Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 50 of 132
Found at i:13701756 original size:29 final size:29
Alignment explanation
Indices: 13701641--13701792 Score: 105
Period size: 29 Copynumber: 5.2 Consensus size: 29
13701631 TTTCGGGTCA
* *
13701641 AAAATG-AAATTTTGGAAGTTTG-GGGGTA
1 AAAATGTAATTTTTGGAAGTTTGAGGGG-C
* *
13701669 AAAATGTAATGTAATTTGGAAGTTTTAGGGTC
1 AAAATGTAAT-T--TTTGGAAGTTTGAGGGGC
* * * *
13701701 AAAAATGGAATATTT-GAAATTTTAGGGGC
1 -AAAATGTAATTTTTGGAAGTTTGAGGGGC
* *
13701730 AAAATGTAATTTTTGGAAGTTCGA-GGGT
1 AAAATGTAATTTTTGGAAGTTTGAGGGGC
* * *
13701758 ACAAATGTAATTTTTAGAAGTTTCAGGGCC
1 A-AAATGTAATTTTTGGAAGTTTGAGGGGC
13701788 AAAAT
1 AAAAT
13701793 ATAAATTCTT
Statistics
Matches: 96, Mismatches: 19, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
28 22 0.23
29 44 0.46
30 7 0.07
32 11 0.11
33 12 0.12
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.34
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTTGAGGGGC
Found at i:13701791 original size:58 final size:60
Alignment explanation
Indices: 13701669--13701792 Score: 137
Period size: 58 Copynumber: 2.1 Consensus size: 60
13701659 TTTGGGGGTA
** * *
13701669 AAAATGTAATGTAATTTGGAAGTTTTAGGGTCAAAAATGGAATATTTGAAATTTTAGGGGC
1 AAAATGTAATGT-ATTTGGAAGTTCGAGGGTCAAAAATGGAATATTTGAAATTTCAGGGCC
* * * *
13701730 AAAATGTAAT-T-TTTGGAAGTTCGAGGGT-ACAAATGTAATTTTTAGAAGTTTCAGGGCC
1 AAAATGTAATGTATTTGGAAGTTCGAGGGTCAAAAATGGAATATTT-GAAATTTCAGGGCC
13701788 AAAAT
1 AAAAT
13701793 ATAAATTCTT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
57 12 0.22
58 31 0.57
60 1 0.02
61 10 0.19
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (60 bp):
AAAATGTAATGTATTTGGAAGTTCGAGGGTCAAAAATGGAATATTTGAAATTTCAGGGCC
Found at i:13703890 original size:204 final size:205
Alignment explanation
Indices: 13703338--13704329 Score: 1415
Period size: 204 Copynumber: 4.8 Consensus size: 205
13703328 CCACTTCTCT
* ** * * *
13703338 GTATCTCATCAGGAAGATGACCACATCACTTGTTTTGATCCACTTCTCTGTGTTTCATCAGGAAG
1 GTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAAT-CGCTTCTCTGTATCTCATCAGGAAG
* * * * * *
13703403 ACGGATTTGGTTCACTTCTCCGTATCTCATCATGAAGCTAACCACTTTATTGCTTAGACCTGCTT
65 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTT
** *
13703468 CTCAGTATCTCATCAAAAAGCTAGGGGTTCGAAGATTTGCTCACATCGAGCGTCGGTTTGATTTG
130 CTCAGTATCTCATCAGGAAGCTA-GGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTG
13703533 GTCTTCTTCTTA
194 GTCTTCTTCTTA
* *
13703545 GTATCTCATCAGGAAGATGACCGCATCATTTGTTTCAATCTGCTTCTCTGTATCTCATCAAGAAG
1 GTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATC-GCTTCTCTGTATCTCATCAGGAAG
13703610 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTT
65 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTT
*
13703675 CTCAGTATCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCACATGGAGCGTGGGTTTGATTTGG
130 CTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGG
13703739 TCTTCTTCTTA
195 TCTTCTTCTTA
* * * *
13703750 GTATCTCATCAGGAAGATGACTGCATCGCTTGTTTCAATCGCTTCTTTGTACCTCATCAGGAAGA
1 GTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCGCTTCTCTGTATCTCATCAGGAAGA
* *
13703815 CAAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
66 CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
*
13703880 TCAATATCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGT
131 TCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGT
*
13703944 CTTCTTCTCA
196 CTTCTTCTTA
* * *
13703954 GTATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATCCGCTTCTCTATACCTCATCAGGAAG
1 GTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAAT-CGCTTCTCTGTATCTCATCAGGAAG
*
13704019 ACGAATTTGGTCCACTTCTCAGTATATCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTT
65 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTT
* * * * *
13704084 CTCAGTATCTCATCAGGAAGTTAGGGTTCGAAGATTTGCTCACTTTGAGC-----CTTGAGTTGG
130 CTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGG
* *
13704144 TATACTTCTCT-
195 TCTTCTTCT-TA
* * * * *
13704155 GTATTTCATCAGGATGGTGACCGCCTCACTTGTTTCAATTCGCTTCTCTATATCTCATCAGGAAG
1 GTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAA-TCGCTTCTCTGTATCTCATCAGGAAG
* * * *
13704220 ATGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGCCCTGCCT
65 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTT
* * * * *
13704285 CTTAGTATGTCATCAGGAAGCTAGGGTTCAAAGATCTGTTCACAT
130 CTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACAT
13704330 TGAGTTGGTA
Statistics
Matches: 718, Mismatches: 62, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
201 170 0.24
202 1 0.00
204 194 0.27
205 193 0.27
206 26 0.04
207 134 0.19
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (205 bp):
GTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCGCTTCTCTGTATCTCATCAGGAAGA
CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
TCAGTATCTCATCAGGAAGCTAGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGT
CTTCTTCTTA
Found at i:13704786 original size:49 final size:48
Alignment explanation
Indices: 13704720--13704848 Score: 136
Period size: 49 Copynumber: 2.6 Consensus size: 48
13704710 CGACTTAAAC
*
13704720 CTTTCCCTTCAAATCTTCGTGGTACTGGATC-T-ACTGTCGTAGCTTAGAT
1 CTTTCCCTTCATATCTTCGTGGTACTGGATCGTCACTG-CG--GCTTAGAT
* * * * * *
13704769 CTTTCTCTTCCTGTCTTCGTAGTACTGGGTCCGTCATTGCGGCTTAGAT
1 CTTTCCCTTCATATCTTCGTGGTACTGGAT-CGTCACTGCGGCTTAGAT
*
13704818 CTTTCCCTTCATATCTTCGTGATACTGGATC
1 CTTTCCCTTCATATCTTCGTGGTACTGGATC
13704849 CACCGTTACG
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
48 1 0.02
49 56 0.88
50 1 0.02
51 3 0.05
52 3 0.05
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.40
Consensus pattern (48 bp):
CTTTCCCTTCATATCTTCGTGGTACTGGATCGTCACTGCGGCTTAGAT
Found at i:13704861 original size:49 final size:48
Alignment explanation
Indices: 13704720--13704867 Score: 129
Period size: 49 Copynumber: 3.0 Consensus size: 48
13704710 CGACTTAAAC
* * * *
13704720 CTTTCCCTTCAAATCTTCGTGGTACTGGATCTACTG-TCGTAGCTTAGAT
1 CTTTCCCTTCATATCTTCGTGATACTGGATCCACCGTTCG--GCTTAGAT
* * * * ** *
13704769 CTTTCTCTTCCTGTCTTCGT-AGTACTGGGTCCGTCATTGCGGCTTAGAT
1 CTTTCCCTTCATATCTTCGTGA-TACTGGATCCACCGTT-CGGCTTAGAT
13704818 CTTTCCCTTCATATCTTCGTGATACTGGATCCACCGTTACGGCTTTAGAT
1 CTTTCCCTTCATATCTTCGTGATACTGGATCCACCGTT-CGGC-TTAGAT
13704868 GACTAATGCT
Statistics
Matches: 75, Mismatches: 19, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
49 65 0.87
50 8 0.11
51 2 0.03
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (48 bp):
CTTTCCCTTCATATCTTCGTGATACTGGATCCACCGTTCGGCTTAGAT
Found at i:13708013 original size:23 final size:23
Alignment explanation
Indices: 13707954--13708037 Score: 105
Period size: 23 Copynumber: 3.7 Consensus size: 23
13707944 TAGAATTATT
* * *
13707954 ATGCGAAAATATACAAATATGCT
1 ATGCGAAAAAATGCAAATATGCA
*
13707977 ATGCGAAAATATGCAAATATGCA
1 ATGCGAAAAAATGCAAATATGCA
** *
13708000 ATGCGAAAAAATGCATGTATGTA
1 ATGCGAAAAAATGCAAATATGCA
13708023 ATGCGAAAAAATGCA
1 ATGCGAAAAAATGCA
13708038 TGTATGTAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.23
Consensus pattern (23 bp):
ATGCGAAAAAATGCAAATATGCA
Found at i:13708038 original size:23 final size:23
Alignment explanation
Indices: 13707977--13708049 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
13707967 CAAATATGCT
* ** *
13707977 ATGCGAAAATATGCAAATATGCA
1 ATGCGAAAAAATGCATGTATGTA
13708000 ATGCGAAAAAATGCATGTATGTA
1 ATGCGAAAAAATGCATGTATGTA
13708023 ATGCGAAAAAATGCATGTATGTA
1 ATGCGAAAAAATGCATGTATGTA
13708046 ATGC
1 ATGC
13708050 TATCACGAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.25
Consensus pattern (23 bp):
ATGCGAAAAAATGCATGTATGTA
Found at i:13712885 original size:30 final size:29
Alignment explanation
Indices: 13712840--13713183 Score: 172
Period size: 29 Copynumber: 11.7 Consensus size: 29
13712830 ATGCCCGAGG
* *
13712840 AAAAATGATAATTTTTAGGAAGTTCGAGGTT
1 AAAAAT-AGAATTTTT-GGAAGTTCGAGGGT
* *
13712871 AAAAATTGAATTTTTGGACA-TTCGGGGGT
1 AAAAATAGAATTTTTGGA-AGTTCGAGGGT
* * * *
13712900 -AAAATGGTAATTTTAGGAAAGTTTGAGGTT
1 AAAAATAG-AATTTTTGG-AAGTTCGAGGGT
*
13712930 AAAAATAGAATTTTTGGAAGTTTGAGGGT
1 AAAAATAGAATTTTTGGAAGTTCGAGGGT
* * *
13712959 -AAAATAGTAATTTTAGGAAAATTTG-GGGT
1 AAAAATAG-AATTTTTGG-AAGTTCGAGGGT
* * * *
13712988 AAAAATGGAATTTTTGGATGTTTGGGGGT
1 AAAAATAGAATTTTTGGAAGTTCGAGGGT
* * * *
13713017 -AAAATGGTAACTTTGGGAATGTT-TAGGGTT
1 AAAAATAG-AATTTTTGGAA-GTTCGAGGG-T
* *
13713047 AAAAATGGAATTTTTGGAAGTT-TAGGGGT
1 AAAAATAGAATTTTTGGAAGTTCGA-GGGT
* *
13713076 -AAAATAGTAATTTTGGGAAAGTTTG-GGGTT
1 AAAAATAG-AATTTTTGG-AAGTTCGAGGG-T
* * *
13713106 AAAAATGGAATTTTTGGACA-TTTGAGGAT
1 AAAAATAGAATTTTTGGA-AGTTCGAGGGT
* *
13713135 -AAAATGGTAATTTTGGGAAAGTTC-AGGGT
1 AAAAATAG-AATTTTTGG-AAGTTCGAGGGT
*
13713164 CAAAAATGGAATTTTTGGAA
1 -AAAAATAGAATTTTTGGAA
13713184 ATTTAGGGGT
Statistics
Matches: 252, Mismatches: 35, Indels: 54
0.74 0.10 0.16
Matches are distributed among these distances:
28 38 0.15
29 103 0.41
30 79 0.31
31 32 0.13
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.35
Consensus pattern (29 bp):
AAAAATAGAATTTTTGGAAGTTCGAGGGT
Found at i:13712911 original size:59 final size:58
Alignment explanation
Indices: 13712841--13713207 Score: 418
Period size: 59 Copynumber: 6.2 Consensus size: 58
13712831 TGCCCGAGGA
* * * *
13712841 AAAATGATAATTTTTAGG-AAGTTCGAGGTTAAAAATTGAATTTTTGGACATTCGGGGGT
1 AAAATGGTAA-TTTTAGGAAAGTTTGAGGTTAAAAATGGAATTTTTGGA-ATTTGGGGGT
* *
13712900 AAAATGGTAATTTTAGGAAAGTTTGAGGTTAAAAATAGAATTTTTGGAAGTTTGAGGGT
1 AAAATGGTAATTTTAGGAAAGTTTGAGGTTAAAAATGGAATTTTTGGAA-TTTGGGGGT
* * * *
13712959 AAAATAGTAATTTTAGGAAAATTTG-GGGTAAAAATGGAATTTTTGGATGTTTGGGGGT
1 AAAATGGTAATTTTAGGAAAGTTTGAGGTTAAAAATGGAATTTTTGGA-ATTTGGGGGT
* * * *
13713017 AAAATGGTAACTTTGGGAATGTTT-AGGGTTAAAAATGGAATTTTTGGAAGTTTAGGGGT
1 AAAATGGTAATTTTAGGAAAGTTTGA-GGTTAAAAATGGAATTTTTGGAA-TTTGGGGGT
* * * * *
13713076 AAAATAGTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTGGACATTTGAGGAT
1 AAAATGGTAATTTTAGGAAAGTTTGAGGTTAAAAATGGAATTTTTGGA-ATTTGGGGGT
* * * *
13713135 AAAATGGTAATTTTGGGAAAG-TTCAGGGTCAAAAATGGAATTTTTGGAAATTTAGGGGT
1 AAAATGGTAATTTTAGGAAAGTTTGA-GGTTAAAAATGGAATTTTTGG-AATTTGGGGGT
13713194 AAAATGGTAATTTT
1 AAAATGGTAATTTT
13713208 TGTGAAGTTT
Statistics
Matches: 265, Mismatches: 33, Indels: 20
0.83 0.10 0.06
Matches are distributed among these distances:
58 57 0.22
59 206 0.78
60 2 0.01
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.35
Consensus pattern (58 bp):
AAAATGGTAATTTTAGGAAAGTTTGAGGTTAAAAATGGAATTTTTGGAATTTGGGGGT
Found at i:13712977 original size:117 final size:117
Alignment explanation
Indices: 13712852--13713207 Score: 493
Period size: 117 Copynumber: 3.0 Consensus size: 117
13712842 AAATGATAAT
* * * *
13712852 TTTTAGG-AAGTTCGAGGTTAAAAATTGAATTTTTGGACATTCGGGGGTAAAATGGTAATTTTAG
1 TTTTAGGAAAGTTTG-GGTTAAAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATTTTGG
*
13712916 GAAAGTTT-GAGGTTAAAAATAGAATTTTTGGAAGTTT-GAGGGTAAAATAGTAA
65 GAAAGTTTAG-GGTTAAAAATGGAATTTTTGGAAGTTTAG-GGGTAAAATAGTAA
* * ** *
13712969 TTTTAGGAAAATTTGGGGTAAAAATGGAATTTTTGGATGTTTGGGGGTAAAATGGTAACTTTGGG
1 TTTTAGGAAAGTTTGGGTTAAAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATTTTGGG
*
13713034 AATGTTTAGGGTTAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAATAGTAA
66 AAAGTTTAGGGTTAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAATAGTAA
* * *
13713086 TTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTGGACATTTGAGGATAAAATGGTAATTTTGG
1 TTTTAGGAAAGTTT-GGGTTAAAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATTTTGG
* * * *
13713151 GAAAGTTCAGGGTCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATGGTAA
65 GAAAGTTTAGGGTTAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAATAGTAA
13713204 TTTT
1 TTTT
13713208 TGTGAAGTTT
Statistics
Matches: 211, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
117 108 0.51
118 103 0.49
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (117 bp):
TTTTAGGAAAGTTTGGGTTAAAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATTTTGGG
AAAGTTTAGGGTTAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAATAGTAA
Found at i:13712987 original size:29 final size:29
Alignment explanation
Indices: 13712895--13713303 Score: 265
Period size: 30 Copynumber: 14.0 Consensus size: 29
13712885 TGGACATTCG
* *
13712895 GGGGTAAAATGGTAATTTTAGGAAAGTTT
1 GGGGTAAAATAGTAATTTTTGGAAAGTTT
*
13712924 GAGGTTAAAAATAG-AATTTTTGG-AAGTTT
1 G-GGGT-AAAATAGTAATTTTTGGAAAGTTT
* *
13712953 GAGGGTAAAATAGTAATTTTAGGAAAATTT
1 G-GGGTAAAATAGTAATTTTTGGAAAGTTT
* *
13712983 GGGGTAAAA-ATGGAATTTTTGG-ATGTTT
1 GGGGTAAAATA-GTAATTTTTGGAAAGTTT
* * * *
13713011 GGGGGTAAAATGGTAACTTTGGGAATGTTT
1 -GGGGTAAAATAGTAATTTTTGGAAAGTTT
* *
13713041 AGGGTTAAAA-ATGGAATTTTTGG-AAGTTT
1 -GGGGTAAAATA-GTAATTTTTGGAAAGTTT
*
13713070 AGGGGTAAAATAGTAATTTTGGGAAAGTTT
1 -GGGGTAAAATAGTAATTTTTGGAAAGTTT
* *
13713100 GGGGTTAAAA-ATGGAATTTTTGGACA-TTT
1 GGGG-TAAAATA-GTAATTTTTGGAAAGTTT
* * * *
13713129 GAGGATAAAATGGTAATTTTGGGAAAGTTC
1 G-GGGTAAAATAGTAATTTTTGGAAAGTTT
* *
13713159 AGGGTCAAAA-ATGGAATTTTTGGAAA-TTT
1 GGGGT-AAAATA-GTAATTTTTGGAAAGTTT
*
13713188 AGGGGTAAAATGGTAATTTTTGTG-AAGTTT
1 -GGGGTAAAATAGTAATTTTTG-GAAAGTTT
* * * *
13713218 -GTG-ATAAT-GTAAATTTTGGAAAATTT
1 GGGGTAAAATAGTAATTTTTGGAAAGTTT
*
13713244 GGAGGTCAAAAT-GTAACTTTTGGAAAGTTT
1 GG-GGT-AAAATAGTAATTTTTGGAAAGTTT
* *
13713274 GGGGGTCAAAATA-TGATTTTTGGATAGTTT
1 -GGGGT-AAAATAGTAATTTTTGGAAAGTTT
13713304 AAGGACCTTT
Statistics
Matches: 298, Mismatches: 53, Indels: 57
0.73 0.13 0.14
Matches are distributed among these distances:
25 1 0.00
26 14 0.05
27 5 0.02
28 15 0.05
29 122 0.41
30 133 0.45
31 8 0.03
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (29 bp):
GGGGTAAAATAGTAATTTTTGGAAAGTTT
Found at i:13713216 original size:59 final size:58
Alignment explanation
Indices: 13712841--13713273 Score: 400
Period size: 59 Copynumber: 7.4 Consensus size: 58
13712831 TGCCCGAGGA
* * * * *
13712841 AAAATGATAATTTTTAGG-AAG-TTCGAGGTTAAAAATTGAATTTTTGGACATTCGGGGGT
1 AAAATGGTAATTTTT-GGAAAGTTTAG-GGTTAAAAATGGAATTTTTGGAAATT-TGGGGT
* * *
13712900 AAAATGGTAATTTTAGGAAAGTTT-GAGGTTAAAAATAGAATTTTTGGAAGTTTGAGGGT
1 AAAATGGTAATTTTTGGAAAGTTTAG-GGTTAAAAATGGAATTTTTGGAAATTTG-GGGT
* * * * **
13712959 AAAATAGTAATTTTAGGAAAATTT-GGGGTAAAAATGGAATTTTTGGATGTTTGGGGGT
1 AAAATGGTAATTTTTGGAAAGTTTAGGGTTAAAAATGGAATTTTTGGAAATTT-GGGGT
* * * *
13713017 AAAATGGTAACTTTGGGAATGTTTAGGGTTAAAAATGGAATTTTTGGAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGAAAGTTTAGGGTTAAAAATGGAATTTTTGGAAATTT-GGGGT
* * * * *
13713076 AAAATAGTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTGGACATTTGAGGAT
1 AAAATGGTAATTTTTGGAAAGTTTAGGGTTAAAAATGGAATTTTTGGAAATTTG-GGGT
* * *
13713135 AAAATGGTAATTTTGGGAAAGTTCAGGGTCAAAAATGGAATTTTTGGAAATTTAGGGGT
1 AAAATGGTAATTTTTGGAAAGTTTAGGGTTAAAAATGGAATTTTTGGAAATTT-GGGGT
* * * *
13713194 AAAATGGTAATTTTTGTG-AAGTTT---G-TGATAATGTAAATTTTGGAAAATTTGGAGGT
1 AAAATGGTAATTTTTG-GAAAGTTTAGGGTTAAAAATGGAATTTTTGG-AAATTTGG-GGT
*
13713250 CAAAAT-GTAACTTTTGGAAAGTTT
1 -AAAATGGTAATTTTTGGAAAGTTT
13713274 GGGGGTCAAA
Statistics
Matches: 322, Mismatches: 40, Indels: 27
0.83 0.10 0.07
Matches are distributed among these distances:
55 16 0.05
56 25 0.08
57 5 0.02
58 51 0.16
59 221 0.69
60 4 0.01
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.36
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGAAAGTTTAGGGTTAAAAATGGAATTTTTGGAAATTTGGGGT
Found at i:13713216 original size:118 final size:117
Alignment explanation
Indices: 13712848--13713218 Score: 489
Period size: 118 Copynumber: 3.2 Consensus size: 117
13712838 GGAAAAATGA
* * * *
13712848 TAATTTTTAGG-AAGTTCGAGGTTAAAAATTGAATTTTTGGACATTCGGGGGTAAAATGGTAATT
1 TAATTTTT-GGAAAGTTTGGGGTTAAAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATT
* * *
13712912 TTAGGAAAGTTTGAGGTTAAAAATAGAATTTTTGGAAGTTT-GAGGGTAAAATAG
65 TTGGGAAAGTTAG-GGTTAAAAATGGAATTTTTGGAAGTTTAG-GGGTAAAATAG
* * ** *
13712966 TAATTTTAGGAAAATTTGGGG-TAAAAATGGAATTTTTGGATGTTTGGGGGTAAAATGGTAACTT
1 TAATTTTTGGAAAGTTTGGGGTTAAAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATTT
*
13713030 TGGGAATGTTTAGGGTTAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAATAG
66 TGGGAAAG-TTAGGGTTAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAATAG
* * *
13713083 TAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTGGACATTTGAGGATAAAATGGTAATTT
1 TAATTTTTGGAAAGTTTGGGGTTAAAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATTT
* * *
13713148 TGGGAAAGTTCAGGGTCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATGG
66 TGGGAAAGTT-AGGGTTAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAATAG
13713201 TAATTTTTGTG-AAGTTTG
1 TAATTTTTG-GAAAGTTTG
13713219 TGATAATGTA
Statistics
Matches: 222, Mismatches: 25, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
117 104 0.47
118 117 0.53
119 1 0.00
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (117 bp):
TAATTTTTGGAAAGTTTGGGGTTAAAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATTT
TGGGAAAGTTAGGGTTAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAATAG
Found at i:13714621 original size:6 final size:6
Alignment explanation
Indices: 13714610--13714664 Score: 67
Period size: 6 Copynumber: 9.2 Consensus size: 6
13714600 ACTTTTGTTT
** *
13714610 ATTTAA ATTTAA ATTTAA ATTTTAA A-ACAT ATTTAA ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA A-TTTAA ATTTAA ATTTAA ATTTAA ATTTAA
13714658 ATTTAA A
1 ATTTAA A
13714665 ATGGGTTTAG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 2 0.05
6 33 0.80
7 6 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (6 bp):
ATTTAA
Found at i:13714643 original size:30 final size:29
Alignment explanation
Indices: 13714609--13714665 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 29
13714599 GACTTTTGTT
13714609 TATTTAAATTTAAATTTAAATTTTAAAACA
1 TATTTAAATTTAAATTTAAA-TTTAAAACA
13714639 TATTTAAATTTAAATTTAAATTTAAAA
1 TATTTAAATTTAAATTTAAATTTAAAA
13714666 TGGGTTTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
TATTTAAATTTAAATTTAAATTTAAAACA
Found at i:13715402 original size:209 final size:209
Alignment explanation
Indices: 13715025--13715475 Score: 571
Period size: 209 Copynumber: 2.2 Consensus size: 209
13715015 CTTGTTTCAA
* *
13715025 TCCACTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTGCTTTGACCTACTTCTCAATATCT
1 TCCACTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTACTTCGACCTACTTCTCAATATCT
* * *
13715090 CATCAGGAAGCTAGGGTTCGAAGATTCACTTACTTTGAGCTTGGCTTCACTGATTTGGCCTTCTT
66 CATCAAGAAGCTAGGGTTCAAAGATTCACTCACTTTGAGCTTGGCTTCACTGATTTGGCCTTCTT
* ** *
13715155 CTCAGTATCTCATCAGGAAGATTACAGCATCACTTGTTTCAATCTGCTTCTCCGTATCTCATC-A
131 CTCAGTATCTCATCAGGAAGATGACAGCATCACTTGTTTCAATCCACTTCTCCATATCTCATCAA
*** *
13715219 GAAAGGTGAATTTGG
196 G-AAGACAAATCTGG
* *
13715234 TCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAATATCT
1 TCCACTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTACTTCGACCTACTTCTCAATATCT
* * ** * *
13715299 CATCAAGAAGTTGGGGTTCAAAGATTTGCTCATTTTGAGCTTGGCTTCATTGATTTGGCCTTCTT
66 CATCAAGAAGCTAGGGTTCAAAGATTCACTCACTTTGAGCTTGGCTTCACTGATTTGGCCTTCTT
* * * * * * * ** * *
13715364 CTTAGTATCTTATTAGGAAGATGGCCGCTTCGCTTGTTTTGATCCACTTCTCTATGTCTCATCAA
131 CTCAGTATCTCATCAGGAAGATGACAGCATCACTTGTTTCAATCCACTTCTCCATATCTCATCAA
13715429 GAAGACAAATCTGG
196 GAAGACAAATCTGG
* * *
13715443 TTCACTTCTCTGTATCTCATCAGGAAGGTAACC
1 TCCACTTCTCAGTATCTCATCAGGAAGATAACC
13715476 GCTTTATATT
Statistics
Matches: 206, Mismatches: 35, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
209 204 0.99
210 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (209 bp):
TCCACTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTACTTCGACCTACTTCTCAATATCT
CATCAAGAAGCTAGGGTTCAAAGATTCACTCACTTTGAGCTTGGCTTCACTGATTTGGCCTTCTT
CTCAGTATCTCATCAGGAAGATGACAGCATCACTTGTTTCAATCCACTTCTCCATATCTCATCAA
GAAGACAAATCTGG
Found at i:13718504 original size:23 final size:23
Alignment explanation
Indices: 13718438--13718533 Score: 95
Period size: 23 Copynumber: 4.2 Consensus size: 23
13718428 TAGAATTATT
* **
13718438 ATGCGAAAATATGCAAATATGCT-
1 ATGCGAAAAAATGCATGTATG-TA
** ** *
13718461 ATGCGAAAATGTGCAAATATGCA
1 ATGCGAAAAAATGCATGTATGTA
*
13718484 ATGCGAAAAAATGGATGTATGTA
1 ATGCGAAAAAATGCATGTATGTA
13718507 ATGCGAAAAAATGCATGTATGTA
1 ATGCGAAAAAATGCATGTATGTA
13718530 ATGC
1 ATGC
13718534 TATCACGAGT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.43, C:0.10, G:0.22, T:0.25
Consensus pattern (23 bp):
ATGCGAAAAAATGCATGTATGTA
Found at i:13743711 original size:23 final size:23
Alignment explanation
Indices: 13743681--13743776 Score: 113
Period size: 23 Copynumber: 4.2 Consensus size: 23
13743671 ACTCGTGATA
*
13743681 GCATTACATACATGCATTTTTTC
1 GCATTACATACATGCATATTTTC
*
13743704 GCATTACATACATGCATTTTTTC
1 GCATTACATACATGCATATTTTC
* **
13743727 GCATTGCATATTTGCATATTTTC
1 GCATTACATACATGCATATTTTC
**
13743750 GCA-TAGCATATTTGCATATTTTC
1 GCATTA-CATACATGCATATTTTC
13743773 GCAT
1 GCAT
13743777 AATAATTCTA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
22 1 0.02
23 65 0.98
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.44
Consensus pattern (23 bp):
GCATTACATACATGCATATTTTC
Found at i:13756400 original size:6 final size:6
Alignment explanation
Indices: 13756363--13756432 Score: 51
Period size: 6 Copynumber: 12.2 Consensus size: 6
13756353 CTAAATCCAT
* * *
13756363 TTTAAA TTT-AT TTTAAGA -TTAAA TTT-AT TTTAAA TTTATA TTTAAA
1 TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
13756409 TTTAAA ATT--A TTCTAAA TTTAAA T
1 TTTAAA TTTAAA TT-TAAA TTTAAA T
13756433 AAACAAAGTC
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
4 2 0.04
5 10 0.20
6 34 0.69
7 3 0.06
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:13756404 original size:13 final size:12
Alignment explanation
Indices: 13756381--13756412 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
13756371 TATTTTAAGA
13756381 TTAAATTTAT-T
1 TTAAATTTATAT
13756392 TTAAATTTATAT
1 TTAAATTTATAT
13756404 TTAAATTTA
1 TTAAATTTA
13756413 AAATTATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAAATTTATAT
Found at i:13756405 original size:17 final size:18
Alignment explanation
Indices: 13756363--13756406 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
13756353 CTAAATCCAT
13756363 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAAGA
13756381 -TTAAATTTATTTTAA-A
1 TTTAAATTTATTTTAAGA
*
13756397 TTTATATTTA
1 TTTAAATTTA
13756407 AATTTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 23 0.96
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTAAATTTATTTTAAGA
Found at i:13756414 original size:18 final size:17
Alignment explanation
Indices: 13756363--13756432 Score: 62
Period size: 17 Copynumber: 4.4 Consensus size: 17
13756353 CTAAATCCAT
*
13756363 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTCTAA-A
*
13756381 -TTAAATTTATTTTAAA
1 TTTAAATTTATTCTAAA
13756397 TTT--A--TATT-TAAA
1 TTTAAATTTATTCTAAA
*
13756409 TTTAAAATTATTCTAAA
1 TTTAAATTTATTCTAAA
13756426 TTTAAAT
1 TTTAAAT
13756433 AAACAAAGTC
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
12 7 0.16
13 4 0.09
14 1 0.02
15 1 0.02
16 5 0.11
17 27 0.60
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTCTAAA
Found at i:13756419 original size:29 final size:28
Alignment explanation
Indices: 13756361--13756429 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 28
13756351 AACTAAATCC
*
13756361 ATTTTAAATTTATTTTAAGATTAAATTT
1 ATTTTAAATTTATTTTAAGATTAAAATT
13756389 ATTTTAAATTTATATTTAA-ATTTAAAATT
1 ATTTTAAATTTAT-TTTAAGA-TTAAAATT
*
13756418 ATTCTAAATTTA
1 ATTTTAAATTTA
13756430 AATAAACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 14 0.38
29 23 0.62
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (28 bp):
ATTTTAAATTTATTTTAAGATTAAAATT
Found at i:13756610 original size:3 final size:3
Alignment explanation
Indices: 13756602--13756655 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
13756592 AAATAGTATC
* * ** *
13756602 AAT AAT AAT CAAT AAT AAT AAT ACT ATT CTT AAT AGT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13756648 AAT AAT AA
1 AAT AAT AA
13756656 AAGGCAGTCG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:13757963 original size:59 final size:58
Alignment explanation
Indices: 13757851--13758334 Score: 396
Period size: 59 Copynumber: 8.3 Consensus size: 58
13757841 GAACTTCACA
* * * * ** **
13757851 AAAATTACCATCTTACCTCGAATTTCCAAAAATTTTATTTTTGACCCCGAACTTTCCC
1 AAAATTACCATTTTACCCCCAAATTCCAAAAATTCCATTTTTGACCCTAAACTTTCCC
* * * * * *
13757909 TAAAGTACCATTCTACCCCCAAATGTCAAAAAATTCCATTTTTCACCCTAAAC-TTGCC
1 AAAATTACCATTTTACCCCCAAAT-TCCAAAAATTCCATTTTTGACCCTAAACTTTCCC
* * *
13757967 AAAATTACCATTTTACCCCCAAACTTCC-AAAATTCTATTTTTAACCCCAAACTTTCCC
1 AAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCATTTTTGACCCTAAACTTTCCC
* * * *
13758025 AAAATTACCATTTCACCTCCGAATGTCTAAAAATTCCATTTTTGACTCC-AAAC-TTCCC
1 AAAATTACCATTTTACCCCCAAAT-TCCAAAAATTCCATTTTTGAC-CCTAAACTTTCCC
* ** * * *
13758083 TAATATTACCATTTTACCCTTAGACTTCAAAAAAATACCATTTTTGACCCTAAACTTTCCC
1 -AAAATTACCATTTTACCCCCA-AATTC-CAAAAATTCCATTTTTGACCCTAAACTTTCCC
* * ** * * *
13758144 AAAATTACCATTTTACCCTCAAACATCCAAAAATTTTATTTTTGACCCCATACTTTCCT
1 AAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCATTTTTGACCCTAAACTTTCCC
** *
13758203 AAAATTACCATTTTACCCTAAAACTTCCAAAAATTCCA--TTT---CATAAACTTTCCC
1 AAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCATTTTTGACCCTAAACTTTCCC
* * * * * *
13758257 AAAACTACCATTTTAACCCCGAATGTCCAAAAATTCCATTTTT-AACCTCGAAC-TTCCTA
1 AAAATTACCATTTTACCCCCAAAT-TCCAAAAATTCCATTTTTGACCCT-AAACTTTCC-C
13758316 AAAATTACCATTTTACCCC
1 AAAATTACCATTTTACCCC
13758335 TGGCATTGAA
Statistics
Matches: 341, Mismatches: 66, Indels: 37
0.77 0.15 0.08
Matches are distributed among these distances:
53 1 0.00
54 40 0.12
56 3 0.01
57 25 0.07
58 80 0.23
59 141 0.41
60 46 0.13
61 5 0.01
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.33
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCAAATTCCAAAAATTCCATTTTTGACCCTAAACTTTCCC
Found at i:13757971 original size:29 final size:29
Alignment explanation
Indices: 13757938--13758243 Score: 156
Period size: 29 Copynumber: 10.4 Consensus size: 29
13757928 CAAATGTCAA
*
13757938 AAAATT-CCATTTTTCACCCTAAACTTGCC
1 AAAATTACCATTTTTCACCCCAAACTT-CC
*
13757967 AAAATTACCATTTTAC-CCCCAAACTTCC
1 AAAATTACCATTTTTCACCCCAAACTTCC
* *
13757995 AAAATT-CTATTTTTAACCCCAAACTTTCCC
1 AAAATTACCATTTTTCACCCCAAAC-TT-CC
* *
13758025 AAAATTACCA--TTTCACCTCCGAA-TGTCTA
1 AAAATTACCATTTTTCACC-CCAAACT-TC-C
* *
13758054 AAAATT-CCATTTTTGACTCCAAACTTCCC
1 AAAATTACCATTTTTCACCCCAAACTT-CC
* * * *
13758083 TAATATTACCA-TTTT-ACCCTTAGACTTCAA
1 -AAAATTACCATTTTTCACCC-CAAACTTC-C
* * *
13758113 AAAAATACCATTTTTGACCCTAAACTTTCCC
1 AAAATTACCATTTTTCACCCCAAAC-TT-CC
*
13758144 AAAATTACCA-TTTT-ACCCTCAAACATCC
1 AAAATTACCATTTTTCACCC-CAAACTTCC
** * *
13758172 AAAAATT-TTATTTTTGACCCCATACTTTCC
1 -AAAATTACCATTTTTCACCCCAAAC-TTCC
*
13758202 TAAAATTACCA-TTTT-ACCCTAAAACTTCC
1 -AAAATTACCATTTTTCACCC-CAAACTTCC
13758231 AAAAATT-CCATTT
1 -AAAATTACCATTT
13758244 CATAAACTTT
Statistics
Matches: 214, Mismatches: 35, Indels: 56
0.70 0.11 0.18
Matches are distributed among these distances:
27 6 0.03
28 27 0.13
29 82 0.38
30 77 0.36
31 21 0.10
32 1 0.00
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAATTACCATTTTTCACCCCAAACTTCC
Found at i:13758300 original size:29 final size:31
Alignment explanation
Indices: 13758257--13758329 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 31
13758247 AAACTTTCCC
*
13758257 AAAACTACCA-TTTTAACCCCGAA-TGTCC-A
1 AAAATTACCATTTTTAACCCCGAACT-TCCTA
*
13758286 AAAATT-CCATTTTTAACCTCGAACTTCCTA
1 AAAATTACCATTTTTAACCCCGAACTTCCTA
13758316 AAAATTACCATTTT
1 AAAATTACCATTTT
13758330 ACCCCTGGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 3 0.08
29 20 0.53
30 8 0.21
31 7 0.18
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (31 bp):
AAAATTACCATTTTTAACCCCGAACTTCCTA
Found at i:13761791 original size:23 final size:23
Alignment explanation
Indices: 13761771--13761832 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
13761761 ATTACATACA
*
13761771 TGCATTTTTTCGCACT-GCATATT
1 TGCATATTTTCGCA-TAGCATATT
13761794 TGCATATTTTCGCATAGCATATT
1 TGCATATTTTCGCATAGCATATT
13761817 TGCATATTTTCGCATA
1 TGCATATTTTCGCATA
13761833 ATAATTCTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
22 1 0.03
23 36 0.97
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (23 bp):
TGCATATTTTCGCATAGCATATT
Found at i:13767981 original size:208 final size:208
Alignment explanation
Indices: 13767584--13768245 Score: 875
Period size: 209 Copynumber: 3.2 Consensus size: 208
13767574 TATCCAAAAT
* *
13767584 ATAAAGCAGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCTGTCTTCCTGATGAGACA
1 ATAAAGCAGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTTCTGATGAGACA
* *
13767649 CAGAGAAGTGGATCAATACAAGCGATGCGGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAA
66 CAGAGAAGTGGATCAA-ACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGGCCAA
* ** * *
13767714 ATCAATAAAATCAGGCTCAAAGTGAG-AGAATCTTCGAACCCCAGCTTCCTAATGAGATATTGAG
130 ATCAATGAAGCCAAGCTCAAAGTGAGCA-AATCTTCGAACCCCAGCTTCCTGATGAGATATTGAG
13767778 AAGCAGGTCGAAGCA
194 AAGCAGGTCGAAGCA
*
13767793 ATAAAGCAGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTTCTAATGAGACA
1 ATAAAGCAGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTTCTGATGAGACA
* * * *
13767858 CAGAGAAGTGGGTCAAACTAAGCGAAG-GGTCATCTTCCTGATAAGATACTAAGAAGAAGGCCAA
66 CAGAGAAGTGGATCAAAC-AAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGGCCAA
* * *
13767922 ATCAATGAAGCCAAGCTCAAAATGAGCAAATCTTCGAACCCCAACTTCTTGATGAGATATTGAGA
130 ATCAATGAAGCCAAGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGA
13767987 AGCAGGTCGAAGCA
195 AGCAGGTCGAAGCA
*** * * * * * * * *
13768001 ATAAAATGGTTAGCTTCCAGATGAGATACTGAGAAGTGGACCAAATTCGCCTTTCTGATGAGATA
1 ATAAAGCAGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTTCTGATGAGACA
** * * **
13768066 C-GAAGAAGCAGATTGAAACAAGTGATGTTGTCATCTTCCTGATGAGATACTGAGAAGAAGGCCA
66 CAG-AGAAGTGGA-TCAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGGCCA
* *
13768130 AATCAATGAAGCCAAGCTCAAAGTAAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAG
129 AATCAATGAAGCCAAGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAG
*
13768195 AAGCAGGTTGAAGCA
194 AAGCAGGTCGAAGCA
* *
13768210 ATATAATG--GTTATCTTCCTGATGAGATACTGAGAAG
1 ATA-AA-GCAGTTACCTTCCTGATGAGATACAGAGAAG
13768246 CGGATTGAAA
Statistics
Matches: 399, Mismatches: 47, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
207 1 0.00
208 170 0.43
209 226 0.57
210 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.22
Consensus pattern (208 bp):
ATAAAGCAGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTTCTGATGAGACA
CAGAGAAGTGGATCAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGGCCAAA
TCAATGAAGCCAAGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGAA
GCAGGTCGAAGCA
Found at i:13768246 original size:48 final size:49
Alignment explanation
Indices: 13768175--13768287 Score: 142
Period size: 48 Copynumber: 2.3 Consensus size: 49
13768165 CGAACCCCAG
* * *
13768175 CTTCCTGATGAGATATTGAGAAGCAGG-TTGAAGCAATATAATG-G-TTAT
1 CTTCCTGATGAGATACTGAGAAGC-GGATTGAAACAA-ATAATGCGATCAT
* *
13768223 CTTCCTGATGAGATACTGAGAAGCGGATTGAAACAAGTGATGCGATCAT
1 CTTCCTGATGAGATACTGAGAAGCGGATTGAAACAAATAATGCGATCAT
13768272 CTTCCTGATGAGATAC
1 CTTCCTGATGAGATAC
13768288 AAAGAAGTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
47 6 0.11
48 32 0.56
49 19 0.33
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (49 bp):
CTTCCTGATGAGATACTGAGAAGCGGATTGAAACAAATAATGCGATCAT
Found at i:13768683 original size:6 final size:6
Alignment explanation
Indices: 13768628--13768664 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
13768618 ATATGTTTTA
*
13768628 AAATTT AAATTT AAATTT AAATTT ATATTT AAATTT A
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT A
13768665 TAAATATTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
AAATTT
Found at i:13770620 original size:30 final size:30
Alignment explanation
Indices: 13770580--13770748 Score: 102
Period size: 30 Copynumber: 5.8 Consensus size: 30
13770570 AAAGGTCCCT
* *
13770580 AAACTATCCAAAAATCATATTTTGACCCCC
1 AAACTTTCCAAAAATCACATTTTGACCCCC
* *
13770610 AAACTTTCCAAAAGTTACATTTTGACCCCC
1 AAACTTTCCAAAAATCACATTTTGACCCCC
* * * * *
13770640 AAACTTTGCAAAATTTACA--TT-A-TCAC
1 AAACTTTCCAAAAATCACATTTTGACCCCC
* * *
13770666 GAAC-TTCACAAAAATTACCATTTT-ACCCCT
1 AAACTTTC-CAAAAATCA-CATTTTGACCCCC
* *
13770696 AAA-TTTCCAAAAATCCCATTTTTGA-CCCT
1 AAACTTTCCAAAAATCACA-TTTTGACCCCC
* *
13770725 AAACTTTCCCAAAATTACCATTTT
1 AAACTTTCCAAAAATCA-CATTTT
13770749 ATCCTCAAAT
Statistics
Matches: 109, Mismatches: 20, Indels: 20
0.73 0.13 0.13
Matches are distributed among these distances:
25 2 0.02
26 13 0.12
27 3 0.03
28 4 0.04
29 21 0.19
30 64 0.59
31 2 0.02
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.32
Consensus pattern (30 bp):
AAACTTTCCAAAAATCACATTTTGACCCCC
Found at i:13770846 original size:117 final size:116
Alignment explanation
Indices: 13770667--13771157 Score: 529
Period size: 117 Copynumber: 4.2 Consensus size: 116
13770657 CATTATCACG
* * * * *
13770667 AACTTCAC-AAAAATTACCATTTTACCCCTAAATTTCCAAAAATCCCATTTTTGACCCTAAACTT
1 AACTTC-CTAAAAATTACCATTTTACCCTTAAACTTCCAAAAATTCCATTTTTAACCCCAAAC-T
* * *
13770731 TCCCAAAATTACCATTTTATCCTCAAATGTCAAAAAATTCCATTATGGACCCTA
64 TCCCAAAATTACCATTTTACCCCCAAATGTCAAAAAATTCCATT-TTGACCCTA
* * ** *
13770785 AACTTCCTAAAAACTACTATTTTA-CCTTGGACTTCCAAAAATTCTATTTTTAACCCCAAACTTT
1 AACTTCCTAAAAATTACCATTTTACCCTTAAACTTCCAAAAATTCCATTTTTAACCCCAAAC-TT
* * * * *
13770849 CCCTAAATTACCATTTTACCCTCGAATGTCCAAAAATTCCATTTTTGACTCTA
65 CCCAAAATTACCATTTTACCCCCAAATGTCAAAAAATTCCA-TTTTGACCCTA
* * ***
13770902 AACTTCCCAAATATTACCATTTTACCCTTAAACTTCCAAAAATTCCATTTTTAACCTTGAACTTC
1 AACTTCCTAAAAATTACCATTTTACCCTTAAACTTCCAAAAATTCCATTTTTAACCCCAAACTTC
* * ** * *
13770967 ACAAAATCACCATTTTACCCCCAAACATCAAAAAATTCCATTTTTACCCCA
66 CCAAAATTACCATTTTACCCCCAAATGTCAAAAAATTCCATTTTGACCCTA
* * * * *
13771018 AATTTTCCT-AAAATTACCATTTTACCCTCAAACTTCCAAAAATTCTATTTTTAACCTCGAACTT
1 AA-CTTCCTAAAAATTACCATTTTACCCTTAAACTTCCAAAAATTCCATTTTTAACCCCAAACTT
* * * * * *
13771082 CCCAAAATTACCATTTTACCCCCGAATGTCCAAAAATTCAATTTTTAACCTCG
65 CCCAAAATTACCATTTTACCCCCAAATGTCAAAAAATTCCATTTTGACCCT-A
*
13771135 AACTTCCTAAAGATTACCATTTT
1 AACTTCCTAAAAATTACCATTTT
13771158 TCCTCGGGCA
Statistics
Matches: 312, Mismatches: 55, Indels: 13
0.82 0.14 0.03
Matches are distributed among these distances:
116 108 0.35
117 151 0.48
118 53 0.17
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.34
Consensus pattern (116 bp):
AACTTCCTAAAAATTACCATTTTACCCTTAAACTTCCAAAAATTCCATTTTTAACCCCAAACTTC
CCAAAATTACCATTTTACCCCCAAATGTCAAAAAATTCCATTTTGACCCTA
Found at i:13770865 original size:58 final size:58
Alignment explanation
Indices: 13770667--13771157 Score: 422
Period size: 58 Copynumber: 8.4 Consensus size: 58
13770657 CATTATCACG
* * * * *
13770667 AACTTCACAAAAATTACCATTTTACCCCTAAATTTCCAAAAATCCCATTTTTGACCCTA
1 AACTTC-CCAAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCCA
* * * ** *
13770726 AACTTTCCCAAAATTACCATTTTA-TCCTCAAA-TGTCAAAAAATTCCATTATGGACCCTA
1 AAC-TTCCCAAAATTACCATTTTACCCCT-AAACT-TCCAAAAATTCCATTTTTAACCCCA
* * * * ** *
13770785 AACTTCCTAAAAACTACTATTTTA-CCTTGGACTTCCAAAAATTCTATTTTTAACCCCA
1 AACTTCC-CAAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCCA
* * * * *
13770843 AACTTTCCCTAAATTACCATTTTA-CCCTCGAA-TGTCCAAAAATTCCATTTTTGACTCTA
1 AAC-TTCCCAAAATTACCATTTTACCCCT-AAACT-TCCAAAAATTCCATTTTTAACCCCA
* ***
13770902 AACTTCCCAAATATTACCATTTTACCCTTAAACTTCCAAAAATTCCATTTTTAACCTTG
1 AACTTCCCAAA-ATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCCA
* * * * *
13770961 AACTTCACAAAATCACCATTTTACCCCCAAACATCAAAAAATTCCATTTTT-ACCCCA
1 AACTTCCCAAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCCA
* * * * *
13771018 AATTTTCCTAAAATTACCATTTTA-CCCTCAAACTTCCAAAAATTCTATTTTTAACCTCG
1 AA-CTTCCCAAAATTACCATTTTACCCCT-AAACTTCCAAAAATTCCATTTTTAACCCCA
** * * *
13771077 AACTTCCCAAAATTACCATTTTACCCCCGAA-TGTCCAAAAATTCAATTTTTAACCTCG
1 AACTTCCCAAAATTACCATTTTACCCCTAAACT-TCCAAAAATTCCATTTTTAACCCCA
*
13771135 AACTTCCTAAAGATTACCATTTT
1 AACTTCCCAAA-ATTACCATTTT
13771158 TCCTCGGGCA
Statistics
Matches: 354, Mismatches: 61, Indels: 34
0.79 0.14 0.08
Matches are distributed among these distances:
57 9 0.03
58 181 0.51
59 157 0.44
60 7 0.02
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.34
Consensus pattern (58 bp):
AACTTCCCAAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCCA
Found at i:13771107 original size:29 final size:29
Alignment explanation
Indices: 13770667--13771158 Score: 284
Period size: 29 Copynumber: 16.8 Consensus size: 29
13770657 CATTATCACG
13770667 AACTTCACAAAAATTACCA-TTTTACCC-CTA
1 AACTTC-CAAAAATT-CCATTTTTACCCTC-A
* *
13770697 AATTTCCAAAAATCCCATTTTTGACCCT-A
1 AACTTCCAAAAATTCCATTTTT-ACCCTCA
* *
13770726 AACTTTCCCAAAATTACCA-TTTTATCCTCA
1 AAC-TTCCAAAAATT-CCATTTTTACCCTCA
* **
13770756 AA-TGTCAAAAAATTCCATTATGGACCCT-A
1 AACT-TCCAAAAATTCCATT-TTTACCCTCA
* * **
13770785 AACTTCCTAAAAACTAC-TATTTTA-CCTTG
1 AACTTCC-AAAAATTCCAT-TTTTACCCTCA
* *
13770814 GACTTCCAAAAATTCTATTTTTAACCC-CA
1 AACTTCCAAAAATTCCATTTTT-ACCCTCA
** *
13770843 AACTTTCCCTAAATTACCA-TTTTACCCTCG
1 AAC-TTCCAAAAATT-CCATTTTTACCCTCA
*
13770873 AA-TGTCCAAAAATTCCATTTTTGACTCT-A
1 AACT-TCCAAAAATTCCATTTTT-ACCCTCA
* *
13770902 AACTTCCCAAATATTACCA-TTTTACCCTTA
1 AACTT-CCAAAAATT-CCATTTTTACCCTCA
* **
13770932 AACTTCCAAAAATTCCATTTTTAACCTTG
1 AACTTCCAAAAATTCCATTTTTACCCTCA
* *
13770961 AACTT-CACAAAATCACCA-TTTTACCCCCA
1 AACTTCCA-AAAAT-TCCATTTTTACCCTCA
* *
13770990 AACATCAAAAAATTCCATTTTTACCC-CA
1 AACTTCCAAAAATTCCATTTTTACCCTCA
* *
13771018 AATTTTCCTAAAATTACCA-TTTTACCCTCA
1 AA-CTTCCAAAAATT-CCATTTTTACCCTCA
* * *
13771048 AACTTCCAAAAATTCTATTTTTAACCTCG
1 AACTTCCAAAAATTCCATTTTTACCCTCA
* * *
13771077 AACTTCCCAAAATTACCA-TTTTACCCCCG
1 AACTTCCAAAAATT-CCATTTTTACCCTCA
* * *
13771106 AA-TGTCCAAAAATTCAATTTTTAACCTCG
1 AACT-TCCAAAAATTCCATTTTTACCCTCA
*
13771135 AACTTCCTAAAGATTACCATTTTT
1 AACTTCC-AAAAATT-CCATTTTT
13771159 CCTCGGGCAT
Statistics
Matches: 357, Mismatches: 64, Indels: 81
0.71 0.13 0.16
Matches are distributed among these distances:
28 41 0.11
29 201 0.56
30 100 0.28
31 15 0.04
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.34
Consensus pattern (29 bp):
AACTTCCAAAAATTCCATTTTTACCCTCA
Found at i:13786601 original size:17 final size:17
Alignment explanation
Indices: 13786575--13786607 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13786565 CCTAATATCA
*
13786575 TAAAATCTTTTTGTTGT
1 TAAAAACTTTTTGTTGT
13786592 TAAAAACTTTTTGTTG
1 TAAAAACTTTTTGTTG
13786608 CACTAATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (17 bp):
TAAAAACTTTTTGTTGT
Found at i:13793767 original size:29 final size:28
Alignment explanation
Indices: 13793725--13793801 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 28
13793715 GTTTCGATGT
** *
13793725 CAAAAATGGGATTTTTAGATTCTCGAGGG
1 CAAAAATGTAATTTTTAGATTCTAG-GGG
* * *
13793754 TAAAAATGTAATTTTTGGAATTTTAGGGG
1 CAAAAATGTAATTTTTAG-ATTCTAGGGG
*
13793783 CAAAAATGTAAATTTTAGA
1 CAAAAATGTAATTTTTAGA
13793802 AGTTTCGATG
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
28 1 0.03
29 32 0.84
30 5 0.13
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (28 bp):
CAAAAATGTAATTTTTAGATTCTAGGGG
Found at i:13802137 original size:29 final size:30
Alignment explanation
Indices: 13802057--13802183 Score: 86
Period size: 29 Copynumber: 4.2 Consensus size: 30
13802047 AAAAATGACA
*
13802057 TTTTAGACATCCGAGGAT-AAAATGGTAAT
1 TTTTGGACATCCGAGGATAAAAATGGTAAT
* * *
13802086 TTTTGGAAAATTCGA-GATCAAAAATGG-AGT
1 TTTTGG-ACATCCGAGGAT-AAAAATGGTAAT
* *
13802116 TTTTGGACATCCGAGGGTAAAAAT-GTATGGAA
1 TTTTGGACATCCGAGGATAAAAATGGTA---AT
* *
13802148 TTTTGGA-AGTTCGAGGGTAAAAAT-GTAAT
1 TTTTGGACA-TCCGAGGATAAAAATGGTAAT
13802177 TTTTGGA
1 TTTTGGA
13802184 AGTTTCGGGT
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
28 1 0.01
29 29 0.37
30 16 0.21
31 8 0.10
32 24 0.31
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.32
Consensus pattern (30 bp):
TTTTGGACATCCGAGGATAAAAATGGTAAT
Found at i:13802169 original size:91 final size:91
Alignment explanation
Indices: 13802068--13802233 Score: 210
Period size: 91 Copynumber: 1.8 Consensus size: 91
13802058 TTTAGACATC
*
13802068 CGAGGAT-AAAATGGTAATTTTTGGAAAATTCGAGATCAAAAATG-GAGTTTTTGGACATCCGAG
1 CGAGGATAAAAAT-GTAATTTTTGGAAAATTCGAGATCAAAAATGAGA-TTTTTAGACATCCGAG
13802131 GGTAAAAATGTATGGAATTTTGGAAGTT
64 GGTAAAAATGTATGGAATTTTGGAAGTT
* ** * * ** * *
13802159 CGAGGGTAAAAATGTAATTTTTGGAAGTTTCGGGTTCAAAAATGAGATTTTTAGATTTTCGAGTG
1 CGAGGATAAAAATGTAATTTTTGGAAAATTCGAGATCAAAAATGAGATTTTTAGACATCCGAGGG
13802224 TAAAAATGTA
66 TAAAAATGTA
13802234 ATTTTTTAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
91 56 0.89
92 7 0.11
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.33
Consensus pattern (91 bp):
CGAGGATAAAAATGTAATTTTTGGAAAATTCGAGATCAAAAATGAGATTTTTAGACATCCGAGGG
TAAAAATGTATGGAATTTTGGAAGTT
Found at i:13802199 original size:29 final size:28
Alignment explanation
Indices: 13802148--13802298 Score: 85
Period size: 29 Copynumber: 5.2 Consensus size: 28
13802138 ATGTATGGAA
*
13802148 TTTTGGAAG-TTCGAGGGTAAAAATGTAAT
1 TTTTGGAAGTTTC--GGGTCAAAATGTAAT
13802177 TTTTGGAAGTTTCGGGTTCAAAAATG-AGAT
1 TTTTGGAAGTTTCGGG-TC-AAAATGTA-AT
* * *
13802207 TTTTAG-ATTTTCGAGTGTAAAAATGTAAT
1 TTTTGGAAGTTTCG-G-GTCAAAATGTAAT
** * *
13802236 TTTTTAAATTTTAGGAG-CAAAAATGTAAT
1 TTTTGGAAGTTTCGG-GTC-AAAATGTAAT
* * *
13802265 TTTTAGAAGTTTCGAGGCCAAAATATAAT
1 TTTTGGAAGTTTCG-GGTCAAAATGTAAT
13802294 TTTTG
1 TTTTG
13802299 AACAGTTTAA
Statistics
Matches: 96, Mismatches: 15, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
28 3 0.03
29 65 0.68
30 27 0.28
31 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (28 bp):
TTTTGGAAGTTTCGGGTCAAAATGTAAT
Found at i:13802202 original size:30 final size:29
Alignment explanation
Indices: 13802148--13802278 Score: 101
Period size: 29 Copynumber: 4.5 Consensus size: 29
13802138 ATGTATGGAA
* *
13802148 TTTTGGAAG-TTCGAGGGTAAAAATGTAAT
1 TTTTAGAAGTTTCG-GGTTAAAAATGTAAT
*
13802177 TTTTGGAAGTTTCGGGTTCAAAAATG-AGAT
1 TTTTAGAAGTTTCGGGTT-AAAAATGTA-AT
* *
13802207 TTTTAG-ATTTTCGAGTGTAAAAATGTAATT
1 TTTTAGAAGTTTCGGGT-TAAAAATGTAA-T
* * *
13802237 TTTTA-AATTTTAGGAG-CAAAAATGTAAT
1 TTTTAGAAGTTTCGG-GTTAAAAATGTAAT
13802265 TTTTAGAAGTTTCG
1 TTTTAGAAGTTTCG
13802279 AGGCCAAAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
28 6 0.07
29 45 0.54
30 32 0.38
31 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (29 bp):
TTTTAGAAGTTTCGGGTTAAAAATGTAAT
Found at i:13802278 original size:59 final size:58
Alignment explanation
Indices: 13802148--13802307 Score: 157
Period size: 59 Copynumber: 2.7 Consensus size: 58
13802138 ATGTATGGAA
* * *
13802148 TTTTGGAAG-TTCGAGGGTAAAAATGTAATTTTTGGAAGTTTCGGGTTCAAAAATGAGAT
1 TTTTAGAAGTTTCGA-GGTAAAAATGTAATTTTTGAAAGTTTAGGG-TCAAAAATGAGAT
* * *
13802207 TTTTAG-ATTTTCGAGTGTAAAAATGTAATTTTTTAAATTTTAGGAG-CAAAAATGTA-AT
1 TTTTAGAAGTTTCGAG-GTAAAAATGTAATTTTTGAAAGTTTAGG-GTCAAAAATG-AGAT
** *
13802265 TTTTAGAAGTTTCGAGGCCAAAATATAATTTTTGAACAGTTTA
1 TTTTAGAAGTTTCGAGGTAAAAATGTAATTTTTGAA-AGTTTA
13802308 AGGACCTTTA
Statistics
Matches: 83, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
58 34 0.41
59 48 0.58
60 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (58 bp):
TTTTAGAAGTTTCGAGGTAAAAATGTAATTTTTGAAAGTTTAGGGTCAAAAATGAGAT
Found at i:13804151 original size:6 final size:6
Alignment explanation
Indices: 13804126--13804195 Score: 54
Period size: 6 Copynumber: 12.0 Consensus size: 6
13804116 ATTGCTTTTT
* * * * *
13804126 TTTAAA TTTGAA TATAAA TTTAAA TTCAAA TTCAAA TTTAAA -ATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** *
13804173 TCAAAA TTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
13804196 AGGGCCCGGT
Statistics
Matches: 49, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
5 8 0.16
6 41 0.84
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (6 bp):
TTTAAA
Found at i:13804179 original size:17 final size:16
Alignment explanation
Indices: 13804141--13804190 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 16
13804131 ATTTGAATAT
*
13804141 AAATTTAAATTCAAATTC
1 AAATTTAAAAT-AAA-TC
13804159 AAATTTAAAATAAATC
1 AAATTTAAAATAAATC
13804175 AAAATTTAAAATAAAT
1 -AAATTTAAAATAAAT
13804191 TTAAAAGGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 2 0.07
17 18 0.60
18 10 0.33
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATTTAAAATAAATC
Found at i:13807051 original size:6 final size:6
Alignment explanation
Indices: 13807014--13807083 Score: 51
Period size: 6 Copynumber: 12.2 Consensus size: 6
13807004 CTAAATCCAT
* * *
13807014 TTTAAA TTT-AT TTTAAGA -TTAAA TTT-AT TTTAAA TTTATA TTTAAA
1 TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
13807060 TTTAAA ATT--A TTCTAAA TTTAAA T
1 TTTAAA TTTAAA TT-TAAA TTTAAA T
13807084 AAACAAAGTC
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
4 2 0.04
5 10 0.20
6 34 0.69
7 3 0.06
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:13807055 original size:13 final size:12
Alignment explanation
Indices: 13807032--13807063 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
13807022 TATTTTAAGA
13807032 TTAAATTTAT-T
1 TTAAATTTATAT
13807043 TTAAATTTATAT
1 TTAAATTTATAT
13807055 TTAAATTTA
1 TTAAATTTA
13807064 AAATTATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAAATTTATAT
Found at i:13807056 original size:17 final size:18
Alignment explanation
Indices: 13807014--13807057 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
13807004 CTAAATCCAT
13807014 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAAGA
13807032 -TTAAATTTATTTTAA-A
1 TTTAAATTTATTTTAAGA
*
13807048 TTTATATTTA
1 TTTAAATTTA
13807058 AATTTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 23 0.96
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTAAATTTATTTTAAGA
Found at i:13807065 original size:18 final size:17
Alignment explanation
Indices: 13807014--13807083 Score: 62
Period size: 17 Copynumber: 4.4 Consensus size: 17
13807004 CTAAATCCAT
*
13807014 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTCTAA-A
*
13807032 -TTAAATTTATTTTAAA
1 TTTAAATTTATTCTAAA
13807048 TTT--A--TATT-TAAA
1 TTTAAATTTATTCTAAA
*
13807060 TTTAAAATTATTCTAAA
1 TTTAAATTTATTCTAAA
13807077 TTTAAAT
1 TTTAAAT
13807084 AAACAAAGTC
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
12 7 0.16
13 4 0.09
14 1 0.02
15 1 0.02
16 5 0.11
17 27 0.60
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTCTAAA
Found at i:13807070 original size:29 final size:28
Alignment explanation
Indices: 13807012--13807080 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 28
13807002 AACTAAATCC
*
13807012 ATTTTAAATTTATTTTAAGATTAAATTT
1 ATTTTAAATTTATTTTAAGATTAAAATT
13807040 ATTTTAAATTTATATTTAA-ATTTAAAATT
1 ATTTTAAATTTAT-TTTAAGA-TTAAAATT
*
13807069 ATTCTAAATTTA
1 ATTTTAAATTTA
13807081 AATAAACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 14 0.38
29 23 0.62
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (28 bp):
ATTTTAAATTTATTTTAAGATTAAAATT
Found at i:13807261 original size:3 final size:3
Alignment explanation
Indices: 13807253--13807308 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
13807243 AAATAGTATC
* * ** *
13807253 AAT AAT AAT AAT AAT AAT ACT ATT CTT AAT AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
13807301 AAC AAT AA
1 AAT AAT AA
13807309 GGCAGTCGAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:13807473 original size:3 final size:3
Alignment explanation
Indices: 13807465--13807517 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
13807455 AAATAGTATC
* * ** * *
13807465 AAT AAT AAT AAT AAT ACT ATT CTT AAT AGT AAT AAT AAT AAT AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13807513 AAT AA
1 AAT AA
13807518 GGCAGTCGAA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:13808700 original size:30 final size:29
Alignment explanation
Indices: 13808630--13809152 Score: 237
Period size: 30 Copynumber: 17.7 Consensus size: 29
13808620 TGAACTATTT
* * *
13808630 AAAAATCATATTTTAACCCCTAAACTTTCC
1 AAAAATTACATTTT-ACCCCTGAACTTTCC
*
13808660 AAAAAATACATTTTCACCCCTGAACTTTCC
1 AAAAATTACATTTT-ACCCCTGAACTTTCC
* *
13808690 AAAATTTACATTATTACCCTCT-AAC-TTCAT
1 AAAAATTACATT-TTACCC-CTGAACTTTC-C
*
13808720 AAAAATTACCATTTTACCTC-GAA-TTTCC
1 AAAAATTA-CATTTTACCCCTGAACTTTCC
* * *
13808748 AAAAATTCCATTTTTGACCTC-GAACTTTTC
1 AAAAATTACA-TTTT-ACCCCTGAACTTTCC
* * *
13808778 AAAAACTACCATTCTACCCCTGAA-TGTCC
1 AAAAATTA-CATTTTACCCCTGAACTTTCC
* *
13808807 AAAAATTCCATTTTTCACCCTGAAC-TTCC
1 AAAAATTACATTTTAC-CCCTGAACTTTCC
* *
13808836 CAAAATTACCATTTTACCCC-AAGAC-TTCC
1 AAAAATTA-CATTTTACCCCTGA-ACTTTCC
*
13808865 AAAAATT-CTATTTTTGA-GCCTGAACTTTCC
1 AAAAATTAC-A-TTTT-ACCCCTGAACTTTCC
* * *
13808895 CAAAATTACCATTTTACCCCTGAA-TGTCT
1 AAAAATTA-CATTTTACCCCTGAACTTTCC
* *
13808924 AAAAATT-CTATTTTTGACCTC-AAACTTTCC
1 AAAAATTAC-A-TTTT-ACCCCTGAACTTTCC
* ** *
13808954 CAAAATTACCATTTTACCCCCAAAC-ATCC
1 AAAAATTA-CATTTTACCCCTGAACTTTCC
*
13808983 AAAATATTTA-TTTTTGACCCC--ATACTTTCC
1 AAAA-A-TTACATTTT-ACCCCTGA-ACTTTCC
* * *
13809013 CAAAATTACCATTTTA-CCCTTAAATTTCC
1 AAAAATTA-CATTTTACCCCTGAACTTTCC
* * *
13809042 AAAAATTCCATTTTTAACCCTAAACTTTCC
1 AAAAATTACA-TTTTACCCCTGAACTTTCC
* *
13809072 CAAAATTACCATTTTA-CCCTCGAA-TGTCC
1 AAAAATTA-CATTTTACCCCT-GAACTTTCC
* * *
13809101 AATAATTCCATTTTTGACCTC-GAAC-TTCC
1 AAAAATTACA-TTTT-ACCCCTGAACTTTCC
*
13809130 TAAAAATTACCATTTTTCCCCTG
1 -AAAAATTA-CATTTTACCCCTG
13809153 GCAGCAAAAA
Statistics
Matches: 377, Mismatches: 66, Indels: 100
0.69 0.12 0.18
Matches are distributed among these distances:
27 4 0.01
28 31 0.08
29 146 0.39
30 173 0.46
31 21 0.06
32 2 0.01
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAAATTACATTTTACCCCTGAACTTTCC
Found at i:13808753 original size:59 final size:58
Alignment explanation
Indices: 13808660--13809150 Score: 347
Period size: 59 Copynumber: 8.3 Consensus size: 58
13808650 TAAACTTTCC
* * * * *
13808660 AAAAAATA-CATTTTCACCCCTGAACTTTCCAAAATTTACATTATT-ACCCTCTAACTTCAT
1 AAAAATTACCATTTT-ACCCC-GAA-TTTCCAAAAATTCCATTTTTCACCCTCGAACTTC-T
* * *
13808720 AAAAATTACCATTTTACCTCGAATTTCCAAAAATTCCATTTTTGA-CCTCGAACTTTT
1 AAAAATTACCATTTTACCCCGAATTTCCAAAAATTCCATTTTTCACCCTCGAACTTCT
* * * *
13808777 CAAAAACTACCATTCTACCCCTGAATGTCCAAAAATTCCATTTTTCACCCT-GAACTTCC
1 -AAAAATTACCATTTTACCCC-GAATTTCCAAAAATTCCATTTTTCACCCTCGAACTTCT
* * * * * * *
13808836 CAAAATTACCATTTTACCCCAAGACTTCCAAAAATTCTATTTTTGAGCCT-GAACTTTCC
1 AAAAATTACCATTTTACCCCGA-ATTTCCAAAAATTCCATTTTTCACCCTCGAAC-TTCT
* * * * * * *
13808895 CAAAATTACCATTTTACCCCTGAATGTCTAAAAATTCTATTTTTGA-CCTCAAACTTTCC
1 AAAAATTACCATTTTACCCC-GAATTTCCAAAAATTCCATTTTTCACCCTCGAAC-TTCT
* * ** * * *
13808954 CAAAATTACCATTTTACCCCCAAACATCCAAAATATT-TATTTTTGACCC-C-ATACTTTCC
1 AAAAATTACCATTTTA-CCCCGAATTTCCAAAA-ATTCCATTTTTCACCCTCGA-AC-TTCT
* ** * * *
13809013 CAAAATTACCATTTTACCCTTAAATTTCCAAAAATTCCATTTTTAACCCT-AAACTTTCC
1 AAAAATTACCATTTTACCC-CGAATTTCCAAAAATTCCATTTTTCACCCTCGAAC-TTCT
* * * *
13809072 CAAAATTACCATTTTACCCTCGAATGTCCAATAATTCCATTTTTGA-CCTCGAACTTCCT
1 AAAAATTACCATTTTACCC-CGAATTTCCAAAAATTCCATTTTTCACCCTCGAACTT-CT
*
13809131 AAAAATTACCATTTTTCCCC
1 AAAAATTACCATTTTACCCC
13809151 TGGCAGCAAA
Statistics
Matches: 366, Mismatches: 46, Indels: 40
0.81 0.10 0.09
Matches are distributed among these distances:
57 2 0.01
58 102 0.28
59 231 0.63
60 25 0.07
61 6 0.02
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (58 bp):
AAAAATTACCATTTTACCCCGAATTTCCAAAAATTCCATTTTTCACCCTCGAACTTCT
Found at i:13809048 original size:177 final size:176
Alignment explanation
Indices: 13808721--13809150 Score: 548
Period size: 177 Copynumber: 2.4 Consensus size: 176
13808711 TAACTTCATA
* * * *
13808721 AAAATTACCATTTTACCTC-GAATTTCCAAAAATTCCATTTTTGACCTCGAACTTTTCAAAAACT
1 AAAATTACCATTTTACCCCTGAATGTCCAAAAATTCCATTTTTGACCTCGAACTTTCCAAAAATT
* ** ** *
13808785 ACCATTCTACCCCTGAATGTCCAAAAATTCCATTTTTCACCCTGAACTTCCCAAAATTACCATTT
66 ACCATTTTACCCCCAAACATCCAAAAATTCCATTTTTCACCCTCAACTTCCCAAAATTACCATTT
* * * *
13808850 TACCCCAAGACTTCCAAAAATTCTATTTTTGAGCCTGAACTTTCCC
131 TACCCCAAGACTTCCAAAAATTCCATTTTTAACCCTAAACTTTCCC
* * * *
13808896 AAAATTACCATTTTACCCCTGAATGTCTAAAAATTCTATTTTTGACCTCAAACTTTCCCAAAATT
1 AAAATTACCATTTTACCCCTGAATGTCCAAAAATTCCATTTTTGACCTCGAACTTTCCAAAAATT
* *
13808961 ACCATTTTACCCCCAAACATCCAAAATATT-TATTTTTGACCC-CATACTTTCCCAAAATTACCA
66 ACCATTTTACCCCCAAACATCCAAAA-ATTCCATTTTTCACCCTCA-AC-TTCCCAAAATTACCA
* *
13809024 TTTTACCCTTAA-ATTTCCAAAAATTCCATTTTTAACCCTAAACTTTCCC
128 TTTTACCC-CAAGACTTCCAAAAATTCCATTTTTAACCCTAAACTTTCCC
*
13809073 AAAATTACCATTTTA-CCCTCGAATGTCCAATAATTCCATTTTTGACCTCGAAC-TTCCTAAAAA
1 AAAATTACCATTTTACCCCT-GAATGTCCAAAAATTCCATTTTTGACCTCGAACTTTCC-AAAAA
*
13809136 TTACCATTTTTCCCC
64 TTACCATTTTACCCC
13809151 TGGCAGCAAA
Statistics
Matches: 220, Mismatches: 28, Indels: 12
0.85 0.11 0.05
Matches are distributed among these distances:
175 19 0.09
176 79 0.36
177 120 0.55
178 2 0.01
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (176 bp):
AAAATTACCATTTTACCCCTGAATGTCCAAAAATTCCATTTTTGACCTCGAACTTTCCAAAAATT
ACCATTTTACCCCCAAACATCCAAAAATTCCATTTTTCACCCTCAACTTCCCAAAATTACCATTT
TACCCCAAGACTTCCAAAAATTCCATTTTTAACCCTAAACTTTCCC
Found at i:13809166 original size:118 final size:117
Alignment explanation
Indices: 13808652--13809152 Score: 529
Period size: 118 Copynumber: 4.3 Consensus size: 117
13808642 TTAACCCCTA
* * * * * *
13808652 AACTTTCCAAAAAATA-CATTTTCACCCCTGAACTTTCCAAAATTTACATTATT-ACCCTCTAAC
1 AACTTTCCAAAAATTACCATTTT-ACCCCTGAA-TGTCCAAAAATTCCATTTTTAACCCT-AAAC
**
13808715 -TTCATAAAAATTACCATTTTA-CCTCGAATTTCCAAAAATTCCATTTTTGACCTCG
63 TTTC-CCAAAATTACCATTTTACCCTCGAA-TTCCAAAAATTCCATTTTTGACCTCG
* * * * *
13808770 AACTTTTCAAAAACTACCATTCTACCCCTGAATGTCCAAAAATTCCATTTTTCACCCTGAAC-TT
1 AACTTTCCAAAAATTACCATTTTACCCCTGAATGTCCAAAAATTCCATTTTTAACCCTAAACTTT
* *
13808834 CCCAAAATTACCATTTTACCC-CAAGACTTCCAAAAATTCTATTTTTGAGCCT-G
66 CCCAAAATTACCATTTTACCCTC--GAATTCCAAAAATTCCATTTTTGA-CCTCG
* * * *
13808887 AACTTTCCCAAAATTACCATTTTACCCCTGAATGTCTAAAAATTCTATTTTTGA-CCTCAAACTT
1 AACTTTCCAAAAATTACCATTTTACCCCTGAATGTCCAAAAATTCCATTTTTAACCCT-AAACTT
* * * * *
13808951 TCCCAAAATTACCATTTTACCCCCAAACATCCAAAATATT-TATTTTTGACC-CC
65 TCCCAAAATTACCATTTTACCCTCGAA-TTCCAAAA-ATTCCATTTTTGACCTCG
* * * *
13809004 ATACTTTCCCAAAATTACCATTTTACCCTTAAATTTCCAAAAATTCCATTTTTAACCCTAAACTT
1 A-ACTTTCCAAAAATTACCATTTTACCCCTGAATGTCCAAAAATTCCATTTTTAACCCTAAACTT
*
13809069 TCCCAAAATTACCATTTTACCCTCGAATGTCCAATAATTCCATTTTTGACCTCG
65 TCCCAAAATTACCATTTTACCCTCGAAT-TCCAAAAATTCCATTTTTGACCTCG
*
13809123 AAC-TTCCTAAAAATTACCATTTTTCCCCTG
1 AACTTTCC-AAAAATTACCATTTTACCCCTG
13809153 GCAGCAAAAA
Statistics
Matches: 325, Mismatches: 40, Indels: 36
0.81 0.10 0.09
Matches are distributed among these distances:
116 19 0.06
117 106 0.33
118 186 0.57
119 14 0.04
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (117 bp):
AACTTTCCAAAAATTACCATTTTACCCCTGAATGTCCAAAAATTCCATTTTTAACCCTAAACTTT
CCCAAAATTACCATTTTACCCTCGAATTCCAAAAATTCCATTTTTGACCTCG
Found at i:13813103 original size:23 final size:23
Alignment explanation
Indices: 13813077--13813138 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
13813067 ATTACGTACA
* *
13813077 TGCATTTTTTCACATTGCATATT
1 TGCATATTTTCACATAGCATATT
*
13813100 TGCATATTTTCGCATAGCATATT
1 TGCATATTTTCACATAGCATATT
*
13813123 TGCATATTTTCGCATA
1 TGCATATTTTCACATA
13813139 ATAATTCTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47
Consensus pattern (23 bp):
TGCATATTTTCACATAGCATATT
Found at i:13821837 original size:20 final size:22
Alignment explanation
Indices: 13821793--13821843 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 22
13821783 TTTTATTATT
*
13821793 TATTTTT-ATTTTATTATTTGC
1 TATTTTTAATTTAATTATTTGC
13821814 -ATTTTTAATTTAATT-TTT-C
1 TATTTTTAATTTAATTATTTGC
13821833 TA-TTTTAATTT
1 TATTTTTAATTT
13821844 TTTTCCCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 10 0.37
20 10 0.37
21 7 0.26
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.71
Consensus pattern (22 bp):
TATTTTTAATTTAATTATTTGC
Found at i:13824415 original size:25 final size:24
Alignment explanation
Indices: 13824353--13824416 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
13824343 TAGAGTAATA
* *
13824353 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* *
13824377 GGAGTTTAATTGAAACAAATAACAC
1 AGAGTTTAACTGAAACAAATAA-AC
13824402 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
13824417 GATTATTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 18 0.55
25 15 0.45
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.23
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:13833854 original size:22 final size:18
Alignment explanation
Indices: 13833829--13833873 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 18
13833819 CTCATTTTCC
13833829 TAAAATAGCCCAACACCCAAAA
1 TAAAATA-CCCAA-A-CC-AAA
13833851 TAAAATACCCAAACCAAA
1 TAAAATACCCAAACCAAA
13833869 TAAAA
1 TAAAA
13833874 CCCATACCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.35
19 2 0.09
20 1 0.04
21 5 0.22
22 7 0.30
ACGTcount: A:0.60, C:0.27, G:0.02, T:0.11
Consensus pattern (18 bp):
TAAAATACCCAAACCAAA
Found at i:13850162 original size:22 final size:18
Alignment explanation
Indices: 13850134--13850178 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 18
13850124 CCCATTTTCC
13850134 TAAAATAGCCCAACACCCAAAA
1 TAAAATA-CCCAA-A-CC-AAA
13850156 TAAAATACCCAAACCAAA
1 TAAAATACCCAAACCAAA
13850174 TAAAA
1 TAAAA
13850179 CCCATACCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.35
19 2 0.09
20 1 0.04
21 5 0.22
22 7 0.30
ACGTcount: A:0.60, C:0.27, G:0.02, T:0.11
Consensus pattern (18 bp):
TAAAATACCCAAACCAAA
Found at i:13862503 original size:29 final size:28
Alignment explanation
Indices: 13862470--13862850 Score: 118
Period size: 29 Copynumber: 13.1 Consensus size: 28
13862460 TTTGGATGCC
13862470 CGAGGAAAAATGGTAATCTTTAGGAAGTT
1 CGAGGAAAAATGGTAAT-TTTAGGAAGTT
*
13862499 CGAGGTCAAAAAT--TAAATTTTTGGACA-TT
1 CGAGG--AAAAATGGT-AATTTTAGGA-AGTT
* * *
13862528 CGGGGTAAAATGGTAATTTTGGGAAAGTT
1 CGAGGAAAAATGGTAATTTTAGG-AAGTT
* *
13862557 CGAGGTTAAAAATAG-AATTTTTGGAAG-T
1 CGAGG--AAAAATGGTAATTTTAGGAAGTT
* * *
13862585 CTGAGGGTAAAATGGTAATTTAAGGAAAATT
1 C-GA-GGAAAAATGGTAATTTTAGG-AAGTT
* * * *
13862616 TGGGGTAAAAATGG-AATTTTTGGATGTT
1 CGAGG-AAAAATGGTAATTTTAGGAAGTT
* * * * *
13862644 TGGGGTAAAATGGTGATTTTGGGAAAGTT
1 CGAGGAAAAATGGTAATTTTAGG-AAGTT
* *
13862673 CAAGGTTAAAAATGG-AATTTTTGGAAGTT
1 CGAGG--AAAAATGGTAATTTTAGGAAGTT
** * *
13862702 TAAGGGTAAAATGGTAATTTTTTGGAAGTTT
1 CGA-GGAAAAATGGTAA-TTTTAGGAAG-TT
* * *
13862733 AGAGTCAAAAATGG-AATTTTTGGACA-TT
1 CGAG-GAAAAATGGTAATTTTAGGA-AGTT
* * *
13862761 CAAGGGTAAAATGGTAATTTTGGGAAAGTT
1 CGA-GGAAAAATGGTAATTTTAGG-AAGTT
* * * *
13862791 TGGGGTTAAAAATGG-AATTTTTGGAAATT
1 CGAGG--AAAAATGGTAATTTTAGGAAGTT
* * *
13862820 -TAGGGTAAAATGGTAATTTTTGTGAAGTT
1 CGA-GGAAAAATGGTAATTTTAG-GAAGTT
13862849 CG
1 CG
13862851 TGATAGTGTA
Statistics
Matches: 264, Mismatches: 52, Indels: 71
0.68 0.13 0.18
Matches are distributed among these distances:
27 19 0.07
28 57 0.22
29 93 0.35
30 58 0.22
31 37 0.14
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (28 bp):
CGAGGAAAAATGGTAATTTTAGGAAGTT
Found at i:13862519 original size:58 final size:58
Alignment explanation
Indices: 13862456--13862815 Score: 185
Period size: 59 Copynumber: 6.2 Consensus size: 58
13862446 GATTAAATGC
**
13862456 AATTTTTGGATGCCCGAGGAAAAATGGTAATCTTTAGG-AAGTTCGAGGTCAAAAATTA-
1 AATTTTTGGACACCCGAGGAAAAATGGTAAT-TTTAGGAAAGTTCGAGGTCAAAAA-TAG
** * * * *
13862514 AATTTTTGGACATTCGGGGTAAAATGGTAATTTTGGGAAAGTTCGAGGTTAAAAATAG
1 AATTTTTGGACACCCGAGGAAAAATGGTAATTTTAGGAAAGTTCGAGGTCAAAAATAG
* * * * * * * *
13862572 AATTTTTGGA-AGTCTGAGGGTAAAATGGTAATTTAAGGAAAATTTGGGGT-AAAAATGG
1 AATTTTTGGACA-CCCGA-GGAAAAATGGTAATTTTAGGAAAGTTCGAGGTCAAAAATAG
***** * * * * * * *
13862630 AATTTTTGGATGTTTGGGGTAAAATGGTGATTTTGGGAAAGTTCAAGGTTAAAAATGG
1 AATTTTTGGACACCCGAGGAAAAATGGTAATTTTAGGAAAGTTCGAGGTCAAAAATAG
**** * * * *
13862688 AATTTTTGGA-AGTTTAAGGGTAAAATGGTAATTTTTTGG-AAGTT-TAGAGTCAAAAATGG
1 AATTTTTGGACA-CCCGA-GGAAAAATGGTAA-TTTTAGGAAAGTTCGAG-GTCAAAAATAG
** * * * * * * *
13862747 AATTTTTGGACATTCAAGGGTAAAATGGTAATTTTGGGAAAGTTTGGGGTTAAAAATGG
1 AATTTTTGGACACCCGA-GGAAAAATGGTAATTTTAGGAAAGTTCGAGGTCAAAAATAG
13862806 AATTTTTGGA
1 AATTTTTGGA
13862816 AATTTAGGGT
Statistics
Matches: 250, Mismatches: 39, Indels: 25
0.80 0.12 0.08
Matches are distributed among these distances:
57 33 0.13
58 102 0.41
59 107 0.43
60 8 0.03
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.34
Consensus pattern (58 bp):
AATTTTTGGACACCCGAGGAAAAATGGTAATTTTAGGAAAGTTCGAGGTCAAAAATAG
Found at i:13862731 original size:59 final size:58
Alignment explanation
Indices: 13862476--13862839 Score: 398
Period size: 58 Copynumber: 6.2 Consensus size: 58
13862466 TGCCCGAGGA
* * ** **
13862476 AAAATGGTAATCTTTAGG-AAGTTCGAGGTCAAAAATTAAATTTTTGGACA-TTCGGGGT
1 AAAATGGTAAT-TTTGGGAAAGTTCGAGGTTAAAAATGGAATTTTTGGA-AGTTTAGGGT
* *
13862534 AAAATGGTAATTTTGGGAAAGTTCGAGGTTAAAAATAGAATTTTTGGAAGTCTGAGGGT
1 AAAATGGTAATTTTGGGAAAGTTCGAGGTTAAAAATGGAATTTTTGGAAGT-TTAGGGT
** * * * * *
13862593 AAAATGGTAATTTAAGGAAAATTTG-GGGTAAAAATGGAATTTTTGGATGTTTGGGGT
1 AAAATGGTAATTTTGGGAAAGTTCGAGGTTAAAAATGGAATTTTTGGAAGTTTAGGGT
* *
13862650 AAAATGGTGATTTTGGGAAAGTTCAAGGTTAAAAATGGAATTTTTGGAAGTTTAAGGGT
1 AAAATGGTAATTTTGGGAAAGTTCGAGGTTAAAAATGGAATTTTTGGAAGTTT-AGGGT
* * * *
13862709 AAAATGGTAATTTTTTGG-AAGTT-TAGAGTCAAAAATGGAATTTTTGGACA-TTCAAGGGT
1 AAAATGGTAA-TTTTGGGAAAGTTCGAG-GTTAAAAATGGAATTTTTGGA-AGTT-TAGGGT
* * *
13862768 AAAATGGTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTGGAAATTTAGGGT
1 AAAATGGTAATTTTGGGAAAGTTCGAGGTTAAAAATGGAATTTTTGGAAGTTTAGGGT
13862826 AAAATGGTAATTTT
1 AAAATGGTAATTTT
13862840 TGTGAAGTTC
Statistics
Matches: 260, Mismatches: 34, Indels: 24
0.82 0.11 0.08
Matches are distributed among these distances:
57 30 0.12
58 114 0.44
59 108 0.42
60 8 0.03
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (58 bp):
AAAATGGTAATTTTGGGAAAGTTCGAGGTTAAAAATGGAATTTTTGGAAGTTTAGGGT
Found at i:13862897 original size:30 final size:30
Alignment explanation
Indices: 13862857--13862935 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
13862847 TTCGTGATAG
13862857 TGTAAATTTTGGAAAGTTTGGGGGTCAAAA
1 TGTAAATTTTGGAAAGTTTGGGGGTCAAAA
* *
13862887 TGTAACTTTTGGAAAGTTTGGGGGTTAAAA
1 TGTAAATTTTGGAAAGTTTGGGGGTCAAAA
* * * *
13862917 TATGATTTTTGGATAGTTT
1 TGTAAATTTTGGAAAGTTT
13862936 AGGGACCTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.29, C:0.03, G:0.28, T:0.41
Consensus pattern (30 bp):
TGTAAATTTTGGAAAGTTTGGGGGTCAAAA
Found at i:13864893 original size:7 final size:6
Alignment explanation
Indices: 13864857--13864922 Score: 53
Period size: 6 Copynumber: 11.0 Consensus size: 6
13864847 TTAGAATATT
* * ** *
13864857 TTTAAA TATAAA TATAAA TTTAAA TTTAAA TTTTAAA -ACATA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA
**
13864905 TTTAAA AATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
13864923 ATGGGTTTAG
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
5 2 0.04
6 38 0.83
7 6 0.13
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:13864901 original size:18 final size:18
Alignment explanation
Indices: 13864878--13864922 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
13864868 ATATAAATTT
*
13864878 AAATTTAAATTTTAAAAC
1 AAATTTAAATTTAAAAAC
* *
13864896 ATATTTAAATTTAAAAAT
1 AAATTTAAATTTAAAAAC
13864914 AAATTTAAA
1 AAATTTAAA
13864923 ATGGGTTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTTAAATTTAAAAAC
Found at i:13864916 original size:42 final size:41
Alignment explanation
Indices: 13864839--13864922 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 41
13864829 ACTTTTGTTT
* * * *
13864839 ATTTAAATTTAGAATATTTTTAAATATAAATATAAATTTAA
1 ATTTAAATTTAAAACATATTTAAATATAAAAATAAATTTAA
*
13864880 ATTTAAATTTTAAAACATATTTAAATTTAAAAATAAATTTAA
1 ATTTAAA-TTTAAAACATATTTAAATATAAAAATAAATTTAA
13864922 A
1 A
13864923 ATGGGTTTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 7 0.19
42 30 0.81
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (41 bp):
ATTTAAATTTAAAACATATTTAAATATAAAAATAAATTTAA
Found at i:13865743 original size:209 final size:208
Alignment explanation
Indices: 13865287--13865948 Score: 846
Period size: 209 Copynumber: 3.2 Consensus size: 208
13865277 TTTCAATCCG
* *** *
13865287 CTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
1 CTTCTCAGTATCTCATCAGGAAGGTAACTGCTTTATTACTTCGACCTGCTTCTCAATATCTCATC
* * *
13865352 AGGAAGTTGGGGTTTGAAGATTCGCTTACTTTGAGCTTGGCTTCATTGA-TTGGCCTTCTTCTCA
66 AGGAAGTTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTCA
** * * ** * *
13865416 GTATCTCATCAGGAAGATGACAACATCACTTGTTTCAATCTGCTTCTCCGTATCTCATCAGAAAG
131 GTATCTCATCAGGAAGATGACCGCATCGCTTGTTT-GATCCACTTCTCTGTGTCTCATCAGAAAG
* * * *
13865481 GCGAATTTGGTCCA
195 ACGGATCTGGTTCA
* * *
13865495 CTTCTCAGTATCTCATCTGGAAGCTAAACAT--TTTATTACTTCGACTTGCTTCTCAATATCTCA
1 CTTCTCAGTATCTCATCAGGAAGGT-AAC-TGCTTTATTACTTCGACCTGCTTCTCAATATCTCA
* * *
13865558 TCAAGAAGTTGGGGTTCAAAGATTTGCTCATTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCT
64 TCAGGAAGTTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCT
* * * *
13865623 TAGTATCTTATCAGGAAGATGACCGCTTCGCTTAGTTTGATCCACTTCTCTGTGTCTCATTAGAA
129 CAGTATCTCATCAGGAAGATGACCGCATCGCTT-GTTTGATCCACTTCTCTGTGTCTCATCAGAA
13865688 AGACGGATCTGGTTCA
193 AGACGGATCTGGTTCA
* *
13865704 CTTCTCTGTATCTCATCAGGAAGGTAACTGCTTTATTACTTCGACCTGCTTCTCAATATCTCATT
1 CTTCTCAGTATCTCATCAGGAAGGTAACTGCTTTATTACTTCGACCTGCTTCTCAATATCTCATC
* * ** * *
13865769 AGGAAGCTGGGGTTCGAAGATTCT-CTCACTTTGAGCCTGATTTTATTGATTTGGTCTTCTTCTC
66 AGGAAGTTGGGGTTCGAAGATT-TGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTC
* * *
13865833 AGTATCTCATCAAGAAGATGACCGAATCGCTTGTTTTGATCCACTTCTCTGTGTCTCATCAGGAA
130 AGTATCTCATCAGGAAGATGACCGCATCGCTTG-TTTGATCCACTTCTCTGTGTCTCATCAGAAA
**
13865898 GATAGATCTGGTTCA
194 GACGGATCTGGTTCA
*
13865913 CTTCTCTGTATCTCATCAGGAAGGTAACTGCTTTAT
1 CTTCTCAGTATCTCATCAGGAAGGTAACTGCTTTAT
13865949 ATTTTGGATA
Statistics
Matches: 396, Mismatches: 50, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
207 1 0.00
208 102 0.26
209 288 0.73
210 5 0.01
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (208 bp):
CTTCTCAGTATCTCATCAGGAAGGTAACTGCTTTATTACTTCGACCTGCTTCTCAATATCTCATC
AGGAAGTTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTCA
GTATCTCATCAGGAAGATGACCGCATCGCTTGTTTGATCCACTTCTCTGTGTCTCATCAGAAAGA
CGGATCTGGTTCA
Found at i:13874138 original size:23 final size:23
Alignment explanation
Indices: 13874074--13874132 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
13874064 GAATTATTAC
*
13874074 GCGAAAATATGCAAATATGCTAT
1 GCGAAAATATGCAAATATGCAAT
13874097 GCGAAAATATGCAAATATGCAAT
1 GCGAAAATATGCAAATATGCAAT
*
13874120 GCGAAAAAATGCA
1 GCGAAAATATGCA
13874133 TGTATGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (23 bp):
GCGAAAATATGCAAATATGCAAT
Found at i:13874151 original size:23 final size:23
Alignment explanation
Indices: 13874089--13874156 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 23
13874079 AATATGCAAA
* * * **
13874089 TATGCTATGCGAAAATATGCAAA
1 TATGCAATGCGAAAAAAGGCATG
*
13874112 TATGCAATGCGAAAAAATGCATG
1 TATGCAATGCGAAAAAAGGCATG
*
13874135 TATGTAATGC-AAGAAAAGGCAT
1 TATGCAATGCGAA-AAAAGGCAT
13874157 TGATTTTTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 2 0.05
23 36 0.95
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.24
Consensus pattern (23 bp):
TATGCAATGCGAAAAAAGGCATG
Found at i:13877959 original size:26 final size:24
Alignment explanation
Indices: 13877921--13877992 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 24
13877911 TTCGGGGTTA
13877921 AAATGGTAATTTTGGGAAAGTTTAGG
1 AAATGGTAATTTT-GG-AAGTTTAGG
13877947 AAATGG-AATTTTTGGAAGTTTAAGGG
1 AAATGGTAA-TTTTGGAAGTTT-A-GG
13877973 TAAAATGGTAATTTTAGGAA
1 --AAATGGTAATTTT-GGAA
13877993 AGTATGAGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
24 6 0.15
25 5 0.13
26 12 0.31
28 10 0.26
29 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.35
Consensus pattern (24 bp):
AAATGGTAATTTTGGAAGTTTAGG
Found at i:13878090 original size:58 final size:57
Alignment explanation
Indices: 13877855--13878402 Score: 444
Period size: 58 Copynumber: 9.5 Consensus size: 57
13877845 TTTCGATGCC
* * * * *
13877855 AGGGGCAAAAAGGTAATTTTTAGG-AAGTTCAAGGTTAAAAATGGAATTTTTGGACA-TT
1 AGGGGTAAAATGGTAA-TTTTGGGAAAGTTC-GGGTCAAAAATGGAATTTTTGGA-AGTT
* **
13877913 CGGGGTTAAAATGGTAATTTTGGGAAAGTTTAGG----AAATGGAATTTTTGGAAGTTT
1 AGGGG-TAAAATGGTAATTTTGGGAAAGTTCGGGTCAAAAATGGAATTTTTGGAAG-TT
* * ** *
13877968 AAGGGTAAAATGGTAATTTTAGGAAAGTAT-GAGGTCAAAAATAAAATTTTTGGATGTT
1 AGGGGTAAAATGGTAATTTTGGGAAAGT-TCG-GGTCAAAAATGGAATTTTTGGAAGTT
*
13878026 TGAGGGTAAAATGGTAATTTTGGGAAAGTTCGGGTCAAAAATGGAATTTTTGGAAGTCT
1 AG-GGGTAAAATGGTAATTTTGGGAAAGTTCGGGTCAAAAATGGAATTTTTGGAAGT-T
* * *
13878085 AAGGGTAAAATGGTAATATTT-GG-AAGTTTGGAGT-AAAAATGGAATTTTTAGACA-TT
1 AGGGGTAAAATGGTAAT-TTTGGGAAAGTTCGG-GTCAAAAATGGAATTTTTGGA-AGTT
* * * *
13878141 CGGGGTGAAATGGTAATTTTGGGAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAGTT
1 AGGGGTAAAATGGTAATTTTGGGAAAG-TTCGGGTCAAAAATGGAATTTTTGGAAGTT
* * * * *
13878199 TGGGGTAAAATGGTAATTTTTGGCAAGTTTAGGGTGAAAAATGGAATTTTTGGACA-TT
1 AGGGGTAAAATGGTAATTTTGGGAAAG-TTCGGGTCAAAAATGGAATTTTTGGA-AGTT
* * * * *
13878257 TGGGGTAGAATGGTAATTATGGGAAAGTTCGGGGTCAAAAATAGAA-TTTTGGAAATT
1 AGGGGTAAAATGGTAATTTTGGGAAAGTTC-GGGTCAAAAATGGAATTTTTGGAAGTT
* * * * * * *
13878314 CGAGGTAAAATGGTAATTTTTGTG-AAGTTCGAGTGCAATAATGTAAATTTTGGAAAGTT
1 AGGGGTAAAATGGTAA-TTTTGGGAAAGTTCGGGT-CAAAAATGGAATTTTTGG-AAGTT
13878373 CAGGGGTCAAAAT-GTAATTCTT-GGAAAGTT
1 -AGGGGT-AAAATGGTAATT-TTGGGAAAGTT
13878403 TAAGGGTCAA
Statistics
Matches: 403, Mismatches: 55, Indels: 62
0.77 0.11 0.12
Matches are distributed among these distances:
53 1 0.00
54 38 0.09
55 11 0.03
56 21 0.05
57 69 0.17
58 176 0.44
59 67 0.17
60 15 0.04
61 5 0.01
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (57 bp):
AGGGGTAAAATGGTAATTTTGGGAAAGTTCGGGTCAAAAATGGAATTTTTGGAAGTT
Found at i:13878327 original size:173 final size:171
Alignment explanation
Indices: 13877856--13878414 Score: 523
Period size: 173 Copynumber: 3.2 Consensus size: 171
13877846 TTCGATGCCA
* * * * * *
13877856 GGGGCAAAAAGGTAATTTTTAGGAAGTTCAAGGTTAAAAATGGAATTTTTGGACATTCGGGGTTA
1 GGGGTAAAATGGTAATTTTT-GGAAGTTTAGGGTCAAAAATGGAATTTTTGGACATTAGGGG-TA
* ** * **
13877921 AAATGGTAATTTTGGGAAAGTTTAGG---AAATGGAATTTTTGGAAGTTTAAGGGTAAAATGGTA
64 AAATGGTAATTATGGGAAAGTTGGGGTAAAAATGGAATTTTTGGAAATTCGA-GGTAAAATGGTA
*
13877983 ATTTTAGGAAAGTATGAGGTCAAAAATAAAATTTTTGGATGTTT
128 ATTTTAGGAAAGTATGAGGTCAAAAATAAAATTTTTGGAAGTTT
* * *
13878027 GAGGGTAAAATGGTAATTTTGGGAAAG-TTCGGGTCAAAAATGGAATTTTTGGA-AGTCTAAGGG
1 G-GGGTAAAATGGTAATTTTTGG-AAGTTTAGGGTCAAAAATGGAATTTTTGGACA-T-TAGGGG
* * * * * *
13878090 TAAAATGGTAA-TATTTGG-AAGTTTGGAGTAAAAATGGAATTTTTAGACATTCGGGGTGAAATG
62 TAAAATGGTAATTA-TGGGAAAG-TTGGGGTAAAAATGGAATTTTTGGAAATTCGAGGTAAAATG
* * * *
13878153 GTAATTTTGGGAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAGTTT
125 GTAATTTTAGGAAAGTATGAGGTCAAAAATAAAATTTTTGGAAGTTT
* * *
13878200 GGGGTAAAATGGTAATTTTTGGCAAGTTTAGGGTGAAAAATGGAATTTTTGGACATTTGGGGTAG
1 GGGGTAAAATGGTAATTTTTGG-AAGTTTAGGGTCAAAAATGGAATTTTTGGACATTAGGGGTAA
*
13878265 AATGGTAATTATGGGAAAGTTCGGGGTCAAAAATAGAA-TTTTGGAAATTCGAGGTAAAATGGTA
65 AATGGTAATTATGGGAAAGTT-GGGGT-AAAAATGGAATTTTTGGAAATTCGAGGTAAAATGGTA
* * * *
13878329 ATTTTTGTG-AAGT-TCGA-GTGCAATAATGTAAA-TTTTGGAAAGTTCA
128 ATTTTAG-GAAAGTAT-GAGGT-CAAAAAT-AAAATTTTTGG-AAGTT-T
*
13878375 GGGGTCAAAAT-GTAATTCTTGGAAAGTTTAAGGGTCAAAA
1 GGGGT-AAAATGGTAATTTTTGG-AAGTTT-AGGGTCAAAA
13878415 TATGATTTTT
Statistics
Matches: 316, Mismatches: 49, Indels: 41
0.78 0.12 0.10
Matches are distributed among these distances:
170 5 0.02
171 43 0.14
172 68 0.22
173 130 0.41
174 35 0.11
175 21 0.07
176 14 0.04
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (171 bp):
GGGGTAAAATGGTAATTTTTGGAAGTTTAGGGTCAAAAATGGAATTTTTGGACATTAGGGGTAAA
ATGGTAATTATGGGAAAGTTGGGGTAAAAATGGAATTTTTGGAAATTCGAGGTAAAATGGTAATT
TTAGGAAAGTATGAGGTCAAAAATAAAATTTTTGGAAGTTT
Found at i:13878345 original size:29 final size:28
Alignment explanation
Indices: 13877861--13878398 Score: 247
Period size: 29 Copynumber: 18.7 Consensus size: 28
13877851 TGCCAGGGGC
* *
13877861 AAAAAGGTAATTTTTAGGAAGTTCAAGGTT
1 AAAATGGTAATTTTT-GGAAGTTCGAGG-T
*
13877891 AAAAATGG-AATTTTTGGACA-TTCGGGGTT
1 -AAAATGGTAATTTTTGGA-AGTTCGAGG-T
* *
13877920 AAAATGGTAATTTTGGGAAAGTT-TAGG-
1 AAAATGGTAATTTTTGG-AAGTTCGAGGT
**
13877947 -AAATGG-AATTTTTGGAAGTTTAAGGGT
1 AAAATGGTAATTTTTGGAAGTTCGA-GGT
*
13877974 AAAATGGTAATTTTAGGAAAGTAT-GAGGT
1 AAAATGGTAATTTTTGG-AAGT-TCGAGGT
** * *
13878003 CAAAAAT-AAAATTTTTGGATGTTTGAGGGT
1 --AAAATGGTAATTTTTGGAAGTTCGA-GGT
*
13878033 AAAATGGTAATTTTGGGAAAGTTCG-GGT
1 AAAATGGTAATTTTTGG-AAGTTCGAGGT
*
13878061 CAAAAATGG-AATTTTTGGAAG-TCTAAGGGT
1 --AAAATGGTAATTTTTGGAAGTTC-GA-GGT
* *
13878091 AAAATGGTAATATTTGGAAGTTTG-GAGT
1 AAAATGGTAATTTTTGGAAGTTCGAG-GT
* *
13878119 AAAAATGG-AATTTTTAGACA-TTCGGGGT
1 -AAAATGGTAATTTTTGGA-AGTTCGAGGT
* * * *
13878147 GAAATGGTAATTTTGGGAAAGTTTGGGGT
1 AAAATGGTAATTTTTGG-AAGTTCGAGGT
* * *
13878176 CAAAAATAG-AATTTTTGGAAGTTTGGGGT
1 --AAAATGGTAATTTTTGGAAGTTCGAGGT
*
13878205 AAAATGGTAATTTTTGGCAAGTT-TAGGGT
1 AAAATGGTAATTTTTGG-AAGTTCGA-GGT
* *
13878234 GAAAAATGG-AATTTTTGGACA-TTTGGGGT
1 --AAAATGGTAATTTTTGGA-AGTTCGAGGT
* * * *
13878263 AGAATGGTAATTATGGGAAAGTTCGGGGT
1 AAAATGGTAATTTTTGG-AAGTTCGAGGT
* *
13878292 CAAAAATAG-AA-TTTTGGAAATTCGAGGT
1 --AAAATGGTAATTTTTGGAAGTTCGAGGT
*
13878320 AAAATGGTAATTTTTGTGAAGTTCGAGTGC
1 AAAATGGTAATTTTTG-GAAGTTCGAG-GT
* *
13878350 AATAAT-GTAAATTTTGGAAAGTTCAGGGGT
1 AA-AATGGTAATTTTTGG-AAGTTC-GAGGT
*
13878380 CAAAAT-GTAATTCTTGGAA
1 -AAAATGGTAATTTTTGGAA
13878399 AGTTTAAGGG
Statistics
Matches: 397, Mismatches: 57, Indels: 108
0.71 0.10 0.19
Matches are distributed among these distances:
24 5 0.01
25 9 0.02
26 14 0.04
27 23 0.06
28 86 0.22
29 130 0.33
30 94 0.24
31 36 0.09
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (28 bp):
AAAATGGTAATTTTTGGAAGTTCGAGGT
Found at i:13878410 original size:30 final size:30
Alignment explanation
Indices: 13878278--13878415 Score: 103
Period size: 30 Copynumber: 4.7 Consensus size: 30
13878268 GGTAATTATG
* *
13878278 GGAAAGTTC-GGGGTCAAAA-ATAGAATTTT
1 GGAAAGTTCAAGGGTCAAAATGTA-AATTTT
* *
13878307 GGAAA-TTCGA-GGT-AAAATGGTAATTTTT
1 GGAAAGTTCAAGGGTCAAAAT-GTAAATTTT
* *
13878335 GTG-AAGTTCGAGTG-CAATAATGTAAATTTT
1 G-GAAAGTTCAAGGGTCAA-AATGTAAATTTT
*
13878365 GGAAAGTTCAGGGGTCAAAATGT-AATTCTT
1 GGAAAGTTCAAGGGTCAAAATGTAAATT-TT
*
13878395 GGAAAGTTTAAGGGTCAAAAT
1 GGAAAGTTCAAGGGTCAAAAT
13878416 ATGATTTTTA
Statistics
Matches: 88, Mismatches: 10, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
27 4 0.05
28 14 0.16
29 18 0.20
30 46 0.52
31 6 0.07
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (30 bp):
GGAAAGTTCAAGGGTCAAAATGTAAATTTT
Found at i:13879543 original size:3 final size:3
Alignment explanation
Indices: 13879535--13879614 Score: 90
Period size: 3 Copynumber: 26.7 Consensus size: 3
13879525 TTCGACTGCC
*
13879535 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * *
13879583 CTA -TA AGA ATA GTA TTA TTA TTGA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TT
13879615 GATACTATTT
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.03
3 63 0.93
4 3 0.04
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:13879799 original size:6 final size:6
Alignment explanation
Indices: 13879788--13879842 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
13879778 TTTAAATAGA
* * *
13879788 AAATTT AAATTT AAATAT AAATTT AAA-AT AAATTT -AATCTT AAA-AT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAAT-TT AAATTT
13879834 AAATTT AAA
1 AAATTT AAA
13879843 ATGGATTTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
5 11 0.28
6 26 0.67
7 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (6 bp):
AAATTT
Found at i:13879816 original size:19 final size:19
Alignment explanation
Indices: 13879777--13879814 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
13879767 GACTTTGTTT
13879777 ATTTAAATAGAAAATTTAA
1 ATTTAAATAGAAAATTTAA
*
13879796 ATTTAAATA-TAAATTTAA
1 ATTTAAATAGAAAATTTAA
13879814 A
1 A
13879815 ATAAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
ATTTAAATAGAAAATTTAA
Found at i:13879851 original size:28 final size:28
Alignment explanation
Indices: 13879788--13879844 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
13879778 TTTAAATAGA
13879788 AAATTTAAATTTAAATATAAATTTAAAAT
1 AAATTT-AATTTAAATATAAATTTAAAAT
13879817 AAATTTAATCTTAAA-ATAAATTTAAAAT
1 AAATTTAAT-TTAAATATAAATTTAAAAT
13879845 GGATTTAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (28 bp):
AAATTTAATTTAAATATAAATTTAAAAT
Found at i:13893634 original size:274 final size:274
Alignment explanation
Indices: 13893139--13893690 Score: 899
Period size: 274 Copynumber: 2.0 Consensus size: 274
13893129 TGGGATGAAT
* *
13893139 TAATTTTGAATTTCAATCATTTAGTTGTCATTTTCCTTTTTAAAACGTGATAAGTGCGATAAAAA
1 TAATTTTGAATTTCAATCATTTAGTTGTCATTTTCATTTTTAAAAAGTGATAAGTGCGATAAAAA
* * * *
13893204 GTTTTTAACAACAAAAGGATTTTATGATTGTACGCTTCGCATAATTATTTCCATTTTGTGGCACA
66 GTTTATAACAACAAAAAGATTTTATGATTGTACGCTTCGCATAATTATTTCAATATTGTGGCACA
* * *
13893269 TACATATCACTAGTAGAGAAATCTAGTATAGCTTATTCAATTTGGAGATAGATGTCCATTTTTAA
131 TACATATCACCAGTAGAGAAATCTAGTATAGCTCATTCAATTTGGAGATAGACGTCCATTTTTAA
* * *
13893334 CCGTCGCCATGACTAGAACTTATATAACTACAAAAAGTTACAAAAATAGGACGACACACATAACA
196 CCGTCACCAAGACTAGAACATATATAACTACAAAAAGTTACAAAAATAGGACGACACACATAACA
13893399 AATATGTGTGCTTG
261 AATATGTGTGCTTG
13893413 TAATTTTGAATTTCAATCATTTAGTTGTCATTTTCATTTTTAAAAAGTGATAAGTGCGATAAAAA
1 TAATTTTGAATTTCAATCATTTAGTTGTCATTTTCATTTTTAAAAAGTGATAAGTGCGATAAAAA
*
13893478 GTTTATAACAACAAAAAGATTTTATGATT-TGACGCTTCGCATAATTATTTCAATATTGTTGCAC
66 GTTTATAACAACAAAAAGATTTTATGATTGT-ACGCTTCGCATAATTATTTCAATATTGTGGCAC
* ** *
13893542 ATACATATCACCAGTAGAGATATCTAGTATAGCTCATTTGATTTGGAGATAGACGTGCATTTTTA
130 ATACATATCACCAGTAGAGAAATCTAGTATAGCTCATTCAATTTGGAGATAGACGTCCATTTTTA
* * *
13893607 ACCGTCACCAAGACTAGAACATATATAACTACAAAAAGTTAGAAAAATTGGATGACACACATAAC
195 ACCGTCACCAAGACTAGAACATATATAACTACAAAAAGTTACAAAAATAGGACGACACACATAAC
*
13893672 AAATATGTGTGTTTG
260 AAATATGTGTGCTTG
13893687 TAAT
1 TAAT
13893691 GCAAGTGCTC
Statistics
Matches: 256, Mismatches: 21, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
273 1 0.00
274 255 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (274 bp):
TAATTTTGAATTTCAATCATTTAGTTGTCATTTTCATTTTTAAAAAGTGATAAGTGCGATAAAAA
GTTTATAACAACAAAAAGATTTTATGATTGTACGCTTCGCATAATTATTTCAATATTGTGGCACA
TACATATCACCAGTAGAGAAATCTAGTATAGCTCATTCAATTTGGAGATAGACGTCCATTTTTAA
CCGTCACCAAGACTAGAACATATATAACTACAAAAAGTTACAAAAATAGGACGACACACATAACA
AATATGTGTGCTTG
Found at i:13899614 original size:6 final size:6
Alignment explanation
Indices: 13899594--13899649 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
13899584 ACCGACCCCT
* * *
13899594 TTTAAA TTT-AT TTTAAA TTTAGA TTT--A TTTAAAA TTTGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA
13899640 TTTAAA TTTA
1 TTTAAA TTTA
13899650 TTTTCATATT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
4 4 0.10
5 4 0.10
6 29 0.71
7 4 0.10
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:13899619 original size:17 final size:17
Alignment explanation
Indices: 13899594--13899649 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
13899584 ACCGACCCCT
*
13899594 TTTAAATTTATTTTAAA
1 TTTAGATTTATTTTAAA
*
13899611 TTTAGATTTATTTAAAA
1 TTTAGATTTATTTTAAA
*
13899628 TTT-GAATTTAAATTTAAA
1 TTTAG-ATTT-ATTTTAAA
13899646 TTTA
1 TTTA
13899650 TTTTCATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 1 0.03
17 22 0.69
18 9 0.28
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (17 bp):
TTTAGATTTATTTTAAA
Found at i:13899639 original size:29 final size:28
Alignment explanation
Indices: 13899597--13899652 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
13899587 GACCCCTTTT
* *
13899597 AAATTTATTTTAAATTTAGATTTATTTA
1 AAATTTAATTTAAATTTAAATTTATTTA
13899625 AAATTTGAATTTAAATTTAAATTTATTT
1 AAATTT-AATTTAAATTTAAATTTATTT
13899653 TCATATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (28 bp):
AAATTTAATTTAAATTTAAATTTATTTA
Found at i:13901583 original size:29 final size:29
Alignment explanation
Indices: 13901501--13901569 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
13901491 CAGAAATTAT
* * *
13901501 ATTTTGGCCTCGAAACTTCTAAAAAATAC
1 ATTTTTGCCCCGAAAATTCTAAAAAATAC
* *
13901530 ATTTTTGCCCCTAAAATTCCAAAAAATAC
1 ATTTTTGCCCCGAAAATTCTAAAAAATAC
13901559 ATTTTTGCCCC
1 ATTTTTGCCCC
13901570 CGGACATCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (29 bp):
ATTTTTGCCCCGAAAATTCTAAAAAATAC
Found at i:13901612 original size:29 final size:29
Alignment explanation
Indices: 13901579--13901673 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 29
13901569 CCGGACATCT
13901579 AAAAATCCCATTTTTAACCCTAAAACTTCC
1 AAAAATCCCATTTTTAACCCT-AAACTTCC
** * *
13901609 AAAAATTACATTTCTACCCCTAAACTTCC
1 AAAAATCCCATTTTTAACCCTAAACTTCC
* *
13901638 AAAAA-CTCCA-TTTTAGACCTCGAAACTTTC
1 AAAAATC-CCATTTTTA-ACC-CTAAACTTCC
13901668 AAAAAT
1 AAAAAT
13901674 TACTGTTTTA
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
28 4 0.08
29 17 0.33
30 30 0.59
ACGTcount: A:0.41, C:0.27, G:0.02, T:0.29
Consensus pattern (29 bp):
AAAAATCCCATTTTTAACCCTAAACTTCC
Found at i:13901621 original size:30 final size:30
Alignment explanation
Indices: 13901513--13901676 Score: 95
Period size: 29 Copynumber: 5.6 Consensus size: 30
13901503 TTTGGCCTCG
* * **
13901513 AAACTTCTAAAAAATACATTTTTGCCCCTA
1 AAACTTCCAAAAATTACATTTTTAACCCTA
* * **
13901543 AAA-TTCCAAAAAATACATTTTT-GCCCCC
1 AAACTTCCAAAAATTACATTTTTAACCCTA
** * * **
13901571 GGACATCTAAAAATCCCATTTTTAACCCTA
1 AAACTTCCAAAAATTACATTTTTAACCCTA
* *
13901601 AAACTTCCAAAAATTACATTTCTACCCCT-
1 AAACTTCCAAAAATTACATTTTTAACCCTA
* * *
13901630 AAACTTCCAAAAACTCCA-TTTTAGA-CCTCG
1 AAACTTCCAAAAATTACATTTTTA-ACCCT-A
*
13901660 AAACTTTCAAAAATTAC
1 AAACTTCCAAAAATTAC
13901677 TGTTTTACTC
Statistics
Matches: 100, Mismatches: 29, Indels: 10
0.72 0.21 0.07
Matches are distributed among these distances:
28 11 0.11
29 48 0.48
30 41 0.41
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.30
Consensus pattern (30 bp):
AAACTTCCAAAAATTACATTTTTAACCCTA
Found at i:13901642 original size:59 final size:59
Alignment explanation
Indices: 13901529--13901676 Score: 133
Period size: 59 Copynumber: 2.5 Consensus size: 59
13901519 CTAAAAAATA
** * * * ** *
13901529 CATTTTTGCCCCTAAAA-TTCCAAAAAATACATTTTTGCCCCCGGACATCTAAAAA-TCC
1 CATTTTTAACCCTAAAACTTCCAAAAATTACATTTCTACCCCCAAACATCCAAAAACT-C
* *
13901587 CATTTTTAACCCTAAAACTTCCAAAAATTACATTTCTACCCCTAAACTTCCAAAAACTC
1 CATTTTTAACCCTAAAACTTCCAAAAATTACATTTCTACCCCCAAACATCCAAAAACTC
* *
13901646 CA-TTTTAGA-CCTCGAAACTTTCAAAAATTAC
1 CATTTTTA-ACCCT-AAAACTTCCAAAAATTAC
13901677 TGTTTTACTC
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
58 23 0.31
59 50 0.68
60 1 0.01
ACGTcount: A:0.37, C:0.28, G:0.04, T:0.30
Consensus pattern (59 bp):
CATTTTTAACCCTAAAACTTCCAAAAATTACATTTCTACCCCCAAACATCCAAAAACTC
Found at i:13902174 original size:96 final size:94
Alignment explanation
Indices: 13902044--13902232 Score: 247
Period size: 94 Copynumber: 2.0 Consensus size: 94
13902034 AAACTTTAAT
* * * * **
13902044 ATCGAGGCAATATTCTTTTATTTCGAGTTTCAAAAATTTGTGCCTTAACTTACTAGGTGCAATTT
1 ATCGAGGCAATATTCTCTTATTTCGAG-TTCCAAAATTTGCGCCTTAAC-TAATAGGTGCAACCT
*
13902109 TTCTTCAAATCGAAATAATCGAATATCCTTA
64 TTCTTCAAATCGAAATAATCGAACATCCTTA
*
13902140 ATCGAGGCAATGTT-TCCTTATCTTCGA-TTCCAAAATTTGCGCCTTAACTAATAGGTGCAACCT
1 ATCGAGGCAATATTCT-CTTAT-TTCGAGTTCCAAAATTTGCGCCTTAACTAATAGGTGCAACCT
*
13902203 TTCTTCAAATCGAGATAATCGAACATCCTT
64 TTCTTCAAATCGAAATAATCGAACATCCTT
13902233 TTCCAAAATT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
94 40 0.49
95 20 0.24
96 17 0.21
97 5 0.06
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (94 bp):
ATCGAGGCAATATTCTCTTATTTCGAGTTCCAAAATTTGCGCCTTAACTAATAGGTGCAACCTTT
CTTCAAATCGAAATAATCGAACATCCTTA
Found at i:13910370 original size:29 final size:30
Alignment explanation
Indices: 13910316--13910567 Score: 136
Period size: 30 Copynumber: 8.5 Consensus size: 30
13910306 ATGACCAAGG
* *
13910316 AAAAATGGTAATTTTTAGGAAGTTCGAGGCC
1 AAAAATGGTAATTTTT-GGAAATTCGAGGTC
*
13910347 AAAAATGG-AATTTTTGGACATTCGAGGGT-
1 AAAAATGGTAATTTTTGGAAATTCGA-GGTC
* * *
13910376 -AAAATGGTAATTTTAGGAAAATTTG-GGATA
1 AAAAATGGTAATTTTTGG-AAATTCGAGG-TC
** * *
13910406 AAAAATGG-AATTTTTGGATGTTTGGGGGT-
1 AAAAATGGTAATTTTTGGA-AATTCGAGGTC
*
13910435 -AAAATGGTAATTTTGGGAAAGTTC-AGGGTC
1 AAAAATGGTAATTTTTGGAAA-TTCGA-GGTC
*
13910465 AAAAATGG-AATTTTTGGACATTCGAGGGT-
1 AAAAATGGTAATTTTTGGAAATTCGA-GGTC
* * * *
13910494 -AAAATGGTAATTTTGGGAAAGTTTGGGGTT
1 AAAAATGGTAATTTTTGGAAA-TTCGAGGTC
** * *
13910524 AAAAA-CATAATTTTTGGAAATTTAGGGGT-
1 AAAAATGGTAATTTTTGGAAA-TTCGAGGTC
13910553 -AAAATGGTAATTTTT
1 AAAAATGGTAATTTTT
13910568 TTGAAGTTCG
Statistics
Matches: 174, Mismatches: 28, Indels: 40
0.72 0.12 0.17
Matches are distributed among these distances:
28 27 0.16
29 56 0.32
30 63 0.36
31 28 0.16
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (30 bp):
AAAAATGGTAATTTTTGGAAATTCGAGGTC
Found at i:13910410 original size:59 final size:58
Alignment explanation
Indices: 13910347--13910566 Score: 275
Period size: 59 Copynumber: 3.7 Consensus size: 58
13910337 GTTCGAGGCC
* *
13910347 AAAAATGGAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTAGGAAAATTTGGGATA
1 AAAAATGGAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTGGGAAAGTTTGGG-TA
** * * * *
13910406 AAAAATGGAATTTTTGGATGTTTGGGGGTAAAATGGTAATTTTGGGAAAGTTCAGGGTC
1 AAAAATGGAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTGGGAAAGTT-TGGGTA
13910465 AAAAATGGAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTGGGAAAGTTTGGGGTTA
1 AAAAATGGAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTGGGAAAGTTT-GGG-TA
* *
13910525 AAAACAT--AATTTTTGGAAATT-TAGGGGTAAAATGGTAATTTT
1 AAAA-ATGGAATTTTTGGACATTCGA-GGGTAAAATGGTAATTTT
13910567 TTTGAAGTTC
Statistics
Matches: 140, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
58 1 0.01
59 129 0.92
60 8 0.06
61 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.34
Consensus pattern (58 bp):
AAAAATGGAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTGGGAAAGTTTGGGTA
Found at i:13910438 original size:30 final size:29
Alignment explanation
Indices: 13910347--13910567 Score: 155
Period size: 29 Copynumber: 7.5 Consensus size: 29
13910337 GTTCGAGGCC
* * *
13910347 AAAAATGGAATTTTTGGACATTCGAGGGT
1 AAAAATGGAATTTTTGGAAATTTGGGGGT
* *
13910376 -AAAATGGTAATTTTAGGAAAATTT-GGGAT
1 AAAAATGG-AATTTTTGG-AAATTTGGGGGT
**
13910405 AAAAAATGGAATTTTTGGATGTTTGGGGGT
1 -AAAAATGGAATTTTTGGAAATTTGGGGGT
* * **
13910435 -AAAATGGTAATTTTGGGAAAGTTCAGGGT
1 AAAAATGG-AATTTTTGGAAATTTGGGGGT
* * *
13910464 CAAAAATGGAATTTTTGGACATTCGAGGGT
1 -AAAAATGGAATTTTTGGAAATTTGGGGGT
* *
13910494 -AAAATGGTAATTTTGGGAAAGTTTGGGGTT
1 AAAAATGG-AATTTTTGGAAA-TTTGGGGGT
*** *
13910524 AAAAACATAATTTTTGGAAATTTAGGGGT
1 AAAAATGGAATTTTTGGAAATTTGGGGGT
13910553 -AAAATGGTAATTTTT
1 AAAAATGG-AATTTTT
13910568 TTGAAGTTCG
Statistics
Matches: 146, Mismatches: 34, Indels: 24
0.72 0.17 0.12
Matches are distributed among these distances:
28 25 0.17
29 54 0.37
30 49 0.34
31 18 0.12
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.34
Consensus pattern (29 bp):
AAAAATGGAATTTTTGGAAATTTGGGGGT
Found at i:13910575 original size:118 final size:117
Alignment explanation
Indices: 13910317--13910577 Score: 366
Period size: 118 Copynumber: 2.2 Consensus size: 117
13910307 TGACCAAGGA
13910317 AAAATGGTAATTTTTAGGAAGTTCGAGGCCAAAAATGGAATTTTTGGACATTCGAGGGTAAAATG
1 AAAATGGTAATTTTTAGGAAGTTCGAGGCCAAAAATGGAATTTTTGGACATTCGAGGGTAAAATG
** *
13910382 GTAATTTTAGGAAAATTTGGGATAAAAAATGGAATTTTTGGATGTTTGGGGGT
66 GTAATTTTAGGAAAATTTGGGATAAAAAAT-GAATTTTTGGAAATTTAGGGGT
* *
13910435 AAAATGGTAA-TTTTGGGAAAGTTC-AGGGTCAAAAATGGAATTTTTGGACATTCGAGGGTAAAA
1 AAAATGGTAATTTTTAGG-AAGTTCGA-GGCCAAAAATGGAATTTTTGGACATTCGAGGGTAAAA
* * *
13910498 TGGTAATTTTGGGAAAGTTTGGGGTTAAAAACAT-AATTTTTGGAAATTTAGGGGT
64 TGGTAATTTTAGGAAAATTT-GGGATAAAAA-ATGAATTTTTGGAAATTTAGGGGT
**
13910553 AAAATGGTAATTTTTTTGAAGTTCG
1 AAAATGGTAATTTTTAGGAAGTTCG
13910578 TGATAATGTA
Statistics
Matches: 127, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
117 7 0.06
118 104 0.82
119 14 0.11
120 2 0.02
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.34
Consensus pattern (117 bp):
AAAATGGTAATTTTTAGGAAGTTCGAGGCCAAAAATGGAATTTTTGGACATTCGAGGGTAAAATG
GTAATTTTAGGAAAATTTGGGATAAAAAATGAATTTTTGGAAATTTAGGGGT
Found at i:13912570 original size:17 final size:16
Alignment explanation
Indices: 13912548--13912581 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
13912538 GACTTTTGTT
13912548 TTTTTAAATTTAGAATA
1 TTTTTAAATTTA-AATA
13912565 TTTTTAAATTTAAATA
1 TTTTTAAATTTAAATA
13912581 T
1 T
13912582 AAATTTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TTTTTAAATTTAAATA
Found at i:13912576 original size:6 final size:6
Alignment explanation
Indices: 13912567--13912654 Score: 58
Period size: 6 Copynumber: 15.0 Consensus size: 6
13912557 TTAGAATATT
* * *
13912567 TTTAAA TTTAAA TATAAA TTTAAA CTTAAA -TTAAA CTTAAA TTTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA
** ** *
13912615 -ACAAA TTTAAA AATAAA TTT-AA TCTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA
13912655 ATGGGTTTAG
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
5 15 0.24
6 40 0.65
7 7 0.11
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (6 bp):
TTTAAA
Found at i:13912588 original size:18 final size:18
Alignment explanation
Indices: 13912550--13912625 Score: 70
Period size: 18 Copynumber: 4.3 Consensus size: 18
13912540 CTTTTGTTTT
*
13912550 TTTAAATTTAGAATAT--T
1 TTTAAATTTA-AATATAAA
13912567 TTTAAATTTAAATATAAA
1 TTTAAATTTAAATATAAA
*
13912585 TTTAAACTTAAAT-TAAA
1 TTTAAATTTAAATATAAA
* *
13912602 CTTAAATTTTAAA-ACAAA
1 TTTAAA-TTTAAATATAAA
13912620 TTTAAA
1 TTTAAA
13912626 AATAAATTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
16 5 0.10
17 19 0.39
18 25 0.51
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (18 bp):
TTTAAATTTAAATATAAA
Found at i:13912624 original size:29 final size:28
Alignment explanation
Indices: 13912592--13912656 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
13912582 AAATTTAAAC
* *
13912592 TTAAATTAAACTTAAATTTTAAAACAAAT
1 TTAAAATAAA-TTAAATCTTAAAACAAAT
* *
13912621 TTAAAAATAAATTTAATCTTAAAATAAAT
1 TT-AAAATAAATTAAATCTTAAAACAAAT
13912650 TTAAAAT
1 TTAAAAT
13912657 GGGTTTAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 5 0.16
29 19 0.61
30 7 0.23
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (28 bp):
TTAAAATAAATTAAATCTTAAAACAAAT
Found at i:13912643 original size:12 final size:12
Alignment explanation
Indices: 13912568--13912643 Score: 70
Period size: 12 Copynumber: 6.4 Consensus size: 12
13912558 TAGAATATTT
13912568 TTAAATTTAAA-
1 TTAAATTTAAAC
13912579 TATAAATTTAAAC
1 T-TAAATTTAAAC
13912592 TTAAA-TTAAAC
1 TTAAATTTAAAC
13912603 TTAAATTTTAAAAC
1 TTAAA-TTT-AAAC
*
13912617 --AAATTTAAAA
1 TTAAATTTAAAC
* *
13912627 ATAAATTTAATC
1 TTAAATTTAAAC
13912639 TTAAA
1 TTAAA
13912644 ATAAATTTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
10 3 0.06
11 15 0.28
12 29 0.54
13 3 0.06
14 4 0.07
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (12 bp):
TTAAATTTAAAC
Found at i:13913681 original size:209 final size:209
Alignment explanation
Indices: 13913019--13913681 Score: 796
Period size: 209 Copynumber: 3.2 Consensus size: 209
13913009 TTTCAATCCG
* * * * * *
13913019 CTTCTCAGTATCTTATCAGGAAGATAATCATTTTATTGCTTCGGCCTGCTTCTCAATATCTCATC
1 CTTCTCAGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAATATCTCATT
* * * * * *
13913084 AGGCAGCTGGGGTTCGAAGATTCGCTTACTTTGAGCATGGCTTCATTGATTTGGCCTTCTTCTCA
66 AGGAAGCTGGGGTTCGAAGATTCTCTCACTTTGAACCTTGCTTCATTGATTTGGCCTTCTTCTCA
* ** ** * *
13913149 GTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCTGCTTCTCAGTATCTCATCAGGAAG
131 GTATCTCATCAGGAAGATGACCGCATCGCTTGTTTTGATCCACTTCTCTGTGTCTCATCAGGAAG
** * *
13913214 -GTGAATTTGGTCCA
196 ACAG-ATCTGGTTCA
* * * *
13913228 CTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACGTGCTTCTTAATATCTCATT
1 CTTCTCAGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAATATCTCATT
* * *
13913293 AAGAAGCTGGGGTTCGAAGATT-TGCTCA-TTTTAAGCTTGGCTTCATTGATTTGGCCTTCTTCT
66 AGGAAGCTGGGGTTCGAAGATTCT-CTCACTTTGAACCTT-GCTTCATTGATTTGGCCTTCTTCT
* * * *
13913356 CTGTATCTTATCAGGAAGATGACCGCTTCGCTTAG-TTTGATCCACTTCTCTGTGTCTTATCAGG
129 CAGTATCTCATCAGGAAGATGACCGCATCGCTT-GTTTTGATCCACTTCTCTGTGTCTCATCAGG
* *
13913420 AAGACGGATCTAGTTCA
193 AAGACAGATCTGGTTCA
* * ** *
13913437 CTTCTCTGTATTTCATCAGGAAGGTAACTGCTTTATTGCTTCGACCTGCTTCTCAATATCTTATT
1 CTTCTCAGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAATATCTCATT
** * *
13913502 AGGAAGCTGGGGTTCGAAGATTCTCTCACTTTGAACCTTATTTTATTGATTTGGTCTTCTTCTCA
66 AGGAAGCTGGGGTTCGAAGATTCTCTCACTTTGAACCTTGCTTCATTGATTTGGCCTTCTTCTCA
* * *
13913567 GTATCTCATCAAGAAGAAGACCGCATCGCTTGTTTTGATCCACTTCTTTGTGTCTCATCAGGAAG
131 GTATCTCATCAGGAAGATGACCGCATCGCTTGTTTTGATCCACTTCTCTGTGTCTCATCAGGAAG
*
13913632 ACAGATCTGGTTTA
196 ACAGATCTGGTTCA
*
13913646 CTTCTCTA-TATCTCATCAGGAAGGTAACCGCTTTAT
1 CTTCTC-AGTATCTCATCAGGAAGGTAACCACTTTAT
13913682 GTTTTGAATA
Statistics
Matches: 385, Mismatches: 61, Indels: 16
0.83 0.13 0.03
Matches are distributed among these distances:
208 6 0.02
209 368 0.96
210 11 0.03
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (209 bp):
CTTCTCAGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAATATCTCATT
AGGAAGCTGGGGTTCGAAGATTCTCTCACTTTGAACCTTGCTTCATTGATTTGGCCTTCTTCTCA
GTATCTCATCAGGAAGATGACCGCATCGCTTGTTTTGATCCACTTCTCTGTGTCTCATCAGGAAG
ACAGATCTGGTTCA
Found at i:13915458 original size:25 final size:23
Alignment explanation
Indices: 13915430--13915475 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
13915420 GTTGGATTCA
13915430 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
13915455 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
13915476 CCTTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:13917424 original size:17 final size:17
Alignment explanation
Indices: 13917404--13917436 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13917394 CATAATTAAA
*
13917404 AAAATTAAAAAAAAAAT
1 AAAACTAAAAAAAAAAT
13917421 AAAACTAAAAAAAAAA
1 AAAACTAAAAAAAAAA
13917437 ATTGAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAACTAAAAAAAAAAT
Found at i:13917424 original size:18 final size:18
Alignment explanation
Indices: 13917403--13917438 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13917393 GCATAATTAA
*
13917403 AAAAATTAAAAAAAAAAT
1 AAAAATAAAAAAAAAAAT
*
13917421 AAAACTAAAAAAAAAAAT
1 AAAAATAAAAAAAAAAAT
13917439 TGAAATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAAATAAAAAAAAAAAT
Found at i:13920304 original size:14 final size:13
Alignment explanation
Indices: 13920284--13920339 Score: 60
Period size: 14 Copynumber: 4.2 Consensus size: 13
13920274 ATAAAAGGGA
13920284 AAAAAATTAAAAT
1 AAAAAATTAAAAT
13920297 AGAAAAATTAAAAT
1 A-AAAAATTAAAAT
**
13920311 -AAAAATGCAAAT
1 AAAAAATTAAAAT
*
13920323 AATAAAATAAAAAT
1 AA-AAAATTAAAAT
13920337 AAA
1 AAA
13920340 TAATAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
12 10 0.28
13 3 0.08
14 23 0.64
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (13 bp):
AAAAAATTAAAAT
Found at i:13920314 original size:26 final size:26
Alignment explanation
Indices: 13920285--13920348 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
13920275 TAAAAGGGAA
* *
13920285 AAAAATTAAAATAGA-AAAATTAAAAT
1 AAAAATAAAAATA-ATAAAATAAAAAT
**
13920311 AAAAATGCAAATAATAAAATAAAAAT
1 AAAAATAAAAATAATAAAATAAAAAT
13920337 AAATAATAAAAA
1 AAA-AATAAAAA
13920349 AATGACTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 1 0.03
26 24 0.77
27 6 0.19
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (26 bp):
AAAAATAAAAATAATAAAATAAAAAT
Found at i:13920349 original size:20 final size:19
Alignment explanation
Indices: 13920285--13920348 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
13920275 TAAAAGGGAA
* *
13920285 AAAAATTAAAATAGAAAAAT
1 AAAAATAAAAATA-AATAAT
*
13920305 TAAAATAAAAATGCAAATAAT
1 AAAAATAAAAAT--AAATAAT
13920326 -AAAATAAAAATAAATAAT
1 AAAAATAAAAATAAATAAT
13920344 AAAAA
1 AAAAA
13920349 AATGACTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 7 0.18
19 4 0.11
20 21 0.55
21 5 0.13
22 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (19 bp):
AAAAATAAAAATAAATAAT
Found at i:13924670 original size:17 final size:17
Alignment explanation
Indices: 13924647--13924696 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
13924637 GGCCCTTTTA
13924647 AATTTATTTTAAATTTG
1 AATTTATTTTAAATTTG
*
13924664 GATTTATTTTAAATTTG
1 AATTTATTTTAAATTTG
*
13924681 AATTTAAATTTAAATT
1 AATTT-ATTTTAAATT
13924697 ATTTTCAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 20 0.69
18 9 0.31
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
AATTTATTTTAAATTTG
Found at i:13926934 original size:21 final size:20
Alignment explanation
Indices: 13926908--13926948 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
13926898 AAAGAAGAAG
13926908 AAAAAGCAAAAGAAAAAAAAA
1 AAAAAGCAAAA-AAAAAAAAA
13926929 AAAAAGCGAAAAAAAGAAAA
1 AAAAAGC-AAAAAAA-AAAA
13926949 GGAGAGGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (20 bp):
AAAAAGCAAAAAAAAAAAAA
Found at i:13928349 original size:49 final size:49
Alignment explanation
Indices: 13928155--13928369 Score: 171
Period size: 50 Copynumber: 4.3 Consensus size: 49
13928145 CAGATTTGAC
* * * * *
13928155 AGGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGATACAAA
1 AGGGAAAGATCTAAG-CCGCAACGACGGACCCAGTACCACAAAGACAC-GA
* * ** ** * *
13928206 AGGG-AAGAGTTTAAGTCGCAACGACAAACCTTGTACCTCAGAGACACGA
1 AGGGAAAGA-TCTAAGCCGCAACGACGGACCCAGTACCACAAAGACACGA
* * * * * *
13928255 CGGGAAAGATCTAAAGCCGTAACGGCGGATCCAGTACCACGAAGACATGA
1 AGGGAAAGATCT-AAGCCGCAACGACGGACCCAGTACCACAAAGACACGA
* * * *
13928305 AGGGAAAGATCTAAGCCGCGATGACGGACCCAGTACTACAAAGACAGGA
1 AGGGAAAGATCTAAGCCGCAACGACGGACCCAGTACCACAAAGACACGA
*
13928354 AGAGAAAGATCTAAGC
1 AGGGAAAGATCTAAGC
13928370 TACGACAGTA
Statistics
Matches: 125, Mismatches: 36, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
49 50 0.40
50 66 0.53
51 9 0.07
ACGTcount: A:0.39, C:0.22, G:0.27, T:0.12
Consensus pattern (49 bp):
AGGGAAAGATCTAAGCCGCAACGACGGACCCAGTACCACAAAGACACGA
Found at i:13928410 original size:49 final size:48
Alignment explanation
Indices: 13928282--13928410 Score: 134
Period size: 49 Copynumber: 2.6 Consensus size: 48
13928272 CGTAACGGCG
* *
13928282 GATCCAGTACCACGAAGACATGAAGGGAAAGATCTAAGCCGCGATGAC
1 GATCCAGTACCACGAAGACATGAAGGGAAAGATCTAAGCCACGAAGAC
* * * * * *
13928330 GGACCCAGTACTACAAAGACAGGAAGAGAAAGATCTAAGCTACGACAGTA-
1 -GATCCAGTACCACGAAGACATGAAGGGAAAGATCTAAGCCACGA-AG-AC
**
13928380 GATCCAGTACCACGAAGATTTGAAGGGAAAG
1 GATCCAGTACCACGAAGACATGAAGGGAAAG
13928411 GTTTAAGTCG
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
49 61 0.97
50 1 0.02
51 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.13
Consensus pattern (48 bp):
GATCCAGTACCACGAAGACATGAAGGGAAAGATCTAAGCCACGAAGAC
Found at i:13929306 original size:205 final size:206
Alignment explanation
Indices: 13928801--13929608 Score: 1024
Period size: 205 Copynumber: 4.0 Consensus size: 206
13928791 TACCAACTCA
* * * * * * * *
13928801 ATGTGAACAGATCTTTGAACCCC-AGCTTCCTGATGACATACTAAGAGGCAGGGCGAAGTAATAA
1 ATGTGAGCAAATCTTCGAACCCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
* * *
13928865 AATGGTTAGCTTCCTGATGGGATACTGAGAAGTGGACCAAATTCATCTTCCTAATGAGATACAGA
66 AATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGA
* * * * * * *
13928930 GAAGCGAATTGAAACAAGTGAGGCGGTCACCTTCTTGATGAGATACAGAGAAGTATACCAACTC-
131 GAAGCGAATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCA
* *
13928994 -A--AGGCTCA
196 AACCACGCTCG
* * *
13929002 AAGTGAGCAAATCTTCGAA-CCCTAACTTCCTGATGAGATACTGAGAAGTAGGTCGAAGCAATAA
1 ATGTGAGCAAATCTTCGAACCCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
* *
13929066 AATGGTTAGCTTCCTGATGAGATA-TAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGTATAG
66 AATGGTTAGCTTCCTGATGAGATACT-GAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAG
* *
13929130 AGAAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATC
130 AGAAGCGAATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATC
13929195 AAACCCACGCTCG
195 AAA-CCACGCTCG
*
13929208 ATGTGAGCAAATCTTCGAA-CCC-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGAAATAA
1 ATGTGAGCAAATCTTCGAACCCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
* *
13929271 AATGGTTAGCTTCTTGATGAGATACTGAAAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGA
66 AATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGA
* * * *
13929336 GAAGCAAATTGAAACAAACGATGAGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCA
131 GAAGCGAATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCA
13929401 AACCAACGCTCG
196 AACC-ACGCTCG
* ** * * *
13929413 ATGTGAGCAAATCTTTGAACCCCTAGCTTTTTTATGAGATACTGAAAAGCAGGTCTAAGCAATAA
1 ATGTGAGCAAATCTTCGAACCCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
* * * * * *
13929478 AGTGGTTAGCTTCCTGATAAGATACGGAGAAGTGAACCAAA-TCTGTCTTCCTGATGAAACACAG
66 AATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTC-GTCTTCCTGATGAGATACAG
* * ** * * * *
13929542 AGAAGTGGATCAAAACAAGTGATGTGGTCATCTTCCTGATGAGATACAGAGAAGAAGGCCAAGTC
130 AGAAGCGAATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATC
13929607 AA
195 AA
13929609 TGAAACCAGA
Statistics
Matches: 530, Mismatches: 65, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
200 4 0.01
201 162 0.31
203 1 0.00
204 2 0.00
205 185 0.35
206 32 0.06
207 144 0.27
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (206 bp):
ATGTGAGCAAATCTTCGAACCCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
AATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGA
GAAGCGAATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCA
AACCACGCTCG
Found at i:13929596 original size:412 final size:407
Alignment explanation
Indices: 13928801--13929608 Score: 1071
Period size: 412 Copynumber: 2.0 Consensus size: 407
13928791 TACCAACTCA
* * * *
13928801 ATGTGAACAGATCTTTGAACCCCAGCTTCCTGATGACATACTAAGAGGCAGGGCGAAGTAATAAA
1 ATGTGAACAAATCTTCGAACCCCAGCTTCCTGATGACATACTAAGAAGCAGGGCGAAGAAATAAA
* *
13928866 ATGGTTAGCTTCCTGATGGGATACTGAGAAGTGGACCAAATTCATCTTCCTAATGAGATACAGAG
66 ATGGTTAGCTTCCTGATGAGATACTGAAAAGTGGACCAAATTCATCTTCCTAATGAGATACAGAG
* ** * * * * *
13928931 AAGCGAATTGAAACAAGTGAGGCGGTCACCTTCTTGATGAGATACAGAGAAGTATACCAACTCAA
131 AAGCAAATTGAAACAAACGAGGAGGTCACCTTCCTGATGAGATACAGAGAAGAAGACCAACCCAA
* * *
13928996 GGCTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACTGAGAAGTAGGTCGAAGC
196 CGCTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACTGAAAAGCAGGTCGAAGC
* * * ***
13929061 AATAAAATGGTTAGCTTCCTGATGAGATATAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGT
261 AATAAAATGGTTAGCTTCCTGATAAGATACAGAGAAGTGAACCAAATTCGTCTTCCTGATGAAAC
* ** *
13929126 ATAGAGAAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCA
326 ACAGAGAAGCGGATCAAAACAAGCGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCA
13929191 AATCAAACCCACGCTCG
391 AATCAAACCCACGCTCG
* * * *
13929208 ATGTGAGCAAATCTTCGAA-CCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGAAATAAA
1 ATGTGAACAAATCTTCGAACCCCAGCTTCCTGATGACATACTAAGAAGCAGGGCGAAGAAATAAA
* * *
13929272 ATGGTTAGCTTCTTGATGAGATACTGAAAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAG
66 ATGGTTAGCTTCCTGATGAGATACTGAAAAGTGGACCAAATTCATCTTCCTAATGAGATACAGAG
* * *
13929337 AAGCAAATTGAAACAAACGATGAGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
131 AAGCAAATTGAAACAAACGAGGAGGTCACCTTCCTGATGAGATACAGAGAAGAAGACC-AA-C--
* * * * ** *
13929402 ACCAACGCTCGATGTGAGCAAATCTTTGAACCCCTAGCTTTTTTATGAGATACTGAAAAGCAGGT
192 -CCAACGCTCAAAGTGAGCAAATCTTCGAA-CCCTAACTTCCTGATGAGATACTGAAAAGCAGGT
* * *
13929467 CTAAGCAATAAAGTGGTTAGCTTCCTGATAAGATACGGAGAAGTGAACCAAA-TCTGTCTTCCTG
255 CGAAGCAATAAAATGGTTAGCTTCCTGATAAGATACAGAGAAGTGAACCAAATTC-GTCTTCCTG
* * *
13929531 ATGAAACACAGAGAAGTGGATCAAAACAAGTGATGTGGTCATCTTCCTGATGAGATACAGAGAAG
319 ATGAAACACAGAGAAGCGGATCAAAACAAGCGATGCGGTCATCTTCCTGATGAGATACAGAGAAG
* *
13929596 AAGGCCAAGTCAA
384 AAGACCAAATCAA
13929609 TGAAACCAGA
Statistics
Matches: 342, Mismatches: 52, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
406 148 0.43
407 18 0.05
408 1 0.00
411 26 0.08
412 149 0.44
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (407 bp):
ATGTGAACAAATCTTCGAACCCCAGCTTCCTGATGACATACTAAGAAGCAGGGCGAAGAAATAAA
ATGGTTAGCTTCCTGATGAGATACTGAAAAGTGGACCAAATTCATCTTCCTAATGAGATACAGAG
AAGCAAATTGAAACAAACGAGGAGGTCACCTTCCTGATGAGATACAGAGAAGAAGACCAACCCAA
CGCTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACTGAAAAGCAGGTCGAAGC
AATAAAATGGTTAGCTTCCTGATAAGATACAGAGAAGTGAACCAAATTCGTCTTCCTGATGAAAC
ACAGAGAAGCGGATCAAAACAAGCGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCA
AATCAAACCCACGCTCG
Found at i:13929931 original size:17 final size:17
Alignment explanation
Indices: 13929906--13929949 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
13929896 ACCGAGCCCT
*
13929906 TTTAAATTTATTTTTAA
1 TTTAAATTTATTTTAAA
*
13929923 TTTAGATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
13929940 TTTGAATTTA
1 TTTAAATTTA
13929950 AATTAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:13929947 original size:23 final size:24
Alignment explanation
Indices: 13929921--13929966 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
13929911 ATTTATTTTT
* *
13929921 AATTTAGATTTATTTT-AAATTTG
1 AATTTAAATTAATTTTCAAATTTG
13929944 AATTTAAATTAATTTTCAAATTT
1 AATTTAAATTAATTTTCAAATTT
13929967 TAAAAAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (24 bp):
AATTTAAATTAATTTTCAAATTTG
Found at i:13931753 original size:30 final size:30
Alignment explanation
Indices: 13931613--13931757 Score: 129
Period size: 29 Copynumber: 4.9 Consensus size: 30
13931603 AAAGGTCCTT
* * * *
13931613 AAACTGTCAAAAAATTATA-TTTTGGCTCTG
1 AAACT-TCCAAAAATTACATTTTTGACCCTG
* *
13931643 AAACTTCTAAAAATTACATTTGT-ACCCTCG
1 AAACTTCCAAAAATTACATTTTTGACCCT-G
**
13931673 -AACTTCCAAAAATTACATTTTTG-CCCCC
1 AAACTTCCAAAAATTACATTTTTGACCCTG
* * * *
13931701 AAAATTTCAAATATTCCATTTTTGACCCTG
1 AAACTTCCAAAAATTACATTTTTGACCCTG
13931731 AAACTTCCAAAAATTACATTTTT-ACCC
1 AAACTTCCAAAAATTACATTTTTGACCC
13931758 CCAAAATTCC
Statistics
Matches: 91, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
29 60 0.66
30 31 0.34
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (30 bp):
AAACTTCCAAAAATTACATTTTTGACCCTG
Found at i:13931804 original size:50 final size:51
Alignment explanation
Indices: 13931708--13931805 Score: 139
Period size: 50 Copynumber: 1.9 Consensus size: 51
13931698 CCCAAAATTT
*
13931708 CAAATATTCCATTTTTGACCCTGAAACTTCCAAAAATTACATTTTTACCCC
1 CAAATATTCCATTTTTGACCCTGAAACTTCCAAAAATTACAGTTTTACCCC
*
13931759 CAAA-ATTCCATTTTTGA-CCTCGAAACTTTCAAAAATTATC-GTTTTAC
1 CAAATATTCCATTTTTGACCCT-GAAACTTCCAAAAATTA-CAGTTTTAC
13931806 TCCTGAATGT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
49 3 0.07
50 35 0.81
51 5 0.12
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (51 bp):
CAAATATTCCATTTTTGACCCTGAAACTTCCAAAAATTACAGTTTTACCCC
Found at i:13952538 original size:22 final size:18
Alignment explanation
Indices: 13952513--13952557 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 18
13952503 CTCATTTTCC
13952513 TAAAATAGCCCAACACCCAAAA
1 TAAAATA-CCCAA-A-CC-AAA
13952535 TAAAATACCCAAACCAAA
1 TAAAATACCCAAACCAAA
13952553 TAAAA
1 TAAAA
13952558 CCCATACCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.35
19 2 0.09
20 1 0.04
21 5 0.22
22 7 0.30
ACGTcount: A:0.60, C:0.27, G:0.02, T:0.11
Consensus pattern (18 bp):
TAAAATACCCAAACCAAA
Found at i:14020124 original size:27 final size:27
Alignment explanation
Indices: 14020057--14020186 Score: 115
Period size: 28 Copynumber: 4.7 Consensus size: 27
14020047 TGCCCCAGGA
14020057 AAAATGGTAAATTTTAGGAAGTCGA-GGT
1 AAAATGGT-AATTTT-GGAAGTCGAGGGT
* *
14020085 CAAAAATTG-AATTTTTGGAA-TCGGGGGT
1 --AAAATGGTAA-TTTTGGAAGTCGAGGGT
*
14020113 AAAATGGTAATTTTGGAAGTTCGAGGTT
1 AAAATGGTAATTTTGGAAG-TCGAGGGT
* *
14020141 AAAAATAG-AATTTTGGAAGTTGAGGGT
1 -AAAATGGTAATTTTGGAAGTCGAGGGT
14020168 AAAATGGTAATTTTAGGAA
1 AAAATGGTAATTTT-GGAA
14020187 AATTTGGGGT
Statistics
Matches: 83, Mismatches: 9, Indels: 18
0.75 0.08 0.16
Matches are distributed among these distances:
26 20 0.24
27 17 0.20
28 30 0.36
29 10 0.12
30 6 0.07
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.32
Consensus pattern (27 bp):
AAAATGGTAATTTTGGAAGTCGAGGGT
Found at i:14020137 original size:55 final size:55
Alignment explanation
Indices: 14020057--14020186 Score: 183
Period size: 55 Copynumber: 2.3 Consensus size: 55
14020047 TGCCCCAGGA
* *
14020057 AAAATGGTAAATTTTAGGAAGTCGAGGTCAAAAATTGAATTTTTGGAA-TCGGGGGT
1 AAAATGGT-AATTTTAGGAAGTCGAGGTCAAAAATAGAA-TTTTGGAAGTCGAGGGT
* *
14020113 AAAATGGTAATTTT-GGAAGTTCGAGGTTAAAAATAGAATTTTGGAAGTTGAGGGT
1 AAAATGGTAATTTTAGGAAG-TCGAGGTCAAAAATAGAATTTTGGAAGTCGAGGGT
14020168 AAAATGGTAATTTTAGGAA
1 AAAATGGTAATTTTAGGAA
14020187 AATTTGGGGT
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
54 13 0.19
55 42 0.63
56 12 0.18
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.32
Consensus pattern (55 bp):
AAAATGGTAATTTTAGGAAGTCGAGGTCAAAAATAGAATTTTGGAAGTCGAGGGT
Found at i:14020284 original size:27 final size:25
Alignment explanation
Indices: 14020251--14020309 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 25
14020241 AGGAAAGAAT
* *
14020251 TTTTGGAAGTTAGGGTTAAAAATGGAA
1 TTTTGGAAGTCAGGG-T-AAAAGGGAA
14020278 TTTTGGAAGTCAGGGTAAAAGGGAA
1 TTTTGGAAGTCAGGGTAAAAGGGAA
14020303 -TTTGGAA
1 TTTTGGAA
14020310 TTTGGGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 7 0.23
25 8 0.27
26 1 0.03
27 14 0.47
ACGTcount: A:0.36, C:0.02, G:0.32, T:0.31
Consensus pattern (25 bp):
TTTTGGAAGTCAGGGTAAAAGGGAA
Found at i:14020529 original size:27 final size:28
Alignment explanation
Indices: 14020499--14020555 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
14020489 AGTTCGTGAT
*
14020499 AATGTAAATTT-TAAAGTTTGGGGGCAA
1 AATGTAAATTTGGAAAGTTTGGGGGCAA
* *
14020526 AATGTAACTTTGGAAAGTTTGGGGTCAA
1 AATGTAAATTTGGAAAGTTTGGGGGCAA
14020554 AA
1 AA
14020556 ATATGATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (28 bp):
AATGTAAATTTGGAAAGTTTGGGGGCAA
Found at i:14022515 original size:24 final size:24
Alignment explanation
Indices: 14022484--14022537 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
14022474 TTAGAATATT
14022484 TTTAAA-TTTAAATA-ATAAATTAAA
1 TTTAAATTTTAAA-ACAT-AATTAAA
*
14022508 TTTAAATTTTAAAACATATTTAAA
1 TTTAAATTTTAAAACATAATTAAA
14022532 TTTAAA
1 TTTAAA
14022538 AATAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 8 0.30
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TTTAAATTTTAAAACATAATTAAA
Done.