Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 79 of 335
Found at i:26260964 original size:17 final size:17
Alignment explanation
Indices: 26260923--26260966 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
26260913 TTATATATCG
*
26260923 TATATTTTTAATACTAT
1 TATATTATTAATACTAT
** *
26260940 TACGTTATTACTACTAT
1 TATATTATTAATACTAT
26260957 TATATTATTA
1 TATATTATTA
26260967 TTATATTTTT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (17 bp):
TATATTATTAATACTAT
Found at i:26271634 original size:29 final size:29
Alignment explanation
Indices: 26271576--26271635 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
26271566 CATCAATTTT
* *
26271576 TTAAAAAAAAATATTATTAAACTTTCAAA
1 TTAAAAAAAAATATTATAAAACTTTAAAA
* *
26271605 TTAAAAAAAAATCTCTA-AAAATTTTAAAA
1 TTAAAAAAAAATAT-TATAAAACTTTAAAA
26271634 TT
1 TT
26271636 TTTAATTAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (29 bp):
TTAAAAAAAAATATTATAAAACTTTAAAA
Found at i:26281878 original size:35 final size:35
Alignment explanation
Indices: 26281832--26281937 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
26281822 CACTTGCCTC
26281832 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
26281867 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
26281902 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
26281937 T
1 T
26281938 CACACACCCC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.16, C:0.49, G:0.12, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:26282384 original size:33 final size:33
Alignment explanation
Indices: 26282342--26282415 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
26282332 AGAGGGGAAG
*
26282342 CAAAAAAAAAAATCCAGCAAAAAA-TTCCAGCA
1 CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
**
26282374 CCAAAAAAAAATTTCCAGAAAAAAATTTCCAGCA
1 -CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
26282408 -AAAAAAAA
1 CAAAAAAAA
26282416 CCAAAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 8 0.22
33 21 0.57
34 8 0.22
ACGTcount: A:0.64, C:0.19, G:0.05, T:0.12
Consensus pattern (33 bp):
CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
Found at i:26282702 original size:11 final size:11
Alignment explanation
Indices: 26282673--26282717 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
26282663 CCTACCGATT
* *
26282673 TCCCTTCCCCC
1 TCCCTTCTCTC
26282684 TCCCTTCTCTC
1 TCCCTTCTCTC
26282695 TCCCTTCTCTC
1 TCCCTTCTCTC
26282706 TTCCC-TCTCTC
1 -TCCCTTCTCTC
26282717 T
1 T
26282718 TCTTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
10 1 0.03
11 26 0.84
12 4 0.13
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:26301761 original size:70 final size:70
Alignment explanation
Indices: 26301674--26302191 Score: 840
Period size: 70 Copynumber: 7.2 Consensus size: 70
26301664 CAAGTGACAG
*
26301674 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
26301739 GTTTC
66 GTTTC
*
26301744 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
26301809 GTTTC
66 GTTTC
*
26301814 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
26301879 AATTTATGTTTC
59 AATTTATGTTTC
*
26301891 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
26301956 GTTTC
66 GTTTC
*
26301961 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
26302026 GTTTC
66 GTTTC
26302031 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA-ACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
26302095 AATTTATGTTTC
59 AATTTATGTTTC
*
26302107 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
26302172 GTTTC
66 GTTTC
26302177 AAAAATCAACTCATA
1 -AAAATCAACTCATA
26302192 GGTGAGTTGA
Statistics
Matches: 422, Mismatches: 10, Indels: 31
0.91 0.02 0.07
Matches are distributed among these distances:
69 11 0.03
70 255 0.60
71 18 0.04
72 2 0.00
74 1 0.00
75 3 0.01
76 56 0.13
77 76 0.18
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTC
Found at i:26301937 original size:147 final size:140
Alignment explanation
Indices: 26301674--26302191 Score: 840
Period size: 147 Copynumber: 3.6 Consensus size: 140
26301664 CAAGTGACAG
*
26301674 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
26301739 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
26301804 TTTATGTTTC
131 TTTATGTTTC
*
26301814 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
*
26301879 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
59 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
26301944 ATTTCAATTTATGTTTC
124 ATTTCAATTTATGTTTC
*
26301961 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
26302026 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA-ACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA
26302090 TTTTCAATTTATGTTTC
125 -TTTCAATTTATGTTTC
*
26302107 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
26302172 GTTTCAAAAATCAACTCATA
66 GTTTC-AAAATCAACTCATA
26302192 GGTGAGTTGA
Statistics
Matches: 354, Mismatches: 9, Indels: 23
0.92 0.02 0.06
Matches are distributed among these distances:
139 11 0.03
140 103 0.29
141 2 0.01
142 1 0.00
144 1 0.00
145 3 0.01
146 86 0.24
147 147 0.42
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (140 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
TTTATGTTTC
Found at i:26302049 original size:217 final size:216
Alignment explanation
Indices: 26301674--26302191 Score: 1000
Period size: 217 Copynumber: 2.4 Consensus size: 216
26301664 CAAGTGACAG
* *
26301674 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
26301739 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
26301804 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAAT
131 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AAACACGTTGAGGTAAT
26301869 TTCAATTTTCAATTTATGTTTC
195 TTCAATTTTCAATTTATGTTTC
26301891 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
26301956 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
26302021 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAACACGTTGAGGTAATT
131 TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAACACGTTGAGGTAATT
26302086 TCAATTTTCAATTTATGTTTC
196 TCAATTTTCAATTTATGTTTC
26302107 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
26302172 GTTTCAAAAATCAACTCATA
66 GTTTC-AAAATCAACTCATA
26302192 GGTGAGTTGA
Statistics
Matches: 298, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
216 109 0.37
217 189 0.63
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (216 bp):
AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
TTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAACACGTTGAGGTAATT
TCAATTTTCAATTTATGTTTC
Found at i:26302334 original size:54 final size:52
Alignment explanation
Indices: 26302242--26302396 Score: 194
Period size: 54 Copynumber: 3.0 Consensus size: 52
26302232 TCTACTTTCC
* *
26302242 AATTCCTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTGTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT
* *
26302296 AATTTCTGTCTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CC-T
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTT
**
26302347 --TTT-TGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
26302396 A
1 A
26302397 GGTCATATGT
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
47 1 0.01
48 38 0.43
49 4 0.04
51 1 0.01
54 44 0.49
55 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
Found at i:26303148 original size:35 final size:35
Alignment explanation
Indices: 26303102--26303207 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
26303092 CACTTGCCTC
26303102 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
26303137 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
26303172 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
26303207 T
1 T
26303208 CACACACCCC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.16, C:0.49, G:0.12, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:26303658 original size:20 final size:17
Alignment explanation
Indices: 26303609--26303670 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 17
26303599 AAAGAGGGGA
*
26303609 AGCAAAAAAAAAAATCC
1 AGCAAAAAAAAAATTCC
26303626 AGC----AAAAAATTCC
1 AGCAAAAAAAAAATTCC
26303639 AGCACCAAAAAAAAATTTCC
1 AGCA--AAAAAAAAA-TTCC
26303659 AGCAAAAAAAAA
1 AGCAAAAAAAAA
26303671 GCCAAAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 12 0.32
17 3 0.08
18 8 0.22
19 6 0.16
20 8 0.22
ACGTcount: A:0.65, C:0.19, G:0.06, T:0.10
Consensus pattern (17 bp):
AGCAAAAAAAAAATTCC
Found at i:26303960 original size:18 final size:18
Alignment explanation
Indices: 26303937--26303974 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
26303927 TTCCCTTCCC
*
26303937 CTCTCTTCTCTCTCCCTT
1 CTCTCTTCCCTCTCCCTT
*
26303955 CTCTCTTCCCTCTCTCTT
1 CTCTCTTCCCTCTCCCTT
26303973 CT
1 CT
26303975 TTTTTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (18 bp):
CTCTCTTCCCTCTCCCTT
Found at i:26303972 original size:11 final size:12
Alignment explanation
Indices: 26303941--26303973 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
26303931 CTTCCCCTCT
26303941 CTTCTCTC-TCC
1 CTTCTCTCTTCC
26303952 CTTCTCTCTTCC
1 CTTCTCTCTTCC
26303964 C-TCTCTCTTC
1 CTTCTCTCTTC
26303974 TTTTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (12 bp):
CTTCTCTCTTCC
Found at i:26304571 original size:2 final size:2
Alignment explanation
Indices: 26304491--26304555 Score: 73
Period size: 2 Copynumber: 34.0 Consensus size: 2
26304481 ATCATTTCTA
* * *
26304491 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT -T AT GT GT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
26304531 AT AT AT AT AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
26304556 GCCATTAGTT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
1 3 0.06
2 51 0.94
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (2 bp):
AT
Found at i:26307322 original size:2 final size:2
Alignment explanation
Indices: 26307315--26307354 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
26307305 AGATGTAAGA
26307315 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26307355 GAAAAGGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26308137 original size:18 final size:18
Alignment explanation
Indices: 26308114--26308149 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
26308104 TCAACAAATG
26308114 GTATCAAGAGCCTATCAT
1 GTATCAAGAGCCTATCAT
26308132 GTATCAAGAGCCTATCAT
1 GTATCAAGAGCCTATCAT
26308150 CTTTGAGAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (18 bp):
GTATCAAGAGCCTATCAT
Found at i:26312512 original size:30 final size:31
Alignment explanation
Indices: 26312456--26312530 Score: 134
Period size: 30 Copynumber: 2.5 Consensus size: 31
26312446 TTTTTTAGCC
*
26312456 TTTAACGGCGCTTTTAGGCGCCACTAAAACT
1 TTTAGCGGCGCTTTTAGGCGCCACTAAAACT
26312487 TTTAGCGGCGCTTTTAGGC-CCACTAAAACT
1 TTTAGCGGCGCTTTTAGGCGCCACTAAAACT
26312517 TTTAGCGGCGCTTT
1 TTTAGCGGCGCTTT
26312531 CTAAAACGCC
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 25 0.58
31 18 0.42
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (31 bp):
TTTAGCGGCGCTTTTAGGCGCCACTAAAACT
Found at i:26312647 original size:43 final size:43
Alignment explanation
Indices: 26312598--26312799 Score: 273
Period size: 43 Copynumber: 4.7 Consensus size: 43
26312588 TTGGAAAAAA
*
26312598 CGCCGCTAAAGGTCAAGCCTTTTAGCGGCGTTTGTGGGAGAAG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAG
* *
26312641 CGCCGCTAAAGGTCAATGCTTTTAGCGGCGTTTGTAGTGA-AAG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGT-GGGAGAAG
* * *** * *
26312684 CGCCTCTAAAGGTTAAGGCTTTTAGCGGCGCTTT-TCACACAAA
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCG-TTTGTGGGAGAAG
26312727 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAG
*
26312770 CGCCGTTAAAGGTCAAGGCTTTTAGCGGCG
1 CGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
26312800 CTTTTTTTAC
Statistics
Matches: 137, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
42 4 0.03
43 127 0.93
44 6 0.04
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.25
Consensus pattern (43 bp):
CGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAG
Found at i:26312748 original size:86 final size:86
Alignment explanation
Indices: 26312598--26312822 Score: 285
Period size: 86 Copynumber: 2.6 Consensus size: 86
26312588 TTGGAAAAAA
* * *** * * *
26312598 CGCCGCTAAAGGTCAAGCCTTTTAGCGGCG-TTTGTGGGAGAAGCGCCGCTAAAGGTCAATGCTT
1 CGCCGTTAAAGGTCAAGGCTTTTAGCGGCGCTTT-TCACACAAACGCCGCTAAAGGTCAAGGCTT
*
26312662 TTAGCGGCGTTTGTAGTGA-AAG
65 TTAGCGGCGTTTGT-GGGAGAAG
*
26312684 CGCC-TCTAAAGGTTAAGGCTTTTAGCGGCGCTTTTCACACAAACGCCGCTAAAGGTCAAGGCTT
1 CGCCGT-TAAAGGTCAAGGCTTTTAGCGGCGCTTTTCACACAAACGCCGCTAAAGGTCAAGGCTT
26312748 TTAGCGGCGTTTGTGGGAGAAG
65 TTAGCGGCGTTTGTGGGAGAAG
***
26312770 CGCCGTTAAAGGTCAAGGCTTTTAGCGGCGCTTTTTTTACAAACGCCGCTAAA
1 CGCCGTTAAAGGTCAAGGCTTTTAGCGGCGCTTTTCACACAAACGCCGCTAAA
26312823 TTTGGCAGAT
Statistics
Matches: 121, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
85 3 0.02
86 114 0.94
87 4 0.03
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (86 bp):
CGCCGTTAAAGGTCAAGGCTTTTAGCGGCGCTTTTCACACAAACGCCGCTAAAGGTCAAGGCTTT
TAGCGGCGTTTGTGGGAGAAG
Found at i:26312817 original size:43 final size:43
Alignment explanation
Indices: 26312595--26312822 Score: 255
Period size: 43 Copynumber: 5.3 Consensus size: 43
26312585 TTATTGGAAA
* *
26312595 AAACGCCGCTAAAGGTCAAGCCTTTTAGCGGCGTTTGTGGGAG
1 AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAC
* * *
26312638 AAGCGCCGCTAAAGGTCAATGCTTTTAGCGGCGTTTGTAGTGA-
1 AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGT-GGGAC
* * * ***
26312681 AAGCGCCTCTAAAGGTTAAGGCTTTTAGCGGCGCTTT-TCACAC
1 AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCG-TTTGTGGGAC
*
26312724 AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAG
1 AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAC
* * ***
26312767 AAGCGCCGTTAAAGGTCAAGGCTTTTAGCGGCGCTTT-TTTTAC
1 AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCG-TTTGTGGGAC
26312810 AAACGCCGCTAAA
1 AAACGCCGCTAAA
26312823 TTTGGCAGAT
Statistics
Matches: 155, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
42 4 0.03
43 142 0.92
44 9 0.06
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAC
Found at i:26312908 original size:31 final size:31
Alignment explanation
Indices: 26312873--26312953 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
26312863 CTTCCTACAT
* *
26312873 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
26312904 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
26312935 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
26312954 TACTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:26313223 original size:21 final size:21
Alignment explanation
Indices: 26313199--26313244 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
26313189 GCTCGTACCT
*
26313199 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
26313220 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
26313241 CTGC
1 CTGC
26313245 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:26318891 original size:9 final size:9
Alignment explanation
Indices: 26318877--26319102 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
26318867 TATTTAAGTA
26318877 TTATGTAAG
1 TTATGTAAG
*
26318886 TTATGTAAT
1 TTATGTAAG
*
26318895 TTATGATATG
1 TTATG-TAAG
* * *
26318905 ATATAT-AT
1 TTATGTAAG
*
26318913 TTATGTAAA
1 TTATGTAAG
* *
26318922 TTATAT-AT
1 TTATGTAAG
*
26318930 TTATCTAAG
1 TTATGTAAG
*
26318939 TTATATAAG
1 TTATGTAAG
26318948 TTATGTAAG
1 TTATGTAAG
*
26318957 TTATGTAAA
1 TTATGTAAG
*
26318966 TTATGATATAAAA
1 TTATG---T-AAG
*
26318979 TATATTTAAG
1 T-TATGTAAG
26318989 TATTATGTAAG
1 --TTATGTAAG
26319000 TTATGTAAG
1 TTATGTAAG
* *
26319009 TTATAT-AT
1 TTATGTAAG
*
26319017 TTATCTAAG
1 TTATGTAAG
*
26319026 TTATATAAG
1 TTATGTAAG
*
26319035 TTATATAAG
1 TTATGTAAG
*
26319044 TTATGTATG
1 TTATGTAAG
*
26319053 TTATATAAG
1 TTATGTAAG
26319062 TTATGTAAG
1 TTATGTAAG
* *
26319071 TTATATATG
1 TTATGTAAG
*
26319080 TTATATAAG
1 TTATGTAAG
*
26319089 TTATGTAAA
1 TTATGTAAG
26319098 TTATG
1 TTATG
26319103 ATATCAAATA
Statistics
Matches: 171, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
8 16 0.09
9 131 0.77
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:26318956 original size:18 final size:18
Alignment explanation
Indices: 26318877--26319102 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
26318867 TATTTAAGTA
* *
26318877 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
26318895 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
26318913 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
26318930 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
26318948 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
26318966 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
26318989 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
26319009 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
26319026 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
26319044 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
26319062 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* * *
26319080 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
26319098 TTATG
1 TTATG
26319103 ATATCAAATA
Statistics
Matches: 167, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
17 37 0.22
18 97 0.58
19 7 0.04
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.04
25 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:26318969 original size:27 final size:27
Alignment explanation
Indices: 26318930--26319102 Score: 159
Period size: 27 Copynumber: 6.2 Consensus size: 27
26318920 AATTATATAT
*
26318930 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
26318957 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
26318989 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
26319017 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
26319044 TTATGTATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
26319071 TTATATATGTTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAGTTATGTAAG
26319098 TTATG
1 TTATG
26319103 ATATCAAATA
Statistics
Matches: 120, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
26 22 0.18
27 59 0.49
28 4 0.03
29 5 0.04
30 7 0.06
31 6 0.05
32 8 0.07
33 3 0.03
34 6 0.05
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:26319056 original size:114 final size:114
Alignment explanation
Indices: 26318853--26319074 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
26318843 ACTAGTTATG
* * * * *
26318853 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATATATTTATG
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
*
26318918 TAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
66 TAAATTATATAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* *
26318967 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-TTATCTAAGTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATAT-AGTTAT
* * *
26319030 ATAAGTTATATAAGTTATGTATGTTATATAAGTTATGTAAGTTAT
65 ATAAATTATAT-AGTTATCTAAGTTATATAAGTTATGTAAGTTAT
26319075 ATATGTTATA
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 73 0.77
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.48
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
TAAATTATATAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:26319227 original size:15 final size:15
Alignment explanation
Indices: 26319207--26319262 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
26319197 AAGTAGCGGG
26319207 ATTAAATAATATTTA
1 ATTAAATAATATTTA
26319222 ATTAAATAATATTT-
1 ATTAAATAATATTTA
26319236 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
26319251 ATTAAATAATAT
1 ATTAAATAATAT
26319263 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:26322704 original size:10 final size:10
Alignment explanation
Indices: 26322689--26322719 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
26322679 TTCTGAGCAA
26322689 ACATGAATTT
1 ACATGAATTT
26322699 ACATGAATTT
1 ACATGAATTT
26322709 ACATGAATTT
1 ACATGAATTT
26322719 A
1 A
26322720 TCTAACACGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.39
Consensus pattern (10 bp):
ACATGAATTT
Found at i:26323728 original size:15 final size:15
Alignment explanation
Indices: 26323710--26323744 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
26323700 AAATAATAAT
*
26323710 TTATATATATTTATA
1 TTATATACATTTATA
*
26323725 TTATATACATTTATC
1 TTATATACATTTATA
26323740 TTATA
1 TTATA
26323745 CATTAAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATATACATTTATA
Found at i:26323736 original size:25 final size:24
Alignment explanation
Indices: 26323677--26323738 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
26323667 ACCACTTTTC
*
26323677 ATATATATATTTATATATTTTTAAA
1 ATATATA-ATTTATATATATTTAAA
*
26323702 ATA-ATAATTTATATATATTTATA
1 ATATATAATTTATATATATTTAAA
*
26323725 TTATATACATTTAT
1 ATATATA-ATTTAT
26323739 CTTATACATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 17 0.53
24 6 0.19
25 9 0.28
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
ATATATAATTTATATATATTTAAA
Found at i:26324188 original size:18 final size:18
Alignment explanation
Indices: 26324165--26324215 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
26324155 TTACACCCTA
26324165 AATATATATTATAAACTT
1 AATATATATTATAAACTT
* **
26324183 AATATATATTAGAAGTTT
1 AATATATATTATAAACTT
26324201 AATATATATATATAA
1 AATATATAT-TATAA
26324216 CAAGGGACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (18 bp):
AATATATATTATAAACTT
Found at i:26324567 original size:41 final size:41
Alignment explanation
Indices: 26324522--26324836 Score: 402
Period size: 41 Copynumber: 7.6 Consensus size: 41
26324512 TTACTTTTTT
* *
26324522 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
*
26324563 GCGGCG-TTTTCACAAAAGCGCCGCTAAAAACCTCTACCTATA
1 GCGGCGTTTTTC-CAAAAGCGCCGCT-AAAACCTCGACCTATA
* * * *
26324605 GCGGCATTTTCCCAAAAGCGCCGCTAAAACATCGGCCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
* *
26324646 GCAGCG-TTTTCACAAAAGCGCCGCTAAAAACCTCTACCTATA
1 GCGGCGTTTTTC-CAAAAGCGCCGCT-AAAACCTCGACCTATA
* * *
26324688 GCGGCGTTTTTCCAGAAGCGCCGCTAAAACCTTGAACTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
* *
26324729 GCGGCGTTTTTGCAAAAGCGCCGCTAAAACCTCTACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
* * *
26324770 GCAGTC-TTTTTCTAGAAGCGCCGCTAAAACCTCGACCTATA
1 GC-GGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
*
26324811 GCGGCGTTTTTCCAAAAGCGTCGCTA
1 GCGGCGTTTTTCCAAAAGCGCCGCTA
26324837 TTGTTCAGTT
Statistics
Matches: 233, Mismatches: 33, Indels: 16
0.83 0.12 0.06
Matches are distributed among these distances:
40 11 0.05
41 150 0.64
42 63 0.27
43 9 0.04
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
Found at i:26324624 original size:83 final size:83
Alignment explanation
Indices: 26324522--26324836 Score: 447
Period size: 83 Copynumber: 3.8 Consensus size: 83
26324512 TTACTTTTTT
*
26324522 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATAGCGGCGTTTTCACAAAAGCGCCGC
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGACCTATAGCGGCGTTTTCACAAAAGCGCCGC
26324587 TAAAAACCTCTACCTATA
66 TAAAAACCTCTACCTATA
* * * *
26324605 GCGGCATTTTCCCAAAAGCGCCGCTAAAACATCGGCCTATAGCAGCGTTTTCACAAAAGCGCCGC
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGACCTATAGCGGCGTTTTCACAAAAGCGCCGC
26324670 TAAAAACCTCTACCTATA
66 TAAAAACCTCTACCTATA
* * * * **
26324688 GCGGCGTTTTTCCAGAAGCGCCGCTAAAACCTTGAACTATAGCGGCGTTTTTGCAAAAGCGCCGC
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGACCTATAGCGGCGTTTTCACAAAAGCGCCGC
26324753 T-AAAACCTCTACCTATA
66 TAAAAACCTCTACCTATA
* * * * *
26324770 GCAGTC-TTTTTCTAGAAGCGCCGCTAAAACCTCGACCTATAGCGGCGTTTTTC-CAAAAGCGTC
1 GC-GGCGTTTTTCCAAAAGCGCCGCTAAAACATCGACCTATAGCGGCG-TTTTCACAAAAGCGCC
26324833 GCTA
64 GCTA
26324837 TTGTTCAGTT
Statistics
Matches: 210, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
82 68 0.32
83 142 0.68
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (83 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGACCTATAGCGGCGTTTTCACAAAAGCGCCGC
TAAAAACCTCTACCTATA
Found at i:26327145 original size:26 final size:27
Alignment explanation
Indices: 26327116--26327169 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
26327106 TATGTATACC
* * *
26327116 AAATAATAGGTAATAATA-TTAAAATA
1 AAATAATAAGTAACAATAGTGAAAATA
26327142 AAATAATAAGTAACAATAGTGAAAATA
1 AAATAATAAGTAACAATAGTGAAAATA
26327169 A
1 A
26327170 TAAGTATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (27 bp):
AAATAATAAGTAACAATAGTGAAAATA
Found at i:26327204 original size:18 final size:17
Alignment explanation
Indices: 26327163--26327233 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 17
26327153 AACAATAGTG
26327163 AAAATAATAAGTATA-ATA
1 AAAAT-ATAA-TATATATA
26327181 ATAAATATAATGATATATA
1 A-AAATATAAT-ATATATA
*
26327200 AAAATAATACTATATATA
1 AAAAT-ATAATATATATA
26327218 AAAAGTAT-ATATATAT
1 AAAA-TATAATATATAT
26327234 GCGTATAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
17 8 0.17
18 25 0.54
19 13 0.28
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (17 bp):
AAAATATAATATATATA
Found at i:26327346 original size:27 final size:26
Alignment explanation
Indices: 26327296--26327365 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 26
26327286 TAGATATAAT
* *
26327296 AATATGTACATAATATGGTATTAAAA
1 AATATATACATAATATAGTATTAAAA
* *
26327322 TATATATATATAATATAGTATTTAAAA
1 AATATATACATAATATAGTA-TTAAAA
*
26327349 AATGTATACATAATATA
1 AATATATACATAATATA
26327366 TATATTATGA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 16 0.44
27 20 0.56
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (26 bp):
AATATATACATAATATAGTATTAAAA
Found at i:26327383 original size:3 final size:3
Alignment explanation
Indices: 26327375--26327447 Score: 69
Period size: 3 Copynumber: 24.3 Consensus size: 3
26327365 ATATATTATG
* * *
26327375 AAT AAT AAT AAT AAT AAT AGT ATAT ACAT -AT AAA AAT AAT AAT CAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT AAT AAT AAT
* *
26327421 AAT AGT AAT ACT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
26327448 CAAAGACAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
2 4 0.07
3 48 0.86
4 4 0.07
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:26327703 original size:22 final size:22
Alignment explanation
Indices: 26327660--26327716 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 22
26327650 TACTAAAAAG
* *
26327660 AAATATATAAATATATAGGATAGA
1 AAATAGAT-AATAAATAGGATA-A
*
26327684 AAATA-ATAATAAATATGATAA
1 AAATAGATAATAAATAGGATAA
*
26327705 TAATAGATAATA
1 AAATAGATAATA
26327717 GCAAAAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 5 0.17
22 17 0.59
23 2 0.07
24 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (22 bp):
AAATAGATAATAAATAGGATAA
Found at i:26329363 original size:63 final size:63
Alignment explanation
Indices: 26329222--26329366 Score: 236
Period size: 63 Copynumber: 2.3 Consensus size: 63
26329212 TATCTTTGGT
* * *
26329222 CTGCTCCACTACAACTTTAGGGTTTCGCTACAACTTCATGGAGATAAGACTTGTAATTTCAAC
1 CTGCTCCACTACAACTTCAGGGTTCCGCTACAACTTCATAGAGATAAGACTTGTAATTTCAAC
*
26329285 CTGCTCCACAACAACTTCAGGGTTCCGCTACAACTTCATAGAGATAAGACTTGTAATTTCAAC
1 CTGCTCCACTACAACTTCAGGGTTCCGCTACAACTTCATAGAGATAAGACTTGTAATTTCAAC
* *
26329348 CTGCTCTACTGCAACTTCA
1 CTGCTCCACTACAACTTCA
26329367 AGGAGGCCAA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 75 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (63 bp):
CTGCTCCACTACAACTTCAGGGTTCCGCTACAACTTCATAGAGATAAGACTTGTAATTTCAAC
Found at i:26329734 original size:75 final size:75
Alignment explanation
Indices: 26329605--26330193 Score: 336
Period size: 75 Copynumber: 7.3 Consensus size: 75
26329595 CTGAGGGTCA
* * *** * * *
26329605 CAATATGAGTTGATTTTTTTGAGACATAAACTAAAAATACCTTAGTACGCGACCCGATGCTCAAC
1 CAATATGAGTTGATTTTTTTGAAACATAAACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAAC
26329670 TCACCTCTCG
66 TCACCTCTCG
*
26329680 CAATATGAGTTGATTTTTTTGAAACATAAACTAAAAATACCTCAGCGTGTGACCCGAGGCTCAAC
1 CAATATGAGTTGATTTTTTTGAAACATAAACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAAC
26329745 TCACCTCTCG
66 TCACCTCTCG
***** *
26329755 CAATATGAGTTGACGTTTTCTTTTTTTTTGTTTTTTTTTAAAACATAAATTGAAAATACCTCAGT
1 CAATATGAGTTGA---------TTTTTTTG---AAACAT-AAAC-T--A---AAAATACCTCAGC
* ** *
26329820 GCGTGATTTGAGGCTCAACTCACTTCTCG
47 GTGTGACCTGAGGCTCAACTCACCTCTCG
* * * * *
26329849 CAATATGAGTTGATTTTTTTGAAACATAAACTTAAAATGCCTTAGCGTGTAACCTGAAGCTCAAC
1 CAATATGAGTTGATTTTTTTGAAACATAAACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAAC
26329914 TCACCTCTCG
66 TCACCTCTCG
***** * *
26329924 CAATATGAGTTGACGTTTTCTTTTTTTTTTGTTTTTTTTAAACATAAATTGAAAATATCTCAGTG
1 CAATATGAGTTGA----------TTTTTTTG--AAACATAAAC-T--A---AAAATACCTCAGCG
* ** *
26329989 CGTGATTTGAGGCTCAACTCACTTCTCG
48 TGTGACCTGAGGCTCAACTCACCTCTCG
* * * * * * *
26330017 CAATATGAGTTGACTTTTTCGAAAAATAGGAATTGAAGATACCTCAGCGTGTGACCTGAGACTCA
1 CAATATGAGTTGATTTTTTTGAAACATA--AACTAAAAATACCTCAGCGTGTGACCTGAGGCTCA
26330082 ACTCACCTCTCG
64 ACTCACCTCTCG
* * * * *
26330094 CCATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTC-GACGTGTGACCCGAGGCTC
1 CAATATGAGTTGATTTTTTTG--AAACATAAACTAAAAATACCTCAG-CGTGTGACCTGAGGCTC
* *
26330157 AACTCTCCTCTCA
63 AACTCACCTCTCG
*
26330170 CAATATAAGTTGATTTTTTTGAAA
1 CAATATGAGTTGATTTTTTTGAAA
26330194 AACAGAAATA
Statistics
Matches: 394, Mismatches: 77, Indels: 86
0.71 0.14 0.15
Matches are distributed among these distances:
75 131 0.33
76 57 0.14
77 53 0.13
78 5 0.01
80 1 0.00
81 6 0.02
82 2 0.01
83 8 0.02
84 8 0.02
85 16 0.04
87 6 0.02
88 5 0.01
89 1 0.00
91 1 0.00
93 45 0.11
94 49 0.12
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (75 bp):
CAATATGAGTTGATTTTTTTGAAACATAAACTAAAAATACCTCAGCGTGTGACCTGAGGCTCAAC
TCACCTCTCG
Found at i:26329898 original size:169 final size:168
Alignment explanation
Indices: 26329663--26330106 Score: 703
Period size: 169 Copynumber: 2.6 Consensus size: 168
26329653 GCGACCCGAT
* *
26329663 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAACTAAAAATACCTCAGCGT
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAACATAAACTTAAAATACCTCAGCGT
*
26329728 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGACGTTTTC-TTTTTTTTTGTTTTTTT
66 GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGACGTTTTCTTTTTTTTTTG-TTTTTT
26329792 TTAAAACATAAATTGAAAATACCTCAGTGCGTGATTTGAG
130 TT-AAACATAAATTGAAAATACCTCAGTGCGTGATTTGAG
* *
26329832 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAACATAAACTTAAAATGCCTTAGCGT
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAACATAAACTTAAAATACCTCAGCGT
* *
26329897 GTAACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGACGTTTTCTTTTTTTTTTGTTTTTTT
66 GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGACGTTTTCTTTTTTTTTTGTTTTTTT
*
26329962 TAAACATAAATTGAAAATATCTCAGTGCGTGATTTGAG
131 TAAACATAAATTGAAAATACCTCAGTGCGTGATTTGAG
* * * *
26330000 GCTCAACTCACTTCTCGCAATATGAGTTGACTTTTTCGAAAAATAGGAA-TTGAAGATACCTCAG
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAACATA--AACTT-AAAATACCTCAG
* *
26330064 CGTGTGACCTGAGACTCAACTCACCTCTCGCCATATGAGTTGA
63 CGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
26330107 TTTTTTGAAA
Statistics
Matches: 253, Mismatches: 18, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
168 78 0.31
169 115 0.45
170 60 0.24
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.35
Consensus pattern (168 bp):
GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAACATAAACTTAAAATACCTCAGCGT
GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGACGTTTTCTTTTTTTTTTGTTTTTTT
TAAACATAAATTGAAAATACCTCAGTGCGTGATTTGAG
Found at i:26329961 original size:93 final size:93
Alignment explanation
Indices: 26329862--26330036 Score: 226
Period size: 93 Copynumber: 1.9 Consensus size: 93
26329852 TATGAGTTGA
* * *
26329862 TTTTTTTGAAACATAAACTT-AAAATGCCTTAGCGTGTAACCTGAAGCTCAACTCACCTCTCGCA
1 TTTTTTTGAAACATAAA-TTGAAAATACCTCAGCGCGTAACCTGAAGCTCAACTCACCTCTCGCA
26329926 ATATGAGTTGACGTTTTCTTTTTTTTTTG
65 ATATGAGTTGACGTTTTCTTTTTTTTTTG
* * * * ** * *
26329955 TTTTTTTTAAACATAAATTGAAAATATCTCAGTGCGTGATTTGAGGCTCAACTCACTTCTCGCAA
1 TTTTTTTGAAACATAAATTGAAAATACCTCAGCGCGTAACCTGAAGCTCAACTCACCTCTCGCAA
*
26330020 TATGAGTTGACTTTTTC
66 TATGAGTTGACGTTTTC
26330037 GAAAAATAGG
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (93 bp):
TTTTTTTGAAACATAAATTGAAAATACCTCAGCGCGTAACCTGAAGCTCAACTCACCTCTCGCAA
TATGAGTTGACGTTTTCTTTTTTTTTTG
Found at i:26330082 original size:77 final size:76
Alignment explanation
Indices: 26329996--26330202 Score: 281
Period size: 76 Copynumber: 2.7 Consensus size: 76
26329986 GTGCGTGATT
* * * * *
26329996 TGAGGCTCAACTCACTTCTCGCAATATGAGTTGACTTTTTCGAAAAATAGGAATTGAAGATACCT
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCT
26330061 C-AGCGTGTGACC
65 CGA-CGTGTGACC
* *
26330073 TGAGACTCAACTCACCTCTCGCCATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTC
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTC
26330138 GACGTGTGACC
66 GACGTGTGACC
* * * *
26330149 CGAGGCTCAACTCTCCTCTCACAATATAAGTTGATTTTTTTGAAAAACAGAAAT
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAAT
26330203 AAAAATATCA
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
76 64 0.56
77 51 0.44
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (76 bp):
TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTC
GACGTGTGACC
Found at i:26330146 original size:76 final size:77
Alignment explanation
Indices: 26329963--26330202 Score: 295
Period size: 77 Copynumber: 3.1 Consensus size: 77
26329953 TGTTTTTTTT
* * * * ** *
26329963 AAACATAAATTGAAAATATCTCAGTGCGTGATTTGAGGCTCAACTCACTTCTCGCAATATGAGTT
1 AAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
26330028 GACTTTTTCGAA
66 GACTTTTTTGAA
* * * * *
26330040 AAATAGGAATTGAAGATACCTCAGCGTGTGACCTGAGACTCAACTCACCTCTCGCCATATGAGTT
1 AAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
26330105 GA-TTTTTTGAA
66 GACTTTTTTGAA
* * * *
26330116 AAACAGAAATTGAAAATACCTC-GACGTGTGACCCGAGGCTCAACTCTCCTCTCACAATATAAGT
1 AAACAGAAATTGAAAATACCTCAG-CGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
26330180 TGATTTTTTTGAA
65 TGACTTTTTTGAA
26330193 AAACAGAAAT
1 AAACAGAAAT
26330203 AAAAATATCA
Statistics
Matches: 139, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
75 1 0.01
76 64 0.46
77 74 0.53
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (77 bp):
AAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GACTTTTTTGAA
Found at i:26342297 original size:26 final size:27
Alignment explanation
Indices: 26342268--26342321 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
26342258 TATGTATACC
* * *
26342268 AAATAATACGTAATAATA-TTAAAATA
1 AAATAATAAGTAACAATAGTGAAAATA
26342294 AAATAATAAGTAACAATAGTGAAAATA
1 AAATAATAAGTAACAATAGTGAAAATA
26342321 A
1 A
26342322 TAAGTATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.26
Consensus pattern (27 bp):
AAATAATAAGTAACAATAGTGAAAATA
Found at i:26342477 original size:29 final size:29
Alignment explanation
Indices: 26342445--26342540 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 29
26342435 AAATAGATAT
* *
26342445 AATAATAATATGTACATAATATGGTATTA
1 AATAATAATATATACATAATATAGTATTA
* *
26342474 AAT-AT-ATATATATATAATATAGTATTT
1 AATAATAATATATACATAATATAGTATTA
* *
26342501 AA-AA-AATGTATACATAATATATATATTA
1 AATAATAATATATACATAATATA-GTATTA
26342529 TGAATAATAATA
1 --AATAATAATA
26342541 ATAATAGTAA
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
27 35 0.69
28 6 0.12
29 3 0.06
30 2 0.04
31 2 0.04
32 3 0.06
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (29 bp):
AATAATAATATATACATAATATAGTATTA
Found at i:26342604 original size:16 final size:15
Alignment explanation
Indices: 26342573--26342619 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 15
26342563 ATAATGCTAC
* *
26342573 ATAAATAGATATATA
1 ATAAATATACATATA
26342588 ATAATATATACATATA
1 ATAA-ATATACATATA
26342604 A-AAATATACAT-TA
1 ATAAATATACATATA
26342617 ATA
1 ATA
26342620 TTAACAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 3 0.11
14 9 0.32
15 6 0.21
16 10 0.36
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (15 bp):
ATAAATATACATATA
Found at i:26342610 original size:14 final size:16
Alignment explanation
Indices: 26342583--26342619 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
26342573 ATAAATAGAT
26342583 ATATAATAATATATAC
1 ATATAATAATATATAC
26342599 ATATAA-AA-ATATAC
1 ATATAATAATATATAC
26342613 AT-TAATA
1 ATATAATA
26342620 TTAACAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.15
14 9 0.45
15 2 0.10
16 6 0.30
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (16 bp):
ATATAATAATATATAC
Found at i:26342911 original size:22 final size:22
Alignment explanation
Indices: 26342868--26342924 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 22
26342858 TACTAAAAAG
* *
26342868 AAATATATAAATATATAGGATAGA
1 AAATAGAT-AATAAATAGGATA-A
*
26342892 AAATA-ATAATAAATATGATAA
1 AAATAGATAATAAATAGGATAA
*
26342913 TAATAGATAATA
1 AAATAGATAATA
26342925 GCAAAAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 5 0.17
22 17 0.59
23 2 0.07
24 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (22 bp):
AAATAGATAATAAATAGGATAA
Found at i:26343606 original size:16 final size:15
Alignment explanation
Indices: 26343578--26343623 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
26343568 TGTGTATAAG
26343578 TAGAAAAGAAGAAAAA
1 TAGAAAA-AAGAAAAA
26343594 TAGAAAAATAGAAAGAA
1 TAGAAAAA-AGAAA-AA
26343611 -A-AAAAAAGAAAAA
1 TAGAAAAAAGAAAAA
26343624 GACCGATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 2 0.07
14 5 0.18
15 6 0.21
16 13 0.46
17 2 0.07
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (15 bp):
TAGAAAAAAGAAAAA
Found at i:26346263 original size:17 final size:18
Alignment explanation
Indices: 26346241--26346275 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
26346231 ACATTTTACT
26346241 TTTAAAT-TAAAAATAAA
1 TTTAAATATAAAAATAAA
*
26346258 TTTAAATATAAAATTAAA
1 TTTAAATATAAAAATAAA
26346276 ATTACCTCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTTAAATATAAAAATAAA
Found at i:26354482 original size:67 final size:67
Alignment explanation
Indices: 26354320--26354470 Score: 205
Period size: 68 Copynumber: 2.2 Consensus size: 67
26354310 AAGGAGATTT
* * * * * *
26354320 AAATGTGTAAGACCATAGTTCGATTATGGCAATATAGAGGGTCCACCAGGACATTAAGCATTTGG
1 AAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGGGTCCACCAGGAAATTAAACA-TTGG
26354385 GTA
65 GTA
* *
26354388 AAATGTGTGAGACCATAGCTCGACTATGACAACATAGAGGGTCCACCATGAAATTAAACA-TGGT
1 AAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGGGTCCACCAGGAAATTAAACATTGG-
26354452 GTA
65 GTA
26354455 AAATGTGTAAGACCAT
1 AAATGTGTAAGACCAT
26354471 GGCTAGGCTA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
66 3 0.04
67 18 0.25
68 52 0.71
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (67 bp):
AAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGGGTCCACCAGGAAATTAAACATTGGG
TA
Found at i:26355671 original size:2 final size:2
Alignment explanation
Indices: 26355664--26355707 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
26355654 TGGAAGACTG
26355664 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26355706 TA
1 TA
26355708 AAAGAAGAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26356947 original size:26 final size:25
Alignment explanation
Indices: 26356903--26356959 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 25
26356893 CCTTTTACAT
* *
26356903 AAAAAAACTAAAATTAATTCTAAAAAG
1 AAAAAAACTAAAA-GAAAT-TAAAAAG
26356930 AAAAAAA-TAAAAGAAATTAAAAAG
1 AAAAAAACTAAAAGAAATTAAAAAG
*
26356954 ATAAAA
1 AAAAAA
26356960 TAACCCAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 12 0.44
25 3 0.11
26 5 0.19
27 7 0.26
ACGTcount: A:0.74, C:0.04, G:0.05, T:0.18
Consensus pattern (25 bp):
AAAAAAACTAAAAGAAATTAAAAAG
Found at i:26357114 original size:20 final size:20
Alignment explanation
Indices: 26357084--26357121 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26357074 GAGTTTTTGT
26357084 CTATAAAAATCAAGAAATTCC
1 CTATAAAAATCAA-AAATTCC
26357105 CTAT-AAAATCAAAAATT
1 CTATAAAAATCAAAAATT
26357122 TATCATTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.55, C:0.16, G:0.03, T:0.26
Consensus pattern (20 bp):
CTATAAAAATCAAAAATTCC
Found at i:26373833 original size:18 final size:18
Alignment explanation
Indices: 26373806--26374101 Score: 202
Period size: 18 Copynumber: 16.1 Consensus size: 18
26373796 TCATTAACAA
* *
26373806 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAATTAT
*
26373823 TCAGTAACAATCATTTAT
1 TCAGTAACAATCAATTAT
*
26373841 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAATTAT
* * * *
26373859 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTAT
* *
26373877 TCAGTATCGATCAATTGATCGGTT
1 TCAGTAACAATCAATT-A-----T
*
26373901 ATCCAGTAACAGTCAATTAT
1 -T-CAGTAACAATCAATTAT
*
26373921 TTAGTAA-AATCAGA-TAT
1 TCAGTAACAATCA-ATTAT
* *
26373938 TCAGTAGCAATTAAGTTAT
1 TCAGTAACAATCAA-TTAT
* *
26373957 TCAGTAACAGTCACTTAT
1 TCAGTAACAATCAATTAT
* *
26373975 TTAGTGACAATCAATTAT
1 TCAGTAACAATCAATTAT
**
26373993 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAATTAT
* * *
26374011 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTAT
*
26374029 TCAGTAACAATCTATTAT
1 TCAGTAACAATCAATTAT
* *
26374047 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
* **
26374065 TCGGTAACAGCCAATTAT
1 TCAGTAACAATCAATTAT
* *
26374083 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTAT
26374101 T
1 T
26374102 TTATACCTTT
Statistics
Matches: 214, Mismatches: 52, Indels: 25
0.74 0.18 0.09
Matches are distributed among these distances:
17 17 0.08
18 166 0.78
19 15 0.07
20 1 0.00
24 1 0.00
25 2 0.01
26 12 0.06
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
TCAGTAACAATCAATTAT
Found at i:26374313 original size:45 final size:45
Alignment explanation
Indices: 26374264--26374373 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 45
26374254 TCCAGAACAG
* ** *
26374264 TAACAATAACAGTAACAGTATTCAACACACAAAGTGTTGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATAGA
* *
26374309 TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATAGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATAGA
*
26374354 TAACAGTAACGGTAACAGTA
1 TAACAGTAACAGTAACAGTA
26374374 ACAGTAGTCG
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.20
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATAGA
Found at i:26375150 original size:10 final size:10
Alignment explanation
Indices: 26375112--26375162 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 10
26375102 TCTTTCTCCC
26375112 CTGTTTCTTCT
1 CTGTTTCTT-T
26375123 CTGTTTCGTTT
1 CTGTTTC-TTT
**
26375134 CAATTTCTTT
1 CTGTTTCTTT
26375144 CTGTTTC-TT
1 CTGTTTCTTT
*
26375153 ATGTTTCTTT
1 CTGTTTCTTT
26375163 ACTTATTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
9 8 0.24
10 10 0.30
11 13 0.39
12 2 0.06
ACGTcount: A:0.06, C:0.20, G:0.10, T:0.65
Consensus pattern (10 bp):
CTGTTTCTTT
Found at i:26375186 original size:5 final size:5
Alignment explanation
Indices: 26375178--26375210 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
26375168 TTTATATAAT
26375178 ATATA ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATA
26375211 ACAATTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:26375342 original size:21 final size:22
Alignment explanation
Indices: 26375303--26375355 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
26375293 CATACAATTG
*
26375303 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
26375325 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
26375345 ATAAAATAATA
1 TTAAAATAATA
26375356 ATATAGTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 8 0.31
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:26376248 original size:56 final size:57
Alignment explanation
Indices: 26376161--26376277 Score: 200
Period size: 56 Copynumber: 2.1 Consensus size: 57
26376151 CGCCCACGGT
* * *
26376161 GGAGCCGCGGCGGTCCGGCGATGAGGCGATGATGGGTATATTACCCTAGCTGAATGG
1 GGAGCCGCAGCGGTCCGGCGAAGAGGCGATGATGGGTATATTACCCTAGCCGAATGG
26376218 GGAG-CGCAGCGGTCCGGCGAAGAGGCGATGATGGGTATATTACCCTAGCCGAATGG
1 GGAGCCGCAGCGGTCCGGCGAAGAGGCGATGATGGGTATATTACCCTAGCCGAATGG
26376274 GGAG
1 GGAG
26376278 AAAGGGAGAG
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
56 53 0.93
57 4 0.07
ACGTcount: A:0.21, C:0.21, G:0.41, T:0.17
Consensus pattern (57 bp):
GGAGCCGCAGCGGTCCGGCGAAGAGGCGATGATGGGTATATTACCCTAGCCGAATGG
Found at i:26377344 original size:53 final size:48
Alignment explanation
Indices: 26377265--26377471 Score: 206
Period size: 47 Copynumber: 4.2 Consensus size: 48
26377255 CATGGCAACA
* * *
26377265 TGTGATATGTGATTTCTGTATAAGACCATAGCTGGGCTATGGCATCGGAG
1 TGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG
*
26377315 ATATGTGATTATGTGCTTCCGTATAAGACCATAACTGGGATATGGCATCG-G
1 ---TGTGA-TATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCGAG
* * *
26377366 TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATC-AG
1 TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCGAG
* * * * *
26377413 TGTGATATGTG-ATCCGTGTAAGACCATGGCTGGGCTATGGCTTCG-G
1 TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCGAG
26377459 TGTGTAATATGTG
1 TGTG--ATATGTG
26377472 ACTATGTGCA
Statistics
Matches: 134, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
46 30 0.22
47 49 0.37
48 12 0.09
51 1 0.01
52 1 0.01
53 35 0.26
54 6 0.04
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.32
Consensus pattern (48 bp):
TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCGAG
Found at i:26377461 original size:93 final size:98
Alignment explanation
Indices: 26377265--26377490 Score: 257
Period size: 93 Copynumber: 2.3 Consensus size: 98
26377255 CATGGCAACA
* * *
26377265 TGTGATATGTGATTTCTGTATAAGACCATAGCTGGGCTATGGCATCGGAGATATGTGATTATGTG
1 TGTGATATGTGACTACTGTATAAGACCATAGCTGGGATATGGCATC-GAG--ATGTGATTATGTG
*
26377330 CTTCCGTATAAGACCATAACTGGGATATGGCATCGG
63 CATCCGTATAAGACCATAACTGGGATATGGCATCGG
*
26377366 TGTGATATGTG-CTACTGTATAAGACCATATCTGGGATATGGCATC-AG-TGTGA-TATGTG-AT
1 TGTGATATGTGACTACTGTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATTATGTGCAT
* ** * *
26377426 CCGTGTAAGACCATGGCTGGGCTATGGCTTCGG
66 CCGTATAAGACCATAACTGGGATATGGCATCGG
**
26377459 TGTGTAATATGTGACTA-TGTGCAAGACCATAG
1 TGTG--ATATGTGACTACTGTATAAGACCATAG
26377491 TTTTACTATG
Statistics
Matches: 109, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
93 33 0.30
94 6 0.06
95 24 0.22
96 3 0.03
98 2 0.02
100 30 0.28
101 11 0.10
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.31
Consensus pattern (98 bp):
TGTGATATGTGACTACTGTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATTATGTGCAT
CCGTATAAGACCATAACTGGGATATGGCATCGG
Found at i:26384293 original size:9 final size:9
Alignment explanation
Indices: 26384264--26384320 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
26384254 AATTCATTTT
26384264 AAAATTATA
1 AAAATTATA
*
26384273 AAAA-CATAA
1 AAAATTAT-A
26384282 AAAATTATA
1 AAAATTATA
* *
26384291 AAAATCATT
1 AAAATTATA
26384300 AAAATTGATTA
1 AAAATT-A-TA
26384311 AAAATTATA
1 AAAATTATA
26384320 A
1 A
26384321 TATTAGAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
8 2 0.05
9 25 0.66
10 4 0.11
11 7 0.18
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAATTATA
Found at i:26384303 original size:18 final size:18
Alignment explanation
Indices: 26384262--26384315 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
26384252 TAAATTCATT
26384262 TTAAAATTATAAAAA-CA
1 TTAAAATTATAAAAATCA
*
26384279 TAAAAAATTATAAAAATCA
1 T-TAAAATTATAAAAATCA
26384298 TTAAAATTGATTAAAAAT
1 TTAAAATT-A-TAAAAAT
26384316 TATAATATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 1 0.03
18 19 0.61
19 4 0.13
20 7 0.23
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (18 bp):
TTAAAATTATAAAAATCA
Found at i:26384453 original size:32 final size:30
Alignment explanation
Indices: 26384409--26384470 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 30
26384399 AATTTGTTAG
**
26384409 AAATTAATTAAATATGAATGTTTTAATAAT
1 AAATTAATTAAATATGAACATTTTAATAAT
26384439 AAATGTAATATAAATATGAACATTTTAATAAT
1 AAAT-TAAT-TAAATATGAACATTTTAATAAT
26384471 CTAAATATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 4 0.14
31 4 0.14
32 20 0.71
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (30 bp):
AAATTAATTAAATATGAACATTTTAATAAT
Found at i:26384568 original size:2 final size:2
Alignment explanation
Indices: 26384548--26384585 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
26384538 AGCCACTCTC
* *
26384548 AT AT AT GT A- AT AT AA AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26384586 ATTTTAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:26385436 original size:9 final size:8
Alignment explanation
Indices: 26385409--26385434 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
26385399 CGCGATTGCT
26385409 AATAAAAA
1 AATAAAAA
26385417 AATAAAAA
1 AATAAAAA
26385425 AATAAAAA
1 AATAAAAA
26385433 AA
1 AA
26385435 ATTAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AATAAAAA
Found at i:26385445 original size:17 final size:17
Alignment explanation
Indices: 26385408--26385445 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
26385398 ACGCGATTGC
26385408 TAAT-AAAAAAATAAAA
1 TAATAAAAAAAATAAAA
* *
26385424 AAATAAAAAAAATTAAA
1 TAATAAAAAAAATAAAA
26385441 TAATA
1 TAATA
26385446 TGTGGGAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
TAATAAAAAAAATAAAA
Found at i:26385690 original size:25 final size:25
Alignment explanation
Indices: 26385662--26385716 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
26385652 TATTAAATTA
26385662 TGAAATGATATCAATATGATCTAAT
1 TGAAATGATATCAATATGATCTAAT
26385687 TGAAATGATATCAATATGATCTAAT
1 TGAAATGATATCAATATGATCTAAT
26385712 TGAAA
1 TGAAA
26385717 GTTGTAGACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (25 bp):
TGAAATGATATCAATATGATCTAAT
Found at i:26391605 original size:10 final size:10
Alignment explanation
Indices: 26391544--26391607 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
26391534 CTAAAAACCC
26391544 TAAAAATTTA
1 TAAAAATTTA
26391554 -AAATAATTTA
1 TAAA-AATTTA
26391564 T-AAAATTTA
1 TAAAAATTTA
* *
26391573 TTAGAAATTAA
1 -TAAAAATTTA
* *
26391584 TGAAAA-TCA
1 TAAAAATTTA
26391593 TAAAAATTTA
1 TAAAAATTTA
26391603 TAAAA
1 TAAAA
26391608 TTATTTTACT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
9 16 0.38
10 20 0.48
11 6 0.14
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (10 bp):
TAAAAATTTA
Found at i:26391867 original size:15 final size:16
Alignment explanation
Indices: 26391847--26391876 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26391837 CAGAAAGCCA
26391847 ATATTA-AAATTTTAT
1 ATATTATAAATTTTAT
26391862 ATATTATAAATTTTA
1 ATATTATAAATTTTA
26391877 ATAAAATGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATTATAAATTTTAT
Found at i:26392007 original size:34 final size:33
Alignment explanation
Indices: 26391969--26392036 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
26391959 AACCCTTTTG
* * *
26391969 TAAATTAATTTTTCTAAATTTTTATAGTTTTTAA
1 TAAATTAAGTTTT-GAAAGTTTTATAGTTTTTAA
* *
26392003 TAAATTAGGTTTTGAAAGTTTTATGGTTTTTAA
1 TAAATTAAGTTTTGAAAGTTTTATAGTTTTTAA
26392036 T
1 T
26392037 TTATTTCTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 18 0.62
34 11 0.38
ACGTcount: A:0.32, C:0.01, G:0.10, T:0.56
Consensus pattern (33 bp):
TAAATTAAGTTTTGAAAGTTTTATAGTTTTTAA
Found at i:26392639 original size:25 final size:24
Alignment explanation
Indices: 26392599--26392655 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 24
26392589 TTATTTTATT
*
26392599 AAATAAA-A-ATTTTAAAATATAA
1 AAATAAATACATTTAAAAATATAA
26392621 TAAATCAAATACATTTAAAAATATAA
1 -AAAT-AAATACATTTAAAAATATAA
26392647 AAATAAATA
1 AAATAAATA
26392656 TTAAAACAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 4 0.13
24 8 0.27
25 5 0.17
26 13 0.43
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (24 bp):
AAATAAATACATTTAAAAATATAA
Found at i:26392916 original size:21 final size:21
Alignment explanation
Indices: 26392890--26392930 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
26392880 AATAGCATTA
* *
26392890 AAACAACATCAAAACAACACC
1 AAACAACATAAAAAAAACACC
26392911 AAACAACATAAAAAAAACAC
1 AAACAACATAAAAAAAACAC
26392931 AAAAAATAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.68, C:0.27, G:0.00, T:0.05
Consensus pattern (21 bp):
AAACAACATAAAAAAAACACC
Found at i:26392936 original size:10 final size:11
Alignment explanation
Indices: 26392889--26392934 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
26392879 AAATAGCATT
26392889 AAAACAACATC
1 AAAACAACATC
26392900 AAAACAACA-C
1 AAAACAACATC
* *
26392910 CAAACAACATA
1 AAAACAACATC
*
26392921 AAAAAAACA-C
1 AAAACAACATC
26392931 AAAA
1 AAAA
26392935 AATAACATCA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
10 13 0.45
11 16 0.55
ACGTcount: A:0.72, C:0.24, G:0.00, T:0.04
Consensus pattern (11 bp):
AAAACAACATC
Found at i:26398616 original size:33 final size:32
Alignment explanation
Indices: 26398561--26398631 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 32
26398551 AAAATTGATG
*
26398561 TTTTTTGGTGTTTGAATGATTTTGCCTAAAATA
1 TTTTTTGGTGTTTGAATAATTTT-CCTAAAATA
* * *
26398594 TTTTTTGTTGTTTG-ATAAATTTTCTTGAAATA
1 TTTTTTGGTGTTTGAAT-AATTTTCCTAAAATA
26398626 TTTTTT
1 TTTTTT
26398632 AAAAGTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 15 0.45
33 18 0.55
ACGTcount: A:0.23, C:0.04, G:0.14, T:0.59
Consensus pattern (32 bp):
TTTTTTGGTGTTTGAATAATTTTCCTAAAATA
Found at i:26399319 original size:19 final size:19
Alignment explanation
Indices: 26399281--26399319 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
26399271 TTTATTTTTA
**
26399281 ATATATTTATAATTGTAAT
1 ATATATTTATAATTAAAAT
*
26399300 ATATATTTATTATTAAAAT
1 ATATATTTATAATTAAAAT
26399319 A
1 A
26399320 AAATTGTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
ATATATTTATAATTAAAAT
Found at i:26399368 original size:9 final size:9
Alignment explanation
Indices: 26399354--26399397 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
26399344 TAAAACAAAA
26399354 AATTATATT
1 AATTATATT
26399363 AATTATATT
1 AATTATATT
*
26399372 AATTATATC
1 AATTATATT
26399381 AA-TA-ATT
1 AATTATATT
*
26399388 TATTATATT
1 AATTATATT
26399397 A
1 A
26399398 TTAAATATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 3 0.10
8 4 0.14
9 22 0.76
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (9 bp):
AATTATATT
Found at i:26399375 original size:18 final size:16
Alignment explanation
Indices: 26399354--26399397 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
26399344 TAAAACAAAA
26399354 AATTATATTAATTATATT
1 AATTATATTAA-TA-ATT
*
26399372 AATTATATCAATAATT
1 AATTATATTAATAATT
*
26399388 TATTATATTA
1 AATTATATTA
26399398 TTAAATATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 11 0.48
17 2 0.09
18 10 0.43
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTATATTAATAATT
Found at i:26399414 original size:22 final size:24
Alignment explanation
Indices: 26399362--26399414 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 24
26399352 AAAATTATAT
* *
26399362 TAATTATATTAATTATATCAATAAT
1 TAATTATATTAATTAAAT-AATAAA
*
26399387 TTATTATATT-ATTAAAT-ATAAA
1 TAATTATATTAATTAAATAATAAA
26399409 TAATTA
1 TAATTA
26399415 GATATGTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 9 0.38
24 6 0.25
25 9 0.38
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
TAATTATATTAATTAAATAATAAA
Found at i:26400007 original size:27 final size:27
Alignment explanation
Indices: 26399969--26400024 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
26399959 AAAATAAAAT
*
26399969 ACTGGTCTTGCCTCTGTCAGAGGCGGC
1 ACTGGTCTTGCCTCTGCCAGAGGCGGC
*
26399996 ACTGGTCTTGCCTCTGCCAGAGGTGGC
1 ACTGGTCTTGCCTCTGCCAGAGGCGGC
26400023 AC
1 AC
26400025 CAGTTGATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.12, C:0.30, G:0.32, T:0.25
Consensus pattern (27 bp):
ACTGGTCTTGCCTCTGCCAGAGGCGGC
Found at i:26400168 original size:16 final size:16
Alignment explanation
Indices: 26400140--26400172 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26400130 AGAGGGAGGG
26400140 AGAAGAGAAGAAAAAA
1 AGAAGAGAAGAAAAAA
26400156 AGAA-AGAAGGAAAAAA
1 AGAAGAGAA-GAAAAAA
26400172 A
1 A
26400173 AATTCAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (16 bp):
AGAAGAGAAGAAAAAA
Found at i:26403937 original size:70 final size:72
Alignment explanation
Indices: 26403804--26403940 Score: 170
Period size: 70 Copynumber: 1.9 Consensus size: 72
26403794 ATCCACCCCC
* ** *
26403804 TGACGAGCCCGGGAAATAGTCATTGCCCTGCAAATCCAGATGATAAGAAGTATCGGCCGAATGTG
1 TGACGAGCCCGGGAAATAATCATTGCCCTGCAAATCCAGATGATAAGAAGTATCACCCAAATGTG
26403869 AAGGCGA
66 AAGGCGA
* * * ** *
26403876 TGACGAGCCC-GG-TATAATCATTGCTCTGGAAATCTGGATGATAAGAAGTATTACCCAAATGTG
1 TGACGAGCCCGGGAAATAATCATTGCCCTGCAAATCCAGATGATAAGAAGTATCACCCAAATGTG
26403939 AA
66 AA
26403941 TACGATTGCT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
70 43 0.78
71 2 0.04
72 10 0.18
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (72 bp):
TGACGAGCCCGGGAAATAATCATTGCCCTGCAAATCCAGATGATAAGAAGTATCACCCAAATGTG
AAGGCGA
Found at i:26405842 original size:41 final size:40
Alignment explanation
Indices: 26405736--26405843 Score: 105
Period size: 41 Copynumber: 2.8 Consensus size: 40
26405726 GGATAATTCA
* * **
26405736 AAGTAATAAATTGACACCCAGTGTCTCAACGGCTAAACTG
1 AAGTAGTAAATTGACACCCAGTGTCTCATCAACTAAACTG
* * * * *
26405776 -A--AGTAAATTGGCACCTAGTGCCTCATCAAATTAATCTG
1 AAGTAGTAAATTGACACCCAGTGTCTCATC-AACTAAACTG
26405814 AAGTAGTAAATTGACACCCAGTGTCTCATC
1 AAGTAGTAAATTGACACCCAGTGTCTCATC
26405844 GGGTCGAAGT
Statistics
Matches: 52, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
37 21 0.40
38 6 0.12
39 2 0.04
41 23 0.44
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (40 bp):
AAGTAGTAAATTGACACCCAGTGTCTCATCAACTAAACTG
Found at i:26406752 original size:20 final size:21
Alignment explanation
Indices: 26406718--26406762 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
26406708 AACCCTAGTT
*
26406718 TTTTTCTCCTTTTTCTTTCTC
1 TTTTTCTCCTCTTTCTTTCTC
*
26406739 TTTTTC-CCTCTTTCTTTTTC
1 TTTTTCTCCTCTTTCTTTCTC
26406759 TTTT
1 TTTT
26406763 ATTTTACTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTTCTCCTCTTTCTTTCTC
Found at i:26406849 original size:5 final size:5
Alignment explanation
Indices: 26406839--26406886 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
26406829 AATTATTATA
26406839 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
26406887 TTTAAATATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:26407761 original size:57 final size:58
Alignment explanation
Indices: 26407661--26407778 Score: 141
Period size: 57 Copynumber: 2.1 Consensus size: 58
26407651 AAAGAAATTG
* * **
26407661 TGAAAATGGAGAAATGAGAAACATTTGGAAATAATTATAGTTTTCTGTAAAATAAAAA
1 TGAAAATAGAAAAATGAGAAACATTTGGAAATAATTATAGTTTTCTCCAAAATAAAAA
* * * *
26407719 TGAAAATAGAAAAATG-GAATCATTTGGAAATGAA-TGTGGTTTTCTCCAAAATGAAAA
1 TGAAAATAGAAAAATGAGAAACATTTGGAAAT-AATTATAGTTTTCTCCAAAATAAAAA
26407776 TGA
1 TGA
26407779 CCTAAAAATG
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
57 35 0.69
58 16 0.31
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.29
Consensus pattern (58 bp):
TGAAAATAGAAAAATGAGAAACATTTGGAAATAATTATAGTTTTCTCCAAAATAAAAA
Found at i:26422608 original size:30 final size:27
Alignment explanation
Indices: 26422574--26422628 Score: 83
Period size: 30 Copynumber: 1.9 Consensus size: 27
26422564 GAATTGTATC
26422574 AAATCAAAATTTTATGAATAAAATTGCACA
1 AAATCAAAATTTT-T--ATAAAATTGCACA
26422604 AAATCAAAATTTTTATAAAATTGCA
1 AAATCAAAATTTTTATAAAATTGCA
26422629 TATTAAGCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 11 0.44
29 1 0.04
30 13 0.52
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (27 bp):
AAATCAAAATTTTTATAAAATTGCACA
Found at i:26422711 original size:23 final size:23
Alignment explanation
Indices: 26422678--26422727 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
26422668 CTAATGCATT
*
26422678 TAATGTTAACTATTAGAAATTAC
1 TAATGTGAACTATTAGAAATTAC
26422701 TAATGTGAACTATTAGAAATTAC
1 TAATGTGAACTATTAGAAATTAC
26422724 TAAT
1 TAAT
26422728 ATTTTAGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (23 bp):
TAATGTGAACTATTAGAAATTAC
Found at i:26424793 original size:20 final size:21
Alignment explanation
Indices: 26424756--26424795 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
26424746 AAAAAAATTA
*
26424756 TAAAAATATAGAAGTTTTTAC
1 TAAAAATATACAAGTTTTTAC
*
26424777 TAAAAAT-TACAATTTTTTA
1 TAAAAATATACAAGTTTTTA
26424796 AAACTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAAATATACAAGTTTTTAC
Found at i:26425372 original size:19 final size:19
Alignment explanation
Indices: 26425350--26425415 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
26425340 GTTTTAAAAT
26425350 TTTTTACAATTTCTAATAA
1 TTTTTACAATTTCTAATAA
*
26425369 TTTTTATAATTT-TAAT-A
1 TTTTTACAATTTCTAATAA
26425386 -TTTTACAATTTCTAATAA
1 TTTTTACAATTTCTAATAA
* *
26425404 CTTTTATAATTT
1 TTTTTACAATTT
26425416 TATAGAGTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
16 10 0.24
17 5 0.12
18 5 0.12
19 21 0.51
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTTACAATTTCTAATAA
Found at i:26425390 original size:35 final size:35
Alignment explanation
Indices: 26425351--26425417 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
26425341 TTTTAAAATT
*
26425351 TTTTACAATTTCTAATAATTTTTATAATTTTAATA
1 TTTTACAATTTCTAATAACTTTTATAATTTTAATA
26425386 TTTTACAATTTCTAATAACTTTTATAATTTTA
1 TTTTACAATTTCTAATAACTTTTATAATTTTA
26425418 TAGAGTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (35 bp):
TTTTACAATTTCTAATAACTTTTATAATTTTAATA
Found at i:26425418 original size:8 final size:8
Alignment explanation
Indices: 26425351--26425419 Score: 50
Period size: 8 Copynumber: 7.9 Consensus size: 8
26425341 TTTTAAAATT
*
26425351 TTTTACAA
1 TTTTATAA
26425359 TTTCTAATAA
1 TTT-T-ATAA
26425369 TTTTTATAA
1 -TTTTATAA
26425378 TTTTA-ATA
1 TTTTATA-A
*
26425386 TTTTACAA
1 TTTTATAA
26425394 TTTCTAATAA
1 TTT-T-ATAA
26425404 CTTTTATAA
1 -TTTTATAA
26425413 TTTTATA
1 TTTTATA
26425420 GAGTTTTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
7 1 0.02
8 25 0.49
9 11 0.22
10 8 0.16
11 6 0.12
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (8 bp):
TTTTATAA
Found at i:26429549 original size:21 final size:21
Alignment explanation
Indices: 26429525--26429565 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
26429515 TAACATAACC
*
26429525 GCTGATGTGACAAGTTAACTA
1 GCTGAAGTGACAAGTTAACTA
* *
26429546 GCTGAAGTGGCCAGTTAACT
1 GCTGAAGTGACAAGTTAACT
26429566 TGCCACATTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (21 bp):
GCTGAAGTGACAAGTTAACTA
Found at i:26432785 original size:23 final size:23
Alignment explanation
Indices: 26432736--26432852 Score: 117
Period size: 23 Copynumber: 4.6 Consensus size: 23
26432726 TTGTGCTATT
26432736 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-T-TA-TA
*
26432763 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGGA-T-TA---TA
26432793 CTGGTGTGTTTTGGAGGATTATA
1 CTGGTGTGTTTTGGAGGATTATA
*
26432816 CTAGTGTGTTTTGGAGGATTATA
1 CTGGTGTGTTTTGGAGGATTATA
26432839 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
26432853 TTGGACATTT
Statistics
Matches: 81, Mismatches: 5, Indels: 10
0.84 0.05 0.10
Matches are distributed among these distances:
23 37 0.46
26 2 0.02
27 1 0.01
28 25 0.31
29 14 0.17
30 2 0.02
ACGTcount: A:0.17, C:0.04, G:0.33, T:0.45
Consensus pattern (23 bp):
CTGGTGTGTTTTGGAGGATTATA
Found at i:26432785 original size:28 final size:28
Alignment explanation
Indices: 26432732--26432838 Score: 134
Period size: 28 Copynumber: 4.0 Consensus size: 28
26432722 CACTTTGTGC
26432732 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
26432761 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
26432789 GATACTGGTGTGTTTTGGAGGA-T-TA-
1 TATTCTGGTGTGTTTTGGAGGATTATAT
*
26432814 TA--CTAGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
26432839 CTGGTGTGTT
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
23 17 0.24
24 1 0.01
25 3 0.04
26 2 0.03
27 1 0.01
28 28 0.40
29 18 0.26
ACGTcount: A:0.20, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:26432833 original size:51 final size:56
Alignment explanation
Indices: 26432736--26432838 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 56
26432726 TTGTGCTATT
*
26432736 CTGGTGTGTTTTGGATGGATTATATTATTCTGGTGTGTTTGGGAGGATTATATGATA
1 CTGGTGTGTTTTGGATGGATTATATTA-TCTAGTGTGTTTGGGAGGATTATATGATA
*
26432793 CTGGTGTGTTTTGGA-GGA-T-TA-TA-CTAGTGTGTTTTGGAGGATTATA
1 CTGGTGTGTTTTGGATGGATTATATTATCTAGTGTGTTTGGGAGGATTATA
26432839 CTGGTGTGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
51 21 0.48
53 2 0.05
54 2 0.05
55 1 0.02
56 3 0.07
57 15 0.34
ACGTcount: A:0.19, C:0.04, G:0.32, T:0.45
Consensus pattern (56 bp):
CTGGTGTGTTTTGGATGGATTATATTATCTAGTGTGTTTGGGAGGATTATATGATA
Found at i:26433080 original size:22 final size:23
Alignment explanation
Indices: 26433045--26433087 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
26433035 TTTACTGATC
26433045 AGGCACTTTATGTGTCGTATTTT
1 AGGCACTTTATGTGTCGTATTTT
26433068 AGGCAC-TTATGTGTCGTATT
1 AGGCACTTTATGTGTCGTATT
26433088 CTGATCAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.19, C:0.14, G:0.23, T:0.44
Consensus pattern (23 bp):
AGGCACTTTATGTGTCGTATTTT
Found at i:26438179 original size:19 final size:20
Alignment explanation
Indices: 26438141--26438180 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
26438131 CCTACAAAAC
26438141 AGAAACAGAAAAGAAAGCAA
1 AGAAACAGAAAAGAAAGCAA
* *
26438161 AGAAGCAGAAACG-AAGCAA
1 AGAAACAGAAAAGAAAGCAA
26438180 A
1 A
26438181 ACAGTAGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.65, C:0.12, G:0.23, T:0.00
Consensus pattern (20 bp):
AGAAACAGAAAAGAAAGCAA
Found at i:26438343 original size:21 final size:22
Alignment explanation
Indices: 26438305--26438348 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
26438295 TTGAATCTCA
* *
26438305 TTTTCTTGTTTTTTATTTCCTG
1 TTTTCTTGATTTTCATTTCCTG
*
26438327 TTTTCTT-ATTTTCATTTTCTG
1 TTTTCTTGATTTTCATTTCCTG
26438348 T
1 T
26438349 CTTCAAATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.07, C:0.14, G:0.07, T:0.73
Consensus pattern (22 bp):
TTTTCTTGATTTTCATTTCCTG
Found at i:26439520 original size:2 final size:2
Alignment explanation
Indices: 26439513--26439545 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
26439503 TTTATTTTAT
26439513 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26439546 CATCACTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26440735 original size:18 final size:17
Alignment explanation
Indices: 26440704--26440739 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
26440694 GACCAAAGTC
26440704 AAATTTTTAGTAAAACA
1 AAATTTTTAGTAAAACA
*
26440721 AAATGTTTTATTAAAACA
1 AAAT-TTTTAGTAAAACA
26440739 A
1 A
26440740 TCAAATTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
AAATTTTTAGTAAAACA
Found at i:26451998 original size:44 final size:44
Alignment explanation
Indices: 26451825--26452234 Score: 223
Period size: 44 Copynumber: 9.0 Consensus size: 44
26451815 GTAGATCAAA
* * * * **
26451825 ACAAGTCTTATGTCCCTGAAGTTACAGTGGAGCAGACTGAAGAT
1 ACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCC
* * * * * * *
26451869 AGTGAA-TCTTATCTCCCTGTAGTCGCAGTAGTGCAGATTGAAGTC
1 A--CAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCC
* * * * * * * *
26451914 ACAAACCTTATCCCCCTAAATTTGTAGTGGGGTAGGTTGAAGCC
1 ACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCC
* *
26451958 ACCAGCCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCTAAAAATC
1 ACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC-------C
* * * **
26452009 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTCGAAGTT
1 ACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCC
* * * * **
26452053 ACAAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGAT
1 ACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCC
* * * *
26452097 AGCGAA-TCTTATCTCCCTGAAGTTACAGTAGAGTAGATTGAA-CC
1 A-C-AAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCC
* * * *
26452141 TAGAAATTACAGACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGCT
1 -----A-CA-AG-CCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCC
* * *
26452193 ACAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAG
1 ACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
26452235 TGGAGCATAT
Statistics
Matches: 276, Mismatches: 69, Indels: 42
0.71 0.18 0.11
Matches are distributed among these distances:
43 2 0.01
44 130 0.47
45 66 0.24
46 5 0.02
47 1 0.00
48 1 0.00
49 2 0.01
51 68 0.25
52 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
ACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCC
Found at i:26452064 original size:95 final size:95
Alignment explanation
Indices: 26451912--26452094 Score: 231
Period size: 95 Copynumber: 1.9 Consensus size: 95
26451902 CAGATTGAAG
* * * * * * *
26451912 TCACAAACCTTATCCCCCTAAATTTGTAGTGGGGTAGGTTGAAGCCACCAGCCTTATCTCCCTGA
1 TCACAAACCTTATCCCCCTAAAGTTGCAGTGGAGCAGGTCGAAGCCACAAGCCTTATCTCCCTAA
* *
26451977 AGTTGCAATGGAGCAGATTGAAGCTAAAAA
66 AGTTACAATGGAGCAGACTGAAGCTAAAAA
* * ** *
26452007 TCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTAA
1 TCACAAACCTTATCCCCCTAAAGTTGCAGTGGAGCAGGTCGAAGCCACAAGCCTTATCTCCCTAA
*
26452072 AGTTACAGTGGAGCAGACTGAAG
66 AGTTACAATGGAGCAGACTGAAG
26452095 ATAGCGAATC
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
95 73 1.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (95 bp):
TCACAAACCTTATCCCCCTAAAGTTGCAGTGGAGCAGGTCGAAGCCACAAGCCTTATCTCCCTAA
AGTTACAATGGAGCAGACTGAAGCTAAAAA
Found at i:26452168 original size:140 final size:140
Alignment explanation
Indices: 26451964--26452234 Score: 416
Period size: 140 Copynumber: 1.9 Consensus size: 140
26451954 AGCCACCAGC
* * *
26451964 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCTAAAAATCACAAACCTTATCTCCCTGAA
1 CTTATCTCCCTGAAGTTACAATAGAGCAGATTGAACCTAAAAATCACAAACCTTATCTCCCTGAA
* *
26452029 GTTGCAGTGGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAA
66 GTTGCAGTGGAGCAGGTCGAAGCTACAAGTCTTATCTCCCTAAAGTTACAGTGAAGCAGACTGAA
26452094 GATAGCGAAT
131 GATAGCGAAT
* * * * * *
26452104 CTTATCTCCCTGAAGTTACAGTAGAGTAGATTGAACCTAGAAATTACAGACCTTATCTCTCTGAA
1 CTTATCTCCCTGAAGTTACAATAGAGCAGATTGAACCTAAAAATCACAAACCTTATCTCCCTGAA
* * *
26452169 GTTGCAGTGGAGCAGGTTGAAGCTACAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAA
66 GTTGCAGTGGAGCAGGTCGAAGCTACAAGTCTTATCTCCCTAAAGTTACAGTGAAGCAGACTGAA
26452234 G
131 G
26452235 TGGAGCATAT
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
140 117 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (140 bp):
CTTATCTCCCTGAAGTTACAATAGAGCAGATTGAACCTAAAAATCACAAACCTTATCTCCCTGAA
GTTGCAGTGGAGCAGGTCGAAGCTACAAGTCTTATCTCCCTAAAGTTACAGTGAAGCAGACTGAA
GATAGCGAAT
Found at i:26457127 original size:5 final size:5
Alignment explanation
Indices: 26457109--26457168 Score: 111
Period size: 5 Copynumber: 11.8 Consensus size: 5
26457099 TTTCTTTTAT
26457109 ATATA ATAATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
26457160 ATATA ATAT
1 ATATA ATAT
26457169 TAAACAAATA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 49 0.91
6 5 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:26458241 original size:21 final size:20
Alignment explanation
Indices: 26458215--26458259 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
26458205 CAACGTGGCA
26458215 AGTTAACTGGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
*
26458235 TAGTTAACTTGCCACATCAGC
1 -AGTTAACTGGCCACATCAGC
26458256 AGTT
1 AGTT
26458260 CTGTTAAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (20 bp):
AGTTAACTGGCCACATCAGC
Found at i:26463441 original size:23 final size:22
Alignment explanation
Indices: 26463369--26463456 Score: 94
Period size: 21 Copynumber: 4.1 Consensus size: 22
26463359 TACCTGATCA
26463369 GAATACGACACATAA-GTGCCT
1 GAATACGACACATAAGGTGCCT
26463390 GAA-ACGACACA-AGAGGTGCCT
1 GAATACGACACATA-AGGTGCCT
* * *
26463411 G-CTGCGACACACAAGGTGCCT
1 GAATACGACACATAAGGTGCCT
*
26463432 GAAATACGACACATAAAGTGCCT
1 G-AATACGACACATAAGGTGCCT
26463455 GA
1 GA
26463457 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
19 1 0.02
20 9 0.16
21 26 0.47
22 2 0.04
23 17 0.31
ACGTcount: A:0.36, C:0.25, G:0.24, T:0.15
Consensus pattern (22 bp):
GAATACGACACATAAGGTGCCT
Found at i:26463453 original size:44 final size:41
Alignment explanation
Indices: 26463374--26463455 Score: 103
Period size: 44 Copynumber: 1.9 Consensus size: 41
26463364 GATCAGAATA
* *
26463374 CGACACATAAGTGCCTGAAACGACACAAGAGGTGCCTGCTG
1 CGACACACAAGTGCCTGAAACGACACAAGAAGTGCCTGCTG
26463415 CGACACACAAGGTGCCTGAAATACGACACATA-AAGTGCCTG
1 CGACACACAA-GTGCCTG-AA-ACGACACA-AGAAGTGCCTG
26463456 ATCAGTAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
41 9 0.26
42 7 0.20
43 2 0.06
44 16 0.46
45 1 0.03
ACGTcount: A:0.34, C:0.27, G:0.24, T:0.15
Consensus pattern (41 bp):
CGACACACAAGTGCCTGAAACGACACAAGAAGTGCCTGCTG
Found at i:26463716 original size:28 final size:28
Alignment explanation
Indices: 26463659--26463741 Score: 114
Period size: 27 Copynumber: 3.0 Consensus size: 28
26463649 AACACACCAG
* *
26463659 TATAATCCTCCAAAACACACCA-TATCA
1 TATAATCCTCCAAAACACACCAGAATAA
* *
26463686 TATAATCCTCCCAAATACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
26463714 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
26463742 GCACAAAGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
27 20 0.42
28 11 0.23
29 17 0.35
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.20
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:26466440 original size:2 final size:2
Alignment explanation
Indices: 26466433--26466464 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
26466423 AATTATTTTA
26466433 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26466465 TTGTACATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26476755 original size:2 final size:2
Alignment explanation
Indices: 26476748--26476773 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26476738 AACTATTTCA
26476748 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
26476774 GTTTGAAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26477238 original size:30 final size:29
Alignment explanation
Indices: 26477202--26477262 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
26477192 AAAAATTAAT
26477202 ATATGTTAACTTTGCTAACGTGACATCCAC
1 ATATGTTAACTTTGCTAACGTGACAT-CAC
26477232 ATATGTTAACTTTGCTAACGTGACATCAC
1 ATATGTTAACTTTGCTAACGTGACATCAC
26477261 AT
1 AT
26477263 TAATTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 5 0.16
30 26 0.84
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (29 bp):
ATATGTTAACTTTGCTAACGTGACATCAC
Found at i:26485521 original size:46 final size:47
Alignment explanation
Indices: 26485397--26485553 Score: 126
Period size: 46 Copynumber: 3.3 Consensus size: 47
26485387 CGATTCCATG
* * * *
26485397 TCCCAGACATGGTCTTACACT-GACTATCATCTCATA-GCCAATG-CATA
1 TCCCAAACAT-GTCTTACACTAGCCTA-CGTCTCA-AGGCCGATGACATA
* * * *
26485444 TCCCAAACATGTCTTATACTAGCTTATGTCTCGAGGCCGAT-ACATA
1 TCCCAAACATGTCTTACACTAGCCTACGTCTCAAGGCCGATGACATA
* * *
26485490 TCCCAAACATGTCTTACACTAGCCCT-CGTCTCAATGCCGATGCCATG
1 TCCCAAACATGTCTTACACTAG-CCTACGTCTCAAGGCCGATGACATA
*
26485537 TCCCAGACATGGTCTTA
1 TCCCAAACAT-GTCTTA
26485554 TATTGGCTCT
Statistics
Matches: 88, Mismatches: 16, Indels: 11
0.77 0.14 0.10
Matches are distributed among these distances:
45 1 0.01
46 55 0.62
47 26 0.30
48 6 0.07
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.28
Consensus pattern (47 bp):
TCCCAAACATGTCTTACACTAGCCTACGTCTCAAGGCCGATGACATA
Found at i:26492151 original size:21 final size:21
Alignment explanation
Indices: 26492127--26492170 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
26492117 AAAATAATAA
26492127 AATTTTGATATAAAA-AGTGTT
1 AATTTTGAT-TAAAATAGTGTT
* *
26492148 AATTTTTATTAAAATAGTTTT
1 AATTTTGATTAAAATAGTGTT
26492169 AA
1 AA
26492171 AATACAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (21 bp):
AATTTTGATTAAAATAGTGTT
Found at i:26492364 original size:35 final size:35
Alignment explanation
Indices: 26492304--26492370 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
26492294 GTTTTAAAAC
**
26492304 ATTTTACAATTTCTAATAATTTTTATAATTTTAAT
1 ATTTTACAATTTCTAATAACATTTATAATTTTAAT
26492339 ATTTTACAATTTCTAATAACATTTATAATTTT
1 ATTTTACAATTTCTAATAACATTTATAATTTT
26492371 TTAGAGCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.55
Consensus pattern (35 bp):
ATTTTACAATTTCTAATAACATTTATAATTTTAAT
Found at i:26492368 original size:19 final size:19
Alignment explanation
Indices: 26492301--26492369 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
26492291 TTAGTTTTAA
26492301 AACATTTTACAATTTCTAAT
1 AACA-TTTACAATTTCTAAT
** *
26492321 AATTTTTATAATTT-TAAT
1 AACATTTACAATTTCTAAT
*
26492339 -A-TTTTACAATTTCTAAT
1 AACATTTACAATTTCTAAT
*
26492356 AACATTTATAATTT
1 AACATTTACAATTT
26492370 TTTAGAGCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
16 10 0.25
17 5 0.12
18 5 0.12
19 18 0.45
20 2 0.05
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (19 bp):
AACATTTACAATTTCTAAT
Found at i:26492664 original size:14 final size:16
Alignment explanation
Indices: 26492628--26492664 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
26492618 AGAGATAAAA
26492628 TTCTCTCAACGTTGTT
1 TTCTCTCAACGTTGTT
26492644 TTCTCTCAACGTTGTT
1 TTCTCTCAACGTTGTT
26492660 TTCTC
1 TTCTC
26492665 CGTTTACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.11, C:0.27, G:0.11, T:0.51
Consensus pattern (16 bp):
TTCTCTCAACGTTGTT
Found at i:26509645 original size:18 final size:18
Alignment explanation
Indices: 26509617--26509658 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
26509607 TACTATGCAA
*
26509617 AAAATAATTTAAAATTTAT
1 AAAA-AATTTAAAATATAT
26509636 AAAAAATTTAAAATATAT
1 AAAAAATTTAAAATATAT
26509654 AAAAA
1 AAAAA
26509659 GTTAATTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAAATTTAAAATATAT
Done.