Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 86 of 89
Found at i:20675190 original size:2 final size:2
Alignment explanation
Indices: 20675183--20675227 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
20675173 ATTAGGTCAG
20675183 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20675225 AT A
1 AT A
20675228 CATAGTTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20677034 original size:19 final size:19
Alignment explanation
Indices: 20677006--20677055 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
20676996 TGATTGAATC
*
20677006 AGTATTGATACCGGGAGGT
1 AGTATAGATACCGGGAGGT
20677025 AGTATAGATACCGGGAGGT
1 AGTATAGATACCGGGAGGT
*
20677044 AGTATCGATACC
1 AGTATAGATACC
20677056 AGTCTATATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (19 bp):
AGTATAGATACCGGGAGGT
Found at i:20677226 original size:22 final size:22
Alignment explanation
Indices: 20677201--20677271 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 22
20677191 GGGGTATCGG
20677201 TACCATAGTATAGTAGTATTGA
1 TACCATAGTATAGTAGTATTGA
** * *
20677223 TACCATA--ATAGGGGTATCGG
1 TACCATAGTATAGTAGTATTGA
20677243 TACCATAGTATAGTAGTATTGA
1 TACCATAGTATAGTAGTATTGA
20677265 TACCATA
1 TACCATA
20677272 ATAGGGGTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 16 0.41
22 23 0.59
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (22 bp):
TACCATAGTATAGTAGTATTGA
Found at i:20677239 original size:20 final size:20
Alignment explanation
Indices: 20677216--20677281 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
20677206 TAGTATAGTA
20677216 GTATTGATACCATAATAGGG
1 GTATTGATACCATAATAGGG
* * **
20677236 GTATCGGTACCATAGTATAGTA
1 GTATTGATACCATA--ATAGGG
20677258 GTATTGATACCATAATAGGG
1 GTATTGATACCATAATAGGG
20677278 GTAT
1 GTAT
20677282 CTATACTATA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 20 0.56
22 16 0.44
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (20 bp):
GTATTGATACCATAATAGGG
Found at i:20677239 original size:42 final size:42
Alignment explanation
Indices: 20677191--20677282 Score: 184
Period size: 42 Copynumber: 2.2 Consensus size: 42
20677181 ATACCAGAAG
20677191 GGGGTATCGGTACCATAGTATAGTAGTATTGATACCATAATA
1 GGGGTATCGGTACCATAGTATAGTAGTATTGATACCATAATA
20677233 GGGGTATCGGTACCATAGTATAGTAGTATTGATACCATAATA
1 GGGGTATCGGTACCATAGTATAGTAGTATTGATACCATAATA
20677275 GGGGTATC
1 GGGGTATC
20677283 TATACTATAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (42 bp):
GGGGTATCGGTACCATAGTATAGTAGTATTGATACCATAATA
Found at i:20677694 original size:55 final size:54
Alignment explanation
Indices: 20677635--20677775 Score: 205
Period size: 54 Copynumber: 2.6 Consensus size: 54
20677625 AAAATATAAT
*
20677635 AAATTCATACTAAAG-GTATGAATTTCTGTATGGGCAC-ATTGTGTACAAAACTAAG
1 AAATTCATACT-AAGTGTATGAATTTCTGTATGGGCACTA-TGGGTAC-AAACTAAG
* *
20677690 AAATTCATACTAAGTGTATGAATTTCTGTAGGGGCACTATGGGTACAAACTGAG
1 AAATTCATACTAAGTGTATGAATTTCTGTATGGGCACTATGGGTACAAACTAAG
*
20677744 AAATTCATACTAAGTGTATGAATTTCCGTATG
1 AAATTCATACTAAGTGTATGAATTTCTGTATG
20677776 AGAAATATAT
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
54 40 0.51
55 38 0.48
56 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (54 bp):
AAATTCATACTAAGTGTATGAATTTCTGTATGGGCACTATGGGTACAAACTAAG
Found at i:20677764 original size:54 final size:55
Alignment explanation
Indices: 20677635--20677769 Score: 204
Period size: 55 Copynumber: 2.5 Consensus size: 55
20677625 AAAATATAAT
* *
20677635 AAATTCATACTAAAG-GTATGAATTTCTGTATGGGCACATTGTGTACAAAACTAAG
1 AAATTCATACT-AAGTGTATGAATTTCTGTAGGGGCACATTGGGTACAAAACTAAG
*
20677690 AAATTCATACTAAGTGTATGAATTTCTGTAGGGGCAC-TATGGGTAC-AAACTGAG
1 AAATTCATACTAAGTGTATGAATTTCTGTAGGGGCACAT-TGGGTACAAAACTAAG
20677744 AAATTCATACTAAGTGTATGAATTTC
1 AAATTCATACTAAGTGTATGAATTTC
20677770 CGTATGAGAA
Statistics
Matches: 75, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
54 37 0.49
55 38 0.51
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (55 bp):
AAATTCATACTAAGTGTATGAATTTCTGTAGGGGCACATTGGGTACAAAACTAAG
Found at i:20678093 original size:68 final size:68
Alignment explanation
Indices: 20677980--20678167 Score: 245
Period size: 68 Copynumber: 2.8 Consensus size: 68
20677970 AAAGATTAAT
* * *
20677980 AGGCCTAACTATGCATATGATAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGACT-GGATGTC
1 AGGCCTAACTATGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAG-TGTC
20678044 TTTG
65 TTTG
* * *
20678048 AGGCCTAACTGTGCATATGACAGAAAGTTGTCATTTATGCCAGTTAGATGAAATACTAAGTGTCT
1 AGGCCTAACTATGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
20678113 TTG
66 TTG
** * * *
20678116 ACACCTAACTATACA-ATTGCCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGGCCTAACTATGCATA-TGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
20678168 CGGTTAAGTA
Statistics
Matches: 105, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
67 1 0.01
68 103 0.98
69 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (68 bp):
AGGCCTAACTATGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCT
TTG
Found at i:20678324 original size:150 final size:150
Alignment explanation
Indices: 20678048--20678834 Score: 939
Period size: 150 Copynumber: 5.3 Consensus size: 150
20678038 GATGTCTTTG
*
20678048 AGGCCTAACTGTGCATATGACAGAAAGTTGTCATTTATGCCAGTTAGATGAAATACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAATACTAAGTGTCT
** * * *
20678113 TTGACACCTAACTATACAATTGCCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTA
66 TTGAGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTA
20678178 CCGTTGAGTAAAAGATTAAT
131 CCGTTGAGTAAAAGATTAAT
* * * *
20678198 AGGCTTAACTGTGCATATGACATAATGGTGTCATTTCTGCCAGTTAGATGAAATACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAATACTAAGTGTCT
* * * *
20678263 TTGTGGCCTAACTTTGCAATTGGCAGAAAGCTGTGAATTATGCCAGTTAGATGAACGGTTAAGTA
66 TTGAGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTA
20678328 CCGTTGAGTAAAAGATTAAT
131 CCGTTGAGTAAAAGATTAAT
* * * * ** *
20678348 AGGCCTAACTATGCATATGACAGAAAGGCGTCGTTTAGGTTAGTTAAATGAAATACTAAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAATACTAAGTGTCT
*
20678413 TTGAAGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTA
66 TTGAGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTA
20678478 CCGTTGAGTAAAAGATTAAT
131 CCGTTGAGTAAAAGATTAAT
* * * * *
20678498 AGGCCTAACTTTGCATATGACAGAAAGGTGTCATTTATGCTAGTTAAATGAAAGACTGAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAATACTAAGTGTCT
* ** * *
20678563 TTGAGGCCTAACTGTAC-ATATGATAGAAAGGTGTCATTTATTCCAGTTAGAT-----G-TAAG-
66 TTGAGGCCTAACTGTGCAAT-TGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGT
* *
20678620 A-C--TGGGT----G-TCT-TT
130 ACCGTTGAGTAAAAGAT-TAAT
* *
20678633 GAGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATG-AATGACTAAGTTT
1 -AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAT-ACTAAGTGT
* * * * *
20678697 CTTTGTGGCCTAACTGTGCAACTGGCAAAAAGGTGTCAATTATGCCAGTTAGATGAATGATTAAG
64 CTTTGAGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAG
** *
20678762 TACCGTTGAGTACCAGAATAAT
129 TACCGTTGAGTAAAAGATTAAT
** * * * *
20678784 -GGATTAATTGTGCACT-TGGCAGAAAGATGTCAATTATGCCAGTTAGATGAA
1 AGGCCTAACTGTGCA-TATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
20678835 TGATTAAGTA
Statistics
Matches: 544, Mismatches: 70, Indels: 46
0.82 0.11 0.07
Matches are distributed among these distances:
135 4 0.01
136 99 0.18
137 1 0.00
140 4 0.01
142 5 0.01
143 2 0.00
144 5 0.01
145 1 0.00
146 4 0.01
149 42 0.08
150 376 0.69
151 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (150 bp):
AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAATACTAAGTGTCT
TTGAGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTA
CCGTTGAGTAAAAGATTAAT
Found at i:20678583 original size:68 final size:68
Alignment explanation
Indices: 20678498--20678753 Score: 352
Period size: 68 Copynumber: 3.8 Consensus size: 68
20678488 AAAGATTAAT
* * *
20678498 AGGCCTAACTTTGCATATGACAGAAAGGTGTCATTTATGCTAGTTAAATGAAAGACTGAGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTGAGTGTCT
20678563 TTG
66 TTG
* * * * *
20678566 AGGCCTAACTGTACATATGATAGAAAGGTGTCATTTATTCCAGTTAGATGTAAGACTGGGTGTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTGAGTGTCT
20678631 TTG
66 TTG
* * * *
20678634 AGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAATGACTAAGTTTCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTGAGTGTCT
20678699 TTG
66 TTG
* * * *
20678702 TGGCCTAACTGTGCA-ACTGGCAAAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGGCCTAACTGTGCATA-TGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
20678754 TGATTAAGTA
Statistics
Matches: 165, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
67 1 0.01
68 164 0.99
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (68 bp):
AGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTGAGTGTCT
TTG
Found at i:20678852 original size:81 final size:81
Alignment explanation
Indices: 20678711--20678867 Score: 244
Period size: 81 Copynumber: 1.9 Consensus size: 81
20678701 GTGGCCTAAC
* * **
20678711 TGTGCAACTGGCAAAAAGGTGTCAATTATGCCAGTTAGATGAATGATTAAGTACCGTTGAGTACC
1 TGTGCAACTGGCAAAAAGATGTCAATTATGCCAGTTAGATGAATGATTAAGTACAGTTGAGTAAA
20678776 AGAATAATGGATTAAT
66 AGAATAATGGATTAAT
* *
20678792 TGTGC-ACTTGGCAGAAAGATGTCAATTATGCCAGTTAGATGAATGATTAAGTACATTTGAGTAA
1 TGTGCAAC-TGGCAAAAAGATGTCAATTATGCCAGTTAGATGAATGATTAAGTACAGTTGAGTAA
20678856 AAGAATAATGGA
65 AAGAATAATGGA
20678868 CTAACAAGTC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
80 2 0.03
81 67 0.97
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.29
Consensus pattern (81 bp):
TGTGCAACTGGCAAAAAGATGTCAATTATGCCAGTTAGATGAATGATTAAGTACAGTTGAGTAAA
AGAATAATGGATTAAT
Found at i:20681882 original size:29 final size:29
Alignment explanation
Indices: 20681840--20682214 Score: 669
Period size: 29 Copynumber: 12.9 Consensus size: 29
20681830 TTGTTTTGTG
* *
20681840 TTTTGGTCATATAATTCTGATAATTTATA
1 TTTTAGTCATATAATTCTGATATTTTATA
*
20681869 TTTTAGTCATATAATTCTGATATTTAATA
1 TTTTAGTCATATAATTCTGATATTTTATA
*
20681898 TTTTAGTCATATAATTCTGAAATTTTATA
1 TTTTAGTCATATAATTCTGATATTTTATA
*
20681927 TTTTAGTCATATAATTCTGAAATTTTATA
1 TTTTAGTCATATAATTCTGATATTTTATA
* *
20681956 TTTTAGTTATATAATTCTGATCTTTTATA
1 TTTTAGTCATATAATTCTGATATTTTATA
20681985 TTTTAGTCATATAATTCTGATATTTTATA
1 TTTTAGTCATATAATTCTGATATTTTATA
20682014 TTTTAGTCATATAATTCTGATATTTTATA
1 TTTTAGTCATATAATTCTGATATTTTATA
20682043 TTTTAGTCATATAATTCTGATATTTTATA
1 TTTTAGTCATATAATTCTGATATTTTATA
20682072 TTTTAGTCATATAATTCTGATATTTTATA
1 TTTTAGTCATATAATTCTGATATTTTATA
20682101 TTTTAGTCATATAATTCTGATATTTTATA
1 TTTTAGTCATATAATTCTGATATTTTATA
20682130 TTTTAGTCATATAATTCTGATATTTTATA
1 TTTTAGTCATATAATTCTGATATTTTATA
*
20682159 TTTTAGTCATATAATTCTTATATTTTATA
1 TTTTAGTCATATAATTCTGATATTTTATA
*
20682188 TTTTAGTCATATAATTCTTATATTTTA
1 TTTTAGTCATATAATTCTGATATTTTA
20682215 GTCCTTATAA
Statistics
Matches: 335, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 335 1.00
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (29 bp):
TTTTAGTCATATAATTCTGATATTTTATA
Found at i:20682232 original size:23 final size:22
Alignment explanation
Indices: 20682184--20682233 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
20682174 TCTTATATTT
** *
20682184 TATATTTTAGTCATATAATTCT
1 TATATTTTAGTCATATAAGGCA
*
20682206 TATATTTTAGTCCTTATAAGGCA
1 TATATTTTAGT-CATATAAGGCA
20682229 TATAT
1 TATAT
20682234 ATATAGGCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.50
Consensus pattern (22 bp):
TATATTTTAGTCATATAAGGCA
Found at i:20688461 original size:318 final size:309
Alignment explanation
Indices: 20687869--20688516 Score: 994
Period size: 318 Copynumber: 2.0 Consensus size: 309
20687859 CATGAACGGT
20687869 TCGAATCGTAAGCCTCCACGAAAACACATCTCGACCTCTACTTAGTTCACCCGATTGAGAGCAAA
1 TCGAATCGTAAGCCTCCACGAAAACACATCTCGACCTCTACTTAGTTCACCCGATTGAGAGCAAA
20687934 ATTTTACTTTTCCCAAAATCGGTTTTGAGAAAAACAGCTGAAGTAAAACAGCTGCTAGACCTTAC
66 ATTTTACTTTTCCCAAAATCGGTTTTGAGAAAAACAGCTGAAGTAAAACAGCTGCTAGACCTTAC
*
20687999 CTCCTTTAATATATCAATTACCCTGATCTTAGGGTTTTTTAAAGTATTTTGAATAATAAAAAAAT
131 CTCCTTTAATATATCAATTACCCTCATCTTAGGGTTTTTTAAAGTATTTTGAATAATAAAAAAAT
20688064 ATGTTTAATTAATTCAAATAAAATATATTAAAGATTATATATATGAATTGCAATCTTAATGTTTA
196 ATGTTTAATTAATTCAAATAAAATATATTAAAGATTATATATATGAATTGCAATCTTAATG----
20688129 TTTAAAAATTATTTAATTATTTGAATTATATATCAATTAAAAATAGTTGTAATCTAAA
257 -TT----ATTATTTAATTATTTGAATTATATATCAATTAAAAATAGTTGTAATCTAAA
20688187 TCGAATCGTAAGCCTCCACGAAAACACATCTCGACCTCTACTTAGTTCACCCGATTGAGAGCAAA
1 TCGAATCGTAAGCCTCCACGAAAACACATCTCGACCTCTACTTAGTTCACCCGATTGAGAGCAAA
20688252 ATTTTACTTTTCCCAAAATCGGTTTTGAGAAAAACAGCTGAAGTAAAACAGCTGCTAGACCTTAC
66 ATTTTACTTTTCCCAAAATCGGTTTTGAGAAAAACAGCTGAAGTAAAACAGCTGCTAGACCTTAC
20688317 CTCCTTTAAATATATCAATTACCCTAACATCTTAGGGTTTTTTAAAAGTTATTTTGAATTAATAA
131 CTCCTTT-AATATATCAATTACCCT--CATCTTAGGGTTTTTT-AAAG-TATTTTGAA-TAATAA
20688382 ATAAAATATTGTTTAATTAATTCAAATTAAATATATATTAAAGACTTATA-ATATGAATTGCAAT
190 A-AAAATA-TGTTTAATTAATTCAAA-TAAA-ATATATTAAAGA-TTATATATATGAATTGCAAT
20688446 CTTTAATGTTTATTTAAAAATTATTTAATTATTTTGAATTATATATCAATT-AAAATAGTTGTAA
250 C-TTAATG-----TT----ATTATTTAATTA-TTTGAATTATATATCAATTAAAAATAGTTGTAA
20688510 TCTAAA
304 TCTAAA
20688516 T
1 T
20688517 TACATTCTTT
Statistics
Matches: 316, Mismatches: 1, Indels: 15
0.95 0.00 0.05
Matches are distributed among these distances:
318 137 0.43
319 17 0.05
321 15 0.05
322 4 0.01
323 9 0.03
324 7 0.02
325 6 0.02
326 17 0.05
327 4 0.01
328 27 0.09
329 54 0.17
330 19 0.06
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (309 bp):
TCGAATCGTAAGCCTCCACGAAAACACATCTCGACCTCTACTTAGTTCACCCGATTGAGAGCAAA
ATTTTACTTTTCCCAAAATCGGTTTTGAGAAAAACAGCTGAAGTAAAACAGCTGCTAGACCTTAC
CTCCTTTAATATATCAATTACCCTCATCTTAGGGTTTTTTAAAGTATTTTGAATAATAAAAAAAT
ATGTTTAATTAATTCAAATAAAATATATTAAAGATTATATATATGAATTGCAATCTTAATGTTAT
TATTTAATTATTTGAATTATATATCAATTAAAAATAGTTGTAATCTAAA
Found at i:20697366 original size:205 final size:205
Alignment explanation
Indices: 20697001--20697436 Score: 662
Period size: 205 Copynumber: 2.1 Consensus size: 205
20696991 CCTGAATGTA
* *
20697001 ATTAT-ATATGTATACAATAAA-TCTGAGCTATTCTAATAAAGCAATTAGTTATAGAGGAAACTC
1 ATTATAATATATATACAATAAAGT-TGAGCTATTCCAATAAAGCAATTAGTTATAGAGGAAACTC
* * * * *
20697064 AAAAGCCATGGCTTTATGAATAGATTGTATCCAAACCATGACATTACTCGGATACTTGGTAGTTC
65 AAAAGCCATGGCTTTATGAATAGATCGTATCCAAACCATGACAGTACTCGGATACTCGGCAATTC
* * *
20697129 GGTGTTTGCTTCACTGCAATTGTCAGGTCGAAGACTTTGTGATGAGATGAACCCTTCAGCTAGCC
130 GGTGTTTGCTTCACTACAATTGTCAAGTCGAAGACTTTGTGATGAAATGAACCCTTCAGCTAGCC
20697194 CGATAAAGGTG
195 CGATAAAGGTG
* *
20697205 ATTATAATATATATACAATAAAGTTGAGTTATTCCAGTAAAGCAATTAGTTATAGAGGAAACTCA
1 ATTATAATATATATACAATAAAGTTGAGCTATTCCAATAAAGCAATTAGTTATAGAGGAAACTCA
* * * * *
20697270 AAAGCCCTGGCTTTATGAATAGATCGTATTCAAACGATGACAGTACTCGGATGCTCGGCAATTTG
66 AAAGCCATGGCTTTATGAATAGATCGTATCCAAACCATGACAGTACTCGGATACTCGGCAATTCG
* *
20697335 GTGTTTTC-TCTACTACAATTGTCAAGTCGAAGACTTTGTGATGAAATGAATCCTTCAGCTAGCC
131 GTGTTTGCTTC-ACTACAATTGTCAAGTCGAAGACTTTGTGATGAAATGAACCCTTCAGCTAGCC
20697399 CGATAAAGGTG
195 CGATAAAGGTG
20697410 ATTATAATATATATACAATAAAGTTGA
1 ATTATAATATATATACAATAAAGTTGA
20697437 ATTCAGCTAG
Statistics
Matches: 210, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
204 7 0.03
205 202 0.96
206 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (205 bp):
ATTATAATATATATACAATAAAGTTGAGCTATTCCAATAAAGCAATTAGTTATAGAGGAAACTCA
AAAGCCATGGCTTTATGAATAGATCGTATCCAAACCATGACAGTACTCGGATACTCGGCAATTCG
GTGTTTGCTTCACTACAATTGTCAAGTCGAAGACTTTGTGATGAAATGAACCCTTCAGCTAGCCC
GATAAAGGTG
Found at i:20700224 original size:42 final size:42
Alignment explanation
Indices: 20700152--20700242 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
20700142 ACTATTTTCA
* ** *
20700152 AAGATGA-TAAGTCCTTCGAGCCATCAGTAAGTTTTTCGAGC
1 AAGATGATTAAATCCTTCGAGCCATCAGTAAGCCTTTAGAGC
* * * *
20700193 ATGATGATTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
1 AAGATGATTAAATCCTTCGAGCCATCAGTAAGCCTTTAGAGC
20700235 AAGATGAT
1 AAGATGAT
20700243 ACGTTCTTCG
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 6 0.15
42 34 0.85
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31
Consensus pattern (42 bp):
AAGATGATTAAATCCTTCGAGCCATCAGTAAGCCTTTAGAGC
Found at i:20700625 original size:24 final size:26
Alignment explanation
Indices: 20700578--20700627 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
20700568 AATAAAAATA
*
20700578 AAAAAGAAGAAAAATGAAATAATAAT
1 AAAAAGAAGAAAAATGAAAGAATAAT
*
20700604 AAAAAG-AGAAAGA-GAAAGAATAAT
1 AAAAAGAAGAAAAATGAAAGAATAAT
20700628 TAAATAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 10 0.45
25 6 0.27
26 6 0.27
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (26 bp):
AAAAAGAAGAAAAATGAAAGAATAAT
Found at i:20700633 original size:35 final size:33
Alignment explanation
Indices: 20700568--20700634 Score: 80
Period size: 35 Copynumber: 2.0 Consensus size: 33
20700558 TCTCATTTAA
*
20700568 AATAAAAATAAAAAAGAAGAAAAATGAAATAAT
1 AATAAAAAGAAAAAAGAAGAAAAATGAAATAAT
* * *
20700601 AATAAAAAGAGAAAGAGAAAGAATAATTAAATAA
1 AATAAAAAGA-AAAAAG-AAGAAAAATGAAATAA
20700635 ACATTCAGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 9 0.32
34 5 0.18
35 14 0.50
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (33 bp):
AATAAAAAGAAAAAAGAAGAAAAATGAAATAAT
Found at i:20702020 original size:7 final size:7
Alignment explanation
Indices: 20702008--20702044 Score: 65
Period size: 7 Copynumber: 5.1 Consensus size: 7
20701998 TATAATTATG
20702008 ATATTTT
1 ATATTTT
20702015 ATATTTTT
1 ATA-TTTT
20702023 ATATTTT
1 ATATTTT
20702030 ATATTTT
1 ATATTTT
20702037 ATATTTT
1 ATATTTT
20702044 A
1 A
20702045 GTCCTTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 22 0.76
8 7 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATATTTT
Found at i:20710171 original size:48 final size:48
Alignment explanation
Indices: 20710095--20710326 Score: 253
Period size: 48 Copynumber: 5.0 Consensus size: 48
20710085 AAATTATATG
* * *
20710095 TGATGATGATTAGCACGTTTGGCGTCTGTGTGACGATGGTGCTACTAT
1 TGATAATGATTAGCACGTCTGACGTCTGTGTGACGATGGTGCTACTAT
* * *** *
20710143 TGATAATGATTATCACGCCTGACGTCTGTGTGACGATGACACTATTAT
1 TGATAATGATTAGCACGTCTGACGTCTGTGTGACGATGGTGCTACTAT
* * *
20710191 TGATGATGATTAGAACGTCTGACGTCTGTGTGACGATAGTGCTACTAT
1 TGATAATGATTAGCACGTCTGACGTCTGTGTGACGATGGTGCTACTAT
* *
20710239 TGATAATAATT---A-G-C--ACGTCTGTGTGACGCTGGTGCTACTAT
1 TGATAATGATTAGCACGTCTGACGTCTGTGTGACGATGGTGCTACTAT
* * * *
20710280 TGATAATGATTAGCATGTCTGACGTCTATGTGATGGTGGTGCTACTA
1 TGATAATGATTAGCACGTCTGACGTCTGTGTGACGATGGTGCTACTA
20710327 GTAATGATAA
Statistics
Matches: 151, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
41 35 0.23
43 1 0.01
44 2 0.01
45 2 0.01
46 1 0.01
48 110 0.73
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (48 bp):
TGATAATGATTAGCACGTCTGACGTCTGTGTGACGATGGTGCTACTAT
Found at i:20710217 original size:96 final size:89
Alignment explanation
Indices: 20710095--20710326 Score: 266
Period size: 89 Copynumber: 2.5 Consensus size: 89
20710085 AAATTATATG
* *
20710095 TGATGATGATTAGCACGTTTGGCGTCTGTGTGACGATGGTGCTACTATTGATAATGATTATCACG
1 TGATGATGATTAGCACGTCTGACGTCTGTGTGACGATGGTGCTACTATTGATAAT-A--ATCA-G
*
20710160 CCTGACGTCTGTGTGACGATGACACTATTAT
62 -C--ACGTCTGTGTGACGATGACACTACTAT
* * *
20710191 TGATGATGATTAGAACGTCTGACGTCTGTGTGACGATAGTGCTACTATTGATAATAATTAGCACG
1 TGATGATGATTAGCACGTCTGACGTCTGTGTGACGATGGTGCTACTATTGATAATAATCAGCACG
* ***
20710256 TCTGTGTGACGCTGGTGCTACTAT
66 TCTGTGTGACGATGACACTACTAT
* * * * *
20710280 TGATAATGATTAGCATGTCTGACGTCTATGTGATGGTGGTGCTACTA
1 TGATGATGATTAGCACGTCTGACGTCTGTGTGACGATGGTGCTACTA
20710327 GTAATGATAA
Statistics
Matches: 119, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
89 62 0.52
91 1 0.01
92 1 0.01
93 3 0.03
95 1 0.01
96 51 0.43
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (89 bp):
TGATGATGATTAGCACGTCTGACGTCTGTGTGACGATGGTGCTACTATTGATAATAATCAGCACG
TCTGTGTGACGATGACACTACTAT
Found at i:20710274 original size:41 final size:41
Alignment explanation
Indices: 20710212--20710300 Score: 142
Period size: 41 Copynumber: 2.2 Consensus size: 41
20710202 AGAACGTCTG
20710212 ACGTCTGTGTGACGATAGTGCTACTATTGATAATAATTAGC
1 ACGTCTGTGTGACGATAGTGCTACTATTGATAATAATTAGC
* * *
20710253 ACGTCTGTGTGACGCTGGTGCTACTATTGATAATGATTAGC
1 ACGTCTGTGTGACGATAGTGCTACTATTGATAATAATTAGC
*
20710294 ATGTCTG
1 ACGTCTG
20710301 ACGTCTATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (41 bp):
ACGTCTGTGTGACGATAGTGCTACTATTGATAATAATTAGC
Found at i:20710340 original size:48 final size:48
Alignment explanation
Indices: 20710253--20710347 Score: 118
Period size: 48 Copynumber: 2.0 Consensus size: 48
20710243 AATAATTAGC
* * * *
20710253 ACGTCTGTGTGACGCTGGTGCTACTATTGATAATGATTAGCATGTCTG
1 ACGTCTATGTGACGCTGGTGCTACTAGTAATAATAATTAGCATGTCTG
* * * *
20710301 ACGTCTATGTGATGGTGGTGCTACTAGTAATGATAATTAGCGTGTCT
1 ACGTCTATGTGACGCTGGTGCTACTAGTAATAATAATTAGCATGTCT
20710348 AACATTACTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (48 bp):
ACGTCTATGTGACGCTGGTGCTACTAGTAATAATAATTAGCATGTCTG
Found at i:20710526 original size:30 final size:30
Alignment explanation
Indices: 20710477--20710560 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 30
20710467 AATGAAAGTT
* * * *
20710477 AATGATACAAGCTACGAAATGAATTAAATG
1 AATGATACATGTTATGAAATAAATTAAATG
*
20710507 AATTATACATGTTATGAAATAAATTAAATG
1 AATGATACATGTTATGAAATAAATTAAATG
* *
20710537 AATGATACATGTTTTGAAACAAAT
1 AATGATACATGTTATGAAATAAAT
20710561 GAAGTGAGTG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.31
Consensus pattern (30 bp):
AATGATACATGTTATGAAATAAATTAAATG
Found at i:20714096 original size:10 final size:10
Alignment explanation
Indices: 20714081--20714105 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
20714071 TGAAAATAAG
20714081 GAAAGTGACT
1 GAAAGTGACT
20714091 GAAAGTGACT
1 GAAAGTGACT
20714101 GAAAG
1 GAAAG
20714106 GAAAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.32, T:0.16
Consensus pattern (10 bp):
GAAAGTGACT
Found at i:20720108 original size:15 final size:15
Alignment explanation
Indices: 20720084--20720127 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
20720074 TGAGTGTTTG
20720084 TTTG-TTTATTTTTA
1 TTTGTTTTATTTTTA
20720098 TTTGTTTTATTTTT-
1 TTTGTTTTATTTTTA
*
20720112 TTTAGTTTTAATTTTA
1 TTT-GTTTTATTTTTA
20720128 ATATTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (15 bp):
TTTGTTTTATTTTTA
Found at i:20727701 original size:25 final size:22
Alignment explanation
Indices: 20727657--20727706 Score: 55
Period size: 25 Copynumber: 2.1 Consensus size: 22
20727647 AGGATGATGA
*
20727657 ATTATATTTTAGGATTATATTT
1 ATTATATTTTAGGATTATATAT
*
20727679 ATTATTTTATTAGGTATTGATATAT
1 ATTATATT-TTAGG-ATT-ATATAT
20727704 ATT
1 ATT
20727707 TAAAACAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 5 0.22
24 3 0.13
25 8 0.35
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (22 bp):
ATTATATTTTAGGATTATATAT
Found at i:20734456 original size:19 final size:19
Alignment explanation
Indices: 20734434--20734486 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
20734424 AACTAAGGTC
20734434 GATTTCAACGACTAAAGTG
1 GATTTCAACGACTAAAGTG
* **
20734453 GATTTCAACTACTAGGGTG
1 GATTTCAACGACTAAAGTG
20734472 GATTTCAACGACTAA
1 GATTTCAACGACTAA
20734487 TAGGAGTTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (19 bp):
GATTTCAACGACTAAAGTG
Found at i:20737314 original size:20 final size:20
Alignment explanation
Indices: 20737289--20737340 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
20737279 ATAGACTAAA
20737289 AGTATTGATACTAGCCCAAG
1 AGTATTGATACTAGCCCAAG
20737309 AGTATTGATACTAGCCCAAG
1 AGTATTGATACTAGCCCAAG
20737329 AGTATTGATACT
1 AGTATTGATACT
20737341 CCTTCAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (20 bp):
AGTATTGATACTAGCCCAAG
Found at i:20740814 original size:18 final size:18
Alignment explanation
Indices: 20740791--20740838 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
20740781 ATAGATTAAA
20740791 AGTATCGATACTAGCCTG
1 AGTATCGATACTAGCCTG
20740809 AGTATCGATACTAGCCTG
1 AGTATCGATACTAGCCTG
20740827 AGTATCGATACT
1 AGTATCGATACT
20740839 CCTGTAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (18 bp):
AGTATCGATACTAGCCTG
Found at i:20744543 original size:194 final size:193
Alignment explanation
Indices: 20744093--20744799 Score: 724
Period size: 194 Copynumber: 3.6 Consensus size: 193
20744083 TTTGATTTAG
* ** * * * * *
20744093 AACCATTTTCAACGTAATTTTTACACCGTTTACATTGTCTCGTATGTGCCGATACTAGCCTTAAT
1 AACCATTTTCAACGCAATTTTTACACCACTTACAATATCTCGTATGTGCCGATATTAACCTCAAT
* * *
20744158 TAAAGCATAAGTGT-CAATAGTACACCTCTAATCTTATAAATTACGAAAATTTTCATATTAACTT
66 TAAAG-ATAAGT-TACAATACTACGCCTCTAATCTTATAAATTACG-AAA-----ATATTAACTA
* * * * * ** *
20744222 CCCAAAAATACTCCTAGAGCATGTCTATCAAGCCATTTTAGTTTCTTCTTCATTTATAAAACCAA
123 CCCAAAAATACCCCTAGAGTATGCCTATCAAACCATTTTAGTTTTTTCTTCATGCACAAAA-CAA
*
20744287 GATTTGA
187 GCTTTGA
** * * * *
20744294 AACCATTTTCAACGCGGTTTTTACCCCACTTATAATGTCTCGTATGTGCCGATATTAGCCTCAAT
1 AACCATTTTCAACGCAATTTTTACACCACTTACAATATCTCGTATGTGCCGATATTAACCTCAAT
* ** **
20744359 TGAAAGATAAGTTATAATACTACTTCTCTAATCTTATAAATTACGAAAATATTAACTACCTGAAA
66 T-AAAGATAAGTTACAATACTACGCCTCTAATCTTATAAATTACGAAAATATTAACTACCCAAAA
* *
20744424 ATACCCCTAGAATATGCCTATCAAATCATTTTAGTTTTTTCTTCATGCACAAAACAAGCTTTGA
130 ATACCCCTAGAGTATGCCTATCAAACCATTTTAGTTTTTTCTTCATGCACAAAACAAGCTTTGA
* * * *
20744488 AACTATTTTCAACGCGATTTTTACATCACTTACAATATCTCGTATGTGTCGATATTAACCTCAAC
1 AACCATTTTCAACGCAATTTTTACACCACTTACAATATCTCGTATGTGCCGATATTAACCTCAA-
* *
20744553 TAAAAGATAAGTTACAATACTACGCCTCTAATCTTATAAATTACAAAAAAATTCAAATTAACTAC
65 TTAAAGATAAGTTACAATACTACGCCTCTAATCTTATAAATTAC--GAAAA-T---ATTAACTAC
* *
20744618 CCAAAAATACCCCTCA-AGTATGCATATCAAACCATTTTAG-CTTTT-TTCATGCACAAAACAAG
124 CCAAAAATACCCCT-AGAGTATGCCTATCAAACCATTTTAGTTTTTTCTTCATGCACAAAACAAG
*
20744680 CTTTGG
188 CTTTGA
* * * * * *
20744686 AACCATTTTCAATGCAATTTTTAC-CTCACCTACAATATCTCGTATATGTCAATATTAACTTCAA
1 AACCATTTTCAACGCAATTTTTACAC-CACTTACAATATCTCGTATGTGCCGATATTAACCTCAA
* ** *
20744750 CTTAAAGATAAATTTTAATGCTACGCCT-TAATCTTATAAATTACGAAAAT
65 -TTAAAGATAAGTTACAATACTACGCCTCTAATCTTATAAATTACGAAAAT
20744800 TTTCATATTA
Statistics
Matches: 433, Mismatches: 62, Indels: 29
0.83 0.12 0.06
Matches are distributed among these distances:
194 105 0.24
195 63 0.15
196 4 0.01
197 17 0.04
198 100 0.23
199 4 0.01
200 46 0.11
201 90 0.21
202 4 0.01
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.35
Consensus pattern (193 bp):
AACCATTTTCAACGCAATTTTTACACCACTTACAATATCTCGTATGTGCCGATATTAACCTCAAT
TAAAGATAAGTTACAATACTACGCCTCTAATCTTATAAATTACGAAAATATTAACTACCCAAAAA
TACCCCTAGAGTATGCCTATCAAACCATTTTAGTTTTTTCTTCATGCACAAAACAAGCTTTGA
Found at i:20749403 original size:20 final size:20
Alignment explanation
Indices: 20749380--20749442 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 20
20749370 ATCTAAATTC
20749380 TAAACAGATTACCTAACAAT
1 TAAACAGATTACCTAACAAT
* **
20749400 TAAACATATTATAGATAAACAAT
1 TAAACAGA-T-TACCT-AACAAT
20749423 TAAACAGATTACCTTAACAA
1 TAAACAGATTACC-TAACAA
20749443 AATAACAAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 7 0.21
21 8 0.24
22 5 0.15
23 13 0.39
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (20 bp):
TAAACAGATTACCTAACAAT
Found at i:20749598 original size:24 final size:27
Alignment explanation
Indices: 20749537--20749590 Score: 81
Period size: 29 Copynumber: 1.9 Consensus size: 27
20749527 CCAATATATA
*
20749537 AACAATTAAACAAATTACATTGAAGAT
1 AACAATTAAACAAATTACAGTGAAGAT
20749564 GAAGCAATTAAACAAATTACAGTGAAG
1 -AA-CAATTAAACAAATTACAGTGAAG
20749591 TAAATTAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.22
Consensus pattern (27 bp):
AACAATTAAACAAATTACAGTGAAGAT
Found at i:20749971 original size:24 final size:24
Alignment explanation
Indices: 20749942--20749989 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
20749932 TAATTGGAAT
20749942 TTAAAAGGTCCGACTGTTGGAAGA
1 TTAAAAGGTCCGACTGTTGGAAGA
*
20749966 TTAAAAGGTCTGACTGTTGGAAGA
1 TTAAAAGGTCCGACTGTTGGAAGA
20749990 AAATCGAGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.27
Consensus pattern (24 bp):
TTAAAAGGTCCGACTGTTGGAAGA
Found at i:20755343 original size:16 final size:15
Alignment explanation
Indices: 20755320--20755351 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
20755310 ATCGAAATTA
20755320 ATCTGAACCGAAAGC
1 ATCTGAACCGAAAGC
20755335 ATCTCGAACCGAAAGC
1 ATCT-GAACCGAAAGC
20755351 A
1 A
20755352 AGCCAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.41, C:0.28, G:0.19, T:0.12
Consensus pattern (15 bp):
ATCTGAACCGAAAGC
Found at i:20755348 original size:32 final size:32
Alignment explanation
Indices: 20755265--20755349 Score: 98
Period size: 32 Copynumber: 2.7 Consensus size: 32
20755255 TAGTTGAATT
*
20755265 GAAAGCAACCCGAACCGAAAGTAATCTAAATC
1 GAAAGCAACCCGAACCGAAAGTAATCTAAACC
* * * * *
20755297 AAAATCAACCCGAATCGAAATTAATCTGAACC
1 GAAAGCAACCCGAACCGAAAGTAATCTAAACC
* *
20755329 GAAAGCATCTCGAACCGAAAG
1 GAAAGCAACCCGAACCGAAAG
20755350 CAAGCCAAAT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.46, C:0.25, G:0.15, T:0.14
Consensus pattern (32 bp):
GAAAGCAACCCGAACCGAAAGTAATCTAAACC
Found at i:20756795 original size:17 final size:17
Alignment explanation
Indices: 20756719--20756831 Score: 100
Period size: 17 Copynumber: 6.5 Consensus size: 17
20756709 TAATTTGTGC
* *
20756719 CTGATAATTGTAAAACAT
1 CTGATAACTGT-AAATAT
* *
20756737 ATGATATCTGTAAATAT
1 CTGATAACTGTAAATAT
* * * *
20756754 TTGATAAATGAAAACCAT
1 CTGATAACTGTAAA-TAT
20756772 CTGATAACTGTAAATAT
1 CTGATAACTGTAAATAT
* *
20756789 CTAATAACTGAAAATCAT
1 CTGATAACTGTAAAT-AT
*
20756807 CTGATAATTGTAAATAT
1 CTGATAACTGTAAATAT
20756824 CTGATAAC
1 CTGATAAC
20756832 GGTGAAATGT
Statistics
Matches: 74, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
17 39 0.53
18 35 0.47
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.34
Consensus pattern (17 bp):
CTGATAACTGTAAATAT
Found at i:20756831 original size:35 final size:34
Alignment explanation
Indices: 20756719--20756831 Score: 129
Period size: 35 Copynumber: 3.2 Consensus size: 34
20756709 TAATTTGTGC
* *
20756719 CTGATAATTGTAAAACATATGAT-ATCTGTAAATAT
1 CTGATAACTG-AAAACATCTGATAAT-TGTAAATAT
* * *
20756754 TTGATAAATGAAAACCATCTGATAACTGTAAATAT
1 CTGATAACTGAAAA-CATCTGATAATTGTAAATAT
*
20756789 CTAATAACTGAAAATCATCTGATAATTGTAAATAT
1 CTGATAACTGAAAA-CATCTGATAATTGTAAATAT
20756824 CTGATAAC
1 CTGATAAC
20756832 GGTGAAATGT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
34 4 0.06
35 61 0.92
36 1 0.02
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.34
Consensus pattern (34 bp):
CTGATAACTGAAAACATCTGATAATTGTAAATAT
Found at i:20757900 original size:25 final size:26
Alignment explanation
Indices: 20757872--20757925 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
20757862 AACTTAAATG
*
20757872 TTAAATTTA-ATAAAA-AAATCGGTAC
1 TTAAATTGATATAAAACAAATC-GTAC
20757897 TTAAATTGATATAAAACTAAATCGTAC
1 TTAAATTGATATAAAAC-AAATCGTAC
20757924 TT
1 TT
20757926 TCATCGTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 8 0.32
26 6 0.24
27 6 0.24
28 5 0.20
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.35
Consensus pattern (26 bp):
TTAAATTGATATAAAACAAATCGTAC
Found at i:20758503 original size:19 final size:20
Alignment explanation
Indices: 20758479--20758517 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
20758469 TAACCCTTCA
20758479 AATATT-ACATTCTTGAAAT
1 AATATTCACATTCTTGAAAT
20758498 AATATTCCACATTCTTGAAA
1 AATATT-CACATTCTTGAAA
20758518 AATCAGCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (20 bp):
AATATTCACATTCTTGAAAT
Found at i:20763763 original size:29 final size:29
Alignment explanation
Indices: 20763721--20763815 Score: 181
Period size: 29 Copynumber: 3.3 Consensus size: 29
20763711 CACCAACGAT
*
20763721 GTTGAACTTTAGTACATGAATGTACTAAA
1 GTTGAACTTTAGTACATGAATGTACCAAA
20763750 GTTGAACTTTAGTACATGAATGTACCAAA
1 GTTGAACTTTAGTACATGAATGTACCAAA
20763779 GTTGAACTTTAGTACATGAATGTACCAAA
1 GTTGAACTTTAGTACATGAATGTACCAAA
20763808 GTTGAACT
1 GTTGAACT
20763816 AATAATTGAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (29 bp):
GTTGAACTTTAGTACATGAATGTACCAAA
Found at i:20764008 original size:17 final size:17
Alignment explanation
Indices: 20763932--20764044 Score: 109
Period size: 17 Copynumber: 6.5 Consensus size: 17
20763922 TAATTTGTGC
* *
20763932 CTGATAATTGTAAAACAT
1 CTGATAACTGT-AAATAT
*
20763950 CTGATATCTGTAAATAT
1 CTGATAACTGTAAATAT
* * * *
20763967 TTGATAAATGAAAACCAT
1 CTGATAACTGTAAA-TAT
20763985 CTGATAACTGTAAATAT
1 CTGATAACTGTAAATAT
* *
20764002 CTAATAACTGAAAATCAT
1 CTGATAACTGTAAAT-AT
*
20764020 CTGATAATTGTAAATAT
1 CTGATAACTGTAAATAT
20764037 CTGATAAC
1 CTGATAAC
20764045 GGTGAAATGT
Statistics
Matches: 75, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
17 39 0.52
18 36 0.48
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (17 bp):
CTGATAACTGTAAATAT
Found at i:20764044 original size:35 final size:34
Alignment explanation
Indices: 20763932--20764044 Score: 138
Period size: 35 Copynumber: 3.2 Consensus size: 34
20763922 TAATTTGTGC
*
20763932 CTGATAATTGTAAAACATCTGAT-ATCTGTAAATAT
1 CTGATAACTG-AAAACATCTGATAAT-TGTAAATAT
* * *
20763967 TTGATAAATGAAAACCATCTGATAACTGTAAATAT
1 CTGATAACTGAAAA-CATCTGATAATTGTAAATAT
*
20764002 CTAATAACTGAAAATCATCTGATAATTGTAAATAT
1 CTGATAACTGAAAA-CATCTGATAATTGTAAATAT
20764037 CTGATAAC
1 CTGATAAC
20764045 GGTGAAATGT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
34 4 0.06
35 62 0.93
36 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (34 bp):
CTGATAACTGAAAACATCTGATAATTGTAAATAT
Found at i:20765921 original size:8 final size:8
Alignment explanation
Indices: 20765905--20765944 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
20765895 TTTGATGACT
20765905 AAATTACA
1 AAATTACA
*
20765913 AATTTACA
1 AAATTACA
20765921 AAATTACA
1 AAATTACA
*
20765929 AATTTACA
1 AAATTACA
20765937 AAATTACA
1 AAATTACA
20765945 GGGATTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (8 bp):
AAATTACA
Found at i:20765926 original size:16 final size:16
Alignment explanation
Indices: 20765905--20765944 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
20765895 TTTGATGACT
20765905 AAATTACAAATTTACA
1 AAATTACAAATTTACA
20765921 AAATTACAAATTTACA
1 AAATTACAAATTTACA
20765937 AAATTACA
1 AAATTACA
20765945 GGGATTACTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATTACAAATTTACA
Found at i:20779493 original size:18 final size:18
Alignment explanation
Indices: 20779470--20779509 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
20779460 ACTGGGACTT
*
20779470 GGTTGTAAT-TGGGCTTCG
1 GGTTGTAATCTGGCCTT-G
20779488 GGTTGTAATCTGGCCTTG
1 GGTTGTAATCTGGCCTTG
20779506 GGTT
1 GGTT
20779510 AAATTCGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.10, C:0.12, G:0.38, T:0.40
Consensus pattern (18 bp):
GGTTGTAATCTGGCCTTG
Found at i:20779603 original size:21 final size:21
Alignment explanation
Indices: 20779556--20779595 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
20779546 ATTAATTATA
20779556 ATAA-TATAATATAAAATAAC
1 ATAATTATAATATAAAATAAC
20779576 ATAATTATAATATAATAATA
1 ATAATTATAATATAA-AATA
20779596 TTATATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAATTATAATATAAAATAAC
Found at i:20780219 original size:19 final size:20
Alignment explanation
Indices: 20780195--20780233 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
20780185 TAACCCTTCA
20780195 AATATT-ACATTCTTGAAAT
1 AATATTCACATTCTTGAAAT
20780214 AATATTCCACATTCTTGAAA
1 AATATT-CACATTCTTGAAA
20780234 AATTGGCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (20 bp):
AATATTCACATTCTTGAAAT
Found at i:20782253 original size:25 final size:22
Alignment explanation
Indices: 20782228--20782282 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
20782218 TCATTGGTTA
* *
20782228 TTATTAT-TATATATATGATTTT
1 TTATTATGAATATATATGA-TGT
*
20782250 TTATCATGAATATATATGATGT
1 TTATTATGAATATATATGATGT
20782272 TTATTATGAAT
1 TTATTATGAAT
20782283 GTTACTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.55
Consensus pattern (22 bp):
TTATTATGAATATATATGATGT
Found at i:20782484 original size:39 final size:39
Alignment explanation
Indices: 20782430--20782565 Score: 200
Period size: 39 Copynumber: 3.5 Consensus size: 39
20782420 GCATATCGAT
* *
20782430 TAAGCAATTCGGTGCATATGGTGGGCACAACCTTATGTG
1 TAAGCACTTCGGTGCATATGGTGGGCACGACCTTATGTG
* *
20782469 TAAGCACTTTGGTGCATATGGTGGGCACGATCTTATGTG
1 TAAGCACTTCGGTGCATATGGTGGGCACGACCTTATGTG
* *
20782508 TAAGCACTCCGGTGCATATGGTGGGCATGACCTTATGTG
1 TAAGCACTTCGGTGCATATGGTGGGCACGACCTTATGTG
* *
20782547 TAAGCAATACGGTGCATAT
1 TAAGCACTTCGGTGCATAT
20782566 ATTTGACTAG
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 87 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (39 bp):
TAAGCACTTCGGTGCATATGGTGGGCACGACCTTATGTG
Found at i:20788966 original size:8 final size:8
Alignment explanation
Indices: 20788953--20789029 Score: 59
Period size: 8 Copynumber: 9.4 Consensus size: 8
20788943 TCGCCTAAAG
20788953 AAAGAAAA
1 AAAGAAAA
20788961 AAAGAAAA
1 AAAGAAAA
20788969 AAATGAAAA
1 AAA-GAAAA
* **
20788978 AATGAAGG
1 AAAGAAAA
20788986 AAAGAAAA
1 AAAGAAAA
20788994 ATAA-AAAA
1 A-AAGAAAA
**
20789002 TGAGAAAA
1 AAAGAAAA
20789010 GAAA-AAGAA
1 -AAAGAA-AA
20789019 AAAGAAAA
1 AAAGAAAA
20789027 AAA
1 AAA
20789030 ATAAATAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
7 1 0.02
8 38 0.72
9 14 0.26
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (8 bp):
AAAGAAAA
Found at i:20788988 original size:21 final size:20
Alignment explanation
Indices: 20788964--20789021 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
20788954 AAGAAAAAAA
20788964 GAAAAAAATGAAAAAATGAAG
1 GAAAAAAATGAAAAAATG-AG
20788985 GAAAGAAAAAT-AAAAAATGAG
1 G-AA-AAAAATGAAAAAATGAG
* *
20789006 AAAAGAAAAAGAAAAA
1 GAAA-AAAATGAAAAA
20789022 GAAAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
19 1 0.03
20 6 0.19
21 8 0.26
22 10 0.32
23 6 0.19
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (20 bp):
GAAAAAAATGAAAAAATGAG
Found at i:20788999 original size:22 final size:21
Alignment explanation
Indices: 20788967--20789021 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
20788957 AAAAAAAGAA
*
20788967 AAAAATGAAAAAATGAAGGAAAG
1 AAAAAT-AAAAAATG-AGAAAAG
20788990 AAAAATAAAAAATGAGAAAAG
1 AAAAATAAAAAATGAGAAAAG
*
20789011 AAAAAGAAAAA
1 AAAAATAAAAA
20789022 GAAAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 16 0.53
22 8 0.27
23 6 0.20
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.07
Consensus pattern (21 bp):
AAAAATAAAAAATGAGAAAAG
Found at i:20790843 original size:130 final size:131
Alignment explanation
Indices: 20790354--20790843 Score: 497
Period size: 130 Copynumber: 3.7 Consensus size: 131
20790344 ACAAGAGAAG
* * * * ** *
20790354 CAAATCGAATTTGATTCAATCTTCCCTGAAAAATAGTGGAATGAATCAACG-TTTCTAGAT-ATG
1 CAAATCTAACTTGATTCAATCCTCCCTGAAGAGCAGTGGAATGAATCAATGTTTTC-AGATCA-G
* * * * *
20790417 ATTTACCCTGAAGTGCAGCGGAGCAGATCCCCTTTTTTCAAATTTGATCTTCCCCGAGGGGAAGT
64 ATCTACCCTGAAGAGCAGCGGAGCAGAT-CCCTTTTTTCAAATTTGATCTTCCCTGAGGAGCAGT
20790482 GGAA
128 GGAA
* * * * * **
20790486 CAAATCTACCTCGAATCAATCCTCCTTGAAGTGCAGTGGAGAT-AATCAATGTTTTCAGATTTGA
1 CAAATCTAACTTGATTCAATCCTCCCTGAAGAGCAGTGGA-ATGAATCAATGTTTTCAGATCAGA
* * * * * * * ** * *
20790550 TATACCCTGAAGAGTAACGGATCATAT-CATTTTTTCAGATTTGATCTTCTTTGAGGATCAGTAG
65 TCTACCCTGAAGAGCAGCGGAGCAGATCCCTTTTTTCAAATTTGATCTTCCCTGAGGAGCAGTGG
20790614 AA
130 AA
* * * * * *
20790616 CAAATCTACCTTAAGT-AATTCCTCCCTGAAGTGCAGTGGAGTGAATCAATGTTTTCAGATCTGA
1 CAAATCTAACTTGATTCAA-TCCTCCCTGAAGAGCAGTGGAATGAATCAATGTTTTCAGATCAGA
* *
20790680 TCTACCCTGAAGAGCAGCGGAGCATATCCCTTTTTT-AAATTTGATCTTCCCTGAGAAGCAGTGG
65 TCTACCCTGAAGAGCAGCGGAGCAGATCCCTTTTTTCAAATTTGATCTTCCCTGAGGAGCAGTGG
20790744 AA
130 AA
* * *
20790746 CAAATCTAACTTGATTCAATCTTCCCTGAAGAGCAATGGAATGAATCAATGTTTTCAAATCAGAT
1 CAAATCTAACTTGATTCAATCCTCCCTGAAGAGCAGTGGAATGAATCAATGTTTTCAGATCAGAT
* * *
20790811 CTACCCTGAAGAGTAGCGGAGCGGATCTCTTTT
66 CTACCCTGAAGAGCAGCGGAGCAGATCCCTTTT
20790844 CAGATTCTAT
Statistics
Matches: 293, Mismatches: 58, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
129 3 0.01
130 212 0.72
131 9 0.03
132 63 0.22
133 6 0.02
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (131 bp):
CAAATCTAACTTGATTCAATCCTCCCTGAAGAGCAGTGGAATGAATCAATGTTTTCAGATCAGAT
CTACCCTGAAGAGCAGCGGAGCAGATCCCTTTTTTCAAATTTGATCTTCCCTGAGGAGCAGTGGA
A
Found at i:20791044 original size:3 final size:3
Alignment explanation
Indices: 20791036--20791138 Score: 70
Period size: 3 Copynumber: 33.7 Consensus size: 3
20791026 AAGCCATCAA
* * *
20791036 TAT TAT TAT TAT TAAT TAT AAT TAT TAT T-T TATT TAT T-T AAC TA-
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* *
20791080 TAT TGT TTT TAT TAT TAT TAT TAT T-T TAT ATAT ATATT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TA-T TA-T TAT TAT
*
20791128 TAT TTT TAT TA
1 TAT TAT TAT TA
20791139 CAGATTTTTT
Statistics
Matches: 82, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
2 7 0.09
3 56 0.68
4 18 0.22
5 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:20791145 original size:27 final size:27
Alignment explanation
Indices: 20791094--20791150 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
20791084 GTTTTTATTA
* *
20791094 TTATTATTATTTTATATATATATTTAT
1 TTATTATTATTTTATATACAGATTTAT
*
20791121 TTATTATTATTTT-TATTACAGATTTTT
1 TTATTATTATTTTATA-TACAGATTTAT
20791148 TTA
1 TTA
20791151 CAAGCCCACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (27 bp):
TTATTATTATTTTATATACAGATTTAT
Found at i:20792649 original size:21 final size:21
Alignment explanation
Indices: 20792625--20792666 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
20792615 CTACGTGGTA
*
20792625 ACTTTATGACTTATAATACTT
1 ACTTGATGACTTATAATACTT
20792646 ACTTGATGACTTATAATACTT
1 ACTTGATGACTTATAATACTT
20792667 TTTTTCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.45
Consensus pattern (21 bp):
ACTTGATGACTTATAATACTT
Found at i:20793993 original size:14 final size:13
Alignment explanation
Indices: 20793976--20794040 Score: 62
Period size: 13 Copynumber: 4.9 Consensus size: 13
20793966 TAGATAATCA
*
20793976 AAATAAAATACAT
1 AAATAAAAAACAT
20793989 GAAATAAAAAACAT
1 -AAATAAAAAACAT
* *
20794003 AAATTAAAAATA-
1 AAATAAAAAACAT
20794015 AAATAAAGAAA-AT
1 AAATAAA-AAACAT
20794028 AAATACAAAAACA
1 AAATA-AAAAACA
20794041 ACATAAAGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
12 7 0.16
13 21 0.49
14 15 0.35
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.17
Consensus pattern (13 bp):
AAATAAAAAACAT
Found at i:20794046 original size:26 final size:26
Alignment explanation
Indices: 20793990--20794048 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
20793980 AAAATACATG
* *
20793990 AAATAAA-AAACATAAATTAAAAATA
1 AAATAAAGAAACATAAATCAAAAACA
20794015 AAATAAAGAAA-ATAAATACAAAAACA
1 AAATAAAGAAACATAAAT-CAAAAACA
*
20794041 ACATAAAG
1 AAATAAAG
20794049 TTAAAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 13 0.45
26 16 0.55
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.15
Consensus pattern (26 bp):
AAATAAAGAAACATAAATCAAAAACA
Found at i:20795283 original size:22 final size:22
Alignment explanation
Indices: 20795255--20795309 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
20795245 CATTCAAAGG
*
20795255 GTATCGATATTTGGGAAGAATA
1 GTATCGATATCTGGGAAGAATA
*
20795277 GTATCGATATCTGGGAATAATA
1 GTATCGATATCTGGGAAGAATA
20795299 GTATCGATATC
1 GTATCGATATC
20795310 CAGGGTATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.33
Consensus pattern (22 bp):
GTATCGATATCTGGGAAGAATA
Found at i:20795902 original size:7 final size:7
Alignment explanation
Indices: 20795890--20795933 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
20795880 GATATAAGCC
20795890 ATGTGAT
1 ATGTGAT
*
20795897 ATGTGAC
1 ATGTGAT
20795904 ATGTGAAT
1 ATGTG-AT
20795912 ATGTGAT
1 ATGTGAT
*
20795919 ATGAGAT
1 ATGTGAT
*
20795926 ATATGAT
1 ATGTGAT
20795933 A
1 A
20795934 ATAAGATATG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 25 0.81
8 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.36
Consensus pattern (7 bp):
ATGTGAT
Found at i:20795915 original size:15 final size:14
Alignment explanation
Indices: 20795889--20795927 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
20795879 GGATATAAGC
20795889 CATGTGATATGTGA
1 CATGTGATATGTGA
20795903 CATGTGAATATGTGA
1 CATGTG-ATATGTGA
* *
20795918 TATGAGATAT
1 CATGTGATAT
20795928 ATGATAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (14 bp):
CATGTGATATGTGA
Found at i:20800211 original size:18 final size:18
Alignment explanation
Indices: 20800188--20800222 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20800178 AGGGTTCCAT
* *
20800188 GTGATCTTTCTGGACATA
1 GTGATCATTCGGGACATA
20800206 GTGATCATTCGGGACAT
1 GTGATCATTCGGGACAT
20800223 TTCTACGCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (18 bp):
GTGATCATTCGGGACATA
Found at i:20801908 original size:31 final size:31
Alignment explanation
Indices: 20801860--20801922 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
20801850 ACCAGATCTT
20801860 TATAAACCTTTTGGTCATAATCTTCTGATCC
1 TATAAACCTTTTGGTCATAATCTTCTGATCC
* *
20801891 TATAGACCTTTTTGTCATAATCTTCTGATCC
1 TATAAACCTTTTGGTCATAATCTTCTGATCC
20801922 T
1 T
20801923 TCTCCCTCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (31 bp):
TATAAACCTTTTGGTCATAATCTTCTGATCC
Found at i:20803622 original size:40 final size:40
Alignment explanation
Indices: 20803575--20803721 Score: 170
Period size: 40 Copynumber: 3.6 Consensus size: 40
20803565 TTAGCAGTGT
20803575 TTTTATACAAACGCCGCTATAGACTCGTACATTAGTGGCA
1 TTTTATACAAACGCCGCTATAGACTCGTACATTAGTGGCA
* * * * *
20803615 TTTTATACAAACGTCTCTATAGACTCGTACATTGGTAGCGT
1 TTTTATACAAACGCCGCTATAGACTCGTACATTAGTGGC-A
* * * *
20803656 TTTTATACAAACACCGCTATAGACTTG-ACTTTAGTGGCG
1 TTTTATACAAACGCCGCTATAGACTCGTACATTAGTGGCA
* *
20803695 TTTCTTTACAAACGCCGCTAAAGACTC
1 TTT-TATACAAACGCCGCTATAGACTC
20803722 ATAAATTTCT
Statistics
Matches: 88, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
39 3 0.03
40 62 0.70
41 23 0.26
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (40 bp):
TTTTATACAAACGCCGCTATAGACTCGTACATTAGTGGCA
Found at i:20803720 original size:81 final size:81
Alignment explanation
Indices: 20803573--20803721 Score: 210
Period size: 81 Copynumber: 1.8 Consensus size: 81
20803563 CTTTAGCAGT
* * * *
20803573 GTTTTTATACAAACGCCGCTATAGACTCGTACATTAGTGGCATTTTATACAAACGTCTCTATAGA
1 GTTTTTATACAAACACCGCTATAGACTCGTACATTAGTGGCATTTTATACAAACGCCGCTAAAGA
20803638 CTCGTACATTGGTAGC
66 CTCGTACATTGGTAGC
* * * *
20803654 GTTTTTATACAAACACCGCTATAGACTTG-ACTTTAGTGGCGTTTCTTTACAAACGCCGCTAAAG
1 GTTTTTATACAAACACCGCTATAGACTCGTACATTAGTGGCATTT-TATACAAACGCCGCTAAAG
20803718 ACTC
65 ACTC
20803722 ATAAATTTCT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
80 13 0.22
81 46 0.78
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (81 bp):
GTTTTTATACAAACACCGCTATAGACTCGTACATTAGTGGCATTTTATACAAACGCCGCTAAAGA
CTCGTACATTGGTAGC
Found at i:20804169 original size:37 final size:35
Alignment explanation
Indices: 20804111--20804405 Score: 237
Period size: 37 Copynumber: 8.2 Consensus size: 35
20804101 ATATATATAT
* * *
20804111 ATATATATATTGTATAG-TTTGAAAACATTTTTTAAA
1 ATATATATA-TATATAGTTTTTAAAACA-TTTTGAAA
*
20804147 AGTATATATATATATAGTTTTGAAAAACATGTTTGAAA
1 A-TATATATATATATAGTTTT-TAAAACAT-TTTGAAA
* *
20804185 ACATTTATATAATATAGTTTTTAAAACATTTTGAAA
1 ATATATATAT-ATATAGTTTTTAAAACATTTTGAAA
* * * *
20804221 ATAAATATAATATATAATTTTTAAAATATTTTTAAAA
1 ATATATAT-ATATATAGTTTTTAAAACA-TTTTGAAA
*
20804258 ATATATATATTACATAGTTTTTAAAACATTTTG---
1 ATATATATA-TATATAGTTTTTAAAACATTTTGAAA
*
20804291 A-A-A-ATATATATAGTTTTTAAAACATTTTTAAAA
1 ATATATATATATATAGTTTTTAAAACA-TTTTGAAA
* * *
20804324 CACATATATATTATATAGTTTTGAAATCATTTTGAAA
1 -ATATATATA-TATATAGTTTTTAAAACATTTTGAAA
* *
20804361 ACT-TATGTAATATATAGTTTTAAAAACATTTTTGAAA
1 A-TATATAT-ATATATAGTTTTTAAAACA-TTTTGAAA
20804398 ACTATATA
1 A-TATATA
20804406 ATTTTGAAAA
Statistics
Matches: 211, Mismatches: 27, Indels: 40
0.76 0.10 0.14
Matches are distributed among these distances:
29 17 0.08
30 7 0.03
31 1 0.00
32 1 0.00
33 1 0.00
34 1 0.00
35 1 0.00
36 61 0.29
37 79 0.37
38 42 0.20
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.44
Consensus pattern (35 bp):
ATATATATATATATAGTTTTTAAAACATTTTGAAA
Found at i:20804330 original size:29 final size:29
Alignment explanation
Indices: 20804271--20804331 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
20804261 TATATATTAC
* *
20804271 ATAGTTTTTAAAACATTTTGAAAATATAT
1 ATAGTTTTTAAAACATTTTGAAAACACAT
*
20804300 ATAGTTTTTAAAACATTTTTAAAACACAT
1 ATAGTTTTTAAAACATTTTGAAAACACAT
20804329 ATA
1 ATA
20804332 TATTATATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.43
Consensus pattern (29 bp):
ATAGTTTTTAAAACATTTTGAAAACACAT
Found at i:20804358 original size:67 final size:66
Alignment explanation
Indices: 20804230--20804405 Score: 201
Period size: 67 Copynumber: 2.6 Consensus size: 66
20804220 AATAAATATA
* * *
20804230 ATATATAATTTTTAAAATATTTTTAAAAATATATATATTACATAGTTTTTAAAACATTTTGAAAA
1 ATATATAATTTTTAAAACATTTTTAAAAACATATATATTACATAGTTTTGAAAACATTTTGAAAA
20804295 T
66 T
* * *
20804296 ATATATAGTTTTTAAAACATTTTTAAAACACATATATATTATATAGTTTTGAAATCATTTTGAAA
1 ATATATAATTTTTAAAACATTTTTAAAA-ACATATATATTACATAGTTTTGAAAACATTTTGAAA
20804361 ACTT
65 A--T
* *
20804365 ATGTAATATATAGTTTTAAAAACATTTTTGAAAAC-TATATA
1 A--T-ATATA-A-TTTTTAAAACATTTTTAAAAACATATATA
20804406 ATTTTGAAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
66 26 0.28
67 33 0.35
69 2 0.02
71 1 0.01
72 11 0.12
73 2 0.02
74 18 0.19
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (66 bp):
ATATATAATTTTTAAAACATTTTTAAAAACATATATATTACATAGTTTTGAAAACATTTTGAAAA
T
Found at i:20804426 original size:27 final size:28
Alignment explanation
Indices: 20804371--20804430 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
20804361 ACTTATGTAA
*
20804371 TATATAGTTTTAAAAACATTTTTGAAAAC
1 TATATAATTTTAAAAACATTTTT-AAAAC
* *
20804400 TATATAATTTTGAAAATATTTTT-AAAC
1 TATATAATTTTAAAAACATTTTTAAAAC
20804427 TATA
1 TATA
20804431 ATATATAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 8 0.29
29 20 0.71
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (28 bp):
TATATAATTTTAAAAACATTTTTAAAAC
Found at i:20804482 original size:2 final size:2
Alignment explanation
Indices: 20804471--20804501 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
20804461 GTTTTGGAAA
20804471 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20804502 TATTTGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:20804743 original size:16 final size:15
Alignment explanation
Indices: 20804722--20804751 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
20804712 CCGGTCGAAG
20804722 ATCCCGGGACTGACCC
1 ATCCCGGGA-TGACCC
20804738 ATCCCGGGATGACC
1 ATCCCGGGATGACC
20804752 GGCCACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.40, G:0.27, T:0.13
Consensus pattern (15 bp):
ATCCCGGGATGACCC
Found at i:20805774 original size:14 final size:14
Alignment explanation
Indices: 20805749--20805791 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
20805739 ATATCTTTCA
*
20805749 TTTATTTATTTTTATT
1 TTTATTT-TTTTT-GT
20805765 TTTATTTTTTTTGT
1 TTTATTTTTTTTGT
20805779 TTTATTTTCTTTT
1 TTTATTTT-TTTT
20805792 TGGTTTTCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 9 0.36
15 9 0.36
16 7 0.28
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.84
Consensus pattern (14 bp):
TTTATTTTTTTTGT
Found at i:20805942 original size:15 final size:15
Alignment explanation
Indices: 20805922--20805964 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
20805912 TAATTAATCT
*
20805922 TATTTTTTTATTTAA
1 TATTTTTTTATCTAA
20805937 TATTTTTTTATCTAA
1 TATTTTTTTATCTAA
*
20805952 CATTTTTTTATCT
1 TATTTTTTTATCT
20805965 TTTTAAGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTTTTATCTAA
Found at i:20811047 original size:84 final size:82
Alignment explanation
Indices: 20810873--20811756 Score: 893
Period size: 84 Copynumber: 10.7 Consensus size: 82
20810863 TAAACAAACT
* * ** * * *
20810873 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCCCCAAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGC
* *
20810935 TTAGCTTCGAGGGCACATC
66 TCAGC-TC-AAGGCACATC
* * * * *
20810954 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACC-AAAGACCTTCGAGTTCGACTACG
20811019 CTCAGCTCAACGGCACATC
65 CTCAGCTCAA-GGCACATC
* * * ** * *
20811038 ATTTGCAGCATAGCTTAAGTCGAGAAAGGCTATC--TG-CCAAAGACCCCCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGC
*
20811100 TCAGCTTCGAGGGCACATC
66 TCAGC-TC-AAGGCACATC
* *
20811119 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCCAACCAAAGACCTTTGAGTTCGACTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGT--GACCAAAGACCTTCGAGTTCGACTAC
20811183 GCTCAGCTCCAAGGCACATC
64 GCTCAGCT-CAAGGCACATC
* * * * *
20811203 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGA-CTCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCT-TCGAGTTCGACTACG
20811264 CTCAGCTTCGAAGGCACATC
65 CTCAGC-TC-AAGGCACATC
* * * * *
20811284 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACC-AAAGACCTTCGAGTTCGACTACG
20811349 CTCAGCTCAACGGCACATC
65 CTCAGCTCAA-GGCACATC
* * ** * *
20811368 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCCCCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGC
*
20811430 TCAGCTTCGAGGGCACATC
66 TCAGC-TC-AAGGCACATC
**
20811449 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGACTACG
*
20811514 CTCAGCTCCAAGGCATATC
65 CTCAGCT-CAAGGCACATC
* * * * **
20811533 ATTTGCAGTACAACTTAAGTCTAGAAGGGTTATCGGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGACTACG
*
20811598 CTCAGCTCCAAGGCATATC
65 CTCAGCT-CAAGGCACATC
* * * ** * * *
20811617 ATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCAAACAAAAGACCTTTGAGTTCGACTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGACTACG
20811682 CTCAGCTCAACGGCACATC
65 CTCAGCTCAA-GGCACATC
* * *
20811701 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CTAAAGACCTTCGAGTTCGA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGA
20811757 TTATATTCAA
Statistics
Matches: 677, Mismatches: 97, Indels: 59
0.81 0.12 0.07
Matches are distributed among these distances:
79 2 0.00
80 91 0.13
81 154 0.23
82 7 0.01
83 11 0.02
84 311 0.46
85 99 0.15
86 2 0.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (82 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGC
TCAGCTCAAGGCACATC
Found at i:20811147 original size:165 final size:165
Alignment explanation
Indices: 20810873--20811759 Score: 1300
Period size: 165 Copynumber: 5.4 Consensus size: 165
20810863 TAAACAAACT
* *
20810873 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTTA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * *
20810938 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTAACCAAAAGACC
20811003 TTTGAGTTCGACTACGCTCAGCTCAACGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCAACGGCACATC
*
20811038 ATTTGCAGCATAGCTTAAGTCGAGAAAGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
*
20811103 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCCAACC-AAAGA
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGT--AACCAAAAGA
20811166 CCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
129 CCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATC
*
20811203 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACTCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * *
20811268 GCTTCGAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTAACCAAAAGACC
20811333 TTTGAGTTCGACTACGCTCAGCTCAACGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCAACGGCACATC
20811368 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* *
20811433 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGAC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-TAACCAAAAGAC
* *
20811497 CTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATC
130 CTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATC
* * * * * * ** * *
20811533 ATTTGCAGTACAACTTAAGTCTAGAAGGGTTATCGGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACA
* * * * * * *
20811598 CTCAGC-TCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCAAACAAAA
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTAACCAAAA
*
20811662 GACCTTTGAGTTCGACTACACTCAGCTCAACGGCACATC
127 GACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATC
* **
20811701 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCTTCGAGTTCGATTA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
20811760 TATTCAACTT
Statistics
Matches: 654, Mismatches: 54, Indels: 29
0.89 0.07 0.04
Matches are distributed among these distances:
164 28 0.04
165 471 0.72
166 13 0.02
167 7 0.01
168 108 0.17
169 27 0.04
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (165 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTAACCAAAAGACC
TTTGAGTTCGACTACGCTCAGCTCAACGGCACATC
Found at i:20811474 original size:330 final size:329
Alignment explanation
Indices: 20810873--20811759 Score: 1434
Period size: 330 Copynumber: 2.7 Consensus size: 329
20810863 TAAACAAACT
* *
20810873 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTTA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA-CCCCGAGTTCGATTACACTCA
*
20810938 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
65 GCTTCGAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
*
20811003 TTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAAGGC
130 TTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
20811068 TATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
195 TATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
* *
20811133 TTAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
260 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
20811198 ACATC
325 ACATC
20811203 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACTCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC-CCCGAGTTCGATTACACTCA
20811268 GCTTCGAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
65 GCTTCGAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
20811333 TTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
130 TTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
20811398 TATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
195 TATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
20811463 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
260 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
*
20811528 ATATC
325 ACATC
* * * * * * * * *
20811533 ATTTGCAGTACAACTTAAGTCTAGAAGGGTTATCGGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACC-CCGAGTTCGATTACA
* * * * * * * ** *
20811598 CTCAGC-TCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCAAACAAAA
61 CTCAGCTTCGAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAA
*
20811662 GACCTTTGAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
126 GACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
* **
20811727 GGGCTATCTGCTAAAGACCTTCGAGTTCGATTA
191 GGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
20811760 TATTCAACTT
Statistics
Matches: 521, Mismatches: 30, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
329 1 0.00
330 351 0.67
333 143 0.27
334 26 0.05
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (329 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCGAGTTCGATTACACTCAG
CTTCGAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCT
TTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCT
ATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACT
TAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA
CATC
Found at i:20812445 original size:36 final size:36
Alignment explanation
Indices: 20812357--20812607 Score: 203
Period size: 37 Copynumber: 6.9 Consensus size: 36
20812347 ATAATATTGT
* * *
20812357 ATATATATAATATAGTTTTGAAAACATGTTTGAAAACAT
1 ATATA-AT-ATATAGTTTTTAAAACAT-TTTGAAAATAA
*
20812396 TTATATATAATATAGTTTTTAAAACATTTTGAAAATAA
1 ATATA-AT-ATATAGTTTTTAAAACATTTTGAAAATAA
* * * *
20812434 ATATAATATATAATTTTTAAAATATTTTTAAAAATAT
1 ATATAATATATAGTTTTTAAAACA-TTTTGAAAATAA
*
20812471 ATATATTATATAGTTTTTAAAACATTTTG-----AA
1 ATATAATATATAGTTTTTAAAACATTTTGAAAATAA
* *
20812502 A-AT-ATATATAGTTTTTAAAACATTTTTAAAACACA
1 ATATAATATATAGTTTTTAAAACATTTTGAAAATA-A
* * * *
20812537 TATATATTATATAGTTTTGAAATCATTTTGAAAACT-T
1 -ATATAATATATAGTTTTTAAAACATTTTGAAAA-TAA
* *
20812574 ATGTAATATATAGTTTTAAAAACATTTTTGAAAA
1 ATATAATATATAGTTTTTAAAACA-TTTTGAAAA
20812608 CTATATAATT
Statistics
Matches: 174, Mismatches: 26, Indels: 26
0.77 0.12 0.12
Matches are distributed among these distances:
29 22 0.13
30 2 0.01
31 2 0.01
34 1 0.01
35 1 0.01
36 40 0.23
37 44 0.25
38 37 0.21
39 25 0.14
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (36 bp):
ATATAATATATAGTTTTTAAAACATTTTGAAAATAA
Found at i:20812481 original size:37 final size:36
Alignment explanation
Indices: 20812356--20812601 Score: 206
Period size: 36 Copynumber: 6.9 Consensus size: 36
20812346 TATAATATTG
*
20812356 TATATATATAATATAGTTTTGAAAACATGTTTGAAAACA
1 TATATATATAATATAGTTTTTAAAACAT-TTT-AAAA-A
* *
20812395 TTTATATATAATATAGTTTTTAAAACATTTTGAAAA
1 TATATATATAATATAGTTTTTAAAACATTTTAAAAA
* * *
20812431 TAAATATA-ATATATAATTTTTAAAATATTTTTAAAAA
1 TATATATATA-ATATAGTTTTTAAAACA-TTTTAAAAA
* *
20812468 TATATATATTATATAGTTTTTAAAACATTTT---GA
1 TATATATATAATATAGTTTTTAAAACATTTTAAAAA
20812501 -A-A-ATAT-ATATAGTTTTTAAAACATTTTTAAAACA
1 TATATATATAATATAGTTTTTAAAACA-TTTTAAAA-A
* * * * *
20812535 CATATATATTATATAGTTTTGAAATCATTTTGAAAAC
1 TATATATATAATATAGTTTTTAAAACATTTT-AAAAA
* *
20812572 T-TATGTA-ATATATAGTTTTAAAAACATTTT
1 TATATATATA-ATATAGTTTTTAAAACATTTT
20812602 TGAAAACTAT
Statistics
Matches: 171, Mismatches: 22, Indels: 31
0.76 0.10 0.14
Matches are distributed among these distances:
29 17 0.10
30 8 0.05
31 1 0.01
32 1 0.01
33 1 0.01
34 1 0.01
35 2 0.01
36 51 0.30
37 41 0.24
38 22 0.13
39 26 0.15
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (36 bp):
TATATATATAATATAGTTTTTAAAACATTTTAAAAA
Found at i:20812515 original size:29 final size:29
Alignment explanation
Indices: 20812477--20812532 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
20812467 ATATATATAT
20812477 TATATAGTTTTTAAAACATTTTGAAAATA
1 TATATAGTTTTTAAAACATTTTGAAAATA
*
20812506 TATATAGTTTTTAAAACATTTTTAAAA
1 TATATAGTTTTTAAAACATTTTGAAAA
20812533 CACATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (29 bp):
TATATAGTTTTTAAAACATTTTGAAAATA
Found at i:20812539 original size:29 final size:29
Alignment explanation
Indices: 20812478--20812540 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
20812468 TATATATATT
* *
20812478 ATATAGTTTTTAAAACATTTTGAAAATAT
1 ATATAGTTTTTAAAACATTTTGAAAACAC
*
20812507 ATATAGTTTTTAAAACATTTTTAAAACAC
1 ATATAGTTTTTAAAACATTTTGAAAACAC
20812536 ATATA
1 ATATA
20812541 TATTATATAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (29 bp):
ATATAGTTTTTAAAACATTTTGAAAACAC
Found at i:20812548 original size:38 final size:38
Alignment explanation
Indices: 20812505--20812616 Score: 124
Period size: 36 Copynumber: 3.1 Consensus size: 38
20812495 TTTTGAAAAT
*
20812505 ATATATAGTTTTTAAAACATTTTTAAAACACATATATA
1 ATATATAGTTTTAAAAACATTTTTAAAACACATATATA
* * * * * *
20812543 TTATATAGTTTTGAAATCA-TTTTGAAA-ACTTATGTA
1 ATATATAGTTTTAAAAACATTTTTAAAACACATATATA
*
20812579 ATATATAGTTTTAAAAACATTTTTGAAA-AC-TATATA
1 ATATATAGTTTTAAAAACATTTTTAAAACACATATATA
20812615 AT
1 AT
20812617 TTTGAAAATA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
36 30 0.48
37 17 0.27
38 16 0.25
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (38 bp):
ATATATAGTTTTAAAAACATTTTTAAAACACATATATA
Found at i:20812566 original size:67 final size:66
Alignment explanation
Indices: 20812439--20812614 Score: 210
Period size: 67 Copynumber: 2.6 Consensus size: 66
20812429 AATAAATATA
* * *
20812439 ATATATAATTTTTAAAATATTTTTAAAAATATATATATTATATAGTTTTTAAAACATTTTGAAAA
1 ATATATAATTTTTAAAACATTTTTAAAAACATATATATTATATAGTTTTGAAAACATTTTGAAAA
20812504 T
66 T
* *
20812505 ATATATAGTTTTTAAAACATTTTTAAAACACATATATATTATATAGTTTTGAAATCATTTTGAAA
1 ATATATAATTTTTAAAACATTTTTAAAA-ACATATATATTATATAGTTTTGAAAACATTTTGAAA
20812570 ACTT
65 A--T
* *
20812574 ATGTAATATATAGTTTTAAAAACATTTTTGAAAAC-TATATA
1 A--T-ATATA-A-TTTTTAAAACATTTTTAAAAACATATATA
20812615 ATTTTGAAAA
Statistics
Matches: 94, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
66 26 0.28
67 34 0.36
69 2 0.02
71 1 0.01
72 11 0.12
73 2 0.02
74 18 0.19
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (66 bp):
ATATATAATTTTTAAAACATTTTTAAAAACATATATATTATATAGTTTTGAAAACATTTTGAAAA
T
Found at i:20812624 original size:29 final size:26
Alignment explanation
Indices: 20812578--20812672 Score: 91
Period size: 29 Copynumber: 3.3 Consensus size: 26
20812568 AAACTTATGT
* *
20812578 AATATATAGTTTTAAAAACATTTTTGAA
1 AATATATAATTTT-AAAATATTTTT-AA
20812606 AACTATATAATTTTGAAAATATTTTTAAACTA
1 AA-TATATAATTTT-AAAATATTTTT--A--A
20812638 TAATATATAATTTTAAAATATTTTTAA
1 -AATATATAATTTTAAAATATTTTTAA
20812665 AATATATA
1 AATATATA
20812673 TTATATGGGT
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
26 8 0.14
27 1 0.02
28 2 0.03
29 21 0.36
30 1 0.02
31 11 0.19
32 12 0.21
33 2 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (26 bp):
AATATATAATTTTAAAATATTTTTAA
Found at i:20812695 original size:67 final size:66
Alignment explanation
Indices: 20812431--20812713 Score: 205
Period size: 67 Copynumber: 4.2 Consensus size: 66
20812421 ATTTTGAAAA
* * * *
20812431 TAAATATAATATATAATTTTTAAAATATTTTTAAAAATATATATATTATATAGTTTTTAAAACAT
1 TAAATATAATATATAA-TTTTAAAACATTTTT-AAAACATATATATTATATAGTTTTGAAAATAT
20812496 TTT
64 TTT
* *
20812499 GAAA-AT-ATATATAGTTTTTAAAACATTTTTAAAACACATATATATTATATAGTTTTG-AAATC
1 TAAATATAATATATA-ATTTTAAAACATTTTT-AAA-ACATATATATTATATAGTTTTGAAAAT-
20812561 ATTTT
62 ATTTT
* *
20812566 GAAAACTTATGTAATATATAGTTTTAAAAACATTTTTGAAAAC-----TA-TATA-A-TTTTGAA
1 -TAAA--TA--TAATATATAATTTT-AAAACATTTTT-AAAACATATATATTATATAGTTTTGAA
20812623 AATATTTT
59 AATATTTT
* *
20812631 TAAACTATAATATATAATTTTAAAATATTTTT-AAA-ATATATATTATATGGGTTTTGGAAAATA
1 TAAA-TATAATATATAATTTTAAAACATTTTTAAAACATATATATTATAT-AGTTTT-GAAAATA
*
20812694 TTATA
63 TT-TT
*
20812699 TATATATATATATAT
1 TAAATATA-ATATAT
20812714 TATTATTTGT
Statistics
Matches: 175, Mismatches: 16, Indels: 48
0.73 0.07 0.20
Matches are distributed among these distances:
58 3 0.02
60 10 0.06
61 13 0.07
62 2 0.01
63 6 0.03
64 3 0.02
65 10 0.06
66 37 0.21
67 44 0.25
68 18 0.10
71 1 0.01
73 7 0.04
74 21 0.12
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.46
Consensus pattern (66 bp):
TAAATATAATATATAATTTTAAAACATTTTTAAAACATATATATTATATAGTTTTGAAAATATTT
T
Found at i:20814150 original size:15 final size:15
Alignment explanation
Indices: 20814130--20814170 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
20814120 TTAATCTTAT
* *
20814130 TTTTTTTATTTAATA
1 TTTTTTTATCTAACA
20814145 TTTTTTTATCTAACA
1 TTTTTTTATCTAACA
20814160 TTTTTTTATCT
1 TTTTTTTATCT
20814171 TTTTAAGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTTTATCTAACA
Found at i:20819383 original size:41 final size:43
Alignment explanation
Indices: 20819270--20819404 Score: 184
Period size: 43 Copynumber: 3.2 Consensus size: 43
20819260 GGTAATTAAC
* * *
20819270 GGCGATTGTATCAAAAAACGCCGCTATAGATCTGATCTTTTGA
1 GGCGTTTGTATCAAAAAACACCGCTATAGATCTGACCTTTTGA
* *
20819313 GGCGTTTGTATCAAAAAACGCCGCTATAGATCTGACCTTTTGC
1 GGCGTTTGTATCAAAAAACACCGCTATAGATCTGACCTTTTGA
* *
20819356 GGCGTTTGT-TTAAAAAA-ACCGCTATAGATCTTGACTTTTTGA
1 GGCGTTTGTATCAAAAAACACCGCTATAGATC-TGACCTTTTGA
20819398 GGCGTTT
1 GGCGTTT
20819405 TTATTTTACA
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
41 12 0.14
42 23 0.27
43 49 0.58
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (43 bp):
GGCGTTTGTATCAAAAAACACCGCTATAGATCTGACCTTTTGA
Found at i:20821085 original size:29 final size:28
Alignment explanation
Indices: 20821046--20821106 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
20821036 AATTGACTTA
* *
20821046 TTAAATATATTTTATTATTAAATT-AAT
1 TTAAAAATATATTATTATTAAATTAAAT
* *
20821073 TTAAAAATATATTATTTTTAATTTAAAT
1 TTAAAAATATATTATTATTAAATTAAAT
20821101 TTAAAA
1 TTAAAA
20821107 GTTAGTCCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 20 0.69
28 9 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TTAAAAATATATTATTATTAAATTAAAT
Found at i:20822423 original size:2 final size:2
Alignment explanation
Indices: 20822416--20822447 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
20822406 ACACTCCATA
20822416 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20822448 TAAAATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20823740 original size:25 final size:25
Alignment explanation
Indices: 20823704--20823754 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
20823694 ATCTTCAATA
* *
20823704 TCTTACATAACACATTCATTTCATC
1 TCTTACACAACACACTCATTTCATC
*
20823729 TCTTACACAACACACTCCTTTCATC
1 TCTTACACAACACACTCATTTCATC
20823754 T
1 T
20823755 TCAATCACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.33, G:0.00, T:0.37
Consensus pattern (25 bp):
TCTTACACAACACACTCATTTCATC
Found at i:20823766 original size:32 final size:30
Alignment explanation
Indices: 20823718--20823786 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 30
20823708 ACATAACACA
* *
20823718 TTCATTTCATCTCTTACACAACACACTCCT
1 TTCATTTCATCACTTACACAACAAACTCCT
20823748 TTCATCTTCAATCACTTACACAACAAACTCCT
1 TTCAT-TTC-ATCACTTACACAACAAACTCCT
20823780 TTCATTT
1 TTCATTT
20823787 AACCAAAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 5 0.14
31 5 0.14
32 25 0.71
ACGTcount: A:0.29, C:0.33, G:0.00, T:0.38
Consensus pattern (30 bp):
TTCATTTCATCACTTACACAACAAACTCCT
Found at i:20824223 original size:21 final size:21
Alignment explanation
Indices: 20824198--20824268 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
20824188 CTAGGGGGAA
20824198 CAGATTCCCCCCCAGAGGGTA-
1 CAGATTCCCCCCCAG-GGGTAG
*
20824219 CAGATT--CCCCCAGGGGGAG
1 CAGATTCCCCCCCAGGGGTAG
* *
20824238 CAGATTCCTCCCCAGGGGGTAT
1 CAGATTCCCCCCCA-GGGGTAG
20824260 C-GATTCCCC
1 CAGATTCCCC
20824269 GGGAACAGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 4 0.10
19 13 0.32
21 18 0.44
22 6 0.15
ACGTcount: A:0.20, C:0.37, G:0.27, T:0.17
Consensus pattern (21 bp):
CAGATTCCCCCCCAGGGGTAG
Found at i:20824230 original size:19 final size:18
Alignment explanation
Indices: 20824192--20824304 Score: 81
Period size: 19 Copynumber: 5.9 Consensus size: 18
20824182 GATTGCCTAG
*
20824192 GGGGAACAGATTCCCCCCCA
1 GGGGTACAGATT--CCCCCA
20824212 GAGGGTACAGATTCCCCCA
1 G-GGGTACAGATTCCCCCA
*
20824231 GGGGGAGCAGATTCCTCCCCA
1 GGGGTA-CAGATT-C-CCCCA
20824252 GGGGGTATC-GATT-CCCC-
1 -GGGGTA-CAGATTCCCCCA
*
20824269 -GGGAACAGATTCCCCCCA
1 GGGGTACAGATT-CCCCCA
20824287 GGGGTACAGATTCACCCC
1 GGGGTACAGATTC-CCCC
20824305 TTAATGGTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 23
0.72 0.06 0.22
Matches are distributed among these distances:
14 1 0.01
15 8 0.11
17 4 0.05
18 9 0.12
19 27 0.36
20 2 0.03
21 19 0.25
22 6 0.08
ACGTcount: A:0.22, C:0.35, G:0.28, T:0.15
Consensus pattern (18 bp):
GGGGTACAGATTCCCCCA
Found at i:20824235 original size:40 final size:39
Alignment explanation
Indices: 20824190--20824304 Score: 134
Period size: 40 Copynumber: 3.0 Consensus size: 39
20824180 CAGATTGCCT
20824190 AGGGGGAACAGATTCCCCCCCAGAGGGTACAGATTCCCCC
1 AGGGGGAACAGATTCCCCCCCAG-GGGTACAGATTCCCCC
* *
20824230 AGGGGGAGCAGATTCCTCCCCAGGGGGTATC-GATT-CCCC
1 AGGGGGAACAGATTCCCCCCCA-GGGGTA-CAGATTCCCCC
20824269 ---GGGAACAGATT-CCCCCCAGGGGTACAGATTCACCCC
1 AGGGGGAACAGATTCCCCCCCAGGGGTACAGATTC-CCCC
20824305 TTAATGGTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 14
0.79 0.05 0.17
Matches are distributed among these distances:
33 1 0.02
34 10 0.15
35 6 0.09
36 14 0.21
39 4 0.06
40 29 0.44
41 2 0.03
ACGTcount: A:0.23, C:0.34, G:0.29, T:0.15
Consensus pattern (39 bp):
AGGGGGAACAGATTCCCCCCCAGGGGTACAGATTCCCCC
Found at i:20826328 original size:20 final size:21
Alignment explanation
Indices: 20826305--20826345 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20826295 TGAGAAATTG
20826305 TTTTT-AAAATAT-AAAAATGA
1 TTTTTCAAAAT-TGAAAAATGA
20826325 TTTTTCAAAATTGAAAAATGA
1 TTTTTCAAAATTGAAAAATGA
20826346 AAATAAACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.39
Consensus pattern (21 bp):
TTTTTCAAAATTGAAAAATGA
Found at i:20829828 original size:20 final size:20
Alignment explanation
Indices: 20829803--20829918 Score: 109
Period size: 20 Copynumber: 6.0 Consensus size: 20
20829793 CAGATTGCCT
20829803 AGGGGGAACAGATTCCCCCC
1 AGGGGGAACAGATTCCCCCC
* * *
20829823 AGGGGGTATAGATTCCTCCC
1 AGGGGGAACAGATTCCCCCC
*
20829843 AGGGGGAATAGATTCCTCCCCC
1 AGGGGGAACAGATT-C-CCCCC
*
20829865 AGGGGGTATC-GATT--CCCC
1 AGGGGG-AACAGATTCCCCCC
20829883 ---GGGAACAGATTCCCCCC
1 AGGGGGAACAGATTCCCCCC
*
20829900 AGGGGGTACAGATTCCCCC
1 AGGGGGAACAGATTCCCCC
20829919 TTAATGGTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
14 2 0.03
15 7 0.09
17 4 0.05
18 4 0.05
20 45 0.58
21 1 0.01
22 14 0.18
23 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.29, T:0.17
Consensus pattern (20 bp):
AGGGGGAACAGATTCCCCCC
Found at i:20829879 original size:42 final size:40
Alignment explanation
Indices: 20829803--20829915 Score: 146
Period size: 42 Copynumber: 2.9 Consensus size: 40
20829793 CAGATTGCCT
20829803 AGGGGGAACAGATTCCCCCCAGGGGGTATAGATTCCTCCC
1 AGGGGGAACAGATTCCCCCCAGGGGGTATAGATTCCTCCC
* *
20829843 AGGGGGAATAGATTCCTCCCCCAGGGGGTATCGATT-C-CCC
1 AGGGGGAACAGATT-C-CCCCCAGGGGGTATAGATTCCTCCC
*
20829883 ---GGGAACAGATTCCCCCCAGGGGGTACAGATTCC
1 AGGGGGAACAGATTCCCCCCAGGGGGTATAGATTCC
20829916 CCCTTAATGG
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
35 17 0.26
36 2 0.03
37 10 0.15
40 16 0.25
41 2 0.03
42 18 0.28
ACGTcount: A:0.22, C:0.30, G:0.30, T:0.18
Consensus pattern (40 bp):
AGGGGGAACAGATTCCCCCCAGGGGGTATAGATTCCTCCC
Found at i:20834663 original size:843 final size:845
Alignment explanation
Indices: 20832779--20835313 Score: 4221
Period size: 862 Copynumber: 3.0 Consensus size: 845
20832769 ATTCAAAGCT
* *
20832779 GGTTGTTCATATTCTTCAAGGGAGCATACAATGAAGGGTGATTTAATTCACTTATCAAGACAAGT
1 GGTTGTTCATATTCTTCAAGGGAGCATGCAATGAAGGGTGATTTAATTCACTTATCAAGACAATT
* *
20832844 TTCAGCATGGAAAAGCAAGAGTCTTCAACCCCTTGGACGAAATTAAGGCCAAATTCAGCTTTAAA
66 TTCAGCATGGAATAGCAAGAGTCTTCCACCCCTTGGACGAAATTAAGGCCAAATTCAGCTTTAAA
* *
20832909 TTGTCTAGATTCATCCCCAAAATGATCTAGATTATTCATCCAACTTTGAAGAAAATAAGACAAAG
131 TTGTCTAGATTCATCCCCAAAATGATCTAGAATATTCATCCAACTTTGAAGAAAAGAAGACAAAG
20832974 CATTCAAGTGCATTTTATTGCTAAATTGATGAGAATGTTTTCATCTTTTGAGTCTTTTCATATGC
196 CATTCAAGTGCATTTTATTGCTAAATTGATGAGAATGTTTTCATCTTTTGAGTCTTTTCATATGC
20833039 TTCTTAGAAATACTATAAATAGGCACCTTTGGGATCATTTGTAGACACACATTTGAATATATAAA
261 TTCTTAGAAATACTATAAATAGGCACCTTTGGGATCATTTGTAGACACACATTTGAATATATAAA
*
20833104 ACATCTTTGAGAGGTTTCTTTCATTCTTTTTTTCTTGTAGAACTTTATCGGCTTCAAGATAGTCT
326 ACATCTTTGAGAGGTTTCTTTCATTCTTGTTTTCTTGTAGAACTTTATCGGCTTCAAGATAGTCT
* * *
20833169 TGTAGTCTTCATCCATTTCCTTTTGTTATATCGTTGGTTCCTAGCTCATTTATAGCTAGTGGGTC
391 TGTAGTCTTCATCCATTTCCTTTTGTTATACCATTGGTTCCTAGCTCATCTATAGCTAGTGGGTC
* * *
20833234 ACGTTCCATACCCTACCATTTCGATTCTATGTTTTATATTGTTGGTTCTTAGCTCTAAATAGCTA
456 ACGTTCCATACCCTACCATTTCGATTCCATCTTTTATATTGTTGGTTCTTAGCTCCAAATAGCTA
*
20833299 ACGGGTCACAATCCGCTTTAACCTTGCAACACTTACCACGACAACAACATTTTCCACGACAACAC
521 ACGGGTCACAATCCGC--T----TT--AAC-CTT------ACAAC-AC--TTACCACGACAACAC
*
20833364 CATTCATACTTCACCATCTATTTTCATTATCATTAAACCACAACAACTATCACTCTTCCATCACC
568 CATTCATACTTCACCATCTATTTTCATTATCATTAAACCACAACAACCATCACTCTTCCATCACC
20833429 TTCAAACAACTTCCTCATTCTTTTCATTCCATCATTTCAATTATTATTTCATATCATTTTCCTTC
633 TTCAAACAACTTCCTCATTCTTTTCATTCCATCATTTCAATTATTATTTCATATCATTTTCCTTC
20833494 TTATGTTTATATTTATGCAATTTCAGAGTTCAAGCTATCATTACGGGGTTTCTTACTAGAATCAC
698 TTATGTTTATATTTATGCAATTTCAGAGTTCAAGCTATCATTACGGGGTTTCTTACTAGAATCAC
* * *
20833559 GATC-GGCATTCTCATATATGAATCGAAACATATAATCGATATCATATCATTTCAAAGCTGATTG
763 GATCGGGCATTCTCATATATGACTCGAAACATATAATCGAGATCATATCATTTCAAAACTGATTG
20833623 TTATCATCTAAGTTCAAG
828 TTATCATCTAAGTTCAAG
* *
20833641 GGCTATTCATATTCTTCAAGGGAGCATGCAATGAAGGGTGATTTAATTCACTTATCAAGACAATT
1 GGTTGTTCATATTCTTCAAGGGAGCATGCAATGAAGGGTGATTTAATTCACTTATCAAGACAATT
*
20833706 TTCAGCATGGAATAGCAAGAGTCTTCCACCCCTTGGACGAAATTAAGGCCAAATTTAGCTTTAAA
66 TTCAGCATGGAATAGCAAGAGTCTTCCACCCCTTGGACGAAATTAAGGCCAAATTCAGCTTTAAA
*
20833771 TTGTCTAGATTCATCCCCAAAATGATCTAGAGTATTCATCCAACTTTGAAGAAAAGAAGACAAAG
131 TTGTCTAGATTCATCCCCAAAATGATCTAGAATATTCATCCAACTTTGAAGAAAAGAAGACAAAG
*
20833836 CATTCAAGTGCATTTTATTGATAAATTGATGAGAATGTTTTCATCTTTTGAGTCTTTTCATATGC
196 CATTCAAGTGCATTTTATTGCTAAATTGATGAGAATGTTTTCATCTTTTGAGTCTTTTCATATGC
*
20833901 TTCTTAGAAATACTATAAATAGGCACCTTTGGGATCATTTGTAGACACATATTTGAATATATAAA
261 TTCTTAGAAATACTATAAATAGGCACCTTTGGGATCATTTGTAGACACACATTTGAATATATAAA
20833966 ACATCTTTGAGAGGTTTCTTTCATTCTTGTTTTCTTGTAGAACTTTATCGGCTTCAAGATAGTCT
326 ACATCTTTGAGAGGTTTCTTTCATTCTTGTTTTCTTGTAGAACTTTATCGGCTTCAAGATAGTCT
* *
20834031 TGTAGACTTCATCCATTTCCCTTTGTTATACCATTGGTTCCTAGCTCATCTATAGCTAGTGGGTC
391 TGTAGTCTTCATCCATTTCCTTTTGTTATACCATTGGTTCCTAGCTCATCTATAGCTAGTGGGTC
20834096 ACGTTCCATACCCTACCATTTCGATTCCATCTTTTATATTGTTGGTTCTTAGCTCCAAATAGCTA
456 ACGTTCCATACCCTACCATTTCGATTCCATCTTTTATATTGTTGGTTCTTAGCTCCAAATAGCTA
*
20834161 ATGGGTCACAAT-CGCTTTAACCTTACAACACTTACCACGACAACACCATTCATACTTCACCATC
521 ACGGGTCACAATCCGCTTTAACCTTACAACACTTACCACGACAACACCATTCATACTTCACCATC
* *
20834225 TATTTTCATTATCATTAAACCATAACAACCATCACTCTTCCATTACCTTCAAACAACTTCCTCAT
586 TATTTTCATTATCATTAAACCACAACAACCATCACTCTTCCATCACCTTCAAACAACTTCCTCAT
20834290 TCTTTTCATTCCATCATTTCAATTATTATTTCATATCATTTTCCTTCTTATGTTTATATTTATGC
651 TCTTTTCATTCCATCATTTCAATTATTATTTCATATCATTTTCCTTCTTATGTTTATATTTATGC
* *
20834355 AATTTCAGAGTTCAAGCTATCATTACGGGGTTTCTTACTACAATCACGATCGGGTATTCTCATAT
716 AATTTCAGAGTTCAAGCTATCATTACGGGGTTTCTTACTAGAATCACGATCGGGCATTCTCATAT
20834420 ATGACTCGAAACATATAATCGAGATCATATCATTTCAAAACTGATTGTTATCATCTAAGTTCAAG
781 ATGACTCGAAACATATAATCGAGATCATATCATTTCAAAACTGATTGTTATCATCTAAGTTCAAG
* *
20834485 GGTTGTTCATA-TCTTCAAGGGAGCATGCAATGAAAGGTGATTTAATTCACTTATCAAGATAATT
1 GGTTGTTCATATTCTTCAAGGGAGCATGCAATGAAGGGTGATTTAATTCACTTATCAAGACAATT
* * *
20834549 TTCAGCATGGAATAGCAAGAGTCTTCCACCCCTTGGACGAAATTAAGGCCAAATCCATCTTCAAA
66 TTCAGCATGGAATAGCAAGAGTCTTCCACCCCTTGGACGAAATTAAGGCCAAATTCAGCTTTAAA
*
20834614 TTGTCTAGATTCATCCCCAAAATGATCTAGAATATTCATCCAACTTTGAAGATAAGAAGACAAAG
131 TTGTCTAGATTCATCCCCAAAATGATCTAGAATATTCATCCAACTTTGAAGAAAAGAAGACAAAG
* *
20834679 CATTCAAGTGCATTTTATTGCTAAATTGATGAAAATGTTTTCATCTTTTAAGTCTTTTCATATGC
196 CATTCAAGTGCATTTTATTGCTAAATTGATGAGAATGTTTTCATCTTTTGAGTCTTTTCATATGC
*
20834744 TTCTTAGAAATACTATAAATAGGCACCTTTGGGATCATTTGTAGAAACACATTTGAATATATAAA
261 TTCTTAGAAATACTATAAATAGGCACCTTTGGGATCATTTGTAGACACACATTTGAATATATAAA
* * * *
20834809 ACATCTTTGAGAGGTTGCTTTCATTCTTGTTCTATTGTAGAACTTTATCGGCTTCAAGATAGTAT
326 ACATCTTTGAGAGGTTTCTTTCATTCTTGTTTTCTTGTAGAACTTTATCGGCTTCAAGATAGTCT
* * *
20834874 TGTAGTCTTTATCCATTTCCTTTTGTTATACCCTTAGTTCCTAGCTCATCTATAGCTAGTGGGTC
391 TGTAGTCTTCATCCATTTCCTTTTGTTATACCATTGGTTCCTAGCTCATCTATAGCTAGTGGGTC
* *
20834939 ACATTCCATACACTACCATTTCGATTCCATCTTTTATATTGTTGGTTCTTAGCTCCAAATAGCTA
456 ACGTTCCATACCCTACCATTTCGATTCCATCTTTTATATTGTTGGTTCTTAGCTCCAAATAGCTA
*
20835004 ACGGGTTACAATCCGCTTTAACCTTACAACACTTACCACGACAACAACATTTTCCACAACAACAC
521 ACGGGTCACAATCCGCTTTAACCTTACAACACTTACCACG------------------ACAACAC
20835069 CATTCATACTTCACCATCTATTTTCATTATCATTAAACCACAACAACCATCACTCTTCCATCACC
568 CATTCATACTTCACCATCTATTTTCATTATCATTAAACCACAACAACCATCACTCTTCCATCACC
* * *
20835134 TTCAAACAACTCCCTCATTCTTTTCATTCCATCATTTCAATTATTATTTCATATCATGTTCCTTA
633 TTCAAACAACTTCCTCATTCTTTTCATTCCATCATTTCAATTATTATTTCATATCATTTTCCTTC
*
20835199 TTATGTTTGTATTTATGCAATTTCAGAGTTCAAGCTATCATTACGGGGTTTCTTACTAGAATCAC
698 TTATGTTTATATTTATGCAATTTCAGAGTTCAAGCTATCATTACGGGGTTTCTTACTAGAATCAC
* *
20835264 GACCGGGCATTCTCATATATGACTCGAAACATATAATCGAGATCAAATCA
763 GATCGGGCATTCTCATATATGACTCGAAACATATAATCGAGATCATATCA
20835314 AATATTTTCC
Statistics
Matches: 1585, Mismatches: 68, Indels: 40
0.94 0.04 0.02
Matches are distributed among these distances:
843 703 0.44
844 110 0.07
845 2 0.00
846 5 0.00
852 3 0.00
853 3 0.00
855 2 0.00
859 1 0.00
861 3 0.00
862 753 0.48
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (845 bp):
GGTTGTTCATATTCTTCAAGGGAGCATGCAATGAAGGGTGATTTAATTCACTTATCAAGACAATT
TTCAGCATGGAATAGCAAGAGTCTTCCACCCCTTGGACGAAATTAAGGCCAAATTCAGCTTTAAA
TTGTCTAGATTCATCCCCAAAATGATCTAGAATATTCATCCAACTTTGAAGAAAAGAAGACAAAG
CATTCAAGTGCATTTTATTGCTAAATTGATGAGAATGTTTTCATCTTTTGAGTCTTTTCATATGC
TTCTTAGAAATACTATAAATAGGCACCTTTGGGATCATTTGTAGACACACATTTGAATATATAAA
ACATCTTTGAGAGGTTTCTTTCATTCTTGTTTTCTTGTAGAACTTTATCGGCTTCAAGATAGTCT
TGTAGTCTTCATCCATTTCCTTTTGTTATACCATTGGTTCCTAGCTCATCTATAGCTAGTGGGTC
ACGTTCCATACCCTACCATTTCGATTCCATCTTTTATATTGTTGGTTCTTAGCTCCAAATAGCTA
ACGGGTCACAATCCGCTTTAACCTTACAACACTTACCACGACAACACCATTCATACTTCACCATC
TATTTTCATTATCATTAAACCACAACAACCATCACTCTTCCATCACCTTCAAACAACTTCCTCAT
TCTTTTCATTCCATCATTTCAATTATTATTTCATATCATTTTCCTTCTTATGTTTATATTTATGC
AATTTCAGAGTTCAAGCTATCATTACGGGGTTTCTTACTAGAATCACGATCGGGCATTCTCATAT
ATGACTCGAAACATATAATCGAGATCATATCATTTCAAAACTGATTGTTATCATCTAAGTTCAAG
Found at i:20835050 original size:18 final size:18
Alignment explanation
Indices: 20835029--20835067 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
20835019 CTTTAACCTT
*
20835029 ACAACACTTACCACGACA
1 ACAACACTTACCACAACA
* *
20835047 ACAACATTTTCCACAACA
1 ACAACACTTACCACAACA
20835065 ACA
1 ACA
20835068 CCATTCATAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.36, G:0.03, T:0.15
Consensus pattern (18 bp):
ACAACACTTACCACAACA
Found at i:20840460 original size:20 final size:21
Alignment explanation
Indices: 20840437--20840518 Score: 71
Period size: 20 Copynumber: 3.9 Consensus size: 21
20840427 TTAGTGCAGA
20840437 GGGAATCGATCCCCCCATGA-
1 GGGAATCGATCCCCCCATGAG
**
20840457 GGGAA-CAGATTCCCCCTTTGAAG
1 GGGAATC-GA-TCCCCCCATG-AG
* *
20840480 GGGAACCGATCCCCCCA-CAG
1 GGGAATCGATCCCCCCATGAG
*
20840500 GGGAATCGATACCCCCATG
1 GGGAATCGATCCCCCCATG
20840519 GGGTTCTGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
19 1 0.02
20 24 0.50
21 8 0.17
22 7 0.15
23 7 0.15
24 1 0.02
ACGTcount: A:0.26, C:0.34, G:0.26, T:0.15
Consensus pattern (21 bp):
GGGAATCGATCCCCCCATGAG
Found at i:20842395 original size:17 final size:17
Alignment explanation
Indices: 20842353--20842399 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
20842343 TTTGTTTGGA
*
20842353 TGTTTGAATTTATGAAT
1 TGTTTGGATTTATGAAT
*
20842370 TGATT-GATTT-TGAATT
1 TGTTTGGATTTATGAA-T
20842386 TGTTTGGATTTATG
1 TGTTTGGATTTATG
20842400 GATGATGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 4 0.17
16 9 0.38
17 9 0.38
18 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.55
Consensus pattern (17 bp):
TGTTTGGATTTATGAAT
Found at i:20853447 original size:54 final size:54
Alignment explanation
Indices: 20853401--20853616 Score: 378
Period size: 54 Copynumber: 4.0 Consensus size: 54
20853391 GCACACCCAA
* *
20853401 TGCCAATACAGAAATTCATAAACTCATTATCAATTTCTTAAGTTGCACACATAG
1 TGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAG
** *
20853455 TATCAATACCGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAG
1 TGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAG
20853509 TGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAG
1 TGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAG
*
20853563 TGCTAATACGGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAG
1 TGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAG
20853617 CGTCATTCGG
Statistics
Matches: 154, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 154 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (54 bp):
TGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAGTTGCACACATAG
Found at i:20860074 original size:54 final size:54
Alignment explanation
Indices: 20860016--20860461 Score: 739
Period size: 54 Copynumber: 8.3 Consensus size: 54
20860006 ATTAAGTAGT
** * * *
20860016 TTGCACACCCAGTACCAATACAGAAATTCATAAACTTATTATGAATTTCTTAAG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAG
* * *
20860070 TTGCACACATAGTGCCAATACGGAAATTAATAAATTTATTATGAATTTCTTAAG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAG
*
20860124 TTTCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAG
*
20860178 TTGCACACATAGTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAAG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAG
*
20860232 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTGTGAATTTCTTAAG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAG
* * *
20860286 TTGCACATATAGTGCCAATACGGAAATTCATAAACTCAATATAAATTTCTTAAG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAG
* *
20860340 TTGCACAAATAGTGCCAATACGGAAATTCATAAACTAATTATGAATTTCTTAAG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAG
*
20860394 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCGTTATGAATTTCTTAAG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAG
20860448 TTGCACACATAGTG
1 TTGCACACATAGTG
20860462 TCATTCGGTA
Statistics
Matches: 367, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 367 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (54 bp):
TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAAG
Found at i:20862108 original size:65 final size:62
Alignment explanation
Indices: 20861979--20862108 Score: 172
Period size: 65 Copynumber: 2.0 Consensus size: 62
20861969 CTACAATCTC
* *
20861979 TTTTATTATGTTGTTAGGACTTGATACTCGTGTGGTATTTTATTTTAAACATCTTGTGTTGA
1 TTTTATTATGTTGTTAGGACTTGATACTCGTGTGGTATTTTAATATAAACATCTTGTGTTGA
* * *
20862041 TTTTATTGTGTTGTTTA-GATTTGATACTCTTGTGTGGTATTTTTAATATGAACATCTTGTGTTG
1 TTTTATTATGTTG-TTAGGACTTGATACTC--GTGTGGTA-TTTTAATATAAACATCTTGTGTTG
20862105 A
62 A
20862106 TTT
1 TTT
20862109 GAGACTTGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
62 23 0.39
63 3 0.05
64 8 0.14
65 25 0.42
ACGTcount: A:0.20, C:0.07, G:0.19, T:0.54
Consensus pattern (62 bp):
TTTTATTATGTTGTTAGGACTTGATACTCGTGTGGTATTTTAATATAAACATCTTGTGTTGA
Found at i:20862135 original size:53 final size:50
Alignment explanation
Indices: 20862046--20862161 Score: 124
Period size: 52 Copynumber: 2.2 Consensus size: 50
20862036 GTTGATTTTA
* * * **
20862046 TTGTGTTGTTTAGATTTGATACTCTTGTGTGGTATTTTTAATATGAACATC
1 TTGTGTTGTTTAGACTTGATACCCTTATGTAATA-TTTTAATATGAACATC
* * *
20862097 TTGTGTTGATTTGAGACTTGATACCCTTATGTAATATTTTATTTTGCACATC
1 TTGTGTTG-TTT-AGACTTGATACCCTTATGTAATATTTTAATATGAACATC
20862149 TTGTGTTGGTTTA
1 TTGTGTT-GTTTA
20862162 TTGTTGTTGA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
51 9 0.17
52 26 0.48
53 19 0.35
ACGTcount: A:0.21, C:0.09, G:0.19, T:0.51
Consensus pattern (50 bp):
TTGTGTTGTTTAGACTTGATACCCTTATGTAATATTTTAATATGAACATC
Found at i:20863507 original size:22 final size:23
Alignment explanation
Indices: 20863482--20863535 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
20863472 AAAAGTAAAC
20863482 ATATTAAAAATTA-TAAAAAATT
1 ATATTAAAAATTATTAAAAAATT
* * *
20863504 ATATT-TAAATTATTAGAAATTT
1 ATATTAAAAATTATTAAAAAATT
20863526 ATTATTAAAA
1 A-TATTAAAA
20863536 TTAAAGACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 6 0.24
22 13 0.52
23 4 0.16
24 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
ATATTAAAAATTATTAAAAAATT
Found at i:20863693 original size:32 final size:31
Alignment explanation
Indices: 20863624--20863704 Score: 99
Period size: 32 Copynumber: 2.6 Consensus size: 31
20863614 AACTTGTTTG
* * * *
20863624 ATAAAATGAACATTAAATTCATCTAATTGTT
1 ATAAAATGATCATTAAATTCATCCAAATATT
* *
20863655 ACAAAATGATCATTAATTTTCATCCAAATATT
1 ATAAAATGATCATTAA-ATTCATCCAAATATT
20863687 ATAAAATGATCATTAAAT
1 ATAAAATGATCATTAAAT
20863705 GTATCACAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 15 0.37
32 26 0.63
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (31 bp):
ATAAAATGATCATTAAATTCATCCAAATATT
Found at i:20864802 original size:67 final size:67
Alignment explanation
Indices: 20864694--20864827 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
20864684 CCTGCATTAG
20864694 CTCCGGCGCCTTCCGGTCCAGCAAACGTCACCAAAATCCTCGAAAAAGCCGGCCAGTTCACATAT
1 CTCCGGCGCCTTCCGGTCCAGCAAACGTCACCAAAATCCTCGAAAAAGCCGGCCAGTTCACATAT
20864759 CT
66 CT
20864761 CTCCGGCGCCTTCCGGTCCAGCAAACGTCACCAAAATCCTCGAAAAAGCCGGCCAGTTCACATAT
1 CTCCGGCGCCTTCCGGTCCAGCAAACGTCACCAAAATCCTCGAAAAAGCCGGCCAGTTCACATAT
20864826 CT
66 CT
20864828 AGCTTTGGTG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.27, C:0.37, G:0.18, T:0.18
Consensus pattern (67 bp):
CTCCGGCGCCTTCCGGTCCAGCAAACGTCACCAAAATCCTCGAAAAAGCCGGCCAGTTCACATAT
CT
Found at i:20865500 original size:6 final size:7
Alignment explanation
Indices: 20865482--20865511 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
20865472 CCCTCTTCTC
20865482 TCCCCCT
1 TCCCCCT
20865489 TCCCCCT
1 TCCCCCT
20865496 TCCCCCT
1 TCCCCCT
20865503 TCCCCCT
1 TCCCCCT
20865510 TC
1 TC
20865512 TATAGTTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (7 bp):
TCCCCCT
Found at i:20867870 original size:19 final size:19
Alignment explanation
Indices: 20867834--20867885 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
20867824 TGAAAATGAT
* *
20867834 TTGATTTTGAAAGCCAAAG
1 TTGATTTTGAAAACCAAAA
*
20867853 TTGATTTTGAAAATCAAAA
1 TTGATTTTGAAAACCAAAA
*
20867872 TTAAATTTTGAAAA
1 TT-GATTTTGAAAA
20867886 ATGATTTAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (19 bp):
TTGATTTTGAAAACCAAAA
Found at i:20869510 original size:21 final size:21
Alignment explanation
Indices: 20869485--20869534 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
20869475 CAAAGGTAGG
20869485 ACCGATACTCCCTTTAGGAGT
1 ACCGATACTCCCTTTAGGAGT
20869506 ACCGATACTCCCTTTAGGAGT
1 ACCGATACTCCCTTTAGGAGT
20869527 ACCGATAC
1 ACCGATAC
20869535 CTTCTATTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (21 bp):
ACCGATACTCCCTTTAGGAGT
Found at i:20870721 original size:49 final size:49
Alignment explanation
Indices: 20870667--20870765 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
20870657 GCACTAAAAC
*
20870667 ATTTTTCAATGCATAGTTTGGTCACTTATTTTTATATTAAGCCTTAATT
1 ATTTTTCAATGCATAGTTTGGTCACTTATTTTTATAATAAGCCTTAATT
20870716 ATTTTTCAATGCATAGTTTGGTCACTTATTTTTATAATAAGCCTTAATT
1 ATTTTTCAATGCATAGTTTGGTCACTTATTTTTATAATAAGCCTTAATT
20870765 A
1 A
20870766 ATTTATATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.49
Consensus pattern (49 bp):
ATTTTTCAATGCATAGTTTGGTCACTTATTTTTATAATAAGCCTTAATT
Found at i:20886292 original size:23 final size:23
Alignment explanation
Indices: 20886266--20886319 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
20886256 ACGCATATTA
20886266 AAATTAAACAATAAAAGGAAAAC
1 AAATTAAACAATAAAAGGAAAAC
* * *
20886289 AAATAAAATAATACAAGGAAAAC
1 AAATTAAACAATAAAAGGAAAAC
20886312 AAA-TAAAC
1 AAATTAAAC
20886320 CAGAAATGAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.70, C:0.09, G:0.07, T:0.13
Consensus pattern (23 bp):
AAATTAAACAATAAAAGGAAAAC
Found at i:20886354 original size:14 final size:14
Alignment explanation
Indices: 20886337--20886367 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
20886327 GACTAAATTA
20886337 AAATAAAAGAAAAC
1 AAATAAAAGAAAAC
20886351 AAATAAAAGAAAAC
1 AAATAAAAGAAAAC
20886365 AAA
1 AAA
20886368 AATGACTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.06
Consensus pattern (14 bp):
AAATAAAAGAAAAC
Found at i:20886406 original size:9 final size:9
Alignment explanation
Indices: 20886335--20886437 Score: 55
Period size: 10 Copynumber: 10.7 Consensus size: 9
20886325 ATGACTAAAT
20886335 TAAAATAAAA
1 TAAAA-AAAA
* *
20886345 GAAAACAAA
1 TAAAAAAAA
20886354 TAAAAGAAAA
1 TAAAA-AAAA
* * *
20886364 CAAAAATGAC
1 TAAAAA-AAA
20886374 TAAAATAAAA
1 TAAAA-AAAA
* *
20886384 TAAACAAAG
1 TAAAAAAAA
20886393 T-AAAAAAA
1 TAAAAAAAA
20886401 TAAAAAAAAA
1 T-AAAAAAAA
20886411 TAAACGAAATAA
1 TAAA--AAA-AA
*
20886423 TAAAATAAA
1 TAAAAAAAA
20886432 TAAAAA
1 TAAAAA
20886438 CAAAACAAAA
Statistics
Matches: 69, Mismatches: 16, Indels: 17
0.68 0.16 0.17
Matches are distributed among these distances:
8 6 0.09
9 22 0.32
10 31 0.45
11 4 0.06
12 6 0.09
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:20886412 original size:27 final size:26
Alignment explanation
Indices: 20886374--20886446 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 26
20886364 CAAAAATGAC
*
20886374 TAAAATAAAATAAACAAAGTAAAAAAA
1 TAAAAAAAAATAAACAAA-TAAAAAAA
*
20886401 TAAAAAAAAATAAACGAAATAATAAAA
1 TAAAAAAAAATAAAC-AAATAAAAAAA
20886428 TAAATAAAAACA-AAACAAA
1 TAAA-AAAAA-ATAAACAAA
20886447 ATGAAGGGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 28 0.68
28 12 0.29
29 1 0.02
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.14
Consensus pattern (26 bp):
TAAAAAAAAATAAACAAATAAAAAAA
Found at i:20886437 original size:38 final size:38
Alignment explanation
Indices: 20886396--20886469 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 38
20886386 AACAAAGTAA
* *
20886396 AAAAATAAAAAAAAAT-AAACGAAATAATAAAATAAAT
1 AAAAACAAAAAAAAATGAAACGAAAAAATAAAATAAAT
* **
20886433 AAAAACAAAACAAAATGAAGGGAAAAAATAAAATAAA
1 AAAAACAAAAAAAAATGAAACGAAAAAATAAAATAAA
20886470 ATATATACAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
37 14 0.45
38 17 0.55
ACGTcount: A:0.77, C:0.04, G:0.07, T:0.12
Consensus pattern (38 bp):
AAAAACAAAAAAAAATGAAACGAAAAAATAAAATAAAT
Found at i:20886521 original size:2 final size:2
Alignment explanation
Indices: 20886514--20886576 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
20886504 AGTTAGAATA
20886514 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20886556 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
20886577 AAACGTGATG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20886685 original size:38 final size:39
Alignment explanation
Indices: 20886643--20886721 Score: 97
Period size: 43 Copynumber: 1.9 Consensus size: 39
20886633 TGGAATCTAT
*
20886643 CAGGAATTG-GAATCCAATTCCATATTCTGTTTGGTTGA
1 CAGGAATTGAGAATCCAATTCCATATTCTATTTGGTTGA
*
20886681 CAGGAATTGAATTAGAATCCAATTTCATATTCTATTTGGTT
1 CAGGAATTG----AGAATCCAATTCCATATTCTATTTGGTT
20886722 CGCAAACATG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
38 9 0.26
43 25 0.74
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (39 bp):
CAGGAATTGAGAATCCAATTCCATATTCTATTTGGTTGA
Found at i:20888722 original size:2 final size:2
Alignment explanation
Indices: 20888715--20888745 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
20888705 TAGTTAGGTA
20888715 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20888746 TATTAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.