Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 71 of 356
Found at i:22442032 original size:16 final size:16
Alignment explanation
Indices: 22442011--22442041 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22442001 CTTTTTTCGT
22442011 TTTCATTTTCCTTCTC
1 TTTCATTTTCCTTCTC
22442027 TTTCATTTTCCTTCT
1 TTTCATTTTCCTTCT
22442042 ATCTTAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTCATTTTCCTTCTC
Found at i:22449966 original size:30 final size:30
Alignment explanation
Indices: 22449926--22449990 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
22449916 AAAACAATTC
* * *
22449926 TAATTGTTTGGGGA-TGAAAAATCAATGAAA
1 TAATTATTTGGGAATTG-AAAATCAATCAAA
*
22449956 TAATTATTTGGTAATTGAAAATCAATCAAA
1 TAATTATTTGGGAATTGAAAATCAATCAAA
22449986 TAATT
1 TAATT
22449991 TTAAACTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (30 bp):
TAATTATTTGGGAATTGAAAATCAATCAAA
Found at i:22450207 original size:19 final size:19
Alignment explanation
Indices: 22450185--22450233 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 19
22450175 TGTCCTATAG
22450185 AAGAATAATA-AATTATTAA
1 AAGAATAATATAATT-TTAA
22450204 AAG-AT-ATATAATTTTAA
1 AAGAATAATATAATTTTAA
*
22450221 AAAAATATATATA
1 AAGAATA-ATATA
22450234 TCAATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 9 0.36
18 8 0.32
19 3 0.12
20 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (19 bp):
AAGAATAATATAATTTTAA
Found at i:22459064 original size:173 final size:173
Alignment explanation
Indices: 22458775--22459140 Score: 705
Period size: 173 Copynumber: 2.1 Consensus size: 173
22458765 TGTGAATAGG
22458775 CCGTGTGCCTCACACGGCCACCAGACACGCCTGTGTCATAGACCGTGTGAAAATAGGGCATACAT
1 CCGTGTGCCTCACACGGCCACCAGACACGCCTGTGTCATAGACCGTGTGAAAATAGGGCATACAT
22458840 ACTGACTTGCACCACACGGCCAAGGACACGCCCATGTGCCAGACCGTGTAAAATCTAAGGGGGGT
66 ACTGACTTGCACCACACGGCCAAGGACACGCCCATGTGCCAGACCGTGTAAAATCTAAGGGGGGT
22458905 TACTGACTTGGCCACACGGCCGGCCACACCCCCATGTACCAGC
131 TACTGACTTGGCCACACGGCCGGCCACACCCCCATGTACCAGC
22458948 CCGTGTGCCTCACACGGCCACCAGACACGCCTGTGTCATAGACCGTGTGAAAATAGGGCATACAT
1 CCGTGTGCCTCACACGGCCACCAGACACGCCTGTGTCATAGACCGTGTGAAAATAGGGCATACAT
*
22459013 ACTGACTTGCACCACACGGCCAAGGACATGCCCATGTGCCAGACCGTGTAAAATCTAAGGGGGGT
66 ACTGACTTGCACCACACGGCCAAGGACACGCCCATGTGCCAGACCGTGTAAAATCTAAGGGGGGT
22459078 TACTGACTTGGCCACACGGCCGGCCACACCCCCATGTACCAGC
131 TACTGACTTGGCCACACGGCCGGCCACACCCCCATGTACCAGC
* *
22459121 CCGTGTGCCACACACTGCCA
1 CCGTGTGCCTCACACGGCCA
22459141 GTAGACACAC
Statistics
Matches: 190, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
173 190 1.00
ACGTcount: A:0.25, C:0.34, G:0.25, T:0.16
Consensus pattern (173 bp):
CCGTGTGCCTCACACGGCCACCAGACACGCCTGTGTCATAGACCGTGTGAAAATAGGGCATACAT
ACTGACTTGCACCACACGGCCAAGGACACGCCCATGTGCCAGACCGTGTAAAATCTAAGGGGGGT
TACTGACTTGGCCACACGGCCGGCCACACCCCCATGTACCAGC
Found at i:22463366 original size:19 final size:19
Alignment explanation
Indices: 22463344--22463381 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
22463334 AAAAAAATAA
*
22463344 TTAAAATCAAAATCAAAAT
1 TTAAAATAAAAATCAAAAT
*
22463363 TTAAAATAAAAATGAAAAT
1 TTAAAATAAAAATCAAAAT
22463382 GCTCATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (19 bp):
TTAAAATAAAAATCAAAAT
Found at i:22464370 original size:30 final size:29
Alignment explanation
Indices: 22464319--22464375 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
22464309 TATCATATAA
*
22464319 AAATTTTAATTTTATGTAATTTTATATATG
1 AAATTTTAATTTGATGTAATTTT-TATATG
*
22464349 AAATTTTGATTTGAT-TCAATTTTTATA
1 AAATTTTAATTTGATGT-AATTTTTATA
22464376 AATCATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (29 bp):
AAATTTTAATTTGATGTAATTTTTATATG
Found at i:22466453 original size:7 final size:7
Alignment explanation
Indices: 22466441--22466471 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
22466431 AATATATAAA
22466441 AATATAT
1 AATATAT
22466448 AATATAT
1 AATATAT
22466455 AATATAT
1 AATATAT
22466462 AAATATAT
1 -AATATAT
22466470 AA
1 AA
22466472 AATAACTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AATATAT
Found at i:22466481 original size:17 final size:16
Alignment explanation
Indices: 22466430--22466481 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
22466420 AATATTTTTA
22466430 AAATATATAAAA-ATAT
1 AAATATATAAAATA-AT
*
22466446 ATAATATATAATAT-AT
1 A-AATATATAAAATAAT
22466462 AAATATATAAAATAACT
1 AAATATATAAAATAA-T
22466479 AAA
1 AAA
22466482 ATTTTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 11 0.37
16 5 0.17
17 14 0.47
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATATATAAAATAAT
Found at i:22476861 original size:44 final size:44
Alignment explanation
Indices: 22476768--22476926 Score: 146
Period size: 44 Copynumber: 3.6 Consensus size: 44
22476758 CTGTTCTGCC
* * * *
22476768 TGTAAGACCACGTCTATGACGTTGGCATCGATTTCTATTCTGT-G
1 TGTAAGACCACGTCTAGGACATTGGCATCGATTTCTGTT-TTTCG
* * *
22476812 AGTAAGACCACGTCTATGACATTGGCATCAATTTCTGTTTTTCG
1 TGTAAGACCACGTCTAGGACATTGGCATCGATTTCTGTTTTTCG
* * * * *
22476856 TGTAAGACC-CTGTCTAGGACAGTGACATCGATGTT-TG-ATTACA
1 TGTAAGACCAC-GTCTAGGACATTGGCATCGAT-TTCTGTTTTTCG
*
22476899 TGTAAGACCACGTCTGGGACATTGGCAT
1 TGTAAGACCACGTCTAGGACATTGGCAT
22476927 TGTATATGCT
Statistics
Matches: 95, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
43 29 0.31
44 64 0.67
45 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (44 bp):
TGTAAGACCACGTCTAGGACATTGGCATCGATTTCTGTTTTTCG
Found at i:22478803 original size:43 final size:44
Alignment explanation
Indices: 22478742--22478932 Score: 189
Period size: 43 Copynumber: 4.4 Consensus size: 44
22478732 GTTATCGAGA
*
22478742 TGTGATTACATGTAAGACCCTGTGTGGGACAGTGGA-ATTGTAT
1 TGTGATTACATGTAAGACCCTGTGTGGGACAGTGGACATCGTAT
* *
22478785 TGTGATTACATGTAAGACCCTGTGTAGGACAGT-GACATTGTAT
1 TGTGATTACATGTAAGACCCTGTGTGGGACAGTGGACATCGTAT
** * * * *
22478828 TACGATTACGTGTAAGACCATGTGTGGGACA-TCGACATCGTTAA
1 TGTGATTACATGTAAGACCCTGTGTGGGACAGTGGACATCG-TAT
* *
22478872 T-CGACTT-CATGTAAGATCCTGTGTGGGACAGTGG-CATCG-AT
1 TGTGA-TTACATGTAAGACCCTGTGTGGGACAGTGGACATCGTAT
* *
22478913 ATGTGATAACACGTAAGACC
1 -TGTGATTACATGTAAGACC
22478933 ATATCTAGGA
Statistics
Matches: 123, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.01
42 5 0.04
43 110 0.89
44 7 0.06
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (44 bp):
TGTGATTACATGTAAGACCCTGTGTGGGACAGTGGACATCGTAT
Found at i:22483888 original size:18 final size:17
Alignment explanation
Indices: 22483851--22483899 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
22483841 GATTTAGGTC
*
22483851 GTGTGGGTCATACGGGT
1 GTGTGGGTCACACGGGT
*
22483868 GTGTGGGTCTACACTGGT
1 GTGTGGGTC-ACACGGGT
22483886 GTGTGGGTTCACAC
1 GTGTGGG-TCACAC
22483900 AGACGTGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 9 0.32
18 17 0.61
19 2 0.07
ACGTcount: A:0.12, C:0.16, G:0.41, T:0.31
Consensus pattern (17 bp):
GTGTGGGTCACACGGGT
Found at i:22499826 original size:66 final size:66
Alignment explanation
Indices: 22499680--22499827 Score: 183
Period size: 66 Copynumber: 2.2 Consensus size: 66
22499670 GGTTTAGAGT
** * * *
22499680 TTTTTTTTTAAAAT-AATTAAATTAGGTTTTAGGGGTTTTAAATAAATTAATTAAATTAGATTTC
1 TTTTTTTAAAAAATAAATTAAATTAGGATTTAGGGGTTTTAAATAAATAAATTAAATTAGATTTA
22499744 G
66 G
*** *
22499745 GGGTTTTAAATAAATAAATTAAATTA-GATTTAGGGGTTTTAAATAAATAAATTAAATTAGGCTT
1 TTTTTTTAAA-AAATAAATTAAATTAGGATTTAGGGGTTTTAAATAAATAAATTAAATTA-GATT
22499809 TAG
64 TAG
22499812 TTTTTTTAAAAAATAA
1 TTTTTTTAAAAAATAA
22499828 TTTTTGTGTT
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
65 5 0.07
66 41 0.60
67 22 0.32
ACGTcount: A:0.41, C:0.01, G:0.13, T:0.45
Consensus pattern (66 bp):
TTTTTTTAAAAAATAAATTAAATTAGGATTTAGGGGTTTTAAATAAATAAATTAAATTAGATTTA
G
Found at i:22499827 original size:33 final size:33
Alignment explanation
Indices: 22499690--22499804 Score: 187
Period size: 33 Copynumber: 3.5 Consensus size: 33
22499680 TTTTTTTTTA
*
22499690 AAAT-AATTAAATTAGGTTTTAGGGGTTTTAAAT
1 AAATAAATTAAATTA-GATTTAGGGGTTTTAAAT
* *
22499723 AAATTAATTAAATTAGATTTCGGGGTTTTAAAT
1 AAATAAATTAAATTAGATTTAGGGGTTTTAAAT
22499756 AAATAAATTAAATTAGATTTAGGGGTTTTAAAT
1 AAATAAATTAAATTAGATTTAGGGGTTTTAAAT
22499789 AAATAAATTAAATTAG
1 AAATAAATTAAATTAG
22499805 GCTTTAGTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
33 67 0.87
34 10 0.13
ACGTcount: A:0.44, C:0.01, G:0.15, T:0.40
Consensus pattern (33 bp):
AAATAAATTAAATTAGATTTAGGGGTTTTAAAT
Found at i:22500129 original size:125 final size:126
Alignment explanation
Indices: 22499908--22500177 Score: 366
Period size: 125 Copynumber: 2.2 Consensus size: 126
22499898 AAGAAAGATT
* * * * * *
22499908 TTTTTTTACAGTAGTTTC-AAAAAAATTATTTTGTGAAGACGATTCTGAAAAGATAATGTCAAAA
1 TTTTTATACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAATGTCAAAA
* * *
22499972 ATGCTTCAAGTAGGATGCACTATCAGCAAAATTACTG-AAAAAGC-TCTCACGTGAATGCTC
66 ACGCTTCAAGTAAGATGCACTATCAGCAAAATTACTGAAAAAAGCTTC-CACGTGAACGCTC
* *
22500032 TTTTTATACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTTTGAAAAAATAGTGTCAAAA
1 TTTTTATACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAATGTCAAAA
* * *
22500097 ACGCTTCAAGTAAGATGCACTGTCAGCAAAATTATTGAAAAAAGCTTCCACGTGGACGCTC
66 ACGCTTCAAGTAAGATGCACTATCAGCAAAATTACTGAAAAAAGCTTCCACGTGAACGCTC
* *
22500158 TTTTTCTACAATAGTTCCTG
1 TTTTTATACAGTAGTTCCTG
22500178 CTTGGCCTTA
Statistics
Matches: 127, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
124 16 0.13
125 73 0.57
126 36 0.28
127 2 0.02
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (126 bp):
TTTTTATACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAATGTCAAAA
ACGCTTCAAGTAAGATGCACTATCAGCAAAATTACTGAAAAAAGCTTCCACGTGAACGCTC
Found at i:22512929 original size:47 final size:47
Alignment explanation
Indices: 22512876--22513051 Score: 228
Period size: 47 Copynumber: 3.7 Consensus size: 47
22512866 CATCGATAAC
22512876 TACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTTATCCCAGAG
1 TACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTTATCCCAGAG
* * *
22512923 TACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTTATCCCGGAG
1 TACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTTATCCCAGAG
** ** * *
22512970 CGCCTATACCATGGCCC-ATAGCCAAATCAAGGTAACTCCTCTCCAAAA
1 TACCTATACCATGGCCCGA-AGCCAAATCAAGGTAACTTATC-CCAGAG
* *
22513018 TACCTATACCATGGCTCGTAGCCAAATCAAGGTA
1 TACCTATACCATGGCCCGAAGCCAAATCAAGGTA
22513052 TCACTCGCAC
Statistics
Matches: 110, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
47 78 0.71
48 32 0.29
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.21
Consensus pattern (47 bp):
TACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTTATCCCAGAG
Found at i:22516534 original size:24 final size:24
Alignment explanation
Indices: 22516468--22516544 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
22516458 AGTGTTAGAA
* * *
22516468 ATATACTATATATATTGTTTAAAGT
1 ATATACTATTTATATTG-TCAAAAT
* * *
22516493 ATATAC-A-TGAAATAGTCAAAAT
1 ATATACTATTTATATTGTCAAAAT
22516515 ATATACTATTTATATTGTCAAAAT
1 ATATACTATTTATATTGTCAAAAT
22516539 ATATAC
1 ATATAC
22516545 ATAATGTATA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
22 11 0.27
23 5 0.12
24 19 0.46
25 6 0.15
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.40
Consensus pattern (24 bp):
ATATACTATTTATATTGTCAAAAT
Found at i:22516633 original size:9 final size:9
Alignment explanation
Indices: 22516619--22516643 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
22516609 ATGTATACCT
22516619 ATATATATA
1 ATATATATA
22516628 ATATATATA
1 ATATATATA
22516637 ATATATA
1 ATATATA
22516644 CAAAGTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
ATATATATA
Found at i:22517183 original size:19 final size:18
Alignment explanation
Indices: 22517147--22517195 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
22517137 GAAATACTTA
*
22517147 ATACATAATATTGGAATAT
1 ATACATAATA-TGAAATAT
*
22517166 TTACATAATATGAAAATAT
1 ATACATAATATG-AAATAT
*
22517185 ATATATAATAT
1 ATACATAATAT
22517196 AGTATTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 2 0.08
19 23 0.92
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (18 bp):
ATACATAATATGAAATAT
Found at i:22517362 original size:22 final size:23
Alignment explanation
Indices: 22517312--22517373 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
22517302 AATATATAAA
* *
22517312 ATATAATATTTGAAAACACATGT
1 ATATAATATATGAAAACACATAT
*
22517335 ATATAATATATGAAAA-ATATAT
1 ATATAATATATGAAAACACATAT
*
22517357 ATATAATAGTATTAAAA
1 ATATAATA-TATGAAAA
22517374 TATTTACGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 12 0.35
23 22 0.65
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATAATATATGAAAACACATAT
Found at i:22517448 original size:19 final size:19
Alignment explanation
Indices: 22517424--22517460 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22517414 TGATGCTACA
*
22517424 TAAATATATATAAATATAT
1 TAAATACATATAAATATAT
*
22517443 TAAATACATATATATATA
1 TAAATACATATAAATATA
22517461 CACATGCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAATACATATAAATATAT
Found at i:22521512 original size:17 final size:18
Alignment explanation
Indices: 22521492--22521525 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22521482 TATATAACTA
*
22521492 TATTGTTAATA-ATTAAT
1 TATTATTAATATATTAAT
22521509 TATTATTAATATATTAA
1 TATTATTAATATATTAA
22521526 ATTCAACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TATTATTAATATATTAAT
Found at i:22527569 original size:15 final size:15
Alignment explanation
Indices: 22527549--22527579 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22527539 ATGGCCTCCA
*
22527549 GCCCACGCACCCCCG
1 GCCCACACACCCCCG
22527564 GCCCACACACCCCCG
1 GCCCACACACCCCCG
22527579 G
1 G
22527580 TTGGGGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.65, G:0.19, T:0.00
Consensus pattern (15 bp):
GCCCACACACCCCCG
Found at i:22528770 original size:29 final size:29
Alignment explanation
Indices: 22528728--22528783 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
22528718 AATAGTGTTA
22528728 GTACGACACGTTCGATATGATTACAAATT
1 GTACGACACGTTCGATATGATTACAAATT
*
22528757 GTACGACATGTTCGATATGATTACAAA
1 GTACGACACGTTCGATATGATTACAAA
22528784 CTAACTTCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (29 bp):
GTACGACACGTTCGATATGATTACAAATT
Found at i:22531843 original size:18 final size:19
Alignment explanation
Indices: 22531810--22531845 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22531800 GAGTGCATAT
22531810 CTGGCACACGAAGTGCATC
1 CTGGCACACGAAGTGCATC
*
22531829 CTGGCACA-TAAGTGCAT
1 CTGGCACACGAAGTGCAT
22531846 AATCTCATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (19 bp):
CTGGCACACGAAGTGCATC
Found at i:22534414 original size:16 final size:17
Alignment explanation
Indices: 22534364--22534415 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
22534354 TGTTTTTAAC
22534364 AAATATTTTTAAGATAAA
1 AAATATTTTTAAGAT-AA
* *
22534382 AAATACTTTTAATATAA
1 AAATATTTTTAAGATAA
22534399 AAATATTTTTAA-ATAA
1 AAATATTTTTAAGATAA
22534415 A
1 A
22534416 TTACTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
16 5 0.16
17 13 0.42
18 13 0.42
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
AAATATTTTTAAGATAA
Found at i:22538696 original size:27 final size:27
Alignment explanation
Indices: 22538629--22538696 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
22538619 CCAACATCCT
* * * *
22538629 CCGATTTAATATCCACCACTTCAGTTC
1 CCGATCTAACATCCACCACATCAGATC
* *
22538656 CCGGTCTAATATCCACCACATCAGATC
1 CCGATCTAACATCCACCACATCAGATC
*
22538683 CCGATCTTACATCC
1 CCGATCTAACATCC
22538697 TTAATCTCTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.26, C:0.37, G:0.09, T:0.28
Consensus pattern (27 bp):
CCGATCTAACATCCACCACATCAGATC
Found at i:22547045 original size:18 final size:18
Alignment explanation
Indices: 22547019--22547077 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
22547009 TTGAAGGTAC
*
22547019 TTTAGTTTTTTTAATTTT
1 TTTACTTTTTTTAATTTT
*
22547037 TTTAC-TTTTTTAGTTTTT
1 TTTACTTTTTTTA-ATTTT
* *
22547055 TTTACTTTAATTTAATATT
1 TTTACTTT-TTTTAATTTT
22547074 TTTA
1 TTTA
22547078 TTTAGTTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
17 7 0.21
18 13 0.39
19 9 0.27
20 4 0.12
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.73
Consensus pattern (18 bp):
TTTACTTTTTTTAATTTT
Found at i:22547103 original size:15 final size:15
Alignment explanation
Indices: 22547069--22547106 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
22547059 CTTTAATTTA
22547069 ATATTTTTATTTAGT
1 ATATTTTTATTTAGT
*
22547084 TTATTTTTATTGT-GT
1 ATATTTTTATT-TAGT
22547099 ATATTTTT
1 ATATTTTT
22547107 TTACTCTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 19 0.95
16 1 0.05
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (15 bp):
ATATTTTTATTTAGT
Found at i:22548719 original size:21 final size:22
Alignment explanation
Indices: 22548681--22548721 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
22548671 ATGAAATGAT
22548681 AGTAAAACAGTGGAAAAACAGA
1 AGTAAAACAGTGGAAAAACAGA
22548703 AGTAAAACAGT-GAAAAACA
1 AGTAAAACAGTGGAAAAACA
22548722 ATAGCAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.61, C:0.10, G:0.20, T:0.10
Consensus pattern (22 bp):
AGTAAAACAGTGGAAAAACAGA
Found at i:22560297 original size:6 final size:6
Alignment explanation
Indices: 22560265--22560305 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
22560255 ACAATACCTA
* *
22560265 AACAGT AATCAGT AACGGT AGCAGT AACAGT AACAGT AACA
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACA
22560306 ATATTCAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (6 bp):
AACAGT
Found at i:22560338 original size:45 final size:44
Alignment explanation
Indices: 22560288--22560395 Score: 146
Period size: 45 Copynumber: 2.4 Consensus size: 44
22560278 AACGGTAGCA
* *
22560288 GTAACAGTAACAGTAACAATATTCAACATACAAAGTGTTGAATC
1 GTAACAGTAACAGTAACAATATTCAACACACAAAGTGTCGAATC
* *
22560332 TGTAACAGTAAC-GATAACAATATTCGATACACAAAGTGTCGAATC
1 -GTAACAGTAACAG-TAACAATATTCAACACACAAAGTGTCGAATC
22560377 GATAACAGTAACAGTAACA
1 G-TAACAGTAACAGTAACA
22560396 GTAATAGTAG
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
44 2 0.04
45 53 0.95
46 1 0.02
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (44 bp):
GTAACAGTAACAGTAACAATATTCAACACACAAAGTGTCGAATC
Found at i:22560637 original size:40 final size:40
Alignment explanation
Indices: 22560591--22560677 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
22560581 AATTCATTAC
* * *
22560591 TTCAGTAATTTCACAGTTCAATGCAGTACACATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
* * **
22560631 TTCAGTAACTTCAGAATTCAATTCAGTATTCAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
22560671 TTCAGTA
1 TTCAGTA
22560678 TTCCATAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.32
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
Found at i:22561051 original size:22 final size:22
Alignment explanation
Indices: 22561009--22561054 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
22560999 TTAACTAAAC
*
22561009 TCATATATTTTTCTTCTTCAAT
1 TCATATATTTTTATTCTTCAAT
*
22561031 TCATATCTTTTTATTAC-TCAAT
1 TCATATATTTTTATT-CTTCAAT
22561053 TC
1 TC
22561055 CCTACCAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.57
Consensus pattern (22 bp):
TCATATATTTTTATTCTTCAAT
Found at i:22561585 original size:12 final size:12
Alignment explanation
Indices: 22561568--22561594 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22561558 GCACATGTTT
22561568 ATAACCATTACC
1 ATAACCATTACC
22561580 ATAACCATTACC
1 ATAACCATTACC
22561592 ATA
1 ATA
22561595 CATGTGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (12 bp):
ATAACCATTACC
Found at i:22564525 original size:46 final size:44
Alignment explanation
Indices: 22564421--22564528 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
22564411 TGTCTTTGAC
** * * *
22564421 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
22564465 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
22564511 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
22564529 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:22574280 original size:16 final size:17
Alignment explanation
Indices: 22574249--22574281 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22574239 TTCATAAGTA
22574249 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
22574266 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
22574282 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:22574793 original size:46 final size:46
Alignment explanation
Indices: 22574577--22574789 Score: 311
Period size: 46 Copynumber: 4.6 Consensus size: 46
22574567 TGCCGTAGTG
*
22574577 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATGGTA
* * *
22574623 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
* **
22574669 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
* * *
22574715 TCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
*
22574761 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTACTCATTTCAT
22574790 ATCAGAGAGC
Statistics
Matches: 152, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
45 4 0.03
46 148 0.97
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATGGTA
Found at i:22589108 original size:20 final size:21
Alignment explanation
Indices: 22589081--22589123 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
22589071 AAGAGAATTC
*
22589081 AAGCAAGAGAAA-GAA-AGAA
1 AAGCAAGAAAAATGAAGAGAA
22589100 AAGCTAAGAAAAATGAAGAGAA
1 AAGC-AAGAAAAATGAAGAGAA
22589122 AA
1 AA
22589124 TTGATGAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 7 0.35
21 3 0.15
22 6 0.30
ACGTcount: A:0.67, C:0.05, G:0.23, T:0.05
Consensus pattern (21 bp):
AAGCAAGAAAAATGAAGAGAA
Found at i:22597021 original size:22 final size:22
Alignment explanation
Indices: 22596995--22597041 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
22596985 AAGTGATGGT
22596995 ATAAAACAACTTAAAACAAATA
1 ATAAAACAACTTAAAACAAATA
* * * *
22597017 ATAAAATAATTTTAAATAAATA
1 ATAAAACAACTTAAAACAAATA
22597039 ATA
1 ATA
22597042 TATATATAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (22 bp):
ATAAAACAACTTAAAACAAATA
Found at i:22597690 original size:10 final size:12
Alignment explanation
Indices: 22597665--22597696 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
22597655 AACTTAAAAT
22597665 AAATAATATATA
1 AAATAATATATA
22597677 AAATAAT-T-TA
1 AAATAATATATA
22597687 AAATAATATA
1 AAATAATATA
22597697 CAATGAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.50
11 2 0.11
12 7 0.39
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAATAATATATA
Found at i:22599901 original size:24 final size:22
Alignment explanation
Indices: 22599856--22599901 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
22599846 TTGATGGTGA
*
22599856 ACTTTATTGATAATCAATAAAT
1 ACTTTATTGATAATCAAGAAAT
*
22599878 ACTTTATTTGTATAATTAAGAAAT
1 ACTTTA-TTG-ATAATCAAGAAAT
22599902 TAAATAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (22 bp):
ACTTTATTGATAATCAAGAAAT
Found at i:22601112 original size:28 final size:29
Alignment explanation
Indices: 22601064--22601149 Score: 102
Period size: 28 Copynumber: 3.0 Consensus size: 29
22601054 TAGAGTTTAG
**
22601064 GGGTTCTGAAAAAAATAATTTTGGTGAAAT
1 GGGTTCTG-AAAAAATAATTTTGACGAAAT
* *
22601094 GGGTTCT-AAAAAATAATTTTAACGAGAT
1 GGGTTCTGAAAAAATAATTTTGACGAAAT
* *
22601122 GGGTTCTGAAGAAATAATTTTGAAGAAA
1 GGGTTCTGAAAAAATAATTTTGACGAAA
22601150 AAACTCTTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
28 24 0.51
29 16 0.34
30 7 0.15
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (29 bp):
GGGTTCTGAAAAAATAATTTTGACGAAAT
Found at i:22601505 original size:193 final size:192
Alignment explanation
Indices: 22601179--22601808 Score: 852
Period size: 193 Copynumber: 3.3 Consensus size: 192
22601169 CACAGTCAGT
* * *
22601179 AAAAGTACTGAAAACGCTTCCAGCTGGATGCCCTTTTCAGTACTGCTGCTTCTAAAAAATTAATT
1 AAAAGTACTGAAAACGCTTCCAGCTGGACGCCCTTTTCAGTACTGCTGCTTCTGAAAAATAAATT
* * *
22601244 TGAAGAGATGATTTTGAAAAAATATCTCT-AGATTCCCGGGATATTTAAAAGGTTTGTGAAAAAT
66 TGAGGAGATGATTCTGAAAAAATATCT-TGAGATTCCCGGGATATTTGAAAGGTTTGTGAAAAAT
* * * * * *
22601308 GCCCCGAATGGTGGGGGTTGAGGTTTGTAGAGGAACAACACTCCAAGTAGGATGCATTATTAGT
130 GCCCCGAATAGT-GGGGTTAAGGTTTGTAGAGGAAAAACGCTCCAAGTAGGATGCACTATTAGC
* * **
22601372 AAAAGTACTGAAAACGATTCCAGCTAGACATCCTTTTCAGTACTGCTGCTTCTGAAAAATAAATT
1 AAAAGTACTGAAAACGCTTCCAGCTGGACGCCCTTTTCAGTACTGCTGCTTCTGAAAAATAAATT
*
22601437 TGAGGAGATGATTCTGAAAAAATATCTTGAGATTCCCGAGATATTTGAAAGGTTTGTGAAAAATG
66 TGAGGAGATGATTCTGAAAAAATATCTTGAGATTCCCGGGATATTTGAAAGGTTTGTGAAAAATG
* * * * *
22601502 CCCCAAATAGTAGAGGCTAAGGTTTGTAGAGAAAAAAACGCTCCAA-TCAGGATACACTATTAGC
131 CCCCGAATAGT-GGGGTTAAGGTTTGTAGAG-GAAAAACGCTCCAAGT-AGGATGCACTATTAGC
* * *
22601566 AAAAGTATTGAAAATGCTTCCAGCTGGATGCCCTTTTCAGTACTGCTGCTTCTGAAAAAATAAAT
1 AAAAGTACTGAAAACGCTTCCAGCTGGACGCCCTTTTCAGTACTGCTGCTTCTG-AAAAATAAAT
* * * *
22601631 GTGAGGAGATGATTCTTAAAAAATGTCTCGAGATTCCCGGGATATTTGAAAGGTTTGTGAAAAAT
65 TTGAGGAGATGATTCTGAAAAAATATCTTGAGATTCCCGGGATATTTGAAAGGTTTGTGAAAAAT
* * * *
22601696 TCCCCGAATAGTGGGGTTAATGTTTGTAGAGGAAAAACGCTCCAAGCAGGATGCACTATCAGC
130 GCCCCGAATAGTGGGGTTAAGGTTTGTAGAGGAAAAACGCTCCAAGTAGGATGCACTATTAGC
* * *
22601759 AAAAGT-CTTGAAAATGCTTCTAGCTGGACGCCCTTTTCAGTACTTCTGCT
1 AAAAGTAC-TGAAAACGCTTCCAGCTGGACGCCCTTTTCAGTACTGCTGCT
22601809 GATAGTGCGT
Statistics
Matches: 383, Mismatches: 48, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
192 1 0.00
193 215 0.56
194 87 0.23
195 80 0.21
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (192 bp):
AAAAGTACTGAAAACGCTTCCAGCTGGACGCCCTTTTCAGTACTGCTGCTTCTGAAAAATAAATT
TGAGGAGATGATTCTGAAAAAATATCTTGAGATTCCCGGGATATTTGAAAGGTTTGTGAAAAATG
CCCCGAATAGTGGGGTTAAGGTTTGTAGAGGAAAAACGCTCCAAGTAGGATGCACTATTAGC
Found at i:22602456 original size:32 final size:32
Alignment explanation
Indices: 22602415--22602526 Score: 145
Period size: 32 Copynumber: 3.5 Consensus size: 32
22602405 TAGAAGAATA
* *
22602415 TTGTTATCATTTAACAAAATTAAAGTTGATTT
1 TTGTTATCATTTCACAAAATTAAAGTTGATAT
*
22602447 TTGTTATCATTTCACAAAATTGAAGTTG-TAAT
1 TTGTTATCATTTCACAAAATTAAAGTTGAT-AT
* * * *
22602479 TTGTTACCATTTCACAAAATGAAAGCTAATAT
1 TTGTTATCATTTCACAAAATTAAAGTTGATAT
22602511 TTGTTATCATTTCACA
1 TTGTTATCATTTCACA
22602527 GAACTGCGCG
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
31 1 0.01
32 67 0.97
33 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.43
Consensus pattern (32 bp):
TTGTTATCATTTCACAAAATTAAAGTTGATAT
Found at i:22602831 original size:17 final size:18
Alignment explanation
Indices: 22602809--22602852 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
22602799 CCCCAACCCT
22602809 AAACCCTAACAA-ACTAA
1 AAACCCTAACAACACTAA
*
22602826 AAACCCTAACAACCCTAA
1 AAACCCTAACAACACTAA
*
22602844 ACACCCTAA
1 AAACCCTAA
22602853 TATAACACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.52, C:0.36, G:0.00, T:0.11
Consensus pattern (18 bp):
AAACCCTAACAACACTAA
Found at i:22614639 original size:12 final size:13
Alignment explanation
Indices: 22614624--22614653 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
22614614 TAGTTCAAGG
22614624 ATCAGTTC-TTAT
1 ATCAGTTCTTTAT
22614636 ATCAGTTCTTTAT
1 ATCAGTTCTTTAT
22614649 ATCAG
1 ATCAG
22614654 ACTGATATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.47
Consensus pattern (13 bp):
ATCAGTTCTTTAT
Found at i:22619977 original size:20 final size:20
Alignment explanation
Indices: 22619952--22619991 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
22619942 ATTTGAACCC
*
22619952 ATATTATTTGCATCAATAAA
1 ATATTAATTGCATCAATAAA
* *
22619972 ATATTAATTGTATCACTAAA
1 ATATTAATTGCATCAATAAA
22619992 CCAAAACTTT
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:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (20 bp):
ATATTAATTGCATCAATAAA
Found at i:22620734 original size:22 final size:22
Alignment explanation
Indices: 22620706--22620781 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
22620696 TATATGTTTA
22620706 ATATTTTAACAATTTAATTATT
1 ATATTTTAACAATTTAATTATT
* * * *
22620728 ATATTTT-ATATTTTATTTCACATA
1 ATATTTTAACAATTTAATT---ATT
* *
22620752 ATATTTTAACAATTCAATTAAT
1 ATATTTTAACAATTTAATTATT
22620774 ATATTTTA
1 ATATTTTA
22620782 TATTTTATTA
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
21 8 0.20
22 16 0.40
24 9 0.22
25 7 0.17
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATTTTAACAATTTAATTATT
Found at i:22623678 original size:55 final size:55
Alignment explanation
Indices: 22623566--22623674 Score: 141
Period size: 54 Copynumber: 2.0 Consensus size: 55
22623556 TATCGCCGTT
* **
22623566 TAATATTTTTCACAAAACCCTTCTCTAATATCTGATTTGTAAAGTTGCCCCAAAA
1 TAATATTTTTCACAAAACCCTTCTCTAATATCTGATTTCTAAAGGGGCCCCAAAA
* * *
22623621 TAATATTTTTCACAAAA-CCTTTTTTAATGTCTGATTTCT-AAGGGGCTCCCAAAA
1 TAATATTTTTCACAAAACCCTTCTCTAATATCTGATTTCTAAAGGGGC-CCCAAAA
22623675 ATAAATGCAG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 5 0.11
54 25 0.53
55 17 0.36
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (55 bp):
TAATATTTTTCACAAAACCCTTCTCTAATATCTGATTTCTAAAGGGGCCCCAAAA
Found at i:22624567 original size:12 final size:11
Alignment explanation
Indices: 22624540--22624580 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
22624530 AATAATACAA
* *
22624540 AAATTATTAAA
1 AAATTATGAAG
22624551 AAATTATGAAG
1 AAATTATGAAG
22624562 AGAATTATGAAG
1 A-AATTATGAAG
22624574 AAATTAT
1 AAATTAT
22624581 AATTCTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (11 bp):
AAATTATGAAG
Found at i:22628330 original size:18 final size:19
Alignment explanation
Indices: 22628307--22628352 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
22628297 TAAACTGAGT
* *
22628307 TTTTTTAATTTTTTAA-AG
1 TTTTTTAATTTATTAATAA
22628325 TTTTTTAA-TTATTAATAA
1 TTTTTTAATTTATTAATAA
22628343 TTTTTTAATT
1 TTTTTTAATT
22628353 GAACTGGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.25
18 17 0.71
19 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTTAATTTATTAATAA
Found at i:22630300 original size:20 final size:20
Alignment explanation
Indices: 22630272--22630309 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22630262 CTAGGAACTA
22630272 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
* *
22630292 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
22630310 TATAAGTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:22632230 original size:22 final size:23
Alignment explanation
Indices: 22632205--22632247 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
22632195 TTACAAGCAT
*
22632205 AAATGACCA-CATTTCATAACTC
1 AAATGACAATCATTTCATAACTC
*
22632227 AAATGGCAATCATTTCATAAC
1 AAATGACAATCATTTCATAAC
22632248 CATTTCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (23 bp):
AAATGACAATCATTTCATAACTC
Found at i:22632426 original size:23 final size:23
Alignment explanation
Indices: 22632396--22632442 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
22632386 ACACATATAC
22632396 ATAACCAATATTTAGCCAAGTTA
1 ATAACCAATATTTAGCCAAGTTA
22632419 ATAACCAATATTTAGCCAAGTTA
1 ATAACCAATATTTAGCCAAGTTA
22632442 A
1 A
22632443 GCCAAATCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.30
Consensus pattern (23 bp):
ATAACCAATATTTAGCCAAGTTA
Found at i:22633265 original size:20 final size:20
Alignment explanation
Indices: 22633158--22633265 Score: 76
Period size: 20 Copynumber: 5.4 Consensus size: 20
22633148 TTTCTATTTG
* *
22633158 TATAAACTGTAATTCATTCA
1 TATAAACAGTAATTCATCCA
* * *
22633178 TATAACCAGTAGTTCATCCG
1 TATAAACAGTAATTCATCCA
* * *
22633198 TGTAAACAGTAGTTCAT-TA
1 TATAAACAGTAATTCATCCA
* * *
22633217 T-TAATAACAATAATTCAACTA
1 TAT-A-AACAGTAATTCATCCA
*
22633238 TATCAACAGTAATTCATCCA
1 TATAAACAGTAATTCATCCA
22633258 TATAAACA
1 TATAAACA
22633266 CATATCTTAT
Statistics
Matches: 67, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
18 1 0.01
19 2 0.03
20 60 0.90
21 3 0.04
22 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (20 bp):
TATAAACAGTAATTCATCCA
Found at i:22633445 original size:23 final size:23
Alignment explanation
Indices: 22633415--22633591 Score: 194
Period size: 23 Copynumber: 7.6 Consensus size: 23
22633405 TGATCGATAG
22633415 GCTCTTTTGAGCTGAAACGGTAA
1 GCTCTTTTGAGCTGAAACGGTAA
*
22633438 GCTCTTTTGAGCTGAAACGATAA
1 GCTCTTTTGAGCTGAAACGGTAA
* * *
22633461 GCTCCTTTAAGTTGAAACGGTAA
1 GCTCTTTTGAGCTGAAACGGTAA
* * * * *
22633484 GTTCTTTCGAG-TTAAATGGTTA
1 GCTCTTTTGAGCTGAAACGGTAA
* *
22633506 GCTCCTTTAAGCTGAAACGGTAA
1 GCTCTTTTGAGCTGAAACGGTAA
22633529 GCTCTTTTGAGCTGAAACGGTAA
1 GCTCTTTTGAGCTGAAACGGTAA
* *
22633552 GCTCCTTTAAGCTGAAATATCGGTAA
1 GCTCTTTTGAGCTG-AA-A-CGGTAA
*
22633578 GCTCTTTCGAGCTG
1 GCTCTTTTGAGCTG
22633592 TGGTGAGTCC
Statistics
Matches: 124, Mismatches: 26, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
22 15 0.12
23 89 0.72
24 2 0.02
25 1 0.01
26 17 0.14
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (23 bp):
GCTCTTTTGAGCTGAAACGGTAA
Found at i:22633478 original size:46 final size:46
Alignment explanation
Indices: 22633392--22633591 Score: 224
Period size: 46 Copynumber: 4.3 Consensus size: 46
22633382 ATCATTTATC
* * * *
22633392 CTCTTTTGAGCCATG-ATCGATAGGCTCTTTTGAGCTGAAACGGTAAG
1 CTCTTTTGAG-C-TGAAACGATAAGCTCCTTTAAGCTGAAACGGTAAG
*
22633439 CTCTTTTGAGCTGAAACGATAAGCTCCTTTAAGTTGAAACGGTAAG
1 CTCTTTTGAGCTGAAACGATAAGCTCCTTTAAGCTGAAACGGTAAG
* * * * * *
22633485 TTCTTTCGAG-TTAAATGGTTAGCTCCTTTAAGCTGAAACGGTAAG
1 CTCTTTTGAGCTGAAACGATAAGCTCCTTTAAGCTGAAACGGTAAG
*
22633530 CTCTTTTGAGCTGAAACGGTAAGCTCCTTTAAGCTGAAATATCGGTAAG
1 CTCTTTTGAGCTGAAACGATAAGCTCCTTTAAGCTG-AA-A-CGGTAAG
*
22633579 CTCTTTCGAGCTG
1 CTCTTTTGAGCTG
22633592 TGGTGAGTCC
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
45 40 0.31
46 58 0.45
47 12 0.09
48 1 0.01
49 19 0.15
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (46 bp):
CTCTTTTGAGCTGAAACGATAAGCTCCTTTAAGCTGAAACGGTAAG
Found at i:22634664 original size:3 final size:3
Alignment explanation
Indices: 22634658--22634696 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
22634648 TTGTTGTGTT
22634658 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22634697 GGCTAATTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:22636458 original size:46 final size:46
Alignment explanation
Indices: 22636398--22636662 Score: 332
Period size: 46 Copynumber: 5.9 Consensus size: 46
22636388 TTTGACGTGA
* * * * * *
22636398 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAAGT
** * * *
22636444 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
*
22636490 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
*
22636536 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
*
22636582 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
22636620 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
22636663 GAGAGCACAC
Statistics
Matches: 196, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
38 33 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 149 0.76
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
Found at i:22636628 original size:38 final size:38
Alignment explanation
Indices: 22636577--22636652 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
22636567 CATTTCATAT
22636577 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
22636615 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
22636653 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:22637903 original size:19 final size:19
Alignment explanation
Indices: 22637867--22637904 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
22637857 TTTCATGATG
*
22637867 AAAATTTTTAAATTTTCCC
1 AAAATTTTTAAATGTTCCC
22637886 AAAAGTTTTTAAA-GTTCCC
1 AAAA-TTTTTAAATGTTCCC
22637905 GGTTTAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (19 bp):
AAAATTTTTAAATGTTCCC
Found at i:22640023 original size:21 final size:21
Alignment explanation
Indices: 22639984--22640023 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
22639974 AATCTTATTT
* * *
22639984 TTTTTTTAATTTGATTTGAAA
1 TTTTTTTAAATTAAATTGAAA
22640005 TTTTTTTAAATTAAATTGA
1 TTTTTTTAAATTAAATTGA
22640024 GTGAGATGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTTTTTAAATTAAATTGAAA
Found at i:22641399 original size:23 final size:23
Alignment explanation
Indices: 22641373--22641436 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 23
22641363 AAGTTTTTAA
*
22641373 AAAAATTAAAAATTAATTATTAT
1 AAAAATTAAAAATTAAATATTAT
*
22641396 AAAAACTAAAAA--AAATATTAT
1 AAAAATTAAAAATTAAATATTAT
* *
22641417 ATAAATATAAATATTAAATA
1 AAAAAT-TAAAAATTAAATA
22641437 AAATAATTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
21 12 0.36
22 5 0.15
23 11 0.33
24 5 0.15
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAAATTAAAAATTAAATATTAT
Found at i:22641430 original size:17 final size:16
Alignment explanation
Indices: 22641402--22641460 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
22641392 TTATAAAAAC
* *
22641402 TAAAAAAAATATTATA
1 TAAAATAAATATTAAA
22641418 TAAATATAAATATTAAA
1 TAAA-ATAAATATTAAA
22641435 TAAAATAATTATATT-AA
1 TAAAATAA--ATATTAAA
22641452 -AAAATAAAT
1 TAAAATAAAT
22641461 TTTTCCCCGC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 2 0.05
16 15 0.39
17 16 0.42
18 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAAATAAATATTAAA
Found at i:22642492 original size:3 final size:3
Alignment explanation
Indices: 22642484--22642529 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
22642474 AAAAGCTCTG
22642484 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
22642530 ACCTACGGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:22643970 original size:18 final size:18
Alignment explanation
Indices: 22643944--22643994 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
22643934 GTACATTTGG
22643944 TCAAGTGAAGAAGAATTT
1 TCAAGTGAAGAAGAATTT
*
22643962 TCAAATGAAGAAGAATTT
1 TCAAGTGAAGAAGAATTT
*
22643980 TCAAGTAAAGAAGAA
1 TCAAGTGAAGAAGAA
22643995 CAAGATGAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.51, C:0.06, G:0.20, T:0.24
Consensus pattern (18 bp):
TCAAGTGAAGAAGAATTT
Found at i:22644561 original size:25 final size:26
Alignment explanation
Indices: 22644515--22644566 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
22644505 TTGTATAATC
*
22644515 TTAATACAATGAATTTATAAAAATAA
1 TTAATAAAATGAATTTATAAAAATAA
*
22644541 TTAATAAAATG-ATTTATAAAAGTAA
1 TTAATAAAATGAATTTATAAAAATAA
22644566 T
1 T
22644567 AACTTGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (26 bp):
TTAATAAAATGAATTTATAAAAATAA
Found at i:22646671 original size:24 final size:24
Alignment explanation
Indices: 22646644--22646689 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
22646634 TAGACGACGG
**
22646644 ACAAATAGGATTGGATGACGATGA
1 ACAAATAGGATCAGATGACGATGA
22646668 ACAAATAGGATCAGATGACGAT
1 ACAAATAGGATCAGATGACGAT
22646690 CCATTCTCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.26, T:0.20
Consensus pattern (24 bp):
ACAAATAGGATCAGATGACGATGA
Found at i:22650995 original size:27 final size:28
Alignment explanation
Indices: 22650942--22651005 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
22650932 CTAGTTTGGT
*
22650942 TCCATGCTCCCTTTTTCTCTTCTGTTCA
1 TCCATGCTCCCTTTTTCTCTTCGGTTCA
22650970 TCCATGCTCCCTTTTTCTCTT-GGTTCA
1 TCCATGCTCCCTTTTTCTCTTCGGTTCA
22650997 TCCATGCTC
1 TCCATGCTC
22651006 GGCTTCCAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 14 0.40
28 21 0.60
ACGTcount: A:0.08, C:0.36, G:0.09, T:0.47
Consensus pattern (28 bp):
TCCATGCTCCCTTTTTCTCTTCGGTTCA
Found at i:22651415 original size:10 final size:9
Alignment explanation
Indices: 22651396--22651429 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
22651386 AAGAGAGGGG
22651396 AAAAAAAGA
1 AAAAAAAGA
22651405 AAAATAAAGA
1 AAAA-AAAGA
22651415 AATAAAAAGA
1 AA-AAAAAGA
22651425 AAAAA
1 AAAAA
22651430 TTAAATTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 7 0.30
10 14 0.61
11 2 0.09
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:22656733 original size:7 final size:7
Alignment explanation
Indices: 22656721--22656745 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22656711 AATTTCAAAG
22656721 TATTATA
1 TATTATA
22656728 TATTATA
1 TATTATA
22656735 TATTATA
1 TATTATA
22656742 TATT
1 TATT
22656746 GTAAGTTGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TATTATA
Found at i:22659468 original size:8 final size:9
Alignment explanation
Indices: 22659453--22659477 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
22659443 TTATAATTTA
22659453 AAATTTTTT
1 AAATTTTTT
22659462 AAATTTTTT
1 AAATTTTTT
22659471 AAATTTT
1 AAATTTT
22659478 ATTTTGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
AAATTTTTT
Found at i:22660380 original size:11 final size:11
Alignment explanation
Indices: 22660364--22660406 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
22660354 TAGAATATAT
22660364 CCCATACCTTG
1 CCCATACCTTG
*
22660375 CCCATACCTTT
1 CCCATACCTTG
*
22660386 CCCATACC-TA
1 CCCATACCTTG
22660396 CCCATACCTTG
1 CCCATACCTTG
22660407 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:22660391 original size:22 final size:21
Alignment explanation
Indices: 22660363--22660405 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
22660353 TTAGAATATA
*
22660363 TCCCATACCTTGCCCATACCTT
1 TCCCATACC-TACCCATACCTT
22660385 TCCCATACCTACCCATACCTT
1 TCCCATACCTACCCATACCTT
22660406 GGAAAGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.21, C:0.47, G:0.02, T:0.30
Consensus pattern (21 bp):
TCCCATACCTACCCATACCTT
Found at i:22661287 original size:226 final size:226
Alignment explanation
Indices: 22660893--22661442 Score: 1082
Period size: 226 Copynumber: 2.4 Consensus size: 226
22660883 TCCGCGCAAC
22660893 AGGTTTTGATCACCCAACTATTTTTAATTACCTAATAACCTTTAACATTATCGAATTGTCATATT
1 AGGTTTTGATCACCCAACTATTTTTAATTACCTAATAACCTTTAACATTATCGAATTGTCATATT
22660958 TTTGCTACTCATCTGATACCTCTCATTAAAACATTATCGAATCACTTTAATGTTTTGTTTGCTTA
66 TTTGCTACTCATCTGATACCTCTCATTAAAACATTATCGAATCACTTTAATGTTTTGTTTGCTTA
22661023 TAATGTTATGCTATGCATAGAATCCGTGATGAATTAGTCATTAAGAAAAGTAAGAGACAAATTGT
131 TAATGTTATGCTATGCATAGAATCCGTGATGAATTAGTCATTAAGAAAAGTAAGAGACAAATTGT
22661088 ACATCGTTGGCCCTTAATTTCGGTCAAGATT
196 ACATCGTTGGCCCTTAATTTCGGTCAAGATT
22661119 AGGTTTTGATCACCCAACTATTTTTAATTACCTAATAACCTTTAACATTATCGAATTGTCATATT
1 AGGTTTTGATCACCCAACTATTTTTAATTACCTAATAACCTTTAACATTATCGAATTGTCATATT
22661184 TTTGCTACTCATCTGATACCTCTCATTAAAACATTATCGAATCACTTTAATGTTTTGTTTGCTTA
66 TTTGCTACTCATCTGATACCTCTCATTAAAACATTATCGAATCACTTTAATGTTTTGTTTGCTTA
22661249 TAATGTTATGCTATGCATAGAATCCGTGATGAATTAGTCATTAAGAAAAGTAAGAGACAAATTGT
131 TAATGTTATGCTATGCATAGAATCCGTGATGAATTAGTCATTAAGAAAAGTAAGAGACAAATTGT
22661314 ACATCGTTGGCCCTTAATTTCGGTCAAGATT
196 ACATCGTTGGCCCTTAATTTCGGTCAAGATT
*
22661345 AGGTTTTGATCACCCAACTATTTTTAATTACCTAATAACCATTAACATTATCGAATTGTCATATT
1 AGGTTTTGATCACCCAACTATTTTTAATTACCTAATAACCTTTAACATTATCGAATTGTCATATT
*
22661410 TTTGCTACTCATCTAATACCTCTCATTAAAACA
66 TTTGCTACTCATCTGATACCTCTCATTAAAACA
22661443 ATAACGTGGC
Statistics
Matches: 322, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
226 322 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.39
Consensus pattern (226 bp):
AGGTTTTGATCACCCAACTATTTTTAATTACCTAATAACCTTTAACATTATCGAATTGTCATATT
TTTGCTACTCATCTGATACCTCTCATTAAAACATTATCGAATCACTTTAATGTTTTGTTTGCTTA
TAATGTTATGCTATGCATAGAATCCGTGATGAATTAGTCATTAAGAAAAGTAAGAGACAAATTGT
ACATCGTTGGCCCTTAATTTCGGTCAAGATT
Found at i:22661619 original size:17 final size:17
Alignment explanation
Indices: 22661583--22661643 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
22661573 TTATAAAAAC
* **
22661583 TAAATAAAAATATTCTA
1 TAAATATAAATATTAAA
22661600 TAAATATAAATATTAAA
1 TAAATATAAATATTAAA
22661617 TAAA-ATAATTATATTAAA
1 TAAATATAA--ATATTAAA
22661635 -AAATA-AAAT
1 TAAATATAAAT
22661644 TTTCCCCACC
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
15 2 0.05
16 4 0.11
17 23 0.61
18 9 0.24
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAATATAAATATTAAA
Found at i:22664107 original size:18 final size:18
Alignment explanation
Indices: 22664059--22664109 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
22664049 GTACATTTGG
*
22664059 TCAAGTGAAGAAAAATTT
1 TCAAGTGAAGAAGAATTT
*
22664077 TCAAATGAAGAAGAATTT
1 TCAAGTGAAGAAGAATTT
*
22664095 TTAAGTGAAGAAGAA
1 TCAAGTGAAGAAGAA
22664110 CAAGATGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.51, C:0.04, G:0.20, T:0.25
Consensus pattern (18 bp):
TCAAGTGAAGAAGAATTT
Found at i:22665184 original size:25 final size:26
Alignment explanation
Indices: 22665138--22665189 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
22665128 TTGTATAATC
*
22665138 TTAATACAATGAATTTATAAAAATAA
1 TTAATAAAATGAATTTATAAAAATAA
*
22665164 TTAATAAAATG-ATTTATAAAAGTAA
1 TTAATAAAATGAATTTATAAAAATAA
22665189 T
1 T
22665190 AACTTGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (26 bp):
TTAATAAAATGAATTTATAAAAATAA
Found at i:22667277 original size:24 final size:24
Alignment explanation
Indices: 22667244--22667296 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
22667234 GCATATGTTA
**
22667244 GACGAAGAACAAATAGGATTGGAT
1 GACGAAGAACAAATAGGATCAGAT
*
22667268 GACGACGAACAAATAGGATCAGAT
1 GACGAAGAACAAATAGGATCAGAT
22667292 GACGA
1 GACGA
22667297 TCAATTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.45, C:0.13, G:0.28, T:0.13
Consensus pattern (24 bp):
GACGAAGAACAAATAGGATCAGAT
Found at i:22668982 original size:39 final size:37
Alignment explanation
Indices: 22668917--22668991 Score: 98
Period size: 39 Copynumber: 2.0 Consensus size: 37
22668907 TAATTCATTA
*
22668917 ATTTTTAAAAATTAAAAATTCAAAAAATATATAAAAATT
1 ATTTTTAAAAATTAAAAAGTCAAAAAA-A-ATAAAAATT
*
22668956 ATTTTTTAAAATTAAAAAGT-ATAAAAAAATAAAAAT
1 ATTTTTAAAAATTAAAAAGTCA-AAAAAAATAAAAAT
22668992 ATACATGTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 8 0.24
38 2 0.06
39 23 0.70
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (37 bp):
ATTTTTAAAAATTAAAAAGTCAAAAAAAATAAAAATT
Found at i:22670997 original size:13 final size:13
Alignment explanation
Indices: 22670981--22671005 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22670971 TTCTTTTAAC
22670981 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
22670994 TTTTCTTTTTTT
1 TTTTCTTTTTTT
22671006 ACCATTTTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:22671840 original size:12 final size:12
Alignment explanation
Indices: 22671823--22671847 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22671813 AATAAGGACT
22671823 TGGTTTATTTGG
1 TGGTTTATTTGG
22671835 TGGTTTATTTGG
1 TGGTTTATTTGG
22671847 T
1 T
22671848 AGGCAAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.32, T:0.60
Consensus pattern (12 bp):
TGGTTTATTTGG
Found at i:22673795 original size:32 final size:31
Alignment explanation
Indices: 22673713--22673795 Score: 85
Period size: 32 Copynumber: 2.6 Consensus size: 31
22673703 TCAGCCCCAC
* * **
22673713 TAACGGGTTATAATAGTTAATTTAAGCTCGT
1 TAACAGGTTATAATAGTTAGTACAAGCTCGT
* * *
22673744 TAACAAGTTAAAATGGTTAGTACAAGCCTCGT
1 TAACAGGTTATAATAGTTAGTACAAG-CTCGT
*
22673776 TAACAGGTGATAATAGTTAG
1 TAACAGGTTATAATAGTTAG
22673796 CACAGACCCT
Statistics
Matches: 40, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
31 19 0.47
32 21 0.52
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (31 bp):
TAACAGGTTATAATAGTTAGTACAAGCTCGT
Found at i:22674749 original size:13 final size:13
Alignment explanation
Indices: 22674731--22674755 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22674721 TTCTTTTTAA
22674731 TTTTAATTAATAG
1 TTTTAATTAATAG
22674744 TTTTAATTAATA
1 TTTTAATTAATA
22674756 AACATGTTAT
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:0.04, T:0.56
Consensus pattern (13 bp):
TTTTAATTAATAG
Found at i:22674811 original size:5 final size:5
Alignment explanation
Indices: 22674801--22674827 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
22674791 ATTTTTAAGA
22674801 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
22674828 TAATTCATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:22675047 original size:21 final size:22
Alignment explanation
Indices: 22675004--22675047 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
22674994 ATATAGACAA
* * *
22675004 AATAATAAATATGTAATTCTAT
1 AATAATAAATATATAACTATAT
22675026 AATAA-AAATATATAACTATAT
1 AATAATAAATATATAACTATAT
22675047 A
1 A
22675048 TATTATTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (22 bp):
AATAATAAATATATAACTATAT
Found at i:22675458 original size:13 final size:13
Alignment explanation
Indices: 22675440--22675471 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
22675430 ATAAATAAAG
*
22675440 AAAATATTAATTA
1 AAAATATGAATTA
22675453 AAAATATGAATTA
1 AAAATATGAATTA
22675466 AAAATA
1 AAAATA
22675472 AAATAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
AAAATATGAATTA
Found at i:22675528 original size:22 final size:21
Alignment explanation
Indices: 22675496--22675542 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
22675486 TAAAAATGTG
*
22675496 TTTATTGATTAAAAATAATATA
1 TTTATTAATTAAAAATAATA-A
*
22675518 TTTATTAATTAAAAATATTAA
1 TTTATTAATTAAAAATAATAA
22675539 TTTA
1 TTTA
22675543 AAAAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTATTAATTAAAAATAATAA
Found at i:22686410 original size:26 final size:26
Alignment explanation
Indices: 22686381--22686453 Score: 112
Period size: 26 Copynumber: 2.8 Consensus size: 26
22686371 CCCGTTATAT
22686381 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
* * *
22686407 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTCGTGAGCTTCCCGATTAAA
22686433 GGCTCTTCG-GAGCTTCCCGAT
1 GGCTCTTCGTGAGCTTCCCGAT
22686454 ATGACTCACT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 11 0.26
26 31 0.74
ACGTcount: A:0.15, C:0.26, G:0.25, T:0.34
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCGATTAAA
Found at i:22689514 original size:137 final size:138
Alignment explanation
Indices: 22689256--22689615 Score: 366
Period size: 137 Copynumber: 2.6 Consensus size: 138
22689246 GATCGTGACA
* * * *
22689256 TGTATTTTGTATTTAATGTTGCTTAAAGCTTTTTAAATTTTAATTAATTTTTTTAACATATTAAT
1 TGTATTTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTAATTAATTATTTTAACATATTAAT
* * * *
22689321 TTTTTGGTTAGATGGTTAGATAGTTGCAAATATATCCTTGAGTTTCGGATTAGATTCCTT-TCTT
66 TTTTTGGTTAGATGGTTAGATAGTTGCAAATACATCCTTAAATTTCGGATTAGATT-CTTCTATT
*
22689385 ATTCACATT
130 ACTCACATT
* * * *
22689394 TGTATTTTTTATTTCATGATGCTTCAAGTTTTTTAAATTTTTTATTAA-TATTTT-ACATATTAG
1 TGTATTTTTTATTTCATGTTGCTTCAAGCTTTTTAAA-TTTTAATTAATTATTTTAACATATTAA
* *
22689457 TTATTTT-GTTAGATGGTTAGATAGTTGCAATTACATCCTTAAATCTT--GAGTTCGATTCTTCT
65 TT-TTTTGGTTAGATGGTTAGATAGTTGCAAATACATCCTTAAAT-TTCGGA-TTAGATTCTTCT
*
22689519 ATTACTCGCATT
127 ATTACTCACATT
*
22689531 TGTATTTTTTTTATTTCATGTTGCTTCAAAC--TTT---TTTTAATTAA-TATTTTTAACATATT
1 TGTA--TTTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTAATTAATTA-TTTTAACATATT
* ** *
22689590 AGCTCCTTTCGTTAGATGGTTAGATA
63 A-ATTTTTTGGTTAGATGGTTAGATA
22689616 ATTACGATTA
Statistics
Matches: 188, Mismatches: 23, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
133 11 0.06
134 4 0.02
135 11 0.06
136 22 0.12
137 66 0.35
138 43 0.23
139 31 0.16
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (138 bp):
TGTATTTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTAATTAATTATTTTAACATATTAAT
TTTTTGGTTAGATGGTTAGATAGTTGCAAATACATCCTTAAATTTCGGATTAGATTCTTCTATTA
CTCACATT
Found at i:22689825 original size:25 final size:26
Alignment explanation
Indices: 22689766--22689825 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 26
22689756 TTATTCTTTC
*
22689766 AATTAATTATATTTATAATAATTATTA
1 AATT-ATTATATTTATAATAATTAATA
*
22689793 AATT-TTATTTTTATAA-AATTAA-A
1 AATTATTATATTTATAATAATTAATA
22689816 TAATTATTAT
1 -AATTATTAT
22689826 CATTATCGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 1 0.03
24 9 0.31
25 15 0.52
27 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
AATTATTATATTTATAATAATTAATA
Found at i:22694455 original size:18 final size:18
Alignment explanation
Indices: 22694432--22694468 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
22694422 TGATCGTGGC
*
22694432 ATAATTGGTGGTTTACTA
1 ATAATTGGTGATTTACTA
22694450 ATAATTGGTGATTTACTA
1 ATAATTGGTGATTTACTA
22694468 A
1 A
22694469 CCCCGATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.43
Consensus pattern (18 bp):
ATAATTGGTGATTTACTA
Found at i:22700723 original size:23 final size:25
Alignment explanation
Indices: 22700695--22700745 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
22700685 TGATATAAAA
*
22700695 ATTTTAAATTTT-AAAATTATTTTT
1 ATTTAAAATTTTAAAAATTATTTTT
22700719 ATTTAAAATTTTCAAAAATTATTTTT
1 ATTTAAAATTTT-AAAAATTATTTTT
22700745 A
1 A
22700746 AAAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 11 0.46
26 13 0.54
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
ATTTAAAATTTTAAAAATTATTTTT
Found at i:22700750 original size:24 final size:23
Alignment explanation
Indices: 22700700--22700751 Score: 61
Period size: 26 Copynumber: 2.2 Consensus size: 23
22700690 TAAAAATTTT
*
22700700 AAATTTTAAAATTATTTTTATTTA
1 AAATTTTAAAATTATTTTTA-TAA
22700724 AAATTTTCAAAAATTATTTTTA-AA
1 AAATTTT--AAAATTATTTTTATAA
22700748 AAAT
1 AAAT
22700752 AAAAATGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 12 0.48
26 13 0.52
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
AAATTTTAAAATTATTTTTATAA
Found at i:22701728 original size:8 final size:8
Alignment explanation
Indices: 22701715--22701741 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
22701705 AGGCCTTTAA
22701715 AAAATTTT
1 AAAATTTT
22701723 AAAATTTT
1 AAAATTTT
22701731 AAAATTTT
1 AAAATTTT
22701739 AAA
1 AAA
22701742 TTAGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAAATTTT
Found at i:22712263 original size:17 final size:18
Alignment explanation
Indices: 22712238--22712277 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
22712228 CCATCTTTTG
* *
22712238 TTTTATTGTTGATG-AAC
1 TTTTGTTGTGGATGAAAC
22712255 TTTTGTTGTGGATGAAAC
1 TTTTGTTGTGGATGAAAC
22712273 TTTTG
1 TTTTG
22712278 AAGTGAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.20, C:0.05, G:0.23, T:0.53
Consensus pattern (18 bp):
TTTTGTTGTGGATGAAAC
Found at i:22725107 original size:9 final size:9
Alignment explanation
Indices: 22725093--22725121 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
22725083 ACACCCCCCC
22725093 TTTTTCTTT
1 TTTTTCTTT
22725102 TTTTTC-TT
1 TTTTTCTTT
22725110 TTTTTCTTT
1 TTTTTCTTT
22725119 TTT
1 TTT
22725122 GGGGGGGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:22732785 original size:27 final size:27
Alignment explanation
Indices: 22732755--22732936 Score: 136
Period size: 27 Copynumber: 6.7 Consensus size: 27
22732745 CTATCCCTTA
* * *
22732755 TTTACTGTCTCGGCAGACTACCTCGTG
1 TTTATTGTCTCGACGGACTACCTCGTG
* *
22732782 TTTATTGTCCCGACTGG-CTACCCCGTG
1 TTTATTGTCTCGAC-GGACTACCTCGTG
* * ** * *
22732809 TTTATTGTCCCAACAAACTATCTTGTG
1 TTTATTGTCTCGACGGACTACCTCGTG
*
22732836 TTTACTGT-TCTGACGGACTATCCT-GTG
1 TTTATTGTCTC-GACGGACTA-CCTCGTG
* * *
22732863 TTTATTGTCTCGATGGACAATCTCGTG
1 TTTATTGTCTCGACGGACTACCTCGTG
* * *
22732890 TTTACTGTCTCTATGGACTACCTCGTG
1 TTTATTGTCTCGACGGACTACCTCGTG
* *
22732917 TTTATTGTCCCAACGGACTA
1 TTTATTGTCTCGACGGACTA
22732937 TACTGGTTGT
Statistics
Matches: 120, Mismatches: 29, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
26 3 0.03
27 112 0.93
28 5 0.04
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (27 bp):
TTTATTGTCTCGACGGACTACCTCGTG
Found at i:22732837 original size:54 final size:55
Alignment explanation
Indices: 22732776--22732930 Score: 154
Period size: 54 Copynumber: 2.9 Consensus size: 55
22732766 GGCAGACTAC
* *
22732776 CTCGTGTTTATTGTCCCGACTGG-CTACCCCGTGTTTATTGTCCCAACAAACTAT
1 CTCGTGTTTACTGTCCCGACTGGACTACCCCGTGTTTATTGTCCCAACAAACAAT
* * * * * * * ***
22732830 CTTGTGTTTACTGTTCTGAC-GGACTATCCTGTGTTTATTGTCTCGATGGACAAT
1 CTCGTGTTTACTGTCCCGACTGGACTACCCCGTGTTTATTGTCCCAACAAACAAT
* * *
22732884 CTCGTGTTTACTGTCTCTA-TGGACTACCTCGTGTTTATTGTCCCAAC
1 CTCGTGTTTACTGTCCCGACTGGACTACCCCGTGTTTATTGTCCCAAC
22732931 GGACTATACT
Statistics
Matches: 76, Mismatches: 23, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
53 2 0.03
54 74 0.97
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (55 bp):
CTCGTGTTTACTGTCCCGACTGGACTACCCCGTGTTTATTGTCCCAACAAACAAT
Found at i:22732872 original size:108 final size:108
Alignment explanation
Indices: 22732726--22732930 Score: 252
Period size: 108 Copynumber: 1.9 Consensus size: 108
22732716 AACTGACCTA
* * * *
22732726 TGTTTACTATCCTGGCGGACTATCCCTTATTTACTGTCTCGGCAGACTACCTCGTGTTTATTGTC
1 TGTTTACTATCCTGACGGACTATCCCTTATTTACTGTCTCGACAGACAACCTCGTGTTTACTGTC
22732791 CCGACTGG-CTACCCCGTGTTTATTGTCCCAACAAACTATCTTG
66 CCGA-TGGACTACCCCGTGTTTATTGTCCCAACAAACTATCTTG
* * * * ** *
22732834 TGTTTACTGTTCTGACGGACTAT-CCTGTGTTTATTGTCTCGATGGACAATCTCGTGTTTACTGT
1 TGTTTACTATCCTGACGGACTATCCCT-TATTTACTGTCTCGACAGACAACCTCGTGTTTACTGT
* * *
22732898 CTCTATGGACTACCTCGTGTTTATTGTCCCAAC
65 CCCGATGGACTACCCCGTGTTTATTGTCCCAAC
22732931 GGACTATACT
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
107 6 0.07
108 75 0.93
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.39
Consensus pattern (108 bp):
TGTTTACTATCCTGACGGACTATCCCTTATTTACTGTCTCGACAGACAACCTCGTGTTTACTGTC
CCGATGGACTACCCCGTGTTTATTGTCCCAACAAACTATCTTG
Found at i:22735507 original size:17 final size:18
Alignment explanation
Indices: 22735479--22735512 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
22735469 TAATACTCTA
22735479 TAATATTTTTAATTTTTC
1 TAATATTTTTAATTTTTC
22735497 TAATA-TTTTAATTTTT
1 TAATATTTTTAATTTTT
22735513 ATATTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TAATATTTTTAATTTTTC
Found at i:22735594 original size:31 final size:29
Alignment explanation
Indices: 22735557--22735636 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 29
22735547 TCTAAATATT
*
22735557 TTAAAAAATAATTAAATC-TGTATAAAATAA
1 TTAAAAAATAATTAAA-CATCT-TAAAATAA
22735587 TTAAAAAATCAATTAAACAATCTTAAAATAA
1 TTAAAAAAT-AATTAAAC-ATCTTAAAATAA
*
22735618 CTAAAAATAATAATTAAAC
1 -TTAAAA-AATAATTAAAC
22735637 CTTAATATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
30 10 0.23
31 15 0.35
32 15 0.35
33 3 0.07
ACGTcount: A:0.61, C:0.07, G:0.01, T:0.30
Consensus pattern (29 bp):
TTAAAAAATAATTAAACATCTTAAAATAA
Found at i:22737737 original size:104 final size:104
Alignment explanation
Indices: 22737557--22737981 Score: 663
Period size: 104 Copynumber: 4.1 Consensus size: 104
22737547 TGTTGTAAAT
* * *
22737557 TTAGAGGCTTCAAGATTTTCTTGTAAGTAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
*
22737622 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTAAAC
66 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
* *
22737661 TTAGAGGTTTAAAAATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
*
22737726 TTTTGATTCATCATTTTCGCTTAAACTTGAATATTTAAC
66 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
* *
22737765 TTAGAGGTTTCAAGATTTTCATGTAAACAAGGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
22737830 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
66 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
* * * * *
22737869 TTAGAGGTTTCAAGATTTTTATGTAAATAATTAATCAAAGCTCTTACATTGTAGCAGGAGTTTGT
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
* * * *
22737934 TTTTGA-TCTGTAATTTTCGCATAAACTCGAGTATTTAAC
66 TTTTGATTC-ATCATTTTCGCTTAAACTTGAGTATTTAAC
*
22737973 TTAGTGGTT
1 TTAGAGGTT
22737982 GGTGCCTGAT
Statistics
Matches: 296, Mismatches: 24, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
103 2 0.01
104 294 0.99
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.41
Consensus pattern (104 bp):
TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
Found at i:22749225 original size:44 final size:45
Alignment explanation
Indices: 22749160--22749250 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
22749150 ACCTCTATTC
* * *
22749160 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
22749204 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
22749249 CA
1 CA
22749251 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:22749252 original size:16 final size:16
Alignment explanation
Indices: 22749231--22749298 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
22749221 GATTAGCTAT
22749231 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
22749247 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
22749263 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
22749279 TATACCTCTAATCCAA
1 TACACCTCTAATCCAA
22749295 TACA
1 TACA
22749299 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:22749446 original size:15 final size:15
Alignment explanation
Indices: 22749419--22749465 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
22749409 AATTTAACCA
*
22749419 TATT-TTAACATAAT
1 TATTATTAATATAAT
22749433 TATTATTAATATAAT
1 TATTATTAATATAAT
* *
22749448 TTTTAATAATATGAAT
1 TATTATTAATAT-AAT
22749464 TA
1 TA
22749466 AAAAATCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 4 0.15
15 19 0.70
16 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (15 bp):
TATTATTAATATAAT
Found at i:22758663 original size:12 final size:12
Alignment explanation
Indices: 22758648--22758672 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22758638 AAGTTCTTTG
22758648 CCAAGCTTGCCA
1 CCAAGCTTGCCA
22758660 CCAAGCTTGCCA
1 CCAAGCTTGCCA
22758672 C
1 C
22758673 ATGCAAGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.44, G:0.16, T:0.16
Consensus pattern (12 bp):
CCAAGCTTGCCA
Found at i:22760382 original size:16 final size:18
Alignment explanation
Indices: 22760353--22760389 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
22760343 ATGGAAATAA
*
22760353 TTTTTCTTCTTTCT-ACT
1 TTTTTCCTCTTTCTAACT
22760370 TTTTTCCTC-TTCTAACT
1 TTTTTCCTCTTTCTAACT
22760387 TTT
1 TTT
22760390 CATTTTGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTCCTCTTTCTAACT
Found at i:22761415 original size:91 final size:91
Alignment explanation
Indices: 22761256--22761438 Score: 330
Period size: 91 Copynumber: 2.0 Consensus size: 91
22761246 CATTAGAAAG
* * *
22761256 TTAAATTCATTTCCAGTCTAATGTATAAAGCTAAACGTTGGTACAAAATTAGCATTTTTATTTTC
1 TTAAATTCATTTCCAGTCTAATGTATAAAGCTAAACGGTGGTACAAAATTAGCATTTTTAGTTCC
22761321 CTTAACTTCCATCTTGACTAGATTAA
66 CTTAACTTCCATCTTGACTAGATTAA
*
22761347 TTAAATTCATTTCCAGTCTAATGTATAAAGCTAAACGGTGGTATAAAATTAGCATTTTTAGTTCC
1 TTAAATTCATTTCCAGTCTAATGTATAAAGCTAAACGGTGGTACAAAATTAGCATTTTTAGTTCC
22761412 CTTAACTTCCATCTTGACTAGATTAA
66 CTTAACTTCCATCTTGACTAGATTAA
22761438 T
1 T
22761439 AATCTTCTAT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 88 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (91 bp):
TTAAATTCATTTCCAGTCTAATGTATAAAGCTAAACGGTGGTACAAAATTAGCATTTTTAGTTCC
CTTAACTTCCATCTTGACTAGATTAA
Found at i:22763840 original size:23 final size:23
Alignment explanation
Indices: 22763814--22763860 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
22763804 TAAGAGAGGA
* *
22763814 AAATTAATGCAGAAATATCACAC
1 AAATTAATACAAAAATATCACAC
*
22763837 AAATTCATACAAAAATATCACAC
1 AAATTAATACAAAAATATCACAC
22763860 A
1 A
22763861 TGAGATTACG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.55, C:0.19, G:0.04, T:0.21
Consensus pattern (23 bp):
AAATTAATACAAAAATATCACAC
Found at i:22766456 original size:12 final size:12
Alignment explanation
Indices: 22766441--22766478 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
22766431 GAGTAGTGGT
*
22766441 AGTGGTAGCGGG
1 AGTGGAAGCGGG
22766453 AGTGGAAGCGGG
1 AGTGGAAGCGGG
22766465 AGTGGAAGCGGG
1 AGTGGAAGCGGG
22766477 AG
1 AG
22766479 CGAGAGCAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.58, T:0.11
Consensus pattern (12 bp):
AGTGGAAGCGGG
Found at i:22766492 original size:24 final size:24
Alignment explanation
Indices: 22766439--22766492 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
22766429 GAGAGTAGTG
* * *
22766439 GTAGTGGTAGCGGGAGTGGAAGCG
1 GTAGTGGAAGCGGGAGCGGAAGCA
*
22766463 GGAGTGGAAGCGGGAGC-GAGAGCA
1 GTAGTGGAAGCGGGAGCGGA-AGCA
22766487 GTAGTG
1 GTAGTG
22766493 ATAGTGAAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.24, C:0.09, G:0.54, T:0.13
Consensus pattern (24 bp):
GTAGTGGAAGCGGGAGCGGAAGCA
Found at i:22767044 original size:3 final size:3
Alignment explanation
Indices: 22767036--22767061 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22767026 ATTGAGTTGT
22767036 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
22767062 TGGGTTTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:22771120 original size:6 final size:6
Alignment explanation
Indices: 22771109--22771141 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
22771099 TTTATCAAAC
22771109 GGATTG GGATTG GGATTG GGATTG GGATTG GGA
1 GGATTG GGATTG GGATTG GGATTG GGATTG GGA
22771142 AAAGAGAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.00, G:0.52, T:0.30
Consensus pattern (6 bp):
GGATTG
Found at i:22771164 original size:6 final size:6
Alignment explanation
Indices: 22771153--22771190 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
22771143 AAGAGAGTAC
22771153 ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT AT
1 ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT AT
22771191 ACAGTATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (6 bp):
ATGTGT
Found at i:22774531 original size:49 final size:49
Alignment explanation
Indices: 22774478--22774709 Score: 302
Period size: 49 Copynumber: 4.7 Consensus size: 49
22774468 CTGGTACGCA
*
22774478 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
** *** * *
22774527 TAGTAGCCTGCACTTAGTACTACACACATGACCTAGCCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * *
22774577 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
*
22774628 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
*
22774677 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
22774710 TCACAATAGA
Statistics
Matches: 155, Mismatches: 25, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
49 72 0.46
50 45 0.29
51 38 0.25
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:22774706 original size:100 final size:99
Alignment explanation
Indices: 22774478--22774709 Score: 313
Period size: 100 Copynumber: 2.3 Consensus size: 99
22774468 CTGGTACGCA
* * *
22774478 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* * *
22774543 GTACTACACACATGACCTAGCCATCTGATACACG
66 GTACTACACACACGACCTAACCATCCGATACACG
* * *
22774577 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
** ** *
22774642 TAGTACTACACATGCGACC-AATTATCCGGTACACG
64 TAGTACTACACACACGACCTAACCATCCGATACACG
22774677 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
22774710 TCACAATAGA
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
99 30 0.26
100 45 0.39
101 41 0.35
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACACGACCTAACCATCCGATACACG
Found at i:22778340 original size:94 final size:95
Alignment explanation
Indices: 22778173--22778446 Score: 324
Period size: 94 Copynumber: 2.9 Consensus size: 95
22778163 TTACTTGTGT
* * * * *
22778173 GCTAGTGTAAGACATGTCTAGGACATGCATTGGCCAC-ATTATGA-ATGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTGGGACACGCATCGGCCTCGATGATGATA-GCCAGTGTAAGACCATG
* *
22778236 TCTGGAACATGGCATCGGCGTAGAGATGAGTA
65 TCTGGGACATGGCATCGGCGTACAGATGAG-A
* *
22778268 -CTAGTGTAAGACATGTCTGGGACACGTATCGGCCTCGACGATGATAGCCAGTGTAAGA-CATGT
1 GCTAGTGTAAGACATGTCTGGGACACGCATCGGCCTCGATGATGATAGCCAGTGTAAGACCATGT
* * *
22778331 CCGGGACAT-GCATCAGTACGTACATATGAGA
66 CTGGGACATGGCATC-G-GCGTACAGATGAGA
* * *
22778362 GCTAGTGTAAAACCATGTCTGAGACATGGCATCGGCCTCGATGATGATAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGA-CATGTCTGGGACA-CGCATCGGCCTCGATGATGATAGCCAGTGTAAGACCAT
22778427 GTCTGGGACATGGCATCGGC
64 GTCTGGGACATGGCATCGGC
22778447 AACTTATCCC
Statistics
Matches: 151, Mismatches: 19, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
93 5 0.03
94 45 0.30
95 37 0.25
96 13 0.09
97 32 0.21
98 14 0.09
99 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (95 bp):
GCTAGTGTAAGACATGTCTGGGACACGCATCGGCCTCGATGATGATAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCGGCGTACAGATGAGA
Found at i:22778418 original size:49 final size:49
Alignment explanation
Indices: 22778176--22778446 Score: 251
Period size: 47 Copynumber: 5.7 Consensus size: 49
22778166 CTTGTGTGCT
* * * *
22778176 AGTGTAAGA-CATGTCTAGGACAT-GCATTGGCCAC-ATTATGA-ATGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATA-GCC
* * * *
22778222 AGTGTAAGACCATGTCTGGAACATGGCATCGGCGTAGA-GATGAGTA-CT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGA-TAGCC
* * *
22778270 AGTGTAAGA-CATGTCTGGGACA-CGTATCGGCCTCGACGATGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGCC
* * * * *
22778317 AGTGTAAGA-CATGTCCGGGACAT-GCATCAGTACGTAC-AT-ATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-GCCT-CGATGATGATAGCC
* *
22778365 AGTGTAAAACCATGTCTGAGACATGGCATCGGCCTCGATGATGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGCC
22778414 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
22778447 AACTTATCCC
Statistics
Matches: 180, Mismatches: 30, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
46 21 0.12
47 56 0.31
48 41 0.23
49 55 0.31
50 7 0.04
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGCC
Found at i:22779367 original size:42 final size:42
Alignment explanation
Indices: 22779307--22779399 Score: 168
Period size: 42 Copynumber: 2.2 Consensus size: 42
22779297 ACAGGTAGGC
22779307 CACACGGGCGTGTGTCATGGCCATGTTTTAAAGTCAGTGTTG
1 CACACGGGCGTGTGTCATGGCCATGTTTTAAAGTCAGTGTTG
* *
22779349 TACACGGGCGTGTGTCATGGCCGTGTTTTAAAGTCAGTGTTG
1 CACACGGGCGTGTGTCATGGCCATGTTTTAAAGTCAGTGTTG
22779391 CACACGGGC
1 CACACGGGC
22779400 TAAGGGCACG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.29
Consensus pattern (42 bp):
CACACGGGCGTGTGTCATGGCCATGTTTTAAAGTCAGTGTTG
Done.