Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 81 of 203
Found at i:25731425 original size:24 final size:24
Alignment explanation
Indices: 25731387--25731447 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
25731377 AATTTCAAAT
* *
25731387 AGAACTTGAAATCAAGTTTACTAA
1 AGAACTCGAACTCAAGTTTACTAA
25731411 AGAACTCGAACTCAAGTTTACTAA
1 AGAACTCGAACTCAAGTTTACTAA
25731435 AGAACTCG-ACTCA
1 AGAACTCGAACTCA
25731448 GTCACACCCC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 5 0.14
24 30 0.86
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.25
Consensus pattern (24 bp):
AGAACTCGAACTCAAGTTTACTAA
Found at i:25735725 original size:18 final size:17
Alignment explanation
Indices: 25735704--25735738 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25735694 TTATTATTAA
*
25735704 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
25735722 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
25735739 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:25735878 original size:16 final size:16
Alignment explanation
Indices: 25735841--25735882 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25735831 TTAATCATAT
*
25735841 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
25735857 TT-AAATATATTATAA
1 TTAAAATATATTATAA
25735872 TTAAAATATAT
1 TTAAAATATAT
25735883 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:25735884 original size:157 final size:157
Alignment explanation
Indices: 25735598--25735904 Score: 560
Period size: 157 Copynumber: 2.0 Consensus size: 157
25735588 CTCTTAACAT
*
25735598 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTACTATTATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTACTAATATCAA
* *
25735663 TAATTAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
25735728 TTTAATAAAATTCTTAATAATTAGCAG
131 TTTAATAAAATTCTTAATAATTAGCAG
* * *
25735755 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAATTTTTAATAAGATTATTAATATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTACTAATATCAA
25735820 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
25735885 TTTAATAAAATTCTTAATAA
131 TTTAATAAAATTCTTAATAA
25735905 CTAATATTCT
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTACTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTAGCAG
Found at i:25735889 original size:14 final size:15
Alignment explanation
Indices: 25735850--25735891 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25735840 TTTAAACATA
*
25735850 ATTATTATTAAATAT
1 ATTATAATTAAATAT
25735865 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
25735879 A-TATAATTTAATA
1 ATTATAATTAAATA
25735892 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:25736337 original size:13 final size:13
Alignment explanation
Indices: 25736319--25736343 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25736309 GCCTTAACAA
25736319 GAGCAGCACTCAT
1 GAGCAGCACTCAT
25736332 GAGCAGCACTCA
1 GAGCAGCACTCA
25736344 AAACAGATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.12
Consensus pattern (13 bp):
GAGCAGCACTCAT
Found at i:25739996 original size:34 final size:35
Alignment explanation
Indices: 25739952--25740018 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
25739942 CAGTAAAATA
*
25739952 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
25739986 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
25740019 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:25741126 original size:51 final size:51
Alignment explanation
Indices: 25741068--25741167 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
25741058 CTCAATTTCC
*
25741068 TCTCAATTTCCTCTCAATTTCCT-TCCAAATTTCTCTCAAATCTCTATTTAA
1 TCTCAATTTCCTCTCAATTTCCTCT-CAAATTTCTCTCAAATCCCTATTTAA
* *
25741119 TCTCAATTTGCTCTCAATTTCCTCTCAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTCCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCCTATTT
25741168 TTTAATTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 44 0.98
52 1 0.02
ACGTcount: A:0.24, C:0.29, G:0.01, T:0.46
Consensus pattern (51 bp):
TCTCAATTTCCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCCTATTTAA
Found at i:25741154 original size:11 final size:11
Alignment explanation
Indices: 25741056--25741151 Score: 87
Period size: 11 Copynumber: 9.0 Consensus size: 11
25741046 CTCTATTATT
25741056 CTCTCAATTTC
1 CTCTCAATTTC
25741067 CTCTCAATTTC
1 CTCTCAATTTC
25741078 CTCTCAATTTC
1 CTCTCAATTTC
25741089 CT-TCCAAATTT-
1 CTCT-C-AATTTC
*
25741100 CTCTCAA-AT-
1 CTCTCAATTTC
*
25741109 CTCT--ATTTA
1 CTCTCAATTTC
* *
25741118 ATCTCAATTTG
1 CTCTCAATTTC
25741129 CTCTCAATTTC
1 CTCTCAATTTC
25741140 CTCTCAAATTTC
1 CTCTC-AATTTC
25741152 TCTTAAATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 8 0.11
10 3 0.04
11 46 0.65
12 12 0.17
ACGTcount: A:0.23, C:0.31, G:0.01, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:25741506 original size:19 final size:19
Alignment explanation
Indices: 25741482--25741554 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
25741472 AATCTTCAGG
25741482 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
25741501 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
25741520 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
25741539 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
25741555 AGATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:25741580 original size:22 final size:21
Alignment explanation
Indices: 25741482--25741580 Score: 93
Period size: 19 Copynumber: 4.9 Consensus size: 21
25741472 AATCTTCAGG
*
25741482 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
25741501 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
25741520 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
25741539 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
25741561 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
25741581 TTAATTTGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
19 47 0.67
22 12 0.17
23 11 0.16
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.38
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:25744968 original size:34 final size:36
Alignment explanation
Indices: 25744929--25745018 Score: 105
Period size: 34 Copynumber: 2.6 Consensus size: 36
25744919 ATATTTTGAT
*
25744929 ATTATTTGATATAATAAAATAGAAAT-T-CTTCTAC
1 ATTATTTAATATAATAAAATAGAAATGTACTTCTAC
* * * *
25744963 ATTATTTCATGTACTAAAATAGAAATGTACTTTTAC
1 ATTATTTAATATAATAAAATAGAAATGTACTTCTAC
25744999 ATT-TTTAATATAATAGAAAT
1 ATTATTTAATATAATA-AAAT
25745019 TCTTTTAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
34 23 0.50
35 10 0.22
36 13 0.28
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (36 bp):
ATTATTTAATATAATAAAATAGAAATGTACTTCTAC
Found at i:25746710 original size:6 final size:6
Alignment explanation
Indices: 25746699--25746724 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
25746689 CCCTAACAAA
25746699 AACCCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AA
25746725 TCTAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCCT
Found at i:25746826 original size:236 final size:230
Alignment explanation
Indices: 25746308--25746867 Score: 917
Period size: 230 Copynumber: 2.4 Consensus size: 230
25746298 CAAAACCCTA
* * * * *
25746308 TAATTTAATTCATATTTTCTTAAAAAATAATAAACACGAAAACTAATCTAATTTTGAAAAATTTG
1 TAATTTAATTAATTTTTTCTTAAAAAATAATAAACACGAAAACTAATCCAATTTTGAAAATTTTT
25746373 TAAATAATTTAATTGACAAA-CTCTAAACTCTAAACCCTAACTTATTTGATTTTTCCTTAAAAAC
66 TAAATAATTTAATTGACAAACCT-TAAACTCTAAACCCTAACTTATTTGATTTTTCCTTAAAAAC
25746437 CCTTAACTTAAAAACACCAAAACCTAACAAAAACCCTAACCCTAACCCTAAACTAATTTTTAAAT
130 CCTTAACTTAAAAACACCAAAACCTAACAAAAACCCTAACCCTAACCCTAAACTAATTTTTAAAT
*
25746502 TTTTTTTAATTAAATTACTCAAGTAACCCTAAACCC
195 ATTTTTTAATTAAATTACTCAAGTAACCCTAAACCC
*
25746538 TAATTTAATTAATTTTTTCTTAAAAAATAATAAACACGAAAACTAATCCAATTTTGAAATTTTTT
1 TAATTTAATTAATTTTTTCTTAAAAAATAATAAACACGAAAACTAATCCAATTTTGAAAATTTTT
* *
25746603 TAAATAATTTAATTGACAAACCTTAAACTTTAAACCCTAATTTATTTGATTTTTCCTTAAAAACC
66 TAAATAATTTAATTGACAAACCTTAAACTCTAAACCCTAACTTATTTGATTTTTCCTTAAAAACC
25746668 CTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAACCCTAACCCTAACCCTAATCTAATTT
131 CTTAACTTAAAAACACCAAAA-CCTAACAAAAACCCTAACCCTAACCCT-A----AA-CTAATTT
*
25746733 TTAAA-ATTTTTTAATTAAATTACTCAAGTAACCTTAAACCC
189 TTAAATATTTTTTAATTAAATTACTCAAGTAACCCTAAACCC
* *
25746774 TAATTTAATTAATTTTTTATTAAAAAATAATAAATACGAAAACTAATCCAATTTTGAAAATTTTT
1 TAATTTAATTAATTTTTTCTTAAAAAATAATAAACACGAAAACTAATCCAATTTTGAAAATTTTT
*
25746839 TAAATAATTTAATTGACAAACCCTAAACT
66 TAAATAATTTAATTGACAAACCTTAAACT
25746868 AGAGGTGTTC
Statistics
Matches: 308, Mismatches: 14, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
230 140 0.45
231 29 0.09
232 1 0.00
236 126 0.41
237 12 0.04
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.36
Consensus pattern (230 bp):
TAATTTAATTAATTTTTTCTTAAAAAATAATAAACACGAAAACTAATCCAATTTTGAAAATTTTT
TAAATAATTTAATTGACAAACCTTAAACTCTAAACCCTAACTTATTTGATTTTTCCTTAAAAACC
CTTAACTTAAAAACACCAAAACCTAACAAAAACCCTAACCCTAACCCTAAACTAATTTTTAAATA
TTTTTTAATTAAATTACTCAAGTAACCCTAAACCC
Found at i:25747077 original size:26 final size:26
Alignment explanation
Indices: 25747036--25747100 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 26
25747026 TATAATAAAT
25747036 AAATATTTTTTATTC-TTTAATTTTA
1 AAATATTTTTTATTCTTTTAATTTTA
*
25747061 AAATACTTTTTTATTCTTTTTATTTTTA
1 AAATA-TTTTTTATTC-TTTTAATTTTA
25747089 AAATAATTTTTT
1 AAAT-ATTTTTT
25747101 TGGTGTTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
25 5 0.14
26 10 0.29
28 19 0.54
29 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.65
Consensus pattern (26 bp):
AAATATTTTTTATTCTTTTAATTTTA
Found at i:25747109 original size:27 final size:28
Alignment explanation
Indices: 25747036--25747111 Score: 70
Period size: 28 Copynumber: 2.9 Consensus size: 28
25747026 TATAATAAAT
* *
25747036 AAAT-ATTTTTTAT--TCTTTAATTTTA
1 AAATAATTTTTTATGCTGTTTATTTTTA
* * *
25747061 AAATACTTTTTTATTCTTTTTATTTTTA
1 AAATAATTTTTTATGCTGTTTATTTTTA
*
25747089 AAATAATTTTTT-TGGTGTTTATT
1 AAATAATTTTTTATGCTGTTTATT
25747112 AAAAAATGGG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
25 4 0.10
26 8 0.20
27 8 0.20
28 21 0.51
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (28 bp):
AAATAATTTTTTATGCTGTTTATTTTTA
Found at i:25747347 original size:15 final size:15
Alignment explanation
Indices: 25747321--25747362 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
25747311 TTTAATTTAT
25747321 AACCCT-AAACCCCA
1 AACCCTAAAACCCCA
*
25747335 AACCCTAAAACCCTA
1 AACCCTAAAACCCCA
25747350 AACCCTAAAACCC
1 AACCCTAAAACCC
25747363 AGAAACGGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 6 0.23
15 20 0.77
ACGTcount: A:0.45, C:0.45, G:0.00, T:0.10
Consensus pattern (15 bp):
AACCCTAAAACCCCA
Found at i:25747362 original size:8 final size:7
Alignment explanation
Indices: 25747321--25747358 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
25747311 TTTAATTTAT
25747321 AACCCTA
1 AACCCTA
*
25747328 AACCCCA
1 AACCCTA
25747335 AACCCTAA
1 AACCCT-A
25747343 AACCCTA
1 AACCCTA
25747350 AACCCTA
1 AACCCTA
25747357 AA
1 AA
25747359 ACCCAGAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.47, C:0.42, G:0.00, T:0.11
Consensus pattern (7 bp):
AACCCTA
Found at i:25748614 original size:12 final size:12
Alignment explanation
Indices: 25748597--25748622 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25748587 TTAATTAATG
25748597 TTCATAAAAAAT
1 TTCATAAAAAAT
25748609 TTCATAAAAAAT
1 TTCATAAAAAAT
25748621 TT
1 TT
25748623 ATTTTACACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (12 bp):
TTCATAAAAAAT
Found at i:25748950 original size:15 final size:14
Alignment explanation
Indices: 25748906--25748950 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
25748896 TTTTATTTAT
25748906 TAAAAATGAAAAATAA
1 TAAAAAT-AAAAA-AA
*
25748922 TAAAAATAATAAAA
1 TAAAAATAAAAAAA
25748936 TGAAAAATAAAAAAA
1 T-AAAAATAAAAAAA
25748951 AGTATGGTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 3 0.12
15 16 0.62
16 7 0.27
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (14 bp):
TAAAAATAAAAAAA
Found at i:25749298 original size:30 final size:31
Alignment explanation
Indices: 25749240--25749340 Score: 93
Period size: 31 Copynumber: 3.3 Consensus size: 31
25749230 AAATTAAATG
*
25749240 TTCATGTATATATTTGAACCATAATCAAAGT
1 TTCATGTATATAATTGAACCATAATCAAAGT
* *
25749271 TTCATGTGTATAATTGCACCA-AATCAAAGT
1 TTCATGTATATAATTGAACCATAATCAAAGT
* * * *
25749301 TT-AAGTATAAAATTGTA-CATTCGATCAAAG-
1 TTCATGTATATAATTGAACCA-T-AATCAAAGT
25749331 TTCATGTATA
1 TTCATGTATA
25749341 GTTTTGAAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
28 2 0.04
29 11 0.19
30 13 0.23
31 31 0.54
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.37
Consensus pattern (31 bp):
TTCATGTATATAATTGAACCATAATCAAAGT
Found at i:25754694 original size:8 final size:8
Alignment explanation
Indices: 25754683--25754708 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
25754673 AAAAAAAAAA
25754683 AAGAGAAG
1 AAGAGAAG
25754691 AAGAGAAG
1 AAGAGAAG
25754699 AAGAGAAG
1 AAGAGAAG
25754707 AA
1 AA
25754709 AAAAAGGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (8 bp):
AAGAGAAG
Found at i:25756306 original size:5 final size:5
Alignment explanation
Indices: 25756296--25756320 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
25756286 ATCCATGAAT
25756296 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
25756321 GAAGTCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:25759136 original size:120 final size:120
Alignment explanation
Indices: 25758993--25759304 Score: 294
Period size: 120 Copynumber: 2.6 Consensus size: 120
25758983 GCAAAGCTCC
* * **
25758993 CCACACAATCCCCTAACATTAGGCATGACGATAACAAAAAGCTTGTCGTTGACACAACTTACAAT
1 CCACAAAATCCCTTAATGTTAGGCATGACGATAACAAAAAGCTTGTCGTTGACACAACTTACAAT
* * *
25759058 GAGGTCAACGGTGATGTATCAATAGC-GAGAACTGA-CCGGAACAAAGCAAAACCCT
66 GAGGTCAACGGCGACGTATCAATAGCGGA-AACTAAGCC-GAACAAAGCAAAACCCT
* ** * * * * *
25759113 CCACAGAATCGGTTAATGTTAGGCATGATGATAACAAAAAGCTTGTCATCGGA-A-AAGTTTATA
1 CCACAAAATCCCTTAATGTTAGGCATGACGATAACAAAAAGCTTGTCGT-TGACACAA-CTTACA
* * * * * * *
25759176 ACGAGGTCAATGGCGGCGTATCAATAGCGGAAACTAAGCCGAACGAAGTAAAGCTCT
64 ATGAGGTCAACGGCGACGTATCAATAGCGGAAACTAAGCCGAACAAAGCAAAACCCT
* * * *
25759233 CCATAAAATCCCTTGATGTT-GGACATTACGATAA-AAATAAACTTGTCGTTGACACAACTTACA
1 CCACAAAATCCCTTAATGTTAGG-CATGACGATAACAAA-AAGCTTGTCGTTGACACAACTTACA
25759296 ATGAGGTCA
64 ATGAGGTCA
25759305 TCAATGGCGA
Statistics
Matches: 150, Mismatches: 34, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
119 9 0.06
120 133 0.89
121 8 0.05
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.22
Consensus pattern (120 bp):
CCACAAAATCCCTTAATGTTAGGCATGACGATAACAAAAAGCTTGTCGTTGACACAACTTACAAT
GAGGTCAACGGCGACGTATCAATAGCGGAAACTAAGCCGAACAAAGCAAAACCCT
Found at i:25759564 original size:123 final size:123
Alignment explanation
Indices: 25759182--25760334 Score: 928
Period size: 123 Copynumber: 9.4 Consensus size: 123
25759172 TATAACGAGG
* * ** * * * * *
25759182 TCAATGGCGGCGTATCAATAGCGGAAACTAAGCCGAACGAAGTAAAGCTCTCCATAAAATCCCTT
1 TCAATGGCGGCGTATCAGTAGCGGAAACTGAGCAAAACGAAGCAAAGCTCCCCAGAGAATCCTTT
* * * * ** ** * * * *
25759247 GATGTTGGACATTACGATAA-AAATAAACTTGTCGTTGACACAACTTACAATGAGGTCA
66 AATGTTGGGCATGATGATAATGGA-AAGTTTGTCATTGACACAGCTTATAATGAAGTCA
* * * * * * * * *
25759305 TCAATGGCGACGTATTAGTAGCTGAACCTGAGGATATCGAAGCAAAGCTCCCCAAAGAACCCTTT
1 TCAATGGCGGCGTATCAGTAGCGGAAACTGAGCAAAACGAAGCAAAGCTCCCCAGAGAATCCTTT
* *
25759370 AATGTTGGGCATGATG---ATGGAAAGTTTGTCATTTACTC-GACTTATAATGAAGTCA
66 AATGTTGGGCATGATGATAATGGAAAGTTTGTCATTGACACAG-CTTATAATGAAGTCA
* * * * *
25759425 TCAATGACGGCGTATCAGTAGTGGAAACTAAGCAAAACGAAGCAAAGCTCTCCAGAGAATACTTT
1 TCAATGGCGGCGTATCAGTAGCGGAAACTGAGCAAAACGAAGCAAAGCTCCCCAGAGAATCCTTT
* * *
25759490 AATGTTGGGCATGATGATGATGGAAAGTTTGACATTGACATAGCTTATAATGAAGTCA
66 AATGTTGGGCATGATGATAATGGAAAGTTTGTCATTGACACAGCTTATAATGAAGTCA
* * * *
25759548 TCAATGGCGGCATATCAGTAGCGGAAACTGAGCAAAATGAAGCACAGCTCCCCAGAGAATCCTTC
1 TCAATGGCGGCGTATCAGTAGCGGAAACTGAGCAAAACGAAGCAAAGCTCCCCAGAGAATCCTTT
* * * * *
25759613 AATGTTGGGCAGGATGATGATGGAAAGTTTGACATTAACGCAGCTTATAATGAAGTCA
66 AATGTTGGGCATGATGATAATGGAAAGTTTGTCATTGACACAGCTTATAATGAAGTCA
* * * * * * * * *
25759671 TGAATGACCGTGTATCAATAGTGGAAA-TGGAGCAAAACGTAGCGAAGCTCCCCAGAGAATCCCT
1 TCAATGGCGGCGTATCAGTAGCGGAAACT-GAGCAAAACGAAGCAAAGCTCCCCAGAGAATCCTT
* *** *
25759735 TAATGTTGGGCATGACGATAACAAAAAGTTTGTCATTGACAC-GACTTACAATG-AGATCA
65 TAATGTTGGGCATGATGATAATGGAAAGTTTGTCATTGACACAG-CTTATAATGAAG-TCA
* * * * * * * * *
25759794 TCAATGGCGACGTATTAGTAAG-TGAAGCTGAGCATAATGAAGTAAAGCTCCCCACAGAATCCCT
1 TCAATGGCGGCGTATCAGT-AGCGGAAACTGAGCAAAACGAAGCAAAGCTCCCCAGAGAATCCTT
* ** ** * * * *
25759858 TAATGTTCGGCATGATGATAATCAAAAACTTGTCTTTGACACAACTTACAATGATGTCA
65 TAATGTTGGGCATGATGATAATGGAAAGTTTGTCATTGACACAGCTTATAATGAAGTCA
* * * * * * *
25759917 CCAATGGCAGCCTATCAGTAGCGGAAATTGAGAAAAAAGAAGCAAAGCTCGCCAGTA-AAT-CTC
1 TCAATGGCGGCGTATCAGTAGCGGAAACTGAGCAAAACGAAGCAAAGCTCCCCAG-AGAATCCT-
* * * * * *
25759980 TTAATGTTGGGTATGATGATAACGGAAACTTCGTCATTGACACATCTTGTAATGAAGTCA
64 TTAATGTTGGGCATGATGATAATGGAAAGTTTGTCATTGACACAGCTTATAATGAAGTCA
* ** * ** *
25760040 TCAGTGATGGCATATCAGTAGCGGAAACTGAGCAAAACGAAGTGAAGCTCCCCACAGAATCCTTT
1 TCAATGGCGGCGTATCAGTAGCGGAAACTGAGCAAAACGAAGCAAAGCTCCCCAGAGAATCCTTT
* * * ** * * * * * *
25760105 AATATTGAGCATGATGGTAACAGAAAGCTTGTCGTTGACACACCTTACAAAGAGGTCA
66 AATGTTGGGCATGATGATAATGGAAAGTTTGTCATTGACACAGCTTATAATGAAGTCA
* * * * * ** * * * *
25760163 TCAATAGCGACATATTAATAGTTGAAACTGATCATAACGAAGTAAAGCTCCCC-GTAGAATTCTT
1 TCAATGGCGGCGTATCAGTAGCGGAAACTGAGCAAAACGAAGCAAAGCTCCCCAG-AGAATCCTT
* * * * * * * *
25760227 TAATATTGGGCATGATCACAATGAAAAGCTTGTCAATGACACAGCTTATGATGAGGTCA
65 TAATGTTGGGCATGATGATAATGGAAAGTTTGTCATTGACACAGCTTATAATGAAGTCA
* *
25760286 -CTAATGGCCGCGTATCAATAGCGGAAACTGAGCAAAACGAAGCAAAGCT
1 TC-AATGGCGGCGTATCAGTAGCGGAAACTGAGCAAAACGAAGCAAAGCT
25760335 TCCTACAAAG
Statistics
Matches: 810, Mismatches: 200, Indels: 40
0.77 0.19 0.04
Matches are distributed among these distances:
120 93 0.11
121 1 0.00
122 9 0.01
123 699 0.86
124 8 0.01
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (123 bp):
TCAATGGCGGCGTATCAGTAGCGGAAACTGAGCAAAACGAAGCAAAGCTCCCCAGAGAATCCTTT
AATGTTGGGCATGATGATAATGGAAAGTTTGTCATTGACACAGCTTATAATGAAGTCA
Found at i:25759935 original size:369 final size:368
Alignment explanation
Indices: 25759342--25760334 Score: 1050
Period size: 369 Copynumber: 2.7 Consensus size: 368
25759332 CTGAGGATAT
* *
25759342 CGAAGCAAAGCTCCCCAAAGAA-CCCTTTAATGTTGGGCATGATGAT---GGAAAGTTTGTCATT
1 CGAAGCGAAGCTCCCCAAAGAATCCC-TTAATGTTGGGCATGATGATAACAGAAAGTTTGTCATT
* * * * * * * *
25759403 TACTCGACTTATAATGA-AGTCATCAATGACGGCGTATCAGTAGTGGAAACTAAGCAAAACGAAG
65 GACACGACTTACAATGAGA-TCATCAATGGCGACGTATTAGTAGT-GAAACTGAGCATAACGAAG
* * * * * * * *
25759467 CAAAGCTCTCCAGAGAATACTTTAATGTTGGGCATGATGATGATGGAAAGTTTGACATTGACATA
128 TAAAGCTCCCCACAGAATACTTTAATGTTGGGCATGATGATAATGAAAAGCTTGTCATTGACACA
* * * *
25759532 GCTTATAATGAAGTCATCAATGGCGGCATATCAGTAGCGGAAACTGAGCAAAATGAAGCACAGCT
193 GCTTATAATGAAGTCACCAATGGCAGCATATCAGTAGCGGAAACTGAGCAAAAAGAAGCAAAGCT
* * * * *
25759597 CCCCAG-AGAATC-CTTCAATGTTGGGCAGGATGATGATGGAAAGTTTGACATTAACGCAGCTTA
258 CCCCAGTA-AATCTCTT-AATGTTGGGCAGGATGATAACGGAAACTTCGACATTAACACAGCTTA
* ** *
25759660 TAATGAAGTCATGAATGACCGTGTATCAATAGTGGAAA-TGGAGCAAAA
321 TAATGAAGTCATCAATGACCGCATATCAATAGCGGAAACT-GAGCAAAA
* * * *
25759708 CGTAGCGAAGCTCCCCAGAGAATCCCTTAATGTTGGGCATGACGATAACAAAAAGTTTGTCATTG
1 CGAAGCGAAGCTCCCCAAAGAATCCCTTAATGTTGGGCATGATGATAACAGAAAGTTTGTCATTG
* *
25759773 ACACGACTTACAATGAGATCATCAATGGCGACGTATTAGTAAGTGAAGCTGAGCATAATGAAGTA
66 ACACGACTTACAATGAGATCATCAATGGCGACGTATTAGT-AGTGAAACTGAGCATAACGAAGTA
* * * * * * *
25759838 AAGCTCCCCACAGAATCCCTTAATGTTCGGCATGATGATAATCAAAAACTTGTCTTTGACACAAC
130 AAGCTCCCCACAGAATACTTTAATGTTGGGCATGATGATAATGAAAAGCTTGTCATTGACACAGC
* * * * * *
25759903 TTACAATGATGTCACCAATGGCAGCCTATCAGTAGCGGAAATTGAGAAAAAAGAAGCAAAGCTCG
195 TTATAATGAAGTCACCAATGGCAGCATATCAGTAGCGGAAACTGAGCAAAAAGAAGCAAAGCTCC
* * * * * *
25759968 CCAGTAAATCTCTTAATGTTGGGTATGATGATAACGGAAACTTCGTCATTGACACATCTTGTAAT
260 CCAGTAAATCTCTTAATGTTGGGCAGGATGATAACGGAAACTTCGACATTAACACAGCTTATAAT
* ** *
25760033 GAAGTCATCAGTGATGGCATATCAGTAGCGGAAACTGAGCAAAA
325 GAAGTCATCAATGACCGCATATCAATAGCGGAAACTGAGCAAAA
* * * * * * * *
25760077 CGAAGTGAAGCTCCCCACAGAATCCTTTAATATTGAGCATGATGGTAACAGAAAGCTTGTCGTTG
1 CGAAGCGAAGCTCCCCAAAGAATCCCTTAATGTTGGGCATGATGATAACAGAAAGTTTGTCATTG
* * * * * *
25760142 ACAC-ACCTTACAAAGAGGTCATCAATAGCGACATATTAATAGTTGAAACTGATCATAACGAAGT
66 ACACGA-CTTACAATGAGATCATCAATGGCGACGTATTAGTAG-TGAAACTGAGCATAACGAAGT
** * * * * *
25760206 AAAGCTCCCCGTAGAATTCTTTAATATTGGGCATGATCACAATGAAAAGCTTGTCAATGACACAG
129 AAAGCTCCCCACAGAATACTTTAATGTTGGGCATGATGATAATGAAAAGCTTGTCATTGACACAG
* * * * * * *
25760271 CTTATGATGAGGTCACTAATGGCCGCGTATCAATAGCGGAAACTGAGCAAAACGAAGCAAAGCT
194 CTTATAATGAAGTCACCAATGGCAGCATATCAGTAGCGGAAACTGAGCAAAAAGAAGCAAAGCT
25760335 TCCTACAAAG
Statistics
Matches: 514, Mismatches: 102, Indels: 19
0.81 0.16 0.03
Matches are distributed among these distances:
366 38 0.07
367 3 0.01
368 3 0.01
369 461 0.90
370 9 0.02
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.24
Consensus pattern (368 bp):
CGAAGCGAAGCTCCCCAAAGAATCCCTTAATGTTGGGCATGATGATAACAGAAAGTTTGTCATTG
ACACGACTTACAATGAGATCATCAATGGCGACGTATTAGTAGTGAAACTGAGCATAACGAAGTAA
AGCTCCCCACAGAATACTTTAATGTTGGGCATGATGATAATGAAAAGCTTGTCATTGACACAGCT
TATAATGAAGTCACCAATGGCAGCATATCAGTAGCGGAAACTGAGCAAAAAGAAGCAAAGCTCCC
CAGTAAATCTCTTAATGTTGGGCAGGATGATAACGGAAACTTCGACATTAACACAGCTTATAATG
AAGTCATCAATGACCGCATATCAATAGCGGAAACTGAGCAAAA
Found at i:25764314 original size:67 final size:69
Alignment explanation
Indices: 25764231--25764363 Score: 200
Period size: 70 Copynumber: 1.9 Consensus size: 69
25764221 ATAAACAATA
* * *
25764231 TAATGGTTTTGCCTTTTAAC-TTA-ATGAA-TAAACATTTATCAAAACGACGTAGTTTTGCCTTT
1 TAATGGTTTTGACTTTTAACTTTAGA-AAAGTAAACATTTATCAAAACAACGTAGTTTTGCCTTT
25764293 TAACT
65 TAACT
25764298 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAACATTTATCAAAACAACGTAGTTTTGCCTTT
1 TAATGGTTTTGACTTTTAACTTTAGAAAA-GTAAACATTTATCAAAACAACGTAGTTTTGCCTTT
25764363 T
65 T
25764364 CTTATTCGGA
Statistics
Matches: 59, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
67 19 0.32
68 5 0.08
69 1 0.02
70 34 0.58
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (69 bp):
TAATGGTTTTGACTTTTAACTTTAGAAAAGTAAACATTTATCAAAACAACGTAGTTTTGCCTTTT
AACT
Found at i:25769262 original size:43 final size:43
Alignment explanation
Indices: 25769201--25769324 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 43
25769191 ATTTCATATA
* *
25769201 TGTGTTTTCGTGTAAGACCACATCTGGGACGTTGGCTTCGA-C
1 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATC
25769243 TTGTGTTTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATC
1 -TGTGTTTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATC
* ** * *
25769287 TGTGATCACATGTAAGACCACGTCTGGGATGTTGGCAT
1 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
25769325 TGTACAAGCT
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
42 2 0.03
43 64 0.93
44 3 0.04
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATC
Found at i:25772561 original size:33 final size:30
Alignment explanation
Indices: 25772490--25772575 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 30
25772480 TGCATTATTG
* *
25772490 CACTGTACTATTATTGTATTGGGCTAAGGCC
1 CACT-TACTGTTACTGTATTGGGCTAAGGCC
25772521 CAC--ACTGTTACTGTATTGGGCTAAGGCCC
1 CACTTACTGTTACTGTATTGGGCTAAGG-CC
* *
25772550 ACACTATACTGTTACTGAATAGGGCT
1 -CACT-TACTGTTACTGTATTGGGCT
25772576 CAGGTCCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
28 21 0.46
29 2 0.04
30 3 0.07
31 3 0.07
33 17 0.37
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (30 bp):
CACTTACTGTTACTGTATTGGGCTAAGGCC
Found at i:25776419 original size:105 final size:105
Alignment explanation
Indices: 25776280--25776490 Score: 395
Period size: 105 Copynumber: 2.0 Consensus size: 105
25776270 AAATTGAAAT
25776280 GAATATATGTGCAAATATGAGAATTGGATATTGGTTGTATTTGAAAAGTGAAATGAAACCCTATT
1 GAATATATGTGCAAATATGAGAATTGGATATTGGTTGTATTTGAAAAGTGAAATGAAACCCTATT
25776345 AACTATATCGGGTTGAGTAGGATATAGATGGCATGCCATA
66 AACTATATCGGGTTGAGTAGGATATAGATGGCATGCCATA
* *
25776385 GAATATATGTGCAAATTTGAGAATTGGATATTGGTTGTATTTGAAAAGTGAAATGAAACTCTATT
1 GAATATATGTGCAAATATGAGAATTGGATATTGGTTGTATTTGAAAAGTGAAATGAAACCCTATT
*
25776450 AACTGTATCGGGTTGAGTAGGATATAGATGGCATGCCATA
66 AACTATATCGGGTTGAGTAGGATATAGATGGCATGCCATA
25776490 G
1 G
25776491 GATAGGAAAA
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 103 1.00
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.32
Consensus pattern (105 bp):
GAATATATGTGCAAATATGAGAATTGGATATTGGTTGTATTTGAAAAGTGAAATGAAACCCTATT
AACTATATCGGGTTGAGTAGGATATAGATGGCATGCCATA
Found at i:25777779 original size:6 final size:6
Alignment explanation
Indices: 25777754--25777790 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
25777744 CCAAACACAC
25777754 CAGTATA CAGTAA TCAGTAA CAGTAA CAGTAA CAGTA
1 CAGTA-A CAGTAA -CAGTAA CAGTAA CAGTAA CAGTA
25777791 TTCAACACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (6 bp):
CAGTAA
Found at i:25777821 original size:45 final size:45
Alignment explanation
Indices: 25777768--25777874 Score: 160
Period size: 45 Copynumber: 2.4 Consensus size: 45
25777758 ATACAGTAAT
*
25777768 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAC
1 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAC
* * * * *
25777813 CTGTAACAGTAACGGTAACTGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAC
25777858 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
25777875 GTCGGCACAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAC
Found at i:25778162 original size:39 final size:40
Alignment explanation
Indices: 25778078--25778162 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
25778068 TTCTTTACTT
* * * *
25778078 CAGTAATTTCACAATTCAATGCATTATACATAACAATATT
1 CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
*
25778118 CAGTATTTTCACAATTCACT-CAGTAAT-CAAAACAATATC
1 CAGTATTTTCACAATTCAATGCA-TAATACAAAACAATATC
25778157 CAGTAT
1 CAGTAT
25778163 CCCATAATTC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 18 0.46
40 21 0.54
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (40 bp):
CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
Found at i:25787474 original size:11 final size:11
Alignment explanation
Indices: 25787458--25787483 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25787448 CTTTTTCTTC
25787458 TTTCTCCCCTG
1 TTTCTCCCCTG
25787469 TTTCTCCCCTG
1 TTTCTCCCCTG
25787480 TTTC
1 TTTC
25787484 GTCTCTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:25789972 original size:108 final size:108
Alignment explanation
Indices: 25789783--25790003 Score: 354
Period size: 108 Copynumber: 2.0 Consensus size: 108
25789773 CGAAAGAGTG
* *
25789783 GACTCTCCTCTACCTACAAATACTCCTATCCCACCTTAAGGATAGGTATTCTTCTTCCTCCACTT
1 GACTCTCCTCCACCTACAAATACTCCTATCCCACCTTAAGGAGAGGTATTCTTCTTCCTCCACTT
* *
25789848 TTTTTCTTATCATTCTTCTAAGTATATCTTCGACATCTAGAAA
66 TTTTTCTTATCATTCTTCTAAGTACATCTTCAACATCTAGAAA
* * * *
25789891 GACTCTCCTCCACCTATAAATACTCCTATCCCA-TTTCAATGAGAGGTATTCTTCTTCCTCCATT
1 GACTCTCCTCCACCTACAAATACTCCTATCCCACCTT-AAGGAGAGGTATTCTTCTTCCTCCACT
25789955 TTTTTTCTTATCATTCTTCTAAGTACATCTTCAACATCTAGAAA
65 TTTTTTCTTATCATTCTTCTAAGTACATCTTCAACATCTAGAAA
25789999 GACTC
1 GACTC
25790004 CTCAGCCACA
Statistics
Matches: 104, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
107 2 0.02
108 102 0.98
ACGTcount: A:0.25, C:0.29, G:0.07, T:0.39
Consensus pattern (108 bp):
GACTCTCCTCCACCTACAAATACTCCTATCCCACCTTAAGGAGAGGTATTCTTCTTCCTCCACTT
TTTTTCTTATCATTCTTCTAAGTACATCTTCAACATCTAGAAA
Found at i:25790125 original size:16 final size:17
Alignment explanation
Indices: 25790106--25790138 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25790096 AAATATAATT
25790106 TAAATA-AAATTTTATA
1 TAAATATAAATTTTATA
25790122 TAAATATAAATTTTATA
1 TAAATATAAATTTTATA
25790139 ACTGTTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATATAAATTTTATA
Found at i:25793497 original size:22 final size:24
Alignment explanation
Indices: 25793447--25793497 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
25793437 TTGCAATGCT
25793447 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
25793472 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
25793493 TTTAT
1 TTTAT
25793498 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:25793721 original size:34 final size:35
Alignment explanation
Indices: 25793655--25793721 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
25793645 CAAACACCAG
* *
25793655 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGAAAATCATTTTACAGAAAAGT
* *
25793690 AAAACATTTTCCA-AAAATTATTTTACGGAAAA
1 AAAACATTTTCCAGAAAATCATTTTACAGAAAA
25793722 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGAAAATCATTTTACAGAAAAGT
Found at i:25802322 original size:20 final size:19
Alignment explanation
Indices: 25802299--25802370 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
25802289 AATTACAAAA
25802299 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
25802318 CAAAAATTCAAAATAAATTTT
1 -AAAAATTCAAAAT-AATTTT
*
25802339 -AAATTTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
25802357 AAAAATTTCAAAAT
1 AAAAA-TTCAAAAT
25802371 TTATATCTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
17 4 0.09
18 1 0.02
19 14 0.30
20 21 0.46
21 6 0.13
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:25805157 original size:13 final size:13
Alignment explanation
Indices: 25805139--25805163 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25805129 TACAGTAGCA
25805139 ATATTTTTATTTG
1 ATATTTTTATTTG
25805152 ATATTTTTATTT
1 ATATTTTTATTT
25805164 TTTTAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
ATATTTTTATTTG
Found at i:25806416 original size:7 final size:7
Alignment explanation
Indices: 25806400--25806446 Score: 78
Period size: 7 Copynumber: 6.9 Consensus size: 7
25806390 AAAAATATAT
25806400 GAAT-TG
1 GAATGTG
25806406 GAATGTG
1 GAATGTG
25806413 GAATGTG
1 GAATGTG
25806420 GAATGTG
1 GAATGTG
25806427 GAATGTG
1 GAATGTG
*
25806434 GAATGTA
1 GAATGTG
25806441 GAATGT
1 GAATGT
25806447 TGTAATTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
6 4 0.10
7 35 0.90
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.30
Consensus pattern (7 bp):
GAATGTG
Found at i:25808388 original size:14 final size:13
Alignment explanation
Indices: 25808364--25808394 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
25808354 CATTGTACAA
25808364 TATATATAAGAAT
1 TATATATAAGAAT
25808377 TATATGATAAGAAT
1 TATAT-ATAAGAAT
25808391 TATA
1 TATA
25808395 CTAATCCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (13 bp):
TATATATAAGAAT
Found at i:25809647 original size:18 final size:18
Alignment explanation
Indices: 25809624--25809661 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
25809614 AGCAGAACAG
25809624 AAGAAATAACAAAAGAGA
1 AAGAAATAACAAAAGAGA
*
25809642 AAGAAATAGCAAAAGAGA
1 AAGAAATAACAAAAGAGA
25809660 AA
1 AA
25809662 ATAAAAACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.71, C:0.05, G:0.18, T:0.05
Consensus pattern (18 bp):
AAGAAATAACAAAAGAGA
Found at i:25810900 original size:77 final size:77
Alignment explanation
Indices: 25810818--25810972 Score: 310
Period size: 77 Copynumber: 2.0 Consensus size: 77
25810808 AATCATCTCA
25810818 TTTTAGTTCATTTTTGTTTATTTATTTATTTTATTTATTTTTTAATGTTGATGTTATTGTTAAGT
1 TTTTAGTTCATTTTTGTTTATTTATTTATTTTATTTATTTTTTAATGTTGATGTTATTGTTAAGT
25810883 GATTATTTTTGT
66 GATTATTTTTGT
25810895 TTTTAGTTCATTTTTGTTTATTTATTTATTTTATTTATTTTTTAATGTTGATGTTATTGTTAAGT
1 TTTTAGTTCATTTTTGTTTATTTATTTATTTTATTTATTTTTTAATGTTGATGTTATTGTTAAGT
25810960 GATTATTTTTGT
66 GATTATTTTTGT
25810972 T
1 T
25810973 AATTAATATT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.19, C:0.01, G:0.12, T:0.68
Consensus pattern (77 bp):
TTTTAGTTCATTTTTGTTTATTTATTTATTTTATTTATTTTTTAATGTTGATGTTATTGTTAAGT
GATTATTTTTGT
Found at i:25822653 original size:59 final size:59
Alignment explanation
Indices: 25822581--25822757 Score: 354
Period size: 59 Copynumber: 3.0 Consensus size: 59
25822571 AAAAAGAGAT
25822581 TATTCTCGAAAAGTACATTCTGCATTCATACAAATATCATTCATATACATCTAGTTAGG
1 TATTCTCGAAAAGTACATTCTGCATTCATACAAATATCATTCATATACATCTAGTTAGG
25822640 TATTCTCGAAAAGTACATTCTGCATTCATACAAATATCATTCATATACATCTAGTTAGG
1 TATTCTCGAAAAGTACATTCTGCATTCATACAAATATCATTCATATACATCTAGTTAGG
25822699 TATTCTCGAAAAGTACATTCTGCATTCATACAAATATCATTCATATACATCTAGTTAGG
1 TATTCTCGAAAAGTACATTCTGCATTCATACAAATATCATTCATATACATCTAGTTAGG
25822758 AGTATTTGAT
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 118 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (59 bp):
TATTCTCGAAAAGTACATTCTGCATTCATACAAATATCATTCATATACATCTAGTTAGG
Found at i:25822996 original size:44 final size:44
Alignment explanation
Indices: 25822926--25823457 Score: 361
Period size: 44 Copynumber: 11.7 Consensus size: 44
25822916 TATCATAGCG
* * *
25822926 AATCTTATC-TCCTTGAAATTGCAGTGGAGCAGATTAAAGCTAAA
1 AATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * *
25822970 AATCTTATCTTCCTAAAGTTGTAGTGGAGCAGATTGAAGCTACG
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* *
25823014 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCAACA
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
*
25823058 AATCTTAT-TTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACG
1 AATCTTATCTT-CCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* *
25823102 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCTACA
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * ** * ** *
25823146 AATCCTATAC-CCCTGAAGTTATATTGG-GTTGGATTGAATCTACCATA
1 AATCTTAT-CTTCCTGAAGTTGCAGTGGAG-CAGATTGAAGCTA-C--A
* *
25823193 GTGAATCTTATC-TCCTTGAAGTTGCAGTGGAACAGATTGAAGCTGCA
1 ---AATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* *
25823240 AATCTTATC-TCCATGAAGTTGCAGTGGAACAAGA-TGAAGCTACT
1 AATCTTATCTTCC-TGAAGTTGCAGTGGAGC-AGATTGAAGCTACA
* * * * *
25823284 AAT-TCTATGC-CCCTAAAGTTGCAGTGGTGCAGAATGAAGTTACAGTCGCA
1 AATCT-TAT-CTTCCTGAAGTTGCAGTGGAGCAGATTGAAG---C--T-ACA
* * * *
25823334 AATCTTATCTCCCTAAAGTTTTC-GTGGAGCAAGA-TGAGGCTACA
1 AATCTTATCTTCCTGAAG-TTGCAGTGGAGC-AGATTGAAGCTACA
* * ** *
25823378 AATCCTAT-ATCCTTGAAGTTGCAGTGGATTAGATTGAAACTACAACAA
1 AATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTGAAGCT---AC-A
*
25823426 CAATCTTATC-TCCTTGAAGTTGCAATGGAGCA
1 -AATCTTATCTTCC-TGAAGTTGCAGTGGAGCA
25823458 AGATGAAACT
Statistics
Matches: 393, Mismatches: 59, Indels: 67
0.76 0.11 0.13
Matches are distributed among these distances:
43 14 0.04
44 268 0.68
45 13 0.03
47 6 0.02
48 1 0.00
49 32 0.08
50 52 0.13
51 7 0.02
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
Found at i:25823042 original size:88 final size:88
Alignment explanation
Indices: 25822924--25823415 Score: 408
Period size: 88 Copynumber: 5.5 Consensus size: 88
25822914 TCTATCATAG
* * * *
25822924 CGAATCTTATCTCCTTGAAATTGCAGTGGAGCAGATTAAAGCTAAAAATCTTATCTTCCTAAAGT
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAAAAATCTTATCTTCCTGAAGT
25822989 TGTAGTGGAGCAGATTGAAGCTA
66 TGTAGTGGAGCAGATTGAAGCTA
25823012 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC-AACAAATCTTAT-TTCCCTGAA
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAA-AAATCTTATCTT-CCTGAA
*
25823075 GTTGCAGTGGAGCAGATTGAAGCTA
64 GTTGTAGTGGAGCAGATTGAAGCTA
* * * *
25823100 CGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCTACAAATCCTATAC-CCCTGAAG
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAAAAATCTTAT-CTTCCTGAAG
* * ** *
25823164 TTATATTGG-GTTGGATTGAATCTA
65 TTGTAGTGGAG-CAGATTGAAGCTA
* * **
25823188 CCATAGTGAATCTTATCTCCTTGAAGTTGCAGTGGAACAGATTGAAGCTGCAAATCTTATC-TCC
1 -C-----GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAAAAATCTTATCTTCC
* *
25823252 ATGAAGTTGCAGTGGAACAAGA-TGAAGCTA
60 -TGAAGTTGTAGTGGAGC-AGATTGAAGCTA
* * * * * *
25823282 CTAAT-TCTATGC-CCCTAAAGTTGCAGTGGTGCAGAATGAAGTTACAGTCGCAAATCTTATCTC
1 CGAATCT-TAT-CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-A-----AAATCTTATCTT
* * * *
25823345 CCTAAAGTTTTCGTGGAGCAAGA-TGAGGCTA
58 CCTGAAGTTGTAGTGGAGC-AGATTGAAGCTA
* * * * **
25823376 CAAATCCTATATCCTTGAAGTTGCAGTGGATTAGATTGAA
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
25823416 ACTACAACAA
Statistics
Matches: 325, Mismatches: 53, Indels: 46
0.77 0.12 0.11
Matches are distributed among these distances:
87 6 0.02
88 180 0.55
89 3 0.01
93 4 0.01
94 128 0.39
95 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (88 bp):
CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAAAAATCTTATCTTCCTGAAGT
TGTAGTGGAGCAGATTGAAGCTA
Found at i:25823163 original size:132 final size:133
Alignment explanation
Indices: 25822925--25823422 Score: 461
Period size: 138 Copynumber: 3.7 Consensus size: 133
25822915 CTATCATAGC
* * * * *
25822925 GAATCTTATCTCCTTGAAATTGCAGTGGAGCAGATTAAAGCTAAAAATCTTATCTTCCTAAAGTT
1 GAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTT
* * *
25822990 GTAGTGGAGCAGATTGAAGCTACGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC-
66 GCAGTGGAGCAGATTGAAGCTACAAATCCTATC-CCCTGAAGTTGCAGTGG-GCAGATTGAAGCT
25823054 A-ACA
129 ACACA
* * *
25823058 -AATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACGAATCTTATCTCCCTGAAGTT
1 GAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTT
* ** * ** *
25823122 ACAGTGGAGCAGATTGAAGCTACAAATCCTATACCCCTGAAGTTATATTGGGTTGGATTGAATCT
66 GCAGTGGAGCAGATTGAAGCTACAAATCCTAT-CCCCTGAAGTTGCAGTGGG-CAGATTGAAGCT
*
25823187 ACCATA
129 A-CACA
* * *
25823193 GTGAATCTTATCTCCTTGAAGTTGCAGTGGAACAGATTGAAGCTGCAAATCTTATCTCCATGAAG
1 --GAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAG
* * * * *
25823258 TTGCAGTGGAACAAGA-TGAAGCTACTAATTCTATGCCCCTAAAGTTGCAGTGGTGCAGAATGAA
64 TTGCAGTGGAGC-AGATTGAAGCTACAAATCCTAT-CCCCTGAAGTTGCAGTGG-GCAGATTGAA
*
25823322 GTTACAGTC-
126 GCTACA--CA
* * * * * * *
25823331 GCAAATCTTATCTCCCTAAAGTTTTC-GTGGAGCAAGA-TGAGGCTACAAATCCTATATCCTTGA
1 G--AATCTTATCTCCTTGAAG-TTGCAGTGGAGC-AGATTGAAGCTACAAATCTTATCTCCCTGA
** *
25823394 AGTTGCAGTGGATTAGATTGAAACTACAA
62 AGTTGCAGTGGAGCAGATTGAAGCTACAA
25823423 CAACAATCTT
Statistics
Matches: 295, Mismatches: 53, Indels: 29
0.78 0.14 0.08
Matches are distributed among these distances:
131 1 0.00
132 106 0.36
133 2 0.01
135 2 0.01
136 1 0.00
137 5 0.02
138 168 0.57
139 10 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (133 bp):
GAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATTGAAGCTACAAATCCTATCCCCTGAAGTTGCAGTGGGCAGATTGAAGCTAC
ACA
Found at i:25823336 original size:94 final size:93
Alignment explanation
Indices: 25823237--25823464 Score: 228
Period size: 94 Copynumber: 2.4 Consensus size: 93
25823227 GATTGAAGCT
* * * *
25823237 GCAAATCTTATCTCCATGAAGTTGCAGTGGAACAAGATGAAGCTACTAATTCTATGCCCCTAAAG
1 GCAAATCTTATCTCCATGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAG
** *
25823302 TTGCAGTGG-TGCAGAATGAAGTTACAGTC
66 TTGCAGTGGAT-CAGAATGAAACTACA-AC
* * * * * * *
25823331 GCAAATCTTATCTCCCTAAAGTTTTC-GTGGAGCAAGATGAGGCTACAAATCCTATATCCTTGAA
1 GCAAATCTTATCTCCATGAAG-TTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAA
* *
25823395 GTTGCAGTGGATTAGATTGAAACTACAAC
65 GTTGCAGTGGATCAGAATGAAACTACAAC
* * *
25823424 -AACAATCTTATCTCCTTGAAGTTGCAATGGAGCAAGATGAA
1 GCA-AATCTTATCTCCATGAAGTTGCAGTGGAGCAAGATGAA
25823465 ACTATAACAC
Statistics
Matches: 108, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
92 4 0.04
93 30 0.28
94 70 0.65
95 4 0.04
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (93 bp):
GCAAATCTTATCTCCATGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAG
TTGCAGTGGATCAGAATGAAACTACAAC
Found at i:25823465 original size:49 final size:49
Alignment explanation
Indices: 25823378--25823473 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
25823368 TGAGGCTACA
* **
25823378 AATCCTATATCCTTGAAGTTGCAGTGGATTAGATTGAAACTACAACAAC
1 AATCCTATATCCTTGAAGTTGCAATGGACAAGATTGAAACTACAACAAC
* * *
25823427 AATCTTATCTCCTTGAAGTTGCAATGGAGCAAGA-TGAAACTATAACA
1 AATCCTATATCCTTGAAGTTGCAATGGA-CAAGATTGAAACTACAACA
25823474 CTAAATCATG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
49 37 0.93
50 3 0.08
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (49 bp):
AATCCTATATCCTTGAAGTTGCAATGGACAAGATTGAAACTACAACAAC
Found at i:25827599 original size:12 final size:13
Alignment explanation
Indices: 25827582--25827610 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
25827572 TACTTCATAA
25827582 AAAATAAAA-ATT
1 AAAATAAAATATT
25827594 AAAATAAAATATT
1 AAAATAAAATATT
25827607 AAAA
1 AAAA
25827611 ACTTCAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATAAAATATT
Found at i:25829538 original size:6 final size:6
Alignment explanation
Indices: 25829523--25829552 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
25829513 ATAGAATTGA
25829523 TTGA-T TTGATT TTGATT TTGATT TTGATT T
1 TTGATT TTGATT TTGATT TTGATT TTGATT T
25829553 AGATATATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (6 bp):
TTGATT
Found at i:25832795 original size:16 final size:15
Alignment explanation
Indices: 25832752--25832798 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 15
25832742 TTATTGGATA
25832752 ATTTATAAAATTT-T
1 ATTTATAAAATTTAT
**
25832766 -TTTATAAAGGTTAT
1 ATTTATAAAATTTAT
25832780 ATATTATAAAATTTAT
1 AT-TTATAAAATTTAT
25832796 ATT
1 ATT
25832799 ATTTTTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
15 2 0.08
16 13 0.50
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (15 bp):
ATTTATAAAATTTAT
Found at i:25838890 original size:121 final size:121
Alignment explanation
Indices: 25838676--25838918 Score: 477
Period size: 121 Copynumber: 2.0 Consensus size: 121
25838666 ACATGAAGCA
*
25838676 TGGTTTCATATATTTTGGTGATTGTGAAATTAATTTCTTGGATATTAAGAAATAAATAAAGTAGC
1 TGGTTTCATATATTTTGGTGATTGTGAAATTAATTTCTTGGATATCAAGAAATAAATAAAGTAGC
25838741 CAAATAAGAAATTGTAATTTGACTATAGTAAAAAGGGTATCCTTGATAGCATTCTT
66 CAAATAAGAAATTGTAATTTGACTATAGTAAAAAGGGTATCCTTGATAGCATTCTT
25838797 TGGTTTCATATATTTTGGTGATTGTGAAATTAATTTCTTGGATATCAAGAAATAAATAAAGTAGC
1 TGGTTTCATATATTTTGGTGATTGTGAAATTAATTTCTTGGATATCAAGAAATAAATAAAGTAGC
25838862 CAAATAAGAAATTGTAATTTGACTATAGTAAAAAGGGTATCCTTGATAGCATTCTT
66 CAAATAAGAAATTGTAATTTGACTATAGTAAAAAGGGTATCCTTGATAGCATTCTT
25838918 T
1 T
25838919 TGTGGAAGAA
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 121 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (121 bp):
TGGTTTCATATATTTTGGTGATTGTGAAATTAATTTCTTGGATATCAAGAAATAAATAAAGTAGC
CAAATAAGAAATTGTAATTTGACTATAGTAAAAAGGGTATCCTTGATAGCATTCTT
Found at i:25839817 original size:52 final size:52
Alignment explanation
Indices: 25839755--25839859 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
25839745 ATGCCATAGG
25839755 AGAGCTTTTTAAGCTGGTTTTTATATTTTTGCTTCATGTGAGTTCAATTCTT
1 AGAGCTTTTTAAGCTGGTTTTTATATTTTTGCTTCATGTGAGTTCAATTCTT
25839807 AGAGCTTTTTAAGCTGGTTTTTATATTTTTGCTTCATGTGAGTTCAATTCTT
1 AGAGCTTTTTAAGCTGGTTTTTATATTTTTGCTTCATGTGAGTTCAATTCTT
25839859 A
1 A
25839860 CTATTTTCTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.20, C:0.11, G:0.17, T:0.51
Consensus pattern (52 bp):
AGAGCTTTTTAAGCTGGTTTTTATATTTTTGCTTCATGTGAGTTCAATTCTT
Found at i:25840601 original size:47 final size:46
Alignment explanation
Indices: 25840532--25840772 Score: 164
Period size: 47 Copynumber: 5.3 Consensus size: 46
25840522 TTAATTAAAA
*
25840532 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * *
25840579 TATATGAATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
25840624 TA-AT-AATAATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
* *
25840670 TATATGAATTTATATAATTTAAAATAA-T-TAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * * *
25840715 TA-AT-AATGATATATAATTTCATATAATTCTTAATAATAAATGTTCT
1 TATATGAAT-TTATATAATTTAAAATAATT-ATAATAATAAATTTTCT
25840761 TATATGAATTTA
1 TATATGAATTTA
25840773 CTAAAATTAT
Statistics
Matches: 151, Mismatches: 22, Indels: 42
0.70 0.10 0.20
Matches are distributed among these distances:
43 6 0.04
44 48 0.32
45 15 0.10
46 13 0.09
47 59 0.39
48 10 0.07
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:25840641 original size:44 final size:43
Alignment explanation
Indices: 25840591--25840742 Score: 139
Period size: 44 Copynumber: 3.4 Consensus size: 43
25840581 TATGAATTTG
25840591 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
* * * *
25840635 TATAATTTCATAA-AATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-AT--TAAATATAAT-TTA-AT-AATATA
*
25840682 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
* *
25840726 TATAATTTCATATAATT
1 TATAATTTAAAATAATT
25840743 CTTAATAATA
Statistics
Matches: 86, Mismatches: 11, Indels: 22
0.72 0.09 0.18
Matches are distributed among these distances:
43 3 0.03
44 38 0.44
45 10 0.12
46 10 0.12
47 22 0.26
48 3 0.03
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.47
Consensus pattern (43 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAATATA
Found at i:25840662 original size:91 final size:91
Alignment explanation
Indices: 25840566--25840772 Score: 360
Period size: 91 Copynumber: 2.3 Consensus size: 91
25840556 TAATTATAAC
* *
25840566 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
25840631 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTAA
25840657 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* *
25840722 GATATATAATTTCATATAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
25840748 TAATAAATGTTCTTATATGAATTTA
1 TAATAAATTTTCTTATATGAATTTA
25840773 CTAAAATTAT
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 110 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:25845833 original size:21 final size:21
Alignment explanation
Indices: 25845795--25845937 Score: 117
Period size: 21 Copynumber: 6.9 Consensus size: 21
25845785 TTCTGTTAAG
* * *
25845795 CTCTTACGAGCTTATGTTTAA
1 CTCTTACGAGTTTTTGTTCAA
* *
25845816 CTCATACGAGTTTTTGTTCAG
1 CTCTTACGAGTTTTTGTTCAA
*
25845837 CTATTACGAGTTTTT-TTCAA
1 CTCTTACGAGTTTTTGTTCAA
* * *
25845857 CTCTTATGAGTTTCTGTTCAG
1 CTCTTACGAGTTTTTGTTCAA
* *
25845878 CTCTTACGAGCTTCTGTTCAA
1 CTCTTACGAGTTTTTGTTCAA
* * * * *
25845899 CCCTTATGTGTTTTTGTTTAG
1 CTCTTACGAGTTTTTGTTCAA
* *
25845920 CTCTTATGAGCTTTTGTT
1 CTCTTACGAGTTTTTGTT
25845938 TAGCTTTCAT
Statistics
Matches: 96, Mismatches: 25, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
20 16 0.17
21 80 0.83
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (21 bp):
CTCTTACGAGTTTTTGTTCAA
Found at i:25845845 original size:42 final size:41
Alignment explanation
Indices: 25845788--25845939 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 41
25845778 GTTTACTTTC
* * *
25845788 TGTTAAGCTCTTACGAGCTTATGTTTAACTCATACGAGTTTT
1 TGTTCAGCTCTTACGAGCTT-TGTTTAACTCTTATGAGTTTT
* * *
25845830 TGTTCAGCTATTACGAG-TTTTTTTCAACTCTTATGAGTTTC
1 TGTTCAGCTCTTACGAGCTTTGTTT-AACTCTTATGAGTTTT
* * *
25845871 TGTTCAGCTCTTACGAGCTTCTGTTCAACCCTTATGTGTTTT
1 TGTTCAGCTCTTACGAGCTT-TGTTTAACTCTTATGAGTTTT
* *
25845913 TGTTTAGCTCTTATGAGCTTTTGTTTA
1 TGTTCAGCTCTTACGAGC-TTTGTTTA
25845940 GCTTTCATGA
Statistics
Matches: 91, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 4 0.04
41 31 0.34
42 51 0.56
43 5 0.05
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.47
Consensus pattern (41 bp):
TGTTCAGCTCTTACGAGCTTTGTTTAACTCTTATGAGTTTT
Found at i:25845938 original size:21 final size:21
Alignment explanation
Indices: 25845783--25845942 Score: 110
Period size: 21 Copynumber: 7.6 Consensus size: 21
25845773 CTTGTGTTTA
*
25845783 CTTTCTGTTAAGCTCTTACGAG
1 CTTT-TGTTTAGCTCTTACGAG
* * *
25845805 CTTATGTTTAACTCATACGAG
1 CTTTTGTTTAGCTCTTACGAG
* * *
25845826 TTTTTGTTCAGCTATTACGAG
1 CTTTTGTTTAGCTCTTACGAG
* *
25845847 -TTTT-TTTCAACTCTTATGAG
1 CTTTTGTTT-AGCTCTTACGAG
*
25845867 -TTTCTGTTCAGCTCTTACGAG
1 CTTT-TGTTTAGCTCTTACGAG
* * * * * *
25845888 CTTCTGTTCAACCCTTATGTG
1 CTTTTGTTTAGCTCTTACGAG
* *
25845909 TTTTTGTTTAGCTCTTATGAG
1 CTTTTGTTTAGCTCTTACGAG
25845930 CTTTTGTTTAGCT
1 CTTTTGTTTAGCT
25845943 TTCATGAGCT
Statistics
Matches: 105, Mismatches: 29, Indels: 9
0.73 0.20 0.06
Matches are distributed among these distances:
19 2 0.02
20 16 0.15
21 80 0.76
22 7 0.07
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.47
Consensus pattern (21 bp):
CTTTTGTTTAGCTCTTACGAG
Found at i:25850093 original size:29 final size:29
Alignment explanation
Indices: 25850048--25850162 Score: 124
Period size: 29 Copynumber: 3.9 Consensus size: 29
25850038 AACAGTGAGC
*
25850048 TACACTAGCCTACCACACGATCGTGTGGCT
1 TACAC-AGCCTAGCACACGATCGTGTGGCT
* *
25850078 TACACAGCCTATCACACGATCGTGTGGAT
1 TACACAGCCTAGCACACGATCGTGTGGCT
* ** *
25850107 CACATGGCCTGGCACAC-AGTCGTGTGGCT
1 TACACAGCCTAGCACACGA-TCGTGTGGCT
* *
25850136 TACACAGCATGGCACACGATCGTGTGG
1 TACACAGCCTAGCACACGATCGTGTGG
25850163 TGTCAACAGT
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
28 1 0.01
29 64 0.90
30 6 0.08
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (29 bp):
TACACAGCCTAGCACACGATCGTGTGGCT
Found at i:25850171 original size:29 final size:28
Alignment explanation
Indices: 25850061--25850176 Score: 78
Period size: 29 Copynumber: 4.0 Consensus size: 28
25850051 ACTAGCCTAC
* **
25850061 CACACGATCGTGTGGCTT-ACACAGCCTAT
1 CACACGATCGTGTGG-TTCA-ACAGCATGG
* *
25850090 CACACGATCGTGTGGATC-ACATGGCCTGG
1 CACACGATCGTGTGGTTCAACA--GCATGG
25850119 CACAC-AGTCGTGTGGCTT-ACACAGCATGG
1 CACACGA-TCGTGTGG-TTCA-ACAGCATGG
25850148 CACACGATCGTGTGGTGTCAACAGTCATG
1 CACACGATCGTGTGGT-TCAACAG-CATG
25850177 ACTTTTGGCT
Statistics
Matches: 71, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
27 3 0.04
28 3 0.04
29 55 0.77
30 7 0.10
31 3 0.04
ACGTcount: A:0.23, C:0.28, G:0.27, T:0.22
Consensus pattern (28 bp):
CACACGATCGTGTGGTTCAACAGCATGG
Found at i:25851965 original size:3 final size:3
Alignment explanation
Indices: 25851957--25852025 Score: 120
Period size: 3 Copynumber: 23.0 Consensus size: 3
25851947 AACTAATTAG
25851957 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
25852005 GTT ATT GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT
25852026 GTAATAGTCA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:25852196 original size:26 final size:27
Alignment explanation
Indices: 25852139--25852188 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
25852129 CAATATCGTC
25852139 TATA-TTTTTAATGATTTTATTTTATAA
1 TATATTTTTTAA-GATTTTATTTTATAA
25852166 TATATTTTTTAA-ATTTT-TTTTAT
1 TATATTTTTTAAGATTTTATTTTAT
25852189 TTATATATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 6 0.27
26 5 0.23
27 4 0.18
28 7 0.32
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (27 bp):
TATATTTTTTAAGATTTTATTTTATAA
Found at i:25855304 original size:31 final size:29
Alignment explanation
Indices: 25855239--25855313 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 29
25855229 ATAACGTTTC
* *
25855239 AAATAAATAGAATATATATAAAAATTAGA
1 AAATAAATAGAATATATAGAAAAATTAAA
*
25855268 CAATAAATA-AATAATAATAGAAACAATTAAA
1 AAATAAATAGAAT-AT-ATAGAAA-AATTAAA
*
25855299 AAATAAATAGTATAT
1 AAATAAATAGAATAT
25855314 TTAAAATAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
28 3 0.08
29 10 0.27
30 6 0.16
31 16 0.43
32 2 0.05
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (29 bp):
AAATAAATAGAATATATAGAAAAATTAAA
Found at i:25858970 original size:25 final size:25
Alignment explanation
Indices: 25858926--25858976 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
25858916 ATATAATAGT
25858926 AAATAAATATAAAAGATACTT-TTA
1 AAATAAATATAAAAGATACTTGTTA
*
25858950 AAATAATTAATAAAA-ATTACTTGTTA
1 AAATAAAT-ATAAAAGA-TACTTGTTA
25858976 A
1 A
25858977 TTTTTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 8 0.35
25 11 0.48
26 4 0.17
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (25 bp):
AAATAAATATAAAAGATACTTGTTA
Found at i:25860049 original size:27 final size:28
Alignment explanation
Indices: 25860018--25860071 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
25860008 TTTTATTAAA
*
25860018 ATTTTAAA-TTTAAATAATTTAATATGT
1 ATTTTAAATTTTAAATAATATAATATGT
25860045 ATTTTAAATTTTTAAATAATATAATAT
1 ATTTTAAA-TTTTAAATAATATAATAT
25860072 ACTATTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 8 0.33
29 16 0.67
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (28 bp):
ATTTTAAATTTTAAATAATATAATATGT
Found at i:25863581 original size:21 final size:21
Alignment explanation
Indices: 25863557--25863608 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
25863547 TTAAAATTTT
*
25863557 AAATCCAAAACTTGAAATCC-A
1 AAATCCAAAACTCGAAA-CCGA
* *
25863578 AAATCTAATACTCGAAACCGA
1 AAATCCAAAACTCGAAACCGA
*
25863599 AAACCCAAAA
1 AAATCCAAAA
25863609 AATTTAATTA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.54, C:0.25, G:0.06, T:0.15
Consensus pattern (21 bp):
AAATCCAAAACTCGAAACCGA
Found at i:25865483 original size:7 final size:7
Alignment explanation
Indices: 25865471--25865497 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
25865461 ATATTCTCTT
25865471 TTATTTA
1 TTATTTA
25865478 TTATTTA
1 TTATTTA
25865485 TTATTTA
1 TTATTTA
25865492 TTATTT
1 TTATTT
25865498 TTAGTCAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTATTTA
Found at i:25865796 original size:13 final size:13
Alignment explanation
Indices: 25865775--25865806 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
25865765 CAACCCTGTT
*
25865775 TAAAAATTATTCC
1 TAAATATTATTCC
25865788 TAAATATTATTCC
1 TAAATATTATTCC
25865801 TAAATA
1 TAAATA
25865807 CAATACTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (13 bp):
TAAATATTATTCC
Found at i:25865974 original size:11 final size:11
Alignment explanation
Indices: 25865943--25865976 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
25865933 AAAAAAAACC
*
25865943 AAAATAATATA
1 AAAATAATATT
25865954 AAATATAATATT
1 AAA-ATAATATT
25865966 AAAATAATATT
1 AAAATAATATT
25865977 TTTTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATAATATT
Found at i:25870502 original size:14 final size:14
Alignment explanation
Indices: 25870485--25870516 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
25870475 GTATACTTTC
*
25870485 ATATATATATGTGT
1 ATATATATATCTGT
25870499 ATATATATATCTGT
1 ATATATATATCTGT
25870513 ATAT
1 ATAT
25870517 TATTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (14 bp):
ATATATATATCTGT
Found at i:25875428 original size:22 final size:22
Alignment explanation
Indices: 25875411--25875453 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
25875401 AAAAAAGATT
*
25875411 AAAAAA-TGAAAATTAAAAATG
1 AAAAAATTAAAAATTAAAAATG
25875432 AAAAAATTAAAAATTAAAAATG
1 AAAAAATTAAAAATTAAAAATG
25875454 GAGAGGCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (22 bp):
AAAAAATTAAAAATTAAAAATG
Found at i:25875437 original size:15 final size:15
Alignment explanation
Indices: 25875402--25875451 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
25875392 AAAAAATAGA
25875402 AAAAAGATTAAAAAATG
1 AAAAA-ATT-AAAAATG
25875419 --AAAATTAAAAATG
1 AAAAAATTAAAAATG
*
25875432 AAAAAATTAAAAATT
1 AAAAAATTAAAAATG
25875447 AAAAA
1 AAAAA
25875452 TGGAGAGGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 7 0.23
14 3 0.10
15 20 0.67
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (15 bp):
AAAAAATTAAAAATG
Found at i:25875443 original size:6 final size:7
Alignment explanation
Indices: 25875403--25875452 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
25875393 AAAAATAGAA
25875403 AAAAGATT
1 AAAA-ATT
*
25875411 AAAAAAT
1 AAAAATT
*
25875418 GAAAATT
1 AAAAATT
*
25875425 AAAAATGA
1 AAAAAT-T
25875433 AAAAATT
1 AAAAATT
25875440 AAAAATT
1 AAAAATT
25875447 AAAAAT
1 AAAAAT
25875453 GGAGAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
7 25 0.71
8 10 0.29
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (7 bp):
AAAAATT
Found at i:25876747 original size:43 final size:43
Alignment explanation
Indices: 25876657--25876877 Score: 111
Period size: 43 Copynumber: 5.1 Consensus size: 43
25876647 TTATGGATCT
** *
25876657 TATCTTCCCCAAGAGTAGGGAAACAGATCTAAGCGGTGAATCT
1 TATCTTCCCCAAGAGTAGGGAAACAGATCTAAGCACTGAATCC
* * * *
25876700 TATCTTTCCCAGGAGTAGGGAAACAGATTTAAGCCACT-AGTCC
1 TATCTTCCCCAAGAGTAGGGAAACAGATCTAAG-CACTGAATCC
* * * * *
25876743 TATC-TCCCTGGTC-AGCAGT-GGG--ATAGGT-TGAAG-ATTACAGATCT
1 TATCTTCCC----CAAG-AGTAGGGAAACAGATCT-AAGCACT-GA-ATCC
* *
25876787 TATCTTCCCCAAGAGTAGGGAAACAGATCTAAGCGGC-GAATCT
1 TATCTTCCCCAAGAGTAGGGAAACAGATCTAAGC-ACTGAATCC
* * * *
25876830 TATCTTCTCCAAAAGTAGGGAAACAGATTTAAGCCGCT-AATCC
1 TATCTTCCCCAAGAGTAGGGAAACAGATCTAAG-CACTGAATCC
25876873 TATCT
1 TATCT
25876878 CCCTGGTCAA
Statistics
Matches: 135, Mismatches: 23, Indels: 40
0.68 0.12 0.20
Matches are distributed among these distances:
41 6 0.04
42 9 0.07
43 90 0.67
44 17 0.13
45 9 0.07
46 4 0.03
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (43 bp):
TATCTTCCCCAAGAGTAGGGAAACAGATCTAAGCACTGAATCC
Found at i:25876874 original size:130 final size:129
Alignment explanation
Indices: 25876641--25877179 Score: 606
Period size: 130 Copynumber: 4.1 Consensus size: 129
25876631 AACAGATCAA
** *
25876641 TGAAGATTATGGATCTTATCTTCCCCAAGAGTAGGGAAACAGATCTAAGCGGTGAATCTTATCTT
1 TGAAGATTACAGATCTTATCTTCCCCAAGAGTAGGGAAACAGATCTAAGCGGCGAATCTTATCTT
** * *
25876706 TCCCAGGAGTAGGGAAACAGATTTAAGCCACTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGT
66 T-CCAAAAGTAGGGAAACAGATTTAAGCCACTAATCCTATCTCCCTGGTCAGCAGTGGAATAGGT
25876771 TGAAGATTACAGATCTTATCTTCCCCAAGAGTAGGGAAACAGATCTAAGCGGCGAATCTTATCTT
1 TGAAGATTACAGATCTTATCTTCCCCAAGAGTAGGGAAACAGATCTAAGCGGCGAATCTTATCTT
* *** *
25876836 CTCCAAAAGTAGGGAAACAGATTTAAGCCGCTAATCCTATCTCCCTGGTCAATGGTGGGATAGGT
66 -TCCAAAAGTAGGGAAACAGATTTAAGCCACTAATCCTATCTCCCTGGTCAGCAGTGGAATAGGT
* *
25876901 TGAAGATTACGGATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGAATCTTATCTT
1 TGAAGATTACAGATCTTATCTTCCCCAAGAGTAGGGAAACAGATCTAAGCGGCGAATCTTATCTT
* ** * *
25876966 CCCCAGGAGTAGGGAAATAGATTTAAGCCAC-AAGTCCTATTTCCCTGAG-CAGCAGTGGAATAG
66 -TCCAAAAGTAGGGAAACAGATTTAAGCCACTAA-TCCTATCTCCCTG-GTCAGCAGTGGAATAG
25877029 GT
128 GT
* * * * * **
25877031 TAGAA-ATTACAGGTCTTGTC-TCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGGAAAATCTTA
1 T-GAAGATTACAGATCTTATCTTCCCCAAG-AGTAG-GGAAACAGATCTAAG-CGGCGAATCTTA
* * * * * * *
25877093 TCTTTCCAAGATAGT-GGGAAGCAGATTTATGCCACCAAGCCTTATCTTCCTGGCCAGCAATGGA
62 TCTTTCCAA-A-AGTAGGGAAACAGATTTAAGCCACTAATCC-TATCTCCCTGGTCAGCAGTGGA
25877157 ATAGGT
124 ATAGGT
*
25877163 TGGAA-ATTACAAATCTT
1 T-GAAGATTACAGATCTT
25877180 GTCTCCTTAA
Statistics
Matches: 353, Mismatches: 44, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
129 8 0.02
130 262 0.74
131 41 0.12
132 42 0.12
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (129 bp):
TGAAGATTACAGATCTTATCTTCCCCAAGAGTAGGGAAACAGATCTAAGCGGCGAATCTTATCTT
TCCAAAAGTAGGGAAACAGATTTAAGCCACTAATCCTATCTCCCTGGTCAGCAGTGGAATAGGT
Found at i:25877273 original size:44 final size:44
Alignment explanation
Indices: 25877218--25877776 Score: 301
Period size: 44 Copynumber: 12.8 Consensus size: 44
25877208 GAAAAGGGAA
* *
25877218 AATCTTA-CTCCCTGAAGATGTAGTGGAGCAGATTGAAGTCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGAT
* * * * * * *
25877261 AATCCTATCTCCCTAAAATTGTAGTGGAGCGGATTAAAGT-AAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGAT
* * * *
25877304 AGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTG-AGT-GAGC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGA-T
* * * * *
25877348 AGGTTTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAGATAAC-A-
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-T--CGAT
* *
25877394 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGAT
* *
25877438 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAAC-AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT--CGAT
* * * *
25877483 -ATCTTATCTCTCTGAAGTTGC-----AGCATAGTGGA-TCGCAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCG-AT
* * * * *
25877521 AGGGTCTTATCTCCCTGAAGTTGTAGCGGAGCAGACTG-AGTAAGCA-
1 A--ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-CG-AT
* * * * *** *
25877567 GATCTTATCCCCCTAAAGTTGCAGTGGAGCAGACTG-AGAAAAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGAT
* ** * * **
25877610 AAGTCTTATCCCCCTGAAGTCACAGTGGGGCAGACTGAAGAAGCA-
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCG-AT
* *
25877655 AATCTTATCTCCCTGAGGGTGCAGTGGAGCAGATTGAAGTCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGAT
* **** ** * * *
25877699 AATCCTATCTCCCCCCGGTTGTGGTGGAGCGGATTAAAGT-AAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGAT
* *
25877742 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
25877777 CGCATCAAGT
Statistics
Matches: 396, Mismatches: 90, Indels: 59
0.73 0.17 0.11
Matches are distributed among these distances:
36 1 0.00
38 3 0.01
39 7 0.02
41 18 0.05
42 2 0.01
43 20 0.05
44 286 0.72
45 43 0.11
46 12 0.03
47 3 0.01
48 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGAT
Found at i:25877334 original size:88 final size:88
Alignment explanation
Indices: 25877219--25877776 Score: 438
Period size: 88 Copynumber: 6.4 Consensus size: 88
25877209 AAAAGGGAAA
* * * * *
25877219 ATCTTA-CTCCCTGAAGATGTAGTGGAGCAGATTGAAGTCGATAATCCTATCTCCCTAAAATTGT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGATAATCTTATCTCCCTGAAGTTGT
* *
25877283 AGTGGAGCGGATTAAAGTAATAG
66 AGTGGAGCAGATTAAAGTAACAG
* * * * * * *
25877306 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTG-AGT-GAGCAGGTTTTATCCCCCTGAAGTT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGA-TA-ATCTTATCTCCCTGAAGTT
* * ** *
25877369 GCAGTGGGGCAGATCGAAGATAACAA
64 GTAGTGGAGCAGATTAAAG-TAACAG
* *
25877395 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCGATAATCTTATCTCCCTGAAGTTGT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGATAATCTTATCTCCCTGAAGTTGT
*
25877460 AGTGGAGCAGATTAAAGTAACAT
66 AGTGGAGCAGATTAAAGTAACAG
* * * * *
25877483 ATCTTATCTCTCTGAAGTTGC-----AGCATAGTGGA-TCGCATAGGGTCTTATCTCCCTGAAGT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCG-ATA--ATCTTATCTCCCTGAAGT
* * *
25877542 TGTAGCGGAGCAGACT-GAGTAAGCAG
63 TGTAGTGGAGCAGATTAAAGTAA-CAG
* * * *** * * **
25877568 ATCTTATCCCCCTAAAGTTGCAGTGGAGCAGACTG-AGAAAACAAGTCTTATCCCCCTGAAGTCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGATAA-TCTTATCTCCCTGAAGTTG
* * * * *
25877632 CAGTGGGGCAGACTGAAG-AAGCAA
65 TAGTGGAGCAGATTAAAGTAA-CAG
* * * ****
25877656 ATCTTATCTCCCTGAGGGTGCAGTGGAGCAGATTGAAGTCGATAATCCTATCTCCCCCCGGTTGT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGATAATCTTATCTCCCTGAAGTTGT
* * *
25877721 GGTGGAGCGGATTAAAGTAATAG
66 AGTGGAGCAGATTAAAGTAACAG
* *
25877744 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
25877777 CGCATCAAGT
Statistics
Matches: 360, Mismatches: 91, Indels: 39
0.73 0.19 0.08
Matches are distributed among these distances:
82 2 0.01
83 11 0.03
84 5 0.01
85 51 0.14
86 2 0.01
87 9 0.03
88 190 0.53
89 78 0.22
90 10 0.03
91 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (88 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGATAATCTTATCTCCCTGAAGTTGT
AGTGGAGCAGATTAAAGTAACAG
Found at i:25877780 original size:261 final size:262
Alignment explanation
Indices: 25877307--25877781 Score: 675
Period size: 261 Copynumber: 1.8 Consensus size: 262
25877297 AAGTAATAGG
* * ** * * * **
25877307 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGTGAGCAGGTTTTATCCCCCTGAAGTTGCA
1 TCTTATCCCCCTAAAGTTGCAGCGGAGCAGACTGAGAAAACAAGTCTTATCCCCCTGAAGTCACA
*
25877372 GTGGGGCAGATCGAAGATAACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCGA
66 GTGGGGCAGATCGAAGATAACAAATCTTATCTCCCTGAAGGTACAGTGGAGCAGATTGAAGCCGA
* ** *
25877437 TAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAACATATCTTATCTCTCTGAAGTT
131 TAATCCTATCTCCCCCAAGTTGTAGTGGAGCAGATTAAAGTAACAGATCTTATCTCTCTGAAGTT
* **
25877502 GCAGCATAGTGGATCGCATAGGGTCTTATCTCCCTGAAGTTGTAGCGGAGCAGACTGAGTAAGCA
196 GCAGCAGAGCAGATCGCATAGGGTCTTATCTCCCTGAAGTTGTAGCGGAGCAGACTGAGTAAGCA
25877567 GA
261 GA
*
25877569 TCTTATCCCCCTAAAGTTGCAGTGGAGCAGACTGAGAAAACAAGTCTTATCCCCCTGAAGTCACA
1 TCTTATCCCCCTAAAGTTGCAGCGGAGCAGACTGAGAAAACAAGTCTTATCCCCCTGAAGTCACA
* * * *
25877634 GTGGGGCAGA-CTGAAGA-AGCAAATCTTATCTCCCTGAGGGTGCAGTGGAGCAGATTGAAGTCG
66 GTGGGGCAGATC-GAAGATAACAAATCTTATCTCCCTGAAGGTACAGTGGAGCAGATTGAAGCCG
** * * *
25877697 ATAATCCTATCTCCCCCCGGTTGTGGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGT
130 ATAATCCTATCTCCCCCAAGTTGTAGTGGAGCAGATTAAAGTAACAGATCTTATCTCTCTGAAGT
*
25877762 TGCAGTAGAGCAGATCGCAT
195 TGCAGCAGAGCAGATCGCAT
25877782 CAAGTCTTGC
Statistics
Matches: 184, Mismatches: 28, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
261 114 0.62
262 70 0.38
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (262 bp):
TCTTATCCCCCTAAAGTTGCAGCGGAGCAGACTGAGAAAACAAGTCTTATCCCCCTGAAGTCACA
GTGGGGCAGATCGAAGATAACAAATCTTATCTCCCTGAAGGTACAGTGGAGCAGATTGAAGCCGA
TAATCCTATCTCCCCCAAGTTGTAGTGGAGCAGATTAAAGTAACAGATCTTATCTCTCTGAAGTT
GCAGCAGAGCAGATCGCATAGGGTCTTATCTCCCTGAAGTTGTAGCGGAGCAGACTGAGTAAGCA
GA
Found at i:25880007 original size:14 final size:14
Alignment explanation
Indices: 25879990--25880021 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
25879980 GTATACTTTC
*
25879990 ATATATATATGTGT
1 ATATATATATCTGT
25880004 ATATATATATCTGT
1 ATATATATATCTGT
25880018 ATAT
1 ATAT
25880022 TATTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (14 bp):
ATATATATATCTGT
Found at i:25901072 original size:3 final size:3
Alignment explanation
Indices: 25901064--25901097 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
25901054 TGGAATCATA
25901064 TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
25901098 CTGCTGCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:25902542 original size:23 final size:23
Alignment explanation
Indices: 25902485--25902533 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
25902475 AAAATTTAGG
*
25902485 TTCAGTTGTTAACACCATTAAAA
1 TTCAATTGTTAACACCATTAAAA
25902508 TTCAATTGTTAACACCATTAAAA
1 TTCAATTGTTAACACCATTAAAA
25902531 TTC
1 TTC
25902534 TTCTGTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.37
Consensus pattern (23 bp):
TTCAATTGTTAACACCATTAAAA
Found at i:25903289 original size:22 final size:22
Alignment explanation
Indices: 25903264--25903355 Score: 103
Period size: 22 Copynumber: 4.2 Consensus size: 22
25903254 AAATTCAATA
* * *
25903264 TCAATTTCTTTCAAAAATTATC
1 TCAATTCCCTTCAAAAATTCTC
* *
25903286 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
25903308 TCAATTCCCTTCAAAATTTCTA
1 TCAATTCCCTTCAAAAATTCTC
* *
25903330 TCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
25903352 TCAA
1 TCAA
25903356 ACTCTCAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 61 1.00
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:25903321 original size:44 final size:44
Alignment explanation
Indices: 25903264--25903355 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
25903254 AAATTCAATA
* * * *
25903264 TCAATTTCTTTCAAAAATTATCTCAA-TTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTATATCAATTTCCTTCCAAAA-TTCTC
* *
25903308 TCAATTCCCTTCAAAATTTCTATCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTATATCAATTTCCTTCCAAAATTCTC
25903352 TCAA
1 TCAA
25903356 ACTCTCAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 30 0.73
45 11 0.27
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (44 bp):
TCAATTCCCTTCAAAAATTATATCAATTTCCTTCCAAAATTCTC
Found at i:25903371 original size:52 final size:51
Alignment explanation
Indices: 25903305--25903407 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
25903295 TTCAAAATTT
* * *
25903305 CTCTCAATTCCCTT-CAAAATTTCTATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA-TCCTATCAATTTCCTTCAAAAAATCTC-CAAA
*
25903357 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
25903408 TCCATATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.33, C:0.32, G:0.00, T:0.35
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
Found at i:25903396 original size:21 final size:22
Alignment explanation
Indices: 25903357--25903398 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
25903347 TTCTCTCAAA
25903357 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
25903379 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
25903399 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:25903497 original size:28 final size:29
Alignment explanation
Indices: 25903440--25903496 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
25903430 ATTAAATTTC
25903440 ATTTTTTTAAGAAAATTTTAAAATTTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTTT
25903469 ATTTTTTTAA-AATAATTTTAAAATTTTT
1 ATTTTTTTAAGAA-AATTTTAAAATTTTT
25903497 AATATTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (29 bp):
ATTTTTTTAAGAAAATTTTAAAATTTTTT
Found at i:25903504 original size:29 final size:29
Alignment explanation
Indices: 25903443--25903504 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
25903433 AAATTTCATT
* *
25903443 TTTTTAAGAAAATTTTAAAATTTTTTATT
1 TTTTTAAGAAAATTTTAAAATTTTTAATA
25903472 TTTTTAA-AATAATTTTAAAATTTTTAATA
1 TTTTTAAGAA-AATTTTAAAATTTTTAATA
25903501 TTTT
1 TTTT
25903505 CAATAATGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 2 0.07
29 28 0.93
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTTTAAGAAAATTTTAAAATTTTTAATA
Found at i:25903624 original size:14 final size:15
Alignment explanation
Indices: 25903595--25903628 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
25903585 AAATTTTAAA
25903595 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
25903610 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
25903624 TTTTA
1 TTTTA
25903629 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:25905017 original size:29 final size:27
Alignment explanation
Indices: 25904975--25906026 Score: 737
Period size: 29 Copynumber: 39.3 Consensus size: 27
25904965 TTCCAAAATN
25904975 TAATTAAATTAAAAACCCTAACCTTATTT
1 TAATTAAATTAAAAACCCTAACC-TA-TT
25905004 TAATTAAATTAAAAACCCTAACCTTATTT
1 TAATTAAATTAAAAACCCTAACC-TA-TT
*
25905033 TAATTAAATTAAAAACCCTAACC---C
1 TAATTAAATTAAAAACCCTAACCTATT
*
25905057 TACTT-AATTAAAAACCCT-A---ATT
1 TAATTAAATTAAAAACCCTAACCTATT
*
25905079 TAATTAAATTAAAAACCCTAAACCCTACT
1 TAATTAAATTAAAAACCCT-AA-CCTATT
* **
25905108 TAATTAAA--AACCCTAACCCTAACCTAACC
1 TAATTAAATTAA---AAACCCTAACCT-ATT
25905137 TAATTAAATTAAAAACCCTAACCTTATTT
1 TAATTAAATTAAAAACCCTAACC-TA-TT
*
25905166 TAATTAAATTAAAAACCCTAACC---C
1 TAATTAAATTAAAAACCCTAACCTATT
*
25905190 TACTT-AATTAAAAACCCT-A---ATT
1 TAATTAAATTAAAAACCCTAACCTATT
*
25905212 TAATTAAATTAAAAACCCTAAACCCTACT
1 TAATTAAATTAAAAACCCT-AA-CCTATT
*
25905241 TAATTAAA--AACCCTAACCCTAACCTAATT
1 TAATTAAATTAA---AAACCCTAACCT-ATT
**
25905270 TAATTAAATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCT-ATT
* *
25905298 TAATTTAATTTAAAACCCTAACCTTATT
1 TAATTAAATTAAAAACCCTAACC-TATT
* **
25905326 TTATTAAATTAAAAACCCTAACCTAACC
1 TAATTAAATTAAAAACCCTAACCT-ATT
25905354 TAATTAAATTAAAAACCCTAACCTTATTT
1 TAATTAAATTAAAAACCCTAACC-TA-TT
*
25905383 TAATTAAATTAAAAACCCTAACC---C
1 TAATTAAATTAAAAACCCTAACCTATT
*
25905407 TACTT-AATTAAAAACCCT-A---ATT
1 TAATTAAATTAAAAACCCTAACCTATT
*
25905429 TAATTAAATTAAAAACCCTAAACCCTACT
1 TAATTAAATTAAAAACCCT-AA-CCTATT
* **
25905458 TAATTAAA--AACCCTAACCCTAACCTAACC
1 TAATTAAATTAA---AAACCCTAACCT-ATT
25905487 TAATTAAATTAAAAACCCTAACCTTATTT
1 TAATTAAATTAAAAACCCTAACC-TA-TT
*
25905516 TAATTAAATTAAAAACCCTAACC---C
1 TAATTAAATTAAAAACCCTAACCTATT
*
25905540 TACTT-AATTAAAAACCCT-A---ATT
1 TAATTAAATTAAAAACCCTAACCTATT
*
25905562 TAATTAAATTAAAAACCCTAAACCCTACT
1 TAATTAAATTAAAAACCCT-AA-CCTATT
* **
25905591 TAATTAAA--AACCCTAACCCTAACCTAACC
1 TAATTAAATTAA---AAACCCTAACCT-ATT
25905620 TAATTAAATTAAAAACCCTAACCTTATTT
1 TAATTAAATTAAAAACCCTAACC-TA-TT
*
25905649 TAATTAAATTAAAAACCCTAACC---C
1 TAATTAAATTAAAAACCCTAACCTATT
*
25905673 TACTT-AATTAAAAACCCT-A---ATT
1 TAATTAAATTAAAAACCCTAACCTATT
*
25905695 TAATTAAATTAAAAACCCTAAACCCTACT
1 TAATTAAATTAAAAACCCT-AA-CCTATT
*
25905724 TAATTAAA--AACCCTAACCCTAACCTAATT
1 TAATTAAATTAA---AAACCCTAACCT-ATT
25905753 TAATTAAATTAAAAACCCTAACCTTATTT
1 TAATTAAATTAAAAACCCTAACC-TA-TT
*
25905782 TAATTAAATTAAAAACCCTAACC---C
1 TAATTAAATTAAAAACCCTAACCTATT
*
25905806 TACTT-AATTAAAAACCCT-A---ATT
1 TAATTAAATTAAAAACCCTAACCTATT
*
25905828 TAATTAAATTAAAAACCCTAAACCCTACT
1 TAATTAAATTAAAAACCCT-AA-CCTATT
*
25905857 TAATTAAA--AACCCTAACCCTAACCTAATT
1 TAATTAAATTAA---AAACCCTAACCT-ATT
25905886 TAATTAAATTAAAAACCCTAACCTTATTT
1 TAATTAAATTAAAAACCCTAACC-TA-TT
25905915 TAATTAAATTAAAAACCCTAACCTTATTT
1 TAATTAAATTAAAAACCCTAACC-TA-TT
*
25905944 TAATTAAATTAAAAACCCTAACC---C
1 TAATTAAATTAAAAACCCTAACCTATT
*
25905968 TACTT-AATTAAAAACCCT-A---ATT
1 TAATTAAATTAAAAACCCTAACCTATT
*
25905990 TAATTAAATTAAAAACCCTAAACCCTACT
1 TAATTAAATTAAAAACCCT-AA-CCTATT
25906019 TAATTAAA
1 TAATTAAA
25906027 AACCCTAGTT
Statistics
Matches: 837, Mismatches: 73, Indels: 226
0.74 0.06 0.20
Matches are distributed among these distances:
22 35 0.04
23 182 0.22
24 28 0.03
25 7 0.01
27 13 0.02
28 152 0.18
29 372 0.44
30 36 0.04
31 12 0.01
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.31
Consensus pattern (27 bp):
TAATTAAATTAAAAACCCTAACCTATT
Found at i:25905049 original size:23 final size:23
Alignment explanation
Indices: 25904994--25905095 Score: 71
Period size: 23 Copynumber: 4.2 Consensus size: 23
25904984 TAAAAACCCT
25904994 AACCTTATTTTAATTAAATTAAAAA
1 AACCTTATTTTAATTAAATT--AAA
25905019 CCCTAACCTTATTTTAATTAAATTAAA
1 ----AACCTTATTTTAATTAAATTAAA
* *** *
25905046 AACCCTAACCCTACTT-AATTAAA
1 AA-CCTTATTTTAATTAAATTAAA
* *
25905069 AACCCTAATTTAATTAAATTAAA
1 AACCTTATTTTAATTAAATTAAA
25905092 AACC
1 AACC
25905096 CTAAACCCTA
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
22 7 0.12
23 22 0.37
24 8 0.13
27 3 0.05
29 20 0.33
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (23 bp):
AACCTTATTTTAATTAAATTAAA
Found at i:25905074 original size:17 final size:18
Alignment explanation
Indices: 25905052--25905086 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25905042 TAAAAACCCT
25905052 AACCCT-ACTTAATTAAA
1 AACCCTAACTTAATTAAA
*
25905069 AACCCTAATTTAATTAAA
1 AACCCTAACTTAATTAAA
25905087 TTAAAAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (18 bp):
AACCCTAACTTAATTAAA
Found at i:25905116 original size:23 final size:23
Alignment explanation
Indices: 25905039--25905744 Score: 218
Period size: 23 Copynumber: 26.9 Consensus size: 23
25905029 ATTTTAATTA
25905039 AATTAAAAACCCTAACCCTACTT
1 AATTAAAAACCCTAACCCTACTT
** *
25905062 AATTAAAAACCCTAA-TTTAATT
1 AATTAAAAACCCTAACCCTACTT
25905084 AAATTAAAAACCCTAAACCCTACTT
1 -AATTAAAAACCCT-AACCCTACTT
25905109 AATTAAAAACCCTAACCCTAACCTAACCT
1 AATTAAAAACCCTAACCCT-A-CT----T
* *
25905138 AATTAAATTAAAAACCCTAACCTTATTTTAATT
1 AATT-AA----AAACCCTAACC-----CTACTT
25905171 AAATTAAAAACCCTAACCCTACTT
1 -AATTAAAAACCCTAACCCTACTT
** *
25905195 AATTAAAAACCCTAA-TTTAATT
1 AATTAAAAACCCTAACCCTACTT
25905217 AAATTAAAAACCCTAAACCCTACTT
1 -AATTAAAAACCCT-AACCCTACTT
*
25905242 AATTAAAAACCCTAACCCTAACCT
1 AATTAAAAACCCTAACCCT-ACTT
**** *
25905266 AATTTAATTAAATTAAAAACCCTAACCT
1 AA-TTAA--AAA-CCCTAACCCT-ACTT
* * **
25905294 AACCTAATTTAA-TTTAAAACCCTAACCTT
1 AA-TTAA--AAACCCT--AACCCT-A-CTT
*
25905323 ATTTTATTAAATTAAAAACCCTAACCTAACCTAATT
1 A----ATT-----AAAAACCCTAA-C---CCTACTT
* *
25905359 AAATTAAAAACCCTAACCTTATTTTAATT
1 -AATTAAAAACCCTAACC-----CTACTT
25905388 AAATTAAAAACCCTAACCCTACTT
1 -AATTAAAAACCCTAACCCTACTT
** *
25905412 AATTAAAAACCCTAA-TTTAATT
1 AATTAAAAACCCTAACCCTACTT
25905434 AAATTAAAAACCCTAAACCCTACTT
1 -AATTAAAAACCCT-AACCCTACTT
25905459 AATTAAAAACCCTAACCCTAACCTAACCT
1 AATTAAAAACCCTAACCCT-A-CT----T
* *
25905488 AATTAAATTAAAAACCCTAACCTTATTTTAATT
1 AATT-AA----AAACCCTAACC-----CTACTT
25905521 AAATTAAAAACCCTAACCCTACTT
1 -AATTAAAAACCCTAACCCTACTT
** *
25905545 AATTAAAAACCCTAA-TTTAATT
1 AATTAAAAACCCTAACCCTACTT
25905567 AAATTAAAAACCCTAAACCCTACTT
1 -AATTAAAAACCCT-AACCCTACTT
25905592 AATTAAAAACCCTAACCCTAACCTAACCT
1 AATTAAAAACCCTAACCCT-A-CT----T
* *
25905621 AATTAAATTAAAAACCCTAACCTTATTTTAATT
1 AATT-AA----AAACCCTAACC-----CTACTT
25905654 AAATTAAAAACCCTAACCCTACTT
1 -AATTAAAAACCCTAACCCTACTT
** *
25905678 AATTAAAAACCCTAA-TTTAATT
1 AATTAAAAACCCTAACCCTACTT
25905700 AAATTAAAAACCCTAAACCCTACTT
1 -AATTAAAAACCCT-AACCCTACTT
25905725 AATTAAAAACCCTAACCCTA
1 AATTAAAAACCCTAACCCTA
25905745 ACCTAATTTA
Statistics
Matches: 527, Mismatches: 62, Indels: 188
0.68 0.08 0.24
Matches are distributed among these distances:
22 20 0.04
23 171 0.32
24 100 0.19
25 30 0.06
27 4 0.01
28 39 0.07
29 74 0.14
30 6 0.01
32 1 0.00
33 13 0.02
34 47 0.09
35 3 0.01
36 3 0.01
37 7 0.01
38 6 0.01
39 3 0.01
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.30
Consensus pattern (23 bp):
AATTAAAAACCCTAACCCTACTT
Found at i:25905121 original size:47 final size:46
Alignment explanation
Indices: 25905031--25906033 Score: 323
Period size: 47 Copynumber: 19.0 Consensus size: 46
25905021 CTAACCTTAT
25905031 TTTAATTAAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAA
1 TTTAATTAAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAA
25905077 TTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAA
1 TTTAATTAAATTAAAAACCCT-AACCCTACTTAATTAAAAACCCTAA
* *
25905124 CCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAA
1 ---T----T----TAATTAAATTAAAAACCCTAACC-----CTACTT-AATTAAAAACCCTAA
** * ** *
25905187 CCCTACTT-AATTAAAAACCCTAA-TTTAATTAAATTAAAAACCCTAAA
1 -TTTAATTAAATTAAAAACCCTAACCCTACTT-AATTAAAAACCCT-AA
** *
25905234 CCCTACTT-AATTAAAAACCCTAACCCTAACCTAATTTAATTAAATTAAAAACCCTAA
1 -TTTAATTAAATTAAAAACCCTAACCCT-A-C--------TT-AATTAAAAACCCTAA
* * * * *
25905291 CCTAACCTAATTTAATTTAAAACCCTAACCTTATTTTATTAAATTAAAAACCCTAA
1 --T---TTAATTAAATTAAAAACCCTAACCCTA----CTT-AATTAAAAACCCTAA
* * *
25905347 CCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAA
1 --T---TTAATTAAATTAAAAACCCTAACC-----CTACTT-AATTAAAAACCCTAA
** * ** *
25905404 CCCTACTT-AATTAAAAACCCTAA-TTTAATTAAATTAAAAACCCTAAA
1 -TTTAATTAAATTAAAAACCCTAACCCTACTT-AATTAAAAACCCT-AA
** *
25905451 CCCTACTT-AATTAAAAACCCTAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTA
1 -TTTAATTAAATTAAAAACCCTAA--C---CCT-A-C---TT-AATTAAAAACCCT-A----A
25905513 TTTTAATTAAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAA
1 TT-TAATTAAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAA
25905560 TTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAA
1 TTTAATTAAATTAAAAACCCT-AACCCTACTTAATTAAAAACCCTAA
* *
25905607 CCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAA
1 ---T----T----TAATTAAATTAAAAACCCTAACC-----CTACTT-AATTAAAAACCCTAA
** * ** *
25905670 CCCTACTT-AATTAAAAACCCTAA-TTTAATTAAATTAAAAACCCTAAA
1 -TTTAATTAAATTAAAAACCCTAACCCTACTT-AATTAAAAACCCT-AA
** *
25905717 CCCTACTT-AATTAAAAACCCTAACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTTA
1 -TTTAATTAAATTAAAAACCCTAACCCT-A-C--------TT-AATTAAAAACCCT-A----A
25905779 TTTTAATTAAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAA
1 -TTTAATTAAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAA
25905826 TTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTAA
1 TTTAATTAAATTAAAAACCCT-AACCCTACTTAATT--AAA----AA--C---CCTAA
* *
25905884 TTTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCTTA
1 TTTAATTAAATTAAAAACCCTAACC-----CTACTT-AATTAAAAACCCT-A----A
25905941 TTTTAATTAAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAA
1 -TTTAATTAAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAA
25905988 TTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTA
1 TTTAATTAAATTAAAAACCCT-AACCCTACTTAATTAAAAACCCTA
25906034 GTTAAATTGT
Statistics
Matches: 793, Mismatches: 43, Indels: 241
0.74 0.04 0.22
Matches are distributed among these distances:
46 142 0.18
47 168 0.21
48 2 0.00
49 5 0.01
50 2 0.00
51 3 0.00
52 87 0.11
53 25 0.03
54 3 0.00
55 2 0.00
56 48 0.06
57 37 0.05
58 145 0.18
61 16 0.02
62 40 0.05
63 68 0.09
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.31
Consensus pattern (46 bp):
TTTAATTAAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAA
Found at i:25905207 original size:17 final size:18
Alignment explanation
Indices: 25905185--25905219 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25905175 TAAAAACCCT
25905185 AACCCT-ACTTAATTAAA
1 AACCCTAACTTAATTAAA
*
25905202 AACCCTAATTTAATTAAA
1 AACCCTAACTTAATTAAA
25905220 TTAAAAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (18 bp):
AACCCTAACTTAATTAAA
Found at i:25905370 original size:217 final size:213
Alignment explanation
Indices: 25905079--25906010 Score: 797
Period size: 217 Copynumber: 4.3 Consensus size: 213
25905069 AACCCTAATT
*
25905079 TAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTAACCTAATTAA
1 TAATTAAATTAAAAACCCT-AACCCTAATTAATT--AAA----AACCCTAACCTAACCTAATTAA
25905144 ATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTA
59 ATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTA
**
25905209 ATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTAATTTAAT
124 ATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTAACCTAAT
25905274 TAAATTAAAAACCCTAACC-TAACC
189 TAAATTAAAAACCCTAACCTTAACC
* * *
25905298 TAATTTAATTTAAAACCCTAACCTTATTTTATTAAATTAAAAACCCTAACCTAACCTAATTAAAT
1 TAATTAAATTAAAAACCCTAACCCTA----ATT-AATTAAAAACCCTAACCTAACCTAATTAAAT
25905363 TAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAAT
61 TAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAAT
25905428 TTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTAACCTAATTA
126 TTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTAACCTAATTA
***
25905493 AATTAAAAACCCTAACCTTATTT
191 AATTAAAAACCCTAACCTTAACC
* *
25905516 TAATTAAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAA--T---TTAATTAAATTAAAA
1 TAATTAAATTAAAAACCCTAACCCTAATTAATTAAAAACCCTAACCTAACCTAATTAAATTAAAA
* * * *
25905576 ACCCTAAACCCTA-CTTAATTAAA--AACCCTAACCCTAACCTAACCTAATTAAATTAAAAACCC
66 ACCCT-AACCTTATTTTAATTAAATTAA---AAACCCTAA-C---CCTACTT-AATTAAAAACCC
25905638 TAACCTTATTTTAATTAAATTAAAAACCCT-AACCCTACTTAATTAAAAACCCTAA---T----T
122 T-A----A-TTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCT
* *
25905695 ----TAATTAAATTAAAAACCCTAAACCCT-ACT
181 AACCTAATTAAATTAAAAACCCT-AACCTTAACC
* * ***
25905724 TAATTAAA--AACCCTAACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTTATTTTAATT
1 TAATTAAATTAA---AAACCCTAACC----CTAATT-AATTAAAAACCCTAACC-TAACCTAATT
* * ** *
25905787 AAATTAAAAACCCTAACC-----CTACTT-AATTAAAAACCCTAA-TTTAATTAAATTAAAAACC
57 AAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCCTACTT-AATTAAAAACC
** * * ****
25905845 CTAAACCCTACTT-AATTAAAAACCCT-AACCCTAACCTAATTTAATTAAATTAAAAACCCTAAC
121 CT-AA-TTTAATTAAATTAAAAACCCTAAACCCT-ACTTAA-TTAA--AAA-CCCTAACCCTAAC
*** ***
25905908 CTTATTTTAATTAAATTAAAAACCCTAACCTTATTT
179 C-TAACCTAATTAAATTAAAAACCCTAACCTTAACC
* *
25905944 TAATTAAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAA--T---TTAATTAAATTAAAA
1 TAATTAAATTAAAAACCCTAACCCTAATTAATTAAAAACCCTAACCTAACCTAATTAAATTAAAA
25906004 ACCCTAA
66 ACCCTAA
25906011 ACCCTACTTA
Statistics
Matches: 611, Mismatches: 44, Indels: 127
0.78 0.06 0.16
Matches are distributed among these distances:
203 19 0.03
204 10 0.02
205 4 0.01
206 4 0.01
207 3 0.00
208 101 0.17
209 29 0.05
210 1 0.00
211 3 0.00
212 1 0.00
213 33 0.05
214 47 0.08
215 9 0.01
216 4 0.01
217 170 0.28
218 31 0.05
219 62 0.10
220 69 0.11
221 3 0.00
222 4 0.01
223 4 0.01
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (213 bp):
TAATTAAATTAAAAACCCTAACCCTAATTAATTAAAAACCCTAACCTAACCTAATTAAATTAAAA
ACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCCTACTTAATTAAAAACCCTAATTTAAT
TAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTAACCTAATTAAATTA
AAAACCCTAACCTTAACC
Found at i:25905424 original size:17 final size:18
Alignment explanation
Indices: 25905402--25905436 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25905392 TAAAAACCCT
25905402 AACCCT-ACTTAATTAAA
1 AACCCTAACTTAATTAAA
*
25905419 AACCCTAATTTAATTAAA
1 AACCCTAACTTAATTAAA
25905437 TTAAAAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (18 bp):
AACCCTAACTTAATTAAA
Found at i:25905491 original size:133 final size:133
Alignment explanation
Indices: 25905339--25905951 Score: 1163
Period size: 133 Copynumber: 4.6 Consensus size: 133
25905329 TTAAATTAAA
25905339 AACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAA
1 AACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAA
25905404 CCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAAC
66 CCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAAC
25905469 CCT
131 CCT
25905472 AACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAA
1 AACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAA
25905537 CCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAAC
66 CCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAAC
25905602 CCT
131 CCT
25905605 AACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAA
1 AACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAA
25905670 CCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAAC
66 CCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAAC
25905735 CCT
131 CCT
**
25905738 AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAA
1 AACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAA
25905803 CCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAAC
66 CCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAAC
25905868 CCT
131 CCT
**
25905871 AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAA
1 AACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAA
* *
25905936 CCTTATTTTAATTAAA
66 CCCTA-CTTAATTAAA
25905952 TTAAAAACCC
Statistics
Matches: 475, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
133 466 0.98
134 9 0.02
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (133 bp):
AACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAA
CCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAAC
CCT
Found at i:25905557 original size:17 final size:18
Alignment explanation
Indices: 25905535--25905569 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25905525 TAAAAACCCT
25905535 AACCCT-ACTTAATTAAA
1 AACCCTAACTTAATTAAA
*
25905552 AACCCTAATTTAATTAAA
1 AACCCTAACTTAATTAAA
25905570 TTAAAAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (18 bp):
AACCCTAACTTAATTAAA
Found at i:25905626 original size:350 final size:345
Alignment explanation
Indices: 25905052--25905825 Score: 1161
Period size: 350 Copynumber: 2.2 Consensus size: 345
25905042 TAAAAACCCT
25905052 AACCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAA
1 AACCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAA
25905117 ACCCTAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAAC
66 ACCCTAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAAC
25905182 CCTAACCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTA
131 CCTAACCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTA
** * *
25905247 AAAACCCTAACCCTAACCTAATTTAATTAAATTAAAAACCCTAACC-TAACCTAATTTAATTTAA
196 AAAACCCTAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTAACCTAATTAAATTAAA
* *
25905311 AACCCTAACCTTATTTTATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAAC
261 AACCCTAACCCTA----ATTAAATTAAAAACCCTAACCT-A-TTAATTAAATTAAAAACCCTAAC
25905376 CTTATTTTAATTAAATTAAAAACCCT
320 CTTATTTTAATTAAATTAAAAACCCT
25905402 AACCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAA
1 AACCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAA
25905467 ACCCTAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAAC
66 ACCCTAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAAC
25905532 CCTAACCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTA
131 CCTAACCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTA
***
25905597 AAAACCCTAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAA
196 AAAACCCTAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTAACCTAATTAAATTAAA
* *
25905662 AACCCTAACCCTACTT-AATTAAAAACCCTAA--T-TTAATTAAATTAAAAACCCTAAACCCTA-
261 AACCCTAACCCTAATTAAATTAAAAACCCTAACCTATTAATTAAATTAAAAACCCT-AACCTTAT
* *
25905722 CTTAATTAAA--AACCCTAACCCT
325 TTTAATTAAATTAA---AAACCCT
* *
25905744 AACCTAATTTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCT-AACCCTA
1 AACC----CTACTT-AATTAAAAACCCT-A----A-TTTAATTAAATTAAAAACCCTAAACCCTA
25905808 CTTAATTAAAAACCCTAA
55 CTTAATTAAAAACCCTAA
25905826 TTTAATTAAA
Statistics
Matches: 393, Mismatches: 15, Indels: 30
0.90 0.03 0.07
Matches are distributed among these distances:
339 2 0.01
341 28 0.07
342 16 0.04
344 1 0.00
346 19 0.05
347 15 0.04
348 1 0.00
350 239 0.61
351 25 0.06
352 26 0.07
353 21 0.05
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.30
Consensus pattern (345 bp):
AACCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAA
ACCCTAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAAC
CCTAACCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTA
AAAACCCTAACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTTAACCTAATTAAATTAAA
AACCCTAACCCTAATTAAATTAAAAACCCTAACCTATTAATTAAATTAAAAACCCTAACCTTATT
TTAATTAAATTAAAAACCCT
Found at i:25905690 original size:17 final size:18
Alignment explanation
Indices: 25905668--25905702 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25905658 TAAAAACCCT
25905668 AACCCT-ACTTAATTAAA
1 AACCCTAACTTAATTAAA
*
25905685 AACCCTAATTTAATTAAA
1 AACCCTAACTTAATTAAA
25905703 TTAAAAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (18 bp):
AACCCTAACTTAATTAAA
Found at i:25905823 original size:17 final size:18
Alignment explanation
Indices: 25905801--25905835 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25905791 TAAAAACCCT
25905801 AACCCT-ACTTAATTAAA
1 AACCCTAACTTAATTAAA
*
25905818 AACCCTAATTTAATTAAA
1 AACCCTAACTTAATTAAA
25905836 TTAAAAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (18 bp):
AACCCTAACTTAATTAAA
Found at i:25905862 original size:162 final size:159
Alignment explanation
Indices: 25905647--25905951 Score: 147
Period size: 162 Copynumber: 1.9 Consensus size: 159
25905637 CTAACCTTAT
25905647 TTTAATTAAATTAAAAACCCT-AACCCTACTTAATT---AA-AAACCCTAA--T---TTAATTAA
1 TTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACAAACCCTAACCTAACTTAATTAA
* * * *
25905702 ATTAAAAACCCTAAACCCT-ACTTAATTAAA--AACCCTAACCCTAACC-TAATTTAATTAAATT
66 A-TAAAAACCCT-AACCTTAATTTAATTAAATTAA---AAACCCTAACCTTATTTTAATTAAATT
* *
25905763 AAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAA
126 AAAAACCCTAACC-----CTACTT-AATTAAAAACCCTAA
** *
25905803 CCCTACTT-AATTAAAAACCCT-AA---T--TTAATTAAATTAA-AAACCCTAAACCCT-ACTTA
1 -TTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAA--AACAAACCCT-AA-CCTAACTTA
*
25905859 ATTAAA-AACCCTAACCCTAACC-TAATTTAATTAAATTAAAAACCCTAACCTTATTTTAATTAA
61 ATTAAATAA---AAACCCTAACCTTAATTTAATTAAATTAAAAACCCTAACCTTATTTTAATTAA
* *
25905922 ATTAAAAACCCTAACCTTATTTTAATTAAA
123 ATTAAAAACCCTAACCCTA-CTTAATTAAA
25905952 TTAAAAACCC
Statistics
Matches: 121, Mismatches: 8, Indels: 38
0.72 0.05 0.23
Matches are distributed among these distances:
151 6 0.05
153 1 0.01
156 24 0.20
157 16 0.13
158 2 0.02
160 3 0.02
161 11 0.09
162 50 0.41
163 6 0.05
164 2 0.02
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (159 bp):
TTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACAAACCCTAACCTAACTTAATTAA
ATAAAAACCCTAACCTTAATTTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAA
CCCTAACCCTACTTAATTAAAAACCCTAA
Found at i:25905952 original size:162 final size:161
Alignment explanation
Indices: 25905738--25906033 Score: 574
Period size: 162 Copynumber: 1.8 Consensus size: 161
25905728 TAAAAACCCT
25905738 AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAA
1 AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAA
25905803 CCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAAC
66 CCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAAC
25905868 CCTAACCCTAACCTAATTTAATTAAATTAAA
131 CCTAACCCTAACCTAATTTAATTAAATTAAA
*
25905899 AACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTA
1 AACCCTAACC-TAATTTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTA
25905964 ACCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAA
65 ACCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAA
25906029 CCCTA
130 CCCTA
25906034 GTTAAATTGT
Statistics
Matches: 133, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
161 10 0.08
162 123 0.92
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (161 bp):
AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAA
CCCTACTTAATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAAC
CCTAACCCTAACCTAATTTAATTAAATTAAA
Found at i:25905985 original size:17 final size:18
Alignment explanation
Indices: 25905963--25905997 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25905953 TAAAAACCCT
25905963 AACCCT-ACTTAATTAAA
1 AACCCTAACTTAATTAAA
*
25905980 AACCCTAATTTAATTAAA
1 AACCCTAACTTAATTAAA
25905998 TTAAAAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (18 bp):
AACCCTAACTTAATTAAA
Found at i:25906022 original size:133 final size:129
Alignment explanation
Indices: 25905032--25906026 Score: 1024
Period size: 133 Copynumber: 7.5 Consensus size: 129
25905022 TAACCTTATT
25905032 TTAATTAAATTAAAAACCCT-AACCCTACTTAATTAAAAACCCTAA---T----TTAATTAAATT
1 TTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTTAATTAAATT
* * *
25905089 AAAAACCCTAAACCCTA-CTTAATTAAA--AACCCTAACCCTAACCTAACCTAATTAAATTAAAA
66 AAAAACCCT-AACCTTATTTTAATTAAATTAA---AAACCCTAA-C---CCTAATT-AATTAAAA
25905151 ACCCTAACC
122 ACCCTAA-C
25905160 TTATTTTAATTAAATTAAAAACCCT-AACCCTACTTAATTAAAAACCCTAA---T----TTAATT
1 -----TTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTTAATT
* * * *
25905217 AAATTAAAAACCCTAAACCCTA-CTTAATTAAA--AACCCTAACCCTAACCTAATTTAATTAAAT
61 AAATTAAAAACCCT-AACCTTATTTTAATTAAATTAA---AAACCCTAACC----CTAATT-AAT
25905279 TAAAAACCCTAACC
117 TAAAAACCCTAA-C
* * * *
25905293 TAACCTAATTTAATTTAAAACCCT-AACCTTATTTTATTAAATTAAAAACCCTAA-CCTAACC-T
1 T----TAATTAAATTAAAAACCCTAAACCCTA----CTT-AATTAAAAACCCTAACCCTAACCTT
*
25905355 AATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCCTACTTAATTAAAA
57 AATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCCTAATTAATTAAAA
*
25905420 ACCCTAAT
122 ACCCTAAC
25905428 TTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTAACCTAATTA
1 TTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCT----TAATTA
*
25905493 AATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCCTACTTAATTAAAAACCCT
62 AATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCCTAATTAATTAAAAACCCT
*
25905558 AAT
127 AAC
25905561 TTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTAACCTAATTA
1 TTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCT----TAATTA
*
25905626 AATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCCTACTTAATTAAAAACCCT
62 AATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCCTAATTAATTAAAAACCCT
*
25905691 AAT
127 AAC
25905694 TTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTA
1 TTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACC----TTAATTA
*
25905759 AATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCCTACTTAATTAAAAACCCT
62 AATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCCTAATTAATTAAAAACCCT
*
25905824 AAT
127 AAC
25905827 TTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTA
1 TTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACC----TTAATTA
*
25905892 AATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCTTATTTTAATTAAATTAAA
62 AATTAAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACC-----CTAATT-AATTAAA
25905957 AACCCTAACC
121 AACCCTAA-C
* * ** *
25905967 CTACTT-AATTAAAAACCCT-AA-TTTAATTAAATTAAAAACCCTAAACCCT-A-CTTAATTAAA
1 TTAATTAAATTAAAAACCCTAAACCCTACTT-AATTAAAAACCCT-AACCCTAACCTTAATTAAA
25906027 AACCCTAGTT
Statistics
Matches: 797, Mismatches: 23, Indels: 84
0.88 0.03 0.09
Matches are distributed among these distances:
127 15 0.02
128 10 0.01
129 1 0.00
131 17 0.02
132 30 0.04
133 576 0.72
135 1 0.00
136 17 0.02
137 25 0.03
138 20 0.03
139 35 0.04
140 4 0.01
141 16 0.02
142 28 0.04
144 2 0.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.31
Consensus pattern (129 bp):
TTAATTAAATTAAAAACCCTAAACCCTACTTAATTAAAAACCCTAACCCTAACCTTAATTAAATT
AAAAACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCCTAATTAATTAAAAACCCTAAC
Found at i:25909468 original size:22 final size:22
Alignment explanation
Indices: 25909438--25909479 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
25909428 ATTTGGAGAT
*
25909438 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
25909460 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
25909480 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:25909506 original size:22 final size:23
Alignment explanation
Indices: 25909481--25909572 Score: 104
Period size: 22 Copynumber: 4.2 Consensus size: 23
25909471 ATTTGAGAGT
25909481 TTGAGAG-AATTTTGGAAGGAAA
1 TTGAGAGAAATTTTGGAAGGAAA
*
25909503 TTGATG-GAAATTTT-GAAGGGAA
1 TTGA-GAGAAATTTTGGAAGGAAA
*
25909525 TTGAGAGAAATTTTGAAAGG-AA
1 TTGAGAGAAATTTTGGAAGGAAA
* *
25909547 TTGAGAG-AATTTTTGAAAGAAA
1 TTGAGAGAAATTTTGGAAGGAAA
25909569 TTGA
1 TTGA
25909573 TATTGAATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
21 10 0.17
22 39 0.65
23 11 0.18
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.30
Consensus pattern (23 bp):
TTGAGAGAAATTTTGGAAGGAAA
Found at i:25909521 original size:52 final size:51
Alignment explanation
Indices: 25909429--25909531 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 51
25909419 TTAATATGGA
* * *
25909429 TTTGGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGGAA-TTGAGAG
25909480 TTTGAGAGAATTTTGGAAGGAAATTGATG-GAAATTTT-GAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGA-GAG-AATTTTGGAAGGGAATTGAGAG
25909532 AAATTTTGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
51 4 0.09
52 31 0.69
53 10 0.22
ACGTcount: A:0.34, C:0.00, G:0.33, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGGAATTGAGAG
Found at i:25909529 original size:44 final size:44
Alignment explanation
Indices: 25909481--25909572 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
25909471 ATTTGAGAGT
* * *
25909481 TTGAGAG-AATTTTGGAAGGAAATTGATG-GAAATTTTGAAGGGAA
1 TTGAGAGAAATTTTGAAAGG-AATTGA-GAGAAATTTTGAAAGAAA
*
25909525 TTGAGAGAAATTTTGAAAGGAATTGAGAGAATTTTTGAAAGAAA
1 TTGAGAGAAATTTTGAAAGGAATTGAGAGAAATTTTGAAAGAAA
25909569 TTGA
1 TTGA
25909573 TATTGAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 30 0.71
45 11 0.26
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.30
Consensus pattern (44 bp):
TTGAGAGAAATTTTGAAAGGAATTGAGAGAAATTTTGAAAGAAA
Found at i:25910263 original size:15 final size:15
Alignment explanation
Indices: 25910243--25910271 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25910233 AAAGTTAATT
25910243 TTAAATTAAATTTTA
1 TTAAATTAAATTTTA
25910258 TTAAATTAAATTTT
1 TTAAATTAAATTTT
25910272 TAACTATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTAAATTAAATTTTA
Found at i:25914838 original size:19 final size:19
Alignment explanation
Indices: 25914814--25914905 Score: 166
Period size: 19 Copynumber: 4.8 Consensus size: 19
25914804 AATCATATCT
25914814 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
25914833 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
25914852 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
25914871 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
25914890 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
25914906 CTTGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 69 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:25914863 original size:38 final size:38
Alignment explanation
Indices: 25914791--25914905 Score: 185
Period size: 38 Copynumber: 2.9 Consensus size: 38
25914781 AAATTAAATC
*
25914791 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATCATA
25914833 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
25914871 TCTAAGATTACATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
25914906 CTTGAAGATT
Statistics
Matches: 72, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
38 54 0.75
41 7 0.10
42 11 0.15
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:25915510 original size:44 final size:45
Alignment explanation
Indices: 25915462--25915962 Score: 254
Period size: 44 Copynumber: 11.6 Consensus size: 45
25915452 TTTAGTTGCC
* * **
25915462 CCACTGCAATTTCAGGG-GATAAGACTTGATTTCTTGAGTCTGGT
1 CCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTACT
* *
25915506 CCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTACT
1 CCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTACT
* * *
25915551 CCACTGCAACTTCAGGGAGATAAGACCCGA-TGC--GA-TCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTACT
* * * * *
25915592 -CTCTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TT-AATCCACT
1 CCACTGCAACTTCAGGGAGATAAGA-CT-CGATTTCTTGAGTCTACT
* * * * * *
25915635 CCACTGCAACTTCAGGGAGATAAGA-T-TATTGGCTTTAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTCGATT-TCTTGAGTCTACT
* ** * *
25915679 CCACTGCAACTTCAGGGAGATAAGATTC-ACCATCTTCAGTCTTC-
1 CCACTGCAACTTCAGGGAGATAAGACTCGA-TTTCTTGAGTCTACT
* * * * * *
25915723 CTCACTACAACTTTA-GGAGGATAAGGCTTGCTTACTT-AGTCTACT
1 C-CACTGCAACTTCAGGGA-GATAAGACTCGATTTCTTGAGTCTACT
* * *
25915768 CCACTGCAACTTCAGGGAGATAAGACTAGA-TGC--GA-TCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTACT
* * * * * *
25915809 -CTCTGCAACTTCAGAGAGATAAGATATGTGA-TT-TT-AATCCACT
1 CCACTGCAACTTCAGGGAGATAAGA-CT-CGATTTCTTGAGTCTACT
* * *
25915852 CCACTGCAACTTCAGGGAGATAAGACTAGA-TGC--GA-TCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTACT
* * * * * *
25915893 -CTCTGCAACTTCAGAGAGATAAGATATGTGA-TT-TT-AATCCACT
1 CCACTGCAACTTCAGGGAGATAAGA-CT-CGATTTCTTGAGTCTACT
25915936 CCACTGCAACTTCAGGGAGATAAGACT
1 CCACTGCAACTTCAGGGAGATAAGACT
25915963 AGATGCGATC
Statistics
Matches: 350, Mismatches: 73, Indels: 69
0.71 0.15 0.14
Matches are distributed among these distances:
40 67 0.19
41 18 0.05
42 19 0.05
43 18 0.05
44 144 0.41
45 84 0.24
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTACT
Found at i:25915828 original size:40 final size:40
Alignment explanation
Indices: 25915771--25916000 Score: 221
Period size: 40 Copynumber: 5.5 Consensus size: 40
25915761 GTCTACTCCA
*
25915771 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
1 CTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCT
*** ** *
25915811 CTGCAACTTCAGAGAGATAAGA-TATGTGATTTTAATCCACTCCA
1 CTGCAACTTCAGAGAGATAAGACTA---GA-TGCGATCTGCT-CT
*
25915855 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
1 CTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCT
*** ** *
25915895 CTGCAACTTCAGAGAGATAAGA-TATGTGATTTTAATCCACTCCA
1 CTGCAACTTCAGAGAGATAAGACTA---GA-TGCGATCTGCT-CT
*
25915939 CTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT
1 CTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCT
25915979 CTGCAACTTCAGAGAGATAAGA
1 CTGCAACTTCAGAGAGATAAGA
25916001 TATGTGATTT
Statistics
Matches: 149, Mismatches: 29, Indels: 24
0.74 0.14 0.12
Matches are distributed among these distances:
39 4 0.03
40 65 0.44
41 12 0.08
42 8 0.05
43 12 0.08
44 44 0.30
45 4 0.03
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (40 bp):
CTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCT
Found at i:25915863 original size:84 final size:84
Alignment explanation
Indices: 25915765--25916041 Score: 545
Period size: 84 Copynumber: 3.3 Consensus size: 84
25915755 TACTTAGTCT
25915765 ACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
1 ACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
25915830 AGATATGTGATTTTAATCC
66 AGATATGTGATTTTAATCC
25915849 ACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
1 ACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
25915914 AGATATGTGATTTTAATCC
66 AGATATGTGATTTTAATCC
25915933 ACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
1 ACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
25915998 AGATATGTGATTTTAATCC
66 AGATATGTGATTTTAATCC
*
25916017 ACTCCACTGCAACTTTAGGGAGATA
1 ACTCCACTGCAACTTCAGGGAGATA
25916042 TGATTATTGG
Statistics
Matches: 192, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 192 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (84 bp):
ACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
AGATATGTGATTTTAATCC
Found at i:25916029 original size:44 final size:44
Alignment explanation
Indices: 25915594--25916041 Score: 274
Period size: 44 Copynumber: 10.4 Consensus size: 44
25915584 GATCTGCTCT
* *
25915594 CTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCA
1 CTGCAACTTCAGGGAGATAAGATATGTGATTTTAATCCACTCCA
** ***
25915638 CTGCAACTTCAGGGAGATAAGATTAT-TGGCTTTAATTTGCTCCA
1 CTGCAACTTCAGGGAGATAAGA-TATGTGATTTTAATCCACTCCA
*** * *
25915682 CTGCAACTTCAGGGAGATAAGAT-TCACCATCTTCAGTCTTC-CT-CA
1 CTGCAACTTCAGGGAGATAAGATAT-GTGAT-TTTAATC--CACTCCA
* * * * * * *
25915727 CTACAACTTTA-GGAGGATAAGGCT-TGCTTA-CTTAGTCTACTCCA
1 CTGCAACTTCAGGGA-GATAA-GATATG-TGATTTTAATCCACTCCA
*** ** *
25915771 CTGCAACTTCAGGGAGATAAGACTA---GA-TGCGATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGA-TATGTGATTTTAATCCACTCCA
*
25915811 CTGCAACTTCAGAGAGATAAGATATGTGATTTTAATCCACTCCA
1 CTGCAACTTCAGGGAGATAAGATATGTGATTTTAATCCACTCCA
*** ** *
25915855 CTGCAACTTCAGGGAGATAAGACTA---GA-TGCGATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGA-TATGTGATTTTAATCCACTCCA
*
25915895 CTGCAACTTCAGAGAGATAAGATATGTGATTTTAATCCACTCCA
1 CTGCAACTTCAGGGAGATAAGATATGTGATTTTAATCCACTCCA
*** ** *
25915939 CTGCAACTTCAGGGAGATAAGACTA---GA-TGCGATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGA-TATGTGATTTTAATCCACTCCA
*
25915979 CTGCAACTTCAGAGAGATAAGATATGTGATTTTAATCCACTCCA
1 CTGCAACTTCAGGGAGATAAGATATGTGATTTTAATCCACTCCA
*
25916023 CTGCAACTTTAGGGAGATA
1 CTGCAACTTCAGGGAGATA
25916042 TGATTATTGG
Statistics
Matches: 301, Mismatches: 72, Indels: 62
0.69 0.17 0.14
Matches are distributed among these distances:
39 6 0.02
40 66 0.22
41 18 0.06
42 11 0.04
43 22 0.07
44 143 0.48
45 29 0.10
46 6 0.02
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATATGTGATTTTAATCCACTCCA
Found at i:25916339 original size:88 final size:88
Alignment explanation
Indices: 25916175--25916899 Score: 982
Period size: 88 Copynumber: 8.2 Consensus size: 88
25916165 AGGGAGATAG
* * * * * * *
25916175 GGCTGGGGTCATCGATCTGCCTCGCTGTCGGTGTAGGAAGACAAGATCTGTTATTTTTAAACTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
** *
25916240 TTTACTACAACCCAGAGAGGCAA
66 TCCACTACAACCCAGGGAGGCAA
* *
25916263 GACTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
25916328 TCCGCTGCAACCCAGGGAGGCAA
66 TCCACTACAACCCAGGGAGGCAA
* * * * *
25916351 GGCTGGTGTCTTCGATCTGCTTCACTATCGGTGCAAGAAAGTAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
25916416 TCCACTACAACCCAAGGAGGCAA
66 TCCACTACAACCCAGGGAGGCAA
* * * * *
25916439 GGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAATATCTGTTATTTTTAACTTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
25916504 TCCGCTACAACCCAGTGAGGCAA
66 TCCACTACAACCCAGGGAGGCAA
* * *
25916527 GGCTGGTGTCTTCGATATGCTTCGCTGTCGGTGCAGGAAGGCAATATCTGCAATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
25916592 TCCGCTACAACCTAGGGAGGCAG
66 TCCACTACAACCCAGGGAGGCAA
* *
25916615 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTACTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
25916680 TCCACTGCAACTCAGGGAGGCAG
66 TCCACTACAACCCAGGGAGGCAA
* * * * *
25916703 GGCTAGTGTCCTCGATCTGCTTCGCTGCCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACTTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
25916768 TCCGCTGCAACCCAGGGAGGCAA
66 TCCACTACAACCCAGGGAGGCAA
* * * * *
25916791 GGCTGGTGTCCTCGATCTGCTTCGCTATCGGTGCAAGAAAGTAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
25916856 TCCACTACAACCCAAGGAGGCAA
66 TCCACTACAACCCAGGGAGGCAA
*
25916879 GGTTGGTGTCTTCGATCTGCT
1 GGCTGGTGTCTTCGATCTGCT
25916900 CTTCACTGAT
Statistics
Matches: 559, Mismatches: 78, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 559 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCACTACAACCCAGGGAGGCAA
Done.