Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 210 of 311
Found at i:72427757 original size:14 final size:14
Alignment explanation
Indices: 72427737--72427770 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
72427727 AAATTATACT
72427737 CTAAACTTGAAACC
1 CTAAACTTGAAACC
* *
72427751 TTAAACTTGAGACC
1 CTAAACTTGAAACC
72427765 CTAAAC
1 CTAAAC
72427771 CCAAAACCAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (14 bp):
CTAAACTTGAAACC
Found at i:72427871 original size:14 final size:14
Alignment explanation
Indices: 72427836--72427901 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
72427826 CCCCTAAACC
*
72427836 AACCATAAATCCTA
1 AACCATAAAGCCTA
*
72427850 GACCATAAAGCCTA
1 AACCATAAAGCCTA
*
72427864 AACTATAAA-CTCTAAA
1 AACCATAAAGC-CT--A
* *
72427880 AACCATTAACCCTA
1 AACCATAAAGCCTA
72427894 AACCATAA
1 AACCATAA
72427902 TCCTAGACAT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
13 1 0.02
14 29 0.71
16 10 0.24
17 1 0.02
ACGTcount: A:0.50, C:0.27, G:0.03, T:0.20
Consensus pattern (14 bp):
AACCATAAAGCCTA
Found at i:72429198 original size:24 final size:22
Alignment explanation
Indices: 72429170--72429244 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 22
72429160 CAAATAGATG
72429170 AATAGATGATAATAAAATAATAAT
1 AATA-ATGA-AATAAAATAATAAT
*
72429194 AAT-A-GACAATAAAATAGTAAT
1 AATAATGA-AATAAAATAATAAT
72429215 AATAATGAAAGTATAAATAA-AAT
1 AATAATGAAA-TA-AAATAATAAT
72429238 AAATAAT
1 -AATAAT
72429245 TGATGAGAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
21 18 0.42
22 4 0.09
23 7 0.16
24 14 0.33
ACGTcount: A:0.64, C:0.01, G:0.08, T:0.27
Consensus pattern (22 bp):
AATAATGAAATAAAATAATAAT
Found at i:72429275 original size:15 final size:17
Alignment explanation
Indices: 72429250--72429292 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
72429240 ATAATTGATG
*
72429250 AGAAAAGTAAAAAT-AA
1 AGAAAAATAAAAATGAA
72429266 A-AAAAATAAAAATGAA
1 AGAAAAATAAAAATGAA
*
72429282 AGAACAATAAA
1 AGAAAAATAAA
72429293 TAAATGGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 11 0.48
16 4 0.17
17 8 0.35
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.12
Consensus pattern (17 bp):
AGAAAAATAAAAATGAA
Found at i:72430471 original size:29 final size:27
Alignment explanation
Indices: 72430432--72430504 Score: 67
Period size: 29 Copynumber: 2.6 Consensus size: 27
72430422 TGAAATCAAC
*
72430432 AATATATAAAACAATTTAAAGAAGTAAAT
1 AATATAAAAAACAATTTAAA-AA-TAAAT
* * *
72430461 TATATAAAAAAAAAGATTTTAAAATAAAT
1 AATAT-AAAAAACA-ATTTAAAAATAAAT
72430490 AATAT-AAAAACAATT
1 AATATAAAAAACAATT
72430505 CTACAAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
26 3 0.08
27 6 0.17
29 13 0.36
30 8 0.22
31 6 0.17
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (27 bp):
AATATAAAAAACAATTTAAAAATAAAT
Found at i:72432193 original size:177 final size:177
Alignment explanation
Indices: 72431897--72432483 Score: 802
Period size: 177 Copynumber: 3.3 Consensus size: 177
72431887 CTTCAGGGAT
* * * * * *
72431897 ATAAGGCTAGTGGCTTAAATCTGCTCCATTACCGATATATGAAA-ATAAGATTCAACGTCTTCAA
1 ATAAGGCTGGTGGCTAAAATCTACTCCATTACCGATACAT-AAAGATAAGATTCGACGTCTTCGA
* * *
72431961 TCTGTTCCACTACTGCTTAGGGAGATAAGATCTGTAATTCTCAATCTGTTTCCTTGCTACCTCAG
65 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAATCTGCTTCCTTGCTACCTCAG
* * *
72432026 GAAGATAAGACTTGTATCTTGAGCCTGCTCTCTTGCTACATCAGAGAA
130 GAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAA
* * * *
72432074 ATAAGGCTGGTTGCTAAAATCTGCTCCATT-CTCGATACATAAAGATAAGATTCGTCATCTTCGA
1 ATAAGGCTGGTGGCTAAAATCTACTCCATTAC-CGATACATAAAGATAAGATTCGACGTCTTCGA
* * *
72432138 TCTACTCCACTACTGCTTAAGGAGATAAGATCTATAATTTTCAATCTGCTTCCTTGCTACCTCAG
65 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAATCTGCTTCCTTGCTACCTCAG
* *
72432203 GAAGATAAGACTTATATCTTCAACCTGCTCTCTTGCTACCTCAGAGAG
130 GAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAA
* * **
72432251 ATAAGGCTGGTGGCTAAAATCTACTCCATTGCTGATACATGGAGATAAGATTC-ACTGTCTTCGA
1 ATAAGGCTGGTGGCTAAAATCTACTCCATTACCGATACATAAAGATAAGATTCGAC-GTCTTCGA
* * *
72432315 TCTGCTCCACTACTGCTTAGGGAGATAATATCTGTAATTTTCATTCTGCTTTCTTGCTACCTCAG
65 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAATCTGCTTCCTTGCTACCTCAG
* * * *
72432380 GAAGATAAGACTAGTGAATCTTCAACCTGTTATCTTGCTACCTTAGAGAA
130 GAAGATAAGACT--TGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAA
**
72432430 ATAAGGCTGGTGGCTAAAATCTACTCCATTACCGATACATGGAGATAAGATTCG
1 ATAAGGCTGGTGGCTAAAATCTACTCCATTACCGATACATAAAGATAAGATTCG
72432484 CCGTTGTCGC
Statistics
Matches: 363, Mismatches: 40, Indels: 11
0.88 0.10 0.03
Matches are distributed among these distances:
176 5 0.01
177 276 0.76
178 1 0.00
179 81 0.22
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (177 bp):
ATAAGGCTGGTGGCTAAAATCTACTCCATTACCGATACATAAAGATAAGATTCGACGTCTTCGAT
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAATCTGCTTCCTTGCTACCTCAGG
AAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAA
Found at i:72432231 original size:44 final size:45
Alignment explanation
Indices: 72432159--72432255 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 45
72432149 ACTGCTTAAG
* *
72432159 GAGATAAGATCTATAATTTTCAATCTGCT-TCCTTGCTACCTCAG-
1 GAGATAAGATCTATAATCTTCAACCTGCTCT-CTTGCTACCTCAGA
72432203 GAAGATAAGA-CT-TATATCTTCAACCTGCTCTCTTGCTACCTCAGA
1 G-AGATAAGATCTATA-ATCTTCAACCTGCTCTCTTGCTACCTCAGA
72432248 GAGATAAG
1 GAGATAAG
72432256 GCTGGTGGCT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
43 2 0.04
44 35 0.74
45 10 0.21
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (45 bp):
GAGATAAGATCTATAATCTTCAACCTGCTCTCTTGCTACCTCAGA
Found at i:72435387 original size:17 final size:17
Alignment explanation
Indices: 72435347--72435384 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
72435337 GACTGCCCCA
72435347 ATTCCATCACCAACGGC
1 ATTCCATCACCAACGGC
*
72435364 GTTCCATCACCAACGG-
1 ATTCCATCACCAACGGC
72435380 ATTCC
1 ATTCC
72435385 CATGATACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.26, C:0.39, G:0.13, T:0.21
Consensus pattern (17 bp):
ATTCCATCACCAACGGC
Found at i:72442038 original size:64 final size:64
Alignment explanation
Indices: 72441937--72442065 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
72441927 GTTTCTAAAG
72441937 AAGCAACTAAAAAACGGCTCAAAAAATATTCATTTGGTTTACTTAAGGGTAAAAAGCAATCGAT
1 AAGCAACTAAAAAACGGCTCAAAAAATATTCATTTGGTTTACTTAAGGGTAAAAAGCAATCGAT
*
72442001 AAGCAACTAAAAAACGGCTCAAAAAATATTCATTTGGTTTATTTAAGGGTAAAAAGCAATCGAT
1 AAGCAACTAAAAAACGGCTCAAAAAATATTCATTTGGTTTACTTAAGGGTAAAAAGCAATCGAT
72442065 A
1 A
72442066 TTGGGCAAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.26
Consensus pattern (64 bp):
AAGCAACTAAAAAACGGCTCAAAAAATATTCATTTGGTTTACTTAAGGGTAAAAAGCAATCGAT
Found at i:72452053 original size:15 final size:14
Alignment explanation
Indices: 72452035--72452075 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
72452025 GAAAAGAAAT
72452035 AAATAAATATATAAA
1 AAAT-AATATATAAA
72452050 AAAT-ATATA-AAA
1 AAATAATATATAAA
*
72452062 TAATAATATATAAA
1 AAATAATATATAAA
72452076 TGAGCTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
12 6 0.26
13 10 0.43
14 3 0.13
15 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATAATATATAAA
Found at i:72452055 original size:11 final size:11
Alignment explanation
Indices: 72452033--72452071 Score: 51
Period size: 11 Copynumber: 3.3 Consensus size: 11
72452023 ACGAAAAGAA
72452033 ATAAATAAATAT
1 ATAAA-AAATAT
72452045 ATAAAAAATAT
1 ATAAAAAATAT
72452056 ATAAAATAATAAT
1 ATAAAA-AAT-AT
72452069 ATA
1 ATA
72452072 TAAATGAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 12 0.48
12 8 0.32
13 5 0.20
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
ATAAAAAATAT
Found at i:72459294 original size:42 final size:40
Alignment explanation
Indices: 72459135--72459297 Score: 103
Period size: 42 Copynumber: 3.9 Consensus size: 40
72459125 ATACCAATGC
* * * * *
72459135 CATATCCCAGATATGGTCTTACATGGGATCTCATATCGATAC
1 CATATCCCAGATATGGTCTTACA-CGAAACTCATAACGAT-T
* * ** **
72459177 CAATAGCCCA-ACTATGGTATTACACGATTCTCATATTGATT
1 C-ATATCCCAGA-TATGGTCTTACACGAAACTCATAACGATT
* * * * *
72459218 CCATGTCCCAGACATGGTCCTATATGAAATCTCATAACGATGT
1 -CATATCCCAGATATGGTCTTACACGAAA-CTCATAACGAT-T
72459261 CATATCCCAGATATGGTCTTACACGTAAACTCATAAC
1 CATATCCCAGATATGGTCTTACACG-AAACTCATAAC
72459298 CCTAAGGTCA
Statistics
Matches: 91, Mismatches: 23, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
41 16 0.18
42 53 0.58
43 22 0.24
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (40 bp):
CATATCCCAGATATGGTCTTACACGAAACTCATAACGATT
Found at i:72460756 original size:29 final size:29
Alignment explanation
Indices: 72460724--72461197 Score: 251
Period size: 29 Copynumber: 16.3 Consensus size: 29
72460714 GGGATAGCTT
* *
72460724 CGACTATCGATTATGAAAAGGGATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
*
72460753 CGACCATCAACTATGAAAAGGGATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
* * ** **
72460782 CAACCATCGAATATGAAAAAGGGACAGTTT
1 CGACCATCGACTATG-AAAAGGGATGGTGA
* * * * * ** *
72460812 TGGCTATTGATTATGAAAAGGGATAACT-T
1 CGACCATCGACTATGAAAAGGGAT-GGTGA
* * *
72460841 CGGCTATCGATTATGAAAAGGGATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
** *
72460870 CGACCATTAACTATGAAAAGGTATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
* * * *
72460899 CGACCGTCGAATATGAAAAGGGATAGCT-T
1 CGACCATCGACTATGAAAAGGGAT-GGTGA
* * * * *
72460928 C-AGCTATCAATTATGAAAAGGGATAGTAA
1 CGA-CCATCGACTATGAAAAGGGATGGTGA
** * * *
72460957 CGACTTTCAACTGTGAAAAGGGATGGTAA
1 CGACCATCGACTATGAAAAGGGATGGTGA
** * *
72460986 CGACTTTCAACTACGAAAAGGGATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
* * * *
72461015 CGACCATTGAATATGAAAAGGGATAGCT-T
1 CGACCATCGACTATGAAAAGGGAT-GGTGA
* * * * * *
72461044 TGGCTATCGATTATGAAAGGGGATAGT-A
1 CGACCATCGACTATGAAAAGGGATGGTGA
* * * *
72461072 GTGACCATCAACTATGAACAGGGATGGTAA
1 -CGACCATCGACTATGAAAAGGGATGGTGA
* * *
72461102 CGACCATCGAATATGAAAAGGGATAG-CA
1 CGACCATCGACTATGAAAAGGGATGGTGA
* * * *
72461130 TCGGCTATCAATTATG-AAAGTGGATGGTGA
1 -CGACCATCGACTATGAAAAG-GGATGGTGA
* *
72461160 CGACCATCAACAATGAAAAGGGATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
72461189 CGACCATCG
1 CGACCATCG
72461198 TGATTCCACT
Statistics
Matches: 340, Mismatches: 91, Indels: 28
0.74 0.20 0.06
Matches are distributed among these distances:
28 9 0.03
29 299 0.88
30 32 0.09
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (29 bp):
CGACCATCGACTATGAAAAGGGATGGTGA
Found at i:72460791 original size:58 final size:58
Alignment explanation
Indices: 72460699--72461197 Score: 302
Period size: 58 Copynumber: 8.6 Consensus size: 58
72460689 TAACGACAAT
* * * *
72460699 CATCAACTATGGAAAGGGATAGCT-TCGACTATCGATTATGAAAAGGGATGGTGACGAC
1 CATCAACTATGAAAAGGGATAG-TGACGACCATCGAATATGAAAAGGGATGGTGACGAC
* * ** *** *
72460757 CATCAACTATGAAAAGGGATGGTGACAACCATCGAATATGAAAAAGGGACAGTTTTGGC
1 CATCAACTATGAAAAGGGATAGTGACGACCATCGAATATG-AAAAGGGATGGTGACGAC
* ** * * * * * *
72460816 TATTGATTATGAAAAGGGATAACT-TCGGCTATCGATTATGAAAAGGGATGGTGACGAC
1 CATCAACTATGAAAAGGGAT-AGTGACGACCATCGAATATGAAAAGGGATGGTGACGAC
* * * * * *
72460874 CATTAACTATGAAAAGGTATGGTGACGACCGTCGAATATGAAAAGGGATAGCT-TC-AGC
1 CATCAACTATGAAAAGGGATAGTGACGACCATCGAATATGAAAAGGGAT-GGTGACGA-C
* * * ** * *
72460932 TATCAATTATGAAAAGGGATAGTAACGACTTTC-AACTGTGAAAAGGGATGGTAACGAC
1 CATCAACTATGAAAAGGGATAGTGACGACCATCGAA-TATGAAAAGGGATGGTGACGAC
** * * * * ** *
72460990 TTTCAACTACGAAAAGGGATGGTGACGACCATTGAATATGAAAAGGGATAGCT-TTGGC
1 CATCAACTATGAAAAGGGATAGTGACGACCATCGAATATGAAAAGGGAT-GGTGACGAC
* * * * * * *
72461048 TATCGATTATGAAAGGGGATAGT-AGTGACCATC-AACTATGAACAGGGATGGTAACGAC
1 CATCAACTATGAAAAGGGATAGTGA-CGACCATCGAA-TATGAAAAGGGATGGTGACGAC
* * *
72461106 CATCGAA-TATGAAAAGGGATAG-CATCGGCTATC-AATTATG-AAAGTGGATGGTGACGAC
1 CATC-AACTATGAAAAGGGATAGTGA-CGACCATCGAA-TATGAAAAG-GGATGGTGACGAC
* *
72461164 CATCAACAATGAAAAGGGATGGTGACGACCATCG
1 CATCAACTATGAAAAGGGATAGTGACGACCATCG
72461198 TGATTCCACT
Statistics
Matches: 327, Mismatches: 94, Indels: 39
0.71 0.20 0.08
Matches are distributed among these distances:
57 17 0.05
58 261 0.80
59 48 0.15
60 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (58 bp):
CATCAACTATGAAAAGGGATAGTGACGACCATCGAATATGAAAAGGGATGGTGACGAC
Found at i:72460998 original size:116 final size:116
Alignment explanation
Indices: 72460706--72461125 Score: 495
Period size: 116 Copynumber: 3.6 Consensus size: 116
72460696 AATCATCAAC
* * * * *
72460706 TATGGAAAGGGATAGCT-TCGACTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAA
1 TATGAAAAGGGATAG-TAACGACTATCAACTATGAAAAGGGATGGTAACGACCATCAACTATGAA
* * * *
72460770 AAGGGATGGTGACAACCATCGAATATGAAAAAGGGACAGTTTTGGCTATTGAT
65 AAGGGATGGTGACGACCATCGAATATG-AAAAGGGATAGCTTTGGCTATCGAT
* * * * * * *
72460823 TATGAAAAGGGATAACT-TCGGCTATCGATTATGAAAAGGGATGGTGACGACCATTAACTATGAA
1 TATGAAAAGGGAT-AGTAACGACTATCAACTATGAAAAGGGATGGTAACGACCATCAACTATGAA
* * ** *
72460887 AAGGTATGGTGACGACCGTCGAATATGAAAAGGGATAGCTTCAGCTATCAAT
65 AAGGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTTTGGCTATCGAT
* * ** *
72460939 TATGAAAAGGGATAGTAACGACTTTCAACTGTGAAAAGGGATGGTAACGACTTTCAACTACGAAA
1 TATGAAAAGGGATAGTAACGACTATCAACTATGAAAAGGGATGGTAACGACCATCAACTATGAAA
*
72461004 AGGGATGGTGACGACCATTGAATATGAAAAGGGATAGCTTTGGCTATCGAT
66 AGGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTTTGGCTATCGAT
* ** * *
72461055 TATGAAAGGGGATAGTAGTGACCATCAACTATGAACAGGGATGGTAACGACCATCGAA-TATGAA
1 TATGAAAAGGGATAGTAACGACTATCAACTATGAAAAGGGATGGTAACGACCATC-AACTATGAA
72461119 AAGGGAT
65 AAGGGAT
72461126 AGCATCGGCT
Statistics
Matches: 259, Mismatches: 41, Indels: 7
0.84 0.13 0.02
Matches are distributed among these distances:
115 2 0.01
116 172 0.66
117 84 0.32
118 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (116 bp):
TATGAAAAGGGATAGTAACGACTATCAACTATGAAAAGGGATGGTAACGACCATCAACTATGAAA
AGGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTTTGGCTATCGAT
Found at i:72461030 original size:87 final size:87
Alignment explanation
Indices: 72460939--72461197 Score: 306
Period size: 87 Copynumber: 3.0 Consensus size: 87
72460929 AGCTATCAAT
* * * * * ** *
72460939 TATGAAAAGGGATAGTAACGACTTTCAACTGTGAAAAGGGATGGTAACGACTTTCAACTACGAAA
1 TATGAAAAGGGATAGTATCGGCTATCAATTATGAAAAGGGATGGTAACGACCATCAACTATGAAA
*
72461004 AGGGATGGTGACGACCATTGAA
66 AGGGATGGTGACGACCATCGAA
* * * * **
72461026 TATGAAAAGGGATAGCT-TTGGCTATCGATTATGAAAGGGGATAGTAGTGACCATCAACTATGAA
1 TATGAAAAGGGATAG-TATCGGCTATCAATTATGAAAAGGGATGGTAACGACCATCAACTATGAA
* *
72461090 CAGGGATGGTAACGACCATCGAA
65 AAGGGATGGTGACGACCATCGAA
* * *
72461113 TATGAAAAGGGATAGCATCGGCTATCAATTATG-AAAGTGGATGGTGACGACCATCAACAATGAA
1 TATGAAAAGGGATAGTATCGGCTATCAATTATGAAAAG-GGATGGTAACGACCATCAACTATGAA
72461177 AAGGGATGGTGACGACCATCG
65 AAGGGATGGTGACGACCATCG
72461198 TGATTCCACT
Statistics
Matches: 141, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
86 3 0.02
87 137 0.97
88 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (87 bp):
TATGAAAAGGGATAGTATCGGCTATCAATTATGAAAAGGGATGGTAACGACCATCAACTATGAAA
AGGGATGGTGACGACCATCGAA
Found at i:72464646 original size:18 final size:16
Alignment explanation
Indices: 72464623--72464666 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
72464613 TGTCATTATT
*
72464623 CTTATTTTTTTCTCGTTG
1 CTTATTTTTTTCT--TTA
*
72464641 CTTATTTATTTCTTTA
1 CTTATTTTTTTCTTTA
72464657 CTTATTTTTT
1 CTTATTTTTT
72464667 ATACCTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 11 0.48
18 12 0.52
ACGTcount: A:0.11, C:0.14, G:0.05, T:0.70
Consensus pattern (16 bp):
CTTATTTTTTTCTTTA
Found at i:72464753 original size:21 final size:21
Alignment explanation
Indices: 72464727--72464935 Score: 69
Period size: 21 Copynumber: 9.8 Consensus size: 21
72464717 TTTTAATCAT
72464727 TTATTATTACTATTACTTTTA
1 TTATTATTACTATTACTTTTA
* * *
72464748 TTATTATTACTGTTTCTATTA
1 TTATTATTACTATTACTTTTA
* *
72464769 TTGTT-TTTCTATTACTATTTA
1 TTATTATTACTATTACT-TTTA
*
72464790 TGTTATTGTTGGCACTATT-C-TTTA
1 --TTATTATT---ACTATTACTTTTA
* *
72464814 TT-TTATTATTATTATTATTTA
1 TTATTATTACTATTACT-TTTA
*
72464835 TTATT-TTA-TCATTCCTTTCTA
1 TTATTATTACT-ATTACTTT-TA
* * * *
72464856 TTATTGTTATTATTAGTATACTA
1 TTATTATTACTATTACT-T-TTA
* *
72464879 TTATTATT-CTTATTA-ATGTA
1 TTATTATTAC-TATTACTTTTA
* *
72464899 TTATTATTATTTTCTAC-TTTA
1 TTATTATTACTAT-TACTTTTA
*
72464920 TTATTA-TATTATTACT
1 TTATTATTACTATTACT
72464936 ATTGCTATCA
Statistics
Matches: 140, Mismatches: 26, Indels: 45
0.66 0.12 0.21
Matches are distributed among these distances:
18 5 0.04
19 3 0.02
20 28 0.20
21 61 0.44
22 11 0.08
23 20 0.14
24 6 0.04
26 1 0.01
27 5 0.04
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.62
Consensus pattern (21 bp):
TTATTATTACTATTACTTTTA
Found at i:72464824 original size:3 final size:3
Alignment explanation
Indices: 72464811--72464938 Score: 79
Period size: 3 Copynumber: 42.7 Consensus size: 3
72464801 GCACTATTCT
* *
72464811 TTA TT- TTA TTA TTA TTA TTA TTTA TTA TT- TTA TCA TTCC TT- TCTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A TTA T-TA
* * * *
72464856 TTA TTG TTA TTA TTA GTA -TA CTA TTA TTA TTC TTA TTAA TGTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA
* * *
72464902 TTA TTA TTT TCTA CT- TTA TTA TTA -TA TTA TTA CTA TT
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TT
72464939 GCTATCATCA
Statistics
Matches: 98, Mismatches: 15, Indels: 24
0.72 0.11 0.18
Matches are distributed among these distances:
2 10 0.10
3 76 0.78
4 11 0.11
5 1 0.01
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:72464903 original size:23 final size:23
Alignment explanation
Indices: 72464812--72464909 Score: 69
Period size: 23 Copynumber: 4.4 Consensus size: 23
72464802 CACTATTCTT
* *
72464812 TATT-TTATTATTATTATTAT-T
1 TATTATTATTATTATTAATATAC
* ** *
72464833 TATTATT-TTATCATTCCT-TTC
1 TATTATTATTATTATTAATATAC
* *
72464854 TATTATTGTTATTATTAGTATAC
1 TATTATTATTATTATTAATATAC
* * *
72464877 TATTATTATTCTTATTAATGTAT
1 TATTATTATTATTATTAATATAC
72464900 TATTATTATT
1 TATTATTATT
72464910 TTCTACTTTA
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
20 1 0.02
21 19 0.32
22 10 0.17
23 30 0.50
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (23 bp):
TATTATTATTATTATTAATATAC
Found at i:72465025 original size:3 final size:3
Alignment explanation
Indices: 72465017--72465058 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
72465007 ATTTATTTAC
72465017 ATT ATT ATT -TCT ATT ACTT -TT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT AT-T ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
72465059 CTCTTAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
2 3 0.09
3 29 0.83
4 3 0.09
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:72477297 original size:31 final size:31
Alignment explanation
Indices: 72477254--72477318 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
72477244 TATAAAATTA
72477254 TCACTGAACTATTCAAAAGTTTTCATTTAAG
1 TCACTGAACTATTCAAAAGTTTTCATTTAAG
* *** *
72477285 TCACTGATCTATTTGGAAGTTTTTATTTAAG
1 TCACTGAACTATTCAAAAGTTTTCATTTAAG
72477316 TCA
1 TCA
72477319 TTACACGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (31 bp):
TCACTGAACTATTCAAAAGTTTTCATTTAAG
Found at i:72479836 original size:31 final size:31
Alignment explanation
Indices: 72479793--72479874 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
72479783 TTAAAAAATA
* *
72479793 AAAAAAAAAACTTTCGAATAATTCGATGACTT
1 AAAATAAAAACTTTCAAATAATTCGATGA-TT
* *
72479825 -ATATAAAAACTTTCAAATAATTCGGTGATT
1 AAAATAAAAACTTTCAAATAATTCGATGATT
*
72479855 AAAATGAAAACTTTCAAATA
1 AAAATAAAAACTTTCAAATA
72479875 GTCCAGTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
30 2 0.05
31 41 0.95
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (31 bp):
AAAATAAAAACTTTCAAATAATTCGATGATT
Found at i:72480364 original size:4 final size:4
Alignment explanation
Indices: 72480355--72480388 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
72480345 CATTCTACCA
*
72480355 TATG TATG TATG TATG TA-G TATG TATG TCTG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
72480389 AGCTCACCTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:72480378 original size:15 final size:15
Alignment explanation
Indices: 72480358--72480387 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
72480348 TCTACCATAT
72480358 GTATGTATGTATGTA
1 GTATGTATGTATGTA
*
72480373 GTATGTATGTCTGTA
1 GTATGTATGTATGTA
72480388 TAGCTCACCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (15 bp):
GTATGTATGTATGTA
Found at i:72487308 original size:20 final size:20
Alignment explanation
Indices: 72487275--72487312 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
72487265 TAGTTGAATT
72487275 TGGATAATTGAAAGAAAATA
1 TGGATAATTGAAAGAAAATA
72487295 TGGA-AATTGAAAAGAAAA
1 TGGATAATTG-AAAGAAAA
72487313 GAGACTTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (20 bp):
TGGATAATTGAAAGAAAATA
Found at i:72491862 original size:32 final size:32
Alignment explanation
Indices: 72491826--72491985 Score: 257
Period size: 32 Copynumber: 5.0 Consensus size: 32
72491816 TATAACTATG
*
72491826 CTACTTTTTTATATGTAAAAATAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
72491858 CTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
72491890 CTACTTTTTTATATGTGAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
72491922 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
72491954 CTACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
72491986 ATTTTTTATG
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 116 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:72491927 original size:64 final size:64
Alignment explanation
Indices: 72491826--72491985 Score: 284
Period size: 64 Copynumber: 2.5 Consensus size: 64
72491816 TATAACTATG
**
72491826 CTACTTTTTTATATGTAAAAATAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
* *
72491890 CTACTTTTTTATATGTGAACCTAATGTATGATCTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
72491954 CTACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGAT
72491986 ATTTTTTATG
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 91 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (64 bp):
CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
Found at i:72494016 original size:21 final size:21
Alignment explanation
Indices: 72493992--72494043 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
72493982 GCTGTTTCTG
*
72493992 ATCTCACTGCTACAGTATCCA
1 ATCTCACCGCTACAGTATCCA
72494013 ATCTCACCGCTACAGTATCCA
1 ATCTCACCGCTACAGTATCCA
72494034 ATCTCACCGC
1 ATCTCACCGC
72494044 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.38, G:0.10, T:0.25
Consensus pattern (21 bp):
ATCTCACCGCTACAGTATCCA
Found at i:72495946 original size:24 final size:26
Alignment explanation
Indices: 72495900--72495948 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
72495890 AGATTACAAA
72495900 ATCATATCTTCAAGATTGCATATCAT
1 ATCATATCTTCAAGATTGCATATCAT
*
72495926 ATCATATC-T-AAGATTGTATATCA
1 ATCATATCTTCAAGATTGCATATCA
72495949 CATCTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.59
25 1 0.05
26 8 0.36
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (26 bp):
ATCATATCTTCAAGATTGCATATCAT
Found at i:72495948 original size:19 final size:19
Alignment explanation
Indices: 72495923--72496004 Score: 137
Period size: 19 Copynumber: 4.3 Consensus size: 19
72495913 GATTGCATAT
*
72495923 CATATCATATCTAAGATTG
1 CATATCACATCTAAGATTG
*
72495942 TATATCACATCTAAGATTG
1 CATATCACATCTAAGATTG
72495961 CATATCACATCTAAGATTG
1 CATATCACATCTAAGATTG
*
72495980 CATATCATATCTAAGATTG
1 CATATCACATCTAAGATTG
72495999 CATATC
1 CATATC
72496005 CTTAAAGATT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 59 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (19 bp):
CATATCACATCTAAGATTG
Found at i:72499548 original size:87 final size:86
Alignment explanation
Indices: 72499409--72499904 Score: 313
Period size: 87 Copynumber: 5.7 Consensus size: 86
72499399 CAATACAGAT
* * *
72499409 ATGCCAAATCATCTTAGATCTGCTTCAGCATAAACA-CGTGAAAGCCAAATCTGCTATGTCTTCG
1 ATGCCAAATCATCTTGGATCTGCTTCAGTA-AAACATC-TGAAAGTCAAATCTGCTATGTCTTCG
*
72499473 ATTTGCTCCTTGTGAACACAAAG
64 ATTTGCTCCTTGTGAACATAAAG
* *
72499496 ATGCCAAATCATCTTGGATCTGCTTCAGTAAAATCATCTG-AAGATTAGATCTGCTATG---T--
1 ATGCCAAATCATCTTGGATCTGCTTCAGTAAAA-CATCTGAAAG-TCAAATCTGCTATGTCTTCG
* * **
72499555 ATCTGCT-CTCCGTCGAA-ATGGAG
64 ATTTGCTCCT-TGT-GAACATAAAG
* ** *
72499578 ATGCCAGATCTGTTATCTTGGATCTGCTTTTGTGTAAGAACATCCGAAAGTCAAATCTGCTATGT
1 ATGCCAAATC----ATCTTGGATCTGC--TTCAGTAA-AACATCTGAAAGTCAAATCTGCTATGT
* *
72499643 CTTCGATTTGCTCCTCGTGAACATAAGG
59 CTTCGATTTGCTCCTTGTGAACATAAAG
* * * * *
72499671 ATGCCAAATCATCTTGGATTTGTTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATG---T--A
1 ATGCCAAATCATCTTGGATCTGCTTCAGTAAAA-CATCTGAAAGTCAAATCTGCTATGTCTTCGA
* * * **
72499731 TCTGCT-CTCTGTCAAAATGGAG
65 TTTGCTCCT-TGTGAACATAAAG
* * * ** * *
72499753 ATGCCAGATCTGTTCTCTTGGATCTACTTTGGTGTAAGGAA-ATCCGAAAGTCAAATCGGCTATG
1 ATGCCAAATC----ATCTTGGATCTGC-TT-CAGTAA--AACATCTGAAAGTCAAATCTGCTATG
* *
72499817 TCTTCGATTTGCTCCTTGTGAACACAAGG
58 TCTTCGATTTGCTCCTTGTGAACATAAAG
* * * *
72499846 ATGTCAAATCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGT
1 ATGCCAAATCATCTTGGATCTGCTTCAGTAAAA-CATCTGAAAGTCAAATCTGCTATGT
72499905 ATCTGCTCTC
Statistics
Matches: 305, Mismatches: 66, Indels: 76
0.68 0.15 0.17
Matches are distributed among these distances:
81 4 0.01
82 42 0.14
83 3 0.01
84 2 0.01
85 2 0.01
86 30 0.10
87 94 0.31
88 48 0.16
89 27 0.09
90 2 0.01
91 2 0.01
92 3 0.01
93 42 0.14
94 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (86 bp):
ATGCCAAATCATCTTGGATCTGCTTCAGTAAAACATCTGAAAGTCAAATCTGCTATGTCTTCGAT
TTGCTCCTTGTGAACATAAAG
Found at i:72499650 original size:175 final size:175
Alignment explanation
Indices: 72499448--72499956 Score: 860
Period size: 175 Copynumber: 2.9 Consensus size: 175
72499438 ATAAACACGT
* *
72499448 GAAAGCCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAAGATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGG
*
72499513 ATCTGCTTCAGTAAAATCATCTGAAGATTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
66 ATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
*
72499578 ATGCCAGATCTGTTATCTTGGATCTGCTTTTGTGTAA-GAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGGAA-ATCC
* *
72499623 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTCGTGAACATAAGGATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGG
* * * *
72499688 ATTTGTTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCTGTCAAAATGGAG
66 ATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
* *
72499753 ATGCCAGATCTGTTCTCTTGGATCTACTTTGGTGTAAGGAAATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGGAAATCC
* *
72499798 GAAAGTCAAATCGGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGTCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGG
72499863 ATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCG-CTGAAATGGA
66 ATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTC-GAAATGGA
72499927 GATGCCAGATCTGTTATCTTGGATCTGCTT
130 GATGCCAGATCTGTTATCTTGGATCTGCTT
72499957 CAGTGTAAAC
Statistics
Matches: 310, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
174 1 0.00
175 306 0.99
176 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (175 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGG
ATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTAAGGAAATCC
Found at i:72500169 original size:83 final size:84
Alignment explanation
Indices: 72500000--72500360 Score: 454
Period size: 83 Copynumber: 4.3 Consensus size: 84
72499990 CTTTGGTCTA
* ** *
72500000 TTACCCTACTGCTTA-AGGGTTAAGGTGCATCGTCTTCGATCTGCTCCGCTACTGCTTA-GG-GA
1 TTACCCTACTGCTTAGAGGATTAA-G-GC-GGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
72500062 TAAGATCTGCAAATTTAACCTG
63 TAAGATCTGCAAATTTAACCTG
*
72500084 TTATCCTACTGCTTAGAGGATTAAGGCGGGT-TTCGATCTGCTCCACTACTGCTTAGGGAGATAA
1 TTACCCTACTGCTTAGAGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
72500148 GATCTGCAAATTTAACCTG
66 GATCTGCAAATTTAACCTG
* * * * * *
72500167 TTACCTTACTACTTAGGGGATTAAAGCGAGTCGTCATCGATCTGCTCCGCTACTGCTTAGGGAGA
1 TTACCCTACTGCTTAGAGGATTAAGGCG-G--GTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
*
72500232 TAAGATCTGC-----GAACCTG
63 TAAGATCTGCAAATTTAACCTG
*
72500249 TTACCCTACTGCTTA-AGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
1 TTACCCTACTGCTTAGA-GGATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
*
72500313 AGATCTGTAAATTTAACCTG
65 AGATCTGCAAATTTAACCTG
*
72500333 TTACCCTACTGCTTAGGGGATTAAGGCG
1 TTACCCTACTGCTTAGAGGATTAAGGCG
72500361 CTGAATTTTG
Statistics
Matches: 240, Mismatches: 23, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
79 40 0.17
81 23 0.10
82 33 0.14
83 49 0.20
84 48 0.20
85 7 0.03
86 2 0.01
87 38 0.16
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (84 bp):
TTACCCTACTGCTTAGAGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
GATCTGCAAATTTAACCTG
Found at i:72500258 original size:38 final size:37
Alignment explanation
Indices: 72500208--72500319 Score: 102
Period size: 41 Copynumber: 2.9 Consensus size: 37
72500198 CGTCATCGAT
*
72500208 CTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCGAAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCG-AC
* * * *
72500246 CTGTTACC-CTACTGCTTAAGGGA-TTAAGGCGAGTCTTCGAT
1 CTGCT-CCACTACTGCTT-AGGGAGATAA---GA-TCTGCGAC
72500287 CTGCTCCACTACTGCTTAGGGAGATAAGATCTG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTG
72500320 TAAATTTAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
37 3 0.05
38 18 0.31
39 7 0.12
40 7 0.12
41 19 0.32
42 5 0.08
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (37 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCGAC
Found at i:72500311 original size:166 final size:164
Alignment explanation
Indices: 72500029--72500356 Score: 507
Period size: 166 Copynumber: 2.0 Consensus size: 164
72500019 TTAAGGTGCA
* * *
72500029 TCGTCTTCGATCTGCTCCGCTACTGCTTAGGGATAAGATCTGCAAATTTAACCTGTTATCCTACT
1 TCGTCATCGATCTGCTCCGCTACTGCTTAGGGATAAGATCTGC--A--GAACCTGTTACCCTACT
*
72500094 GCTTAGAGGATTAAGGCGGGTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAAT
62 GCTTAGAGGATTAAGGCGAGTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAAT
*
72500159 TTAACCTGTTACCTTACTACTTAGGGGATTAAAGCGAG
127 TTAACCTGTTACCCTACTACTTAGGGGATTAAAGCGAG
72500197 TCGTCATCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGC-GAACCTGTTACCCTACTGC
1 TCGTCATCGATCTGCTCCGCTACTGCTTA-GG-GATAAGATCTGCAGAACCTGTTACCCTACTGC
*
72500261 TTA-AGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAAT
64 TTAGA-GGATTAAGGCGAGT-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAAT
*
72500325 TTAACCTGTTACCCTACTGCTTAGGGGATTAA
127 TTAACCTGTTACCCTACTACTTAGGGGATTAA
72500357 GGCGCTGAAT
Statistics
Matches: 149, Mismatches: 7, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
164 1 0.01
165 33 0.22
166 73 0.49
168 28 0.19
169 2 0.01
170 12 0.08
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (164 bp):
TCGTCATCGATCTGCTCCGCTACTGCTTAGGGATAAGATCTGCAGAACCTGTTACCCTACTGCTT
AGAGGATTAAGGCGAGTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAA
CCTGTTACCCTACTACTTAGGGGATTAAAGCGAG
Found at i:72501324 original size:8 final size:8
Alignment explanation
Indices: 72501307--72501357 Score: 61
Period size: 9 Copynumber: 6.2 Consensus size: 8
72501297 GGCCTCTCCA
72501307 TTTTTC-T
1 TTTTTCTT
72501314 TTTTTCTTT
1 TTTTTC-TT
72501323 TTTTCTCTT
1 TTTT-TCTT
72501332 TTTTTCTT
1 TTTTTCTT
72501340 TTTTTCTCT
1 TTTTTCT-T
72501349 TTTTT-TT
1 TTTTTCTT
72501356 TT
1 TT
72501358 ACTTTTGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
7 9 0.22
8 12 0.30
9 17 0.43
10 2 0.05
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTCTT
Found at i:72501336 original size:18 final size:18
Alignment explanation
Indices: 72501313--72501354 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
72501303 TCCATTTTTC
72501313 TTTTTTCTTTTTTTCTCT
1 TTTTTTCTTTTTTTCTCT
72501331 TTTTTTCTTTTTTTCTCT
1 TTTTTTCTTTTTTTCTCT
72501349 TTTTTT
1 TTTTTT
72501355 TTTACTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTTCTTTTTTTCTCT
Found at i:72501363 original size:10 final size:9
Alignment explanation
Indices: 72501313--72501355 Score: 61
Period size: 10 Copynumber: 4.7 Consensus size: 9
72501303 TCCATTTTTC
72501313 TTTTTTC-T
1 TTTTTTCTT
72501321 TTTTTTCTCT
1 TTTTTTCT-T
72501331 TTTTTTCTT
1 TTTTTTCTT
72501340 TTTTTCTCTT
1 TTTTT-TCTT
72501350 TTTTTT
1 TTTTTT
72501356 TTACTTTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 7 0.22
9 7 0.22
10 18 0.56
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:72507949 original size:19 final size:19
Alignment explanation
Indices: 72507902--72507962 Score: 99
Period size: 19 Copynumber: 3.3 Consensus size: 19
72507892 CATATCATAT
72507902 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
72507921 --TATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
*
72507938 CATATCACATCTAAGATTG
1 CATATCATATCTAAGATTG
72507957 CATATC
1 CATATC
72507963 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
17 17 0.44
19 22 0.56
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:72512143 original size:32 final size:32
Alignment explanation
Indices: 72512107--72512266 Score: 248
Period size: 32 Copynumber: 5.0 Consensus size: 32
72512097 TATAACTATG
72512107 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
72512139 CTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* * *
72512171 CTACTTTTTTATATGTGAACCTAATGTATAAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
72512203 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
72512235 CTACTTTTTTATAGGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
72512267 ATTTTTTATG
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 114 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:72521255 original size:30 final size:30
Alignment explanation
Indices: 72521206--72521329 Score: 92
Period size: 30 Copynumber: 3.9 Consensus size: 30
72521196 GGAACTTGAG
* *
72521206 AAGACTCGATATATTATTCATGAGCTTG-GA
1 AAGACTCGATATCTCATTCA-GAGCTTGTGA
*
72521236 AAGACTCGATATCTCATTCAAGATCTTGGGATTGA
1 AAGACTCGATATCTCATTC-AGAGCTT--G--TGA
*
72521271 GAAGAC-CTGATATCTCGTTCAGGAGCTTGTG-
1 -AAGACTC-GATATCTCATTCA-GAGCTTGTGA
*
72521302 AAGACTCGATATCGCATTCAGAAGCTTG
1 AAGACTCGATATCTCATTCAG-AGCTTG
72521330 GGATTGAGAA
Statistics
Matches: 76, Mismatches: 7, Indels: 22
0.72 0.07 0.21
Matches are distributed among these distances:
29 1 0.01
30 44 0.58
31 2 0.03
32 3 0.04
34 1 0.01
35 4 0.05
36 21 0.28
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (30 bp):
AAGACTCGATATCTCATTCAGAGCTTGTGA
Found at i:72521307 original size:66 final size:66
Alignment explanation
Indices: 72521201--72521352 Score: 193
Period size: 66 Copynumber: 2.3 Consensus size: 66
72521191 GTTTAGGAAC
* * ** * * *
72521201 TTGAGAAGACTCGATATATTATTCATGAGCTTGGAAAGACTCGATATCTCATTCA-AGATCTTGG
1 TTGAGAAGACTAGATATCTCGTTCAGGAGCTTGGAAAGACTCGATATCGCATTCAGA-AGCTTGG
72521265 GA
65 GA
72521267 TTGAGAAGACCT-GATATCTCGTTCAGGAGCTTGTG-AAGACTCGATATCGCATTCAGAAGCTTG
1 TTGAGAAGA-CTAGATATCTCGTTCAGGAGCTTG-GAAAGACTCGATATCGCATTCAGAAGCTTG
72521330 GGA
64 GGA
72521333 TTGAGAAGACTAGATATCTC
1 TTGAGAAGACTAGATATCTC
72521353 ATTTAGAAGC
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
65 2 0.03
66 70 0.92
67 4 0.05
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (66 bp):
TTGAGAAGACTAGATATCTCGTTCAGGAGCTTGGAAAGACTCGATATCGCATTCAGAAGCTTGGG
A
Found at i:72521361 original size:36 final size:36
Alignment explanation
Indices: 72521236--72521368 Score: 129
Period size: 36 Copynumber: 3.9 Consensus size: 36
72521226 TGAGCTTGGA
*
72521236 AAGACTCGATATCTCATTCA-AGATCTTGGGATTGAG
1 AAGACTCGATATCTCATTCAGA-AGCTTGGGATTGAG
* *
72521272 AAGAC-CTGATATCTCGTTCAGGAGCTT--G--T--G
1 AAGACTC-GATATCTCATTCAGAAGCTTGGGATTGAG
*
72521302 AAGACTCGATATCGCATTCAGAAGCTTGGGATTGAG
1 AAGACTCGATATCTCATTCAGAAGCTTGGGATTGAG
* * *
72521338 AAGACTAGATATCTCATTTAGAAGCATGGGA
1 AAGACTCGATATCTCATTCAGAAGCTTGGGA
72521369 ATATCTTATA
Statistics
Matches: 78, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
30 23 0.29
31 1 0.01
32 2 0.03
34 2 0.03
35 1 0.01
36 49 0.63
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (36 bp):
AAGACTCGATATCTCATTCAGAAGCTTGGGATTGAG
Found at i:72522498 original size:3 final size:3
Alignment explanation
Indices: 72522492--72522527 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
72522482 CTACTACAAC
72522492 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
72522528 ATCTTTTGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:72525463 original size:9 final size:8
Alignment explanation
Indices: 72525446--72525527 Score: 51
Period size: 8 Copynumber: 9.6 Consensus size: 8
72525436 GAATAAATAT
72525446 TAAAATTA
1 TAAAATTA
72525454 TAAAATTTA
1 TAAAA-TTA
72525463 TTTAAAA-TA
1 --TAAAATTA
72525472 TAAAA-TA
1 TAAAATTA
**
72525479 TGAAAAAAA
1 T-AAAATTA
72525488 TAAAATTGA
1 TAAAATT-A
72525497 TATAAATTTA
1 TA-AAA-TTA
*
72525507 TAATATTA
1 TAAAATTA
*
72525515 TAAAAATA
1 TAAAATTA
72525523 TAAAA
1 TAAAA
72525528 AATCTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
7 8 0.13
8 27 0.45
9 12 0.20
10 6 0.10
11 7 0.12
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (8 bp):
TAAAATTA
Found at i:72525467 original size:45 final size:43
Alignment explanation
Indices: 72525389--72525507 Score: 116
Period size: 44 Copynumber: 2.6 Consensus size: 43
72525379 TTTTACCAAT
*
72525389 AAAAATATTAAGAAATCATAAAAATTTTATTTAAAGATAAAAAA-ATAG
1 AAAAATATT-A-AAATTAT-AAAA-TTTATTTAAA-ATAAAAAATAT-G
*
72525437 AATAAATATTAAAATTATAAAATTTATTTAAAATATAAAATATG
1 AA-AAATATTAAAATTATAAAATTTATTTAAAATAAAAAATATG
*
72525481 AAAAA-AATAAAATTGATATAAATTTAT
1 AAAAATATTAAAATT-ATA-AAATTTAT
72525508 AATATTATAA
Statistics
Matches: 64, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
42 8 0.12
43 6 0.09
44 18 0.28
45 12 0.19
46 4 0.06
47 6 0.09
48 3 0.05
49 7 0.11
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (43 bp):
AAAAATATTAAAATTATAAAATTTATTTAAAATAAAAAATATG
Found at i:72525571 original size:35 final size:35
Alignment explanation
Indices: 72525453--72525571 Score: 89
Period size: 38 Copynumber: 3.3 Consensus size: 35
72525443 TATTAAAATT
* * * *
72525453 ATAAAATTTATTTAAAAT-ATAAAATATGAAAAAA
1 ATAAAATTAATATAAACTAATAAATTATGAAAAAA
* * *
72525487 ATAAAATTGATATAAATTTATAATATTAT-AAAAATA
1 ATAAAATTAATATAAACTAATAA-ATTATGAAAAA-A
* ** *
72525523 TAAAAAATCTAATATATCCTAATAAATTATGAAAAAC
1 -ATAAAAT-TAATATAAACTAATAAATTATGAAAAAA
72525560 ATAAAATTAATA
1 ATAAAATTAATA
72525572 AAATATATTT
Statistics
Matches: 67, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
34 15 0.22
35 14 0.21
36 11 0.16
37 11 0.16
38 16 0.24
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (35 bp):
ATAAAATTAATATAAACTAATAAATTATGAAAAAA
Found at i:72525605 original size:22 final size:22
Alignment explanation
Indices: 72525571--72525640 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
72525561 TAAAATTAAT
*
72525571 AAAATATATTTAAAATTTTATAA
1 AAAAAATA-TTAAAATTTTATAA
*
72525594 AAAAAATATTAAAATTCTATAA
1 AAAAAATATTAAAATTTTATAA
* *
72525616 AAAAAATCATGAAAATATTA-AA
1 AAAAAAT-ATTAAAATTTTATAA
72525638 AAA
1 AAA
72525641 TTGTAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
22 25 0.61
23 16 0.39
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (22 bp):
AAAAAATATTAAAATTTTATAA
Found at i:72525640 original size:10 final size:10
Alignment explanation
Indices: 72525627--72525669 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
72525617 AAAAATCATG
72525627 AAAATATTAA
1 AAAATATTAA
72525637 AAAAT-TGTAA
1 AAAATAT-TAA
72525647 AAAATTATT-A
1 AAAA-TATTAA
72525657 AAAATATTAA
1 AAAATATTAA
72525667 AAA
1 AAA
72525670 TGATATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 5 0.17
10 21 0.72
11 2 0.07
12 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (10 bp):
AAAATATTAA
Found at i:72525679 original size:31 final size:29
Alignment explanation
Indices: 72525595--72525680 Score: 75
Period size: 31 Copynumber: 2.8 Consensus size: 29
72525585 ATTTTATAAA
* *
72525595 AAAAATATTAAAATTCTATAAAAAAAATCAT
1 AAAAATATTAAAA--ATATATAAAAAATCAT
* * *
72525626 GAAAATATTAAAAA-ATTGTAAAAAATTATT
1 AAAAATATTAAAAATA-TATAAAAAATCA-T
72525656 AAAAATATTAAAAATGATATAAAAA
1 AAAAATATTAAAAAT-ATATAAAAA
72525681 TATAATGTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
28 1 0.02
29 9 0.20
30 14 0.32
31 19 0.43
32 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.29
Consensus pattern (29 bp):
AAAAATATTAAAAATATATAAAAAATCAT
Found at i:72525680 original size:21 final size:21
Alignment explanation
Indices: 72525560--72525684 Score: 64
Period size: 20 Copynumber: 6.0 Consensus size: 21
72525550 TATGAAAAAC
* *
72525560 ATAAAATTA-ATAAAATATAT
1 ATAAAAATATATAAAAAATAT
* * * *
72525580 TTAAAATTTTATAAAAAAAAT
1 ATAAAAATATATAAAAAATAT
* * *
72525601 ATTAAAATTCTATAAAAAAAAT
1 A-TAAAAATATATAAAAAATAT
*
72525623 CATGAAAATAT-TAAAAAAT-T
1 -ATAAAAATATATAAAAAATAT
* *
72525643 GTAAAAA-ATTATTAAAAATAT
1 ATAAAAATA-TATAAAAAATAT
72525664 -TAAAAATGATAT-AAAAATAT
1 ATAAAAAT-ATATAAAAAATAT
72525684 A
1 A
72525685 ATGTTAAAAG
Statistics
Matches: 83, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
18 1 0.01
19 6 0.07
20 29 0.35
21 20 0.24
22 26 0.31
23 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAAAAATATATAAAAAATAT
Found at i:72526230 original size:21 final size:22
Alignment explanation
Indices: 72526205--72526267 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 22
72526195 TCAAGAATTC
72526205 TAATATGTTTTTATAAATTTTA
1 TAATATGTTTTTATAAATTTTA
* * *
72526227 -AATACG-CTTTATTAATTTTA
1 TAATATGTTTTTATAAATTTTA
* *
72526247 TAATTTTTTTTTATAATATTT
1 TAATATGTTTTTATAA-ATTT
72526268 ATAGGTTTAT
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
20 12 0.40
21 8 0.27
22 6 0.20
23 4 0.13
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (22 bp):
TAATATGTTTTTATAAATTTTA
Found at i:72526349 original size:17 final size:17
Alignment explanation
Indices: 72526327--72526359 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
72526317 TTTTTTTTAT
72526327 AATTTTTCTAA-GTTTTG
1 AATTTTT-TAATGTTTTG
72526344 AATTTTTTAATGTTTT
1 AATTTTTTAATGTTTT
72526360 TTAATCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.24, C:0.03, G:0.09, T:0.64
Consensus pattern (17 bp):
AATTTTTTAATGTTTTG
Found at i:72528922 original size:2 final size:2
Alignment explanation
Indices: 72528915--72528941 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
72528905 ATGAAAAATG
72528915 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
72528942 AAGGACATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:72529586 original size:18 final size:19
Alignment explanation
Indices: 72529547--72529598 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
72529537 ATTTAACTAT
72529547 TAAATAAAAAAATTAAATAAA
1 TAAA-AAAAAAA-TAAATAAA
**
72529568 TAATTAAAAAATAAA-AAA
1 TAAAAAAAAAATAAATAAA
72529586 TAAAAAAAAAATA
1 TAAAAAAAAAATA
72529599 TTAAGCCAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 14 0.52
19 4 0.15
20 6 0.22
21 3 0.11
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (19 bp):
TAAAAAAAAAATAAATAAA
Found at i:72529601 original size:28 final size:28
Alignment explanation
Indices: 72529548--72529602 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
72529538 TTTAACTATT
** *
72529548 AAATAAAAAAATTAAATAAATAATTAAA
1 AAATAAAAAAAAAAAAAAAATAATTAAA
72529576 AAATAAAAAATAAAAAAAAAAT-ATTAA
1 AAATAAAAAA-AAAAAAAAAATAATTAA
72529603 GCCAGTTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (28 bp):
AAATAAAAAAAAAAAAAAAATAATTAAA
Found at i:72537503 original size:16 final size:16
Alignment explanation
Indices: 72537482--72537518 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
72537472 TTGGTTCGCT
72537482 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
72537498 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
72537514 GTAAT
1 GTAAT
72537519 AGGTAATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:72537587 original size:44 final size:46
Alignment explanation
Indices: 72537498--72537588 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
72537488 GAATAGAGGC
*
72537498 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
72537544 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
72537588 G
1 G
72537589 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 20 0.45
45 3 0.07
46 21 0.48
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:72537589 original size:39 final size:44
Alignment explanation
Indices: 72537498--72537605 Score: 145
Period size: 46 Copynumber: 2.5 Consensus size: 44
72537488 GAATAGAGGC
*
72537498 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
72537544 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
*
72537584 G-AATGGAATAGAGGTGTAATAG
1 GTAATGGAATAGAGGCGTAATAG
72537606 CATAAGGAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
39 18 0.31
40 3 0.05
43 1 0.02
44 13 0.22
45 3 0.05
46 21 0.36
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:72537767 original size:15 final size:15
Alignment explanation
Indices: 72537747--72537785 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
72537737 CATAATTGTT
72537747 ATAAAATATAATTTA
1 ATAAAATATAATTTA
72537762 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
72537779 ATAAAAT
1 ATAAAAT
72537786 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:72537792 original size:17 final size:17
Alignment explanation
Indices: 72537752--72537785 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
72537742 TTGTTATAAA
72537752 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
72537769 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
72537786 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:72537857 original size:20 final size:21
Alignment explanation
Indices: 72537818--72537857 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
72537808 AATTTACTAA
*
72537818 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
72537839 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
72537858 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:72537870 original size:26 final size:28
Alignment explanation
Indices: 72537864--72538012 Score: 105
Period size: 28 Copynumber: 5.5 Consensus size: 28
72537854 AATAATTATT
72537864 ATTAAATATAATTTAATAATAATAAATA
1 ATTAAATATAATTTAATAATAATAAATA
* * ** *
72537892 ATTAAATAAAATTCT--TATTCTTATATGA
1 ATTAAATATAATT-TAATAATAATAAAT-A
* * *
72537920 ATTTACTA-AAATT-ATAAT-ATATAATA
1 ATTAAATATAATTTAATAATAATA-AATA
* * * *
72537946 CTAAAATATAATTTAA-AATAAT-TATT
1 ATTAAATATAATTTAATAATAATAAATA
72537972 ATTAAATATAATTTAATAATAATAAATA
1 ATTAAATATAATTTAATAATAATAAATA
*
72538000 ATTAAATAAAATT
1 ATTAAATATAATT
72538013 CTTATTCTTA
Statistics
Matches: 89, Mismatches: 23, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
26 24 0.27
27 28 0.31
28 36 0.40
29 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (28 bp):
ATTAAATATAATTTAATAATAATAAATA
Found at i:72537899 original size:54 final size:54
Alignment explanation
Indices: 72537709--72538100 Score: 191
Period size: 54 Copynumber: 7.1 Consensus size: 54
72537699 TATTAATATA
* * * * *
72537709 AATAATAAATAATTTAATCATATTTTAACATAATTGTTATAAAATATAATTTAAT
1 AATAATAAATAATTAAAT-ATAATTTAAAATAATTATTATTAAATATAATTTAAT
* * * * **
72537764 AA-AATATATAATTTAATAAAATTGTTAATAA-ATATTCTTATATAAATTTACTAATAAAAT
1 AATAATAAATAATTAAATATAA-T-TTAA-AATA-ATTATTAT-TAAA--TA-TAATTTAAT
* *
72537824 CATAATATATAATACTAAA-ATATAATTTAAAATAATTATTATTAAATATAATTTAAT
1 AATAATAAATAAT--TAAATAT--AATTTAAAATAATTATTATTAAATATAATTTAAT
* * ** * * *
72537881 AATAATAAATAATTAAATAAAATTCT--TATTCTTA-TATGAATTTACTAAAATT-AT
1 AATAATAAATAATTAAATATAATT-TAAAATAATTATTATTAA-ATA-T-AATTTAAT
* *
72537935 AAT-ATATAATACTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
1 AATAATA-AATAATTAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
* * ** * * *
72537989 AATAATAAATAATTAAATAAAATTCT--TATTCTTATATGAATTTACTAAAATTATAAT
1 AATAATAAATAATTAAATATAATT-TAAAATAATTAT-T--ATTAAATATAATT-TAAT
* *
72538046 ATATAAT-ACT-ATAAAATATAATTT-AAATAATTATTATTAAATATAATTT-AT
1 A-ATAATAAATAATTAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
72538097 AATA
1 AATA
72538101 TACTTTATTA
Statistics
Matches: 255, Mismatches: 50, Indels: 69
0.68 0.13 0.18
Matches are distributed among these distances:
50 3 0.01
51 3 0.01
52 6 0.02
53 33 0.13
54 60 0.24
55 29 0.11
56 41 0.16
57 28 0.11
58 7 0.03
59 2 0.01
60 12 0.05
61 19 0.07
62 6 0.02
63 4 0.02
64 2 0.01
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.43
Consensus pattern (54 bp):
AATAATAAATAATTAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
Found at i:72537947 original size:108 final size:108
Alignment explanation
Indices: 72537796--72538100 Score: 533
Period size: 108 Copynumber: 2.8 Consensus size: 108
72537786 TGTTAATAAA
* *
72537796 TATTCTTATATAAATTTACTAATAAAATCATAATATATAATACTAAAATATAATTTAAAATAATT
1 TATTCTTATATGAATTTAC---TAAAATTATAATATATAATACTAAAATATAATTTAAAATAATT
72537861 ATTATTAAATATAATTTAATAATAATAAATAATTAAATAAAATTCT
63 ATTATTAAATATAATTTAATAATAATAAATAATTAAATAAAATTCT
72537907 TATTCTTATATGAATTTACTAAAATTATAATATATAATACTAAAATATAATTTAAAATAATTATT
1 TATTCTTATATGAATTTACTAAAATTATAATATATAATACTAAAATATAATTTAAAATAATTATT
72537972 ATTAAATATAATTTAATAATAATAAATAATTAAATAAAATTCT
66 ATTAAATATAATTTAATAATAATAAATAATTAAATAAAATTCT
72538015 TATTCTTATATGAATTTACTAAAATTATAATATATAATACTATAAAATATAATTT-AAATAATTA
1 TATTCTTATATGAATTTACTAAAATTATAATATATAATAC--TAAAATATAATTTAAAATAATTA
72538079 TTATTAAATATAATTT-ATAATA
64 TTATTAAATATAATTTAATAATA
72538101 TACTTTATTA
Statistics
Matches: 190, Mismatches: 2, Indels: 7
0.95 0.01 0.04
Matches are distributed among these distances:
108 134 0.71
109 25 0.13
110 13 0.07
111 18 0.09
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (108 bp):
TATTCTTATATGAATTTACTAAAATTATAATATATAATACTAAAATATAATTTAAAATAATTATT
ATTAAATATAATTTAATAATAATAAATAATTAAATAAAATTCT
Found at i:72537965 original size:20 final size:21
Alignment explanation
Indices: 72537923--72537965 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
72537913 TATATGAATT
*
72537923 TACTAAAATTATAATATATAA
1 TACTAAAATTATAATATAAAA
*
72537944 TACTAAAA-TATAATTTAAAA
1 TACTAAAATTATAATATAAAA
72537964 TA
1 TA
72537966 ATTATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (21 bp):
TACTAAAATTATAATATAAAA
Found at i:72539532 original size:49 final size:49
Alignment explanation
Indices: 72539460--72539562 Score: 143
Period size: 49 Copynumber: 2.1 Consensus size: 49
72539450 AAAAAAAAAC
* * ** * *
72539460 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
*
72539509 AAATTAAAATTGAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
72539558 AAATT
1 AAATT
72539563 GAGTTCAATA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
Found at i:72540001 original size:12 final size:12
Alignment explanation
Indices: 72539977--72540010 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
72539967 CCGCATTTTA
72539977 AGCAAAAGAACG
1 AGCAAAAGAACG
* *
72539989 AGCCAAAGCACG
1 AGCAAAAGAACG
72540001 AGCAAAAGAA
1 AGCAAAAGAA
72540011 AATAAATAAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.56, C:0.21, G:0.24, T:0.00
Consensus pattern (12 bp):
AGCAAAAGAACG
Found at i:72541953 original size:13 final size:13
Alignment explanation
Indices: 72541935--72541959 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72541925 AACATTCGGC
72541935 CGGTGGGAATAAT
1 CGGTGGGAATAAT
72541948 CGGTGGGAATAA
1 CGGTGGGAATAA
72541960 ACAAATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.40, T:0.20
Consensus pattern (13 bp):
CGGTGGGAATAAT
Found at i:72544947 original size:22 final size:21
Alignment explanation
Indices: 72544913--72544974 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 21
72544903 AAATTAATAA
*
72544913 GAAAAAAATATAAATTAAAATG
1 GAAAGAAA-ATAAATTAAAATG
*
72544935 GAAAGAAAGAT-AATTTAAATG
1 GAAAGAAA-ATAAATTAAAATG
* *
72544956 AAAAGAGAAAAAAATTAAA
1 GAAAGA-AAATAAATTAAA
72544975 TTTAAATGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 15 0.47
22 17 0.53
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (21 bp):
GAAAGAAAATAAATTAAAATG
Found at i:72544965 original size:27 final size:27
Alignment explanation
Indices: 72544946--72545076 Score: 107
Period size: 27 Copynumber: 5.1 Consensus size: 27
72544936 AAAGAAAGAT
72544946 AATTTAAATGAAAAGAGAAAAAAATTA
1 AATTTAAATGAAAAGAGAAAAAAATTA
* * *
72544973 AATTTAAATGGAATGAGAAAAACATTA
1 AATTTAAATGAAAAGAGAAAAAAATTA
* *
72545000 AATTTAAATG----G-GAAGATAGA-TA
1 AATTTAAATGAAAAGAGAA-AAAAATTA
* *
72545022 AA-TTAAATGAAATGACAAAAAAA-TA
1 AATTTAAATGAAAAGAGAAAAAAATTA
* *
72545047 AACTTAAATGAAATGAGAAAAAAAATTA
1 AATTTAAATGAAAAGAG-AAAAAAATTA
72545075 AA
1 AA
72545077 ATGGGAAGAA
Statistics
Matches: 86, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
21 7 0.08
22 7 0.08
23 4 0.05
25 8 0.09
26 15 0.17
27 41 0.48
28 4 0.05
ACGTcount: A:0.62, C:0.02, G:0.13, T:0.23
Consensus pattern (27 bp):
AATTTAAATGAAAAGAGAAAAAAATTA
Found at i:72545002 original size:75 final size:74
Alignment explanation
Indices: 72544915--72545127 Score: 281
Period size: 75 Copynumber: 2.9 Consensus size: 74
72544905 ATTAATAAGA
* *
72544915 AAAAAATATAAATTAAAATGGAAAGAAAGATAATTTAAATGAAAAGAGAAAAAAATTAAATTTAA
1 AAAAAAT-TAAATTAAAATGGGAAGAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTTAA
*
72544980 ATGGAATGAG
65 ATGAAATGAG
* * * * *
72544990 AAAAACATTAAATTTAAATGGGAAGATAGATAAATTAAATGAAATGACAAAAAAA-TAAACTTAA
1 AAAAA-ATTAAATTAAAATGGGAAGAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTTAA
72545054 ATGAAATGAG
65 ATGAAATGAG
* *
72545064 -AAAAA--AAATTAAAATGGGAAGAAAGATAATATAAATGAATTGAGGAAAAAAATTAAATTTAA
1 AAAAAATTAAATTAAAATGGGAAGAAAGATAATTTAAATGAAATGA-GAAAAAAATTAAATTTAA
72545126 AT
65 AT
72545128 TAAAAAATAA
Statistics
Matches: 120, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
70 33 0.28
71 7 0.06
72 11 0.09
73 4 0.03
74 17 0.14
75 46 0.38
76 2 0.02
ACGTcount: A:0.62, C:0.01, G:0.14, T:0.23
Consensus pattern (74 bp):
AAAAAATTAAATTAAAATGGGAAGAAAGATAATTTAAATGAAATGAGAAAAAAATTAAATTTAAA
TGAAATGAG
Found at i:72545053 original size:26 final size:25
Alignment explanation
Indices: 72545019--72545070 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 25
72545009 GGGAAGATAG
72545019 ATAAATTAAATGAAATGACAAAAAA
1 ATAAATTAAATGAAATGACAAAAAA
*
72545044 ATAAACTTAAATGAAATGAGAAAAAA
1 ATAAA-TTAAATGAAATGACAAAAAA
72545070 A
1 A
72545071 ATTAAAATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.67, C:0.04, G:0.10, T:0.19
Consensus pattern (25 bp):
ATAAATTAAATGAAATGACAAAAAA
Found at i:72545099 original size:44 final size:44
Alignment explanation
Indices: 72545051--72545214 Score: 161
Period size: 45 Copynumber: 3.6 Consensus size: 44
72545041 AAAATAAACT
72545051 TAAATGAAATGAGAAAAAAAATTAAAATGGGAAGAAAGATAATA
1 TAAATGAAATGAGAAAAAAAATTAAAATGGGAAGAAAGATAATA
* * *** * *
72545095 TAAATGAATTGAGGAAAAAAATT-AAATTTAAATTAAAAAATAATA
1 TAAATGAAATGAGAAAAAAAATTAAAATGGGAA--GAAAGATAATA
*
72545140 TAAATGAAATGAGAAAAAATTTAAATTAAAATGGGAAGATAGATAA-A
1 TAAATGAAATGAG-AAAAA---AAATTAAAATGGGAAGAAAGATAATA
*
72545187 TTAAATGAAATGAGAAAATTAAATTAAA
1 -TAAATGAAATGAGAAAA-AAAATTAAA
72545215 TTTAAATGGA
Statistics
Matches: 95, Mismatches: 16, Indels: 17
0.74 0.12 0.13
Matches are distributed among these distances:
43 6 0.06
44 21 0.22
45 29 0.31
46 4 0.04
47 5 0.05
48 19 0.20
49 5 0.05
50 6 0.06
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (44 bp):
TAAATGAAATGAGAAAAAAAATTAAAATGGGAAGAAAGATAATA
Found at i:72545138 original size:45 final size:44
Alignment explanation
Indices: 72544912--72545242 Score: 172
Period size: 48 Copynumber: 7.0 Consensus size: 44
72544902 AAAATTAATA
* * *
72544912 AGAAAAAAATATAAATTAAAATGGAAAGAAAGATAATTTAAATGAAAAG
1 AGAAAAAAAT-TAAATTTAAAT-G-AA-AAA-ATAATATAAATGAAATG
* *
72544961 AGAAAAAAATTAAATTTAAATGGAATGAGAAA-AACATTAAATTTAAATGGG
1 AGAAAAAAATTAAATTTAAAT-GAA--A-AAATAATA-TAAA-TGAAAT--G
* *
72545012 AAGATAGATAAATTAAA-TGAAATGACAAAAA-AATAAACTTAAATGAAATG
1 -AGA-A-AAAAATTAAATTTAAATGA-AAAAATAAT--A--TAAATGAAATG
*** * *
72545062 AGAAAAAAAATTAAAATGGGAA-G-AAAGATAATATAAATGAATTG
1 AG-AAAAAAATT-AAATTTAAATGAAAAAATAATATAAATGAAATG
*
72545106 AGGAAAAAAATTAAATTTAAATTAAAAAATAATATAAATGAAATG
1 A-GAAAAAAATTAAATTTAAATGAAAAAATAATATAAATGAAATG
* * *
72545151 AGAAAAAATTTAAATTAAAATGGGAAGATAGATAA-ATTAAATGAAATG
1 AGAAAAAAATTAAATTTAAAT--GAA-A-AAATAATA-TAAATGAAATG
* *
72545199 AGAAAATTAAATTAAATTTAAATGGAAAAA-AATATAAATTAAAT
1 AGAAAA--AAATTAAATTTAAATGAAAAAATAATATAAATGAAAT
72545243 AAAATGGAAA
Statistics
Matches: 225, Mismatches: 29, Indels: 60
0.72 0.09 0.19
Matches are distributed among these distances:
43 6 0.03
44 38 0.17
45 32 0.14
46 6 0.03
47 11 0.05
48 52 0.23
49 23 0.10
50 23 0.10
51 2 0.01
52 11 0.05
53 12 0.05
54 9 0.04
ACGTcount: A:0.62, C:0.01, G:0.13, T:0.24
Consensus pattern (44 bp):
AGAAAAAAATTAAATTTAAATGAAAAAATAATATAAATGAAATG
Found at i:72545172 original size:22 final size:22
Alignment explanation
Indices: 72545108--72545241 Score: 60
Period size: 22 Copynumber: 5.8 Consensus size: 22
72545098 ATGAATTGAG
* * *
72545108 GAAAAAAATTAAATTTAAATTA
1 GAAAAAATTTAAATTAAAATGA
* * *
72545130 AAAAATAATATAAA-TGAAATGA
1 GAAAA-AATTTAAATTAAAATGA
72545152 GAAAAAATTTAAATTAAAATGGGAA
1 GAAAAAATTTAAATTAAAAT--G-A
*
72545177 GATAGATAAA-TTAAA-TGAAATGA
1 GA-A-A-AAATTTAAATTAAAATGA
* *
72545200 GAAAATTAAATTAAATTTAAATG-
1 GAAAA--AATTTAAATTAAAATGA
*
72545223 GAAAAAAATATAAATTAAA
1 G-AAAAAATTTAAATTAAA
72545242 TAAAATGGAA
Statistics
Matches: 86, Mismatches: 13, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
20 1 0.01
21 8 0.09
22 32 0.37
23 15 0.17
24 12 0.14
25 3 0.03
26 6 0.07
27 6 0.07
28 3 0.03
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (22 bp):
GAAAAAATTTAAATTAAAATGA
Found at i:72545190 original size:27 final size:23
Alignment explanation
Indices: 72545130--72545249 Score: 66
Period size: 26 Copynumber: 5.0 Consensus size: 23
72545120 ATTTAAATTA
* *
72545130 AAAAAT-AATATAAATGAAATGAG
1 AAAAATAAAT-TAAATAAAATGGG
*
72545153 -AAAA-AATTTAAATTAAAATGGG
1 AAAAATAAATTAAA-TAAAATGGG
* *
72545175 AAGATAGATAAATTAAATGAAATGAG
1 AA-A-A-ATAAATTAAATAAAATGGG
* * *
72545201 AAAATTAAATTAAATTTAAATGGAAA
1 AAAAATAAATTAAA-TAAAATGG--G
72545227 AAAATATAAATTAAATAAAATGG
1 AAAA-ATAAATTAAATAAAATGG
72545250 AAATGGAAAT
Statistics
Matches: 74, Mismatches: 12, Indels: 19
0.70 0.11 0.18
Matches are distributed among these distances:
21 4 0.05
22 13 0.18
23 10 0.14
24 8 0.11
25 2 0.03
26 21 0.28
27 16 0.22
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (23 bp):
AAAAATAAATTAAATAAAATGGG
Found at i:72545194 original size:93 final size:88
Alignment explanation
Indices: 72545019--72545242 Score: 256
Period size: 93 Copynumber: 2.4 Consensus size: 88
72545009 GGGAAGATAG
*
72545019 ATAAATTAAA-TGAAATGACAAAAAAATAAACTTAAATGAAATGAGAAAAAAAATTAAAATGGGA
1 ATAAATTAAATTTAAATGA-AAAAAAAT--A--TAAATGAAATGAGAAAAAAAATTAAAATGGGA
*
72545083 AGAAAGATAATATAAATGAATTGAGGAAA
61 AGAAAGATAATATAAATGAAATGA-GAAA
*
72545112 A-AAATTAAATTTAAATTAAAAAATAATATAAATGAAATGAGAAAAAATTTAAATTAAAATGGGA
1 ATAAATTAAATTTAAATGAAAAAA-AATATAAATGAAATGAG-AAAAA---AAATTAAAATGGGA
*
72545176 AGATAGATAA-ATTAAATGAAATGAGAAA
61 AGAAAGATAATA-TAAATGAAATGAGAAA
* *
72545204 ATTAAATTAAATTTAAATGGAAAAAAATATAAATTAAAT
1 A-TAAATTAAATTTAAATGAAAAAAAATATAAATGAAAT
72545243 AAAATGGAAA
Statistics
Matches: 115, Mismatches: 7, Indels: 18
0.82 0.05 0.13
Matches are distributed among these distances:
89 13 0.11
90 5 0.04
91 1 0.01
92 19 0.17
93 57 0.50
94 20 0.17
ACGTcount: A:0.62, C:0.01, G:0.12, T:0.25
Consensus pattern (88 bp):
ATAAATTAAATTTAAATGAAAAAAAATATAAATGAAATGAGAAAAAAAATTAAAATGGGAAGAAA
GATAATATAAATGAAATGAGAAA
Found at i:72545231 original size:16 final size:17
Alignment explanation
Indices: 72545207--72545300 Score: 67
Period size: 16 Copynumber: 5.8 Consensus size: 17
72545197 TGAGAAAATT
* *
72545207 AAATTAAATTTAAATGG
1 AAATAAAATTGAAATGG
*
72545224 AAA-AAAATAT-AAAT-T
1 AAATAAAAT-TGAAATGG
*
72545239 AAATAAAATGGAAATGG
1 AAATAAAATTGAAATGG
72545256 AAATAAAA-TGAAATGG
1 AAATAAAATTGAAATGG
*
72545272 AAATTCAAA-TGAAAT-G
1 AAA-TAAAATTGAAATGG
*
72545288 AAATGAAA-TGAAA
1 AAATAAAATTGAAA
72545301 ATTTAAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
15 12 0.18
16 31 0.48
17 22 0.34
ACGTcount: A:0.62, C:0.01, G:0.14, T:0.23
Consensus pattern (17 bp):
AAATAAAATTGAAATGG
Found at i:72545240 original size:32 final size:33
Alignment explanation
Indices: 72545202--72545264 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
72545192 TGAAATGAGA
* **
72545202 AAATTAAATTAAATTTAAATGGAAA-AAAATAT
1 AAATTAAATAAAATGGAAATGGAAATAAAATAT
72545234 AAATTAAATAAAATGGAAATGGAAATAAAAT
1 AAATTAAATAAAATGGAAATGGAAATAAAAT
72545265 GAAATGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 22 0.81
33 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (33 bp):
AAATTAAATAAAATGGAAATGGAAATAAAATAT
Found at i:72545253 original size:22 final size:22
Alignment explanation
Indices: 72545182--72545296 Score: 83
Period size: 22 Copynumber: 5.0 Consensus size: 22
72545172 GGGAAGATAG
72545182 ATAAATTAAATGAAATGAGAAA-
1 ATAAATTAAATGAAATG-GAAAT
*
72545204 ATTAAATTAAATTTAAATGGAAAAAAAT
1 A-TAAATTAAA-TGAAATGG----AAAT
*
72545232 ATAAATTAAATAAAATGGAAAT
1 ATAAATTAAATGAAATGGAAAT
** *
72545254 GGAAATAAAATGAAATGGAAAT
1 ATAAATTAAATGAAATGGAAAT
*
72545276 -TCAAATGAAATGAAAT-GAAAT
1 AT-AAATTAAATGAAATGGAAAT
72545297 GAAAATTTAA
Statistics
Matches: 77, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
21 5 0.06
22 36 0.47
23 10 0.13
24 6 0.08
26 7 0.09
27 12 0.16
28 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.13, T:0.25
Consensus pattern (22 bp):
ATAAATTAAATGAAATGGAAAT
Found at i:72545269 original size:5 final size:5
Alignment explanation
Indices: 72545234--72545300 Score: 62
Period size: 5 Copynumber: 12.6 Consensus size: 5
72545224 AAAAAAATAT
* * * *
72545234 AAATT AAATA AAATGG AAATGG AAATA AAATG AAATGG AAATTC AAATG
1 AAATG AAATG AAAT-G AAAT-G AAATG AAATG AAAT-G AAA-TG AAATG
72545283 AAATG AAATG AAATG AAA
1 AAATG AAATG AAATG AAA
72545301 ATTTAAATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
5 35 0.66
6 17 0.32
7 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.16, T:0.21
Consensus pattern (5 bp):
AAATG
Found at i:72545285 original size:27 final size:28
Alignment explanation
Indices: 72545228--72545308 Score: 85
Period size: 27 Copynumber: 2.9 Consensus size: 28
72545218 AAATGGAAAA
* **
72545228 AAATATAAATTAAAT-AAAATGGAAATGG
1 AAATA-AAATGAAATGAAAATTCAAATGG
*
72545256 AAATAAAATGAAATGGAAATTCAAAT-G
1 AAATAAAATGAAATGAAAATTCAAATGG
* *
72545283 AAATGAAATGAAATGAAAATTTAAAT
1 AAATAAAATGAAATGAAAATTCAAAT
72545309 TTAATTTAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
27 32 0.71
28 13 0.29
ACGTcount: A:0.60, C:0.01, G:0.14, T:0.25
Consensus pattern (28 bp):
AAATAAAATGAAATGAAAATTCAAATGG
Found at i:72545308 original size:22 final size:21
Alignment explanation
Indices: 72545234--72545339 Score: 70
Period size: 22 Copynumber: 4.9 Consensus size: 21
72545224 AAAAAAATAT
* *
72545234 AAATTAAATAAAATGGAAATGG
1 AAATTAAATGAAAT-GAAATGA
* **
72545256 AAATAAAATGAAATGGAAATTC
1 AAATTAAATGAAAT-GAAATGA
*
72545278 AAATGAAATGAAATGAAATGA
1 AAATTAAATGAAATGAAATGA
* * * *
72545299 AAATTTAAATTTAATTTAATTG-
1 AAA-TTAAA-TGAAATGAAATGA
72545321 AAATTGAAATGAAATGAAA
1 AAATT-AAATGAAATGAAA
72545340 AAAAAAAATG
Statistics
Matches: 65, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
21 16 0.25
22 41 0.63
23 8 0.12
ACGTcount: A:0.58, C:0.01, G:0.14, T:0.27
Consensus pattern (21 bp):
AAATTAAATGAAATGAAATGA
Found at i:72545325 original size:11 final size:11
Alignment explanation
Indices: 72545234--72545339 Score: 60
Period size: 11 Copynumber: 9.8 Consensus size: 11
72545224 AAAAAAATAT
*
72545234 AAATT-AAATA
1 AAATTGAAATG
*
72545244 AAATGGAAATGG
1 AAATTGAAAT-G
*
72545256 AAA-TAAAATG
1 AAATTGAAATG
* *
72545266 AAATGGAAATTC
1 AAATTGAAA-TG
72545278 AAA-TGAAATG
1 AAATTGAAATG
72545288 AAA-TGAAATG
1 AAATTGAAATG
* *
72545298 AAAATTTAAATT
1 -AAATTGAAATG
* * *
72545310 TAATTTAATTG
1 AAATTGAAATG
72545321 AAATTGAAATG
1 AAATTGAAATG
72545332 AAA-TGAAA
1 AAATTGAAA
72545340 AAAAAAAATG
Statistics
Matches: 73, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
10 24 0.33
11 37 0.51
12 12 0.16
ACGTcount: A:0.58, C:0.01, G:0.14, T:0.27
Consensus pattern (11 bp):
AAATTGAAATG
Found at i:72545853 original size:21 final size:20
Alignment explanation
Indices: 72545774--72545884 Score: 83
Period size: 18 Copynumber: 5.7 Consensus size: 20
72545764 ATAAAAGTTT
*
72545774 AAATGAAAATAAATTATAAATTT
1 AAATGAAAAT-AA--ATAAATTG
* *
72545797 AAATGAAAATAAAT--ACTA
1 AAATGAAAATAAATAAATTG
72545815 AAATGAAAA-AAA-AAATTG
1 AAATGAAAATAAATAAATTG
72545833 AAATGATAAATAAATAAATTG
1 AAATGA-AAATAAATAAATTG
* *
72545854 AAATGGAAAAT--TTAAATTT
1 AAAT-GAAAATAAATAAATTG
72545873 AAATG-AAATAAA
1 AAATGAAAATAAA
72545885 ATGTAAATGA
Statistics
Matches: 73, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
17 7 0.10
18 20 0.27
19 13 0.18
20 5 0.07
21 14 0.19
22 4 0.05
23 10 0.14
ACGTcount: A:0.64, C:0.01, G:0.08, T:0.27
Consensus pattern (20 bp):
AAATGAAAATAAATAAATTG
Found at i:72545864 original size:34 final size:35
Alignment explanation
Indices: 72545826--72545893 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
72545816 AATGAAAAAA
*
72545826 AAAATTGAAATGATAAAT-AAATAAATTG-AAATGG
1 AAAATTGAAAT-ATAAATGAAATAAAATGTAAATGG
* *
72545860 AAAATTTAAATTTAAATGAAATAAAATGTAAATG
1 AAAATTGAAATATAAATGAAATAAAATGTAAATG
72545894 AAATGAAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 5 0.17
34 19 0.66
35 5 0.17
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (35 bp):
AAAATTGAAATATAAATGAAATAAAATGTAAATGG
Found at i:72545897 original size:5 final size:5
Alignment explanation
Indices: 72545873--72545924 Score: 50
Period size: 5 Copynumber: 9.6 Consensus size: 5
72545863 ATTTAAATTT
* *
72545873 AAATG AAATA AAATG TAAATG AAATG AAATGG AAATTC AAATAG AAATG
1 AAATG AAATG AAATG -AAATG AAATG AAAT-G AAA-TG AAAT-G AAATG
72545922 AAA
1 AAA
72545925 CAAAAAACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 22 0.56
6 16 0.41
7 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.15, T:0.21
Consensus pattern (5 bp):
AAATG
Found at i:72545897 original size:16 final size:16
Alignment explanation
Indices: 72545867--72545908 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
72545857 TGGAAAATTT
*
72545867 AAATTTAAATGAAATA
1 AAATGTAAATGAAATA
*
72545883 AAATGTAAATGAAATG
1 AAATGTAAATGAAATA
*
72545899 AAATGGAAAT
1 AAATGTAAAT
72545909 TCAAATAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (16 bp):
AAATGTAAATGAAATA
Found at i:72566264 original size:6 final size:6
Alignment explanation
Indices: 72566253--72566283 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
72566243 CTGCTTAGCT
72566253 GGTGCC GGTGCC GGTGCC GGTGCC GGTGCC G
1 GGTGCC GGTGCC GGTGCC GGTGCC GGTGCC G
72566284 ATTGAGGCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.52, T:0.16
Consensus pattern (6 bp):
GGTGCC
Found at i:72567422 original size:11 final size:10
Alignment explanation
Indices: 72567401--72567434 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
72567391 TTAATATTTT
72567401 AAAATTATAA
1 AAAATTATAA
72567411 AAAATATATAA
1 AAAAT-TATAA
*
72567422 AAAATTTTAA
1 AAAATTATAA
72567432 AAA
1 AAA
72567435 TATATTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAATTATAA
Found at i:72567424 original size:20 final size:20
Alignment explanation
Indices: 72567401--72567439 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
72567391 TTAATATTTT
72567401 AAAATTATAAAAAATATATAA
1 AAAATT-TAAAAAATATATAA
*
72567422 AAAATTTTAAAAATATAT
1 AAAATTTAAAAAATATAT
72567440 TATATATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATTTAAAAAATATATAA
Found at i:72567481 original size:10 final size:9
Alignment explanation
Indices: 72567455--72567480 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
72567445 ATTATATATA
72567455 TTTTAAAAT
1 TTTTAAAAT
72567464 TTTTAAAAT
1 TTTTAAAAT
72567473 TTTTAAAA
1 TTTTAAAA
72567481 AATAATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:72569086 original size:25 final size:25
Alignment explanation
Indices: 72569026--72569143 Score: 78
Period size: 25 Copynumber: 4.8 Consensus size: 25
72569016 CCCTTTCTCA
* **
72569026 AGCCTTATAACGGGAAGCTCATGTG
1 AGCCATATAACGGGAAGCTCATCCG
* *
72569051 AGCCATGTAACGGGAAGCTTATCCG
1 AGCCATATAACGGGAAGCTCATCCG
* * ** **
72569076 GGCTATATAACAAGAAGCTCATAAG
1 AGCCATATAACGGGAAGCTCATCCG
* * *
72569101 AGCCATA-ATCAGGAAGCTCATGCG
1 AGCCATATAACGGGAAGCTCATCCG
* *
72569125 AGCCA-ATAATGGGTAGCTC
1 AGCCATATAACGGGAAGCTC
72569144 CAAAAAGCCA
Statistics
Matches: 69, Mismatches: 23, Indels: 3
0.73 0.24 0.03
Matches are distributed among these distances:
23 1 0.01
24 26 0.38
25 42 0.61
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.20
Consensus pattern (25 bp):
AGCCATATAACGGGAAGCTCATCCG
Found at i:72569249 original size:26 final size:25
Alignment explanation
Indices: 72569218--72569278 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
72569208 GGAAGCTTCG
72569218 GAGAGCCATTAA-TCAAGAAGCTCAC
1 GAGAGCCATTAAGT-AAGAAGCTCAC
* *
72569243 AGAGAGCCTTTAAGTAGGAAGCTCAC
1 -GAGAGCCATTAAGTAAGAAGCTCAC
72569269 GAAGAGCCAT
1 G-AGAGCCAT
72569279 ATATCGGGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 1 0.03
26 28 0.93
27 1 0.03
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (25 bp):
GAGAGCCATTAAGTAAGAAGCTCAC
Found at i:72570131 original size:39 final size:39
Alignment explanation
Indices: 72570088--72570172 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
72570078 CGAAATCTAG
**
72570088 CTGAAGCACATAAGTGGTAAACGGAAGCCCGGAGGCTAA
1 CTGAAGCACATAAGTACTAAACGGAAGCCCGGAGGCTAA
*
72570127 CTGAAGCACATAAGTACTAAACGGGAGCCCGGAGGCTAA
1 CTGAAGCACATAAGTACTAAACGGAAGCCCGGAGGCTAA
72570166 CTGAAGC
1 CTGAAGC
72570173 TCATTAGAGC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.35, C:0.22, G:0.29, T:0.13
Consensus pattern (39 bp):
CTGAAGCACATAAGTACTAAACGGAAGCCCGGAGGCTAA
Found at i:72572631 original size:21 final size:20
Alignment explanation
Indices: 72572607--72572650 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
72572597 TAAATTTAAC
* *
72572607 TCAATTTAATACAATTCATAT
1 TCAATTCAATACAATACA-AT
*
72572628 TCAATTCAATCCAATACAAT
1 TCAATTCAATACAATACAAT
72572648 TCA
1 TCA
72572651 CGTCTTAGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.36
Consensus pattern (20 bp):
TCAATTCAATACAATACAAT
Found at i:72586704 original size:3 final size:3
Alignment explanation
Indices: 72586696--72586730 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
72586686 AAACAGCGAA
*
72586696 AAG AAG AAG AAG AGG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
72586731 AATTCTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:72594996 original size:30 final size:30
Alignment explanation
Indices: 72594960--72595018 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
72594950 TTTAGCTTTA
72594960 AAAATTTATAAAAT-AGTCATTAAACTATTC
1 AAAATTT-TAAAATAAGTCATTAAACTATTC
* * *
72594990 AAAATTTTTAATTAAGTCATTAAGCTATT
1 AAAATTTTAAAATAAGTCATTAAACTATT
72595019 AAATATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (30 bp):
AAAATTTTAAAATAAGTCATTAAACTATTC
Found at i:72600168 original size:64 final size:64
Alignment explanation
Indices: 72600067--72600192 Score: 234
Period size: 64 Copynumber: 2.0 Consensus size: 64
72600057 ATCTTTAAAG
*
72600067 TTTTATTCTATAATTTAAGTTAAACAAATAATCAATTCAATCAATTCAACATAAAGTGGGGAAA
1 TTTTATTCTATAATTTAAGATAAACAAATAATCAATTCAATCAATTCAACATAAAGTGGGGAAA
*
72600131 TTTTATTCTATAATTTAAGATAAATAAATAATCAATTCAATCAATTCAACATAAAGTGGGGA
1 TTTTATTCTATAATTTAAGATAAACAAATAATCAATTCAATCAATTCAACATAAAGTGGGGA
72600193 TGGATGATTC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (64 bp):
TTTTATTCTATAATTTAAGATAAACAAATAATCAATTCAATCAATTCAACATAAAGTGGGGAAA
Found at i:72600212 original size:2 final size:2
Alignment explanation
Indices: 72600205--72600248 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
72600195 GATGATTCTA
* *
72600205 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72600247 AT
1 AT
72600249 TAAAAGTCGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:72601596 original size:24 final size:24
Alignment explanation
Indices: 72601568--72601617 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
72601558 AATCTTATGT
72601568 TAGCAAGAAAGTTTAGTTTAAAAC
1 TAGCAAGAAAGTTTAGTTTAAAAC
72601592 TAGCAAGAAAGTTTAGTTTAAAAC
1 TAGCAAGAAAGTTTAGTTTAAAAC
72601616 TA
1 TA
72601618 CTTCTTGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (24 bp):
TAGCAAGAAAGTTTAGTTTAAAAC
Found at i:72605186 original size:30 final size:30
Alignment explanation
Indices: 72605143--72605201 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
72605133 GGAGGTGAGA
72605143 TGGGAAGGAAGTAAAAATTTTAGGGGGAAAG
1 TGGGAAGGAAGTAAAAATTTT-GGGGGAAAG
*
72605174 TGGG-AGGGAGTAAAAATTTTGGGGGAAA
1 TGGGAAGGAAGTAAAAATTTTGGGGGAAA
72605202 ATGAAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.30
30 15 0.56
31 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (30 bp):
TGGGAAGGAAGTAAAAATTTTGGGGGAAAG
Found at i:72607300 original size:23 final size:21
Alignment explanation
Indices: 72607274--72607368 Score: 84
Period size: 23 Copynumber: 4.2 Consensus size: 21
72607264 GGACTCACCA
72607274 CAGCTTGTATGAGCTTACTGTTT
1 CAGCTT-TATGAGCTTAC-GTTT
*
72607297 CAGCTCTTATGAGCTTACATTT
1 CAGCT-TTATGAGCTTACGTTT
72607319 CAGCTTT-TCAGAGCTTACCGTTT
1 CAGCTTTAT--GAGCTTA-CGTTT
* * *
72607342 CAGTTCTTAGGGGCTTACGTTT
1 CAGCT-TTATGAGCTTACGTTT
72607364 CAGCT
1 CAGCT
72607369 CTACAAAGCT
Statistics
Matches: 60, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
20 1 0.02
21 2 0.03
22 24 0.40
23 30 0.50
24 3 0.05
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (21 bp):
CAGCTTTATGAGCTTACGTTT
Found at i:72607322 original size:22 final size:22
Alignment explanation
Indices: 72607281--72607370 Score: 101
Period size: 22 Copynumber: 4.0 Consensus size: 22
72607271 CCACAGCTTG
72607281 TATGAGCTTACTGTTTCAGCTCT
1 TATGAGCTTAC-GTTTCAGCTCT
* *
72607304 TATGAGCTTACATTTCAGCTTT
1 TATGAGCTTACGTTTCAGCTCT
*
72607326 TCA-GAGCTTACCGTTTCAGTTCT
1 T-ATGAGCTTA-CGTTTCAGCTCT
* *
72607349 TAGGGGCTTACGTTTCAGCTCT
1 TATGAGCTTACGTTTCAGCTCT
72607371 ACAAAGCTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
22 29 0.51
23 28 0.49
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.41
Consensus pattern (22 bp):
TATGAGCTTACGTTTCAGCTCT
Found at i:72607379 original size:45 final size:45
Alignment explanation
Indices: 72607285--72607381 Score: 122
Period size: 45 Copynumber: 2.2 Consensus size: 45
72607275 AGCTTGTATG
* * * * *
72607285 AGCTTACTGTTTCAGCTCTTATGAGCTTACATTTCAGCTTTTCAG
1 AGCTTACCGTTTCAGCTCTTAGGAGCTTACATTTCAGCTCTACAA
* * *
72607330 AGCTTACCGTTTCAGTTCTTAGGGGCTTACGTTTCAGCTCTACAA
1 AGCTTACCGTTTCAGCTCTTAGGAGCTTACATTTCAGCTCTACAA
72607375 AGCTTAC
1 AGCTTAC
72607382 TATTCAACTC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (45 bp):
AGCTTACCGTTTCAGCTCTTAGGAGCTTACATTTCAGCTCTACAA
Found at i:72614169 original size:9 final size:9
Alignment explanation
Indices: 72614155--72614195 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
72614145 TTTATACAAA
72614155 TAATTCGGT
1 TAATTCGGT
*
72614164 TAATTCGGG
1 TAATTCGGT
*
72614173 TAATTCGAT
1 TAATTCGGT
72614182 TAATTCGGT
1 TAATTCGGT
72614191 TAATT
1 TAATT
72614196 TTATACTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:72614860 original size:26 final size:26
Alignment explanation
Indices: 72614821--72614891 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 26
72614811 TTGTTTTCTT
* * *
72614821 TTTTTATTTATTTTCATATTCCT-TTTG
1 TTTTT-TTTCTTTT-ATATTCATATTTC
*
72614848 TTTTTTTTCTTTTATTTTCATATTTC
1 TTTTTTTTCTTTTATATTCATATTTC
* *
72614874 TTTTTTTACTTTTTTATT
1 TTTTTTTTCTTTTATATT
72614892 TTGTTCCTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
25 6 0.17
26 25 0.69
27 5 0.14
ACGTcount: A:0.13, C:0.10, G:0.01, T:0.76
Consensus pattern (26 bp):
TTTTTTTTCTTTTATATTCATATTTC
Found at i:72614862 original size:31 final size:30
Alignment explanation
Indices: 72614819--72614892 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 30
72614809 TTTTGTTTTC
72614819 TTTTTTTATTTATTTTCATATTCCTTTTGT
1 TTTTTTTATTTATTTTCATATTCCTTTTGT
* * *
72614849 TTTTTTTCTTTTATTTTCATATTTCTTTTTT
1 TTTTTTT-ATTTATTTTCATATTCCTTTTGT
72614880 TACTTTTTTATTT
1 T--TTTTTTATTT
72614893 TGTTCCTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 7 0.19
31 21 0.57
32 3 0.08
33 6 0.16
ACGTcount: A:0.12, C:0.09, G:0.01, T:0.77
Consensus pattern (30 bp):
TTTTTTTATTTATTTTCATATTCCTTTTGT
Found at i:72614928 original size:9 final size:9
Alignment explanation
Indices: 72614914--72614984 Score: 56
Period size: 9 Copynumber: 7.9 Consensus size: 9
72614904 AAATTTTATC
72614914 TTTTTATTT
1 TTTTTATTT
*
72614923 TTTTTACTT
1 TTTTTATTT
*
72614932 TTTTGA-TT
1 TTTTTATTT
*
72614940 TTTTT-CTT
1 TTTTTATTT
* *
72614948 ATTTCATTT
1 TTTTTATTT
*
72614957 TGTTTATTT
1 TTTTTATTT
72614966 TGTTTTATTT
1 T-TTTTATTT
72614976 TTTATTATT
1 TTT-TTATT
72614985 AACTTTAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
8 11 0.23
9 24 0.50
10 13 0.27
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.79
Consensus pattern (9 bp):
TTTTTATTT
Found at i:72614956 original size:16 final size:17
Alignment explanation
Indices: 72614921--72614962 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
72614911 ATCTTTTTAT
* *
72614921 TTTTTTTACTTTTTTGA
1 TTTTTTTACTTATTTCA
72614938 TTTTTTT-CTTATTTCA
1 TTTTTTTACTTATTTCA
72614954 TTTTGTTTA
1 TTTT-TTTA
72614963 TTTTGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (17 bp):
TTTTTTTACTTATTTCA
Found at i:72614957 original size:24 final size:24
Alignment explanation
Indices: 72614930--72614975 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
72614920 TTTTTTTTAC
*
72614930 TTTT-TTGATTTTTTTCTTATTTCA
1 TTTTGTTGATTTTGTT-TTATTTCA
*
72614954 TTTTGTTTATTTTGTTTTATTT
1 TTTTGTTGATTTTGTTTTATTT
72614976 TTTATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (24 bp):
TTTTGTTGATTTTGTTTTATTTCA
Found at i:72614977 original size:34 final size:32
Alignment explanation
Indices: 72614906--72614984 Score: 79
Period size: 34 Copynumber: 2.4 Consensus size: 32
72614896 TCCTTAATAA
* *
72614906 ATTTTATCTT-TTTATTTTTTTTACTTTTTTG
1 ATTTTTTCTTATTTATTTTGTTTACTTTTTTG
* *
72614937 ATTTTTTTCTTATTTCATTTTGTTTATTTTGTTTT
1 A-TTTTTTCTTATTT-ATTTTGTTTACTTT-TTTG
*
72614972 ATTTTTTATTATT
1 ATTTTTTCTTATT
72614985 AACTTTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 1 0.03
32 8 0.21
33 3 0.08
34 23 0.59
35 4 0.10
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.77
Consensus pattern (32 bp):
ATTTTTTCTTATTTATTTTGTTTACTTTTTTG
Found at i:72615172 original size:37 final size:35
Alignment explanation
Indices: 72615030--72615172 Score: 121
Period size: 37 Copynumber: 4.0 Consensus size: 35
72615020 TTTATAATAC
* * *
72615030 TTTTTTAAAATTTTAATTATTATTTTTAAAAAT-A
1 TTTTTTAAAATTTAAAATATTATTTTTAAAATTAA
* * * * *
72615064 TTTTTTTAACTTT-AGATATATATTTGTGAAATTAA
1 TTTTTTAAAATTTAAAATAT-TATTTTTAAAATTAA
* *
72615099 TTTTTTATATATTTTAAAA-ATGTATTTTTCAAATTAA
1 TTTTTTA-A-AATTTAAAATAT-TATTTTTAAAATTAA
72615136 TTTTTTAAAATTTAAAATATTAATTTTTAAATATTAA
1 TTTTTTAAAATTTAAAATATT-ATTTTTAAA-ATTAA
72615173 CCATATTTTT
Statistics
Matches: 86, Mismatches: 15, Indels: 13
0.75 0.13 0.11
Matches are distributed among these distances:
33 4 0.05
34 21 0.24
35 16 0.19
36 12 0.14
37 31 0.36
38 2 0.02
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (35 bp):
TTTTTTAAAATTTAAAATATTATTTTTAAAATTAA
Found at i:72615263 original size:20 final size:19
Alignment explanation
Indices: 72615230--72615271 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
72615220 ATACAATTTC
72615230 TTTAATTTTGTTTTAAATT
1 TTTAATTTTGTTTTAAATT
* *
72615249 TTTAACTTTTTTTTTTAATT
1 TTTAA-TTTTGTTTTAAATT
72615269 TTT
1 TTT
72615272 GAAAAGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTAATTTTGTTTTAAATT
Found at i:72615384 original size:18 final size:18
Alignment explanation
Indices: 72615363--72615403 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
72615353 TTTTTTTACT
72615363 TTTTTATTAAATTTTGTC
1 TTTTTATTAAATTTTGTC
* * *
72615381 TTTTTCTTAATTTTTTTC
1 TTTTTATTAAATTTTGTC
72615399 TTTTT
1 TTTTT
72615404 TAAGTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTTATTAAATTTTGTC
Found at i:72615422 original size:36 final size:36
Alignment explanation
Indices: 72615382--72615455 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
72615372 AATTTTGTCT
72615382 TTTTCTTAATTT-TTTTCTTT-TTTAAGTTTTATATTA
1 TTTTCTTAATTTATTTTCTTTATTTAA--TTTATATTA
* *
72615418 TTTTCTTATTTTATTTTGTTTATTTAATTTATATTA
1 TTTTCTTAATTTATTTTCTTTATTTAATTTATATTA
72615454 TT
1 TT
72615456 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 22 0.65
37 7 0.21
38 5 0.15
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (36 bp):
TTTTCTTAATTTATTTTCTTTATTTAATTTATATTA
Found at i:72615429 original size:18 final size:18
Alignment explanation
Indices: 72615408--72615460 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
72615398 CTTTTTTAAG
72615408 TTTTATATTATTT-TCTTA
1 TTTTATATTATTTAT-TTA
* *
72615426 TTTTATTTTGTTTATTTA
1 TTTTATATTATTTATTTA
* *
72615444 ATTTATATTATTAATTT
1 TTTTATATTATTTATTT
72615461 TAAAAAATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTTATATTATTTATTTA
Found at i:72615602 original size:37 final size:36
Alignment explanation
Indices: 72615497--72615608 Score: 131
Period size: 37 Copynumber: 3.2 Consensus size: 36
72615487 ATGTTTTACA
*
72615497 ATTTTTTTTAAATTTTAATTAT-TATTTTTAAAATT
1 ATTTTTTTTAAATTTTAAATATATATTTTTAAAATT
* * * *
72615532 A-TTTTTTT-AACTTTAGATATATATTTGTGAAATT
1 ATTTTTTTTAAATTTTAAATATATATTTTTAAAATT
*
72615566 ATTTTTTTATAAATTTTAAATATATATTTTTTAAATT
1 ATTTTTTT-TAAATTTTAAATATATATTTTTAAAATT
*
72615603 AATTTT
1 ATTTTT
72615609 GAAATTATTA
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
33 9 0.14
34 19 0.30
35 7 0.11
36 1 0.02
37 27 0.43
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.62
Consensus pattern (36 bp):
ATTTTTTTTAAATTTTAAATATATATTTTTAAAATT
Done.