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 196 of 770
Found at i:58541200 original size:40 final size:39
Alignment explanation
Indices: 58541035--58541218 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
58541025 AAATTGAATG
* * *
58541035 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
58541075 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
58541115 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
58541155 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
58541194 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
58541219 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:58541243 original size:80 final size:81
Alignment explanation
Indices: 58541075--58541263 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
58541065 GCTGGAAATT
* * * *
58541075 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
58541140 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
58541156 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
58541219 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
58541235 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
58541264 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:58549313 original size:40 final size:39
Alignment explanation
Indices: 58549148--58549331 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
58549138 AAATTGAATG
* * *
58549148 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
58549188 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
58549228 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
58549268 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
58549307 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
58549332 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:58549356 original size:80 final size:81
Alignment explanation
Indices: 58549188--58549376 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
58549178 GCTGGAAATT
* * * *
58549188 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
58549253 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
58549269 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
58549332 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
58549348 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
58549377 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:58554732 original size:29 final size:30
Alignment explanation
Indices: 58554698--58554758 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
58554688 TAAGTAGTCG
58554698 AAGCTAG-TTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
* *
58554727 AAGCTAGTTTATATCGCACACTTAGTGTCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
58554757 AA
1 AA
58554759 ACTTCCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:58561206 original size:13 final size:13
Alignment explanation
Indices: 58561190--58561222 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
58561180 TTTAATTAAA
*
58561190 TTAGTTAATTAGT
1 TTAGATAATTAGT
58561203 TTAGATAATTAGT
1 TTAGATAATTAGT
58561216 TTA-ATAA
1 TTAGATAA
58561223 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:58562950 original size:42 final size:42
Alignment explanation
Indices: 58562898--58563071 Score: 271
Period size: 42 Copynumber: 4.2 Consensus size: 42
58562888 CTAAGTCCGG
* * *
58562898 ATATAGTACCAGCACTAAGCTTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
* *
58562940 ATATATTACCAGCACGAAACCTACGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
*
58562982 ATATATTACCAGCACGAAGCCTGCGGGATTTAACTCGG--AT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
*
58563022 ATATATTACCAGCACGAAGCCTGCGAGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
58563064 ATATATTA
1 ATATATTA
58563072 TATCGAGAGC
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 38 0.32
42 82 0.68
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (42 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
Found at i:58563052 original size:82 final size:83
Alignment explanation
Indices: 58562898--58563071 Score: 269
Period size: 82 Copynumber: 2.1 Consensus size: 83
58562888 CTAAGTCCGG
* * *
58562898 ATATAGTACCAGCACTAAGCTTGCGGGATTTAACCCGGATATATATATTACCAGCACGAAACCTA
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGA-ATATATATTACCAGCACGAAACCTA
*
58562963 CGGGATTTAACCCGGATAT
65 CGAGATTTAACCCGGATAT
* * *
58562982 ATATATTACCAGCACGAAGCCTGCGGGATTTAACTCGG-ATATATATTACCAGCACGAAGCCTGC
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAATATATATTACCAGCACGAAACCTAC
58563046 GAGATTTAACCCGGATAT
66 GAGATTTAACCCGGATAT
58563064 ATATATTA
1 ATATATTA
58563072 TATCGAGAGC
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
82 49 0.59
84 34 0.41
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (83 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAATATATATTACCAGCACGAAACCTAC
GAGATTTAACCCGGATAT
Found at i:58567937 original size:12 final size:11
Alignment explanation
Indices: 58567914--58567951 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
58567904 CTTTTTATTC
58567914 TTATTT-TTTA
1 TTATTTATTTA
58567924 TTATTTATTATA
1 TTATTTATT-TA
58567936 TTATTTATTT-
1 TTATTTATTTA
58567946 TTATTT
1 TTATTT
58567952 TCATTTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 12 0.46
11 3 0.12
12 11 0.42
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:58567950 original size:6 final size:6
Alignment explanation
Indices: 58567905--58567969 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
58567895 TCCTCCTATC
* * *
58567905 TTTTTA TTCTTA TTTTTTA TTATTTA -TTATA TTATTTA TTTTTA TTTTCA
1 TTTTTA TTTTTA -TTTTTA TT-TTTA TTTTTA TT-TTTA TTTTTA TTTTTA
* *
58567955 TTTTCA TTTTCA TTT
1 TTTTTA TTTTTA TTT
58567970 CAATTTTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
5 3 0.06
6 33 0.66
7 14 0.28
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:58569683 original size:40 final size:40
Alignment explanation
Indices: 58569638--58569805 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
58569628 CGGAATATAA
58569638 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
58569678 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
58569718 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
58569758 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
58569798 CCGGATAT
1 CCGGATAT
58569806 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58574964 original size:49 final size:49
Alignment explanation
Indices: 58574896--58575191 Score: 488
Period size: 49 Copynumber: 6.1 Consensus size: 49
58574886 TTTACCACAT
* * *
58574896 ATATATATACACTTTCACATTCATCACGTCAGCCATTAGGCCTTATCAC
1 ATATGTATACAGTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
* * *
58574945 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATGTATACAGTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
*
58574994 ATATGTATACAGTTTCACATTCATCACATC-GCCATTAGGCCTTATCAC
1 ATATGTATACAGTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
58575042 ATATGTATACAGTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATGTATACAGTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
*
58575091 ATATGTATACATTTTCACATTCATCACGTCGGCC-TTAGGCCTTATCAC
1 ATATGTATACAGTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
* *
58575139 ATAGGTATACAGTTTCACATTCATCACGTCGGCCATTAGGCATTATCAC
1 ATATGTATACAGTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
58575188 ATAT
1 ATAT
58575192 ATTATTATGT
Statistics
Matches: 234, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
48 93 0.40
49 141 0.60
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.33
Consensus pattern (49 bp):
ATATGTATACAGTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
Found at i:58575037 original size:97 final size:98
Alignment explanation
Indices: 58574896--58575191 Score: 488
Period size: 97 Copynumber: 3.0 Consensus size: 98
58574886 TTTACCACAT
* * *
58574896 ATATATATACACTTTCACATTCATCACGTCAGCCATTAGGCCTTATCACATATATATACATTTTC
1 ATATGTATACACTTTCACATTCATCACGTCAGCCATTAGGCCTTATCACATATGTATACAGTTTC
*
58574961 ACATTCATCACATCGGCCATTAGGCCTTATCAC
66 ACATTCATCACGTCGGCCATTAGGCCTTATCAC
* *
58574994 ATATGTATACAGTTTCACATTCATCACATC-GCCATTAGGCCTTATCACATATGTATACAGTTTC
1 ATATGTATACACTTTCACATTCATCACGTCAGCCATTAGGCCTTATCACATATGTATACAGTTTC
58575058 ACATTCATCACGTCGGCCATTAGGCCTTATCAC
66 ACATTCATCACGTCGGCCATTAGGCCTTATCAC
* * *
58575091 ATATGTATACATTTTCACATTCATCACGTCGGCC-TTAGGCCTTATCACATAGGTATACAGTTTC
1 ATATGTATACACTTTCACATTCATCACGTCAGCCATTAGGCCTTATCACATATGTATACAGTTTC
*
58575155 ACATTCATCACGTCGGCCATTAGGCATTATCAC
66 ACATTCATCACGTCGGCCATTAGGCCTTATCAC
58575188 ATAT
1 ATAT
58575192 ATTATTATGT
Statistics
Matches: 187, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
97 157 0.84
98 30 0.16
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.33
Consensus pattern (98 bp):
ATATGTATACACTTTCACATTCATCACGTCAGCCATTAGGCCTTATCACATATGTATACAGTTTC
ACATTCATCACGTCGGCCATTAGGCCTTATCAC
Found at i:58575174 original size:146 final size:146
Alignment explanation
Indices: 58574896--58575193 Score: 508
Period size: 146 Copynumber: 2.0 Consensus size: 146
58574886 TTTACCACAT
58574896 ATATATATACACTTTCACATTCATCACGTCAGCCATTAGGCCTTATCACATATATATACATTTTC
1 ATATATATACACTTTCACATTCATCACGTCAGCCATTAGGCCTTATCACATATATATACATTTTC
*
58574961 ACATTCATCACATCGGCCATTAGGCCTTATCACATATGTATACAGTTTCACATTCATCACATCGC
66 ACATTCATCACATCGGCCATTAGGCCTTATCACATAGGTATACAGTTTCACATTCATCACATCGC
*
58575026 CATTAGGCCTTATCAC
131 CATTAGGCATTATCAC
* * * *
58575042 ATATGTATACAGTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATGTATACATTTTC
1 ATATATATACACTTTCACATTCATCACGTCAGCCATTAGGCCTTATCACATATATATACATTTTC
* *
58575107 ACATTCATCACGTCGGCC-TTAGGCCTTATCACATAGGTATACAGTTTCACATTCATCACGTCGG
66 ACATTCATCACATCGGCCATTAGGCCTTATCACATAGGTATACAGTTTCACATTCATCACATC-G
58575171 CCATTAGGCATTATCAC
130 CCATTAGGCATTATCAC
58575188 ATATAT
1 ATATAT
58575194 TATTATGTAC
Statistics
Matches: 142, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
145 42 0.30
146 100 0.70
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (146 bp):
ATATATATACACTTTCACATTCATCACGTCAGCCATTAGGCCTTATCACATATATATACATTTTC
ACATTCATCACATCGGCCATTAGGCCTTATCACATAGGTATACAGTTTCACATTCATCACATCGC
CATTAGGCATTATCAC
Found at i:58579248 original size:19 final size:19
Alignment explanation
Indices: 58579224--58579265 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
58579214 GTACTAGTAA
58579224 TAACTATCTTTTTATTATC
1 TAACTATCTTTTTATTATC
58579243 TAACTATCTTTTTATTATC
1 TAACTATCTTTTTATTATC
58579262 TAAC
1 TAAC
58579266 CTAGAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.55
Consensus pattern (19 bp):
TAACTATCTTTTTATTATC
Found at i:58579307 original size:13 final size:13
Alignment explanation
Indices: 58579289--58579313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58579279 GGTTTGTTTA
58579289 TTAAACTAATTAT
1 TTAAACTAATTAT
58579302 TTAAACTAATTA
1 TTAAACTAATTA
58579314 ACTGATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:58582140 original size:6 final size:5
Alignment explanation
Indices: 58582111--58582183 Score: 60
Period size: 5 Copynumber: 13.8 Consensus size: 5
58582101 TATGTCTTGC
* *
58582111 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAT AAAAAT CAAAAGA
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT AAAAT -AAAAT -AAAA-T
58582159 AAAAT AAAAAT AAAAT AAAAT AAAA
1 AAAAT -AAAAT AAAAT AAAAT AAAA
58582184 ATAAGACTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
3 3 0.05
5 27 0.48
6 26 0.46
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:58582150 original size:11 final size:11
Alignment explanation
Indices: 58582111--58582187 Score: 75
Period size: 11 Copynumber: 6.6 Consensus size: 11
58582101 TATGTCTTGC
58582111 AAAATAAAATAA
1 AAAATAAAAT-A
* *
58582123 TAAAATTGAAATG
1 -AAAA-TAAAATA
58582136 AAAATAAAATA
1 AAAATAAAATA
*
58582147 AAAATCAAAAGA
1 AAAAT-AAAATA
58582159 AAAATAAAA-A
1 AAAATAAAATA
58582169 TAAAATAAAATA
1 -AAAATAAAATA
58582181 AAAATAA
1 AAAATAA
58582188 GACTAAATAA
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
10 1 0.02
11 30 0.55
12 15 0.27
13 4 0.07
14 5 0.09
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:58582184 original size:6 final size:6
Alignment explanation
Indices: 58582131--58582187 Score: 66
Period size: 6 Copynumber: 10.0 Consensus size: 6
58582121 AATAAAATTG
* * *
58582131 AAATGA AAAT-A AAATAA AAATCA AAAGAA AAATAA AAAT-A AAAT-A
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
58582176 AAATAA AAATAA
1 AAATAA AAATAA
58582188 GACTAAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
5 15 0.33
6 30 0.67
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:58587823 original size:30 final size:30
Alignment explanation
Indices: 58587787--58587846 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
58587777 TAATCCCTAG
** *
58587787 ATTGAATAACTGAGACTTTTCTCTTATTAA
1 ATTGAATAACCAAGACTTTTCTCTAATTAA
*
58587817 ATTGAATAACCAAGTCTTTTCTCTAATTAA
1 ATTGAATAACCAAGACTTTTCTCTAATTAA
58587847 CACTCTAGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (30 bp):
ATTGAATAACCAAGACTTTTCTCTAATTAA
Found at i:58589128 original size:29 final size:30
Alignment explanation
Indices: 58589094--58589154 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
58589084 CAAATAGTCG
*
58589094 AAGCTAG-TTAAATCGTACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
58589123 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
58589153 AA
1 AA
58589155 ACTTCCTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:58593782 original size:40 final size:40
Alignment explanation
Indices: 58593703--58593904 Score: 277
Period size: 40 Copynumber: 5.1 Consensus size: 40
58593693 CGGGGTTTAA
* *
58593703 CCGGATATAGCT-ACTCGCTC-AATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
58593742 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
58593782 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTA-C
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
58593821 CTGAATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
58593861 CCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
58593901 CCGG
1 CCGG
58593905 TTATCATCCA
Statistics
Matches: 147, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.01
39 54 0.37
40 92 0.63
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:58593829 original size:79 final size:79
Alignment explanation
Indices: 58593703--58593903 Score: 273
Period size: 79 Copynumber: 2.5 Consensus size: 79
58593693 CGGGGTTTAA
* * * *
58593703 CCGGATATAGCTACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
58593767 CCTTCGGGACTTAGC
65 CCTTCGGGACTTAGC
* *
58593782 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTA-CCTGAATATAGTAGCTCGCACAAATG
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
58593846 CCTTCGGGACTTAGC
65 CCTTCGGGACTTAGC
* *
58593861 CCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCG
1 CCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCG
58593904 GTTATCATCC
Statistics
Matches: 108, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
78 2 0.02
79 87 0.81
80 19 0.18
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (79 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGC
CTTCGGGACTTAGC
Found at i:58601885 original size:40 final size:39
Alignment explanation
Indices: 58601792--58602007 Score: 303
Period size: 40 Copynumber: 5.5 Consensus size: 39
58601782 AAGCCAAGTA
* * *
58601792 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATG
* *
58601830 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
58601870 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
58601910 CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
* *
58601949 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATG
58601989 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
58602008 TTATCATCCA
Statistics
Matches: 165, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
38 13 0.08
39 54 0.33
40 98 0.59
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
Found at i:58601949 original size:79 final size:79
Alignment explanation
Indices: 58601792--58602007 Score: 305
Period size: 79 Copynumber: 2.7 Consensus size: 79
58601782 AAGCCAAGTA
* * * *
58601792 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
58601855 TAACTCGCACCAATG
65 TAACTCGCACAAATG
58601870 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
58601935 T-ACTCGCACAAATG
65 TAACTCGCACAAATG
* *
58601949 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
58602008 TTATCATCCA
Statistics
Matches: 126, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
78 14 0.11
79 83 0.66
80 29 0.23
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:58602002 original size:119 final size:118
Alignment explanation
Indices: 58601792--58602007 Score: 319
Period size: 119 Copynumber: 1.8 Consensus size: 118
58601782 AAGCCAAGTA
* *
58601792 CCTTCGGGATTTAACCGGATATAGCTACTCGCTCAATGCCTTCGGGACATAGCCCGGATATAGTA
1 CCTTCGGGACTTAACCGGATATAGCTACTCGCACAATGCCTTCGGGACATAGCCCGGATATAGTA
* *
58601857 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
58601910 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACTA
1 CCTTCGGGACTTA-ACCGGATATAGCTACTCGCAC-AATGCCTTCGGGACATAGCCCGGATA-TA
* *
58601973 GTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
63 GTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
58602008 TTATCATCCA
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
118 21 0.24
119 66 0.76
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (118 bp):
CCTTCGGGACTTAACCGGATATAGCTACTCGCACAATGCCTTCGGGACATAGCCCGGATATAGTA
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:58610769 original size:50 final size:50
Alignment explanation
Indices: 58610658--58610882 Score: 233
Period size: 50 Copynumber: 4.5 Consensus size: 50
58610648 TGATACGCAT
* * * *
58610658 AGTAGCCTGCACTTAGTACTACACAAGCGACC-AACAATCTGGTACACGT
1 AGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGC
* *
58610707 AGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTGATACACGC
1 AGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGC
* * * * *
58610757 AGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCAT-TGAGA-ACGC
1 AGTAGCCTGCACTTAGTACTACACACGCGACCTAA-CCATCTGATACACGC
* * * * * *
58610806 ATAGTAGCCTGCACTTACTACTACACATGCGACTTAA-CAGTATGGTACACGT
1 --AGTAGCCTGCACTTAGTACTACACACGCGACCTAACCA-TCTGATACACGC
58610858 AGTAGCCTGCACTTAGTACTACACA
1 AGTAGCCTGCACTTAGTACTACACA
58610883 AGTGTACTCA
Statistics
Matches: 148, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
49 36 0.24
50 74 0.50
51 35 0.24
52 3 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (50 bp):
AGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACGC
Found at i:58617929 original size:98 final size:99
Alignment explanation
Indices: 58617803--58618043 Score: 292
Period size: 101 Copynumber: 2.4 Consensus size: 99
58617793 AGCCAAAGTT
* *
58617803 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-CAATCCGA-TAACG-T
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCCAAGC-AT-CGAGT-ACGAT
* * * *
58617864 AGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
63 AGTAGCCTGCACTTACTACTACACACGCGACCTAACA
** *
58617901 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTCATTGAGTACGCATA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCCAAG-CATCGAGTACG-ATA
* *
58617966 GTAGCCTGCACTTACTACTACACATGCGACTTAACA
64 GTAGCCTGCACTTACTACTACACACGCGACCTAACA
* *
58618002 ATATGGTACACATAGTAGCCTGCACTTAGTACTACACACGTG
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTG
58618044 TACTCACAAT
Statistics
Matches: 124, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
98 41 0.33
99 7 0.06
100 3 0.02
101 73 0.59
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (99 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCCAAGCATCGAGTACGATAGT
AGCCTGCACTTACTACTACACACGCGACCTAACA
Found at i:58617936 original size:50 final size:50
Alignment explanation
Indices: 58617803--58618043 Score: 285
Period size: 50 Copynumber: 4.8 Consensus size: 50
58617793 AGCCAAAGTT
* *
58617803 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC-AACA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA
* * * *
58617852 ATCCGATA-ACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA
*
58617901 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTC-
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA--CA
* * * * *
58617952 AT-TGAGTACGCATAGTAGCCTGCACTTACTACTACACATGCGACTTAACA
1 ATCTGA-TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA
* *
58618002 ATATGGTACACATAGTAGCCTGCACTTAGTACTACACACGTG
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTG
58618044 TACTCACAAT
Statistics
Matches: 164, Mismatches: 19, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
48 33 0.20
49 18 0.11
50 71 0.43
51 39 0.24
52 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA
Found at i:58623395 original size:40 final size:40
Alignment explanation
Indices: 58623325--58623440 Score: 112
Period size: 40 Copynumber: 2.9 Consensus size: 40
58623315 CGCATTCAAG
* * * *
58623325 GGTACTGAAGTACAAACAAT-GGTACGTATGTGCATTTAGG
1 GGTACCGAAGTACAAAC-ATGGGCACATATGTGCATTTAGA
** * *
58623365 GGTAGTGAAGTACAAATA-GGAGCACATATGTGTGA-TTAGA
1 GGTACCGAAGTACAAACATGG-GCACATATGTG-CATTTAGA
58623405 GGTACCGAAGTACAAACATGGGCACATATGTGCATT
1 GGTACCGAAGTACAAACATGGGCACATATGTGCATT
58623441 CATACAATAA
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
39 3 0.05
40 55 0.90
41 3 0.05
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (40 bp):
GGTACCGAAGTACAAACATGGGCACATATGTGCATTTAGA
Found at i:58628153 original size:36 final size:36
Alignment explanation
Indices: 58628113--58628181 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
58628103 ATCAACTTTA
*
58628113 ATACACATTTATTCTTCATTTGACACTATATTATGT
1 ATACACATTTATTCATCATTTGACACTATATTATGT
* *
58628149 ATACATATTTCTTCATCATTTGACACTATATTA
1 ATACACATTTATTCATCATTTGACACTATATTA
58628182 CGTGCATACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.32, C:0.17, G:0.04, T:0.46
Consensus pattern (36 bp):
ATACACATTTATTCATCATTTGACACTATATTATGT
Found at i:58629961 original size:72 final size:72
Alignment explanation
Indices: 58629875--58630023 Score: 228
Period size: 72 Copynumber: 2.1 Consensus size: 72
58629865 AAATGATTAT
*
58629875 CTACAAAACAATCCACAAAAAATCATGAGCTTAAAAAGCTTAGTAAAGACATAGTAAAACATTTA
1 CTACAAAACAATCCACAAAAAATCATAAGCTTAAAAAGCTTAGTAAAGACATAGTAAAACATTTA
58629940 ATCTAAA
66 ATCTAAA
* * * * * *
58629947 CTACAAAATAATCCACAAAAACTCATAAGCTTACATAGCTTAGTAAGGACATAGTATAACATTTA
1 CTACAAAACAATCCACAAAAAATCATAAGCTTAAAAAGCTTAGTAAAGACATAGTAAAACATTTA
58630012 ATCTAAA
66 ATCTAAA
58630019 -TACAA
1 CTACAA
58630024 TTAGAAATGG
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
71 5 0.07
72 65 0.93
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.24
Consensus pattern (72 bp):
CTACAAAACAATCCACAAAAAATCATAAGCTTAAAAAGCTTAGTAAAGACATAGTAAAACATTTA
ATCTAAA
Found at i:58640872 original size:18 final size:19
Alignment explanation
Indices: 58640829--58640874 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
58640819 TTGTTTAATT
* *
58640829 ATTAATTATTATGATTTTT
1 ATTAATTGTTATGATTTTA
*
58640848 ATGAATTGTTAT-ATTTTA
1 ATTAATTGTTATGATTTTA
58640866 ATTAATTGT
1 ATTAATTGT
58640875 GTGTTAATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (19 bp):
ATTAATTGTTATGATTTTA
Found at i:58643201 original size:5 final size:5
Alignment explanation
Indices: 58643191--58643247 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
58643181 CTCTTGCCTC
*
58643191 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
58643238 TCTTT TCTTT
1 TCTTT TCTTT
58643248 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:58643231 original size:15 final size:14
Alignment explanation
Indices: 58643191--58643247 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
58643181 CTCTTGCCTC
*
58643191 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
58643206 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
58643221 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
58643238 TCTTTTCTTT
1 TCTTTTCTTT
58643248 ATTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:58643257 original size:21 final size:20
Alignment explanation
Indices: 58643189--58643258 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
58643179 GCCTCTTGCC
58643189 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
**
58643212 TCT-TTTTCTTCTTTTGCTTT
1 TCTCTTTTCTT-TTTTTATTT
58643232 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
58643252 TCTCTTT
1 TCTCTTT
58643259 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:58644193 original size:11 final size:11
Alignment explanation
Indices: 58644179--58644228 Score: 73
Period size: 11 Copynumber: 4.4 Consensus size: 11
58644169 TTTTGAAACT
58644179 TTTTTTTTGAA
1 TTTTTTTTGAA
*
58644190 TTTTTTTCGAA
1 TTTTTTTTGAA
58644201 TTTTTTTTCGAA
1 TTTTTTTT-GAA
58644213 TTTTTTTTTGAA
1 -TTTTTTTTGAA
58644225 TTTT
1 TTTT
58644229 GTTTATACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 21 0.60
12 6 0.17
13 8 0.23
ACGTcount: A:0.16, C:0.04, G:0.08, T:0.72
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:58644193 original size:12 final size:12
Alignment explanation
Indices: 58644166--58644228 Score: 83
Period size: 12 Copynumber: 5.2 Consensus size: 12
58644156 CACAAATCAG
58644166 TTTTTTTGAAACTT
1 TTTTTTTG-AA-TT
58644180 TTTTTTTGAA-T
1 TTTTTTTGAATT
*
58644191 TTTTTTCGAATT
1 TTTTTTTGAATT
*
58644203 TTTTTTCGAATT
1 TTTTTTTGAATT
58644215 TTTTTTTGAATT
1 TTTTTTTGAATT
58644227 TT
1 TT
58644229 GTTTATACTT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.22
12 26 0.57
13 2 0.04
14 8 0.17
ACGTcount: A:0.17, C:0.05, G:0.08, T:0.70
Consensus pattern (12 bp):
TTTTTTTGAATT
Found at i:58648022 original size:30 final size:29
Alignment explanation
Indices: 58647928--58648029 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
58647918 TATAGTGAAT
* * *
58647928 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
58647957 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
58647985 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
58648015 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
58648030 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:58655217 original size:30 final size:29
Alignment explanation
Indices: 58655123--58655224 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
58655113 TATAGTGAAT
* * *
58655123 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
58655152 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
58655180 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
58655210 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
58655225 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:58660010 original size:40 final size:40
Alignment explanation
Indices: 58659965--58660131 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
58659955 CGGAATACAA
58659965 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
58660005 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
58660045 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * * * *
58660085 CCGGATATAATTTCCAGCA-TAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
58660124 CCGGATAT
1 CCGGATAT
58660132 CATTCAATTG
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 25 0.24
40 80 0.76
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:58668053 original size:40 final size:40
Alignment explanation
Indices: 58668008--58668097 Score: 121
Period size: 40 Copynumber: 2.2 Consensus size: 40
58667998 CGGAATACAA
*
58668008 CCGGATATAACCACGT-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCAC-AATTGCCTTCGGGTCTTAAC
* *
58668048 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
58668088 CCGGATATAA
1 CCGGATATAA
58668098 TTTCCAGCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
39 3 0.07
40 40 0.93
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
Found at i:58685925 original size:30 final size:30
Alignment explanation
Indices: 58685891--58685975 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 30
58685881 TAAACTAAAA
* *
58685891 TGAGCTGAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTGAGATTTAGCTCGTGAGCTAAAGC
* * * *
58685921 TGAGCTGAGATTAAACTTC-TAAGCTGAAGC
1 TGAGCTGAGATTTAGC-TCGTGAGCTAAAGC
* *
58685951 TGAGCTAAGGTTTAGCTCGTGAGCT
1 TGAGCTGAGATTTAGCTCGTGAGCT
58685976 GAATATGAGC
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
29 2 0.05
30 38 0.90
31 2 0.05
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTGAGATTTAGCTCGTGAGCTAAAGC
Found at i:58685976 original size:30 final size:30
Alignment explanation
Indices: 58685890--58685987 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 30
58685880 TTAAACTAAA
* * *
58685890 ATGAGCTGAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * *
58685920 TTGAGCTGAGATTAAACTTC-TAAGCTGAAG
1 ATGAGCTAAGATTTAGC-TCGTGAGCTGAAG
* * *
58685950 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
58685980 ATGAGCTA
1 ATGAGCTA
58685988 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
29 2 0.04
30 48 0.92
31 2 0.04
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:58690758 original size:17 final size:18
Alignment explanation
Indices: 58690731--58690765 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
58690721 AGGCCGTGCA
58690731 TGAATCTTTCCCATTCAT
1 TGAATCTTTCCCATTCAT
*
58690749 TGAA-CTTTCCCGTTCAT
1 TGAATCTTTCCCATTCAT
58690766 GCATCTCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.20, C:0.29, G:0.09, T:0.43
Consensus pattern (18 bp):
TGAATCTTTCCCATTCAT
Found at i:58691122 original size:20 final size:20
Alignment explanation
Indices: 58691075--58691122 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
58691065 AGTAAGCTCG
58691075 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
58691095 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
58691115 GTTGAGCT
1 GTTGAGCT
58691123 GGACGAAGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:58692598 original size:12 final size:12
Alignment explanation
Indices: 58692579--58692611 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
58692569 AAAAGGAAAA
58692579 GAGTGAAAAAGT
1 GAGTGAAAAAGT
*
58692591 GTGTGAAAAAGT
1 GAGTGAAAAAGT
58692603 GAGTGAAAA
1 GAGTGAAAA
58692612 GAAACGAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.33, T:0.18
Consensus pattern (12 bp):
GAGTGAAAAAGT
Found at i:58696561 original size:69 final size:69
Alignment explanation
Indices: 58696488--58696679 Score: 224
Period size: 70 Copynumber: 2.8 Consensus size: 69
58696478 AATTGATGAG
* * * * * *
58696488 TTGTTATATTAAAAATGTCTTCATTTACGCTCGA-TTTAAATGTTTAATGTGTTGCTGTAAAGTG
1 TTGTTATCTTAAAAATGTGTTCATTTACG-TCAATTTTAAATGCTTAATGTGCTGCTGTAAAGGG
58696552 ATAAT
65 ATAAT
* * * *
58696557 TTGTTATCTTAAAAAATGTGTTCACTCACGTTAATTTTAGATGCTTAATGTGCTGCTGTAAAGGG
1 TTGTTATCTT-AAAAATGTGTTCATTTACGTCAATTTTAAATGCTTAATGTGCTGCTGTAAAGGG
* *
58696622 CTGAT
65 ATAAT
* * *
58696627 TTGTTGTCTTGAAAATGTGTTCATTTACGTCCATTTTAAATGCTTAATGTGCT
1 TTGTTATCTTAAAAATGTGTTCATTTACGTCAATTTTAAATGCTTAATGTGCT
58696680 TTCCAAAAAT
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
69 48 0.47
70 54 0.53
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (69 bp):
TTGTTATCTTAAAAATGTGTTCATTTACGTCAATTTTAAATGCTTAATGTGCTGCTGTAAAGGGA
TAAT
Found at i:58699669 original size:12 final size:13
Alignment explanation
Indices: 58699641--58699674 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
58699631 ACAAGTTTGA
58699641 AAAAAAAAATTCCG
1 AAAAAAAAATT-CG
58699655 AAAAAAAAATT-G
1 AAAAAAAAATTCG
58699667 AAAAAAAA
1 AAAAAAAA
58699675 GAGTGATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.45
14 11 0.55
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (13 bp):
AAAAAAAAATTCG
Found at i:58703112 original size:40 final size:40
Alignment explanation
Indices: 58703068--58703156 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
58703058 TGCTGGAAAT
* * *
58703068 TATATCCGGGTTAAGACCCGAAGGCAAATGTGCTCGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAAATGTGCACGTGAC
** *
58703108 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAAATGTGCACGTGAC
58703148 TATATCCGG
1 TATATCCGG
58703157 TTACATTCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAAATGTGCACGTGAC
Found at i:58711032 original size:40 final size:40
Alignment explanation
Indices: 58710966--58711132 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
58710956 AAATTGAATG
* * *
58710966 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
58711005 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
58711045 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
58711085 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
58711125 ATATCCGG
1 ATATCCGG
58711133 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:58718340 original size:68 final size:70
Alignment explanation
Indices: 58718268--58718465 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
58718258 ACACCCTGTA
* * * *
58718268 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
58718330 ATAAAT
65 ATAAAT
*
58718336 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
58718401 ATAAAT
65 ATAAAT
*
58718407 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
58718466 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:58718379 original size:41 final size:41
Alignment explanation
Indices: 58718334--58718451 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
58718324 TGAAAGATAA
58718334 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
58718375 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58718405 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58718446 ATGTAG
1 ATGTAG
58718452 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:58718391 original size:71 final size:71
Alignment explanation
Indices: 58718302--58718465 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
58718292 GAGATGTATC
58718302 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58718367 AGGACA
66 AGGACA
58718373 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58718438 AGGACA
66 AGGACA
58718444 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
58718466 AGACAAATCG
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:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:58729284 original size:15 final size:17
Alignment explanation
Indices: 58729264--58729296 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
58729254 ACCCATAACG
58729264 TGCTTC-ACG-TATCGA
1 TGCTTCGACGATATCGA
58729279 TGCTTCGACGATATCGA
1 TGCTTCGACGATATCGA
58729296 T
1 T
58729297 CCGACCCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.33
Consensus pattern (17 bp):
TGCTTCGACGATATCGA
Found at i:58730728 original size:27 final size:26
Alignment explanation
Indices: 58730698--58730811 Score: 102
Period size: 27 Copynumber: 4.2 Consensus size: 26
58730688 TCACGTAGGC
*
58730698 GCAAAACAGTCATCTTACCACCTAAGG
1 GCAAAACAGTCAT-TTACCACATAAGG
**
58730725 GCAAATTAGTCATTTTACCACATAAGG
1 GCAAAACAGTCA-TTTACCACATAAGG
* *
58730752 GCAAAACCGTCATTTGACCACATGAGG
1 GCAAAACAGTCATTT-ACCACATAAGG
* * * **
58730779 GAAAAATAGTTAGTTTATAACATAAGG
1 GCAAAACAGTCA-TTTACCACATAAGG
58730806 GCAAAA
1 GCAAAA
58730812 TAACTTAACC
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
26 3 0.04
27 62 0.90
28 4 0.06
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (26 bp):
GCAAAACAGTCATTTACCACATAAGG
Found at i:58731000 original size:24 final size:24
Alignment explanation
Indices: 58730949--58731068 Score: 161
Period size: 24 Copynumber: 5.0 Consensus size: 24
58730939 GCTTTATCAT
* *
58730949 ATAACTGGAGGCCT-AGCCTCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
58730974 ATAATTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
58730998 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
58731022 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
58731046 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
58731069 GCACTTCCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
24 76 0.87
25 11 0.13
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:58731069 original size:24 final size:24
Alignment explanation
Indices: 58730974--58731069 Score: 165
Period size: 24 Copynumber: 4.0 Consensus size: 24
58730964 GCCTCTTTCA
* * *
58730974 ATAATTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTG
58730998 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
58731022 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
58731046 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
58731070 CACTTCCTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 69 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:58731140 original size:9 final size:9
Alignment explanation
Indices: 58731126--58731178 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
58731116 ACATCATGTG
58731126 CATATCATA
1 CATATCATA
*
58731135 CATATCATGTG
1 CATATCA--TA
58731146 CATATCATA
1 CATATCATA
*
58731155 CATGTCATA
1 CATATCATA
58731164 TGCATATCATA
1 --CATATCATA
58731175 CATA
1 CATA
58731179 CCATGTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:58731143 original size:20 final size:20
Alignment explanation
Indices: 58731118--58731184 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
58731108 TTATGAATAC
58731118 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58731138 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
58731158 GTCATATGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
58731178 ACCATGT
1 ATCATGT
58731185 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:58731158 original size:15 final size:15
Alignment explanation
Indices: 58731130--58731173 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
58731120 CATGTGCATA
58731130 TCATA-CATATCATG
1 TCATATCATATCATG
58731144 TGCATATCATA-CATG
1 T-CATATCATATCATG
58731159 TCATATGCATATCAT
1 TCATAT-CATATCAT
58731174 ACATACCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.23
15 13 0.50
16 7 0.27
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (15 bp):
TCATATCATATCATG
Found at i:58731267 original size:25 final size:25
Alignment explanation
Indices: 58731221--58731268 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
58731211 ATATATAAAC
* * *
58731221 CCTAGGGGTATAATGGTAATTTTTA
1 CCTAGGGGAAAAACGGTAATTTTTA
*
58731246 CCTAGGGGAAAAACGGTCATTTT
1 CCTAGGGGAAAAACGGTAATTTT
58731269 CATGTTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGAAAAACGGTAATTTTTA
Found at i:58737322 original size:40 final size:40
Alignment explanation
Indices: 58737277--58737406 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
58737267 CGGAATACAA
58737277 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
58737317 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
58737357 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
58737397 CCGGATATAA
1 CCGGATATAA
58737407 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:58737421 original size:40 final size:40
Alignment explanation
Indices: 58737277--58737440 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
58737267 CGGAATACAA
* **
58737277 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
58737317 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
58737357 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
58737397 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
58737437 CCGG
1 CCGG
58737441 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:58742298 original size:24 final size:24
Alignment explanation
Indices: 58742271--58742366 Score: 174
Period size: 24 Copynumber: 4.0 Consensus size: 24
58742261 TCCTCTTTCA
*
58742271 ATAACTGGGGCAAAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
58742295 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
58742319 ATAACTGGGACATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
58742343 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
58742367 CACTTCCTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 69 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:58742510 original size:25 final size:25
Alignment explanation
Indices: 58742478--58742525 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
58742468 ATATATAAAC
* * *
58742478 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
58742503 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
58742526 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:58742818 original size:11 final size:11
Alignment explanation
Indices: 58742802--58742833 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
58742792 AAGCCCATTG
58742802 GGCCCCACTTC
1 GGCCCCACTTC
58742813 GGCCCCACTTC
1 GGCCCCACTTC
*
58742824 GGCCCAACTT
1 GGCCCCACTT
58742834 ACCGTGAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.12, C:0.50, G:0.19, T:0.19
Consensus pattern (11 bp):
GGCCCCACTTC
Found at i:58750217 original size:30 final size:30
Alignment explanation
Indices: 58750173--58750241 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
58750163 TAAAGATAAC
*
58750173 AAGAAAACC-GAATAAAGAAATCCA-AGATA
1 AAGAAACCCAGAATAAAGAAATCCAGA-ATA
*
58750202 GAGAAACCCAGAATAAAGAAATCCAGAATA
1 AAGAAACCCAGAATAAAGAAATCCAGAATA
58750232 AAGAAACCCA
1 AAGAAACCCA
58750242 AGATACGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.59, C:0.17, G:0.14, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAGAATA
Found at i:58750221 original size:15 final size:15
Alignment explanation
Indices: 58750173--58750241 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
58750163 TAAAGATAAC
*
58750173 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
58750187 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
*
58750202 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
*
58750217 AAGAAATCCAGAATA
1 AAGAAACCCAGAATA
58750232 AAGAAACCCA
1 AAGAAACCCA
58750242 AGATACGATA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
14 9 0.20
15 36 0.78
16 1 0.02
ACGTcount: A:0.59, C:0.17, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:58752502 original size:37 final size:37
Alignment explanation
Indices: 58752460--58752534 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
58752450 TTCCACATGA
58752460 AAATATATTAATTAAGCTTCAATTACATATTTTATTC
1 AAATATATTAATTAAGCTTCAATTACATATTTTATTC
58752497 AAATATATTAATTAAGCTTCAATTACATATTTTATTC
1 AAATATATTAATTAAGCTTCAATTACATATTTTATTC
58752534 A
1 A
58752535 TCCTCTAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.45
Consensus pattern (37 bp):
AAATATATTAATTAAGCTTCAATTACATATTTTATTC
Found at i:58752526 original size:22 final size:22
Alignment explanation
Indices: 58752464--58752527 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
58752454 ACATGAAAAT
58752464 ATATTAATTAAGCTTCAATTAC
1 ATATTAATTAAGCTTCAATTAC
*
58752486 ATATT--TT-A--TTCAA--AT
1 ATATTAATTAAGCTTCAATTAC
58752501 ATATTAATTAAGCTTCAATTAC
1 ATATTAATTAAGCTTCAATTAC
58752523 ATATT
1 ATATT
58752528 TTATTCATCC
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
15 6 0.18
17 7 0.21
18 1 0.03
19 1 0.03
20 7 0.21
22 11 0.33
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.45
Consensus pattern (22 bp):
ATATTAATTAAGCTTCAATTAC
Found at i:58756900 original size:44 final size:43
Alignment explanation
Indices: 58756837--58756967 Score: 199
Period size: 43 Copynumber: 3.0 Consensus size: 43
58756827 TTTTATCCTA
* * *
58756837 GAAAAAAGAATTTATAAAGAGGAGAATATAATCTTGGGTTGTT
1 GAAAAAAGAATTTAAAAAGAGGATAAGATAATCTTGGGTTGTT
*
58756880 GAAAAAAGAGTTTTAAAAAGAGGATAAGATAATCTTGGGTTGTT
1 GAAAAAAGA-ATTTAAAAAGAGGATAAGATAATCTTGGGTTGTT
* *
58756924 GAAAAAAGAATTTAAAAAGAGGATAAGATAAACATGGGTTGTT
1 GAAAAAAGAATTTAAAAAGAGGATAAGATAATCTTGGGTTGTT
58756967 G
1 G
58756968 GATTGACCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 41 0.51
44 39 0.49
ACGTcount: A:0.46, C:0.02, G:0.24, T:0.27
Consensus pattern (43 bp):
GAAAAAAGAATTTAAAAAGAGGATAAGATAATCTTGGGTTGTT
Found at i:58772659 original size:12 final size:13
Alignment explanation
Indices: 58772635--58772663 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
58772625 GGGCTATAAC
58772635 TATTGCATTTATT
1 TATTGCATTTATT
58772648 TATTGC-TTTATT
1 TATTGCATTTATT
58772660 TATT
1 TATT
58772664 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:58776759 original size:46 final size:46
Alignment explanation
Indices: 58776709--58776884 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
58776699 TGGTTGAGCA
58776709 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
58776755 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
58776800 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
58776848 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58776885 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:58776865 original size:93 final size:93
Alignment explanation
Indices: 58776706--58776877 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
58776696 GGATGGTTGA
*
58776706 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
58776771 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
58776799 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGAG
58776863 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
58776878 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 74 0.99
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:58782723 original size:42 final size:44
Alignment explanation
Indices: 58782644--58782747 Score: 117
Period size: 42 Copynumber: 2.4 Consensus size: 44
58782634 CTTCGACTTA
58782644 TGATTTACGTGTAAGACCATGTCTGGGACATCAGCATCG-TATT
1 TGATTTACGTGTAAGACCATGTCTGGGACATCAGCATCGATATT
* * *
58782687 TGATTT-CGTGTAAGACCCTGTTTGGGACAGT-GGCATCGATATT
1 TGATTTACGTGTAAGACCATGTCTGGGACA-TCAGCATCGATATT
* * *
58782730 CGA-TTACATGTATGACCA
1 TGATTTACGTGTAAGACCA
58782748 CGTAGGACGT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
42 29 0.57
43 22 0.43
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (44 bp):
TGATTTACGTGTAAGACCATGTCTGGGACATCAGCATCGATATT
Found at i:58784571 original size:23 final size:23
Alignment explanation
Indices: 58784537--58784594 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
58784527 CACGTTTACC
*
58784537 ACTATT-GCAGCTTTGCTGCATT
1 ACTATTAGCAGCTTTGCTACATT
*
58784559 ACTATTAGCAGCTTTGCTACGTT
1 ACTATTAGCAGCTTTGCTACATT
58784582 ACTATTAGCAGCT
1 ACTATTAGCAGCT
58784595 ACGCTACGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
22 6 0.18
23 27 0.82
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.38
Consensus pattern (23 bp):
ACTATTAGCAGCTTTGCTACATT
Found at i:58784600 original size:23 final size:23
Alignment explanation
Indices: 58784557--58784602 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
58784547 CTTTGCTGCA
**
58784557 TTACTATTAGCAGCTTTGCTACG
1 TTACTATTAGCAGCTACGCTACG
58784580 TTACTATTAGCAGCTACGCTACG
1 TTACTATTAGCAGCTACGCTACG
58784603 ATATTGGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (23 bp):
TTACTATTAGCAGCTACGCTACG
Found at i:58787977 original size:45 final size:46
Alignment explanation
Indices: 58787856--58787978 Score: 205
Period size: 45 Copynumber: 2.7 Consensus size: 46
58787846 GGTTGAGCAT
* *
58787856 CCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
58787901 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
58787946 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58787979 GGGGCGGGTT
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
45 65 0.88
46 9 0.12
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:58794330 original size:46 final size:46
Alignment explanation
Indices: 58794280--58794452 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
58794270 TGGTTGAGCA
58794280 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
58794326 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
58794371 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
58794419 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58794453 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:58794436 original size:93 final size:93
Alignment explanation
Indices: 58794277--58794447 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
58794267 GGATGGTTGA
* *
58794277 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
58794342 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
58794370 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
58794435 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
58794448 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:58811926 original size:56 final size:56
Alignment explanation
Indices: 58811786--58811977 Score: 289
Period size: 56 Copynumber: 3.4 Consensus size: 56
58811776 GAAGAATATG
* *
58811786 TGGCATCGATATGTGACTT-TGATATATGTGTTCGAGTAAGACCACGTTTAATA-GT
1 TGGCATCGATATGTGA-TTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGT
*
58811841 TGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGTCCACGTTTAATACGT
1 TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGT
* * *
58811897 TAGCATCGATATGTGATTCTGATATATGTGTGCAAGTAAGTCCACGTTTCATACGT
1 TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGT
* *
58811953 TGGTATCAATATGTGATTCTGATAT
1 TGGCATCGATATGTGATTCTGATAT
58811978 GTGTTCACGA
Statistics
Matches: 125, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
54 2 0.02
55 47 0.38
56 76 0.61
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (56 bp):
TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGT
Found at i:58812023 original size:112 final size:110
Alignment explanation
Indices: 58811785--58812026 Score: 265
Period size: 112 Copynumber: 2.2 Consensus size: 110
58811775 GGAAGAATAT
* * *
58811785 GTGGCATCGATATGTGACTTTGATATATGTGTTCGAGTAAGACCACGTTTAATAGTTGGCATCGA
1 GTGGCATCGATATGTGACTTTGATATATGTGTGCAAGTAAGACCACGTTTAATAGTTGGCATCAA
* * * *
58811850 TATGTGATTCCGATATATGTGTGCGAGTAAGTCCACGTTTAATAC
66 TATGTGATTCCGATATATGTGTACGAGTAAGACCACGTCTAAGAC
* * * *
58811895 GTTAGCATCGATATGTGA-TTCTGATATATGTGTGCAAGTAAGTCCACGTTTCATACGTTGGTAT
1 G-TGGCATCGATATGTGACTT-TGATATATGTGTGCAAGTAAGACCACGTTTAATA-GTTGGCAT
* * **
58811959 CAATATGTGATTCTGATATGTGT-TCACGAGTAAGACC-CTGTCTGGGAC
63 CAATATGTGATTCCGATATATGTGT-ACGAGTAAGACCAC-GTCTAAGAC
*
58812007 AGTGGCACCGATATGTGACT
1 -GTGGCATCGATATGTGACT
58812027 ACATGTAAGA
Statistics
Matches: 108, Mismatches: 17, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
110 3 0.03
111 47 0.44
112 56 0.52
113 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (110 bp):
GTGGCATCGATATGTGACTTTGATATATGTGTGCAAGTAAGACCACGTTTAATAGTTGGCATCAA
TATGTGATTCCGATATATGTGTACGAGTAAGACCACGTCTAAGAC
Found at i:58816286 original size:29 final size:29
Alignment explanation
Indices: 58816254--58816317 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
58816244 CTTCGAGCTC
*
58816254 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
58816283 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
58816312 GCACAC
1 GCACAC
58816318 TTAGTACCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.25
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:58816318 original size:29 final size:29
Alignment explanation
Indices: 58816262--58816322 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
58816252 TCGCACACCC
*
58816262 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
58816291 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
58816320 AGT
1 AGT
58816323 ACCGATCTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:58824097 original size:29 final size:29
Alignment explanation
Indices: 58824073--58824137 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
58824063 TCGCACACCC
58824073 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCGTATATTTCCAGCATGCACACTT
*
58824102 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCGTATATTTCCAGCATGCACACTT
58824131 AGTGCCG
1 AGTGCCG
58824138 ATCTCGTCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (29 bp):
AGTGCCGTATATTTCCAGCATGCACACTT
Found at i:58827501 original size:16 final size:16
Alignment explanation
Indices: 58827482--58827512 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58827472 CTTCTTCACT
58827482 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
58827498 TACTTACTTACTTAA
1 TACTCACTTACTTAA
58827513 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:58827518 original size:20 final size:20
Alignment explanation
Indices: 58827479--58827518 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
58827469 AAACTTCTTC
* *
58827479 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
58827499 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
58827519 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:58827894 original size:55 final size:55
Alignment explanation
Indices: 58827750--58827959 Score: 250
Period size: 55 Copynumber: 3.9 Consensus size: 55
58827740 GTATACTTTT
* * * *
58827750 GAAACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAT-
1 GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
58827804 G-AACTCACCAATGTTATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA
* *
58827858 GAAACTTACCAATGTCATGTCTTGACATGGTCTTACATGATATCCTTGCC-TA-A
1 GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* *
58827911 GAAACCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 GAAA-CTTACCAATGT-CATGCCTTGACATGGTCTTACATGGTATCCTT
58827960 AAACCCTAAT
Statistics
Matches: 132, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
52 2 0.02
53 46 0.35
54 14 0.11
55 68 0.52
56 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (55 bp):
GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:58832550 original size:48 final size:48
Alignment explanation
Indices: 58832474--58832648 Score: 260
Period size: 48 Copynumber: 3.6 Consensus size: 48
58832464 ATATGAATGT
**
58832474 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGC
* * * * * *
58832522 CAGTATAAGACCATGTTTAGGACATGGCATCGACCACCTTATAAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGC
*
58832570 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGC
*
58832618 CAGTGCAAGACCATGTCTGGGACATGGCATC
1 CAGTGTAAGACCATGTCTGGGACATGGCATC
58832649 AGGAATAAGA
Statistics
Matches: 111, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 111 1.00
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGC
Found at i:58832641 original size:96 final size:96
Alignment explanation
Indices: 58832474--58832648 Score: 287
Period size: 96 Copynumber: 1.8 Consensus size: 96
58832464 ATATGAATGT
* * *
58832474 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAGTATAAGACCATGTT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAACATGAGAGCCAGTACAAGACCATGTC
58832539 TAGGACATGGCATCGACCACCTTATAAGAGC
66 TAGGACATGGCATCGACCACCTTATAAGAGC
** *
58832570 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAGCCAGTGCAAGACCATGTC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAACATGAGAGCCAGTACAAGACCATGTC
*
58832635 TGGGACATGGCATC
66 TAGGACATGGCATC
58832649 AGGAATAAGA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (96 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAACATGAGAGCCAGTACAAGACCATGTC
TAGGACATGGCATCGACCACCTTATAAGAGC
Found at i:58832671 original size:96 final size:95
Alignment explanation
Indices: 58832474--58832685 Score: 248
Period size: 96 Copynumber: 2.2 Consensus size: 95
58832464 ATATGAATGT
* * *
58832474 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAGTATAAGACCATGTT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAACATGAGAGCCAGTACAAGACCATGTC
*** *
58832539 TAGGACATGGCATCGACCACCTTATAAGAGC
66 TAGGACATGGCATCGA-CACAAGATAAGAAC
** *
58832570 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAGCCAGTGCAAGACCATGTC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAACATGAGAGCCAGTACAAGACCATGTC
* *
58832635 TGGGACATGGCATCAGGA-ATAAGATGAA-AAC
66 TAGGACATGGCATC--GACACAAGAT-AAGAAC
* *
58832666 TAGTGTAAGACCATGCCTGG
1 CAGTGTAAGACCATGTCTGG
58832686 TGTAACACCC
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
96 95 0.96
97 2 0.02
98 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (95 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAACATGAGAGCCAGTACAAGACCATGTC
TAGGACATGGCATCGACACAAGATAAGAAC
Found at i:58832676 original size:48 final size:48
Alignment explanation
Indices: 58832474--58832685 Score: 185
Period size: 48 Copynumber: 4.4 Consensus size: 48
58832464 ATATGAATGT
* * * * *
58832474 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCAACAAGATGAAAAC
* * * * *** *
58832522 CAGTATAAGACCATGTTTAGGACATGGCATC-GACCACCTTAT-AAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAG-CAACAAGATGAA-AAC
* ** * *
58832570 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCAACAAGATGAAAAC
* * *
58832618 CAGTGCAAGACCATGTCTGGGACATGGCATCAGGAATAAGATGAAAAC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCAACAAGATGAAAAC
* *
58832666 TAGTGTAAGACCATGCCTGG
1 CAGTGTAAGACCATGTCTGG
58832686 TGTAACACCC
Statistics
Matches: 137, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
47 2 0.01
48 133 0.97
49 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCAGCAACAAGATGAAAAC
Found at i:58841238 original size:28 final size:28
Alignment explanation
Indices: 58841206--58841304 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
58841196 GCAATAAGCC
*
58841206 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
58841234 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
58841262 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
58841291 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58841305 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:58850864 original size:52 final size:52
Alignment explanation
Indices: 58850818--58850924 Score: 169
Period size: 52 Copynumber: 2.1 Consensus size: 52
58850808 TTCTCTTAGT
*
58850818 TCTAGGATGCCAAAAAATACTCGAATATCTTCATTAAGACCATTCTCAAACC
1 TCTAGGATGCCAAAAAATACTCAAATATCTTCATTAAGACCATTCTCAAACC
** * *
58850870 TCTAGGATGCCAACGAATACTCAAATATCTTCATTAAGACCATCCTCGAACC
1 TCTAGGATGCCAAAAAATACTCAAATATCTTCATTAAGACCATTCTCAAACC
58850922 TCT
1 TCT
58850925 TACACATAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.36, C:0.27, G:0.10, T:0.27
Consensus pattern (52 bp):
TCTAGGATGCCAAAAAATACTCAAATATCTTCATTAAGACCATTCTCAAACC
Found at i:58852173 original size:13 final size:13
Alignment explanation
Indices: 58852155--58852179 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58852145 CCTGGCACAC
58852155 GCCCGTGTCCTTG
1 GCCCGTGTCCTTG
58852168 GCCCGTGTCCTT
1 GCCCGTGTCCTT
58852180 CACACGGCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.40, G:0.28, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCCTTG
Found at i:58856446 original size:48 final size:48
Alignment explanation
Indices: 58856362--58856552 Score: 247
Period size: 48 Copynumber: 4.0 Consensus size: 48
58856352 GACATTTGGG
* *
58856362 TGATATGAGTGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
1 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* * *
58856410 TGATGTGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAT
1 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* * * *
58856458 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT
1 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
** * * * *
58856506 CAATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCA
1 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
58856553 ATTCACCCTC
Statistics
Matches: 124, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 124 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (48 bp):
TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
Found at i:58858713 original size:40 final size:40
Alignment explanation
Indices: 58858605--58858814 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
58858595 CGGGATTTAA
* * * * *
58858605 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
58858645 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58858685 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58858725 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58858765 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58858805 CCGGATATAT
1 CCGGATATAT
58858815 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:58866843 original size:40 final size:40
Alignment explanation
Indices: 58866735--58866944 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
58866725 CGGGATTTAA
* * * * *
58866735 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
58866775 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58866815 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58866855 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58866895 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58866935 CCGGATATAT
1 CCGGATATAT
58866945 TTCAATGTTC
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:58869078 original size:21 final size:21
Alignment explanation
Indices: 58869009--58869080 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
58868999 AAGAAGACAT
* * *
58869009 ACGGGCATGTCGCCTTTCCAC
1 ACGGGCGTGCCGCCCTTCCAC
* *
58869030 AAGGGCGTGCCGCCCTTCCAT
1 ACGGGCGTGCCGCCCTTCCAC
58869051 ACGGGCGTGCCGCCCTTCCAC
1 ACGGGCGTGCCGCCCTTCCAC
*
58869072 ACTGGCGTG
1 ACGGGCGTG
58869081 TGTCCCTATT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.12, C:0.39, G:0.29, T:0.19
Consensus pattern (21 bp):
ACGGGCGTGCCGCCCTTCCAC
Found at i:58871126 original size:42 final size:40
Alignment explanation
Indices: 58871067--58871157 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 40
58871057 AAATCAAAAG
* * *
58871067 TATTGAAACCTTTAACAAATTATCAATACCTTCCCCTATTTT
1 TATTGATACATTTAACAAAGTATCAATACCTT-CCCTA-TTT
**
58871109 TATTGATACATTTAACAAAGTATTGATACCTTCCCTATTT
1 TATTGATACATTTAACAAAGTATCAATACCTTCCCTATTT
*
58871149 TATCGATAC
1 TATTGATAC
58871158 CCCTACCTGG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 11 0.26
41 5 0.12
42 27 0.63
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (40 bp):
TATTGATACATTTAACAAAGTATCAATACCTTCCCTATTT
Found at i:58873306 original size:23 final size:23
Alignment explanation
Indices: 58873276--58873321 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
58873266 TACTTTTTGA
58873276 AACTGTTAGAGATTTTGAAAGTT
1 AACTGTTAGAGATTTTGAAAGTT
*
58873299 AACTGTTAGAGATTTTGAGAGTT
1 AACTGTTAGAGATTTTGAAAGTT
58873322 TTCATTGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (23 bp):
AACTGTTAGAGATTTTGAAAGTT
Found at i:58876778 original size:29 final size:29
Alignment explanation
Indices: 58876738--58876840 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
58876728 GTTGAGAGAT
*
58876738 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
58876767 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
58876796 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
58876825 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58876841 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:58883904 original size:46 final size:46
Alignment explanation
Indices: 58883852--58883979 Score: 211
Period size: 46 Copynumber: 2.8 Consensus size: 46
58883842 GGTTGAGCAT
*
58883852 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
58883898 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
58883944 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58883980 GCGGGTTACA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:58887564 original size:29 final size:29
Alignment explanation
Indices: 58887524--58887626 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
58887514 GTTGAGAGAT
*
58887524 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
58887553 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
58887582 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
58887611 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58887627 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:58893003 original size:40 final size:40
Alignment explanation
Indices: 58892937--58893103 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
58892927 AAATTGAATG
* * *
58892937 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
58892976 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
58893016 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
58893056 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
58893096 ATATCCGG
1 ATATCCGG
58893104 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:58900986 original size:40 final size:40
Alignment explanation
Indices: 58900920--58901086 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
58900910 AAATTGAATG
* * *
58900920 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
58900959 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
58900999 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
58901039 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
58901079 ATATCCGG
1 ATATCCGG
58901087 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:58904053 original size:27 final size:27
Alignment explanation
Indices: 58904021--58904072 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
58904011 ATGTTTTTAA
*
58904021 ACACGGGCATATCATGGCTGTGTAAGG
1 ACACGGGCATATCATGGCCGTGTAAGG
* *
58904048 ACACGGGCGTGTCATGGCCGTGTAA
1 ACACGGGCATATCATGGCCGTGTAA
58904073 AAACCCTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.35, T:0.21
Consensus pattern (27 bp):
ACACGGGCATATCATGGCCGTGTAAGG
Found at i:58907793 original size:47 final size:47
Alignment explanation
Indices: 58907684--58907794 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
58907674 CCGGGATAAG
*
58907684 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
58907731 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
58907778 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
58907795 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:58915036 original size:47 final size:47
Alignment explanation
Indices: 58914927--58915037 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
58914917 CCGGGATAAG
*
58914927 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
58914974 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
58915021 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
58915038 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:58919528 original size:196 final size:195
Alignment explanation
Indices: 58919161--58919555 Score: 487
Period size: 196 Copynumber: 2.0 Consensus size: 195
58919151 TATTTTAAAT
*
58919161 TTATTTTAATTAAGTTTTCTATTTATTTAATTCATTATTTTTAAGAGAATTCACTTAATATTTTT
1 TTATTTTAATTAAGTTTTCTATTTATATAATTCATTATTTTTAAGAG-ATT-ACTTAATATTTTT
* * * *
58919226 TATATGTGTTGAGATTACTTTAATAATTTTACTTTGTTTTAAAAATCATTATTTTGAAGTTTTTA
64 TATATGTGTTGAGACTACTTTAATAACTTTACTTTGTTTTAAAAATCATCATTTTAAAGTTTTTA
* * * * *
58919291 TATTATATTATTTTAACATCTTGTATAACATTTCATTTAAATATTTTTATATATATTTGTACATA
129 TATCATATTATTTTAACATCTTATATAACATTTCATTTAAATAGTTTTATATATAGTGGTACATA
58919356 TA
194 TA
* * *
58919358 TTATTTTAATTGAGTTTTCTATTTGTAATACTT-ATTA-TTTTAA-AG-TT-CTTAATATTTTTA
1 TTATTTTAATTAAGTTTTCTATTTAT-ATAATTCATTATTTTTAAGAGATTACTTAATATTTTT-
* *
58919418 TATATGTGTTGAG-CTATTTTAATAACTTTATTTTGTTTTTATAAAATCATCATTTTAAAGTTCT
64 TATATGTGTTGAGACTACTTTAATAACTTTACTTTG-TTTTA-AAAATCATCATTTTAAAG---T
* * * * *
58919482 TTTTATATCATATTATTTTAACATTTTATATAATATTTCGTTTAAATGGTTTTGTATATAGTGGT
124 TTTTATATCATATTATTTTAACATCTTATATAACATTTCATTTAAATAGTTTTATATATAGTGGT
58919547 ACATATA
189 ACATATA
58919554 TT
1 TT
58919556 TGATCTTAGA
Statistics
Matches: 171, Mismatches: 20, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
191 30 0.18
192 18 0.11
193 18 0.11
195 2 0.01
196 71 0.42
197 28 0.16
198 4 0.02
ACGTcount: A:0.31, C:0.06, G:0.07, T:0.55
Consensus pattern (195 bp):
TTATTTTAATTAAGTTTTCTATTTATATAATTCATTATTTTTAAGAGATTACTTAATATTTTTTA
TATGTGTTGAGACTACTTTAATAACTTTACTTTGTTTTAAAAATCATCATTTTAAAGTTTTTATA
TCATATTATTTTAACATCTTATATAACATTTCATTTAAATAGTTTTATATATAGTGGTACATATA
Found at i:58928282 original size:19 final size:19
Alignment explanation
Indices: 58928239--58928279 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
58928229 ATCTGATGCA
**
58928239 TTTTATAATTTTTTATGAT
1 TTTTATAAAATTTTATGAT
58928258 TTTTATAAAATTTTAT-AT
1 TTTTATAAAATTTTATGAT
58928276 TTTT
1 TTTT
58928280 TATGACTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTATAAAATTTTATGAT
Found at i:58928292 original size:28 final size:29
Alignment explanation
Indices: 58928238--58928292 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
58928228 CATCTGATGC
* *
58928238 ATTTTATAATTTTTTATGATTTTTATAAA
1 ATTTTATAATTTTTTATGACTTGTATAAA
58928267 ATTTTAT-ATTTTTTATGACTTGTATA
1 ATTTTATAATTTTTTATGACTTGTATA
58928293 TATATTTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (29 bp):
ATTTTATAATTTTTTATGACTTGTATAAA
Found at i:58928372 original size:9 final size:9
Alignment explanation
Indices: 58928239--58928373 Score: 60
Period size: 9 Copynumber: 14.4 Consensus size: 9
58928229 ATCTGATGCA
58928239 TTTTATAATT
1 TTTTATAA-T
*
58928249 TTTTATGAT
1 TTTTATAAT
*
58928258 TTTTATAAAA
1 TTTTAT-AAT
*
58928268 TTTTATATT
1 TTTTATAAT
* *
58928277 TTTTATGAC
1 TTTTATAAT
*
58928286 TTGTATATAT
1 TTTTATA-AT
* *
58928296 ATTTCTAAT
1 TTTTATAAT
*
58928305 TTTTAGTATT
1 TTTTA-TAAT
*
58928315 TTTTTTACAT
1 TTTTATA-AT
*
58928325 TTTTATTAAAG
1 TTTTA-T-AAT
*
58928336 TTTAATAAT
1 TTTTATAAT
*
58928345 TTTTATTGA-
1 TTTTA-TAAT
58928354 TTTTAT--T
1 TTTTATAAT
58928361 TTTTATAAT
1 TTTTATAAT
58928370 TTTT
1 TTTT
58928374 TGTCACATGT
Statistics
Matches: 90, Mismatches: 25, Indels: 21
0.66 0.18 0.15
Matches are distributed among these distances:
7 6 0.07
8 1 0.01
9 42 0.47
10 34 0.38
11 6 0.07
12 1 0.01
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:58930443 original size:14 final size:14
Alignment explanation
Indices: 58930424--58930450 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58930414 AAATTAATAG
58930424 AAGAAAAAGAAAAA
1 AAGAAAAAGAAAAA
58930438 AAGAAAAAGAAAA
1 AAGAAAAAGAAAA
58930451 GCAAAACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAGAAAAAGAAAAA
Found at i:58934781 original size:17 final size:17
Alignment explanation
Indices: 58934739--58934782 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
58934729 TTTTAAAATT
*
58934739 ATTATAAAAATTATTAA
1 ATTATTAAAATTATTAA
*
58934756 A-AATGTAAAATTATTAA
1 ATTAT-TAAAATTATTAA
58934773 ATTATTAAAA
1 ATTATTAAAA
58934783 AGTATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
16 2 0.09
17 18 0.82
18 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
ATTATTAAAATTATTAA
Found at i:58936722 original size:20 final size:22
Alignment explanation
Indices: 58936674--58936715 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
58936664 TGACACAAAC
58936674 AGTTGAAAACAGTAAAAAAAAT
1 AGTTGAAAACAGTAAAAAAAAT
58936696 AGTTGAAAACAGTAAAAAAA
1 AGTTGAAAACAGTAAAAAAA
58936716 TTTTGAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.64, C:0.05, G:0.14, T:0.17
Consensus pattern (22 bp):
AGTTGAAAACAGTAAAAAAAAT
Found at i:58936791 original size:27 final size:27
Alignment explanation
Indices: 58936753--58936808 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
58936743 ATAATAAAAT
*
58936753 ACTGGTCTTGCCTCTGTCAGAGGCGGC
1 ACTGGTCTTGCCTCTGCCAGAGGCGGC
58936780 ACTGGTCTTGCCTCTGCCAGAGGCGGC
1 ACTGGTCTTGCCTCTGCCAGAGGCGGC
58936807 AC
1 AC
58936809 CAGTTGGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.12, C:0.32, G:0.32, T:0.23
Consensus pattern (27 bp):
ACTGGTCTTGCCTCTGCCAGAGGCGGC
Found at i:58937119 original size:2 final size:2
Alignment explanation
Indices: 58937112--58937141 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
58937102 CTAATATGAT
58937112 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
58937142 GAGAGAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:58937146 original size:2 final size:2
Alignment explanation
Indices: 58937141--58937169 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
58937131 ATATATATAT
58937141 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
58937170 TTTACACATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Done.