Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 206 of 276
Found at i:68364702 original size:184 final size:184
Alignment explanation
Indices: 68364393--68364759 Score: 698
Period size: 184 Copynumber: 2.0 Consensus size: 184
68364383 ATATGAATGC
68364393 TATACTTCAATTGTGCCTAATTTCATTGCTCAAAACTTACTAAGCATTAAATGCTTACTCCGTTT
1 TATACTTCAATTGTGCCTAATTTCATTGCTCAAAACTTACTAAGCATTAAATGCTTACTCCGTTT
* * * *
68364458 CTTTGATTCTCTGTTTTATAGATTTTGGTTCGTCAGCTATCGGACTCGGGATTTTCGAAGTTGAA
66 CTTTGATTCTATATTTTATAGATTTTGGTTCGTCAGCTATCGAACTCGGGATTTTCGAAGTCGAA
68364523 GTCGTCCACACTATCAAAGCCCTTTTGGTACACTTTTGGTTGAACTCTGAAAAA
131 GTCGTCCACACTATCAAAGCCCTTTTGGTACACTTTTGGTTGAACTCTGAAAAA
68364577 TATACTTCAATTGTGCCTAATTTCATTGCTCAAAACTTACTAAGCATTAAATGCTTACTCCGTTT
1 TATACTTCAATTGTGCCTAATTTCATTGCTCAAAACTTACTAAGCATTAAATGCTTACTCCGTTT
68364642 CTTTGATTCTATATTTTATAGATTTTGGTTCGTCAGCTATCGAACTCGGGATTTTCGAAGTCGAA
66 CTTTGATTCTATATTTTATAGATTTTGGTTCGTCAGCTATCGAACTCGGGATTTTCGAAGTCGAA
68364707 GTCGTCCACACTATCAAAGCCCTTTTGGTACACTTTTGGTTGAACTCTGAAAA
131 GTCGTCCACACTATCAAAGCCCTTTTGGTACACTTTTGGTTGAACTCTGAAAA
68364760 TGGCATGTAT
Statistics
Matches: 179, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
184 179 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (184 bp):
TATACTTCAATTGTGCCTAATTTCATTGCTCAAAACTTACTAAGCATTAAATGCTTACTCCGTTT
CTTTGATTCTATATTTTATAGATTTTGGTTCGTCAGCTATCGAACTCGGGATTTTCGAAGTCGAA
GTCGTCCACACTATCAAAGCCCTTTTGGTACACTTTTGGTTGAACTCTGAAAAA
Found at i:68365067 original size:118 final size:118
Alignment explanation
Indices: 68364859--68365093 Score: 461
Period size: 118 Copynumber: 2.0 Consensus size: 118
68364849 ATATACTTTT
*
68364859 AGCATAGCATTAAAATCGTTTTGTATGTTGTTCATTGAGAGGTATGGAAATGTTTGGTAATGATT
1 AGCATAGCATTAAAATCGTTTTGTATGTTGTTCATTGAGAGGTATGGAAATGTTTGGTAACGATT
68364924 AGCCATTGGAATGGTTAATCATGATCATTTGGTGCTTTGAATGACAAATTCTG
66 AGCCATTGGAATGGTTAATCATGATCATTTGGTGCTTTGAATGACAAATTCTG
68364977 AGCATAGCATTAAAATCGTTTTGTATGTTGTTCATTGAGAGGTATGGAAATGTTTGGTAACGATT
1 AGCATAGCATTAAAATCGTTTTGTATGTTGTTCATTGAGAGGTATGGAAATGTTTGGTAACGATT
68365042 AGCCATTGGAATGGTTAATCATGATCATTTGGTGCTTTGAATGACAAATTCT
66 AGCCATTGGAATGGTTAATCATGATCATTTGGTGCTTTGAATGACAAATTCT
68365094 AGTTGATTCA
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (118 bp):
AGCATAGCATTAAAATCGTTTTGTATGTTGTTCATTGAGAGGTATGGAAATGTTTGGTAACGATT
AGCCATTGGAATGGTTAATCATGATCATTTGGTGCTTTGAATGACAAATTCTG
Found at i:68371605 original size:40 final size:40
Alignment explanation
Indices: 68371550--68371638 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 40
68371540 CACCTGTATT
68371550 AAGCCTGCGGGATTTAACCCGGATATCTATTACCAGCACA
1 AAGCCTGCGGGATTTAACCCGGATATCTATTACCAGCACA
*
68371590 AAGCCTGCGGGATTTAACCCTGATATCTATTACCAGCACA
1 AAGCCTGCGGGATTTAACCCGGATATCTATTACCAGCACA
*
68371630 AATCCTGCG
1 AAGCCTGCG
68371639 AACTATAAGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (40 bp):
AAGCCTGCGGGATTTAACCCGGATATCTATTACCAGCACA
Found at i:68379040 original size:46 final size:45
Alignment explanation
Indices: 68378987--68379158 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 45
68378977 TTGAGCATCT
* * * *
68378987 GAACTCGTTGAGTTGAGTCTGAGTTCGCTTACGGATGCGAATGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCTAATGTCC
* * *
68379033 GAACTCGTTGAGTTGACTCCGAGTT--CGTAAGATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCTAA-T--G--TCC
* *
68379080 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCTAATGTCC
*
68379126 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTAGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
68379159 GGCGGGTTAC
Statistics
Matches: 105, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 3 0.03
45 3 0.03
46 55 0.52
47 26 0.25
48 1 0.01
49 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCTAATGTCC
Found at i:68379140 original size:93 final size:93
Alignment explanation
Indices: 68378981--68379151 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
68378971 GGATGGTTGA
* * * * **
68378981 GCATCTGAACTCGTTGAGTTGAGTCTGAGTTCGCTTACGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
68379046 TGACTCCGAGTTCGTAAGATGTAACTAG
66 TGACTCCGAGTTCGTAAGATGTAACTAG
* * *
68379074 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
*
68379139 TGAGTCCGAGTTC
66 TGACTCCGAGTTC
68379152 ACTTAGGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
TGACTCCGAGTTCGTAAGATGTAACTAG
Found at i:68386615 original size:46 final size:46
Alignment explanation
Indices: 68386563--68386734 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
68386553 TGGTTCAGCA
68386563 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
68386609 TTCGAACTCGTTGAGTTGACTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
68386654 CATCCAAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
68386702 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTT
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTT
68386735 GGGGGCGGGT
Statistics
Matches: 100, Mismatches: 16, Indels: 20
0.74 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 54 0.54
47 25 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:68386719 original size:93 final size:93
Alignment explanation
Indices: 68386560--68386730 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
68386550 GGATGGTTCA
* * * *
68386560 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGT
68386625 TGACTCCGAGTTCGTGAGATGTAACTAG
66 TGACTCCGAGTTCGTGAGATGTAACTAG
*
68386653 GCATCCAAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACGC-CTGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACGCTC-GAACTCGTTGAG
* *
68386717 TTGAGTCTGAGTTC
65 TTGACTCCGAGTTC
68386731 ACTTGGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGT
TGACTCCGAGTTCGTGAGATGTAACTAG
Found at i:68391999 original size:27 final size:27
Alignment explanation
Indices: 68391962--68392049 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
68391952 AGCAAAGCTG
*
68391962 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGACAGAGCCA
* * *
68391988 CCAGATACAGATATTTGTGGCATAGCCA
1 CCAGA-ACAGATATATGTGACAGAGCCA
* * * *
68392016 CCAGAACAGATATTTATGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCA
68392043 CCAGAAC
1 CCAGAAC
68392050 TCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 5 0.09
27 35 0.64
28 15 0.27
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATATATGTGACAGAGCCA
Found at i:68401983 original size:21 final size:21
Alignment explanation
Indices: 68401954--68402029 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
68401944 CGAGGAACTA
*
68401954 TGTGATCTGAACTCATTGAGT
1 TGTGGTCTGAACTCATTGAGT
** *
68401975 TGTGGTCTGAGTTCA-TGATAT
1 TGTGGTCTGAACTCATTGA-GT
68401996 ATGTGGCATCTGAACTCATTGAGT
1 -TGTGG--TCTGAACTCATTGAGT
*
68402020 TATGGTCTGA
1 TGTGGTCTGA
68402030 GTTCATGATG
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
20 3 0.07
21 18 0.43
22 5 0.12
23 4 0.10
24 9 0.21
25 3 0.07
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.38
Consensus pattern (21 bp):
TGTGGTCTGAACTCATTGAGT
Found at i:68402014 original size:45 final size:45
Alignment explanation
Indices: 68401958--68402045 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
68401948 GAACTATGTG
*
68401958 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGGC
1 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGGC
*
68402003 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATGTATGTG
1 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTG
68402046 ACACATGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.39
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGGC
Found at i:68405993 original size:65 final size:65
Alignment explanation
Indices: 68405889--68406019 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
68405879 AGTCCCATGC
*
68405889 ATCAGATAATAATAACATGGCATGTAGTAAATAGTAACAGTCAAACATGCATTCAAGTCAACCTT
1 ATCAGATAATAATAACATAGCATGTAGTAAATAGTAACAGTCAAACATGCATTCAAGTCAACCTT
* *
68405954 ATCAGTTAATAATAACATAGCATGTAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATAGCATGTAGTAAATAGTAACAGTCAAACATGCATTCAAGTCAACCTT
68406019 A
1 A
68406020 ACCTTTGGGG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.27
Consensus pattern (65 bp):
ATCAGATAATAATAACATAGCATGTAGTAAATAGTAACAGTCAAACATGCATTCAAGTCAACCTT
Found at i:68407612 original size:15 final size:15
Alignment explanation
Indices: 68407573--68407603 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
68407563 TTTTTTCCTA
68407573 TATAATAATAATAAT
1 TATAATAATAATAAT
68407588 TATAATAATAATAAT
1 TATAATAATAATAAT
68407603 T
1 T
68407604 TTATAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TATAATAATAATAAT
Found at i:68409321 original size:41 final size:40
Alignment explanation
Indices: 68409189--68409327 Score: 226
Period size: 40 Copynumber: 3.5 Consensus size: 40
68409179 AAGCCAAGTA
68409189 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
* *
68409229 CCTTCGGGACTTAGCCCAGAACTAGTGACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
*
68409269 CCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACT--CGCACAAATG
68409310 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
68409328 ATTATCATCC
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
40 66 0.71
41 23 0.25
42 4 0.04
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.20
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
Found at i:68413218 original size:40 final size:39
Alignment explanation
Indices: 68413151--68413280 Score: 152
Period size: 40 Copynumber: 3.3 Consensus size: 39
68413141 GGACTAAGAT
* * *
68413151 CCGAAGGCATTTGTACGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCA-TTGTGCGAGTTACTAAATCCGGGTTATGTC
** *
68413191 CCGAAGGCATTCGTGCGAGTTGTTAAATCTGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * * *
68413231 CCGAAGGCATTGGGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
68413270 CCGAAGGCATT
1 CCGAAGGCATT
68413281 TGAACGAGGA
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 34 0.45
40 42 0.55
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:68419110 original size:63 final size:63
Alignment explanation
Indices: 68419011--68419129 Score: 202
Period size: 63 Copynumber: 1.9 Consensus size: 63
68419001 GGAAACTTCA
* *
68419011 ATAACCCTTCAACTAGCCGATAGGTCCCTAGTTCACCCAAAAGGAGTTTTGGAGGATGTTTCG
1 ATAACCCTTCAACTAGCCGATAGGTCCCTACTTCACCCAAAAGGAGTTTTAGAGGATGTTTCG
**
68419074 ATAACCCTTCAACTAGTTGATAGGTCCCTACTTCACCCAAAAGGAGTTTTAGAGGA
1 ATAACCCTTCAACTAGCCGATAGGTCCCTACTTCACCCAAAAGGAGTTTTAGAGGA
68419130 CTTTTTAGTA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (63 bp):
ATAACCCTTCAACTAGCCGATAGGTCCCTACTTCACCCAAAAGGAGTTTTAGAGGATGTTTCG
Found at i:68428666 original size:11 final size:11
Alignment explanation
Indices: 68428650--68428679 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
68428640 ATTTTGTATT
68428650 TTTCAAAAAAA
1 TTTCAAAAAAA
68428661 TTTCAAAAAAA
1 TTTCAAAAAAA
68428672 TTTCAAAA
1 TTTCAAAA
68428680 TTACCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (11 bp):
TTTCAAAAAAA
Found at i:68430261 original size:20 final size:21
Alignment explanation
Indices: 68430221--68430261 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
68430211 GGGTTGCCTT
**
68430221 GAATGTCGCAACATTCAAAGG
1 GAATGTCGCAACAAACAAAGG
68430242 GAATGTCGCAA-AAACAAAGG
1 GAATGTCGCAACAAACAAAGG
68430262 AAGCCTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (21 bp):
GAATGTCGCAACAAACAAAGG
Found at i:68430355 original size:60 final size:60
Alignment explanation
Indices: 68430282--68430402 Score: 188
Period size: 60 Copynumber: 2.0 Consensus size: 60
68430272 ACTTAGTAGA
** * * *
68430282 ATTTCGAACACAACTTCAAGAGGTGAGTTATGGGAGATGATGTCATGACATCTATAAGCC
1 ATTTCGAACACAACTTCAAGAGGTGAGTTACAGGAGACGATGTCATAACATCCATAAGCC
*
68430342 ATTTCGAACACAACTTTAAGAGGTGAGTTACAGGAGACGATGTCATAACATCCATAAGCC
1 ATTTCGAACACAACTTCAAGAGGTGAGTTACAGGAGACGATGTCATAACATCCATAAGCC
68430402 A
1 A
68430403 AAGTCGCGAC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (60 bp):
ATTTCGAACACAACTTCAAGAGGTGAGTTACAGGAGACGATGTCATAACATCCATAAGCC
Found at i:68434894 original size:216 final size:216
Alignment explanation
Indices: 68434520--68435388 Score: 1702
Period size: 216 Copynumber: 4.0 Consensus size: 216
68434510 NNNNNNNNNN
68434520 GCATCCTTGTTCTCTTCTTTAGGAATGTGTTGTAATAATCACTAACCAACCTTCTTCAAGAGTAA
1 GCATCCTTGTTCTCTTCTTTAGGAATGTGTTGTAATAATCACTAACCAACCTTCTTCAAGAGTAA
68434585 ATGAATCCGCAAAATTAAAGTAGAATTCAAGGATGACAAGGAGGATTCTTGAATAGCCTTGGCAA
66 ATGAATCCGCAAAATTAAAGTAGAATTCAAGGATGACAAGGAGGATTCTTGAATAGCCTTGGCAA
68434650 CCTCCACACTATCGGTCTAAATCAACACTCGCTCATAATTCCGGCTCTGCAGCATATTCAAACCA
131 CCTCCACACTATCGGTCTAAATCAACACTCGCTCATAATTCCGGCTCTGCAGCATATTCAAACCA
**
68434715 TCAAATATTCCCCATAGTTTT
196 TCAAATATTCCCCATAGTTCA
68434736 GCATCCTTGTTCTCTTCTTTAGGAATGTGTTGTAATAATCACTAACCAACCTTCTTCAAGAGTAA
1 GCATCCTTGTTCTCTTCTTTAGGAATGTGTTGTAATAATCACTAACCAACCTTCTTCAAGAGTAA
68434801 ATGAATCCGCAAAATTAAAGTAGAATTCAAGGATGACAAGGAGGATTCTTGAATAGCCTTGGCAA
66 ATGAATCCGCAAAATTAAAGTAGAATTCAAGGATGACAAGGAGGATTCTTGAATAGCCTTGGCAA
68434866 CCTCCACACTATCGGTCTAAATCAACACTCGCTCATAATTCCGGCTCTGCAGCATATTCAAACCA
131 CCTCCACACTATCGGTCTAAATCAACACTCGCTCATAATTCCGGCTCTGCAGCATATTCAAACCA
68434931 TCAAATATTCCCCATAGTTCA
196 TCAAATATTCCCCATAGTTCA
68434952 GCATCCTTGTTCTCTTCTTTAGGAATGTGTTGTAATAATCACTAACCAACCTTCTTCAAGAGTAA
1 GCATCCTTGTTCTCTTCTTTAGGAATGTGTTGTAATAATCACTAACCAACCTTCTTCAAGAGTAA
68435017 ATGAATCCGCAAAATTAAAGTAGAATTCAAGGATGACAAGGAGGATTCTTGAATAGCCTTGGCAA
66 ATGAATCCGCAAAATTAAAGTAGAATTCAAGGATGACAAGGAGGATTCTTGAATAGCCTTGGCAA
68435082 CCTCCACACTATCGGTCTAAATCAACACTCGCTCATAATTCCGGCTCTGCAGCATATTCAAACCA
131 CCTCCACACTATCGGTCTAAATCAACACTCGCTCATAATTCCGGCTCTGCAGCATATTCAAACCA
68435147 TCAAATATTCCCCATAGTTCA
196 TCAAATATTCCCCATAGTTCA
68435168 GCATCCTTGTTCTCTTCTTTAGGAATGTGTTGTAATAATCACTAACCAACCTTCTTCAAGAGTAA
1 GCATCCTTGTTCTCTTCTTTAGGAATGTGTTGTAATAATCACTAACCAACCTTCTTCAAGAGTAA
68435233 ATGAATCCGCAAAATTAAAGTAGAATTCAAGGATGACAAGGAGGATTCTTGAATAGCCTTGGCAA
66 ATGAATCCGCAAAATTAAAGTAGAATTCAAGGATGACAAGGAGGATTCTTGAATAGCCTTGGCAA
* *
68435298 CCTCCACACTATCGGTCTAAATCAACACTCGCTCATAATTCCGGCTCTGCAGTATGTTCAAACCA
131 CCTCCACACTATCGGTCTAAATCAACACTCGCTCATAATTCCGGCTCTGCAGCATATTCAAACCA
68435363 TCAAATATTCCCCATAGTTCA
196 TCAAATATTCCCCATAGTTCA
68435384 GCATC
1 GCATC
68435389 AAAAACTAAA
Statistics
Matches: 649, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
216 649 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (216 bp):
GCATCCTTGTTCTCTTCTTTAGGAATGTGTTGTAATAATCACTAACCAACCTTCTTCAAGAGTAA
ATGAATCCGCAAAATTAAAGTAGAATTCAAGGATGACAAGGAGGATTCTTGAATAGCCTTGGCAA
CCTCCACACTATCGGTCTAAATCAACACTCGCTCATAATTCCGGCTCTGCAGCATATTCAAACCA
TCAAATATTCCCCATAGTTCA
Found at i:68438844 original size:21 final size:21
Alignment explanation
Indices: 68438810--68438849 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
68438800 TTAACCTGAT
* *
68438810 TGTTGTTGGAAAATTAGTGAA
1 TGTTGTTGCAAAATCAGTGAA
*
68438831 TGTTGTTGCTAAATCAGTG
1 TGTTGTTGCAAAATCAGTG
68438850 TTTAGTATGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.05, G:0.28, T:0.40
Consensus pattern (21 bp):
TGTTGTTGCAAAATCAGTGAA
Found at i:68442952 original size:12 final size:12
Alignment explanation
Indices: 68442935--68442959 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
68442925 GTTTGGCACT
68442935 GCCTGGCACATG
1 GCCTGGCACATG
68442947 GCCTGGCACATG
1 GCCTGGCACATG
68442959 G
1 G
68442960 GCATGTATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.32, G:0.36, T:0.16
Consensus pattern (12 bp):
GCCTGGCACATG
Found at i:68444205 original size:31 final size:31
Alignment explanation
Indices: 68444167--68444228 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
68444157 GAACTTGACA
68444167 CTGGCATAACCATGACAATTCCAAGTGAAAT
1 CTGGCATAACCATGACAATTCCAAGTGAAAT
68444198 CTGGCATAACCATGACAATTCCAAGTGAAAT
1 CTGGCATAACCATGACAATTCCAAGTGAAAT
68444229 TTGACAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.23
Consensus pattern (31 bp):
CTGGCATAACCATGACAATTCCAAGTGAAAT
Found at i:68446424 original size:30 final size:29
Alignment explanation
Indices: 68446390--68446594 Score: 169
Period size: 30 Copynumber: 6.8 Consensus size: 29
68446380 TAGCTCGATA
*
68446390 GTCGTAGCTATCCCTTTTCATAATTTGATG
1 GTCGTA-CCATCCCTTTTCATAATTTGATG
* * *
68446420 GTCGTCACCATCCTTTTTCATTATTCGATG
1 GTCGT-ACCATCCCTTTTCATAATTTGATG
*
68446450 GTCGTTACCATCCCTTTTCATAATTTGATA
1 GTCG-TACCATCCCTTTTCATAATTTGATG
* * * * * *
68446480 G-CGAAAGCTATCCCTTTTCACAGTATGATA
1 GTCG-TA-CCATCCCTTTTCATAATTTGATG
* * *
68446510 GCCGAAGCCATCCCTTTTCATAATTTTATG
1 GTCGTA-CCATCCCTTTTCATAATTTGATG
* *
68446540 GTCGTCACCATTCTTTTTCATAATTTGATG
1 GTCGT-ACCATCCCTTTTCATAATTTGATG
* *
68446570 GTCATCACCATCCTTTTTCATAATT
1 GTCGT-ACCATCCCTTTTCATAATT
68446595 GATAGCCGAA
Statistics
Matches: 143, Mismatches: 27, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
29 3 0.02
30 135 0.94
31 5 0.03
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (29 bp):
GTCGTACCATCCCTTTTCATAATTTGATG
Found at i:68446436 original size:60 final size:59
Alignment explanation
Indices: 68446372--68446561 Score: 195
Period size: 60 Copynumber: 3.2 Consensus size: 59
68446362 CAAAGTTATA
*
68446372 CTTTTTCATAGCTCGATAGTCGTAGCTATCCCTTTTCATAATTTGATGGTCGTCACCATC
1 CTTTTTCATAG-TCGATAGTCGTAGCCATCCCTTTTCATAATTTGATGGTCGTCACCATC
* * * ** *
68446432 CTTTTTCATTATTCGATGGTCGTTA-CCATCCCTTTTCATAATTTGATAG-CGAAAGCTATC
1 CTTTTTCA-TAGTCGATAGTCG-TAGCCATCCCTTTTCATAATTTGATGGTCGTCA-CCATC
* * * * * * *
68446492 CCTTTTCACAGTATGATAGCCGAAGCCATCCCTTTTCATAATTTTATGGTCGTCACCATT
1 CTTTTTCATAGT-CGATAGTCGTAGCCATCCCTTTTCATAATTTGATGGTCGTCACCATC
68446552 CTTTTTCATA
1 CTTTTTCATA
68446562 ATTTGATGGT
Statistics
Matches: 102, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
59 6 0.06
60 89 0.87
61 7 0.07
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (59 bp):
CTTTTTCATAGTCGATAGTCGTAGCCATCCCTTTTCATAATTTGATGGTCGTCACCATC
Found at i:68446556 original size:120 final size:119
Alignment explanation
Indices: 68446399--68446615 Score: 346
Period size: 120 Copynumber: 1.8 Consensus size: 119
68446389 AGTCGTAGCT
* * *
68446399 ATCCCTTTTCATAATTTGATGGTCGTCACCATCCTTTTTCATTATTCGATGGTCGTTACCATCCC
1 ATCCCTTTTCATAATTTGATGGTCGTCACCATCCTTTTTCATAATTCGATGGTCATCACCATCCC
68446464 TTTTCATAATTTGATAG-CGAAAGCTATCCCTTTTCACAGTATGATAGCCGAAGCC
66 TTTTCATAA-TTGATAGCCG-AAGCTATCCCTTTTCACAGTATGATAGCCGAAGCC
* * * *
68446519 ATCCCTTTTCATAATTTTATGGTCGTCACCATTCTTTTTCATAATTTGATGGTCATCACCATCCT
1 ATCCCTTTTCATAATTTGATGGTCGTCACCATCCTTTTTCATAATTCGATGGTCATCACCATCCC
68446584 TTTTCATAATTGATAGCCGAAGCTATCCCTTT
66 TTTTCATAATTGATAGCCGAAGCTATCCCTTT
68446616 GCATTCGTCG
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
119 20 0.22
120 69 0.78
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.40
Consensus pattern (119 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACCATCCTTTTTCATAATTCGATGGTCATCACCATCCC
TTTTCATAATTGATAGCCGAAGCTATCCCTTTTCACAGTATGATAGCCGAAGCC
Found at i:68446581 original size:60 final size:59
Alignment explanation
Indices: 68446399--68446594 Score: 189
Period size: 60 Copynumber: 3.3 Consensus size: 59
68446389 AGTCGTAGCT
* * *
68446399 ATCCCTTTTCATAATTTGATGGTCGTCACCATCCTTTTTCATTATTCGATGGTCGTTACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACCATCCTTTTTCATAATTTGATGGTC-ATACC
* ** * * * * * * *
68446459 ATCCCTTTTCATAATTTGATAG-CGAAAGCTATCCCTTTTCACAGTATGATAGCCGA-AGCC
1 ATCCCTTTTCATAATTTGATGGTCGTCA-CCATCCTTTTTCATAATTTGATGGTC-ATA-CC
* *
68446519 ATCCCTTTTCATAATTTTATGGTCGTCACCATTCTTTTTCATAATTTGATGGTCATCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACCATCCTTTTTCATAATTTGATGGTCAT-ACC
*
68446579 ATCCTTTTTCATAATT
1 ATCCCTTTTCATAATT
68446595 GATAGCCGAA
Statistics
Matches: 105, Mismatches: 26, Indels: 10
0.74 0.18 0.07
Matches are distributed among these distances:
59 5 0.05
60 96 0.91
61 4 0.04
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.41
Consensus pattern (59 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACCATCCTTTTTCATAATTTGATGGTCATACC
Found at i:68448072 original size:38 final size:38
Alignment explanation
Indices: 68447999--68448075 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
68447989 AATCAGGGAG
* *
68447999 ATAACATGTGAAGGATCAGATCGGTACATATGTAACAT
1 ATAACATGTGAAGGATCAGATCGGTACAGACGTAACAT
* *
68448037 ATAATATGTGAAGGATCAGATCGGTACCGACGTAACAT
1 ATAACATGTGAAGGATCAGATCGGTACAGACGTAACAT
68448075 A
1 A
68448076 GAAACGTGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (38 bp):
ATAACATGTGAAGGATCAGATCGGTACAGACGTAACAT
Found at i:68453732 original size:41 final size:41
Alignment explanation
Indices: 68453675--68453756 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
68453665 GACGAAAATC
68453675 CCTAAGGGGGGAGAGTTGTAACAGCCCAGTTTAGACCCTAG
1 CCTAAGGGGGGAGAGTTGTAACAGCCCAGTTTAGACCCTAG
68453716 CCTAAGGGGGGAGAGTTGTAACAGCCCAGTTTAGACCCTAG
1 CCTAAGGGGGGAGAGTTGTAACAGCCCAGTTTAGACCCTAG
68453757 TCGGAACAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.27, C:0.22, G:0.32, T:0.20
Consensus pattern (41 bp):
CCTAAGGGGGGAGAGTTGTAACAGCCCAGTTTAGACCCTAG
Found at i:68461054 original size:93 final size:93
Alignment explanation
Indices: 68460942--68461114 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
68460932 CGCCCATAAG
* *
68460942 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
68461007 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
68461035 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
68461100 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
68461115 CAAATATCCC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:68461110 original size:46 final size:46
Alignment explanation
Indices: 68460935--68461110 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
68460925 TGTAACCCGC
* *
68460935 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
68460981 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
68461031 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
68461074 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
68461111 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:68463079 original size:15 final size:14
Alignment explanation
Indices: 68463031--68463115 Score: 71
Period size: 15 Copynumber: 5.8 Consensus size: 14
68463021 CAAAGATAAC
* *
68463031 AAGAAAACCGAATA
1 AAGAAATCCAAATA
68463045 AAGAAATCCAAGATA
1 AAGAAATCCAA-ATA
* *
68463060 GAGAAACCCGAAATA
1 AAGAAATCC-AAATA
68463075 AAGAAATCCAGAATA
1 AAGAAATCCA-AATA
* *
68463090 AAGAGATCCAGGATA
1 AAGAAATCCA-AATA
*
68463105 AAGAAACCCAA
1 AAGAAATCCAA
68463116 GACACGATAC
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
14 10 0.18
15 45 0.79
16 2 0.04
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.09
Consensus pattern (14 bp):
AAGAAATCCAAATA
Found at i:68468334 original size:38 final size:38
Alignment explanation
Indices: 68468279--68468499 Score: 331
Period size: 38 Copynumber: 5.8 Consensus size: 38
68468269 GGCCTAAAGA
*
68468279 CCCGCAGGCTAT-ATGCTGG-AATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TCGTGCTGGTAA-TATATCCGGGTTAAAT
*
68468317 CCCGCAGGCTTTGTGCTGGTAATATATCC-GGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
*
68468354 CCTGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
68468392 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
*
68468430 CCTGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* * * *
68468468 CCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGG
68468500 CCTTCGTGCC
Statistics
Matches: 170, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
37 36 0.21
38 132 0.78
39 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
Found at i:68468540 original size:43 final size:43
Alignment explanation
Indices: 68468492--68468573 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
68468482 GCTGGTATTA
* *
68468492 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
68468535 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
68468574 AATGATATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.13, C:0.26, G:0.33, T:0.28
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
Found at i:68470260 original size:28 final size:29
Alignment explanation
Indices: 68470228--68470282 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
68470218 TCTGAAATAC
*
68470228 TGATA-TCATGACCCGAAGCCAAATCAAT
1 TGATATTCATGACCCGAAACCAAATCAAT
*
68470256 TGATATTCATGGCCCGAAACCAAATCA
1 TGATATTCATGACCCGAAACCAAATCA
68470283 GTATAACTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.22
Consensus pattern (29 bp):
TGATATTCATGACCCGAAACCAAATCAAT
Found at i:68472514 original size:42 final size:43
Alignment explanation
Indices: 68472450--68472573 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 43
68472440 GAAACTAAGA
* * * * * *
68472450 CATCTGAACTCTTTGAGTGGTCCGAGTTCGTGA-GATATGTG-G
1 CATCTGAGCTCGTTGAGAGGTCCGAGTTCATGATG-GATGCGAG
* *
68472492 CATCTGAGCTCGTTAAGAGGTCCGAGTTCATTATGGATGCGAG
1 CATCTGAGCTCGTTGAGAGGTCCGAGTTCATGATGGATGCGAG
* *
68472535 CATCCGAGCTCGTTGAGAGGTCCGAGTTCATAATGGATG
1 CATCTGAGCTCGTTGAGAGGTCCGAGTTCATGATGGATG
68472574 GGATTCATGT
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 31 0.45
43 38 0.55
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.29
Consensus pattern (43 bp):
CATCTGAGCTCGTTGAGAGGTCCGAGTTCATGATGGATGCGAG
Found at i:68472545 original size:43 final size:45
Alignment explanation
Indices: 68472491--68472624 Score: 155
Period size: 51 Copynumber: 2.9 Consensus size: 45
68472481 GAGATATGTG
* *
68472491 GCATCTGAGCTCGTTAAGAGGTCCGAGTTCATTATGGATGC-G-A
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCAGTA
*
68472534 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATAATGGATGGGATTCATGTA
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCAT--T--AT-GGATGCA-GTA
* *
68472585 ACATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATG
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
68472625 TGTTACATGT
Statistics
Matches: 77, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
43 30 0.39
45 1 0.01
46 4 0.05
47 4 0.05
48 5 0.06
49 1 0.01
50 1 0.01
51 31 0.40
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (45 bp):
GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCAGTA
Found at i:68482963 original size:46 final size:46
Alignment explanation
Indices: 68482910--68483042 Score: 181
Period size: 46 Copynumber: 3.0 Consensus size: 46
68482900 TTTCAAAAGT
68482910 ATGATTTATGGACCCATTTGAACAATGTGAATAATAAATAAGTTAA
1 ATGATTTATGGACCCATTTGAACAATGTGAATAATAAATAAGTTAA
* ** *
68482956 ATGATTTATGGACCCATTT--A-AATGTAAATTTTCAA-AAG-T--
1 ATGATTTATGGACCCATTTGAACAATGTGAATAATAAATAAGTTAA
68482995 ATGATTTATGGACCCATTTGAACAATGTGAATAATAAATAAGTTAA
1 ATGATTTATGGACCCATTTGAACAATGTGAATAATAAATAAGTTAA
68483041 AT
1 AT
68483043 TTGGTATTAT
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
39 19 0.26
41 2 0.03
42 14 0.19
43 14 0.19
44 2 0.03
46 21 0.29
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (46 bp):
ATGATTTATGGACCCATTTGAACAATGTGAATAATAAATAAGTTAA
Found at i:68482999 original size:39 final size:40
Alignment explanation
Indices: 68482889--68483022 Score: 153
Period size: 39 Copynumber: 3.2 Consensus size: 40
68482879 TTTAGGGATC
68482889 AAAATGTAAATTTTCAAAAGTATGATTTATGGACCCATTT
1 AAAATGTAAATTTTCAAAAGTATGATTTATGGACCCATTT
* ** *
68482929 GAACAATGTGAATAATAAATAAGTTAAATGATTTATGGACCCATTT
1 -AA-AATGTAAATTTTCAA-AAG-T--ATGATTTATGGACCCATTT
68482975 -AAATGTAAATTTTCAAAAGTATGATTTATGGACCCATTT
1 AAAATGTAAATTTTCAAAAGTATGATTTATGGACCCATTT
68483014 GAACAATGT
1 -AA-AATGT
68483023 GAATAATAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
39 19 0.25
41 4 0.05
42 19 0.25
43 14 0.18
44 2 0.03
46 19 0.25
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (40 bp):
AAAATGTAAATTTTCAAAAGTATGATTTATGGACCCATTT
Found at i:68485029 original size:38 final size:39
Alignment explanation
Indices: 68484987--68485080 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 39
68484977 CCATCTCTGA
* * * *
68484987 CCAACCCAACGCACCA-TGTGGGGATAGAATCGACCCAC
1 CCAACCCTACACACCAGTATGGGGATAGAATCAACCCAC
* *
68485025 CCAACCCTACACACCAAGTATGGGGATATAATCAACCCAT
1 CCAACCCTACACACC-AGTATGGGGATAGAATCAACCCAC
68485065 CCAACCCTACACACCA
1 CCAACCCTACACACCA
68485081 AAAGGTATCG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 13 0.27
39 2 0.04
40 33 0.69
ACGTcount: A:0.35, C:0.38, G:0.14, T:0.13
Consensus pattern (39 bp):
CCAACCCTACACACCAGTATGGGGATAGAATCAACCCAC
Found at i:68485063 original size:40 final size:40
Alignment explanation
Indices: 68485005--68485081 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
68484995 ACGCACCATG
*
68485005 TGGGGATAGAATCGACCCACCCAACCCTACACACCAAGTA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
* *
68485045 TGGGGATATAATCAACCCATCCAACCCTACACACCAA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCAA
68485082 AAGGTATCGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.36, C:0.35, G:0.14, T:0.14
Consensus pattern (40 bp):
TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
Found at i:68487001 original size:42 final size:42
Alignment explanation
Indices: 68486953--68487047 Score: 136
Period size: 42 Copynumber: 2.3 Consensus size: 42
68486943 CACACGCTGA
* * * *
68486953 TGTGCCAGGCCGTGTACCCTTTGAAATAACCCCACACGCCAG
1 TGTGCCAGGCCGTATACCATTCGAAACAACCCCACACGCCAG
* *
68486995 TGTGCCAGGCCGTATACCATTCGAAACAACCCTACACGCCCG
1 TGTGCCAGGCCGTATACCATTCGAAACAACCCCACACGCCAG
68487037 TGTGCCAGGCC
1 TGTGCCAGGCC
68487048 TTGTGCTAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.23, C:0.37, G:0.22, T:0.18
Consensus pattern (42 bp):
TGTGCCAGGCCGTATACCATTCGAAACAACCCCACACGCCAG
Found at i:68489821 original size:29 final size:29
Alignment explanation
Indices: 68489682--68489844 Score: 141
Period size: 30 Copynumber: 5.5 Consensus size: 29
68489672 CTATTACTTC
68489682 ACCATCCCTTTTCATAAGTTGATAGCCGAA
1 ACCATCCCTTTTCATAA-TTGATAGCCGAA
*
68489712 ACCATCCCTTCTT-ATAGATCGATAGCCGAA
1 ACCATCCCTT-TTCATA-ATTGATAGCCGAA
* * * *
68489742 GCCATCCCTTTTCATAGTACGATAGTCGAA
1 ACCATCCCTTTTCATAAT-TGATAGCCGAA
* * **
68489772 ACCATCTCTTTTCA-AATTTGATAGTCGTC
1 ACCATCCCTTTTCATAA-TTGATAGCCGAA
* *
68489801 ACCATCCCTTTTCATAATTGAAAGCTGAA
1 ACCATCCCTTTTCATAATTGATAGCCGAA
***
68489830 GTTATCCCTTTTCAT
1 ACCATCCCTTTTCAT
68489845 TCGTCGATGA
Statistics
Matches: 108, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
29 44 0.41
30 61 0.56
31 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (29 bp):
ACCATCCCTTTTCATAATTGATAGCCGAA
Found at i:68494854 original size:25 final size:26
Alignment explanation
Indices: 68494800--68494861 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
68494790 AGAAGAAACC
* *
68494800 ATAAAAATAAAAATATAGTTTAAAAG
1 ATAAAAATAAAAATATAGTCTAAAAA
*
68494826 ATAAAAA-CAAAATA-AGTCTAAGAAA
1 ATAAAAATAAAAATATAGTCTAA-AAA
*
68494851 ATAACAATAAA
1 ATAAAAATAAA
68494862 CATAAACATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
24 6 0.21
25 14 0.48
26 9 0.31
ACGTcount: A:0.68, C:0.05, G:0.06, T:0.21
Consensus pattern (26 bp):
ATAAAAATAAAAATATAGTCTAAAAA
Found at i:68494866 original size:6 final size:6
Alignment explanation
Indices: 68494848--68494898 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
68494838 TAAGTCTAAG
* * * * *
68494848 AAAATA ACAATA AACATA AACATA AAAATA GAAATA AATATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
68494896 AAA
1 AAA
68494899 CAAATAAACT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:68494876 original size:24 final size:24
Alignment explanation
Indices: 68494848--68494898 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
68494838 TAAGTCTAAG
*
68494848 AAAATA-ACAATAAACATAAACATA
1 AAAATAGA-AATAAACATAAAAATA
*
68494872 AAAATAGAAATAAATATAAAAATA
1 AAAATAGAAATAAACATAAAAATA
68494896 AAA
1 AAA
68494899 CAAATAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.18
Consensus pattern (24 bp):
AAAATAGAAATAAACATAAAAATA
Found at i:68502508 original size:21 final size:21
Alignment explanation
Indices: 68502484--68502527 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
68502474 ATTTTTCCAA
*
68502484 GAATATG-AATTGAATTAAATT
1 GAATATGAAATAG-ATTAAATT
68502505 GAATATGAAATAGATTAAATT
1 GAATATGAAATAGATTAAATT
68502526 GA
1 GA
68502528 CGTTAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (21 bp):
GAATATGAAATAGATTAAATT
Found at i:68515556 original size:50 final size:49
Alignment explanation
Indices: 68515481--68515717 Score: 217
Period size: 50 Copynumber: 4.8 Consensus size: 49
68515471 TGAATACACT
* * * *
68515481 TGTGTAGTACTAAGTGTAGGCTACTACATGTATCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTTAA-TCACA
* * ** *
68515531 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TC-A-GACTGTTAATCACA
* * *
68515582 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTG-TTA-ATCACA
* * * * * * *
68515632 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATTTTTGATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTTAATCACA
* *
68515681 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA
68515718 TAACTTCGGC
Statistics
Matches: 154, Mismatches: 26, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 39 0.25
50 70 0.45
51 36 0.23
52 3 0.02
53 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTTAATCACA
Found at i:68515717 original size:99 final size:99
Alignment explanation
Indices: 68515481--68515718 Score: 291
Period size: 101 Copynumber: 2.4 Consensus size: 99
68515471 TGAATACACT
* * * * *
68515481 TGTGTAGTACTAAGTGTAGGCTACTACATGTATCATACTGTTAAGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGTGAAGTCACATGTGTAGTACTAAGT
*
68515546 GCAGGCTACTATGCGTACTCAATGACTTCGATCACG
65 GCAGGCTACTATGCGTACTCAAT-ACTTCGATCACA
* *
68515582 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATG-TGAAGTCACATGTGTAGTACTAAGT
* * * * *
68515647 GCAGGCTACTATGTGTAC-CGGAT-TTTTGATCGCA
65 GCAGGCTACTATGCGTACTC-AATACTTCGATCACA
* *
68515681 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
68515719 AACTTCGGCT
Statistics
Matches: 120, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
99 43 0.36
100 3 0.03
101 74 0.62
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (99 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGTGAAGTCACATGTGTAGTACTAAGTG
CAGGCTACTATGCGTACTCAATACTTCGATCACA
Found at i:68519219 original size:30 final size:30
Alignment explanation
Indices: 68519185--68519244 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
68519175 GAATAGGATC
68519185 TTCCGATAATATTTGGATAAGTTTGTCGTT
1 TTCCGATAATATTTGGATAAGTTTGTCGTT
*
68519215 TTCCGATCATATTTGGATAAGTTTGTCGTT
1 TTCCGATAATATTTGGATAAGTTTGTCGTT
68519245 GTGTTCATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.22, C:0.12, G:0.20, T:0.47
Consensus pattern (30 bp):
TTCCGATAATATTTGGATAAGTTTGTCGTT
Found at i:68524166 original size:55 final size:55
Alignment explanation
Indices: 68524056--68524173 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 55
68524046 AACAAAAAAC
* * * * **
68524056 GCACACGAGTAGGCCACACGGGCGTGAGTCATTGCCGTGTCTAAAAGACAATGTT
1 GCACACGGGCAGGCAACACGGGCGTGAGCCACGGCCGTGTCTAAAAGACAATGTT
* * * *
68524111 GCCCACGGGCAGGCAACACGGGCGTGTGCCACGGCCGTGT-TAATAAGTCAGTGTT
1 GCACACGGGCAGGCAACACGGGCGTGAGCCACGGCCGTGTCTAA-AAGACAATGTT
68524166 GCACACGG
1 GCACACGG
68524174 CCCAAAGGCA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 3 0.06
55 48 0.94
ACGTcount: A:0.24, C:0.26, G:0.32, T:0.18
Consensus pattern (55 bp):
GCACACGGGCAGGCAACACGGGCGTGAGCCACGGCCGTGTCTAAAAGACAATGTT
Found at i:68528552 original size:23 final size:23
Alignment explanation
Indices: 68528525--68528574 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
68528515 AAAAAACTTT
*
68528525 TACAAGTACAAATATAATTTTA-G
1 TACAAGTAC-AATATAATTATATG
68528548 TACAAGTACAATATAATTATATG
1 TACAAGTACAATATAATTATATG
68528571 TACA
1 TACA
68528575 TGCCTAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (23 bp):
TACAAGTACAATATAATTATATG
Found at i:68529971 original size:19 final size:19
Alignment explanation
Indices: 68529943--68529989 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
68529933 CTAAAATGTG
*
68529943 AATAAAATTTATCTTCCTA
1 AATAAAATTTATCTACCTA
*
68529962 AATAAGATTTATCTACCTA
1 AATAAAATTTATCTACCTA
68529981 AATAAAATT
1 AATAAAATT
68529990 AAAATATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAAAATTTATCTACCTA
Found at i:68533805 original size:41 final size:41
Alignment explanation
Indices: 68533748--68533829 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
68533738 TCTTAATTGG
68533748 GAAAATAGTTCTCTTATTCTAATAAACTACTAAAACATAAA
1 GAAAATAGTTCTCTTATTCTAATAAACTACTAAAACATAAA
*
68533789 GAAAATAGTT-TCCTTATTCTAATAAACTACTAAAAGATAAA
1 GAAAATAGTTCT-CTTATTCTAATAAACTACTAAAACATAAA
68533830 ATATAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 1 0.03
41 38 0.97
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (41 bp):
GAAAATAGTTCTCTTATTCTAATAAACTACTAAAACATAAA
Found at i:68533890 original size:19 final size:19
Alignment explanation
Indices: 68533850--68533893 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
68533840 GAATAAAATA
**
68533850 TAAATAAAATTTATCTTTC
1 TAAATAAAATTTATCTACC
*
68533869 TAAATAAGATTTATCTACC
1 TAAATAAAATTTATCTACC
68533888 TAAATA
1 TAAATA
68533894 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.41
Consensus pattern (19 bp):
TAAATAAAATTTATCTACC
Found at i:68533992 original size:21 final size:21
Alignment explanation
Indices: 68533966--68534007 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
68533956 ATCAACAAAG
68533966 GTAAATTGTTGAGGTATTCTA
1 GTAAATTGTTGAGGTATTCTA
68533987 GTAAATTGTTGAGGTATTCTA
1 GTAAATTGTTGAGGTATTCTA
68534008 AAAGCTCTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.43
Consensus pattern (21 bp):
GTAAATTGTTGAGGTATTCTA
Found at i:68536075 original size:18 final size:18
Alignment explanation
Indices: 68536054--68536092 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
68536044 GATTGAGAGT
*
68536054 GAAAAGAAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
68536072 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
68536090 GAA
1 GAA
68536093 GTTGAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.64, C:0.03, G:0.21, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:68545708 original size:46 final size:45
Alignment explanation
Indices: 68545640--68545732 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 45
68545630 AAGGGTAGGA
68545640 GAAGAAGGGGGGGGGGGACATCTTAATTAGAGGCCATCTTGTCGT
1 GAAGAAGGGGGGGGGGGACATCTTAATTAGAGGCCATCTTGTCGT
68545685 GAAGAAGGGGGGGGGGGGACATCTTAATTAGAGGCCATCTTGTCGT
1 GAAGAA-GGGGGGGGGGGACATCTTAATTAGAGGCCATCTTGTCGT
68545731 GA
1 GA
68545733 TATTAGATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 6 0.13
46 41 0.87
ACGTcount: A:0.25, C:0.13, G:0.41, T:0.22
Consensus pattern (45 bp):
GAAGAAGGGGGGGGGGGACATCTTAATTAGAGGCCATCTTGTCGT
Found at i:68546733 original size:19 final size:20
Alignment explanation
Indices: 68546711--68546763 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 20
68546701 AATTAATCAT
68546711 GATTAAGTAAACTAAT-TAA
1 GATTAAGTAAACTAATCTAA
* *
68546730 GATTAACTAAAATTAATCTAA
1 GATTAAGT-AAACTAATCTAA
68546751 GTATATAAGTAAA
1 G-AT-TAAGTAAA
68546764 ACTTAGTAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 7 0.26
20 7 0.26
21 4 0.15
22 5 0.19
23 4 0.15
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (20 bp):
GATTAAGTAAACTAATCTAA
Found at i:68550801 original size:48 final size:48
Alignment explanation
Indices: 68550715--68550806 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 48
68550705 GAATTGCAGT
* *
68550715 AAGATGGGACACAAGTCATCCAATTATAGGTTTTCAAAGAGGGTAAAA
1 AAGATGGGACACAAGTCATCCAATTATAGGCTTCCAAAGAGGGTAAAA
* * * * *
68550763 AAGATGGGATATAAGTCATTCGATTGTAGGCTTCCAAAGAGGGT
1 AAGATGGGACACAAGTCATCCAATTATAGGCTTCCAAAGAGGGT
68550807 CAGAACAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 37 1.00
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (48 bp):
AAGATGGGACACAAGTCATCCAATTATAGGCTTCCAAAGAGGGTAAAA
Found at i:68569002 original size:26 final size:26
Alignment explanation
Indices: 68568968--68569043 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 26
68568958 CCAACACACC
**
68568968 AATAACGCAACAAAGCTTTCAGTAAT
1 AATAACGCAACAAAGCTGCCAGTAAT
* * *
68568994 AATATCGCAGCAAGGCTGCCAGTAAT
1 AATAACGCAACAAAGCTGCCAGTAAT
* * * *
68569020 AGTAATGCAGCAAAACTGCCAGTA
1 AATAACGCAACAAAGCTGCCAGTA
68569044 TCAGTATATG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (26 bp):
AATAACGCAACAAAGCTGCCAGTAAT
Found at i:68569233 original size:27 final size:27
Alignment explanation
Indices: 68569181--68569234 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
68569171 ATCATAGCAC
*
68569181 AAATCAGTCATTTACCCTCAATGGGTA
1 AAATCAGTCATTTACCCTCAAGGGGTA
68569208 AAAT-AGTCATTTTACCCT-ATAGGGGTA
1 AAATCAGTCA-TTTACCCTCA-AGGGGTA
68569235 TTTTGGTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTCAAGGGGTA
Found at i:68570527 original size:16 final size:17
Alignment explanation
Indices: 68570498--68570531 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
68570488 GAGAAAAATT
68570498 CCAAAAGAGGAAAACTGA
1 CCAAAAGA-GAAAACTGA
68570516 CCAAAAGA-AAAACTGA
1 CCAAAAGAGAAAACTGA
68570532 AATAAGGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.18, G:0.18, T:0.06
Consensus pattern (17 bp):
CCAAAAGAGAAAACTGA
Found at i:68582200 original size:27 final size:28
Alignment explanation
Indices: 68582117--68582214 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
68582107 ATGAGATTGA
* * *
68582117 CACTAAGTGTGCGGGTTTAAATTGTACAG
1 CACTAAGTGTGCGGGTTT-GATTATATAG
68582146 CACTAAGTGTGCGGGTTTGATTATATAG
1 CACTAAGTGTGCGGGTTTGATTATATAG
*
68582174 CACTAAGTGTGCGAG-TTGATTATATAG
1 CACTAAGTGTGCGGGTTTGATTATATAG
*
68582201 CACTGAGTGTGCGG
1 CACTAAGTGTGCGG
68582215 ACTTAATATA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 18 0.29
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.32
Consensus pattern (28 bp):
CACTAAGTGTGCGGGTTTGATTATATAG
Found at i:68582224 original size:27 final size:28
Alignment explanation
Indices: 68582117--68582227 Score: 107
Period size: 28 Copynumber: 3.9 Consensus size: 28
68582107 ATGAGATTGA
** * * *
68582117 CACTAAGTGTGCGGGTTTAAATTGTACAG
1 CACTAAGTGTGCGGACTT-GATTATATAG
**
68582146 CACTAAGTGTGCGGGTTTGATTATATAG
1 CACTAAGTGTGCGGACTTGATTATATAG
*
68582174 CACTAAGTGTGC-GAGTTGATTATATAG
1 CACTAAGTGTGCGGACTTGATTATATAG
* *
68582201 CACTGAGTGTGCGGACTTAATATATAT
1 CACTAAGTGTGCGGACTTGAT-TATAT
68582228 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
27 24 0.33
28 25 0.35
29 23 0.32
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (28 bp):
CACTAAGTGTGCGGACTTGATTATATAG
Found at i:68584215 original size:13 final size:13
Alignment explanation
Indices: 68584194--68584223 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
68584184 AGCACATGGG
68584194 CGTGCCTATTGGC
1 CGTGCCTATTGGC
*
68584207 CGTGTCTATTGGC
1 CGTGCCTATTGGC
68584220 CGTG
1 CGTG
68584224 GGGAAAAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.27, G:0.33, T:0.33
Consensus pattern (13 bp):
CGTGCCTATTGGC
Found at i:68596418 original size:13 final size:13
Alignment explanation
Indices: 68596400--68596426 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
68596390 GTCCGACAGG
68596400 GACACGCCCGTGT
1 GACACGCCCGTGT
68596413 GACACGCCCGTGT
1 GACACGCCCGTGT
68596426 G
1 G
68596427 CGATTGCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:68600961 original size:6 final size:7
Alignment explanation
Indices: 68600944--68600969 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
68600934 GATGCTCAAT
68600944 TTTTTTA
1 TTTTTTA
68600951 TTTTTTA
1 TTTTTTA
68600958 TTTTTTA
1 TTTTTTA
68600965 TTTTT
1 TTTTT
68600970 GCATTTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:68601960 original size:15 final size:15
Alignment explanation
Indices: 68601940--68601969 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
68601930 TTAAGAGTCA
68601940 TTAGAATCAATGTCT
1 TTAGAATCAATGTCT
68601955 TTAGAATCAATGTCT
1 TTAGAATCAATGTCT
68601970 CCTTGATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (15 bp):
TTAGAATCAATGTCT
Found at i:68613618 original size:16 final size:16
Alignment explanation
Indices: 68613597--68613634 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
68613587 AGAAAAAGGT
*
68613597 TTTTGTAGGGTCCAAA
1 TTTTGTACGGTCCAAA
*
68613613 TTTTGTCCGGTCCAAA
1 TTTTGTACGGTCCAAA
68613629 TTTTGT
1 TTTTGT
68613635 CCAGCCCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.45
Consensus pattern (16 bp):
TTTTGTACGGTCCAAA
Found at i:68613635 original size:16 final size:16
Alignment explanation
Indices: 68613605--68613636 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
68613595 GTTTTTGTAG
68613605 GGTCCAAATTTTGTCC
1 GGTCCAAATTTTGTCC
68613621 GGTCCAAATTTTGTCC
1 GGTCCAAATTTTGTCC
68613637 AGCCCAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (16 bp):
GGTCCAAATTTTGTCC
Found at i:68613643 original size:16 final size:16
Alignment explanation
Indices: 68613608--68613644 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
68613598 TTTGTAGGGT
* *
68613608 CCAAATTTTGTCCGGT
1 CCAAATTTTGTCCAGC
68613624 CCAAATTTTGTCCAGC
1 CCAAATTTTGTCCAGC
68613640 CCAAA
1 CCAAA
68613645 ATACAAACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.30
Consensus pattern (16 bp):
CCAAATTTTGTCCAGC
Found at i:68613885 original size:24 final size:23
Alignment explanation
Indices: 68613845--68613889 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
68613835 TTTTACGGAG
*
68613845 AATACAAGAAAATACACTCAAATT
1 AATACAAGAAAAAACAC-CAAATT
68613869 AATACAA-AAGAAAACACCAAA
1 AATACAAGAA-AAAACACCAAA
68613890 GCAAGGAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.64, C:0.18, G:0.04, T:0.13
Consensus pattern (23 bp):
AATACAAGAAAAAACACCAAATT
Found at i:68614821 original size:14 final size:15
Alignment explanation
Indices: 68614791--68614824 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
68614781 ATTCTTATTC
68614791 TTATTAATGTATATA
1 TTATTAATGTATATA
*
68614806 TTATTGATGT-TATA
1 TTATTAATGTATATA
68614820 TTATT
1 TTATT
68614825 TTATATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTAATGTATATA
Found at i:68614824 original size:3 final size:3
Alignment explanation
Indices: 68614755--68614810 Score: 58
Period size: 3 Copynumber: 17.3 Consensus size: 3
68614745 CCTTTCCCCC
* *
68614755 TAT TAT TAT TATT TAT TAT TAT TAT TAT TCT TAT TCT TAT TAAT GTAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT
68614803 ATAT TAT T
1 -TAT TAT T
68614811 GATGTTATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
3 34 0.76
4 10 0.22
5 1 0.02
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:68620836 original size:20 final size:20
Alignment explanation
Indices: 68620790--68620838 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
68620780 GTTCGCTTCT
**
68620790 CCCACGCCCGTGTATGTAGG
1 CCCACGCCCGTACATGTAGG
**
68620810 CTTACGCCCGTACATGTAGG
1 CCCACGCCCGTACATGTAGG
68620830 CCCACGCCC
1 CCCACGCCC
68620839 CTGTTAATCT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.16, C:0.41, G:0.24, T:0.18
Consensus pattern (20 bp):
CCCACGCCCGTACATGTAGG
Found at i:68628495 original size:12 final size:12
Alignment explanation
Indices: 68628480--68628549 Score: 51
Period size: 12 Copynumber: 5.8 Consensus size: 12
68628470 ACAACCAAAA
68628480 AAAATAATAAAT-
1 AAAA-AATAAATC
*
68628492 AAAAAATCAATC
1 AAAAAATAAATC
68628504 AAAAAATAAAAATC
1 AAAAAAT--AAATC
68628518 AAAATCAA-AAATC
1 AAAA--AATAAATC
68628531 -AAAAA-AAAT-
1 AAAAAATAAATC
68628540 AAAAAATAAA
1 AAAAAATAAA
68628550 AAAGAAAGGC
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
10 11 0.22
11 9 0.18
12 14 0.29
13 5 0.10
14 8 0.16
16 2 0.04
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAATAAATC
Found at i:68628495 original size:13 final size:14
Alignment explanation
Indices: 68628479--68628542 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
68628469 AACAACCAAA
68628479 AAAAATAATAAAT-
1 AAAAATAATAAATC
*
68628492 -AAAA-AATCAATC
1 AAAAATAATAAATC
68628504 AAAAAATAA-AAATC
1 -AAAAATAATAAATC
68628518 -AAAATCAA-AAATC
1 AAAAAT-AATAAATC
*
68628531 AAAAAAAATAAA
1 AAAAATAATAAA
68628543 AAATAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
11 6 0.15
12 9 0.22
13 9 0.22
14 15 0.37
15 2 0.05
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAAATAATAAATC
Found at i:68628531 original size:31 final size:30
Alignment explanation
Indices: 68628479--68628544 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 30
68628469 AACAACCAAA
68628479 AAAAATAATAAATAAAAAATCAATCAAAAAAT
1 AAAAATAATAAATAAAAAATCAA--AAAAAAT
* *
68628511 AAAAATCA-AAATCAAAAATCAAAAAAAAT
1 AAAAATAATAAATAAAAAATCAAAAAAAAT
68628540 AAAAA
1 AAAAA
68628545 ATAAAAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 12 0.38
31 13 0.41
32 7 0.22
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (30 bp):
AAAAATAATAAATAAAAAATCAAAAAAAAT
Found at i:68630282 original size:177 final size:177
Alignment explanation
Indices: 68629623--68630259 Score: 886
Period size: 177 Copynumber: 3.6 Consensus size: 177
68629613 TAATATCAGT
* *
68629623 AAATTCACAGATCTTATCTCCCTAAATAGTAGTGGAGCAGATCGACA-ACGACGAATCTTATCTC
1 AAATT-ACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGA-AGACGGCGAATCTTATCTC
*
68629687 TATGTATCGGCAATAGAGCA-AGTTTAAGCCACCAGCCTTATCTCCCTGAGGTTGCAGTGGAGCA
64 CATGTATCGGCAATAGAGCAGA-TTTAAGCCACCAGCCTTATCTCCCTGAGGTTGCAGTGGAGCA
* * * * * *
68629751 GGCTCAAGATACAAGTTTTATCTCCCTGAAGTTCCAATGGTGCAAACTAA
128 GGCTCAAGATACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGA
* * *
68629801 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCA
1 AAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCA
* *
68629866 TGTATCGACAATAGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAGGTTGCAG-GGAGCAAGC
66 TGTATCGGCAATAGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAGGTTGCAGTGGAGCAGGC
* ** *
68629930 TCAAGATACAAGCCTTATCTCCCTGAAGTTGTAGTGGACCAGACTGA
131 TCAAGATACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGA
* * * * *
68629977 AAATTATAGATATTATCTCTCTAAGCAGTAGTGGAGCAGATCGAATACGGCGAATCTTATCTCCA
1 AAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCA
* * * * * * *
68630042 TGTATTGGCAATGGAGCAAATTTAAGTCACCAGCCTTATCTCACTGAGGTTGTAGTGGAGCAGGA
66 TGTATCGGCAATAGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAGGTTGCAGTGGAGCAGGC
*
68630107 TCAAGATACAAGTCTTATCTCCTTGAAGTTACAGTGGAGCAGACTGA
131 TCAAGATACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGA
* * * *
68630154 AAATTGCAGATCTTATCT-CCTCAAACAATAGTAGAGCAGATCGAAGATGGCGAATCTTATCTCC
1 AAATTACAGATCTTATCTCCCT-AAACAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCC
*
68630218 ATGTATCGGCAATAGAGCAGATTTTAGCCACCAGCCTTATCT
65 ATGTATCGGCAATAGAGCAGATTTAAGCCACCAGCCTTATCT
68630260 GTCTGAGGCA
Statistics
Matches: 404, Mismatches: 51, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
176 156 0.39
177 242 0.60
178 6 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (177 bp):
AAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCA
TGTATCGGCAATAGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAGGTTGCAGTGGAGCAGGC
TCAAGATACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGA
Found at i:68630348 original size:353 final size:352
Alignment explanation
Indices: 68629635--68630280 Score: 909
Period size: 353 Copynumber: 1.8 Consensus size: 352
68629625 ATTCACAGAT
* *
68629635 CTTATCTCCCTAAATAGTAGTGGAGCAGATCGACAACGACGAATCTTATCTCTATGTATCGGCAA
1 CTTATCTCCCTAAACAGTAGTGGAGCAGATCGACAACGACGAATCTTATCTCCATGTATCGGCAA
* * *
68629700 TAGAGCAAGTTTAAGCCACCAGCCTTATCTCCCTGAGGTTGCAGTGGAGCAGGCTCAAGATACAA
66 TAGAGCAAATTTAAGCCACCAGCCTTATCTCACTGAGGTTGCAGTGGAGCAGGATCAAGATACAA
* * * * *
68629765 GTTTTATCTCCCTGAAGTTCCAATGGTGCAAACTAAAAATTACAGATCTTATCTCCCTAAGCAGT
131 GTCTTATCTCCCTGAAGTTACAATGGAGCAAACTAAAAATTACAGATCTTATCTCCCTAAACAAT
*
68629830 AGTGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGACAATAGAGCAGATTTAAGCCA
196 AGTAGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGACAATAGAGCAGATTTAAGCCA
** * * **
68629895 CCAGCCTTATCTCCCTGAGGTTGCAGGGAGCAAGCTCAAGATACAAGCCTTATCTCCCTGAAGTT
261 CCAGCCTTATCTCCCTGAGGCAGCAGAGAGCAAGCTCAAGATACAAGCCATATCTCCCTGAAGCA
* *
68629960 GTAGTGGACCAGACTGAAAATTATAGAT
326 GTAGTGGACCAGACT-AAAATCATAGAC
* * * * *
68629988 ATTATCTCTCTAAGCAGTAGTGGAGCAGATCGA-ATACGGCGAATCTTATCTCCATGTATTGGCA
1 CTTATCTCCCTAAACAGTAGTGGAGCAGATCGACA-ACGACGAATCTTATCTCCATGTATCGGCA
* * *
68630052 ATGGAGCAAATTTAAGTCACCAGCCTTATCTCACTGAGGTTGTAGTGGAGCAGGATCAAGATACA
65 ATAGAGCAAATTTAAGCCACCAGCCTTATCTCACTGAGGTTGCAGTGGAGCAGGATCAAGATACA
* * * * *
68630117 AGTCTTATCTCCTTGAAGTTACAGTGGAGCAGACTGAAAATTGCAGATCTTATCT-CCTCAAACA
130 AGTCTTATCTCCCTGAAGTTACAATGGAGCAAACTAAAAATTACAGATCTTATCTCCCT-AAACA
* * *
68630181 ATAGTAGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTTTAGC
194 ATAGTAGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGACAATAGAGCAGATTTAAGC
**
68630246 CACCAGCCTTATCTGTCTGAGGCAGCAAGAGAGCA
259 CACCAGCCTTATCTCCCTGAGGCAGC-AGAGAGCA
68630281 GGTTGAAGAT
Statistics
Matches: 258, Mismatches: 32, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
352 4 0.02
353 247 0.96
354 7 0.03
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (352 bp):
CTTATCTCCCTAAACAGTAGTGGAGCAGATCGACAACGACGAATCTTATCTCCATGTATCGGCAA
TAGAGCAAATTTAAGCCACCAGCCTTATCTCACTGAGGTTGCAGTGGAGCAGGATCAAGATACAA
GTCTTATCTCCCTGAAGTTACAATGGAGCAAACTAAAAATTACAGATCTTATCTCCCTAAACAAT
AGTAGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGACAATAGAGCAGATTTAAGCCA
CCAGCCTTATCTCCCTGAGGCAGCAGAGAGCAAGCTCAAGATACAAGCCATATCTCCCTGAAGCA
GTAGTGGACCAGACTAAAATCATAGAC
Found at i:68631015 original size:21 final size:22
Alignment explanation
Indices: 68630991--68631043 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 22
68630981 AGGTGATTTC
*
68630991 ATTTTTTTTATTTTCTT-TCTT
1 ATTTTTTTTAGTTTCTTATCTT
* *
68631012 A-TTTTTTGAGTTTCTTATTTT
1 ATTTTTTTTAGTTTCTTATCTT
68631033 ATTTTTTTTAG
1 ATTTTTTTTAG
68631044 ATATATAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 13 0.50
21 5 0.19
22 8 0.31
ACGTcount: A:0.13, C:0.06, G:0.06, T:0.75
Consensus pattern (22 bp):
ATTTTTTTTAGTTTCTTATCTT
Found at i:68631864 original size:3 final size:3
Alignment explanation
Indices: 68631844--68631882 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
68631834 CTATCTCCCA
* *
68631844 TAT TAT TAA TAT TA- TAT TAT TAT TCT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
68631883 GATGTTATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:68638237 original size:38 final size:38
Alignment explanation
Indices: 68638140--68638276 Score: 166
Period size: 38 Copynumber: 3.6 Consensus size: 38
68638130 CGAGGTATAA
* * *
68638140 AACCCGAACATAACACCAGCACGAAGCCTACGGGACTTT
1 AACCCGGATATAATACCAGCACGAAGCCTACGGGA-TTT
* * * * *
68638179 AAACTCAGATATAATACCAGCACTAGGCCTACGAGATTT
1 -AACCCGGATATAATACCAGCACGAAGCCTACGGGATTT
*
68638218 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
1 AACCCGGATATAATACCAGCACGAAGCCTACGGGATTT
*
68638256 AACCCGGATATAATTCCAGCA
1 AACCCGGATATAATACCAGCA
68638277 TATAGCCTAC
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
38 52 0.63
39 3 0.04
40 27 0.33
ACGTcount: A:0.36, C:0.28, G:0.18, T:0.18
Consensus pattern (38 bp):
AACCCGGATATAATACCAGCACGAAGCCTACGGGATTT
Found at i:68638305 original size:78 final size:78
Alignment explanation
Indices: 68638140--68638286 Score: 192
Period size: 78 Copynumber: 1.9 Consensus size: 78
68638130 CGAGGTATAA
* * * *
68638140 AACCCGAACATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGATATAATACCAGCACTAG
1 AACCCGGATATAACACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACTAA
68638205 GCCTACGAGATTT
66 GCCTACGAGATTT
* * * *
68638218 AACCCGGATATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGATATAATTCCAGCA-TAT
1 AACCCGGATATAACACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACTA-
68638280 AGCCTAC
65 AGCCTAC
68638287 TGGTCTTTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
75 2 0.03
76 24 0.40
77 3 0.05
78 31 0.52
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.19
Consensus pattern (78 bp):
AACCCGGATATAACACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACTAA
GCCTACGAGATTT
Found at i:68643959 original size:31 final size:33
Alignment explanation
Indices: 68643912--68644018 Score: 103
Period size: 31 Copynumber: 3.1 Consensus size: 33
68643902 TAAAAGAAAT
68643912 TATC-TATTGGGTAAGAATTTTGTATTGAAAAAC
1 TATCATATT-GGTAAGAATTTTGTATTGAAAAAC
* *
68643945 TATCATATT-G-AAGAATTTTGGATGAGGAGACAAATC
1 TATCATATTGGTAAGAATTTTGTAT--TGA-A-AAA-C
*
68643981 TATCATATTGGGTAAGAATTTTGTATTGAAAAAT
1 TATCATATT-GGTAAGAATTTTGTATTGAAAAAC
68644015 TATC
1 TATC
68644019 TTCTTTATCT
Statistics
Matches: 60, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
31 12 0.20
32 1 0.02
33 6 0.10
34 9 0.15
35 6 0.10
36 11 0.18
37 2 0.03
38 1 0.02
39 12 0.20
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (33 bp):
TATCATATTGGTAAGAATTTTGTATTGAAAAAC
Found at i:68646795 original size:40 final size:40
Alignment explanation
Indices: 68646747--68646827 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
68646737 TCATTACACC
* *
68646747 ATATGGGGATAAAATCGACCCACCCATCCCTGCACACCAT
1 ATATGGGGATAAAATCGACCCACCCAACCCTACACACCAT
* *
68646787 ATATGGGGATATAATCGACCCATCCAACCCTACACACCAT
1 ATATGGGGATAAAATCGACCCACCCAACCCTACACACCAT
68646827 A
1 A
68646828 AGGTACCGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.35, C:0.33, G:0.14, T:0.19
Consensus pattern (40 bp):
ATATGGGGATAAAATCGACCCACCCAACCCTACACACCAT
Found at i:68656301 original size:18 final size:18
Alignment explanation
Indices: 68656278--68656313 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
68656268 ACTACATAAA
* *
68656278 ATATTATTAAATTTTAAT
1 ATATTAATAAATGTTAAT
68656296 ATATTAATAAATGTTAAT
1 ATATTAATAAATGTTAAT
68656314 TACGAATTTA
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
ATATTAATAAATGTTAAT
Found at i:68660333 original size:24 final size:24
Alignment explanation
Indices: 68660279--68660348 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 24
68660269 GTCATGGTCG
*
68660279 GTAAGCTCTTACTGAGCTGATAAATA
1 GTAAGCT-TTATTGAGCTGA-AAATA
*
68660305 GTAAGCTTTATTGAGTTGAAAAT-
1 GTAAGCTTTATTGAGCTGAAAATA
*
68660328 GATAAGTTTTATTGAGCTGAA
1 G-TAAGCTTTATTGAGCTGAA
68660349 CAGTAAGCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.03
24 21 0.54
25 10 0.26
26 7 0.18
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (24 bp):
GTAAGCTTTATTGAGCTGAAAATA
Found at i:68660412 original size:23 final size:23
Alignment explanation
Indices: 68660341--68660413 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
68660331 AAGTTTTATT
*
68660341 GAGCTG-AACAGTAAGCTCTTTC
1 GAGCTGAAACAGTAAGCTCTTAC
* * * *
68660363 GAGCTGAATCGGTAAGCTAC-AAT
1 GAGCTGAAACAGTAAGCT-CTTAC
*
68660386 GAGCTGAAACAATAAGCTCTTAC
1 GAGCTGAAACAGTAAGCTCTTAC
68660409 GAGCT
1 GAGCT
68660414 ATGGTGAGTC
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
22 7 0.18
23 30 0.79
24 1 0.03
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCTTAC
Found at i:68680679 original size:19 final size:20
Alignment explanation
Indices: 68680638--68680703 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
68680628 TAAAATACAA
**
68680638 ATTTTAGAATTTTTATGAA-T
1 ATTTT-GAATTTTTAAAAATT
68680658 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
* *
68680677 ATTTTCAATTTTTGAAAATT
1 ATTTTGAATTTTTAAAAATT
68680697 ATTTTGA
1 ATTTTGA
68680704 TTGTTTTGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
18 7 0.18
19 11 0.28
20 21 0.54
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.55
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:68684721 original size:22 final size:21
Alignment explanation
Indices: 68684690--68684737 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
68684680 AAATATTATG
68684690 TTATTTTTAAAAT-TTAAAAT
1 TTATTTTTAAAATATTAAAAT
*
68684710 TGTATTGTTTAAAATATTTAAAT
1 T-TATT-TTTAAAATATTAAAAT
68684733 TTATT
1 TTATT
68684738 ATTTTAGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.04
21 4 0.17
22 12 0.50
23 7 0.29
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
TTATTTTTAAAATATTAAAAT
Found at i:68684743 original size:23 final size:22
Alignment explanation
Indices: 68684693--68684743 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
68684683 TATTATGTTA
68684693 TTTTTAAAATTTAAAATTGTAT
1 TTTTTAAAATTTAAAATTGTAT
* *
68684715 TGTTTAAAATATTTAAATT-TAT
1 TTTTTAAAAT-TTAAAATTGTAT
68684737 TATTTTA
1 T-TTTTA
68684744 GTATGCTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (22 bp):
TTTTTAAAATTTAAAATTGTAT
Found at i:68687212 original size:30 final size:30
Alignment explanation
Indices: 68687178--68687234 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
68687168 TTTTCCAGCA
*
68687178 TAGGGGTAAAATGGTCATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTCATTTTGCCAAAGTT
*
68687208 TAGGGGCAAAATGGTCATTTTTCCAAA
1 TAGGGGCAAAATGGTCATTTTGCCAAA
68687235 TATGTGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTGCCAAAGTT
Found at i:68687722 original size:46 final size:45
Alignment explanation
Indices: 68687575--68687890 Score: 194
Period size: 46 Copynumber: 6.7 Consensus size: 45
68687565 ATTTCTTGTG
* * * *
68687575 TGCCAGTGTAAGACATGCCTGGGTCATGCATC-AGCCAC-ATTATGA
1 TGCCAGTGTAAGACATGTCTGGGACATGCATCGA-CCTCGA-GATGA
* * * * * *
68687620 GTGCCAGTATAAGACCATGTCTAGGACATGGCATCGGCATAGAGACGA
1 -TGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGATGA
*
68687668 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGCGATGA
1 -TGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATGA
* * * * * *
68687714 TAGCCAGTGTAAGACGTGTCTGGAACACGCATCG-GCTAAGAGTTG-
1 T-GCCAGTGTAAGACATGTCTGGGACATGCATCGACCT-CGAGATGA
* * * *
68687759 TGCTAGTGTAAGACATGTCTGGGACATGCATC-AGCACGTATATACAAGA
1 TGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCG-AGAT----GA
* * * *
68687808 -GCTAGTATAAGACCATGCCTGGGACATGGCATCGGCCTCGATGATGA
1 TGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGA-GATGA
68687855 TAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 T-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
68687891 GTAACTTATC
Statistics
Matches: 210, Mismatches: 41, Indels: 35
0.73 0.14 0.12
Matches are distributed among these distances:
43 1 0.00
44 31 0.15
45 4 0.02
46 58 0.28
47 26 0.12
48 34 0.16
49 45 0.21
50 6 0.03
51 5 0.02
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (45 bp):
TGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATGA
Found at i:68688724 original size:55 final size:55
Alignment explanation
Indices: 68688657--68688772 Score: 153
Period size: 55 Copynumber: 2.1 Consensus size: 55
68688647 TAAACTTTTT
* * * *
68688657 AGTCAGTGTTGTACACGGGTAGGCCACACGTGCGTGTGCCATGGCCATG-TCTTAA
1 AGTCAGTATTGTACACGGGCAGGCCACACGGGCATGTGCCATGGCCATGTTCTT-A
* * *
68688712 AGTCAGTATTGTATACGGGCAGGTCACATGGGCATGTGCCATGGCCATGTTCTTA
1 AGTCAGTATTGTACACGGGCAGGCCACACGGGCATGTGCCATGGCCATGTTCTTA
68688767 AGTCAG
1 AGTCAG
68688773 ATTCACACAC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
55 49 0.92
56 4 0.08
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (55 bp):
AGTCAGTATTGTACACGGGCAGGCCACACGGGCATGTGCCATGGCCATGTTCTTA
Found at i:68689656 original size:20 final size:19
Alignment explanation
Indices: 68689622--68689659 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
68689612 ATGCTTAGGA
68689622 GCCATACAAGTATCAATAC
1 GCCATACAAGTATCAATAC
*
68689641 GCCATCACAGGTATCAATA
1 GCCAT-ACAAGTATCAATA
68689660 TTTTAGAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.21
Consensus pattern (19 bp):
GCCATACAAGTATCAATAC
Found at i:68700786 original size:43 final size:43
Alignment explanation
Indices: 68700720--68700889 Score: 190
Period size: 43 Copynumber: 4.0 Consensus size: 43
68700710 AGCTCGTACA
*
68700720 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACTGTCCCAGACGTGGTCTTACATGAAATCAAATAT-G
68700763 ATGCC-ACTGTCCCAGACAG-GGTCTTACATGAAATCAAATATG
1 ATGCCAACTGTCCCAGAC-GTGGTCTTACATGAAATCAAATATG
* * *
68700805 ATGCCGA-TGTCCCAGACATGGTCTTACACGTAACTATCAAAT-TG
1 ATGCCAACTGTCCCAGACGTGGTCTTACATG-AA--ATCAAATATG
* * *
68700849 ATGCCAA-TGTCCCAAACGTGATCTTACATGAAATCACATAT
1 ATGCCAACTGTCCCAGACGTGGTCTTACATGAAATCAAATAT
68700890 CGGAATCCTA
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
41 6 0.05
42 29 0.26
43 40 0.36
44 28 0.25
45 7 0.06
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACGTGGTCTTACATGAAATCAAATATG
Found at i:68700879 original size:86 final size:85
Alignment explanation
Indices: 68700728--68700889 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 85
68700718 CAATGCCAAC
* * * * *
68700728 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACATG
1 GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAAACAGGATCTTACATG
68700793 AAATCAAATATGATGCCGAT
66 AAATCAAATATGATGCCGAT
68700813 GTCCCAGACATGGTCTTACACGTAACTATCAAAT-T-GATGCCAATGTCCCAAAC-GTGATCTTA
1 GTCCCAGACATGGTCTTACACGT-A--ATCAAATATCGATGCCAATGTCCCAAACAG-GATCTTA
*
68700875 CATGAAATCACATAT
62 CATGAAATCAAATAT
68700890 CGGAATCCTA
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
85 22 0.33
86 37 0.55
87 1 0.01
88 7 0.10
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (85 bp):
GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAAACAGGATCTTACATG
AAATCAAATATGATGCCGAT
Found at i:68701798 original size:22 final size:21
Alignment explanation
Indices: 68701758--68701803 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
68701748 TATTTATCTT
*
68701758 ATAATTAATTAGTAAATT-AC
1 ATAATTAATTAATAAATTAAC
68701778 ATAATTAACCTTAATAAATTAAC
1 ATAATTAA--TTAATAAATTAAC
68701801 ATA
1 ATA
68701804 TAAAACACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
22 9 0.41
23 5 0.23
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.37
Consensus pattern (21 bp):
ATAATTAATTAATAAATTAAC
Found at i:68719652 original size:20 final size:20
Alignment explanation
Indices: 68719629--68719675 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
68719619 CATGCCCGTA
*
68719629 TGGCTTGGGACACGCCCATG
1 TGGCTTGGAACACGCCCATG
* * *
68719649 TGGCCTGGAACATGCCCGTG
1 TGGCTTGGAACACGCCCATG
68719669 TGGCTTG
1 TGGCTTG
68719676 CCCAAGTGCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.13, C:0.28, G:0.36, T:0.23
Consensus pattern (20 bp):
TGGCTTGGAACACGCCCATG
Found at i:68720672 original size:116 final size:116
Alignment explanation
Indices: 68720467--68720697 Score: 435
Period size: 116 Copynumber: 2.0 Consensus size: 116
68720457 CTAATTCCAA
*
68720467 CAACTTTCACAATTAGGTCCTAAAATAAATTTCTATGCAAATCTTTTCATAAAATCATCATATAA
1 CAACTTTCACAATTAGGTCCTAAAATAAATTTCTATGCAAATCTCTTCATAAAATCATCATATAA
*
68720532 TGAAATTAAAACCTTAATTACATGATAAATCATCATAAAATTTCAGCACTC
66 TGAAATTAAAACCTTAATTACATGATAAATCATCATAAAATTTCAACACTC
68720583 CAACTTTCACAATTAGGTCCTAAAATAAATTTCTATGCAAATCTCTTCATAAAATCATCATATAA
1 CAACTTTCACAATTAGGTCCTAAAATAAATTTCTATGCAAATCTCTTCATAAAATCATCATATAA
*
68720648 TGAAATTAAAACCTTAATTCCATGATAAATCATCATAAAATTTCAACACT
66 TGAAATTAAAACCTTAATTACATGATAAATCATCATAAAATTTCAACACT
68720698 TGATTTAGTC
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 112 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (116 bp):
CAACTTTCACAATTAGGTCCTAAAATAAATTTCTATGCAAATCTCTTCATAAAATCATCATATAA
TGAAATTAAAACCTTAATTACATGATAAATCATCATAAAATTTCAACACTC
Found at i:68721140 original size:92 final size:92
Alignment explanation
Indices: 68720983--68721166 Score: 341
Period size: 92 Copynumber: 2.0 Consensus size: 92
68720973 GCAAAAACTA
*
68720983 TTGAATTAGATATTAGGACCTAGTTGCAAAAGTCTCAAAATCACCAAAATCACAAGAAATAATCA
1 TTGAATTAGATATTAGGACCTAGTTGCAAAAGTCTCAAAATCACAAAAATCACAAGAAATAATCA
*
68721048 AGAATGGAGCTTACATGTAATAGAAAT
66 AGAATGAAGCTTACATGTAATAGAAAT
68721075 TTGAATTAGATATTAGGACCTAGTTGCAAAAGTCTCAAAATCACAAAAATCACAAGAAATAATCA
1 TTGAATTAGATATTAGGACCTAGTTGCAAAAGTCTCAAAATCACAAAAATCACAAGAAATAATCA
*
68721140 AGAATTAAGCTTACATGTAATAGAAAT
66 AGAATGAAGCTTACATGTAATAGAAAT
68721167 ATGAGAGACC
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.26
Consensus pattern (92 bp):
TTGAATTAGATATTAGGACCTAGTTGCAAAAGTCTCAAAATCACAAAAATCACAAGAAATAATCA
AGAATGAAGCTTACATGTAATAGAAAT
Found at i:68726835 original size:20 final size:20
Alignment explanation
Indices: 68726785--68726842 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
68726775 AGATAGAGGT
* * *
68726785 ACATGCCCGTGTGGCTTGGG
1 ACATGCTCGTGTGGCCTGGA
*
68726805 ACACG-TCCGTGTGGCCTGGA
1 ACATGCT-CGTGTGGCCTGGA
68726825 ACATGCTCGTGTGGCCTG
1 ACATGCTCGTGTGGCCTG
68726843 CCCATGTGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.12, C:0.28, G:0.36, T:0.24
Consensus pattern (20 bp):
ACATGCTCGTGTGGCCTGGA
Found at i:68727352 original size:42 final size:42
Alignment explanation
Indices: 68727297--68727388 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
68727287 AGACACAAGT
*
68727297 AAGCTTACAGAAGCTTAGTAAGCTCATAGGCATAATTTCACA
1 AAGCTTACAGAAGCTTAGTAAGCTCATAGGCATAATCTCACA
*
68727339 AAGCTTATAGAAGCTTAGTAAGCTCATAGGCATAATCTCACA
1 AAGCTTACAGAAGCTTAGTAAGCTCATAGGCATAATCTCACA
*
68727381 AATCTTAC
1 AAGCTTAC
68727389 CAAATATAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (42 bp):
AAGCTTACAGAAGCTTAGTAAGCTCATAGGCATAATCTCACA
Found at i:68729964 original size:28 final size:28
Alignment explanation
Indices: 68729932--68730001 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
68729922 TATGGTACTC
*
68729932 AGTGTACGAAATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
68729960 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
68729988 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
68730002 CGAATGATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:68732785 original size:29 final size:30
Alignment explanation
Indices: 68732742--68732822 Score: 76
Period size: 32 Copynumber: 2.7 Consensus size: 30
68732732 TTGTTGATGA
68732742 TATTTTA-TAACTATTAATTAGATA-AATAT
1 TATTTTATTAA-TATTAATTAGATATAATAT
* **
68732771 TATTTTATTAATATTTTAATAAGATATTTTAT
1 TATTTTATTAATA--TTAATTAGATATAATAT
* *
68732803 TATTTTATTATTATTTATTA
1 TATTTTATTAATATTAATTA
68732823 AGTATAAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
29 9 0.21
30 8 0.19
31 10 0.24
32 15 0.36
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.58
Consensus pattern (30 bp):
TATTTTATTAATATTAATTAGATATAATAT
Found at i:68738370 original size:22 final size:23
Alignment explanation
Indices: 68738345--68738390 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
68738335 CAACCAAATC
68738345 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
68738367 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
68738390 A
1 A
68738391 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:68738396 original size:23 final size:23
Alignment explanation
Indices: 68738352--68738396 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
68738342 ATCAATTCAA
*
68738352 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
68738375 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
68738397 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:68743548 original size:20 final size:21
Alignment explanation
Indices: 68743520--68743558 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
68743510 CGACCTAAAG
*
68743520 CCTTCACCT-TAAATTTACAA
1 CCTTCACCTCTAAAATTACAA
*
68743540 CCTTTACCTCTAAAATTAC
1 CCTTCACCTCTAAAATTAC
68743559 GAGAACCTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (21 bp):
CCTTCACCTCTAAAATTACAA
Found at i:68754573 original size:55 final size:55
Alignment explanation
Indices: 68754469--68754601 Score: 151
Period size: 55 Copynumber: 2.4 Consensus size: 55
68754459 GCACTTAAAA
* * * * **
68754469 TTTTAAGTCAATGTTGTACACAGGCAGTCTACACTGGCGTGTGCCATGGCCGTGT
1 TTTTAAGTCAGTGTTGTACACGGGCAGGCCACACTGGAATGTGCCATGGCCGTGT
**
68754524 TTTTAAGTCAGTGTTGTACACGGGCAGGCCACA-TAGGAATGTGTTATGGCCGTGT
1 TTTTAAGTCAGTGTTGTACACGGGCAGGCCACACT-GGAATGTGCCATGGCCGTGT
* * *
68754579 TCTAAAGTCAGTGTTGCACACGG
1 TTTTAAGTCAGTGTTGTACACGG
68754602 ACTAAGGGCA
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
54 1 0.02
55 65 0.98
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (55 bp):
TTTTAAGTCAGTGTTGTACACGGGCAGGCCACACTGGAATGTGCCATGGCCGTGT
Found at i:68762927 original size:21 final size:20
Alignment explanation
Indices: 68762898--68762936 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
68762888 ACGCCTACGA
68762898 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
68762918 AAAGAGTCGCTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
68762937 TCCATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
AAAGATCGCTTGGATTTAAG
Found at i:68763129 original size:15 final size:15
Alignment explanation
Indices: 68763109--68763147 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
68763099 TATCATTTCA
68763109 ATATATAATTTAAAT
1 ATATATAATTTAAAT
68763124 ATATATAAATTTAAAT
1 ATATAT-AATTTAAAT
68763140 ATAT-TAAT
1 ATATATAAT
68763148 AATATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.13
15 7 0.30
16 13 0.57
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATATATAATTTAAAT
Found at i:68764911 original size:13 final size:13
Alignment explanation
Indices: 68764893--68764926 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
68764883 ACCTCCTTGG
68764893 ATTAAATTATTAA
1 ATTAAATTATTAA
68764906 ATTAAAATTATTAA
1 ATT-AAATTATTAA
68764920 A-TAAATT
1 ATTAAATT
68764927 GAAATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.25
13 4 0.20
14 11 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTAAATTATTAA
Found at i:68770998 original size:205 final size:205
Alignment explanation
Indices: 68770639--68771086 Score: 770
Period size: 205 Copynumber: 2.2 Consensus size: 205
68770629 NNNNNNNNNN
*
68770639 CACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGGCAAACCAT
1 CACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCAT
* * *
68770704 CTTGGATCTGCTTCAGTATAAACATTTGAAGGTTGGATCTGCTATGTGTCTACCCTCCATCGAAG
66 CTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTACTATGTGTCTACCCTCCATCGAAG
68770769 TGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCT
131 TGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCT
* *
68770834 TTAACGTAAG
196 TCAACGTAAA
68770844 CACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCAT
1 CACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCAT
* * * *
68770909 CTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTACTATGTGTCTGCCTTTCGTCGAAG
66 CTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTACTATGTGTCTACCCTCCATCGAAG
* **
68770974 TGGAGATGCTAGACTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCT
131 TGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCT
68771039 TCAACGTAAA
196 TCAACGTAAA
*
68771049 CACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTC
1 CACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTC
68771087 TCCGCCTGAT
Statistics
Matches: 229, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
205 229 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (205 bp):
CACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCAT
CTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTACTATGTGTCTACCCTCCATCGAAG
TGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCT
TCAACGTAAA
Found at i:68771348 original size:61 final size:64
Alignment explanation
Indices: 68771231--68771355 Score: 195
Period size: 61 Copynumber: 2.0 Consensus size: 64
68771221 TAATGTATCC
68771231 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
* *
68771295 ATGCTTTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGC-TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
68771356 TTATTGTAGA
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
61 31 0.53
62 1 0.02
63 1 0.02
64 5 0.09
65 20 0.34
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:68772443 original size:7 final size:7
Alignment explanation
Indices: 68772431--68772471 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
68772421 ATGGCCTCTC
68772431 CTTTTTT
1 CTTTTTT
68772438 CTTTTTT
1 CTTTTTT
68772445 C-TTTTT
1 CTTTTTT
*
68772451 -TTTTCT
1 CTTTTTT
68772457 CTTTTTTT
1 C-TTTTTT
68772465 CTTTTTT
1 CTTTTTT
68772472 GGTCTTAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 9 0.31
7 14 0.48
8 6 0.21
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
CTTTTTT
Found at i:68772454 original size:10 final size:10
Alignment explanation
Indices: 68772439--68772471 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
68772429 TCCTTTTTTC
68772439 TTTTTTCTTT
1 TTTTTTCTTT
*
68772449 TTTTTTCTCT
1 TTTTTTCTTT
68772459 TTTTTTCTTT
1 TTTTTTCTTT
68772469 TTT
1 TTT
68772472 GGTCTTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:68777878 original size:23 final size:22
Alignment explanation
Indices: 68777826--68777878 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
68777816 TCCACGTCTT
*
68777826 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
68777848 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
68777871 TTTCTTTT
1 TTTCTTTT
68777879 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:68785038 original size:24 final size:23
Alignment explanation
Indices: 68784984--68785039 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
68784974 GGATAACTAA
* *
68784984 GAAAGGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGATTTGGTAC
***
68785007 GTTTTGGTATTTGGGATTTGGTAC
1 GAAATGGTATTT-GGATTTGGTAC
68785031 GAAATGGTA
1 GAAATGGTA
68785040 ATGGTTCAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.21, C:0.04, G:0.34, T:0.41
Consensus pattern (23 bp):
GAAATGGTATTTGGATTTGGTAC
Found at i:68786836 original size:14 final size:13
Alignment explanation
Indices: 68786817--68786855 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
68786807 AAGAGAGAAG
68786817 AAATTCAGAAAAAA
1 AAATTCA-AAAAAA
68786831 AAATTC-AAAAAA
1 AAATTCAAAAAAA
*
68786843 AAATTGAAAAAAA
1 AAATTCAAAAAAA
68786856 GGAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 11 0.48
13 6 0.26
14 6 0.26
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.15
Consensus pattern (13 bp):
AAATTCAAAAAAA
Done.