Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold9
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: 3883850
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 144036 characters in sequence are not A, C, G, or T
File 17 of 24
Found at i:2509775 original size:53 final size:53
Alignment explanation
Indices: 2509711--2509847 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
2509701 CTACTACCAA
*
2509711 TGTATCGATACATATTTTGCGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* * *
2509764 TGTATCGATACATATTGTGTGTATTGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
2509817 TGTATCGATACATATTTATGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
2509848 TATGCAATTT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 65 0.84
54 12 0.16
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:2509842 original size:20 final size:20
Alignment explanation
Indices: 2509817--2509887 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
2509807 GCCAATGTCC
*
2509817 TGTATCGATACATATTTATG
1 TGTATCGATACATATTAATG
* *
2509837 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
2509857 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
2509877 TGTATCGATAC
1 TGTATCGATAC
2509888 TTTTCAGGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 3 0.07
20 39 0.91
21 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:2509953 original size:21 final size:21
Alignment explanation
Indices: 2509927--2509967 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2509917 GTCAACCTTG
2509927 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
2509948 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
2509968 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:2511036 original size:13 final size:13
Alignment explanation
Indices: 2511018--2511044 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2511008 ACATGCTGCT
2511018 TTGTATCGATACA
1 TTGTATCGATACA
2511031 TTGTATCGATACA
1 TTGTATCGATACA
2511044 T
1 T
2511045 GTTTATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2511059 original size:32 final size:33
Alignment explanation
Indices: 2511001--2511063 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
2510991 CACCCAAATA
2511001 TATCGATACATGCTGCTTTGTATCGATACATTG
1 TATCGATACATGCTGCTTTGTATCGATACATTG
*
2511034 TATCGATACATG-T-TTATTGTATCGATACAT
1 TATCGATACATGCTGCT-TTGTATCGATACAT
2511064 GGCCAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.04
32 15 0.54
33 12 0.43
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (33 bp):
TATCGATACATGCTGCTTTGTATCGATACATTG
Found at i:2511141 original size:20 final size:20
Alignment explanation
Indices: 2511116--2511167 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
2511106 ATCACTATTT
** *
2511116 GTATCGATACATGGTACAAC
1 GTATCGATACATGAAAAAAC
*
2511136 GTATCGATACATGAAAAAAT
1 GTATCGATACATGAAAAAAC
2511156 GTATCGATACAT
1 GTATCGATACAT
2511168 AGTATCTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.27
Consensus pattern (20 bp):
GTATCGATACATGAAAAAAC
Found at i:2513012 original size:43 final size:45
Alignment explanation
Indices: 2512948--2513133 Score: 187
Period size: 49 Copynumber: 3.9 Consensus size: 45
2512938 TTGGCACCTT
* *
2512948 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-A-G
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACC
*
2512991 CGTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTC
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATT-G-A-C-C
* *
2513040 CATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCCTC
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATT-G-A--C-C
* * *
2513090 GTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTG
1 --CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
2513134 GCACCTTTTC
Statistics
Matches: 126, Mismatches: 8, Indels: 10
0.88 0.06 0.07
Matches are distributed among these distances:
43 39 0.31
46 1 0.01
49 42 0.33
50 4 0.03
51 1 0.01
52 39 0.31
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (45 bp):
CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACC
Found at i:2513065 original size:49 final size:49
Alignment explanation
Indices: 2512936--2513184 Score: 278
Period size: 52 Copynumber: 5.1 Consensus size: 49
2512926 GGGGACACCT
*
2512936 CATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
1 CATTGGCACCTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
* * *
2512985 CATT---A---GCGTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
1 CATTGGCACCTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
* *
2513028 CATTGGCACCTCCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCA
1 CATTGGCACCTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
* *
2513077 TATTGGCACCCTCGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCA
1 CATTGGCA-CCTC--CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
* * * * *
2513129 TATTGGCACCTTTTCCATCTTGAA-CCCAATGTCGCTGGCCATGAATCAGCA
1 CATTGGCACC---TCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
2513180 CATTG
1 CATTG
2513185 TCATTTTTCG
Statistics
Matches: 175, Mismatches: 13, Indels: 22
0.83 0.06 0.10
Matches are distributed among these distances:
43 39 0.22
46 2 0.01
49 46 0.26
50 4 0.02
51 31 0.18
52 51 0.29
54 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (49 bp):
CATTGGCACCTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
Found at i:2513179 original size:51 final size:52
Alignment explanation
Indices: 2513010--2513210 Score: 209
Period size: 52 Copynumber: 3.9 Consensus size: 52
2513000 GTCCAATATA
* * * *
2513010 GCTGGCCTTGAATCAGCACATTGGCACC---TCCATCTTTAAGTCCAATATT
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTGAAGCCCAATGTC
* ** * *
2513059 GCTGGCCTTGAATCAGCATATTGGCACCCTCGT-CATCTTTAAGTCCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCA-CCTTTTCCATCTTGAAGCCCAATGTC
*
2513111 GCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTGAA-CCCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTGAAGCCCAATGTC
* * *
2513162 GCTGGCCATGAATCAGCACATTGTCA-TTTTTCGCATCTTCG-AGCCCAAT
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTTC-CATCTT-GAAGCCCAAT
2513211 ATTGCTAGCC
Statistics
Matches: 133, Mismatches: 11, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
49 25 0.19
50 7 0.05
51 42 0.32
52 58 0.44
53 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (52 bp):
GCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTGAAGCCCAATGTC
Found at i:2513210 original size:103 final size:104
Alignment explanation
Indices: 2512993--2513525 Score: 394
Period size: 103 Copynumber: 5.0 Consensus size: 104
2512983 CACATTAGCG
* * *
2512993 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC---TCCATCTTTAAGTCCAA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAA
* * * * *
2513055 TATTGCTGGCCTTGAATCAGCATATTGGCA-CCCTCGTCA
66 TATCGCTGGCCATGAATCAGCATATTGTCATTCTTCG-CA
* *
2513094 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTGAA-CCCAA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAA
* * *
2513158 TGTCGCTGGCCATGAATCAGCACATTGTCATTTTTCGCA
66 TATCGCTGGCCATGAATCAGCATATTGTCATTCTTCGCA
** * * * ** *
2513197 TCTTCGAGCCCAATATTGCTAGCC--GCATATTGGC-TCATT--TATCCTTTTTCTCATCTTTAA
1 TCTTTAAGTCCAATATCGCTGGCCTTG-A-ATCAGCAT-ATTGGCA-CC-TTTTC-CATCTTTAA
* ** * * *
2513257 GCCCAATATCGTTGGCTGTGAATCAACGTATTGGTCCCTTTATTACTCCTCTTCCTCATCA
60 GCCCAATATCGCTGGCCATGAATCAGCATATT-GT--C------A-T--TC-T--TC-GCA
* * * * *
2513318 TCTTTAAGTCCAATATAGCTGGCTTTGAATTAGCACATTGGCACC---TCCATCTTTAAGTCCAA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAA
* * *
2513380 TATCGCTGGCCTTGAATCAGCATATTGTCA-CCCTCGTCA
66 TATCGCTGGCCATGAATCAGCATATTGTCATTCTTCG-CA
* *
2513419 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTGAA-CCCAA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAA
* *
2513483 TGTCGCTGGCCATGAATCAGCACATTGTCATTCTTCGCA
66 TATCGCTGGCCATGAATCAGCATATTGTCATTCTTCGCA
2513522 TCTT
1 TCTT
2513526 CGAGCCCAAT
Statistics
Matches: 333, Mismatches: 62, Indels: 72
0.71 0.13 0.15
Matches are distributed among these distances:
101 88 0.26
102 4 0.01
103 98 0.29
104 36 0.11
105 24 0.07
106 2 0.01
108 2 0.01
114 2 0.01
115 1 0.00
116 2 0.01
117 36 0.11
118 3 0.01
120 2 0.01
121 28 0.08
122 3 0.01
123 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.34
Consensus pattern (104 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGCCCAA
TATCGCTGGCCATGAATCAGCATATTGTCATTCTTCGCA
Found at i:2513289 original size:156 final size:156
Alignment explanation
Indices: 2513091--2513615 Score: 487
Period size: 156 Copynumber: 3.3 Consensus size: 156
2513081 GGCACCCTCG
* * *
2513091 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTGAACCC
1 TCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTTCCATCTTGAACCC
*
2513156 AATGTCGCTGGCCATGAATCAGCACATTGTCATTTTTCGCATCTTCGAGCCCAATATTGCTAGCC
66 AATGTCGCTGGCCATGAATCAGCACATTGTCATTCTTCGCATCTTCGAGCCCAATATTGCTAGCC
2513221 GCATATTGGCTCATTTATCCTTTTTC
131 GCATATTGGCTCATTTATCCTTTTTC
* *
2513247 TCATCTTTAAGCCCAATATCGTTGG-CTGTGAATCAACGTATTGGTCCCTTTATTACTCCTCTTC
1 TCATCTTTAAGCCCAATATCGCTGGCCT-TGAATCAACATATTGG---C------A--CCT-TT-
* * * * ** * * * **
2513311 CTCATCATCTTTAAGTCCAATATAGCTGGCTTTGAATTAGCACATTGGCA--CCTC-CATCTTTA
52 -TC--CATCTTGAA-CCCAATGTCGCTGGCCATGAATCAGCACATTGTCATTCTTCGCATCTTCG
* * * ** *
2513373 AGTCCAATATCGCTGGCCTTG-A-ATCAGCAT-ATTGTCA-CC---CTC
113 AGCCCAATATTGCTAGCC--GCATATTGGC-TCATT-T-ATCCTTTTTC
* * *
2513415 GTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTGAACC
1 -TCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTTCCATCTTGAACC
2513480 CAATGTCGCTGGCCATGAATCAGCACATTGTCATTCTTCGCATCTTCGAGCCCAATATTGCTAGC
65 CAATGTCGCTGGCCATGAATCAGCACATTGTCATTCTTCGCATCTTCGAGCCCAATATTGCTAGC
*
2513545 CGCATATTGGCTCCTTTATCCTTTTTC
130 CGCATATTGGCTCATTTATCCTTTTTC
* * *
2513572 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACGTATTGG
1 TCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGG
2513616 TCCCTTTATT
Statistics
Matches: 282, Mismatches: 52, Indels: 70
0.70 0.13 0.17
Matches are distributed among these distances:
152 28 0.10
153 10 0.04
154 8 0.03
155 31 0.11
156 74 0.26
157 4 0.01
158 3 0.01
159 1 0.00
160 1 0.00
165 1 0.00
166 1 0.00
167 3 0.01
168 4 0.01
169 36 0.13
170 32 0.11
171 7 0.02
172 10 0.04
173 28 0.10
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (156 bp):
TCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTTCCATCTTGAACCC
AATGTCGCTGGCCATGAATCAGCACATTGTCATTCTTCGCATCTTCGAGCCCAATATTGCTAGCC
GCATATTGGCTCATTTATCCTTTTTC
Found at i:2513431 original size:52 final size:50
Alignment explanation
Indices: 2513310--2513509 Score: 233
Period size: 52 Copynumber: 3.9 Consensus size: 50
2513300 TACTCCTCTT
* * *
2513310 CCTCATCATCTTTAAGTCCAATATAGCTGGCTTTGAATTAGCACATTGGCA
1 CCTC-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
2513361 CCTC-CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGTCA
1 CCTCTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
2513410 CCCTCGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
1 -CCTC-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
2513462 CCTTTTCCATCTTGAA-CCCAATGTCGCTGGCCATGAATCAGCACATTG
1 CC-TCT-CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
2513510 TCATTCTTCG
Statistics
Matches: 132, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
49 40 0.30
50 4 0.03
51 36 0.27
52 52 0.39
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.32
Consensus pattern (50 bp):
CCTCTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:2513524 original size:51 final size:51
Alignment explanation
Indices: 2513376--2513535 Score: 173
Period size: 52 Copynumber: 3.1 Consensus size: 51
2513366 ATCTTTAAGT
* * * * *
2513376 CCAATATCGCTGGCCTTGAATCAGCATATTGTCA-CCCTCGTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGTCATTCTTCG-CATCTTGAA-C
*
2513428 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT-TTC-CATCTTGAAC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGTCA--TTCTTCGCATCTTGAAC
* * *
2513479 CCAATGTCGCTGGCCATGAATCAGCACATTGTCATTCTTCGCATCTTCGAGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGTCATTCTTCGCATCTT-GAAC
2513531 CCAAT
1 CCAAT
2513536 ATTGCTAGCC
Statistics
Matches: 92, Mismatches: 10, Indels: 12
0.81 0.09 0.11
Matches are distributed among these distances:
49 2 0.02
50 3 0.03
51 37 0.40
52 48 0.52
54 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.31
Consensus pattern (51 bp):
CCAATGTCGCTGGCCTTGAATCAGCATATTGTCATTCTTCGCATCTTGAAC
Found at i:2513535 original size:103 final size:101
Alignment explanation
Indices: 2513310--2513535 Score: 240
Period size: 101 Copynumber: 2.2 Consensus size: 101
2513300 TACTCCTCTT
* * * * * * * *
2513310 CCTCATCATCTTTAAGTCCAATATAGCTGGCTTTGAATTAGCACATTGGCACCTCCATCTTTAAG
1 CCTCGTCATCTTCAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTCCATCTTGAAG
* * *
2513375 TCCAATATCGCTGGCCTTGAATCAGCATATTGTCAC
66 CCCAATATCGCTGGCCATGAATCAGCACATTGTCAC
* * *
2513411 CCTCGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTG
1 CCTCGTCATCTTCAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC---TCCATCTTG
* *
2513476 AA-CCCAATGTCGCTGGCCATGAATCAGCACATTGTCATT
63 AAGCCCAATATCGCTGGCCATGAATCAGCACATTGTCA-C
* *
2513515 CTTCG-CATCTTCGAGCCCAAT
1 CCTCGTCATCTTCAAGCCCAAT
2513536 ATTGCTAGCC
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
101 47 0.45
103 44 0.42
104 14 0.13
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (101 bp):
CCTCGTCATCTTCAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTCCATCTTGAAG
CCCAATATCGCTGGCCATGAATCAGCACATTGTCAC
Found at i:2513583 original size:325 final size:325
Alignment explanation
Indices: 2512993--2513686 Score: 1253
Period size: 325 Copynumber: 2.1 Consensus size: 325
2512983 CACATTAGCG
2512993 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCCATCTTTAAGTCCAATAT
1 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCCATCTTTAAGTCCAATAT
*
2513058 TGCTGGCCTTGAATCAGCATATTGGCACCCTCGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAA
66 CGCTGGCCTTGAATCAGCATATTGGCACCCTCGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAA
2513123 TCAGCATATTGGCACCTTTTCCATCTTGAACCCAATGTCGCTGGCCATGAATCAGCACATTGTCA
131 TCAGCATATTGGCACCTTTTCCATCTTGAACCCAATGTCGCTGGCCATGAATCAGCACATTGTCA
*
2513188 TTTTTCGCATCTTCGAGCCCAATATTGCTAGCCGCATATTGGCTCATTTATCCTTTTTCTCATCT
196 TTCTTCGCATCTTCGAGCCCAATATTGCTAGCCGCATATTGGCTCATTTATCCTTTTTCTCATCT
*
2513253 TTAAGCCCAATATCGTTGGCTGTGAATCAACGTATTGGTCCCTTTATTACTCCTCTTCCTCATCA
261 TTAAGCCCAATATCGTTGGCCGTGAATCAACGTATTGGTCCCTTTATTACTCCTCTTCCTCATCA
* *
2513318 TCTTTAAGTCCAATATAGCTGGCTTTGAATTAGCACATTGGCACCTCCATCTTTAAGTCCAATAT
1 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCCATCTTTAAGTCCAATAT
*
2513383 CGCTGGCCTTGAATCAGCATATTGTCACCCTCGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAA
66 CGCTGGCCTTGAATCAGCATATTGGCACCCTCGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAA
2513448 TCAGCATATTGGCACCTTTTCCATCTTGAACCCAATGTCGCTGGCCATGAATCAGCACATTGTCA
131 TCAGCATATTGGCACCTTTTCCATCTTGAACCCAATGTCGCTGGCCATGAATCAGCACATTGTCA
*
2513513 TTCTTCGCATCTTCGAGCCCAATATTGCTAGCCGCATATTGGCTCCTTTATCCTTTTTCTCATCT
196 TTCTTCGCATCTTCGAGCCCAATATTGCTAGCCGCATATTGGCTCATTTATCCTTTTTCTCATCT
2513578 TTAAGCCCAATATCGTTGGCCGTGAATCAACGTATTGGTCCCTTTATTACTCCTCTTCCTCATCA
261 TTAAGCCCAATATCGTTGGCCGTGAATCAACGTATTGGTCCCTTTATTACTCCTCTTCCTCATCA
* * * * * * * *
2513643 TCTTTATGTCTAGTGTGGCAGGCCTTGAATCTGCACAGTGGCAC
1 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
2513687 ATTCCAAAAC
Statistics
Matches: 352, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
325 352 1.00
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (325 bp):
TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCCATCTTTAAGTCCAATAT
CGCTGGCCTTGAATCAGCATATTGGCACCCTCGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAA
TCAGCATATTGGCACCTTTTCCATCTTGAACCCAATGTCGCTGGCCATGAATCAGCACATTGTCA
TTCTTCGCATCTTCGAGCCCAATATTGCTAGCCGCATATTGGCTCATTTATCCTTTTTCTCATCT
TTAAGCCCAATATCGTTGGCCGTGAATCAACGTATTGGTCCCTTTATTACTCCTCTTCCTCATCA
Found at i:2514287 original size:32 final size:32
Alignment explanation
Indices: 2514251--2514319 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
2514241 CAACGATTTG
* *
2514251 TATCGATACATAAGTGTTGTATCGATATAATA
1 TATCGAGACATAAGTGTTGTATCGATACAATA
* *
2514283 TATCGAGACATAAGTTTTGTATCGATACAATG
1 TATCGAGACATAAGTGTTGTATCGATACAATA
2514315 TATCG
1 TATCG
2514320 CTACGAAGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TATCGAGACATAAGTGTTGTATCGATACAATA
Found at i:2514445 original size:52 final size:52
Alignment explanation
Indices: 2514384--2514512 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
2514374 CATTGATCTT
* *
2514384 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGGTACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
2514436 TGTATCGATACATTCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
2514488 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2514513 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:2516676 original size:24 final size:26
Alignment explanation
Indices: 2516649--2516702 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
2516639 TTAAAATTTT
2516649 ATTCAT-C-GGGGACACTCCAACCCC
1 ATTCATCCAGGGGACACTCCAACCCC
*
2516673 ATTCTTCCGAGGGGACACTCCAACCCC
1 ATTCATCC-AGGGGACACTCCAACCCC
2516700 ATT
1 ATT
2516703 TTCAACCGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 1 0.04
27 20 0.77
ACGTcount: A:0.24, C:0.39, G:0.17, T:0.20
Consensus pattern (26 bp):
ATTCATCCAGGGGACACTCCAACCCC
Found at i:2522053 original size:13 final size:13
Alignment explanation
Indices: 2522035--2522076 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
2522025 ACAACATTCC
*
2522035 TTGTATCAATACA
1 TTGTATCGATACA
*
2522048 TTGTATCGATATA
1 TTGTATCGATACA
2522061 TTGTATCGATACA
1 TTGTATCGATACA
2522074 TTG
1 TTG
2522077 GGTACTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2522755 original size:27 final size:27
Alignment explanation
Indices: 2522725--2522778 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
2522715 CGGACTCAAG
2522725 CCAATCTCGAACATTTTAACCGTACTT
1 CCAATCTCGAACATTTTAACCGTACTT
2522752 CCAATCTCGAACATTTTAACCGTACTT
1 CCAATCTCGAACATTTTAACCGTACTT
2522779 TCTCTAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (27 bp):
CCAATCTCGAACATTTTAACCGTACTT
Found at i:2524563 original size:13 final size:13
Alignment explanation
Indices: 2524545--2524571 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2524535 ACATGCTGCT
2524545 TTGTATCGATACA
1 TTGTATCGATACA
2524558 TTGTATCGATACA
1 TTGTATCGATACA
2524571 T
1 T
2524572 GTTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2524568 original size:33 final size:32
Alignment explanation
Indices: 2524526--2524590 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
2524516 CACACCCAGA
*
2524526 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
2524559 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
2524591 GACCAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:2524602 original size:21 final size:21
Alignment explanation
Indices: 2524557--2524634 Score: 124
Period size: 21 Copynumber: 3.8 Consensus size: 21
2524547 GTATCGATAC
**
2524557 ATTGTATCGATACATGTTC--
1 ATTGTATCGATACATGACCAA
2524576 ATTGTATCGATACATGACCAA
1 ATTGTATCGATACATGACCAA
2524597 ATTGTATCGATACATGACCAA
1 ATTGTATCGATACATGACCAA
2524618 ATTGTATCGATACATGA
1 ATTGTATCGATACATGA
2524635 AACTGGCAGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
19 17 0.31
21 38 0.69
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (21 bp):
ATTGTATCGATACATGACCAA
Found at i:2524633 original size:42 final size:40
Alignment explanation
Indices: 2524557--2524634 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
2524547 GTATCGATAC
**
2524557 ATTGTATCGATACATGTTCATTGTATCGATACATGACCAA
1 ATTGTATCGATACATGACCATTGTATCGATACATGACCAA
2524597 ATTGTATCGATACATGACCAAATTGTATCGATACATGA
1 ATTGTATCGATACATGACC--ATTGTATCGATACATGA
2524635 AACTGGCAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 17 0.50
42 17 0.50
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (40 bp):
ATTGTATCGATACATGACCATTGTATCGATACATGACCAA
Found at i:2524699 original size:13 final size:13
Alignment explanation
Indices: 2524678--2524708 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2524668 CGATACATGG
*
2524678 TACAATGTATCGA
1 TACATTGTATCGA
2524691 TACATTGTATCGA
1 TACATTGTATCGA
2524704 TACAT
1 TACAT
2524709 GAAAAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:2524707 original size:33 final size:33
Alignment explanation
Indices: 2524665--2524728 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
2524655 TCACTATTTA
** *
2524665 TATCGATACATGGTACAATGTATCGATACATTG
1 TATCGATACATGAAAAAATGTATCGATACATTG
2524698 TATCGATACATGAAAAAATGTATCGATACAT
1 TATCGATACATGAAAAAATGTATCGATACAT
2524729 AGCATCTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (33 bp):
TATCGATACATGAAAAAATGTATCGATACATTG
Found at i:2525631 original size:51 final size:51
Alignment explanation
Indices: 2525530--2525645 Score: 117
Period size: 51 Copynumber: 2.3 Consensus size: 51
2525520 TCACTTTCGA
* * ** *
2525530 GGGGATACTCCAACTCCATTTTTACTTCCAAAATATCGATTTTTTTATCTT
1 GGGGATACTCCAACTCCATTTTTACTTCAAAAATATCAAAATTTTCATCTT
* * *
2525581 GGGGATACTCCAA-TCTCGTTTTTATTTCAAAAATATTAAAATTTTCATCTT
1 GGGGATACTCCAACTC-CATTTTTACTTCAAAAATATCAAAATTTTCATCTT
** *
2525632 ACGAATACTCCAAC
1 GGGGATACTCCAAC
2525646 CCTATCAATT
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
50 2 0.04
51 50 0.96
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (51 bp):
GGGGATACTCCAACTCCATTTTTACTTCAAAAATATCAAAATTTTCATCTT
Found at i:2525723 original size:130 final size:130
Alignment explanation
Indices: 2525469--2525716 Score: 298
Period size: 130 Copynumber: 1.9 Consensus size: 130
2525459 TCAAATCCCA
* * * ** * * *
2525469 TTTTTATTTTAAAAATATTAAAATTTTCATCTCAGGGATACTGTAACCCCATCACTTTCGAGGGG
1 TTTTTATTTCAAAAATATTAAAATTTTCATCTCACGAATACTCCAACCCCATCAATTCCAAGGGG
* * * * * * * *
2525534 ATACTCCAACTCCATTTTTACTTCCAAAATATCGATTTTTTTATCTTGGGGATACTCCAATCTCG
66 AGACTCCAACCCCATTTTTACTTCCAAAATATCAAATTCTTCATCGTGAGGATACTCCAATCTCG
* *
2525599 TTTTTATTTCAAAAATATTAAAATTTTCATCTTACGAATACTCCAACCCTATCAATTCCAAGGGG
1 TTTTTATTTCAAAAATATTAAAATTTTCATCTCACGAATACTCCAACCCCATCAATTCCAAGGGG
* * * *
2525664 AGAGTCCAACCCCTTTTTTATTTCCAAAATATTAAATTCTTCATCGTGAGGAT
66 AGACTCCAACCCCATTTTTACTTCCAAAATATCAAATTCTTCATCGTGAGGAT
2525717 TTTCCAACCC
Statistics
Matches: 96, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
130 96 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (130 bp):
TTTTTATTTCAAAAATATTAAAATTTTCATCTCACGAATACTCCAACCCCATCAATTCCAAGGGG
AGACTCCAACCCCATTTTTACTTCCAAAATATCAAATTCTTCATCGTGAGGATACTCCAATCTCG
Found at i:2525864 original size:79 final size:79
Alignment explanation
Indices: 2525581--2525881 Score: 254
Period size: 79 Copynumber: 3.8 Consensus size: 79
2525571 TTTTTATCTT
* * * *
2525581 GGGGATACTCCAATCTCGTTTTTATTTCAAAAATATTAAAATTTTCATCTTAC--GAATACTCCA
1 GGGGATACTCCAACCCCGTTTTTATTTAAAAAATATT-AAATTTTCATCTT-CGGGGATACTCCA
* * * *
2525644 ACCCTATCAATTCCAA
64 ACCCCATTATTTTCAA
* * * ** * * **
2525660 GGGGAGAGTCCAACCCCTTTTTTATTTCCAAAATATTAAATTCTTCATCGT-GAGGATTTTCCAA
1 GGGGATACTCCAACCCCGTTTTTATTTAAAAAATATTAAATT-TTCATCTTCGGGGATACTCCAA
*
2525724 CCCCGTTATTTTCAA
65 CCCCATTATTTTCAA
* * * ** *
2525739 GGGGATACTCTAACCCCTATTTTTATTTATAAAATA-TCGATCTTTCAT-TTCGGGGATACTCTA
1 GGGGATACTCCAACCCC-GTTTTTATTTAAAAAATATTAAAT-TTTCATCTTCGGGGATACTCCA
*
2525802 ACCCCATTATTTTCGA
64 ACCCCATTATTTTCAA
* * *
2525818 GGGGATACTCCAACCTCGTTCTTATTTAAAAAATATTAAAATTTTCATCTT-GGAGATACTCCAA
1 GGGGATACTCCAACCCCGTTTTTATTTAAAAAATATT-AAATTTTCATCTTCGGGGATACTCCAA
2525882 TCCCGTATTC
Statistics
Matches: 174, Mismatches: 39, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
78 21 0.12
79 133 0.76
80 20 0.11
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.37
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGTTTTTATTTAAAAAATATTAAATTTTCATCTTCGGGGATACTCCAAC
CCCATTATTTTCAA
Found at i:2528469 original size:28 final size:27
Alignment explanation
Indices: 2528438--2528502 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 27
2528428 ATTTCCAAAA
2528438 TTTTATTTATGAATGTTAATTTTAATTT-
1 TTTTATTT-TGAAT-TTAATTTTAATTTG
* * *
2528466 TTTTAATTTTGGATTTTATTTTATTTTG
1 TTTT-ATTTTGAATTTAATTTTAATTTG
2528494 TTTTATTTT
1 TTTTATTTT
2528503 TTTACTAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 16 0.50
28 12 0.38
29 4 0.12
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.71
Consensus pattern (27 bp):
TTTTATTTTGAATTTAATTTTAATTTG
Found at i:2532667 original size:20 final size:19
Alignment explanation
Indices: 2532622--2532668 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
2532612 TTGTATCGAT
*
2532622 ACATTGTA-TGATACATGT
1 ACATTGTATTGATACATGC
*
2532640 TCATTGTATTGATACATGC
1 ACATTGTATTGATACATGC
2532659 ACAATTGTAT
1 AC-ATTGTAT
2532669 CTGTCGTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 7 0.29
19 10 0.42
20 7 0.29
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (19 bp):
ACATTGTATTGATACATGC
Found at i:2536376 original size:25 final size:25
Alignment explanation
Indices: 2536342--2536394 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
2536332 GTGTCAAGCC
2536342 TTCTCATTTCCTTTTTCTCTTTACT
1 TTCTCATTTCCTTTTTCTCTTTACT
2536367 TTCTCATTTCCTTTTTCTCTTTACT
1 TTCTCATTTCCTTTTTCTCTTTACT
2536392 TTC
1 TTC
2536395 AAGTTGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (25 bp):
TTCTCATTTCCTTTTTCTCTTTACT
Found at i:2536385 original size:14 final size:14
Alignment explanation
Indices: 2536342--2536385 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
2536332 GTGTCAAGCC
2536342 TTCTCATTTCCTTT
1 TTCTCATTTCCTTT
*
2536356 TTCTC-TTTAC--T
1 TTCTCATTTCCTTT
2536367 TTCTCATTTCCTTT
1 TTCTCATTTCCTTT
2536381 TTCTC
1 TTCTC
2536386 TTTACTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 6 0.24
12 4 0.16
13 4 0.16
14 11 0.44
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.64
Consensus pattern (14 bp):
TTCTCATTTCCTTT
Found at i:2536825 original size:13 final size:13
Alignment explanation
Indices: 2536807--2536831 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2536797 ATTTTGCTAA
2536807 GTATCGATACATT
1 GTATCGATACATT
2536820 GTATCGATACAT
1 GTATCGATACAT
2536832 AGCATTGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2536878 original size:10 final size:10
Alignment explanation
Indices: 2536859--2536931 Score: 65
Period size: 10 Copynumber: 7.1 Consensus size: 10
2536849 AATCTCATTT
*
2536859 TCACTGTTCA
1 TCACTATTCA
2536869 TCACTATTCA
1 TCACTATTCA
2536879 TCACTATTCA
1 TCACTATTCA
* *
2536889 TAACTGTTCA
1 TCACTATTCA
* * *
2536899 TATATCGATACA
1 T-CA-CTATTCA
2536911 TCACTATTCA
1 TCACTATTCA
*
2536921 TCACTGTTCA
1 TCACTATTCA
2536931 T
1 T
2536932 GTATCGATAC
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
10 43 0.86
11 2 0.04
12 5 0.10
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.40
Consensus pattern (10 bp):
TCACTATTCA
Found at i:2536917 original size:32 final size:32
Alignment explanation
Indices: 2536877--2536959 Score: 139
Period size: 32 Copynumber: 2.6 Consensus size: 32
2536867 CATCACTATT
*
2536877 CATCACTATTCATAACTGTTCATATATCGATA
1 CATCACTATTCATCACTGTTCATATATCGATA
*
2536909 CATCACTATTCATCACTGTTCATGTATCGATA
1 CATCACTATTCATCACTGTTCATATATCGATA
*
2536941 CATCACTGTTCATCACTGT
1 CATCACTATTCATCACTGT
2536960 ACATTGAGCC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.37
Consensus pattern (32 bp):
CATCACTATTCATCACTGTTCATATATCGATA
Found at i:2537020 original size:22 final size:22
Alignment explanation
Indices: 2536986--2537038 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
2536976 GCTATATTTT
* *
2536986 TCACTATTTATGTATCGATACA
1 TCACTGTTCATGTATCGATACA
*
2537008 TCACTGTTCATGTATTGATACA
1 TCACTGTTCATGTATCGATACA
2537030 TCACTGTTC
1 TCACTGTTC
2537039 TTCACTGTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (22 bp):
TCACTGTTCATGTATCGATACA
Found at i:2537126 original size:22 final size:22
Alignment explanation
Indices: 2537098--2537139 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
2537088 TTCATCACAG
2537098 TATCGATACATCACTGTTCATA
1 TATCGATACATCACTGTTCATA
2537120 TATCGATACATCACTGTTCA
1 TATCGATACATCACTGTTCA
2537140 CACTATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.36
Consensus pattern (22 bp):
TATCGATACATCACTGTTCATA
Found at i:2540376 original size:102 final size:103
Alignment explanation
Indices: 2540216--2540453 Score: 345
Period size: 102 Copynumber: 2.3 Consensus size: 103
2540206 TTATGTTTCT
* * *
2540216 CAATTTTTCATAATCGGGGGTACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAAT
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAAT
* * * *
2540281 CGGGGATACTCCAATTCCAATTTTTTTTTC-GAAACAC
66 CGGGGATACTCCAACTCCAATTTTATTTCCAAAAACAC
* *
2540318 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTCTATAA
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAATTTTCCACAA
**
2540382 TCGGGGATACTCCAACTCTGATTTTATTTCCAAAAACAC
65 TCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACAC
*
2540421 CAATTCTTCACAATCGGGGATACTCCAACCCCG
1 CAATTTTTCACAATCGGGGATACTCCAACCCCG
2540454 TTAATCATCG
Statistics
Matches: 122, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
101 1 0.01
102 83 0.68
103 38 0.31
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (103 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCACAAT
CGGGGATACTCCAACTCCAATTTTATTTCCAAAAACAC
Found at i:2540440 original size:52 final size:50
Alignment explanation
Indices: 2540220--2540453 Score: 281
Period size: 51 Copynumber: 4.6 Consensus size: 50
2540210 GTTTCTCAAT
* * * *
2540220 TTTTCATAATCGGGGGTACTCCAACCCCGGTTTTA-TTTCTAAAACACTAA
1 TTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAA
** * * *
2540270 TTTTCCACAATCGGGGATACTCCAATTCCAATTTTTTTTTCGAAACACCAA
1 TTTT-CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAA
*
2540321 TTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAA
1 -TTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAA
* * * *
2540372 TTTTCTATAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAACACCAA
1 TTTTC-ACAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAA
2540424 TTCTTCACAATCGGGGATACTCCAACCCCG
1 TT-TTCACAATCGGGGATACTCCAACCCCG
2540454 TTAATCATCG
Statistics
Matches: 155, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
50 9 0.06
51 102 0.66
52 41 0.26
53 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (50 bp):
TTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAA
Found at i:2540505 original size:28 final size:28
Alignment explanation
Indices: 2540436--2540508 Score: 89
Period size: 27 Copynumber: 2.6 Consensus size: 28
2540426 CTTCACAATC
2540436 GGGGATACTCCAACCCCGTTAATCATCGA
1 GGGGATACTCCAACCCCGTTAATCA-CGA
*
2540465 --GGATACTCCAACCCCGTTATTTC-CGA
1 GGGGATACTCCAACCCCGTTA-ATCACGA
*
2540491 GGGGATACTTCAACCCCG
1 GGGGATACTCCAACCCCG
2540509 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
26 3 0.08
27 19 0.49
28 17 0.44
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.22
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTAATCACGA
Found at i:2540548 original size:79 final size:79
Alignment explanation
Indices: 2540460--2540666 Score: 342
Period size: 79 Copynumber: 2.6 Consensus size: 79
2540450 CCCGTTAATC
*
2540460 ATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGATACTTCAACCCCGGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTTCAACCCCGGCTTTATTCCTAAAAT
2540525 ATTGATTTCTCATA
66 ATTGATTTCTCATA
** *
2540539 ATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTTCAACCCCGGCTTTATTCCTAAAAT
2540604 ATTGATTTCTCATA
66 ATTGATTTCTCATA
* * * *
2540618 ATCGGGGATACTCCAACCCTGTTATTTTCGCGAGGATACTTCAACCCCG
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTTCAACCCCG
2540667 TTATTTTTGA
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 117 1.00
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTTCAACCCCGGCTTTATTCCTAAAAT
ATTGATTTCTCATA
Found at i:2540682 original size:28 final size:28
Alignment explanation
Indices: 2540621--2540692 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
2540611 TCTCATAATC
* *
2540621 GGGGATACTCCAACCCTGTTATTTTCGC
1 GGGGATACTCCAACCCCGTTATTTTCGA
* * *
2540649 GAGGATACTTCAACCCCGTTATTTTTGA
1 GGGGATACTCCAACCCCGTTATTTTCGA
*
2540677 GGGGATGCTCCAACCC
1 GGGGATACTCCAACCC
2540693 TGATTTTATT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTTCGA
Found at i:2540735 original size:79 final size:79
Alignment explanation
Indices: 2540652--2540825 Score: 188
Period size: 79 Copynumber: 2.2 Consensus size: 79
2540642 TTTTCGCGAG
* *** * * *
2540652 GATACTTCAACCCCGTTATTTTTGAGGGGATGCTCCAACCCTGATTTTATTTTCAAAACACCAAT
1 GATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAAT
2540717 TTTCTATAATTAGA
66 TTTCTATAATTAGA
** * * *
2540731 GATACTCCAACCCTTTTATTTCCAAGGGGATACTCTAACCCCGATTTTATTTCCAGAACACCGAT
1 GATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAAT
* *
2540796 TTT-TCATAATCAGG
66 TTTCT-ATAATTAGA
* *
2540810 GGTACTCCAGCCCCGT
1 GATACTCCAACCCCGT
2540826 CGTCATCTCC
Statistics
Matches: 76, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
78 1 0.01
79 75 0.99
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (79 bp):
GATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAAT
TTTCTATAATTAGA
Found at i:2540737 original size:186 final size:185
Alignment explanation
Indices: 2540432--2540825 Score: 420
Period size: 186 Copynumber: 2.1 Consensus size: 185
2540422 AATTCTTCAC
*
2540432 AATCGGGGATACTCCAACCCCGTTAATCATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGAT
1 AATCGGGGATACTCCAACCCCGTTAATCAGCGAGGATACTCCAACCCCGTTATTTCCGAGGGGAT
* * * *** * *
2540497 ACTTCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGTT
66 ACTCCAACCCCGACTTTATTCCTAAAACACCAATTTCTCATAATCAGAGATACTCCAACCCCGTT
*
2540562 ATTTCTAAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCAT
131 ATTTCCAAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCAT
* * * **
2540617 AATCGGGGATACTCCAACCCTGTTATTTTC-GCGAGGATACTTCAACCCCGTTATTTTTGAGGGG
1 AATCGGGGATACTCCAACCCCGTTA--ATCAGCGAGGATACTCCAACCCCGTTATTTCCGAGGGG
* * * * *
2540681 ATGCTCCAACCCTGATTTTATT-TTCAAAACACCAATTT-TCTATAATTAGAGATACTCCAACCC
64 ATACTCCAACCCCGACTTTATTCCT-AAAACACCAATTTCTC-ATAATCAGAGATACTCCAACCC
** * ** * * ** *
2540744 TTTTATTTCCAAGGGGATACTCTAACCCCGATTTTATTTCC-AGAACACCGATTTTTCAT
127 CGTTATTTCCAAGGGGATACTCCAACCCCGGCTTTA-TTCCTAAAATATTGATTTCTCAT
*
2540803 AATCAGGGG-TACTCCAGCCCCGT
1 AATC-GGGGATACTCCAACCCCGT
2540826 CGTCATCTCC
Statistics
Matches: 171, Mismatches: 32, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
185 27 0.16
186 134 0.78
187 10 0.06
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.31
Consensus pattern (185 bp):
AATCGGGGATACTCCAACCCCGTTAATCAGCGAGGATACTCCAACCCCGTTATTTCCGAGGGGAT
ACTCCAACCCCGACTTTATTCCTAAAACACCAATTTCTCATAATCAGAGATACTCCAACCCCGTT
ATTTCCAAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCAT
Found at i:2542229 original size:16 final size:16
Alignment explanation
Indices: 2542205--2542235 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2542195 AAAGGCTTTC
*
2542205 AAAATTTTTAATAGAA
1 AAAAGTTTTAATAGAA
2542221 AAAAGTTTTAATAGA
1 AAAAGTTTTAATAGA
2542236 GGAAATGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (16 bp):
AAAAGTTTTAATAGAA
Found at i:2543610 original size:20 final size:21
Alignment explanation
Indices: 2543585--2543624 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
2543575 ATTTTTCAAA
2543585 ATGTATCGATACAT-TGAAAG
1 ATGTATCGATACATCTGAAAG
2543605 ATGTATCGATACATCTGAAA
1 ATGTATCGATACATCTGAAA
2543625 AAACCCAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATCTGAAAG
Found at i:2545140 original size:13 final size:13
Alignment explanation
Indices: 2545124--2545153 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2545114 ATACATTGTT
2545124 CATTGTATCGATA
1 CATTGTATCGATA
2545137 CATTGTATCGATA
1 CATTGTATCGATA
2545150 CATT
1 CATT
2545154 ATGGGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:2545207 original size:13 final size:13
Alignment explanation
Indices: 2545189--2545279 Score: 53
Period size: 13 Copynumber: 7.9 Consensus size: 13
2545179 CATTTTGCAT
2545189 TGTATCGATACAA
1 TGTATCGATACAA
2545202 TGTATCGATAC-A
1 TGTATCGATACAA
* *
2545214 --T-T-GCT-CAT
1 TGTATCGATACAA
2545222 TGTATCGATACAA
1 TGTATCGATACAA
*
2545235 TGCATCGATAC-A
1 TGTATCGATACAA
* *
2545247 --T-T-GCT-CAT
1 TGTATCGATACAA
2545255 TGTATCGATACAA
1 TGTATCGATACAA
2545268 TGTATCGATACA
1 TGTATCGATACA
2545280 TTGCTCATTG
Statistics
Matches: 56, Mismatches: 10, Indels: 24
0.62 0.11 0.27
Matches are distributed among these distances:
7 2 0.04
8 4 0.07
9 2 0.04
10 3 0.05
11 2 0.04
12 6 0.11
13 37 0.66
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2545210 original size:33 final size:33
Alignment explanation
Indices: 2545168--2545299 Score: 230
Period size: 33 Copynumber: 4.0 Consensus size: 33
2545158 GTTTACCCAG
*
2545168 ATGTATCGATACATT-TTGCATTGTATCGATACA
1 ATGTATCGATACATTGCT-CATTGTATCGATACA
2545201 ATGTATCGATACATTGCTCATTGTATCGATACA
1 ATGTATCGATACATTGCTCATTGTATCGATACA
*
2545234 ATGCATCGATACATTGCTCATTGTATCGATACA
1 ATGTATCGATACATTGCTCATTGTATCGATACA
2545267 ATGTATCGATACATTGCTCATTGTATCGATACA
1 ATGTATCGATACATTGCTCATTGTATCGATACA
2545300 TTTTACAATA
Statistics
Matches: 95, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
33 94 0.99
34 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGCTCATTGTATCGATACA
Found at i:2545227 original size:20 final size:20
Alignment explanation
Indices: 2545202--2545301 Score: 93
Period size: 20 Copynumber: 5.7 Consensus size: 20
2545192 ATCGATACAA
2545202 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
2545222 TGTATCGATACA------A-
1 TGTATCGATACATTGCTCAT
*
2545235 TGCATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
2545255 TGTATCGATACA------A-
1 TGTATCGATACATTGCTCAT
2545268 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
2545288 TGTATCGATACATT
1 TGTATCGATACATT
2545302 TTACAATATA
Statistics
Matches: 64, Mismatches: 2, Indels: 28
0.68 0.02 0.30
Matches are distributed among these distances:
13 23 0.36
14 2 0.03
19 2 0.03
20 37 0.58
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:2545313 original size:20 final size:21
Alignment explanation
Indices: 2545263--2545318 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
2545253 ATTGTATCGA
2545263 TACAATGTATCGATACATTGC
1 TACAATGTATCGATACATTGC
* *
2545284 T-CATTGTATCGATACATT-T
1 TACAATGTATCGATACATTGC
*
2545303 TACAATATATCGATAC
1 TACAATGTATCGATAC
2545319 GTTCAGGCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.38
Consensus pattern (21 bp):
TACAATGTATCGATACATTGC
Found at i:2547789 original size:51 final size:50
Alignment explanation
Indices: 2547625--2547791 Score: 165
Period size: 51 Copynumber: 3.3 Consensus size: 50
2547615 ATTTTTCATC
* *
2547625 TCGGAGATACTCCAATCCCGGTTTCATTTCCAAAACATCAATTTCCTTAA
1 TCGGGGATACTCCAATCCCGGTTTCATTTCCAAAACATCATTTTCCTTAA
* * * * * * **
2547675 TCGGGGATCCTCCAA-CTCCGATTTTATTTCTAAAGCATCGATTTACCGCAA
1 TCGGGGATACTCCAATC-CCGGTTTCATTTCCAAAACATC-ATTTTCCTTAA
* ** * *
2547726 CCAAGGATACTCCAATCCCGGTTTCATCTCCAAAACATTCATTTTTCTTAA
1 TCGGGGATACTCCAATCCCGGTTTCATTTCCAAAACA-TCATTTTCCTTAA
2547777 TCGGGGATACTCCAA
1 TCGGGGATACTCCAA
2547792 CTCTGATTTT
Statistics
Matches: 87, Mismatches: 26, Indels: 7
0.73 0.22 0.06
Matches are distributed among these distances:
49 1 0.01
50 31 0.36
51 52 0.60
52 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (50 bp):
TCGGGGATACTCCAATCCCGGTTTCATTTCCAAAACATCATTTTCCTTAA
Found at i:2547809 original size:51 final size:51
Alignment explanation
Indices: 2547625--2547844 Score: 162
Period size: 51 Copynumber: 4.3 Consensus size: 51
2547615 ATTTTTCATC
* * * *
2547625 TCGGAGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCAA-TTTCCTTAA
1 TCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACATCAATTTTCCTCAA
* * * * * *
2547675 TCGGGGATCCTCCAACTCCGATTTTATTTCTAAAGCATCGATTTACCGCAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTCCTCAA
* ** * * * * *
2547726 CCAAGGATACTCCAA-TCCCGGTTTCATCTCCAAAACATTC-ATTTTTCTTAA
1 TCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACA-TCAATTTTCCTCAA
* * *
2547777 TCGGGGATACTCCAACTCTGATTTTATTTCCAAAA-ATACCAATTTTTCACAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAT--CAATTTTCCTCAA
*
2547829 TTGGGGATACTCCAAC
1 TCGGGGATACTCCAAC
2547845 CCTGTCATTT
Statistics
Matches: 129, Mismatches: 33, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
49 1 0.01
50 34 0.26
51 67 0.52
52 27 0.21
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTCCTCAA
Found at i:2547893 original size:28 final size:28
Alignment explanation
Indices: 2547831--2547904 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
2547821 TTTCACAATT
*
2547831 GGGGATACTCCAACCCTGTCATTTTATC
1 GGGGATACTCCAACCCCGTCATTTTATC
*
2547859 GGGGATACTCCAACCCCGTTA-TTT-TC
1 GGGGATACTCCAACCCCGTCATTTTATC
*
2547885 GAGGAGATACTCTAACCCCG
1 G-GG-GATACTCCAACCCCG
2547905 GCTTTATATC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
26 3 0.07
27 5 0.12
28 33 0.80
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTCATTTTATC
Found at i:2548039 original size:110 final size:109
Alignment explanation
Indices: 2547779--2548061 Score: 259
Period size: 110 Copynumber: 2.6 Consensus size: 109
2547769 TTTCTTAATC
* * *
2547779 GGGGATACTCCAACTCTGATTTTATTTCCAAAAATACCAA--TTTTTCACAATTGGGGATACTCC
1 GGGGATACTCCAACCCCGATTTTATTT-CAAAAATACCAATTTTTTTCACAATGGGGGATACTCC
* * * ** *
2547842 AACCCTGTCATTTTATCGGGGATACTCCAACCCCGTTATTTTCGA
65 AACCCCGTCATGTCATCGAAGATACTCCAACCCCATTATTTTCGA
* * ** * * **** * * *
2547887 GGAGATACTCTAACCCCGGCTTTATATCCAAAATGTTGATTTTTTTCATAATCGGGGGGTACTCT
1 GGGGATACTCCAACCCCGATTTTATTTCAAAAATACCAATTTTTTTCACAAT-GGGGGATACTCC
* * * *
2547952 AACCCCGTTATGTCATCGAAGATACTCCAATCCTATTATTTTTGA
65 AACCCCGTCATGTCATCGAAGATACTCCAACCCCATTATTTTCGA
* * *
2547997 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAA--TTTTTCACAATCGGCGATACTCCA
1 GGGGATACTCCAACCCCGATTTTATTTCAAAAATACCAATTTTTTTCACAATGGGGGATACTCCA
2548060 AC
66 AC
2548062 TCTGATTTAG
Statistics
Matches: 131, Mismatches: 41, Indels: 7
0.73 0.23 0.04
Matches are distributed among these distances:
107 18 0.14
108 30 0.23
109 10 0.08
110 73 0.56
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (109 bp):
GGGGATACTCCAACCCCGATTTTATTTCAAAAATACCAATTTTTTTCACAATGGGGGATACTCCA
ACCCCGTCATGTCATCGAAGATACTCCAACCCCATTATTTTCGA
Found at i:2548097 original size:50 final size:51
Alignment explanation
Indices: 2548000--2548121 Score: 149
Period size: 50 Copynumber: 2.4 Consensus size: 51
2547990 TTTTTGAGGG
* * * *
2548000 GATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCGGC
1 GATACTCCAACCCCGATTTTAGTTCCAAAACACCAATTTTTAACAATCGGC
* *
2548051 GATACTCCAACTCTGA-TTTAGTTCCAAAACACCAATTTTTAACAATCGAG-
1 GATACTCCAACCCCGATTTTAGTTCCAAAACACCAATTTTTAACAATCG-GC
* *
2548101 GATATTCTAACCCCGATTTTA
1 GATACTCCAACCCCGATTTTA
2548122 TTTTTTAGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
50 40 0.68
51 19 0.32
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.33
Consensus pattern (51 bp):
GATACTCCAACCCCGATTTTAGTTCCAAAACACCAATTTTTAACAATCGGC
Found at i:2552477 original size:21 final size:21
Alignment explanation
Indices: 2552452--2552508 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
2552442 TTTTTGTCCA
2552452 AATGTATCGATACATTATTAG
1 AATGTATCGATACATTATTAG
2552473 AATGTATCGATACATTATTAG
1 AATGTATCGATACATTATTAG
2552494 AATGTATCGATACAT
1 AATGTATCGATACAT
2552509 GGTCCCAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTATTAG
Found at i:2552597 original size:31 final size:32
Alignment explanation
Indices: 2552545--2552644 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
2552535 TTCAACGATT
2552545 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
2552578 T-TATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2552609 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2552641 TGTA
1 TGTA
2552645 AGCTACTGCC
Statistics
Matches: 65, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
31 20 0.31
32 44 0.68
33 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2552603 original size:19 final size:18
Alignment explanation
Indices: 2552543--2552639 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
2552533 ATTTCAACGA
2552543 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
2552562 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
2552578 --T-TATCGATACATAAG
1 TTTGTATCGATACATAAG
2552593 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
2552609 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
2552625 TTTTGTATCGATACA
1 -TTTGTATCGATACA
2552640 ATGTAAGCTA
Statistics
Matches: 64, Mismatches: 0, Indels: 28
0.70 0.00 0.30
Matches are distributed among these distances:
12 9 0.14
13 12 0.19
14 2 0.03
15 2 0.03
17 4 0.06
18 1 0.02
19 22 0.34
20 12 0.19
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:2552614 original size:13 final size:13
Alignment explanation
Indices: 2552596--2552620 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2552586 ACATAAGTGT
2552596 TGTATCGATACAA
1 TGTATCGATACAA
2552609 TGTATCGATACA
1 TGTATCGATACA
2552621 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2552700 original size:13 final size:13
Alignment explanation
Indices: 2552682--2552709 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2552672 ATTACTCAAA
2552682 TGTATCGATACAT
1 TGTATCGATACAT
2552695 TGTATCGATACAT
1 TGTATCGATACAT
2552708 TG
1 TG
2552710 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2552758 original size:52 final size:52
Alignment explanation
Indices: 2552715--2552843 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
2552705 CATTGATCTT
2552715 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
2552767 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
2552819 TGTATCGATACATGTAGGCAAATTT
1 TGTATCAATACATGCAGGCAAATTT
2552844 TCATATTTCA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2559341 original size:32 final size:33
Alignment explanation
Indices: 2559300--2559363 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2559290 TAGCCAAACT
*
2559300 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
*
2559332 TGTATCGATATACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2559364 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2563430 original size:15 final size:15
Alignment explanation
Indices: 2563410--2563440 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2563400 TAAAAATGTC
*
2563410 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2563425 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2563440 C
1 C
2563441 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2565461 original size:21 final size:21
Alignment explanation
Indices: 2565420--2565463 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2565410 CTCCCCTTTA
* *
2565420 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
2565441 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
2565462 TC
1 TC
2565464 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:2571330 original size:13 final size:13
Alignment explanation
Indices: 2571312--2571372 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
2571302 ATCCTTCACA
2571312 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
*
2571325 AAAAAAAAGAGAG
1 AAAAAAAAGAAAG
* *
2571338 ACAAAAAAAAAAAC
1 A-AAAAAAAGAAAG
2571352 AAAAAACAA-AAAG
1 AAAAAA-AAGAAAG
2571365 AAGAAAAA
1 AA-AAAAA
2571373 CAACAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
13 24 0.60
14 16 0.40
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:2571331 original size:15 final size:15
Alignment explanation
Indices: 2571311--2571372 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
2571301 CATCCTTCAC
2571311 AAAAAAAAAGAAAGA
1 AAAAAAAAAGAAAGA
* * *
2571326 AAAAAAAGAGAGACA
1 AAAAAAAAAGAAAGA
2571341 AAAAAAAAA-ACAA-A
1 AAAAAAAAAGA-AAGA
*
2571355 AAACAAAAAG-AAGA
1 AAAAAAAAAGAAAGA
2571369 AAAA
1 AAAA
2571373 CAACAAAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
13 2 0.05
14 14 0.38
15 21 0.57
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAAGA
Found at i:2571349 original size:34 final size:34
Alignment explanation
Indices: 2571311--2571382 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
2571301 CATCCTTCAC
* * * *
2571311 AAAAAAA-AAGAAAGAAAAAAAAGAGAGACAAAA
1 AAAAAAACAAAAAACAAAAAAAAGAAAAACAAAA
* *
2571344 AAAAAAACAAAAAACAAAAAGAAGAAAAACAACA
1 AAAAAAACAAAAAACAAAAAAAAGAAAAACAAAA
2571378 AAAAA
1 AAAAA
2571383 GGTCTGGATG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 7 0.22
34 25 0.78
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (34 bp):
AAAAAAACAAAAAACAAAAAAAAGAAAAACAAAA
Found at i:2572851 original size:29 final size:28
Alignment explanation
Indices: 2572813--2573072 Score: 288
Period size: 29 Copynumber: 9.0 Consensus size: 28
2572803 ATTCCTCTCC
*
2572813 TTTCAAAGCCCACAATTCAGTGGCACCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACC-T
* *
2572842 TTTCAAAGCCCACAAGTCAGTGGTATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* *
2572870 TTTCAAAGCCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
2572898 TTTCAAAAGCCCACAAGTTAGTGGCACCCT
1 TTTC-AAAGCCCACAAGTCAGTGGCA-CCT
*
2572928 TTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
*
2572956 TTTCAAAAGCTCACAAGTCAGTGGCACCCT
1 TTTC-AAAGCCCACAAGTCAGTGGCA-CCT
* **
2572986 TTTCAAAACCCACAAGTCAGTGGCATAT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
* * ***
2573014 TTTCAAAAGTCCACAAGCCAGTGGTTTCT
1 TTTC-AAAGCCCACAAGTCAGTGGCACCT
*
2573043 TTTCGAAGCCCACAAGGT-AGTGGCAACCT
1 TTTCAAAGCCCACAA-GTCAGTGGC-ACCT
2573072 T
1 T
2573073 CAAAAGCACA
Statistics
Matches: 198, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
28 56 0.28
29 130 0.66
30 12 0.06
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCT
Found at i:2572951 original size:58 final size:58
Alignment explanation
Indices: 2572813--2573113 Score: 337
Period size: 58 Copynumber: 5.2 Consensus size: 58
2572803 ATTCCTCTCC
* * * *
2572813 TTTCAAAGCCCACAATTCAGTGGCACCTTTTTC-AAAGCCCACAAGTCAGTGGTA-TCT
1 TTTCAAAGCCCACAAGTCAGTGGCATC-TTTTCAAAAGCCCACAAGTCAGTGGCACCCT
* *
2572870 TTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCT
*
2572928 TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCTCACAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCT
* * * * ***
2572986 TTTCAAAACCCACAAGTCAGTGGCATATTTTCAAAAGTCCACAAGCCAGTGG-TTTCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCT
* * * * **
2573043 TTTCGAAGCCCACAAGGT-AGTGGCAAC-CTTCAAAAGCACACAAGTTGGT-GCAACCC-
1 TTTCAAAGCCCACAA-GTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGC-ACCCT
2573099 TTTCAAAAGCCCACA
1 TTTC-AAAGCCCACA
2573114 CAAGTTGGTG
Statistics
Matches: 207, Mismatches: 31, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
55 1 0.00
56 25 0.12
57 75 0.36
58 106 0.51
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (58 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCT
Found at i:2573113 original size:29 final size:27
Alignment explanation
Indices: 2573048--2573123 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 27
2573038 TTTCTTTTCG
* *
2573048 AAGCCCACAAGGTAGTGGCAACCTTCAA
1 AAGCCCACAAGTTGGT-GCAACCTTCAA
*
2573076 AAGCACACAAGTTGGTGCAACCCTTTCAA
1 AAGCCCACAAGTTGGTGCAA-CC-TTCAA
2573105 AAGCCCACACAAGTTGGTG
1 AAG-CC-CACAAGTTGGTG
2573124 GCACCTTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 4 0.10
28 15 0.38
29 8 0.20
30 1 0.03
31 12 0.30
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (27 bp):
AAGCCCACAAGTTGGTGCAACCTTCAA
Found at i:2573116 original size:87 final size:86
Alignment explanation
Indices: 2572817--2573113 Score: 308
Period size: 86 Copynumber: 3.5 Consensus size: 86
2572807 CTCTCCTTTC
*
2572817 AAAGCCCACAA-TTCAGTGGC-ACCTTTTTC-AAAGCCCACAAGTCAGTGGTATCTTTTCAAAGC
1 AAAGCCCACAAGTT-AGTGGCAACC-CTTTCAAAAGCCCACAAGTCAGTGGTATCTTTTCAAAGC
* * *
2572879 CCACAAGTTAGTGGCATCTTTTCA
64 CCACAAGGTAGTGGCAAC-CTTCA
*
2572903 AAAGCCCACAAGTTAGTGGC-ACCCTTTTC-AAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGC
1 AAAGCCCACAAGTTAGTGGCAACCC-TTTCAAAAGCCCACAAGTCAGTGGTATCTTTTC-AAAGC
* *
2572966 TCACAA-GTCAGTGGCACCCTTTTCA
64 CCACAAGGT-AGTGGCAACC--TTCA
* * * * * *
2572991 AAA-CCCACAAGTCAGTGGCATA--TTTTCAAAAGTCCACAAGCCAGTGGTTTCTTTTCGAAGCC
1 AAAGCCCACAAGTTAGTGGCA-ACCCTTTCAAAAGCCCACAAGTCAGTGGTATCTTTTCAAAGCC
2573053 CACAAGGTAGTGGCAACCTTCA
65 CACAAGGTAGTGGCAACCTTCA
* *
2573075 AAAGCACACAAGTTGGT-GCAACCCTTTCAAAAGCCCACA
1 AAAGCCCACAAGTTAGTGGCAACCCTTTCAAAAGCCCACA
2573114 CAAGTTGGTG
Statistics
Matches: 178, Mismatches: 20, Indels: 27
0.79 0.09 0.12
Matches are distributed among these distances:
83 1 0.01
84 10 0.06
85 24 0.13
86 74 0.42
87 61 0.34
88 7 0.04
89 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (86 bp):
AAAGCCCACAAGTTAGTGGCAACCCTTTCAAAAGCCCACAAGTCAGTGGTATCTTTTCAAAGCCC
ACAAGGTAGTGGCAACCTTCA
Found at i:2573198 original size:43 final size:45
Alignment explanation
Indices: 2573137--2573510 Score: 275
Period size: 49 Copynumber: 8.1 Consensus size: 45
2573127 CCTTTATCTA
* * * *
2573137 TAAGTCTAATGTCGTTGGCCTTGAATTAGCACATTGGCA-C-CTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTCTT
*
2573180 TAAGTCCAATATCGTTGGCCTTGAATCAGTATATTGGCACCTTTATCATCT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACC----TC-T-T
* * *
2573231 TGAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACC---TCTT
* * *
2573279 TAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCA---C--
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTCTT
* *
2573319 -AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCA-C--C-TCTT
* * *
2573367 TAAGAT-CGATGTCATTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAG-TCCAATATCGTTGGCCTTGAATCAGCATATTGGCACC----TCTT
* *
2573416 TAAGACCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCA-C--C-TCTT
* * * *
2573465 TAAATCCGATATCGTTGGCTTTGAATTAGCATATTGGCA--TCTT
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTCTT
2573508 TAA
1 TAA
2573511 CATTCTTAAG
Statistics
Matches: 269, Mismatches: 36, Indels: 52
0.75 0.10 0.15
Matches are distributed among these distances:
39 34 0.13
42 1 0.00
43 41 0.15
44 1 0.00
46 2 0.01
48 35 0.13
49 110 0.41
50 6 0.02
51 38 0.14
52 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (45 bp):
TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTCTT
Found at i:2573496 original size:98 final size:98
Alignment explanation
Indices: 2573323--2573555 Score: 297
Period size: 98 Copynumber: 2.3 Consensus size: 98
2573313 TGGCACAAGC
* *
2573323 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGATCGATGTCATTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGATCGATATCATTGGCCT
2573388 TGAATCAGCATATTGGCACCTTTATCTTTAAGA
66 TGAATCAGCATATTGGCACCTTTATCTTTAAGA
* * *
2573421 CCAATATCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA-ATCCGATATCGTTGGCT
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGAT-CGATATCATTGGCC
* * * *
2573485 TTGAATTAGCATATTGGCATCTTTAACATTCTTAAGC
65 TTGAATCAGCATATTGGCACCTTTATC--T-TTAAGA
* * ** *
2573522 CCAATGTCACTGGCCTTGTCTTAGCACATTGGCA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA
2573556 TTCTTCTTCA
Statistics
Matches: 116, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
97 2 0.02
98 80 0.69
100 1 0.01
101 33 0.28
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (98 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGATCGATATCATTGGCCT
TGAATCAGCATATTGGCACCTTTATCTTTAAGA
Found at i:2578790 original size:71 final size:70
Alignment explanation
Indices: 2578702--2578836 Score: 216
Period size: 71 Copynumber: 1.9 Consensus size: 70
2578692 AATTAACTAG
* *
2578702 ATGTATCGATACATTGAAAAATGTATCGATACATATAGGTAAAAAAATAGAATGTATTGATACAT
1 ATGTATCGATACATTGAAAAAAGTATCGAAACATATAGGTAAAAAAA-AGAATGTATTGATACAT
2578767 TCATAC
65 TCATAC
* * *
2578773 ATGTATCGATATATTGAAAAAAGTATCGAAACATCTGGGTAAAAAAAAGAATGTATTGATACAT
1 ATGTATCGATACATTGAAAAAAGTATCGAAACATATAGGTAAAAAAAAGAATGTATTGATACAT
2578837 GTACTATTCA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
70 17 0.29
71 42 0.71
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.30
Consensus pattern (70 bp):
ATGTATCGATACATTGAAAAAAGTATCGAAACATATAGGTAAAAAAAAGAATGTATTGATACATT
CATAC
Found at i:2580603 original size:20 final size:20
Alignment explanation
Indices: 2580578--2580631 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
2580568 GTTACAAGCT
*
2580578 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
2580598 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
*
2580618 ATGTATTGATACAA
1 ATGTATCGATACAA
2580632 ACAGTGGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:2589308 original size:20 final size:21
Alignment explanation
Indices: 2589283--2589336 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
2589273 GTTACAAGCT
*
2589283 ATGTATCGATACAATT-CATC
1 ATGTATCGATACAATTGCACC
*
2589303 ATGTATCGATAC-ATTGTACC
1 ATGTATCGATACAATTGCACC
2589323 ATGTATCGATACAA
1 ATGTATCGATACAA
2589337 AAAGTGGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 3 0.10
20 26 0.87
21 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACAATTGCACC
Found at i:2589409 original size:19 final size:20
Alignment explanation
Indices: 2589365--2589418 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
2589355 CTGCCAATCT
* **
2589365 CATGTATCGATACAGTTGTC
1 CATGTATCGATACAATTGAA
2589385 CATGTATCGATACAATT-AA
1 CATGTATCGATACAATTGAA
2589404 CATGTATCGATACAA
1 CATGTATCGATACAA
2589419 AGCATAATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:2593230 original size:20 final size:20
Alignment explanation
Indices: 2593199--2593255 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
2593189 GTCAAAACCC
*
2593199 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
2593219 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
2593239 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
2593256 TGACCAAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:2593267 original size:20 final size:21
Alignment explanation
Indices: 2593244--2593296 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2593234 CAGATTGCAT
**
2593244 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
2593264 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
2593285 TGTATCGATACA
1 TGTATCGATACA
2593297 GGTCTGGTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:2593392 original size:33 final size:32
Alignment explanation
Indices: 2593326--2593393 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
2593316 GTGGCCAAAT
** *
2593326 TTGTATCGATACACACAGTATGTTTCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
2593358 TTGTATCGATACATCATAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
2593391 TTG
1 TTG
2593394 GCTTGTAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:2601519 original size:20 final size:20
Alignment explanation
Indices: 2601488--2601544 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
2601478 GTCAAAACCC
*
2601488 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
2601508 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
2601528 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
2601545 TGACCAAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:2601556 original size:20 final size:21
Alignment explanation
Indices: 2601533--2601585 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2601523 CAGATTGCAT
**
2601533 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
2601553 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
2601574 TGTATCGATACA
1 TGTATCGATACA
2601586 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:2601673 original size:33 final size:32
Alignment explanation
Indices: 2601607--2601674 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
2601597 GTGGCCAAAT
** *
2601607 TTGTATCGATACACACAGTATGTTTCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
2601639 TTGTATCGATACATCATAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
2601672 TTG
1 TTG
2601675 GCTTGTAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:2602813 original size:52 final size:52
Alignment explanation
Indices: 2602757--2602880 Score: 176
Period size: 52 Copynumber: 2.4 Consensus size: 52
2602747 AAGATGGTGG
* **
2602757 GGTTGGAGTATCCCCAAAGATGAAAAATTCGATGTTTTGGAAGTAAAAACGA
1 GGTTGGAGTATCCCCAAAGATGAAAAATTCGATATTTTAAAAGTAAAAACGA
* * * *
2602809 GGTTGGAGTATCCCTAGAGATGAAAAATTCGATATTTTAAAAGTAAAAATGG
1 GGTTGGAGTATCCCCAAAGATGAAAAATTCGATATTTTAAAAGTAAAAACGA
*
2602861 GGTTGGAGTATCCCCTAAGA
1 GGTTGGAGTATCCCCAAAGA
2602881 ATGGTGGGGT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (52 bp):
GGTTGGAGTATCCCCAAAGATGAAAAATTCGATATTTTAAAAGTAAAAACGA
Found at i:2605208 original size:27 final size:27
Alignment explanation
Indices: 2605170--2605225 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
2605160 CAAGGTTGGA
2605170 ATACCAACTCATGAAAACCTTAAGTCC
1 ATACCAACTCATGAAAACCTTAAGTCC
2605197 ATACCAACTCATGAAAACCTTAAGTCC
1 ATACCAACTCATGAAAACCTTAAGTCC
2605224 AT
1 AT
2605226 GTTAATCTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.29, G:0.07, T:0.23
Consensus pattern (27 bp):
ATACCAACTCATGAAAACCTTAAGTCC
Found at i:2606680 original size:20 final size:21
Alignment explanation
Indices: 2606655--2606700 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
2606645 GCATCCATCC
*
2606655 ATACATTAACTTA-TGTATCG
1 ATACATTAACTTATTATATCG
2606675 ATACATTAACTTATTATATCG
1 ATACATTAACTTATTATATCG
2606696 ATACA
1 ATACA
2606701 AATTGTAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (21 bp):
ATACATTAACTTATTATATCG
Found at i:2607295 original size:31 final size:30
Alignment explanation
Indices: 2607225--2607297 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 30
2607215 CGTTTTATAC
*
2607225 ATTAATAAATTTATATTTTGTTATCTATTT
1 ATTAATAAATTTATAGTTTGTTATCTATTT
* * * *
2607255 ACTAGTAAATTTATAGTTTGTTTGTTTATTT
1 ATTAATAAATTTATAGTTTG-TTATCTATTT
2607286 ATTAATAAATTT
1 ATTAATAAATTT
2607298 TATATAGTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
30 17 0.49
31 18 0.51
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.58
Consensus pattern (30 bp):
ATTAATAAATTTATAGTTTGTTATCTATTT
Found at i:2611766 original size:19 final size:21
Alignment explanation
Indices: 2611742--2611785 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2611732 AATTTTAATA
2611742 TTTTTG-TT-TTATTATTTTC
1 TTTTTGTTTGTTATTATTTTC
*
2611761 TTTTTGTTTGTTCTTATTTTC
1 TTTTTGTTTGTTATTATTTTC
2611782 TTTT
1 TTTT
2611786 CAGGTGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
20 2 0.09
21 14 0.64
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.80
Consensus pattern (21 bp):
TTTTTGTTTGTTATTATTTTC
Found at i:2617367 original size:42 final size:42
Alignment explanation
Indices: 2617320--2617935 Score: 214
Period size: 42 Copynumber: 14.5 Consensus size: 42
2617310 AAGATGAAGA
*
2617320 AAGAAGTCTCTTAGGTCTGAGCCGACGGGCAGACGAATGATG
1 AAGAAGTCTCTTAGGTCTAAGCCGACGGGCAGACGAATGATG
* * * * * **
2617362 GAGAAGTCTCTCAGGTCTAAGTCGACGGGTAGATGAAAAATG
1 AAGAAGTCTCTTAGGTCTAAGCCGACGGGCAGACGAATGATG
* * * * *
2617404 AAGAAGTCTCTCAGGGCTAAGCCAATGGGCAGACGATTGATG
1 AAGAAGTCTCTTAGGTCTAAGCCGACGGGCAGACGAATGATG
* * * ** * *
2617446 AAGAAAGTCTTTTGGGTTTGAA-CCGATAGGCAGACGATTGAAG
1 AAG-AAGTCTCTTAGGTCT-AAGCCGACGGGCAGACGAATGATG
** * * * * *
2617489 AAGGAAGTCTC-CCGAGTC-GAGCTGACAGGCAGATGAATAATG
1 AA-GAAGTCTCTTAG-GTCTAAGCCGACGGGCAGACGAATGATG
* * * *
2617531 GAGAACTAT-TCTAGGTTTAAGCCGACGGGCAGAC-AATTGATG
1 AAGAAGTCTCT-TAGGTCTAAGCCGACGGGCAGACGAA-TGATG
* * * * * *
2617573 AAGGAAGTCTC-TCGAGTCTAAGCTGACCGGCAGATGAAAGATT
1 AA-GAAGTCTCTTAG-GTCTAAGCCGACGGGCAGACGAATGATG
* * * *
2617616 AAGAAGTCTC-TCGAGTCTAAGCTGACGGGCAGGCGAATAATG
1 AAGAAGTCTCTTAG-GTCTAAGCCGACGGGCAGACGAATGATG
* * * *
2617658 GAGAAGTCTCTCAGGT-TCAAG-TGATGGGCAGAC-AATTGATG
1 AAGAAGTCTCTTAGGTCT-AAGCCGACGGGCAGACGAA-TGATG
* * * * * * *
2617699 AAGGAAGTCTC-TCGAGTTTAAACCGACAGGTAGACAAAAGATG
1 AA-GAAGTCTCTTAG-GTCTAAGCCGACGGGCAGACGAATGATG
* ** * ** *
2617742 AAAAAGTCTCTCGGGTCTGAGCTAACGGGTAGAC-AATTGATG
1 AAGAAGTCTCTTAGGTCTAAGCCGACGGGCAGACGAA-TGATG
** * * ** * *
2617784 AAGGAAGTCTCCCAAGTCTGAGCCGATAGGCAGATGAGTGATG
1 AA-GAAGTCTCTTAGGTCTAAGCCGACGGGCAGACGAATGATG
* * * * * * * * *
2617827 AGGTAGTCTCCT-GAGTCTAAACCAATGGCCAGATGATTGATG
1 AAGAAGTCTCTTAG-GTCTAAGCCGACGGGCAGACGAATGATG
* ** * * * * *
2617869 AAGGAAATCTCCCAAGTCTAAGTCGACGGGTAGACTAAAGATG
1 AA-GAAGTCTCTTAGGTCTAAGCCGACGGGCAGACGAATGATG
*
2617912 AAGAAAGTCTCTTGGGTCTAAGCC
1 AAG-AAGTCTCTTAGGTCTAAGCC
2617936 AACTAGTAGA
Statistics
Matches: 414, Mismatches: 131, Indels: 57
0.69 0.22 0.09
Matches are distributed among these distances:
40 2 0.00
41 29 0.07
42 225 0.54
43 150 0.36
44 8 0.02
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (42 bp):
AAGAAGTCTCTTAGGTCTAAGCCGACGGGCAGACGAATGATG
Found at i:2617646 original size:85 final size:84
Alignment explanation
Indices: 2617474--2617647 Score: 199
Period size: 85 Copynumber: 2.1 Consensus size: 84
2617464 TGAACCGATA
* * *
2617474 GGCAGACGATTGAAGAAGGAAGTCTCCCGAGTCGAGCTGACAGGCAGATGAATAATGGAGAACTA
1 GGCAGACAATTGAAGAAGGAAGTCTCCCGAGTCAAGCTGACAGGCAGATGAATAATGAAGAACTA
* *
2617539 TTCTAGGTTTAAGCCGACG
66 TTCGAGGTCTAAGCCGACG
* * * * *
2617558 GGCAGACAATTGATGAAGGAAGTCTCTCGAGTCTAAGCTGACCGGCAGATGAA-AGATTAAGAAG
1 GGCAGACAATTGAAGAAGGAAGTCTCCCGAGTC-AAGCTGACAGGCAGATGAATA-ATGAAGAAC
* *
2617622 TCTCTCGA-GTCTAAGCTGACG
64 TAT-TCGAGGTCTAAGCCGACG
2617643 GGCAG
1 GGCAG
2617648 GCGAATAATG
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
84 31 0.41
85 41 0.55
86 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (84 bp):
GGCAGACAATTGAAGAAGGAAGTCTCCCGAGTCAAGCTGACAGGCAGATGAATAATGAAGAACTA
TTCGAGGTCTAAGCCGACG
Found at i:2617709 original size:126 final size:127
Alignment explanation
Indices: 2617430--2617775 Score: 347
Period size: 126 Copynumber: 2.7 Consensus size: 127
2617420 CTAAGCCAAT
* * * * * * * * * ** *
2617430 GGGCAGACGATTGATGAAGAAAGTCTTTTGGGTTTGAACCGATAGGCAGACGATTGAAGAAGGAA
1 GGGCAGACAATTGATGAAGGAAGTCTCTCGAGTCTAAACCGACAGGCAGACAAAAGATGAA-GAA
* * * *
2617495 GTCTCCCGAGTC-GAGCTGACAGGCAGATGAATAATGGAGAACTATTCTAGGTTTAAGCCGAC
65 GTCTCTCGAGTCTGAGCTGACGGGCAGACGAATAATGGAGAACTATTCTAGGTTCAAGCCGAC
* * * ** *
2617557 GGGCAGACAATTGATGAAGGAAGTCTCTCGAGTCTAAGCTGACCGGCAGATGAAAGATTAAGAAG
1 GGGCAGACAATTGATGAAGGAAGTCTCTCGAGTCTAAACCGACAGGCAGACAAAAGATGAAGAAG
* * * * * *
2617622 TCTCTCGAGTCTAAGCTGACGGGCAGGCGAATAATGGAGAAGT-CTCTCAGGTTCAAG-TGAT
66 TCTCTCGAGTCTGAGCTGACGGGCAGACGAATAATGGAGAACTATTCT-AGGTTCAAGCCGAC
* * *
2617683 GGGCAGACAATTGATGAAGGAAGTCTCTCGAGTTTAAACCGACAGGTAGACAAAAGATGAAAAAG
1 GGGCAGACAATTGATGAAGGAAGTCTCTCGAGTCTAAACCGACAGGCAGACAAAAGATGAAGAAG
* * *
2617748 TCTCTCGGGTCTGAGCTAACGGGTAGAC
66 TCTCTCGAGTCTGAGCTGACGGGCAGAC
2617776 AATTGATGAA
Statistics
Matches: 177, Mismatches: 40, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
126 98 0.55
127 79 0.45
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (127 bp):
GGGCAGACAATTGATGAAGGAAGTCTCTCGAGTCTAAACCGACAGGCAGACAAAAGATGAAGAAG
TCTCTCGAGTCTGAGCTGACGGGCAGACGAATAATGGAGAACTATTCTAGGTTCAAGCCGAC
Found at i:2618587 original size:78 final size:79
Alignment explanation
Indices: 2618458--2618653 Score: 193
Period size: 78 Copynumber: 2.5 Consensus size: 79
2618448 CTTTATGGAC
* * * * * * *
2618458 ATGTGATGCATCACTACCATTTAGTGTTTGGGAAGGAGGGATGCGACTGGGAATGTATGGGAAA-
1 ATGTGATGCACCAATATCATCTAGTGTTTGGGAAAGAAGGATACGACTGGGAATGTATGGGAAAT
* *
2618522 -CATCTTTCTTGG-CT
66 GC-CCTCT-TTGGCCT
* * * * *
2618536 ATGTGATGCACCAATATCATCTAGTATTTGGGAAAGAAGGATATGATTGGGAATGTGTGGGTAAT
1 ATGTGATGCACCAATATCATCTAGTGTTTGGGAAAGAAGGATACGACTGGGAATGTATGGGAAAT
2618601 GCCCTCTTTGGCCT
66 GCCCTCTTTGGCCT
* * *
2618615 -TATGATGCACCAATATCATCTGGTGTCTGGGAAAGAAGG
1 ATGTGATGCACCAATATCATCTAGTGTTTGGGAAAGAAGG
2618654 GAATGGCTGA
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
78 91 0.94
79 5 0.05
80 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (79 bp):
ATGTGATGCACCAATATCATCTAGTGTTTGGGAAAGAAGGATACGACTGGGAATGTATGGGAAAT
GCCCTCTTTGGCCT
Found at i:2619450 original size:12 final size:11
Alignment explanation
Indices: 2619430--2619462 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
2619420 AGCATTGGCA
2619430 TTCTTTTTTTT
1 TTCTTTTTTTT
2619441 TTCTTTTTTTT
1 TTCTTTTTTTT
*
2619452 TTGTTTTTTTT
1 TTCTTTTTTTT
2619463 ACTTGAACGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.91
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:2619458 original size:72 final size:72
Alignment explanation
Indices: 2619308--2619599 Score: 387
Period size: 70 Copynumber: 4.1 Consensus size: 72
2619298 TGGGTTTTCA
*
2619308 TTTGATTTTTTTTACTTGAACGCCCTTTCGGGTTTTCATCCAAGCATTGGCATTC-TTTTTTCTT
1 TTTG-TTTTTTTTACTTGAACGCCCTTTCGGGTTTTCATCCAAGCATTGGCATTCTTTTTTTTTT
2619372 C-TTTTTT
65 CTTTTTTT
* *
2619379 TTTGTTTTTTTAACTTGAACGCCCTTTTGGGTTTTCATCCAAGCATTGGCATTCTTTTTTTTTTC
1 TTTGTTTTTTTTACTTGAACGCCCTTTCGGGTTTTCATCCAAGCATTGGCATTCTTTTTTTTTTC
2619444 TTTTTTT
66 TTTTTTT
*
2619451 TTTGTTTTTTTTACTTGAACGCCCTTTCGGGTTTTCATCTAAGCATTGGCATT-TTTTTCTTTTT
1 TTTGTTTTTTTTACTTGAACGCCCTTTCGGGTTTTCATCCAAGCATTGGCATTCTTTTT-TTTTT
*
2619515 -TTTTCTT
65 CTTTTTTT
** * * * * * *
2619522 TTT-TACTTTTTACTTGAACACTCTTTCGGGTTTTCATCCAAGCTTTGTCATTCAATTTTCTTTT
1 TTTGTTTTTTTTACTTGAACGCCCTTTCGGGTTTTCATCCAAGCATTGGCATTC-TTTTTTTTTT
*
2619586 CTTTCTTT
65 CTTTTTTT
*
2619594 CTTGTT
1 TTTGTT
2619600 CCTGCATAGT
Statistics
Matches: 194, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
70 90 0.46
71 31 0.16
72 72 0.37
73 1 0.01
ACGTcount: A:0.13, C:0.18, G:0.12, T:0.57
Consensus pattern (72 bp):
TTTGTTTTTTTTACTTGAACGCCCTTTCGGGTTTTCATCCAAGCATTGGCATTCTTTTTTTTTTC
TTTTTTT
Found at i:2619470 original size:142 final size:142
Alignment explanation
Indices: 2619308--2619599 Score: 410
Period size: 142 Copynumber: 2.0 Consensus size: 142
2619298 TGGGTTTTCA
2619308 TTTGATTTTTTTTACTTGAACGCCCTTTCGGGTTTTCATCCAAGCATTGGCATTCTTTTTTCTTC
1 TTTG-TTTTTTTTACTTGAACGCCCTTTCGGGTTTTCATCCAAGCATTGGCA-T-TTTTTTCTT-
* * *
2619373 TTTTTTT-TTGTTT-TTTTAACTTGAACGCCCTTTTGGGTTTTCATCCAAGCATTGGCATTC-TT
62 TTTTTTTCTTGTTTATTTTAACTTGAACACCCTTTCGGGTTTTCATCCAAGCATTGGCATTCAAT
* *
2619435 TTTTTTTTCTTTTTTT
127 TTTCTTTTCTTTCTTT
*
2619451 TTTGTTTTTTTTACTTGAACGCCCTTTCGGGTTTTCATCTAAGCATTGGCATTTTTTTCTTTTTT
1 TTTGTTTTTTTTACTTGAACGCCCTTTCGGGTTTTCATCCAAGCATTGGCATTTTTTTCTTTTTT
* * * * *
2619516 TTTCTTTTTTACTTTTTACTTGAACACTCTTTCGGGTTTTCATCCAAGCTTTGTCATTCAATTTT
66 TTTCTTGTTTA-TTTTAACTTGAACACCCTTTCGGGTTTTCATCCAAGCATTGGCATTCAATTTT
2619581 CTTTTCTTTCTTT
130 CTTTTCTTTCTTT
*
2619594 CTTGTT
1 TTTGTT
2619600 CCTGCATAGT
Statistics
Matches: 133, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
139 7 0.05
140 14 0.11
141 1 0.01
142 87 0.65
143 24 0.18
ACGTcount: A:0.13, C:0.18, G:0.12, T:0.57
Consensus pattern (142 bp):
TTTGTTTTTTTTACTTGAACGCCCTTTCGGGTTTTCATCCAAGCATTGGCATTTTTTTCTTTTTT
TTTCTTGTTTATTTTAACTTGAACACCCTTTCGGGTTTTCATCCAAGCATTGGCATTCAATTTTC
TTTTCTTTCTTT
Found at i:2628286 original size:13 final size:13
Alignment explanation
Indices: 2628268--2628294 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2628258 CTTCCACTGT
2628268 TTGTATCGATACA
1 TTGTATCGATACA
2628281 TTGTATCGATACA
1 TTGTATCGATACA
2628294 T
1 T
2628295 GATGAATTGT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2634380 original size:13 final size:13
Alignment explanation
Indices: 2634362--2634397 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
2634352 ATATTCCTTG
2634362 TATCGATACATTA
1 TATCGATACATTA
*
2634375 TATCGATACATTG
1 TATCGATACATTA
*
2634388 TATTGATACA
1 TATCGATACA
2634398 GTGGGTACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:2634564 original size:20 final size:22
Alignment explanation
Indices: 2634520--2634566 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
2634510 AATTTTCCAC
2634520 AAAT-TTTCACTTTTTCACTTCA
1 AAATCTTTCACTTTTTCAC-TCA
2634542 AAATCTTTCA-TTTTTCA-TCA
1 AAATCTTTCACTTTTTCACTCA
2634562 AAATC
1 AAATC
2634567 ATCAACAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.33
22 11 0.46
23 5 0.21
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATCTTTCACTTTTTCACTCA
Found at i:2636884 original size:13 final size:13
Alignment explanation
Indices: 2636866--2636894 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2636856 ATACATTATG
2636866 CATTGTATCGATA
1 CATTGTATCGATA
2636879 CATTGTATCGATA
1 CATTGTATCGATA
2636892 CAT
1 CAT
2636895 GGACAATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:2636970 original size:20 final size:19
Alignment explanation
Indices: 2636945--2637010 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
2636935 TTCCACTGTT
2636945 TGTATCGATACATGGTACAA
1 TGTATCGATACAT-GTACAA
2636965 TGTATCGATACA--T----
1 TGTATCGATACATGTACAA
2636978 TGTATCGATACATGATACAA
1 TGTATCGATACATG-TACAA
2636998 TGTATCGATACAT
1 TGTATCGATACAT
2637011 TGTATCGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.31
16 1 0.03
17 1 0.03
20 25 0.64
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (19 bp):
TGTATCGATACATGTACAA
Found at i:2636981 original size:13 final size:13
Alignment explanation
Indices: 2636960--2637023 Score: 68
Period size: 13 Copynumber: 5.4 Consensus size: 13
2636950 CGATACATGG
*
2636960 TACAATGTATCGA
1 TACATTGTATCGA
2636973 TACATTGTATCGA
1 TACATTGTATCGA
2636986 TAC-----AT-GA
1 TACATTGTATCGA
*
2636993 TACAATGTATCGA
1 TACATTGTATCGA
2637006 TACATTGTATCGA
1 TACATTGTATCGA
2637019 TACAT
1 TACAT
2637024 GATGAATTGC
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
7 5 0.12
8 2 0.05
12 2 0.05
13 34 0.79
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:2636986 original size:33 final size:33
Alignment explanation
Indices: 2636944--2637043 Score: 157
Period size: 33 Copynumber: 3.0 Consensus size: 33
2636934 CTTCCACTGT
*
2636944 TTGTATCGATACATGGTACAATGTATCGATACA
1 TTGTATCGATACATGATACAATGTATCGATACA
2636977 TTGTATCGATACATGATACAATGTATCGATACA
1 TTGTATCGATACATGATACAATGTATCGATACA
* *
2637010 TTGTATCGATACATGATGA-ATTGCATCGATACA
1 TTGTATCGATACATGAT-ACAATGTATCGATACA
2637043 T
1 T
2637044 AGCTTGTAAC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
33 62 0.98
34 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATGATACAATGTATCGATACA
Found at i:2639943 original size:20 final size:20
Alignment explanation
Indices: 2639910--2639979 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
2639900 GTAAAAAGAT
*
2639910 AGAATATATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
2639930 AGAATGTATTGATACATTCA
1 AGAATGTATCGATACATTGA
*
2639950 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
2639970 AAAATGTATC
1 AGAATGTATC
2639980 ATTACATTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
19 1 0.02
20 39 0.95
21 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.33
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:2639985 original size:20 final size:19
Alignment explanation
Indices: 2639916--2639987 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
2639906 AGATAGAATA
*
2639916 TATCGATACATTGAAGAATG
1 TATC-ATACATTGAAAAATG
* * * *
2639936 TATTGATACATTCATACATG
1 TA-TCATACATTGAAAAATG
2639956 TATCGATACATTGAAAAATG
1 TATC-ATACATTGAAAAATG
2639976 TATCATTACATT
1 TATCA-TACATT
2639988 TGGGTACTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
19 2 0.05
20 37 0.93
21 1 0.03
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (19 bp):
TATCATACATTGAAAAATG
Found at i:2640903 original size:32 final size:30
Alignment explanation
Indices: 2640860--2641065 Score: 158
Period size: 32 Copynumber: 7.0 Consensus size: 30
2640850 TTTTTCTTAA
*
2640860 AAAAAGGTGCCACTAACTTGTGTGGGCTTTG
1 AAAAGGGTGCCACTAACTT-TGTGGGCTTTG
* * * *
2640891 AAAAGAGTTGCCACCAACTCGTGTGGCCTTTG
1 AAAAG-GGTGCCACTAACT-TTGTGGGCTTTG
** * *
2640923 AAAATAGTGCCACTTAC-TTATGGGCTTT-
1 AAAAGGGTGCCACTAACTTTGTGGGCTTTG
*
2640951 AAAAGGGTACCACTAAC-TTGTGGGCTTTG
1 AAAAGGGTGCCACTAACTTTGTGGGCTTTG
*
2640980 --AAGGGTGCCACTGAC-TTGTGGGCTTTG
1 AAAAGGGTGCCACTAACTTTGTGGGCTTTG
* ** *
2641007 AAAAGAGTTGCCACCGACTCATGTGGGCTTTG
1 AAAAG-GGTGCCACTAACT-TTGTGGGCTTTG
* *
2641039 -AAAGGGTGCCACTGAC-TTGTGAGCTTT
1 AAAAGGGTGCCACTAACTTTGTGGGCTTT
2641066 AAAGAGATGA
Statistics
Matches: 140, Mismatches: 27, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
27 25 0.18
28 32 0.23
29 11 0.08
30 20 0.14
31 16 0.11
32 36 0.26
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (30 bp):
AAAAGGGTGCCACTAACTTTGTGGGCTTTG
Found at i:2644101 original size:20 final size:20
Alignment explanation
Indices: 2644078--2644150 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2644068 ACAATTCAAA
2644078 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2644098 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2644119 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2644139 GTATCGATACAT
1 GTATCGATACAT
2644151 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2644122 original size:21 final size:21
Alignment explanation
Indices: 2644096--2644171 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
2644086 ACATGTTGCA
2644096 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2644117 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
2644137 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
2644158 TTGTATCGATACAT
1 ATGTATCGATACAT
2644172 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2644129 original size:41 final size:41
Alignment explanation
Indices: 2644078--2644171 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2644068 ACAATTCAAA
*
2644078 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
2644119 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2644160 GTATCGATACAT
1 GTATCGATACAT
2644172 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:2644228 original size:13 final size:13
Alignment explanation
Indices: 2644210--2644235 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2644200 TACAGCAAGT
2644210 ATGTATCGATACA
1 ATGTATCGATACA
2644223 ATGTATCGATACA
1 ATGTATCGATACA
2644236 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2648281 original size:15 final size:15
Alignment explanation
Indices: 2648261--2648291 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2648251 TAAAAATGTC
*
2648261 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2648276 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2648291 C
1 C
2648292 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2650384 original size:20 final size:21
Alignment explanation
Indices: 2650305--2650383 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
2650295 AATGTCCAAA
*
2650305 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
2650325 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
2650350 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
2650370 TTGTATCGATACAT
1 ATGTATCGATACAT
2650384 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:2650388 original size:13 final size:13
Alignment explanation
Indices: 2650370--2650408 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2650360 ACATTTTTCT
2650370 TTGTATCGATACA
1 TTGTATCGATACA
2650383 TTGTATCGATACA
1 TTGTATCGATACA
*
2650396 CTGTATCGATACA
1 TTGTATCGATACA
2650409 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2652347 original size:100 final size:100
Alignment explanation
Indices: 2652174--2652368 Score: 381
Period size: 100 Copynumber: 1.9 Consensus size: 100
2652164 AGTGCAAATA
*
2652174 AATTTTGATATGAATTACTTGATTAAGGGGGAGATTTTTTAATAAACGGGGGAGACAAAGGAGAG
1 AATTTTGATATGAATTACTTGATTAAGGGGGAGATTTTTTAATAAACGGGGGAGACAAAGAAGAG
2652239 AATGCGTGAATTACCTTATTAAGGGGGAGATTTTT
66 AATGCGTGAATTACCTTATTAAGGGGGAGATTTTT
2652274 AATTTTGATATGAATTACTTGATTAAGGGGGAGATTTTTTAATAAACGGGGGAGACAAAGAAGAG
1 AATTTTGATATGAATTACTTGATTAAGGGGGAGATTTTTTAATAAACGGGGGAGACAAAGAAGAG
2652339 AATGCGTGAATTACCTTATTAAGGGGGAGA
66 AATGCGTGAATTACCTTATTAAGGGGGAGA
2652369 ATGTACAAAT
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 94 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.30
Consensus pattern (100 bp):
AATTTTGATATGAATTACTTGATTAAGGGGGAGATTTTTTAATAAACGGGGGAGACAAAGAAGAG
AATGCGTGAATTACCTTATTAAGGGGGAGATTTTT
Found at i:2652957 original size:20 final size:20
Alignment explanation
Indices: 2652934--2653006 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2652924 ACAATTCAAA
2652934 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2652954 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2652975 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2652995 GTATCGATACAT
1 GTATCGATACAT
2653007 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2652978 original size:21 final size:21
Alignment explanation
Indices: 2652952--2653027 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
2652942 ACATGTTGCA
2652952 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2652973 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
2652993 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
2653014 TTGTATCGATACAT
1 ATGTATCGATACAT
2653028 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2652985 original size:41 final size:41
Alignment explanation
Indices: 2652934--2653027 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2652924 ACAATTCAAA
*
2652934 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
2652975 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2653016 GTATCGATACAT
1 GTATCGATACAT
2653028 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:2653084 original size:13 final size:13
Alignment explanation
Indices: 2653066--2653091 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2653056 TACAGCAAGT
2653066 ATGTATCGATACA
1 ATGTATCGATACA
2653079 ATGTATCGATACA
1 ATGTATCGATACA
2653092 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2656384 original size:128 final size:127
Alignment explanation
Indices: 2656209--2656520 Score: 439
Period size: 129 Copynumber: 2.4 Consensus size: 127
2656199 ATATGAAAAA
**
2656209 TTTTGAAATCTTTTAATACCTTTACGGATACCCATAAGAATATAAAAAATTAAAAATAATTAATA
1 TTTTGAAATCTTTT-ATACCCCTACGGATACCCATAAGAATATAAAAAATTAAAAATAATTAAT-
* * * * *
2656274 ATTTAATTAT-TTCT-AAAAAATTATTTTGTACCTTAATGGATATCTGAAAAGATACGAAAAGTT
64 ATTTAATTATGTT-TGAAAAAATCATTTCGTACCTTAATAGATACCCGAAAAGATACGAAAAGTT
* * *
2656337 TTTTGGAATCTTTTATACCCCTACGGATACCCATAGGAATATAAAAAACTTAAAAATAATTGATA
1 TTTTGAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAAA-TTAAAAATAATTAATA
* *
2656402 TTTATTTATGTTTGGAAAAAATCATTTCGTACCTTGATAGATACCCGAAAAGATACGAAAAGTT
65 TTTAATTATGTTT-GAAAAAATCATTTCGTACCTTAATAGATACCCGAAAAGATACGAAAAGTT
* *
2656466 TTTCGAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAGATTAAAAA
1 TTTTGAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAAATTAAAAA
2656521 AATATTTTTT
Statistics
Matches: 164, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
127 41 0.25
128 36 0.22
129 87 0.53
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (127 bp):
TTTTGAAATCTTTTATACCCCTACGGATACCCATAAGAATATAAAAAATTAAAAATAATTAATAT
TTAATTATGTTTGAAAAAATCATTTCGTACCTTAATAGATACCCGAAAAGATACGAAAAGTT
Done.