Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 199 of 240
Found at i:60602018 original size:21 final size:21
Alignment explanation
Indices: 60601994--60602036 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
60601984 AAGGGAAAGT
*
60601994 GGGAAGAAGT-AAAAGTTTTGA
1 GGGAA-AAGTAAAAAGGTTTGA
60602015 GGGAAAAGTAAAAAGGTTTGA
1 GGGAAAAGTAAAAAGGTTTGA
60602036 G
1 G
60602037 AGTTTGGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.44, C:0.00, G:0.35, T:0.21
Consensus pattern (21 bp):
GGGAAAAGTAAAAAGGTTTGA
Found at i:60602086 original size:9 final size:9
Alignment explanation
Indices: 60602072--60602108 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
60602062 TATAGTTTGA
60602072 TATTCGAAT
1 TATTCGAAT
60602081 TATTCGAAT
1 TATTCGAAT
*
60602090 TATTCGAGT
1 TATTCGAAT
60602099 TATTCGAAT
1 TATTCGAAT
60602108 T
1 T
60602109 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:60607968 original size:22 final size:22
Alignment explanation
Indices: 60607924--60607968 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
60607914 GTAAAAGCTT
* * *
60607924 AACAGAAACTCATAAGGGTTAA
1 AACAGAAACTCAAAAGAGCTAA
*
60607946 AACAGAAGCTCAAAAGAGCTAA
1 AACAGAAACTCAAAAGAGCTAA
60607968 A
1 A
60607969 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.16, G:0.18, T:0.13
Consensus pattern (22 bp):
AACAGAAACTCAAAAGAGCTAA
Found at i:60608006 original size:42 final size:42
Alignment explanation
Indices: 60607861--60608012 Score: 153
Period size: 42 Copynumber: 3.6 Consensus size: 42
60607851 GCGAAGGCTG
* * * *
60607861 AACAGAAGCTCATGAGAGCTAAACAAAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTAAACGAAAACTCATAAGGGTTA
** * * *
60607903 AATGGAAGCTCGTAAAAGCTTAAC-AGAAACTCATAAGGGTTAA
1 AACAGAAGCTCATAAGAGCTAAACGA-AAACTCATAAGGGTT-A
* * *
60607946 AACAGAAGCTCAAAAGAGCTAAACGAAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTAAACGAAAACTCATAAGGGTTA
* *
60607988 AACAGAAGCTCGTGAGAGCTAAACG
1 AACAGAAGCTCATAAGAGCTAAACG
60608013 GAAAGTAAAC
Statistics
Matches: 88, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
41 1 0.01
42 55 0.62
43 31 0.35
44 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACGAAAACTCATAAGGGTTA
Found at i:60609209 original size:32 final size:32
Alignment explanation
Indices: 60609168--60609234 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
60609158 TTATTTTAAA
* *
60609168 ATTCGTCATCTCTTAATCTAGCAGTTTAATAT
1 ATTCATCATCTCCTAATCTAGCAGTTTAATAT
60609200 ATTCATCATCTCCTAATCTAGCAGTTTAATAT
1 ATTCATCATCTCCTAATCTAGCAGTTTAATAT
60609232 ATT
1 ATT
60609235 GAAGGAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.43
Consensus pattern (32 bp):
ATTCATCATCTCCTAATCTAGCAGTTTAATAT
Found at i:60609554 original size:30 final size:30
Alignment explanation
Indices: 60609518--60609575 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
60609508 TAGCAGTATA
*
60609518 GTGTGGGCCTTAGCCCATTACAGTAACAAT
1 GTGTGGGCCTTAGCCCAATACAGTAACAAT
*
60609548 GTGTGGGCCTTAGCCCAATATAGTAACA
1 GTGTGGGCCTTAGCCCAATACAGTAACA
60609576 GTGCAATGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAATACAGTAACAAT
Found at i:60609725 original size:26 final size:26
Alignment explanation
Indices: 60609688--60609759 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 26
60609678 AATATCGCAG
* *
60609688 CAAAGCTGCCAGTAATAGTGATGCAA
1 CAAAGCTGCCAGTAACAGTAATGCAA
* *
60609714 CAATGCTGCCAGTAACAGTAATGCAG
1 CAAAGCTGCCAGTAACAGTAATGCAA
*
60609740 CAAAGCTGTCAGTAACAGTA
1 CAAAGCTGCCAGTAACAGTA
60609760 TGTGTGGCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (26 bp):
CAAAGCTGCCAGTAACAGTAATGCAA
Found at i:60609967 original size:27 final size:27
Alignment explanation
Indices: 60609932--60610185 Score: 318
Period size: 27 Copynumber: 9.4 Consensus size: 27
60609922 AGGGGTATAA
*
60609932 CAGTTATTTTACCCTTT-AGGGGTATTT
1 CAGTCATTTTACCCTTTGA-GGGTATTT
* * *
60609959 CAATCATTTTATCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTT
* * *
60609986 CGGTTATTTTTCCC-TTGAAGGGTATTT
1 CAGTCATTTTACCCTTTG-AGGGTATTT
*
60610013 TAGTCATTTTACCCTTTGAGGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTT
*
60610040 CAGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTT
*
60610067 -AGGTCATTTTACCTTTTGAGGGTATTT
1 CA-GTCATTTTACCCTTTGAGGGTATTT
* * *
60610094 CAGTTATTTTACCCTTCGAAGGTATTT
1 CAGTCATTTTACCCTTTGAGGGTATTT
60610121 C-GATCATTTTACCCTTTGAGGGTATTT
1 CAG-TCATTTTACCCTTTGAGGGTATTT
*
60610148 CAGTCATTTTACCCTTTGAGGGTATCT
1 CAGTCATTTTACCCTTTGAGGGTATTT
60610175 CAGTCATTTTA
1 CAGTCATTTTA
60610186 GGCCCATTAC
Statistics
Matches: 194, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.02
27 184 0.95
28 6 0.03
ACGTcount: A:0.19, C:0.17, G:0.18, T:0.45
Consensus pattern (27 bp):
CAGTCATTTTACCCTTTGAGGGTATTT
Found at i:60613871 original size:23 final size:24
Alignment explanation
Indices: 60613845--60613910 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 24
60613835 TTTATGACAT
60613845 ATTCTGTATAGCCTTTGTGGAG-A
1 ATTCTGTATAGCCTTTGTGGAGAA
* *
60613868 ATTCTGTATAGCCTTTATGGCGAA
1 ATTCTGTATAGCCTTTGTGGAGAA
* *
60613892 ATT-AGTATGGCCTTTGTGG
1 ATTCTGTATAGCCTTTGTGG
60613911 CAAATTTTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 33 0.89
24 4 0.11
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.39
Consensus pattern (24 bp):
ATTCTGTATAGCCTTTGTGGAGAA
Found at i:60613922 original size:23 final size:23
Alignment explanation
Indices: 60613849--60613922 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
60613839 TGACATATTC
*
60613849 TGTATAGCCTTTGTGG-AGAATTC
1 TGTATAGCCTTTGTGGCA-AATTT
*
60613872 TGTATAGCCTTTATGGCGAAA-TT
1 TGTATAGCCTTTGTGGC-AAATTT
* *
60613895 AGTATGGCCTTTGTGGCAAATTT
1 TGTATAGCCTTTGTGGCAAATTT
60613918 TGTAT
1 TGTAT
60613923 TGTCTCATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
22 3 0.07
23 36 0.86
24 2 0.05
25 1 0.02
ACGTcount: A:0.23, C:0.12, G:0.24, T:0.41
Consensus pattern (23 bp):
TGTATAGCCTTTGTGGCAAATTT
Found at i:60621609 original size:26 final size:25
Alignment explanation
Indices: 60621586--60621639 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
60621576 TTGCGATCAT
60621586 TTTTGAACCAA-TATTCTTTCGATCC
1 TTTTGAA-CAATTATTCTTTCGATCC
* *
60621611 TTTTGAATAATTATTCTTTC-ATTC
1 TTTTGAACAATTATTCTTTCGATCC
60621635 TTTTG
1 TTTTG
60621640 GATTTTCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.22, C:0.17, G:0.07, T:0.54
Consensus pattern (25 bp):
TTTTGAACAATTATTCTTTCGATCC
Found at i:60622930 original size:43 final size:43
Alignment explanation
Indices: 60622882--60623075 Score: 128
Period size: 43 Copynumber: 4.6 Consensus size: 43
60622872 CATCTAGTCT
60622882 TATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAAAACCAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAAAACCAATCC
* ** * *
60622925 TATCTCTCTGAAGTTGCAGTGGAGGGGATTA-AAATATCCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAGAAA-AACC-AATCC
* * * * * * * * * *
60622970 TATCTCTCTGAGGTTGCAG-AGAGCGGATCG--CATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAAAACCAATCC
* * * * *
60623010 TATCTCCCTGAAGTTGCAATGGAACAGACAGAAGAA-TAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAAAACCAATCC
* *
60623052 TATCTCCTTGAAGTTACAGTGGAG
1 TATCTCCCTGAAGTTGCAGTGGAG
60623076 TGGATATAAA
Statistics
Matches: 116, Mismatches: 28, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
40 20 0.17
41 9 0.08
42 24 0.21
43 30 0.26
44 11 0.09
45 22 0.19
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAAAACCAATCC
Found at i:60623086 original size:128 final size:129
Alignment explanation
Indices: 60622815--60623086 Score: 417
Period size: 128 Copynumber: 2.1 Consensus size: 129
60622805 TAAGGTTGCG
* *
60622815 GTGGAGTGGATA-AAAATATCCAAATCTTATCTCTCTAAGGTTGCGGAGAGCGGATTGCATCTAG
1 GTGGAGTGGATATAAAATATCCAAATCTTATCTCTCTAAGGTTGCAGAGAGCGGATCGCATCTAG
* * * *
60622879 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAAAACCAATCCTATCTCTCTGAAGTTGCA
66 TCTTATCTCCCTGAAGTTGCAATGGAACAGACAGAAAAACCAATCCTATCTCTCTGAAGTTACA
* *
60622943 GTGGAGGGGAT-TAAAATATCCAAATCTTATCTCTCTGAGGTTGCAGAGAGCGGATCGCATCTAG
1 GTGGAGTGGATATAAAATATCCAAATCTTATCTCTCTAAGGTTGCAGAGAGCGGATCGCATCTAG
* *
60623007 TCTTATCTCCCTGAAGTTGCAATGGAACAGACAGAAGAA-TAATCCTATCTC-CTTGAAGTTACA
66 TCTTATCTCCCTGAAGTTGCAATGGAACAGACAGAAAAACCAATCCTATCTCTC-TGAAGTTACA
60623070 GTGGAGTGGATATAAAA
1 GTGGAGTGGATATAAAA
60623087 ATAGATATTA
Statistics
Matches: 130, Mismatches: 11, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
126 1 0.01
127 30 0.23
128 99 0.76
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (129 bp):
GTGGAGTGGATATAAAATATCCAAATCTTATCTCTCTAAGGTTGCAGAGAGCGGATCGCATCTAG
TCTTATCTCCCTGAAGTTGCAATGGAACAGACAGAAAAACCAATCCTATCTCTCTGAAGTTACA
Found at i:60624709 original size:30 final size:30
Alignment explanation
Indices: 60624675--60624739 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
60624665 CATTTTTATA
60624675 ATATACATACATATTTTTTATAATTTACAT
1 ATATACATACATATTTTTTATAATTTACAT
*
60624705 ATATACATACATATTTTTTATAATTTATAT
1 ATATACATACATATTTTTTATAATTTACAT
60624735 ATATA
1 ATATA
60624740 TAATTTGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.51
Consensus pattern (30 bp):
ATATACATACATATTTTTTATAATTTACAT
Found at i:60629364 original size:25 final size:26
Alignment explanation
Indices: 60629336--60629386 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
60629326 GTTGTAAATC
60629336 AGAAAAATATCTCTAGA-AATTTTCT
1 AGAAAAATATCTCTAGAGAATTTTCT
* * *
60629361 AGAATAATCTCTTTAGAGAATTTTCT
1 AGAAAAATATCTCTAGAGAATTTTCT
60629387 TTCTACACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (26 bp):
AGAAAAATATCTCTAGAGAATTTTCT
Found at i:60650304 original size:9 final size:9
Alignment explanation
Indices: 60650292--60650383 Score: 67
Period size: 9 Copynumber: 9.4 Consensus size: 9
60650282 TTCCTATATA
60650292 TTTTATAATTT
1 TTTTATAA--T
*
60650303 TTTTACAAT
1 TTTTATAAT
60650312 TTTTATAAT
1 TTTTATAAT
60650321 TTTTAATAAAT
1 TTTT-AT-AAT
*
60650332 TTTTAATATT
1 TTTT-ATAAT
*
60650342 TTTTATTAAAA
1 TTTTA-T-AAT
* *
60650353 TTTAATCAT
1 TTTTATAAT
*
60650362 TTTTATAAC
1 TTTTATAAT
60650371 TTTTATAAT
1 TTTTATAAT
60650380 TTTT
1 TTTT
60650384 TTGCCACATG
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
9 33 0.51
10 10 0.15
11 22 0.34
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:60650317 original size:20 final size:19
Alignment explanation
Indices: 60650292--60650385 Score: 82
Period size: 20 Copynumber: 4.8 Consensus size: 19
60650282 TTCCTATATA
60650292 TTTTATAATTTTTTTACAAT
1 TTTTATAATTTTTTTA-AAT
*
60650312 TTTTATAATTTTTAATAAAT
1 TTTTATAATTTTT-TTAAAT
* *
60650332 TTTTAATATTTTTTATTAAAA
1 TTTT-ATAATTTTT-TTAAAT
* * * *
60650353 TTTAATCATTTTTAT-AAC
1 TTTTATAATTTTTTTAAAT
60650371 TTTTATAATTTTTTT
1 TTTTATAATTTTTTT
60650386 GCCACATGTT
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
18 14 0.23
19 1 0.02
20 27 0.45
21 18 0.30
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTTTAAAT
Found at i:60651418 original size:20 final size:19
Alignment explanation
Indices: 60651393--60651430 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
60651383 TATGGGTTGA
*
60651393 TATTTCATACATTAATTTTT
1 TATTTCATA-AATAATTTTT
60651413 TATTTCATAAATAATTTT
1 TATTTCATAAATAATTTT
60651431 AAGAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTTCATAAATAATTTTT
Found at i:60651537 original size:22 final size:22
Alignment explanation
Indices: 60651512--60651556 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
60651502 TTCATCCACA
*
60651512 ATATATTAAAT-ATTATTTTAAT
1 ATATATAAAATAATTA-TTTAAT
60651534 ATATATAAAATAATTATTTAAT
1 ATATATAAAATAATTATTTAAT
60651556 A
1 A
60651557 CAATTGGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATATAAAATAATTATTTAAT
Found at i:60652422 original size:21 final size:22
Alignment explanation
Indices: 60652382--60652423 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
60652372 TGTCAATGTG
60652382 GGATAAAAATTAACTTTTTAAA
1 GGATAAAAATTAACTTTTTAAA
*
60652404 GGATTAAAATTAA-TTTTTAA
1 GGATAAAAATTAACTTTTTAA
60652424 TGCAAAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (22 bp):
GGATAAAAATTAACTTTTTAAA
Found at i:60652824 original size:93 final size:94
Alignment explanation
Indices: 60652723--60652909 Score: 254
Period size: 96 Copynumber: 2.0 Consensus size: 94
60652713 TTTAAGGGAC
** *
60652723 TAAAATTAACTTTTAATGAAAATTTTG-AAGTGAGTTATGGTAGTATTCCCT-A-GTCAATGTGA
1 TAAAATTAACTTTTAATGAAAATAGTGAAAATGAGTTATGGTAGTATT--CTGAGGTCAATGTGA
*
60652785 TATTAAAACTAACTTTTTAATGAAAATAGAT
64 GATTAAAACTAACTTTTTAATGAAAATAGAT
* * *
60652816 TAAAATTAATTTTTAATGAAAATAGTGAATAAATGAGTTATGGTAGTATTCTGAGGTTAATGTGG
1 TAAAATTAACTTTTAATGAAAATAGTG-A-AAATGAGTTATGGTAGTATTCTGAGGTCAATGTGA
60652881 GATTAAAACTAACTTTTTAATGAAAATAG
64 GATTAAAACTAACTTTTTAATGAAAATAG
60652910 TGAATAACTG
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
93 24 0.29
94 2 0.02
95 1 0.01
96 55 0.67
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (94 bp):
TAAAATTAACTTTTAATGAAAATAGTGAAAATGAGTTATGGTAGTATTCTGAGGTCAATGTGAGA
TTAAAACTAACTTTTTAATGAAAATAGAT
Found at i:60652835 original size:27 final size:28
Alignment explanation
Indices: 60652786--60652840 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
60652776 TCAATGTGAT
60652786 ATTAAAACTAACTTTTTAATGAAAATAG
1 ATTAAAACTAACTTTTTAATGAAAATAG
*
60652814 ATTAAAATTAA-TTTTTAATGAAAATAG
1 ATTAAAACTAACTTTTTAATGAAAATAG
60652841 TGAATAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (28 bp):
ATTAAAACTAACTTTTTAATGAAAATAG
Found at i:60654387 original size:28 final size:28
Alignment explanation
Indices: 60654356--60654421 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
60654346 ATAAAAAATA
*
60654356 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTTATTT
60654384 ACCAAAATATTATAAATTTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTTATTT
60654412 ACCAAAATAT
1 ACCAAAATAT
60654422 ACCAAAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (28 bp):
ACCAAAATATTATAAATTTTTTTTATTT
Found at i:60655121 original size:19 final size:19
Alignment explanation
Indices: 60655097--60655155 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
60655087 TCTAATTAAG
*
60655097 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTCATT
* *
60655116 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTCATT
60655134 TAATAACTCTATTTTCATT
1 TAATAACTCTATTTTCATT
60655153 TAA
1 TAA
60655156 AATATAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTCATT
Found at i:60655390 original size:19 final size:19
Alignment explanation
Indices: 60655366--60655431 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
60655356 TTAATTTTTT
60655366 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
60655385 TTAAATGAGAAT--ATTTCA
1 TTAAATTAAAATAGAGTT-A
*
60655403 TTACATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
60655422 TTAAATTAAA
1 TTAAATTAAA
60655432 CTATTTTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 20 0.56
20 3 0.08
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:60655911 original size:28 final size:29
Alignment explanation
Indices: 60655852--60655916 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 29
60655842 GTTTTTTGGT
* *
60655852 ATATTTTGGTAAATAAAATAAAATTTATA
1 ATATTTTGATAAATAAAATAAAAGTTATA
60655881 ATATTTTGATAAATAAAA-AAAAGTTATA
1 ATATTTTGATAAATAAAATAAAAGTTATA
60655909 ATATTTTG
1 ATATTTTG
60655917 GTTATTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 17 0.50
29 17 0.50
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.42
Consensus pattern (29 bp):
ATATTTTGATAAATAAAATAAAAGTTATA
Found at i:60656127 original size:62 final size:61
Alignment explanation
Indices: 60656051--60656173 Score: 237
Period size: 62 Copynumber: 2.0 Consensus size: 61
60656041 AGCAATAAGG
60656051 ATCACAATACCATACTAGATATTAAAATAAATAAGATAACTCGAAATAAAAAAAATAAAAGA
1 ATCACAATACCATACTAGATATTAAAATAAATAAGATAACTCGAAAT-AAAAAAATAAAAGA
60656113 ATCACAATACCATACTAGATATTAAAATAAATAAGATAACTCGAAATAAAAAAATAAAAGA
1 ATCACAATACCATACTAGATATTAAAATAAATAAGATAACTCGAAATAAAAAAATAAAAGA
60656174 TGTTTAATTA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
61 14 0.23
62 47 0.77
ACGTcount: A:0.61, C:0.11, G:0.07, T:0.21
Consensus pattern (61 bp):
ATCACAATACCATACTAGATATTAAAATAAATAAGATAACTCGAAATAAAAAAATAAAAGA
Found at i:60656352 original size:15 final size:16
Alignment explanation
Indices: 60656326--60656369 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
60656316 TTTTAAATAT
*
60656326 GTAAAAAAATAAAGAA
1 GTAAATAAATAAAGAA
*
60656342 GT-AATAAATAAATAA
1 GTAAATAAATAAAGAA
60656357 GTAAATAAATAAA
1 GTAAATAAATAAA
60656370 AAGGTTTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (16 bp):
GTAAATAAATAAAGAA
Found at i:60657918 original size:15 final size:13
Alignment explanation
Indices: 60657888--60657926 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
60657878 ATGATTATTT
60657888 TTTTTTGTTTTTA
1 TTTTTTGTTTTTA
60657901 TTTTTTGTTTATTCA
1 TTTTTTGTTT-TT-A
*
60657916 TTTCTTGTTTT
1 TTTTTTGTTTT
60657927 GGGTCGGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 10 0.43
14 3 0.13
15 10 0.43
ACGTcount: A:0.08, C:0.05, G:0.08, T:0.79
Consensus pattern (13 bp):
TTTTTTGTTTTTA
Found at i:60658172 original size:44 final size:44
Alignment explanation
Indices: 60658108--60658507 Score: 408
Period size: 44 Copynumber: 9.1 Consensus size: 44
60658098 GGTATAGGAA
* * * * * *
60658108 TTGTAGTTTTAATCTACTCCACTACAACTTTAGGGAGATAAGAC
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * *
60658152 TTGTAGCTTCAATCTGCTCCACTGCAACTTTATGGAGATAAGAC
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* *** * * *
60658196 TTGTAGCTTTAATCAATTCCATTGCAACTTCAGAGAGGTAAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * *
60658240 TTGTAGCTTCAATATACTTCACTACAACTTCAGGGAGATAAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * *
60658284 TTGTAGCTTCAATCTGCTCTACTGCAACTTTAGCGAGATAAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * **
60658328 TCGCTATCTTCAATCCACTCCACTGCAACTTCAGGGAGATAAGAT
1 TTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
*
60658373 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * * * * * **
60658417 TTGCAACTTTAATTTGATCCACTGCAACTTTAGGGATATGTGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* *
60658461 TTGTAGCTTC-ATCTTGCTCCATTGCATA-TTCAAGGAGATAAGAT
1 TTGTAGCTTCAATC-TGCTCCACTGCA-ACTTCAGGGAGATAAGAT
60658505 TTG
1 TTG
60658508 CTATATTCAA
Statistics
Matches: 289, Mismatches: 64, Indels: 6
0.81 0.18 0.02
Matches are distributed among these distances:
43 2 0.01
44 249 0.86
45 38 0.13
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (44 bp):
TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
Found at i:60658401 original size:177 final size:175
Alignment explanation
Indices: 60658108--60658521 Score: 449
Period size: 177 Copynumber: 2.3 Consensus size: 175
60658098 GGTATAGGAA
* * * * * **
60658108 TTGTAGTTTTAATCTACTCCACTACAACTTTAGGGAGATAAGACTTG-TAGCTTCAATCTGCTCC
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTTA-GGAGATAAGA-TTGCTATCTTCAATCCACTCC
* * * * * *
60658172 ACTGCAACTTTATGGAGATAAGACTTGTAGCTTTAATCAATTCCATTGCAACTTCAGAGAGGTAA
64 ACTGCAACTTCAGGGAGATAAGACTTGTAGCTTCAATCAACTCCACTGCAACTTCAGAGAGATAA
* * *
60658237 GATTTGTAGCTTCAATAT-ACTTCACTACAACTTCAGGGAGATAAGAT
129 GATTTGCAACTTCAATATGA-TCCACTACAACTTCAGGGAGATAAGAT
*
60658284 TTGTAGCTTCAATCTGCTCTACTGCAACTTTAGCGAGATAAGATTCGCTATCTTCAATCCACTCC
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTTAG-GAGATAAGATT-GCTATCTTCAATCCACTCC
* **
60658349 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAA
64 ACTGCAACTTCAGGGAGATAAGACTTGTAGCTTCAATCAACTCCACTGCAACTTCAGAGAGATAA
* * * * * **
60658414 GATTTGCAACTTTAATTTGATCCACTGCAACTTTAGGGATATGTGAT
129 GATTTGCAACTTCAATATGATCCACTACAACTTCAGGGAGATAAGAT
* * *
60658461 TTGTAGCTTC-ATCTTGCTCCATTGCATA-TTCAAGGAGATAAGATTTGCTATATTCAATCCA
1 TTGTAGCTTCAATC-TGCTCCACTGCA-ACTT-TAGGAGATAAGA-TTGCTATCTTCAATCCA
60658522 ACCCACTATA
Statistics
Matches: 199, Mismatches: 31, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
175 3 0.02
176 40 0.20
177 150 0.75
178 6 0.03
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (175 bp):
TTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGAGATAAGATTGCTATCTTCAATCCACTCCAC
TGCAACTTCAGGGAGATAAGACTTGTAGCTTCAATCAACTCCACTGCAACTTCAGAGAGATAAGA
TTTGCAACTTCAATATGATCCACTACAACTTCAGGGAGATAAGAT
Found at i:60663375 original size:14 final size:14
Alignment explanation
Indices: 60663356--60663391 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
60663346 CAGTCGTCCT
60663356 CTTCTTCTTTCTTA
1 CTTCTTCTTTCTTA
60663370 CTTCTTCTTTCTTA
1 CTTCTTCTTTCTTA
*
60663384 CTGCTTCT
1 CTTCTTCT
60663392 CCAGCTCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.06, C:0.31, G:0.03, T:0.61
Consensus pattern (14 bp):
CTTCTTCTTTCTTA
Found at i:60668094 original size:15 final size:16
Alignment explanation
Indices: 60668068--60668111 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
60668058 TTTTAAATAT
* *
60668068 GTAAAAAAATAAAGAA
1 GTAAATAAATAAACAA
60668084 GT-AATAAATAAACAA
1 GTAAATAAATAAACAA
60668099 GTAAATAAATAAA
1 GTAAATAAATAAA
60668112 AAGGTTTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.18
Consensus pattern (16 bp):
GTAAATAAATAAACAA
Found at i:60676197 original size:33 final size:33
Alignment explanation
Indices: 60676139--60676239 Score: 112
Period size: 33 Copynumber: 3.1 Consensus size: 33
60676129 CCATGGCATC
* * *
60676139 CACAGAACATAGATAGTCTGTTGGGACAATAAA
1 CACAGAATATAGATAGTCTGCTGGGACAGTAAA
* * *
60676172 CACATAATATAGATAATCTGCTGGGATAGTAAA
1 CACAGAATATAGATAGTCTGCTGGGACAGTAAA
* * * *
60676205 CATAGAATAGAGTTAGTCTGCTGAGACAGTAAA
1 CACAGAATATAGATAGTCTGCTGGGACAGTAAA
60676238 CA
1 CA
60676240 TAAAAGAGAA
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.24
Consensus pattern (33 bp):
CACAGAATATAGATAGTCTGCTGGGACAGTAAA
Found at i:60676240 original size:33 final size:33
Alignment explanation
Indices: 60676149--60676268 Score: 111
Period size: 33 Copynumber: 3.7 Consensus size: 33
60676139 CACAGAACAT
* * * * *
60676149 AGATAGTCTGTTGGGACAATAAACACATAATAT
1 AGATAGTCTGCTGGGACAGTAAACATAGAATAG
* *
60676182 AGATAATCTGCTGGGATAGTAAACATAGAATAG
1 AGATAGTCTGCTGGGACAGTAAACATAGAATAG
* *
60676215 AGTTAGTCTGCTGAGACAGTAAACATA-AA-AG
1 AGATAGTCTGCTGGGACAGTAAACATAGAATAG
* *
60676246 AGAAAGT-TCGTTGGGACAGTAAA
1 AGATAGTCT-GCTGGGACAGTAAA
60676269 TATGGGGTAA
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
30 1 0.01
31 19 0.27
32 2 0.03
33 49 0.69
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.24
Consensus pattern (33 bp):
AGATAGTCTGCTGGGACAGTAAACATAGAATAG
Found at i:60678475 original size:3 final size:3
Alignment explanation
Indices: 60678467--60678492 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
60678457 CTCAAGTATC
60678467 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
60678493 TTGCTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:60694735 original size:27 final size:28
Alignment explanation
Indices: 60694673--60694756 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 28
60694663 TTGATATTTT
60694673 TTTAAAATATTTATAATATATTATTTTAATA
1 TTTAAAAT-TTT-T-ATATATTATTTTAATA
*
60694704 TTTAATAA-TTTTATATATT-TTTT-ATT
1 TTTAA-AATTTTTATATATTATTTTAATA
*
60694730 TATTAAAATTTTTATATAGTCATTTTA
1 T-TTAAAATTTTTATATA-TTATTTTA
60694757 GCATTATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
26 5 0.11
27 17 0.38
28 8 0.18
29 5 0.11
30 3 0.07
31 5 0.11
32 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (28 bp):
TTTAAAATTTTTATATATTATTTTAATA
Found at i:60695303 original size:66 final size:66
Alignment explanation
Indices: 60695197--60695361 Score: 215
Period size: 66 Copynumber: 2.5 Consensus size: 66
60695187 AGCAAATTAC
* * * * *
60695197 ACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAG
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTAAGGTTCAATAAAAG-TATGAAGAACTCCAG
*
60695261 CT
65 CA
*
60695263 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTAAGGTTCAATGAAAGTATGAAGAACTCCAGC
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTAAGGTTCAATAAAAGTATGAAGAACTCCAGC
60695328 A
66 A
* * * *
60695329 ATAGCTTAAAGCAGATGCGGCAGCGAGGGAAGC
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGC
60695362 AGAGACTGCA
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
66 83 0.95
67 4 0.05
ACGTcount: A:0.41, C:0.18, G:0.27, T:0.15
Consensus pattern (66 bp):
ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTAAGGTTCAATAAAAGTATGAAGAACTCCAGC
A
Found at i:60695363 original size:21 final size:21
Alignment explanation
Indices: 60695337--60695386 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
60695327 CAATAGCTTA
60695337 AAGCAGATG-CGGCAGCGAGGG
1 AAGCAGA-GACGGCAGCGAGGG
*
60695358 AAGCAGAGACTGCAGCGAGGG
1 AAGCAGAGACGGCAGCGAGGG
60695379 AAGCAGAG
1 AAGCAGAG
60695387 CAGCGTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.34, C:0.18, G:0.44, T:0.04
Consensus pattern (21 bp):
AAGCAGAGACGGCAGCGAGGG
Found at i:60695929 original size:43 final size:42
Alignment explanation
Indices: 60695721--60696010 Score: 273
Period size: 43 Copynumber: 6.8 Consensus size: 42
60695711 GTTTTAAAAA
* * * * **
60695721 AAAAACGCCACTAAAGGTCATGGGCTTTAGCGGCGATTT-TCCC
1 AAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCG-TTTGT-GG
* * *
60695764 ACAAA-CGCCGCTAAAGATCATGCTCTTTA--GGCTTTTATGG
1 A-AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGG
* *
60695804 AAAATGCGCCGCTAAAGATCATGCTCTTTAGCGGCGTTTGTGAT
1 AAAA-GCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTG-G
* * *
60695848 AAAAGCGCCACTAAAGATCATGGTATTTAGCGGTGTTTGTGCG
1 AAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTG-G
* * *
60695891 AAAAGCGCCGCTAAAAATCATGGTATTTAGCAGCGTTTGTGTG
1 AAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTG-G
* * *
60695934 AAAAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCATTTGTTGG
1 AAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTG-TGG
* * *
60695977 GAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGC
1 AAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGC
60696011 ATTTATTTCT
Statistics
Matches: 209, Mismatches: 30, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.01
40 4 0.02
41 28 0.13
43 165 0.79
44 9 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGG
Found at i:60696126 original size:22 final size:22
Alignment explanation
Indices: 60696091--60696133 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
60696081 TTGCGGCGCT
* *
60696091 AAAAAGCGCAGCTAAAGGCCTA
1 AAAAAACGCAGCTAAAAGCCTA
*
60696113 AAAAAACGCCGCTAAAAGCCT
1 AAAAAACGCAGCTAAAAGCCT
60696134 GTTTTGGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.26, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAAACGCAGCTAAAAGCCTA
Found at i:60696414 original size:9 final size:9
Alignment explanation
Indices: 60696400--60696448 Score: 73
Period size: 9 Copynumber: 5.4 Consensus size: 9
60696390 GTTAAACGAA
60696400 TCGAGTTAT
1 TCGAGTTAT
60696409 TCGAGTTAAT
1 TCGAGTT-AT
60696419 T-GAGTTAT
1 TCGAGTTAT
*
60696427 TCGAGTTAA
1 TCGAGTTAT
60696436 TCGAGTTAT
1 TCGAGTTAT
60696445 TCGA
1 TCGA
60696449 ATCAACTCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
8 3 0.08
9 30 0.83
10 3 0.08
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:60696425 original size:18 final size:18
Alignment explanation
Indices: 60696398--60696448 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
60696388 GAGTTAAACG
60696398 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
*
60696416 AATTGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
60696434 AATCGAGTTATTCGA
1 AATCGAGTTATTCGA
60696449 ATCAACTCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:60697564 original size:5 final size:5
Alignment explanation
Indices: 60697554--60697579 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
60697544 CTCGAAAATT
60697554 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
60697580 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:60699035 original size:15 final size:15
Alignment explanation
Indices: 60699001--60699050 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
60698991 ATTTACATAA
60699001 ATTAATA-AAA-TTT
1 ATTAATATAAATTTT
60699014 ATATAATATAAATTTT
1 AT-TAATATAAATTTT
* * *
60699030 ATTAATTTTAATATT
1 ATTAATATAAATTTT
60699045 ATTAAT
1 ATTAAT
60699051 TAAGTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 2 0.06
14 5 0.16
15 19 0.61
16 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTAATATAAATTTT
Found at i:60699208 original size:21 final size:21
Alignment explanation
Indices: 60699178--60699221 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
60699168 TTTATCATTT
60699178 ATTTTCATAT-TGAATAAATAA
1 ATTTTCATATAT-AATAAATAA
* *
60699199 ATTTTTATATATAATATATAA
1 ATTTTCATATATAATAAATAA
60699220 AT
1 AT
60699222 GTAAAATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTTTCATATATAATAAATAA
Found at i:60700265 original size:40 final size:40
Alignment explanation
Indices: 60700216--60700295 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
60700206 TGAACTCATA
*
60700216 TGTATCATGGATGAACTTACTAACTTGTGAGTTTGATGGT
1 TGTACCATGGATGAACTTACTAACTTGTGAGTTTGATGGT
60700256 TGTACCATGGATGAACTTACTAACTTGTGAGTTTGATGGT
1 TGTACCATGGATGAACTTACTAACTTGTGAGTTTGATGGT
60700296 GCTTGTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.39
Consensus pattern (40 bp):
TGTACCATGGATGAACTTACTAACTTGTGAGTTTGATGGT
Found at i:60704830 original size:26 final size:26
Alignment explanation
Indices: 60704801--60704856 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
60704791 TCCTCTCTCC
*
60704801 AGCCATATAATAG-GAAGCTCATAAAA
1 AGCCAT-TAATAGAGAAGCTCACAAAA
* *
60704827 AGCCATTAATCGAGAAGCTCACAAAG
1 AGCCATTAATAGAGAAGCTCACAAAA
60704853 AGCC
1 AGCC
60704857 TATCAGAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.45, C:0.21, G:0.18, T:0.16
Consensus pattern (26 bp):
AGCCATTAATAGAGAAGCTCACAAAA
Found at i:60708035 original size:12 final size:12
Alignment explanation
Indices: 60707991--60708043 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
60707981 AGAGAAATAA
*
60707991 AATTTGAGTGAG
1 AATTTGAGAGAG
* *
60708003 AATTTAAGAGTG
1 AATTTGAGAGAG
60708015 AA-TT-A-AGAG
1 AATTTGAGAGAG
60708024 AATTTGAGAGAG
1 AATTTGAGAGAG
60708036 -ATTTGAGA
1 AATTTGAGA
60708044 ATGTGAAGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
9 5 0.15
10 3 0.09
11 11 0.32
12 15 0.44
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (12 bp):
AATTTGAGAGAG
Found at i:60717414 original size:16 final size:16
Alignment explanation
Indices: 60717393--60717423 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60717383 TCATTGAGTG
60717393 AAAATTAAATAAAATA
1 AAAATTAAATAAAATA
*
60717409 AAAATTAAATTAAAT
1 AAAATTAAATAAAAT
60717424 TTATAATAAA
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATTAAATAAAATA
Found at i:60718411 original size:279 final size:276
Alignment explanation
Indices: 60717888--60718446 Score: 717
Period size: 279 Copynumber: 2.0 Consensus size: 276
60717878 ATATTTATAA
* * *
60717888 ACTGAAATAATAAAAAATGTGTCTATAACAAAAAAAATTTTAAATTACAAACTCCACTAAATCGA
1 ACTGAAATAATAAAAAATGTGTCTATAACAAAAAAAATTTAAAACTACAAACTCCACTAAATCAA
* *
60717953 ATTAATATAATGAAACAATGTTACACCCATGAGTAGCGTCCCCATAAAAACCTTGGGTGGTAGTC
66 ATTAATATAAGGAAACAATGTTACACCCATGAGCAGCGTCCCCATAAAAACCTTGGGTGGTAGTC
* * * * * *
60718018 CTTTAGTAAGCGAATCCGCAATTATGTAGTTTGTTTCAATATATTTTATAGACACTTGATCACTT
131 CTTTAGTAAGCGAATCCGCAATTATGGAATTTGTCTCAATATACTTTATAGACACCTGACCACTT
* * * * *
60718083 TAAACTCTTACTTTAACACTTAGAAATTTAAAGTCCATGTGCATTGACTTTGATGTCCTCTTGTT
196 TAAACTCCTACTTTAACAATTAGAAATTTAAAGTCCATGTGCATTGACTTTCATGTCCTCATATT
* *
60718148 GTTATTGGAATAAAGG
261 ATTATTGGAATAAAAG
**
60718164 ACTGAAATAACT-AAAAATGTGTCTATAACAAAAACTATTTAAAACTAC-AACTCCTACTAAAAT
1 ACTGAAATAA-TAAAAAATGTGTCTATAACAAAAAAAATTTAAAACTACAAACTCC-ACT-AAAT
* ** ** * * *
60718227 CAAATTAGTATCCGGAAATGATGTTACATCCATATGAGCAGTGTTCCCATAAAAACCTTGGGTGG
63 CAAATTAATATAAGGAAACAATGTTACA-CC-CATGAGCAGCGTCCCCATAAAAACCTTGGGTGG
* * *
60718292 TAGTCCTTTAGTAAGTGAATTCGCAATTATGGAATTTGTCTCAGTATACTTTATAGACACCTGAC
126 TAGTCCTTTAGTAAGCGAATCCGCAATTATGGAATTTGTCTCAATATACTTTATAGACACCTGAC
* * * * * * *
60718357 CGCTTTGAACTCCTATTTTAACAATTAGGAATTTAGAGTCTATGTGCCTTGACTTTCATGTCCTC
191 CACTTTAAACTCCTACTTTAACAATTAGAAATTTAAAGTCCATGTGCATTGACTTTCATGTCCTC
60718422 ATATTATTATTGGAATAAAAG
256 ATATTATTATTGGAATAAAAG
60718443 ACTG
1 ACTG
60718447 TCATTTATTG
Statistics
Matches: 240, Mismatches: 38, Indels: 7
0.84 0.13 0.02
Matches are distributed among these distances:
275 6 0.03
276 45 0.19
277 26 0.11
278 2 0.01
279 161 0.67
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (276 bp):
ACTGAAATAATAAAAAATGTGTCTATAACAAAAAAAATTTAAAACTACAAACTCCACTAAATCAA
ATTAATATAAGGAAACAATGTTACACCCATGAGCAGCGTCCCCATAAAAACCTTGGGTGGTAGTC
CTTTAGTAAGCGAATCCGCAATTATGGAATTTGTCTCAATATACTTTATAGACACCTGACCACTT
TAAACTCCTACTTTAACAATTAGAAATTTAAAGTCCATGTGCATTGACTTTCATGTCCTCATATT
ATTATTGGAATAAAAG
Found at i:60721786 original size:62 final size:62
Alignment explanation
Indices: 60721705--60721835 Score: 201
Period size: 62 Copynumber: 2.1 Consensus size: 62
60721695 TTATACTTTC
*
60721705 TTTTGTTTTTATATATTAAGGCTTTCAGTTAAAATAATAATAAAATT-ATTTTCGTTAAAGAG
1 TTTTGTTTTTAGATATTAAGGCTTTCAGTTAAAATAATAATAAAATTGATTTT-GTTAAAGAG
* * *
60721767 TTTTGTTTTTAGATTTTAAGGCTTTTAGTTAAAATAATAATAAAATTGCTTTTGTTAAAGAG
1 TTTTGTTTTTAGATATTAAGGCTTTCAGTTAAAATAATAATAAAATTGATTTTGTTAAAGAG
60721829 TATTTGT
1 T-TTTGT
60721836 CAACTATTTC
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
62 54 0.86
63 9 0.14
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (62 bp):
TTTTGTTTTTAGATATTAAGGCTTTCAGTTAAAATAATAATAAAATTGATTTTGTTAAAGAG
Found at i:60728040 original size:15 final size:15
Alignment explanation
Indices: 60728012--60728053 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
60728002 TATTATTTTT
*
60728012 AATTTAATAT-TTAA
1 AATTTTATATATTAA
* *
60728026 TATTTTATTTATTAA
1 AATTTTATATATTAA
60728041 AATTTTATATATT
1 AATTTTATATATT
60728054 CTCATCTTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATTTTATATATTAA
Found at i:60729649 original size:20 final size:20
Alignment explanation
Indices: 60729615--60729656 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
60729605 AACTATTTAA
** *
60729615 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
60729635 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
60729655 AT
1 AT
60729657 GTATTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:60735595 original size:50 final size:50
Alignment explanation
Indices: 60735520--60735621 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
60735510 AACGTGATGT
60735520 AAGTATTTAGAATACAAGGGTGAGTTTAAAAATAACATATAATAAATAAC
1 AAGTATTTAGAATACAAGGGTGAGTTTAAAAATAACATATAATAAATAAC
60735570 AAGTATTTAGAATACAAGGGTGAGTTTAAAAATAACATATAATAAATAAC
1 AAGTATTTAGAATACAAGGGTGAGTTTAAAAATAACATATAATAAATAAC
60735620 AA
1 AA
60735622 TTCAACGAAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.53, C:0.06, G:0.14, T:0.27
Consensus pattern (50 bp):
AAGTATTTAGAATACAAGGGTGAGTTTAAAAATAACATATAATAAATAAC
Found at i:60736331 original size:52 final size:52
Alignment explanation
Indices: 60736271--60736374 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
60736261 CTAGCCAAAG
60736271 TAAGGGTGTCGCAAGATACCTGACAATCATGTAAAGCATGTAAGACAGATTC
1 TAAGGGTGTCGCAAGATACCTGACAATCATGTAAAGCATGTAAGACAGATTC
60736323 TAAGGGTGTCGCAAGATACCTGACAATCATGTAAAGCATGTAAGACAGATTC
1 TAAGGGTGTCGCAAGATACCTGACAATCATGTAAAGCATGTAAGACAGATTC
60736375 AGTAGGCACC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (52 bp):
TAAGGGTGTCGCAAGATACCTGACAATCATGTAAAGCATGTAAGACAGATTC
Found at i:60747957 original size:156 final size:156
Alignment explanation
Indices: 60747667--60747973 Score: 506
Period size: 156 Copynumber: 2.0 Consensus size: 156
60747657 TATGGCTTCT
*
60747667 ATCACTTGTGAGCTCAAATGGCTGAAGGCCTTACTATTGAGCTTAGATGTTCATCATTCTAAAGC
1 ATCACTTGTAAGCTCAAATGGCTGAAGGCCTTACTATTGAGCTTAGATGTTCATCATTCTAAAGC
60747732 AATTCCTTTATTTTGTGATAGTCAATCTACGCTGCATATTGCACACAATCCCGTATTTCACGAGC
66 AATTCCTTTATTTTGTGATAGTCAATCTACGCTGCATATTGCACACAATCCCGTATTTCACGAGC
60747797 ATACTAAACATATTGAAGTGGCATCC
131 ATACTAAACATATTGAAGTGGCATCC
* * * *
60747823 ATCACTTGTAAGCTCAAGTGGCTGAAGGCCTTGCTGTTGAGCTTAGGTGTTCATCATTCTAAAGC
1 ATCACTTGTAAGCTCAAATGGCTGAAGGCCTTACTATTGAGCTTAGATGTTCATCATTCTAAAGC
* * * * * * *
60747888 AATTCCTTTATTTTGTGATAGTCAATTTGCGTTGCATATTGCACAGAATCCCTTATTTCATGAGT
66 AATTCCTTTATTTTGTGATAGTCAATCTACGCTGCATATTGCACACAATCCCGTATTTCACGAGC
60747953 ATACTAAACATATTGAAGTGG
131 ATACTAAACATATTGAAGTGG
60747974 ATTGTCACTT
Statistics
Matches: 139, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
156 139 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (156 bp):
ATCACTTGTAAGCTCAAATGGCTGAAGGCCTTACTATTGAGCTTAGATGTTCATCATTCTAAAGC
AATTCCTTTATTTTGTGATAGTCAATCTACGCTGCATATTGCACACAATCCCGTATTTCACGAGC
ATACTAAACATATTGAAGTGGCATCC
Found at i:60748339 original size:17 final size:17
Alignment explanation
Indices: 60748317--60748351 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
60748307 TTGGCAATTA
*
60748317 ATAAAATTTTTAAATAT
1 ATAAAATTATTAAATAT
*
60748334 ATAAAATTATTGAATAT
1 ATAAAATTATTAAATAT
60748351 A
1 A
60748352 ATTGAAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
ATAAAATTATTAAATAT
Found at i:60755526 original size:15 final size:15
Alignment explanation
Indices: 60755506--60755536 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60755496 CAATATACTA
*
60755506 ACATACAGGGTTCGC
1 ACATACAGGCTTCGC
60755521 ACATACAGGCTTCGC
1 ACATACAGGCTTCGC
60755536 A
1 A
60755537 TACTAAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (15 bp):
ACATACAGGCTTCGC
Found at i:60755732 original size:22 final size:22
Alignment explanation
Indices: 60755707--60755771 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
60755697 CTACAACAGC
*
60755707 GTTTGCATAACATTTACTAAGG
1 GTTTGCATAACATTCACTAAGG
* *
60755729 GTTTGCATAAGATACACTAAGG
1 GTTTGCATAACATTCACTAAGG
*
60755751 GTTCGCATAACATTCACTAAG
1 GTTTGCATAACATTCACTAAG
60755772 AGTTCACATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (22 bp):
GTTTGCATAACATTCACTAAGG
Found at i:60755776 original size:22 final size:22
Alignment explanation
Indices: 60755711--60755781 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
60755701 AACAGCGTTT
* *
60755711 GCATAACATTTACTAAGGGTTT
1 GCATAACATTCACTAAGGGTTC
* *
60755733 GCATAAGATACACTAAGGGTTC
1 GCATAACATTCACTAAGGGTTC
*
60755755 GCATAACATTCACTAAGAGTTC
1 GCATAACATTCACTAAGGGTTC
*
60755777 ACATA
1 GCATA
60755782 CTAAATCACA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (22 bp):
GCATAACATTCACTAAGGGTTC
Found at i:60755800 original size:24 final size:24
Alignment explanation
Indices: 60755764--60755866 Score: 120
Period size: 24 Copynumber: 4.4 Consensus size: 24
60755754 CGCATAACAT
*
60755764 TCAC-TAAGAGTTCACATACTAAA
1 TCACATAAGGGTTCACATACTAAA
*
60755787 TCACATAAAGGTTCACATACTAAA
1 TCACATAAGGGTTCACATACTAAA
* ** *
60755811 TCATATGGGGGTTCGCATACTAAA
1 TCACATAAGGGTTCACATACTAAA
* *
60755835 TCATATAAGGGTTC-CATACTCAA
1 TCACATAAGGGTTCACATACTAAA
60755858 TCACATAAG
1 TCACATAAG
60755867 TGTTTGCATG
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
23 20 0.29
24 48 0.71
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (24 bp):
TCACATAAGGGTTCACATACTAAA
Found at i:60759238 original size:22 final size:20
Alignment explanation
Indices: 60759207--60759252 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
60759197 TAAAAAATTC
*
60759207 AAAAATATATATAATCTATAAA
1 AAAAACATATA-AAT-TATAAA
60759229 AAAAACATATAAATTATAAA
1 AAAAACATATAAATTATAAA
60759249 AAAA
1 AAAA
60759253 TGATAAACGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.43
21 3 0.13
22 10 0.43
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAACATATAAATTATAAA
Found at i:60759301 original size:11 final size:11
Alignment explanation
Indices: 60759285--60759404 Score: 53
Period size: 11 Copynumber: 11.5 Consensus size: 11
60759275 TAAAATTAAT
60759285 AATATTATAAA
1 AATATTATAAA
*
60759296 AATATTAAAAA
1 AATATTATAAA
* *
60759307 AACACTTGT-AA
1 AATA-TTATAAA
60759318 AA-ATTATAAA
1 AATATTATAAA
* *
60759328 ACT-TTGTAACA
1 AATATTATAA-A
60759339 AATTATT-T-AA
1 AA-TATTATAAA
60759349 AAT-TTACTAAA
1 AATATTA-TAAA
60759360 AATA-TA-AAA
1 AATATTATAAA
* *
60759369 AA-GTTGTAAA
1 AATATTATAAA
*
60759379 TATATT-TAAA
1 AATATTATAAA
*
60759389 AAAATTATAAA
1 AATATTATAAA
60759400 AATAT
1 AATAT
60759405 ATTTAAAATT
Statistics
Matches: 80, Mismatches: 15, Indels: 28
0.65 0.12 0.23
Matches are distributed among these distances:
8 2 0.03
9 10 0.12
10 25 0.31
11 37 0.46
12 4 0.05
13 2 0.03
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.34
Consensus pattern (11 bp):
AATATTATAAA
Found at i:60761314 original size:27 final size:26
Alignment explanation
Indices: 60761242--60761320 Score: 70
Period size: 27 Copynumber: 3.0 Consensus size: 26
60761232 CCATAAATTA
* *
60761242 GAAAATATGTTTGATAAATAAAAATAG
1 GAAAATAT-TTTCAAAAATAAAAATAG
** *
60761269 GAATTTATTTTCAATAATAAAAATAG
1 GAAAATATTTTCAAAAATAAAAATAG
*
60761295 TGAAAATATTCTT-AAAAATACAAATA
1 -GAAAATATT-TTCAAAAATAAAAATA
60761321 AAAAAATTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
26 15 0.37
27 24 0.59
28 2 0.05
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (26 bp):
GAAAATATTTTCAAAAATAAAAATAG
Found at i:60765043 original size:30 final size:29
Alignment explanation
Indices: 60764991--60765048 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
60764981 AAACCTTTTA
60764991 TTTTCCCCAAAATTTTACTCCC-TCCCAC
1 TTTTCCCCAAAATTTTACTCCCTTCCCAC
*
60765019 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCC-AAAA-TTTTACTCCCTTCCCA
60765049 TCTCACCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 8 0.31
29 4 0.15
30 9 0.35
31 5 0.19
ACGTcount: A:0.21, C:0.40, G:0.00, T:0.40
Consensus pattern (29 bp):
TTTTCCCCAAAATTTTACTCCCTTCCCAC
Found at i:60771103 original size:45 final size:45
Alignment explanation
Indices: 60771054--60771140 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
60771044 TAAATTATGC
60771054 TTTTAGTTATTAAATTTTAACTTCTTACAAAATAATTATTAAAAT
1 TTTTAGTTATTAAATTTTAACTTCTTACAAAATAATTATTAAAAT
* *
60771099 TTTTAGTTATTAAATTTTAATTTGTTACAAAATAATTATTAA
1 TTTTAGTTATTAAATTTTAACTTCTTACAAAATAATTATTAA
60771141 CATTGTTGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (45 bp):
TTTTAGTTATTAAATTTTAACTTCTTACAAAATAATTATTAAAAT
Found at i:60772617 original size:105 final size:105
Alignment explanation
Indices: 60772492--60772701 Score: 411
Period size: 105 Copynumber: 2.0 Consensus size: 105
60772482 TCACTATTTA
60772492 ATAGTAGTATTTGTGACACATGATATTTCTGATAAGTCTTGAATGTAGGGCAGTGATTTAATGAC
1 ATAGTAGTATTTGTGACACATGATATTTCTGATAAGTCTTGAATGTAGGGCAGTGATTTAATGAC
60772557 CATTTTGTAATAAATTAAAGTTTAATGATTAAAAAGTAAT
66 CATTTTGTAATAAATTAAAGTTTAATGATTAAAAAGTAAT
*
60772597 ATAGTAGTATTTGTGACACATGATATTTCTGATAAGTCTTGAATGTAGGGTAGTGATTTAATGAC
1 ATAGTAGTATTTGTGACACATGATATTTCTGATAAGTCTTGAATGTAGGGCAGTGATTTAATGAC
60772662 CATTTTGTAATAAATTAAAGTTTAATGATTAAAAAGTAAT
66 CATTTTGTAATAAATTAAAGTTTAATGATTAAAAAGTAAT
60772702 TTAAACTATA
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 104 1.00
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (105 bp):
ATAGTAGTATTTGTGACACATGATATTTCTGATAAGTCTTGAATGTAGGGCAGTGATTTAATGAC
CATTTTGTAATAAATTAAAGTTTAATGATTAAAAAGTAAT
Found at i:60777675 original size:23 final size:23
Alignment explanation
Indices: 60777649--60777694 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
60777639 GCAAAAGAAG
60777649 AAACTGACAAAAAAAATAGAGTT
1 AAACTGACAAAAAAAATAGAGTT
*
60777672 AAACTGACAGAAAAAATAGAGTT
1 AAACTGACAAAAAAAATAGAGTT
60777695 TCTCTTAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.17
Consensus pattern (23 bp):
AAACTGACAAAAAAAATAGAGTT
Found at i:60796890 original size:39 final size:39
Alignment explanation
Indices: 60796840--60796935 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 39
60796830 CATATTCACT
* *
60796840 TTTAAGCATATATCACATTACA-T-ATATAATCACATAACA
1 TTTAAGAATATATCACA--ACACTCATATAATCACACAACA
60796879 TTTAAGAATATATCACAACACTCATATAATCACACAACA
1 TTTAAGAATATATCACAACACTCATATAATCACACAACA
* * * *
60796918 CTCAAGCATATATTACAA
1 TTTAAGAATATATCACAA
60796936 TACTTGTAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
37 3 0.06
38 1 0.02
39 45 0.92
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (39 bp):
TTTAAGAATATATCACAACACTCATATAATCACACAACA
Found at i:60811880 original size:13 final size:12
Alignment explanation
Indices: 60811856--60811896 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
60811846 GTCCGTTAGA
60811856 AGTTAG-TTGTT
1 AGTTAGTTTGTT
60811867 AGTTAGTTTTGTT
1 AGTTAG-TTTGTT
60811880 AAGTTAGTTTGTT
1 -AGTTAGTTTGTT
60811893 AGTT
1 AGTT
60811897 TTGTAACCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 6 0.22
12 4 0.15
13 11 0.41
14 6 0.22
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (12 bp):
AGTTAGTTTGTT
Found at i:60811896 original size:22 final size:21
Alignment explanation
Indices: 60811860--60811900 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
60811850 GTTAGAAGTT
60811860 AGTTGTTAGTTAGTTTTGTTA
1 AGTTGTTAGTTAGTTTTGTTA
*
60811881 AGTTAGTTTGTTAGTTTTGT
1 AGTT-GTTAGTTAGTTTTGT
60811901 AACCGTGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.17, C:0.00, G:0.24, T:0.59
Consensus pattern (21 bp):
AGTTGTTAGTTAGTTTTGTTA
Found at i:60813300 original size:14 final size:14
Alignment explanation
Indices: 60813281--60813307 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60813271 ATTTAGATTT
60813281 AGATCAATTTCAAA
1 AGATCAATTTCAAA
60813295 AGATCAATTTCAA
1 AGATCAATTTCAA
60813308 CAGAGGTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (14 bp):
AGATCAATTTCAAA
Found at i:60813514 original size:4 final size:4
Alignment explanation
Indices: 60813498--60813527 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
60813488 ACAAAACATG
*
60813498 GATA GATA AATA GATA GATA GATA GATA GA
1 GATA GATA GATA GATA GATA GATA GATA GA
60813528 CTCCAAATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.23
Consensus pattern (4 bp):
GATA
Found at i:60814972 original size:31 final size:29
Alignment explanation
Indices: 60814935--60815004 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 29
60814925 TTAGTAAAGG
*
60814935 TAAAATTATATTTTATCCTCCTTAAAA-TTA
1 TAAAATTATATTTAATCCT--TTAAAAGTTA
60814965 TAAAAATT-TAATTTAATCCTTTAAAAGTTA
1 T-AAAATTAT-ATTTAATCCTTTAAAAGTTA
60814995 TAAAATTATA
1 TAAAATTATA
60815005 GATTATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
29 13 0.37
30 7 0.20
31 15 0.43
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.44
Consensus pattern (29 bp):
TAAAATTATATTTAATCCTTTAAAAGTTA
Found at i:60829443 original size:40 final size:40
Alignment explanation
Indices: 60829399--60829482 Score: 168
Period size: 40 Copynumber: 2.1 Consensus size: 40
60829389 GTATCTAGGG
60829399 TTTGCCGCCCTTCACAATTAAAACTAGGCCTATTTGGGTC
1 TTTGCCGCCCTTCACAATTAAAACTAGGCCTATTTGGGTC
60829439 TTTGCCGCCCTTCACAATTAAAACTAGGCCTATTTGGGTC
1 TTTGCCGCCCTTCACAATTAAAACTAGGCCTATTTGGGTC
60829479 TTTG
1 TTTG
60829483 TGTTTTGGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (40 bp):
TTTGCCGCCCTTCACAATTAAAACTAGGCCTATTTGGGTC
Found at i:60831050 original size:31 final size:31
Alignment explanation
Indices: 60831015--60831089 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
60831005 CAACCATGCA
*
60831015 AATTTTTAATTTGGCCACTAAAT-TTTTAGAT
1 AATTTCTAATTTGGCCACT-AATGTTTTAGAT
* * *
60831046 AATTTCTATTTTGGTCACTTATGTTTTAGAT
1 AATTTCTAATTTGGCCACTAATGTTTTAGAT
*
60831077 CATTTCT-ATTTGG
1 AATTTCTAATTTGG
60831090 GTCACTCTCC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 7 0.19
31 30 0.81
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.52
Consensus pattern (31 bp):
AATTTCTAATTTGGCCACTAATGTTTTAGAT
Found at i:60832521 original size:31 final size:31
Alignment explanation
Indices: 60832481--60832542 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
60832471 AAAGAGTGAT
* *
60832481 CAAAATAGAAATGATCTAAAATGTGAGTGGC
1 CAAAATAGAAATAATCTAAAACGTGAGTGGC
* *
60832512 CAAAGTAGAAATAATCTAAAACGTTAGTGGC
1 CAAAATAGAAATAATCTAAAACGTGAGTGGC
60832543 TAAATTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (31 bp):
CAAAATAGAAATAATCTAAAACGTGAGTGGC
Found at i:60833392 original size:15 final size:15
Alignment explanation
Indices: 60833344--60833386 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
60833334 TTTAAAATTA
60833344 TTTATATTATTTATAT
1 TTTATA-TATTTATAT
60833360 TTTA-ATATTTAATAAT
1 TTTATATATTT-AT-AT
60833376 TTTATATATTT
1 TTTATATATTT
60833387 TCATTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.21
15 3 0.12
16 10 0.42
17 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTATATATTTATAT
Found at i:60833405 original size:25 final size:25
Alignment explanation
Indices: 60833342--60833406 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 25
60833332 TTTTTAAAAT
*
60833342 TATTT-ATATTATT-TATATTTTAA
1 TATTTAATAATATTATATATTTTAA
* *
60833365 TATTTAATAATTTTATATATTTTCA
1 TATTTAATAATATTATATATTTTAA
*
60833390 TTTATTAA-AATATTATA
1 TAT-TTAATAATATTATA
60833407 CTTAAACAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 5 0.15
24 6 0.18
25 19 0.56
26 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (25 bp):
TATTTAATAATATTATATATTTTAA
Found at i:60834462 original size:39 final size:40
Alignment explanation
Indices: 60834396--60834504 Score: 130
Period size: 39 Copynumber: 2.8 Consensus size: 40
60834386 GTTTGGACAT
** *
60834396 AAAACGCCGCTAAAAATTGAGCATTAGCGGCGGTCTTAGA
1 AAAACGCCGCTAAAAATAAAGCATTAGCGGCGCTCTTAGA
* **
60834436 AAAACGCCGCT-AAAATAAAGCATTAGCGGCGCTTTTTTA
1 AAAACGCCGCTAAAAATAAAGCATTAGCGGCGCTCTTAGA
* * *
60834475 AAAACGCTGTTAAAAATATAGCATTAGCGG
1 AAAACGCCGCTAAAAATAAAGCATTAGCGG
60834505 TGTTTTCCAG
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.53
40 28 0.47
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATAAAGCATTAGCGGCGCTCTTAGA
Found at i:60834642 original size:40 final size:40
Alignment explanation
Indices: 60834598--60834673 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
60834588 TGCTCGGGGC
* * *
60834598 TTTAGTGGCGTTTTTAAAAAAGCGTCACTAATGCTCTTTT
1 TTTAGCGGCGTTTTCAAAAAAGCGCCACTAATGCTCTTTT
* * *
60834638 TTTAGCGGTGTTTTCCAATAAGCGCCACTAATGCTC
1 TTTAGCGGCGTTTTCAAAAAAGCGCCACTAATGCTC
60834674 AGTGGCTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (40 bp):
TTTAGCGGCGTTTTCAAAAAAGCGCCACTAATGCTCTTTT
Found at i:60835087 original size:14 final size:14
Alignment explanation
Indices: 60835056--60835104 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
60835046 TATCACTATA
* *
60835056 GTTTAGGGTTTTTA
1 GTTTAGGGTTTATG
*
60835070 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* *
60835084 GTTTAGAGTTTAAG
1 GTTTAGGGTTTATG
60835098 GTTTAGG
1 GTTTAGG
60835105 TGTTACCATT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:60835154 original size:7 final size:7
Alignment explanation
Indices: 60835114--60835245 Score: 58
Period size: 7 Copynumber: 18.6 Consensus size: 7
60835104 GTGTTACCAT
*
60835114 TTTAAGG
1 TTTATGG
60835121 TTTATGG
1 TTTATGG
*
60835128 ATTATGG
1 TTTATGG
60835135 ATTTATGAG
1 -TTTATG-G
60835144 -TTATGG
1 TTTATGG
*
60835150 TTTATGA
1 TTTATGG
60835157 TTTATGG
1 TTTATGG
*
60835164 TTTAAAGG
1 TTT-ATGG
* *
60835172 -CTGTGG
1 TTTATGG
*
60835178 TTTAAGG
1 TTTATGG
60835185 TTTA-GAG
1 TTTATG-G
*
60835192 GTTAT-G
1 TTTATGG
*
60835198 TGTTAAGG
1 T-TTATGG
*
60835206 ATCTATGG
1 -TTTATGG
60835214 TTTTATGG
1 -TTTATGG
60835222 TTTA-GG
1 TTTATGG
*
60835228 TTTATAG
1 TTTATGG
*
60835235 TTTAGGG
1 TTTATGG
60835242 TTTA
1 TTTA
60835246 GATTAACTAG
Statistics
Matches: 92, Mismatches: 22, Indels: 22
0.68 0.16 0.16
Matches are distributed among these distances:
6 11 0.12
7 60 0.65
8 19 0.21
9 2 0.02
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.48
Consensus pattern (7 bp):
TTTATGG
Found at i:60835155 original size:14 final size:14
Alignment explanation
Indices: 60835119--60835167 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
60835109 ACCATTTTAA
60835119 GGTTTATG-GATTAT
1 GGTTTATGAG-TTAT
60835133 GGATTTATGAGTTAT
1 GG-TTTATGAGTTAT
*
60835148 GGTTTATGATTTAT
1 GGTTTATGAGTTAT
60835162 GGTTTA
1 GGTTTA
60835168 AAGGCTGTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 19 0.59
15 12 0.38
16 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (14 bp):
GGTTTATGAGTTAT
Found at i:60835318 original size:14 final size:14
Alignment explanation
Indices: 60835301--60835420 Score: 52
Period size: 14 Copynumber: 8.5 Consensus size: 14
60835291 TTATAGTTTT
60835301 GGGTTTATGATTTA
1 GGGTTTATGATTTA
*
60835315 GGGTATAT-AGTTTA
1 GGGTTTATGA-TTTA
* *
60835329 GGGTTTAAGGTTTA
1 GGGTTTATGATTTA
60835343 GGAG-TTACT-ATATTA
1 GG-GTTTA-TGAT-TTA
*
60835358 AGG-TTATGGA-TTA
1 GGGTTTAT-GATTTA
* * *
60835371 TGGATTATGGGTTTA
1 GGGTTTAT-GATTTA
*
60835386 GGGATTATGATTTA
1 GGGTTTATGATTTA
* *
60835400 TGGTTTATGGTTTA
1 GGGTTTATGATTTA
*
60835414 AGGTTTA
1 GGGTTTA
60835421 GGGGTTAAGG
Statistics
Matches: 82, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
13 7 0.09
14 59 0.72
15 16 0.20
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.45
Consensus pattern (14 bp):
GGGTTTATGATTTA
Found at i:60835390 original size:22 final size:21
Alignment explanation
Indices: 60835365--60835406 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
60835355 TTAAGGTTAT
60835365 GGATTATGGA-TTATGGGTTTAG
1 GGATTAT-GATTTAT-GGTTTAG
60835387 GGATTATGATTTATGGTTTA
1 GGATTATGATTTATGGTTTA
60835407 TGGTTTAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (21 bp):
GGATTATGATTTATGGTTTAG
Found at i:60835410 original size:7 final size:7
Alignment explanation
Indices: 60835361--60835420 Score: 57
Period size: 7 Copynumber: 8.4 Consensus size: 7
60835351 TATATTAAGG
*
60835361 TTATGGA
1 TTATGGT
*
60835368 TTATGGA
1 TTATGGT
60835375 TTATGGGT
1 TTAT-GGT
* *
60835383 TTAGGGA
1 TTATGGT
*
60835390 TTATGAT
1 TTATGGT
60835397 TTATGGT
1 TTATGGT
60835404 TTATGGT
1 TTATGGT
*
60835411 TTAAGGT
1 TTATGGT
60835418 TTA
1 TTA
60835421 GGGGTTAAGG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 39 0.89
8 5 0.11
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.48
Consensus pattern (7 bp):
TTATGGT
Found at i:60835439 original size:6 final size:6
Alignment explanation
Indices: 60835428--60835479 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
60835418 TTAGGGGTTA
60835428 AGGGCT AGGGCT AGGGCT AGGGCT AGGGCT AGGGCT AGGGCT AGGGCT
1 AGGGCT AGGGCT AGGGCT AGGGCT AGGGCT AGGGCT AGGGCT AGGGCT
60835476 AGGG
1 AGGG
60835480 GTTTAGGGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.17, C:0.15, G:0.52, T:0.15
Consensus pattern (6 bp):
AGGGCT
Found at i:60837525 original size:17 final size:17
Alignment explanation
Indices: 60837500--60837538 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
60837490 TAATTGCTCT
*
60837500 TATATATATTTTTTATA
1 TATACATATTTTTTATA
60837517 TATACATATTTTTTATA
1 TATACATATTTTTTATA
60837534 TATAC
1 TATAC
60837539 TTACGTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (17 bp):
TATACATATTTTTTATA
Found at i:60838245 original size:18 final size:18
Alignment explanation
Indices: 60838222--60838264 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
60838212 CGTGAATATC
60838222 ATATTTTAAAAAAAGGAA
1 ATATTTTAAAAAAAGGAA
* * *
60838240 ATATTTCAAAATAAGGCA
1 ATATTTTAAAAAAAGGAA
60838258 ATATTTT
1 ATATTTT
60838265 GCGTTTGGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (18 bp):
ATATTTTAAAAAAAGGAA
Found at i:60838524 original size:108 final size:109
Alignment explanation
Indices: 60838243--60838639 Score: 658
Period size: 109 Copynumber: 3.7 Consensus size: 109
60838233 AAAGGAAATA
* *
60838243 TTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTTGAGGAACGTCCCCTAAGGTACTGGGTTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
60838307 CGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTAAAAACT
66 CGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTAAAAACT
* *
60838351 TTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGGAACGTGCCCTAAGGTACTGGGTTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
* *
60838416 CGATTTCTCATTCGACCAAAT-GATTTAATATCCTTTTCAAAAA-T
66 CGATTTCTCATTCGACCAAATAG-CTAAATATCCTTTT-AAAAACT
60838460 TTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
*
60838524 CGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACT
66 CGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTAAAAACT
* * *
60838568 TTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTGCTGGGTTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
60838633 CGATTTC
66 CGATTTC
60838640 ACGGTTAACC
Statistics
Matches: 271, Mismatches: 12, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
107 5 0.02
108 100 0.37
109 161 0.59
110 5 0.02
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (109 bp):
TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
CGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTAAAAACT
Found at i:60838618 original size:217 final size:218
Alignment explanation
Indices: 60838238--60838639 Score: 743
Period size: 217 Copynumber: 1.8 Consensus size: 218
60838228 TAAAAAAAGG
*
60838238 AAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTTGAGGAACGTCCCCTAAGGTACTGG
1 AAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTCCCCTAAGGTACTGG
60838303 GTTTCGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAA
66 GTTTCGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAA
* *
60838368 TGTTTTGCGTTTGGAAATTTGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCATTCGACC
131 TGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCATTCGACC
60838433 AAATGATTTAATATCCTTTTCAA
196 AAATGATTTAATATCCTTTTCAA
*
60838456 AAAT-TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
1 AAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTCCCCTAAGGTACTGG
*
60838520 GTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAA
66 GTTTCGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAA
*
60838585 TGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTGCTGGGTTTCGATTTC
131 TGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTC
60838640 ACGGTTAACC
Statistics
Matches: 178, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
217 174 0.98
218 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (218 bp):
AAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTCCCCTAAGGTACTGG
GTTTCGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAA
TGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCATTCGACC
AAATGATTTAATATCCTTTTCAA
Found at i:60842368 original size:7 final size:7
Alignment explanation
Indices: 60842351--60842398 Score: 64
Period size: 7 Copynumber: 7.1 Consensus size: 7
60842341 CAAAAATAGG
60842351 AGAAA-A
1 AGAAAGA
60842357 AGAAAGA
1 AGAAAGA
*
60842364 AGAAAAA
1 AGAAAGA
60842371 AGAAAGA
1 AGAAAGA
60842378 AGAAAGA
1 AGAAAGA
60842385 AGAAA-A
1 AGAAAGA
*
60842391 AAAAAGA
1 AGAAAGA
60842398 A
1 A
60842399 AGAGAAAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
6 10 0.27
7 27 0.73
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (7 bp):
AGAAAGA
Found at i:60842372 original size:14 final size:14
Alignment explanation
Indices: 60842353--60842407 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
60842343 AAAATAGGAG
60842353 AAAAAGAAAGAAGA
1 AAAAAGAAAGAAGA
60842367 AAAAAGAAAGAAG-
1 AAAAAGAAAGAAGA
*
60842380 --AAAG-AAGAAAA
1 AAAAAGAAAGAAGA
60842391 AAAAAGAAAG-AGA
1 AAAAAGAAAGAAGA
60842404 AAAA
1 AAAA
60842408 GGAGAGGTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 5 0.14
11 4 0.11
13 10 0.29
14 16 0.46
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAGAAGA
Found at i:60842393 original size:24 final size:25
Alignment explanation
Indices: 60842351--60842405 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
60842341 CAAAAATAGG
*
60842351 AGAA-AAAGAAAGAAGAAAAAAGAA
1 AGAAGAAAGAAAGAAAAAAAAAGAA
60842375 AGAAGAAAG-AAGAAAAAAAAAGAA
1 AGAAGAAAGAAAGAAAAAAAAAGAA
60842399 AG-AGAAA
1 AGAAGAAA
60842406 AAGGAGAGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 5 0.17
24 20 0.69
25 4 0.14
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (25 bp):
AGAAGAAAGAAAGAAAAAAAAAGAA
Found at i:60842401 original size:21 final size:22
Alignment explanation
Indices: 60842355--60842401 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
60842345 AATAGGAGAA
60842355 AAAGAAAGAAGAAAAAAGAAAG
1 AAAGAAAGAAGAAAAAAGAAAG
60842377 -AAGAAAGAAGAAAAAA-AAAG
1 AAAGAAAGAAGAAAAAAGAAAG
60842397 AAAGA
1 AAAGA
60842402 GAAAAAGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (22 bp):
AAAGAAAGAAGAAAAAAGAAAG
Found at i:60844922 original size:85 final size:85
Alignment explanation
Indices: 60844666--60845698 Score: 693
Period size: 85 Copynumber: 12.0 Consensus size: 85
60844656 GTTGCAATGA
* * *** *
60844666 AGCGGATTAAAATAAATGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTA
1 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCTTA
* *
60844731 TTTCCCTGAGATTATAGTGG
66 TCTCCCTGAGATTACAGTGG
* * ** ** * ** * * *
60844751 AACAGACCGAAGAATTTCA-GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGTT-AG
1 AGCGGA-TTAA-AA-TAAAGGATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATCG--TTTCAG
*
60844813 TAATCCTATCTCCCTGAGATTACAGTGG
60 --ATCTTATCTCCCTGAGATTACAGTGG
*
60844841 AGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCTTA
1 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCTTA
*
60844906 TCTCCCCGAGATTACAGTGG
66 TCTCCCTGAGATTACAGTGG
* * * * *
60844926 AGTGGATTAAAATAAAGGATCATATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAGGTCTTA
1 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCTTA
*
60844991 TCTCCCTGAGATTACAGCGG
66 TCTCCCTGAGATTACAGTGG
* * * * * * * * * *** **
60845011 AGCAGATTGAAGT-TAGTAATCCTATCTCCCTG-AGATTACAGTGGAGTGGATTAAAATAAAGGA
1 AGCGGATTAAAATAAAG-GATCTTATCTCTCTGAAG-TTACAGTAGAGTAGA-T-CGTTTCA-GA
* * *
60845074 TCTTATCTCTCTGA-AGTTAGAGTAG
61 TCTTATCTCCCTGAGA-TTACAGTGG
** *** * * * ** * * *
60845099 AGAAGA-TCGTAT-CAGG-TTTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGTT-AGTAA
1 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATCG--TTTCAG--A
*
60845159 TCCTATCTCCCTGAGATTACAGTGG
61 TCTTATCTCCCTGAGATTACAGTGG
60845184 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCTTA
1 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCTTA
60845249 TCTCCCTGAGATTACAGTGG
66 TCTCCCTGAGATTACAGTGG
* * * *
60845269 AGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAGGTCTTA
1 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCTTA
60845334 TCTCCCTGAGATTACAGTGG
66 TCTCCCTGAGATTACAGTGG
* *
60845354 AGCGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGTGTT-AGATCTT
1 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGT-TTCAGATCTT
*
60845418 ATCTCCCTGAGATTACAGCGG
65 ATCTCCCTGAGATTACAGTGG
* * * * * * * * * * *** **
60845439 AGCAGATTGAAGT-TAGTAATCCTATCTCCCTG-AGATTATAGTGGAGTATATTAAAATAAAGGA
1 AGCGGATTAAAATAAAG-GATCTTATCTCTCTGAAG-TTACAGTAGAGTAGA-T-CGTTTCA-GA
* *
60845502 TCTTATCTCTCTGA-AGTTACAGTAG
61 TCTTATCTCCCTGAGA-TTACAGTGG
** * * * ** * ***
60845527 AGAAGA-TCATAT-CAGG-TCTTATCTC-CTTG-AGATTACAGCGGAGTAGATTGAAACTAGTAA
1 AGCGGATTAAAATAAAGGATCTTATCTCTC-TGAAG-TTACAGTAGAGTAGATCGTTTC-AG--A
* * *
60845587 TCCTATCGCCCTAAGATTACAGTGG
61 TCTTATCTCCCTGAGATTACAGTGG
* * * ** * *
60845612 AGCGGATTAAAACAAATGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCATCAGGTTTTA
1 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCTTA
*
60845677 CCTCCCTGAGATTACAGTGG
66 TCTCCCTGAGATTACAGTGG
60845697 AG
1 AG
60845699 TACATTGAAG
Statistics
Matches: 739, Mismatches: 164, Indels: 90
0.74 0.17 0.09
Matches are distributed among these distances:
83 4 0.01
84 12 0.02
85 476 0.64
86 20 0.03
87 55 0.07
88 139 0.19
89 8 0.01
90 25 0.03
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (85 bp):
AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCTTA
TCTCCCTGAGATTACAGTGG
Found at i:60844922 original size:129 final size:128
Alignment explanation
Indices: 60844765--60845707 Score: 589
Period size: 129 Copynumber: 7.3 Consensus size: 128
60844755 GACCGAAGAA
* * * *
60844765 TTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGA
1 TTTCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAATAAG-AATCCTATCTCCCTGA
*
60844830 GATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
65 GATTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
* * * * * *
60844894 TTTCAGATCTTATCTCCCCGAGATTACAGTGGAGTGGATTAAAATAAAGGATCATATCTCTCTGA
1 TTTCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAAT-AAGAATCCTATCTCCCTGA
* * *** * * ** * *
60844959 -AGTTACAGTAGAGAAGA-TCGTAT-CAGG-TCTTATCTCCCTG-AGATTACAGCGGAGCAGATT
65 GA-TTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATC
60845019 G
128 G
* * * * * * *
60845020 AAGTT-AGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCT
1 --TTTCAG--ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAAT-AAGAATCCTATCTCC
* * * *** * * * ** *
60845084 CTGA-AGTTAGAGTAGAGAAGA-TCGTAT-CAGG-TTTTATCTCCCTG-AGATTACAGCGGAGCA
61 CTGAGA-TTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAG-TTACAGTAGAGTA
*
60845144 GATTG
124 GATCG
* * ** * * * *
60845149 AAGTT-AGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCT
1 --TTTCAG--ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAAT-AAGAATCCTATCTCC
* *** ** * * *
60845213 CTGA-AGTTACAGTAGAGTAGA-T-CGTTTCA-GATCTTATCTCCCTG-AGATTACAGTGGAGTG
61 CTGAGA-TTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAG-TTACAGTAGAGTA
**
60845273 GATTAAA
124 GA-T-CG
* ** * * * * * * * *
60845280 ATAAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGAAGATCG-TATCAG-GTCTTATCTCCCTG
1 TTTCA-GATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAATAAGAATCCTATCTCCCTG
** * *
60845342 AGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCG
64 AGATTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
* * * *
60845407 TGTT-AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTG
1 T-TTCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAATAAG-AATCCTATCTCCCTG
* * * *
60845471 AGATTATAGTGGAGTATATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCA
64 AGATTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
* * * * * *
60845536 TATCAGGTCTTATCTCCTTGAGATTACAGCGGAGTAGATTGAAACT-AGTAATCCTATCGCCCTA
1 TTTCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAA-TAAG-AATCCTATCTCCCTG
** * * *
60845600 AGATTACAGTGGAGCGGATTAAAACAAATGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCG
64 AGATTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
** * * * *
60845665 CATCAGGTTTTACCTCCCTGAGATTACAGTGGAGTACATTGAA
1 TTTCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAA
60845708 GCCAATAATT
Statistics
Matches: 679, Mismatches: 109, Indels: 52
0.81 0.13 0.06
Matches are distributed among these distances:
125 2 0.00
126 80 0.12
127 14 0.02
128 16 0.02
129 559 0.82
130 7 0.01
131 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (128 bp):
TTTCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAATAAGAATCCTATCTCCCTGAG
ATTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
Found at i:60845181 original size:214 final size:215
Alignment explanation
Indices: 60844767--60845609 Score: 1096
Period size: 214 Copynumber: 3.9 Consensus size: 215
60844757 CCGAAGAATT
60844767 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
* *
60844832 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTT
66 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTAT
* * * ** * * * * *
60844897 CAGATCTTATCTCCCCGAGATTACAGTGGAGTGGATTAAAATAAAG-GATCATATCTCTCTGA-A
131 CAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAT-TAGTAATCCTATCTCCCTGAGA
60844960 GTTACAGTAGAGAAGATCGTA
195 GTTACAGTAGAGAAGATCGTA
*
60844981 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
*
60845046 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAGAGTAGAGAAGATCGTAT
66 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTAT
* *
60845111 CAGGTTTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA-
131 CAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAATTAGTAATCCTATCTCCCTGAGAG
* ** ***
60845175 TTACAGTGGAGCGGATTAAAA
196 TTACAGTAGAGAAGA-TCGTA
* * ** * * * *
60845196 TAAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG--TTTCAG--ATCTTATCTCCCT
1 T-CA-GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGTT-AGTAATCCTATCTCCCT
60845256 GAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATC
62 GAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATC
* * * ** * *
60845321 GTATCAGGTCTTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAAGATCTTATCTCTCT
127 GTATCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAATTAGTA-ATCCTATCTCCCT
* * *
60845385 -AAAGTTACAGTAGAGTAGATCGTG
191 GAGAGTTACAGTAGAGAAGATCGTA
*
60845409 TTAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
* ** *
60845474 TTATAGTGGAGTATATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCATAT
66 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTAT
* * * * *
60845539 CAGGTCTTATCTCCTTGAGATTACAGCGGAGTAGATTGAAACTAGTAATCCTATCGCCCTAAGA-
131 CAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAATTAGTAATCCTATCTCCCTGAGAG
60845603 TTACAGT
196 TTACAGT
60845610 GGAGCGGATT
Statistics
Matches: 541, Mismatches: 72, Indels: 32
0.84 0.11 0.05
Matches are distributed among these distances:
211 29 0.05
212 4 0.01
213 13 0.02
214 449 0.83
215 14 0.03
216 4 0.01
217 28 0.05
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (215 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTAT
CAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAATTAGTAATCCTATCTCCCTGAGAG
TTACAGTAGAGAAGATCGTA
Found at i:60845616 original size:428 final size:428
Alignment explanation
Indices: 60844819--60845699 Score: 1474
Period size: 428 Copynumber: 2.1 Consensus size: 428
60844809 TTAGTAATCC
60844819 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* * * *
60844884 GAGTAGATCGTTTCAGATCTTATCTCCCCGAGATTACAGTGGAGTGGATTAAAATAAAGGATCAT
66 GAGAAGATCGTATCAGATCTTATCTCCCCGAGATTACAGTGGAGCGGATTAAAATAAAAGATCAT
* *
60844949 ATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAGGTCTTATCTCCCTGAGATTACAGCGGAGC
131 ATCTCTCTAAAGTTACAGTAGAGAAGATCGTATCAGATCTTATCTCCCTGAGATTACAGCGGAGC
*
60845014 AGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTA
196 AGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGGATCTTA
* * *
60845079 TCTCTCTGAAGTTAGAGTAGAGAAGATCGTATCAGGTTTTATCTCCCTGAGATTACAGCGGAGCA
261 TCTCTCTGAAGTTACAGTAGAGAAGATCATATCAGGTCTTATCTCCCTGAGATTACAGCGGAGCA
** * * *
60845144 GATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTAT
326 GATTGAAACTAGTAATCCTATCGCCCTAAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTAT
**
60845209 CTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCT
391 CTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATCT
60845247 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* * *
60845312 GAGAAGATCGTATCAGGTCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTT
66 GAGAAGATCGTATCAGATCTTATCTCCCCGAGATTACAGTGGAGCGGATTAAAATAAAAGATCAT
* * *
60845377 ATCTCTCTAAAGTTACAGTAGAGTAGATCGTGTTAGATCTTATCTCCCTGAGATTACAGCGGAGC
131 ATCTCTCTAAAGTTACAGTAGAGAAGATCGTATCAGATCTTATCTCCCTGAGATTACAGCGGAGC
* *
60845442 AGATTGAAGTTAGTAATCCTATCTCCCTGAGATTATAGTGGAGTATATTAAAATAAAGGATCTTA
196 AGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGGATCTTA
* *
60845507 TCTCTCTGAAGTTACAGTAGAGAAGATCATATCAGGTCTTATCTCCTTGAGATTACAGCGGAGTA
261 TCTCTCTGAAGTTACAGTAGAGAAGATCATATCAGGTCTTATCTCCCTGAGATTACAGCGGAGCA
*
60845572 GATTGAAACTAGTAATCCTATCGCCCTAAGATTACAGTGGAGCGGATTAAAACAAATGATCTTAT
326 GATTGAAACTAGTAATCCTATCGCCCTAAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTAT
* * *
60845637 CTCTTTGAAGTTACAGTAGAGTAGATCGCATCAGGTTT
391 CTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATCT
*
60845675 TACCTCCCTGAGATTACAGTGGAGT
1 TATCTCCCTGAGATTACAGTGGAGT
60845700 ACATTGAAGC
Statistics
Matches: 421, Mismatches: 32, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
428 421 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (428 bp):
TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
GAGAAGATCGTATCAGATCTTATCTCCCCGAGATTACAGTGGAGCGGATTAAAATAAAAGATCAT
ATCTCTCTAAAGTTACAGTAGAGAAGATCGTATCAGATCTTATCTCCCTGAGATTACAGCGGAGC
AGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGGATCTTA
TCTCTCTGAAGTTACAGTAGAGAAGATCATATCAGGTCTTATCTCCCTGAGATTACAGCGGAGCA
GATTGAAACTAGTAATCCTATCGCCCTAAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTAT
CTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATCT
Found at i:60845684 original size:214 final size:214
Alignment explanation
Indices: 60844819--60845928 Score: 956
Period size: 214 Copynumber: 5.1 Consensus size: 214
60844809 TTAGTAATCC
*
60844819 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* * * * * * ** * *
60844884 GAGTAGATCGTTTCAGATCTTATCTCCCCGAGATTACAGTGGAGTGGATT-AAAATAAAG-GATC
66 GAGAAGATCATATCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACT--AGTAATC
* * * * *** * *
60844947 ATATCTCTCTGAAG-TTACAGTAGAGAAGA-TCGTAT-CAGG-TCTTATCTCCCTG-AGATTACA
129 CTATCTCCCT-AAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAG-TTACA
** * * * * * *
60845007 GCGGAGCAGATTGAAGTTAGTAATCC
192 GTAGAGTAGATCGTA-TCAG--GTCT
* *
60845033 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAGAGTA
1 TATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* * **
60845098 GAGAAGATCGTATCAGGTTTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCT
66 GAGAAGATCATATCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACTAGTAATCCT
* *
60845163 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
131 ATCTCCCTAAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
* *
60845228 AGTAGATCGTTTCAGATCT
196 AGTAGATCGTATCAGGTCT
*
60845247 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* * * * ** *
60845312 GAGAAGATCGTATCAGGTCTTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAAGATCT
66 GAGAAGATCATATCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACTAGTA-ATCC
* * * **** * *
60845376 TATCTCTCTAA-AGTTACAGTAGAGTAGA-TCGTGT-TA-GATCTTATCTCCCTG-AGATTACAG
130 TATCTCCCTAAGA-TTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAG-TTACAG
** * * * * * *
60845436 CGGAGCAGATTGAAGTTAGTAATCC
193 TAGAGTAGATCGTA-TCAG--GTCT
* *
60845461 TATCTCCCTGAGATTATAGTGGAGTATATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* *
60845526 GAGAAGATCATATCAGGTCTTATCTCCTTGAGATTACAGCGGAGTAGATTGAAACTAGTAATCCT
66 GAGAAGATCATATCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACTAGTAATCCT
* * * * *
60845591 ATCGCCCTAAGATTACAGTGGAGCGGATTAAAACAAATGATCTTATCTCTTTGAAGTTACAGTAG
131 ATCTCCCTAAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
* *
60845656 AGTAGATCGCATCAGGTTT
196 AGTAGATCGTATCAGGTCT
* * * *** ** * *
60845675 TACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAATAAT-TCTATCTCCATGGTTGGTAGTG
1 TATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGGATCT-TATCT-C-T--CT-GAAGT-
* * * * * ** * * * *
60845739 GA-A-TAGATTGAAGATCGAAGATGGCAGATTTTACCTCTTTGTGATTACAGTGGAGTATATTGA
59 TACAGTAGA--GAAGATC--ATAT--CAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA
* * * * *
60845802 AGCCAGTAATCCTATCTCCCTGATATTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCT
118 AACTAGTAATCCTATCTCCCTAAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCT
*
60845867 GAAGTTACAGTAGAGAAGATCGTATCAGGTCT
183 GAAGTTACAGTAGAGTAGATCGTATCAGGTCT
*
60845899 TATCTCCCTGAGATTACAGTGGAGCAGATT
1 TATCTCCCTGAGATTACAGTGGAGTAGATT
60845929 GAAGCTAGTA
Statistics
Matches: 735, Mismatches: 129, Indels: 54
0.80 0.14 0.06
Matches are distributed among these distances:
210 2 0.00
211 28 0.04
212 4 0.01
213 13 0.02
214 440 0.60
215 15 0.02
216 11 0.01
217 54 0.07
218 9 0.01
219 5 0.01
220 8 0.01
222 3 0.00
224 143 0.19
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (214 bp):
TATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
GAGAAGATCATATCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACTAGTAATCCT
ATCTCCCTAAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCGTATCAGGTCT
Found at i:60845862 original size:44 final size:42
Alignment explanation
Indices: 60845814--60846015 Score: 140
Period size: 44 Copynumber: 4.7 Consensus size: 42
60845804 CCAGTAATCC
*
60845814 TATCTCCCTGATATTACAGTGGAGTAGATTAAAATAAAGGATCT
1 TATCTCCCTGA-ATTACAGTGGAGCAGATTAAAAT-AAGGATCT
* * * *** *
60845858 TATCTCTCTGAAGTTACAGTAGAGAAGA-TCGTATCAGG-TCT
1 TATCTCCCTGAA-TTACAGTGGAGCAGATTAAAATAAGGATCT
** * *
60845899 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT-AGTAATCC
1 TATCTCCCTGA-ATTACAGTGGAGCAGATT-AAAATAAG-GATCT
* * *
60845943 TATCTCCCTGAGATTACAGTGTAGCGGATTAAAACAAAGGATCT
1 TATCTCCCTGA-ATTACAGTGGAGCAGATTAAAA-TAAGGATCT
* * *
60845987 TATCTCTCTGAAGTTACAGTAGAGTAGAT
1 TATCTCCCTGAA-TTACAGTGGAGCAGAT
60846016 CGCATCAGGT
Statistics
Matches: 121, Mismatches: 28, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
41 26 0.21
42 7 0.06
43 8 0.07
44 78 0.64
45 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (42 bp):
TATCTCCCTGAATTACAGTGGAGCAGATTAAAATAAGGATCT
Found at i:60845930 original size:353 final size:353
Alignment explanation
Indices: 60845428--60846174 Score: 1287
Period size: 353 Copynumber: 2.1 Consensus size: 353
60845418 ATCTCCCTGA
* * * ** * *
60845428 GATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTATAGTGGAGTATATTAA
1 GATTACAGTGGAGTATATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGTAGATTAA
*
60845493 AATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCATATCAGGTCTTATCTCCTTGAG
66 AATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCATATCAGGTCTTATCTCCCTGAG
*
60845558 ATTACAGCGGAGTAGATTGAAACTAGTAATCCTATCGCCCTAAGATTACAGTGGAGCGGATTAAA
131 ATTACAGCGGAGCAGATTGAAACTAGTAATCCTATCGCCCTAAGATTACAGTGGAGCGGATTAAA
* *
60845623 ACAAATGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCATCAGGTTTTACCTCCCTGAGA
196 ACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTTTTACCTCCCTGAGA
*
60845688 TTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCATGGTTGGTAGTGGAATAGATTGAAGA
261 TTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCATGGTTGGCAGTGGAATAGATTGAAGA
60845753 TCGAAGATGGCAGATTTTACCTCTTTGT
326 TCGAAGATGGCAGATTTTACCTCTTTGT
*
60845781 GATTACAGTGGAGTATATTGAAGCCAGTAATCCTATCTCCCTGATATTACAGTGGAGTAGATTAA
1 GATTACAGTGGAGTATATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGTAGATTAA
*
60845846 AATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAGGTCTTATCTCCCTGAG
66 AATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCATATCAGGTCTTATCTCCCTGAG
* * * * *
60845911 ATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGTAGCGGATTAAA
131 ATTACAGCGGAGCAGATTGAAACTAGTAATCCTATCGCCCTAAGATTACAGTGGAGCGGATTAAA
* *
60845976 ACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTTTTACCTCCCTGTGG
196 ACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTTTTACCTCCCTGAGA
*
60846041 TTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGA
261 TTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCATGGTTGGCAGTGGAATAGATTGAAGA
60846106 TCGAAGATGGCAGATTTTACCTCTTTGT
326 TCGAAGATGGCAGATTTTACCTCTTTGT
*
60846134 GATTACAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCC
1 GATTACAGTGGAGTATATTGAAGCCAGTAATCCTATCTCCC
60846175 CGACGTTGCG
Statistics
Matches: 371, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
353 371 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (353 bp):
GATTACAGTGGAGTATATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGTAGATTAA
AATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCATATCAGGTCTTATCTCCCTGAG
ATTACAGCGGAGCAGATTGAAACTAGTAATCCTATCGCCCTAAGATTACAGTGGAGCGGATTAAA
ACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTTTTACCTCCCTGAGA
TTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCATGGTTGGCAGTGGAATAGATTGAAGA
TCGAAGATGGCAGATTTTACCTCTTTGT
Found at i:60846016 original size:129 final size:129
Alignment explanation
Indices: 60845781--60846081 Score: 449
Period size: 129 Copynumber: 2.3 Consensus size: 129
60845771 ACCTCTTTGT
* * *
60845781 GATTACAGTGGAGTATATTGAAGCCAGTAATCCTATCTCCCTGATATTACAGTGGAGTAGATTAA
1 GATTACAGTGGAGTACATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAA
* * *
60845846 AATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAGGTCTTATCTCCCTGA
66 AACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCATCAGGTCTTACCTCCCTGA
* * * * *
60845910 GATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGTAGCGGATTAA
1 GATTACAGTGGAGTACATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAA
* * *
60845975 AACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTTTTACCTCCCTGT
66 AACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCATCAGGTCTTACCTCCCTGA
* * *
60846039 GGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTG
1 GATTACAGTGGAGTACATTGAAGCCAGTAATCCTATCTCCCTG
60846082 GTTGGCAGTG
Statistics
Matches: 153, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
129 153 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (129 bp):
GATTACAGTGGAGTACATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAA
AACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCATCAGGTCTTACCTCCCTGA
Found at i:60847887 original size:17 final size:17
Alignment explanation
Indices: 60847862--60847900 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
60847852 TAATTGCTCT
*
60847862 TATATATATTTTATATA
1 TATACATATTTTATATA
*
60847879 TATACATATTTTTTATA
1 TATACATATTTTATATA
60847896 TATAC
1 TATAC
60847901 TTACGTACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (17 bp):
TATACATATTTTATATA
Found at i:60848612 original size:18 final size:18
Alignment explanation
Indices: 60848589--60848631 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
60848579 CGTGAATATC
60848589 ATATTTTAAAAAAAGGAA
1 ATATTTTAAAAAAAGGAA
* * *
60848607 ATATTTCAAAATAAGGCA
1 ATATTTTAAAAAAAGGAA
60848625 ATATTTT
1 ATATTTT
60848632 GCGTTTGGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (18 bp):
ATATTTTAAAAAAAGGAA
Found at i:60848888 original size:108 final size:109
Alignment explanation
Indices: 60848610--60849006 Score: 658
Period size: 109 Copynumber: 3.7 Consensus size: 109
60848600 AAAGGAAATA
*
60848610 TTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTCCCCTAAGGTACTGGGTTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
*
60848674 CGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTAAAAACT
66 CGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACT
* * *
60848718 TTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGGAACGTGCCCTAAGGTATTGGGTTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
* *
60848783 CGATTTCTCGTTCGACCAAAT-GATTTAATATCCTTTTCAAAAA-T
66 CGATTTCTCGTTCGACCAAATAG-CTAAATATCCTTTT-AAAAACT
60848827 TTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
60848891 CGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACT
66 CGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACT
* * *
60848935 TTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTGCTGGGTTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
60849000 CGATTTC
66 CGATTTC
60849007 ACGGTTAACC
Statistics
Matches: 268, Mismatches: 15, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
107 5 0.02
108 100 0.37
109 158 0.59
110 5 0.02
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (109 bp):
TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
CGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACT
Found at i:60848985 original size:217 final size:218
Alignment explanation
Indices: 60848605--60849006 Score: 743
Period size: 217 Copynumber: 1.8 Consensus size: 218
60848595 TAAAAAAAGG
60848605 AAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTCCCCTAAGGTACTGG
1 AAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTCCCCTAAGGTACTGG
60848670 GTTTCGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAA
66 GTTTCGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAA
* * *
60848735 TGTTTTGCGTTTGGAAATTTGAGGAACGTGCCCTAAGGTATTGGGTTTCGATTTCTCGTTCGACC
131 TGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTCGACC
60848800 AAATGATTTAATATCCTTTTCAA
196 AAATGATTTAATATCCTTTTCAA
*
60848823 AAAT-TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
1 AAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTCCCCTAAGGTACTGG
*
60848887 GTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAA
66 GTTTCGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAA
*
60848952 TGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTGCTGGGTTTCGATTTC
131 TGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTC
60849007 ACGGTTAACC
Statistics
Matches: 178, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
217 174 0.98
218 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (218 bp):
AAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTCCCCTAAGGTACTGG
GTTTCGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAA
TGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTCGACC
AAATGATTTAATATCCTTTTCAA
Found at i:60852093 original size:43 final size:43
Alignment explanation
Indices: 60852033--60852123 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
60852023 CTTTGAGTTC
* * * *
60852033 ATTA-CAAGATTTCCTTGATTAAGTAGATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
60852075 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
60852118 ATTACC
1 ATTACC
60852124 TTGCATATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 4 0.10
43 38 0.90
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:60852443 original size:42 final size:43
Alignment explanation
Indices: 60852392--60852558 Score: 196
Period size: 43 Copynumber: 3.9 Consensus size: 43
60852382 GATATGTTTT
* * * * *
60852392 TAGCAGCGTTTGTGTAAAAAGCGCCTCTAAAGGTTA-GTTCTA
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAAGTCATGATCTA
*
60852434 TAGCGGCGTTTGTACG-AAAAAGCGCCGCTAAAAGTGATGATCTA
1 TAGCGGCGTTTGT--GTAAAAAGCGCCGCTAAAAGTCATGATCTA
**
60852478 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAAGTCATGATCTA
* * *
60852521 TAACGGCGTTTCTGT-AAAAGCGCCGCTAAAGGTCATGA
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAAGTCATGA
60852559 CTTTTAGTGG
Statistics
Matches: 110, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
42 35 0.32
43 56 0.51
44 19 0.17
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAAGTCATGATCTA
Found at i:60852820 original size:18 final size:18
Alignment explanation
Indices: 60852774--60852820 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
60852764 GCTTCCTTAA
*
60852774 TATTTGATTTA-TTATTT
1 TATTTTATTTATTTATTT
*
60852791 TATTTTAGTTATTTATTT
1 TATTTTATTTATTTATTT
60852809 TAATTTT-TTTAT
1 T-ATTTTATTTAT
60852821 CTGACTTGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 9 0.36
18 11 0.44
19 5 0.20
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (18 bp):
TATTTTATTTATTTATTT
Found at i:60853280 original size:17 final size:17
Alignment explanation
Indices: 60853231--60853284 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
60853221 GGGTAGTAGA
* * *
60853231 AGAACAAGAGAAAAAGA
1 AGAAGAAGAGAAAATGG
*
60853248 AAAAGAAGAGAAAAAATGG
1 AGAAGAAGAG--AAAATGG
60853267 AGAAGAAGAGAAAATGG
1 AGAAGAAGAGAAAATGG
60853284 A
1 A
60853285 AGGAGCTTCG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
17 16 0.53
19 14 0.47
ACGTcount: A:0.67, C:0.02, G:0.28, T:0.04
Consensus pattern (17 bp):
AGAAGAAGAGAAAATGG
Found at i:60854289 original size:25 final size:24
Alignment explanation
Indices: 60854261--60854317 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
60854251 CTCCTCCATT
* *
60854261 TTCTTTTCTTCTTCTTCTTCTCCTC
1 TTCTTTT-TTATTCTTCTTCTCCTA
60854286 TTCTTGTTTTATTCTTCTTCTCCTA
1 TTCTT-TTTTATTCTTCTTCTCCTA
60854311 TTCTTTT
1 TTCTTTT
60854318 ATTTACCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 25 0.86
26 2 0.07
ACGTcount: A:0.04, C:0.28, G:0.02, T:0.67
Consensus pattern (24 bp):
TTCTTTTTTATTCTTCTTCTCCTA
Found at i:60867835 original size:72 final size:73
Alignment explanation
Indices: 60867710--60867954 Score: 227
Period size: 73 Copynumber: 3.4 Consensus size: 73
60867700 TTTTAGATAC
* *
60867710 AGCGCCG-TAAAAAACCT-AGCGTAACGACGCCGTTTCAAGAGCATTTGGTGATTTAGCGGCGTT
1 AGCGCCGCTAAAAAACCTAAGCGCAACGACGCCGTTTCAAGAGCATTTGGGGATTTAGCGGCGTT
60867773 T-T-TAAGTA
66 TGTATAA--A
* * * *
60867781 AGCGCCGCTAAAAATCCTAAGCCCAACGACACCGTTTC-TGAG-ATTTTGGGGATTTAGCGGCGT
1 AGCGCCGCTAAAAAACCTAAGCGCAACGACGCCGTTTCAAGAGCA-TTTGGGGATTTAGCGGCGT
60867844 TTGTATAAA
65 TTGTATAAA
* ** *** *
60867853 AGCGCCGC-AAAAAAACTAAGCGCAACGACGCCGTTTCCCGAGCTATTCACGGAATTAGCGGCGT
1 AGCGCCGCTAAAAAACCTAAGCGCAACGACGCCGTTTCAAGAGC-ATTTGGGGATTTAGCGGCGT
* ***
60867917 TTCTGGGAA
65 TTGTATAAA
* *
60867926 AGCGCCGCAAAAAAATCT-AGCGCAACGAC
1 AGCGCCGCTAAAAAACCTAAGCGCAACGAC
60867955 ATCGTCTCGC
Statistics
Matches: 145, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
71 33 0.23
72 44 0.30
73 56 0.39
74 12 0.08
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (73 bp):
AGCGCCGCTAAAAAACCTAAGCGCAACGACGCCGTTTCAAGAGCATTTGGGGATTTAGCGGCGTT
TGTATAAA
Found at i:60868427 original size:23 final size:24
Alignment explanation
Indices: 60868393--60868482 Score: 88
Period size: 23 Copynumber: 4.0 Consensus size: 24
60868383 GTGTTATGCT
60868393 TTTAGG-G-TTAGGGGATTTA-AGAG
1 TTTAGGAGTTTAGGGG-TTTAGAG-G
60868416 -TTAGGA-TTTAGGGGTTTAGAGG
1 TTTAGGAGTTTAGGGGTTTAGAGG
*
60868438 TTTAGGAGTTTAGGGG-TTAGGGG
1 TTTAGGAGTTTAGGGGTTTAGAGG
60868461 TTTAGG-GATTT-GGGGTTTAGAG
1 TTTAGGAG-TTTAGGGGTTTAGAG
60868483 TTTGAACGGT
Statistics
Matches: 58, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
22 15 0.26
23 35 0.60
24 8 0.14
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (24 bp):
TTTAGGAGTTTAGGGGTTTAGAGG
Found at i:60868439 original size:8 final size:7
Alignment explanation
Indices: 60868416--60868485 Score: 59
Period size: 8 Copynumber: 9.3 Consensus size: 7
60868406 GATTTAAGAG
*
60868416 TTAGGAT
1 TTAGGGT
60868423 TTAGGGGT
1 TTA-GGGT
60868431 TTAGAGGT
1 TTAG-GGT
60868439 TTAGGAGT
1 TTAGG-GT
*
60868447 TTAGGGG
1 TTAGGGT
60868454 TTAGGGGT
1 TTA-GGGT
60868462 TTAGGGAT
1 TTAGGG-T
*
60868470 TTGGGGT
1 TTAGGGT
*
60868477 TTAGAGT
1 TTAGGGT
60868484 TT
1 TT
60868486 GAACGGTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
7 20 0.38
8 32 0.62
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.40
Consensus pattern (7 bp):
TTAGGGT
Found at i:60868463 original size:15 final size:15
Alignment explanation
Indices: 60868423--60868480 Score: 71
Period size: 15 Copynumber: 3.8 Consensus size: 15
60868413 GAGTTAGGAT
*
60868423 TTAGGGGTTTAGAGGT
1 TTAGGGGTTTAG-GGA
* *
60868439 TTAGGAGTTTAGGGG
1 TTAGGGGTTTAGGGA
60868454 TTAGGGGTTTAGGGA
1 TTAGGGGTTTAGGGA
*
60868469 TTTGGGGTTTAG
1 TTAGGGGTTTAG
60868481 AGTTTGAACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 26 0.70
16 11 0.30
ACGTcount: A:0.17, C:0.00, G:0.45, T:0.38
Consensus pattern (15 bp):
TTAGGGGTTTAGGGA
Found at i:60868806 original size:39 final size:40
Alignment explanation
Indices: 60868752--60868828 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 40
60868742 AATAAAAATT
60868752 TTTAGGGGTTTTGCTTT-AGGGATT-AGGGAGATTTAGGAG
1 TTTAGGGGTTTTGCTTTAAGGG-TTAAGGGAGATTTAGGAG
*
60868791 TTTA-GGGTTTATGCTTTAAGGGTTAAGGGGGATTTAGG
1 TTTAGGGGTTT-TGCTTTAAGGGTTAAGGGAGATTTAGG
60868829 GTTATGGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
38 6 0.18
39 12 0.35
40 16 0.47
ACGTcount: A:0.21, C:0.03, G:0.38, T:0.39
Consensus pattern (40 bp):
TTTAGGGGTTTTGCTTTAAGGGTTAAGGGAGATTTAGGAG
Found at i:60869998 original size:83 final size:83
Alignment explanation
Indices: 60869882--60870048 Score: 266
Period size: 83 Copynumber: 2.0 Consensus size: 83
60869872 TAAATATAAA
**
60869882 TAATTTAGTGGCGGTTTTTTAGAAAAAGCCGCAAATAATATTTGAATGATTGAATAAAACGGAGC
1 TAATTTAGTGGCGGTTTTTTAGAAAAAGCCGCAAATAATATTTGAAAAATTGAATAAAACGGAGC
60869947 CGTTTCGTGAAATGAAAT
66 CGTTTCGTGAAATGAAAT
* *
60869965 TAATTTAGTGGC-GTTTTTGTA-AAAAACGTCGCAAATAATATTTGAAAAATTGAATAAAACGTA
1 TAATTTAGTGGCGGTTTTT-TAGAAAAA-GCCGCAAATAATATTTGAAAAATTGAATAAAACGGA
60870028 GCCGTTTCGTGAAATGAAAT
64 GCCGTTTCGTGAAATGAAAT
60870048 T
1 T
60870049 TAATAGATTT
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
82 11 0.14
83 67 0.86
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (83 bp):
TAATTTAGTGGCGGTTTTTTAGAAAAAGCCGCAAATAATATTTGAAAAATTGAATAAAACGGAGC
CGTTTCGTGAAATGAAAT
Done.