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 231 of 373
Found at i:78578553 original size:21 final size:20
Alignment explanation
Indices: 78578515--78578554 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
78578505 TTGGACTTCG
* *
78578515 TTTTTTTTTTTGGTTTATTA
1 TTTTTGTTTTTGGCTTATTA
78578535 TTTTTGTTTTTGGACTTATT
1 TTTTTGTTTTTGG-CTTATT
78578555 TCTGTGCCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.10, C:0.03, G:0.12, T:0.75
Consensus pattern (20 bp):
TTTTTGTTTTTGGCTTATTA
Found at i:78578802 original size:45 final size:45
Alignment explanation
Indices: 78578747--78578946 Score: 276
Period size: 45 Copynumber: 4.5 Consensus size: 45
78578737 GGAAGGCGAT
*
78578747 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
78578792 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* ** * * *
78578837 ATCTGCT-TCTTAAATCTGCTCCCCGTCTAGTACAGATATGCCAA
1 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * *
78578881 ATCTGTTATCTCTGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
78578926 ATCTGTCATCTTGGATCTGCT
1 ATCTGTTATCTTTGATCTGCT
78578947 TCGATGTAAA
Statistics
Matches: 135, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
44 38 0.28
45 97 0.72
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:78578871 original size:89 final size:90
Alignment explanation
Indices: 78578747--78578930 Score: 282
Period size: 89 Copynumber: 2.1 Consensus size: 90
78578737 GGAAGGCGAT
**
78578747 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCT-TCGATCTG
1 ATCTGCTATCTTAAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCT-GATCTG
78578811 CTCCCCGTCTAATACAGAGACGCCAA
65 CTCCCCGTCTAATACAGAGACGCCAA
* * * *
78578837 ATCTGCT-TCTTAAATCTGCTCCCCGTCTAGTACAGATATGCCAAATCTGTTATCTCTGATTTGC
1 ATCTGCTATCTTAAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCTGATCTGC
*
78578901 TCCCCGTCTAATACAGAGATGCCAA
66 TCCCCGTCTAATACAGAGACGCCAA
78578926 ATCTG
1 ATCTG
78578931 TCATCTTGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
89 78 0.91
90 8 0.09
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.31
Consensus pattern (90 bp):
ATCTGCTATCTTAAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCTGATCTGC
TCCCCGTCTAATACAGAGACGCCAA
Found at i:78579173 original size:78 final size:78
Alignment explanation
Indices: 78578960--78579150 Score: 319
Period size: 78 Copynumber: 2.4 Consensus size: 78
78578950 ATGTAAACAC
* *
78578960 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATTCGAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
78579025 TGAATCTGCTTCA
66 TGAACCTGCTTCA
* * *
78579038 ATGAGGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAGTCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
78579103 TGGACCTGCTTCA
66 TGAACCTGCTTCA
78579116 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTC
78579151 TTTGTCGAAT
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 104 1.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGAACCTGCTTCA
Found at i:78579657 original size:216 final size:218
Alignment explanation
Indices: 78579118--78579832 Score: 1112
Period size: 220 Copynumber: 3.3 Consensus size: 218
78579108 CTGCTTCAAT
* ** *
78579118 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTTTGTCGAATATGAAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* *
78579183 TTCGATTTGTTCTCTGACAGTATAGAGATGCCAAATTATCTTAGATCTGCTTCAGCGTAAACACG
66 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
*
78579248 TGAAAGTCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACT-CAAGGATGCCAAATCATCTT
131 TGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCC-TGTCAA-TGCAAGGATGCCAAATCATCTT
* *
78579312 GGATCTACTTCAATGTGAAGATATCC
194 GGATCTACTTCGATGTGAA-ACATCC
78579338 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* ** *
78579403 TTCGATTTGTTCTCTGACAATACAGAGATGTTAAATCATCTTAGATCTGCTTCAACGTAAACACG
66 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
*
78579468 TGAAAGCCAAATCTGCTATGTCTTCGATCTGCT-C-GTCAATGCAATGATGCCAAATCATCTTGG
131 TGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTGTCAATGCAAGGATGCCAAATCATCTTGG
*
78579531 ATCTACTTCGATGTGAAACATTC
196 ATCTACTTCGATGTGAAACATCC
*
78579554 GAAGGTTAAATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* * * *
78579619 TTCGATTTGTTCTCTGATAGTACAGAAATACCAAATCATCTTAGATCTGCTTCAGCATAAACACG
66 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
* * *
78579684 TGAAAGCCAAATCTGCTATGTCTTCAATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTG
131 TGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCC-TGTCAATGCAAGGATGCCAAATCATCTTG
*
78579749 GATCTACTTCGATGTAAAAACATCC
195 GATCTACTTCGATGT-GAAACATCC
* * **
78579774 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
78579833 ATCTTGGATC
Statistics
Matches: 455, Mismatches: 35, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
216 158 0.35
217 43 0.09
219 41 0.09
220 213 0.47
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (218 bp):
GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
TGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTGTCAATGCAAGGATGCCAAATCATCTTGG
ATCTACTTCGATGTGAAACATCC
Found at i:78579903 original size:78 final size:78
Alignment explanation
Indices: 78579774--78580082 Score: 469
Period size: 78 Copynumber: 4.0 Consensus size: 78
78579764 AAAAACATCC
*
78579774 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
*
78579839 GATCTGCTTCAAT
66 GATCTACTTCAAT
* *
78579852 GAAGGTCAGATCTGATGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
* **
78579917 AATCTGTTTCAAT
66 GATCTACTTCAAT
** *
78579930 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTTCGT-TGAATATAGAGATGCCAAATCATCTT
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCT-AATACAGAGATGCCAAATCATCTT
78579994 GGATCTACTTCAAT
65 GGATCTACTTCAAT
* * *
78580008 GAAGGTCCA-ATTTGTTATGTCTTCGATCTGCTCCTCGTCTAATACAGAGATGCCAAATCATCTT
1 GAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
78580072 GGATCTACTTC
65 GGATCTACTTC
78580083 GATGTGAAAA
Statistics
Matches: 211, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
77 1 0.00
78 207 0.98
79 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (78 bp):
GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
GATCTACTTCAAT
Found at i:78588946 original size:23 final size:22
Alignment explanation
Indices: 78588903--78588960 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
78588893 AAAAGGTATC
* *
78588903 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
78588924 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
78588947 TGCATATCATATCT
1 TACAAATCATATCT
78588961 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:78588963 original size:19 final size:19
Alignment explanation
Indices: 78588939--78588975 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
78588929 AATCATATCT
78588939 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
78588958 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
78588976 TGAGGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:78590757 original size:146 final size:145
Alignment explanation
Indices: 78590585--78590854 Score: 359
Period size: 146 Copynumber: 1.9 Consensus size: 145
78590575 TTTTATGATG
* *
78590585 AAAAATTTAAGATTTACTACAAATTGT-TAAATTTCAATT-AGATATTGAATTTTA-CTCAATTC
1 AAAAATTTAAGATTTACTACAAATTGTCAAAATTTCAATTGA-AGATTGAATTTTATC-CAATTC
* * *
78590647 TTTATTT-TTTTCCATACTCTAAAATAATTATATTACATTAGTGACACTTTCTATAATTTGCCCA
64 TGTATTTCTTTT-CATAC-CCAAAATAATTATATTACATTAGTAACACTTTCTATAATTTGCCCA
78590711 TTTTATTAATTTACAACTA
127 TTTTATTAATTTACAACTA
* * * *
78590730 AAAAATATTAAGATTTATTACATATTGTCAAAATTTCAGTTGAAGATTGATTTTTATCCAATTCT
1 AAAAAT-TTAAGATTTACTACAAATTGTCAAAATTTCAATTGAAGATTGAATTTTATCCAATTCT
* * *
78590795 GTATTTCTTTTCATACCCAAAATAATTATATTATATTAGTAACACTTTTTATAGTTTGCC
65 GTATTTCTTTTCATACCCAAAATAATTATATTACATTAGTAACACTTTCTATAATTTGCC
78590855 TATTCTTTGC
Statistics
Matches: 108, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
145 6 0.06
146 58 0.54
147 38 0.35
148 6 0.06
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (145 bp):
AAAAATTTAAGATTTACTACAAATTGTCAAAATTTCAATTGAAGATTGAATTTTATCCAATTCTG
TATTTCTTTTCATACCCAAAATAATTATATTACATTAGTAACACTTTCTATAATTTGCCCATTTT
ATTAATTTACAACTA
Found at i:78596329 original size:16 final size:16
Alignment explanation
Indices: 78596308--78596338 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78596298 ATTTAACAAC
*
78596308 ATTCGCTCCCATCCCG
1 ATTCGCTACCATCCCG
78596324 ATTCGCTACCATCCC
1 ATTCGCTACCATCCC
78596339 TAACTTAGAG
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:0.16, C:0.48, G:0.10, T:0.26
Consensus pattern (16 bp):
ATTCGCTACCATCCCG
Found at i:78597223 original size:38 final size:38
Alignment explanation
Indices: 78597180--78597255 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
78597170 ATTATTATAT
*
78597180 TATGTAATATTATATCATCTATTATATTTAGCTATTAA
1 TATGTAATACTATATCATCTATTATATTTAGCTATTAA
78597218 TATGTAATACTATATCATCTATTATATTTAGCTATTAA
1 TATGTAATACTATATCATCTATTATATTTAGCTATTAA
78597256 AATTTACTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (38 bp):
TATGTAATACTATATCATCTATTATATTTAGCTATTAA
Found at i:78599485 original size:53 final size:52
Alignment explanation
Indices: 78599386--78599547 Score: 165
Period size: 47 Copynumber: 3.1 Consensus size: 52
78599376 CCATGGCAAC
* * *
78599386 ATGTGATATGTGATTTCCGTATAAGACCATAGT-TGGGCTGTTGCATCGGAGAG
1 ATGTGATATGTG-CTTCCGTATAAGACCATA-TCTGGGATGTGGCATCGGAGAG
78599439 ATGTGATTATGTGCTTCCGTATAAGACCATATCTGGGATGTGGCATC----AG
1 ATGTGA-TATGTGCTTCCGTATAAGACCATATCTGGGATGTGGCATCGGAGAG
* * * * *
78599488 -TGTGATATATGCTACTGTATAAGACCATATCTGGGATATGGCATCAGTGAGAT
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATGTGGCATC-G-GAGAG
78599541 ATGTGAT
1 ATGTGAT
78599548 TCTGTAAGAC
Statistics
Matches: 92, Mismatches: 8, Indels: 17
0.79 0.07 0.15
Matches are distributed among these distances:
47 36 0.39
48 5 0.05
49 2 0.02
52 1 0.01
53 36 0.39
54 12 0.13
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.33
Consensus pattern (52 bp):
ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATGTGGCATCGGAGAG
Found at i:78599592 original size:47 final size:49
Alignment explanation
Indices: 78599386--78599631 Score: 159
Period size: 47 Copynumber: 5.0 Consensus size: 49
78599376 CCATGGCAAC
* * * ** * *
78599386 ATGTGATATGTGATTTCCGTATAAGACCATAGTTGGGCTGTTGCATCGGAGAG
1 ATGTGATATGTGA-TTACGTGTAAGACCATAGCTGGGCAATGGCATC---GAT
* * * * *
78599439 ATGTGATTATGTGCTTCCGTATAAGACCATATCTGGG-ATGTGGCATC-A-
1 ATGTGA-TATGTGATTACGTGTAAGACCATAGCTGGGCA-ATGGCATCGAT
* * * * *
78599487 GTGTGATATATG-CTACTGTATAAGACCATATCTGGG-ATATGGCATC-A-
1 ATGTGATATGTGATTAC-GTGTAAGACCATAGCTGGGCA-ATGGCATCGAT
* * *
78599534 GTGAGATATGTGATT-C-TGTAAGACCATAGCTGGGCAATGGTATCGAT
1 ATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCAATGGCATCGAT
* *
78599581 ATGTGATATGTGATTACGTGTAAGACCATAGCTTGGCTATGGCATCGAT
1 ATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCAATGGCATCGAT
78599630 AT
1 AT
78599632 ATAAATATGT
Statistics
Matches: 163, Mismatches: 21, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
45 23 0.14
46 4 0.02
47 58 0.36
48 7 0.04
49 31 0.19
53 34 0.21
54 6 0.04
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (49 bp):
ATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCAATGGCATCGAT
Found at i:78599609 original size:49 final size:47
Alignment explanation
Indices: 78599507--78599667 Score: 149
Period size: 49 Copynumber: 3.5 Consensus size: 47
78599497 TGCTACTGTA
* * *
78599507 TAAGACCATATCTGGG-ATATGGCATC-A-GTGAGATATGTGATTCTG
1 TAAGACCATAGCTGGGCA-ATGGCATCGATATGTGATATGTGATTCTG
*
78599552 TAAGACCATAGCTGGGCAATGGTATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCAATGGCATCGATATGTGATATGTGATT-C-TG
* * ** *
78599601 TAAGACCATAGCTTGGCTATGGCATCGATA--T-ATAAAT-A-TGTG
1 TAAGACCATAGCTGGGCAATGGCATCGATATGTGATATGTGATTCTG
*
78599643 TAAGACCATAGCTGGGCTATGGCAT
1 TAAGACCATAGCTGGGCAATGGCAT
78599668 TATTATGTGA
Statistics
Matches: 100, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
42 26 0.26
44 1 0.01
45 23 0.23
46 6 0.06
47 14 0.14
48 1 0.01
49 29 0.29
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCAATGGCATCGATATGTGATATGTGATTCTG
Found at i:78599645 original size:42 final size:43
Alignment explanation
Indices: 78599598--78599712 Score: 137
Period size: 42 Copynumber: 2.7 Consensus size: 43
78599588 ATGTGATTAC
*
78599598 GTGTAAGACCATAGCTTGGCTATGGCATCGA-TATATAAATAT
1 GTGTAAGACCATAGCTTGGCTATGGCATCGATTATATAAAGAT
* * * *
78599640 GTGTAAGACCATAGCTGGGCTATGGCAT-TATTATGTGAAGAT
1 GTGTAAGACCATAGCTTGGCTATGGCATCGATTATATAAAGAT
* *
78599682 TTGTAAGACCATAG-TTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTTG-GCTATGGCATCGA
78599713 GAAAACGAAG
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 3 0.05
42 57 0.93
43 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCATAGCTTGGCTATGGCATCGATTATATAAAGAT
Found at i:78600438 original size:22 final size:26
Alignment explanation
Indices: 78600394--78600445 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
78600384 AAATTGATTC
78600394 ATAAATGTATTAAAATGTTGGTGA-AA
1 ATAAATGTATTAAAATG-TGGTGAGAA
78600420 ATAAATG-ATT-AAATG-GGTGAGAA
1 ATAAATGTATTAAAATGTGGTGAGAA
78600443 ATA
1 ATA
78600446 TGGCTTGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.20
23 5 0.20
24 5 0.20
25 3 0.12
26 7 0.28
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.31
Consensus pattern (26 bp):
ATAAATGTATTAAAATGTGGTGAGAA
Found at i:78600982 original size:17 final size:15
Alignment explanation
Indices: 78600951--78600980 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
78600941 TCATATCATA
78600951 TAATATTTAATATAT
1 TAATATTTAATATAT
*
78600966 TAATATTTTATATAT
1 TAATATTTAATATAT
78600981 ATATGCATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAATATTTAATATAT
Found at i:78606959 original size:17 final size:19
Alignment explanation
Indices: 78606928--78606965 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
78606918 TCGAAAAAAT
*
78606928 ATTTTTGTTATAATC-TTA
1 ATTTTTGTTAAAATCATTA
78606946 ATTTTT-TTAAAATCATTA
1 ATTTTTGTTAAAATCATTA
78606964 AT
1 AT
78606966 GATTTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (19 bp):
ATTTTTGTTAAAATCATTA
Found at i:78607007 original size:18 final size:19
Alignment explanation
Indices: 78606986--78607023 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
78606976 AAAGAATTAC
78606986 AAAATAATTT-TTAAAAAA
1 AAAATAATTTGTTAAAAAA
*
78607004 AAAATATTTTGTTAAAAAA
1 AAAATAATTTGTTAAAAAA
78607023 A
1 A
78607024 TGATAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
AAAATAATTTGTTAAAAAA
Found at i:78607012 original size:17 final size:20
Alignment explanation
Indices: 78606986--78607023 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
78606976 AAAGAATTAC
78606986 AAAATAA-TTT-TTAAAAAA
1 AAAATAATTTTGTTAAAAAA
78607004 AAAAT-ATTTTGTTAAAAAA
1 AAAATAATTTTGTTAAAAAA
78607023 A
1 A
78607024 TGATAATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.06
18 8 0.44
19 9 0.50
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATAATTTTGTTAAAAAA
Found at i:78607033 original size:18 final size:18
Alignment explanation
Indices: 78606986--78607033 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
78606976 AAAGAATTAC
*
78606986 AAAATAATTTTTAAAAAA
1 AAAATAATTGTTAAAAAA
*
78607004 AAAATATTTTGTTAAAAAA
1 AAAATA-ATTGTTAAAAAA
**
78607023 ATGATAATTGT
1 AAAATAATTGT
78607034 AATATTGGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
AAAATAATTGTTAAAAAA
Found at i:78607678 original size:3 final size:3
Alignment explanation
Indices: 78607670--78607707 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
78607660 GTGTTCTTTG
78607670 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
78607708 AACATATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:78613162 original size:21 final size:21
Alignment explanation
Indices: 78613133--78613175 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
78613123 TTTTATTGAT
*
78613133 TTATGAAAATTATA-ATTATTA
1 TTATGAAAAATATATA-TATTA
*
78613154 TTATTAAAAATATATATATTA
1 TTATGAAAAATATATATATTA
78613175 T
1 T
78613176 CGTATTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TTATGAAAAATATATATATTA
Found at i:78615797 original size:59 final size:59
Alignment explanation
Indices: 78615733--78615871 Score: 158
Period size: 60 Copynumber: 2.3 Consensus size: 59
78615723 CCCAACTGTG
* *
78615733 CTGATATGGGCAAGGCCCAATATA-TCTCG-ACTTGTATA-GGGCTACGGCCCAGATTGATA
1 CTGATATGGGCAAGGCCCAATATACCCT-GTAC-TGT-TAGGGGCTACGGCCCAGATTAATA
* * *
78615792 CTGATATGGGCTAGGCCCAGTATACCCTGTTACTGTTAGGGGCTATGGCCCAGATTAATA
1 CTGATATGGGCAAGGCCCAATATACCCTG-TACTGTTAGGGGCTACGGCCCAGATTAATA
*
78615852 TTGATATGGGCTAAGGCCCA
1 CTGATATGGGC-AAGGCCCA
78615872 GTTAACACTA
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
59 25 0.37
60 34 0.50
61 9 0.13
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (59 bp):
CTGATATGGGCAAGGCCCAATATACCCTGTACTGTTAGGGGCTACGGCCCAGATTAATA
Found at i:78618083 original size:21 final size:23
Alignment explanation
Indices: 78618054--78618098 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
78618044 TTTTATTGAT
*
78618054 TTATGAAAATTATA-AT-TATTA
1 TTATGAAAAATATATATATATTA
*
78618075 TTATTAAAAATATATATATATTA
1 TTATGAAAAATATATATATATTA
78618098 T
1 T
78618099 CGTATTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 2 0.10
23 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TTATGAAAAATATATATATATTA
Found at i:78622358 original size:16 final size:16
Alignment explanation
Indices: 78622339--78622371 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
78622329 TAGGTGTATG
78622339 TATAT-GTATATATTTA
1 TATATAGTAT-TATTTA
78622355 TATATAGTATTATTTA
1 TATATAGTATTATTTA
78622371 T
1 T
78622372 TTATTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TATATAGTATTATTTA
Found at i:78622371 original size:4 final size:4
Alignment explanation
Indices: 78622364--78622397 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
78622354 ATATATAGTA
*
78622364 TTAT TTAT TTAT TTAT TTAT TAAAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT T-TAT TTAT TTAT T
78622398 ATTATTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 24 0.89
5 3 0.11
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:78622392 original size:17 final size:16
Alignment explanation
Indices: 78622370--78622401 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
78622360 AGTATTATTT
78622370 ATTTATTTATTTATTAA
1 ATTTATTTA-TTATTAA
78622387 ATTTATTTATTATTA
1 ATTTATTTATTATTA
78622402 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTTATTTATTATTAA
Found at i:78622392 original size:21 final size:19
Alignment explanation
Indices: 78622366--78622404 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
78622356 ATATAGTATT
78622366 ATTTATTTATTTATTTATTAA
1 ATTTATTTA-TTA-TTATTAA
78622387 ATTTATTTATTATTATTA
1 ATTTATTTATTATTATTA
78622405 TTATTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTATTTATTATTATTAA
Found at i:78622696 original size:37 final size:37
Alignment explanation
Indices: 78622609--78622715 Score: 128
Period size: 37 Copynumber: 2.9 Consensus size: 37
78622599 ATGTGTATAT
* * *
78622609 TCTTTTAATAGATATTATGTATATCTTTAT-ATATTA
1 TCTTTTAATATATATTATGTATATATTTTTAATATTA
*
78622645 T-TTTTAACTTTATATTATGTATATATTTTTAATATTA
1 TCTTTTAA-TATATATTATGTATATATTTTTAATATTA
* * *
78622682 TCTTTTTATATATATTATGTACATATTTTCAATA
1 TCTTTTAATATATATTATGTATATATTTTTAATA
78622716 CTATTAATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
35 6 0.10
36 19 0.32
37 30 0.50
38 5 0.08
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.58
Consensus pattern (37 bp):
TCTTTTAATATATATTATGTATATATTTTTAATATTA
Found at i:78622751 original size:2 final size:2
Alignment explanation
Indices: 78622744--78622784 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
78622734 TATCTATTAT
* *
78622744 TA TA TA TA TA TA TA TA TA TA TA T- TA -A TT TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78622784 T
1 T
78622785 GTAGCGTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
TA
Found at i:78622899 original size:21 final size:20
Alignment explanation
Indices: 78622870--78622908 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
78622860 ATTCATGATT
78622870 TTATTTCATATTTAATACTA
1 TTATTTCATATTTAATACTA
*
78622890 TTATTATCATGTTTAATAC
1 TTATT-TCATATTTAATAC
78622909 CATATGCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.54
Consensus pattern (20 bp):
TTATTTCATATTTAATACTA
Found at i:78624399 original size:18 final size:18
Alignment explanation
Indices: 78624376--78624410 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
78624366 CTGTTTTTTA
*
78624376 TTATTTATTATTATTATG
1 TTATTTACTATTATTATG
*
78624394 TTATTTACTGTTATTAT
1 TTATTTACTATTATTAT
78624411 TATATTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (18 bp):
TTATTTACTATTATTATG
Found at i:78624535 original size:20 final size:20
Alignment explanation
Indices: 78624510--78624549 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
78624500 GTTTCAATTA
* *
78624510 ATACTTACGTGTATATATAT
1 ATACTTACATATATATATAT
*
78624530 ATACTTTCATATATATATAT
1 ATACTTACATATATATATAT
78624550 TTATAGTTTT
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:0.10, G:0.05, T:0.47
Consensus pattern (20 bp):
ATACTTACATATATATATAT
Found at i:78624694 original size:25 final size:24
Alignment explanation
Indices: 78624666--78624727 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
78624656 TATTTATATA
78624666 TATTATTATGTATATATTTTAACAC
1 TATTATTATGTATATATTTT-ACAC
* *
78624691 TATTAGTTA--TATATCTTTTATAC
1 TATTA-TTATGTATATATTTTACAC
78624714 TATT-TTATGTATAT
1 TATTATTATGTATAT
78624728 TTCTAATATC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 3 0.09
23 12 0.38
24 9 0.28
25 5 0.16
26 3 0.09
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.56
Consensus pattern (24 bp):
TATTATTATGTATATATTTTACAC
Found at i:78624745 original size:19 final size:19
Alignment explanation
Indices: 78624721--78624758 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
78624711 TACTATTTTA
78624721 TGTATATTTCTAATATCAT
1 TGTATATTTCTAATATCAT
78624740 TGTATATTTCTAATATCAT
1 TGTATATTTCTAATATCAT
78624759 CATTATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.53
Consensus pattern (19 bp):
TGTATATTTCTAATATCAT
Found at i:78625175 original size:26 final size:28
Alignment explanation
Indices: 78625127--78625182 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
78625117 ATTATACCTA
*
78625127 TTATTTTCACTATTATCACGTAT-TATT
1 TTATTTTCAATATTATCACGTATATATT
* *
78625154 TTATTTT-AATATTATTATGTATATATT
1 TTATTTTCAATATTATCACGTATATATT
78625181 TT
1 TT
78625183 TCATATATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.61
Consensus pattern (28 bp):
TTATTTTCAATATTATCACGTATATATT
Found at i:78632029 original size:27 final size:27
Alignment explanation
Indices: 78631998--78632175 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
78631988 TAAATTGTAC
78631998 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
78632025 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
78632051 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
78632079 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
78632107 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
78632134 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
78632161 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78632176 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:78632112 original size:82 final size:81
Alignment explanation
Indices: 78631999--78632154 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
78631989 AAATTGTACA
* *
78631999 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
78632063 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
78632080 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
78632145 TGCGAGTTGA
65 TGCGAATTGA
78632155 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:78632166 original size:82 final size:81
Alignment explanation
Indices: 78631995--78632175 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
78631985 GATTAAATTG
* *
78631995 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
78632060 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
78632076 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
78632140 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
78632158 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
78632176 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:78632186 original size:27 final size:27
Alignment explanation
Indices: 78632080--78632186 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
78632070 TGACCATGCG
* * * *
78632080 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
78632108 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
78632135 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
78632162 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
78632187 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:78647432 original size:73 final size:72
Alignment explanation
Indices: 78647236--78647540 Score: 387
Period size: 73 Copynumber: 4.1 Consensus size: 72
78647226 GTTTTTATTC
* * ** * * *
78647236 CTGTTTTCAAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTT
1 CTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
78647301 TCAATTT
66 TCAATTT
* * *
78647308 CTGTCTTTCAAAAAAATTAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGAGACGCTGAGGTA
1 CTGT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
78647373 ATTTCAATTT
63 ATTTCAATTT
*
78647383 CTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG-AAT
1 CTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA-
78647447 TTTCAATTT
64 TTTCAATTT
78647456 CTGCTTTTCAAACAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 CTG-TTTT----C-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
78647521 GTATTTTCAATTT
60 GTAATTTCAATTT
*
78647534 ATGTTTT
1 CTGTTTT
78647541 TCAATTTATA
Statistics
Matches: 204, Mismatches: 17, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
72 6 0.03
73 65 0.32
74 5 0.02
75 60 0.29
77 5 0.02
78 62 0.30
79 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (72 bp):
CTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
TCAATTT
Found at i:78647505 original size:78 final size:77
Alignment explanation
Indices: 78647244--78647721 Score: 434
Period size: 78 Copynumber: 5.9 Consensus size: 77
78647234 TCCTGTTTTC
* * ** * * *
78647244 AAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGAATTTTCAATTTC
78647309 TGTCTTTC--A-A
66 TGT-TTTCAAACA
* * *
78647319 AAAAATTAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGAGACGCTGAGGTAA-TTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG-AATTTTCAATTT
78647383 CTGTTTGT----C-
65 CTGTTT-TCAAACA
*
78647392 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGAATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGAATTTTCAATTTC
78647457 TGCTTTTCAAACA
66 TG-TTTTCAAACA
* *
78647470 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGAATTTTCAATTTC
*
78647535 TGTTTTTCAATTTATA
66 TG-TTTTCAA---ACA
* * *
78647551 TTTTTCAAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTCAGGACACACTGAGGTATTTTC
1 ------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG-A-----
*
78647616 ATTTTCAATTTATGTTTTTCAATTTATATTTTCAA
54 ATTTTCAATTTCTG-TTTTC-A---A-A----C-A
*
78647651 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGAATTTTCAATTTC
*
78647716 TATTTT
66 TGTTTT
78647722 TTTTTCAATT
Statistics
Matches: 339, Mismatches: 30, Indels: 56
0.80 0.07 0.13
Matches are distributed among these distances:
72 2 0.01
73 61 0.18
74 5 0.01
75 57 0.17
76 1 0.00
77 1 0.00
78 71 0.21
81 2 0.01
87 53 0.16
88 12 0.04
93 20 0.06
94 50 0.15
95 2 0.01
97 1 0.00
100 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (77 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGAATTTTCAATTTC
TGTTTTCAAACA
Found at i:78647543 original size:14 final size:14
Alignment explanation
Indices: 78647524--78647558 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
78647514 CGCTGAGGTA
*
78647524 TTTTCAATTTATGT
1 TTTTCAATTTATAT
78647538 TTTTCAATTTATAT
1 TTTTCAATTTATAT
78647552 TTTTCAA
1 TTTTCAA
78647559 AAATCAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTATAT
Found at i:78647597 original size:87 final size:87
Alignment explanation
Indices: 78647470--78647960 Score: 496
Period size: 89 Copynumber: 5.5 Consensus size: 87
78647460 TTTTCAAACA
78647470 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTA
78647535 TGTTTTTCAATTTATATTTTTC
66 TGTTTTTCAATTTATATTTTTC
* * *
78647557 AAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTCAGGACACACTGAGGTATTTTCATTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG-----T-ATTTTC
78647622 AATTTATGTTTTTCAATTTATA-TTTTC
60 AATTTATGTTTTTCAATTTATATTTTTC
78647649 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA-T
*
78647714 TCTATTTTTTTTTCAATTTATATTTTTC
63 T-TA--TGTTTTTCAATTTATATTTTTC
* * * *
78647742 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTTAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCT-GAGGTATTTTCAAT
* * * **
78647806 ATCTGCTTTTT-AAATTA-A-GGTTC
63 TTATG-TTTTTCAATTTATATTTTTC
* * * * *
78647829 AAAGAAACCAACTCATATTGTGAGAGGTGAGTTGAGCCT-TGGCTCACGCGTTGAGCTATTTTCA
1 -AA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGC--TGAGGTATTTTCA
* * * *
78647893 ATTTTTGTTTTT-AATGTCTGTTTTT-
61 ATTTATGTTTTTCAATTTATATTTTTC
* *
78647918 AAAAGAGTTAACTCATATTGCGAGAAGTGAGTTGAG-CTCAGGA
1 AAAA-A-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
78647961 TCACATGCCG
Statistics
Matches: 338, Mismatches: 39, Indels: 53
0.79 0.09 0.12
Matches are distributed among these distances:
87 58 0.17
88 26 0.08
89 83 0.25
90 10 0.03
91 41 0.12
92 22 0.07
93 49 0.14
94 49 0.14
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTA
TGTTTTTCAATTTATATTTTTC
Found at i:78647648 original size:13 final size:14
Alignment explanation
Indices: 78647616--78647650 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
78647606 AGGTATTTTC
78647616 ATTTTCAATTTATG
1 ATTTTCAATTTATG
*
78647630 TTTTTCAATTTAT-
1 ATTTTCAATTTATG
78647643 ATTTTCAA
1 ATTTTCAA
78647651 AAAAATCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.60
Consensus pattern (14 bp):
ATTTTCAATTTATG
Found at i:78647689 original size:94 final size:93
Alignment explanation
Indices: 78647470--78647779 Score: 494
Period size: 94 Copynumber: 3.4 Consensus size: 93
78647460 TTTTCAAACA
78647470 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG-----T-ATTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCATTTTC
78647529 AATTTATGTTTTTCAATTTATATTTTTC
66 AATTTATGTTTTTCAATTTATATTTTTC
* * *
78647557 AAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTCAGGACACACTGAGGTATTTTCATTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCATTTTC
78647622 AATTTATGTTTTTCAATTTATA-TTTTC
66 AATTTATGTTTTTCAATTTATATTTTTC
*
78647649 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCATTT
*
78647714 TCTATTT-T-TTTTTCAATTTATATTTTTC
64 TCAATTTATGTTTTTCAATTTATATTTTTC
78647742 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
78647780 GGGTCACATG
Statistics
Matches: 206, Mismatches: 8, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
87 49 0.24
91 38 0.18
92 20 0.10
93 34 0.17
94 65 0.32
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.37
Consensus pattern (93 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCATTTTC
AATTTATGTTTTTCAATTTATATTTTTC
Found at i:78647728 original size:18 final size:18
Alignment explanation
Indices: 78647705--78647740 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
78647695 CGCTGAGGTA
*
78647705 TTTTCAATTTCTATTTTT
1 TTTTCAATTTATATTTTT
78647723 TTTTCAATTTATATTTTT
1 TTTTCAATTTATATTTTT
78647741 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTCAATTTATATTTTT
Found at i:78652440 original size:4 final size:4
Alignment explanation
Indices: 78652433--78652460 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
78652423 ATTCATTTGA
78652433 CATT CATT CATT CATT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT
78652461 TATTGCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
CATT
Found at i:78660768 original size:76 final size:74
Alignment explanation
Indices: 78660663--78661108 Score: 429
Period size: 76 Copynumber: 5.7 Consensus size: 74
78660653 TGATGTTTTT
* * *
78660663 ATTTCTG-TTTC--AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAAGTTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAG
78660725 GTATTTTCA
66 GTATTTTCA
78660734 ATTTCTGTCTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTG
1 ATTTCTGT-TTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTG
78660799 AGGTAATTTTCA
64 AGGT-ATTTTCA
*
78660811 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-CGCTCACATGC
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACATGC
78660875 TGAGGTATTTTCA
62 TGAGGTATTTTCA
* * *
78660888 ATTTCTGTTTTTCAATTTCTGTTCGTCAAAATCAGCTCATATTGTGAGAGGTGAGTTGAGCCTCA
1 ATTTCTG-TTTTCAA-----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
78660953 AGACATGTTGAGGTAATTTT-A
54 AGACATGCTGAGGT-ATTTTCA
* * *
78660974 ATTTCTGTTCTTCAATTTATGTTTCAAAAATTAACTCATATTGTGAGAGGTGAGTTGAGCCTCAG
1 ATTTCTGTT-TTC-A---A------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
* *
78661039 GTCAAGCTGAGGTATTTTCA
55 GACATGCTGAGGTATTTTCA
*
78661059 ATTTCTATTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 ATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
78661109 TGGCTCACGT
Statistics
Matches: 321, Mismatches: 24, Indels: 58
0.80 0.06 0.14
Matches are distributed among these distances:
71 7 0.02
73 39 0.12
75 6 0.02
76 78 0.24
77 47 0.15
78 13 0.04
84 6 0.02
85 60 0.19
86 22 0.07
87 6 0.02
88 35 0.11
89 1 0.00
90 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (74 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAG
GTATTTTCA
Found at i:78660901 original size:14 final size:14
Alignment explanation
Indices: 78660882--78660910 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
78660872 TGCTGAGGTA
78660882 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
78660896 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
78660910 T
1 T
78660911 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:78661032 original size:85 final size:86
Alignment explanation
Indices: 78660826--78661064 Score: 315
Period size: 85 Copynumber: 2.8 Consensus size: 86
78660816 TGTCTTTCAA
* *
78660826 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-CGCTCACATGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAG---ACATGCTGAGGTATTTTCAAT
* *
78660890 TTCTGTTTTTCAATTTCTGTTCGTC
63 TTCTGTTCTTCAATTTATGTTC-TC
* *
78660915 -AAAATCAGCTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTAATTTT-AATTT
1 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGT-ATTTTCAATTT
78660978 CTGTTCTTCAATTTATGTT-TC
65 CTGTTCTTCAATTTATGTTCTC
* * * *
78660999 AAAAATTAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCAAGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
78661064 T
66 T
78661065 ATTTGTCAAA
Statistics
Matches: 134, Mismatches: 12, Indels: 12
0.85 0.08 0.08
Matches are distributed among these distances:
84 7 0.05
85 53 0.40
86 33 0.25
87 5 0.04
88 35 0.26
89 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.37
Consensus pattern (86 bp):
AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
TGTTCTTCAATTTATGTTCTC
Found at i:78661083 original size:73 final size:75
Alignment explanation
Indices: 78660997--78661143 Score: 212
Period size: 73 Copynumber: 2.0 Consensus size: 75
78660987 AATTTATGTT
* *
78660997 TCAAAAATTAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG-TCAAGCTG-AG-G-TATTTTC
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGCTCAAG-TGCAGAGCTATTTTC
78661058 AATTTCTATTTG
64 AATTTCTATTTG
* *
78661070 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCAGAGCTATTTTCAA
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGCTCAAGTGCAGAGCTATTTTCAA
78661135 TTTCTATTT
66 TTTCTATTT
78661144 TTAATGTCTG
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
72 4 0.06
73 43 0.65
74 1 0.02
75 18 0.27
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (75 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGCTCAAGTGCAGAGCTATTTTCAA
TTTCTATTTG
Found at i:78662350 original size:29 final size:27
Alignment explanation
Indices: 78662290--78662351 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
78662280 TATTTTTCCT
78662290 TAAAAAAATCAGTTATATATAAAAATA
1 TAAAAAAATCAGTTATATATAAAAATA
*
78662317 TAAAAAAATCAGTTATATATAAAAGTA
1 TAAAAAAATCAGTTATATATAAAAATA
*
78662344 TTAAAAAA
1 TAAAAAAA
78662352 CAAAAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (27 bp):
TAAAAAAATCAGTTATATATAAAAATA
Found at i:78663179 original size:16 final size:16
Alignment explanation
Indices: 78663150--78663182 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
78663140 TATGTGTATG
78663150 TATATGTATATATTTA
1 TATATGTATATATTTA
78663166 TATATAGTAT-TATTTA
1 TATAT-GTATATATTTA
78663182 T
1 T
78663183 TTATTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TATATGTATATATTTA
Found at i:78663487 original size:37 final size:37
Alignment explanation
Indices: 78663400--78663506 Score: 128
Period size: 37 Copynumber: 2.9 Consensus size: 37
78663390 ATGTGTATAT
* * *
78663400 TCTTTTAATAGATATTATGTATATCTTTAT-ATATTA
1 TCTTTTAATATATATTATGTATATATTTTTAATATTA
*
78663436 T-TTTTAACTTTATATTATGTATATATTTTTAATATTA
1 TCTTTTAA-TATATATTATGTATATATTTTTAATATTA
* * *
78663473 TCTTTTTATATATATTATGTACATATTTTCAATA
1 TCTTTTAATATATATTATGTATATATTTTTAATA
78663507 CTATTAATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
35 6 0.10
36 19 0.32
37 30 0.50
38 5 0.08
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.58
Consensus pattern (37 bp):
TCTTTTAATATATATTATGTATATATTTTTAATATTA
Found at i:78663682 original size:21 final size:20
Alignment explanation
Indices: 78663649--78663687 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
78663639 ATTCATGATT
*
78663649 TTATTTCGTGTTTAATACTA
1 TTATTTCATGTTTAATACTA
78663669 TTATTATCATGTTTAATAC
1 TTATT-TCATGTTTAATAC
78663688 CATATGCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.54
Consensus pattern (20 bp):
TTATTTCATGTTTAATACTA
Found at i:78666819 original size:22 final size:22
Alignment explanation
Indices: 78666780--78666821 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
78666770 GCATTAATAG
*
78666780 AATAGTAAGCATCGAAGTGCGA
1 AATAGTAAGCATCAAAGTGCGA
* *
78666802 AATAGTAAGCGTTAAAGTGC
1 AATAGTAAGCATCAAAGTGC
78666822 AAGATGGTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.21
Consensus pattern (22 bp):
AATAGTAAGCATCAAAGTGCGA
Found at i:78670809 original size:62 final size:62
Alignment explanation
Indices: 78670522--78670809 Score: 319
Period size: 62 Copynumber: 4.6 Consensus size: 62
78670512 ATATCCTGCC
** * *
78670522 ACACGGCCTGGGCACACACCCGTGTACCTTGGCCGTATGGTTTTTAAGCACAAACAGTGAGTT
1 ACACGGCCTGGGCACACGTCCGTGT-CCCTGGCCGTGTGGTTTTTAAGCACAAACAGTGAGTT
* * *
78670585 ACACGGCCTGGGCACACGTCTGTGTCCCTGGCCATGTAGTTTTTTAAGCACAAACAGTGAGTT
1 ACACGGCCTGGGCACACGTCCGTGTCCCTGGCCGTGT-GGTTTTTAAGCACAAACAGTGAGTT
* * * * *
78670648 ACACAGCCCGAGCACACGTCCGTGTCCCTGGCCATGTAGTTTTTAAGCACAAACAGTGAGTT
1 ACACGGCCTGGGCACACGTCCGTGTCCCTGGCCGTGTGGTTTTTAAGCACAAACAGTGAGTT
* * * * * ** * *
78670710 ACACAGCCTGAGCACGCGTTCGTGCCCCTGGTTGTGTGG-TTTTATA-CCCTAAATAGTGAGTT
1 ACACGGCCTGGGCACACGTCCGTGTCCCTGGCCGTGTGGTTTTTA-AGCAC-AAACAGTGAGTT
* *
78670772 ACACGGACTGGGCACACGCCCGTGTCCCTGGCCGTGTG
1 ACACGGCCTGGGCACACGTCCGTGTCCCTGGCCGTGTG
78670810 AACCCTGCAC
Statistics
Matches: 190, Mismatches: 32, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
61 7 0.04
62 104 0.55
63 79 0.42
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.25
Consensus pattern (62 bp):
ACACGGCCTGGGCACACGTCCGTGTCCCTGGCCGTGTGGTTTTTAAGCACAAACAGTGAGTT
Found at i:78671493 original size:17 final size:17
Alignment explanation
Indices: 78671447--78671516 Score: 56
Period size: 17 Copynumber: 4.2 Consensus size: 17
78671437 AATTAAAGGG
*
78671447 GAAAAAG-GGAAAAGTC
1 GAAAAAGAGGAAAAGTA
* *
78671463 GAAAAAAAGAAAAAGTA
1 GAAAAAGAGGAAAAGTA
*
78671480 GAGAAAGAGGAAAA--A
1 GAAAAAGAGGAAAAGTA
*
78671495 GAAAAAGAATGGAAAAGAA
1 GAAAAAG-A-GGAAAAGTA
78671514 GAA
1 GAA
78671517 CTAATGTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
15 7 0.17
16 7 0.17
17 24 0.57
19 4 0.10
ACGTcount: A:0.67, C:0.01, G:0.27, T:0.04
Consensus pattern (17 bp):
GAAAAAGAGGAAAAGTA
Found at i:78671943 original size:17 final size:18
Alignment explanation
Indices: 78671911--78671945 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
78671901 CTTAGCACAA
78671911 ATTTGATTAAAATAAAAT
1 ATTTGATTAAAATAAAAT
*
78671929 ATTTGATT-CAATAAAAT
1 ATTTGATTAAAATAAAAT
78671946 TGGAAGAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (18 bp):
ATTTGATTAAAATAAAAT
Found at i:78674818 original size:17 final size:17
Alignment explanation
Indices: 78674796--78674836 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
78674786 TTAGCATAAT
*
78674796 AGTTTATGATAAAAGTA
1 AGTTTATGATAAAAATA
78674813 AGTTTATGATAAAAATA
1 AGTTTATGATAAAAATA
78674830 AGTTTAT
1 AGTTTAT
78674837 ATCCATTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.39
Consensus pattern (17 bp):
AGTTTATGATAAAAATA
Found at i:78675615 original size:16 final size:16
Alignment explanation
Indices: 78675590--78675623 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
78675580 TTTTATTTTA
78675590 TAAATAAATAA-AAAT
1 TAAATAAATAATAAAT
78675605 TAAAGTAAATAATAAAT
1 TAAA-TAAATAATAAAT
78675622 TA
1 TA
78675624 TTTTTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 7 0.41
17 6 0.35
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
TAAATAAATAATAAAT
Found at i:78675908 original size:26 final size:23
Alignment explanation
Indices: 78675861--78675922 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 23
78675851 TATAAATATA
78675861 ATTTAT-TATTAAAATAGAAATTT
1 ATTTATAT-TTAAAATAGAAATTT
78675884 ATTTATATCTTAAAATTAAGAAATTT
1 ATTTATAT-TTAAAA-T-AGAAATTT
78675910 ATCTTATATTTAA
1 AT-TTATATTTAA
78675923 TTTATTTTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
23 6 0.18
24 7 0.21
25 1 0.03
26 14 0.41
27 6 0.18
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (23 bp):
ATTTATATTTAAAATAGAAATTT
Found at i:78683944 original size:28 final size:28
Alignment explanation
Indices: 78683913--78683970 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
78683903 AGATGGATAG
78683913 CTCCAACTAGTTTAACACTTAAAATCAA
1 CTCCAACTAGTTTAACACTTAAAATCAA
*
78683941 CTCCAACTAGTTTAACAGTTAAAATCAA
1 CTCCAACTAGTTTAACACTTAAAATCAA
78683969 CT
1 CT
78683971 TTGACGCTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.29
Consensus pattern (28 bp):
CTCCAACTAGTTTAACACTTAAAATCAA
Found at i:78684989 original size:15 final size:16
Alignment explanation
Indices: 78684966--78684998 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
78684956 ATTTTAGTAC
78684966 TTTTAATAATA-TATT
1 TTTTAATAATATTATT
*
78684981 TTTTGATAATATTATT
1 TTTTAATAATATTATT
78684997 TT
1 TT
78684999 AAATTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (16 bp):
TTTTAATAATATTATT
Found at i:78685046 original size:21 final size:21
Alignment explanation
Indices: 78684990--78685046 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
78684980 TTTTTGATAA
*
78684990 TATTA-TTTTA-AATTAATAT
1 TATTACTTTTATATTTAATAT
* * *
78685009 TAATACTTTTTTGTTTAATAT
1 TATTACTTTTATATTTAATAT
78685030 TATTACTTTTATATTTA
1 TATTACTTTTATATTTA
78685047 TTCATTTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
19 4 0.14
20 4 0.14
21 21 0.72
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (21 bp):
TATTACTTTTATATTTAATAT
Found at i:78695843 original size:20 final size:20
Alignment explanation
Indices: 78695812--78695873 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
78695802 GAAAATTATT
*
78695812 TTAAAATGATTTTGACTTGA
1 TTAAAATCATTTTGACTTGA
* *
78695832 TTGAAATCATTTTGA-TATGG
1 TTAAAATCATTTTGACT-TGA
**
78695852 TTAAAATCATTTACACTTGA
1 TTAAAATCATTTTGACTTGA
78695872 TT
1 TT
78695874 TTAAAATTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.03
20 31 0.94
21 1 0.03
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAAAATCATTTTGACTTGA
Found at i:78702057 original size:40 final size:40
Alignment explanation
Indices: 78701995--78702252 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
78701985 AAGCCAAGTA
* * * * *
78701995 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
78702034 CCTTCGGGACATAGCCCGGATATAGTAACTCACACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
78702074 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
78702114 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
78702154 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
78702194 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
78702234 CCTTCGAGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
78702253 TTATCATCCA
Statistics
Matches: 196, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.07
40 183 0.93
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:78709752 original size:40 final size:40
Alignment explanation
Indices: 78709673--78709968 Score: 411
Period size: 40 Copynumber: 7.5 Consensus size: 40
78709663 AAGCCAAGTA
* * * * *
78709673 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * * *
78709712 CCTTTGGGACATAGCCCGGATATAGTAACTCACACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
78709752 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
78709792 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
78709832 CCTTCAGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
78709872 CCTTCGGGACTTAGCCCGGATATAGTAAATCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
78709912 CCTTC-GGACTTAGCCCGGA-ACTAGTTACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
78709951 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
78709969 ATTATCATCC
Statistics
Matches: 232, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
38 1 0.00
39 44 0.19
40 187 0.81
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:78720929 original size:40 final size:40
Alignment explanation
Indices: 78720885--78721032 Score: 251
Period size: 40 Copynumber: 3.7 Consensus size: 40
78720875 GCAAACACAT
* * *
78720885 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
78720925 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
78720965 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
78721005 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
78721033 TCCAATGCTC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:78723853 original size:12 final size:12
Alignment explanation
Indices: 78723824--78723883 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 12
78723814 AGAATAAAAA
78723824 AAATTAAAAATT
1 AAATTAAAAATT
78723836 AGAATTAAAAATT
1 A-AATTAAAAATT
* **
78723849 AAATTAAGAACA
1 AAATTAAAAATT
*
78723861 AAATATTAAAATT
1 AAAT-TAAAAATT
78723874 AAAATTAAAA
1 -AAATTAAAA
78723884 TGGCTAAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
12 13 0.35
13 20 0.54
14 4 0.11
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (12 bp):
AAATTAAAAATT
Found at i:78723876 original size:6 final size:6
Alignment explanation
Indices: 78723823--78723884 Score: 54
Period size: 6 Copynumber: 9.8 Consensus size: 6
78723813 AAGAATAAAA
* **
78723823 AAAATT AAAAATT AGAATT AAAAATT -AAATT AAGAACA AAATATT AAAATT
1 AAAATT -AAAATT AAAATT -AAAATT AAAATT AA-AATT AAA-ATT AAAATT
78723874 AAAATT AAAAT
1 AAAATT AAAAT
78723885 GGCTAAATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
5 5 0.11
6 21 0.47
7 19 0.42
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:78726529 original size:47 final size:47
Alignment explanation
Indices: 78726500--78726760 Score: 389
Period size: 47 Copynumber: 5.6 Consensus size: 47
78726490 ATATATGAGC
* *
78726500 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
* *
78726547 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
* *
78726594 TAAGGCCGAATAG-ACAATGTGATGAATGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCA-AATGTGATGAATGTGAACATGCATATGTGTGA
* * * *
78726641 TAAGACCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGA
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
* *
78726688 TAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
*
78726735 TAAGGCCGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCAAATGTGATGAA
78726761 CGTGGAAGTG
Statistics
Matches: 199, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.01
47 198 0.99
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:78726567 original size:94 final size:94
Alignment explanation
Indices: 78726469--78726780 Score: 439
Period size: 94 Copynumber: 3.3 Consensus size: 94
78726459 TTAGGATTTT
* ** *
78726469 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
* *
78726534 TGCATTTGTGTGCTAAGGCCGAATGGCAA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* * * *
78726563 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATAG-ACAATGTGATGAATGTGAAC
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCA-AATGTGATGAATGTGAAC
*
78726627 ATGCATTTGTGTGATAAGACCGAATGGCCA
65 ATGCATTTGTGTGATAAGGCCGAATGGCCA
* * *
78726657 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
*
78726722 TGCATATGTGTGATAAGGCCGAATGGCCA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* *
78726751 ATGTGATGAACGTGGAA-GTGTATATATGTG
1 ATGTGATGAATGT-GAACATGTATATATGTG
78726781 GGGAAGCCGA
Statistics
Matches: 193, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
93 1 0.01
94 189 0.98
95 3 0.02
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
TGCATTTGTGTGATAAGGCCGAATGGCCA
Found at i:78726794 original size:47 final size:47
Alignment explanation
Indices: 78726469--78726780 Score: 374
Period size: 47 Copynumber: 6.6 Consensus size: 47
78726459 TTAGGATTTT
* ** * * *
78726469 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * *
78726516 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * * *
78726563 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATAGACA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * *
78726610 ATGTGATGAATGTGAACATGCATTTGTGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
78726657 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * *
78726704 ATGTGATAAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
78726751 ATGTGATGAACGTGGAA-GTGTATATATGTG
1 ATGTGATGAATGT-GAACATGTATATATGTG
78726781 GGGAAGCCGA
Statistics
Matches: 238, Mismatches: 26, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 235 0.99
48 3 0.01
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:78726834 original size:46 final size:46
Alignment explanation
Indices: 78726774--78726864 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
78726764 GGAAGTGTAT
* * * *
78726774 ATATGTGGGGAAGCCGAATGGTTAATGCGA-AATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAGAA-ATGTATGAGATGG
* *
78726820 ATATGTGGTAAAGCCAAATGGCTAATGTGAGAAATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAGAAATGTATGAGATG
78726865 TGTATATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 36 0.95
47 2 0.05
ACGTcount: A:0.34, C:0.07, G:0.33, T:0.26
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAGAAATGTATGAGATGG
Found at i:78729654 original size:18 final size:19
Alignment explanation
Indices: 78729631--78729670 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
78729621 GTGGCAAAAG
*
78729631 AATGGGAAATGGAAT-TGA
1 AATGGGAAATGAAATGTGA
78729649 AATGGGAAATGAAATGTGA
1 AATGGGAAATGAAATGTGA
78729668 AAT
1 AAT
78729671 TATGGAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (19 bp):
AATGGGAAATGAAATGTGA
Found at i:78734414 original size:17 final size:19
Alignment explanation
Indices: 78734387--78734422 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
78734377 TGGCTTGCCT
78734387 GTGTAGGCCCACA-AGCCC
1 GTGTAGGCCCACACAGCCC
78734405 GTGT-GGCCCACACAGCCC
1 GTGTAGGCCCACACAGCCC
78734423 AATTTTTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.19, C:0.42, G:0.28, T:0.11
Consensus pattern (19 bp):
GTGTAGGCCCACACAGCCC
Found at i:78741059 original size:20 final size:21
Alignment explanation
Indices: 78741036--78741078 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
78741026 ATAAGCATGT
78741036 ATTTTG-ATGCTTGATGATAG
1 ATTTTGAATGCTTGATGATAG
* *
78741056 ATTTTGAATTCTTGTTGATAG
1 ATTTTGAATGCTTGATGATAG
78741077 AT
1 AT
78741079 ATACAAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.49
Consensus pattern (21 bp):
ATTTTGAATGCTTGATGATAG
Found at i:78746174 original size:46 final size:46
Alignment explanation
Indices: 78746107--78746380 Score: 388
Period size: 46 Copynumber: 6.0 Consensus size: 46
78746097 GCTCTCTGAA
* * * *
78746107 ATGAAATGTGTAAGATCATGGTTGAAAGATACCATGGTAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
78746153 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
78746199 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
78746245 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
78746291 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
78746337 A-GAAATTGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATGAAA-TGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
78746381 TCAAAGATAA
Statistics
Matches: 213, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 209 0.98
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:78749261 original size:17 final size:18
Alignment explanation
Indices: 78749222--78749266 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
78749212 TAAATAAAAA
78749222 TAAAAATAAAAACCAAAG
1 TAAAAATAAAAACCAAAG
* *
78749240 -GAAAAGAAAAA-CAAAG
1 TAAAAATAAAAACCAAAG
78749256 TAAAAATAAAA
1 TAAAAATAAAA
78749267 GGACTCAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.76, C:0.07, G:0.09, T:0.09
Consensus pattern (18 bp):
TAAAAATAAAAACCAAAG
Found at i:78752116 original size:28 final size:27
Alignment explanation
Indices: 78752053--78752232 Score: 270
Period size: 28 Copynumber: 6.6 Consensus size: 27
78752043 ATATTAAGTC
* * *
78752053 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
78752080 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
78752108 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
78752136 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
*
78752163 CGCACACTTAGTGCTGCATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
78752191 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
78752218 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78752233 GCACAATTTA
Statistics
Matches: 143, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 64 0.45
28 79 0.55
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:78752192 original size:83 final size:82
Alignment explanation
Indices: 78752053--78752232 Score: 288
Period size: 83 Copynumber: 2.2 Consensus size: 82
78752043 ATATTAAGTC
* *
78752053 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
78752118 GTGCTACATAGTCAAACT
66 GTGCTACATAGTC-AACT
* * * *
78752136 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCATAGTCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
*
78752201 GTGCTACATAGTCAATT
66 GTGCTACATAGTCAACT
78752218 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78752233 GCACAATTTA
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
82 18 0.20
83 72 0.80
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:78752235 original size:55 final size:55
Alignment explanation
Indices: 78752053--78752232 Score: 290
Period size: 55 Copynumber: 3.3 Consensus size: 55
78752043 ATATTAAGTC
* * * * *
78752053 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTC-AATT
78752108 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
*
78752163 CGCACACTTAGTGCTGCATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
78752218 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78752233 GCACAATTTA
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
55 92 0.78
56 26 0.22
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
Found at i:78754389 original size:16 final size:17
Alignment explanation
Indices: 78754352--78754397 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
78754342 GTGAGCAAAG
78754352 AGGAAGAAATGGAAAGGAA
1 AGGAAGAAA--GAAAGGAA
78754371 AGGAAGAAAGAAA-GAA
1 AGGAAGAAAGAAAGGAA
78754387 AGGAAGGAAAG
1 AGGAA-GAAAG
78754398 GAGAGTGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 8 0.31
17 9 0.35
19 9 0.35
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.02
Consensus pattern (17 bp):
AGGAAGAAAGAAAGGAA
Found at i:78754398 original size:9 final size:8
Alignment explanation
Indices: 78754352--78754399 Score: 51
Period size: 8 Copynumber: 5.5 Consensus size: 8
78754342 GTGAGCAAAG
78754352 AGGAAGAA
1 AGGAAGAA
78754360 ATGGAAAGGAA
1 A-GG-AA-GAA
78754371 AGGAAGAA
1 AGGAAGAA
*
78754379 AGAAAGAA
1 AGGAAGAA
78754387 AGGAAGGAA
1 AGGAA-GAA
78754396 AGGA
1 AGGA
78754400 GAGTGGGGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
8 15 0.44
9 11 0.32
10 4 0.12
11 4 0.12
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.02
Consensus pattern (8 bp):
AGGAAGAA
Found at i:78759185 original size:49 final size:50
Alignment explanation
Indices: 78759105--78759334 Score: 266
Period size: 49 Copynumber: 4.6 Consensus size: 50
78759095 ATCTATAGTG
*
78759105 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * *
78759155 -GGTCACATGTGTAGTACTAAGTGGAAGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * **
78759205 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* ** *
78759255 AGATCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
78759305 -GGTCGCATATGTAGTACTAAGTGCAGGCTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTA
78759335 TTATGCGTAC
Statistics
Matches: 150, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 66 0.44
50 47 0.31
51 37 0.25
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:78780142 original size:20 final size:20
Alignment explanation
Indices: 78780037--78780144 Score: 74
Period size: 20 Copynumber: 5.4 Consensus size: 20
78780027 GATTGCATTT
*
78780037 TGGTGCCTCTATTTGCACT-
1 TGGTGCCTCTGTTTGCACTA
* * ** *
78780056 TCAGTGCCTCTGCTTATACTT
1 T-GGTGCCTCTGTTTGCACTA
* *
78780077 TGGTGTCGCTGTTTGCACTA
1 TGGTGCCTCTGTTTGCACTA
* * * *
78780097 TGATGACTCTGATTGCACAA
1 TGGTGCCTCTGTTTGCACTA
*
78780117 TTGTGCCTCTGTTTGCACTA
1 TGGTGCCTCTGTTTGCACTA
*
78780137 CGGTGCCT
1 TGGTGCCT
78780145 TTGTATAGCA
Statistics
Matches: 63, Mismatches: 24, Indels: 3
0.70 0.27 0.03
Matches are distributed among these distances:
19 1 0.02
20 61 0.97
21 1 0.02
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.39
Consensus pattern (20 bp):
TGGTGCCTCTGTTTGCACTA
Found at i:78783229 original size:42 final size:42
Alignment explanation
Indices: 78783159--78783255 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
78783149 TCCTACAATT
* *
78783159 ACATACAAAAAATTATATTACTCAACCACCTCACCCATTTAC
1 ACATACAAAAAGTTATATTACTCAACCACCACACCCATTTAC
* * *
78783201 ACATACAAAAAGTTATATTAGTTC-ACCACCACATCTATTTAC
1 ACATACAAAAAGTTATATTA-CTCAACCACCACACCCATTTAC
* *
78783243 ACGTACTAAAAGT
1 ACATACAAAAAGT
78783256 GACAACCCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 45 0.96
43 2 0.04
ACGTcount: A:0.42, C:0.26, G:0.04, T:0.28
Consensus pattern (42 bp):
ACATACAAAAAGTTATATTACTCAACCACCACACCCATTTAC
Found at i:78785523 original size:47 final size:47
Alignment explanation
Indices: 78785452--78785856 Score: 675
Period size: 47 Copynumber: 8.6 Consensus size: 47
78785442 CCCTTCGGGA
* * * * * *
78785452 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
78785499 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78785546 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78785593 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78785640 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78785687 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78785734 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78785783 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78785830 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
78785857 TATTCAAATA
Statistics
Matches: 342, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 297 0.87
49 45 0.13
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:78785530 original size:25 final size:25
Alignment explanation
Indices: 78785502--78785580 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
78785492 ACTCGGCCCT
78785502 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
78785527 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
78785549 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
78785574 ATCACAT
1 ATCACAT
78785581 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:78789914 original size:40 final size:40
Alignment explanation
Indices: 78789882--78790353 Score: 746
Period size: 40 Copynumber: 11.8 Consensus size: 40
78789872 CCAGCATGAT
* * * * * *
78789882 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* ** * *
78789922 TGCTTTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
78789962 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
78790002 TGCTCTTCGAGACTTAGCCCGGATACATTACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
78790042 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
78790082 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
78790122 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
78790162 TGCTCTTCGAGACTTAGCTCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
78790202 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
78790242 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
78790282 TGCTCTTCGGGACTTCGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
78790322 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
78790354 CTCAATTCTC
Statistics
Matches: 398, Mismatches: 34, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 398 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:78791836 original size:47 final size:47
Alignment explanation
Indices: 78791765--78792169 Score: 639
Period size: 47 Copynumber: 8.6 Consensus size: 47
78791755 CCCTTCGGGA
* * * * * *
78791765 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
78791812 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78791859 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78791906 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78791953 CTTATCACATATATACACTTTCACATTCATCACAACGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78792000 CTTATCACATATATACACTTTCAAATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78792047 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78792096 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78792143 CTTATCACATACATAAACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
78792170 TATTCAAATA
Statistics
Matches: 336, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 292 0.87
49 44 0.13
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:78791843 original size:25 final size:25
Alignment explanation
Indices: 78791815--78791893 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
78791805 ACTCGGCCCT
78791815 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
78791840 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
78791862 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
78791887 ATCACAT
1 ATCACAT
78791894 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:78798604 original size:28 final size:28
Alignment explanation
Indices: 78798564--78798655 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
78798554 TGGGAAGTAG
78798564 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
78798592 TTGGGCCTGATGGGTCATATGAATGTTA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
78798620 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
78798648 TTGGGCCT
1 TTGGGCCT
78798656 AAAGGGGCCA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.20, C:0.15, G:0.36, T:0.29
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:78799010 original size:27 final size:28
Alignment explanation
Indices: 78798972--78799287 Score: 313
Period size: 27 Copynumber: 11.6 Consensus size: 28
78798962 TAATAAAGAG
78798972 AAATTA-TCGAAATACCC-CTGATTTGTA
1 AAATTACTCGAAATACCCTC-GATTTGTA
*
78798999 AAATTACT-GAAATACCCTCGA-TTGTG
1 AAATTACTCGAAATACCCTCGATTTGTA
* *
78799025 AAATTACT-GAAATATCCTCAATTTGTA
1 AAATTACTCGAAATACCCTCGATTTGTA
*
78799052 AAATTA-TCGAAATACCCTCGA-TTGTG
1 AAATTACTCGAAATACCCTCGATTTGTA
* *
78799078 AAATTA-TCAAAATACCCTTGATTTGTA
1 AAATTACTCGAAATACCCTCGATTTGTA
*
78799105 TTTGTGAAATTA-TCGAAACACCCTCGATTTGTA
1 ------AAATTACTCGAAATACCCTCGATTTGTA
*
78799138 AAATTAC-CGAAATACCCTTGATTTGTA
1 AAATTACTCGAAATACCCTCGATTTGTA
* * *
78799165 AAATTAC-CGAAACACCTTTGATTTGTA
1 AAATTACTCGAAATACCCTCGATTTGTA
*
78799192 AAATTAC-CAAAATACCCTCGATTTGTA
1 AAATTACTCGAAATACCCTCGATTTGTA
* *
78799219 AAATT-GTCGAAATACGCTCGATTTGTA
1 AAATTACTCGAAATACCCTCGATTTGTA
*
78799246 AAATTAC-CTAAATA-CCTCCGATTTGTA
1 AAATTACTCGAAATACCCT-CGATTTGTA
78799273 AAATTA-TCGAAATAC
1 AAATTACTCGAAATAC
78799288 TCTTATAGTG
Statistics
Matches: 244, Mismatches: 28, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
26 49 0.20
27 169 0.69
28 2 0.01
33 24 0.10
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.33
Consensus pattern (28 bp):
AAATTACTCGAAATACCCTCGATTTGTA
Found at i:78799023 original size:26 final size:26
Alignment explanation
Indices: 78798972--78799100 Score: 138
Period size: 26 Copynumber: 4.9 Consensus size: 26
78798962 TAATAAAGAG
78798972 AAATTATCGAAATACCC-CTGATTTGTA
1 AAATTATCGAAATACCCTC-GA-TTGTA
*
78798999 AAATTA-CTGAAATACCCTCGATTGTG
1 AAATTATC-GAAATACCCTCGATTGTA
* *
78799025 AAATTA-CTGAAATATCCTCAATTTGTA
1 AAATTATC-GAAATACCCTCGA-TTGTA
*
78799052 AAATTATCGAAATACCCTCGATTGTG
1 AAATTATCGAAATACCCTCGATTGTA
* *
78799078 AAATTATCAAAATACCCTTGATT
1 AAATTATCGAAATACCCTCGATT
78799101 TGTATTTGTG
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
26 49 0.55
27 38 0.43
28 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (26 bp):
AAATTATCGAAATACCCTCGATTGTA
Found at i:78799110 original size:33 final size:33
Alignment explanation
Indices: 78799073--78799137 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
78799063 ATACCCTCGA
* *
78799073 TTGTGAAATTATCAAAATACCCTTGATTTGTAT
1 TTGTGAAATTATCAAAACACCCTCGATTTGTAT
*
78799106 TTGTGAAATTATCGAAACACCCTCGATTTGTA
1 TTGTGAAATTATCAAAACACCCTCGATTTGTA
78799138 AAATTACCGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (33 bp):
TTGTGAAATTATCAAAACACCCTCGATTTGTAT
Found at i:78799188 original size:54 final size:54
Alignment explanation
Indices: 78798972--78799287 Score: 345
Period size: 54 Copynumber: 5.8 Consensus size: 54
78798962 TAATAAAGAG
* *
78798972 AAATTATCGAAATACCC-CTGATTTGTAAAATTA-CTGAAATACCCTCGA-TTGTG
1 AAATTACCGAAATACCCTC-GATTTGTAAAATTATC-GAAATACCCTCGATTTGTA
* * * *
78799025 AAATTACTGAAATATCCTCAATTTGTAAAATTATCGAAATACCCTCGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * * *
78799078 AAATTATCAAAATACCCTTGATTTGTATTTGTGAAATTATCGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA------AAATTATCGAAATACCCTCGATTTGTA
* * * * *
78799138 AAATTACCGAAATACCCTTGATTTGTAAAATTACCGAAACACCTTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * *
78799192 AAATTACCAAAATACCCTCGATTTGTAAAATTGTCGAAATACGCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
*
78799246 AAATTACCTAAATA-CCTCCGATTTGTAAAATTATCGAAATAC
1 AAATTACCGAAATACCCT-CGATTTGTAAAATTATCGAAATAC
78799288 TCTTATAGTG
Statistics
Matches: 226, Mismatches: 27, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
53 69 0.31
54 108 0.48
59 20 0.09
60 29 0.13
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.33
Consensus pattern (54 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTA
Found at i:78799299 original size:27 final size:27
Alignment explanation
Indices: 78798972--78799330 Score: 116
Period size: 27 Copynumber: 13.1 Consensus size: 27
78798962 TAATAAAGAG
* *
78798972 AAATTATCGAAATACCCCTGAT-TTGTA
1 AAATTATCGAAATA-CCCTTATAGTGTA
* *
78798999 AAATTA-CTGAAATACCCTCGAT--TGTG
1 AAATTATC-GAAATACCCT-TATAGTGTA
* * *
78799025 AAATTA-CTGAAATATCCTCA-ATTTGTA
1 AAATTATC-GAAATACCCTTATA-GTGTA
* *
78799052 AAATTATCGAAATACCCTCGAT--TGTG
1 AAATTATCGAAATACCCT-TATAGTGTA
* * *
78799078 AAATTATCAAAATACCCTTGATTTGTATTTGTG
1 AAATTATCGAAATACCCTT-A----TA-GTGTA
* * *
78799111 AAATTATCGAAACACCCTCGAT-TTGTA
1 AAATTATCGAAATACCCT-TATAGTGTA
* *
78799138 AAATTACCGAAATACCCTTGAT-TTGTA
1 AAATTATCGAAATACCCTT-ATAGTGTA
* * * *
78799165 AAATTACCGAAACACCTTTGAT-TTGTA
1 AAATTATCGAAATACCCTT-ATAGTGTA
* * * *
78799192 AAATTACCAAAATACCCTCGAT-TTGTA
1 AAATTATCGAAATACCCT-TATAGTGTA
* * * *
78799219 AAATTGTCGAAATACGCTCGAT-TTGTA
1 AAATTATCGAAATACCCT-TATAGTGTA
* * ** *
78799246 AAATTACCTAAATACCTCCGAT-TTGTA
1 AAATTATCGAAATACC-CTTATAGTGTA
*
78799273 AAATTATCGAAATACTCTTATAGTGTA
1 AAATTATCGAAATACCCTTATAGTGTA
** *
78799300 AAATTATTTAAATACCCTTGTAGTGTA
1 AAATTATCGAAATACCCTTATAGTGTA
78799327 AAAT
1 AAAT
78799331 GACTATCATA
Statistics
Matches: 270, Mismatches: 41, Indels: 42
0.76 0.12 0.12
Matches are distributed among these distances:
25 1 0.00
26 49 0.18
27 194 0.72
28 3 0.01
29 1 0.00
30 1 0.00
33 21 0.08
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (27 bp):
AAATTATCGAAATACCCTTATAGTGTA
Found at i:78799371 original size:27 final size:27
Alignment explanation
Indices: 78799311--78799387 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
78799301 AATTATTTAA
* *
78799311 ATACCCTTGTAGTGTAAAATGACTATC
1 ATACCCTTGTAGGGTAAAATGACTGTC
*
78799338 ATACCCTTGTAGGGTAAAATGACTGTT
1 ATACCCTTGTAGGGTAAAATGACTGTC
* *
78799365 TTGCCCTTG-AGGGT-AAATGACTG
1 ATACCCTTGTAGGGTAAAATGACTG
78799388 ACTGAGACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
25 9 0.20
26 5 0.11
27 31 0.69
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (27 bp):
ATACCCTTGTAGGGTAAAATGACTGTC
Found at i:78800666 original size:15 final size:15
Alignment explanation
Indices: 78800634--78800662 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
78800624 TTTTTTTGTG
78800634 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
78800649 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
78800663 ATTTTCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:78804884 original size:27 final size:28
Alignment explanation
Indices: 78804800--78804897 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
78804790 CATGAGATTG
* * * *
78804800 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
78804829 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
78804857 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
78804884 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
78804898 GAATTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:78804908 original size:27 final size:27
Alignment explanation
Indices: 78804828--78804910 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
78804818 TAAATTGTAC
* *
78804828 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-ATTGAATATAT
* *
78804856 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGAATATAT
*
78804883 AGCACTGAGTGTGCGGAATT-AATATAT
1 AGCACTAAGTGTGC-GAATTGAATATAT
78804910 A
1 A
78804911 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGAATATAT
Found at i:78804911 original size:29 final size:27
Alignment explanation
Indices: 78804800--78804911 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
78804790 CATGAGATTG
** * *
78804800 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GAATT-AATTATATA
* *
78804829 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-ATTAATTATATA
* *
78804857 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTAATTATATA
*
78804884 GCACTGAGTGTGCGGAATTAATATATAT
1 GCACTAAGTGTGC-GAATTAAT-TATAT
78804912 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAATTATATA
Found at i:78811314 original size:15 final size:15
Alignment explanation
Indices: 78811282--78811310 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
78811272 ATTTTTTGTG
78811282 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
78811297 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
78811311 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:78812524 original size:43 final size:42
Alignment explanation
Indices: 78812454--78812610 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 42
78812444 TATGTGTTCT
* * *
78812454 CGTGTAAGACCATGTCAGGAACGTTGGCATCGGTATGTGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGGTAT-TGATTA
* * *
78812497 CGTGTAAAACCATGTCTGGGACATTGGCGTCGTGT-TTG-TTT
1 CGTGTAAGACCATGTCTGGGACATTGGCATCG-GTATTGATTA
* * * * * *
78812538 TGTGTAAGACCCTATCTAGGACAGTGGCATCGATATATGA-TA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGGTAT-TGATTA
* *
78812580 GCATGTAAGACCACGTCTGGGACATTGGCAT
1 -CGTGTAAGACCATGTCTGGGACATTGGCAT
78812611 TGTACGATAT
Statistics
Matches: 87, Mismatches: 22, Indels: 10
0.73 0.18 0.08
Matches are distributed among these distances:
40 1 0.01
41 28 0.32
42 5 0.06
43 51 0.59
44 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGGTATTGATTA
Found at i:78817959 original size:28 final size:28
Alignment explanation
Indices: 78817925--78817981 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
78817915 GCAATCAAAT
78817925 ATGGCACTCAGTGTACGAAATATTGAGA
1 ATGGCACTCAGTGTACGAAATATTGAGA
* ** *
78817953 ATGGCACTTAGTGTGGGAGATATTGAGA
1 ATGGCACTCAGTGTACGAAATATTGAGA
78817981 A
1 A
78817982 AGACACTTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (28 bp):
ATGGCACTCAGTGTACGAAATATTGAGA
Found at i:78818003 original size:28 final size:28
Alignment explanation
Indices: 78817941--78818003 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
78817931 CTCAGTGTAC
* * *
78817941 GAAATATTGAGAATGGCACTTAGTGTGG
1 GAAATATTGAGAAAGACACTTAGTATGG
* *
78817969 GAGATATTGAGAAAGACACTTAGTATGT
1 GAAATATTGAGAAAGACACTTAGTATGG
78817997 GAAATAT
1 GAAATAT
78818004 CGAATGATTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.38, C:0.06, G:0.27, T:0.29
Consensus pattern (28 bp):
GAAATATTGAGAAAGACACTTAGTATGG
Found at i:78821105 original size:45 final size:48
Alignment explanation
Indices: 78820993--78821164 Score: 185
Period size: 50 Copynumber: 3.6 Consensus size: 48
78820983 TTTGTGAGCC
* ** * * *
78820993 AGTGTAAGACCATGTCT-GAGACATGGCATTGGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTAG-GACATGGCATCGGCACGGAGATGTGAGGT
*
78821041 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTAC-GAGATGT-A-TT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGC-ACGGAGATGTGAGGT
*
78821085 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGATATGTGAGAGGT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGAGATGT--GAGGT
*
78821135 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTAGGACATGGCATC
78821165 AGCCTCGATT
Statistics
Matches: 107, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
44 10 0.09
45 17 0.16
46 26 0.24
47 13 0.12
48 10 0.09
49 1 0.01
50 30 0.28
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGAGATGTGAGGT
Found at i:78823180 original size:21 final size:21
Alignment explanation
Indices: 78823155--78823194 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
78823145 TGTTTCATGG
*
78823155 GAAAATTTCCTAAGTTCTCAT
1 GAAAATTTCCAAAGTTCTCAT
*
78823176 GAAAATTTTCAAAGTTCTC
1 GAAAATTTCCAAAGTTCTC
78823195 GATTTAGTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (21 bp):
GAAAATTTCCAAAGTTCTCAT
Found at i:78824897 original size:27 final size:27
Alignment explanation
Indices: 78824867--78825064 Score: 290
Period size: 27 Copynumber: 7.3 Consensus size: 27
78824857 TACTGAAATG
*
78824867 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
78824894 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
78824921 CCCTCGATTTATAAAATTACTATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
78824948 CCCTCAATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
78824975 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
78825002 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
78825029 CCCTC-AGTTTACAAAATTACCATTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
78825056 CCCTCGATT
1 CCCTCGATT
78825065 GTGAAATTAC
Statistics
Matches: 156, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
26 1 0.01
27 154 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:78825126 original size:27 final size:27
Alignment explanation
Indices: 78825096--78825245 Score: 176
Period size: 27 Copynumber: 5.6 Consensus size: 27
78825086 TGTAGGATAG
*
78825096 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
78825123 AATTACCAAAATACCCCTAATTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * * ** *
78825150 AATTATCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
* *
78825177 AATTATCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
**
78825204 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
*
78825231 AATTACAAAAATACC
1 AATTACCAAAATACC
78825246 GTTGACTTTC
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 3 0.03
27 98 0.93
28 4 0.04
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:78825309 original size:27 final size:27
Alignment explanation
Indices: 78825176--78825305 Score: 68
Period size: 27 Copynumber: 4.7 Consensus size: 27
78825166 CTGGTTTGTG
* **
78825176 AAATTA-TCGAAATACCCTCAATTTGTA
1 AAATTACT-GAAATACCCTTAATTTACA
** *
78825203 AAATTACCAAAATACCCCTAATTTACA
1 AAATTACTGAAATACCCTTAATTTACA
** * *
78825230 AAATTACAAAAATACCGTTGACTTT-CTAA
1 AAATTACTGAAATACCCTT-AATTTAC--A
* * **
78825259 AAATTA-TAGAAACACCATTGGTTTACA
1 AAATTACT-GAAATACCCTTAATTTACA
78825286 AAATTACTGAAATACCCTTA
1 AAATTACTGAAATACCCTTA
78825306 GTTTGTAGAT
Statistics
Matches: 77, Mismatches: 19, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
27 53 0.69
28 8 0.10
29 16 0.21
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTTAATTTACA
Found at i:78826270 original size:25 final size:24
Alignment explanation
Indices: 78826236--78826305 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
78826226 AGGAAATGCT
78826236 AAAAGGGCTTTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* * *
78826260 GAAAAGGGCTTTGTCCCAATTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
78826285 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
78826306 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 1 0.03
25 38 0.97
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:78826318 original size:24 final size:23
Alignment explanation
Indices: 78826235--78826332 Score: 79
Period size: 25 Copynumber: 4.0 Consensus size: 23
78826225 GAGGAAATGC
*
78826235 TAAAAGGGCTTTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAG-TTA-T
* * *
78826260 GAAAAGGGCTTTGTCCCAATTTAT
1 TAAAAGGGCTTTG-CCCCAGTTAT
*
78826284 CAGAAAGGGCTTTGCCCCAGTTAT
1 TA-AAAGGGCTTTGCCCCAGTTAT
**
78826308 TAAAAGAGGCTACGCCTCCAGTTAT
1 TAAAAG-GGCTTTGCC-CCAGTTAT
78826333 ATGATAAAGC
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
23 4 0.07
24 17 0.29
25 34 0.58
26 4 0.07
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
TAAAAGGGCTTTGCCCCAGTTAT
Found at i:78826512 original size:42 final size:42
Alignment explanation
Indices: 78826453--78826540 Score: 167
Period size: 42 Copynumber: 2.1 Consensus size: 42
78826443 TAGCCTCTGC
*
78826453 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
78826495 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
78826537 AAAT
1 AAAT
78826541 AGGCCTAAGG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:78826603 original size:31 final size:31
Alignment explanation
Indices: 78826568--78826706 Score: 233
Period size: 31 Copynumber: 4.5 Consensus size: 31
78826558 TGTTTACAGT
78826568 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
78826599 AAAGGCTTTGGCCCAGTGATATGATTTATGT
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
78826630 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
78826661 AAAGGCTTCGACCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
78826692 AAAGGCTTCGGCCCA
1 AAAGGCTTCGGCCCA
78826707 ATACATGTCA
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 99 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:78828985 original size:27 final size:27
Alignment explanation
Indices: 78828955--78829151 Score: 254
Period size: 27 Copynumber: 7.3 Consensus size: 27
78828945 TACTGAAATG
* *
78828955 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
78828982 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
78829009 CCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
78829036 CCCTCAATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
78829063 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
78829090 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
78829117 CCCTC-AGTTTACA-AATTACTGTTTTA
1 CCCTCGA-TTTATAGAATTACCGTTTTA
78829143 CCCTCGATT
1 CCCTCGATT
78829152 GTGAAATTAC
Statistics
Matches: 149, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
26 19 0.13
27 130 0.87
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Done.