Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 181 of 325
Found at i:55650260 original size:42 final size:42
Alignment explanation
Indices: 55650200--55650352 Score: 139
Period size: 42 Copynumber: 3.6 Consensus size: 42
55650190 TATCCCAGAT
* *
55650200 ATGCCAATAGCCTAGCTATGGTCTTACACGATGTCTCATATCG
1 ATGCC-ATATCCTAGCTATGGTCTTACACGAAGTCTCATATCG
* * * *
55650243 ATGCCATATCCTAGCTATGGTCTTATACAAAGTCTCATTTTCA
1 ATGCCATATCCTAGCTATGGTCTTACACGAAGTCTCA-TATCG
* * * * * *
55650286 AAGCCATGTCCCAGAC-GTGGTCTTACACGAAATCACATA-CAG
1 ATGCCATATCCTAG-CTATGGTCTTACACGAAGTCTCATATC-G
*
55650328 ATGCCATATCCTAGATATGGTCTTA
1 ATGCCATATCCTAGCTATGGTCTTA
55650353 TACGGAATCT
Statistics
Matches: 85, Mismatches: 21, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
41 1 0.01
42 48 0.56
43 35 0.41
44 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCTAGCTATGGTCTTACACGAAGTCTCATATCG
Found at i:55652340 original size:24 final size:24
Alignment explanation
Indices: 55652308--55652402 Score: 136
Period size: 24 Copynumber: 4.0 Consensus size: 24
55652298 CTGTCAGGAA
* *
55652308 AGGATTTAGGAGTTGATAAGGGCT
1 AGGATTTAGGAGCTGATAAGGGAT
*
55652332 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCTGATAAGGGAT
* *
55652356 AGGATTTAAGAGCTGATAAGGGAG
1 AGGATTTAGGAGCTGATAAGGGAT
*
55652380 AGGATTTAGGAGCTGATTAGGGA
1 AGGATTTAGGAGCTGATAAGGGA
55652403 GAACAATGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.33, C:0.03, G:0.38, T:0.26
Consensus pattern (24 bp):
AGGATTTAGGAGCTGATAAGGGAT
Found at i:55654206 original size:27 final size:27
Alignment explanation
Indices: 55654176--55654235 Score: 93
Period size: 28 Copynumber: 2.2 Consensus size: 27
55654166 AAAACCCTAG
55654176 GGGTATATCGGTAATTTTGCTCTTTAA
1 GGGTATATCGGTAATTTTGCTCTTTAA
* *
55654203 GGGTAATTTCGGTAATTTTGCTCTTTAG
1 GGGT-ATATCGGTAATTTTGCTCTTTAA
55654231 GGGTA
1 GGGTA
55654236 ATTTCGTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.20, C:0.10, G:0.27, T:0.43
Consensus pattern (27 bp):
GGGTATATCGGTAATTTTGCTCTTTAA
Found at i:55654215 original size:28 final size:28
Alignment explanation
Indices: 55654183--55654241 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
55654173 TAGGGGTATA
55654183 TCGGTAATTTTGCTCTTTAAGGGTAATT
1 TCGGTAATTTTGCTCTTTAAGGGTAATT
*
55654211 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAAGGGTAATT
55654239 TCG
1 TCG
55654242 TGATCTACGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.19, C:0.12, G:0.24, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAAGGGTAATT
Found at i:55654893 original size:27 final size:27
Alignment explanation
Indices: 55654863--55654924 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
55654853 GGGCAAAATG
55654863 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
55654890 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
55654917 GTAATTTT
1 GTAATTTT
55654925 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:55654937 original size:27 final size:27
Alignment explanation
Indices: 55654907--55655092 Score: 167
Period size: 27 Copynumber: 6.6 Consensus size: 27
55654897 TACCCTACAG
*
55654907 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTAGTAATTTTAT-AAACCAA
* *
55654934 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTATAAACCAA
* * *
55654961 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTAGTAATTTTATAAACCAA
*
55654988 GGGTATTTTGGTGATTTGGTGATTTTATAAACCAA
1 GGGTA-TTT--T-A----GTAATTTTATAAACCAA
* * *
55655023 GAGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTATAAACCAA
* *
55655050 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTATAAACCAA
*
55655077 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
55655093 CTGTAAATTG
Statistics
Matches: 129, Mismatches: 21, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
27 101 0.78
28 4 0.03
30 1 0.01
31 2 0.02
32 1 0.01
34 3 0.02
35 17 0.13
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTATAAACCAA
Found at i:55654938 original size:54 final size:54
Alignment explanation
Indices: 55654880--55655092 Score: 158
Period size: 54 Copynumber: 3.8 Consensus size: 54
55654870 TACCCCACAA
** * * *
55654880 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * *
55654934 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
* * * * *
55654988 GGGTATTTTGGTGATTTGGTGATTTTATAAACCAAGAGTATTTTAGTAATTTTACAAACCAG
1 GGGTA--TT--TCA----GTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
55655050 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
55655093 CTGTAAATTG
Statistics
Matches: 131, Mismatches: 19, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
53 2 0.02
54 78 0.60
56 2 0.02
58 2 0.02
60 2 0.02
62 45 0.34
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:55655016 original size:62 final size:62
Alignment explanation
Indices: 55654940--55655066 Score: 218
Period size: 62 Copynumber: 2.0 Consensus size: 62
55654930 CCATGGGTAT
* *
55654940 TTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTGA
1 TTTGGTAATTTTATAAACAAAGAGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGA
* *
55655002 TTTGGTGATTTTATAAACCAAGAGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGA
1 TTTGGTAATTTTATAAACAAAGAGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGA
55655064 TTT
1 TTT
55655067 TATAAACCAA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (62 bp):
TTTGGTAATTTTATAAACAAAGAGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGA
Found at i:55655106 original size:27 final size:27
Alignment explanation
Indices: 55655076--55655146 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
55655066 TTATAAACCA
* *
55655076 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
55655103 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
55655130 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
55655147 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:55657023 original size:27 final size:28
Alignment explanation
Indices: 55656967--55657077 Score: 115
Period size: 27 Copynumber: 4.1 Consensus size: 28
55656957 AGGAAGCGTC
* * *
55656967 CTGGTGGCTATGCCATAT-TTATCTGAT
1 CTGGTGGCTCTGCCACATATTATCTGTT
* *
55656994 CTGATGGCTCTGCCACATA-TATTTGTT
1 CTGGTGGCTCTGCCACATATTATCTGTT
55657021 CTGGTGGCTCTGCCACA-ATTATCTGTT
1 CTGGTGGCTCTGCCACATATTATCTGTT
* * *
55657048 CTGGTGACTCTGTCAC--ATTATCTTTT
1 CTGGTGGCTCTGCCACATATTATCTGTT
55657074 CTGG
1 CTGG
55657078 CAGCAATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 14 0.19
27 58 0.81
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.41
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACATATTATCTGTT
Found at i:55657059 original size:54 final size:53
Alignment explanation
Indices: 55656967--55657077 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 53
55656957 AGGAAGCGTC
* * *
55656967 CTGGTGGCTATGCCATATTTATCTGATCTGATGGCTCTGCCACATATAT-TTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGATGACTCTGCCACAT-TATCTT-TT
* * * *
55657021 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTTTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGATGACTCTGCCACATTATCTTTT
55657074 CTGG
1 CTGG
55657078 CAGCAATGCT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
53 9 0.18
54 40 0.82
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.41
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGATGACTCTGCCACATTATCTTTT
Found at i:55663294 original size:24 final size:24
Alignment explanation
Indices: 55663258--55663334 Score: 118
Period size: 24 Copynumber: 3.2 Consensus size: 24
55663248 AAGTCTATCA
*
55663258 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
55663282 GGATAGGATTTAGGAGCTAATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
55663306 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
55663330 GGAGA
1 GGAGA
55663335 ACAGTGTTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.34, C:0.03, G:0.40, T:0.23
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:55664742 original size:27 final size:27
Alignment explanation
Indices: 55664702--55664812 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
55664692 AGGAAGCGTC
*
55664702 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGAT
* *
55664729 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGAT
55664756 CTGGTGGCTCTGCCAC-TATTATCT-ATT
1 CTGGTGGCTCTGCCACAT-TTATCTGA-T
* * *
55664783 CTGGTGACTCTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGAT
55664809 CTGG
1 CTGG
55664813 CAGCAATGCT
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
26 12 0.17
27 60 0.83
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGAT
Found at i:55664786 original size:54 final size:53
Alignment explanation
Indices: 55664702--55664812 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 53
55664692 AGGAAGCGTC
*
55664702 CTGGTGGCTATGCCACATTTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACATTTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* *
55664756 CTGGTGGCTCTGCCAC-TATTATCT-ATTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAT-TTATCTGA-TCTGGTGACTCTGCCACATTATCTGTT
55664809 CTGG
1 CTGG
55664813 CAGCAATGCT
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
53 14 0.27
54 38 0.73
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:55666371 original size:23 final size:23
Alignment explanation
Indices: 55666341--55666390 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
55666331 CTGATGGACA
*
55666341 GTAAGCTCT-ATTGAGCTGAAAGT
1 GTAAGCTCTGA-TGAGCTGAAACT
*
55666364 GTAAGCTCTGATGAGCTGGAACT
1 GTAAGCTCTGATGAGCTGAAACT
55666387 GTAA
1 GTAA
55666391 ACTCATAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (23 bp):
GTAAGCTCTGATGAGCTGAAACT
Found at i:55676298 original size:27 final size:27
Alignment explanation
Indices: 55676263--55676320 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
55676253 TGATTAACTA
*
55676263 ACCATGTTTAAAGTATGTCTGAACATT
1 ACCAAGTTTAAAGTATGTCTGAACATT
55676290 ACCAAGTTTAAAGTATGTCTGAACATT
1 ACCAAGTTTAAAGTATGTCTGAACATT
55676317 ACCA
1 ACCA
55676321 TTTCCCTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (27 bp):
ACCAAGTTTAAAGTATGTCTGAACATT
Found at i:55677811 original size:42 final size:43
Alignment explanation
Indices: 55677764--55677847 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 43
55677754 TCCCATACGT
* * *
55677764 GGTCTTACATGTAATTACATACCGATGCCACTG-CCCAGACAG
1 GGTCTTACACGTAATCACATACCGATGCCAATGTCCCAGACAG
*
55677806 GGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACA
1 GGTCTTACACGTAATCACATACCGATGCCAATGTCCCAGACA
55677848 TGGTGTAACG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 29 0.78
43 8 0.22
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATACCGATGCCAATGTCCCAGACAG
Found at i:55681096 original size:31 final size:31
Alignment explanation
Indices: 55681052--55681197 Score: 267
Period size: 31 Copynumber: 4.7 Consensus size: 31
55681042 TTAGTCTTGA
*
55681052 CATAT-ACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
55681082 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
55681113 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
55681144 CATATCACTGGGTCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
55681175 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
55681198 ACTATAAACG
Statistics
Matches: 112, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
30 5 0.04
31 107 0.96
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:55681280 original size:41 final size:42
Alignment explanation
Indices: 55681221--55681311 Score: 157
Period size: 41 Copynumber: 2.2 Consensus size: 42
55681211 TGGCCCTTAG
* *
55681221 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGTAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
55681263 G-CCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
55681304 GCCCATTT
1 GCCCATTT
55681312 GTGGAGACTA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
41 39 0.85
42 7 0.15
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:55681528 original size:25 final size:25
Alignment explanation
Indices: 55681459--55681528 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
55681449 CTCTTTTAAT
*
55681459 AACTGGGGCAAAGCCCTTTCTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
55681484 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
55681509 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
55681529 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:55683112 original size:29 final size:29
Alignment explanation
Indices: 55683078--55683155 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
55683068 GTGACGAGAT
* *
55683078 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
55683107 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
55683136 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
55683156 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:55689928 original size:24 final size:25
Alignment explanation
Indices: 55689896--55689945 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
55689886 AAAAAGTGTG
55689896 TTCATTCTCTCA-TTTCTCCTTGCT
1 TTCATTCTCTCATTTTCTCCTTGCT
55689920 TTCATTCTCTCATTTTCTCCTTGCT
1 TTCATTCTCTCATTTTCTCCTTGCT
55689945 T
1 T
55689946 GGCCGAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.08, C:0.32, G:0.04, T:0.56
Consensus pattern (25 bp):
TTCATTCTCTCATTTTCTCCTTGCT
Found at i:55690956 original size:29 final size:29
Alignment explanation
Indices: 55690923--55691083 Score: 214
Period size: 29 Copynumber: 5.6 Consensus size: 29
55690913 GTGACGAGAT
55690923 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
55690952 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
55690981 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
55691010 TGGCACTAAGTGTGCATGTTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
55691039 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
55691068 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
55691084 GGCTTAAATT
Statistics
Matches: 116, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 116 1.00
ACGTcount: A:0.25, C:0.15, G:0.34, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:55694940 original size:40 final size:39
Alignment explanation
Indices: 55694896--55695010 Score: 124
Period size: 40 Copynumber: 2.9 Consensus size: 39
55694886 AAGTGACCAT
* *
55694896 ATCCGGACTAAGATCCGAAGGCGTTCGTGCGAGTTAATAA
1 ATCCGGATTAAG-TCCGAAGGCATTCGTGCGAGTTAATAA
* * * * *
55694936 ATCCGGGTTAAGCCCGAAGGCATTTGTGCAAGTTACTAA
1 ATCCGGATTAAGTCCGAAGGCATTCGTGCGAGTTAATAA
*
55694975 A-CCCGAGTTAAGTCCCGAAGGCATTCGTGCGAGTTA
1 ATCCGGA-TTAAGT-CCGAAGGCATTCGTGCGAGTTA
55695011 CTATAACCGG
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
38 3 0.05
39 28 0.46
40 30 0.49
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (39 bp):
ATCCGGATTAAGTCCGAAGGCATTCGTGCGAGTTAATAA
Found at i:55695011 original size:40 final size:40
Alignment explanation
Indices: 55694910--55695039 Score: 165
Period size: 40 Copynumber: 3.3 Consensus size: 40
55694900 GGACTAAGAT
* * *
55694910 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* * *
55694949 CCGAAGGCATTTGTGCAAGTTACTAAACCCGAGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
55694989 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
55695029 CCGAAGGCATT
1 CCGAAGGCATT
55695040 TGAGCTAGTC
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 32 0.41
40 38 0.49
41 8 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:55699282 original size:19 final size:20
Alignment explanation
Indices: 55699248--55699286 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
55699238 GTAAAACTGT
55699248 TTAAGATGTGTTTTCAAAAA
1 TTAAGATGTGTTTTCAAAAA
*
55699268 TTAATATGT-TTTTCAAAAA
1 TTAAGATGTGTTTTCAAAAA
55699287 GTTATCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (20 bp):
TTAAGATGTGTTTTCAAAAA
Found at i:55705501 original size:93 final size:93
Alignment explanation
Indices: 55705389--55705560 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55705379 GCCCATAAGT
* *
55705389 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55705454 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
55705482 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55705547 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
55705561 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:55705556 original size:46 final size:46
Alignment explanation
Indices: 55705381--55705556 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
55705371 TGTAACCCGC
* * *
55705381 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
55705427 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
55705477 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
55705520 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55705557 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:55707977 original size:29 final size:29
Alignment explanation
Indices: 55707938--55708025 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
55707928 CAAAGATAAC
*
55707938 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
55707967 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
55707996 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
55708026 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:55707996 original size:15 final size:15
Alignment explanation
Indices: 55707938--55708016 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
55707928 CAAAGATAAC
*
55707938 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
55707952 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
55707967 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
55707981 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
55707996 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
55708011 AAGAAA
1 AAGAAA
55708017 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:55708025 original size:15 final size:15
Alignment explanation
Indices: 55707949--55708025 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
55707939 AGAAAACCGA
55707949 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
55707964 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
55707978 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
55707992 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
55708008 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
55708023 ATA
1 ATA
55708026 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:55711087 original size:93 final size:93
Alignment explanation
Indices: 55710975--55711146 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55710965 GCCCATAAGT
* *
55710975 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55711040 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
55711068 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55711133 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
55711147 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:55711142 original size:46 final size:46
Alignment explanation
Indices: 55710967--55711142 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
55710957 TGTAACCCGC
* * *
55710967 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
55711013 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
55711063 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
55711106 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55711143 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:55714674 original size:27 final size:27
Alignment explanation
Indices: 55714644--55714750 Score: 130
Period size: 27 Copynumber: 3.9 Consensus size: 27
55714634 GGCTGCTAGA
* *
55714644 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
55714671 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
55714698 ACAGATATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
*
55714726 -CAAATAATTGTGGC-GTAGCCACCAG
1 ACAGATAA-TGTGGCAG-AGCCACCAG
55714751 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
26 2 0.03
27 53 0.74
28 17 0.24
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.17
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:55714739 original size:54 final size:54
Alignment explanation
Indices: 55714641--55714750 Score: 152
Period size: 54 Copynumber: 2.0 Consensus size: 54
55714631 CATGGCTGCT
* *
55714641 AGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAG-AGCCACC
1 AGAACAGATAATGTGACAGAGCCACCAGATACAAATAATCGTGGC-GTAGCCACC
* *
55714695 AGAACAGATATATGTGGCAGAGCCACCAGAT-CAAATAATTGTGGCGTAGCCACC
1 AGAACAGATA-ATGTGACAGAGCCACCAGATACAAATAATCGTGGCGTAGCCACC
55714749 AG
1 AG
55714751 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
53 1 0.02
54 31 0.62
55 18 0.36
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.16
Consensus pattern (54 bp):
AGAACAGATAATGTGACAGAGCCACCAGATACAAATAATCGTGGCGTAGCCACC
Found at i:55721449 original size:80 final size:80
Alignment explanation
Indices: 55721365--55721513 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
55721355 TATGGTAACC
* * * *
55721365 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
55721429 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
55721445 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
55721510 CCGG
66 CCGG
55721514 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:55721455 original size:40 final size:38
Alignment explanation
Indices: 55721406--55721513 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
55721396 ATCACGATTT
*
55721406 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
55721446 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
55721486 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
55721514 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:55725456 original size:42 final size:43
Alignment explanation
Indices: 55725388--55725499 Score: 133
Period size: 42 Copynumber: 2.6 Consensus size: 43
55725378 TTTTGCATGT
55725388 AATCAAATATCGATGCCATTGTCCCAAACAGGGTCTTACATCA
1 AATCAAATATCGATGCCATTGTCCCAAACAGGGTCTTACATCA
*
55725431 AATCAAATAT-GATGCCGA-TGTCCCAAACATGGTCTTACA-CGTA
1 AATCAAATATCGATGCC-ATTGTCCCAAACAGGGTCTTACATC--A
* *
55725474 AATCATAA-GTCGATGCCAATGTCCCA
1 AATCA-AATATCGATGCCATTGTCCCA
55725500 GATGTGTCTT
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
41 1 0.02
42 26 0.43
43 19 0.31
44 15 0.25
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (43 bp):
AATCAAATATCGATGCCATTGTCCCAAACAGGGTCTTACATCA
Found at i:55734213 original size:27 final size:27
Alignment explanation
Indices: 55734175--55734263 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
55734165 AAAAACAGTT
* * * *
55734175 ATTTTACCCTACAGGGGTATGTCGGTC
1 ATTTTACACTACAAGGGTATGTCGATA
*
55734202 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATGTCGATA
* * *
55734229 ATTTTACATTACAAGGGTATTTTGATA
1 ATTTTACACTACAAGGGTATGTCGATA
55734256 ATTTTACA
1 ATTTTACA
55734264 AATCGGGGGT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATGTCGATA
Found at i:55734341 original size:26 final size:27
Alignment explanation
Indices: 55734189--55734450 Score: 203
Period size: 27 Copynumber: 9.6 Consensus size: 27
55734179 TACCCTACAG
* * * *
55734189 GGGTATGTCGGTCATTTTAC-ACTACAA
1 GGGTATTTCGGTAATTTTACAAAT-CGA
* * *
55734216 GGGTATTTCGATAATTTTAC-ATTACAA
1 GGGTATTTCGGTAATTTTACAAAT-CGA
* * *
55734243 GGGTATTTTGATAATTTTACAAATCGG
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
55734270 GGGTGTTTCTATTTGGTAATTTTACAAATTGA
1 GGGTATTTC-----GGTAATTTTACAAATCGA
* ** *
55734302 GTGTATTTTAGTAATTTCAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
*
55734328 GGGTGTTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
55734355 GGGTTTTTCAGTAATTTTACAAATCG-
1 GGGTATTTCGGTAATTTTACAAATCGA
*
55734381 GGGTATTTCGGTAATTTTACAAACCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* **
55734408 GGGTACTTCAAT-ATTTTACAAA-CTGA
1 GGGTATTTCGGTAATTTTACAAATC-GA
55734434 GGGTATTTCGGTAATTT
1 GGGTATTTCGGTAATTT
55734451 CTCTTTATTA
Statistics
Matches: 190, Mismatches: 35, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.01
26 64 0.34
27 102 0.54
28 2 0.01
32 21 0.11
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCGA
Found at i:55734350 original size:53 final size:53
Alignment explanation
Indices: 55734279--55734450 Score: 192
Period size: 53 Copynumber: 3.3 Consensus size: 53
55734269 GGGGTGTTTC
* *
55734279 TATTT-GGTAATTTTACAAATTGAGTGTATTTT-AGTAATTTCAC-AATCGAGGG
1 TATTTCGGTAATTTTACAAATCGAGGGT-TTTTCAGTAATTTCACAAATCG-GGG
* *
55734331 TGTTTCGGTAATTTTACAAATCGAGGGTTTTTCAGTAATTTTACAAATCGGGG
1 TATTTCGGTAATTTTACAAATCGAGGGTTTTTCAGTAATTTCACAAATCGGGG
* ** * *
55734384 TATTTCGGTAATTTTACAAACCGAGGGTACTTCAAT-ATTTTACAAA-CTGAGGG
1 TATTTCGGTAATTTTACAAATCGAGGGTTTTTCAGTAATTTCACAAATC-G-GGG
55734437 TATTTCGGTAATTT
1 TATTTCGGTAATTT
55734451 CTCTTTATTA
Statistics
Matches: 106, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
51 1 0.01
52 19 0.18
53 81 0.76
54 5 0.05
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (53 bp):
TATTTCGGTAATTTTACAAATCGAGGGTTTTTCAGTAATTTCACAAATCGGGG
Found at i:55734801 original size:28 final size:28
Alignment explanation
Indices: 55734765--55734830 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
55734755 TTCGGCCCCT
* *
55734765 TTAGGCCCAATCTCGTTCACATGGCCCA
1 TTAGGCCCAATCACATTCACATGGCCCA
*
55734793 TTAGGCCCAATCACATTCATATGGCCCA
1 TTAGGCCCAATCACATTCACATGGCCCA
55734821 TTAGGCCCAA
1 TTAGGCCCAA
55734831 CTACTTCGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (28 bp):
TTAGGCCCAATCACATTCACATGGCCCA
Found at i:55737348 original size:11 final size:11
Alignment explanation
Indices: 55737332--55737357 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
55737322 CGAAGCCCAC
55737332 ATCACAATAAT
1 ATCACAATAAT
55737343 ATCACAATAAT
1 ATCACAATAAT
55737354 ATCA
1 ATCA
55737358 TACATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:55739067 original size:29 final size:29
Alignment explanation
Indices: 55739028--55739102 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
55739018 GGTTGAGAGA
* *
55739028 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
55739057 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
55739086 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
55739103 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:55746970 original size:29 final size:29
Alignment explanation
Indices: 55746931--55747005 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
55746921 GGTTGAGAGA
* *
55746931 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
55746960 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
55746989 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
55747006 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:55748887 original size:27 final size:27
Alignment explanation
Indices: 55748813--55748928 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
55748803 CAAAACAATT
* * * * *
55748813 ATTTTACCCTACAGGGGTATGTCGGTC
1 ATTTTACACTACAAGGGTATTTCAGTA
*
55748840 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCAGTA
* *
55748867 ATTTTACACTACAAGGGTATTTTAATA
1 ATTTTACACTACAAGGGTATTTCAGTA
* *
55748894 ATTTTACA-AATTAAGGGTATTTCAGTA
1 ATTTTACACTA-CAAGGGTATTTCAGTA
55748921 ATTTTACA
1 ATTTTACA
55748929 AATTGAGTGT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 76 0.99
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCAGTA
Found at i:55749127 original size:107 final size:108
Alignment explanation
Indices: 55748907--55749158 Score: 294
Period size: 107 Copynumber: 2.3 Consensus size: 108
55748897 TTACAAATTA
* * * *** *
55748907 AGGGTATTTCAGTAATTTTACAAATTGAGTGTATTTTGGTAATTTTACAAATTGAGGGTGTTTCA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCGAGGGTGTTTCA
* * * *
55748972 GCAATTTTAAAAATCGAGGGTGTTTCGGTAATTTCACAAATCG
66 GCAATTTTAAAAATCGAGGATATTTCGATAATTTCACAAAGCG
* *
55749015 AGGGTATTTCGGTAATTTTACAAATCGAGGGCATTTCAATAATTTTA-TAATCGAGGGTGTTTCA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCGAGGGTGTTTCA
* * *
55749079 GTAATTTTACAAATCTAGGATATTTCGATAACTTT-AC-AAGCAG
66 GCAATTTTAAAAATCGAGGATATTTCGATAA-TTTCACAAAGC-G
* * *
55749122 GGGGTACTTCGGTAATTTTACAAATCGGGGGTATTTC
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTC
55749159 GGTACTTTCT
Statistics
Matches: 122, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
106 3 0.02
107 76 0.62
108 43 0.35
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.37
Consensus pattern (108 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCGAGGGTGTTTCA
GCAATTTTAAAAATCGAGGATATTTCGATAATTTCACAAAGCG
Found at i:55749159 original size:27 final size:27
Alignment explanation
Indices: 55748827--55749162 Score: 293
Period size: 27 Copynumber: 12.5 Consensus size: 27
55748817 TACCCTACAG
* * * *
55748827 GGGTATGTCGGTCATTTTAC-ACTACAA
1 GGGTATTTCGGTAATTTTACAAAT-CGA
* *
55748854 GGGTATTTCGGTAATTTTAC-ACTACAA
1 GGGTATTTCGGTAATTTTACAAAT-CGA
*** **
55748881 GGGTATTTTAATAATTTTACAAATTAA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
55748908 GGGTATTTCAGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * *
55748935 GTGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * * *
55748962 GGGTGTTTCAGCAATTTTAAAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
55748989 GGGTGTTTCGGTAATTTCACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
55749016 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* ** *
55749043 GGGCATTTCAATAATTTTA-TAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * *
55749069 GGGTGTTTCAGTAATTTTACAAATCTA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * * * *
55749096 GGATATTTCGATAACTTTAC-AAGCAGG
1 GGGTATTTCGGTAATTTTACAAATC-GA
* *
55749123 GGGTACTTCGGTAATTTTACAAATCGG
1 GGGTATTTCGGTAATTTTACAAATCGA
55749150 GGGTATTTCGGTA
1 GGGTATTTCGGTA
55749163 CTTTCTCTTA
Statistics
Matches: 256, Mismatches: 49, Indels: 8
0.82 0.16 0.03
Matches are distributed among these distances:
26 25 0.10
27 226 0.88
28 5 0.02
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCGA
Found at i:55749516 original size:28 final size:28
Alignment explanation
Indices: 55749483--55749546 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
55749473 TGGCCCCTTT
* *
55749483 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
* *
55749511 AGGCCCAATCACATTCATATGGCGCATC
1 AGGCCCAATCACATTCACATGGCCCATC
55749539 AGGCCCAA
1 AGGCCCAA
55749547 CTACTTCCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.27, C:0.36, G:0.19, T:0.19
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:55751028 original size:5 final size:5
Alignment explanation
Indices: 55751018--55751049 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
55751008 AATAATTGTG
55751018 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
55751050 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:55751043 original size:9 final size:9
Alignment explanation
Indices: 55751019--55751049 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
55751009 ATAATTGTGA
55751019 AAATAAAAT
1 AAATAAAAT
55751028 AAAATAAAAT
1 -AAATAAAAT
55751038 AAATAAAAT
1 AAATAAAAT
55751047 AAA
1 AAA
55751050 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:55755466 original size:5 final size:5
Alignment explanation
Indices: 55755456--55755487 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
55755446 CAATTTGTGA
55755456 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
55755488 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:55755481 original size:9 final size:9
Alignment explanation
Indices: 55755457--55755487 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
55755447 AATTTGTGAA
55755457 AAATAAAAT
1 AAATAAAAT
55755466 AAAATAAAAT
1 -AAATAAAAT
55755476 AAATAAAAT
1 AAATAAAAT
55755485 AAA
1 AAA
55755488 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:55756396 original size:47 final size:49
Alignment explanation
Indices: 55756313--55756446 Score: 156
Period size: 46 Copynumber: 2.8 Consensus size: 49
55756303 TGTAACCCGC
** *
55756313 CCATAAGCAAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
* *
55756363 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
55756406 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
55756447 CAAACATCCT
Statistics
Matches: 71, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 2 0.03
45 2 0.03
46 30 0.42
47 27 0.38
48 2 0.03
49 2 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (49 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:55756461 original size:46 final size:45
Alignment explanation
Indices: 55756322--55756461 Score: 149
Period size: 46 Copynumber: 3.0 Consensus size: 45
55756312 CCCATAAGCA
* *
55756322 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA-TG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATCT-AGTG
* * * *
55756369 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGTG
1 AACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCTAGTG
*
55756415 AACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCATACAT-CTAGTG
55756461 A
1 A
55756462 CATGTCACTT
Statistics
Matches: 77, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
44 8 0.10
45 1 0.01
46 34 0.44
47 30 0.39
49 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCTAGTG
Found at i:55758858 original size:30 final size:30
Alignment explanation
Indices: 55758823--55758904 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 30
55758813 AACAAGAAAA
*
55758823 CAGAATAAAGAAATCCAAGATAGAGAAACC
1 CAGAATAAAGAAATCCAAGATAAAGAAACC
* *
55758853 CAGAATAAAGAAATCC-AGAATAAAGAGATC
1 CAGAATAAAGAAATCCAAG-ATAAAGAAACC
* *
55758883 CAGGATAAAGAAACCCAAGATA
1 CAGAATAAAGAAATCCAAGATA
55758905 CGATACTATG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
29 2 0.04
30 41 0.91
31 2 0.04
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.11
Consensus pattern (30 bp):
CAGAATAAAGAAATCCAAGATAAAGAAACC
Found at i:55758864 original size:15 final size:15
Alignment explanation
Indices: 55758823--55758895 Score: 94
Period size: 15 Copynumber: 4.9 Consensus size: 15
55758813 AACAAGAAAA
55758823 CAGAATAAAGAAATC
1 CAGAATAAAGAAATC
* *
55758838 CA-AGATAGAGAAACC
1 CAGA-ATAAAGAAATC
55758853 CAGAATAAAGAAATC
1 CAGAATAAAGAAATC
*
55758868 CAGAATAAAGAGATC
1 CAGAATAAAGAAATC
*
55758883 CAGGATAAAGAAA
1 CAGAATAAAGAAA
55758896 CCCAAGATAC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
14 1 0.02
15 47 0.96
16 1 0.02
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.11
Consensus pattern (15 bp):
CAGAATAAAGAAATC
Found at i:55758904 original size:15 final size:15
Alignment explanation
Indices: 55758827--55758904 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
55758817 AGAAAACAGA
55758827 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
55758842 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
55758856 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
55758871 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
55758887 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
55758902 ATA
1 ATA
55758905 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:55761860 original size:46 final size:46
Alignment explanation
Indices: 55761793--55761964 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
55761783 TGTAACCCGC
55761793 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
55761839 CCATAAGTGAACTCGGACTCAACTCAACGA-CTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * *
55761888 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC--TCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
55761929 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
55761965 ATGCCCAAAT
Statistics
Matches: 108, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 2 0.02
44 29 0.27
45 5 0.05
46 52 0.48
47 7 0.06
48 2 0.02
49 3 0.03
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:55761956 original size:90 final size:92
Alignment explanation
Indices: 55761801--55761969 Score: 288
Period size: 90 Copynumber: 1.8 Consensus size: 92
55761791 GCCCATAAGT
*
55761801 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
55761866 CGA-CTCGGATGCCTAGTTACATCTCAC
65 CGAGCTCGGATGCCTAGTTACATCTCAC
*
55761893 GAACTCGGACTCAACTCAACGAGTTCGGAC-TCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
55761957 GAGTTCGGATGCC
66 GAGCTCGGATGCC
55761970 CAAATATCCA
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
90 36 0.49
91 9 0.12
92 28 0.38
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCAC
Found at i:55767497 original size:50 final size:49
Alignment explanation
Indices: 55767393--55767621 Score: 229
Period size: 50 Copynumber: 4.7 Consensus size: 49
55767383 AGTGCCGACA
** ** * * * *
55767393 CCATGTCCTGGACATGGTCTTACACT-GGCTCACACATCAAAGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTACTCTCATATATCAAGGCCGATG
55767441 CCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCAAGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACT-ACTCTCATATATCAAGGCCGATG
* * * *
55767491 CCATGTCCCAAACATGGTCTTACACTAGCTCTCATCTATC-GGTGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTA-CTCTCATATATCAAG-GCCGATG
** * *
55767541 CCATGTCCCAGTTATGGTCTTACACTA---ACACATATCAA-G-CGATG
1 CCATGTCCCAGACATGGTCTTACACTACTCTCATATATCAAGGCCGATG
55767585 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
1 CCATGTCCCAGACATGGTCTTACACTA-CTCTCATAT
55767622 CTCTCTAGCA
Statistics
Matches: 148, Mismatches: 24, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
44 29 0.20
45 1 0.01
46 6 0.04
48 28 0.19
49 2 0.01
50 82 0.55
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (49 bp):
CCATGTCCCAGACATGGTCTTACACTACTCTCATATATCAAGGCCGATG
Found at i:55767608 original size:94 final size:98
Alignment explanation
Indices: 55767437--55767619 Score: 275
Period size: 94 Copynumber: 1.9 Consensus size: 98
55767427 CATCAAAGTC
* *
55767437 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCAAGGCCGATGCCATGTCCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGA--CACACATATCAAGGCCGATGCCATGTCCCAA
55767502 ACATGGTCTTACACTAGCTCTCATCTATCGGTGCT
64 ACATGGTCTTACACTAGCTCTCATCTATCGGTGCT
** *
55767537 GATGCCATGTCCCAGTTATGGTCTTACACT-A-ACACATATCAA-G-CGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACACATATCAAGGCCGATGCCATGTCCCAAAC
55767598 ATGGTCTTACACTAGCTCTCAT
66 ATGGTCTTACACTAGCTCTCAT
55767620 ATCTCTCTAG
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
94 39 0.50
95 1 0.01
96 9 0.12
99 1 0.01
100 28 0.36
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (98 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACACACATATCAAGGCCGATGCCATGTCCCAAAC
ATGGTCTTACACTAGCTCTCATCTATCGGTGCT
Found at i:55773797 original size:30 final size:28
Alignment explanation
Indices: 55773726--55773799 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
55773716 GCTATTGAAT
**
55773726 TATGAAAAGGGATGGTGATGACCACCAA
1 TATGAAAAGGGATGGTGACAACCACCAA
*
55773754 TAATGAAAAGGGATGGTGACAACCATCGAA
1 T-ATGAAAAGGGATGGTGACAACCA-CCAA
*
55773784 CTATGACAAGGGATGG
1 -TATGAAAAGGGATGG
55773800 CTCCGGCTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 1 0.03
29 21 0.54
30 16 0.41
31 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.30, T:0.18
Consensus pattern (28 bp):
TATGAAAAGGGATGGTGACAACCACCAA
Found at i:55773819 original size:30 final size:30
Alignment explanation
Indices: 55773785--55774004 Score: 144
Period size: 30 Copynumber: 7.4 Consensus size: 30
55773775 ACCATCGAAC
* *
55773785 TATGACAAGGGATGGCTCCGGCTATCAAAT
1 TATGAAAAGGGATGGCTTCGGCTATCAAAT
* * * *
55773815 TATGAAAACGGATGGCTTTGACTATCGAAT
1 TATGAAAAGGGATGGCTTCGGCTATCAAAT
* ** *
55773845 TATGAAAAGGTATAACTTCAGCTATCAAAT
1 TATGAAAAGGGATGGCTTCGGCTATCAAAT
* * * *
55773875 TATGAAAAGGGATGG-TGACGACCATC-ACT
1 TATGAAAAGGGATGGCT-TCGGCTATCAAAT
* * * **
55773904 AATGAAAAGGGATGG-TGGT-GACCATTGAAT
1 TATGAAAAGGGATGGCT--TCGGCTATCAAAT
* ** *
55773934 TATGAAAATGGATTACTTCGGCTATCAAAA
1 TATGAAAAGGGATGGCTTCGGCTATCAAAT
* *
55773964 TATGGAAAA-GGATAGCTTCGGCTATCAAAC
1 TAT-GAAAAGGGATGGCTTCGGCTATCAAAT
55773994 TATGAAAAGGG
1 TATGAAAAGGG
55774005 GTGGTAACAA
Statistics
Matches: 145, Mismatches: 38, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
29 30 0.21
30 109 0.75
31 6 0.04
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (30 bp):
TATGAAAAGGGATGGCTTCGGCTATCAAAT
Found at i:55773935 original size:119 final size:119
Alignment explanation
Indices: 55773756--55774019 Score: 293
Period size: 119 Copynumber: 2.2 Consensus size: 119
55773746 ACCACCAATA
* *
55773756 ATGAAAAGGGATGGTGACAACCATCGAACTATGACAAGGGATGGCTCCGGCTATCAAATTATGAA
1 ATGAAAAGGGATGGTGACAACCATC-AACTATGAAAAGGGATGGCTCCGGCCATCAAATTATGAA
* * * * *
55773821 AACGGATGGCTTTGACTATCGAATTAT-GAAAAGGTATAACTTCAGCTATCAAATT
65 AACGGATGACTTCGACTATCAAAATATGGAAAAGG-ATAACTTCAGCTATCAAACT
* * **
55773876 ATGAAAAGGGATGGTGACGACCATC-ACTAATGAAAAGGGATGG-T-GGTGACCATTGAATTATG
1 ATGAAAAGGGATGGTGACAACCATCAACT-ATGAAAAGGGATGGCTCCG-G-CCATCAAATTATG
* * * * *
55773938 AAAATGGATTACTTCGGCTATCAAAATATGGAAAAGGATAGCTTCGGCTATCAAACT
63 AAAACGGATGACTTCGACTATCAAAATATGGAAAAGGATAACTTCAGCTATCAAACT
* *
55773995 ATGAAAAGGGGTGGTAACAACCATC
1 ATGAAAAGGGATGGTGACAACCATC
55774020 GTGATTTTAC
Statistics
Matches: 121, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
117 1 0.01
118 5 0.04
119 84 0.69
120 31 0.26
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (119 bp):
ATGAAAAGGGATGGTGACAACCATCAACTATGAAAAGGGATGGCTCCGGCCATCAAATTATGAAA
ACGGATGACTTCGACTATCAAAATATGGAAAAGGATAACTTCAGCTATCAAACT
Found at i:55773959 original size:149 final size:149
Alignment explanation
Indices: 55773723--55774003 Score: 375
Period size: 149 Copynumber: 1.9 Consensus size: 149
55773713 TCGGCTATTG
*
55773723 AATTATGAAAAGGGATGGTGATGACCACCAATAATGAAAAGGGATGGTGACAACCATCGAACTAT
1 AATTATGAAAAGGGATGGTGACGACCACCAATAATGAAAAGGGATGGTGACAACCATCGAACTAT
* * * * * * *
55773788 GACAAGGGATGGCTCCGGCTATCAAATTAT-GAAAACGGATGGCTTTGACTATCGAATTATGAAA
66 GAAAAGGGATGACTCCGGCTATCAAAATATGGAAAA-GGATAGCTTCGACTATCAAACTATGAAA
55773852 AGGTATAACTTCAGCTATCA
130 AGGTATAACTTCAGCTATCA
* * *** * *
55773872 AATTATGAAAAGGGATGGTGACGACCATCACTAATGAAAAGGGATGGTGGTGACCATTGAATTAT
1 AATTATGAAAAGGGATGGTGACGACCACCAATAATGAAAAGGGATGGTGACAACCATCGAACTAT
* * * *
55773937 GAAAATGGATTACTTCGGCTATCAAAATATGGAAAAGGATAGCTTCGGCTATCAAACTATGAAAA
66 GAAAAGGGATGACTCCGGCTATCAAAATATGGAAAAGGATAGCTTCGACTATCAAACTATGAAAA
55774002 GG
131 GG
55774004 GGTGGTAACA
Statistics
Matches: 112, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
149 107 0.96
150 5 0.04
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (149 bp):
AATTATGAAAAGGGATGGTGACGACCACCAATAATGAAAAGGGATGGTGACAACCATCGAACTAT
GAAAAGGGATGACTCCGGCTATCAAAATATGGAAAAGGATAGCTTCGACTATCAAACTATGAAAA
GGTATAACTTCAGCTATCA
Found at i:55776102 original size:27 final size:27
Alignment explanation
Indices: 55776072--55776269 Score: 245
Period size: 27 Copynumber: 7.3 Consensus size: 27
55776062 TTCTGAAATG
**
55776072 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * * *
55776099 CCCTCAATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
** *
55776126 CCCTTAATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
55776153 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
55776180 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
55776207 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
55776234 TCCTC-ACTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
55776261 CCCTCGATT
1 CCCTCGATT
55776270 GTGAAATTAC
Statistics
Matches: 149, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 147 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:55776190 original size:81 final size:81
Alignment explanation
Indices: 55776072--55776269 Score: 290
Period size: 81 Copynumber: 2.4 Consensus size: 81
55776062 TTCTGAAATG
* * * *
55776072 CCCTCGATTTGTAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTCACCCTTAATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCAATTTA
55776137 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* *
55776153 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCAATTTA
55776218 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * * *
55776234 TCCTC-ACTTTACAAAATTACCGTTTTACCCTCGATT
1 CCCTCGA-TTTATAGAATTACCATTTTACCCTCGATT
55776270 GTGAAATTAC
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 105 0.99
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCAATTTA
CAAAATTACCATTTTA
Found at i:55776291 original size:27 final size:27
Alignment explanation
Indices: 55776268--55776451 Score: 185
Period size: 27 Copynumber: 6.8 Consensus size: 27
55776258 TTACCCTCGA
* *
55776268 TTGTGAAATTACTAAAATACCCCT-GT
1 TTGTAAAATTACCAAAATACCCCTAGT
** * *
55776294 AGGATAGAATTACCAAAATACCCTTAGT
1 TTG-TAAAATTACCAAAATACCCCTAGT
55776322 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * *
55776349 TTGTAAAATTACCGAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * *
55776376 TTGTGAAATTACCGAAATA-CCCTCAAT
1 TTGTAAAATTACCAAAATACCCCT-AGT
*
55776403 TTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATACCCCTAGT
**
55776430 TTACAAAATTA-CAAATATACCC
1 TTGTAAAATTACCAAA-ATACCC
55776452 TTGACTTTCT
Statistics
Matches: 132, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
26 8 0.06
27 117 0.89
28 7 0.05
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGT
Found at i:55776450 original size:81 final size:81
Alignment explanation
Indices: 55776301--55776450 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 81
55776291 TGTAGGATAG
* * * ** *
55776301 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAA
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACCAAAA
55776366 TACCACTGGTTTGTGA
66 TACCACTGGTTTGTGA
*
55776382 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTA-CAAAT
1 AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACCAAA-
55776446 ATACC
65 ATACC
55776451 CTTGACTTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 3 0.05
81 58 0.95
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACCAAAA
TACCACTGGTTTGTGA
Found at i:55776512 original size:27 final size:27
Alignment explanation
Indices: 55776301--55776536 Score: 170
Period size: 27 Copynumber: 8.7 Consensus size: 27
55776291 TGTAGGATAG
*
55776301 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCGAAATACCCTTAGTTTGTAA
* *
55776328 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCTTAGTTTGTAA
* *
55776355 AATTACCGAAATACCAC-TGGTTTGTGA
1 AATTACCGAAATACC-CTTAGTTTGTAA
* *
55776382 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCGAAATACCCTTAGTTTGTAA
* * * **
55776409 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCGAAATACCCTTAGTTTGTAA
* * *
55776436 AATTA-CAAATATACCCTTGACTTTCTAAA
1 AATTACCGAA-ATACCCTT-AGTTTGT-AA
** ** * **
55776465 AATTATAGAAATACCAATGGTTTACAA
1 AATTACCGAAATACCCTTAGTTTGTAA
* * *
55776492 AATTACTGAAATACCCTTGGTTTGTAT
1 AATTACCGAAATACCCTTAGTTTGTAA
* * *
55776519 ATTTACCAAAACACCCTT
1 AATTACCGAAATACCCTT
55776537 GTAGGATGAA
Statistics
Matches: 167, Mismatches: 36, Indels: 12
0.78 0.17 0.06
Matches are distributed among these distances:
26 5 0.03
27 139 0.83
28 8 0.05
29 13 0.08
30 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCGAAATACCCTTAGTTTGTAA
Found at i:55778867 original size:29 final size:29
Alignment explanation
Indices: 55778835--55778912 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
55778825 ATACCCTCCG
** *
55778835 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
55778864 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
55778893 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
55778913 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:55783851 original size:39 final size:39
Alignment explanation
Indices: 55783808--55783936 Score: 122
Period size: 40 Copynumber: 3.3 Consensus size: 39
55783798 CGGAATATAA
55783808 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAG
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAG
* * *
55783847 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAG
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAG
* * *
55783886 CCCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 -CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTT-AG
55783927 CCGGATATAA
1 CCGGATATAA
55783937 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
38 1 0.01
39 33 0.46
40 36 0.50
41 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (39 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAG
Found at i:55783914 original size:40 final size:39
Alignment explanation
Indices: 55783824--55783936 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 39
55783814 ATAAGCATGT
* * *
55783824 GCACAAATGCCTTCGGGTCTTAG-CCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACGACTA
*
55783863 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCG-CTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTA
*
55783903 GCACAATTGCCTTCGGGTCTTAACCCGGATATAA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAA
55783937 TTTCCAGCAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
39 24 0.38
40 39 0.61
41 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACGACTA
Found at i:55783951 original size:40 final size:40
Alignment explanation
Indices: 55783824--55783973 Score: 130
Period size: 40 Copynumber: 3.8 Consensus size: 40
55783814 ATAAGCATGT
* * *
55783824 GCACAAATGCCTTCGGGTCTTAG-CCGGATAGAA-TGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCG-C-CA
* *
55783863 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACCGCCA
* ***
55783903 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCGCCA
* * *
55783943 GCATAATTGTCTT-GGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
55783974 CATTCAATTT
Statistics
Matches: 92, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
39 38 0.41
40 53 0.58
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACCGCCA
Found at i:55789244 original size:40 final size:39
Alignment explanation
Indices: 55789133--55789284 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
55789123 TATAACATGT
* ** *
55789133 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
*
55789173 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *** *
55789213 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* * *
55789253 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
55789285 CATTCAATTT
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.02
40 93 0.98
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
Found at i:55789267 original size:80 final size:80
Alignment explanation
Indices: 55789133--55789284 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
55789123 TATAACATGT
* *
55789133 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
55789198 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
55789213 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
55789276 CCCGGATAT
64 CCCGGATAT
55789285 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:55797157 original size:40 final size:40
Alignment explanation
Indices: 55797112--55797241 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
55797102 CGGAATATAA
55797112 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
55797152 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
55797192 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
55797232 CCGGATATAA
1 CCGGATATAA
55797242 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:55797256 original size:40 final size:40
Alignment explanation
Indices: 55797128--55797278 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
55797118 ATAAGCATGT
* * *
55797128 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
55797168 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
55797208 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
55797248 GCATAATTGTCTT-GGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
55797279 CATTCAATTT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 18 0.20
40 72 0.78
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:55799554 original size:9 final size:9
Alignment explanation
Indices: 55799542--55799618 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
55799532 TTTGATAAAC
55799542 ATGATATGT
1 ATGATATGT
*
55799551 ATGATATGCAC
1 ATGATATG--T
55799562 ATGATATGT
1 ATGATATGT
*
55799571 ATGATATGCAC
1 ATGATATG--T
*
55799582 ATGACATGT
1 ATGATATGT
*
55799591 ATGATATGCAC
1 ATGATATG--T
55799602 ATGATATGT
1 ATGATATGT
55799611 ATGATATG
1 ATGATATG
55799619 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:55799565 original size:20 final size:20
Alignment explanation
Indices: 55799540--55799622 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
55799530 ATTTTGATAA
55799540 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
55799560 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
55799580 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
55799600 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
55799620 ACA
1 ACA
55799623 CGAGATGGTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:55799567 original size:11 final size:11
Alignment explanation
Indices: 55799551--55799622 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
55799541 CATGATATGT
55799551 ATGATATGCAC
1 ATGATATGCAC
*
55799562 ATGATATG--T
1 ATGATATGCAC
55799571 ATGATATGCAC
1 ATGATATGCAC
* *
55799582 ATGACATG--T
1 ATGATATGCAC
55799591 ATGATATGCAC
1 ATGATATGCAC
*
55799602 ATGATATG--T
1 ATGATATGCAC
55799611 ATGATATGCAC
1 ATGATATGCAC
55799622 A
1 A
55799623 CGAGATGGTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:55799710 original size:23 final size:23
Alignment explanation
Indices: 55799677--55799820 Score: 209
Period size: 23 Copynumber: 6.1 Consensus size: 23
55799667 AGGAAGTGCA
55799677 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
55799700 AAAGGGGTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT--T
*
55799725 AAAGGGCTTATGCCCCAGTTCTT
1 AAAGGGCTTATGCCCCAGTTATT
*
55799748 AAGGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
55799771 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
55799794 AAAAAGGGCTT-TGCCCCAATTATT
1 --AAAGGGCTTATGCCCCAGTTATT
55799818 AAA
1 AAA
55799821 AGAGGCTAGG
Statistics
Matches: 110, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
22 3 0.03
23 65 0.59
24 12 0.11
25 30 0.27
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:55799800 original size:71 final size:70
Alignment explanation
Indices: 55799680--55799811 Score: 228
Period size: 71 Copynumber: 1.9 Consensus size: 70
55799670 AAGTGCAAAA
* *
55799680 GGGCTTATGCCCCAGTTATTAAAGGGGTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTT
1 GGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGAAAAAGGGCTT-TGCCCCAGTT
55799745 CTTAAG
65 CTTAAG
*
55799751 GGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCCA
1 GGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGAAAAAGGGCTTTGCCCCA
55799812 ATTATTAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
70 7 0.12
71 51 0.88
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (70 bp):
GGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATGAAAAAGGGCTTTGCCCCAGTTC
TTAAG
Found at i:55799803 original size:48 final size:46
Alignment explanation
Indices: 55799677--55799820 Score: 209
Period size: 48 Copynumber: 3.1 Consensus size: 46
55799667 AGGAAGTGCA
*
55799677 AAAGGGCTTATGCCCCAGTTATTAAAGGGGTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT--T
* *
55799725 AAAGGGCTTATGCCCCAGTTCTTAAGGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
55799771 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTT-TGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT--AAAGGGCTTATGCCCCAGTTATT
55799818 AAA
1 AAA
55799821 AGAGGCTAGG
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
46 23 0.26
47 15 0.17
48 50 0.57
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:55801760 original size:10 final size:10
Alignment explanation
Indices: 55801745--55801769 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
55801735 TCTCCATTGT
55801745 AGGTTTTTAA
1 AGGTTTTTAA
55801755 AGGTTTTTAA
1 AGGTTTTTAA
55801765 AGGTT
1 AGGTT
55801770 GCATTTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (10 bp):
AGGTTTTTAA
Found at i:55803539 original size:22 final size:22
Alignment explanation
Indices: 55803514--55803555 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
55803504 TTGGGGAAGT
*
55803514 GTGGGAGCG-AATTTAGGGATAA
1 GTGGGAG-GAAATTAAGGGATAA
55803536 GTGGGAGGAAATTAAGGGAT
1 GTGGGAGGAAATTAAGGGAT
55803556 TATGGGGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.33, C:0.02, G:0.43, T:0.21
Consensus pattern (22 bp):
GTGGGAGGAAATTAAGGGATAA
Found at i:55803807 original size:23 final size:23
Alignment explanation
Indices: 55803775--55803819 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
55803765 CATTTCCGTT
*
55803775 TGTTCGGTAAGTGAAATAAGGTC
1 TGTTCAGTAAGTGAAATAAGGTC
55803798 TGTTCAGTAAGTGAAATAAGGT
1 TGTTCAGTAAGTGAAATAAGGT
55803820 AGAATTGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (23 bp):
TGTTCAGTAAGTGAAATAAGGTC
Found at i:55805986 original size:28 final size:28
Alignment explanation
Indices: 55805946--55806001 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
55805936 ACAAGTAACT
55805946 CAGTACACTCCATTGGTGCTTTGTGCAA
1 CAGTACACTCCATTGGTGCTTTGTGCAA
55805974 CAGTACACTCCATTGGTGCTTTGTGCAA
1 CAGTACACTCCATTGGTGCTTTGTGCAA
55806002 ACTCGTGTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (28 bp):
CAGTACACTCCATTGGTGCTTTGTGCAA
Found at i:55806983 original size:14 final size:14
Alignment explanation
Indices: 55806964--55806992 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
55806954 GAATGCCAGT
55806964 ATACCCTATTGCGC
1 ATACCCTATTGCGC
55806978 ATACCCTATTGCGC
1 ATACCCTATTGCGC
55806992 A
1 A
55806993 GTGGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28
Consensus pattern (14 bp):
ATACCCTATTGCGC
Found at i:55816271 original size:28 final size:30
Alignment explanation
Indices: 55816214--55816281 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 30
55816204 TCAAAATTTC
*
55816214 AAAATAAA-T-AAAAATAAAATATATCGAT
1 AAAATAAATTAAAAAATAAAATATATCAAT
*
55816242 AAAATAAATTAAAAAATTAAA-A-ATCAAT
1 AAAATAAATTAAAAAATAAAATATATCAAT
*
55816270 AAAGT-AATTAAA
1 AAAATAAATTAAA
55816282 TTTTGTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 7 0.20
28 17 0.49
29 2 0.06
30 9 0.26
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (30 bp):
AAAATAAATTAAAAAATAAAATATATCAAT
Found at i:55818368 original size:15 final size:15
Alignment explanation
Indices: 55818348--55818377 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55818338 AATACTTTTC
*
55818348 TTAAAATTCTAAATT
1 TTAAAATTATAAATT
55818363 TTAAAATTATAAATT
1 TTAAAATTATAAATT
55818378 CTAACGCACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAAATTATAAATT
Found at i:55818466 original size:14 final size:14
Alignment explanation
Indices: 55818449--55818481 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
55818439 TTATTTTTTT
55818449 TTAATTTT-TTTACA
1 TTAATTTTATTTA-A
55818463 TTAATTTTATTTAA
1 TTAATTTTATTTAA
55818477 TTAAT
1 TTAAT
55818482 CAAAACTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (14 bp):
TTAATTTTATTTAA
Found at i:55823491 original size:14 final size:14
Alignment explanation
Indices: 55823472--55823499 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
55823462 ATGTTAATTA
55823472 ACCGGTAAGTTTAC
1 ACCGGTAAGTTTAC
55823486 ACCGGTAAGTTTAC
1 ACCGGTAAGTTTAC
55823500 TTTCTAGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (14 bp):
ACCGGTAAGTTTAC
Found at i:55831241 original size:40 final size:40
Alignment explanation
Indices: 55831167--55831373 Score: 328
Period size: 40 Copynumber: 5.2 Consensus size: 40
55831157 AACCCAAGTA
* *
55831167 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
55831206 CCTTTGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
55831246 CCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
55831286 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
55831326 CCTTCGGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTC-GGGACTTAGCCCGGATATAGTCACTAGCACAAATG
55831367 CCTTCGG
1 CCTTCGG
55831374 ATCTTAGTCC
Statistics
Matches: 157, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 12 0.08
40 105 0.67
41 40 0.25
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:55833590 original size:78 final size:80
Alignment explanation
Indices: 55833455--55833635 Score: 235
Period size: 78 Copynumber: 2.3 Consensus size: 80
55833445 TCGAATGATG
* *
55833455 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
55833520 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * * **
55833534 TTCCGGGCTAAG-CCCGAAGGCATGGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
55833596 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
55833613 ACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCAT
55833636 TTGAACGAGT
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
77 1 0.01
78 51 0.57
79 26 0.29
80 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:55833645 original size:40 final size:39
Alignment explanation
Indices: 55833456--55833638 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
55833446 CGAATGATGT
* *
55833456 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
55833495 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
55833536 CCGGGCTAAG-CCCGAAGGCA-TGGTGCGAGTTATTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55833573 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
55833614 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
55833639 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
38 23 0.19
39 19 0.16
40 70 0.57
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55840513 original size:39 final size:39
Alignment explanation
Indices: 55840459--55840679 Score: 307
Period size: 39 Copynumber: 5.6 Consensus size: 39
55840449 AATGTTCGAG
*
55840459 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
55840498 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
55840537 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
55840576 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
55840615 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
55840655 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
55840680 TGTTTTGAAC
Statistics
Matches: 164, Mismatches: 17, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 124 0.76
40 40 0.24
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:55844972 original size:78 final size:80
Alignment explanation
Indices: 55844837--55845017 Score: 235
Period size: 78 Copynumber: 2.3 Consensus size: 80
55844827 TCGAATGATG
* *
55844837 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
55844902 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * * **
55844916 TTCCGGGCTAAG-CCCGAAGGCATGGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
55844978 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
55844995 ACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCAT
55845018 TTGAACGAGT
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
77 1 0.01
78 51 0.57
79 26 0.29
80 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:55845027 original size:40 final size:39
Alignment explanation
Indices: 55844838--55845020 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
55844828 CGAATGATGT
* *
55844838 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
55844877 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
55844918 CCGGGCTAAG-CCCGAAGGCA-TGGTGCGAGTTATTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55844955 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
55844996 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
55845021 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
38 23 0.19
39 19 0.16
40 70 0.57
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55847164 original size:24 final size:24
Alignment explanation
Indices: 55847120--55847165 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
55847110 ACAATTTTAG
* *
55847120 AACATCTAAACGACACTTGTTCAA
1 AACATCTAAACAACACATGTTCAA
55847144 AACAT-TAAACAACTACATGTTC
1 AACATCTAAACAAC-ACATGTTC
55847166 GGCTATTACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (24 bp):
AACATCTAAACAACACATGTTCAA
Found at i:55854752 original size:92 final size:93
Alignment explanation
Indices: 55854626--55854795 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
55854616 CCCATAAGTG
* *
55854626 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
55854691 GAGTTCGGATGCCTAGTTACATCTCTCA
66 GAGTTCGGATGCCTAGTTACATCTCTCA
*
55854719 AACT-GGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
55854783 GAGTTCGGATGCC
66 GAGTTCGGATGCC
55854796 CAAATATCCT
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 70 0.95
93 4 0.05
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCTCA
Found at i:55854791 original size:46 final size:46
Alignment explanation
Indices: 55854617--55854791 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
55854607 ATGTAACCGC
* * *
55854617 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55854663 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
55854713 CTC-TCA---AACT-GGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
55854755 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55854792 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 7, Indels: 24
0.78 0.05 0.17
Matches are distributed among these distances:
41 3 0.03
42 7 0.06
43 1 0.01
45 4 0.04
46 81 0.74
47 4 0.04
49 1 0.01
50 6 0.05
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55857552 original size:93 final size:93
Alignment explanation
Indices: 55857440--55857610 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
55857430 GCCCATAAGT
* *
55857440 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55857505 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
55857533 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55857598 CGAGTTCGGATGC
66 CGAGTTCGGATGC
55857611 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:55857607 original size:46 final size:46
Alignment explanation
Indices: 55857432--55857607 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
55857422 TGTAACCCGC
* * *
55857432 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55857478 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
55857528 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
55857571 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55857608 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55859187 original size:40 final size:40
Alignment explanation
Indices: 55859055--55859180 Score: 193
Period size: 40 Copynumber: 3.2 Consensus size: 40
55859045 AACCCAAGTA
* * *
55859055 CCTTCGGGATTTAG-CTGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
55859094 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
55859134 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
55859174 CCTTCGG
1 CCTTCGG
55859181 ATCTTAGTTC
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 13 0.16
40 66 0.82
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:55860617 original size:13 final size:13
Alignment explanation
Indices: 55860601--55860628 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
55860591 TTTATTATTT
55860601 TTAACACAAAATA
1 TTAACACAAAATA
55860614 TTAACACAAAATA
1 TTAACACAAAATA
55860627 TT
1 TT
55860629 TATAATATGT
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:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:55867112 original size:47 final size:47
Alignment explanation
Indices: 55867049--55867170 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
55867039 GATGCGAATG
55867049 TCCGAGCTCATTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCA
1 TCCGAGCTCATTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCA
*
55867096 TCCGAGCTCATTGAGTTGAGTCTGAGTTTGTGAGATGTAACTAGGCA
1 TCCGAGCTCATTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCA
*
55867143 TCCAAGCTCATTGAGTTGAGTCCGAGTT
1 TCCGAGCTCATTGAGTTGAGTCCGAGTT
55867171 CGCTTATGGG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (47 bp):
TCCGAGCTCATTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCA
Found at i:55871546 original size:64 final size:64
Alignment explanation
Indices: 55871465--55871649 Score: 189
Period size: 67 Copynumber: 2.9 Consensus size: 64
55871455 AGACATTATG
* *
55871465 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
55871529 ATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
55871593 TAA
62 TAA
* * * *
55871596 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGCT
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGCT
55871650 GAACTATATG
Statistics
Matches: 99, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 20 0.20
64 23 0.23
65 4 0.04
66 18 0.18
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:55888597 original size:23 final size:24
Alignment explanation
Indices: 55888494--55888659 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
55888484 GCTTTATCAT
*
55888494 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
55888519 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
55888543 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
55888567 ATAACTGGAGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
55888590 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
55888614 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
55888637 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
55888660 GCACTTCCTC
Statistics
Matches: 129, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
23 43 0.33
24 74 0.57
25 12 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:55888607 original size:47 final size:47
Alignment explanation
Indices: 55888494--55888660 Score: 264
Period size: 47 Copynumber: 3.5 Consensus size: 47
55888484 GCTTTATCAT
* * *
55888494 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCC-TTTA
*
55888543 ATAACTGGGGCATAAGCCCTTTTGATAACTGGAGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
55888590 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
55888637 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
55888661 CACTTCCTCC
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
47 74 0.66
48 26 0.23
49 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
Found at i:55888731 original size:9 final size:9
Alignment explanation
Indices: 55888717--55888793 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
55888707 ATCTCATGTG
55888717 CATATCATA
1 CATATCATA
*
55888726 CATATCATGTG
1 CATATCA--TA
55888737 CATATCATA
1 CATATCATA
*
55888746 CATATCATGTG
1 CATATCA--TA
55888757 CATATCATA
1 CATATCATA
* *
55888766 CATGTCATGTG
1 CATATCA--TA
55888777 CATATCATA
1 CATATCATA
55888786 CATATCAT
1 CATATCAT
55888794 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:55888733 original size:20 final size:20
Alignment explanation
Indices: 55888705--55888795 Score: 164
Period size: 20 Copynumber: 4.5 Consensus size: 20
55888695 GCATTTATGA
*
55888705 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
55888725 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
55888745 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
55888765 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
55888785 ACATATCATGT
1 ACATATCATGT
55888796 TTATCAAAAT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:55888740 original size:11 final size:11
Alignment explanation
Indices: 55888710--55888784 Score: 72
Period size: 11 Copynumber: 7.4 Consensus size: 11
55888700 TATGAACATC
55888710 TCATGTGCATA
1 TCATGTGCATA
*
55888721 TCA--TACATA
1 TCATGTGCATA
55888730 TCATGTGCATA
1 TCATGTGCATA
*
55888741 TCA--TACATA
1 TCATGTGCATA
55888750 TCATGTGCATA
1 TCATGTGCATA
* *
55888761 TCA--TACATG
1 TCATGTGCATA
55888770 TCATGTGCATA
1 TCATGTGCATA
55888781 TCAT
1 TCAT
55888785 ACATATCATG
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
9 23 0.46
11 27 0.54
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:55900152 original size:28 final size:28
Alignment explanation
Indices: 55900120--55900218 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
55900110 GCCATAAGCC
*
55900120 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
55900148 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
55900176 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
55900205 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55900219 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:55905003 original size:93 final size:93
Alignment explanation
Indices: 55904890--55905060 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
55904880 GCCCCTAAGT
* *
55904890 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55904955 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
55904983 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55905048 CGAGTTCGGATGC
66 CGAGTTCGGATGC
55905061 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:55905057 original size:46 final size:46
Alignment explanation
Indices: 55904885--55905057 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
55904875 AACCCGCCCC
* * * * *
55904885 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCA
* * *
55904931 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTA--TCCA
* *
55904977 TCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCA
55905024 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55905058 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
44 3 0.03
45 2 0.02
46 63 0.59
47 31 0.29
48 2 0.02
49 5 0.05
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCA
Found at i:55905514 original size:30 final size:30
Alignment explanation
Indices: 55905480--55905539 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
55905470 ATTTAATACG
55905480 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
55905510 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
55905540 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:55907570 original size:2 final size:2
Alignment explanation
Indices: 55907563--55907587 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
55907553 AAGTAACAAG
55907563 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 T
55907588 CTGTATTCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55909463 original size:80 final size:80
Alignment explanation
Indices: 55909379--55909527 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
55909369 TATGGTAACC
* * * *
55909379 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
55909443 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
55909459 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
55909524 CCGG
66 CCGG
55909528 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Done.