Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 74 of 770
Found at i:21710161 original size:27 final size:27
Alignment explanation
Indices: 21710128--21710226 Score: 144
Period size: 27 Copynumber: 3.7 Consensus size: 27
21710118 TAAAGATTCC
21710128 ATCGGGACATTAAACACAAGGTAGTCA
1 ATCGGGACATTAAACACAAGGTAGTCA
* *
21710155 ATTGGGACATTAAACACAAGGTAGTCT
1 ATCGGGACATTAAACACAAGGTAGTCA
* * *
21710182 ATCAGGACATTAAACACGAGGTAGTCC
1 ATCGGGACATTAAACACAAGGTAGTCA
*
21710209 ATCGGGACATTCAACACA
1 ATCGGGACATTAAACACA
21710227 GGAAGTCCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.20
Consensus pattern (27 bp):
ATCGGGACATTAAACACAAGGTAGTCA
Found at i:21712372 original size:38 final size:38
Alignment explanation
Indices: 21712304--21712384 Score: 94
Period size: 38 Copynumber: 2.2 Consensus size: 38
21712294 AAACAAAAAT
*
21712304 TGAGT-GAATAAAAGCAATGTGAGGGTTAAAAGCAAAG
1 TGAGTGGAATAAAAGCAATGTGAGGGATAAAAGCAAAG
* * **
21712341 TGAGTGGAATAAAAGC-ATGGTTAGTGATAAAAGCATTG
1 TGAGTGGAATAAAAGCAAT-GTGAGGGATAAAAGCAAAG
21712379 TGAGTG
1 TGAGTG
21712385 AAAGAGTGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
37 7 0.19
38 30 0.81
ACGTcount: A:0.41, C:0.05, G:0.31, T:0.23
Consensus pattern (38 bp):
TGAGTGGAATAAAAGCAATGTGAGGGATAAAAGCAAAG
Found at i:21712384 original size:18 final size:18
Alignment explanation
Indices: 21712304--21712385 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
21712294 AAACAAAAAT
21712304 TGAGTGAATAAAAGCAATG
1 TGAGTG-ATAAAAGCAATG
* * *
21712323 TGAGGGTTAAAAGCAAAG
1 TGAGTGATAAAAGCAATG
21712341 TGAGTGGAATAAAAGC-ATGG
1 TGAGT-G-ATAAAAGCAAT-G
* *
21712361 TTAGTGATAAAAGCATTG
1 TGAGTGATAAAAGCAATG
21712379 TGAGTGA
1 TGAGTGA
21712386 AAGAGTGAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
18 29 0.58
19 9 0.18
20 12 0.24
ACGTcount: A:0.41, C:0.05, G:0.30, T:0.23
Consensus pattern (18 bp):
TGAGTGATAAAAGCAATG
Found at i:21713706 original size:20 final size:20
Alignment explanation
Indices: 21713683--21713724 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
21713673 CACTTATTAT
*
21713683 TTTATT-ATATAAATAAAGAA
1 TTTATTAAT-TAAAAAAAGAA
21713703 TTTATTAATTAAAAAAAGAA
1 TTTATTAATTAAAAAAAGAA
21713723 TT
1 TT
21713725 AAAAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
TTTATTAATTAAAAAAAGAA
Found at i:21715598 original size:15 final size:15
Alignment explanation
Indices: 21715578--21715610 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
21715568 TTTAATTCGA
*
21715578 TATTTACATCAATTG
1 TATTTACACCAATTG
21715593 TATTTACACCAATTG
1 TATTTACACCAATTG
21715608 TAT
1 TAT
21715611 ATTCGAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.45
Consensus pattern (15 bp):
TATTTACACCAATTG
Found at i:21721924 original size:42 final size:42
Alignment explanation
Indices: 21721786--21721924 Score: 161
Period size: 42 Copynumber: 3.3 Consensus size: 42
21721776 AACCCCATGG
** * * *
21721786 TGGTCTTACATGGGATCTCATATCGATGCCATATCTCAGATA
1 TGGTCTTACATGAAATCTCATATCAACGCCATATCCCAGATA
* * * * * * **
21721828 TGGTCTTATACGAATTCTCGTTTCAACGCCATGTCCCAGACG
1 TGGTCTTACATGAAATCTCATATCAACGCCATATCCCAGATA
21721870 TGGTCTTACATGAAATCTCATATCAACGCCATATCCCAGATA
1 TGGTCTTACATGAAATCTCATATCAACGCCATATCCCAGATA
21721912 TGGTCTTACATGA
1 TGGTCTTACATGA
21721925 TAAATCATAC
Statistics
Matches: 76, Mismatches: 21, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (42 bp):
TGGTCTTACATGAAATCTCATATCAACGCCATATCCCAGATA
Found at i:21728409 original size:40 final size:39
Alignment explanation
Indices: 21728244--21728427 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
21728234 AAATTGAATG
* * *
21728244 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
21728284 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
21728324 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
21728364 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
21728403 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
21728428 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:21728410 original size:80 final size:80
Alignment explanation
Indices: 21728288--21728436 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
21728278 GAAATTATAA
* * * *
21728288 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
21728353 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
21728368 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
21728432 GTGCG
65 GTGCG
21728437 GGTTACCATA
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:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:21728452 original size:80 final size:81
Alignment explanation
Indices: 21728284--21728455 Score: 179
Period size: 80 Copynumber: 2.1 Consensus size: 81
21728274 GCTGGAAATT
* * * *
21728284 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
21728349 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
21728365 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
21728428 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
21728444 ATAACCGGGCTA
1 ATAACCGGGCTA
21728456 TGTTCCGAAG
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
79 2 0.03
80 71 0.97
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:21730115 original size:48 final size:48
Alignment explanation
Indices: 21730060--21730233 Score: 163
Period size: 48 Copynumber: 3.6 Consensus size: 48
21730050 GTGAATTGTT
21730060 GATACCATGTTCCAAACATGGTCTTACACTGGCTCACATGT-CGA-GGCC
1 GATACCATGTTCCAAACATGGTCTTACACTGGCTCACAT-TAC-ATGGCC
* * * ** *
21730108 GATACCATGTCCCAGACATGGTCTTACACTAGCTCTTATTACATTGCC
1 GATACCATGTTCCAAACATGGTCTTACACTGGCTCACATTACATGGCC
* * * * ** *
21730156 GATGCCATGTTCCAAACATGGTCTTATACTGGCTCTCATAATGTGGTC
1 GATACCATGTTCCAAACATGGTCTTACACTGGCTCACATTACATGGCC
* * **
21730204 GATGCCATGTCCCGGACATGGTCTTACACT
1 GATACCATGTTCCAAACATGGTCTTACACT
21730234 AGCACATATA
Statistics
Matches: 103, Mismatches: 21, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
47 2 0.02
48 101 0.98
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (48 bp):
GATACCATGTTCCAAACATGGTCTTACACTGGCTCACATTACATGGCC
Found at i:21730623 original size:40 final size:40
Alignment explanation
Indices: 21730577--21730656 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
21730567 AGAGGAGGAA
21730577 GATGAGAGTTGATATATTTTTCTCCTTATTTTATTTTATT
1 GATGAGAGTTGATATATTTTTCTCCTTATTTTATTTTATT
*
21730617 GATGAGAGTTGATATCTTTTTCTCCTTATTTTATTTTATT
1 GATGAGAGTTGATATATTTTTCTCCTTATTTTATTTTATT
21730657 TCTAGTCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.21, C:0.09, G:0.12, T:0.57
Consensus pattern (40 bp):
GATGAGAGTTGATATATTTTTCTCCTTATTTTATTTTATT
Found at i:21734848 original size:13 final size:13
Alignment explanation
Indices: 21734830--21734856 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21734820 CAAAATAATA
21734830 TTAAAATAAATTT
1 TTAAAATAAATTT
21734843 TTAAAATAAATTT
1 TTAAAATAAATTT
21734856 T
1 T
21734857 ATGGCCTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAAAATAAATTT
Found at i:21740053 original size:46 final size:46
Alignment explanation
Indices: 21740003--21740178 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
21739993 TGGTTGAGCA
*
21740003 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
21740049 TCCGAACTCGTTGAGTTGAATCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
21740094 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
21740142 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21740179 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.58
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21740159 original size:93 final size:93
Alignment explanation
Indices: 21740000--21740170 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
21739990 GGATGGTTGA
* *
21740000 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21740065 TGAATCCGAGTTCGTGAAATGTAACTAG
66 TGAATCCGAGTTCGTGAAATGTAACTAG
* *
21740093 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
21740158 TGAGTCCGAGTTC
66 TGAATCCGAGTTC
21740171 ACTTATGGGC
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:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAATCCGAGTTCGTGAAATGTAACTAG
Found at i:21741467 original size:28 final size:28
Alignment explanation
Indices: 21741420--21741516 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
21741410 ATTTAAACCC
* *
21741420 TAGGGGT-ATATT-GGTAATTTTGGTATT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
21741447 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
21741475 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
21741503 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
21741517 TGATCTACGC
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
27 9 0.14
28 55 0.86
ACGTcount: A:0.21, C:0.07, G:0.27, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:21742167 original size:27 final size:27
Alignment explanation
Indices: 21742137--21742198 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
21742127 GGGCAAAATG
21742137 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
21742164 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
21742191 GTAATTTT
1 GTAATTTT
21742199 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:21742212 original size:54 final size:54
Alignment explanation
Indices: 21742154--21742304 Score: 160
Period size: 54 Copynumber: 2.8 Consensus size: 54
21742144 TACCCCACAA
** * * *
21742154 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** *
21742208 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
21742262 GGGTATTTTGGTGATTTTATAAACTAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
21742305 CTGTAAATTG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 2 0.02
54 83 0.98
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:21742270 original size:81 final size:81
Alignment explanation
Indices: 21742152--21742304 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 81
21742142 TTTACCCCAC
** *
21742152 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
21742216 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * * *
21742233 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACTAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
21742297 TGGTAATT
65 TGGTAATT
21742305 CTGTAAATTG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 2 0.03
81 60 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:21742311 original size:27 final size:27
Alignment explanation
Indices: 21742181--21742304 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
21742171 TACCCTACAG
* *
21742181 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
21742208 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
21742235 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
21742262 GGGTATTTTGGTGATTTTATAAACTAA
1 GGGTATTTTGGTAATTTTATAAACCAA
21742289 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
21742305 CTGTAAATTG
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 82 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:21742318 original size:27 final size:27
Alignment explanation
Indices: 21742181--21742320 Score: 120
Period size: 27 Copynumber: 5.2 Consensus size: 27
21742171 TACCCTACAG
* * * *
21742181 GGGTATTTTAGTAATT-TTTCAAACCAT
1 GGGTATTTTGGTAATTCTAT-AAACTAA
* *
21742208 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTCTATAAACTAA
* * * * *
21742235 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTCTATAAACTAA
* *
21742262 GGGTATTTTGGTGATTTTATAAACTAA
1 GGGTATTTTGGTAATTCTATAAACTAA
* * *
21742289 GGGTATTTTGGTAATTCTGTAAATTGA
1 GGGTATTTTGGTAATTCTATAAACTAA
21742316 GGGTA
1 GGGTA
21742321 AAACGATAAT
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
27 92 0.98
28 2 0.02
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTCTATAAACTAA
Found at i:21742320 original size:54 final size:54
Alignment explanation
Indices: 21742181--21742304 Score: 203
Period size: 54 Copynumber: 2.3 Consensus size: 54
21742171 TACCCTACAG
* *
21742181 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
21742235 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACTAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
21742289 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
21742305 CTGTAAATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:21742330 original size:27 final size:27
Alignment explanation
Indices: 21742300--21742393 Score: 127
Period size: 27 Copynumber: 3.5 Consensus size: 27
21742290 GGTATTTTGG
*
21742300 TAATTCTGTAAATT-GAGGGTAAAACGA
1 TAATTATGTAAATTAG-GGGTAAAACGA
* *
21742327 TAATTATGTAAATCAGGGGTAAAACGG
1 TAATTATGTAAATTAGGGGTAAAACGA
*
21742354 TAATTATGTAAATTAGGGGTAAAACAA
1 TAATTATGTAAATTAGGGGTAAAACGA
*
21742381 TAATTCTGTAAAT
1 TAATTATGTAAAT
21742394 CGGGGGTACT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (27 bp):
TAATTATGTAAATTAGGGGTAAAACGA
Found at i:21742347 original size:54 final size:54
Alignment explanation
Indices: 21742289--21742412 Score: 151
Period size: 54 Copynumber: 2.3 Consensus size: 54
21742279 TATAAACTAA
* * *
21742289 GGGTATTTTGGTAATTCTGTAAATT-GAGGGTAAAACGATAATTATGTAAATCAG
1 GGGTAATTTGGTAATTATGTAAATTAG-GGGTAAAACAATAATTATGTAAATCAG
*** * *
21742343 GGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACAATAATTCTGTAAATCGG
1 GGGTAATTTGGTAATTATGTAAATTAGGGGTAAAACAATAATTATGTAAATCAG
*
21742397 GGGTACTTTGGTAATT
1 GGGTAATTTGGTAATT
21742413 TTACAAGTCG
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 56 0.98
55 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.33
Consensus pattern (54 bp):
GGGTAATTTGGTAATTATGTAAATTAGGGGTAAAACAATAATTATGTAAATCAG
Found at i:21742428 original size:27 final size:27
Alignment explanation
Indices: 21742398--21742464 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
21742388 GTAAATCGGG
* *
21742398 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCGGTAAATTTACAAATCGAA
*
21742425 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCGGTAAATTTACAAATCGAA
*
21742452 GGTATTTCAGTAA
1 GGTATTTCGGTAA
21742465 TTGGTAAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 3 0.09
27 32 0.91
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.36
Consensus pattern (27 bp):
GGTATTTCGGTAAATTTACAAATCGAA
Found at i:21753528 original size:38 final size:39
Alignment explanation
Indices: 21753431--21753592 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
21753421 TATGGTAACC
* *
21753431 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
21753471 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
21753510 CGCAC-ATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
21753548 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
21753587 CGCACA
1 CGCACA
21753593 TTCATACACA
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 36 0.32
39 61 0.54
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:21753590 original size:77 final size:78
Alignment explanation
Indices: 21753439--21753594 Score: 269
Period size: 77 Copynumber: 2.0 Consensus size: 78
21753429 CCCGCACAAA
21753439 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
* *
21753504 ATAGCTCGCACAT
66 ACAACTCGCACAT
*
21753517 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
*
21753581 ACAATTCGCACAT
66 ACAACTCGCACAT
21753594 T
1 T
21753595 CATACACATC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 64 0.86
78 10 0.14
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (78 bp):
TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
ACAACTCGCACAT
Found at i:21756668 original size:78 final size:79
Alignment explanation
Indices: 21756526--21756748 Score: 265
Period size: 78 Copynumber: 2.8 Consensus size: 79
21756516 TCGAATGATG
* * * * * * *
21756526 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCTGGACTAAGATCTGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGC-GAGTTACTATAACCGGGCTAAG-TCCGAAGGCATT
*
21756590 TGTGCGAGTTACT-AA
64 TGTGCGAGTCACTAAA
* *
21756605 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-CCGGGCTAAGT-CCGAAGGCATT
21756668 TGTGCGAGTCACTAAA
64 TGTGCGAGTCACTAAA
* * *
21756684 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCGAAGGCATTTG
21756749 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
77 2 0.02
78 45 0.37
79 40 0.33
80 34 0.28
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCGAAGGCATTTG
TGCGAGTCACTAAA
Found at i:21756755 original size:39 final size:40
Alignment explanation
Indices: 21756526--21756748 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
21756516 TCGAATGATG
* * *
21756526 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
21756566 TCTGGACTAAGAT-CTGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
21756605 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
21756644 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21756684 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
21756725 -CCGGGCTATGT-CCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21756749 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
38 22 0.14
39 33 0.21
40 94 0.59
41 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21756770 original size:118 final size:118
Alignment explanation
Indices: 21756526--21756781 Score: 286
Period size: 118 Copynumber: 2.2 Consensus size: 118
21756516 TCGAATGATG
* * * * *
21756526 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCTGGACTAAGATCTGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT
** **
21756591 GTGCGAGTTACTAATTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGTTACTAAACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* **
21756644 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTCACTAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
21756707 TTGTGCGAGTTACTATAACCGGGCTATGTCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGTTACTA-AACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
21756763 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
21756782 TACGTGATTC
Statistics
Matches: 116, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
117 1 0.01
118 76 0.66
119 39 0.34
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (118 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:21756778 original size:39 final size:40
Alignment explanation
Indices: 21756581--21756781 Score: 216
Period size: 40 Copynumber: 5.1 Consensus size: 40
21756571 ACTAAGATCT
* * *
21756581 GAAGGCATTTGTGCGAGTTACT-AATTCGGGCT-AAGCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATCCC
* *
21756619 GAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATCCC
* *
21756659 GAAGGCATTTGTGCGAGTCACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATCCC
* **
21756699 GAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGT-CC
1 GAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAATCCC
** * *
21756738 GAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCC
1 GAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAATCCC
21756777 GAAGG
1 GAAGG
21756782 TACGTGATTC
Statistics
Matches: 141, Mismatches: 16, Indels: 11
0.84 0.10 0.07
Matches are distributed among these distances:
38 29 0.21
39 37 0.26
40 73 0.52
41 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATCCC
Found at i:21765416 original size:27 final size:27
Alignment explanation
Indices: 21765386--21765440 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
21765376 GATGAAAGTA
21765386 TGTGGCCACCGGTATCGAGCGTTCCAT
1 TGTGGCCACCGGTATCGAGCGTTCCAT
21765413 TGTGGCCACCGGTATCGAGCGTTCCAT
1 TGTGGCCACCGGTATCGAGCGTTCCAT
21765440 T
1 T
21765441 AAAGTTGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.15, C:0.29, G:0.29, T:0.27
Consensus pattern (27 bp):
TGTGGCCACCGGTATCGAGCGTTCCAT
Found at i:21766448 original size:11 final size:11
Alignment explanation
Indices: 21766434--21766459 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21766424 TAAGTGGGAA
21766434 TTGAGAGAAAT
1 TTGAGAGAAAT
21766445 TTGAGAGAAAT
1 TTGAGAGAAAT
21766456 TTGA
1 TTGA
21766460 AAATATGTAA
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:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (11 bp):
TTGAGAGAAAT
Found at i:21767861 original size:46 final size:46
Alignment explanation
Indices: 21767761--21767884 Score: 214
Period size: 46 Copynumber: 2.7 Consensus size: 46
21767751 GGTTGAGCAT
* *
21767761 CCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
21767806 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
21767852 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
21767885 GGGGCGGGTT
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
45 30 0.40
46 45 0.60
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:21773029 original size:37 final size:37
Alignment explanation
Indices: 21772986--21773130 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
21772976 GCTCGGACGT
* *
21772986 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
21773023 AATCTCCACACGTAGTCATCGGGTCTTACCCGGAAAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
21773060 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
21773097 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
21773131 ATATATTTCC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:21773345 original size:47 final size:47
Alignment explanation
Indices: 21773293--21773500 Score: 308
Period size: 47 Copynumber: 4.4 Consensus size: 47
21773283 TTTCACACTA
* * ** * *
21773293 GCCATTCGGCTTTACCACATATATGCATTTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
21773340 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
21773387 GCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
21773434 GCCATTCGACCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
21773481 GCCATTCGGCCTTATCACAT
1 GCCATTCGGCCTTATCACAT
21773501 GTAACACCCC
Statistics
Matches: 145, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 145 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
Found at i:21773479 original size:25 final size:25
Alignment explanation
Indices: 21773400--21773479 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
21773390 ATTCGGCCTT
* *
21773400 ATCACATATATGCATGCTCACATTT
1 ATCACATATATGCATGTTCACATTC
* *
21773425 ATCACAT-T-GGCCA--TTCGAC-CTC
1 ATCACATATATG-CATGTTC-ACATTC
21773447 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCACATTC
21773472 ATCACATA
1 ATCACATA
21773480 GGCCATTCGG
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
22 10 0.24
23 6 0.14
24 6 0.14
25 20 0.48
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.33
Consensus pattern (25 bp):
ATCACATATATGCATGTTCACATTC
Found at i:21775082 original size:40 final size:39
Alignment explanation
Indices: 21774897--21775083 Score: 146
Period size: 40 Copynumber: 4.7 Consensus size: 39
21774887 GCTACACATT
* *
21774897 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * * *
21774937 CGAATGCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCT
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
21774977 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
** * * ** * *
21775017 TGTATGCCGTC-GGATCTTATTCCGGATTTAGTCACTTAGCA
1 -CAAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
21775058 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
21775084 ATCATTCGAA
Statistics
Matches: 117, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
39 3 0.03
40 103 0.88
41 11 0.09
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:21776744 original size:47 final size:47
Alignment explanation
Indices: 21776675--21777269 Score: 911
Period size: 47 Copynumber: 12.7 Consensus size: 47
21776665 CTGTCACAAC
* * *
21776675 TCACATATATGCATGCTCACATTTATCACATTGGCCATTCGGCCTCA
1 TCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
*
21776722 TCACATATATGCATGTTCACATTCATCACATAGGCCATTCGGCCTTA
1 TCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
* * *
21776769 TCACATATATGCATGCTCACATTTATCACATTGGCCATTCGGCCTCA
1 TCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
21776816 TCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
* * *
21776863 TCACATATATGCATGCTCACATTTATCACATTGGCCATTCGGCCTCA
1 TCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
* *
21776910 TCACATATATGCACGTTCACATTCATCACATAGGCCATTCGGCCTTA
1 TCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
* * * *
21776957 TCACATATATGCATGCTCACATTTATCACATTGGCCATTCAGCCTCA
1 TCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
21777004 TCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
* * * *
21777051 TCACATATATACATGTTTATATTCACCACATTGGCCATTCGGCCTTA
1 TCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
* * * *
21777098 TCACACATATGCATGCTCACAATCATCACATTGGCCATTCAGCCTTA
1 TCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
*
21777145 TCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
* * *
21777192 TCACACATATGCATGCTCACAATCATCACATTGGCCATTCGGCCTTA
1 TCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
* **
21777239 TCACATATATACACATTCACATTCATCACAT
1 TCACATATATGCATGTTCACATTCATCACAT
21777270 AAAATCCTAA
Statistics
Matches: 492, Mismatches: 56, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 492 1.00
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (47 bp):
TCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
Found at i:21776963 original size:22 final size:22
Alignment explanation
Indices: 21776885--21776963 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
21776875 ATGCTCACAT
*
21776885 TTATCACATTGGCCATTCGGCC
1 TTATCACATAGGCCATTCGGCC
* * * * *
21776907 TCATCACATATATGCACGTTC-ACA
1 TTATCAC--ATAGGC-CATTCGGCC
21776931 TTCATCACATAGGCCATTCGGCC
1 TT-ATCACATAGGCCATTCGGCC
21776954 TTATCACATA
1 TTATCACATA
21776964 TATGCATGCT
Statistics
Matches: 41, Mismatches: 11, Indels: 10
0.66 0.18 0.16
Matches are distributed among these distances:
22 18 0.44
23 8 0.20
24 6 0.15
25 9 0.22
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (22 bp):
TTATCACATAGGCCATTCGGCC
Found at i:21777150 original size:22 final size:22
Alignment explanation
Indices: 21777122--21777196 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
21777112 GCTCACAATC
21777122 ATCACATTGGCCATTCAGCCTT
1 ATCACATTGGCCATTCAGCCTT
*** *
21777144 ATCACATATATACATGTTCA-CATT
1 ATCACAT-TGGCCA--TTCAGCCTT
*
21777168 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCAGCCTT
21777191 ATCACA
1 ATCACA
21777197 CATATGCATG
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
22 16 0.41
23 6 0.15
24 6 0.15
25 11 0.28
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:21777241 original size:25 final size:25
Alignment explanation
Indices: 21777167--21777241 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 25
21777157 ATGTTCACAT
21777167 TCATCACATTGGCCATTCGGCCTTA
1 TCATCACATTGGCCATTCGGCCTTA
* * *
21777192 TCA-CACATAT-G-CATGC-TCAC-AA
1 TCATCACAT-TGGCCATTCGGC-CTTA
21777214 TCATCACATTGGCCATTCGGCCTTA
1 TCATCACATTGGCCATTCGGCCTTA
21777239 TCA
1 TCA
21777242 CATATATACA
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 6 0.16
23 11 0.30
24 11 0.30
25 9 0.24
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.29
Consensus pattern (25 bp):
TCATCACATTGGCCATTCGGCCTTA
Found at i:21783204 original size:47 final size:46
Alignment explanation
Indices: 21783071--21783259 Score: 198
Period size: 46 Copynumber: 4.1 Consensus size: 46
21783061 AAGTGACATG
21783071 TCACTAGGATGGTTG-A-GCATCCGAACTCGTTGAGTTGAGTCCGAGT
1 TCACTAGGAT-G-TGAATGCATCCGAACTCGTTGAGTTGAGTCCGAGT
21783117 TCACTATGGATGTGAATG--TCCGAACTCGTTGAGTTGAGTCCGAGT
1 TCACTA-GGATGTGAATGCATCCGAACTCGTTGAGTTGAGTCCGAGT
*
21783162 TC-GT-GAGATGT-AACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGT
1 TCACTAG-GATGTGAA-T--GCATCCGAACTCGTTGAGTTGAGTCCGAGT
* * *
21783209 TCACTTATGGATGCGAACGC--CCGAGCTCGTTGAGTTGAGTCCGAGT
1 TCAC-TA-GGATGTGAATGCATCCGAACTCGTTGAGTTGAGTCCGAGT
21783255 TCACT
1 TCACT
21783260 TAGGGGCGGG
Statistics
Matches: 124, Mismatches: 5, Indels: 29
0.78 0.03 0.18
Matches are distributed among these distances:
42 3 0.02
43 6 0.05
44 1 0.01
45 33 0.27
46 37 0.30
47 34 0.27
48 2 0.02
49 1 0.01
50 4 0.03
51 3 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCACTAGGATGTGAATGCATCCGAACTCGTTGAGTTGAGTCCGAGT
Found at i:21790998 original size:22 final size:21
Alignment explanation
Indices: 21790944--21790999 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
21790934 TACAATATTA
21790944 ATTTTTTTTTATATATTATAGG
1 ATTTTTTTTTATATATTATA-G
* * * *
21790966 CTTCTTATTTATATATTATAT
1 ATTTTTTTTTATATATTATAG
21790987 ATTTTTTGTTTAT
1 ATTTTTT-TTTAT
21791000 GTTTGTTACG
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.66
Consensus pattern (21 bp):
ATTTTTTTTTATATATTATAG
Found at i:21792185 original size:46 final size:46
Alignment explanation
Indices: 21792112--21792379 Score: 424
Period size: 46 Copynumber: 6.0 Consensus size: 46
21792102 TATATATACA
* * *
21792112 CATCTCATACA-ATCTCACATTAGCCATTCGGCTTTACCACATATC
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATC
21792157 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATC
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATC
*
21792203 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTC--AT-
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATC
*
21792246 -ATC-CATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATC
*
21792290 CATCTCATACACGTTT-GCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATC
*
21792335 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATAT
21792380 ATACACTTCC
Statistics
Matches: 210, Mismatches: 6, Indels: 13
0.92 0.03 0.06
Matches are distributed among these distances:
41 36 0.17
42 3 0.01
43 2 0.01
44 2 0.01
45 58 0.28
46 109 0.52
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.34
Consensus pattern (46 bp):
CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:21792354 original size:132 final size:133
Alignment explanation
Indices: 21792129--21792379 Score: 459
Period size: 132 Copynumber: 1.9 Consensus size: 133
21792119 TACAATCTCA
21792129 CATTAGCCATTCGGCTTTACCACATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCTTTA
1 CATTAGCCATTCGGCTTTACCACATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCTTTA
* *
21792194 CCACATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATCCATACACGTT
66 CCACATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATCCATACACGTT
21792259 TCG
131 TCG
*
21792262 CATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACGTTT-GCATTAGCCATTCGGCTTTA
1 CATTAGCCATTCGGCTTTACCACATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCTTTA
*
21792326 CCTCATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
66 CCACATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
21792380 ATACACTTCC
Statistics
Matches: 114, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
132 71 0.62
133 43 0.38
ACGTcount: A:0.24, C:0.32, G:0.11, T:0.34
Consensus pattern (133 bp):
CATTAGCCATTCGGCTTTACCACATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCTTTA
CCACATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATCCATACACGTT
TCG
Found at i:21792424 original size:47 final size:47
Alignment explanation
Indices: 21792353--21792682 Score: 495
Period size: 47 Copynumber: 7.1 Consensus size: 47
21792343 ACACATTTCG
* * * * * *
21792353 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
21792400 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
21792447 CATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
21792494 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
21792541 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
21792588 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATT-ATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * *
21792634 CATTTGCCATTCGGCCTTATCTCATATATACA-CTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
21792680 CAT
1 CAT
21792683 AAAATCCTAA
Statistics
Matches: 265, Mismatches: 16, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
45 8 0.03
46 42 0.16
47 215 0.81
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:21792471 original size:22 final size:22
Alignment explanation
Indices: 21792443--21792564 Score: 72
Period size: 22 Copynumber: 5.3 Consensus size: 22
21792433 GTTCACATTC
21792443 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * * *
21792465 ATCACATATATGCATATTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
21792489 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* *
21792512 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
21792536 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
21792559 ATCACA
1 ATCACA
21792565 CATATGCATG
Statistics
Matches: 74, Mismatches: 12, Indels: 28
0.65 0.11 0.25
Matches are distributed among these distances:
22 23 0.31
23 17 0.23
24 17 0.23
25 17 0.23
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:21792590 original size:23 final size:23
Alignment explanation
Indices: 21792516--21792590 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
21792506 GGCCTTATCA
21792516 CACATATGCATGTTCACATTCAT
1 CACATATGCATGTTCACATTCAT
* *
21792539 CACAT-TGGCCA--TTCGGCCTT-AT
1 CACATAT-G-CATGTTC-ACATTCAT
21792561 CACACATATGCATGTTCACATTCAT
1 --CACATATGCATGTTCACATTCAT
21792586 CACAT
1 CACAT
21792591 TGGCCATTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 6 0.15
23 16 0.41
24 11 0.28
25 6 0.15
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (23 bp):
CACATATGCATGTTCACATTCAT
Found at i:21797160 original size:39 final size:40
Alignment explanation
Indices: 21796947--21797177 Score: 313
Period size: 40 Copynumber: 5.8 Consensus size: 40
21796937 GGATATAACT
* * *
21796947 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
21796987 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
21797027 ACTCGCACAAATGCCTTCGGGACTTAGCTCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
21797067 ATTCGCACAAATGCCTTTGGGACTTAGCCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
21797107 ACTCTCACAAATGCCTTCGGGACTTAGCCCGGA-TTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** *
21797146 ACTAGTGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
21797178 TTATCATCCA
Statistics
Matches: 170, Mismatches: 20, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 32 0.19
40 136 0.80
41 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:21800092 original size:40 final size:40
Alignment explanation
Indices: 21800037--21800366 Score: 563
Period size: 40 Copynumber: 8.3 Consensus size: 40
21800027 CTTTTAGGAA
* *
21800037 CCCGGATATATCACTAGCACGAATTCTCTTCGGAACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAG
* * *
21800077 CCCGGATATATCACTAGAACGAATGCTCTTTGGAACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAG
**
21800117 CCCGGATATATCACTAGCACGAATGCTCTTCGAAACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAG
21800157 CCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAG
*
21800197 CCCGGATACATCACTAGCACG-ATGCTCTTCGGGACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAG
*
21800236 CCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAG
*
21800276 ACCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAG
21800316 CCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAG
21800356 CCCGGATATAT
1 CCCGGATATAT
21800367 ATAACTCTCA
Statistics
Matches: 277, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 39 0.14
40 238 0.86
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAG
Found at i:21800275 original size:159 final size:160
Alignment explanation
Indices: 21799998--21800363 Score: 582
Period size: 159 Copynumber: 2.3 Consensus size: 160
21799988 CTTTCGAGGT
** *
21799998 TTAGCCCGGATATATCACTAGCACGAATGCT-TTTAGGA---A-CCCGGATATATCACTAGCACG
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACG
* * * *
21800058 AATTCTCTTCGGAACTTAGCCCGGATATATCACTAGAACGAATGCTCTTTGGAACTTAGCCCGGA
66 AATGCTCTTCGGAACTTAGCCCGGATACATCACTAGAACGAATGCTCTTCGGAACTTAGACCGGA
21800123 TATATCACTAGCACGAATGCTCTTCGAAAC
131 TATATCACTAGCACGAATGCTCTTCGAAAC
21800153 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACG
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACG
* * *
21800218 -ATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGACCGGA
66 AATGCTCTTCGGAACTTAGCCCGGATACATCACTAGAACGAATGCTCTTCGGAACTTAGACCGGA
**
21800282 TATATCACTAGCACGAATGCTCTTCGGGAC
131 TATATCACTAGCACGAATGCTCTTCGAAAC
21800312 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
21800364 TATATAACTC
Statistics
Matches: 194, Mismatches: 12, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
155 31 0.16
156 5 0.03
159 138 0.71
160 20 0.10
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (160 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACG
AATGCTCTTCGGAACTTAGCCCGGATACATCACTAGAACGAATGCTCTTCGGAACTTAGACCGGA
TATATCACTAGCACGAATGCTCTTCGAAAC
Found at i:21801925 original size:46 final size:46
Alignment explanation
Indices: 21801857--21802035 Score: 288
Period size: 46 Copynumber: 3.9 Consensus size: 46
21801847 TATATATACA
* * * *
21801857 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
*
21801903 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
21801949 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
21801995 CATCTCATACACATTT-GCATTAGCCATTCGGCTTTACCACA
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACA
21802036 GATATACACT
Statistics
Matches: 125, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
45 24 0.19
46 101 0.81
ACGTcount: A:0.25, C:0.32, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:21802068 original size:92 final size:91
Alignment explanation
Indices: 21801872--21802085 Score: 281
Period size: 92 Copynumber: 2.3 Consensus size: 91
21801862 CATACATATC
*
21801872 TCACATTAGCCATTTGGCTTTACCACATATCCATCTCATACACATTTCGCATTAGCCATTCGGCT
1 TCACATTAGCCATTCGGCTTTACCACATATCCATCTCATACACATTTCGCATTAGCCATTCGGCT
* *
21801937 TTACCTCATATCCATCTCATACACGTT
66 TTACCACATATACATCT-ATACACGTT
* *
21801964 TCGCATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACATTT-GCATTAGCCATTCGGCT
1 TCACATTAGCCATTCGGCTTTACCACATATCCATCTCATACACATTTCGCATTAGCCATTCGGCT
*
21802028 TTACCACAGATATACA-CT-TCCACGTT
66 TTACCAC--ATATACATCTATACACGTT
* * *
21802054 CATCACATTGGCCATTCGGCCTTATCACATAT
1 --TCACATTAGCCATTCGGCTTTACCACATAT
21802086 ATGCATGTTC
Statistics
Matches: 107, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
90 7 0.07
91 23 0.21
92 71 0.66
93 6 0.06
ACGTcount: A:0.25, C:0.31, G:0.10, T:0.34
Consensus pattern (91 bp):
TCACATTAGCCATTCGGCTTTACCACATATCCATCTCATACACATTTCGCATTAGCCATTCGGCT
TTACCACATATACATCTATACACGTT
Found at i:21802080 original size:22 final size:22
Alignment explanation
Indices: 21802055--21802129 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
21802045 TTCCACGTTC
21802055 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
21802077 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
21802101 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
21802124 ATCACA
1 ATCACA
21802130 CATATGCATG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 16 0.40
23 7 0.17
24 7 0.17
25 10 0.25
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:21802103 original size:47 final size:47
Alignment explanation
Indices: 21802012--21802389 Score: 589
Period size: 47 Copynumber: 8.1 Consensus size: 47
21802002 TACACATTTG
* * * * * * *
21802012 CATTAGCCATTCGGCTTTACCACAGATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
21802059 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
21802106 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
21802153 CATTGGCCATT-GGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
21802199 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
21802246 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
21802293 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * **
21802340 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
21802387 CAT
1 CAT
21802390 AAAATCCTAA
Statistics
Matches: 315, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
46 47 0.15
47 268 0.85
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:21802222 original size:22 final size:22
Alignment explanation
Indices: 21802195--21802313 Score: 59
Period size: 22 Copynumber: 5.1 Consensus size: 22
21802185 GTTCACATTC
21802195 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
21802217 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
21802241 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
21802264 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
21802288 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
21802311 ATC
1 ATC
21802314 TCATATATGC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 19 0.27
23 18 0.25
24 18 0.25
25 16 0.23
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:21802257 original size:187 final size:188
Alignment explanation
Indices: 21802012--21802389 Score: 598
Period size: 187 Copynumber: 2.0 Consensus size: 188
21802002 TACACATTTG
* * *
21802012 CATTAGCCATTCGGCTTTACCACAGATATACACTTCCACGTTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATATACACTTCCACATTCATCACATTGGCCATTCGGCCTT
21802077 ATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTT
66 ATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTT
* **
21802142 CACATTCATCACATTGGCCATT-GGCCTTATCACACATATGCATGTTCACATTCATCA
131 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCA
* * * *
21802199 CATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCT
1 CATTAGCCATTCGGCCTTACCACACATATACACT-TCCACATTCATCACATTGGCCATTCGGCCT
* *
21802263 TATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGT
65 TATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGT
* * *
21802328 TCACATTCATCACATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
130 TCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCA
21802387 CAT
1 CAT
21802390 AAAATCCTAA
Statistics
Matches: 174, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
186 1 0.01
187 140 0.80
188 33 0.19
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (188 bp):
CATTAGCCATTCGGCCTTACCACACATATACACTTCCACATTCATCACATTGGCCATTCGGCCTT
ATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTT
CACATTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCA
Found at i:21802421 original size:141 final size:137
Alignment explanation
Indices: 21802052--21802410 Score: 409
Period size: 140 Copynumber: 2.6 Consensus size: 137
21802042 CACTTCCACG
* * ** ** *
21802052 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCACATT-GAAAAT
* * *
21802117 CGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTGGCCTTATCACACATATG
65 --GCCTAATCAAATATATGCATGTTCACATTCATCACATTGGCCATTGGCCTTATCACACATATG
21802182 CATGTTCACA
128 CATGTTCACA
* ** ** *
21802192 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCACATT-GAAAAT
* * * *
21802257 CGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATAT
65 --GCCTAATCAAATATATGCATGTTCACATTCATCACATTGGCCATT-GGCCTTATCACACATAT
21802322 GCATGTTCACA
127 GCATGTTCACA
* * *
21802333 TTCATCACATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACA-T-AAAAT-
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCACATTGAAAATG
21802395 CCTAAATCAAAATATA
66 CCT-AATC-AAATATA
21802411 AATTTTCATG
Statistics
Matches: 201, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
135 3 0.01
136 3 0.01
137 6 0.03
138 2 0.01
140 111 0.55
141 76 0.38
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (137 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACATATACACATTCACATTCATCACATTGAAAATG
CCTAATCAAATATATGCATGTTCACATTCATCACATTGGCCATTGGCCTTATCACACATATGCAT
GTTCACA
Found at i:21805140 original size:28 final size:29
Alignment explanation
Indices: 21805072--21805146 Score: 102
Period size: 28 Copynumber: 2.7 Consensus size: 29
21805062 AACTTATTCA
*
21805072 TTTGTATCTAGTTGGT-C-TCTAAAATTT
1 TTTGTACCTAGTTGGTCCTTCTAAAATTT
* *
21805099 GTTGTACCTAGTTGGTCCTTC-AAATTTT
1 TTTGTACCTAGTTGGTCCTTCTAAAATTT
21805127 TTTGTACCTAGTTGGTCCTT
1 TTTGTACCTAGTTGGTCCTT
21805147 GAACTTTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 14 0.33
28 26 0.62
29 2 0.05
ACGTcount: A:0.17, C:0.16, G:0.17, T:0.49
Consensus pattern (29 bp):
TTTGTACCTAGTTGGTCCTTCTAAAATTT
Found at i:21806103 original size:29 final size:29
Alignment explanation
Indices: 21806064--21806119 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
21806054 TTTTTCATAT
*
21806064 TCATTTAATTTACTCTTGAAATATATTAG
1 TCATTTAATTTACTCTTCAAATATATTAG
* *
21806093 TCATTTGATTTACTCTTCAAATCTATT
1 TCATTTAATTTACTCTTCAAATATATT
21806120 CAAATCTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.50
Consensus pattern (29 bp):
TCATTTAATTTACTCTTCAAATATATTAG
Found at i:21808032 original size:29 final size:29
Alignment explanation
Indices: 21807968--21808033 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
21807958 TCAAAAAATA
* *
21807968 TTAATTTTTTAAATATTTATCAGGTTAGG
1 TTAATTTTTTAAATATTTATCAGATTAAG
* * *
21807997 TT-GTTTTTTAAATATTTGTGAGATTAAG
1 TTAATTTTTTAAATATTTATCAGATTAAG
21808025 TTAATTTTT
1 TTAATTTTT
21808034 GAAAATACAC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 23 0.77
29 7 0.23
ACGTcount: A:0.29, C:0.02, G:0.14, T:0.56
Consensus pattern (29 bp):
TTAATTTTTTAAATATTTATCAGATTAAG
Found at i:21808210 original size:38 final size:39
Alignment explanation
Indices: 21808159--21808235 Score: 129
Period size: 38 Copynumber: 2.0 Consensus size: 39
21808149 CAGTGGTTAA
21808159 AAAAAAAACTATTACAAAATTTTC-TTTTTTTTTAATTT
1 AAAAAAAACTATTACAAAATTTTCTTTTTTTTTTAATTT
* *
21808197 AAAAAAAATTATTACGAAATTTTCTTTTTTTTTTAATTT
1 AAAAAAAACTATTACAAAATTTTCTTTTTTTTTTAATTT
21808236 TCTCTCAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 22 0.61
39 14 0.39
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.52
Consensus pattern (39 bp):
AAAAAAAACTATTACAAAATTTTCTTTTTTTTTTAATTT
Found at i:21808266 original size:25 final size:27
Alignment explanation
Indices: 21808218--21808299 Score: 143
Period size: 27 Copynumber: 3.1 Consensus size: 27
21808208 TTACGAAATT
21808218 TTCT-TTTTTTTTTAATTTTCTCTCAA
1 TTCTATTTTTTTTTAATTTTCTCTCAA
21808244 TTCTATTTTTTTTTAATTTTCTCTCAA
1 TTCTATTTTTTTTTAATTTTCTCTCAA
21808271 TTCTA--TTTTTTTAATTTTCTCTCAA
1 TTCTATTTTTTTTTAATTTTCTCTCAA
21808296 TTCT
1 TTCT
21808300 CTCAATTTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
25 24 0.44
26 4 0.07
27 27 0.49
ACGTcount: A:0.17, C:0.16, G:0.00, T:0.67
Consensus pattern (27 bp):
TTCTATTTTTTTTTAATTTTCTCTCAA
Found at i:21808318 original size:21 final size:21
Alignment explanation
Indices: 21808294--21808334 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21808284 ATTTTCTCTC
*
21808294 AATTCTCTCAATTTTTATTAA
1 AATTCTCTCAAGTTTTATTAA
* *
21808315 AATTGTCTTAAGTTTTATTA
1 AATTCTCTCAAGTTTTATTA
21808335 TTATTTAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.54
Consensus pattern (21 bp):
AATTCTCTCAAGTTTTATTAA
Found at i:21811636 original size:40 final size:39
Alignment explanation
Indices: 21811591--21811720 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
21811581 CGGAATACAA
21811591 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
21811631 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
21811671 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
21811711 CCGGATATAA
1 CCGGATATAA
21811721 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:21815502 original size:29 final size:29
Alignment explanation
Indices: 21815469--21815628 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
21815459 GTGACGAGAT
21815469 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
21815498 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
21815527 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
21815556 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
21815585 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
21815614 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
21815629 GAAATGGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:21822940 original size:40 final size:39
Alignment explanation
Indices: 21822895--21823024 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
21822885 CGGAATACAA
21822895 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
21822935 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
21822975 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
21823015 CCGGATATAA
1 CCGGATATAA
21823025 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:21827484 original size:19 final size:19
Alignment explanation
Indices: 21827460--21827501 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
21827450 CATCTGTTTA
*
21827460 AACAATACTTCATCCATAT
1 AACAATAATTCATCCATAT
*
21827479 AACAATAATTCATCCGTAT
1 AACAATAATTCATCCATAT
21827498 AACA
1 AACA
21827502 CATAGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.29
Consensus pattern (19 bp):
AACAATAATTCATCCATAT
Found at i:21830930 original size:48 final size:48
Alignment explanation
Indices: 21830859--21830951 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
21830849 AATTCTTCTA
21830859 GAAATAAATCTGAAAACTCACAAACAATAGGTACAGATTCAATCTATG
1 GAAATAAATCTGAAAACTCACAAACAATAGGTACAGATTCAATCTATG
*
21830907 GAAATACATCTGAAAACTCACAAACAATAGGTACAGATTCAATCT
1 GAAATAAATCTGAAAACTCACAAACAATAGGTACAGATTCAATCT
21830952 TTGATTCAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (48 bp):
GAAATAAATCTGAAAACTCACAAACAATAGGTACAGATTCAATCTATG
Found at i:21831960 original size:17 final size:19
Alignment explanation
Indices: 21831931--21831966 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
21831921 TTTCTTTTCT
21831931 CTTTGCTAAGCTCT-TCAA
1 CTTTGCTAAGCTCTGTCAA
21831949 CTTTGC-AAGCTCTGTCAA
1 CTTTGCTAAGCTCTGTCAA
21831967 ATAGAATGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (19 bp):
CTTTGCTAAGCTCTGTCAA
Found at i:21839372 original size:28 final size:29
Alignment explanation
Indices: 21839253--21839378 Score: 152
Period size: 29 Copynumber: 4.4 Consensus size: 29
21839243 ATTTGGATTG
21839253 GATGGGCCATATAAATGAGATTGGGCCTA
1 GATGGGCCATATAAATGAGATTGGGCCTA
* *
21839282 -ATGGGCCATATGAATGTAAATTGGGCCT-
1 GATGGGCCATATAAATG-AGATTGGGCCTA
* * * *
21839310 GATTGGCCATATGAATGCGAATTGGGCC-G
1 GATGGGCCATATAAATGAG-ATTGGGCCTA
21839339 GATGGGCCATATAAATGAGATTGGGCCTA
1 GATGGGCCATATAAATGAGATTGGGCCTA
21839368 G-TGGGCCATAT
1 GATGGGCCATAT
21839379 GCATGTATGT
Statistics
Matches: 83, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
28 33 0.40
29 50 0.60
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (29 bp):
GATGGGCCATATAAATGAGATTGGGCCTA
Found at i:21841791 original size:21 final size:20
Alignment explanation
Indices: 21841765--21841811 Score: 71
Period size: 18 Copynumber: 2.4 Consensus size: 20
21841755 GTCGTGGGCC
21841765 AAGGTGGTGCTCAGCCACCA
1 AAGGTGGTGCTCAGCCACCA
21841785 AA-G-GGTGCTCAGCCACCAA
1 AAGGTGGTGCTCAGCCACC-A
21841804 AAGGTGGT
1 AAGGTGGT
21841812 CAGCTGCCGC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 14 0.58
19 4 0.17
20 3 0.12
21 3 0.12
ACGTcount: A:0.28, C:0.26, G:0.32, T:0.15
Consensus pattern (20 bp):
AAGGTGGTGCTCAGCCACCA
Found at i:21841793 original size:18 final size:18
Alignment explanation
Indices: 21841770--21841815 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
21841760 GGGCCAAGGT
*
21841770 GGTGCTCAGCCACCAAAG
1 GGTGCTCAGCCACCAAAA
21841788 GGTGCTCAGCCACCAAAA
1 GGTGCTCAGCCACCAAAA
*
21841806 GGTGGTCAGC
1 GGTGCTCAGC
21841816 TGCCGCTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.26, C:0.30, G:0.30, T:0.13
Consensus pattern (18 bp):
GGTGCTCAGCCACCAAAA
Found at i:21846255 original size:28 final size:30
Alignment explanation
Indices: 21846128--21846262 Score: 149
Period size: 29 Copynumber: 4.7 Consensus size: 30
21846118 ATGATGTGAT
*
21846128 TTGGGCC-GGATGGGCCATATAAATGAG-A
1 TTGGGCCTAGATGGGCCATATAAATGAGAA
* *
21846156 TTGGGCTTA-ATGGGCCATATAAATGTGAA
1 TTGGGCCTAGATGGGCCATATAAATGAGAA
* * *
21846185 TTGGG-CTTGATGGGCCATATGAATGCGAA
1 TTGGGCCTAGATGGGCCATATAAATGAGAA
*
21846214 TTGGGCC-GGATGGGCCATATAAATGAG-A
1 TTGGGCCTAGATGGGCCATATAAATGAGAA
*
21846242 TTGGACCTAG-TGGGCCATATA
1 TTGGGCCTAGATGGGCCATATA
21846263 CATGTATGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
28 42 0.47
29 47 0.52
30 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.33, T:0.26
Consensus pattern (30 bp):
TTGGGCCTAGATGGGCCATATAAATGAGAA
Found at i:21849914 original size:50 final size:50
Alignment explanation
Indices: 21849810--21849950 Score: 160
Period size: 50 Copynumber: 2.8 Consensus size: 50
21849800 CATTTGGCCT
* * * *
21849810 AATATATAAGATCAAATATAATATCACACATATGCATACCTATGTGTTCA
1 AATATACAAGATCAAATATAATATCACATATGTGCATACCTATATGTTCA
* * * *
21849860 AATATGCAAGATCAAATATAATATCACATATGTGCTTACTTATATGGTT-G
1 AATATACAAGATCAAATATAATATCACATATGTGCATACCTATAT-GTTCA
* *
21849910 AATATACAA-ATTCAAATATAATGTCACATTTGTGCATACCT
1 AATATACAAGA-TCAAATATAATATCACATATGTGCATACCT
21849951 TTGATCCAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
49 1 0.01
50 72 0.95
51 3 0.04
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (50 bp):
AATATACAAGATCAAATATAATATCACATATGTGCATACCTATATGTTCA
Found at i:21850803 original size:26 final size:27
Alignment explanation
Indices: 21850752--21850803 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
21850742 TAGTATATAT
* *
21850752 ATTTCATTTATTTTGCATTTTAGTCCA
1 ATTTAATTTATTTTGCAATTTAGTCCA
*
21850779 ATTTAATTT-TTTTGCAATTTCGTCC
1 ATTTAATTTATTTTGCAATTTAGTCC
21850804 TAATAACTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.56
Consensus pattern (27 bp):
ATTTAATTTATTTTGCAATTTAGTCCA
Found at i:21857668 original size:50 final size:50
Alignment explanation
Indices: 21857558--21857773 Score: 220
Period size: 50 Copynumber: 4.3 Consensus size: 50
21857548 ATCATTCATT
* * * *
21857558 TGGCCGGATATACAAGAT-ATATTATAATATCACATATATGCATACCTATG
1 TGGCCGAATATACAAGATCA-AATATAATATCACATATGTGCATACCTATA
* * * *
21857608 TGGCCAAATATGCAAGATCAAATATAATATCACATATGTGCTTACTTATA
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCATACCTATA
* * * * *
21857658 TGGCTGAATATACAA-ATCCAAATCTACTATCACATTTGTGCATACCTTTA
1 TGGCCGAATATACAAGAT-CAAATATAATATCACATATGTGCATACCTATA
** * * * *
21857708 TATCCGAATATACAAGATCCAATATAACATCACATATGTACATACCTATG
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCATACCTATA
*
21857758 TGGCCGAATATTCAAG
1 TGGCCGAATATACAAG
21857774 GCCATTTAGC
Statistics
Matches: 132, Mismatches: 31, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 2 0.02
50 127 0.96
51 3 0.02
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (50 bp):
TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCATACCTATA
Found at i:21862814 original size:43 final size:43
Alignment explanation
Indices: 21862745--21862908 Score: 181
Period size: 43 Copynumber: 3.8 Consensus size: 43
21862735 CAATGCTATA
* * * *
21862745 TCCCAGATAT-GTCTTACATGTTATCATATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGTAATCATATATCGATGCCAATG
* * *
21862787 TCCCAGATAGGGTCTTACACGAAATCATA-ATACGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCATATAT-CGATGCCAATG
* *
21862830 TCCCAGACATGGTCTTACACGTAATCACAATAT-AATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCA-TATATCGATGCCAATG
* * *
21862873 TCCCAGACATGGTCTTACATGTAATCACATCTCGAT
1 TCCCAGACATGGTCTTACACGTAATCATATATCGAT
21862909 AACCTAATGT
Statistics
Matches: 103, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
42 14 0.14
43 86 0.83
44 1 0.01
45 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCATATATCGATGCCAATG
Found at i:21870403 original size:28 final size:29
Alignment explanation
Indices: 21870359--21870413 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 29
21870349 CATGACTATG
21870359 AATGTGATTTGGGCCTAATGGGCCATACA
1 AATGTGATTTGGGCCTAATGGGCCATACA
*
21870388 AATGTGA-TTGGGCCTAGTGGGCCATA
1 AATGTGATTTGGGCCTAATGGGCCATA
21870414 TGCATGTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.27
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCATACA
Found at i:21870420 original size:28 final size:29
Alignment explanation
Indices: 21870355--21870420 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
21870345 AAAGCATGAC
21870355 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
** *
21870384 TACAAATGTGA-TTGGGCCTAGTGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
*
21870412 TATGCATGT
1 TATGAATGT
21870421 ATGTTAACTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
28 22 0.71
29 9 0.29
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.30
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCCA
Found at i:21878080 original size:28 final size:29
Alignment explanation
Indices: 21878015--21878080 Score: 98
Period size: 28 Copynumber: 2.3 Consensus size: 29
21878005 AAAGCATGAC
21878015 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
* *
21878044 TACGAATGTGA-TTGGGCCTAGTGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
*
21878072 TATGCATGT
1 TATGAATGT
21878081 TTGTTGACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
28 23 0.70
29 10 0.30
ACGTcount: A:0.23, C:0.15, G:0.32, T:0.30
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCCA
Found at i:21882140 original size:39 final size:39
Alignment explanation
Indices: 21882056--21882208 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
21882046 TATGGTAACC
** * *
21882056 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
21882096 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
21882135 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
21882174 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
21882209 TCGAACATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:21882182 original size:78 final size:79
Alignment explanation
Indices: 21882025--21882207 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
21882015 TCGTTCAAAC
* * **
21882025 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
21882090 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
21882105 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
21882169 CAATTTGCACAATT
66 CAATTTGCACAATT
21882183 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
21882208 CTCGAACATT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:21890114 original size:39 final size:39
Alignment explanation
Indices: 21890068--21890209 Score: 225
Period size: 38 Copynumber: 3.7 Consensus size: 39
21890058 CCGCACAAAG
*
21890068 GCCTTCGGGACTTAACCCGGATATCACAA-TTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTTGCACAATT
* *
21890107 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTTGCACAATT
*
21890146 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTTGCACAATT
21890184 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
21890210 TCGAACATTC
Statistics
Matches: 95, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
38 52 0.55
39 43 0.45
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAACTTGCACAATT
Found at i:21890192 original size:77 final size:78
Alignment explanation
Indices: 21890028--21890208 Score: 258
Period size: 77 Copynumber: 2.3 Consensus size: 78
21890018 TCGTTCAAAC
* * **
21890028 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
21890093 ACAATTGCACAATT
65 ACAATTGCACAATT
* ** *
21890107 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
21890170 CAATTTGCACAATT
66 CAA-TTGCACAATT
21890184 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
21890209 CTCGAACATT
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
76 8 0.09
77 44 0.47
78 32 0.34
79 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (78 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTGCACAATT
Found at i:21897035 original size:30 final size:30
Alignment explanation
Indices: 21897014--21897077 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
21897004 TATGTAACAT
*
21897014 GACCGTGTGTCACACACGGCTAAGACACTC
1 GACCATGTGTCACACACGGCTAAGACACTC
* *
21897044 GCCCATGTGTCACACACGGCTAAGACACAC
1 GACCATGTGTCACACACGGCTAAGACACTC
21897074 GACC
1 GACC
21897078 GTGTCCCTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.28, C:0.36, G:0.22, T:0.14
Consensus pattern (30 bp):
GACCATGTGTCACACACGGCTAAGACACTC
Found at i:21898022 original size:24 final size:25
Alignment explanation
Indices: 21897959--21898024 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
21897949 GAGTCATGGT
*
21897959 CGGTAAGCTCTTACTGAGCTGATAAA
1 CGGTAAGCT-TTATTGAGCTGATAAA
** *
21897985 TAGTAAGCTCTATTGAGCTGA-AAA
1 CGGTAAGCTTTATTGAGCTGATAAA
*
21898009 CGGTAAGGTTTATTGA
1 CGGTAAGCTTTATTGA
21898025 AGTGAACAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
24 15 0.47
25 10 0.31
26 7 0.22
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (25 bp):
CGGTAAGCTTTATTGAGCTGATAAA
Found at i:21900838 original size:40 final size:40
Alignment explanation
Indices: 21900753--21900903 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
21900743 AATTGAATGA
* * *
21900753 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
21900793 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
21900834 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
21900873 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
21900904 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:21900917 original size:40 final size:40
Alignment explanation
Indices: 21900790--21900919 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
21900780 ATGCTGGAAA
* * * *
21900790 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
21900830 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
21900870 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
21900910 TTATATCCGG
1 TTATATCCGG
21900920 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:21907711 original size:46 final size:46
Alignment explanation
Indices: 21907658--21907833 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
21907648 TATTTGGGCA
21907658 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
21907704 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
21907751 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
21907797 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21907834 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:21907813 original size:93 final size:93
Alignment explanation
Indices: 21907654--21907825 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
21907644 GGGATATTTG
* *
21907654 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
21907719 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
21907747 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
21907812 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
21907826 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:21913829 original size:27 final size:26
Alignment explanation
Indices: 21913781--21913840 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
21913771 GCGAGGCTGC
*
21913781 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
21913808 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
21913834 CAAATAT
1 CAGATAT
21913841 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:21915536 original size:20 final size:20
Alignment explanation
Indices: 21915513--21915560 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
21915503 AGCTCCGTCC
21915513 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** *
21915533 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
*
21915553 AGTTCAAC
1 AGCTCAAC
21915561 CGAGCTTACT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:21918205 original size:19 final size:18
Alignment explanation
Indices: 21918150--21918233 Score: 61
Period size: 18 Copynumber: 4.7 Consensus size: 18
21918140 AAGAAAAATG
21918150 AAATTGAAAAAGAAA--A
1 AAATTGAAAAAGAAAGGA
**
21918166 AAATTTGATCAAG-AAGAGA
1 AAA-TTGAAAAAGAAAG-GA
21918185 AAATTGAAAAAGAAAGTGA
1 AAATTGAAAAAGAAAG-GA
*
21918204 AAA-AGAAAAAGAGAAGGA
1 AAATTGAAAAAGA-AAGGA
*
21918222 AAA-AGAAAAAGA
1 AAATTGAAAAAGA
21918234 GATCAAGAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
16 5 0.09
17 7 0.12
18 29 0.52
19 15 0.27
ACGTcount: A:0.68, C:0.01, G:0.20, T:0.11
Consensus pattern (18 bp):
AAATTGAAAAAGAAAGGA
Found at i:21918223 original size:18 final size:19
Alignment explanation
Indices: 21918190--21918235 Score: 78
Period size: 18 Copynumber: 2.5 Consensus size: 19
21918180 AGAGAAAATT
21918190 GAAAAAGA-AAGTGAAAAA
1 GAAAAAGAGAAGTGAAAAA
21918208 GAAAAAGAGAAG-GAAAAA
1 GAAAAAGAGAAGTGAAAAA
21918226 GAAAAAGAGA
1 GAAAAAGAGA
21918236 TCAAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (19 bp):
GAAAAAGAGAAGTGAAAAA
Found at i:21918229 original size:24 final size:24
Alignment explanation
Indices: 21918202--21918254 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
21918192 AAAAGAAAGT
21918202 GAAAAAGA-A-AAAGAGAAGGAAAAA
1 GAAAAAGAGATAAAGAG-A-GAAAAA
*
21918226 GAAAAAGAGATCAAGAGAGAAAAA
1 GAAAAAGAGATAAAGAGAGAAAAA
21918250 GAAAA
1 GAAAA
21918255 TTGAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 19 0.73
25 2 0.08
26 5 0.19
ACGTcount: A:0.72, C:0.02, G:0.25, T:0.02
Consensus pattern (24 bp):
GAAAAAGAGATAAAGAGAGAAAAA
Found at i:21918254 original size:6 final size:6
Alignment explanation
Indices: 21918190--21918233 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
21918180 AGAGAAAATT
** * *
21918190 GAAAAA GAAAGT GAAAAA GAAAAA GAGAAG GAAAAA GAAAAA GA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GA
21918234 GATCAAGAGA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (6 bp):
GAAAAA
Found at i:21922687 original size:18 final size:18
Alignment explanation
Indices: 21922666--21922711 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
21922656 AGAGAAAATT
21922666 GAAAAAGA-AAGTGAAAAA
1 GAAAAAGAGAAG-GAAAAA
21922684 GAAAAAGAGAAGGAAAAA
1 GAAAAAGAGAAGGAAAAA
21922702 GAAAAAGAGA
1 GAAAAAGAGA
21922712 TCGAGAGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (18 bp):
GAAAAAGAGAAGGAAAAA
Found at i:21922729 original size:6 final size:6
Alignment explanation
Indices: 21922666--21922709 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
21922656 AGAGAAAATT
** * *
21922666 GAAAAA GAAAGT GAAAAA GAAAAA GAGAAG GAAAAA GAAAAA GA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GA
21922710 GATCGAGAGT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (6 bp):
GAAAAA
Found at i:21928465 original size:94 final size:92
Alignment explanation
Indices: 21928348--21928516 Score: 205
Period size: 92 Copynumber: 1.8 Consensus size: 92
21928338 GTGTCTATGC
* * * *
21928348 CATGTCCCAGATAGGTTTTACACTAGCT-TGTATATCCTGAGGCCGATGCATGTCCCAGACATAC
1 CATGTCCCAGACAGGTCTTACACTAGCTCT-CATA--ATGAGGCCGATGCATGTCCCAGACATAC
21928412 CTTACACTAGCTCTCGTCTCAATGCCAATG
63 CTTACACTAGCTCTCGTCTCAATGCCAATG
* * * * **
21928442 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCTGATGCATGTCCCAGACATGTCTT
1 CATGTCCCAGACAGGTCTTACACTAGCTCTCATAATGAGGCCGATGCATGTCCCAGACATACCTT
*
21928507 ACACTGGCTC
66 ACACTAGCTC
21928517 ACATGCCACC
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
92 35 0.56
94 27 0.43
95 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (92 bp):
CATGTCCCAGACAGGTCTTACACTAGCTCTCATAATGAGGCCGATGCATGTCCCAGACATACCTT
ACACTAGCTCTCGTCTCAATGCCAATG
Found at i:21930960 original size:28 final size:28
Alignment explanation
Indices: 21930914--21930982 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
21930904 TTTAAAACCC
*
21930914 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
21930941 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
21930969 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
21930983 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:21932634 original size:20 final size:20
Alignment explanation
Indices: 21932611--21932648 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21932601 CACATCCAAA
*
21932611 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
21932631 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
21932649 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:21938965 original size:28 final size:28
Alignment explanation
Indices: 21938919--21938987 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
21938909 TTTAAAACCC
*
21938919 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
21938946 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
21938974 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
21938988 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:21940637 original size:20 final size:20
Alignment explanation
Indices: 21940614--21940651 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21940604 CACATTCAAA
*
21940614 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
21940634 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
21940652 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:21942577 original size:42 final size:42
Alignment explanation
Indices: 21942422--21942577 Score: 190
Period size: 42 Copynumber: 3.7 Consensus size: 42
21942412 TACCGTACCA
** * **
21942422 ATGCCATATCCCAGATATGGTAATACATGTAA-TCTTGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCG
* *
21942464 ATGCCA-ATGGCCCAGCTATGGTCTTACACAAAGTCTCATATCG
1 ATGCCATAT--CCCAGATATGGTCTTACACGAAGTCTCATATCG
*
21942507 ATGTCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
*
21942549 ATGCCATATCCCAGATGTGGTCTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
21942578 TAATCTTAAT
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
41 2 0.02
42 66 0.67
43 28 0.29
44 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:21957643 original size:50 final size:50
Alignment explanation
Indices: 21957565--21957858 Score: 310
Period size: 50 Copynumber: 5.9 Consensus size: 50
21957555 TGATGCTAGG
* *
21957565 GAGATATGAGAGCTAGTGTAATACCATGTATAGGACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTC
* * *
21957615 GAGATATGAGTGCTAGTGTAAGATCATGTCTGGGACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTC
* *
21957665 GAGATATGAGAGCTAGTGTAAGACCATGTCTAAGACATGGCATCGACAC-C
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC-CTC
* * * * *
21957715 GATAGATGAGAGCCAGTGTAAGGCCATGTCTGGGACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTC
* * * * *
21957765 GATATACGACAG-TCAGTGTAAGACCATGTCT-GGAACATGGCAT-AGACT-
1 GAGATATGAGAGCT-AGTGTAAGACCATGTCTAGG-ACATGGCATCGGCCTC
** * * * * *
21957813 TTGATGTGTGAGCCAGTGTAAGACTATGTCCAGGACATGGCATCGG
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGG
21957859 TACCTTACCC
Statistics
Matches: 202, Mismatches: 35, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
48 29 0.14
49 9 0.04
50 163 0.81
51 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (50 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTC
Found at i:21959134 original size:2 final size:2
Alignment explanation
Indices: 21959127--21959158 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
21959117 TGGAATATTG
21959127 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21959159 GCTAAGCGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21964771 original size:39 final size:40
Alignment explanation
Indices: 21964724--21964861 Score: 138
Period size: 40 Copynumber: 3.5 Consensus size: 40
21964714 GGACTAGGAT
*
21964724 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTC
* * *
21964763 CCGAAGGCATT-GTGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTC
* *** **
21964802 CCAAAGGCATTCGTGCGAGTCGCTATAA-CCGGGCTTCGTC
1 CCGAAGGCATTCGTGCGAGTTAATA-AACCCGGGCTAAGTC
* *
21964842 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
21964862 CATTATATCC
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
38 22 0.27
39 22 0.27
40 36 0.44
41 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTC
Found at i:21972782 original size:39 final size:40
Alignment explanation
Indices: 21972682--21972863 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
21972672 TCGAATGATG
* * *
21972682 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
21972722 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
21972762 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
21972800 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
21972841 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
21972864 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:21972827 original size:78 final size:80
Alignment explanation
Indices: 21972682--21972863 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
21972672 TCGAATGATG
* * * *
21972682 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
21972747 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
21972762 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
21972824 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
21972841 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
21972864 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:21980018 original size:71 final size:71
Alignment explanation
Indices: 21979934--21980097 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
21979924 CGATTTGTCT
21979934 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
21979999 CTTTCA
66 CTTTCA
21980005 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
21980070 CTTTCA
66 CTTTCA
21980076 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
21980098 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:21980135 original size:71 final size:70
Alignment explanation
Indices: 21979934--21980131 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
21979924 CGATTTGTCT
* * * *
21979934 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
21979999 CTTTCA
65 CTTTCA
* * * *
21980005 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
21980070 CTTTCA
65 CTTTCA
* *
21980076 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
21980132 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:21983688 original size:80 final size:80
Alignment explanation
Indices: 21983509--21983693 Score: 198
Period size: 80 Copynumber: 2.3 Consensus size: 80
21983499 GCTACTCGTT
* * *
21983509 CAAATACCTTCGGGACATAGCCCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAACCCGA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
*
21983574 ATTTAGTAACTCACA
66 ATATAGTAACTCACA
* * * **
21983589 CAAATGCCTTC-GGATCTTAGTCTGGATT-TAGTAACTCGCACAAATGCCTT-TGGATCTTAGTC
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
* * *
21983651 CGGATATAGTCACTTAGCA
63 CGAATATAGTAACTCA-CA
21983670 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
21983694 ACATCATTCG
Statistics
Matches: 86, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
79 6 0.07
80 69 0.80
81 11 0.13
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
ATATAGTAACTCACA
Found at i:21983694 original size:40 final size:40
Alignment explanation
Indices: 21983509--21983694 Score: 173
Period size: 40 Copynumber: 4.7 Consensus size: 40
21983499 GCTACTCGTT
* * * * *
21983509 CAAATACCTTCGGGACATAGCCCGGTTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * *
21983549 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACT-AGCA
* * * *
21983589 CAAATGCCTTC-GGATCTTAGTCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTAGCA
* * *
21983629 CAAATGCCTT-TGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
21983670 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21983695 CATCATTCGA
Statistics
Matches: 121, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 3 0.02
40 107 0.88
41 11 0.09
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:21984415 original size:2 final size:2
Alignment explanation
Indices: 21984408--21984433 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21984398 ATGTGCAAAC
21984408 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
21984434 TGCAAGAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21987185 original size:40 final size:40
Alignment explanation
Indices: 21987126--21987293 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
21987116 TGAATGATAC
* * * *
21987126 CCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATCATAT
* *
21987166 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TCATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATCATAT
* * * * *
21987206 CTGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATCATAT
* * * * *
21987246 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATCATAT
21987286 CC-GGCTAA
1 CCGGGCTAA
21987294 ATTCCGAAGA
Statistics
Matches: 103, Mismatches: 23, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
39 6 0.06
40 95 0.92
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATCATAT
Found at i:21992367 original size:2 final size:2
Alignment explanation
Indices: 21992362--21992386 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21992352 TTTCTACCAC
21992362 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
21992387 ACTTATAATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21995645 original size:19 final size:19
Alignment explanation
Indices: 21995621--21995659 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
21995611 TCGTTTAAGA
21995621 TTTTAGAAATAGTTGAATT
1 TTTTAGAAATAGTTGAATT
21995640 TTTTAGAAATAGTTGAATT
1 TTTTAGAAATAGTTGAATT
21995659 T
1 T
21995660 AACTTAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (19 bp):
TTTTAGAAATAGTTGAATT
Found at i:21999224 original size:24 final size:24
Alignment explanation
Indices: 21999197--21999259 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
21999187 CTTATTATGT
21999197 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
21999221 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
21999245 TCGCACACATAGTGC
1 TCGCACACATAGTGC
21999260 ATTTGAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:22007082 original size:24 final size:24
Alignment explanation
Indices: 22007055--22007117 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
22007045 CTTATTATGT
22007055 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
22007079 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
22007103 TCGCACACATAGTGC
1 TCGCACACATAGTGC
22007118 ATTTGAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Done.