation
Indices: 20533932--20534024 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 40
20533922 CTCGATATCT
*
20533932 CACACTTAGTGCC-TCATATAGCCGAAGCTATTTC-AACTCG
1 CACACTTAGTGCCAT-ATATAGCCAAAGCTATTTCGAACT-G
* *
20533972 CACAGTTAGTGCCATTTATAGCCAAAGCTATTTCGAACTG
1 CACACTTAGTGCCATATATAGCCAAAGCTATTTCGAACTG
20534012 CACACTTAGTGCC
1 CACACTTAGTGCC
20534025 GAATATCGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 42 0.89
41 5 0.11
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (40 bp):
CACACTTAGTGCCATATATAGCCAAAGCTATTTCGAACTG
Found at i:20535811 original size:5 final size:6
Alignment explanation
Indices: 20535796--20535825 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
20535786 TTTAGCCATT
*
20535796 TTTTTA TTTTTA TTTTTA TTTTTG TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
20535826 CTTTAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:20535834 original size:18 final size:18
Alignment explanation
Indices: 20535796--20535834 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
20535786 TTTAGCCATT
* *
20535796 TTTTTATTTTTATTTTTA
1 TTTTTATTTTTACTTTAA
*
20535814 TTTTTGTTTTTACTTTAA
1 TTTTTATTTTTACTTTAA
20535832 TTT
1 TTT
20535835 ACTAACTCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTTATTTTTACTTTAA
Found at i:20540456 original size:17 final size:17
Alignment explanation
Indices: 20540402--20540457 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
20540392 GACACGGCCG
20540402 TGTGAACCACACGGACA
1 TGTGAACCACACGGACA
** *
20540419 TG-GCCATGCAGCACGGCCA
1 TGTG--AACCA-CACGGACA
20540438 TGTGAACCACACGGACA
1 TGTGAACCACACGGACA
20540455 TGT
1 TGT
20540458 CTATGGCCGT
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
16 1 0.03
17 12 0.41
18 6 0.21
19 9 0.31
20 1 0.03
ACGTcount: A:0.29, C:0.30, G:0.27, T:0.14
Consensus pattern (17 bp):
TGTGAACCACACGGACA
Found at i:20541149 original size:14 final size:15
Alignment explanation
Indices: 20541130--20541161 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
20541120 ATGTTTTCTG
20541130 ATTTTCTTTTA-TTT
1 ATTTTCTTTTAGTTT
20541144 ATTTTCTTTTAGTTT
1 ATTTTCTTTTAGTTT
20541159 ATT
1 ATT
20541162 AGTTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (15 bp):
ATTTTCTTTTAGTTT
Found at i:20542981 original size:24 final size:24
Alignment explanation
Indices: 20542928--20542973 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
20542918 TCGACAATCC
20542928 ACTTTTCGGCTTTTTAGCCTTTCG
1 ACTTTTCGGCTTTTTAGCCTTTCG
*
20542952 ACTTTTTGGCTTTTTAGCCTTT
1 ACTTTTCGGCTTTTTAGCCTTT
20542974 GTAGTTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.09, C:0.22, G:0.15, T:0.54
Consensus pattern (24 bp):
ACTTTTCGGCTTTTTAGCCTTTCG
Found at i:20545118 original size:37 final size:37
Alignment explanation
Indices: 20545076--20545149 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
20545066 AAAACATAAT
20545076 TATATTCGCCACCATTTAGTAAAGATATTATTTTGAA
1 TATATTCGCCACCATTTAGTAAAGATATTATTTTGAA
20545113 TATATTCGCCACCATTTAGTAAAGATATTATTTTGAA
1 TATATTCGCCACCATTTAGTAAAGATATTATTTTGAA
20545150 GATAAAATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (37 bp):
TATATTCGCCACCATTTAGTAAAGATATTATTTTGAA
Found at i:20550764 original size:12 final size:12
Alignment explanation
Indices: 20550747--20550774 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
20550737 ACAAGGGTGG
20550747 TTGGAATTTGAA
1 TTGGAATTTGAA
20550759 TTGGAATTTGAA
1 TTGGAATTTGAA
20550771 TTGG
1 TTGG
20550775 TCAAGGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (12 bp):
TTGGAATTTGAA
Found at i:20552310 original size:27 final size:27
Alignment explanation
Indices: 20552265--20552347 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
20552255 GGTCGTTAAG
* * *
20552265 ACCCT-GGTTTATAAGATTACCAAAAT
1 ACCCTCGGTTTGTAAAATTACCGAAAT
20552291 ACCCTCGGTTTGTAAAATTACCGAAAT
1 ACCCTCGGTTTGTAAAATTACCGAAAT
* ** *
20552318 ACCCCCAATTTGTAAAATTACTGAAAT
1 ACCCTCGGTTTGTAAAATTACCGAAAT
20552345 ACC
1 ACC
20552348 GTTATAGGGT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 5 0.10
27 44 0.90
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (27 bp):
ACCCTCGGTTTGTAAAATTACCGAAAT
Found at i:20552885 original size:32 final size:32
Alignment explanation
Indices: 20552801--20552946 Score: 235
Period size: 32 Copynumber: 4.6 Consensus size: 32
20552791 CTTGGTGTCA
20552801 ATCATATTACAG-TACTGATGGCTTTGTGCCG
1 ATCATATTACAGCTACTGATGGCTTTGTGCCG
*
20552832 ATCATATTACA-ATACTGATGGCTTTGTGCCG
1 ATCATATTACAGCTACTGATGGCTTTGTGCCG
*
20552863 ATCATATTACAGCTACTGATGGCTTTGTGCTG
1 ATCATATTACAGCTACTGATGGCTTTGTGCCG
20552895 ATCATATTACAGCTACT-ATTGGCTTTGTGCCG
1 ATCATATTACAGCTACTGA-TGGCTTTGTGCCG
*
20552927 ATCATATTACCGCTACTGAT
1 ATCATATTACAGCTACTGAT
20552947 AGATGTAAGC
Statistics
Matches: 107, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
31 42 0.39
32 64 0.60
33 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (32 bp):
ATCATATTACAGCTACTGATGGCTTTGTGCCG
Found at i:20553015 original size:26 final size:26
Alignment explanation
Indices: 20552963--20553015 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
20552953 AAGCCGTGTA
* * *
20552963 TATTTTTGGCAGCTTTGCTGCATTAT
1 TATTTCTGGCAGCTATGCTGCAATAT
*
20552989 TATTTCTGGCAGCTATGCTGTAATAT
1 TATTTCTGGCAGCTATGCTGCAATAT
20553015 T
1 T
20553016 GGTGTGCTGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.47
Consensus pattern (26 bp):
TATTTCTGGCAGCTATGCTGCAATAT
Found at i:20559762 original size:27 final size:27
Alignment explanation
Indices: 20559732--20559794 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
20559722 AGCGACGGTA
***
20559732 ATCGGCACACAGTCATGGGTAAATATG
1 ATCGGCACACAGTCATCAATAAATATG
* *
20559759 ATCGACACAGAGTCATCAATAAATATG
1 ATCGGCACACAGTCATCAATAAATATG
*
20559786 ATAGGCACA
1 ATCGGCACA
20559795 TAGCCACAGG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (27 bp):
ATCGGCACACAGTCATCAATAAATATG
Found at i:20560322 original size:27 final size:27
Alignment explanation
Indices: 20560247--20560329 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
20560237 TGCTCTACAT
* * *
20560247 GGGTATTTTGGTAATTTTACACTAC-AA
1 GGGTATTTAGGTAATTTTACA-AACTAG
20560274 GGGTATTTCA-GTAATTTTACAAACTAG
1 GGGTATTT-AGGTAATTTTACAAACTAG
20560301 GGGTATTTAGGTAATTTTACAAACTAG
1 GGGTATTTAGGTAATTTTACAAACTAG
20560328 GG
1 GG
20560330 CTCTAACGAC
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
26 3 0.06
27 47 0.94
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (27 bp):
GGGTATTTAGGTAATTTTACAAACTAG
Found at i:20563708 original size:46 final size:46
Alignment explanation
Indices: 20563646--20563781 Score: 157
Period size: 46 Copynumber: 2.9 Consensus size: 46
20563636 CATTGGCATT
* *
20563646 GAGACGAAAGCTAGTGTAAGACATGTTTGAGACATGCATCGGCCTC
1 GAGACGTAAGCTAGTGTAAGACATGTTTGAGACATGCATCGGACTC
* * *
20563692 GAGACGTAAGCCAGTGTAAGACATGTTTGGGACATGACATC-GACTT
1 GAGACGTAAGCTAGTGTAAGACATGTTTGAGACATG-CATCGGACTC
** * *
20563738 GAGATATGAGCTAGTGTAAGACCATGTCTGAGACATGGCATCGG
1 GAGACGTAAGCTAGTGTAAGA-CATGTTTGAGACAT-GCATCGG
20563782 TACCTTACCC
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
46 53 0.71
47 20 0.27
48 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGACGTAAGCTAGTGTAAGACATGTTTGAGACATGCATCGGACTC
Found at i:20565408 original size:13 final size:13
Alignment explanation
Indices: 20565392--20565424 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
20565382 TTTAATTAAA
*
20565392 TTAGTTAATTAGT
1 TTAGATAATTAGT
20565405 TTAGATAATTAGT
1 TTAGATAATTAGT
20565418 TTA-ATAA
1 TTAGATAA
20565425 ACAAACCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:20570812 original size:6 final size:6
Alignment explanation
Indices: 20570803--20570830 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
20570793 TTATTCATAT
20570803 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
20570831 CATTCTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:20570816 original size:13 final size:13
Alignment explanation
Indices: 20570790--20570830 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
20570780 TCCTCCTATC
**
20570790 TTTTTATTCATAT
1 TTTTTATTTTTAT
20570803 TTTTTATTTTTA-
1 TTTTTATTTTTAT
20570815 TTTTTATTTTTAT
1 TTTTTATTTTTAT
20570828 TTT
1 TTT
20570831 CATTCTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:20570841 original size:18 final size:18
Alignment explanation
Indices: 20570803--20570842 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20570793 TTATTCATAT
* * *
20570803 TTTTTATTTTTATTTTTA
1 TTTTTATTTTCATTCTAA
20570821 TTTTTATTTTCATTCTAA
1 TTTTTATTTTCATTCTAA
20570839 TTTT
1 TTTT
20570843 ATTATTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTCATTCTAA
Found at i:20573775 original size:13 final size:13
Alignment explanation
Indices: 20573759--20573791 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
20573749 TTTAATTAAA
*
20573759 TTAGTTAATTAGT
1 TTAGATAATTAGT
20573772 TTAGATAATTAGT
1 TTAGATAATTAGT
20573785 TTA-ATAA
1 TTAGATAA
20573792 ACAAACCCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:20586885 original size:46 final size:46
Alignment explanation
Indices: 20586831--20587048 Score: 253
Period size: 46 Copynumber: 4.7 Consensus size: 46
20586821 TGGTTGAGCA
*
20586831 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
20586877 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
20586924 TCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
20586970 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
20587016 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT
20587049 TAGGGGCGGG
Statistics
Matches: 148, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
43 6 0.04
45 3 0.02
46 104 0.70
47 27 0.18
48 3 0.02
50 5 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:20586987 original size:93 final size:93
Alignment explanation
Indices: 20586828--20586998 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
20586818 GGATGGTTGA
*
20586828 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCAAACTCGTTGAGT
20586893 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
20586921 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCAAACTCGTTGAGT
20586986 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
20586999 ATTTATGGAT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:20587312 original size:19 final size:20
Alignment explanation
Indices: 20587275--20587312 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
20587265 ATAAGGTGGT
20587275 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
20587295 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
20587313 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:20588500 original size:46 final size:45
Alignment explanation
Indices: 20588441--20588609 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 45
20588431 GACGAGAGAT
* *
20588441 AGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCTTGAGATGTAAGCC
* * *
20588487 AGTGTAAGACATGTCAGGGACATGCATCGGCTATGAGATG-ATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGCCT-TGAGATGTA-AGCC
* * * *
20588533 AGTGTAAGACAATGTCTGGGACATGGCATCGACTTGAGATATGAGCT
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGCCTTGAGATGTAAGCC
* *
20588580 AGTGTAAAACCATGTCTGGGATATGACATC
1 AGTGTAAGA-CATGTCTGGGACATG-CATC
20588610 AGCACCTTAC
Statistics
Matches: 103, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
45 4 0.04
46 46 0.45
47 44 0.43
48 9 0.09
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCTTGAGATGTAAGCC
Found at i:20588571 original size:47 final size:47
Alignment explanation
Indices: 20588393--20588609 Score: 180
Period size: 47 Copynumber: 4.6 Consensus size: 47
20588383 TATGAGAGCT
* * * *
20588393 AGTGGAAGACCATGTCTGGGACATGGCACCGGCATTGAGACGA-GAGAT-
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC-TTGAGATGATAAG-TC
* * * *
20588441 AGTGTAAGACATGTTTGGGACAT-GCATCAGCCTCGAGATG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATC-GGCTTGAGATGATAAGTC
*
20588487 AGTGTAAGACATGTCAGGGACAT-GCATCGGCTATGAGATGAT-AGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCT-TGAGATGATAAGTC
* *
20588533 AGTGTAAGACAATGTCTGGGACATGGCATCGACTTGAGAT-ATGAG-C
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCGGCTTGAGATGATAAGTC
* * *
20588579 TAGTGTAAAACCATGTCTGGGATATGACATC
1 -AGTGTAAGA-CATGTCTGGGACATGGCATC
20588610 AGCACCTTAC
Statistics
Matches: 141, Mismatches: 18, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
45 3 0.02
46 60 0.43
47 61 0.43
48 17 0.12
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCTTGAGATGATAAGTC
Found at i:20588572 original size:93 final size:93
Alignment explanation
Indices: 20588393--20588609 Score: 235
Period size: 93 Copynumber: 2.3 Consensus size: 93
20588383 TATGAGAGCT
* * *
20588393 AGTGGAAGACCATGTCTGGGACATGGCACCGGCATTGAGACGAGAGATAGTGTAAGACATGTTTG
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTGAGACGAGAGATAGTGTAAGACATGTCTG
* *
20588458 GGACATGCATCAGCCTCGAGATGTAAGCC
65 GGACATGCATCAGACTCGAGATATAAGCC
* * *
20588487 AGTGTAAGA-CATGTCAGGGACATGCATCGGC-TATGAGATGATAG-TCAGTGTAAGACAATGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCAT-TGAGACGAGAGAT-AGTGTAAGAC-ATGTC
* * *
20588549 TGGGACATGGCATC-GACTTGAGATATGAGCT
63 TGGGACAT-GCATCAGACTCGAGATATAAGCC
* *
20588580 AGTGTAAAACCATGTCTGGGATATGACATC
1 AGTGTAAGACCATGTCTGGGACATG-CATC
20588610 AGCACCTTAC
Statistics
Matches: 103, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
91 2 0.02
92 26 0.25
93 45 0.44
94 26 0.25
95 4 0.04
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAGACGAGAGATAGTGTAAGACATGTCTGG
GACATGCATCAGACTCGAGATATAAGCC
Found at i:20592377 original size:40 final size:40
Alignment explanation
Indices: 20592333--20592444 Score: 100
Period size: 40 Copynumber: 2.8 Consensus size: 40
20592323 AGTGACTATA
* * *
20592333 TCCGGACTAAGATCC-GAAGATATTTGTGCGAGTTATTAAT
1 TCCGGACTAAG-TCCTGAAGACATTTGTGCGAGATACTAAT
** * *
20592373 TCCGGGTTAAGTCCTGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGACTAAGTCCTGAAGACATTTGTGCGAGATACTAAT
** * * *
20592413 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG
1 TCCGGACTAAGTCCTGAAGACATTTGTGCGAG
20592445 TTTTAAAATC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
39 3 0.05
40 58 0.95
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
TCCGGACTAAGTCCTGAAGACATTTGTGCGAGATACTAAT
Found at i:20592457 original size:40 final size:39
Alignment explanation
Indices: 20592358--20592472 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 39
20592348 GAAGATATTT
* * *
20592358 GTGCGAGTTATTAATTCCGGGTTAAGTCCTGAAGGCCTTT
1 GTGCGAGTT-TTAATTCCGGGTTAAGTCCCGAAGGCATTC
**
20592398 GTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCATTC
1 GTGCGAG-TTTTAATTCCGGGTTAAGTCCCGAAGGCATTC
*
20592438 GTGCGAGTTTTAAAATCCGGGTTAAGTCCCGAAGG
1 GTGCGAGTTTT-AATTCCGGGTTAAGTCCCGAAGG
20592473 TATTGAATGA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
39 2 0.03
40 62 0.95
41 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (39 bp):
GTGCGAGTTTTAATTCCGGGTTAAGTCCCGAAGGCATTC
Found at i:20594549 original size:50 final size:50
Alignment explanation
Indices: 20594474--20594572 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 50
20594464 GCCGTCCGCC
* * *
20594474 GATCCACAGTCGTCTCGTGCGACCCGTGAGACCTTAACAGATCAATACTG
1 GATCCACAGTCATCTCGTGCGACCCGTGAGACCCTAACAGAACAATACTG
* * *
20594524 GATCCATAGTCATCTCGTGCGACCCGTGCGACCCTATCAGAACAATACT
1 GATCCACAGTCATCTCGTGCGACCCGTGAGACCCTAACAGAACAATACT
20594573 TCCTCCATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.22
Consensus pattern (50 bp):
GATCCACAGTCATCTCGTGCGACCCGTGAGACCCTAACAGAACAATACTG
Found at i:20594809 original size:27 final size:27
Alignment explanation
Indices: 20594754--20594977 Score: 179
Period size: 27 Copynumber: 8.2 Consensus size: 27
20594744 TAAGCTGGTC
20594754 ATTTTACACTATAAGGTGTATTTCGGTA
1 ATTTTACACTATAAGG-GTATTTCGGTA
*
20594782 ATTTTACACTATAAGGGTATTTTGGTA
1 ATTTTACACTATAAGGGTATTTCGGTA
*
20594809 AATTTACACTATAAGGGTATTTCGGTA
1 ATTTTACACTATAAGGGTATTTCGGTA
*
20594836 ATTTTACACTTCTAA-GGTATTTCGGTA
1 ATTTTACAC-TATAAGGGTATTTCGGTA
* * ** * **
20594863 ATTTCACA-AATGGGGGGTATCTCAATA
1 ATTTTACACTAT-AAGGGTATTTCGGTA
* * *
20594890 ATTTTACAAAC-CTGAGGGTATTTCAGTA
1 ATTTTAC--ACTATAAGGGTATTTCGGTA
* * *
20594918 ATTTTACA-AATCATGGGTATTTCGATA
1 ATTTTACACTAT-AAGGGTATTTCGGTA
* * *
20594945 ATTTTATA-AATTGAGGGTATTTCGGTA
1 ATTTTACACTA-TAAGGGTATTTCGGTA
20594972 ATTTTA
1 ATTTTA
20594978 TAATCTGAGG
Statistics
Matches: 160, Mismatches: 27, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
25 1 0.01
26 2 0.01
27 115 0.72
28 40 0.25
29 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.41
Consensus pattern (27 bp):
ATTTTACACTATAAGGGTATTTCGGTA
Done.