Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 58 of 132
Found at i:16152353 original size:32 final size:32
Alignment explanation
Indices: 16152312--16152382 Score: 142
Period size: 32 Copynumber: 2.2 Consensus size: 32
16152302 TCGTAGGTGA
16152312 CTTGTTTCCTGAATGTACATATTTGCCAGTTT
1 CTTGTTTCCTGAATGTACATATTTGCCAGTTT
16152344 CTTGTTTCCTGAATGTACATATTTGCCAGTTT
1 CTTGTTTCCTGAATGTACATATTTGCCAGTTT
16152376 CTTGTTT
1 CTTGTTT
16152383 TCAGAATCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.17, C:0.18, G:0.15, T:0.49
Consensus pattern (32 bp):
CTTGTTTCCTGAATGTACATATTTGCCAGTTT
Found at i:16152736 original size:18 final size:18
Alignment explanation
Indices: 16152715--16152757 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
16152705 GTTCAAAGTA
16152715 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
16152733 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
16152751 TAATTAA
1 TAATTAA
16152758 AAACATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:16157630 original size:12 final size:13
Alignment explanation
Indices: 16157613--16157645 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
16157603 TTTCTGGGTA
16157613 ATTTTTTTGGATC
1 ATTTTTTTGGATC
16157626 ATTTTTTTGGATC
1 ATTTTTTTGGATC
16157639 ATTTTTT
1 ATTTTTT
16157646 CTTTCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.15, C:0.06, G:0.12, T:0.67
Consensus pattern (13 bp):
ATTTTTTTGGATC
Found at i:16161370 original size:24 final size:24
Alignment explanation
Indices: 16161342--16161424 Score: 148
Period size: 24 Copynumber: 3.5 Consensus size: 24
16161332 GTTAAACCTG
16161342 TCTGGGCTCGTAAGAGCTAATCAT
1 TCTGGGCTCGTAAGAGCTAATCAT
*
16161366 TCTGGGCTCGTAAGAGGTAATCAT
1 TCTGGGCTCGTAAGAGCTAATCAT
*
16161390 TCTAGGCTCGTAAGAGCTAATCAT
1 TCTGGGCTCGTAAGAGCTAATCAT
16161414 TCTGGGCTCGT
1 TCTGGGCTCGT
16161425 GTTGGCTAAG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (24 bp):
TCTGGGCTCGTAAGAGCTAATCAT
Found at i:16170491 original size:18 final size:18
Alignment explanation
Indices: 16170468--16170511 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
16170458 AAGTTGATAG
*
16170468 TAATAGTGCAAGCTATGA
1 TAATAGTGCAAACTATGA
16170486 TAATAGTGCAAACTATGA
1 TAATAGTGCAAACTATGA
*
16170504 TGATAGTG
1 TAATAGTG
16170512 ATAGTGAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.30
Consensus pattern (18 bp):
TAATAGTGCAAACTATGA
Found at i:16172858 original size:19 final size:19
Alignment explanation
Indices: 16172806--16172858 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
16172796 GAAAATACCA
*
16172806 AAAT-AAATTATACTGAAAT
1 AAATAAAATAATA-TGAAAT
* *
16172825 -AATAAAAGAAAATGAAAT
1 AAATAAAATAATATGAAAT
16172843 AAATAAAATAATATGA
1 AAATAAAATAATATGA
16172859 GCTTCTCCGA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.25
Consensus pattern (19 bp):
AAATAAAATAATATGAAAT
Found at i:16174104 original size:25 final size:27
Alignment explanation
Indices: 16174046--16174104 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 27
16174036 GGTCAAAAGA
* *
16174046 ATTTGGGTCAAAGCTTGGGTTTTAAGG
1 ATTTGGGTCAAAGATTGGGCTTTAAGG
*
16174073 --TTAGGTCAAA-ATTGGGCTTT-AGG
1 ATTTGGGTCAAAGATTGGGCTTTAAGG
16174096 ATTTGGGTC
1 ATTTGGGTC
16174105 TCTCTCTTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
23 3 0.12
24 8 0.31
25 15 0.58
ACGTcount: A:0.22, C:0.08, G:0.32, T:0.37
Consensus pattern (27 bp):
ATTTGGGTCAAAGATTGGGCTTTAAGG
Found at i:16177369 original size:19 final size:18
Alignment explanation
Indices: 16177323--16177369 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
16177313 TTTACATGAA
*
16177323 AATAT-TGATAAATAAAG
1 AATATATGAAAAATAAAG
*
16177340 CATATAGTGAAAAATACAAG
1 AATATA-TGAAAAATA-AAG
16177360 AATATATGAA
1 AATATATGAA
16177370 CTTTGTAGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 4 0.17
19 12 0.50
20 8 0.33
ACGTcount: A:0.57, C:0.04, G:0.13, T:0.26
Consensus pattern (18 bp):
AATATATGAAAAATAAAG
Found at i:16181836 original size:15 final size:16
Alignment explanation
Indices: 16181816--16181848 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
16181806 ATTAACTAAT
16181816 TAATTAATTTTA-AAA
1 TAATTAATTTTACAAA
*
16181831 TAATTATTTTTACAAA
1 TAATTAATTTTACAAA
16181847 TA
1 TA
16181849 TTCAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATTAATTTTACAAA
Found at i:16185236 original size:6 final size:6
Alignment explanation
Indices: 16185227--16185305 Score: 79
Period size: 6 Copynumber: 13.3 Consensus size: 6
16185217 GATTTATGTC
** * **
16185227 TAAATT TAAATT T-ACCT TAAATT TAAATT TAAATT CATTTT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
***
16185274 TAAATT TTGTTT TAAATT TAAATT TAAATT TA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TA
16185306 GCTTAAATTT
Statistics
Matches: 56, Mismatches: 16, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
5 3 0.05
6 53 0.95
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (6 bp):
TAAATT
Found at i:16185320 original size:24 final size:23
Alignment explanation
Indices: 16185227--16185320 Score: 81
Period size: 24 Copynumber: 4.2 Consensus size: 23
16185217 GATTTATGTC
**
16185227 TAAATTTAAATTTACCTTAAATT
1 TAAATTTAAATTTAGATTAAATT
*
16185250 TAAATTTAAA-TT-CATT---TT
1 TAAATTTAAATTTAGATTAAATT
* *
16185268 TAAATTTAAATTTTGTTTTAAATT
1 TAAATTTAAATTTAG-ATTAAATT
*
16185292 TAAATTTAAATTTAGCTTAAATT
1 TAAATTTAAATTTAGATTAAATT
16185315 TGAAAT
1 T-AAAT
16185321 AATTTTAAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
18 12 0.20
19 2 0.03
21 5 0.08
22 2 0.03
23 18 0.31
24 20 0.34
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.51
Consensus pattern (23 bp):
TAAATTTAAATTTAGATTAAATT
Found at i:16187491 original size:29 final size:29
Alignment explanation
Indices: 16187394--16187655 Score: 237
Period size: 30 Copynumber: 8.9 Consensus size: 29
16187384 CCCTGGAGGT
* *
16187394 CCCTAAATTGTCCAAAAATTACATTTTGATC
1 CCCTAAACT-TCCAAAAATTACATTTTTA-C
* *
16187425 CCC-AAACTTCTCTAAAATTATATTTTTGAC
1 CCCTAAACTTC-CAAAAATTACATTTTT-AC
* *
16187455 CTCAAAACTTCCAAAAATTACATTTTTAC
1 CCCTAAACTTCCAAAAATTACATTTTTAC
* * *
16187484 CCCTAAACTTTCAAAAAATT-TATTTTTAA
1 CCCTAAAC-TTCCAAAAATTACATTTTTAC
* *
16187513 CCCTAAAACTTCAAAAAATTACATTTTTGC
1 CCCT-AAACTTCCAAAAATTACATTTTTAC
*
16187543 CCC-AAACTTCCAAAAATTCCATTTTTTAC
1 CCCTAAACTTCCAAAAATTACA-TTTTTAC
* * *
16187572 CTCGAAACTTTCAAAAATTACATTTTTAC
1 CCCTAAACTTCCAAAAATTACATTTTTAC
* *
16187601 CCCTAAACTTCCAAAAATTCCTTTTTTGA-
1 CCCTAAACTTCCAAAAATTACATTTTT-AC
*
16187630 TCCTAAAACTT-CAAAAATTATCATTT
1 CCCT-AAACTTCCAAAAATTA-CATTT
16187656 ACCCTCGGAT
Statistics
Matches: 191, Mismatches: 29, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
28 16 0.08
29 80 0.42
30 84 0.44
31 11 0.06
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.37
Consensus pattern (29 bp):
CCCTAAACTTCCAAAAATTACATTTTTAC
Found at i:16187537 original size:59 final size:57
Alignment explanation
Indices: 16187406--16187655 Score: 283
Period size: 59 Copynumber: 4.2 Consensus size: 57
16187396 CTAAATTGTC
* * *
16187406 CAAAAATTACATTTTGATCCCCAAACTTCTCTAAAATTATATTTTTGACCTCAAAACTT
1 CAAAAATTACATTTTTA-CCCCAAACTTC-CAAAAATTCTATTTTTGACCTCAAAACTT
* *
16187465 CCAAAAATTACATTTTTACCCCTAAACTTTCAAAAAATT-TATTTTTAACC-CTAAAACTT
1 -CAAAAATTACATTTTTACCCC-AAAC-TTCCAAAAATTCTATTTTTGACCTC-AAAACTT
* * * *
16187524 CAAAAAATTACATTTTTGCCCCAAACTTCCAAAAATTCCATTTTTTACCTCGAAACTTT
1 C-AAAAATTACATTTTTACCCCAAACTTCCAAAAATTCTATTTTTGACCTCAAAAC-TT
16187583 CAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTCCT-TTTTTGATCCT-AAAACTT
1 CAAAAATTACATTTTTACCCC-AAACTTCCAAAAATT-CTATTTTTGA-CCTCAAAACTT
16187641 CAAAAATTATCATTT
1 CAAAAATTA-CATTT
16187656 ACCCTCGGAT
Statistics
Matches: 166, Mismatches: 13, Indels: 23
0.82 0.06 0.11
Matches are distributed among these distances:
57 10 0.06
58 49 0.30
59 74 0.45
60 30 0.18
61 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (57 bp):
CAAAAATTACATTTTTACCCCAAACTTCCAAAAATTCTATTTTTGACCTCAAAACTT
Found at i:16187686 original size:117 final size:117
Alignment explanation
Indices: 16187407--16187686 Score: 315
Period size: 117 Copynumber: 2.4 Consensus size: 117
16187397 TAAATTGTCC
*
16187407 AAAAATTACATTTTGATCCCCAAACTTCTCTAAAATT--ATATTTTTGACCTCAAAACTTCCAAA
1 AAAAATTACATTTT-A-CCCCAAACTTC-CAAAAATTCCA-ATTTTTGACCTCAAAACTTCCAAA
16187470 AATTACATTTTTACCCCTAAACTTTCAAAAAATTTATTTTTAACCCTAAAACTTCA
62 AATTACATTTTTACCCCTAAACTTTCAAAAAATTTATTTTTAACCCTAAAACTTCA
* * * *
16187526 AAAAATTACATTTTTGCCCCAAACTTCCAAAAATTCC-ATTTTTTACCTCGAAACTTTCAAAAAT
1 AAAAATTACA-TTTTACCCCAAACTTCCAAAAATTCCAATTTTTGACCTCAAAACTTCCAAAAAT
* * *
16187590 TACATTTTTACCCCTAAAC-TTCCAAAAATTCCT-TTTTTGATCCTAAAACTTC-
65 TACATTTTTACCCCTAAACTTTCAAAAAATT--TATTTTTAACCCTAAAACTTCA
**
16187642 AAAAATTATCA-TTTACCCTCGGA-TGTCCAAAAATTACCAATTTTT
1 AAAAATTA-CATTTTACCC-CAAACT-TCCAAAAATT-CCAATTTTT
16187687 CTAAAAATTA
Statistics
Matches: 140, Mismatches: 11, Indels: 21
0.81 0.06 0.12
Matches are distributed among these distances:
115 7 0.05
116 30 0.21
117 71 0.51
118 18 0.13
119 10 0.07
120 4 0.03
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.37
Consensus pattern (117 bp):
AAAAATTACATTTTACCCCAAACTTCCAAAAATTCCAATTTTTGACCTCAAAACTTCCAAAAATT
ACATTTTTACCCCTAAACTTTCAAAAAATTTATTTTTAACCCTAAAACTTCA
Found at i:16193098 original size:6 final size:6
Alignment explanation
Indices: 16193098--16193145 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
16193088 GAAAAACAAA
* * *
16193098 AAAAAC AAAAAC AAAAAC AAAAAA AGAGAAAA AAAAAC AAAAAG AAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC A-A-AAAC AAAAAC AAAAAC AAAA
16193146 GGAGAGGACG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 30 0.81
7 2 0.05
8 5 0.14
ACGTcount: A:0.85, C:0.08, G:0.06, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:16193107 original size:20 final size:19
Alignment explanation
Indices: 16193079--16193140 Score: 79
Period size: 21 Copynumber: 3.1 Consensus size: 19
16193069 TTCAATGAAC
16193079 AAAAGAAAAGAAAAACAAAA
1 AAAAGAAAA-AAAAACAAAA
*
16193099 AAAACAAAAACAAAAACAAAA
1 AAAA-GAAAA-AAAAACAAAA
16193120 AAAGAGAAAAAAAAACAAAA
1 AAA-AGAAAAAAAAACAAAA
16193140 A
1 A
16193141 GAAAAGGAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 15 0.41
21 21 0.57
22 1 0.03
ACGTcount: A:0.85, C:0.08, G:0.06, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAAAAACAAAA
Found at i:16193113 original size:26 final size:26
Alignment explanation
Indices: 16193079--16193145 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 26
16193069 TTCAATGAAC
*
16193079 AAAAGAAAAGAAAAACAAA-A-AAAACA
1 AAAACAAAAGAAAAA-AAAGAGAAAA-A
16193105 AAAACAAAA-ACAAAAAAAGAGAAAAA
1 AAAACAAAAGA-AAAAAAAGAGAAAAA
16193131 AAAACAAAAAGAAAA
1 AAAAC-AAAAGAAAA
16193146 GGAGAGGACG
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
25 4 0.11
26 19 0.54
27 11 0.31
28 1 0.03
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (26 bp):
AAAACAAAAGAAAAAAAAGAGAAAAA
Found at i:16193114 original size:16 final size:16
Alignment explanation
Indices: 16193076--16193145 Score: 72
Period size: 16 Copynumber: 4.4 Consensus size: 16
16193066 GGATTCAATG
* *
16193076 AACAAAAGAAAAGAAA
1 AACAAAAAAAAACAAA
16193092 AAC-AAAAAAAACAAA
1 AACAAAAAAAAACAAA
16193107 AACAAAAACAAAA-AAA
1 AACAAAAA-AAAACAAA
* *
16193123 GAGAAAAAAAAACAAA
1 AACAAAAAAAAACAAA
*
16193139 AAGAAAA
1 AACAAAA
16193146 GGAGAGGACG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
15 17 0.37
16 25 0.54
17 4 0.09
ACGTcount: A:0.84, C:0.09, G:0.07, T:0.00
Consensus pattern (16 bp):
AACAAAAAAAAACAAA
Found at i:16194498 original size:49 final size:49
Alignment explanation
Indices: 16194361--16194762 Score: 400
Period size: 49 Copynumber: 8.2 Consensus size: 49
16194351 AGGTCTCAGC
* * * *
16194361 ACCACGAAAACACGATGGGAAAGATCTAAGACCGCAACCGTGGATCCAGT
1 ACCACGAAGACAC-AAGGGAAAGATCTAAGACCGCAACAGCGGATCCAGT
* * * * * *
16194411 ACCGCAAAGACACGATGGGAAAGATCTAAGACCACAACAGTGGATCCAAT
1 ACCACGAAGACAC-AAGGGAAAGATCTAAGACCGCAACAGCGGATCCAGT
* * * *
16194461 ACCGCAAAGACACAAGGGAAAGATCTAAGACCACAACAACGGATCCAGT
1 ACCACGAAGACACAAGGGAAAGATCTAAGACCGCAACAGCGGATCCAGT
** * ** * *
16194510 ACCGTGAAGACACAAGGGAAAGATCTAAG-CCGCGATGGCAGATCTAGT
1 ACCACGAAGACACAAGGGAAAGATCTAAGACCGCAACAGCGGATCCAGT
* * * *
16194558 ACCACGAAGACACCAGGAAAAGATCTAAG-CCGTAACGGCGGATCCAGT
1 ACCACGAAGACACAAGGGAAAGATCTAAGACCGCAACAGCGGATCCAGT
* * ** *
16194606 ACCACGAATATACGATA-GGAAAGATCTAAGACCGCAATGGTGGATCCAGT
1 ACCACGAAGACAC-A-AGGGAAAGATCTAAGACCGCAACAGCGGATCCAGT
* *
16194656 ACCACGAAGACACCAGGGAAAGATCTAAG-CCGCAACAGCAGATCCAGT
1 ACCACGAAGACACAAGGGAAAGATCTAAGACCGCAACAGCGGATCCAGT
* * * *
16194704 ACCACGAAGACATGAAGGGAAAGATCTAAG-CCGCGACGGCAGATCCAGT
1 ACCACGAAGACA-CAAGGGAAAGATCTAAGACCGCAACAGCGGATCCAGT
16194753 ACCACGAAGA
1 ACCACGAAGA
16194763 TTTGAAGGGA
Statistics
Matches: 301, Mismatches: 46, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
48 90 0.30
49 126 0.42
50 85 0.28
ACGTcount: A:0.39, C:0.25, G:0.24, T:0.11
Consensus pattern (49 bp):
ACCACGAAGACACAAGGGAAAGATCTAAGACCGCAACAGCGGATCCAGT
Found at i:16194651 original size:146 final size:147
Alignment explanation
Indices: 16194361--16194760 Score: 403
Period size: 146 Copynumber: 2.7 Consensus size: 147
16194351 AGGTCTCAGC
* * * ** * *
16194361 ACCACGAAAACACGATGGGAAAGATCTAAGACCGCAACCGTGGATCCAGTACCGCAAAGACA-CG
1 ACCACGAAGACAC-AAGGGAAAGATCTAAG-CCGCAACAGCAGATCCAGTACCACGAAGACATC-
* * * * ** * * * * *
16194425 ATGGGAAAGATCTAAGACCACAACAGTGGATCCAATACCGCAAAGACAC-A-AGGGAAAGATCTA
63 AAGGAAAAGATCTAAG-CCGCAACGGCAGATCCAGTACCACGAATATACGATA-GGAAAGATCTA
16194488 AGACCACAACAACGGATCCAGT
126 AGACCACAACAACGGATCCAGT
** * ** * *
16194510 ACCGTGAAGACACAAGGGAAAGATCTAAGCCGCGATGGCAGATCTAGTACCACGAAGACA-CCAG
1 ACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACAGCAGATCCAGTACCACGAAGACATCAAG
* *
16194574 GAAAAGATCTAAGCCGTAACGGCGGATCCAGTACCACGAATATACGATAGGAAAGATCTAAGACC
66 GAAAAGATCTAAGCCGCAACGGCAGATCCAGTACCACGAATATACGATAGGAAAGATCTAAGACC
* ****
16194639 GCAATGGTGGATCCAGT
131 ACAACAACGGATCCAGT
* *
16194656 ACCACGAAGACACCAGGGAAAGATCTAAGCCGCAACAGCAGATCCAGTACCACGAAGACATGAAG
1 ACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACAGCAGATCCAGTACCACGAAGACATCAAG
* *
16194721 GGAAAGATCTAAGCCGCGACGGCAGATCCAGTACCACGAA
66 GAAAAGATCTAAGCCGCAACGGCAGATCCAGTACCACGAA
16194761 GATTTGAAGG
Statistics
Matches: 206, Mismatches: 42, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
145 23 0.11
146 95 0.46
147 63 0.31
148 15 0.07
149 10 0.05
ACGTcount: A:0.39, C:0.25, G:0.24, T:0.12
Consensus pattern (147 bp):
ACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACAGCAGATCCAGTACCACGAAGACATCAAG
GAAAAGATCTAAGCCGCAACGGCAGATCCAGTACCACGAATATACGATAGGAAAGATCTAAGACC
ACAACAACGGATCCAGT
Found at i:16194678 original size:98 final size:98
Alignment explanation
Indices: 16194361--16194762 Score: 443
Period size: 98 Copynumber: 4.1 Consensus size: 98
16194351 AGGTCTCAGC
* * * * * *
16194361 ACCACGAAAACACGATGGGAAAGATCTAAGACCGCAACCGTGGATCCAGTACCGCAAAGACACGA
1 ACCACGAAGACACCA-GGGAAAGATCTAAGACCGCAACAGCGGATCCAGTACCACGAAGACACGA
* * * ** *
16194426 TGGGAAAGATCTAAGACCACAACAGTGGATCCAAT
65 AGGGAAAGATCTAAG-CCGCAACGGCAGATCCAGT
* * * * * **
16194461 ACCGCAAAGACACAAGGGAAAGATCTAAGACCACAACAACGGATCCAGTACCGTGAAGACAC-AA
1 ACCACGAAGACACCAGGGAAAGATCTAAGACCGCAACAGCGGATCCAGTACCACGAAGACACGAA
* * *
16194525 GGGAAAGATCTAAGCCGCGATGGCAGATCTAGT
66 GGGAAAGATCTAAGCCGCAACGGCAGATCCAGT
* * * * *
16194558 ACCACGAAGACACCAGGAAAAGATCTAAG-CCGTAACGGCGGATCCAGTACCACGAATATACGAT
1 ACCACGAAGACACCAGGGAAAGATCTAAGACCGCAACAGCGGATCCAGTACCACGAAGACACGA-
* **
16194622 A-GGAAAGATCTAAGACCGCAATGGTGGATCCAGT
65 AGGGAAAGATCTAAG-CCGCAACGGCAGATCCAGT
* *
16194656 ACCACGAAGACACCAGGGAAAGATCTAAG-CCGCAACAGCAGATCCAGTACCACGAAGACATGAA
1 ACCACGAAGACACCAGGGAAAGATCTAAGACCGCAACAGCGGATCCAGTACCACGAAGACACGAA
*
16194720 GGGAAAGATCTAAGCCGCGACGGCAGATCCAGT
66 GGGAAAGATCTAAGCCGCAACGGCAGATCCAGT
16194753 ACCACGAAGA
1 ACCACGAAGA
16194763 TTTGAAGGGA
Statistics
Matches: 252, Mismatches: 46, Indels: 11
0.82 0.15 0.04
Matches are distributed among these distances:
96 24 0.10
97 76 0.30
98 100 0.40
99 41 0.16
100 11 0.04
ACGTcount: A:0.39, C:0.25, G:0.24, T:0.11
Consensus pattern (98 bp):
ACCACGAAGACACCAGGGAAAGATCTAAGACCGCAACAGCGGATCCAGTACCACGAAGACACGAA
GGGAAAGATCTAAGCCGCAACGGCAGATCCAGT
Found at i:16194734 original size:195 final size:197
Alignment explanation
Indices: 16194361--16194762 Score: 540
Period size: 195 Copynumber: 2.1 Consensus size: 197
16194351 AGGTCTCAGC
* * * * *
16194361 ACCACGAAAACACGATGGGAAAGATCTAAGACCGCAACCGTGGATCCAGTACCGCAAAGACACGA
1 ACCACGAAGACACCATGGAAAAGATCTAAGACCGCAACCGCGGATCCAGTACCACAAAGACACGA
* *
16194426 TGGGAAAGATCTAAGACCACAACAGTGGATCCAATACCGCAAAGACACAAGGGAAAGATCTAAGA
66 TAGGAAAGATCTAAGACCACAACAGTGGATCCAATACCACAAAGACACAAGGGAAAGATCTAAGA
* ** * *
16194491 CCACAACAACGGATCCAGTACCGTGAAGACACAAGGGAAAGATCTAAGCCGCGATGGCAGATCTA
131 CCACAACAACAGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCCGCGACGGCAGATCCA
16194556 GT
196 GT
* * * * *
16194558 ACCACGAAGACACCA-GGAAAAGATCTAAG-CCGTAACGGCGGATCCAGTACCACGAATATACGA
1 ACCACGAAGACACCATGGAAAAGATCTAAGACCGCAACCGCGGATCCAGTACCACAAAGACACGA
* ** * * *
16194621 TAGGAAAGATCTAAGACCGCAATGGTGGATCCAGTACCACGAAGACACCAGGGAAAGATCTAAG-
66 TAGGAAAGATCTAAGACCACAACAGTGGATCCAATACCACAAAGACACAAGGGAAAGATCTAAGA
* * *
16194685 CCGCAACAGCAGATCCAGTACCACGAAGACATGAAGGGAAAGATCTAAGCCGCGACGGCAGATCC
131 CCACAACAACAGATCCAGTACCACGAAGACA-CAAGGGAAAGATCTAAGCCGCGACGGCAGATCC
16194750 AGT
195 AGT
16194753 ACCACGAAGA
1 ACCACGAAGA
16194763 TTTGAAGGGA
Statistics
Matches: 178, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
194 26 0.15
195 126 0.71
196 13 0.07
197 13 0.07
ACGTcount: A:0.39, C:0.25, G:0.24, T:0.11
Consensus pattern (197 bp):
ACCACGAAGACACCATGGAAAAGATCTAAGACCGCAACCGCGGATCCAGTACCACAAAGACACGA
TAGGAAAGATCTAAGACCACAACAGTGGATCCAATACCACAAAGACACAAGGGAAAGATCTAAGA
CCACAACAACAGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCCGCGACGGCAGATCCA
GT
Found at i:16195076 original size:103 final size:103
Alignment explanation
Indices: 16194897--16195189 Score: 426
Period size: 103 Copynumber: 2.8 Consensus size: 103
16194887 TGATAAGTCA
* * * * * * *
16194897 TTATCTCTCTGAAGTTGCAATAAAAGCAATATGAAGCTTCAGCGTTAACTCCTATCCTCTTGAAG
1 TTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAACGTCAAATCCTATCCTCTTGAAG
16194962 TTGCAGTAAAGTTGGATTAAAAACAAAT-AATCAGGTCT
66 TTGCAGTAAAGTTGGATTAAAAACAAATAAAT-AGGTCT
* * * *
16195000 TTATCTCTATGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAATGTCAATTACTATCCTCTTGAAG
1 TTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAACGTCAAATCCTATCCTCTTGAAG
16195065 TTGCAGTAAAGTTGGATTAAAAACAAATAAATAGGTCT
66 TTGCAGTAAAGTTGGATTAAAAACAAATAAATAGGTCT
* * *
16195103 TTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAACATCAAATCCTATCTTTTTGAAG
1 TTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAACGTCAAATCCTATCCTCTTGAAG
**
16195168 TTGCAGCGAAGTTGGATTAAAA
66 TTGCAGTAAAGTTGGATTAAAA
16195190 CTACAGCAGC
Statistics
Matches: 170, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
103 167 0.98
104 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (103 bp):
TTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAACGTCAAATCCTATCCTCTTGAAG
TTGCAGTAAAGTTGGATTAAAAACAAATAAATAGGTCT
Found at i:16195642 original size:194 final size:197
Alignment explanation
Indices: 16195295--16195731 Score: 576
Period size: 194 Copynumber: 2.2 Consensus size: 197
16195285 TAGTTATCCA
*
16195295 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCGACTCGAGGCTCAATGC
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATATAGAGAAGTATACCGA--C-A-GCTCAATGC
* * * * *** *
16195360 GAGCAAATCTTCGAACCTCAACTGCTTGATGAGATACTAAGAAGTGGGTCGAAGCAATAAAATGG
62 GAACAAATCTTCGAACCCCAACTGCCTGATAAGATACTAAGAAGCAAGTCGAAGAAATAAAATGG
* * * * * *
16195425 TTAGTTTCCTGTTGAGCTACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGGTACAGAGAAGC
127 TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAAGC
16195490 GGATTG
192 GGATTG
*
16195496 AAGCAAGTGAGGCGGTCATCTTCCTGATGAGATATAGAGAAGTATACC-A-A-CTCAATGCGAAC
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATATAGAGAAGTATACCGACAGCTCAATGCGAAC
** * * *
16195558 AAATCTTCGAACCCCGGCTTCCTGATAAGATACTGAGAAGCAAGTCGAAGAAATGAAATGGTTAG
66 AAATCTTCGAACCCCAACTGCCTGATAAGATACTAAGAAGCAAGTCGAAGAAATAAAATGGTTAG
*
16195623 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGGGAAGCGGAT
131 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAAGCGGAT
16195688 TG
196 TG
* * *
16195690 AAACAAGCGATGTGGTCATCTTCCTGATGAGATACT-GAGAAG
1 AAACAAGTGAGGCGGTCATCTTCCTGATGAGATA-TAGAGAAG
16195732 AAGACCAAAT
Statistics
Matches: 209, Mismatches: 26, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
194 160 0.77
195 1 0.00
196 1 0.00
200 1 0.00
201 46 0.22
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (197 bp):
AAACAAGTGAGGCGGTCATCTTCCTGATGAGATATAGAGAAGTATACCGACAGCTCAATGCGAAC
AAATCTTCGAACCCCAACTGCCTGATAAGATACTAAGAAGCAAGTCGAAGAAATAAAATGGTTAG
CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAAGCGGAT
TG
Found at i:16195914 original size:158 final size:158
Alignment explanation
Indices: 16195620--16195961 Score: 560
Period size: 158 Copynumber: 2.2 Consensus size: 158
16195610 ATGAAATGGT
* **
16195620 TAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGGGAAGCG
1 TAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCACCTTCCTGATGAGATACAAAGAAGCG
* * *
16195685 GATTGAAACAAGCGATGTGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCA
66 GATTGAAACAAGCGATGCGGTCATCTTCCTAATGAGATACTAAGAAGAAGACCAAATCAAACCCA
* *
16195750 CACTCGATGTGAGCAAATCTTCGAACTCC
131 CACTCGAGGTAAGCAAATCTTCGAAC-CC
*
16195779 -AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGCCTTCCTGATGAGATACAAAGAAGCG
1 TAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCACCTTCCTGATGAGATACAAAGAAGCG
* *
16195843 GGTTGAAACAAGTGATGCGGTCATCTTCCTAATGAGATACTAAGAAGAAGACCAAATCAAACCCA
66 GATTGAAACAAGCGATGCGGTCATCTTCCTAATGAGATACTAAGAAGAAGACCAAATCAAACCCA
*
16195908 CGCTCGAGGTAAGCAAATCTTCGAACCC
131 CACTCGAGGTAAGCAAATCTTCGAACCC
16195936 TAGCTTCCTGATGAGATACTGAGAAG
1 TAGCTTCCTGATGAGATACTGAGAAG
16195962 CAGGTCGAAG
Statistics
Matches: 170, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
157 2 0.01
158 168 0.99
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (158 bp):
TAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCACCTTCCTGATGAGATACAAAGAAGCG
GATTGAAACAAGCGATGCGGTCATCTTCCTAATGAGATACTAAGAAGAAGACCAAATCAAACCCA
CACTCGAGGTAAGCAAATCTTCGAACCC
Found at i:16198396 original size:29 final size:29
Alignment explanation
Indices: 16198289--16198698 Score: 271
Period size: 30 Copynumber: 13.9 Consensus size: 29
16198279 CCCTGGAGGT
* *
16198289 CCCTAAACTGTCCAAAAATTACATTTTGAC
1 CCCTAAACT-TTCAAAAATTACATTTTTAC
* *
16198319 CCCCAAACTTCTTC-AAAATTATATTTTTTGAC
1 CCCTAAAC-T-TTCAAAAATTACA-TTTTT-AC
* * *
16198351 CTCAAAACTTTCAAAATTTACATTTTTA-
1 CCCTAAACTTTCAAAAATTACATTTTTAC
*
16198379 CCCTAAACTTTCAAAAATTCCATTTTTGA-
1 CCCTAAACTTTCAAAAATTACATTTTT-AC
* *
16198408 CCCTAAAACTTTAAAAAATTACAATTTTA-
1 CCCT-AAACTTTCAAAAATTACATTTTTAC
* * *
16198437 CCCTAAACTTCCAAAAATTCCATTTTTAA
1 CCCTAAACTTTCAAAAATTACATTTTTAC
**
16198466 CATTGAAACTTTCAAAAATTACATTTTTTAC
1 CCCT-AAACTTTCAAAAATTACA-TTTTTAC
* * *
16198497 CCCTGAACTTCCAAAAATTATATTTTTAC
1 CCCTAAACTTTCAAAAATTACATTTTTAC
* * *
16198526 CCCCAAACTTCCAAAAATTCCATTTTTTAC
1 CCCTAAACTTTCAAAAATTACA-TTTTTAC
*
16198556 CCCGAAACTTT-AAAAATTAC-TATTTTAC
1 CCCTAAACTTTCAAAAATTACAT-TTTTAC
* * * *
16198584 CCCTGAA-TGTCCAAAAATTTCATTTTTAA
1 CCCTAAACT-TTCAAAAATTACATTTTTAC
* * ** **
16198613 TCCTGATTTTTCTAAAAATTACCGTTTTAC
1 CCCTAAACTTTC-AAAAATTACATTTTTAC
* * * * * *
16198643 CCCCAAA-TGTCTAAAATTTCA-TTCTAA
1 CCCTAAACTTTCAAAAATTACATTTTTAC
*
16198670 CCCTAAACTTTCCCAAAATTACCATTTTT
1 CCCTAAACTTT-CAAAAATTA-CATTTTT
16198699 CCTCAAGAGT
Statistics
Matches: 296, Mismatches: 64, Indels: 39
0.74 0.16 0.10
Matches are distributed among these distances:
27 12 0.04
28 64 0.22
29 76 0.26
30 110 0.37
31 26 0.09
32 8 0.03
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.38
Consensus pattern (29 bp):
CCCTAAACTTTCAAAAATTACATTTTTAC
Found at i:16198407 original size:58 final size:60
Alignment explanation
Indices: 16198301--16198573 Score: 258
Period size: 58 Copynumber: 4.6 Consensus size: 60
16198291 CTAAACTGTC
* * **
16198301 CAAAAATTACA-TTTTGACCCCCAAACTTCTTC-AAAATTATATTTTTTGACCTCAAAACTTT
1 CAAAAATTACATTTTTTACCCCTAAACTTC--CAAAAATTCCA-TTTTTGACCTCAAAACTTT
* *
16198362 CAAAATTTACA-TTTTTA-CCCTAAACTTTCAAAAATTCCATTTTTGACC-CTAAAACTTT
1 CAAAAATTACATTTTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCTC-AAAACTTT
* * * * **
16198420 AAAAAATTACA-ATTTTA-CCCTAAACTTCCAAAAATTCCATTTTTAACATTGAAACTTT
1 CAAAAATTACATTTTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCTCAAAACTTT
* ** * * *
16198478 CAAAAATTACATTTTTTACCCCTGAACTTCCAAAAATTATATTTTT-ACCCCCAAACTTC
1 CAAAAATTACATTTTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCTCAAAACTTT
* * *
16198537 CAAAAATTCCATTTTTTACCCCGAAACTT-TAAAAATT
1 CAAAAATTACATTTTTTACCCCTAAACTTCCAAAAATT
16198574 ACTATTTTAC
Statistics
Matches: 179, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
57 1 0.01
58 84 0.47
59 46 0.26
60 33 0.18
61 15 0.08
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (60 bp):
CAAAAATTACATTTTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCTCAAAACTTT
Found at i:16205227 original size:15 final size:14
Alignment explanation
Indices: 16205152--16205228 Score: 59
Period size: 15 Copynumber: 5.2 Consensus size: 14
16205142 ATATTATGAT
16205152 TTTTATTAATTCATA
1 TTTTATTAATT-ATA
*
16205167 TTTTAATAATTATTA
1 TTTTATTAATTA-TA
16205182 TTTTATTAATGT-TA
1 TTTTATTAAT-TATA
**
16205196 TTAAATT-ATATACTA
1 TTTTATTAAT-TA-TA
16205211 TTTTATTAAATTATA
1 TTTTATT-AATTATA
16205226 TTT
1 TTT
16205229 AATAATAATC
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
13 3 0.06
14 8 0.16
15 33 0.67
16 3 0.06
17 2 0.04
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (14 bp):
TTTTATTAATTATA
Found at i:16218480 original size:26 final size:26
Alignment explanation
Indices: 16218444--16218509 Score: 123
Period size: 26 Copynumber: 2.5 Consensus size: 26
16218434 CTCGACCCAT
16218444 AGCTCGTGTGAGCAGGCCCATTTCAC
1 AGCTCGTGTGAGCAGGCCCATTTCAC
16218470 AGCTCGTGTGAGCAGGCCCATTTCAC
1 AGCTCGTGTGAGCAGGCCCATTTCAC
*
16218496 AGCTCGTGTAAGCA
1 AGCTCGTGTGAGCA
16218510 TATATGATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.21, C:0.29, G:0.27, T:0.23
Consensus pattern (26 bp):
AGCTCGTGTGAGCAGGCCCATTTCAC
Found at i:16219779 original size:3 final size:3
Alignment explanation
Indices: 16219761--16219808 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
16219751 AACATTTTGC
*
16219761 ATA AT- ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16219808 A
1 A
16219809 GGGGATTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:16220899 original size:22 final size:23
Alignment explanation
Indices: 16220866--16220909 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
16220856 CTAAGAATGA
16220866 CAAAATCTAAAA-TACACAAATC
1 CAAAATCTAAAATTACACAAATC
*
16220888 CAAAAT-TAAAAATTACTCAAAT
1 CAAAATCT-AAAATTACACAAAT
16220910 GATTCAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 1 0.05
22 10 0.53
23 8 0.42
ACGTcount: A:0.59, C:0.18, G:0.00, T:0.23
Consensus pattern (23 bp):
CAAAATCTAAAATTACACAAATC
Found at i:16227536 original size:15 final size:16
Alignment explanation
Indices: 16227516--16227553 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
16227506 AGTCAATAAA
*
16227516 TATTTTTATTTTTA-T
1 TATTTTTATTTTGATT
*
16227531 TATTTTGATTTTGATT
1 TATTTTTATTTTGATT
16227547 TATTTTT
1 TATTTTT
16227554 TATAAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (16 bp):
TATTTTTATTTTGATT
Found at i:16227990 original size:34 final size:34
Alignment explanation
Indices: 16227947--16228022 Score: 120
Period size: 32 Copynumber: 2.3 Consensus size: 34
16227937 AGATCTATCC
**
16227947 ATATTATTTTTTAATTTTTAAAAATATTTATATT
1 ATATTATTTTTTAACATTTAAAAATATTTATATT
16227981 ATATTA--TTTTAACATTTAAAAATATTTATATT
1 ATATTATTTTTTAACATTTAAAAATATTTATATT
16228013 ATATTATTTT
1 ATATTATTTT
16228023 AATATTTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
32 30 0.79
34 8 0.21
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (34 bp):
ATATTATTTTTTAACATTTAAAAATATTTATATT
Found at i:16227999 original size:32 final size:32
Alignment explanation
Indices: 16227963--16228041 Score: 133
Period size: 32 Copynumber: 2.5 Consensus size: 32
16227953 TTTTTTAATT
16227963 TTTAAAAATATTTATATTATATTATTTTAACA
1 TTTAAAAATATTTATATTATATTATTTTAACA
*
16227995 TTTAAAAATATTTATATTATATTATTTTAATA
1 TTTAAAAATATTTATATTATATTATTTTAACA
*
16228027 TTTAATAAT-TTTATA
1 TTTAAAAATATTTATA
16228042 CATTTTTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
31 6 0.13
32 39 0.87
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (32 bp):
TTTAAAAATATTTATATTATATTATTTTAACA
Found at i:16235222 original size:13 final size:13
Alignment explanation
Indices: 16235190--16235222 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
16235180 AATTTGGACC
16235190 TTTAA-TTAAATT
1 TTTAATTTAAATT
16235202 TTTAAATTTAAATT
1 TTT-AATTTAAATT
16235216 TTTAATT
1 TTTAATT
16235223 CGAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 6 0.32
14 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTAATTTAAATT
Found at i:16236302 original size:152 final size:152
Alignment explanation
Indices: 16236099--16236876 Score: 1047
Period size: 167 Copynumber: 4.9 Consensus size: 152
16236089 TCTCCACTAG
** *
16236099 CTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAACTTTACTTCAATTTCAAGAGGATA
1 CTCTTACTTCAATTTCAGA--GATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATA
* *
16236164 GAAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACCTGATATCCAGCTTTACTTCAATT
64 GAAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATT
*
16236229 TCAAGAGGATAAGAAATGATCTTA
129 TCAAGAGGATAGGAAATGATCTTA
* * *
16236253 CTCTTACTTCAATTTCAGAGATAGAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGA
* * *
16236318 AAATGATCTTGCTCTTACTTCAATTTCAAAGATAAAGACTTGTTATCCAACTCTACTTCAATTTC
66 AAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTTC
*
16236383 AAGAGGATAGGAAATGATCTTG
131 AAGAGGATAGGAAATGATCTTA
*
16236405 CTCTTACTTCAATTTCGGAGATAAAGACTTGATATCCAAC-TTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATA-G
* *
16236469 AAAA-GATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGTTTTACTTCAATTT
65 AAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTT
16236533 CAAGAGGATAGGAAATGATCTTA
130 CAAGAGGATAGGAAATGATCTTA
*
16236556 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATA-G
* * *
16236621 AAATGATCTTAGTGCTTCATCTTACTCTTACTTCAATTTCAGATAGACAAAGGCTTGATATCCAG
65 -AA--A----A-TG----ATCTTGCTCTTACTTCAATTTCAG--AGATAAAGACTTGATATCCAG
16236686 CTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTA
116 CTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTA
16236723 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATA-G
* *
16236788 AAATGATCTTAGTGCTTCATCTTACTCTTACTTCAATTTCAGATAGATAAAGGCTTGATATCCAG
65 -AA--A----A-TG----ATCTTGCTCTTACTTCAATTTCAG--AGATAAAGACTTGATATCCAG
16236853 CTCTACTTCAATTTCAAGAGGATA
116 CTCTACTTCAATTTCAAGAGGATA
16236877 CGACTTGTCA
Statistics
Matches: 575, Mismatches: 32, Indels: 21
0.92 0.05 0.03
Matches are distributed among these distances:
151 137 0.24
152 185 0.32
153 2 0.00
154 19 0.03
155 1 0.00
159 1 0.00
161 1 0.00
165 23 0.04
167 206 0.36
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (152 bp):
CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGA
AAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTTC
AAGAGGATAGGAAATGATCTTA
Found at i:16236703 original size:91 final size:89
Alignment explanation
Indices: 16236550--16236722 Score: 301
Period size: 91 Copynumber: 1.9 Consensus size: 89
16236540 ATAGGAAATG
* *
16236550 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTACTCTTACTTCAATTTCAGAGACAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAG
16236615 GATAGGAAATGATCTTAGTGCTTC
66 GATAGGAAATGATCTTAGTGCTTC
*
16236639 ATCTTACTCTTACTTCAATTTCAGATAGACAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAG
1 ATCTTACTCTTACTTCAATTTCAG--AGACAAAGACTTGATATCCAGCTCTACTTCAATTTCAAG
16236704 AGGATAGGAAATGATCTTA
64 AGGATAGGAAATGATCTTA
16236723 CTCTTACTTC
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
89 24 0.30
91 55 0.70
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (89 bp):
ATCTTACTCTTACTTCAATTTCAGAGACAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAG
GATAGGAAATGATCTTAGTGCTTC
Found at i:16236739 original size:38 final size:37
Alignment explanation
Indices: 16236689--16236798 Score: 125
Period size: 38 Copynumber: 2.9 Consensus size: 37
16236679 TATCCAGCTC
16236689 TACTTCAATTTCAAGAGGATAGGAAATGATCTTACTCT
1 TACTTCAATTTCAAGAGGATAGGAAATGATCTTACT-T
* ** **
16236727 TACTTCAATTTC-AGA-GATAAAGACTTGATATCCAACTT
1 TACTTCAATTTCAAGAGGAT-AGGAAATG--ATCTTACTT
16236765 TACTTCAATTTCAAGAGGATAGGAAATGATCTTA
1 TACTTCAATTTCAAGAGGATAGGAAATGATCTTA
16236799 GTGCTTCATC
Statistics
Matches: 57, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
36 3 0.05
37 12 0.21
38 25 0.44
39 14 0.25
40 3 0.05
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (37 bp):
TACTTCAATTTCAAGAGGATAGGAAATGATCTTACTT
Found at i:16236786 original size:76 final size:76
Alignment explanation
Indices: 16236098--16236630 Score: 879
Period size: 76 Copynumber: 7.0 Consensus size: 76
16236088 ATCTCCACTA
** * *
16236098 GCTCTTACTTCAATTTCAGAGGGACGAAGGCTTGATATCCAACTTTACTTCAATTTCAAGAGGAT
1 GCTCTTACTTCAATTTCAGA--GATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGAT
*
16236163 AGAAAATGATCTT
64 AGGAAATGATCTT
* *
16236176 GCTCTTACTTCAATTTCAGAGATAAAGACCTGATATCCAGCTTTACTTCAATTTCAAGAGGATAA
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAG
16236241 GAAATGATCTT
66 GAAATGATCTT
* *
16236252 ACTCTTACTTCAATTTCAGAGATAGAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAG
16236317 GAAATGATCTT
66 GAAATGATCTT
* * * *
16236328 GCTCTTACTTCAATTTCAAAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAG
16236393 GAAATGATCTT
66 GAAATGATCTT
* *
16236404 GCTCTTACTTCAATTTCGGAGATAAAGACTTGATATCCAAC-TTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAG
*
16236468 GAAAAGATCTT
66 GAAATGATCTT
*
16236479 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAG
16236544 GAAATGATCTT
66 GAAATGATCTT
*
16236555 ACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAG
16236620 GAAATGATCTT
66 GAAATGATCTT
16236631 AGTGCTTCAT
Statistics
Matches: 426, Mismatches: 28, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
75 70 0.16
76 336 0.79
78 20 0.05
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (76 bp):
GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAG
GAAATGATCTT
Found at i:16237157 original size:51 final size:50
Alignment explanation
Indices: 16237059--16237179 Score: 154
Period size: 51 Copynumber: 2.4 Consensus size: 50
16237049 TCATGTATCG
* * *
16237059 CCGTTACGA-CTTAGATCTTTCTCGTCGTGTCTTCGTGGTACTAGATCTA
1 CCGTTGCGATCTTAGATCTTTCCCGTCGTATCTTCGTGGTACTAGATCTA
* * *
16237108 CCGTTGCGATCTTAGATCTTTCCCTTCTGTATCTTTGTGGTACTGGATCTA
1 CCGTTGCGATCTTAGATCTTTCCCGTC-GTATCTTCGTGGTACTAGATCTA
* *
16237159 CCGTTGTGGTCTTAGATCTTT
1 CCGTTGCGATCTTAGATCTTT
16237180 TCGGTCCATA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
49 8 0.13
50 15 0.24
51 39 0.63
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.42
Consensus pattern (50 bp):
CCGTTGCGATCTTAGATCTTTCCCGTCGTATCTTCGTGGTACTAGATCTA
Found at i:16237201 original size:51 final size:51
Alignment explanation
Indices: 16237059--16237201 Score: 121
Period size: 51 Copynumber: 2.8 Consensus size: 51
16237049 TCATGTATCG
* * * * * *
16237059 CCGTTACGA-CTTAGATCTTTCTCGT-CGTGTCTTCGTGGTACTAGATCTA
1 CCGTTGCGATCTTAGATCTTTCCCGTCCATATCTTTGAGGTACTAGATCTA
* ** * *
16237108 CCGTTGCGATCTTAGATCTTTCCCTTCTGTATCTTTGTGGTACTGGATCTA
1 CCGTTGCGATCTTAGATCTTTCCCGTCCATATCTTTGAGGTACTAGATCTA
* * * *
16237159 CCGTTGTGGTCTTAGATCTTTTCGGTCCATA-CTTTTGAGGTAC
1 CCGTTGCGATCTTAGATCTTTCCCGTCCATATC-TTTGAGGTAC
16237202 ACGGTCCGCA
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
49 8 0.11
50 15 0.20
51 53 0.70
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (51 bp):
CCGTTGCGATCTTAGATCTTTCCCGTCCATATCTTTGAGGTACTAGATCTA
Found at i:16237245 original size:50 final size:49
Alignment explanation
Indices: 16237191--16237394 Score: 139
Period size: 50 Copynumber: 4.1 Consensus size: 49
16237181 CGGTCCATAC
16237191 TTTTGAGGTACACGG-TCCGCAGTTGCGACTTAGACCTTTCCCTTTTCTGT
1 TTTTGAGGTAC-CGGATCCGCAGTTGCGACTTAGACCTTT-CCTTTTCTGT
* * * * * *
16237241 TTTTGAAGTACTGGATCTGCCA-TTGTGACTTAGACCTTTTCTTGT-TGT
1 TTTTGAGGTACCGGATCCG-CAGTTGCGACTTAGACCTTTCCTTTTCTGT
* * * ** * * ** * *
16237289 GTTTT-ATGGTGCTGGATCCACCTTTGCGGTCTTAGATCTTTCCGGTCCATGC
1 -TTTTGA-GGTACCGGATCCGCAGTTGC-GACTTAGACCTTTCCTTTTC-TGT
16237341 TTTTGAGGTACACGG-TCCGCAGTTGCGACTTAGACCTTTCCCTTTTCTGT
1 TTTTGAGGTAC-CGGATCCGCAGTTGCGACTTAGACCTTT-CCTTTTCTGT
16237391 TTTT
1 TTTT
16237395 AAAGTACTGG
Statistics
Matches: 112, Mismatches: 31, Indels: 22
0.68 0.19 0.13
Matches are distributed among these distances:
48 5 0.04
49 22 0.20
50 58 0.52
51 22 0.20
52 5 0.04
ACGTcount: A:0.14, C:0.23, G:0.22, T:0.41
Consensus pattern (49 bp):
TTTTGAGGTACCGGATCCGCAGTTGCGACTTAGACCTTTCCTTTTCTGT
Found at i:16237338 original size:150 final size:150
Alignment explanation
Indices: 16237145--16237452 Score: 526
Period size: 150 Copynumber: 2.1 Consensus size: 150
16237135 TGTATCTTTG
* * * *
16237145 TGGTACTGGATCTACCGTTGTGGTCTTAGATCTTTTCGGTCCATACTTTTGAGGTACACGGTCCG
1 TGGTGCTGGATCCACCGTTGCGGTCTTAGATCTTTCCGGTCCATACTTTTGAGGTACACGGTCCG
* *
16237210 CAGTTGCGACTTAGACCTTTCCCTTTTCTGTTTTTGAAGTACTGGATCTGCCATTGTGACTTAGA
66 CAGTTGCGACTTAGACCTTTCCCTTTTCTGTTTTTAAAGTACTGGATCTGCCATTATGACTTAGA
16237275 CCTTTTCTTGTTGTGTTTTA
131 CCTTTTCTTGTTGTGTTTTA
* *
16237295 TGGTGCTGGATCCACCTTTGCGGTCTTAGATCTTTCCGGTCCATGCTTTTGAGGTACACGGTCCG
1 TGGTGCTGGATCCACCGTTGCGGTCTTAGATCTTTCCGGTCCATACTTTTGAGGTACACGGTCCG
16237360 CAGTTGCGACTTAGACCTTTCCCTTTTCTGTTTTTAAAGTACTGGATCTGCCATTATGACTTAGA
66 CAGTTGCGACTTAGACCTTTCCCTTTTCTGTTTTTAAAGTACTGGATCTGCCATTATGACTTAGA
* *
16237425 CTTTTTCTTGTTGTGTTTTG
131 CCTTTTCTTGTTGTGTTTTA
16237445 TGGTGCTG
1 TGGTGCTG
16237453 AGACCTATAA
Statistics
Matches: 148, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
150 148 1.00
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.42
Consensus pattern (150 bp):
TGGTGCTGGATCCACCGTTGCGGTCTTAGATCTTTCCGGTCCATACTTTTGAGGTACACGGTCCG
CAGTTGCGACTTAGACCTTTCCCTTTTCTGTTTTTAAAGTACTGGATCTGCCATTATGACTTAGA
CCTTTTCTTGTTGTGTTTTA
Found at i:16237421 original size:50 final size:49
Alignment explanation
Indices: 16237217--16237443 Score: 136
Period size: 50 Copynumber: 4.5 Consensus size: 49
16237207 CCGCAGTTGC
* *
16237217 GACTTAGACCTTTCCCTTTTCTGTTTTTGAAGTACTGGATCTGCCATTGT
1 GACTTAGACCTTT-CCTTTTCTGTTTTTAAAGTACTGGATCCGCCATTGT
* * ** * * * *
16237267 GACTTAGACCTTTTCTTGT-TGTGTTTTATGGTGCTGGATCCACCTTTGCG
1 GACTTAGACCTTTCCTTTTCTGT-TTTTAAAGTACTGGATCCGCCATTG-T
* * ** * * * * * *
16237317 GTCTTAGATCTTTCCGGTCCATGCTTTTGAGGTACACGG-TCCG-CAGTTGC
1 GACTTAGACCTTTCCTTTTC-TGTTTTTAAAGTAC-TGGATCCGCCA-TTGT
* *
16237367 GACTTAGACCTTTCCCTTTTCTGTTTTTAAAGTACTGGATCTGCCATTAT
1 GACTTAGACCTTT-CCTTTTCTGTTTTTAAAGTACTGGATCCGCCATTGT
* * *
16237417 GACTTAGACTTTTTCTTGTTGTGTTTT
1 GACTTAGACCTTTCCTT-TTCTGTTTT
16237444 GTGGTGCTGA
Statistics
Matches: 127, Mismatches: 40, Indels: 20
0.68 0.21 0.11
Matches are distributed among these distances:
48 3 0.02
49 27 0.21
50 73 0.57
51 20 0.16
52 4 0.03
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (49 bp):
GACTTAGACCTTTCCTTTTCTGTTTTTAAAGTACTGGATCCGCCATTGT
Found at i:16238681 original size:11 final size:10
Alignment explanation
Indices: 16238663--16238688 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
16238653 CCTCGACCTC
16238663 TCTTTTTTTT
1 TCTTTTTTTT
16238673 TCTTTTTTTT
1 TCTTTTTTTT
16238683 TCTTTT
1 TCTTTT
16238689 CAATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:16245836 original size:13 final size:13
Alignment explanation
Indices: 16245804--16245836 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
16245794 AATTTGGACC
16245804 TTTAA-TTAAATT
1 TTTAATTTAAATT
16245816 TTTAAATTTAAATT
1 TTT-AATTTAAATT
16245830 TTTAATT
1 TTTAATT
16245837 CGAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 6 0.32
14 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTAATTTAAATT
Found at i:16251756 original size:163 final size:164
Alignment explanation
Indices: 16251515--16251852 Score: 518
Period size: 172 Copynumber: 2.0 Consensus size: 164
16251505 AATAAATATT
* * *
16251515 TATCACAGTGGCGAAATAAGAGGTTGGCAGGGATTTGATTTTTTCTAAAATGAAAAATTTTCTAT
1 TATCACAGTGGCGAAATAAGAGGTTGGCAGGAATTTGATCTTTCCTAAAATGAAAAATTTTCTAT
**
16251580 GTGATC-TTTTTAAAATTTTAAATTGATAAAATTAAAATTACACTTTGATCTTCTTAAAAATATA
66 GTGATCTTTTTTAAAATTTTAAATTGATAAAATTAAAATTACACTTTGATCACCTTAAAAATATA
16251644 AAAATTTAATTTAATCTTTAAAAAATTATAAAAA
131 AAAATTTAATTTAATCTTTAAAAAATTATAAAAA
16251678 TATCACAGTGGCGAAATAA-AGGGTTGGCAGGAATTTGATCTTTCCTAAAATGAAAAATTTTCTA
1 TATCACAGTGGCGAAATAAGA-GGTTGGCAGGAATTTGATCTTTCCTAAAATGAAAAATTTTCTA
16251742 TGTGATCTTTTTAAAATTTTTAAAATTTTAAATTGATAAAATTAAAATTACACTTTGATCACCTT
65 TGTGATC----T----TTTTTAAAATTTTAAATTGATAAAATTAAAATTACACTTTGATCACCTT
* *
16251807 AAAAATATAAAAATTTAATTTAATCTTTTAAAATTTATAAAAA
122 AAAAATATAAAAATTTAATTTAATCTTTAAAAAATTATAAAAA
16251850 TAT
1 TAT
16251853 AATCTATTAA
Statistics
Matches: 158, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
162 1 0.01
163 66 0.42
172 91 0.58
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.39
Consensus pattern (164 bp):
TATCACAGTGGCGAAATAAGAGGTTGGCAGGAATTTGATCTTTCCTAAAATGAAAAATTTTCTAT
GTGATCTTTTTTAAAATTTTAAATTGATAAAATTAAAATTACACTTTGATCACCTTAAAAATATA
AAAATTTAATTTAATCTTTAAAAAATTATAAAAA
Found at i:16253545 original size:14 final size:14
Alignment explanation
Indices: 16253528--16253557 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
16253518 CAGGGCTTAA
16253528 ATCCTAGCATTGTC
1 ATCCTAGCATTGTC
16253542 ATCCTAGCATTGTC
1 ATCCTAGCATTGTC
16253556 AT
1 AT
16253558 ATTATTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (14 bp):
ATCCTAGCATTGTC
Found at i:16256428 original size:27 final size:27
Alignment explanation
Indices: 16256398--16256461 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
16256388 TATTGTCGAA
16256398 AATAGCGGTGTGAAGCGGAATCACACC
1 AATAGCGGTGTGAAGCGGAATCACACC
16256425 AATAGCGGTGTGAAGCGGAATCACACC
1 AATAGCGGTGTGAAGCGGAATCACACC
16256452 AATAGCGGTG
1 AATAGCGGTG
16256462 GATCGCAGCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.33, C:0.20, G:0.31, T:0.16
Consensus pattern (27 bp):
AATAGCGGTGTGAAGCGGAATCACACC
Found at i:16258713 original size:148 final size:144
Alignment explanation
Indices: 16258468--16259082 Score: 718
Period size: 148 Copynumber: 4.1 Consensus size: 144
16258458 AGAGGAGTGA
*
16258468 TTTAAAAAA-AAA-TTTAGATTTTTAAAAATAAAAATATGTTTTTTTTAATCATTTTAAAGGAAA
1 TTTAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATATG--TTTTTTAGTCATTTTAAAGGAAA
* *
16258531 AAGTTTAAATTTTTTTAAACCAAGTTTTGATTTTTTAACTATTTCGAAATAAAAATTTTGATTTC
64 AAATTTAAA--TTTTTAAACAAAGTTTTGATTTTTTAACTATTTCGAAATAAAAATTTTGATTT-
16258596 TAAGAAAAGTAGTGATTTT
126 TAAGAAAAGTAGTGATTTT
* * *
16258615 TTTAAAAAAGAAAGTTTATATTTTTAAAAATAAAAATCTGTTTCTTTAGTTATTTTAAAGGAAAA
1 TTTAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTT-TTTAGTCATTTTAAAGGAAAA
* *
16258680 AATTTAAATTTTTAAACAAAGTTTTGATTTTTTTAAACTATTTTGAAATAAAAGTTTTGATTTTT
65 AATTTAAATTTTTAAACAAAGTTTTGA-TTTTTT-AACTATTTCGAAATAAAAATTTTGA-TTTT
*
16258745 AAGAAAAGTAGT-TTTTT
127 AAGAAAAGTAGTGATTTT
*
16258762 TTTAAAAAAAAAATGAAAGTTTATATTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGG
1 TTT----AAAAAA-GAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGG
* *
16258827 AAAAAAAAATTAAATTTTTAAACAAAGTTTGATTTTTTAAAAATTTTATTTTTTAACTATTTCGA
61 --AAAAAATTTAAATTTTTAAACAAA----G------T-----TTTGATTTTTTAACTATTTCGA
*
16258892 AATAAAAGTTTTGATTTGTAAGAAAAGTAGTGATTTT
109 AATAAAAATTTTGATTT-TAAGAAAAGTAGTGATTTT
*
16258929 TTTAAGAAAAGAAGGTTTAGATTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAA-GAGAA
1 TTTAA-AAAAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGA-AA
* * *
16258993 AAGTTTAAATTTTTAAACAAAG-TTTGATTTTTTAACTATTTTGAAATAAAAACTTTGATTTTAA
64 AAATTTAAATTTTTAAACAAAGTTTTGATTTTTTAACTATTTCGAAATAAAAATTTTGATTTTAA
*
16259057 GAAAAATAGTGATTTT
129 GAAAAGTAGTGATTTT
16259073 GTTTAAAAAA
1 -TTTAAAAAA
16259083 AATTTTGATT
Statistics
Matches: 411, Mismatches: 24, Indels: 69
0.82 0.05 0.14
Matches are distributed among these distances:
144 22 0.05
145 40 0.10
146 18 0.04
147 25 0.06
148 65 0.16
149 27 0.07
151 22 0.05
152 33 0.08
153 23 0.06
157 2 0.00
160 1 0.00
161 21 0.05
162 1 0.00
163 50 0.12
164 4 0.01
165 3 0.01
166 37 0.09
167 13 0.03
168 4 0.01
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (144 bp):
TTTAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAAA
ATTTAAATTTTTAAACAAAGTTTTGATTTTTTAACTATTTCGAAATAAAAATTTTGATTTTAAGA
AAAGTAGTGATTTT
Found at i:16258988 original size:163 final size:163
Alignment explanation
Indices: 16258708--16259027 Score: 493
Period size: 163 Copynumber: 2.0 Consensus size: 163
16258698 AAGTTTTGAT
* * *
16258708 TTTTTTAAACTATTTTGAAATAAAAGTTTTGATTTTTAAGAAAAGTAGTTTTTTTTTAAAAAAAA
1 TTTTTTAAACTATTTCGAAATAAAAGTTTTGATTTGTAAGAAAAGTAGTATTTTTTT--AAAAAA
*
16258773 AATGAAAGTTTATATTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAAAAAAATT
64 AATGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAA-G-AAAAAAAATT
16258838 AAATTTTTAAACAAAGTTTGATTTTTTAAAAATTTTA
127 AAATTTTTAAACAAAGTTTGATTTTTTAAAAATTTTA
*
16258875 TTTTTT-AACTATTTCGAAATAAAAGTTTTGATTTGTAAGAAAAGTAGTGATTTTTTT-AAGAAA
1 TTTTTTAAACTATTTCGAAATAAAAGTTTTGATTTGTAAGAAAAGTAGT-ATTTTTTTAAAAAAA
* * **
16258938 A-GAAGGTTTAGATTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGAGAAAAGTTTAAA
65 ATGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGAAAAAAAATTAAA
16259002 TTTTTAAACAAAGTTTGATTTTTTAA
130 TTTTTAAACAAAGTTTGATTTTTTAA
16259028 CTATTTTGAA
Statistics
Matches: 143, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
161 36 0.25
162 1 0.01
163 47 0.33
164 6 0.04
166 40 0.28
167 13 0.09
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (163 bp):
TTTTTTAAACTATTTCGAAATAAAAGTTTTGATTTGTAAGAAAAGTAGTATTTTTTTAAAAAAAA
TGAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGAAAAAAAATTAAAT
TTTTAAACAAAGTTTGATTTTTTAAAAATTTTA
Found at i:16259077 original size:22 final size:22
Alignment explanation
Indices: 16259052--16259095 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
16259042 AAACTTTGAT
*
16259052 TTTAAGAAAAATAGTGATTTTG
1 TTTAAAAAAAATAGTGATTTTG
**
16259074 TTTAAAAAAAATTTTGATTTTG
1 TTTAAAAAAAATAGTGATTTTG
16259096 CAAAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (22 bp):
TTTAAAAAAAATAGTGATTTTG
Found at i:16259683 original size:16 final size:18
Alignment explanation
Indices: 16259642--16259698 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 18
16259632 TATTTATTCT
*
16259642 TATTTCATCTT-TATTTA
1 TATTTCATGTTCTATTTA
16259659 T-TTTCATG-TCTATTTA
1 TATTTCATGTTCTATTTA
*
16259675 TATTT-ATGTTTTATTTA
1 TATTTCATGTTCTATTTA
16259692 TAATTTC
1 T-ATTTC
16259699 CCCTTACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 1 0.03
16 16 0.48
17 12 0.36
18 4 0.12
ACGTcount: A:0.23, C:0.09, G:0.04, T:0.65
Consensus pattern (18 bp):
TATTTCATGTTCTATTTA
Found at i:16260190 original size:141 final size:138
Alignment explanation
Indices: 16259920--16260443 Score: 605
Period size: 140 Copynumber: 3.8 Consensus size: 138
16259910 GTCCTAAGAC
* * *
16259920 GACACTTTTGGGGCGACACTTT-TCTAAGTGTTGGGATAGACTTGCCAACATACAC-TTTGACCA
1 GACACTTTTGGGGTGACACTTTCT-TAAGTGTTGGGATAGACTTGCCGACATACGCTTTTG-CCA
* * * * * *
16259983 ATTTTTTGTATAAGAGTTGAGATATGCATGCCTAAGACAACCCTTAAATACGAGTTGGCTTTGTC
64 ACTCTTTGTATAAGAGTTG-GATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTC
16260048 CAACACTATGCT
128 CAACACTATG-T
** *
16260060 GACACTTTTGGGGTGACACTTTCTTAAGTGTTGGGATAGACTTATCGACATATGCTTTTGCCAAC
1 GACACTTTTGGGGTGACACTTTCTTAAGTGTTGGGATAGACTTGCCGACATACGCTTTTGCCAAC
* * *
16260125 TCTTTTGTATAAGGGTTAGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCC
66 TC-TTTGTATAAGAGTT-GGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCC
16260190 AACACTATGGT
129 AACACTAT-GT
* * * **
16260201 GACACTTTTGGGCTGACACTTTCCTAAGTGTTGGGATAGACTTGTCGGTATACG-TTTTAGCCAA
1 GACACTTTTGGGGTGACACTTTCTTAAGTGTTGGGATAGACTTGCCGACATACGCTTTT-GCCAA
* * *
16260265 CTCTTTGTATAAGGGTTAGGATATGCATGCCTAAGGTAACACTTAAATAAGAGTCGGTTTTGTCC
65 CTCTTTGTATAAGAGTT-GGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCC
16260330 AACACTATGT
129 AACACTATGT
*
16260340 CGACAC--TT----T--C-C---C--AAGTGTTGGGATAGACTTGCCGACATACGCTTTAGCCAA
1 -GACACTTTTGGGGTGACACTTTCTTAAGTGTTGGGATAGACTTGCCGACATACGCTTTTGCCAA
*
16260391 TTCTTTGTATAAGAGTTGGAATATGCATGCCTAAGGCAACACTTAAATAAGAG
65 CTCTTTGTATAAGAGTTGG-ATATGCATGCCTAAGGCAACACTTAAATAAGAG
16260444 CTATGCCGAC
Statistics
Matches: 344, Mismatches: 31, Indels: 32
0.85 0.08 0.08
Matches are distributed among these distances:
125 2 0.01
126 78 0.23
127 3 0.01
128 1 0.00
131 1 0.00
132 1 0.00
134 1 0.00
138 2 0.01
139 2 0.01
140 127 0.37
141 124 0.36
142 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (138 bp):
GACACTTTTGGGGTGACACTTTCTTAAGTGTTGGGATAGACTTGCCGACATACGCTTTTGCCAAC
TCTTTGTATAAGAGTTGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAA
CACTATGT
Found at i:16260440 original size:126 final size:126
Alignment explanation
Indices: 16260215--16260443 Score: 370
Period size: 126 Copynumber: 1.8 Consensus size: 126
16260205 CTTTTGGGCT
* * ** * *
16260215 GACACTTTCCTAAGTGTTGGGATAGACTTGTCGGTATACGTTTTAGCCAACTCTTTGTATAAGGG
1 GACACTTTCCCAAGTGTTGGGATAGACTTGCCGACATACGCTTTAGCCAACTCTTTGTATAAGAG
*
16260280 TTAGGATATGCATGCCTAAGGTAACACTTAAATAAGAGTCGGTTTTGTCCAACACTATGTC
66 TTAGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAACACTATGTC
*
16260341 GACACTTTCCCAAGTGTTGGGATAGACTTGCCGACATACGCTTTAGCCAATTCTTTGTATAAGAG
1 GACACTTTCCCAAGTGTTGGGATAGACTTGCCGACATACGCTTTAGCCAACTCTTTGTATAAGAG
16260406 TT-GGAATATGCATGCCTAAGGCAACACTTAAATAAGAG
66 TTAGG-ATATGCATGCCTAAGGCAACACTTAAATAAGAG
16260444 CTATGCCGAC
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
125 2 0.02
126 92 0.98
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (126 bp):
GACACTTTCCCAAGTGTTGGGATAGACTTGCCGACATACGCTTTAGCCAACTCTTTGTATAAGAG
TTAGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGTTTTGTCCAACACTATGTC
Found at i:16260719 original size:14 final size:15
Alignment explanation
Indices: 16260702--16260731 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
16260692 TTTTACTGTT
16260702 AACCCTAAAT-TTAA
1 AACCCTAAATATTAA
16260716 AACCCTAAATATTAA
1 AACCCTAAATATTAA
16260731 A
1 A
16260732 TCATAAACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (15 bp):
AACCCTAAATATTAA
Found at i:16263558 original size:27 final size:28
Alignment explanation
Indices: 16263528--16263582 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
16263518 TAATTAAAAT
16263528 ACATTACCATTTT-AATACATGCCAAAC
1 ACATTACCATTTTAAATACATGCCAAAC
16263555 ACATTACCATTTTAAAATACATGCCAAA
1 ACATTACCATTTT-AAATACATGCCAAA
16263583 ACTCAAGCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 13 0.50
29 13 0.50
ACGTcount: A:0.44, C:0.24, G:0.04, T:0.29
Consensus pattern (28 bp):
ACATTACCATTTTAAATACATGCCAAAC
Found at i:16264098 original size:26 final size:26
Alignment explanation
Indices: 16263980--16264097 Score: 164
Period size: 26 Copynumber: 4.5 Consensus size: 26
16263970 AGCCAAGAAC
*
16263980 AGAGTTTAGCTCATACGATCCCAAAT
1 AGAGTTTAGCTCATACGAGCCCAAAT
16264006 AGAGTTTAGCTCATACGAGCCCAAAT
1 AGAGTTTAGCTCATACGAGCCCAAAT
* *
16264032 AGAGTTTAGCTCATACAAGCCAAAAT
1 AGAGTTTAGCTCATACGAGCCCAAAT
* * * * *
16264058 AGAGTTTTGCTCATTCGAGCCTAGAC
1 AGAGTTTAGCTCATACGAGCCCAAAT
16264084 AGAGTTTAGCTCAT
1 AGAGTTTAGCTCAT
16264098 TGATAGCATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (26 bp):
AGAGTTTAGCTCATACGAGCCCAAAT
Found at i:16266934 original size:52 final size:52
Alignment explanation
Indices: 16266853--16267091 Score: 340
Period size: 52 Copynumber: 4.6 Consensus size: 52
16266843 GTAAATGAAA
*
16266853 AAGGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* *
16266905 GAGGTCCGATGATTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* * * *
16266957 GAGGTTCGATGGCTATGTGTCATCGTGAGTAT-TGAATCCTTTACGGATTAA
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
* *
16267008 AAGGTCCTATGACTATGTGTCATCGTGAGCATAT-AGATCCTTTTACGGATT-T
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGA-ATCC-TTTACGGATTAT
* *
16267060 AAGGTCCGATGACTTTGTGTCATCATGAGTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTAT
16267092 TAAATGGGAA
Statistics
Matches: 167, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
51 46 0.28
52 111 0.66
53 10 0.06
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.36
Consensus pattern (52 bp):
AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT
Found at i:16267048 original size:103 final size:103
Alignment explanation
Indices: 16266853--16267092 Score: 349
Period size: 103 Copynumber: 2.3 Consensus size: 103
16266843 GTAAATGAAA
** *
16266853 AAGGTCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGAGGTCCGATGAT
1 AAGGTCCGATGACTATGTGTCATCATGAGTAT-TGAATCCTTTACGGATTAAAAGGTCCGATGAC
*
16266918 TATGTGTCATCGTGAGTATATGAATCC-TTTACGGATTAT
65 TATGTGTCATCGTGAGCATATGAATCCTTTTACGGATT-T
* * * * *
16266957 GAGGTTCGATGGCTATGTGTCATCGTGAGTATTGAATCCTTTACGGATTAAAAGGTCCTATGACT
1 AAGGTCCGATGACTATGTGTCATCATGAGTATTGAATCCTTTACGGATTAAAAGGTCCGATGACT
16267022 ATGTGTCATCGTGAGCATAT-AGATCCTTTTACGGATTT
66 ATGTGTCATCGTGAGCATATGA-ATCCTTTTACGGATTT
*
16267060 AAGGTCCGATGACTTTGTGTCATCATGAGTATT
1 AAGGTCCGATGACTATGTGTCATCATGAGTATT
16267093 AAATGGGAAA
Statistics
Matches: 120, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
102 1 0.01
103 81 0.68
104 38 0.32
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (103 bp):
AAGGTCCGATGACTATGTGTCATCATGAGTATTGAATCCTTTACGGATTAAAAGGTCCGATGACT
ATGTGTCATCGTGAGCATATGAATCCTTTTACGGATTT
Found at i:16281995 original size:18 final size:18
Alignment explanation
Indices: 16281956--16281995 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
16281946 TAGATGCAGT
* *
16281956 CACATAGTCAGATGGAAT
1 CACATAGTCAGATGCAAC
16281974 CACATAGTCAGATGCAAC
1 CACATAGTCAGATGCAAC
16281992 CACA
1 CACA
16281996 ATCACGATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.17
Consensus pattern (18 bp):
CACATAGTCAGATGCAAC
Found at i:16294823 original size:17 final size:18
Alignment explanation
Indices: 16294801--16294841 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
16294791 TTAGTTTTAA
16294801 TGCATTTT-TATTGTCAC
1 TGCATTTTATATTGTCAC
*
16294818 TGCATTTTATTTTGTCAC
1 TGCATTTTATATTGTCAC
16294836 TGCATT
1 TGCATT
16294842 CATTTTGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.54
Consensus pattern (18 bp):
TGCATTTTATATTGTCAC
Found at i:16294848 original size:17 final size:18
Alignment explanation
Indices: 16294811--16294849 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
16294801 TGCATTTTTA
*
16294811 TTGTCACTGCATTTTATT
1 TTGTCACTGCATTTCATT
16294829 TTGTCACTGCA-TTCATT
1 TTGTCACTGCATTTCATT
16294846 TTGT
1 TTGT
16294850 TAACTTAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.15, C:0.18, G:0.13, T:0.54
Consensus pattern (18 bp):
TTGTCACTGCATTTCATT
Found at i:16295473 original size:17 final size:18
Alignment explanation
Indices: 16295445--16295494 Score: 75
Period size: 17 Copynumber: 2.8 Consensus size: 18
16295435 GAAAATGAGA
*
16295445 AAAAGAAAAAAAAAAAAG
1 AAAAGAAGAAAAAAAAAG
*
16295463 AAAAG-AGAAAAGAAAAG
1 AAAAGAAGAAAAAAAAAG
16295480 AAAAGAAGAAAAAAA
1 AAAAGAAGAAAAAAA
16295495 TGTTTGCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAGAAGAAAAAAAAAG
Found at i:16295473 original size:25 final size:27
Alignment explanation
Indices: 16295429--16295491 Score: 85
Period size: 25 Copynumber: 2.4 Consensus size: 27
16295419 CAGTCACTTG
*
16295429 AAAAAGGAAAATGAGAAAAAGAAAAAA
1 AAAAAAGAAAATGAGAAAAAGAAAAAA
*
16295456 AAAAAAGAAAA-GAG-AAAAGAAAAGA
1 AAAAAAGAAAATGAGAAAAAGAAAAAA
*
16295481 AAAGAAGAAAA
1 AAAAAAGAAAA
16295492 AAATGTTTGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 20 0.61
26 3 0.09
27 10 0.30
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (27 bp):
AAAAAAGAAAATGAGAAAAAGAAAAAA
Found at i:16296631 original size:143 final size:143
Alignment explanation
Indices: 16296373--16296632 Score: 511
Period size: 143 Copynumber: 1.8 Consensus size: 143
16296363 GATTTTAGAG
*
16296373 ATTTGAGCTGGAAATTGGGAAGCTGATGAAGCAAGTCTGCAGTCACTTCTGACGAGAATGTGCTT
1 ATTTGAGCTGGAAATTGGGAAGCTGATGAAGCAAGTCTGCAGTCACTTCTGACGAGAAGGTGCTT
16296438 GATGCAAGGCAAGAGGAACAATTAGGGAGTAGTCCTAGTAGGCTAAAGATAGTAAGCTTCGATTG
66 GATGCAAGGCAAGAGGAACAATTAGGGAGTAGTCCTAGTAGGCTAAAGATAGTAAGCTTCGATTG
16296503 TACTCTGATTCTT
131 TACTCTGATTCTT
16296516 ATTTGAGCTGGAAATTGGGAAGCTGATGAAGCAAGTCTGCAGTCACTTCTGACGAGAAGGTGCTT
1 ATTTGAGCTGGAAATTGGGAAGCTGATGAAGCAAGTCTGCAGTCACTTCTGACGAGAAGGTGCTT
16296581 GATGCAAGGCAAGAGGAACAATTAGGGAGTAGTCCTAGTAGGCTAAAGATAG
66 GATGCAAGGCAAGAGGAACAATTAGGGAGTAGTCCTAGTAGGCTAAAGATAG
16296633 GCAAGAGGAA
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 116 1.00
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (143 bp):
ATTTGAGCTGGAAATTGGGAAGCTGATGAAGCAAGTCTGCAGTCACTTCTGACGAGAAGGTGCTT
GATGCAAGGCAAGAGGAACAATTAGGGAGTAGTCCTAGTAGGCTAAAGATAGTAAGCTTCGATTG
TACTCTGATTCTT
Found at i:16297832 original size:22 final size:21
Alignment explanation
Indices: 16297807--16297860 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 21
16297797 AAGGAAGAGG
16297807 AGGAAGAAGAGAAGAGAGAAAA
1 AGGAAGAAGAGAAGAG-GAAAA
16297829 AGGAAGAGAAGAGAAGAGGAAAA
1 AGG-A-AGAAGAGAAGAGGAAAA
16297852 A-GAAGAAGA
1 AGGAAGAAGA
16297861 ATTTGTCACG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.20
21 1 0.03
22 4 0.13
23 7 0.23
24 12 0.40
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (21 bp):
AGGAAGAAGAGAAGAGGAAAA
Found at i:16297841 original size:24 final size:22
Alignment explanation
Indices: 16297811--16297857 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 22
16297801 AAGAGGAGGA
16297811 AGAAGAGAAGAGAGAAAAAGGAAG
1 AGAAGAGAAGAG-GAAAAA-GAAG
16297835 AGAAGAGAAGAGGAAAAAGAAG
1 AGAAGAGAAGAGGAAAAAGAAG
16297857 A
1 A
16297858 AGAATTTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 5 0.22
23 6 0.26
24 12 0.52
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (22 bp):
AGAAGAGAAGAGGAAAAAGAAG
Found at i:16298942 original size:20 final size:19
Alignment explanation
Indices: 16298910--16298959 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
16298900 AAAAAGAAAG
*
16298910 AAAA-ATATATATATATGAT
1 AAAATATATGTATATAT-AT
16298929 AAAATATATGTATATATAT
1 AAAATATATGTATATATAT
*
16298948 AATAATAAATGT
1 AA-AATATATGT
16298960 TGTATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 8 0.30
20 19 0.70
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (19 bp):
AAAATATATGTATATATAT
Found at i:16300782 original size:26 final size:26
Alignment explanation
Indices: 16300753--16300819 Score: 98
Period size: 26 Copynumber: 2.5 Consensus size: 26
16300743 CACTCATTCG
16300753 AGCCCAGACAGAGTTTAGCTCATACA
1 AGCCCAGACAGAGTTTAGCTCATACA
* * *
16300779 AGCCCAGATAGAGTTTAGCTCATTCG
1 AGCCCAGACAGAGTTTAGCTCATACA
16300805 AGCCCAGAACAGAGT
1 AGCCCAG-ACAGAGT
16300820 ATTGCTCCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 30 0.83
27 6 0.17
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.19
Consensus pattern (26 bp):
AGCCCAGACAGAGTTTAGCTCATACA
Found at i:16312509 original size:20 final size:19
Alignment explanation
Indices: 16312471--16312509 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
16312461 TGAATCAAGC
*
16312471 TATATATCATCAGTTTATA
1 TATATATCATCACTTTATA
*
16312490 TATATATCCTTCACTTTATA
1 TATATAT-CATCACTTTATA
16312510 AAGAAGCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.49
Consensus pattern (19 bp):
TATATATCATCACTTTATA
Found at i:16318122 original size:21 final size:22
Alignment explanation
Indices: 16318077--16318126 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
16318067 TTTTTAGTAA
*
16318077 TTTTAAAGGAAAAAATTTAACT
1 TTTTAAAGAAAAAAATTTAACT
*
16318099 TTTTAAA-AAAAAAATTTGAATT
1 TTTTAAAGAAAAAAATTT-AACT
16318121 TTTTAA
1 TTTTAA
16318127 CTATTTCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (22 bp):
TTTTAAAGAAAAAAATTTAACT
Found at i:16318330 original size:157 final size:157
Alignment explanation
Indices: 16318036--16318324 Score: 420
Period size: 157 Copynumber: 1.8 Consensus size: 157
16318026 TTAAAAAAGG
* * * *
16318036 AAGTTTAGATTTTTAAAAATAAAAATTTATTTTTTTAGTAATTTTAAAGGAAAAAATTTAACTTT
1 AAGTTTAGATTTTTAAAAATAAAAATATATTTCTTTAGTAATTTTAAAGGAAAAAAGTTAAATTT
*
16318101 TTAAAAAAAAAATTTGAATTTTTTAACTATTTCGAAATAAAAGTTTTGATTTTTAAAAAAAGTAG
66 TTAAAAAAAAAATTTGAATTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAAAAAAGTAG
16318166 TGATTTTTTTTAAAAAGAAGAAGAAGA
131 TGATTTTTTTTAAAAAGAAGAAGAAGA
* * *
16318193 AAGTTTAGATTTTTAAAAATAAAAATATGTTTCTTTAGTCATTTTAAAGGAAAAAGGTTAAATTT
1 AAGTTTAGATTTTTAAAAATAAAAATATATTTCTTTAGTAATTTTAAAGGAAAAAAGTTAAATTT
* ** * *
16318258 TT-AAACAAAGTTTTGATTTTTTTTTAACTATTTC-AGAATAAAAATTTTGATTTTTAAGAAAAG
66 TTAAAAAAAAAATTTGA--ATTTTTTAACTATTTCGA-AATAAAAATTTTGATTTTTAAAAAAAG
16318321 TAGT
128 TAGT
16318325 TTTTTTAAAA
Statistics
Matches: 116, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
156 11 0.09
157 61 0.53
158 44 0.38
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.43
Consensus pattern (157 bp):
AAGTTTAGATTTTTAAAAATAAAAATATATTTCTTTAGTAATTTTAAAGGAAAAAAGTTAAATTT
TTAAAAAAAAAATTTGAATTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAAAAAAGTAG
TGATTTTTTTTAAAAAGAAGAAGAAGA
Found at i:16318348 original size:19 final size:19
Alignment explanation
Indices: 16318297--16318354 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 19
16318287 ATTTCAGAAT
*
16318297 AAAAA-TTTTGATTTTTAA
1 AAAAAGTTTAGATTTTTAA
* *
16318315 GAAAAG--TAGTTTTTTTAA
1 AAAAAGTTTAG-ATTTTTAA
16318333 AAAAAGTTTAGATTTTTAA
1 AAAAAGTTTAGATTTTTAA
16318352 AAA
1 AAA
16318355 TAGATTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
17 2 0.06
18 16 0.52
19 10 0.32
20 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (19 bp):
AAAAAGTTTAGATTTTTAA
Found at i:16318348 original size:37 final size:35
Alignment explanation
Indices: 16318297--16318368 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 35
16318287 ATTTCAGAAT
*
16318297 AAAAATTTTGATTTTTAAGAAA-AGTAGTTTTTTTAA
1 AAAAATTTAGATTTTTAA-AAATAG-AGTTTTTTTAA
*
16318333 AAAAAGTTTAGATTTTTAAAAATAGATTTTTTTTAA
1 AAAAA-TTTAGATTTTTAAAAATAGAGTTTTTTTAA
16318369 TCATTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 18 0.56
37 14 0.44
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (35 bp):
AAAAATTTAGATTTTTAAAAATAGAGTTTTTTTAA
Found at i:16318380 original size:138 final size:141
Alignment explanation
Indices: 16318192--16318582 Score: 445
Period size: 135 Copynumber: 2.8 Consensus size: 141
16318182 GAAGAAGAAG
*
16318192 AAAGTTTAGATTTTTAAAAATAAAAATATGTTTCTTTAGTCATTTTAAAGGAAAAAGGTTAAATT
1 AAAGTTTAGATTTTTAAAAAT-AAAATATGTTTCTTTAATCATTTTAAAGGAAAAAGGTTAAATT
* *
16318257 TTTAAACAAAGTTTTGATTTTTTTTTAACTATTTCAGAATAAAAATTTTGATTTTTAAGAAAAGT
65 TTTAAACAAAG-TTTGA--TTTTTTTAACTATTTCAAAATAAAAATTTTGATTTTTAAGAAAACT
*
16318322 AGT-TTTTT-TAAAA
127 AGTATTTTTAAAAAA
* *
16318335 AAAGTTTAGATTTTTAAAAAT-AGAT-T-TTT-TTTAATCATTTTAAAGGAAAAAGTTTAAATTT
1 AAAGTTTAGATTTTTAAAAATAAAATATGTTTCTTTAATCATTTTAAAGGAAAAAGGTTAAATTT
* *
16318396 TTAAATAAAGTTTGATTTTTTTAACTATTTCAAAATAAAAGTTTTGATTTTTAAGAAAACTAGTG
66 TTAAACAAAGTTTGATTTTTTTAACTATTTCAAAATAAAAATTTTGATTTTTAAGAAAACTAGT-
16318461 ATTTTTAAAAAA
130 ATTTTTAAAAAA
* * * ** *
16318473 AAAGTTTAGATTTTTAAAAACAAAA-ATCTATT-TTT--T-A--GTCGA-GAAAAA-TTTAAATT
1 AAAGTTTAGATTTTTAAAAATAAAATATGT-TTCTTTAATCATTTTAAAGGAAAAAGGTTAAATT
* * *
16318529 TTTAAACAAAGTTTGATTTTTTAAAACTATTT-AAAAGTGAAAACTTTGATTTTT
65 TTTAAACAAAGTTTGATTTTTT-TAACTATTTCAAAA-TAAAAATTTTGATTTTT
16318583 CAAAAATATA
Statistics
Matches: 221, Mismatches: 18, Indels: 26
0.83 0.07 0.10
Matches are distributed among these distances:
134 33 0.15
135 74 0.33
136 2 0.01
137 10 0.05
138 64 0.29
139 7 0.03
140 2 0.01
141 8 0.04
143 21 0.10
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (141 bp):
AAAGTTTAGATTTTTAAAAATAAAATATGTTTCTTTAATCATTTTAAAGGAAAAAGGTTAAATTT
TTAAACAAAGTTTGATTTTTTTAACTATTTCAAAATAAAAATTTTGATTTTTAAGAAAACTAGTA
TTTTTAAAAAA
Found at i:16318491 original size:19 final size:18
Alignment explanation
Indices: 16318432--16318492 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 18
16318422 ATTTCAAAAT
*
16318432 AAAAGTTTTGATTTTTAAG
1 AAAAG-TTTGATTTTTAAA
* *
16318451 AAAACTAGTGATTTTTAAAAA
1 AAAAGT-TTGATTTTT--AAA
16318472 AAAAGTTTAGATTTTTAAA
1 AAAAGTTT-GATTTTTAAA
16318491 AA
1 AA
16318493 CAAAAATCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
18 1 0.03
19 17 0.52
20 1 0.03
21 14 0.42
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (18 bp):
AAAAGTTTGATTTTTAAA
Found at i:16319806 original size:126 final size:126
Alignment explanation
Indices: 16319569--16320082 Score: 544
Period size: 126 Copynumber: 3.8 Consensus size: 126
16319559 ACTTTTGGAA
* * *
16319569 CGACACTTTCCTAAGTGTTGGGATAAACTTACCGACATACGCTTTTGCCAACTCTTTTGTATAAG
1 CGACACTTTCCTAAGTGTTGGGATAGACTTACCGGCATACGCTTTGGCCAACTC-TTTGTATAAG
*
16319634 GGTTGGGATATGCATGCCTAAGACAACGCTTAAATAAGAGTCGGCTTTATCCAACACTATGC
65 GGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTATCCAACACTATGC
* ** * *
16319696 CGACACTTTCCTAAGTATTGGGATAGACTTGTCGGTATACGCTTTAGCCAACTCTTTGTATAAGG
1 CGACACTTTCCTAAGTGTTGGGATAGACTTACCGGCATACGCTTTGGCCAACTCTTTGTATAAGG
* * * * *
16319761 GTTGAGATATTCATGCTTAAGGCAACGCTTAAATAAGAGTTGGCTTTTTCCAACACTATGC
66 GTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTATCCAACACTATGC
* * *
16319822 CGACACTTTCTTAAGTGTTGGGATAGCAAAGTGT-CGGCATAGTGTTGCTGACATATGCTTTGGC
1 CGACACTTTCCTAAGTGTTGGGATAG---ACT-TAC--C--------G--G-CATACGCTTTGGC
*
16319886 CAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTG
49 CAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTA
16319951 TCCAACACTATGCCGACACTTTTGGAC
114 TCCAACAC--T------A----T-G-C
* *
16319978 CGACACTTTCCTAAGTGTTGGAATAGACTTACCGGCATACGCTTTGGCCAACTCTTTGTATAAGA
1 CGACACTTTCCTAAGTGTTGGGATAGACTTACCGGCATACGCTTTGGCCAACTCTTTGTATAAGG
*
16320043 GTTGGAATATGCATGCCTAAGGCAACGCTTAAATAAGAGT
66 GTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGT
16320083 TGACAAATTA
Statistics
Matches: 324, Mismatches: 31, Indels: 51
0.80 0.08 0.13
Matches are distributed among these distances:
126 90 0.28
127 47 0.15
129 2 0.01
130 1 0.00
131 1 0.00
139 1 0.00
140 67 0.21
141 2 0.01
142 78 0.24
143 1 0.00
144 1 0.00
150 1 0.00
151 1 0.00
152 1 0.00
153 3 0.01
154 1 0.00
155 1 0.00
156 25 0.08
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (126 bp):
CGACACTTTCCTAAGTGTTGGGATAGACTTACCGGCATACGCTTTGGCCAACTCTTTGTATAAGG
GTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTATCCAACACTATGC
Found at i:16320064 original size:140 final size:141
Alignment explanation
Indices: 16319695--16320082 Score: 465
Period size: 142 Copynumber: 2.8 Consensus size: 141
16319685 CAACACTATG
* * * * *
16319695 CCGACACTTTCCTAAGTATTGGGATAGACTTGTCGGTATACGCTTTAGCCAACTCTTTGTATAAG
1 CCGACACTTTCCTAAGTGTTGGAATAGACTTGCCGGCATACGCTTTGGCCAACTCTTTGTATAAG
* * * *
16319760 GGTT-GAGATATTCATGCTTAAGGCAACGCTTAAATAAGAGTTGGCTTTTTCCAACACTATGCCG
66 GGTTGGA-ATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCG
*
16319824 ACACTTTCTTAA
130 ACACTTTCTGAA
** ***** ** * * * ** * * *
16319836 GTGTTGGGATAGCAAAGTGTCGGCATAGTGTTGCTGACATATGCTTTGGCCAACTCTTTGTATAA
1 CCG-ACACTTTCCTAAGTGTTGGAATAGACTTGCCGGCATACGCTTTGGCCAACTCTTTGTATAA
*
16319901 GGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCG
65 GGGTTGGAATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCG
*
16319966 ACACTTT-TGGA
130 ACACTTTCTGAA
*
16319977 CCGACACTTTCCTAAGTGTTGGAATAGACTTACCGGCATACGCTTTGGCCAACTCTTTGTATAAG
1 CCGACACTTTCCTAAGTGTTGGAATAGACTTGCCGGCATACGCTTTGGCCAACTCTTTGTATAAG
*
16320042 AGTTGGAATATGCATGCCTAAGGCAACGCTTAAATAAGAGT
66 GGTTGGAATATGCATGCCTAAGGCAACGCTTAAATAAGAGT
16320083 TGACAAATTA
Statistics
Matches: 197, Mismatches: 48, Indels: 5
0.79 0.19 0.02
Matches are distributed among these distances:
140 85 0.43
141 4 0.02
142 107 0.54
143 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.31
Consensus pattern (141 bp):
CCGACACTTTCCTAAGTGTTGGAATAGACTTGCCGGCATACGCTTTGGCCAACTCTTTGTATAAG
GGTTGGAATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCGA
CACTTTCTGAA
Found at i:16320504 original size:21 final size:20
Alignment explanation
Indices: 16320480--16320552 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 20
16320470 CCTAGAACTC
16320480 CAAACCTCAAACTCATAACAT
1 CAAACC-CAAACTCATAACAT
16320501 CAAACCCTAAAC-CATAAACAAT
1 CAAACCC-AAACTCAT-AAC-AT
*
16320523 -AAGCCCCAAACTCATAAC-T
1 CAA-ACCCAAACTCATAACAT
16320542 CATAA-CCAAAC
1 CA-AACCCAAAC
16320553 CCTTAAACCT
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
19 7 0.16
20 5 0.12
21 23 0.53
22 8 0.19
ACGTcount: A:0.49, C:0.34, G:0.01, T:0.15
Consensus pattern (20 bp):
CAAACCCAAACTCATAACAT
Found at i:16320593 original size:27 final size:27
Alignment explanation
Indices: 16320557--16320621 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
16320547 CCAAACCCTT
*
16320557 AAACCTTAAACATGA-ATATTGAACCAC
1 AAACCTTAAACATGATATACTGAACC-C
* * *
16320584 AAACCCTAAACTTTATATACTGAACCC
1 AAACCTTAAACATGATATACTGAACCC
16320611 AAACCTTAAAC
1 AAACCTTAAAC
16320622 CTTGAGGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 23 0.72
28 9 0.28
ACGTcount: A:0.46, C:0.26, G:0.05, T:0.23
Consensus pattern (27 bp):
AAACCTTAAACATGATATACTGAACCC
Found at i:16320636 original size:7 final size:7
Alignment explanation
Indices: 16320626--16320659 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
16320616 TTAAACCTTG
16320626 AGGTTTA
1 AGGTTTA
16320633 AGGTTTA
1 AGGTTTA
*
16320640 AGATTTA
1 AGGTTTA
*
16320647 AGGTTCA
1 AGGTTTA
16320654 AGGTTT
1 AGGTTT
16320660 GAGTTTAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.41
Consensus pattern (7 bp):
AGGTTTA
Found at i:16320650 original size:21 final size:20
Alignment explanation
Indices: 16320626--16320673 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
16320616 TTAAACCTTG
*
16320626 AGGTTTAAGGTTTAAGATTTA
1 AGGTTCAAGGTTTAAG-TTTA
*
16320647 AGGTTCAAGGTTTGAGTTTA
1 AGGTTCAAGGTTTAAGTTTA
*
16320667 AAGTTCA
1 AGGTTCA
16320674 GGGTAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.31, C:0.04, G:0.25, T:0.40
Consensus pattern (20 bp):
AGGTTCAAGGTTTAAGTTTA
Found at i:16320924 original size:36 final size:36
Alignment explanation
Indices: 16320871--16321178 Score: 270
Period size: 36 Copynumber: 8.6 Consensus size: 36
16320861 ATTCAATTAA
* *
16320871 AGACAAGGTGTATCCCAACCTTTTTAAGGTTGTCTT
1 AGACAAGGTATATCCCAACCTTTTTAAGGTTGCCTT
* *
16320907 AGACAAGGCT-TACCCCAACATTTTTTATAGGTTGCCTT
1 AGACAAGG-TATATCCCAAC-CTTTTTA-AGGTTGCCTT
*
16320945 AGACAAGGCT-TACCCCAACCTTTTTAAGGTTGCCTT
1 AGACAAGG-TATATCCCAACCTTTTTAAGGTTGCCTT
* * * * * *
16320981 AGAC-AGGTCTATACCAATCTTTTTAAGTTTTCTTT
1 AGACAAGGTATATCCCAACCTTTTTAAGGTTGCCTT
16321016 AGACAAGGTATATCCCAACCTTTTTAAGGTTGCCTT
1 AGACAAGGTATATCCCAACCTTTTTAAGGTTGCCTT
* * *
16321052 AAACAAGGTTTATCCCAA-CATTTTAAGGTTGCCTT
1 AGACAAGGTATATCCCAACCTTTTTAAGGTTGCCTT
* * * *
16321087 AGAC-GGGTTTATCCCAACTTTTTTTAAAGGTTGTCTT
1 AGACAAGGTATATCCCAAC-CTTTTT-AAGGTTGCCTT
* * * * * *
16321124 AAATAAGGTCTA-CCCTAACGTTTTTAAAGTTGCCCT
1 AGACAAGGTATATCCC-AACCTTTTTAAGGTTGCCTT
* *
16321160 AGACTA-GTTTATCCCAACC
1 AGACAAGGTATATCCCAACC
16321179 CTTCAATAAA
Statistics
Matches: 224, Mismatches: 37, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
34 13 0.06
35 53 0.24
36 89 0.40
37 33 0.15
38 36 0.16
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (36 bp):
AGACAAGGTATATCCCAACCTTTTTAAGGTTGCCTT
Found at i:16321045 original size:71 final size:70
Alignment explanation
Indices: 16320871--16321178 Score: 284
Period size: 71 Copynumber: 4.3 Consensus size: 70
16320861 ATTCAATTAA
*
16320871 AGACAAGGTGTATCCCAACCTTTTTAAGGTTGTCTTAGACAAGG-CT-TACCCCAACATTTTTTA
1 AGACAAGGT-TATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATA--CCAAC--TTTTTA
16320934 TAGGTTGCCTT
61 -AGGTTGCCTT
* *
16320945 AGACAAGGCTTACCCCAACCTTTTTAAGGTTGCCTTAGAC-AGGTCTATACCAATCTTTTTAAGT
1 AGACAAGG-TTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATACCAA-CTTTTTAAGG
* *
16321009 TTTCTTT
64 TTGCCTT
* * * *
16321016 AGACAAGGTATATCCCAACCTTTTTAAGGTTGCCTTAAACAAGGTTTATCCCAACATTTTAAGGT
1 AGACAAGGT-TATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATACCAACTTTTTAAGGT
16321081 TGCCTT
65 TGCCTT
* * * * * *
16321087 AGAC-GGGTTTATCCCAACTTTTTTTAAAGGTTGTCTTAAATAAGGTCTA-CCCTAACGTTTTTA
1 AGACAAGG-TTATCCCAAC-CTTTTT-AAGGTTGCCTTAGACAAGGTCTATACC-AAC-TTTTTA
* *
16321150 AAGTTGCCCT
61 AGGTTGCCTT
* *
16321160 AGACTAGTTTATCCCAACC
1 AGACAAGGTTATCCCAACC
16321179 CTTCAATAAA
Statistics
Matches: 198, Mismatches: 24, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
70 12 0.06
71 69 0.35
72 40 0.20
73 34 0.17
74 40 0.20
75 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (70 bp):
AGACAAGGTTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATACCAACTTTTTAAGGTT
GCCTT
Found at i:16321154 original size:145 final size:144
Alignment explanation
Indices: 16320871--16321135 Score: 365
Period size: 145 Copynumber: 1.8 Consensus size: 144
16320861 ATTCAATTAA
* * *
16320871 AGACAAGGTGTATCCCAACCTTTTTAAGGTTGTCTTAGACAAGGCTTACCCCAACATTTTTTATA
1 AGACAAGGTATATCCCAACCTTTTTAAGGTTGCCTTAAACAAGGCTTACCCCAACA-TTTTTATA
* *
16320936 GGTTGCCTTAGACAAGGCTTACCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATACCAATCT
65 GGTTGCCTTAGACAAGGCTTACCCCAACCTTTTTAAGGTTGCCTTAAAAAGGTCTATACCAATCT
16321001 TTTTAAGTTTTCTTT
130 TTTTAAGTTTTCTTT
* *
16321016 AGACAAGGTATATCCCAACCTTTTTAAGGTTGCCTTAAACAAGGTTTATCCCAACA-TTTTA-AG
1 AGACAAGGTATATCCCAACCTTTTTAAGGTTGCCTTAAACAAGGCTTACCCCAACATTTTTATAG
* * * * *
16321079 GTTGCCTTAGAC-GGGTTTATCCCAACTTTTTTTAAAGGTTGTCTTAAATAAGGTCTA
66 GTTGCCTTAGACAAGGCTTACCCCAAC-CTTTTT-AAGGTTGCCTTAAA-AAGGTCTA
16321136 CCCTAACGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
141 11 0.10
142 19 0.18
143 17 0.16
144 7 0.07
145 51 0.49
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (144 bp):
AGACAAGGTATATCCCAACCTTTTTAAGGTTGCCTTAAACAAGGCTTACCCCAACATTTTTATAG
GTTGCCTTAGACAAGGCTTACCCCAACCTTTTTAAGGTTGCCTTAAAAAGGTCTATACCAATCTT
TTTAAGTTTTCTTT
Found at i:16321940 original size:20 final size:20
Alignment explanation
Indices: 16321915--16321952 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16321905 GAGGTTCGAG
*
16321915 GTTTAAGGTTTAAGGTTTGA
1 GTTTAAGATTTAAGGTTTGA
*
16321935 GTTTAAGATTTAGGGTTT
1 GTTTAAGATTTAAGGTTT
16321953 TAGATTCGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (20 bp):
GTTTAAGATTTAAGGTTTGA
Found at i:16325393 original size:13 final size:13
Alignment explanation
Indices: 16325375--16325399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16325365 ATGTTAGCAA
16325375 TTGCCACCACCAC
1 TTGCCACCACCAC
16325388 TTGCCACCACCA
1 TTGCCACCACCA
16325400 TTTACACCAC
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:0.52, G:0.08, T:0.16
Consensus pattern (13 bp):
TTGCCACCACCAC
Found at i:16327143 original size:29 final size:29
Alignment explanation
Indices: 16326847--16327144 Score: 245
Period size: 29 Copynumber: 10.2 Consensus size: 29
16326837 AAAATCCCAT
*
16326847 TTTTACTCCC-AAACTTTTCCAAAATCT-TA
1 TTTTAC-CCCTAAACTTTTCCAAAAT-TACA
* *
16326876 TTTTAACCCCTAAACTTCTCTAAAATTACA
1 TTTT-ACCCCTAAACTTTTCCAAAATTACA
* **
16326906 TTTGACCCCTAAACTTTT-CAAAATTGTA
1 TTTTACCCCTAAACTTTTCCAAAATTACA
* * *
16326934 TTTTGA-CCCTCGAAC-TTTCCTAAAATCATA
1 TTTT-ACCCCT-AAACTTTTCC-AAAATTACA
* * *
16326964 TTTTAACCCTAAAACTTTTTCAAAATTGCA
1 TTTTACCCCT-AAACTTTTCCAAAATTACA
* * *
16326994 TTTTAACCCCTAAACTTCTCTAAAATCACA
1 TTTT-ACCCCTAAACTTTTCCAAAATTACA
* *
16327024 TTTTGACCCC-AAAC-TTTCTTAAAATCACA
1 TTTT-ACCCCTAAACTTTTC-CAAAATTACA
*
16327053 TTTTGA-CCCTAAACTTTTCCAAAATCACA
1 TTTT-ACCCCTAAACTTTTCCAAAATTACA
* *
16327082 TTTTAACCCTAAAC-TTTCTTAAAATTACA
1 TTTTACCCCTAAACTTTTC-CAAAATTACA
16327111 TTTTACCCCTAAACTTTTCCAAAATTACA
1 TTTTACCCCTAAACTTTTCCAAAATTACA
16327140 TTTTA
1 TTTTA
16327145 ACCTTGAATT
Statistics
Matches: 222, Mismatches: 31, Indels: 32
0.78 0.11 0.11
Matches are distributed among these distances:
28 28 0.13
29 107 0.48
30 78 0.35
31 9 0.04
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.38
Consensus pattern (29 bp):
TTTTACCCCTAAACTTTTCCAAAATTACA
Found at i:16339176 original size:78 final size:78
Alignment explanation
Indices: 16338977--16339195 Score: 287
Period size: 77 Copynumber: 2.8 Consensus size: 78
16338967 AGCCGTCCGA
* * * * ** *
16338977 TCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCTCGTGCCTAAGCCAGATTG
1 TCTTACCCCAAGCCTGGGGTAGATCACCATCAACCAATCTCTTACCTCGAGCCTGGGGCAGATTG
* *
16339042 CAGCCTTTCGATC
66 CAGCCATTAGATC
* * * * * * *
16339055 TTTTA-CCCTAGCTTAGGGTAGATCCCCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGATTG
1 TCTTACCCCAAGCCTGGGGTAGATCACCATCAACCAATCTCTTACCTCGAGCCTGGGGCAGATTG
16339119 CAGCCATTAGATC
66 CAGCCATTAGATC
16339132 TCTTACCCCAAGCCTGGGGTAGATCACCATCAACCAATCTCTTACCTCGAGCCTGGGGCAGATT
1 TCTTACCCCAAGCCTGGGGTAGATCACCATCAACCAATCTCTTACCTCGAGCCTGGGGCAGATT
16339196 ACCATCAGCC
Statistics
Matches: 118, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
77 62 0.53
78 56 0.47
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (78 bp):
TCTTACCCCAAGCCTGGGGTAGATCACCATCAACCAATCTCTTACCTCGAGCCTGGGGCAGATTG
CAGCCATTAGATC
Found at i:16339211 original size:78 final size:78
Alignment explanation
Indices: 16338977--16339311 Score: 279
Period size: 78 Copynumber: 4.3 Consensus size: 78
16338967 AGCCGTCCGA
* * * * * *
16338977 TCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCTCGTGCCTAAGCCAGATT-
1 TCTTACCCCGAGCCTAGGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTGAGGCAGATTA
* * *** *
16339041 GCAGCCTTTCGATC
66 CCA-TCAGCCAATC
* * * * * * *
16339055 TTTTA-CCCTAGCTTAGGGTAGATCCCCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGATTG
1 TCTTACCCCGAGCCTAGGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTGAGGCAGATT-
*
16339119 CAGCCATTAG---ATC
65 -A-CCATCAGCCAATC
* * * * *
16339132 TCTTACCCCAAGCCTGGGGTAGATCACCATCAACCAATCTCTTACCTCGAGCCTGGGGCAGATTA
1 TCTTACCCCGAGCCTAGGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTGAGGCAGATTA
16339197 CCATCAGCCAATC
66 CCATCAGCCAATC
* * * * * *
16339210 TCTTACCCCGAGCCTAGGGCAGATTA-CAGCCATCCGATCTCTTACCCCGAGCCTGAGGCAGGTC
1 TCTTACCCCGAGCCTAGGGCAGATCACCA-TCAACCAATCTCTTACCCCGAGCCTGAGGCAGATT
16339274 ACCATCAGCCAATC
65 ACCATCAGCCAATC
*
16339288 TCTTACCCAGAGCC-AGGGGCAGAT
1 TCTTACCCCGAGCCTA-GGGCAGAT
16339312 TGCAACCATC
Statistics
Matches: 209, Mismatches: 38, Indels: 20
0.78 0.14 0.07
Matches are distributed among these distances:
75 6 0.03
76 1 0.00
77 56 0.27
78 144 0.69
81 2 0.01
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (78 bp):
TCTTACCCCGAGCCTAGGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTGAGGCAGATTA
CCATCAGCCAATC
Found at i:16339222 original size:117 final size:117
Alignment explanation
Indices: 16339080--16339312 Score: 342
Period size: 117 Copynumber: 2.0 Consensus size: 117
16339070 GGGTAGATCC
* * * *
16339080 CCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATTAGATCTCTTACCCCAAGC
1 CCATCAACCAATCTCTTACCCCGAGCCTAGGGCAGATTACAGCCATCAGATCTCTTACCCCAAGC
* * *
16339145 CTGGGGTAGATCACCATCAACCAATCTCTTACCTC-GAGCCTGGGGCAGATTA
66 CTGAGGCAGATCACCATCAACCAATCTCTTACC-CAGAGCCAGGGGCAGATTA
* * *
16339197 CCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATTACAGCCATCCGATCTCTTACCCCGAGC
1 CCATCAACCAATCTCTTACCCCGAGCCTAGGGCAGATTACAGCCATCAGATCTCTTACCCCAAGC
* *
16339262 CTGAGGCAGGTCACCATCAGCCAATCTCTTACCCAGAGCCAGGGGCAGATT
66 CTGAGGCAGATCACCATCAACCAATCTCTTACCCAGAGCCAGGGGCAGATT
16339313 GCAACCATCC
Statistics
Matches: 103, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
116 1 0.01
117 102 0.99
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.21
Consensus pattern (117 bp):
CCATCAACCAATCTCTTACCCCGAGCCTAGGGCAGATTACAGCCATCAGATCTCTTACCCCAAGC
CTGAGGCAGATCACCATCAACCAATCTCTTACCCAGAGCCAGGGGCAGATTA
Found at i:16339325 original size:39 final size:39
Alignment explanation
Indices: 16339087--16339331 Score: 231
Period size: 39 Copynumber: 6.3 Consensus size: 39
16339077 TCCCCATCAA
* * *
16339087 CCAATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCAT
1 CCAATCTCTTACCCCGAGCCTGGGGCAGATTACAACCAT
* * * * * * *
16339126 -TAGATCTCTTACCCCAAGCCTGGGGTAGATCACCATCAA
1 CCA-ATCTCTTACCCCGAGCCTGGGGCAGATTACAACCAT
* * * *
16339165 CCAATCTCTTACCTCGAGCCTGGGGCAGATTACCATCAG
1 CCAATCTCTTACCCCGAGCCTGGGGCAGATTACAACCAT
* *
16339204 CCAATCTCTTACCCCGAGCCTAGGGCAGATTACAGCCAT
1 CCAATCTCTTACCCCGAGCCTGGGGCAGATTACAACCAT
* * * * * * *
16339243 CCGATCTCTTACCCCGAGCCTGAGGCAGGTCACCATCAG
1 CCAATCTCTTACCCCGAGCCTGGGGCAGATTACAACCAT
* * *
16339282 CCAATCTCTTACCCAGAGCCAGGGGCAGATTGCAACCAT
1 CCAATCTCTTACCCCGAGCCTGGGGCAGATTACAACCAT
*
16339321 CCAATATCTTA
1 CCAATCTCTTA
16339332 AAAAAATCCT
Statistics
Matches: 162, Mismatches: 42, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
38 1 0.01
39 160 0.99
40 1 0.01
ACGTcount: A:0.25, C:0.34, G:0.20, T:0.22
Consensus pattern (39 bp):
CCAATCTCTTACCCCGAGCCTGGGGCAGATTACAACCAT
Found at i:16340443 original size:7 final size:7
Alignment explanation
Indices: 16340431--16340463 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
16340421 TTCAAAAACA
16340431 TATATAT
1 TATATAT
16340438 TATATAT
1 TATATAT
16340445 TATATAT
1 TATATAT
*
16340452 TATTTAT
1 TATATAT
16340459 TATAT
1 TATAT
16340464 CTTTTATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TATATAT
Found at i:16341546 original size:30 final size:30
Alignment explanation
Indices: 16341513--16341699 Score: 188
Period size: 30 Copynumber: 6.3 Consensus size: 30
16341503 AAAAAATCCT
* * *
16341513 ATTTTAACCCTAAAACTTTTTTAAAATTAT
1 ATTTTAACCCTTAAACTTTTCTAAAATTAC
*
16341543 ATTTTAACCC-TAAACCTTCTCTAAAATTAC
1 ATTTTAACCCTTAAA-CTTTTCTAAAATTAC
* * *
16341573 ATTTTGACCC-TAAAC-CTTCTTAAAATCAC
1 ATTTTAACCCTTAAACTTTTC-TAAAATTAC
*
16341602 ATTTTAA-CCTTAAACTTTTCTAAAATCAC
1 ATTTTAACCCTTAAACTTTTCTAAAATTAC
*
16341631 ATTTTAA-CCTTAAACTTTCCTAAAATTAC
1 ATTTTAACCCTTAAACTTTTCTAAAATTAC
* * *
16341660 AATTTT-GCCCTTAAACTTTTCCAAAATTAT
1 -ATTTTAACCCTTAAACTTTTCTAAAATTAC
*
16341690 GTTTTAACCC
1 ATTTTAACCC
16341700 CGAATTCTCT
Statistics
Matches: 132, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
28 4 0.03
29 63 0.48
30 65 0.49
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.41
Consensus pattern (30 bp):
ATTTTAACCCTTAAACTTTTCTAAAATTAC
Found at i:16341606 original size:29 final size:29
Alignment explanation
Indices: 16341505--16341665 Score: 155
Period size: 29 Copynumber: 5.4 Consensus size: 29
16341495 TATTTTTTAA
* *
16341505 AAAATC-CTATTTTAACCCTAAAACTTTTTT
1 AAAATCAC-ATTTTAACCCT-AAACCTTCTT
* *
16341535 AAAATTATATTTTAACCCTAAACCTTCTCT
1 AAAATCACATTTTAACCCTAAACCTTCT-T
* *
16341565 AAAATTACATTTTGACCCTAAACCTTCTT
1 AAAATCACATTTTAACCCTAAACCTTCTT
* *
16341594 AAAATCACATTTTAACCTTAAA-CTTTTCT
1 AAAATCACATTTTAACCCTAAACCTTCT-T
* * *
16341623 AAAATCACATTTTAACCTTAAACTTTCCT
1 AAAATCACATTTTAACCCTAAACCTTCTT
*
16341652 AAAATTACAATTTT
1 AAAATCAC-ATTTT
16341666 GCCCTTAAAC
Statistics
Matches: 112, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
28 4 0.04
29 58 0.52
30 50 0.45
ACGTcount: A:0.38, C:0.21, G:0.01, T:0.40
Consensus pattern (29 bp):
AAAATCACATTTTAACCCTAAACCTTCTT
Found at i:16341616 original size:59 final size:58
Alignment explanation
Indices: 16341513--16341699 Score: 212
Period size: 59 Copynumber: 3.2 Consensus size: 58
16341503 AAAAAATCCT
* * * *
16341513 ATTTTAACCCTAAAACTTTTTTAAAATTATATTTTAACCCTAAACCTTCTCTAAAATTAC
1 ATTTTAACCCT-AAACTTTCTTAAAATTACATTTTAACCTTAAA-CTTTTCTAAAATTAC
* * * *
16341573 ATTTTGACCCTAAACCTTCTTAAAATCACATTTTAACCTTAAACTTTTCTAAAATCAC
1 ATTTTAACCCTAAACTTTCTTAAAATTACATTTTAACCTTAAACTTTTCTAAAATTAC
* * ** * *
16341631 ATTTTAACCTTAAACTTTCCTAAAATTACAATTTTGCCCTTAAACTTTTCCAAAATTAT
1 ATTTTAACCCTAAACTTTCTTAAAATTAC-ATTTTAACCTTAAACTTTTCTAAAATTAC
*
16341690 GTTTTAACCC
1 ATTTTAACCC
16341700 CGAATTCTCT
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
58 37 0.35
59 59 0.56
60 10 0.09
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.41
Consensus pattern (58 bp):
ATTTTAACCCTAAACTTTCTTAAAATTACATTTTAACCTTAAACTTTTCTAAAATTAC
Found at i:16341665 original size:88 final size:89
Alignment explanation
Indices: 16341505--16341675 Score: 233
Period size: 88 Copynumber: 1.9 Consensus size: 89
16341495 TATTTTTTAA
* * *
16341505 AAAATCCTATTTTAACCCTAAAACTTTTTTAAAATTATATTTTAACCCTAAACCTTCTCTAAAAT
1 AAAATCCTATTTTAACCCTAAAACTTTTCTAAAATCACATTTTAACCCTAAACCTTCTCTAAAAT
16341570 TACATTTTGACCC-TAAACCTTCTT
66 TACATTTTG-CCCTTAAACCTTCTT
* * *
16341594 AAAATCAC-ATTTTAA-CCTTAAACTTTTCTAAAATCACATTTTAACCTTAAACTTTC-CTAAAA
1 AAAATC-CTATTTTAACCCTAAAACTTTTCTAAAATCACATTTTAACCCTAAACCTTCTCTAAAA
16341656 TTACAATTTTGCCCTTAAAC
65 TTAC-ATTTTGCCCTTAAAC
16341676 TTTTCCAAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
87 13 0.18
88 46 0.63
89 13 0.18
90 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.01, T:0.39
Consensus pattern (89 bp):
AAAATCCTATTTTAACCCTAAAACTTTTCTAAAATCACATTTTAACCCTAAACCTTCTCTAAAAT
TACATTTTGCCCTTAAACCTTCTT
Found at i:16343331 original size:38 final size:37
Alignment explanation
Indices: 16343282--16343886 Score: 400
Period size: 38 Copynumber: 16.4 Consensus size: 37
16343272 TTATCTCAAA
* *
16343282 TTTTT-AAGGTTGCTTTAGACAGGTTTATCCCAACCTT
1 TTTTTAAAGGTTGCCTTAGACAGGTCTATCCCAACC-T
* * *
16343319 TTTTTAAAGGTTGACTTAGACAAGGTTTATTCCAA--T
1 TTTTTAAAGGTTGCCTTAGAC-AGGTCTATCCCAACCT
* *
16343355 CTTTTAAAGGTTGTCTTAGAC-GAGTCTATCCCAACC-
1 TTTTTAAAGGTTGCCTTAGACAG-GTCTATCCCAACCT
* * *
16343391 -TTTTAAAGGTTGTCTTAGAGA-GTCTATCCCAACTTT
1 TTTTTAAAGGTTGCCTTAGACAGGTCTATCCCAAC-CT
** *
16343427 TTTTTAAA-GTTGCCTTAGACAAATTCTATCACAA-CT
1 TTTTTAAAGGTTGCCTTAGAC-AGGTCTATCCCAACCT
* * ***
16343463 TTTTT-AAGGTTGTCTTAGACATGTCTATTTTAACCT
1 TTTTTAAAGGTTGCCTTAGACAGGTCTATCCCAACCT
* *
16343499 TTTTTATAGGTTGCCTTAGACAAGGTCTATCTCAACC-
1 TTTTTAAAGGTTGCCTTAGAC-AGGTCTATCCCAACCT
* ** * *
16343536 TTTTT-AGGGTTGTTTTATATAAGGTCTATCCCAACCGT
1 TTTTTAAAGGTTGCCTTAGA-CAGGTCTATCCCAACC-T
* * * * * * *
16343574 TTTTTAAAGATTGCTTTAAACAAAGTTTATCCGAACCA
1 TTTTTAAAGGTTGCCTTAGAC-AGGTCTATCCCAACCT
* * * * * * *
16343612 TTTTTAAAGATTGCCTTAAACAAAGTTTATCCTAAACA
1 TTTTTAAAGGTTGCCTTAGAC-AGGTCTATCCCAACCT
* * * * *
16343650 TTTTTAAATGTTGCCTTAAACAGTTGTATCCCAACCA
1 TTTTTAAAGGTTGCCTTAGACAGGTCTATCCCAACCT
* * **
16343687 TTTTTAAAGGTTGCCTTAGATAAGGTTTATCTTAACC-
1 TTTTTAAAGGTTGCCTTAGA-CAGGTCTATCCCAACCT
* *
16343724 TTTTTAAA-GTTGCCTTAGATAAGGTCTATCCCAACCA
1 TTTTTAAAGGTTGCCTTAGA-CAGGTCTATCCCAACCT
* * *
16343761 TTTTTAAAGGTTGCTTTAAACAAGATCTATCCCAA-CT
1 TTTTTAAAGGTTGCCTTAGAC-AGGTCTATCCCAACCT
* * *
16343798 TTTTT-AAGATTCCCTTA-A-ATGGTTCTATCCTAACCTT
1 TTTTTAAAGGTTGCCTTAGACA-GG-TCTATCCCAACC-T
* *
16343835 TTTTTAAAAGGTTGCCTTAGATAAGGTCTATCACAACCT
1 TTTTT-AAAGGTTGCCTTAGA-CAGGTCTATCCCAACCT
16343874 TTTTTAAAGGTTG
1 TTTTTAAAGGTTG
16343887 GTCTTGACTA
Statistics
Matches: 460, Mismatches: 75, Indels: 65
0.77 0.12 0.11
Matches are distributed among these distances:
33 1 0.00
34 14 0.03
35 48 0.10
36 112 0.24
37 88 0.19
38 133 0.29
39 50 0.11
40 11 0.02
41 2 0.00
42 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (37 bp):
TTTTTAAAGGTTGCCTTAGACAGGTCTATCCCAACCT
Found at i:16343390 original size:74 final size:70
Alignment explanation
Indices: 16343270--16343773 Score: 210
Period size: 73 Copynumber: 6.8 Consensus size: 70
16343260 TTTTACATGT
*
16343270 GTTTATCTCAAATTTTTAAGGTTGCTTTAGACAGGTTTATCCCAACCTTTTTTTAAAGGTTGACT
1 GTTTATCTCAAATTTTTAAGGTTGCTTTAGACAGGTCTATCCCAACC---TTTTAAAGGTTGACT
16343335 TAGACAAG
63 TAGACAAG
* *
16343343 GTTTAT-TCCAATCTTTTAAAGGTTG-TCTTAGAC-GAGTCTATCCCAACCTTTTAAAGGTTGTC
1 GTTTATCTCAAAT-TTTT-AAGGTTGCT-TTAGACAG-GTCTATCCCAACCTTTTAAAGGTTGAC
*
16343405 TTAGA-GA-
62 TTAGACAAG
* * * * * ** * * * *
16343412 GTCTATCCCAACTTTTTTTTAAAGTTGCCTTAGACAAATTCTATCACAACTTTTTTAAGGTTGTC
1 GTTTATCTCAA---ATTTTTAAGGTTGCTTTAGAC-AGGTCTATCCCAACCTTTTAAAGGTTGAC
*
16343477 TTAGAC-AT
62 TTAGACAAG
* * * * * * * * **
16343485 GTCTATTTTAACCTTTTTTATAGGTTGCCTTAGACAAGGTCTATCTCAACCTTTTTAGGGTTGTT
1 GTTTATCTCAA--ATTTTTA-AGGTTGCTTTAGAC-AGGTCTATCCCAACCTTTTAAAGGTTGAC
* *
16343550 TTATATAAG
62 TTAGACAAG
* * * * * * * * *
16343559 GTCTATCCCAACCGTTTTTTAAAGATTGCTTTAAACAAAGTTTATCCGAACCATTTTTAAAGATT
1 GTTTATCTCAA---ATTTTT-AAGGTTGCTTTAGAC-AGGTCTATCCCAACC--TTTTAAAGGTT
* * *
16343624 GCCTTAAACAAA
59 GACTTAGACAAG
* * * * * * *
16343636 GTTTATCCTAAACATTTTTAAATGTTGCCTTAAACAGTTGTATCCCAACCATTTTTAAAGGTTGC
1 GTTTAT-CTCAA-ATTTTT-AAGGTTGCTTTAGACAGGTCTATCCCAACC--TTTTAAAGGTTGA
*
16343701 CTTAGATAAG
61 CTTAGACAAG
* * * * *
16343711 GTTTATCTTAACCTTTTTAAAGTTGCCTTAGATAAGGTCTATCCCAACCATTTTTAAAGGTTG
1 GTTTATCTCAA-ATTTTTAAGGTTGCTTTAGA-CAGGTCTATCCCAACC--TTTTAAAGGTTG
16343774 CTTTAAACAA
Statistics
Matches: 338, Mismatches: 72, Indels: 41
0.75 0.16 0.09
Matches are distributed among these distances:
69 5 0.01
70 3 0.01
71 30 0.09
72 45 0.13
73 74 0.22
74 71 0.21
75 68 0.20
76 19 0.06
77 20 0.06
78 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.40
Consensus pattern (70 bp):
GTTTATCTCAAATTTTTAAGGTTGCTTTAGACAGGTCTATCCCAACCTTTTAAAGGTTGACTTAG
ACAAG
Found at i:16343498 original size:107 final size:108
Alignment explanation
Indices: 16343307--16343540 Score: 262
Period size: 107 Copynumber: 2.1 Consensus size: 108
16343297 TAGACAGGTT
*
16343307 TATCCCAACCTTTTTTTAAAGGTTGACTTAGACAAGGTTTATTCCAATCTTTTAAAGGTTGTCTT
1 TATCCCAACCTTTTTTTAAAGGTTGACTTAGACAAGATTTATTCCAATCTTTTAAAGGTTGTCTT
16343372 AGACGAGTCTATCCCAACCTTTTAAAGGTTGTCTTAGAGAGTC
66 AGACGAGTCTATCCCAACCTTTTAAAGGTTGTCTTAGAGAGTC
* * *
16343415 TATCCCAACTTTTTTTTAAA-GTTGCCTTAGACAA-ATTCTA-TCACAA-CTTTTTTAAGGTTGT
1 TATCCCAACCTTTTTTTAAAGGTTGACTTAGACAAGATT-TATTC-CAATC-TTTTAAAGGTTGT
*** * * *
16343476 CTTAGAC-ATGTCTATTTTAACCTTTTTTATAGGTTGCCTTAGACAAGGTC
63 CTTAGACGA-GTCTATCCCAACC--TTTTAAAGGTTGTCTTAGA-GA-GTC
*
16343526 TATCTCAACCTTTTT
1 TATCCCAACCTTTTT
16343541 AGGGTTGTTT
Statistics
Matches: 106, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
106 6 0.06
107 47 0.44
108 19 0.18
109 17 0.16
110 1 0.01
111 16 0.15
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (108 bp):
TATCCCAACCTTTTTTTAAAGGTTGACTTAGACAAGATTTATTCCAATCTTTTAAAGGTTGTCTT
AGACGAGTCTATCCCAACCTTTTAAAGGTTGTCTTAGAGAGTC
Found at i:16343501 original size:36 final size:36
Alignment explanation
Indices: 16343282--16343891 Score: 310
Period size: 36 Copynumber: 16.4 Consensus size: 36
16343272 TTATCTCAAA
* *
16343282 TTTTTAAGGTTG-CTTTAGACAGGTTTATCCCAACCTT
1 TTTTTAAGGTTGTC-TTAGACAAGTCTATCCCAACC-T
* * * *
16343319 TTTTTAAAGGTTGACTTAGACAAGGTTTATTCCAATC-
1 TTTTT-AAGGTTGTCTTAGACAA-GTCTATCCCAACCT
* *
16343356 TTTTAAAGGTTGTCTTAGACGAGTCTATCCCAACC-
1 TTTTTAAGGTTGTCTTAGACAAGTCTATCCCAACCT
* * *
16343391 TTTTAAAGGTTGTCTTAGA-GAGTCTATCCCAACTTT
1 TTTTTAAGGTTGTCTTAGACAAGTCTATCCCAAC-CT
* * * *
16343427 TTTTTAAAGTTGCCTTAGACAAATTCTATCACAA-CT
1 TTTTTAAGGTTGTCTTAGAC-AAGTCTATCCCAACCT
* ***
16343463 TTTTTAAGGTTGTCTTAGACATGTCTATTTTAACCT
1 TTTTTAAGGTTGTCTTAGACAAGTCTATCCCAACCT
* *
16343499 TTTTTATAGGTTGCCTTAGACAAGGTCTATCTCAACC-
1 TTTTTA-AGGTTGTCTTAGACAA-GTCTATCCCAACCT
* * * *
16343536 TTTTTAGGGTTGTTTTATATAAGGTCTATCCCAACCGT
1 TTTTTAAGGTTGTCTTAGACAA-GTCTATCCCAACC-T
* * * *
16343574 TTTTTAAAGATTG-CTTTAAACAAAGTTTATCCGAACCAT
1 TTTTT-AAGGTTGTC-TTAGAC-AAGTCTATCCCAACC-T
* * * * * * *
16343613 TTTTAAAGATTGCCTTAAACAAAGTTTATCCTAAACAT
1 TTTTTAAGGTTGTCTTAGAC-AAGTCTATCC-CAACCT
* * * * *
16343651 TTTTAAATGTTGCCTTAAAC-AGTTGTATCCCAACCAT
1 TTTTTAAGGTTGTCTTAGACAAG-TCTATCCCAACC-T
* * * * **
16343688 TTTTAAAGGTTGCCTTAGATAAGGTTTATCTTAACC-
1 TTTTTAAGGTTGTCTTAGACAA-GTCTATCCCAACCT
* * *
16343724 TTTTTAAAGTTGCCTTAGATAAGGTCTATCCCAACCAT
1 TTTTTAAGGTTGTCTTAGACAA-GTCTATCCCAACC-T
* *
16343762 TTTTAAAGGTTG-CTTTAAACAAGATCTATCCCAA-CT
1 TTTTTAAGGTTGTC-TTAGACAAG-TCTATCCCAACCT
* ** * *
16343798 TTTTTAAGATTCCCTTA-A-ATGGTTCTATCCTAACCTT
1 TTTTTAAGGTTGTCTTAGACA-AG-TCTATCCCAACC-T
* * *
16343835 TTTTTAAAAGGTTGCCTTAGATAAGGTCTATCACAACCT
1 TTTTT--AAGGTTGTCTTAGACAA-GTCTATCCCAACCT
16343874 TTTTTAAAGGTTGGTCTT
1 TTTTT-AAGGTT-GTCTT
16343892 GACTAGGTAC
Statistics
Matches: 461, Mismatches: 77, Indels: 68
0.76 0.13 0.11
Matches are distributed among these distances:
34 15 0.03
35 48 0.10
36 132 0.29
37 63 0.14
38 126 0.27
39 62 0.13
40 13 0.03
41 2 0.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTTTAAGGTTGTCTTAGACAAGTCTATCCCAACCT
Found at i:16343774 original size:74 final size:73
Alignment explanation
Indices: 16343273--16343882 Score: 404
Period size: 74 Copynumber: 8.3 Consensus size: 73
16343263 TACATGTGTT
* * * * *
16343273 TATCTCAA-ATTTTTAAGGTTGCTTTAGAC-AGGTTTATCCCAACCTTTTTTTAAAGGTTGACTT
1 TATCTCAACCTTTTTAAAGTTGCCTTAGACAAGGTCTATCCCAACC--TTTTTAAAGGTTGCCTT
*
16343336 AGACAAGGTT
64 AGACAAGGTC
* * * *
16343346 TAT-TCCAATC-TTTTAAAGGTTGTCTTAGACGA-GTCTATCCCAACC-TTTTAAAGGTTGTCTT
1 TATCT-CAACCTTTTTAAA-GTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAAGGTTGCCTT
*
16343407 AGA-GA-GTC
64 AGACAAGGTC
* * ** * * *
16343415 TATCCCAACTTTTTTTTAAAGTTGCCTTAGACAAATTCTATCACAA-CTTTTTTAAGGTTGTCTT
1 TATCTCAAC--CTTTTTAAAGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAAGGTTGCCTT
*
16343479 AGAC-ATGTC
64 AGACAAGGTC
* * * * * **
16343488 TATTTTAACCTTTTTTATAGGTTGCCTTAGACAAGGTCTATCTCAACCTTTTT-AGGGTTGTTTT
1 TATCTCAACC-TTTTTA-AAGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAAGGTTGCCTT
* *
16343552 ATATAAGGTC
64 AGACAAGGTC
* * * * * * *
16343562 TATCCCAACCGTTTTTTAAAGATTGCTTTAAACAAAGTTTATCCGAACCATTTTTAAAGATTGCC
1 TATCTCAACC--TTTTTAAAG-TTGCCTTAGACAAGGTCTATCCCAACC-TTTTTAAAGGTTGCC
* * *
16343627 TTAAACAAAGTT
62 TTAGACAAGGTC
* * * * *
16343639 TATCCTAAACATTTTTAAATGTTGCCTTAAAC-AGTTGTATCCCAACCATTTTTAAAGGTTGCCT
1 TAT-CTCAACCTTTTTAAA-GTTGCCTTAGACAAGGTCTATCCCAACC-TTTTTAAAGGTTGCCT
* *
16343703 TAGATAAGGTT
63 TAGACAAGGTC
* * *
16343714 TATCTTAACCTTTTTAAAGTTGCCTTAGATAAGGTCTATCCCAACCATTTTTAAAGGTTGCTTTA
1 TATCTCAACCTTTTTAAAGTTGCCTTAGACAAGGTCTATCCCAACC-TTTTTAAAGGTTGCCTTA
* *
16343779 AACAAGATC
65 GACAAGGTC
* * * * *
16343788 TATCCCAA-CTTTTTTAAGATTCCCTTA-A-ATGGTTCTATCCTAACCTTTTTTTAAAAGGTTGC
1 TATCTCAACCTTTTTAAAG-TTGCCTTAGACAAGG-TCTATCCCAACC--TTTTT-AAAGGTTGC
*
16343850 CTTAGATAAGGTC
61 CTTAGACAAGGTC
*
16343863 TATCACAACCTTTTTTAAAG
1 TATCTCAACC-TTTTTAAAG
16343883 GTTGGTCTTG
Statistics
Matches: 425, Mismatches: 83, Indels: 54
0.76 0.15 0.10
Matches are distributed among these distances:
69 8 0.02
70 1 0.00
71 31 0.07
72 45 0.11
73 87 0.20
74 108 0.25
75 92 0.22
76 24 0.06
77 25 0.06
78 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (73 bp):
TATCTCAACCTTTTTAAAGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAAGGTTGCCTTAG
ACAAGGTC
Found at i:16343782 original size:149 final size:151
Alignment explanation
Indices: 16343554--16343882 Score: 382
Period size: 149 Copynumber: 2.2 Consensus size: 151
16343544 GTTGTTTTAT
* * * *
16343554 ATAAGGTCTATCCCAACCGTTTTTTAAAGATTGCTTTAAACAAAGTTTATCCGAACCATTTTTAA
1 ATAAGGTCTATCACAACC-TTTTTTAAAGATTGCCTTAAACAAAGTCTATCCCAACCATTTTTAA
* * *
16343619 AGATTGCCTTAAACAA-AGTTTATCCTAAACATTTTTAAATG-TTGCCTTAAACAGTTGTATCCC
65 AGATTGCCTTAAACAAGA-TCTATCC-AAAC-TTTTTAAA-GATTCCCTTAAACAGTTCTATCCC
16343682 AACC-ATTTTT-AAAGGTTGCCTTAG
126 AACCTATTTTTAAAAGGTTGCCTTAG
* ** * * *
16343706 ATAAGGTTTATCTTAACC-TTTTTAAAG-TTGCCTTAGATAAGGTCTATCCCAACCATTTTTAAA
1 ATAAGGTCTATCACAACCTTTTTTAAAGATTGCCTTAAACAAAGTCTATCCCAACCATTTTTAAA
* * * * ** *
16343769 GGTTGCTTTAAACAAGATCTATCCCAACTTTTTTAAGATTCCCTTAAATGGTTCTATCCTAACCT
66 GATTGCCTTAAACAAGATCTATCCAAACTTTTTAAAGATTCCCTTAAACAGTTCTATCCCAACCT
*
16343834 TTTTTTAAAAGGTTGCCTTAG
131 ATTTTTAAAAGGTTGCCTTAG
16343855 ATAAGGTCTATCACAACCTTTTTTAAAG
1 ATAAGGTCTATCACAACCTTTTTTAAAG
16343883 GTTGGTCTTG
Statistics
Matches: 149, Mismatches: 23, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
146 1 0.01
147 28 0.19
148 8 0.05
149 78 0.52
150 19 0.13
152 15 0.10
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (151 bp):
ATAAGGTCTATCACAACCTTTTTTAAAGATTGCCTTAAACAAAGTCTATCCCAACCATTTTTAAA
GATTGCCTTAAACAAGATCTATCCAAACTTTTTAAAGATTCCCTTAAACAGTTCTATCCCAACCT
ATTTTTAAAAGGTTGCCTTAG
Found at i:16343879 original size:113 final size:114
Alignment explanation
Indices: 16343282--16343886 Score: 437
Period size: 113 Copynumber: 5.4 Consensus size: 114
16343272 TTATCTCAAA
* * * * * *
16343282 TTTTT-AAGGTTGCTTTAGAC-AGGTTTATCCCAACCTTTTTTTAAAGGTTGACTTAGACAAGGT
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACC-ATTTTTAAAGGTTGCCTTAAACAAGAT
* * * * * * * * *
16343345 TTATTCCAATC--TTTTAAAGGTTGTCTTAGACGA-GTCTATCCCAACC-
65 CTATCCCAACCATTTTTTAAGATTGCCTTAGACAAGGTTTATCCTAACCT
* * ** *
16343391 -TTTTAAAGGTTGTCTTAGA-GA-GTCTATCCCAACTTTTTTTTAAA-GTTGCCTTAGACAA-AT
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAAC-CATTTTTAAAGGTTGCCTTAAACAAGA-
* * * * * **
16343451 TCTATCACAA-C-TTTTTTAAGGTTGTCTTAGAC-ATGTCTATTTTAACCT
64 TCTATCCCAACCATTTTTTAAGATTGCCTTAGACAAGGTTTATCCTAACCT
* * * ** * * *
16343499 TTTTTATAGGTTGCCTTAGACAAGGTCTATCTCAACC-TTTTT-AGGGTTGTTTTATATAAGGTC
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCATTTTTAAAGGTTGCCTTAAACAAGATC
* * * * * *
16343562 TATCCCAACCGTTTTTTAAAGATTGCTTTAAACAAAGTTTATCCGAACCA
66 TATCCCAACCATTTTTT-AAGATTGCCTTAGACAAGGTTTATCCTAACCT
* * * * * * * * *
16343612 TTTTTAAAGATTGCCTTAAACAAAGTTTATCCTAAACATTTTTAAATGTTGCCTTAAAC-AGTTG
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCATTTTTAAAGGTTGCCTTAAACAAGATC
* * * *
16343676 TATCCCAACCATTTTTAAAGGTTGCCTTAGATAAGGTTTATCTTAACC-
66 TATCCCAACCATTTTTTAAGATTGCCTTAGACAAGGTTTATCCTAACCT
* *
16343724 TTTTTAAA-GTTGCCTTAGATAAGGTCTATCCCAACCATTTTTAAAGGTTGCTTTAAACAAGATC
1 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCATTTTTAAAGGTTGCCTTAAACAAGATC
* *
16343788 TATCCCAA-C-TTTTTTAAGATTCCCTTA-A-ATGGTTCTATCCTAACCTT
66 TATCCCAACCATTTTTTAAGATTGCCTTAGACAAGGTT-TATCCTAACC-T
* * *
16343835 TTTTTAAAAGGTTGCCTTAGATAAGGTCTATCACAACCTTTTTTAAAGGTTG
1 TTTTT-AAAGGTTGCCTTAGACAAGGTCTATCCCAACCATTTTTAAAGGTTG
16343887 GTCTTGACTA
Statistics
Matches: 394, Mismatches: 78, Indels: 44
0.76 0.15 0.09
Matches are distributed among these distances:
106 2 0.01
107 49 0.12
108 30 0.08
109 64 0.16
110 17 0.04
111 64 0.16
112 33 0.08
113 103 0.26
114 23 0.06
115 9 0.02
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (114 bp):
TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCATTTTTAAAGGTTGCCTTAAACAAGATC
TATCCCAACCATTTTTTAAGATTGCCTTAGACAAGGTTTATCCTAACCT
Found at i:16350441 original size:17 final size:18
Alignment explanation
Indices: 16350391--16350438 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
16350381 TTTTTTATAC
16350391 ATATTTTT-TACA-ACTTGT
1 ATATTTTTATACATA-TT-T
16350409 ATATTTTTATACATATTT
1 ATATTTTTATACATATTT
16350427 ATATTTTATATA
1 ATATTTT-TATA
16350439 TATACATATC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 16 0.59
19 10 0.37
20 1 0.04
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.58
Consensus pattern (18 bp):
ATATTTTTATACATATTT
Found at i:16350496 original size:59 final size:54
Alignment explanation
Indices: 16350408--16350554 Score: 145
Period size: 59 Copynumber: 2.6 Consensus size: 54
16350398 TTACAACTTG
* * *
16350408 TATATTTTTATACATATTTATATTTTATATATATACATATCAATGTTATATCCA
1 TATATTTTTATACATATATATATTTTATATATATAAATATCAATGTTATATACA
* *
16350462 TATATTTATTAATACATATATACTAACTTTTATATATATAAATATCTATTTTATATACA
1 TATATTT-TT-ATACATATATA-T-A-TTTTATATATATAAATATCAATGTTATATACA
* * * *
16350521 TACA--TATATATATATATATATTTACATATATATA
1 TATATTTTTATACATATATATATTT-TATATATATA
16350555 CTGTTATTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
52 3 0.04
53 10 0.13
54 8 0.10
55 12 0.15
56 11 0.14
57 2 0.03
58 1 0.01
59 31 0.40
ACGTcount: A:0.41, C:0.08, G:0.01, T:0.50
Consensus pattern (54 bp):
TATATTTTTATACATATATATATTTTATATATATAAATATCAATGTTATATACA
Found at i:16350497 original size:2 final size:2
Alignment explanation
Indices: 16350492--16350554 Score: 56
Period size: 2 Copynumber: 32.0 Consensus size: 2
16350482 TACTAACTTT
* * * * *
16350492 TA TA TA TA TA AA TA TC TA T- TT TA TA TA CA TA CA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
16350533 TA TA TA TA TT TA CA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
16350555 CTGTTATTTT
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:16358061 original size:24 final size:24
Alignment explanation
Indices: 16357985--16358123 Score: 192
Period size: 24 Copynumber: 5.9 Consensus size: 24
16357975 TCATTTATCG
* * * *
16357985 TTCGCGAATATGTTTGTTTA-GCG
1 TTCGCGAACATGTTCGTTTATACA
16358008 TTCGCGAACATGTTCGTTTA-ACA
1 TTCGCGAACATGTTCGTTTATACA
16358031 TTCGCGAACATGTTCGTTTATACA
1 TTCGCGAACATGTTCGTTTATACA
*
16358055 TTTGCGAACATGTTCGTTTATACA
1 TTCGCGAACATGTTCGTTTATACA
* * *
16358079 TTTGCGAACATGTTCATTTATATA
1 TTCGCGAACATGTTCGTTTATACA
16358103 TTCGCGAACATGTTCGTTTAT
1 TTCGCGAACATGTTCGTTTAT
16358124 GTTCGTGAAT
Statistics
Matches: 106, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
23 39 0.37
24 67 0.63
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (24 bp):
TTCGCGAACATGTTCGTTTATACA
Found at i:16358854 original size:16 final size:16
Alignment explanation
Indices: 16358833--16358863 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
16358823 AATCACCATA
16358833 GTTTTCCTTACAAATG
1 GTTTTCCTTACAAATG
16358849 GTTTTCCTTACAAAT
1 GTTTTCCTTACAAAT
16358864 AAACACTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (16 bp):
GTTTTCCTTACAAATG
Found at i:16368113 original size:24 final size:24
Alignment explanation
Indices: 16368086--16368152 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
16368076 GTTAACTATT
16368086 CTGGGCTCGTAAGAGCTAACCATC
1 CTGGGCTCGTAAGAGCTAACCATC
*
16368110 CTGGGTTCGTAAGAGCTAACCATC
1 CTGGGCTCGTAAGAGCTAACCATC
*
16368134 CCGGGCTCGTGAA-AGCTAA
1 CTGGGCTCGT-AAGAGCTAA
16368153 TGTTGTTTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
24 37 0.95
25 2 0.05
ACGTcount: A:0.25, C:0.27, G:0.27, T:0.21
Consensus pattern (24 bp):
CTGGGCTCGTAAGAGCTAACCATC
Found at i:16371583 original size:13 final size:13
Alignment explanation
Indices: 16371565--16371589 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16371555 TAAACCCAAG
16371565 CCCAAAAGAAAAA
1 CCCAAAAGAAAAA
16371578 CCCAAAAGAAAA
1 CCCAAAAGAAAA
16371590 CAAACCCTAA
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:0.68, C:0.24, G:0.08, T:0.00
Consensus pattern (13 bp):
CCCAAAAGAAAAA
Found at i:16372536 original size:60 final size:61
Alignment explanation
Indices: 16372462--16372678 Score: 210
Period size: 60 Copynumber: 3.6 Consensus size: 61
16372452 TAAAATTTTT
* *
16372462 TTTGACCCCCAAACTTTCTAAAAA-TAGAAATTTGACCCTTAAACTTTCCAAAAATTAAAA
1 TTTGACCCCCAAACTTTCTAAAAATTAGAAATTTGACCCTTAAATTTTCCAAAAATTCAAA
* * * * * *
16372522 TTTGACCTCTAAACTTTC-AAGAAATTTG-AATTTGACCCTTGAATTTTCTAAAAATTCCAA
1 TTTGACCCCCAAACTTTCTAA-AAATTAGAAATTTGACCCTTAAATTTTCCAAAAATTCAAA
* * * * * *
16372582 TTTAACCCCCAAAATTTCTAAAAATTA-TAATTCGACCCTCAAATTTTCCAAAAATTCGAA
1 TTTGACCCCCAAACTTTCTAAAAATTAGAAATTTGACCCTTAAATTTTCCAAAAATTCAAA
* ** * * *
16372642 TTTGATCCCTGAAGTTTCCAAAAATT-CAAATTTGACC
1 TTTGACCCCCAAACTTTCTAAAAATTAGAAATTTGACC
16372679 TGGTTTTAAT
Statistics
Matches: 126, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
59 2 0.02
60 120 0.95
61 4 0.03
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.34
Consensus pattern (61 bp):
TTTGACCCCCAAACTTTCTAAAAATTAGAAATTTGACCCTTAAATTTTCCAAAAATTCAAA
Found at i:16372637 original size:90 final size:90
Alignment explanation
Indices: 16372506--16372674 Score: 218
Period size: 90 Copynumber: 1.9 Consensus size: 90
16372496 ACCCTTAAAC
* * *
16372506 TTTCCAAAAATTAAAATTTGACCTCTAAACTTTCAAGAAATTTGAATTTGA-CCCTTGAATTTTC
1 TTTCCAAAAATTAAAATTCGACCTCTAAACTTTCAAGAAATTCGAATTTGATCCC-TGAAGTTTC
* *
16372570 TAAAAATTCCAATTTAACCCCCAAAA
65 CAAAAATTCAAATTTAACCCCCAAAA
* * *
16372596 TTTCTAAAAATTATAATTCGACC-CTCAAATTTTCCAA-AAATTCGAATTTGATCCCTGAAGTTT
1 TTTCCAAAAATTAAAATTCGACCTCT-AAACTTT-CAAGAAATTCGAATTTGATCCCTGAAGTTT
16372659 CCAAAAATTCAAATTT
64 CCAAAAATTCAAATTT
16372675 GACCTGGTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
89 2 0.03
90 60 0.88
91 6 0.09
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.36
Consensus pattern (90 bp):
TTTCCAAAAATTAAAATTCGACCTCTAAACTTTCAAGAAATTCGAATTTGATCCCTGAAGTTTCC
AAAAATTCAAATTTAACCCCCAAAA
Found at i:16372660 original size:30 final size:29
Alignment explanation
Indices: 16372462--16372678 Score: 150
Period size: 30 Copynumber: 7.2 Consensus size: 29
16372452 TAAAATTTTT
* * * **
16372462 TTTGACCCCCAAACTTTCTAAAAATAGAAA
1 TTTGA-CCCTAAATTTTCCAAAAATTCAAA
* *
16372492 TTTGACCCTTAAACTTTCCAAAAATTAAAA
1 TTTGACCC-TAAATTTTCCAAAAATTCAAA
* **
16372522 TTTGACCTCTAAACTTT-CAAGAAATTTGAA
1 TTTGACC-CTAAATTTTCCAA-AAATTCAAA
* * *
16372552 TTTGACCCTTGAATTTTCTAAAAATTCCAA
1 TTTGACCC-TAAATTTTCCAAAAATTCAAA
* * * *
16372582 TTTAACCCCCAAAATTTCTAAAAATT-ATAA
1 TTTGA-CCCTAAATTTTCCAAAAATTCA-AA
* *
16372612 TTCGACCCTCAAATTTTCCAAAAATTCGAA
1 TTTGACCCT-AAATTTTCCAAAAATTCAAA
* *
16372642 TTTGATCCCTGAAGTTTCCAAAAATTCAAA
1 TTTGA-CCCTAAATTTTCCAAAAATTCAAA
16372672 TTTGACC
1 TTTGACC
16372679 TGGTTTTAAT
Statistics
Matches: 151, Mismatches: 26, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
29 12 0.08
30 129 0.85
31 10 0.07
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.34
Consensus pattern (29 bp):
TTTGACCCTAAATTTTCCAAAAATTCAAA
Found at i:16373462 original size:36 final size:36
Alignment explanation
Indices: 16373422--16373495 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
16373412 TTTCCAACAT
*
16373422 GTAAATCGAGACTTGTTTTTGTTTTTTTCAAAAAAG
1 GTAAATCGAGACTTGTTTTTATTTTTTTCAAAAAAG
*
16373458 GTAAATCGAGGCTTGTTTTTATTTTTTTCAAAAAAG
1 GTAAATCGAGACTTGTTTTTATTTTTTTCAAAAAAG
16373494 GT
1 GT
16373496 TTCGATAGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.45
Consensus pattern (36 bp):
GTAAATCGAGACTTGTTTTTATTTTTTTCAAAAAAG
Found at i:16382402 original size:62 final size:62
Alignment explanation
Indices: 16382305--16382426 Score: 226
Period size: 62 Copynumber: 2.0 Consensus size: 62
16382295 AAGTCCTATT
16382305 GAGGTGTGTTGATTCTGTTGAGGCTAAGAAAATCTTAGAAGAAGTTCATGAGGGTGTTTGTA
1 GAGGTGTGTTGATTCTGTTGAGGCTAAGAAAATCTTAGAAGAAGTTCATGAGGGTGTTTGTA
* *
16382367 GAGGTGTGTTGATTCTGTTGAGGCTTAGAAAATCTTAGGAGAAGTTCATGAGGGTGTTTG
1 GAGGTGTGTTGATTCTGTTGAGGCTAAGAAAATCTTAGAAGAAGTTCATGAGGGTGTTTG
16382427 CGGAATGCAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.25, C:0.07, G:0.34, T:0.34
Consensus pattern (62 bp):
GAGGTGTGTTGATTCTGTTGAGGCTAAGAAAATCTTAGAAGAAGTTCATGAGGGTGTTTGTA
Found at i:16384575 original size:79 final size:79
Alignment explanation
Indices: 16384480--16384781 Score: 478
Period size: 79 Copynumber: 3.8 Consensus size: 79
16384470 AAATGGAGCA
*
16384480 AAGACCATCCGATCTCTTACCCCGACCATGGTGCAGATTGAAGCAATCCAATCTTTTACCCTAAC
1 AAGACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAAC
* *
16384545 CAAAGGGCAGATCG
66 CAGAGGGCAGATTG
*
16384559 AAGACCATCCGATCTCTTACCTCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAAC
1 AAGACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAAC
*
16384624 CAGAGTGCAGATTG
66 CAGAGGGCAGATTG
*
16384638 AAGACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATTCAATCTTTTACCCTAAC
1 AAGACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAAC
* * * *
16384703 TAGTGGGCAAATTA
66 CAGAGGGCAGATTG
* * *
16384717 AAGACCATCAGATCTCTTACCCCGACCATGGGGCAGATTGAAACAATTCAATCTTTTACCTCTAA
1 AAGACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACC-CTAA
16384782 AGCTATAAAT
Statistics
Matches: 208, Mismatches: 14, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
79 204 0.98
80 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (79 bp):
AAGACCATCCGATCTCTTACCCCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAAC
CAGAGGGCAGATTG
Found at i:16386295 original size:86 final size:88
Alignment explanation
Indices: 16386159--16386333 Score: 216
Period size: 86 Copynumber: 2.0 Consensus size: 88
16386149 TTGTTTTTTG
**
16386159 ACCCTTAAACTTTTCAAAAATTTGAATTTAACCCCTAAATTTTTAAAAAATTCCAATTTG-CCTA
1 ACCCTTAAACTTTTCAAAAATTCAAATTTAACCCCTAAATTTTTAAAAAATTCCAATTTGCCCTA
*
16386223 AA-TTTCCAAAAATTCTAATTTA
66 AAGTTTCCAAAAATTCAAATTTA
***
16386245 ACCCTTAAA-TTTTCCAAAAATTCAAATTTAA-CCCTCAAATTTTCT-AAAAATTTTGATTTGAC
1 ACCCTTAAACTTTT-CAAAAATTCAAATTTAACCCCT-AAATTTT-TAAAAAATTCCAATTTG--
16386307 CCCTAAAGTTTCCAAAAATTCAAATTT
61 CCCTAAAGTTTCCAAAAATTCAAATTT
16386334 GACCTGGTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
85 8 0.11
86 43 0.57
87 1 0.01
89 6 0.08
90 18 0.24
ACGTcount: A:0.40, C:0.19, G:0.03, T:0.38
Consensus pattern (88 bp):
ACCCTTAAACTTTTCAAAAATTCAAATTTAACCCCTAAATTTTTAAAAAATTCCAATTTGCCCTA
AAGTTTCCAAAAATTCAAATTTA
Found at i:16386334 original size:30 final size:30
Alignment explanation
Indices: 16386155--16386337 Score: 162
Period size: 30 Copynumber: 6.2 Consensus size: 30
16386145 AAAATTGTTT
* **
16386155 TTTGACCCTTAAACTTTT-CAAAAATTTGAA
1 TTTGACCCCTAAA-TTTTCCAAAAATTCAAA
* ** *
16386185 TTTAACCCCTAAATTTTTAAAAAATTCCAA
1 TTTGACCCCTAAATTTTCCAAAAATTCAAA
*
16386215 TTTG---CCTAAA-TTTCCAAAAATTCTAA
1 TTTGACCCCTAAATTTTCCAAAAATTCAAA
* *
16386241 TTTAACCCTTAAATTTTCCAAAAATTCAAA
1 TTTGACCCCTAAATTTTCCAAAAATTCAAA
* * ***
16386271 TTT-AACCCTCAAATTTTCTAAAAATTTTGA
1 TTTGACCCCT-AAATTTTCCAAAAATTCAAA
*
16386301 TTTGACCCCTAAAGTTTCCAAAAATTCAAA
1 TTTGACCCCTAAATTTTCCAAAAATTCAAA
16386331 TTTGACC
1 TTTGACC
16386338 TGGTTTTAAT
Statistics
Matches: 122, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
26 16 0.13
27 6 0.05
29 13 0.11
30 82 0.67
31 5 0.04
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.38
Consensus pattern (30 bp):
TTTGACCCCTAAATTTTCCAAAAATTCAAA
Done.