Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 97 of 373
Found at i:31449072 original size:57 final size:57
Alignment explanation
Indices: 31449008--31449130 Score: 246
Period size: 57 Copynumber: 2.2 Consensus size: 57
31448998 CGTGCTTAAA
31449008 GCCGTGTGAAAATAGGGCAAAGATTTTCCCAAACACGGGCTACGATAAAATGCCATG
1 GCCGTGTGAAAATAGGGCAAAGATTTTCCCAAACACGGGCTACGATAAAATGCCATG
31449065 GCCGTGTGAAAATAGGGCAAAGATTTTCCCAAACACGGGCTACGATAAAATGCCATG
1 GCCGTGTGAAAATAGGGCAAAGATTTTCCCAAACACGGGCTACGATAAAATGCCATG
31449122 GCCGTGTGA
1 GCCGTGTGA
31449131 CATGGCCGTG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 66 1.00
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (57 bp):
GCCGTGTGAAAATAGGGCAAAGATTTTCCCAAACACGGGCTACGATAAAATGCCATG
Found at i:31449195 original size:55 final size:55
Alignment explanation
Indices: 31449136--31449261 Score: 130
Period size: 55 Copynumber: 2.3 Consensus size: 55
31449126 TGTGACATGG
* * *
31449136 CCGTGGTCGAACCTGTCAAAACAACACGGGCGTGCGACATTCCCGTGTGGAAG-AA
1 CCGTGGTCGAACCTGTCAAAACAACACGAGCGTGCGACATGCCCGTGT-CAAGCAA
* * * * * * *
31449191 CCGTGGGT-GAACCTATTAAAACAGCATGAGCGTGTGACATGCCCGTGTCTAGCAC
1 CCGT-GGTCGAACCTGTCAAAACAACACGAGCGTGCGACATGCCCGTGTCAAGCAA
31449246 CCGTGGTCGAACCTGT
1 CCGTGGTCGAACCTGT
31449262 TAGATTGACA
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
54 5 0.09
55 49 0.86
56 3 0.05
ACGTcount: A:0.25, C:0.27, G:0.29, T:0.20
Consensus pattern (55 bp):
CCGTGGTCGAACCTGTCAAAACAACACGAGCGTGCGACATGCCCGTGTCAAGCAA
Found at i:31463717 original size:46 final size:46
Alignment explanation
Indices: 31463667--31463825 Score: 155
Period size: 46 Copynumber: 3.4 Consensus size: 46
31463657 TCGTTGAATC
* *
31463667 GAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCACTGAGTT
1 GAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCATTGAGTT
* * *
31463713 GAGTCCGAGTTC-GTGA--GATG-TAACTAGGGATCCGAGCTCATTGAGTT
1 GAGTCCGAGTTCACTTATGGATGCGAA-T---G-TCCGAGCTCATTGAGTT
* * * * *
31463760 GAGTCCGAGTTCACCTATGAATACGAACGCCCGAGCTCATTGAGTT
1 GAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCATTGAGTT
31463806 GAGTCCGAGTTCACTTATGG
1 GAGTCCGAGTTCACTTATGG
31463826 GCGGGTTACA
Statistics
Matches: 89, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.06
45 2 0.02
46 47 0.53
47 28 0.31
48 1 0.01
50 2 0.02
51 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (46 bp):
GAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCATTGAGTT
Found at i:31463768 original size:20 final size:20
Alignment explanation
Indices: 31463743--31463814 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 20
31463733 TAACTAGGGA
31463743 TCCGAGCTCATTGAGTTGAG
1 TCCGAGCTCATTGAGTTGAG
* * *
31463763 TCCGAGTTCACCTATGAATACGAACG
1 TCCGAGCTCA--T-TGAGT-TG-A-G
*
31463789 CCCGAGCTCATTGAGTTGAG
1 TCCGAGCTCATTGAGTTGAG
31463809 TCCGAG
1 TCCGAG
31463815 TTCACTTATG
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
20 15 0.39
21 1 0.03
22 2 0.05
23 8 0.21
24 2 0.05
25 1 0.03
26 9 0.24
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (20 bp):
TCCGAGCTCATTGAGTTGAG
Found at i:31463808 original size:93 final size:93
Alignment explanation
Indices: 31463649--31463817 Score: 239
Period size: 93 Copynumber: 1.8 Consensus size: 93
31463639 ATATTTGGGC
* * * * * *
31463649 ATCCGAACTCGTTGAATCGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCACTGAGTTG
1 ATCCGAACTCATTGAATCGAGTCCGAGTTCACCTATGAATACGAACGCCCGAACTCACTGAGTTG
31463714 AGTCCGAGTTCGTGAGATGTAACTAGGG
66 AGTCCGAGTTCGTGAGATGTAACTAGGG
* * * * *
31463742 ATCCGAGCTCATTGAGTTGAGTCCGAGTTCACCTATGAATACGAACGCCCGAGCTCATTGAGTTG
1 ATCCGAACTCATTGAATCGAGTCCGAGTTCACCTATGAATACGAACGCCCGAACTCACTGAGTTG
31463807 AGTCCGAGTTC
66 AGTCCGAGTTC
31463818 ACTTATGGGC
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 65 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (93 bp):
ATCCGAACTCATTGAATCGAGTCCGAGTTCACCTATGAATACGAACGCCCGAACTCACTGAGTTG
AGTCCGAGTTCGTGAGATGTAACTAGGG
Found at i:31470228 original size:20 final size:20
Alignment explanation
Indices: 31470203--31470243 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
31470193 GGGCAAAAGT
31470203 GTAAAATGTGGAACTTTAGG
1 GTAAAATGTGGAACTTTAGG
*
31470223 GTAAAATGTGGAATTTTAGG
1 GTAAAATGTGGAACTTTAGG
31470243 G
1 G
31470244 GCAAAAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.32, T:0.32
Consensus pattern (20 bp):
GTAAAATGTGGAACTTTAGG
Found at i:31470253 original size:22 final size:20
Alignment explanation
Indices: 31470205--31470253 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
31470195 GCAAAAGTGT
* *
31470205 AAAATGTGGAACTTTAGGGT
1 AAAATGTGGAATTTTAGGGA
31470225 AAAATGTGGAATTTTAGGGGCA
1 AAAATGTGGAATTTTA-GGG-A
31470247 AAAATGT
1 AAAATGT
31470254 AATTTTACCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 15 0.60
21 3 0.12
22 7 0.28
ACGTcount: A:0.39, C:0.04, G:0.29, T:0.29
Consensus pattern (20 bp):
AAAATGTGGAATTTTAGGGA
Found at i:31470667 original size:48 final size:48
Alignment explanation
Indices: 31470611--31470793 Score: 143
Period size: 48 Copynumber: 3.8 Consensus size: 48
31470601 ACATGTGAGT
* * * **
31470611 ATAA-AGATCCCGTGTAAGACCATATCTGGGATATGACATTGGCATTG
1 ATAAGAGATCCCATATAAGACCATATCTGGGATATGGCATTGGCACCG
* ** * * **
31470658 ATAAGAGATCCCATATAAGATCACGTCTAGGACATGGCATCAGCACCG
1 ATAAGAGATCCCATATAAGACCATATCTGGGATATGGCATTGGCACCG
* * * * * *
31470706 GTATGAGATCTCATGTAAGACCATATCTGGGATATGGCATTGGTAGCG
1 ATAAGAGATCCCATATAAGACCATATCTGGGATATGGCATTGGCACCG
* * * * * *
31470754 ATATGAGGTCCCGTATAAGACCATGTCTAGGACATGGCAT
1 ATAAGAGATCCCATATAAGACCATATCTGGGATATGGCAT
31470794 CAACACCATT
Statistics
Matches: 102, Mismatches: 33, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
47 4 0.04
48 98 0.96
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (48 bp):
ATAAGAGATCCCATATAAGACCATATCTGGGATATGGCATTGGCACCG
Found at i:31470747 original size:96 final size:96
Alignment explanation
Indices: 31470623--31470842 Score: 280
Period size: 96 Copynumber: 2.3 Consensus size: 96
31470613 AAAGATCCCG
* ** *
31470623 TGTAAGACCATATCTGGGATATGACATTGGCATTGATAAGAGATCCCATATAAGATCACGTCTAG
1 TGTAAGACCATATCTGGGATATGGCATTGGCAGCGATAAGAGATCCCATATAAGACCACGTCTAG
* *
31470688 GACATGGCATCAGCACCGGTATGAGA-TCTCA
66 GACATGGCATCAACACCAGTATGAGACT-TCA
* * * * *
31470719 TGTAAGACCATATCTGGGATATGGCATTGGTAGCGATATGAGGTCCCGTATAAGACCATGTCTAG
1 TGTAAGACCATATCTGGGATATGGCATTGGCAGCGATAAGAGATCCCATATAAGACCACGTCTAG
* *
31470784 GACATGGCATCAACACCATTATGAGACTTCG
66 GACATGGCATCAACACCAGTATGAGACTTCA
* *
31470815 TGTAAGACCATAGCTGGGCTATTGGCAT
1 TGTAAGACCATATCTGGGATA-TGGCAT
31470843 CGATGTGAGA
Statistics
Matches: 107, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
96 100 0.93
97 7 0.07
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (96 bp):
TGTAAGACCATATCTGGGATATGGCATTGGCAGCGATAAGAGATCCCATATAAGACCACGTCTAG
GACATGGCATCAACACCAGTATGAGACTTCA
Found at i:31470807 original size:48 final size:47
Alignment explanation
Indices: 31470662--31470809 Score: 134
Period size: 48 Copynumber: 3.1 Consensus size: 47
31470652 GCATTGATAA
* * *
31470662 GAGATCCCATATAAGATCACGTCTAGGACATGGCATCAGCACCGGTAT
1 GAGATCCCATATAAGACCATGTCTAGGACATGGCATCAGCACC-ATAT
* * * * * ** * *
31470710 GAGATCTCATGTAAGACCATATCTGGGATATGGCATTGGTAGCGATAT
1 GAGATCCCATATAAGACCATGTCTAGGACATGGCATCAGCA-CCATAT
* * *
31470758 GAGGTCCCGTATAAGACCATGTCTAGGACATGGCATCAACACCATTAT
1 GAGATCCCATATAAGACCATGTCTAGGACATGGCATCAGCACCA-TAT
31470806 GAGA
1 GAGA
31470810 CTTCGTGTAA
Statistics
Matches: 73, Mismatches: 25, Indels: 4
0.72 0.25 0.04
Matches are distributed among these distances:
47 2 0.03
48 70 0.96
49 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (47 bp):
GAGATCCCATATAAGACCATGTCTAGGACATGGCATCAGCACCATAT
Found at i:31477128 original size:18 final size:18
Alignment explanation
Indices: 31477105--31477165 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
31477095 ATATGGGGCA
31477105 TCCGAGTTCGTTGAGTGG
1 TCCGAGTTCGTTGAGTGG
**
31477123 TCCGAGTTCG--GAAG-CA
1 TCCGAGTTCGTTG-AGTGG
31477139 TCCGAGCTT-GTTGAGTGG
1 TCCGAG-TTCGTTGAGTGG
31477157 TCCGAGTTC
1 TCCGAGTTC
31477166 ATAATGGATG
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
16 8 0.24
17 8 0.24
18 17 0.52
ACGTcount: A:0.15, C:0.21, G:0.34, T:0.30
Consensus pattern (18 bp):
TCCGAGTTCGTTGAGTGG
Found at i:31488328 original size:23 final size:23
Alignment explanation
Indices: 31488293--31488414 Score: 126
Period size: 23 Copynumber: 5.3 Consensus size: 23
31488283 GACTCACCAT
31488293 AGCTC-ATATGAGCTTACTGTTTC
1 AGCTCAATA-GAGCTTACTGTTTC
* *
31488316 AGCTC-ATCAGAGCTTATTGATTC
1 AGCTCAAT-AGAGCTTACTGTTTC
*
31488339 AGCTCGAA-AGAGCTTACT-ATTC
1 AGCTC-AATAGAGCTTACTGTTTC
*
31488361 AGCTCAATAGAGCTTACCGTTTTC
1 AGCTCAATAGAGCTTACTG-TTTC
*
31488385 AGCTCAATAGAGCTTACTATTATC
1 AGCTCAATAGAGCTTACTGTT-TC
31488409 AGCTCA
1 AGCTCA
31488415 TGAAGAGTTT
Statistics
Matches: 85, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
21 2 0.02
22 18 0.21
23 35 0.41
24 29 0.34
25 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (23 bp):
AGCTCAATAGAGCTTACTGTTTC
Found at i:31490624 original size:18 final size:19
Alignment explanation
Indices: 31490584--31490626 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
31490574 CAGGCTAAAG
31490584 ACACGGGCGTGTCTGAGCC
1 ACACGGGCGTGTCTGAGCC
*
31490603 ACACGGGCGTGTGTGA-CC
1 ACACGGGCGTGTCTGAGCC
31490621 ACACGG
1 ACACGG
31490627 CTACCCACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.19, C:0.30, G:0.37, T:0.14
Consensus pattern (19 bp):
ACACGGGCGTGTCTGAGCC
Found at i:31495259 original size:48 final size:48
Alignment explanation
Indices: 31495191--31495363 Score: 184
Period size: 48 Copynumber: 3.6 Consensus size: 48
31495181 ATTGAGATAT
* * *
31495191 CGTATAAGACCATATTTGGGATATGACATTGACATCAATAAGAGATCC
1 CGTATAAGACCATATCTGGGATATGGCATTGACATCAATATGAGATCC
** * * * *
31495239 CGTATAAGACCACGTCTGGGACATGGCATCGACATCAGTATGAGATCT
1 CGTATAAGACCATATCTGGGATATGGCATTGACATCAATATGAGATCC
* * * * * *
31495287 CATGTAAGACCATATTTGGGATATGGCATTGGCATCGATATGAGGTCC
1 CGTATAAGACCATATCTGGGATATGGCATTGACATCAATATGAGATCC
** *
31495335 CGTATAAGACCATGCCTGGGACATGGCAT
1 CGTATAAGACCATATCTGGGATATGGCAT
31495364 CGGTACCGTT
Statistics
Matches: 98, Mismatches: 27, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
48 98 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (48 bp):
CGTATAAGACCATATCTGGGATATGGCATTGACATCAATATGAGATCC
Found at i:31495377 original size:48 final size:47
Alignment explanation
Indices: 31495232--31495379 Score: 143
Period size: 48 Copynumber: 3.1 Consensus size: 47
31495222 ACATCAATAA
* * *
31495232 GAGATCCCGTATAAGACCACGTCTGGGACATGGCATCGACATCAGTAT
1 GAGATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCA-CCGTAT
* * * * * * * *
31495280 GAGATCTCATGTAAGACCATATTTGGGATATGGCATTGGCATCGATAT
1 GAGATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCACCG-TAT
* * *
31495328 GAGGTCCCGTATAAGACCATGCCTGGGACATGGCATCGGTACCGTTAT
1 GAGATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCACCG-TAT
31495376 GAGA
1 GAGA
31495380 CTTCGTGTAA
Statistics
Matches: 75, Mismatches: 24, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
47 1 0.01
48 74 0.99
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (47 bp):
GAGATCCCGTATAAGACCATGTCTGGGACATGGCATCGGCACCGTAT
Found at i:31495377 original size:96 final size:96
Alignment explanation
Indices: 31495195--31495396 Score: 273
Period size: 96 Copynumber: 2.1 Consensus size: 96
31495185 AGATATCGTA
*
31495195 TAAGACCATATTTGGGATATGACATTGACATCAATAAGAGATCCCGTATAAGACCACGTCTGGGA
1 TAAGACCATATTTGGGATATGACATTGACATCAATAAGAGATCCCGTATAAGACCACGCCTGGGA
31495260 CATGGCATCGACATCAGTATGAGA-TCTCATG
66 CATGGCATCGACATCAGTATGAGACT-TCATG
* * * * * *
31495291 TAAGACCATATTTGGGATATGGCATTGGCATCGATATGAGGTCCCGTATAAGACCATGCCTGGGA
1 TAAGACCATATTTGGGATATGACATTGACATCAATAAGAGATCCCGTATAAGACCACGCCTGGGA
** * *
31495356 CATGGCATCGGTA-CCGTTATGAGACTTCGTG
66 CATGGCATCGACATCAG-TATGAGACTTCATG
31495387 TAAGACCATA
1 TAAGACCATA
31495397 GCTGGGCTGT
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
95 2 0.02
96 90 0.97
97 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (96 bp):
TAAGACCATATTTGGGATATGACATTGACATCAATAAGAGATCCCGTATAAGACCACGCCTGGGA
CATGGCATCGACATCAGTATGAGACTTCATG
Found at i:31498416 original size:27 final size:27
Alignment explanation
Indices: 31498379--31498598 Score: 162
Period size: 27 Copynumber: 8.2 Consensus size: 27
31498369 AAAATAGTCT
* * * * *
31498379 TTTTACCCTACAGGGGTATGTCGGTCA
1 TTTTACACTACAAGGGTATTTTGGTAA
* *
31498406 TTATACACTACAAGGATATTTTGGTAA
1 TTTTACACTACAAGGGTATTTTGGTAA
31498433 TTTTACACTACAAGGGTATTTTGGTAA
1 TTTTACACTACAAGGGTATTTTGGTAA
* *
31498460 TTTTACACTACAAGAGTATTTTGATAA
1 TTTTACACTACAAGGGTATTTTGGTAA
* * * **
31498487 TTTTACA-AATCGAGGGTGTTTCAGTAA
1 TTTTACACTA-CAAGGGTATTTTGGTAA
* * **
31498514 TTTTACA-AATCGAGGGTATTTCAGTAA
1 TTTTACACTA-CAAGGGTATTTTGGTAA
* * *
31498541 TTTTACA-AATCGAGGGTATTTTGATAA
1 TTTTACACTA-CAAGGGTATTTTGGTAA
* *
31498568 TTTTACA-AATC-AGGGTATTTTGATAA
1 TTTTACACTA-CAAGGGTATTTTGGTAA
31498594 TTTTA
1 TTTTA
31498599 TAAATCGAGG
Statistics
Matches: 170, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
26 21 0.12
27 149 0.88
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (27 bp):
TTTTACACTACAAGGGTATTTTGGTAA
Found at i:31498503 original size:54 final size:54
Alignment explanation
Indices: 31498416--31498757 Score: 336
Period size: 54 Copynumber: 6.4 Consensus size: 54
31498406 TTATACACTA
* * * * *
31498416 CAAGGATATTTTGGTAATTTTAC-ACTACAAGGGTATTTTGGTAATTTTAC-ACT
1 CAAGGGTATTTTGATAATTTTACAAAT-CGAGGGTATTTTGGTAATTTTACAAAT
* * **
31498469 ACAAGAGTATTTTGATAATTTTACAAATCGAGGGTGTTTCAGTAATTTTACAAAT
1 -CAAGGGTATTTTGATAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAAT
* * *
31498524 CGAGGGTA-TTTCAGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAAT
1 CAAGGGTATTTTGA-TAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAAT
* * *
31498578 C-AGGGTATTTTGATAATTTTATAAATCGAGGGTATTTCGATAATTTTACAAAT
1 CAAGGGTATTTTGATAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAAT
* * ** *
31498631 CGAGGGCATTTCAATAATTTTACAAATCGAGGGAATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGATAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAAT
** * * * * * *
31498684 CTGGGGGTATTTCGGTAATTTTACAAA-CGAGAGTACTTTGGTAACTTTCCAAAT
1 C-AAGGGTATTTTGATAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAAT
* *
31498738 CGAGGGTATTTCGATAATTT
1 CAAGGGTATTTTGATAATTT
31498758 CTCTTTATTT
Statistics
Matches: 244, Mismatches: 37, Indels: 15
0.82 0.12 0.05
Matches are distributed among these distances:
53 88 0.36
54 152 0.62
55 4 0.02
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTGATAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAAT
Found at i:31498613 original size:134 final size:134
Alignment explanation
Indices: 31498422--31498757 Score: 410
Period size: 134 Copynumber: 2.5 Consensus size: 134
31498412 ACTACAAGGA
* * * * * *
31498422 TATTTTGGTAATTTTAC-ACTACAAGGGTATTTTGGTAATTTTACACTACAAGAGTATTTTGATA
1 TATTTTGGTAATTTTACAAAT-CAAGGGTATTTTGGTAATTTTAAAAT-CGAGGGTATTTCGATA
** * *
31498486 ATTTTACAAATCGAGGGTGTTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAA-
64 ATTTTACAAATCGAGGGCATTTCAATAATTTTACAAATCGAGGGAATTTCAGTAATTTTACAAAC
31498550 TCGAGGG
129 T-GAGGG
* *
31498557 TATTTTGATAATTTTACAAATC-AGGGTATTTTGATAATTTTATAAATCGAGGGTATTTCGATAA
1 TATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTA-AAATCGAGGGTATTTCGATAA
**
31498621 TTTTACAAATCGAGGGCATTTCAATAATTTTACAAATCGAGGGAATTTTGGTAATTTTACAAACT
65 TTTTACAAATCGAGGGCATTTCAATAATTTTACAAATCGAGGGAATTTCAGTAATTTTACAAACT
*
31498686 GGGGG
130 GAGGG
* * * * **
31498691 TATTTCGGTAATTTTACAAA-CGAGAGTACTTTGGTAACTTTCCAAATCGAGGGTATTTCGATAA
1 TATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAA-TTTTAAAATCGAGGGTATTTCGATAA
31498755 TTT
65 TTT
31498758 CTCTTTATTT
Statistics
Matches: 174, Mismatches: 22, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
133 1 0.01
134 148 0.85
135 23 0.13
136 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (134 bp):
TATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTAAAATCGAGGGTATTTCGATAAT
TTTACAAATCGAGGGCATTTCAATAATTTTACAAATCGAGGGAATTTCAGTAATTTTACAAACTG
AGGG
Found at i:31498619 original size:27 final size:27
Alignment explanation
Indices: 31498475--31498757 Score: 344
Period size: 27 Copynumber: 10.6 Consensus size: 27
31498465 CACTACAAGA
*
31498475 GTATTTTGATAATTTTACAAATCGAGG
1 GTATTTCGATAATTTTACAAATCGAGG
*
31498502 GTGTTTC-AGTAATTTTACAAATCGAGG
1 GTATTTCGA-TAATTTTACAAATCGAGG
31498529 GTATTTC-AGTAATTTTACAAATCGAGG
1 GTATTTCGA-TAATTTTACAAATCGAGG
*
31498556 GTATTTTGATAATTTTACAAATC-AGG
1 GTATTTCGATAATTTTACAAATCGAGG
* *
31498582 GTATTTTGATAATTTTATAAATCGAGG
1 GTATTTCGATAATTTTACAAATCGAGG
31498609 GTATTTCGATAATTTTACAAATCGAGG
1 GTATTTCGATAATTTTACAAATCGAGG
* *
31498636 GCATTTCAATAATTTTACAAATCGAGG
1 GTATTTCGATAATTTTACAAATCGAGG
* * * *
31498663 GAATTTTGGTAATTTTACAAA-CTGGGG
1 GTATTTCGATAATTTTACAAATC-GAGG
* *
31498690 GTATTTCGGTAATTTTACAAA-CGAGA
1 GTATTTCGATAATTTTACAAATCGAGG
* * *
31498716 GTACTTT-GGTAACTTTCCAAATCGAGG
1 GTA-TTTCGATAATTTTACAAATCGAGG
31498743 GTATTTCGATAATTT
1 GTATTTCGATAATTT
31498758 CTCTTTATTT
Statistics
Matches: 226, Mismatches: 23, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
26 47 0.21
27 178 0.79
28 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GTATTTCGATAATTTTACAAATCGAGG
Found at i:31498626 original size:107 final size:107
Alignment explanation
Indices: 31498445--31498757 Score: 393
Period size: 107 Copynumber: 2.9 Consensus size: 107
31498435 TTACACTACA
* * *
31498445 AGGGTATTTTGGTAATTTTAC-ACTACAAGAGTATTTTGATAATTTTACAAATCGAGGGTGTTTC
1 AGGGTATTTTGGTAATTTTACAAAT-C-AGGGTATTTTGATAATTTTACAAATCGAGGGTATTTC
31498509 -AGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCG
64 GA-TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCG
* *
31498553 AGGGTATTTTGATAATTTTACAAATCAGGGTATTTTGATAATTTTATAAATCGAGGGTATTTCGA
1 AGGGTATTTTGGTAATTTTACAAATCAGGGTATTTTGATAATTTTACAAATCGAGGGTATTTCGA
* *
31498618 TAATTTTACAAATCGAGGGCATTTCAATAATTTTACAAATCG
66 TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCG
* ** * * *
31498660 AGGGAATTTTGGTAATTTTACAAACTGGGGGTATTTCGGTAATTTTACAAA-CGAGAGTACTTT-
1 AGGGTATTTTGGTAATTTTACAAA-TCAGGGTATTTTGATAATTTTACAAATCGAGGGTA-TTTC
* * *
31498723 GGTAACTTTCCAAATCGAGGGTATTTC-GATAATTT
64 GATAATTTTACAAATCGAGGGTATTTCAG-TAATTT
31498758 CTCTTTATTT
Statistics
Matches: 180, Mismatches: 20, Indels: 11
0.85 0.09 0.05
Matches are distributed among these distances:
107 132 0.73
108 46 0.26
109 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (107 bp):
AGGGTATTTTGGTAATTTTACAAATCAGGGTATTTTGATAATTTTACAAATCGAGGGTATTTCGA
TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCG
Found at i:31499123 original size:28 final size:28
Alignment explanation
Indices: 31499092--31499166 Score: 132
Period size: 28 Copynumber: 2.7 Consensus size: 28
31499082 TCTCGTCCAC
31499092 ATGGCCCATCAGGCCCAACCACATTCAT
1 ATGGCCCATCAGGCCCAACCACATTCAT
* *
31499120 ATGGCCTATCAGGCCCAATCACATTCAT
1 ATGGCCCATCAGGCCCAACCACATTCAT
31499148 ATGGCCCATCAGGCCCAAC
1 ATGGCCCATCAGGCCCAAC
31499167 TACTTCCCAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.28, C:0.37, G:0.16, T:0.19
Consensus pattern (28 bp):
ATGGCCCATCAGGCCCAACCACATTCAT
Found at i:31531852 original size:35 final size:35
Alignment explanation
Indices: 31531806--31531874 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
31531796 TAACCTTAAT
31531806 GAAATAATTATACAAACATTATATTCATGTCCTTG
1 GAAATAATTATACAAACATTATATTCATGTCCTTG
31531841 GAAATAATTATACAAACATTATATTCATGTCCTT
1 GAAATAATTATACAAACATTATATTCATGTCCTT
31531875 AACCGTCCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (35 bp):
GAAATAATTATACAAACATTATATTCATGTCCTTG
Found at i:31537428 original size:14 final size:15
Alignment explanation
Indices: 31537393--31537429 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
31537383 AAATATGATC
31537393 CATTCATTCCCTCATT
1 CATTCA-TCCCTCATT
31537409 CA-TCATCCCTCA-T
1 CATTCATCCCTCATT
31537422 CATTCATC
1 CATTCATC
31537430 ATTATCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.15
14 12 0.60
15 3 0.15
16 2 0.10
ACGTcount: A:0.22, C:0.41, G:0.00, T:0.38
Consensus pattern (15 bp):
CATTCATCCCTCATT
Found at i:31540684 original size:40 final size:40
Alignment explanation
Indices: 31540640--31540740 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 40
31540630 ACAAATCAAT
*
31540640 TATATATGGCACTTAGTGTGCAATTCGACATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCAATTCAACATAGCTTCGGC
* * *
31540680 TATATATGGCACTTAGTGTGCGATTTAAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCAATTCAACATAGCTTCGGC
** **
31540720 TACGTACAGCACTTAGTGTGC
1 TATATATGGCACTTAGTGTGC
31540741 GAGATATCGA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCAATTCAACATAGCTTCGGC
Found at i:31540771 original size:28 final size:28
Alignment explanation
Indices: 31540728--31540822 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
31540718 GCTACGTACA
*
31540728 GCACTTAGTGTGCGAGATATCGAGTGTG
1 GCACTTAGTGTCCGAGATATCGAGTGTG
31540756 GCACTTAGTGTCCGAGATATCGAGTGTG
1 GCACTTAGTGTCCGAGATATCGAGTGTG
* * *
31540784 GCACTTAGTG-CGCGAGATATTGAGTATA
1 GCACTTAGTGTC-CGAGATATCGAGTGTG
*
31540812 ACACTTAGTGT
1 GCACTTAGTGT
31540823 GCAAGGCTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
27 1 0.02
28 59 0.98
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (28 bp):
GCACTTAGTGTCCGAGATATCGAGTGTG
Found at i:31547624 original size:40 final size:40
Alignment explanation
Indices: 31547580--31547773 Score: 300
Period size: 40 Copynumber: 4.9 Consensus size: 40
31547570 GATATAGCTT
* *
31547580 CTCGCTCAAATGCCATCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
31547620 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* * *
31547660 CTCGCACAATTGACTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
31547700 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
31547740 CTAGCACAAATGCCTTCGAG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
31547774 CAATCCGAAT
Statistics
Matches: 142, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 13 0.09
40 129 0.91
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:31555667 original size:40 final size:40
Alignment explanation
Indices: 31555623--31555776 Score: 195
Period size: 40 Copynumber: 3.9 Consensus size: 40
31555613 GATATAGCTT
* *
31555623 CTCGCTCAAATGCCTTCGGGACTTAGTCCGATTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGATTATAGTAA
* * *
31555663 CTCGCACAATTGCTTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGATTATAGTAA
*
31555703 CTCGCGCAAATGCCTTCGGGACTTAGCCCGGA-TATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCC-GATTATAGTAA
*** *
31555743 CTCGCACAAATTATTTCGGG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGATTAT
31555777 CAATCCGAAT
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
38 1 0.01
39 11 0.11
40 85 0.87
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGATTATAGTAA
Found at i:31555739 original size:80 final size:79
Alignment explanation
Indices: 31555623--31555776 Score: 240
Period size: 80 Copynumber: 1.9 Consensus size: 79
31555613 GATATAGCTT
* * *
31555623 CTCGCTCAAATGCCTTCGGGACTTAGTCCGATTATAGTAACTCGCAC-AATTGCTTTCGGGACTT
1 CTCGCGCAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATT-ATTTCGGG-CTT
31555687 AGCCCGGTTATAGTAA
64 AGCCCGGTTATAGTAA
31555703 CTCGCGCAAATGCCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCACAAATTATTTCGGGCTTA
1 CTCGCGCAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTCGCACAAATTATTTCGGGCTTA
31555767 GCCCGGTTAT
65 GCCCGGTTAT
31555777 CAATCCGAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
79 14 0.20
80 49 0.71
81 6 0.09
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (79 bp):
CTCGCGCAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATTATTTCGGGCTTAG
CCCGGTTATAGTAA
Found at i:31561067 original size:40 final size:39
Alignment explanation
Indices: 31561023--31561125 Score: 143
Period size: 40 Copynumber: 2.6 Consensus size: 39
31561013 AAAAATCAAT
31561023 TATATATGCCACTTAGTGTGCGATTCAACATAGCTTCGGC
1 TATATATG-CACTTAGTGTGCGATTCAACATAGCTTCGGC
* *
31561063 TATATATGGCACTTAGTGTGCGATTTAAGATAGCTTCGGC
1 TATATAT-GCACTTAGTGTGCGATTCAACATAGCTTCGGC
* *
31561103 TATGTACAGCACTTAGTGTGCGA
1 TATATA-TGCACTTAGTGTGCGA
31561126 GATATCGAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
40 56 0.98
41 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.33
Consensus pattern (39 bp):
TATATATGCACTTAGTGTGCGATTCAACATAGCTTCGGC
Found at i:31561155 original size:28 final size:28
Alignment explanation
Indices: 31561111--31561182 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
31561101 GCTATGTACA
*
31561111 GCACTTAGTGTGCGAGATATCGAGTGTG
1 GCACTTAGTGTGCGAGATATCGAGTATG
*
31561139 GCACTTAGTGTGTGAGATATCGAGTATG
1 GCACTTAGTGTGCGAGATATCGAGTATG
**
31561167 AAACTTAGTGTGCGAG
1 GCACTTAGTGTGCGAG
31561183 GCTTTGAGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.25, C:0.12, G:0.33, T:0.29
Consensus pattern (28 bp):
GCACTTAGTGTGCGAGATATCGAGTATG
Found at i:31567078 original size:13 final size:13
Alignment explanation
Indices: 31567060--31567084 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31567050 ATTTGTAAAA
31567060 GTTGTAAAAATGG
1 GTTGTAAAAATGG
31567073 GTTGTAAAAATG
1 GTTGTAAAAATG
31567085 TGATTTGATG
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:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (13 bp):
GTTGTAAAAATGG
Found at i:31577356 original size:18 final size:18
Alignment explanation
Indices: 31577333--31577369 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
31577323 GGCCATTTGT
31577333 TAATTAGATGGACAAATA
1 TAATTAGATGGACAAATA
31577351 TAATTAGATGGACAAATA
1 TAATTAGATGGACAAATA
31577369 T
1 T
31577370 GGACATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (18 bp):
TAATTAGATGGACAAATA
Found at i:31584277 original size:33 final size:31
Alignment explanation
Indices: 31584194--31584277 Score: 105
Period size: 31 Copynumber: 2.6 Consensus size: 31
31584184 AACCCTTCCT
*
31584194 GCATTAAATCCAACCAAAAATAGAAAATATA
1 GCATAAAATCCAACCAAAAATAGAAAATATA
* * *
31584225 GCATGAAATCCAACCAAAAATAGCAAATGTA
1 GCATAAAATCCAACCAAAAATAGAAAATATA
*
31584256 GCATAAAAAATACAACCAAAAA
1 GCAT--AAAATCCAACCAAAAA
31584278 CATTAAATCT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 32 0.70
33 14 0.30
ACGTcount: A:0.58, C:0.18, G:0.08, T:0.15
Consensus pattern (31 bp):
GCATAAAATCCAACCAAAAATAGAAAATATA
Found at i:31584549 original size:21 final size:21
Alignment explanation
Indices: 31584524--31584572 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
31584514 GCTGTTGCCT
* *
31584524 CTGCCTCCCTTGCTGCTACCA
1 CTGCCTCCCTCGCTACTACCA
* *
31584545 TTGCCTCCCTCGCTACTGCCA
1 CTGCCTCCCTCGCTACTACCA
31584566 CTGCCTC
1 CTGCCTC
31584573 TGTCTCTGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.08, C:0.49, G:0.14, T:0.29
Consensus pattern (21 bp):
CTGCCTCCCTCGCTACTACCA
Found at i:31590029 original size:9 final size:9
Alignment explanation
Indices: 31590015--31590137 Score: 156
Period size: 9 Copynumber: 13.7 Consensus size: 9
31590005 TAAGTATAAT
31590015 TAAGTTATG
1 TAAGTTATG
*
31590024 TAAGTTCTG
1 TAAGTTATG
31590033 TAAGTTATG
1 TAAGTTATG
*
31590042 TGAGTTATG
1 TAAGTTATG
*
31590051 TAGGTTATG
1 TAAGTTATG
*
31590060 TAAGTTATA
1 TAAGTTATG
31590069 TAAGTTATG
1 TAAGTTATG
**
31590078 TGGGTTATG
1 TAAGTTATG
* *
31590087 TTAGTTTTG
1 TAAGTTATG
*
31590096 TGAGTTATG
1 TAAGTTATG
31590105 TAAGTTATG
1 TAAGTTATG
*
31590114 TAAGTTATA
1 TAAGTTATG
31590123 TAAGTTATG
1 TAAGTTATG
31590132 TAAGTT
1 TAAGTT
31590138 CAAGTATATA
Statistics
Matches: 96, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 96 1.00
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:31590454 original size:39 final size:39
Alignment explanation
Indices: 31590411--31590501 Score: 164
Period size: 39 Copynumber: 2.3 Consensus size: 39
31590401 TGGAAAAAAA
* *
31590411 TATATTAATTTAATAATATTTAAATAAATTAATCCAAAT
1 TATATTAATTAAATAATATTTAAATAAAATAATCCAAAT
31590450 TATATTAATTAAATAATATTTAAATAAAATAATCCAAAT
1 TATATTAATTAAATAATATTTAAATAAAATAATCCAAAT
31590489 TATATTAATTAAA
1 TATATTAATTAAA
31590502 ATAAGATTGA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (39 bp):
TATATTAATTAAATAATATTTAAATAAAATAATCCAAAT
Found at i:31590459 original size:19 final size:19
Alignment explanation
Indices: 31590437--31590500 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
31590427 TATTTAAATA
31590437 AATTAATCCAAATTATATT
1 AATTAATCCAAATTATATT
* *
31590456 AATTAAAT--AATATTTAAATA
1 AATT-AATCCAA-A-TTATATT
*
31590476 AAATAATCCAAATTATATT
1 AATTAATCCAAATTATATT
31590495 AATTAA
1 AATTAA
31590501 AATAAGATTG
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
18 2 0.06
19 18 0.53
20 12 0.35
21 2 0.06
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTAATCCAAATTATATT
Found at i:31590746 original size:24 final size:24
Alignment explanation
Indices: 31590714--31590761 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
31590704 TTTAACTTAA
* *
31590714 GTGATAAAATGAATGATAATATTT
1 GTGATAAAACGAATGAGAATATTT
*
31590738 GTGATAAAACGTATGAGAATATTT
1 GTGATAAAACGAATGAGAATATTT
31590762 CAATAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.44, C:0.02, G:0.19, T:0.35
Consensus pattern (24 bp):
GTGATAAAACGAATGAGAATATTT
Found at i:31591281 original size:67 final size:67
Alignment explanation
Indices: 31591173--31591310 Score: 267
Period size: 67 Copynumber: 2.1 Consensus size: 67
31591163 CATACACCTG
31591173 CATTTTATGATGTAAAGCATGCTAGTTGCTACTCCAATGGCTAATCTTAGTTGTCTATGTGGTTT
1 CATTTTATGATGTAAAGCATGCTAGTTGCTACTCCAATGGCTAATCTTAGTTGTCTATGTGGTTT
31591238 GC
66 GC
*
31591240 CATTTTATGATGTAAAGCATGCTAGTTGCTATTCCAATGGCTAATCTTAGTTGTCTATGTGGTTT
1 CATTTTATGATGTAAAGCATGCTAGTTGCTACTCCAATGGCTAATCTTAGTTGTCTATGTGGTTT
31591305 GC
66 GC
31591307 CATT
1 CATT
31591311 ATAAATTGAG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.41
Consensus pattern (67 bp):
CATTTTATGATGTAAAGCATGCTAGTTGCTACTCCAATGGCTAATCTTAGTTGTCTATGTGGTTT
GC
Found at i:31594268 original size:26 final size:26
Alignment explanation
Indices: 31594239--31594332 Score: 145
Period size: 26 Copynumber: 3.6 Consensus size: 26
31594229 AAGAATTAGA
*
31594239 TAAAATTTGAAATATTGAAAATTATT
1 TAAAATTTGAAATCTTGAAAATTATT
31594265 TAAAATTTGAAATCTTGAAAATTATT
1 TAAAATTTGAAATCTTGAAAATTATT
* *
31594291 TAAAATTTTAATTCTTGAAAATTATT
1 TAAAATTTGAAATCTTGAAAATTATT
31594317 CT-AAATTTGAAATCTT
1 -TAAAATTTGAAATCTT
31594333 TAAATTTTGA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
26 61 0.98
27 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (26 bp):
TAAAATTTGAAATCTTGAAAATTATT
Found at i:31594382 original size:7 final size:7
Alignment explanation
Indices: 31594370--31594403 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
31594360 ATTAAAAAAC
31594370 AACCCCT
1 AACCCCT
31594377 AACCCCT
1 AACCCCT
*
31594384 AACCCTT
1 AACCCCT
31594391 AAACCCCT
1 -AACCCCT
31594399 AACCC
1 AACCC
31594404 TTGTCCCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.32, C:0.53, G:0.00, T:0.15
Consensus pattern (7 bp):
AACCCCT
Found at i:31594397 original size:15 final size:15
Alignment explanation
Indices: 31594377--31594405 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31594367 AACAACCCCT
31594377 AACCCCTAACCCTTA
1 AACCCCTAACCCTTA
31594392 AACCCCTAACCCTT
1 AACCCCTAACCCTT
31594406 GTCCCTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.48, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCCCTAACCCTTA
Found at i:31594455 original size:7 final size:7
Alignment explanation
Indices: 31594443--31594486 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
31594433 CATATCCTAT
31594443 TAAACCC
1 TAAACCC
31594450 TAAACCC
1 TAAACCC
31594457 TAAACCCC
1 TAAA-CCC
*
31594465 TAACCCC
1 TAAACCC
31594472 T-AACCC
1 TAAACCC
31594478 TATAACCC
1 TA-AACCC
31594486 T
1 T
31594487 TCTCTCCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 5 0.16
7 15 0.47
8 12 0.38
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:31594530 original size:14 final size:15
Alignment explanation
Indices: 31594503--31594535 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
31594493 CTATCCTATT
31594503 AACCATAAACCCTTA
1 AACCATAAACCCTTA
31594518 AACCATAAA-CCTTA
1 AACCATAAACCCTTA
31594532 AACC
1 AACC
31594536 TTACATCGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.18
Consensus pattern (15 bp):
AACCATAAACCCTTA
Found at i:31594597 original size:15 final size:15
Alignment explanation
Indices: 31594559--31594607 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
31594549 CTTAAACCAC
*
31594559 AAACC-ATAACCCCT
1 AAACCAATAATCCCT
*
31594573 AAACCCATAATCCCT
1 AAACCAATAATCCCT
* *
31594588 AAATCAATAATCCAT
1 AAACCAATAATCCCT
31594603 AAACC
1 AAACC
31594608 TTAAAATATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 5 0.17
15 24 0.83
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (15 bp):
AAACCAATAATCCCT
Found at i:31608523 original size:16 final size:16
Alignment explanation
Indices: 31608504--31608534 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31608494 CTTCTTCACT
31608504 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
31608520 TACTTACTTACTTAA
1 TACTCACTTACTTAA
31608535 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:31608540 original size:20 final size:20
Alignment explanation
Indices: 31608501--31608540 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
31608491 AAACTTCTTC
* *
31608501 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
31608521 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
31608541 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:31608980 original size:55 final size:52
Alignment explanation
Indices: 31608773--31608980 Score: 166
Period size: 55 Copynumber: 3.9 Consensus size: 52
31608763 ATCCTTTTGA
* * * ** * * *
31608773 AACTTACCATTGCGATGTCTTGATATGGTCTTACATGGTAGCCTTGTCTTATG
1 AACTTACCAATGCCATGCCTTGGCATAGTCTTACATGGTATCCTTGCCTTA-G
* * *
31608826 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGGCATAGTCTTACATGGTATCC-TTGCC-T-TAG
* * * * *
31608880 TAACTTATCAATGCCATGTCTTGACATAGTCTTACATGATTTCCTTGCCTTAG
1 -AACTTACCAATGCCATGCCTTGGCATAGTCTTACATGGTATCCTTGCCTTAG
* * *
31608933 AAACCTTACCAATTTCCATGCCTTGGCATCGTCTTACACGGTATCCTT
1 -AA-CTTACCAA-TGCCATGCCTTGGCATAGTCTTACATGGTATCCTT
31608981 AAACCCTAAT
Statistics
Matches: 123, Mismatches: 25, Indels: 12
0.77 0.16 0.08
Matches are distributed among these distances:
52 2 0.02
53 42 0.34
54 10 0.08
55 67 0.54
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (52 bp):
AACTTACCAATGCCATGCCTTGGCATAGTCTTACATGGTATCCTTGCCTTAG
Found at i:31614779 original size:40 final size:40
Alignment explanation
Indices: 31614724--31614911 Score: 349
Period size: 40 Copynumber: 4.7 Consensus size: 40
31614714 GAGCATTGGA
31614724 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
31614764 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
31614804 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
31614844 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
31614884 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
31614912 ATGTGTTTGC
Statistics
Matches: 145, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 145 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:31619947 original size:16 final size:16
Alignment explanation
Indices: 31619928--31619958 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31619918 CTTCTTCACT
31619928 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
31619944 TACTTACTTACTTAA
1 TACTCACTTACTTAA
31619959 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:31619964 original size:20 final size:20
Alignment explanation
Indices: 31619925--31619964 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
31619915 AAACTTCTTC
* *
31619925 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
31619945 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
31619965 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:31620404 original size:55 final size:54
Alignment explanation
Indices: 31620150--31620404 Score: 215
Period size: 55 Copynumber: 4.8 Consensus size: 54
31620140 ACACGGGTAC
* * * *
31620150 CTTACC-ATTTCCATTACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGACTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * * *
31620199 CTTACC-ATTGCGATGTCTTGATATGGTCTTACATGGTAGCCTTGTCTTATG-AA
1 CTTACCAATTGCCATGACTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * * *
31620252 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGACTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * *
31620307 CTTATCAA-TGCCATGACTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGACTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * *
31620360 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAATTGCCATGACTTGACATGGTCTTACATGGTATCCTT
31620405 AAACCCTAAT
Statistics
Matches: 164, Mismatches: 29, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
49 35 0.21
52 4 0.02
53 41 0.25
54 12 0.07
55 70 0.43
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATTGCCATGACTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:31622927 original size:50 final size:50
Alignment explanation
Indices: 31622853--31623140 Score: 319
Period size: 50 Copynumber: 5.7 Consensus size: 50
31622843 TAAGACAGTT
*
31622853 TTAGGTCACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTACCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * ** * ***
31622903 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAAC
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TTG
* * * **
31622954 TT-GGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAG
1 TTAGG-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * *
31623004 CTT-GGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGG
1 -TTAGG-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * *
31623055 TTAGGTCACGTGTGTAGTACTAAGTCCAGGCTACTACATGTAGCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* *
31623105 CTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
31623141 TTCTTATCGG
Statistics
Matches: 204, Mismatches: 30, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
50 118 0.58
51 86 0.42
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
Found at i:31622979 original size:51 final size:51
Alignment explanation
Indices: 31622913--31623040 Score: 229
Period size: 51 Copynumber: 2.5 Consensus size: 51
31622903 TTAGGTCGCA
31622913 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTTGGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTTGGATCACG
* *
31622964 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAGCTTGGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTTGGATCACG
*
31623015 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
31623041 CGTGTATCAG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 74 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTTGGATCACG
Found at i:31623618 original size:51 final size:51
Alignment explanation
Indices: 31623550--31623653 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
31623540 AAATAATTTC
31623550 ATATTATGAGATGTTTGAATTTTTGTGAGACTGAGTCAGAATGATTTCAGA
1 ATATTATGAGATGTTTGAATTTTTGTGAGACTGAGTCAGAATGATTTCAGA
31623601 ATATTATGAGATGTTTGAATTTTTGTGAGACTGAGTCAGAATGATTTCAGA
1 ATATTATGAGATGTTTGAATTTTTGTGAGACTGAGTCAGAATGATTTCAGA
31623652 AT
1 AT
31623654 CCCCTGTTCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (51 bp):
ATATTATGAGATGTTTGAATTTTTGTGAGACTGAGTCAGAATGATTTCAGA
Found at i:31623803 original size:21 final size:21
Alignment explanation
Indices: 31623779--31623820 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
31623769 TTATCCAAAT
31623779 CTTGTACTAAGAGATAATTAA
1 CTTGTACTAAGAGATAATTAA
*
31623800 CTTGTACTAAGATATAATTAA
1 CTTGTACTAAGAGATAATTAA
31623821 TTTTTAGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.36
Consensus pattern (21 bp):
CTTGTACTAAGAGATAATTAA
Found at i:31627537 original size:75 final size:75
Alignment explanation
Indices: 31627414--31627566 Score: 279
Period size: 75 Copynumber: 2.0 Consensus size: 75
31627404 TGGTTTAGCC
* * *
31627414 AATAAGTGCAGTTAATTCTTCAAATTCGTCCCTATTCTTCTATTTGACAGTTTTGACCTTTTTTC
1 AATAAGTGCAGTTAATTCTTCAAATTCATCCCTATTCTTCTATTTGACAGTTTTGACATTTCTTC
31627479 ACTAAATATT
66 ACTAAATATT
31627489 AATAAGTGCAGTTAATTCTTCAAATTCATCCCTATTCTTCTATTTGACAGTTTTGACATTTCTTC
1 AATAAGTGCAGTTAATTCTTCAAATTCATCCCTATTCTTCTATTTGACAGTTTTGACATTTCTTC
31627554 ACTAAATATT
66 ACTAAATATT
31627564 AAT
1 AAT
31627567 TATCTCTTAG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.44
Consensus pattern (75 bp):
AATAAGTGCAGTTAATTCTTCAAATTCATCCCTATTCTTCTATTTGACAGTTTTGACATTTCTTC
ACTAAATATT
Found at i:31629289 original size:42 final size:42
Alignment explanation
Indices: 31629188--31629294 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
31629178 TGTATTAATG
* * * *
31629188 CCATATCCCGGATATGGTCTTACATGAAATATCATATCGACG
1 CCATATCCCAGATATGGTCTTATATGAAATATCATACCGACA
* * * *
31629230 CCATGTCCCTGACATGGTCTTATATGAAATCA-CATACCGATA
1 CCATATCCCAGATATGGTCTTATATGAAAT-ATCATACCGACA
* *
31629272 CCGTATCCCAGATATGGTTTTAT
1 CCATATCCCAGATATGGTCTTAT
31629295 TCAGAATCTC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 51 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTATATGAAATATCATACCGACA
Found at i:31632073 original size:48 final size:48
Alignment explanation
Indices: 31631996--31632278 Score: 237
Period size: 48 Copynumber: 5.9 Consensus size: 48
31631986 GGTAAATTGT
* * * * *
31631996 CGATGCCATGTCCCAAACATGGTCCTACACTGGCTCACATGTCGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAATGC
* * * * *
31632044 TGATGCCAAGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAATGC
** * * *
31632092 CGATGCCATGTCCCCGACATGGTCTTACACTAGCGCACCTAACAATG-
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAATGC
* ** * * * * *
31632139 CAATGCCATGTCCCGGACATGGTCTTACACTGGCTCTCATAACATTGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAATGC
* * ** * * * *
31632187 TGTTGCCATGTTTCAAACATGGTCTTATACTGGCTCTCATATC-GTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAT-GC
* * *
31632235 CGACGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
31632279 CCCAAATGTC
Statistics
Matches: 186, Mismatches: 46, Indels: 5
0.78 0.19 0.02
Matches are distributed among these distances:
47 41 0.22
48 145 0.78
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAATGC
Found at i:31638728 original size:48 final size:48
Alignment explanation
Indices: 31638623--31638903 Score: 189
Period size: 48 Copynumber: 5.9 Consensus size: 48
31638613 TAAACTACTG
* * *
31638623 ATGCCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCTC
* * *
31638671 ATGCCATGTCCCAGGCATGGTCTTACACTGGCTCTCATAAT-GTGGC-C
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAGGCTC
* * * * * * *
31638718 ATTGCTATGTCCTAGACATGGTCTTACACTAG-TGCACCTAACAACGC-C
1 A-TGCCATGTCCCAGACATGGTCTTACACTGGCT-CACATATCGAGGCTC
* * * * ***
31638766 GATGCCATGTCTCGGACATGGTCTTACACTGGCTCTCATAAC-ATTATC
1 -ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCTC
* * * * *
31638814 GATGCCATGTTTCTA-ACATGGTCTTATACTGGCTCTCATATCGTGGC-C
1 -ATGCCATG-TCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCTC
* * * *
31638862 GACGCCACGTCCCAGACATGGTCTTACACTAGCACACATATC
1 -ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC
31638904 ACCCAAATGT
Statistics
Matches: 179, Mismatches: 44, Indels: 20
0.74 0.18 0.08
Matches are distributed among these distances:
47 7 0.04
48 168 0.94
49 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCTC
Found at i:31638863 original size:96 final size:95
Alignment explanation
Indices: 31638624--31638891 Score: 258
Period size: 96 Copynumber: 2.8 Consensus size: 95
31638614 AAACTACTGA
* * * *
31638624 TGCCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCTGATGCCATGTCCCAGG-CA
1 TGCCATGTCCTAGACATGGTCTTACACTGGCTC-CATATCGAGGCCGATGCCATGTCCC-GGACA
*
31638688 TGGTCTTACACTGGCTCTCATAATGTGGCCAT
64 TGGTCTTACACTGGCTCTCATAATGTAGCCAT
* * * * * *
31638720 TGCTATGTCCTAGACATGGTCTTACACTAGTGCACC-TAACAACGCCGATGCCATGTCTCGGACA
1 TGCCATGTCCTAGACATGGTCTTACACT-G-GCTCCATATCGAGGCCGATGCCATGTCCCGGACA
* *
31638784 TGGTCTTACACTGGCTCTCATAACAT-TATCGA-
64 TGGTCTTACACTGGCTCTCAT-A-ATGTAGCCAT
* * * * * *
31638816 TGCCATGTTTCTA-ACATGGTCTTATACTGGCTCTCATATCGTGGCCGACGCCACGTCCCAGACA
1 TGCCATG-TCCTAGACATGGTCTTACACTGGCTC-CATATCGAGGCCGATGCCATGTCCCGGACA
31638880 TGGTCTTACACT
64 TGGTCTTACACT
31638892 AGCACACATA
Statistics
Matches: 139, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
94 3 0.02
95 4 0.03
96 117 0.84
97 10 0.07
98 5 0.04
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (95 bp):
TGCCATGTCCTAGACATGGTCTTACACTGGCTCCATATCGAGGCCGATGCCATGTCCCGGACATG
GTCTTACACTGGCTCTCATAATGTAGCCAT
Found at i:31642129 original size:39 final size:40
Alignment explanation
Indices: 31642084--31642255 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
31642074 GCTCCTCGTT
* * *
31642084 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* *
31642124 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTTGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
31642163 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
31642203 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
31642243 CAAATGCCTTCGG
1 CAAATGCCTTCGG
31642256 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.29
40 79 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:31642184 original size:40 final size:39
Alignment explanation
Indices: 31642086--31642308 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
31642076 TCCTCGTTCA
* * * *
31642086 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
31642125 AATGCCTTCGGGACATAACCCGGATTTAATAACTTGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
31642164 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
31642204 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
31642244 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
31642285 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
31642309 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 39 0.25
40 104 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:31642268 original size:80 final size:79
Alignment explanation
Indices: 31642084--31642308 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 79
31642074 GCTCCTCGTT
* * * * *
31642084 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
*
31642148 ATTTAATAACTTGCA
65 ATTTAATAACTCGCA
* * *
31642163 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
31642228 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
31642243 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
31642307 GA
63 GA
31642309 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 68 0.56
81 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:31642317 original size:41 final size:41
Alignment explanation
Indices: 31642240--31642317 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
31642230 TTTGTATCTC
* * *
31642240 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
31642281 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
31642318 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:31649537 original size:39 final size:40
Alignment explanation
Indices: 31649492--31649663 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
31649482 GCTCCTCGTT
* * *
31649492 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
31649532 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
31649571 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
31649611 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
31649651 CAAATGCCTTCGG
1 CAAATGCCTTCGG
31649664 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:31649592 original size:40 final size:39
Alignment explanation
Indices: 31649494--31649716 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
31649484 TCCTCGTTCA
* * * *
31649494 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
31649533 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
31649572 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
31649612 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
31649652 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
31649693 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
31649717 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:31649676 original size:80 final size:79
Alignment explanation
Indices: 31649492--31649716 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
31649482 GCTCCTCGTT
* * * * *
31649492 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
31649556 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
31649571 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
31649636 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
31649651 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
31649715 GA
63 GA
31649717 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:31649725 original size:41 final size:41
Alignment explanation
Indices: 31649648--31649725 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
31649638 TTTGTATCTC
* * *
31649648 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
31649689 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
31649726 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:31652027 original size:42 final size:44
Alignment explanation
Indices: 31651955--31652149 Score: 171
Period size: 48 Copynumber: 4.2 Consensus size: 44
31651945 TAATCCAACT
*
31651955 ATGGTCTTACA-GAAGTCACATATC-G-ATGCCATGTCCCAGAC
1 ATGGTCTTACACGAAATCACATATCAGCATGCCATGTCCCAGAC
*
31651996 ATGGTCTTACACGAAATCACATATCGATGCCAATGCCATGTCCCATAC
1 ATGGTCTTACACGAAATCACATATC-A-G-C-ATGCCATGTCCCAGAC
** *
31652044 ATGGTCTTACACGGGATCATATATCGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACACGAAATCACATATC-A-G-C-ATGCCATGTCCCAGAC
* ** * *
31652092 ATGGTCTTACATGGGATCACATATCGATGAAATGTCATGTCCCAGAC
1 ATGGTCTTACACGAAATCACATATC-A-G-CATGCCATGTCCCAGAC
*
31652139 ATTGTCTTACA
1 ATGGTCTTACA
31652150 AGGGATCACA
Statistics
Matches: 135, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
41 11 0.08
42 12 0.09
45 1 0.01
47 25 0.19
48 86 0.64
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (44 bp):
ATGGTCTTACACGAAATCACATATCAGCATGCCATGTCCCAGAC
Found at i:31652149 original size:47 final size:48
Alignment explanation
Indices: 31651980--31652159 Score: 272
Period size: 48 Copynumber: 3.8 Consensus size: 48
31651970 TCACATATCG
**
31651980 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGCCA
* *
31652028 ATGCCATGTCCCATACATGGTCTTACACGGGATCATATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGCCA
* *
31652076 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATG-AA
1 ATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGCCA
* * *
31652123 ATGTCATGTCCCAGACATTGTCTTACAAGGGATCACA
1 ATGCCATGTCCCAGACATGGTCTTACACGGGATCACA
31652160 ATGCCATAGC
Statistics
Matches: 121, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
47 35 0.29
48 86 0.71
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGCCA
Found at i:31652183 original size:37 final size:37
Alignment explanation
Indices: 31652142--31652223 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
31652132 CCCAGACATT
*
31652142 GTCTTACAAGGGATCACAATGCCATAGCCCAGCTATG
1 GTCTTACAAGGCATCACAATGCCATAGCCCAGCTATG
* * * *
31652179 GTCTTACATGTCATTACGATGCCATAGCCCAGCTATG
1 GTCTTACAAGGCATCACAATGCCATAGCCCAGCTATG
*
31652216 GTGTTACA
1 GTCTTACA
31652224 CGTACTCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (37 bp):
GTCTTACAAGGCATCACAATGCCATAGCCCAGCTATG
Found at i:31655200 original size:30 final size:30
Alignment explanation
Indices: 31655166--31655226 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
31655156 GTATGTGCAC
*
31655166 TATCAATCACAATGGGTTATAAACAATTAT
1 TATCAATCACAATGGGTAATAAACAATTAT
*
31655196 TATCAATCATAATGGGTAATAAACAATTAT
1 TATCAATCACAATGGGTAATAAACAATTAT
31655226 T
1 T
31655227 TCCACAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.34
Consensus pattern (30 bp):
TATCAATCACAATGGGTAATAAACAATTAT
Found at i:31662273 original size:40 final size:40
Alignment explanation
Indices: 31662238--31662509 Score: 449
Period size: 40 Copynumber: 6.8 Consensus size: 40
31662228 GGATATAGCC
*
31662238 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
**
31662278 GTTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
31662318 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
31662358 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
31662398 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
31662438 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
31662478 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
31662510 TTATCATCCG
Statistics
Matches: 220, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 218 0.99
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:31665303 original size:49 final size:50
Alignment explanation
Indices: 31665232--31665477 Score: 275
Period size: 49 Copynumber: 5.0 Consensus size: 50
31665222 TGATCTATTG
* * * *
31665232 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATTA
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
* * *
31665282 TT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAA
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
* * * * * * * **
31665331 CTTCGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGG
1 -TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
*
31665382 TTAGGTCG--TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAA
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
* * *
31665430 TT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACAATGTGTACCAGATA
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATA
31665478 GCTTTCGCTA
Statistics
Matches: 162, Mismatches: 30, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
47 5 0.03
48 36 0.22
49 75 0.46
50 9 0.06
51 37 0.23
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
Found at i:31672270 original size:49 final size:50
Alignment explanation
Indices: 31672209--31672430 Score: 227
Period size: 49 Copynumber: 4.5 Consensus size: 50
31672199 CAAGGTCACG
* * *
31672209 TGTGTAGTACTAAGTGCAGGCCACTACGTGTGCCGGATTATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCGCA
* * * * * * * *
31672258 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TTAGGTCGCA
* * **
31672309 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCG--
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCGCA
* * * *
31672357 TGTGTAGTAATAAGTGAAGGCTACTACATGTACTGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCGCA
*
31672406 TGTGTAGTACTAAGTGCAAGCTACT
1 TGTGTAGTACTAAGTGCAGGCTACT
31672431 GTGCGTACTA
Statistics
Matches: 138, Mismatches: 31, Indels: 8
0.78 0.18 0.05
Matches are distributed among these distances:
47 5 0.04
48 34 0.25
49 55 0.40
50 7 0.05
51 37 0.27
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCGCA
Found at i:31674906 original size:29 final size:28
Alignment explanation
Indices: 31674874--31674929 Score: 103
Period size: 29 Copynumber: 2.0 Consensus size: 28
31674864 AAGATAAACC
31674874 GATTTGGCTTCGGGCCATGCATATCAGTT
1 GATTTGGCTTCGGGCCATG-ATATCAGTT
31674903 GATTTGGCTTCGGGCCATGATATCAGT
1 GATTTGGCTTCGGGCCATGATATCAGT
31674930 ATTTCGGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.34
Consensus pattern (28 bp):
GATTTGGCTTCGGGCCATGATATCAGTT
Found at i:31676340 original size:21 final size:21
Alignment explanation
Indices: 31676314--31676354 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
31676304 CATTAAATTA
* * *
31676314 ATATATGTTATAATATAATAT
1 ATATATATCATAAAATAATAT
31676335 ATATATATCATAAAATAATA
1 ATATATATCATAAAATAATA
31676355 ATAAGCCATG
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:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
ATATATATCATAAAATAATAT
Found at i:31677478 original size:56 final size:56
Alignment explanation
Indices: 31677385--31677595 Score: 289
Period size: 56 Copynumber: 3.8 Consensus size: 56
31677375 GAAGAATATG
* *
31677385 TGGCATCGATATGTGACTT-TGATATATGTGTGCGAGTAAGACCACGTTTAATACAT
1 TGGCATCGATATGTGA-TTCTGATATATGTGTACGAGTAAGACCACGTTTAATACGT
* * * * *
31677441 TGACATCGATATGTGATTCCGATATATGTGTATGAGTAAGTCCACGTTTAATATGT
1 TGGCATCGATATGTGATTCTGATATATGTGTACGAGTAAGACCACGTTTAATACGT
* * * *
31677497 TGGCATCAATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTCATACGT
1 TGGCATCGATATGTGATTCTGATATATGTGTACGAGTAAGACCACGTTTAATACGT
* *
31677553 TGGCATCGATATGTGATTCTGATATGTGTTTACGAGTAAGACC
1 TGGCATCGATATGTGATTCTGATATATGTGTACGAGTAAGACC
31677596 CAATCTAGGA
Statistics
Matches: 135, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
55 2 0.01
56 133 0.99
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (56 bp):
TGGCATCGATATGTGATTCTGATATATGTGTACGAGTAAGACCACGTTTAATACGT
Found at i:31677613 original size:112 final size:111
Alignment explanation
Indices: 31677379--31677626 Score: 322
Period size: 112 Copynumber: 2.2 Consensus size: 111
31677369 TACCTGGAAG
31677379 AATATGTGGCATCGATATGTGACTTTGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGA
1 AATATGTGGCATCGATATGTGACTTTGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGA
* * * *
31677444 CATCGATATGTGATTCCGATATATGTGTATGAGTAAGTCCACGTTT
66 CATCGATATGTGATTCCGATATATGTGTACGAGTAAGCCCACATCT
* * * *
31677490 AATATGTTGGCATCAATATGTGA-TTCTGATATATGTGTGCGAGTAAGTCCACGTTTCATACGTT
1 AATATG-TGGCATCGATATGTGACTT-TGATATATGTGTGCGAGTAAGACCACGTTTAATACATT
* * * *
31677554 GGCATCGATATGTGATTCTGATATGTGTTTACGAGTAAGACCCA-ATCT
64 GACATCGATATGTGATTCCGATATATGTGTACGAGTAAG-CCCACATCT
31677602 AGGATA-GTGGCATCGATATGTGACT
1 A--ATATGTGGCATCGATATGTGACT
31677627 AAATGTAAGT
Statistics
Matches: 118, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
111 8 0.07
112 102 0.86
113 5 0.04
114 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (111 bp):
AATATGTGGCATCGATATGTGACTTTGATATATGTGTGCGAGTAAGACCACGTTTAATACATTGA
CATCGATATGTGATTCCGATATATGTGTACGAGTAAGCCCACATCT
Found at i:31683125 original size:47 final size:46
Alignment explanation
Indices: 31683074--31683162 Score: 160
Period size: 47 Copynumber: 1.9 Consensus size: 46
31683064 TTAGGATTTT
31683074 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCC-AATGGCCA
*
31683121 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCAATG
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCAATG
31683163 TGAGCATGCA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
46 4 0.10
47 37 0.90
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (46 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCAATGGCCA
Found at i:31683149 original size:16 final size:16
Alignment explanation
Indices: 31683130--31683181 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
31683120 AATGTGATGA
31683130 ATGTGAGCATGCATAT
1 ATGTGAGCATGCATAT
** * *
31683146 ATGTGATAAGGC-CA-
1 ATGTGAGCATGCATAT
31683160 ATGTGAGCATGCATAT
1 ATGTGAGCATGCATAT
31683176 ATGTGA
1 ATGTGA
31683182 TAAGGCCGAA
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
14 9 0.35
15 2 0.08
16 15 0.58
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.29
Consensus pattern (16 bp):
ATGTGAGCATGCATAT
Found at i:31683164 original size:30 final size:31
Alignment explanation
Indices: 31683128--31683193 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 31
31683118 CCAATGTGAT
31683128 GAATGTGAGCATGCATATATGTGATAAGGCC
1 GAATGTGAGCATGCATATATGTGATAAGGCC
31683159 -AATGTGAGCATGCATATATGTGATAAGGCC
1 GAATGTGAGCATGCATATATGTGATAAGGCC
31683189 GAATG
1 GAATG
31683194 GCCAATGTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 30 0.88
31 4 0.12
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (31 bp):
GAATGTGAGCATGCATATATGTGATAAGGCC
Found at i:31683171 original size:77 final size:78
Alignment explanation
Indices: 31683081--31683240 Score: 304
Period size: 77 Copynumber: 2.1 Consensus size: 78
31683071 TTTATGTGAT
31683081 GAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATAT
1 GAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATAT
31683146 ATGTGATAAGGCC
66 ATGTGATAAGGCC
*
31683159 -AATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATAT
1 GAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATAT
31683223 ATGTGATAAGGCC
66 ATGTGATAAGGCC
31683236 GAATG
1 GAATG
31683241 GCCAATGTGA
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
77 76 0.95
78 4 0.05
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (78 bp):
GAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATAT
ATGTGATAAGGCC
Found at i:31683204 original size:22 final size:22
Alignment explanation
Indices: 31683176--31683251 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
31683166 GCATGCATAT
31683176 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
31683198 ATGTGATGAATGTG-AGCAT-GCATA
1 ATGTGAT-AA-G-GCCGAATGGC-CA
31683222 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
31683245 ATGTGAT
1 ATGTGAT
31683252 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:31683212 original size:47 final size:47
Alignment explanation
Indices: 31683159--31683342 Score: 284
Period size: 47 Copynumber: 4.0 Consensus size: 47
31683149 TGATAAGGCC
31683159 AATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATG
31683206 AATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31683253 AATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTG
1 AATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
31683300 AATATGAACATGC--ATATGTGGTCAA-GCCGAATGGTCAATGTGA
1 AATGTGAGCATGCATATATGTGAT-AAGGCCGAATGGCCAATGTGA
31683343 AATATATATA
Statistics
Matches: 128, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
45 23 0.18
46 2 0.02
47 103 0.80
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.26
Consensus pattern (47 bp):
AATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:31683300 original size:25 final size:25
Alignment explanation
Indices: 31683225--31683300 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
31683215 ATGCATATAT
31683225 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
31683250 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
31683272 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
31683297 GTGA
1 GTGA
31683301 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:31683378 original size:50 final size:50
Alignment explanation
Indices: 31683313--31683447 Score: 236
Period size: 50 Copynumber: 2.7 Consensus size: 50
31683303 ATGAACATGC
*
31683313 ATATGTGGTCAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGT
31683363 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGT
*
31683413 ATATGTGGTAAAGCCGAATGG-CTAGTGTGAAATAT
1 ATATGTGGTAAAGCCGAATGGTC-AATGTGAAATAT
31683448 GACAGTCGAT
Statistics
Matches: 82, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
49 1 0.01
50 81 0.99
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.31
Consensus pattern (50 bp):
ATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATGT
Found at i:31683562 original size:37 final size:37
Alignment explanation
Indices: 31683507--31683610 Score: 172
Period size: 37 Copynumber: 2.8 Consensus size: 37
31683497 GGAAATATAT
*
31683507 TCCGGGTAAGACCGGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
31683544 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
31683581 TCCGGGTAAGACCCGATAACTTCGTGTGGA
1 TCCGGGTAAGACCCGATGACTACGTGTGGA
31683611 CATTTCGTCT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:31685288 original size:40 final size:40
Alignment explanation
Indices: 31684885--31685276 Score: 613
Period size: 40 Copynumber: 9.8 Consensus size: 40
31684875 GAGAATTGAG
31684885 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
31684925 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
31684965 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
31685005 AGTGATATATCCGGGCAAAGTCCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
31685045 AGTGATGTATCCGGACTAGGTCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
31685085 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
31685125 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
31685165 AGTGATGTATCCGGGCTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
31685205 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
31685245 GGTGTTATATTCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
31685277 ATCATGCTGG
Statistics
Matches: 320, Mismatches: 32, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 320 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:31686893 original size:79 final size:81
Alignment explanation
Indices: 31686784--31686966 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
31686774 TACTCGTTCA
* *
31686784 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
31686847 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
31686864 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
31686927 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
31686943 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
31686967 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:31686966 original size:40 final size:40
Alignment explanation
Indices: 31686763--31686966 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
31686753 CGGAATTTAA
** *
31686763 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31686803 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31686843 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
31686882 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
31686922 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
31686962 CCGGA
1 CCGGA
31686967 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:31692868 original size:47 final size:47
Alignment explanation
Indices: 31692817--31693008 Score: 298
Period size: 47 Copynumber: 4.1 Consensus size: 47
31692807 TTAGGATTTT
31692817 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
31692864 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
31692911 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
31692958 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
31693003 ATGTGA
1 ATGTGA
31693009 AATATATATA
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 25 0.19
47 110 0.81
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:31692870 original size:22 final size:22
Alignment explanation
Indices: 31692842--31692917 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
31692832 ACATGCATAT
31692842 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
31692864 ATGTGATGAATGTG-AGCAT-GCATA
1 ATGTGAT-AA-G-GCCGAATGGC-CA
31692888 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
31692911 ATGTGAT
1 ATGTGAT
31692918 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:31692966 original size:25 final size:25
Alignment explanation
Indices: 31692891--31692966 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
31692881 ATGCATATAT
31692891 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
31692916 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
31692938 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
31692963 GTGA
1 GTGA
31692967 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:31693231 original size:37 final size:37
Alignment explanation
Indices: 31693123--31693231 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
31693113 GGAAATATAT
* *
31693123 TCCGGGTAAGACCGGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
31693160 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
31693197 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
31693232 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:31694811 original size:37 final size:37
Alignment explanation
Indices: 31694752--31694897 Score: 220
Period size: 37 Copynumber: 3.9 Consensus size: 37
31694742 AGCTCAGACG
* *
31694752 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
31694789 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * * *
31694826 TAATCTCCACACGTAGTCATCCGGTCTTACTCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
31694863 AAATCTCCACACGTAGTCATCGGGTCTTACACGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
31694898 ATATATTTCC
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:31695185 original size:50 final size:50
Alignment explanation
Indices: 31695047--31695193 Score: 217
Period size: 50 Copynumber: 3.0 Consensus size: 50
31695037 CATCGCCTAC
* * *
31695047 ATATTTCACACT-AGCCATTCGGCTTTACCACATATACAGATCTCATATAT
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATGCATATCTCATATAT
*
31695097 ATATTTCACATTGACCAGTCGGCTTTACCACATATGCATATCTCATATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
* *
31695147 ATATTTCACATTGACCATTCGGCTTTACCACATGTGCATGT-TCATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATAT
31695194 TCACCACATT
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
49 6 0.07
50 82 0.92
51 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.36
Consensus pattern (50 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
Found at i:31695243 original size:47 final size:47
Alignment explanation
Indices: 31695152--31695390 Score: 365
Period size: 47 Copynumber: 5.1 Consensus size: 47
31695142 TATATATATT
* * * * *
31695152 TCACATTGACCATTCGGCTTTA-C-CACATGTGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
31695197 CCACATTGGCCATTCGACCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
31695244 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTTA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
31695291 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
31695338 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
31695385 TCACAT
1 TCACAT
31695391 AAAATCCTAA
Statistics
Matches: 179, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 18 0.10
46 1 0.01
47 160 0.89
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:31695270 original size:22 final size:22
Alignment explanation
Indices: 31695243--31695365 Score: 74
Period size: 22 Copynumber: 5.3 Consensus size: 22
31695233 GCTCACATTC
31695243 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
31695265 ATCACATATATG-CATGCTC-ACATTT
1 ATCACAT-T-GGCCAT--TCGGC-CTT
31695290 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
31695312 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
31695336 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
31695359 ATCACAT
1 ATCACAT
31695366 ATATGCATGT
Statistics
Matches: 75, Mismatches: 12, Indels: 28
0.65 0.10 0.24
Matches are distributed among these distances:
22 28 0.37
23 13 0.17
24 13 0.17
25 21 0.28
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:31695422 original size:94 final size:91
Alignment explanation
Indices: 31695225--31695411 Score: 236
Period size: 94 Copynumber: 2.0 Consensus size: 91
31695215 CTTATCACAC
* *
31695225 ATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTT
1 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTC
** * * *
31695290 ATCACATTGGCCATTCGGCCTTATCACAT
66 ATCACATT-GAAAAT--GCCTAATCAAAT
*
31695319 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
1 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTC
31695384 ATCACA-T-AAAAT-CCTAAATCAAAAT
66 ATCACATTGAAAATGCCT-AATC-AAAT
31695409 ATA
1 ATA
31695412 AATTTTCATG
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
88 3 0.04
89 3 0.04
90 6 0.07
91 2 0.02
93 1 0.01
94 68 0.82
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (91 bp):
ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTC
ATCACATTGAAAATGCCTAATCAAAT
Found at i:31714282 original size:55 final size:54
Alignment explanation
Indices: 31714197--31714302 Score: 124
Period size: 55 Copynumber: 1.9 Consensus size: 54
31714187 TTCACCCACG
* *
31714197 GTTTCTTGGCACGGGCGTGTCGCACACCCGTGTTAATTTGACAGGTTTGGCCATA
1 GTTTCATGGCACGGGCATGTCGCACACCCGTGTTAATTTGACAGG-TTGGCCATA
* * ** *
31714252 GTTTCATGGCACGGGCATGTTG-ACCGCCCGTGTTGTTTTGGCAGGTTGGCC
1 GTTTCATGGCACGGGCATGTCGCA-CACCCGTGTTAATTTGACAGGTTGGCC
31714303 CACGGCCATG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
54 7 0.16
55 36 0.84
ACGTcount: A:0.13, C:0.24, G:0.32, T:0.31
Consensus pattern (54 bp):
GTTTCATGGCACGGGCATGTCGCACACCCGTGTTAATTTGACAGGTTGGCCATA
Found at i:31719000 original size:43 final size:43
Alignment explanation
Indices: 31718934--31719092 Score: 182
Period size: 43 Copynumber: 3.7 Consensus size: 43
31718924 AGCTCTTACA
*
31718934 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
* *
31718977 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCGAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCAAATATCG
* * * * *
31719019 ATGCCAACTTCCCACACTTGGTCTTACACGT-ATAAACCAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAA--ATATCG
31719063 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
31719093 AAAACACATA
Statistics
Matches: 96, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
41 3 0.03
42 26 0.27
43 38 0.40
44 29 0.30
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
Found at i:31719086 original size:86 final size:85
Alignment explanation
Indices: 31718934--31719095 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 85
31718924 AGCTCTTACA
* * * *
31718934 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCACACGTGGTCTTACACGTAATAAAAAATCGATGCCACTGTCCCAGACAGGGT
31718999 CTTACACGAAATCGAATATG
66 CTTACACGAAATCGAATATG
* *
31719019 ATGCCAACTTCCCACACTTGGTCTTACACGT-ATAAACCAAATCGATGCCAAC-GTCCCAGAC-G
1 ATGCCAACGTCCCACACGTGGTCTTACACGTAATAAA--AAATCGATGCC-ACTGTCCCAGACAG
31719081 TGGTCTTACACGAAA
63 -GGTCTTACACGAAA
31719096 ACACATATCA
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
84 4 0.06
85 28 0.42
86 33 0.49
87 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (85 bp):
ATGCCAACGTCCCACACGTGGTCTTACACGTAATAAAAAATCGATGCCACTGTCCCAGACAGGGT
CTTACACGAAATCGAATATG
Found at i:31724642 original size:30 final size:30
Alignment explanation
Indices: 31724608--31724664 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
31724598 TTTTTGAGCA
* * *
31724608 TAGGGGTAAAATGATCATTTTGCCAAAGTC
1 TAGGGGCAAAATGAGCATTTTACCAAAGTC
*
31724638 TAGGGGCAAAATGGGCATTTTACCAAA
1 TAGGGGCAAAATGAGCATTTTACCAAA
31724665 TATGTGAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAATGAGCATTTTACCAAAGTC
Found at i:31725077 original size:47 final size:46
Alignment explanation
Indices: 31725015--31725220 Score: 179
Period size: 47 Copynumber: 4.5 Consensus size: 46
31725005 TGCCAATGTG
* * *
31725015 AGACATGTCTAGGACATGCATCAGCCACATTATGAGTGCTAGTATA
1 AGACATGTCTGGGACATGCATCAGCCACATGATGAGTGCTAGTGTA
* * * *
31725061 AGACCATGTCTGGGACATGGCATCGGCGTAGA-GATGAGTGCCAGTGTA
1 AGA-CATGTCTGGGACAT-GCATCAGC-CACATGATGAGTGCTAGTGTA
* * *
31725109 AGACATGTCTGGGACACGCATCAGCCTCGATGATGA-TAGCCAGTGTA
1 AGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGT-GCTAGTGTA
* * * * *
31725156 AGACGTGTCTGGGACACGCATCGGCTA-A-GA-GTTGTGCTAGTGTA
1 AGACATGTCTGGGACATGCATCAGCCACATGATG-AGTGCTAGTGTA
*
31725200 AAACATGTCTGGGACATGCAT
1 AGACATGTCTGGGACATGCAT
31725221 TAGCACGTAT
Statistics
Matches: 131, Mismatches: 21, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 28 0.21
45 2 0.02
46 12 0.09
47 63 0.48
48 23 0.18
49 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGACATGTCTGGGACATGCATCAGCCACATGATGAGTGCTAGTGTA
Found at i:31725165 original size:94 final size:91
Alignment explanation
Indices: 31725004--31725220 Score: 242
Period size: 94 Copynumber: 2.4 Consensus size: 91
31724994 AATTTCTTGT
* * * * *
31725004 GTGCCAATGTGAGACATGTCTAGGACATGCATCAGCCACATTATGAGTGCTAGTATAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGTGCCAGTATAAGACCATG
*
31725069 TCTGGGACATGGCATCGGCGT-AGAGATGA
66 TCTGGGACA-CGCATCGGC-TAAGAG-T-A
* * * *
31725098 GTGCCAGTGTAAGACATGTCTGGGACACGCATCAGCCTCGATGATGA-TAGCCAGTGTAAGA-CG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGT-GCCAGTATAAGACCA
*
31725161 TGTCTGGGACACGCATCGGCTAAGAGTT
64 TGTCTGGGACACGCATCGGCTAAGAGTA
* *
31725189 GTGCTAGTGTAAAACATGTCTGGGACATGCAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCAT
31725221 TAGCACGTAT
Statistics
Matches: 106, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
91 29 0.27
92 2 0.02
93 12 0.11
94 47 0.44
95 16 0.15
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGTGCCAGTATAAGACCATG
TCTGGGACACGCATCGGCTAAGAGTA
Found at i:31727887 original size:55 final size:55
Alignment explanation
Indices: 31727827--31727960 Score: 223
Period size: 55 Copynumber: 2.4 Consensus size: 55
31727817 ACCATGGAAT
* *
31727827 CGATATATGTGTGTGAGTAAGACCACATTTATATGTTGGCATCGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCACATTTATACGTTGGCATCGATATGTGACTC
* * *
31727882 CGATATATGTGTGCGAGTAAGACCACGTTTATGCGTTGGCATCGATATGTGACTT
1 CGATATATGTGTGCGAGTAAGACCACATTTATACGTTGGCATCGATATGTGACTC
31727937 CGATATATGTGTGCGAGTAAGACC
1 CGATATATGTGTGCGAGTAAGACC
31727961 CTGTCTGAGA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 74 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (55 bp):
CGATATATGTGTGCGAGTAAGACCACATTTATACGTTGGCATCGATATGTGACTC
Found at i:31740575 original size:18 final size:19
Alignment explanation
Indices: 31740546--31740581 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
31740536 GAATTATGAA
31740546 TGGAGAAGAAGAGAGAAAG
1 TGGAGAAGAAGAGAGAAAG
31740565 TGGAG-AGAAGAGAGAAA
1 TGGAGAAGAAGAGAGAAA
31740582 AGATGTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.42, T:0.06
Consensus pattern (19 bp):
TGGAGAAGAAGAGAGAAAG
Found at i:31743916 original size:30 final size:30
Alignment explanation
Indices: 31743860--31743918 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
31743850 TCCGAGTCTT
*
31743860 AGGGCAAAAATGTAAATATGTAAAAGTTTA
1 AGGGCAAAAATGTAAATATGCAAAAGTTTA
* * *
31743890 AGGGCAAAAATGTAATTTTGCCAAAGTTT
1 AGGGCAAAAATGTAAATATGCAAAAGTTT
31743919 GAGTCAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.29
Consensus pattern (30 bp):
AGGGCAAAAATGTAAATATGCAAAAGTTTA
Found at i:31753033 original size:26 final size:26
Alignment explanation
Indices: 31752999--31753146 Score: 226
Period size: 26 Copynumber: 5.7 Consensus size: 26
31752989 CTTTCGGTAA
*
31752999 TGGGGCATAAGCCCTTTTCAATAAAT
1 TGGGGCATAAGCCCTTTTCAATAAAC
*
31753025 TGGGGCATAAGCCCTTTTCGATAAAC
1 TGGGGCATAAGCCCTTTTCAATAAAC
31753051 TGGGGCATAAGCCCTTTTCAATAAAC
1 TGGGGCATAAGCCCTTTTCAATAAAC
31753077 TGGGGCATAAGCCCTTTTCAATAAAC
1 TGGGGCATAAGCCCTTTTCAATAAAC
* **
31753103 TAGGGCATAAGCTGTTTTCAGA-AAAC
1 TGGGGCATAAGCCCTTTTCA-ATAAAC
*
31753129 TGGGGCATAAGCACTTTT
1 TGGGGCATAAGCCCTTTT
31753147 GCACTTCCTC
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
26 111 0.99
27 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (26 bp):
TGGGGCATAAGCCCTTTTCAATAAAC
Found at i:31753059 original size:52 final size:52
Alignment explanation
Indices: 31752979--31753146 Score: 227
Period size: 52 Copynumber: 3.3 Consensus size: 52
31752969 TTAATAACTA
* * *
31752979 GGCAGAAGCCC-TTTCGGT-AA-TGGGGCATAAGCCCTTTTCAATAAATTGG
1 GGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTCAATAAACTGG
31753028 GGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTCAATAAACTGG
1 GGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTCAATAAACTGG
* * **
31753080 GGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCTGTTTTCAGA-AAACTGG
1 GGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTCA-ATAAACTGG
*
31753132 GGCATAAGCACTTTT
1 GGCATAAGCCCTTTT
31753147 GCACTTCCTC
Statistics
Matches: 107, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
49 10 0.09
50 6 0.06
51 2 0.02
52 88 0.82
53 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (52 bp):
GGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTCAATAAACTGG
Found at i:31753225 original size:20 final size:20
Alignment explanation
Indices: 31753196--31753270 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
31753186 TTATGAATAC
*
31753196 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
31753216 ATCATATGCATATCATACAT
1 ATCATGTGCATATCATACAT
31753236 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
31753256 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
31753271 TCCCACGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 8 0.16
20 41 0.80
21 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:31753259 original size:9 final size:11
Alignment explanation
Indices: 31753196--31753253 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
31753186 TTATGAATAC
*
31753196 ATCATGTGCAT
1 ATCATATGCAT
*
31753207 TTCATA--CAT
1 ATCATATGCAT
31753216 ATCATATGCAT
1 ATCATATGCAT
31753227 ATCATA--CAT
1 ATCATATGCAT
*
31753236 ATCATGTGCAT
1 ATCATATGCAT
31753247 ATCATAT
1 ATCATAT
31753254 CAATCATGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
9 16 0.42
11 22 0.58
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (11 bp):
ATCATATGCAT
Found at i:31767329 original size:34 final size:33
Alignment explanation
Indices: 31767269--31767333 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 33
31767259 GTAACAATTA
* *
31767269 GGGCCTTAGCCCATTTCAGTAACAGTAGCAGTCT
1 GGGCCTAAGCCCATTACAGTAACAGTA-CAGTCT
*
31767303 GGGCCTAAGCCCATTAACA-TATCAGTACAGT
1 GGGCCTAAGCCCATT-ACAGTAACAGTACAGT
31767334 ATGCAAACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.15
34 21 0.78
35 2 0.07
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (33 bp):
GGGCCTAAGCCCATTACAGTAACAGTACAGTCT
Found at i:31769132 original size:34 final size:34
Alignment explanation
Indices: 31769083--31769154 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
31769073 GTGACAGTCT
*
31769083 AGTATCAGTTAGGGCCACAGCCCATTATAGTAAC
1 AGTATCAGTTAGGGCCACAGCCCATTACAGTAAC
**
31769117 AGTATCAGTGT-GGGCCTTAGCCCATTACAGTAAC
1 AGTATCAGT-TAGGGCCACAGCCCATTACAGTAAC
31769151 AGTA
1 AGTA
31769155 ATAGTAACAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (34 bp):
AGTATCAGTTAGGGCCACAGCCCATTACAGTAAC
Found at i:31769162 original size:12 final size:12
Alignment explanation
Indices: 31769145--31769170 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31769135 AGCCCATTAC
31769145 AGTAACAGTAAT
1 AGTAACAGTAAT
31769157 AGTAACAGTAAT
1 AGTAACAGTAAT
31769169 AG
1 AG
31769171 AAATGTAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.19, T:0.23
Consensus pattern (12 bp):
AGTAACAGTAAT
Found at i:31771581 original size:40 final size:40
Alignment explanation
Indices: 31771536--31771718 Score: 312
Period size: 40 Copynumber: 4.6 Consensus size: 40
31771526 CAAGCTCAAT
* * * * *
31771536 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
*
31771576 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
31771616 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
31771656 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
31771696 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
31771719 GTATTCAAAT
Statistics
Matches: 136, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
Found at i:31774939 original size:29 final size:30
Alignment explanation
Indices: 31774876--31774990 Score: 114
Period size: 29 Copynumber: 4.0 Consensus size: 30
31774866 TACATACATG
* *
31774876 CATATAGCCCA-CTAGGCCCAA-TCTTATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* *
31774904 CAAATGGCTCATCT-GGCCCAATTCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* * **
31774933 CTTATGGCCCA-CTAGGCCTAATTCACCTT
1 CATATGGCCCATCTAGGCCCAATTCATATT
*
31774962 CATATGGCCCAT-TAGGCCCAAATCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
31774991 ATACTCATGG
Statistics
Matches: 68, Mismatches: 15, Indels: 7
0.76 0.17 0.08
Matches are distributed among these distances:
28 17 0.25
29 51 0.75
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (30 bp):
CATATGGCCCATCTAGGCCCAATTCATATT
Done.