Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 181 of 320
Found at i:59930074 original size:138 final size:138
Alignment explanation
Indices: 59929815--59930508 Score: 1041
Period size: 138 Copynumber: 5.0 Consensus size: 138
59929805 TAGAAAAGAG
* * *
59929815 AATTATATTCTTTTCAAAGGAATATTAATTTCCATGTCTTATATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * *
59929880 TATAACTGCTTATATTAATAAATTTGGTAAAATATATACAACTAATATCTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
59929945 CATATACT
131 CATATATT
* * *
59929953 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTATATATTTTGATCGAAATTAGTTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * *
59930018 TATAACTGTTTATATTAATAAATTCT-GTAAAATATATACAAATAACATTTTATATGAATCAAAT
66 TATAACTGTTTATATTAATAAATT-TGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
59930082 TCATATATT
130 TCATATATT
* * * * **
59930091 AATTACATTCCTTCCGAAAGAATATTAATTTTCATGTCTTTTATATTTTGATTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* ** * *
59930156 TCTAACTGTTTATATTAATAAATTCAGTAAATAAATATACAATTAATATTTTGTATGAACCAAAT
66 TATAACTGTTTATATTAATAAATTTGGTAAA-ATATATACAATTAATATTTTGTATGAATCAAAT
*
59930221 TCATGTATT
130 TCATATATT
**
59930230 AATTATATTCTTTCCAAAAGAATATTAATTTTTATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
59930295 TATAATTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATGTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
59930360 CATAGATT
131 CATATATT
* * *
59930368 AATTATATT-TTTCCAAAAGAATATTACTTTCCGTGTCTTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
*
59930432 TATAACTGTTTATATTAATAAATTTAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
59930497 CGTATATT
131 CATATATT
59930505 AATT
1 AATT
59930509 TTATCTATGT
Statistics
Matches: 503, Mismatches: 50, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
137 122 0.24
138 258 0.51
139 123 0.24
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:59930327 original size:277 final size:275
Alignment explanation
Indices: 59929815--59930508 Score: 1039
Period size: 277 Copynumber: 2.5 Consensus size: 275
59929805 TAGAAAAGAG
* * * * *
59929815 AATTATATTCTTTTCAAAGGAATATTAATTTCCATGTCTTATATATTTTGACCGAAATTAATTAA
1 AATTACATTC-TTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
* * * *
59929880 TATAACTGCTTATATTAATAAATTTGGTAAAATATATACAACTAATATCTTGTATGAATCAAATT
65 TATAACTGTTTATATTAATAAATTTAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
* *
59929945 CATATACTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTATATATTTTGATCGAAA
130 CATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTATATATTTTGACCGAAA
* *
59930010 TTAGTTAATATAACTGTTTATATTAATAAATTCTGTAAAATATATACAAATAACATTTTATATGA
195 TTAATTAATATAACTGTTTATATTAATAAATTCTGTAAAATATATACAAATAACATGTTATATGA
*
59930075 ATCAAATTCATATATT
260 ATCAAATTCATAGATT
* * *
59930091 AATTACATTCCTTCCGAAAGAATATTAATTTTCATGTCTTTTATATTTTGATTGAAATTAATTAA
1 AATTACATT-CTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
* * * *
59930156 TCTAACTGTTTATATTAATAAATTCAGTAAATAAATATACAATTAATATTTTGTATGAACCAAAT
65 TATAACTGTTTATATTAATAAATTTAGTAAA-ATATATACAATTAATATTTTGTATGAATCAAAT
* ** *
59930221 TCATGTATTAATTATATTCTTTCCAAAAGAATATTAATTTTTATGTCTTTTATATTTTGACCGAA
129 TCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTATATATTTTGACCGAA
* * * *
59930286 ATTAATTAATATAATTGTTTATATTAATAAATT-TGGTAAAATATATACAATTAATATGTTGTAT
194 ATTAATTAATATAACTGTTTATATTAATAAATTCT-GTAAAATATATACAAATAACATGTTATAT
59930350 GAATCAAATTCATAGATT
258 GAATCAAATTCATAGATT
* * * *
59930368 AATTATATTTTTCCAAAAGAATATTACTTTCCGTGTCTTTTATATTTTGACTGAAATTAATTAAT
1 AATTACATTCTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAAT
59930433 ATAACTGTTTATATTAATAAATTTAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
66 ATAACTGTTTATATTAATAAATTTAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
*
59930498 GTATATTAATT
131 ATATATTAATT
59930509 TTATCTATGT
Statistics
Matches: 373, Mismatches: 42, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
275 42 0.11
276 161 0.43
277 170 0.46
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (275 bp):
AATTACATTCTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAAT
ATAACTGTTTATATTAATAAATTTAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTATATATTTTGACCGAAAT
TAATTAATATAACTGTTTATATTAATAAATTCTGTAAAATATATACAAATAACATGTTATATGAA
TCAAATTCATAGATT
Found at i:59933569 original size:12 final size:12
Alignment explanation
Indices: 59933550--59933579 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
59933540 TAAGGGATGA
59933550 GAGGAGAGATTT
1 GAGGAGAGATTT
*
59933562 GGGGAGAGATTT
1 GAGGAGAGATTT
59933574 GAGGAG
1 GAGGAG
59933580 TGGATCAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.50, T:0.20
Consensus pattern (12 bp):
GAGGAGAGATTT
Found at i:59934990 original size:28 final size:28
Alignment explanation
Indices: 59934950--59935009 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
59934940 GTACTTTTAG
*
59934950 ACCCCGTATTGATGAAATGACTGTTATA
1 ACCCCGTATTGATGAAATGACTGTTACA
59934978 ACCCCGTATTGATGAAATGACTGTTACA
1 ACCCCGTATTGATGAAATGACTGTTACA
59935006 ACCC
1 ACCC
59935010 TAAGAGGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (28 bp):
ACCCCGTATTGATGAAATGACTGTTACA
Found at i:59941378 original size:12 final size:12
Alignment explanation
Indices: 59941359--59941388 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
59941349 TGAGGGATGA
59941359 GAGGAGAGATTT
1 GAGGAGAGATTT
*
59941371 GGGGAGAGATTT
1 GAGGAGAGATTT
59941383 GAGGAG
1 GAGGAG
59941389 TGGATCAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.50, T:0.20
Consensus pattern (12 bp):
GAGGAGAGATTT
Found at i:59942692 original size:19 final size:19
Alignment explanation
Indices: 59942660--59942713 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
59942650 GGGCTTATTA
59942660 GGCC-ACAT-GGTCGTGTG
1 GGCCAACATGGGTCGTGTG
*
59942677 GGCCAACATGGGTCGTATG
1 GGCCAACATGGGTCGTGTG
*
59942696 GGCTAACATGGGTCGTGT
1 GGCCAACATGGGTCGTGT
59942714 TATGGGCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 4 0.12
18 4 0.12
19 24 0.75
ACGTcount: A:0.17, C:0.20, G:0.39, T:0.24
Consensus pattern (19 bp):
GGCCAACATGGGTCGTGTG
Found at i:59957357 original size:46 final size:46
Alignment explanation
Indices: 59957307--59957575 Score: 293
Period size: 46 Copynumber: 5.8 Consensus size: 46
59957297 TGATTGAGCA
59957307 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59957353 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
59957398 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
59957446 TCCGAACTCGTTGAGTTAAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
59957491 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59957539 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59957576 GCGGGTTACA
Statistics
Matches: 187, Mismatches: 18, Indels: 36
0.78 0.07 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 6 0.03
46 91 0.49
47 57 0.30
48 6 0.03
50 9 0.05
51 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59957468 original size:93 final size:93
Alignment explanation
Indices: 59957304--59957568 Score: 494
Period size: 93 Copynumber: 2.8 Consensus size: 93
59957294 GGATGATTGA
59957304 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
59957369 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
59957397 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
*
59957462 TAAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
59957490 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
59957555 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
59957569 CTTATGGGCG
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 167 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59958185 original size:48 final size:48
Alignment explanation
Indices: 59958127--59958223 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
59958117 TAAATTATGA
59958127 AAATATTTAGTTTAGCTTATATTTGATGTTAAGGAAAATTATTAAGAT
1 AAATATTTAGTTTAGCTTATATTTGATGTTAAGGAAAATTATTAAGAT
59958175 AAATATTTAGTTTAGCTTATATTTGATGTTAAGGAAAATTATTAAGAT
1 AAATATTTAGTTTAGCTTATATTTGATGTTAAGGAAAATTATTAAGAT
59958223 A
1 A
59958224 CTTAGTGCAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.43
Consensus pattern (48 bp):
AAATATTTAGTTTAGCTTATATTTGATGTTAAGGAAAATTATTAAGAT
Found at i:59965074 original size:46 final size:46
Alignment explanation
Indices: 59965020--59965288 Score: 293
Period size: 46 Copynumber: 5.8 Consensus size: 46
59965010 TGATTGAGCA
59965020 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
59965066 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
59965111 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59965159 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
59965204 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59965252 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59965289 GCGGGTTACA
Statistics
Matches: 187, Mismatches: 18, Indels: 36
0.78 0.07 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 6 0.03
46 91 0.49
47 57 0.30
48 6 0.03
50 9 0.05
51 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59965139 original size:47 final size:47
Alignment explanation
Indices: 59965070--59965234 Score: 232
Period size: 47 Copynumber: 3.5 Consensus size: 47
59965060 CGAATGTCCA
59965070 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
* * *
59965117 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
59965163 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
59965210 AACTCGTTGAGTTGAGTCCGAGTTC
1 AACTCGTTGAGTTGAGTCCGAGTTC
59965235 ACTTATGGAT
Statistics
Matches: 103, Mismatches: 6, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 29 0.28
47 54 0.52
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (47 bp):
AACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCG
Found at i:59965176 original size:93 final size:93
Alignment explanation
Indices: 59965017--59965281 Score: 494
Period size: 93 Copynumber: 2.8 Consensus size: 93
59965007 GGATGATTGA
*
59965017 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
59965082 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
59965110 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
59965175 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
59965203 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
59965268 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
59965282 CTTATGGGCG
Statistics
Matches: 168, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 168 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59969317 original size:43 final size:42
Alignment explanation
Indices: 59969197--59969318 Score: 120
Period size: 43 Copynumber: 2.9 Consensus size: 42
59969187 ACACGTATCG
* * * *
59969197 ATGCCACTGTCCCACACAGGGTGTTACACG-AAGTCGATTAACG
1 ATGCCACTGTCCCACACAAGGTCTTACACGTAA-TC-ATAAACA
* * * * *
59969240 ATGCCAATGTTCCACACATGATCTTACACATAATCATAATACA
1 ATGCCACTGTCCCACACAAGGTCTTACACGTAATCATAA-ACA
*
59969283 ATGCCACTGTCCCACACAAGGTCTTACATGTAATCA
1 ATGCCACTGTCCCACACAAGGTCTTACACGTAATCA
59969319 CATCTCAATA
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 3 0.05
43 58 0.92
44 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (42 bp):
ATGCCACTGTCCCACACAAGGTCTTACACGTAATCATAAACA
Found at i:59974179 original size:43 final size:43
Alignment explanation
Indices: 59974132--59974239 Score: 155
Period size: 43 Copynumber: 2.5 Consensus size: 43
59974122 GATTAATGAG
59974132 ATGTGATTATGTGTAAGACCATGTCTAGGACATTGACATCATT
1 ATGTGATTATGTGTAAGACCATGTCTAGGACATTGACATCATT
* * *
59974175 ATGTGATTACGTGTAAGACCATGTCTAGGATATTGGCATCATT
1 ATGTGATTATGTGTAAGACCATGTCTAGGACATTGACATCATT
* *
59974218 ATTTGATT-TCGAGTAAGACCAT
1 ATGTGATTAT-GTGTAAGACCAT
59974240 AGCTAAGCTA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (43 bp):
ATGTGATTATGTGTAAGACCATGTCTAGGACATTGACATCATT
Found at i:59974257 original size:43 final size:43
Alignment explanation
Indices: 59974132--59974282 Score: 121
Period size: 43 Copynumber: 3.5 Consensus size: 43
59974122 GATTAATGAG
* * * * *
59974132 ATGTGATTATGTGTAAGACCATGTCTAGGACAT-TGACATCATT
1 ATGTGATTACGAGTAAGACCATGTCTAAGATATCAG-CATCATT
* * **
59974175 ATGTGATTACGTGTAAGACCATGTCTAGGATATTGGCATCATT
1 ATGTGATTACGAGTAAGACCATGTCTAAGATATCAGCATCATT
* * *
59974218 ATTTGATTTCGAGTAAGACCATAG-CTAAGCTATCAGCATC-TAT
1 ATGTGATTACGAGTAAGACCAT-GTCTAAGATATCAGCATCAT-T
*
59974261 ATGTGATAAC-ATGTAAGACCAT
1 ATGTGATTACGA-GTAAGACCAT
59974283 ATCTGGGATA
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
42 2 0.02
43 87 0.96
44 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (43 bp):
ATGTGATTACGAGTAAGACCATGTCTAAGATATCAGCATCATT
Found at i:59984113 original size:39 final size:40
Alignment explanation
Indices: 59983962--59984131 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
59983952 GGACTAAGAT
* * *
59983962 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
59984002 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
59984042 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
59984082 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
59984121 CCGAAGGCATT
1 CCGAAGGCATT
59984132 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:59984151 original size:79 final size:80
Alignment explanation
Indices: 59983984--59984166 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
59983974 GTGCGAGATA
* * * *
59983984 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
59984049 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
59984064 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
59984128 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
59984143 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
59984167 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:59992020 original size:39 final size:40
Alignment explanation
Indices: 59991869--59992038 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
59991859 GGACTAAGAT
* * *
59991869 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
59991909 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
59991949 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
59991989 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
59992028 CCGAAGGCATT
1 CCGAAGGCATT
59992039 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:59992058 original size:79 final size:80
Alignment explanation
Indices: 59991891--59992073 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
59991881 GTGCGAGATA
* * * *
59991891 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
59991956 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
59991971 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
59992035 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
59992050 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
59992074 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:60010182 original size:20 final size:18
Alignment explanation
Indices: 60010154--60010192 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
60010144 TGCTTATTAT
*
60010154 TTAAGAAATAATAATTATAA
1 TTAAAAAAT-ATAA-TATAA
60010174 TTAAAAAATATAATATAA
1 TTAAAAAATATAATATAA
60010192 T
1 T
60010193 AATATAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
TTAAAAAATATAATATAA
Found at i:60010218 original size:27 final size:26
Alignment explanation
Indices: 60010156--60010221 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
60010146 CTTATTATTT
*
60010156 AAGAAATAATAATTATAATTAAAAAA
1 AAGAAATAATAATTATAAGTAAAAAA
* *
60010182 TATAATATAATAA-TATAAAGTAAAATAA
1 AAGAA-ATAATAATTAT-AAGTAAAA-AA
60010210 AAGAAATAATAA
1 AAGAAATAATAA
60010222 AAAGAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
26 6 0.19
27 21 0.66
28 5 0.16
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (26 bp):
AAGAAATAATAATTATAAGTAAAAAA
Found at i:60010242 original size:11 final size:10
Alignment explanation
Indices: 60010196--60010248 Score: 54
Period size: 11 Copynumber: 5.1 Consensus size: 10
60010186 ATATAATAAT
*
60010196 ATAAAGTAAA
1 ATAAAGAAAA
60010206 ATAAAAGAAATA
1 AT-AAAGAAA-A
*
60010218 ATAAA-AAGA
1 ATAAAGAAAA
60010227 ATAAAGAAACA
1 ATAAAGAAA-A
60010238 ATAAAGAAAA
1 ATAAAGAAAA
60010248 A
1 A
60010249 GAACAAAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 6 0.17
10 8 0.22
11 19 0.53
12 3 0.08
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.13
Consensus pattern (10 bp):
ATAAAGAAAA
Found at i:60010257 original size:31 final size:31
Alignment explanation
Indices: 60010196--60010258 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
60010186 ATATAATAAT
* *
60010196 ATAAAGTAAAATAAAAGAAATAATAAAAAGA
1 ATAAAGAAAAATAAAAGAAATAAGAAAAAGA
60010227 ATAAAGAAACAAT-AAAGAAA-AAGAACAAAGA
1 ATAAAGAAA-AATAAAAGAAATAAGAA-AAAGA
60010258 A
1 A
60010259 GTGGAATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 4 0.14
31 21 0.75
32 3 0.11
ACGTcount: A:0.75, C:0.03, G:0.11, T:0.11
Consensus pattern (31 bp):
ATAAAGAAAAATAAAAGAAATAAGAAAAAGA
Found at i:60011212 original size:6 final size:6
Alignment explanation
Indices: 60011201--60011230 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
60011191 GTACCGCTAG
*
60011201 TGTTAC TGTTAC TGTTAT TGTTAC TGTTAC
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC
60011231 GGTGTATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.53
Consensus pattern (6 bp):
TGTTAC
Found at i:60026584 original size:203 final size:203
Alignment explanation
Indices: 60026234--60026629 Score: 774
Period size: 203 Copynumber: 2.0 Consensus size: 203
60026224 CTCATATAGT
60026234 CACTTATCATGTTAGTAATCAACTTCTAAAGGCAAATAGTCATATTAAAATTTAATACATATTCA
1 CACTTATCATGTTAGTAATCAACTTCTAAAGGCAAATAGTCATATTAAAATTTAATACATATTCA
60026299 CTGAAGTGCATAATCTCAATTATCGAAATAATATTTCATATACATATATTAATTATATAACCGAA
66 CTGAAGTGCATAATCTCAATTATCGAAATAATATTTCATATACATATATTAATTATATAACCGAA
60026364 AATACCTCATAATATATACACATATATAAGAGTTATTCATGACATACTAACTATTCATTCAATAA
131 AATACCTCATAATATATACACATATATAAGAGTTATTCATGACATACTAACTATTCATTCAATAA
60026429 GCCAAATA
196 GCCAAATA
60026437 CACTTATCATGTTAGTAATCAACTTCTAAAGGCAAATAGTCATATTAAAATTTAATACATATTCA
1 CACTTATCATGTTAGTAATCAACTTCTAAAGGCAAATAGTCATATTAAAATTTAATACATATTCA
*
60026502 CTGAAGTGCATAATCTCAATTATCGAAATAATATTTCATATGCATATATTAATTATATAACCGAA
66 CTGAAGTGCATAATCTCAATTATCGAAATAATATTTCATATACATATATTAATTATATAACCGAA
*
60026567 AATACCTCATCATATATACACATATATAAGAGTTATTCATGACATACTAACTATTCATTCAAT
131 AATACCTCATAATATATACACATATATAAGAGTTATTCATGACATACTAACTATTCATTCAAT
60026630 TTGCACCTTC
Statistics
Matches: 191, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
203 191 1.00
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (203 bp):
CACTTATCATGTTAGTAATCAACTTCTAAAGGCAAATAGTCATATTAAAATTTAATACATATTCA
CTGAAGTGCATAATCTCAATTATCGAAATAATATTTCATATACATATATTAATTATATAACCGAA
AATACCTCATAATATATACACATATATAAGAGTTATTCATGACATACTAACTATTCATTCAATAA
GCCAAATA
Found at i:60040091 original size:73 final size:73
Alignment explanation
Indices: 60039972--60040133 Score: 315
Period size: 73 Copynumber: 2.2 Consensus size: 73
60039962 TAAAATCGAA
60039972 GCTCTCTTGTACACATAGTGGCCTTCACTTAGCATCACTCATGTGACCTAGCTCAATTGTACACA
1 GCTCTCTTGTACACATAGTGGCCTTCACTTAGCATCACTCATGTGACCTAGCTCAATTGTACACA
*
60040037 TAATTTTG
66 TAATTTGG
60040045 GCTCTCTTGTACACATAGTGGCCTTCACTTAGCATCACTCATGTGACCTAGCTCAATTGTACACA
1 GCTCTCTTGTACACATAGTGGCCTTCACTTAGCATCACTCATGTGACCTAGCTCAATTGTACACA
60040110 TAATTTGG
66 TAATTTGG
60040118 GCTCTCTTGTACACAT
1 GCTCTCTTGTACACAT
60040134 GGTGAACACT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 88 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (73 bp):
GCTCTCTTGTACACATAGTGGCCTTCACTTAGCATCACTCATGTGACCTAGCTCAATTGTACACA
TAATTTGG
Found at i:60040869 original size:30 final size:30
Alignment explanation
Indices: 60040835--60040895 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
60040825 TCCTTAACTC
60040835 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
60040865 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
60040895 A
1 A
60040896 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:60052499 original size:13 final size:13
Alignment explanation
Indices: 60052481--60052505 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60052471 GAATTACTAT
60052481 GTGTGAAAATTTC
1 GTGTGAAAATTTC
60052494 GTGTGAAAATTT
1 GTGTGAAAATTT
60052506 GATTATTTGT
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:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:60053708 original size:42 final size:42
Alignment explanation
Indices: 60053633--60053741 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
60053623 TACTTATGAT
*
60053633 TTACGTGTAAGACCATGTTTGGGACATCAGCATCG-TATTTGA
1 TTACGTGTAAGACCATGTCTGGGACATCAGCATCGATA-TTGA
* *
60053675 TCT-CGTGTAAGACCTTGTCTGGGACAAT-GGCATCGATATTGA
1 T-TACGTGTAAGACCATGTCTGGGAC-ATCAGCATCGATATTGA
* *
60053717 TTACATGTAAGACCACGTCTGGGAC
1 TTACGTGTAAGACCATGTCTGGGAC
60053742 GTTGGCATTG
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 51 0.89
43 5 0.09
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGACATCAGCATCGATATTGA
Found at i:60053748 original size:42 final size:42
Alignment explanation
Indices: 60053592--60053749 Score: 124
Period size: 42 Copynumber: 3.7 Consensus size: 42
60053582 TATGTGTTTT
* *** *
60053592 CGTGTAAGACCACGTATGGGATGCTGGCATCTACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGA-TAT-TGA-TTA
* * **
60053636 CGTGTAAGACCATGTTTGGGACATCAGCATCG-TATTTGATCT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATA-TTGAT-TA
** *
60053678 CGTGTAAGACCTTGTCTGGGACAATGGCATCGATATTGATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTGATTA
* *
60053720 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
60053750 TGTATGAGCT
Statistics
Matches: 91, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
41 1 0.01
42 59 0.65
43 6 0.07
44 25 0.27
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTGATTA
Found at i:60054490 original size:23 final size:23
Alignment explanation
Indices: 60054464--60054518 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
60054454 AGTTTATGGT
60054464 ATGAATTTGAATTATGATTTGGC
1 ATGAATTTGAATTATGATTTGGC
*
60054487 ATGACTTTGAATTATGATTTGGC
1 ATGAATTTGAATTATGATTTGGC
*
60054510 ATGATTTTG
1 ATGAATTTG
60054519 GTATGATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.45
Consensus pattern (23 bp):
ATGAATTTGAATTATGATTTGGC
Found at i:60058683 original size:37 final size:37
Alignment explanation
Indices: 60058633--60058712 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
60058623 CTTATTACGA
* *
60058633 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
60058670 AGTCTTACCCGGACAAAATTCCCACACGTAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
60058707 GGTCTT
1 AGTCTT
60058713 TAGAGCTCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:60058918 original size:47 final size:47
Alignment explanation
Indices: 60058831--60059131 Score: 467
Period size: 47 Copynumber: 6.4 Consensus size: 47
60058821 CCCTTCGGGA
* * * * * * * *
60058831 CTTATCGCATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
60058878 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60058925 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
60058972 CTTATCAGACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60059019 CTTATCACATATATACACTTTCACATACATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
60059066 CTTATCACATATATACACTTTCACATACATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
60059113 CTTATCACATATATACACT
1 CTTATCACATATATACACT
60059132 GTCTTGGCTG
Statistics
Matches: 235, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 235 1.00
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:60065163 original size:30 final size:30
Alignment explanation
Indices: 60065129--60065187 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
60065119 TTGAAAATTT
*
60065129 ATTTTAATTTTGA-GATTAAATTGAATTTTG
1 ATTTT-ATTTTAAGGATTAAATTGAATTTTG
60065159 ATTTTATTTTAAGGATTAAATTGAATTTT
1 ATTTTATTTTAAGGATTAAATTGAATTTT
60065188 CAATATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (30 bp):
ATTTTATTTTAAGGATTAAATTGAATTTTG
Found at i:60069866 original size:16 final size:16
Alignment explanation
Indices: 60069841--60069873 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
60069831 ACCTCCATTC
60069841 CAAGGAAATATGTCAT
1 CAAGGAAATATGTCAT
*
60069857 CAAGGGAATATGTCAT
1 CAAGGAAATATGTCAT
60069873 C
1 C
60069874 TGCCCCAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.24
Consensus pattern (16 bp):
CAAGGAAATATGTCAT
Found at i:60090983 original size:25 final size:25
Alignment explanation
Indices: 60090919--60090985 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
60090909 GTGAGATGAT
*
60090919 AATGCTCACACGAGCTATGAATGTA
1 AATGCTCACACGAGTTATGAATGTA
*
60090944 AATGCTCACACGAGTTGTGAATGTA
1 AATGCTCACACGAGTTATGAATGTA
*
60090969 AATGCTCACATGAGTTA
1 AATGCTCACACGAGTTA
60090986 GGAAAATGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (25 bp):
AATGCTCACACGAGTTATGAATGTA
Found at i:60094515 original size:22 final size:22
Alignment explanation
Indices: 60094490--60094532 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
60094480 ATTATTAACG
*
60094490 TAATGAATTTTGATTAATTTTA
1 TAATAAATTTTGATTAATTTTA
60094512 TAATAAATTTTGATTAATTTT
1 TAATAAATTTTGATTAATTTT
60094533 TCTTATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (22 bp):
TAATAAATTTTGATTAATTTTA
Found at i:60099197 original size:14 final size:14
Alignment explanation
Indices: 60099178--60099208 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
60099168 GCATTAGAAC
*
60099178 TTTATTTTATTTTG
1 TTTATTTTACTTTG
60099192 TTTATTTTACTTTG
1 TTTATTTTACTTTG
60099206 TTT
1 TTT
60099209 TCTAGTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.03, G:0.06, T:0.77
Consensus pattern (14 bp):
TTTATTTTACTTTG
Found at i:60105119 original size:31 final size:31
Alignment explanation
Indices: 60105082--60105351 Score: 314
Period size: 31 Copynumber: 8.8 Consensus size: 31
60105072 GTGTGTACAA
60105082 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
60105113 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
60105144 AGTGAAAAGTGGTTGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
60105175 AGTGAAAAATAGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
60105206 AGTGAAAAGTGGTCGCTTTGGCCAACTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * * *
60105237 AGTGAAAAGTAGTAACCTCAGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
60105268 AGTGGAAAGTGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
60105299 AGTGAATAGTGATAGCTTCAGCTATC-GA--
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
60105327 ATGTGAAAAG-GGATAGCTTCGGCTA
1 A-GTGAAAAGTGG-TAGCTTCGGCTA
60105352 TCGAATGTGA
Statistics
Matches: 202, Mismatches: 35, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
28 2 0.01
29 18 0.09
30 2 0.01
31 180 0.89
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:60105342 original size:29 final size:29
Alignment explanation
Indices: 60105300--60105393 Score: 143
Period size: 29 Copynumber: 3.2 Consensus size: 29
60105290 TACCTGATCA
* * *
60105300 GTGAATAGTGATAGCTTCAGCTATCGAAT
1 GTGAAAAGAGATAGCTTCGGCTATCGAAT
*
60105329 GTGAAAAGGGATAGCTTCGGCTATCGAAT
1 GTGAAAAGAGATAGCTTCGGCTATCGAAT
*
60105358 GTGAAAAGAGATAGCTTTGGCTATCGAAT
1 GTGAAAAGAGATAGCTTCGGCTATCGAAT
60105387 GTGAAAA
1 GTGAAAA
60105394 TGTTAGGTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.27
Consensus pattern (29 bp):
GTGAAAAGAGATAGCTTCGGCTATCGAAT
Found at i:60105425 original size:33 final size:32
Alignment explanation
Indices: 60105388--60105510 Score: 129
Period size: 33 Copynumber: 3.8 Consensus size: 32
60105378 CTATCGAATG
* *
60105388 TGAAAATGTTAGGTATACTTTGTGTATATCACA
1 TGAAAAGGTTAGGTACACTTTGTGTATA-CACA
* * * *
60105421 TGAAAAGGTTATGTACACATTGTGTGTACACT
1 TGAAAAGGTTAGGTACACTTTGTGTATACACA
* *
60105453 TGAAAAGGTTATGTACACTTTGTGTATACCATA
1 TGAAAAGGTTAGGTACACTTTGTGTATA-CACA
** *
60105486 TGAAAAGGAAAGGTATACTTTGTGT
1 TGAAAAGGTTAGGTACACTTTGTGT
60105511 GTACCACTCA
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
32 29 0.39
33 46 0.61
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (32 bp):
TGAAAAGGTTAGGTACACTTTGTGTATACACA
Found at i:60105459 original size:32 final size:33
Alignment explanation
Indices: 60105388--60105493 Score: 133
Period size: 33 Copynumber: 3.2 Consensus size: 33
60105378 CTATCGAATG
* * *
60105388 TGAAAATGTTAGGTATACTTTGTGTATATCACA
1 TGAAAAGGTTATGTACACTTTGTGTATATCACA
* * *
60105421 TGAAAAGGTTATGTACACATTGTGTGTA-CACT
1 TGAAAAGGTTATGTACACTTTGTGTATATCACA
* *
60105453 TGAAAAGGTTATGTACACTTTGTGTATACCATA
1 TGAAAAGGTTATGTACACTTTGTGTATATCACA
60105486 TGAAAAGG
1 TGAAAAGG
60105494 AAAGGTATAC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
32 29 0.47
33 33 0.53
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (33 bp):
TGAAAAGGTTATGTACACTTTGTGTATATCACA
Found at i:60105509 original size:65 final size:65
Alignment explanation
Indices: 60105388--60105514 Score: 164
Period size: 65 Copynumber: 2.0 Consensus size: 65
60105378 CTATCGAATG
* * * ** *
60105388 TGAAAATGTTAGGTATACTTTGTGTATATCACATGAAAAGGTTATGTACACATTGTGTGTACACT
1 TGAAAAGGTTAGGTACACTTTGTGTATACCACATGAAAAGGAAAGGTACACATTGTGTGTACACT
* * * *
60105453 TGAAAAGGTTATGTACACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGTGTGTAC
1 TGAAAAGGTTAGGTACACTTTGTGTATACCACATGAAAAGGAAAGGTACACATTGTGTGTAC
60105515 CACTCAGAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
65 52 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.35
Consensus pattern (65 bp):
TGAAAAGGTTAGGTACACTTTGTGTATACCACATGAAAAGGAAAGGTACACATTGTGTGTACACT
Found at i:60109014 original size:15 final size:15
Alignment explanation
Indices: 60108968--60109014 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
60108958 GCTGTAAATG
*
60108968 GGATTTCCTTATCAT
1 GGATTTCCTTATCTT
*
60108983 GGATTTCTTTATCTT
1 GGATTTCCTTATCTT
*
60108998 GGATTTCCTTATTTT
1 GGATTTCCTTATCTT
60109013 GG
1 GG
60109015 GCTTCTTCGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.53
Consensus pattern (15 bp):
GGATTTCCTTATCTT
Found at i:60111626 original size:31 final size:31
Alignment explanation
Indices: 60111583--60111821 Score: 300
Period size: 31 Copynumber: 7.7 Consensus size: 31
60111573 GTGTACAATA
*
60111583 TGAAGAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
60111614 TGAAAAGTGGTAGCTTCAGATACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
60111645 TGAAAAGTGGTAGCTTCGGCTACTTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
60111676 TGAAAAGTAGTAGCTT-AGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCA-GCTACCTGATCAG
** * *
60111707 TGAAAAGTGGTAGCTTTGGCCAACTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* * * *
60111738 TGAAAAGTAGTAACCTCAGCTACCTGATTAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
60111769 TGGAAAGTGGTAGCTCCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* * *
60111800 TGAATAGTGATAGCTTCGGCTA
1 TGAAAAGTGGTAGCTTCAGCTA
60111822 TCGAATGTGA
Statistics
Matches: 175, Mismatches: 31, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
31 175 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:60111832 original size:29 final size:29
Alignment explanation
Indices: 60111799--60111893 Score: 147
Period size: 29 Copynumber: 3.3 Consensus size: 29
60111789 TACCTGATCA
*
60111799 GTGAATAGTGATAGCTTCGGCTATCGAAT
1 GTGAAAAGTGATAGCTTCGGCTATCGAAT
*
60111828 GTGAAAAGGGATAGCTTCGGCTATCGAAT
1 GTGAAAAGTGATAGCTTCGGCTATCGAAT
*
60111857 GTGAAAAGTGATAGCTTTGGCTATTC-AAT
1 GTGAAAAGTGATAGCTTCGGCTA-TCGAAT
60111886 GTGAAAAG
1 GTGAAAAG
60111894 GTTAGGTATA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
29 59 0.97
30 2 0.03
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (29 bp):
GTGAAAAGTGATAGCTTCGGCTATCGAAT
Found at i:60111924 original size:33 final size:33
Alignment explanation
Indices: 60111887--60112049 Score: 177
Period size: 33 Copynumber: 5.0 Consensus size: 33
60111877 CTATTCAATG
* *
60111887 TGAAAAGGTTAGGTATACTTTGTGTATATCACA
1 TGAAAAGGTTATGTATACTTTGTGTATACCACA
* * * *
60111920 TGAAAAAGTTATGTACACTTTTTGTATA-CACT
1 TGAAAAGGTTATGTATACTTTGTGTATACCACA
* *
60111952 TGAAAAGGTTATGTATACTTTGAGTATACCATA
1 TGAAAAGGTTATGTATACTTTGTGTATACCACA
** *
60111985 TGAAAAGGAAATGTATACTTTGTGTATACCATA
1 TGAAAAGGTTATGTATACTTTGTGTATACCACA
** *
60112018 TGAAAA-GAAATGGTATACTTTGTGTGTACCAC
1 TGAAAAGGTTAT-GTATACTTTGTGTATACCAC
60112050 TTAGAAAGAA
Statistics
Matches: 112, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
32 32 0.29
33 80 0.71
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (33 bp):
TGAAAAGGTTATGTATACTTTGTGTATACCACA
Found at i:60111961 original size:65 final size:65
Alignment explanation
Indices: 60111887--60112013 Score: 173
Period size: 65 Copynumber: 2.0 Consensus size: 65
60111877 CTATTCAATG
* * ** *
60111887 TGAAAAGGTTAGGTATACTTTGTGTATATCACATGAAAAAGTTATGTACACTTTTTGTATACACT
1 TGAAAAGGTTAGGTATACTTTGAGTATACCACATGAAAAAGAAATGTACACTTTGTGTATACACT
* * * *
60111952 TGAAAAGGTTATGTATACTTTGAGTATACCATATGAAAAGGAAATGTATACTTTGTGTATAC
1 TGAAAAGGTTAGGTATACTTTGAGTATACCACATGAAAAAGAAATGTACACTTTGTGTATAC
60112014 CATATGAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.37
Consensus pattern (65 bp):
TGAAAAGGTTAGGTATACTTTGAGTATACCACATGAAAAAGAAATGTACACTTTGTGTATACACT
Found at i:60130034 original size:139 final size:139
Alignment explanation
Indices: 60129784--60130064 Score: 535
Period size: 139 Copynumber: 2.0 Consensus size: 139
60129774 TGTACGTACC
60129784 TATATTGCTTATTCTGATCATACTTTTATTCTCGTCTTGAATATGCCCGTTGAACCATTCAGAAT
1 TATATTGCTTATTCTGATCATACTTTTATTCTCGTCTTGAATATGCCCGTTGAACCATTCAGAAT
* *
60129849 CATTACGAATACTTGATAATCACATATAGCTTGTACAATGTCATATCCTAGATATGGTCTTACAT
66 CATTACGAATACTTGATAATCACATATAGCTCGTACAATGCCATATCCTAGATATGGTCTTACAT
60129914 ATTATCAGA
131 ATTATCAGA
60129923 TATATTGCTTATTCTGATCATACTTTTATTCTCGTCTTGAATATGCCCGTTGAACCATTCAGAAT
1 TATATTGCTTATTCTGATCATACTTTTATTCTCGTCTTGAATATGCCCGTTGAACCATTCAGAAT
60129988 CATTACGAATACTTGATAATCACATATAGCTCGTACAATGCCATATCCTAGATATGGTCTTACAT
66 CATTACGAATACTTGATAATCACATATAGCTCGTACAATGCCATATCCTAGATATGGTCTTACAT
*
60130053 CTTATCAGA
131 ATTATCAGA
60130062 TAT
1 TAT
60130065 CGATGCCATG
Statistics
Matches: 139, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 139 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (139 bp):
TATATTGCTTATTCTGATCATACTTTTATTCTCGTCTTGAATATGCCCGTTGAACCATTCAGAAT
CATTACGAATACTTGATAATCACATATAGCTCGTACAATGCCATATCCTAGATATGGTCTTACAT
ATTATCAGA
Found at i:60130188 original size:49 final size:50
Alignment explanation
Indices: 60130065--60130235 Score: 221
Period size: 49 Copynumber: 3.5 Consensus size: 50
60130055 TATCAGATAT
*
60130065 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCTTATATCAAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTATATCAAGGC
* * * *
60130115 TGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCCT-TATC-CGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTATATCAAG-GC
*
60130164 CGATGCCATGTCCCAGACATGGTCTTACACTGA--C-AC-ATATCAA-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTATATCAAGGC
*
60130209 CAATGCCATGTCCCAGACATGGTCTTA
1 CGATGCCATGTCCCAGACATGGTCTTA
60130236 GACTAGCTCA
Statistics
Matches: 107, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
45 28 0.26
46 5 0.05
47 1 0.01
48 1 0.01
49 36 0.34
50 36 0.34
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTATATCAAGGC
Found at i:60130189 original size:99 final size:94
Alignment explanation
Indices: 60130065--60130244 Score: 261
Period size: 94 Copynumber: 1.9 Consensus size: 94
60130055 TATCAGATAT
* **
60130065 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCTTATATCAAGGCTGATGCCATATCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA--CAC--ATATCAA-GCCAATGCCATATCCCA
*
60130130 GACATGGTCTTACACTGGCTCTCCTTATCCGTGC
61 GACATGGTCTTACACTAGCTCTCCTTATCCGTGC
*
60130164 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCAATGCCATGTCCCAGACAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCAATGCCATATCCCAGACAT
*
60130229 GGTCTTAGACTAGCTC
66 GGTCTTACACTAGCTC
60130245 ACATGTATTG
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
94 33 0.44
95 7 0.09
97 2 0.03
99 33 0.44
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCAATGCCATATCCCAGACAT
GGTCTTACACTAGCTCTCCTTATCCGTGC
Found at i:60132947 original size:28 final size:28
Alignment explanation
Indices: 60132854--60132955 Score: 89
Period size: 28 Copynumber: 3.6 Consensus size: 28
60132844 CTTCGATGTC
* * *
60132854 TTGCACACTATGTACCATACTCGATACC
1 TTGCACACTAAGTGCCATACTCGATACT
* * * * * *
60132882 TCGCACGCTAAGTGCTATTCTGGAT-GT
1 TTGCACACTAAGTGCCATACTCGATACT
* *
60132909 TTCGCATACTAAGTGCCATCCTCGATACT
1 TT-GCACACTAAGTGCCATACTCGATACT
60132938 TTGCACACTAAGTGCCAT
1 TTGCACACTAAGTGCCAT
60132956 TTATATATAT
Statistics
Matches: 55, Mismatches: 17, Indels: 4
0.72 0.22 0.05
Matches are distributed among these distances:
27 1 0.02
28 51 0.93
29 3 0.05
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (28 bp):
TTGCACACTAAGTGCCATACTCGATACT
Found at i:60134406 original size:34 final size:34
Alignment explanation
Indices: 60134356--60134423 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
60134346 ACCCAAACCG
60134356 ACCATACCCCCCATTTCCACAATTTTATTCTTTT
1 ACCATACCCCCCATTTCCACAATTTTATTCTTTT
* * *
60134390 ACCATAGCCCCTATTTCCACCATTTTATTCTTTT
1 ACCATACCCCCCATTTCCACAATTTTATTCTTTT
60134424 TCTTTCTCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.22, C:0.34, G:0.01, T:0.43
Consensus pattern (34 bp):
ACCATACCCCCCATTTCCACAATTTTATTCTTTT
Found at i:60136929 original size:39 final size:39
Alignment explanation
Indices: 60136845--60136973 Score: 107
Period size: 39 Copynumber: 3.3 Consensus size: 39
60136835 GGTTTTTAAC
* * ** ** * *
60136845 CCGGATATTTTTCCAGCACGTAGCCTGCAAACCTCAAGT
1 CCGGATATATTTCCACCATATAGCCTGCGGACTTCATGT
* * * *
60136884 CTGGATATATTTCTAGCATATAGCCTTCGGA-TCTCATGT
1 CCGGATATATTTCCACCATATAGCCTGCGGACT-TCATGT
* * *
60136923 TCGGATATTTTTCCACCATATAGCGTGCGGACTTCATGT
1 CCGGATATATTTCCACCATATAGCCTGCGGACTTCATGT
60136962 CCGGATATATTT
1 CCGGATATATTT
60136974 TCAATCTCAT
Statistics
Matches: 69, Mismatches: 19, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
39 68 0.99
40 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (39 bp):
CCGGATATATTTCCACCATATAGCCTGCGGACTTCATGT
Found at i:60146891 original size:40 final size:40
Alignment explanation
Indices: 60146846--60146961 Score: 205
Period size: 40 Copynumber: 2.9 Consensus size: 40
60146836 AGAATTGAGA
60146846 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
60146886 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* * *
60146926 GTTACATCCGGGCTAAGTCCTGAAGGGCATTCGTGC
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
60146962 CTGTGATGTG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (40 bp):
GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
Found at i:60147204 original size:23 final size:23
Alignment explanation
Indices: 60147174--60147218 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
60147164 GTGTAATAAC
60147174 GAATGAATAT-AGGCACTGTGTGA
1 GAATGAAT-TGAGGCACTGTGTGA
60147197 GAATGAATTGAGGCACTGTGTG
1 GAATGAATTGAGGCACTGTGTG
60147219 TGCGAATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.31, C:0.09, G:0.33, T:0.27
Consensus pattern (23 bp):
GAATGAATTGAGGCACTGTGTGA
Found at i:60147246 original size:28 final size:28
Alignment explanation
Indices: 60147209--60147309 Score: 87
Period size: 28 Copynumber: 3.5 Consensus size: 28
60147199 ATGAATTGAG
*
60147209 GCACTGTGTGTGCGAATTCTTTAACCGA
1 GCACTATGTGTGCGAATTCTTTAACCGA
* ** * ** *
60147237 GCACTATGTGTGCGAGA-CCGGTCAGTGG
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
*
60147265 GCACTATGTGTGTGCGAATTCTTTAACCAA
1 GCACTA--TGTGTGCGAATTCTTTAACCGA
60147295 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
60147310 GATCGGTCAG
Statistics
Matches: 53, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
28 33 0.62
29 2 0.04
30 18 0.34
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (28 bp):
GCACTATGTGTGCGAATTCTTTAACCGA
Found at i:60147282 original size:58 final size:58
Alignment explanation
Indices: 60147213--60147334 Score: 217
Period size: 58 Copynumber: 2.1 Consensus size: 58
60147203 ATTGAGGCAC
*
60147213 TGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGACCGGTCAGTGGGCACTA
1 TGTGTGTGCGAATTCTTTAACCAAGCACTATGTGTGCGAGACCGGTCAGTGGGCACTA
* *
60147271 TGTGTGTGCGAATTCTTTAACCAAGCACTATGTGTGCGAGATCGGTCAGTGGGCACTG
1 TGTGTGTGCGAATTCTTTAACCAAGCACTATGTGTGCGAGACCGGTCAGTGGGCACTA
60147329 TGTGTG
1 TGTGTG
60147335 CGGATTTCGT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.30
Consensus pattern (58 bp):
TGTGTGTGCGAATTCTTTAACCAAGCACTATGTGTGCGAGACCGGTCAGTGGGCACTA
Found at i:60147326 original size:28 final size:28
Alignment explanation
Indices: 60147237--60147336 Score: 85
Period size: 28 Copynumber: 3.5 Consensus size: 28
60147227 CTTTAACCGA
*
60147237 GCACTATGTGTGCGAGACCGGTCAGTGG
1 GCACTATGTGTGCGAGATCGGTCAGTGG
** * ****
60147265 GCACTATGTGTGTGCGA-ATTCTTTAACCAA
1 GCACTA--TGTGTGCGAGA-TCGGTCAGTGG
60147295 GCACTATGTGTGCGAGATCGGTCAGTGG
1 GCACTATGTGTGCGAGATCGGTCAGTGG
*
60147323 GCACTGTGTGTGCG
1 GCACTATGTGTGCG
60147337 GATTTCGTTT
Statistics
Matches: 52, Mismatches: 16, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
28 32 0.62
29 2 0.04
30 18 0.35
ACGTcount: A:0.19, C:0.20, G:0.34, T:0.27
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGTCAGTGG
Found at i:60175716 original size:64 final size:64
Alignment explanation
Indices: 60175635--60175818 Score: 176
Period size: 67 Copynumber: 2.8 Consensus size: 64
60175625 AGACATTATG
* *
60175635 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
** * * * * *
60175699 ATGTAGCTAGGTCGCATGCATGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
60175764 AA
63 AA
* * * * *
60175766 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCATCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
60175819 CGAACTAAAT
Statistics
Matches: 95, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 20 0.21
65 8 0.08
66 15 0.16
67 31 0.33
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:60178372 original size:22 final size:22
Alignment explanation
Indices: 60178344--60178388 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
60178334 AATTATGTGT
60178344 AAACAATTTGAAGATGGGTTAA
1 AAACAATTTGAAGATGGGTTAA
60178366 AAACAATTTGAAGATGGGTTAA
1 AAACAATTTGAAGATGGGTTAA
60178388 A
1 A
60178389 CGAAGACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.22, T:0.27
Consensus pattern (22 bp):
AAACAATTTGAAGATGGGTTAA
Found at i:60181719 original size:46 final size:46
Alignment explanation
Indices: 60181644--60181829 Score: 164
Period size: 44 Copynumber: 3.9 Consensus size: 46
60181634 TGCACATAGT
* * ** * *
60181644 CACATATCACATACTGAGGCCATAGCCCAGCCATGGTCTTACACGGAT
1 CACATATCAC--ACTGATGCCATATCCCAGATATGGTCTTATACGGAG
*
60181692 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATAC-GGAG
60181739 CACATA-CAC-C-GATGCCATATCCC-GAATATGGTCTTATACGGAAG
1 CACATATCACACTGATGCCATATCCCAG-ATATGGTCTTATACGG-AG
* * *
60181783 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATAC
1 CACATATCACA---CT--GATGCCATATCCCAGATATGGTCTTATAC
60181830 AGAAATCACA
Statistics
Matches: 115, Mismatches: 11, Indels: 20
0.79 0.08 0.14
Matches are distributed among these distances:
43 2 0.02
44 35 0.30
45 4 0.03
46 30 0.26
47 8 0.07
48 10 0.09
49 1 0.01
52 24 0.21
53 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (46 bp):
CACATATCACACTGATGCCATATCCCAGATATGGTCTTATACGGAG
Found at i:60184601 original size:30 final size:30
Alignment explanation
Indices: 60184549--60184645 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
60184539 TTATGGAGCA
60184549 AAGATAAGAAGAAAACC-GAATAAAGAAATCC
1 AAGAT-AG-AGAAAACCAGAATAAAGAAATCC
*
60184580 AAGATAGAGAAACCCAGAATAAAGAAATCC
1 AAGATAGAGAAAACCAGAATAAAGAAATCC
* * * * *
60184610 -AGAATAAAGAGATCCAGGATAAAGAAACCC
1 AAG-ATAGAGAAAACCAGAATAAAGAAATCC
60184640 AAGATA
1 AAGATA
60184646 CGATACTATG
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
29 9 0.16
30 41 0.72
31 7 0.12
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGATAGAGAAAACCAGAATAAAGAAATCC
Found at i:60184605 original size:15 final size:15
Alignment explanation
Indices: 60184557--60184636 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
60184547 CAAAGATAAG
*
60184557 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
60184571 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
60184586 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
60184601 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
60184616 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
60184631 AAGAAA
1 AAGAAA
60184637 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:60184645 original size:15 final size:15
Alignment explanation
Indices: 60184568--60184645 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
60184558 AGAAAACCGA
60184568 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
60184583 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
60184597 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
60184612 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
60184628 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
60184643 ATA
1 ATA
60184646 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:60188284 original size:47 final size:47
Alignment explanation
Indices: 60188151--60188319 Score: 180
Period size: 47 Copynumber: 3.6 Consensus size: 47
60188141 ATAGTAAAAC
* * * *
60188151 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTACACAGTAG-CACATATCAC--ACCGATGCCATATCCCAGA
* * * *
60188200 CATGGTCTTACAC-GGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* *
60188246 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* * *
60188293 TATGGTCTTATACGGAAGCACATATCA
1 TATGGTCTTACACAGTAGCACATATCA
60188320 TATTTCTCCG
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
46 26 0.25
47 54 0.53
48 10 0.10
49 12 0.12
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (47 bp):
TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
Found at i:60194841 original size:40 final size:40
Alignment explanation
Indices: 60194757--60194981 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
60194747 TTGAATGATG
* * * * * *
60194757 TCCGGGCTATGTCCCAAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
60194797 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60194837 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60194876 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60194916 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
60194957 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60194982 AATGAGGAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60194999 original size:80 final size:80
Alignment explanation
Indices: 60194796--60195014 Score: 216
Period size: 79 Copynumber: 2.8 Consensus size: 80
60194786 AAGTGACCAT
* * ** * *
60194796 ATCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCA
60194858 TTGGTGCGAGTTACTAA
64 TTGGTGCGAGTTACTAA
* ** *
60194875 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
*
60194940 TGTGCGAGTTACTATA
66 GGTGCGAGTTACTA-A
* * * * *
60194956 A-CCGGGCTATGTCCCGAAGGCATTTGAATGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
60195015 TACGTGATTT
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 58 0.48
80 58 0.48
81 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
GGTGCGAGTTACTAA
Found at i:60202786 original size:40 final size:40
Alignment explanation
Indices: 60202702--60202926 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
60202692 TTGAATGATG
* * * *
60202702 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
60202742 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60202782 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
60202821 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60202861 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
60202902 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60202927 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60202948 original size:119 final size:119
Alignment explanation
Indices: 60202702--60202949 Score: 281
Period size: 119 Copynumber: 2.1 Consensus size: 119
60202692 TTGAATGATG
* *
60202702 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
60202767 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
60202821 TCCGGGTTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
60202884 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
60202941 TCC-GGTTAA
1 TCCGGGTTAA
60202950 ATTCTGAAGG
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 76 0.70
120 30 0.28
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:60210697 original size:44 final size:44
Alignment explanation
Indices: 60210592--60210698 Score: 178
Period size: 44 Copynumber: 2.4 Consensus size: 44
60210582 GTTAATTGAG
*
60210592 AAAGCACTAAGTGTGCGGAATTGTTATAGCTTCGGATAATCTTT
1 AAAGCACTAAGTGTGCAGAATTGTTATAGCTTCGGATAATCTTT
* *
60210636 AAAGCACTAAGTATGCAGAATTGTTATAGCTTCGGCTAATCTTT
1 AAAGCACTAAGTGTGCAGAATTGTTATAGCTTCGGATAATCTTT
*
60210680 AAAGCACTAAGGGTGCAGA
1 AAAGCACTAAGTGTGCAGA
60210699 TGTTTAAAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (44 bp):
AAAGCACTAAGTGTGCAGAATTGTTATAGCTTCGGATAATCTTT
Found at i:60212202 original size:43 final size:43
Alignment explanation
Indices: 60212141--60212299 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
60212131 AAATTTCATA
* * *
60212141 TCCCAGATATGGTCTTACATGTTATCACATATCGATGCCATTG
1 TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCATTG
** * * *
60212184 TCCCAGACATGGTCTTACACAAAATCATATAACAATGCCAATT-
1 TCCCAGACATGGTCTTACACGTAATCACATATCGATGCC-ATTG
* * * *
60212227 TTCTAGACATGGTCTTACACGTAATCACA-ATAGAATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCACATATCG-ATGCCATTG
*
60212270 TCCCAGACATGGTCTTACATGTAATCACAT
1 TCCCAGACATGGTCTTACACGTAATCACAT
60212300 TCCGGTAATC
Statistics
Matches: 92, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 3 0.03
43 86 0.93
44 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.30
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCATTG
Found at i:60218552 original size:55 final size:53
Alignment explanation
Indices: 60218410--60218570 Score: 137
Period size: 55 Copynumber: 3.0 Consensus size: 53
60218400 TTACCATTAA
* * * * *
60218410 CATGTCTTGACACGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTTC
1 CATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGC
* * ** * *
60218463 CATGCCTTGGCATGGTCTTACATGGGATAT--TTGCCTTATAGTAGTTTATCAATGC
1 CATGTCTTGACATGGTCTTACAT--GATATCCTTGCCTTAT-G-AACTCACCAATGC
* * *
60218518 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAGAACTTACCAATG
1 CATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCACCAATG
60218571 TCAAGCCATA
Statistics
Matches: 84, Mismatches: 18, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
53 32 0.38
54 10 0.12
55 42 0.50
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGC
Found at i:60219084 original size:23 final size:23
Alignment explanation
Indices: 60219042--60219086 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
60219032 ATAAAAAACT
60219042 TTTAAAAATAAAAATTCAAATACA
1 TTTAAAAATAAAAA-TCAAATACA
60219066 TTTAAAACATAAAAA-CAAATA
1 TTTAAAA-ATAAAAATCAAATA
60219087 TTAAAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (23 bp):
TTTAAAAATAAAAATCAAATACA
Found at i:60219396 original size:11 final size:11
Alignment explanation
Indices: 60219299--60219395 Score: 122
Period size: 11 Copynumber: 8.8 Consensus size: 11
60219289 AACATGACAA
* *
60219299 AAAATAGCAGC
1 AAAACAGCACC
*
60219310 AAAATAGCACC
1 AAAACAGCACC
60219321 AAAACAGCACC
1 AAAACAGCACC
*
60219332 CAAACAGCACC
1 AAAACAGCACC
60219343 AAAACAGCACC
1 AAAACAGCACC
*
60219354 CAAACAGCACC
1 AAAACAGCACC
60219365 AAAACAGCACC
1 AAAACAGCACC
* * *
60219376 CAAACTGCAGC
1 AAAACAGCACC
60219387 AAAACAGCA
1 AAAACAGCA
60219396 GTGAGCTAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 75 1.00
ACGTcount: A:0.52, C:0.34, G:0.11, T:0.03
Consensus pattern (11 bp):
AAAACAGCACC
Found at i:60228987 original size:46 final size:47
Alignment explanation
Indices: 60228920--60229086 Score: 166
Period size: 46 Copynumber: 3.6 Consensus size: 47
60228910 TGTAAGCCGC
*
60228920 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGAG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGACGTTCGCAT
* * * *
60228966 CCATAAGTGAACTCGAACTCAACTCAACAAGCTCGGATGCCTAGTT-AC-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GA-GAC--GTTCGCAT
* * *
60229015 TC-TCA-TGAACTCGGACTCAACTCAACGAGTTCG-GACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGACGTTCGCAT
* *
60229059 CCAAAAGTGAACTCGGACCCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
60229087 CAGTTCAGAT
Statistics
Matches: 97, Mismatches: 15, Indels: 18
0.75 0.12 0.14
Matches are distributed among these distances:
42 3 0.03
43 1 0.01
44 4 0.04
45 1 0.01
46 52 0.54
47 26 0.27
48 3 0.03
49 3 0.03
50 1 0.01
51 3 0.03
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.20
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGACGTTCGCAT
Found at i:60229098 original size:93 final size:93
Alignment explanation
Indices: 60228928--60229099 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
60228918 GCCCATAAGC
* *
60228928 GAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCAAAAGTGAACTCGAACCCAACTCAA
*
60228993 CAAGCTCGGATGCCTAGTTACTTCTCAT
66 CAAGCTCAGATGCCTAGTTACTTCTCAT
* *
60229021 GAACTCGGACTCAACTCAACGAGTTCG-GACGTTCGCATCCAAAAGTGAACTCGGACCCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGAG-CGTTCGCATCCAAAAGTGAACTCGAACCCAACTCA
* *
60229085 ACCAGTTCAGATGCC
65 ACAAGCTCAGATGCC
60229100 CAAATATACG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCAAAAGTGAACTCGAACCCAACTCAA
CAAGCTCAGATGCCTAGTTACTTCTCAT
Found at i:60229229 original size:46 final size:45
Alignment explanation
Indices: 60229172--60229439 Score: 188
Period size: 46 Copynumber: 5.8 Consensus size: 45
60229162 TCTCCCCGCC
*
60229172 CATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCACAT
* *
60229217 CTATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 C-ATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* * * *
60229267 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACGTTCACAT
1 CATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCACAT
* * * * *
60229310 CCATAAGTGTACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTT-ACA-
1 -CATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* * * * * *
60229359 CCTCA-CGAACTCAGACTCAACTTAACGAGTTCAGACGTTCGCAT
1 CATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCACAT
* * *
60229403 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 -CATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA
60229440 TGCCCAAATA
Statistics
Matches: 170, Mismatches: 34, Indels: 37
0.71 0.14 0.15
Matches are distributed among these distances:
42 4 0.02
43 6 0.04
44 3 0.02
45 6 0.04
46 83 0.49
47 49 0.29
48 5 0.03
49 2 0.01
50 8 0.05
51 4 0.02
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (45 bp):
CATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:60229293 original size:47 final size:47
Alignment explanation
Indices: 60229225--60229387 Score: 165
Period size: 47 Copynumber: 3.5 Consensus size: 47
60229215 ATCTATAAGT
60229225 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
* * * * *
60229272 GAACTCGGACTCAACTCAACGAGTTC--A-GAC--GTTCACATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
* * * *
60229318 GTACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACACCTCAC
1 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
*
60229365 GAACTCAGACTCAACTTAACGAG
1 GAACTCAGACTCAACTCAACGAG
60229388 TTCAGACGTT
Statistics
Matches: 91, Mismatches: 16, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 3 0.03
45 3 0.03
46 23 0.25
47 43 0.47
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (47 bp):
GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:60229297 original size:93 final size:93
Alignment explanation
Indices: 60229178--60229443 Score: 424
Period size: 93 Copynumber: 2.9 Consensus size: 93
60229168 CGCCCATAAG
* * * *
60229178 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCTATAAGTGAACTCAGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
60229243 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACACCTCA
* * *
60229271 CGAACTCGGACTCAACTCAACGAGTTCAGACGTTCACATCCATAAGTGTACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
60229336 ACAAGCTCGGATGCCTAGTTACACCTCA
66 ACGAGCTCGGATGCCTAGTTACACCTCA
*
60229364 CGAACTCAGACTCAACTTAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
60229429 ATGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
60229444 CAAATATCTT
Statistics
Matches: 157, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 157 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACACCTCA
Found at i:60231286 original size:40 final size:40
Alignment explanation
Indices: 60231205--60231422 Score: 262
Period size: 40 Copynumber: 5.5 Consensus size: 40
60231195 AAGCCAGGTA
* * * * *
60231205 CCTTCGGGATTTA-ACCAGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
60231244 CCTTTGGGACATAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
60231284 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
60231324 CCTTCGGGGCTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
60231364 CCTTCGGGACTTAGCCCGGA-ACTAATCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
60231404 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
60231423 TTATCATCCG
Statistics
Matches: 155, Mismatches: 21, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
39 12 0.08
40 143 0.92
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:60240227 original size:48 final size:48
Alignment explanation
Indices: 60240156--60240331 Score: 253
Period size: 48 Copynumber: 3.7 Consensus size: 48
60240146 ATAAGGTCCC
60240156 ATGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
1 ATGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
* * * *
60240204 ATGTAAGATCATGCCTGGGACATGCCATCGGCGTGGATATGTGAGCCA
1 ATGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
* * * * *
60240252 GTGTAAGACCATGTCTGGGACATGGCATCGGTGCTGATATGTGTGCTA
1 ATGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
* *
60240300 GTGTAAGATCATGTCTGGGACATGGCATCGGC
1 ATGTAAGACCATGTCTGGGACATGGCATCGGC
60240332 ACTAACATGA
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 113 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (48 bp):
ATGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
Found at i:60240321 original size:96 final size:96
Alignment explanation
Indices: 60240157--60240331 Score: 287
Period size: 96 Copynumber: 1.8 Consensus size: 96
60240147 TAAGGTCCCA
*
60240157 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCAATGTAAGATCATGCCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGCTGATATGTGAGCCAATGTAAGATCATGCCTGG
60240222 GACATGCCATCGGCGTGGATATGTGAGCCAG
66 GACATGCCATCGGCGTGGATATGTGAGCCAG
* * * * *
60240253 TGTAAGACCATGTCTGGGACATGGCATCGGTGCTGATATGTGTGCTAGTGTAAGATCATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGCTGATATGTGAGCCAATGTAAGATCATGCCTGG
*
60240318 GACATGGCATCGGC
66 GACATGCCATCGGC
60240332 ACTAACATGA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.26
Consensus pattern (96 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCGCTGATATGTGAGCCAATGTAAGATCATGCCTGG
GACATGCCATCGGCGTGGATATGTGAGCCAG
Found at i:60240355 original size:96 final size:96
Alignment explanation
Indices: 60240159--60240377 Score: 251
Period size: 96 Copynumber: 2.3 Consensus size: 96
60240149 AGGTCCCATG
*
60240159 TAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCAATGTAAGATCATGCCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCGGCGCTGATATGTGAGCCAATGTAAGATCATGCCTGGGA
* * * * *
60240224 CATGCCATCGGCGTGGATATGTGAGCCAGTG
66 CATGCCATCGGCCTGAACATGAGAGCCAGTA
* * * * *
60240255 TAAGACCATGTCTGGGACATGGCATCGGTGCTGATATGTGTGCTAGTGTAAGATCATGTCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCGGCGCTGATATGTGAGCCAATGTAAGATCATGCCTGGGA
* ****
60240320 CATGGCATCGGCACT-AACATGAGATTTTGTA
66 CATGCCATCGGC-CTGAACATGAGAGCCAGTA
* * *
60240351 TAAGACCATATCCGGGATATGGCATCG
1 TAAGACCATGTCTGGGACATGGCATCG
60240378 ATATGTGGAT
Statistics
Matches: 103, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
96 102 0.99
97 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (96 bp):
TAAGACCATGTCTGGGACATGGCATCGGCGCTGATATGTGAGCCAATGTAAGATCATGCCTGGGA
CATGCCATCGGCCTGAACATGAGAGCCAGTA
Found at i:60243490 original size:35 final size:35
Alignment explanation
Indices: 60243451--60243523 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
60243441 CAGGTATGTG
60243451 ATATATATTATTTATGTGAGATTAATCTGACGAGA
1 ATATATATTATTTATGTGAGATTAATCTGACGAGA
*
60243486 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTAATCTGACGAGA
60243521 ATA
1 ATA
60243524 AAGAATGTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (35 bp):
ATATATATTATTTATGTGAGATTAATCTGACGAGA
Found at i:60244739 original size:17 final size:17
Alignment explanation
Indices: 60244708--60244749 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
60244698 GTTTATGCTT
60244708 TGTTAATGTTATAAATGA
1 TGTTAATGTTATAAAT-A
*
60244726 TGTT-ATGTTTTAAATA
1 TGTTAATGTTATAAATA
*
60244742 TGTGAATG
1 TGTTAATG
60244750 AGAACTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 4 0.19
17 13 0.62
18 4 0.19
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (17 bp):
TGTTAATGTTATAAATA
Found at i:60244968 original size:43 final size:43
Alignment explanation
Indices: 60244920--60245055 Score: 227
Period size: 43 Copynumber: 3.2 Consensus size: 43
60244910 GCATGAAACT
*
60244920 CGGTGATGTGTATTGGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
60244963 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* **
60245006 CGGTGATGTGTATTCGGGTCTTCGTGCCTAGCAGGCTTAATGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
60245049 CGGTGAT
1 CGGTGAT
60245056 TCAAGCAAGG
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 87 1.00
ACGTcount: A:0.12, C:0.23, G:0.35, T:0.31
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:60245245 original size:29 final size:29
Alignment explanation
Indices: 60245212--60245311 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 29
60245202 ATGATTAGAG
*
60245212 GCACTGTGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGTGCAAATTCCTTTAACCGA
* ** **
60245241 GCACTATGTGTGCGAGA-T-CAGTAATTGA
1 GCACTATGTGTGC-AAATTCCTTTAACCGA
* * *
60245269 GGCACTGTGTGTACGAATTCCTTTAACCGA
1 -GCACTATGTGTGCAAATTCCTTTAACCGA
60245299 GCACTATGTGTGC
1 GCACTATGTGTGC
60245312 GAGATCGGTA
Statistics
Matches: 51, Mismatches: 16, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
28 7 0.14
29 36 0.71
30 8 0.16
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (29 bp):
GCACTATGTGTGCAAATTCCTTTAACCGA
Found at i:60245331 original size:29 final size:29
Alignment explanation
Indices: 60245241--60245395 Score: 113
Period size: 29 Copynumber: 5.4 Consensus size: 29
60245231 CTTTAACCGA
* *
60245241 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTAACTGAG
* * ** *
60245270 GCACTGTGTGTACGA-ATTCCTTTAACCGA-
1 GCACTATGTGTGCGAGA-T-CGGTAACTGAG
*
60245299 GCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTAACTGAG
* * * *
60245328 GCACTGTGTGTGCGAGTTC-TTCAACCGA-
1 GCACTATGTGTGCGAGATCGGT-AACTGAG
* *
60245356 GCACTATGTGTGCGAGATCGGTCAGTG-G
1 GCACTATGTGTGCGAGATCGGTAACTGAG
*
60245384 GCACTAAGTGTG
1 GCACTATGTGTG
60245396 TGAAATGAGA
Statistics
Matches: 95, Mismatches: 24, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
28 38 0.40
29 50 0.53
30 7 0.07
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.28
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCGGTAACTGAG
Found at i:60245387 original size:28 final size:28
Alignment explanation
Indices: 60245299--60245395 Score: 88
Period size: 28 Copynumber: 3.4 Consensus size: 28
60245289 CTTTAACCGA
* *
60245299 GCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTCACTG-G
* * * * *
60245328 GCACTGTGTGTGCGAGTTC-TTCAACCGA
1 GCACTATGTGTGCGAGATCGGTC-ACTGG
*
60245356 GCACTATGTGTGCGAGATCGGTCAGTGG
1 GCACTATGTGTGCGAGATCGGTCACTGG
*
60245384 GCACTAAGTGTG
1 GCACTATGTGTG
60245396 TGAAATGAGA
Statistics
Matches: 52, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
28 31 0.60
29 21 0.40
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.27
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGTCACTGG
Found at i:60245395 original size:58 final size:58
Alignment explanation
Indices: 60245209--60245377 Score: 286
Period size: 58 Copynumber: 2.9 Consensus size: 58
60245199 CGAATGATTA
* *
60245209 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
*
60245267 GAGGCACTGTGTGTACGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* *
60245325 GAGGCACTGTGTGTGCGAGTT-CTTCAACCGAGCACTATGTGTGCGAGATCGGT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGT
60245378 CAGTGGGCAC
Statistics
Matches: 105, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
57 31 0.30
58 74 0.70
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
Found at i:60249356 original size:35 final size:35
Alignment explanation
Indices: 60249317--60249389 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
60249307 GGTATGTGAT
60249317 ATATATATTATTTATGTGAGATTAATCTGACGAGA
1 ATATATATTATTTATGTGAGATTAATCTGACGAGA
*
60249352 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTAATCTGACGAGA
60249387 ATA
1 ATA
60249390 AAGAATGTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (35 bp):
ATATATATTATTTATGTGAGATTAATCTGACGAGA
Found at i:60256837 original size:12 final size:13
Alignment explanation
Indices: 60256821--60256858 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
60256811 AAGTAATGTA
60256821 AGGTATAATATAT
1 AGGTATAATATAT
*
60256834 -GGTAAAATATAT
1 AGGTATAATATAT
60256846 AGTGTATAATATA
1 AG-GTATAATATA
60256859 ATTTGTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 11 0.52
13 1 0.05
14 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (13 bp):
AGGTATAATATAT
Found at i:60256958 original size:52 final size:49
Alignment explanation
Indices: 60256871--60257014 Score: 121
Period size: 52 Copynumber: 2.8 Consensus size: 49
60256861 TTGTAAACAA
* ** *
60256871 AATATATAAT-AATATAAACCATATGATAAGTAATAAAAAAATATATAATAT
1 AATATATAATAAAAATAAAAAATAT-ATAAGAAATAAAAAAATA-A-AATAT
* *
60256922 AATATATAATAAAAATAAAAAATACTATAAGGAATAATATATAATAAAATAT
1 AATATATAATAAAAATAAAAAATA-TATAAGAAATAA-A-AAAATAAAATAT
* *
60256974 GATATGTAATAAAATATAAATAAA-ATATAATGAAATAAAAA
1 AATATATAATAAAA-ATAAA-AAATATATAA-GAAATAAAAA
60257015 TGCTATCATA
Statistics
Matches: 77, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
51 11 0.14
52 43 0.56
53 15 0.19
54 8 0.10
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (49 bp):
AATATATAATAAAAATAAAAAATATATAAGAAATAAAAAAATAAAATAT
Found at i:60256972 original size:12 final size:12
Alignment explanation
Indices: 60256903--60257002 Score: 66
Period size: 12 Copynumber: 8.1 Consensus size: 12
60256893 ATGATAAGTA
*
60256903 ATAAAAAAATAT
1 ATAATAAAATAT
*
60256915 ATAATATAATAT
1 ATAATAAAATAT
60256927 ATAAT-AAA-A-
1 ATAATAAAATAT
60256936 ATAA-AAAATACT
1 ATAATAAAATA-T
*
60256948 ATAAGGAATAATAT
1 ATAA-TAA-AATAT
60256962 ATAATAAAATATGAT
1 ATAAT-AAA-AT-AT
60256977 ATGTAATAAAATAT
1 A--TAATAAAATAT
60256991 A-AATAAAATAT
1 ATAATAAAATAT
60257002 A
1 A
60257003 ATGAAATAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 25
0.71 0.04 0.25
Matches are distributed among these distances:
9 7 0.10
10 2 0.03
11 13 0.18
12 19 0.26
13 1 0.01
14 14 0.19
15 9 0.12
16 3 0.04
17 4 0.06
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATAAAATAT
Found at i:60256978 original size:17 final size:17
Alignment explanation
Indices: 60256958--60256990 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
60256948 ATAAGGAATA
60256958 ATATATAATAAAATATG
1 ATATATAATAAAATATG
*
60256975 ATATGTAATAAAATAT
1 ATATATAATAAAATAT
60256991 AAATAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:60261662 original size:40 final size:40
Alignment explanation
Indices: 60261625--60261889 Score: 351
Period size: 40 Copynumber: 6.7 Consensus size: 40
60261615 GCTACTCGTT
*
60261625 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
60261665 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
60261705 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
60261745 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* *
60261785 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
60261824 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
60261865 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60261890 CATCATTCAA
Statistics
Matches: 201, Mismatches: 17, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.01
39 35 0.17
40 149 0.74
41 15 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:60279722 original size:26 final size:25
Alignment explanation
Indices: 60279683--60279731 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
60279673 ACCTGGGTTG
*
60279683 TATGAATTGCTACATGGTTGTACTT
1 TATGAATTGCTACAAGGTTGTACTT
* *
60279708 TATGAGATTTCTACAAGTTTGTAC
1 TATGA-ATTGCTACAAGGTTGTAC
60279732 GTAAATAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (25 bp):
TATGAATTGCTACAAGGTTGTACTT
Found at i:60280003 original size:49 final size:50
Alignment explanation
Indices: 60279923--60280155 Score: 292
Period size: 49 Copynumber: 4.7 Consensus size: 50
60279913 ATCTATTGTG
*
60279923 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
60279973 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATC-CGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA-CGTGTACCGGATAA-TT
* * * * * **
60280023 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
**
60280073 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
60280123 -GGTCGCATGTGTAGTACTAAGTGCAGGGTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
60280156 TTCGTACTAT
Statistics
Matches: 156, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
49 70 0.45
50 49 0.31
51 37 0.24
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:60286111 original size:49 final size:49
Alignment explanation
Indices: 60286032--60286259 Score: 285
Period size: 49 Copynumber: 4.6 Consensus size: 49
60286022 TCTAATGTGA
*
60286032 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * *
60286081 GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCTGATAACTTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA--TT
* * * * * **
60286132 GATCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
60286181 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
**
60286231 GGTTGCATGTGTAGTACTAAGTGCAGGCT
1 GGTCACATGTGTAGTACTAAGTGCAGGCT
60286260 GCTATGCATA
Statistics
Matches: 150, Mismatches: 26, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
49 69 0.46
50 43 0.29
51 38 0.25
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:60286168 original size:28 final size:28
Alignment explanation
Indices: 60286136--60286219 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
60286126 AACTTTGATC
60286136 ACGTGTGCAGTACTAAGTGCAGGCTACT
1 ACGTGTGCAGTACTAAGTGCAGGCTACT
* * *
60286164 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGT-GCAGTACTAAGTGCAGGCTACT
*
60286186 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGCAGTACTAAGTGCAGGCTACT
60286214 ACGTGT
1 ACGTGT
60286220 ACCGGATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 16
0.64 0.11 0.25
Matches are distributed among these distances:
21 2 0.05
22 7 0.17
23 2 0.05
24 3 0.07
25 6 0.15
26 3 0.07
27 2 0.05
28 13 0.32
29 3 0.07
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (28 bp):
ACGTGTGCAGTACTAAGTGCAGGCTACT
Found at i:60288018 original size:48 final size:48
Alignment explanation
Indices: 60287943--60288223 Score: 242
Period size: 48 Copynumber: 5.8 Consensus size: 48
60287933 GTTATGTGAA
* *
60287943 CTAGTGTAAGACCACGTTTGGAACATGGCATCGACATTGATATGAGAG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCGACATTGATATGAGAG
* * * * * * *
60287991 CTAATGTAAGACCCTGTCTGGGACATGGCATCAACCTCGATATGTGAG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCGACATTGATATGAGAG
* * * * *
60288039 CTAGTGTAAAACCATGTTTGAAACATGGCATCGGCATTTATATATGAGAG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCGACA-TT-GATATGAGAG
* * * * * ** * *
60288089 CTAGTGTAAGACCATGTCTGGGACATGGTATTGGCCTCAACATGTGAG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCGACATTGATATGAGAG
* *
60288137 CTAGTGTAAGACCATGTTTGGAACATGGCATCAGCACCAAT-ATATGAGAG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATC-G-A-CATTGATATGAGAG
* * *
60288187 CCAGTGTAAGACCATGTCTAGG-ACATGACATCAACAT
1 CTAGTGTAAGACCATGTCT-GGAACATGGCATCGACAT
60288224 CTTACCCTTT
Statistics
Matches: 180, Mismatches: 47, Indels: 13
0.75 0.20 0.05
Matches are distributed among these distances:
47 2 0.01
48 102 0.57
49 3 0.02
50 70 0.39
51 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (48 bp):
CTAGTGTAAGACCATGTCTGGAACATGGCATCGACATTGATATGAGAG
Found at i:60288114 original size:98 final size:97
Alignment explanation
Indices: 60287935--60288221 Score: 369
Period size: 98 Copynumber: 2.9 Consensus size: 97
60287925 ATACCAGGGT
* * * * *
60287935 TATGTGAACTAGTGTAAGACCACGTTTGGAACATGGCATCGACATT-GATATGAGAGCTAATGTA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATATATGAGAGCTAGTGTA
* *
60287999 AGACCCTGTCTGGGACATGGCATCAACCTCGA
66 AGACCATGTCTGGGACATGGCATCAACCTCAA
* *
60288031 TATGTGAGCTAGTGTAAAACCATGTTTGAAACATGGCATCGGCATTTATATATGAGAGCTAGTGT
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA-TTATATATGAGAGCTAGTGT
* ***
60288096 AAGACCATGTCTGGGACATGGTATTGGCCTCAA
65 AAGACCATGTCTGGGACATGGCATCAACCTCAA
* * ** *
60288129 CATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCACCAATATATGAGAGCCAGTGT
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA-TTATATATGAGAGCTAGTGT
* *
60288194 AAGACCATGTCTAGGACATGACATCAAC
65 AAGACCATGTCTGGGACATGGCATCAAC
60288222 ATCTTACCCT
Statistics
Matches: 162, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
96 39 0.24
97 2 0.01
98 121 0.75
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (97 bp):
TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATATATGAGAGCTAGTGTA
AGACCATGTCTGGGACATGGCATCAACCTCAA
Found at i:60289832 original size:28 final size:27
Alignment explanation
Indices: 60289736--60289837 Score: 89
Period size: 28 Copynumber: 3.7 Consensus size: 27
60289726 TAAATATCGC
* *
60289736 CCACTAGGCCCAATCTCTTTCATATGG
1 CCACTAGGCCCAATCACATTCATATGG
* * * * *
60289763 CC-CATTGGCCCATTCATATTTATGTGG
1 CCAC-TAGGCCCAATCACATTCATATGG
*
60289790 CCTATTAGGCCCAAATCACATTCATATGG
1 CC-ACTAGGCCC-AATCACATTCATATGG
60289819 CCACTAGGCCCAAATCACA
1 CCACTAGGCCC-AATCACA
60289838 CTTACAATTA
Statistics
Matches: 57, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
26 1 0.02
27 20 0.35
28 22 0.39
29 14 0.25
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.27
Consensus pattern (27 bp):
CCACTAGGCCCAATCACATTCATATGG
Found at i:60290088 original size:16 final size:16
Alignment explanation
Indices: 60290054--60290088 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
60290044 GTAGCCAAAC
*
60290054 TTTCAACTTTTCGGCA
1 TTTCAACTTTGCGGCA
*
60290070 TTTCAACTTTGCGGGA
1 TTTCAACTTTGCGGCA
60290086 TTT
1 TTT
60290089 GCCGATCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (16 bp):
TTTCAACTTTGCGGCA
Found at i:60293538 original size:43 final size:42
Alignment explanation
Indices: 60293452--60293575 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 42
60293442 TTTTTATCCT
* *
60293452 AAAATAATAATTTAAAAA-TGATAAGATAATCTTGGGTTGTTG
1 AAAA-AATAATTTAAAAAGAGATAAGATAAACTTGGGTTGTTG
* * * *
60293494 AAAAAATAATTTAAAAAGAGAAGAAGATAACCTTAGGTTTTTG
1 AAAAAATAATTTAAAAAGAG-ATAAGATAAACTTGGGTTGTTG
* * *
60293537 AAAGAAGAATTTAAAAGGAGGATAAGATAAACTTGGGTT
1 AAAAAATAATTTAAAAAGA-GATAAGATAAACTTGGGTT
60293576 CTTAGATTTA
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 13 0.19
42 5 0.07
43 49 0.72
44 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.19, T:0.29
Consensus pattern (42 bp):
AAAAAATAATTTAAAAAGAGATAAGATAAACTTGGGTTGTTG
Found at i:60297259 original size:134 final size:133
Alignment explanation
Indices: 60297020--60297269 Score: 351
Period size: 134 Copynumber: 1.9 Consensus size: 133
60297010 TAAATGGGTA
* ** *
60297020 TGCTCACACAAGTTGATAGTCCGAATGTAATTACACGATACCGCTCACACAAGCTGGTGAGTATC
1 TGCTCACACAAGTAGATAGTAAGAATGTAATTACACGATACCGCTCACACAAGCTGATGAGTATC
* * *
60297085 TATAACAAATGTCAAAACCCAACCATCGGTAGGACATTCAAGACCAGCACCTTGAACATAGTAAC
66 TACAACAAATGTCAAAACCCAACCATCGATAGGACATTCAAGACAAGCACCTTGAACATAGTAAC
60297150 CTC
131 CTC
* * *
60297153 TGCTCACACAAGTAGATGGTAAGAATGTAAGTTACACGAT-GCGACTCATACAAGCTGATGAGTA
1 TGCTCACACAAGTAGATAGTAAGAATGTAA-TTACACGATACCG-CTCACACAAGCTGATGAGTA
* *
60297217 TCTGCAACAAATGTC-GAACCTCAACCATCGATAGGACATTCAAGACAAGCACC
64 TCTACAACAAATGTCAAAACC-CAACCATCGATAGGACATTCAAGACAAGCACC
60297270 CGAAGCGTGG
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
133 32 0.31
134 70 0.69
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (133 bp):
TGCTCACACAAGTAGATAGTAAGAATGTAATTACACGATACCGCTCACACAAGCTGATGAGTATC
TACAACAAATGTCAAAACCCAACCATCGATAGGACATTCAAGACAAGCACCTTGAACATAGTAAC
CTC
Found at i:60298614 original size:33 final size:34
Alignment explanation
Indices: 60298554--60298622 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 34
60298544 CTTTTAGAGA
60298554 GAAAGAAATGAGAAAAAGGCAAGATGAAAGTTGG
1 GAAAGAAATGAGAAAAAGGCAAGATGAAAGTTGG
*
60298588 GAAAGAAATGAG-AAAATGCAAGATGAAAGTTGG
1 GAAAGAAATGAGAAAAAGGCAAGATGAAAGTTGG
60298621 GA
1 GA
60298623 CACTATAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 22 0.65
34 12 0.35
ACGTcount: A:0.52, C:0.03, G:0.32, T:0.13
Consensus pattern (34 bp):
GAAAGAAATGAGAAAAAGGCAAGATGAAAGTTGG
Found at i:60299869 original size:11 final size:11
Alignment explanation
Indices: 60299853--60299877 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60299843 CATCAATAGC
60299853 CTATGGAACTA
1 CTATGGAACTA
60299864 CTATGGAACTA
1 CTATGGAACTA
60299875 CTA
1 CTA
60299878 CGATCAATCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (11 bp):
CTATGGAACTA
Found at i:60302124 original size:48 final size:48
Alignment explanation
Indices: 60302053--60302379 Score: 381
Period size: 48 Copynumber: 6.8 Consensus size: 48
60302043 TTTGGGTGAT
*
60302053 ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCCACAAC
1 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCACAAC
* * * ***
60302101 ATGAGAGCCAATGTAAGACCATGTTTGGGATATGGCATCGGCCACCTT
1 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCACAAC
60302149 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCACAAC
1 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCACAAC
* * * ** *
60302197 ATGAGAGCTAGTGTAAG-CTCATGTTTGGGACATGGCA-TCGACATTGAT
1 ATGAGAGCCAGTGTAAGAC-CATGTTTGGGACATGGCATTGGCCA-CAAC
* * * ***
60302245 AT-ATGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACCTT
1 ATGA-GAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCACAAC
* *
60302293 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTTGGCCTCAAC
1 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCA-TTGGCCACAAC
* **
60302342 ATGTGAGCCAGTGTAAGACCATGTTTGAAACATGGCAT
1 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCAT
60302380 CGAGAATTCA
Statistics
Matches: 234, Mismatches: 38, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
47 6 0.03
48 184 0.79
49 44 0.19
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCACAAC
Found at i:60302313 original size:144 final size:145
Alignment explanation
Indices: 60302112--60302382 Score: 456
Period size: 144 Copynumber: 1.9 Consensus size: 145
60302102 TGAGAGCCAA
* *
60302112 TGTAAGACCATGTTTGGGATATGGCATCGGCCACCTTATGAGAGCCAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTTTGGGACATGGCATCGGCCACCTTATGAGAGCCAGTGTAAGACCATGTCTGG
* **
60302177 GACATGGCA-TTGGCCACAACATGAGAGCTAGTGTAAG-CTCATGTTTGGGACATGGCATCGACA
66 GACATGGCATTTGGCCACAACATGAGAGCCAGTGTAAGAC-CATGTTTGAAACATGGCATCGACA
60302240 TTGATATATGTGCTAG
130 TTGATATATGTGCTAG
60302256 TGTAAGACCATGTTTGGGACATGGCATCGGCCACCTTATGAGAGCCAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTTTGGGACATGGCATCGGCCACCTTATGAGAGCCAGTGTAAGACCATGTCTGG
* *
60302321 GACATGGCATTTGGCCTCAACATGTGAGCCAGTGTAAGACCATGTTTGAAACATGGCATCGA
66 GACATGGCATTTGGCCACAACATGAGAGCCAGTGTAAGACCATGTTTGAAACATGGCATCGA
60302383 GAATTCACTC
Statistics
Matches: 118, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
144 72 0.61
145 45 0.38
146 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (145 bp):
TGTAAGACCATGTTTGGGACATGGCATCGGCCACCTTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATTTGGCCACAACATGAGAGCCAGTGTAAGACCATGTTTGAAACATGGCATCGACAT
TGATATATGTGCTAG
Found at i:60312415 original size:68 final size:68
Alignment explanation
Indices: 60312265--60312422 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 68
60312255 CTAGCCAATT
* * *
60312265 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
**
60312330 TTTA
65 CATA
* * *
60312334 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
60312396 CTACATA
63 C-ACATA
*
60312403 GTATCTCGTAGCTTTCTTGT
1 -TATCTCGTAGCTCTCTTGT
60312423 ACACATGATG
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
68 35 0.47
69 7 0.09
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAC
ATA
Found at i:60319175 original size:48 final size:48
Alignment explanation
Indices: 60319066--60319490 Score: 340
Period size: 48 Copynumber: 8.9 Consensus size: 48
60319056 TTTGGGTGAT
* * **
60319066 ATGAGAGCCAATGTAAGACCATGTCTGGGACATGGAATC-A--ACATTG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACA-AC
* * * *
60319112 ATGTGTGCGCTAGTGTAAGACTATGGCTGGGACATGGCATCGACCACAAC
1 ATGAGAGC-C-AGTGTAAGACCATGTCTGGGACATGGCATCGACCACAAC
* * * ***
60319162 ATAAGAGCCAGTGTAAGACCATGTCTGGGACATGTCATCGGCCACCTT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACAAC
*
60319210 ATGAGAGCCAGTGTATGACCATGTCTGGGACATGGCATC-AGCCACAAC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCACAAC
* * * **
60319258 ATGAGAGCCAATGTAAGACCATGTTTGGGACATGGCATC-AGCATTGAC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCA-CAAC
* * * ** ** *
60319306 ATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCG-GTATTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCA-CAAC
* * * * * * ***
60319354 ATGTGTGCTAATGTAAGACCATGTTTGGGACATGGCATCGGCCACCTT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACAAC
* * * * *
60319402 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCTCGAC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACAAC
* * * *
60319450 ATGTGAGCCAGTGCAAGACCATGTTTGGAACATGGCATCGA
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA
60319491 TAATCCAGCC
Statistics
Matches: 311, Mismatches: 59, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
46 6 0.02
47 3 0.01
48 291 0.94
49 3 0.01
50 5 0.02
51 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACAAC
Found at i:60319238 original size:96 final size:96
Alignment explanation
Indices: 60319066--60319489 Score: 414
Period size: 96 Copynumber: 4.4 Consensus size: 96
60319056 TTTGGGTGAT
* * * * * *
60319066 ATGAGAGCCAATGTAAGACCATGTCTGGGACATGGAAT---CAACATTGATGTGTGCGCTAGTGT
1 ATGAGAGCCAATGTAAGACCATGTTTGGGACATGGCATCGGCCACCTT-ATGAGAGC-C-AGTGT
* *
60319128 AAGACTATGGCTGGGACATGGCATCGACCACAAC
63 AAGACCATGTCTGGGACATGGCATCGACCACAAC
* * * * *
60319162 ATAAGAGCCAGTGTAAGACCATGTCTGGGACATGTCATCGGCCACCTTATGAGAGCCAGTGTATG
1 ATGAGAGCCAATGTAAGACCATGTTTGGGACATGGCATCGGCCACCTTATGAGAGCCAGTGTAAG
60319227 ACCATGTCTGGGACATGGCATC-AGCCACAAC
66 ACCATGTCTGGGACATGGCATCGA-CCACAAC
* * * *
60319258 ATGAGAGCCAATGTAAGACCATGTTTGGGACATGGCATCAG-CA--TTGACATGTGTGCTAGTGT
1 ATGAGAGCCAATGTAAGACCATGTTTGGGACATGGCATCGGCCACCTT---ATGAGAGCCAGTGT
** ** *
60319320 AAGACCATGTCTGGGACATGGCATCG-GTATTGAT
63 AAGACCATGTCTGGGACATGGCATCGACCA-CAAC
* * *
60319354 ATGTGTGCTAATGTAAGACCATGTTTGGGACATGGCATCGGCCACCTTATGAGAGCCAGTGTAAG
1 ATGAGAGCCAATGTAAGACCATGTTTGGGACATGGCATCGGCCACCTTATGAGAGCCAGTGTAAG
* * * * *
60319419 ACCATGTTTGGGACATGGCATTGGCCTCGAC
66 ACCATGTCTGGGACATGGCATCGACCACAAC
* * * *
60319450 ATGTGAGCCAGTGCAAGACCATGTTTGGAACATGGCATCG
1 ATGAGAGCCAATGTAAGACCATGTTTGGGACATGGCATCG
60319490 ATAATCCAGC
Statistics
Matches: 271, Mismatches: 44, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
93 2 0.01
95 4 0.01
96 249 0.92
97 3 0.01
98 6 0.02
99 7 0.03
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (96 bp):
ATGAGAGCCAATGTAAGACCATGTTTGGGACATGGCATCGGCCACCTTATGAGAGCCAGTGTAAG
ACCATGTCTGGGACATGGCATCGACCACAAC
Found at i:60319325 original size:144 final size:143
Alignment explanation
Indices: 60319064--60319489 Score: 430
Period size: 144 Copynumber: 3.0 Consensus size: 143
60319054 CATTTGGGTG
* ** * * *
60319064 ATATGAGAGCCAATGTAAGACCATGTCTGGGACATGGAATCA---ACATTGATGTGTGCGCTAGT
1 ATATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCAGCCACA-ACATGAGAGC-C-AAT
* ** * * **
60319126 GTAAGACTATGGCTGGGACATGGCATCGACCA-CAACATAAGAGCCAGTGTAAGACCATGTCTGG
63 GTAAGACCATGTTTGGGACATGGCATC-AGCATCGACATGTGAGCCAGTGTAAGACCATGTCTGG
*
60319190 GACATGTCATCGGCCACCT
127 GACATGGCATCGG-CA-CT
* *
60319209 -TATGAGAGCCAGTGTATGACCATGTCTGGGACATGGCATCAGCCACAACATGAGAGCCAATGTA
1 ATATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCAGCCACAACATGAGAGCCAATGTA
* * *
60319273 AGACCATGTTTGGGACATGGCATCAGCATTGACATGTGTGCTAGTGTAAGACCATGTCTGGGACA
66 AGACCATGTTTGGGACATGGCATCAGCATCGACATGTGAGCCAGTGTAAGACCATGTCTGGGACA
* *
60319338 TGGCATCGGTATT
131 TGGCATCGGCACT
* * * * * *** *
60319351 GATATGTGTGCTAATGTAAGACCATGTTTGGGACATGGCATCGGCCACCTTATGAGAGCCAGTGT
1 -ATATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCAGCCACAACATGAGAGCCAATGT
** * * * *
60319416 AAGACCATGTTTGGGACATGGCATTGGCCTCGACATGTGAGCCAGTGCAAGACCATGTTTGGAAC
65 AAGACCATGTTTGGGACATGGCATCAGCATCGACATGTGAGCCAGTGTAAGACCATGTCTGGGAC
60319481 ATGGCATCG
130 ATGGCATCG
60319490 ATAATCCAGC
Statistics
Matches: 234, Mismatches: 41, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
142 1 0.00
143 4 0.02
144 219 0.94
145 1 0.00
146 6 0.03
147 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (143 bp):
ATATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCAGCCACAACATGAGAGCCAATGTA
AGACCATGTTTGGGACATGGCATCAGCATCGACATGTGAGCCAGTGTAAGACCATGTCTGGGACA
TGGCATCGGCACT
Found at i:60327633 original size:40 final size:39
Alignment explanation
Indices: 60327542--60327692 Score: 196
Period size: 40 Copynumber: 3.8 Consensus size: 39
60327532 TGGATGAAAA
* ** * *
60327542 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
60327581 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
*
60327621 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA--CTAAT
* *
60327661 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
60327693 AGTTATATCC
Statistics
Matches: 100, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 31 0.31
40 65 0.65
41 2 0.02
42 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:60329282 original size:22 final size:22
Alignment explanation
Indices: 60329248--60329296 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
60329238 TACTAACATG
*
60329248 TATATATACTATATATTTTTAT
1 TATATATACTATACATTTTTAT
*
60329270 TATAT-TACGTATACGTTTTTAT
1 TATATATAC-TATACATTTTTAT
60329292 T-TATA
1 TATATA
60329297 CGCCATGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (22 bp):
TATATATACTATACATTTTTAT
Found at i:60336444 original size:48 final size:48
Alignment explanation
Indices: 60336386--60336656 Score: 221
Period size: 48 Copynumber: 5.6 Consensus size: 48
60336376 CATACGGTGT
* * *
60336386 CGATGCCATGTCCTAGACATGGTCTTACACTGACACGTATAACAAAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCGTATAACAAGGC
* * * ** * *
60336434 CGATGCCATGTTCCAAAAATGGTCTTACACTGGGTCGCATATTC-AGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCGTATA-ACAAGGC
* * * ***
60336482 CGATGCCATGTGCTAGACATGGTCTTACCCTGGA-TC-TCATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GACTCGT-ATAACAAGGC
* * *
60336530 CGATGCCATGTCCCAGACATGGTCTTACACTAGTAC-AG-ATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTCGTATAACAAGGC
* * ****
60336578 CGGTGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCGT-ATAACAAGGC
60336626 CGATGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
60336657 AGTACACATA
Statistics
Matches: 174, Mismatches: 39, Indels: 20
0.75 0.17 0.09
Matches are distributed among these distances:
46 1 0.01
47 1 0.01
48 169 0.97
49 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCGTATAACAAGGC
Found at i:60336532 original size:96 final size:96
Alignment explanation
Indices: 60336386--60336667 Score: 322
Period size: 96 Copynumber: 2.9 Consensus size: 96
60336376 CATACGGTGT
* * **** *
60336386 CGATGCCATGTCCTAGACATGGTCTTACACT-GA-CACGTATAACAAAGCCGATGCCATGTTCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGATCTC--ATAATGTGGCCGATGCCATGTCCCA
* * * *
60336449 AAAATGGTCTTACACTGGGT-C-GCATATTC-AGGC
64 GACATGGTCTTACACT-AGTACAG-ATA-TCAACGC
* * *
60336482 CGATGCCATGTGCTAGACATGGTCTTACCCTGGATCTCATAATGTGGCCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGATCTCATAATGTGGCCGATGCCATGTCCCAGA
60336547 CATGGTCTTACACTAGTACAGATATCAACGC
66 CATGGTCTTACACTAGTACAGATATCAACGC
* * *
60336578 CGGTGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTTGCCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGATCTCATAATGTGGCCGATGCCATGTCCCAGA
*
60336643 CATGGTCTTACACTAGTACACATAT
66 CATGGTCTTACACTAGTACAGATAT
60336668 GAACCAAATG
Statistics
Matches: 162, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
95 4 0.02
96 153 0.94
97 3 0.02
98 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGATCTCATAATGTGGCCGATGCCATGTCCCAGA
CATGGTCTTACACTAGTACAGATATCAACGC
Found at i:60336600 original size:144 final size:144
Alignment explanation
Indices: 60336386--60336653 Score: 369
Period size: 144 Copynumber: 1.9 Consensus size: 144
60336376 CATACGGTGT
* *
60336386 CGATGCCATGTCCTAGACATGGTCTTACACTGACACGTATAACAAAGCCGATGCCATGTTCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACGTATAACAAAGCCGATGCCATGTCCCAAA
* * * *
60336451 AATGGTCTTACACTGGGTCGCATATTCAGGCCGATGCCATGTGCTAGACATGGTCTTACCCTGGA
66 AATGGTCTTACACTGGCTCGCATAATCAGGCCGATGCCATGTCCCAGACATGGTCTTACCCTGGA
60336516 TCTCATAATGTGGC
131 TCTCATAATGTGGC
* * *
60336530 CGATGCCATGTCCCAGACATGGTCTTACACTAGTACA-G-ATATCAACGCCGGTGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACGTATAACAAAGCCGATGCCATGTCCCA
* * * ***
60336593 GACATGGTCTTACACTGGCTCTCATAATGTTGCCGATGCCATGTCCCAGACATGGTCTTAC
64 AAAATGGTCTTACACTGGCTCGCATAATCAGGCCGATGCCATGTCCCAGACATGGTCTTAC
60336654 ACTAGTACAC
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
144 102 0.95
145 2 0.02
146 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (144 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACACGTATAACAAAGCCGATGCCATGTCCCAAA
AATGGTCTTACACTGGCTCGCATAATCAGGCCGATGCCATGTCCCAGACATGGTCTTACCCTGGA
TCTCATAATGTGGC
Done.