Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 170 of 172
Found at i:50519402 original size:13 final size:13
Alignment explanation
Indices: 50519384--50519408 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50519374 AATAATTCAT
50519384 TTTATAATATTAG
1 TTTATAATATTAG
50519397 TTTATAATATTA
1 TTTATAATATTA
50519409 TTTTTAAATC
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:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
TTTATAATATTAG
Found at i:50526529 original size:35 final size:35
Alignment explanation
Indices: 50526490--50526560 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
50526480 TTCCCATTTA
50526490 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
1 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
50526525 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
1 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
50526560 A
1 A
50526561 TCTTCTATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (35 bp):
AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
Found at i:50527133 original size:42 final size:42
Alignment explanation
Indices: 50527079--50527171 Score: 170
Period size: 42 Copynumber: 2.2 Consensus size: 42
50527069 TTTGTTTACA
*
50527079 TTTC-ATCAACCAAATATATATAATAATATATCAATTTCCAT
1 TTTCAATCCACCAAATATATATAATAATATATCAATTTCCAT
50527120 TTTCAATCCACCAAATATATATAATAATATATCAATTTCCAT
1 TTTCAATCCACCAAATATATATAATAATATATCAATTTCCAT
50527162 TTTCAATCCA
1 TTTCAATCCA
50527172 TTTCACCAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 4 0.08
42 46 0.92
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (42 bp):
TTTCAATCCACCAAATATATATAATAATATATCAATTTCCAT
Found at i:50528738 original size:41 final size:44
Alignment explanation
Indices: 50528668--50528800 Score: 164
Period size: 45 Copynumber: 3.0 Consensus size: 44
50528658 ATGCTATCTC
* * *
50528668 ATATCGATGCCACTGTCCCGGACAGGGTCTTACACGAATCA-A-
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAATCACAT
*
50528710 ATA-CGATGCCAATGTCCTAGACATGGTCTTACACGTAATCACAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACG-AATCACAT
* * *
50528754 ATATCGATGCCATTGTCCCAGACGTGGTCTTACACGAGAACACAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGA-ATCACAT
50528799 AT
1 AT
50528801 CGAAAATCTT
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
41 28 0.36
42 8 0.10
43 1 0.01
44 4 0.05
45 37 0.47
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (44 bp):
ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAATCACAT
Found at i:50528798 original size:45 final size:44
Alignment explanation
Indices: 50528613--50528800 Score: 163
Period size: 45 Copynumber: 4.2 Consensus size: 44
50528603 ATACTCGGAT
* * *
50528613 AATCACATATATCGAACAATGCCAACGTCCCAGATGTGGTCTTACATG
1 AATCACATATATCG----ATGCCAATGTCCCAGACGTGGTCTTACACG
* * * *
50528661 CTATCTC--ATATCGATGCCACTGTCCCGGACAG-GGTCTTACACG
1 -AATCACATATATCGATGCCAATGTCCCAGAC-GTGGTCTTACACG
* *
50528704 AATCA-A-ATA-CGATGCCAATGTCCTAGACATGGTCTTACACG
1 AATCACATATATCGATGCCAATGTCCCAGACGTGGTCTTACACG
*
50528745 TAATCACATATATCGATGCCATTGTCCCAGACGTGGTCTTACACG
1 -AATCACATATATCGATGCCAATGTCCCAGACGTGGTCTTACACG
*
50528790 AGAACACATAT
1 A-ATCACATAT
50528801 CGAAAATCTT
Statistics
Matches: 114, Mismatches: 17, Indels: 20
0.75 0.11 0.13
Matches are distributed among these distances:
41 27 0.24
42 11 0.10
43 24 0.21
44 5 0.04
45 37 0.32
47 6 0.05
49 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (44 bp):
AATCACATATATCGATGCCAATGTCCCAGACGTGGTCTTACACG
Found at i:50530636 original size:13 final size:14
Alignment explanation
Indices: 50530598--50530639 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
50530588 ATTGACATCC
*
50530598 ATATTTAATAAAAA
1 ATATATAATAAAAA
*
50530612 ATATATATTAAAAA
1 ATATATAATAAAAA
*
50530626 TTATA-AATAAAAA
1 ATATATAATAAAAA
50530639 A
1 A
50530640 ATTTCCAAGC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
13 7 0.30
14 16 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATATATAATAAAAA
Found at i:50541026 original size:6 final size:6
Alignment explanation
Indices: 50541015--50541045 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
50541005 ATAATTTTAC
50541015 TATTTT TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT TATTTT T
50541046 TGAGCTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:50560128 original size:3 final size:3
Alignment explanation
Indices: 50560120--50560158 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
50560110 ATGATCATGA
* * *
50560120 CAT CAT CAT CAT CAT CTT CTT CAT CAT CAT CAT CTT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
50560159 ACTGGGTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.41
Consensus pattern (3 bp):
CAT
Found at i:50560145 original size:15 final size:15
Alignment explanation
Indices: 50560120--50560158 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
50560110 ATGATCATGA
*
50560120 CATCATCATCATCAT
1 CATCTTCATCATCAT
*
50560135 CTTCTTCATCATCAT
1 CATCTTCATCATCAT
50560150 CATCTTCAT
1 CATCTTCAT
50560159 ACTGGGTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.41
Consensus pattern (15 bp):
CATCTTCATCATCAT
Found at i:50560145 original size:18 final size:18
Alignment explanation
Indices: 50560122--50560156 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
50560112 GATCATGACA
50560122 TCATCATCATCATCTTCT
1 TCATCATCATCATCTTCT
50560140 TCATCATCATCATCTTC
1 TCATCATCATCATCTTC
50560157 ATACTGGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.34, G:0.00, T:0.43
Consensus pattern (18 bp):
TCATCATCATCATCTTCT
Found at i:50568644 original size:16 final size:16
Alignment explanation
Indices: 50568623--50568662 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
50568613 TTTAAACCCA
*
50568623 AAATAATC-TGAATTTG
1 AAATAATCAT-AATCTG
50568639 AAATAATCATAATCTG
1 AAATAATCATAATCTG
50568655 AAATAATC
1 AAATAATC
50568663 CAAACTCGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (16 bp):
AAATAATCATAATCTG
Found at i:50572993 original size:38 final size:38
Alignment explanation
Indices: 50572942--50573017 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
50572932 AAGCTAAGTT
50572942 TGCTCAAAATGTTCATCCAAGTTTTTGTGTTTACATTA
1 TGCTCAAAATGTTCATCCAAGTTTTTGTGTTTACATTA
50572980 TGCTCAAAATGTTCATCCAAGTTTTTGTGTTTACATTA
1 TGCTCAAAATGTTCATCCAAGTTTTTGTGTTTACATTA
50573018 CCTTTTCCCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (38 bp):
TGCTCAAAATGTTCATCCAAGTTTTTGTGTTTACATTA
Found at i:50581167 original size:5 final size:5
Alignment explanation
Indices: 50581128--50581165 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
50581118 ATTTAATTAT
* *
50581128 TATAA TATAA TATAA TATAA TATAA TATTA TATTA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
50581166 TAACTTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (5 bp):
TATAA
Found at i:50596119 original size:22 final size:23
Alignment explanation
Indices: 50596076--50596119 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
50596066 TATTCTATTA
50596076 ATAAAATCATGTAAAATTTAATC
1 ATAAAATCATGTAAAATTTAATC
* *
50596099 ATAAAATTAT-TAACATTTAAT
1 ATAAAATCATGTAAAATTTAAT
50596120 TTTTATCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (23 bp):
ATAAAATCATGTAAAATTTAATC
Found at i:50596225 original size:61 final size:61
Alignment explanation
Indices: 50596159--50596280 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
50596149 TAAATACTAA
50596159 AAAATTAATATTGTTAACAAAAAGAGGGAAAAACTACCTATACTTATTTGACCTATTTGAT
1 AAAATTAATATTGTTAACAAAAAGAGGGAAAAACTACCTATACTTATTTGACCTATTTGAT
50596220 AAAATTAATATTGTTAACAAAAAGAGGGAAAAACTACCTATACTTATTTGACCTATTTGAT
1 AAAATTAATATTGTTAACAAAAAGAGGGAAAAACTACCTATACTTATTTGACCTATTTGAT
50596281 TCAAAGCAAC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (61 bp):
AAAATTAATATTGTTAACAAAAAGAGGGAAAAACTACCTATACTTATTTGACCTATTTGAT
Found at i:50602496 original size:9 final size:8
Alignment explanation
Indices: 50602478--50602508 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
50602468 AGAAAGTACT
50602478 CAAATTGA
1 CAAATTGA
50602486 CAAATTTGA
1 CAAA-TTGA
50602495 CAAATTGA
1 CAAATTGA
50602503 CAAATT
1 CAAATT
50602509 AATTTCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (8 bp):
CAAATTGA
Found at i:50611083 original size:19 final size:20
Alignment explanation
Indices: 50611045--50611085 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
50611035 AATGGTGCTA
*
50611045 AATTTTGATTAGTATTTAGC
1 AATTTTAATTAGTATTTAGC
*
50611065 AATTTTAATTTGT-TTTAGC
1 AATTTTAATTAGTATTTAGC
50611084 AA
1 AA
50611086 CTTGGCAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.51
Consensus pattern (20 bp):
AATTTTAATTAGTATTTAGC
Found at i:50616092 original size:17 final size:17
Alignment explanation
Indices: 50616070--50616106 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
50616060 TCTATTAGAC
50616070 ATTTT-AAAAATGGTTCA
1 ATTTTAAAAAATGGTT-A
50616087 ATTTTAAAAAATGGTTA
1 ATTTTAAAAAATGGTTA
50616104 ATT
1 ATT
50616107 AAAATTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (17 bp):
ATTTTAAAAAATGGTTA
Found at i:50617612 original size:73 final size:70
Alignment explanation
Indices: 50617465--50617691 Score: 216
Period size: 73 Copynumber: 3.2 Consensus size: 70
50617455 AGAATAGTAA
* * ***
50617465 ATAAATAGATAAAATAAATAATAAATAACATCAAATTTAAACGTTTAAAAAGTAAA-AGA-AA-A
1 ATAAATAGATAAAA-CAAT-ATAAATAACATTAAATTTAAGTATTTAAAAAGTAAAGA-ATAATA
*
50617527 AA-CAA--
63 AATAAATG
* *
50617532 ATAAATAGATAAAACACATATAAATAACATTCAATTTAAGTATTTAAAAGGTAATAGAATAATAA
1 ATAAATAGATAAAACA-ATATAAATAACATTAAATTTAAGTATTTAAAAAGTAA-AGAATAATAA
*
50617597 GTAAATAG
64 ATAAAT-G
* * *
50617605 ATAAATAGATAAAGCTAATATAAATAAGATTAAATTTAGGTATTTAAAAAGTAAAGAATAATAAA
1 ATAAATAGATAAAAC-AATATAAATAACATTAAATTTAAGTATTTAAAAAGTAAAGAATAATAAA
50617670 TAAATG
65 TAAATG
* *
50617676 A-ATATATATAAAACAA
1 ATAAATAGATAAAACAA
50617692 ATAGGGATAA
Statistics
Matches: 132, Mismatches: 18, Indels: 18
0.79 0.11 0.11
Matches are distributed among these distances:
66 30 0.23
67 18 0.14
68 3 0.02
69 4 0.03
70 12 0.09
71 2 0.02
72 15 0.11
73 47 0.36
74 1 0.01
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.27
Consensus pattern (70 bp):
ATAAATAGATAAAACAATATAAATAACATTAAATTTAAGTATTTAAAAAGTAAAGAATAATAAAT
AAATG
Found at i:50622586 original size:16 final size:16
Alignment explanation
Indices: 50622553--50622586 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50622543 TAGTTTTGTT
* *
50622553 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
50622569 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
50622585 AA
1 AA
50622587 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:50625411 original size:21 final size:21
Alignment explanation
Indices: 50625385--50625425 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50625375 AGACGAGCAA
* *
50625385 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
50625406 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
50625426 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:50627363 original size:16 final size:16
Alignment explanation
Indices: 50627330--50627363 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50627320 GGAGATTGTT
* *
50627330 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
50627346 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
50627362 AA
1 AA
50627364 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:50637741 original size:30 final size:30
Alignment explanation
Indices: 50637695--50637818 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
50637685 TTTTATTATG
*
50637695 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
50637726 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
50637756 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
50637786 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
50637816 CCA
1 CCA
50637819 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:50637750 original size:15 final size:15
Alignment explanation
Indices: 50637705--50637812 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
50637695 CCAATATCTC
50637705 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
50637720 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
50637735 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
50637750 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
50637765 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
50637780 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
50637795 GATACCCATATCTTT
1 GATACCCATATCTTT
50637810 GAT
1 GAT
50637813 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:50642332 original size:30 final size:30
Alignment explanation
Indices: 50642286--50642379 Score: 134
Period size: 30 Copynumber: 3.1 Consensus size: 30
50642276 TTTTATTATG
*
50642286 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
50642317 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * * *
50642347 CTATTATTTGATACACATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
50642377 CCA
1 CCA
50642380 TAAATATGGA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 50 0.88
31 7 0.12
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:50642341 original size:15 final size:15
Alignment explanation
Indices: 50642296--50642373 Score: 52
Period size: 15 Copynumber: 5.2 Consensus size: 15
50642286 CCAATATCTC
50642296 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
50642311 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
50642326 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
50642341 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
*
50642356 GATACACATATCTTT
1 GATACCCATATCTTT
50642371 GAT
1 GAT
50642374 TTTCCATAAA
Statistics
Matches: 44, Mismatches: 15, Indels: 8
0.66 0.22 0.12
Matches are distributed among these distances:
14 7 0.16
15 29 0.66
16 8 0.18
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:50642878 original size:22 final size:23
Alignment explanation
Indices: 50642835--50642881 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
50642825 AAACAATGAG
50642835 AATAAAAGATTATGATAATTTAAA
1 AATAAAAGA-TATGATAATTTAAA
**
50642859 AATAAAAGA-ATGATTGTTTAAA
1 AATAAAAGATATGATAATTTAAA
50642881 A
1 A
50642882 CTTTTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.57
24 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (23 bp):
AATAAAAGATATGATAATTTAAA
Found at i:50644486 original size:32 final size:31
Alignment explanation
Indices: 50644439--50644563 Score: 232
Period size: 31 Copynumber: 4.0 Consensus size: 31
50644429 AGATAATTTT
*
50644439 AAAGAGTTTTATTAGGATTCAATTACTCTTT
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
50644470 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
1 AAAGAG-TTTTATTAGGATTCAATTACTCTTG
50644502 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
50644533 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
50644564 TAATTTGCCT
Statistics
Matches: 92, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
31 62 0.67
32 30 0.33
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:50644512 original size:63 final size:62
Alignment explanation
Indices: 50644439--50644563 Score: 232
Period size: 63 Copynumber: 2.0 Consensus size: 62
50644429 AGATAATTTT
*
50644439 AAAGAGTTTTATTAGGATTCAATTACTCTTTAAAGAGTTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTGAAAGAG-TTTTATTAGGATTCAATTACTCTTG
50644502 AAAGAGTTTTATTAGGATTCAATTACTCTTGAAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTGAAAGAGTTTTATTAGGATTCAATTACTCTTG
50644564 TAATTTGCCT
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
62 25 0.41
63 36 0.59
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (62 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTGAAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:50655668 original size:29 final size:30
Alignment explanation
Indices: 50655629--50655686 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
50655619 TAATACAATA
* *
50655629 TTAAGAATTTAAGAATTCAA-TTAAAATATT
1 TTAAGAATTTAA-AAATAAATTTAAAATATT
50655659 TTAA-AATTTAAAAATAAATTTAAAATAT
1 TTAAGAATTTAAAAATAAATTTAAAATAT
50655687 CAACATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.20
29 16 0.64
30 4 0.16
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (30 bp):
TTAAGAATTTAAAAATAAATTTAAAATATT
Found at i:50659930 original size:2 final size:2
Alignment explanation
Indices: 50659913--50659947 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
50659903 CCAATTTCTC
*
50659913 AT AT AC AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50659948 TTTTCAGACA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:50666230 original size:7 final size:7
Alignment explanation
Indices: 50666218--50666243 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
50666208 TAATAAAAAA
50666218 TTATATT
1 TTATATT
50666225 TTATATT
1 TTATATT
50666232 TTATATT
1 TTATATT
50666239 TTATA
1 TTATA
50666244 ATTCAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTATATT
Found at i:50674363 original size:19 final size:19
Alignment explanation
Indices: 50674339--50674405 Score: 134
Period size: 19 Copynumber: 3.5 Consensus size: 19
50674329 GAAAGAGAAG
50674339 GTAACCATGGCATGGTTAA
1 GTAACCATGGCATGGTTAA
50674358 GTAACCATGGCATGGTTAA
1 GTAACCATGGCATGGTTAA
50674377 GTAACCATGGCATGGTTAA
1 GTAACCATGGCATGGTTAA
50674396 GTAACCATGG
1 GTAACCATGG
50674406 TTTATGTATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (19 bp):
GTAACCATGGCATGGTTAA
Found at i:50677468 original size:16 final size:16
Alignment explanation
Indices: 50677447--50677477 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50677437 AAGAAACGAT
*
50677447 AAATATGTATATATAA
1 AAATATGTACATATAA
50677463 AAATATGTACATATA
1 AAATATGTACATATA
50677478 TATGGGTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (16 bp):
AAATATGTACATATAA
Found at i:50679787 original size:44 final size:44
Alignment explanation
Indices: 50679738--50679975 Score: 168
Period size: 44 Copynumber: 5.5 Consensus size: 44
50679728 ACCTACTCTG
* * * **
50679738 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTTACTTCAATCTGCTCCA
* * ** * * *
50679782 CTGTAACTTCAGGGAGATAGGATAGTGT-CTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCCTTTACTTCAATCTGCTCCA
* **
50679825 CTGTAATCTCAGGGAGATAAGAT-CTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCT-TTACTTCAATCTGCTCCA
*
50679869 CTGTAACCTCAGGGAGATAAGATCC--T--TT-AATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTTACTTCAATCTGCTCCA
* * * * * * ** *
50679908 TTGTAATCTCAAGGAGATAGGATTACTAT-CTTTGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGA-TCCTTTACTTCAATCTGCTCCA
*
50679952 CTGTAATCTCAGGGAGATAAGATC
1 CTGTAACCTCAGGGAGATAAGATC
50679976 TGAAATTCTT
Statistics
Matches: 151, Mismatches: 35, Indels: 17
0.74 0.17 0.08
Matches are distributed among these distances:
39 28 0.19
40 4 0.03
42 2 0.01
43 32 0.21
44 84 0.56
45 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CTGTAACCTCAGGGAGATAAGATCCTTTACTTCAATCTGCTCCA
Found at i:50680845 original size:13 final size:14
Alignment explanation
Indices: 50680827--50680858 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
50680817 AAAGATGGCG
50680827 AAAGAAAG-GTAAC
1 AAAGAAAGTGTAAC
50680840 AAAG-AAGTGTAAC
1 AAAGAAAGTGTAAC
50680853 AAAGAA
1 AAAGAA
50680859 GTGGATTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 13 0.76
14 1 0.06
ACGTcount: A:0.62, C:0.06, G:0.22, T:0.09
Consensus pattern (14 bp):
AAAGAAAGTGTAAC
Found at i:50680859 original size:13 final size:13
Alignment explanation
Indices: 50680835--50680861 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50680825 CGAAAGAAAG
50680835 GTAACAAAGAAGT
1 GTAACAAAGAAGT
50680848 GTAACAAAGAAGT
1 GTAACAAAGAAGT
50680861 G
1 G
50680862 GATTGAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.07, G:0.26, T:0.15
Consensus pattern (13 bp):
GTAACAAAGAAGT
Found at i:50728191 original size:3 final size:3
Alignment explanation
Indices: 50728161--50728199 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
50728151 AATTAAAAGG
* * *
50728161 ATA ATA ACA ATA ATG ATA ATA GTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
50728200 GGACTAGATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:50729374 original size:27 final size:27
Alignment explanation
Indices: 50729295--50729387 Score: 149
Period size: 27 Copynumber: 3.6 Consensus size: 27
50729285 GTTTTTTGTT
*
50729295 TTGGGTT-TTGGGCTGAGGGTAGGCTA
1 TTGGGTTATTGGGCTAAGGGTAGGCTA
50729321 TTGGG-TATT-GGCTAA-GGTAGGCTA
1 TTGGGTTATTGGGCTAAGGGTAGGCTA
50729345 TTGGGTTATTGGGCTAAGGGTAGGCTA
1 TTGGGTTATTGGGCTAAGGGTAGGCTA
50729372 TTGGGTTATTGGGCTA
1 TTGGGTTATTGGGCTA
50729388 GTGGTTCTGA
Statistics
Matches: 62, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
24 14 0.23
25 10 0.16
26 13 0.21
27 25 0.40
ACGTcount: A:0.16, C:0.08, G:0.41, T:0.35
Consensus pattern (27 bp):
TTGGGTTATTGGGCTAAGGGTAGGCTA
Found at i:50729735 original size:44 final size:44
Alignment explanation
Indices: 50729687--50729779 Score: 150
Period size: 44 Copynumber: 2.1 Consensus size: 44
50729677 CTCTACTGCC
* *
50729687 ACTTCAGAGAGATAAAATTCTTTATTTTAATCCGCTCCACTGTA
1 ACTTCAGAGAGATAAAATCCTTTATTTTAATCCACTCCACTGTA
* *
50729731 ACTTCAGGGAGATAAGATCCTTTATTTTAATCCACTCCACTGTA
1 ACTTCAGAGAGATAAAATCCTTTATTTTAATCCACTCCACTGTA
50729775 ACTTC
1 ACTTC
50729780 GGGGCTAGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (44 bp):
ACTTCAGAGAGATAAAATCCTTTATTTTAATCCACTCCACTGTA
Found at i:50730548 original size:17 final size:18
Alignment explanation
Indices: 50730503--50730548 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
50730493 TTCCTTACTA
50730503 TTATTATTTAGTATTTTGC
1 TTATTATTTAG-ATTTTGC
50730522 TTATTTATTTA-ATTTT-C
1 TTA-TTATTTAGATTTTGC
50730539 TTTATTATTT
1 -TTATTATTT
50730549 TTGAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 7 0.28
18 8 0.32
19 3 0.12
20 7 0.28
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (18 bp):
TTATTATTTAGATTTTGC
Found at i:50736078 original size:6 final size:7
Alignment explanation
Indices: 50736062--50736095 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
50736052 TTTAAATCTT
*
50736062 AAAAAGT
1 AAAAAGA
50736069 AAAAAGA
1 AAAAAGA
50736076 AAAAAG-
1 AAAAAGA
50736082 AAAAAGA
1 AAAAAGA
50736089 AAAAAGA
1 AAAAAGA
50736096 GATTAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (7 bp):
AAAAAGA
Found at i:50736085 original size:13 final size:13
Alignment explanation
Indices: 50736062--50736095 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
50736052 TTTAAATCTT
50736062 AAAAAGTAAAAAGA
1 AAAAAG-AAAAAGA
50736076 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
50736089 AAAAAGA
1 AAAAAGA
50736096 GATTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (13 bp):
AAAAAGAAAAAGA
Found at i:50742481 original size:31 final size:31
Alignment explanation
Indices: 50742446--50742511 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
50742436 TATTTATATT
* *
50742446 GTTATTTTCAGTTGGGCCATTTGACTAATGG
1 GTTATTTCCAGTTGGGACATTTGACTAATGG
* *
50742477 GTTATTTCCATTTGGGACATTTGATTAATGG
1 GTTATTTCCAGTTGGGACATTTGACTAATGG
50742508 GTTA
1 GTTA
50742512 AGCCCACTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.21, C:0.11, G:0.24, T:0.44
Consensus pattern (31 bp):
GTTATTTCCAGTTGGGACATTTGACTAATGG
Found at i:50743129 original size:6 final size:6
Alignment explanation
Indices: 50743118--50743142 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50743108 AAATTTCGGG
50743118 TTAAAT TTAAAT TTAAAT TTAAAT T
1 TTAAAT TTAAAT TTAAAT TTAAAT T
50743143 ACTTTGGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:50744676 original size:34 final size:35
Alignment explanation
Indices: 50744632--50744698 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
50744622 CAGTAAAATA
*
50744632 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
50744666 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
50744699 CTACTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:50749445 original size:12 final size:12
Alignment explanation
Indices: 50749430--50749455 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50749420 TAATTTTTAA
50749430 CAGTGAAATCAC
1 CAGTGAAATCAC
50749442 CAGTGAAATCAC
1 CAGTGAAATCAC
50749454 CA
1 CA
50749456 ATTGAGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.15
Consensus pattern (12 bp):
CAGTGAAATCAC
Found at i:50759464 original size:3 final size:3
Alignment explanation
Indices: 50759456--50759487 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
50759446 CATTGACGTA
50759456 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
50759488 ACTGACCTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:50759707 original size:21 final size:22
Alignment explanation
Indices: 50759683--50759725 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
50759673 TTAAAGCTTA
50759683 AACTGAAACC-AAAGGATTGAC
1 AACTGAAACCAAAAGGATTGAC
*
50759704 AACTGAAACCAAAAGGTTTGAC
1 AACTGAAACCAAAAGGATTGAC
50759726 CTTTAACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.16
Consensus pattern (22 bp):
AACTGAAACCAAAAGGATTGAC
Found at i:50764743 original size:20 final size:20
Alignment explanation
Indices: 50764707--50764748 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
50764697 ACATATGATG
*
50764707 ATTTGATTTTAATTTTTATT
1 ATTTGATTTTAAATTTTATT
*
50764727 ATTTG-TTTATAAATTTTTTT
1 ATTTGATTT-TAAATTTTATT
50764747 AT
1 AT
50764749 CATGCTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (20 bp):
ATTTGATTTTAAATTTTATT
Found at i:50765540 original size:30 final size:28
Alignment explanation
Indices: 50765506--50765581 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 28
50765496 GTTATTGTGT
*
50765506 ATTAATTTATAATTTTATTATTTTGTAAGG
1 ATTAATATATAATTTTATTATTTT-T-AGG
** *
50765536 ATTAATATATTTTTTTTTTATTTTTAGG
1 ATTAATATATAATTTTATTATTTTTAGG
*
50765564 AGTTAAAATATAATTTTA
1 A-TTAATATATAATTTTA
50765582 CTATATATTA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
28 4 0.11
29 13 0.35
30 20 0.54
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (28 bp):
ATTAATATATAATTTTATTATTTTTAGG
Found at i:50771550 original size:52 final size:51
Alignment explanation
Indices: 50771479--50771687 Score: 293
Period size: 52 Copynumber: 4.1 Consensus size: 51
50771469 ATCAAGTGAC
*
50771479 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGT-G
* *
50771531 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* *
50771582 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
*
50771629 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-AAGTG
50771681 ATAAGTG
1 A-AAGTG
50771688 GCTACACTTA
Statistics
Matches: 143, Mismatches: 6, Indels: 15
0.87 0.04 0.09
Matches are distributed among these distances:
46 43 0.30
51 1 0.01
52 94 0.66
53 5 0.03
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.27
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
Found at i:50771655 original size:98 final size:99
Alignment explanation
Indices: 50771471--50771687 Score: 301
Period size: 98 Copynumber: 2.1 Consensus size: 99
50771461 TACTTCTGAT
*
50771471 CAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-----GAAAGT
* *
50771536 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
60 GATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
* *
50771576 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-AAAGTGATAAG
1 CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACGAAAGTGATAAG
*
50771640 TGATAGCTTTAGCTACACTTATCTGATCAAGAGA
66 TGATAGCTTCAGCTACACTTATCTGATCAAGAGA
*
50771674 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
50771688 GCTACACTTA
Statistics
Matches: 104, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
98 43 0.41
99 11 0.11
104 43 0.41
105 7 0.07
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (99 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACGAAAGTGATAAG
TGATAGCTTCAGCTACACTTATCTGATCAAGAGA
Found at i:50771660 original size:46 final size:44
Alignment explanation
Indices: 50771583--50771798 Score: 199
Period size: 37 Copynumber: 5.3 Consensus size: 44
50771573 TGACAAGTGA
*
50771583 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAGAC
50771629 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGC-TT-GCTACACTTATCTGATCAAGAGAC
*
50771675 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
50771712 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
50771749 AAAGTGAT-AG-G-T-G---GCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
50771785 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
50771799 CATACGTAAG
Statistics
Matches: 160, Mismatches: 5, Indels: 18
0.87 0.03 0.10
Matches are distributed among these distances:
35 7 0.04
36 7 0.04
37 89 0.56
38 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 51 0.32
47 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:50771695 original size:37 final size:37
Alignment explanation
Indices: 50771651--50771796 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
50771641 GATAGCTTTA
*
50771651 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
50771688 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
50771725 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
50771762 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
50771797 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:50773111 original size:49 final size:49
Alignment explanation
Indices: 50773050--50773242 Score: 314
Period size: 49 Copynumber: 3.9 Consensus size: 49
50773040 ATGTGAACAT
50773050 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
50773100 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
50773149 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * * *
50773198 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACAATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
50773243 AGAAAACGAA
Statistics
Matches: 136, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
49 132 0.97
50 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:50779164 original size:52 final size:51
Alignment explanation
Indices: 50779080--50779286 Score: 275
Period size: 52 Copynumber: 4.1 Consensus size: 51
50779070 ATCAAGTGAC
*
50779080 AAAGTGATAAGTG-TAGCTT-AGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGT-G
* *
50779130 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* *
50779181 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
*
50779228 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-AAGTG
50779280 ATAAGTG
1 A-AAGTG
50779287 GCTACACTTA
Statistics
Matches: 141, Mismatches: 6, Indels: 17
0.86 0.04 0.10
Matches are distributed among these distances:
46 43 0.30
50 13 0.09
51 7 0.05
52 73 0.52
53 5 0.04
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
Found at i:50779259 original size:46 final size:44
Alignment explanation
Indices: 50779182--50779397 Score: 199
Period size: 37 Copynumber: 5.3 Consensus size: 44
50779172 TGACAAGTGA
*
50779182 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAGAC
50779228 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGC-TT-GCTACACTTATCTGATCAAGAGAC
*
50779274 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
50779311 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
50779348 AAAGTGAT-AG-G-T-G---GCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
50779384 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
50779398 CATACGTAAG
Statistics
Matches: 160, Mismatches: 5, Indels: 18
0.87 0.03 0.10
Matches are distributed among these distances:
35 7 0.04
36 7 0.04
37 89 0.56
38 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 51 0.32
47 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:50779294 original size:37 final size:37
Alignment explanation
Indices: 50779250--50779395 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
50779240 GATAGCTTTA
*
50779250 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
50779287 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
50779324 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
50779361 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
50779396 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:50781004 original size:2 final size:2
Alignment explanation
Indices: 50780997--50781023 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50780987 ATTTATACAT
50780997 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
50781024 TTGCAATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50795256 original size:79 final size:80
Alignment explanation
Indices: 50795168--50795315 Score: 217
Period size: 79 Copynumber: 1.9 Consensus size: 80
50795158 TTGATCCGCG
* * *
50795168 CATTAAAATCATGCTTTAATTTTGTTATAATATTATTGTTTTCGTGTGCTTTAAAAATATAAATT
1 CATTAAAATCATGCTTTAATTATGTTATAATATTATTATTTTCGTATGCTTTAAAAATATAAATT
50795233 TCAAATCGATCTGCA
66 TCAAATCGATCTGCA
* * * **
50795248 CATT-AAATCGTGTTTTAATTATGTTATAATATTTTTATTTTTTTATGCTTTAAAAATATAAATT
1 CATTAAAATCATGCTTTAATTATGTTATAATATTATTATTTTCGTATGCTTTAAAAATATAAATT
50795312 TCAA
66 TCAA
50795316 CAATAATGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 56 0.93
80 4 0.07
ACGTcount: A:0.34, C:0.09, G:0.08, T:0.49
Consensus pattern (80 bp):
CATTAAAATCATGCTTTAATTATGTTATAATATTATTATTTTCGTATGCTTTAAAAATATAAATT
TCAAATCGATCTGCA
Found at i:50795710 original size:16 final size:16
Alignment explanation
Indices: 50795691--50795721 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50795681 TGTAAGTTCA
50795691 AATTATTTTAAATTTT
1 AATTATTTTAAATTTT
*
50795707 AATTATTTTGAATTT
1 AATTATTTTAAATTT
50795722 GAGTTAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
AATTATTTTAAATTTT
Found at i:50796681 original size:18 final size:19
Alignment explanation
Indices: 50796654--50796690 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
50796644 TCGAATTAAG
*
50796654 AAATACTTTTAT-TATTTT
1 AAATAATTTTATATATTTT
50796672 AAATAATTTTATATATTTT
1 AAATAATTTTATATATTTT
50796691 CATTTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
AAATAATTTTATATATTTT
Found at i:50799618 original size:116 final size:116
Alignment explanation
Indices: 50799414--50799645 Score: 464
Period size: 116 Copynumber: 2.0 Consensus size: 116
50799404 AACACTATGA
50799414 TGACTCCTAGAATGCACAATCACAAGCATAAACAACATTTGTTAATTTTTATGTTATCAACTGTT
1 TGACTCCTAGAATGCACAATCACAAGCATAAACAACATTTGTTAATTTTTATGTTATCAACTGTT
50799479 TTTATCCTTGAAGTAAATTAAATAGTTATATGATAGCTATGATAAAAAGGC
66 TTTATCCTTGAAGTAAATTAAATAGTTATATGATAGCTATGATAAAAAGGC
50799530 TGACTCCTAGAATGCACAATCACAAGCATAAACAACATTTGTTAATTTTTATGTTATCAACTGTT
1 TGACTCCTAGAATGCACAATCACAAGCATAAACAACATTTGTTAATTTTTATGTTATCAACTGTT
50799595 TTTATCCTTGAAGTAAATTAAATAGTTATATGATAGCTATGATAAAAAGGC
66 TTTATCCTTGAAGTAAATTAAATAGTTATATGATAGCTATGATAAAAAGGC
50799646 ACAGTGAATG
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 116 1.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (116 bp):
TGACTCCTAGAATGCACAATCACAAGCATAAACAACATTTGTTAATTTTTATGTTATCAACTGTT
TTTATCCTTGAAGTAAATTAAATAGTTATATGATAGCTATGATAAAAAGGC
Found at i:50802837 original size:21 final size:21
Alignment explanation
Indices: 50802811--50802851 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50802801 TCAACGTTTC
50802811 TTTAATAAT-TTTATTATATAT
1 TTTAATAATATTT-TTATATAT
*
50802832 TTTAATCATATTTTTATATA
1 TTTAATAATATTTTTATATA
50802852 ATGTTTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTAATAATATTTTTATATAT
Found at i:50803797 original size:20 final size:20
Alignment explanation
Indices: 50803774--50803915 Score: 89
Period size: 19 Copynumber: 7.2 Consensus size: 20
50803764 AAAGGTTGTA
50803774 AAAAAATTATTAAAAATTAT
1 AAAAAATTATTAAAAATTAT
** *
50803794 AAAAAA--GCTGAAAATTAT
1 AAAAAATTATTAAAAATTAT
*
50803812 AAAAAATTAAATAAAAA-TAGT
1 AAAAAATT-ATTAAAAATTA-T
* *
50803833 AAAAAA-TATTAAAATTTGT
1 AAAAAATTATTAAAAATTAT
* * * *
50803852 AAATAATTATCAAATATTGT
1 AAAAAATTATTAAAAATTAT
* *
50803872 -AAAAATGT-TTTAAAATTGT
1 AAAAAAT-TATTAAAAATTAT
50803891 AAAAAAAGTTATTAAAAATTAT
1 -AAAAAA-TTATTAAAAATTAT
50803913 AAA
1 AAA
50803916 GTTTGTAAAA
Statistics
Matches: 92, Mismatches: 19, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
18 15 0.16
19 25 0.27
20 21 0.23
21 21 0.23
22 10 0.11
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (20 bp):
AAAAAATTATTAAAAATTAT
Found at i:50803809 original size:28 final size:29
Alignment explanation
Indices: 50803775--50803846 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 29
50803765 AAGGTTGTAA
50803775 AAAAATTATTAAAAATT-ATAAAAA-AGCT
1 AAAAATTATTAAAAATTAATAAAAATAG-T
* *
50803803 GAAAATTATAAAAAATTAAATAAAAATAGT
1 AAAAATTATTAAAAATT-AATAAAAATAGT
*
50803833 AAAAAATATTAAAA
1 AAAAATTATTAAAA
50803847 TTTGTAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 15 0.42
30 19 0.53
31 2 0.06
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.26
Consensus pattern (29 bp):
AAAAATTATTAAAAATTAATAAAAATAGT
Found at i:50803816 original size:39 final size:38
Alignment explanation
Indices: 50803772--50803915 Score: 112
Period size: 39 Copynumber: 3.7 Consensus size: 38
50803762 AGAAAGGTTG
* *
50803772 TAAAAAAATTATTAAAAATTATAAAAAAGCTGAAAA-T
1 TAAAAAAATTATTAAAAATTATAAAAAAGATTAAAATT
* *
50803809 TATAAAAAATTAAATAAAAA-TAGTAAAAAATATTAAAATT
1 TA-AAAAAATT-ATTAAAAATTA-TAAAAAAGATTAAAATT
* * * * * * *
50803849 TGTAAATAATTATCAAATATTGTAAAAATGTTTTAAAATT
1 T-AAAAAAATTATTAAAAATTATAAAAAAG-ATTAAAATT
50803889 GTAAAAAAAGTTATTAAAAATTATAAA
1 -TAAAAAAA-TTATTAAAAATTATAAA
50803916 GTTTGTAAAA
Statistics
Matches: 80, Mismatches: 18, Indels: 14
0.71 0.16 0.12
Matches are distributed among these distances:
37 2 0.03
38 10 0.12
39 30 0.38
40 23 0.29
41 15 0.19
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (38 bp):
TAAAAAAATTATTAAAAATTATAAAAAAGATTAAAATT
Found at i:50813369 original size:26 final size:27
Alignment explanation
Indices: 50813325--50813378 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
50813315 CCAAAATAAA
*
50813325 AGAAATAAGAATTATTAA-TATATTAC
1 AGAAATAAAAATTATTAATTATATTAC
*
50813351 AGAAATAAAAATGTA-TAATTTTATTAC
1 AGAAATAAAAAT-TATTAATTATATTAC
50813378 A
1 A
50813379 TTTATAACGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (27 bp):
AGAAATAAAAATTATTAATTATATTAC
Found at i:50819198 original size:26 final size:28
Alignment explanation
Indices: 50819133--50819204 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
50819123 ATAAGAAAAT
* *
50819133 TTATTATTAAGAATTTTATGAAATTATATA
1 TTATTATT-A-AATTATATGAAATAATATA
*
50819163 TTATTATTAAATTATATGTAATAATA-A
1 TTATTATTAAATTATATGAAATAATATA
50819190 TTATT-TTAAATTATA
1 TTATTATTAAATTATA
50819205 CAAATTCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 10 0.26
27 6 0.15
28 14 0.36
29 1 0.03
30 8 0.21
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (28 bp):
TTATTATTAAATTATATGAAATAATATA
Found at i:50819274 original size:18 final size:17
Alignment explanation
Indices: 50819246--50819280 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50819236 ATTATTTTAA
*
50819246 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
50819263 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
50819281 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:50819405 original size:15 final size:15
Alignment explanation
Indices: 50819370--50819421 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
50819360 TTAAGAATTT
*
50819370 TATTAAATTAT-ATA
1 TATTTAATTATAATA
50819384 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
50819398 TATTTAATAATAAT-
1 TATTTAATTATAATA
50819412 TATGTTAATT
1 TAT-TTAATT
50819422 TATATTTACA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:50819481 original size:119 final size:119
Alignment explanation
Indices: 50819245--50819662 Score: 678
Period size: 119 Copynumber: 3.4 Consensus size: 119
50819235 AATTATTTTA
* *
50819245 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTAT-AT
*
50819308 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
50819365 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTA
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTA
50819430 CAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 CAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
50819484 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATA-TTT
*
50819549 ACAATATCATATATTATGAATATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 ACAGTATC--ATA-TAT---TATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
50819610 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
50819663 TAAATATGAT
Statistics
Matches: 283, Mismatches: 6, Indels: 12
0.94 0.02 0.04
Matches are distributed among these distances:
119 123 0.43
120 59 0.21
121 2 0.01
122 3 0.01
123 3 0.01
126 93 0.33
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (119 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTA
CAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:50819524 original size:15 final size:15
Alignment explanation
Indices: 50819489--50819540 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
50819479 TTAAGAATTT
*
50819489 TATTAAATTAT-ATA
1 TATTTAATTATAATA
50819503 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
50819517 TATTTAATAATAAT-
1 TATTTAATTATAATA
50819531 TATGTTAATT
1 TAT-TTAATT
50819541 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:50819639 original size:18 final size:17
Alignment explanation
Indices: 50819611--50819645 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50819601 ATTATTAAGA
*
50819611 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
50819628 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
50819646 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:50824691 original size:31 final size:31
Alignment explanation
Indices: 50824656--50824722 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
50824646 GAAAACACTA
50824656 AAGTTCAAGCTCC-AATG-TGAGAACAATTGTC
1 AAGTTCAAGC-CCTAATGTTG-GAACAATTGTC
* *
50824687 AAGTTCAGGCCCTAGTGTTGGAACAATTGTC
1 AAGTTCAAGCCCTAATGTTGGAACAATTGTC
50824718 AAGTT
1 AAGTT
50824723 TTGGGACTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 2 0.06
31 28 0.88
32 2 0.06
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (31 bp):
AAGTTCAAGCCCTAATGTTGGAACAATTGTC
Found at i:50826678 original size:11 final size:11
Alignment explanation
Indices: 50826663--50826752 Score: 91
Period size: 11 Copynumber: 8.4 Consensus size: 11
50826653 AAAAATTAAA
50826663 AAAAAGTATTTT
1 AAAAA-TATTTT
50826675 AAAAATATTTT
1 AAAAATATTTT
50826686 AAAAAGTATTTT
1 AAAAA-TATTTT
50826698 AAAAATATTTT
1 AAAAATATTTT
*
50826709 --AAA-A-TTA
1 AAAAATATTTT
* *
50826716 AAAAATA-ATA
1 AAAAATATTTT
50826726 AAAAAGTATTTT
1 AAAAA-TATTTT
50826738 AAAAATATTTT
1 AAAAATATTTT
50826749 AAAA
1 AAAA
50826753 TTAAAAAAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
7 2 0.03
8 1 0.01
9 6 0.09
10 8 0.12
11 29 0.43
12 22 0.32
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:50826689 original size:23 final size:23
Alignment explanation
Indices: 50826663--50826752 Score: 111
Period size: 23 Copynumber: 4.2 Consensus size: 23
50826653 AAAAATTAAA
50826663 AAAAAGTATTTTAAAAATATTTT
1 AAAAAGTATTTTAAAAATATTTT
50826686 AAAAAGTATTTTAAAAATATTTT
1 AAAAAGTATTTTAAAAATATTTT
* * *
50826709 --AAA--A-TTAAAAAATA-ATA
1 AAAAAGTATTTTAAAAATATTTT
50826726 AAAAAGTATTTTAAAAATATTTT
1 AAAAAGTATTTTAAAAATATTTT
50826749 AAAA
1 AAAA
50826753 TTAAAAAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
17 1 0.02
18 9 0.16
19 4 0.07
21 4 0.07
22 9 0.16
23 28 0.51
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (23 bp):
AAAAAGTATTTTAAAAATATTTT
Found at i:50826719 original size:40 final size:40
Alignment explanation
Indices: 50826686--50826770 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
50826676 AAAATATTTT
50826686 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAATA
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAATA
50826726 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAA-AATTA
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAA-TA
50826766 AAAAA
1 AAAAA
50826771 TAAATATATT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
39 2 0.05
40 42 0.95
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (40 bp):
AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAATA
Found at i:50831036 original size:31 final size:31
Alignment explanation
Indices: 50830955--50831022 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
50830945 ATATAACTTG
* **
50830955 ATAACTTAAATAAAAATTTTTAAATAATTCA
1 ATAATTTAAATAAATTTTTTTAAATAATTCA
* *
50830986 ATAATTTAAATAAATTTTTTTAAATGATTTA
1 ATAATTTAAATAAATTTTTTTAAATAATTCA
50831017 ATAATT
1 ATAATT
50831023 ATTTAATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (31 bp):
ATAATTTAAATAAATTTTTTTAAATAATTCA
Found at i:50833287 original size:28 final size:28
Alignment explanation
Indices: 50833256--50833309 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
50833246 CATAAATAAA
* *
50833256 TAAATTCGAAA-CTCAAAATCTAAAATCT
1 TAAATCCGAAATC-CAAAAACTAAAATCT
50833284 TAAATCCGAAATCCAAAAACTAAAAT
1 TAAATCCGAAATCCAAAAACTAAAAT
50833310 TCGAAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.54, C:0.19, G:0.04, T:0.24
Consensus pattern (28 bp):
TAAATCCGAAATCCAAAAACTAAAATCT
Found at i:50833295 original size:21 final size:21
Alignment explanation
Indices: 50833271--50833315 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
50833261 TCGAAACTCA
* * *
50833271 AAATCTAAAATCTTAAATCCG
1 AAATCCAAAAACTAAAATCCG
*
50833292 AAATCCAAAAACTAAAATTCG
1 AAATCCAAAAACTAAAATCCG
50833313 AAA
1 AAA
50833316 AAACAAAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.18, G:0.04, T:0.22
Consensus pattern (21 bp):
AAATCCAAAAACTAAAATCCG
Found at i:50836386 original size:16 final size:16
Alignment explanation
Indices: 50836346--50836379 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
50836336 TGATAAAATA
50836346 ATATTTAAGGATAAAC
1 ATATTTAAGGATAAAC
50836362 ATATTTAAGGATAAAC
1 ATATTTAAGGATAAAC
50836378 AT
1 AT
50836380 GATTAAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (16 bp):
ATATTTAAGGATAAAC
Found at i:50837530 original size:130 final size:130
Alignment explanation
Indices: 50837309--50837631 Score: 499
Period size: 130 Copynumber: 2.5 Consensus size: 130
50837299 ATTCTAATGC
* *
50837309 TATGTTTAAGAACGTGAACTTGAAA-ATTTG-GATTTAGGTTTCAATTACTCTATAAATCGTGAG
1 TATGATTAAGAACGTGAACTTGAAAGATTTGAG-TTTAGATTTCAATTACTCTATAAATCGTGAG
*
50837372 GAGAATGAAATTTATACTTAAAATTAGTTGAGTTTCAGTATGATTATATATCTCGAATTCAATTA
65 GAGAATGAAATTTATACTCAAAATTAGTTGAGTTTCAGTATGATTATATATCTCGAATTCAATTA
50837437 G
130 G
*
50837438 TATGATTAAGAACGTGAATTTGAAAGATTTGAGTTTAGATTTCAATTACTCTATAAATC-TCGAG
1 TATGATTAAGAACGTGAACTTGAAAGATTTGAGTTTAGATTTCAATTACTCTATAAATCGT-GAG
* * *
50837502 GAGAATGAAATTTCTACTCGAAATTAGTTGAGTTTCAGTATGATTATATATTTCGAATTCAATTA
65 GAGAATGAAATTTATACTCAAAATTAGTTGAGTTTCAGTATGATTATATATCTCGAATTCAATTA
50837567 G
130 G
* * * * *
50837568 CATGATTAAGAACATGAACTTGAAAGCTCTGAGTTTAGATTTCAAGTACTCTATAAATCGTGAG
1 TATGATTAAGAACGTGAACTTGAAAGATTTGAGTTTAGATTTCAATTACTCTATAAATCGTGAG
50837632 AAGAGTAAAA
Statistics
Matches: 177, Mismatches: 13, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
129 24 0.14
130 151 0.85
131 2 0.01
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (130 bp):
TATGATTAAGAACGTGAACTTGAAAGATTTGAGTTTAGATTTCAATTACTCTATAAATCGTGAGG
AGAATGAAATTTATACTCAAAATTAGTTGAGTTTCAGTATGATTATATATCTCGAATTCAATTAG
Found at i:50837726 original size:85 final size:85
Alignment explanation
Indices: 50837564--50837727 Score: 215
Period size: 85 Copynumber: 1.9 Consensus size: 85
50837554 TCGAATTCAA
**
50837564 TTAGCATGATTAAGAACATGAACTTGAAAGCTCTGAGTTTAGATTTCAAGTACTCTATAAATCGT
1 TTAGCATGATTAAGAACATGAACTTGAAAGCTCTGAGTTTAGATTTCAAGTACTCTATAAATCAC
*
50837629 GAGAAGAGTAAAATCTATAG
66 GAGAAGAATAAAATCTATAG
* * * * *
50837649 TTAGTATGATTAAGAATATGAATTTGAAA-CATTTGAGTTTGGATTTC-AGTTACTCTATAAATC
1 TTAGCATGATTAAGAACATGAACTTGAAAGC-TCTGAGTTTAGATTTCAAG-TACTCTATAAATC
*
50837712 ACGAGGAGAATAAAAT
64 ACGAGAAGAATAAAAT
50837728 GTTTACTTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 3 0.04
85 65 0.96
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (85 bp):
TTAGCATGATTAAGAACATGAACTTGAAAGCTCTGAGTTTAGATTTCAAGTACTCTATAAATCAC
GAGAAGAATAAAATCTATAG
Found at i:50837837 original size:214 final size:215
Alignment explanation
Indices: 50837434--50837855 Score: 618
Period size: 214 Copynumber: 2.0 Consensus size: 215
50837424 TCGAATTCAA
* * *
50837434 TTAGTATGATTAAGAACGTGAATTTGAAAGATTTGAGTTTAGATTTCAATTACTCTATAAATCTC
1 TTAGTATGATTAAGAACATGAATTTGAAACATTTGAGTTTAGATTTCAATTACTCTATAAATCAC
* *
50837499 GAGGAGAATGAAATTTCTACTCGAAATTAGTTGAGTTTCAGTATGATTATATATTTCGAATTCAA
66 GAGGAGAATAAAATTTCTACTCGAAATTAGTTAAGTTTCAGTATGATTATATATTTCGAATTCAA
* *
50837564 TTAGCATGATTAAGAACATGAACTTGAAAGCTCTGAGTTTAGATTTCAAGTACTCTATAAATCGT
131 TTAGCATGATTAAGAACAGGAACTTGAAAGCTCTGAGTTTAGATTTAAAGTACTCTATAAATCGT
50837629 GAGAAGAGTAAAATCTATAG
196 GAGAAGAGTAAAATCTATAG
* * *
50837649 TTAGTATGATTAAGAATATGAATTTGAAACATTTGAGTTTGGATTTCAGTTACTCTATAAATCAC
1 TTAGTATGATTAAGAACATGAATTTGAAACATTTGAGTTTAGATTTCAATTACTCTATAAATCAC
* * *
50837714 GAGGAGAATAAAATGTT-TACT-TAAATTA-TTCAAGTTTCTGTTTGATTATATATTTCGAATT-
66 GAGGAGAATAAAAT-TTCTACTCGAAATTAGTT-AAGTTTCAGTATGATTATATATTTCGAATTC
* * * *
50837775 TATATAGTATGATTAAGAACAGGAACTTGAAAGCTTTGAGTTTAGATTTAAATTACTCTATAAAT
129 AAT-TAGCATGATTAAGAACAGGAACTTGAAAGCTCTGAGTTTAGATTTAAAGTACTCTATAAAT
**
50837840 CGTGAGGGGAGTAAAA
193 CGTGAGAAGAGTAAAA
50837856 CGCATATTTA
Statistics
Matches: 185, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
213 4 0.02
214 103 0.56
215 76 0.41
216 2 0.01
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.37
Consensus pattern (215 bp):
TTAGTATGATTAAGAACATGAATTTGAAACATTTGAGTTTAGATTTCAATTACTCTATAAATCAC
GAGGAGAATAAAATTTCTACTCGAAATTAGTTAAGTTTCAGTATGATTATATATTTCGAATTCAA
TTAGCATGATTAAGAACAGGAACTTGAAAGCTCTGAGTTTAGATTTAAAGTACTCTATAAATCGT
GAGAAGAGTAAAATCTATAG
Found at i:50837880 original size:129 final size:129
Alignment explanation
Indices: 50837647--50838028 Score: 450
Period size: 129 Copynumber: 2.9 Consensus size: 129
50837637 TAAAATCTAT
* * *
50837647 AGTTAGTATGATTAAGAATATGAATTTGAAA-CATTTGAGTTTGGATTTCAGTTACTCTATAAAT
1 AGTTAGTATGATTAAGAACATGAA-TTGAAAGCATTTGAGTTTAGATTTCAATTACTCTATAAAT
** * * * * *
50837711 CACGAGGAGAATAAAATGTTTACTTAAATTA-TTCAAGTTTCTGTTTGATTATATATTTCGAATT
65 CGTGAGGGGAATAAAATGTATACTTAAATTAGTT-GAGTTTCAGTATGATTATATATTTCGAATT
*
50837775 T
129 C
* *
50837776 A-TATAGTATGATTAAGAACAGGAACTTGAAAGC-TTTGAGTTTAGATTTAAATTACTCTATAAA
1 AGT-TAGTATGATTAAGAACATGAA-TTGAAAGCATTTGAGTTTAGATTTCAATTACTCTATAAA
* * * * * *
50837839 TCGTGAGGGGAGTAAAACGCATATTTAAATTAGTTGAGTTTCAGCATGATTATATATTCCGAATT
64 TCGTGAGGGGAATAAAATGTATACTTAAATTAGTTGAGTTTCAGTATGATTATATATTTCGAATT
50837904 C
129 C
* *
50837905 AGTTAGTATGATTAAGAACATGAATTTAAAGACATTTGAGTTTAGATTTCAATTACTGTATAAAT
1 AGTTAGTATGATTAAGAACATGAATTGAAAG-CATTTGAGTTTAGATTTCAATTACTCTATAAAT
* * *
50837970 CGTGAGGAGAAAAAAAATGTATACTTAAATTAGTTGAGATTT-AGTGTGATTATATATTT
65 CGTGAGG-GGAATAAAATGTATACTTAAATTAGTTGAG-TTTCAGTATGATTATATATTT
50838029 AAAAGATATA
Statistics
Matches: 212, Mismatches: 33, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
128 7 0.03
129 124 0.58
130 40 0.19
131 38 0.18
132 3 0.01
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (129 bp):
AGTTAGTATGATTAAGAACATGAATTGAAAGCATTTGAGTTTAGATTTCAATTACTCTATAAATC
GTGAGGGGAATAAAATGTATACTTAAATTAGTTGAGTTTCAGTATGATTATATATTTCGAATTC
Found at i:50837947 original size:344 final size:344
Alignment explanation
Indices: 50837309--50837975 Score: 879
Period size: 344 Copynumber: 1.9 Consensus size: 344
50837299 ATTCTAATGC
* * **
50837309 TATGTTTAAGAACGTGAACTTGAAAATTTGGATTTAGGTTTCAATTACTCTATAAATCGTGAGGA
1 TATGATTAAGAACATGAACTTGAAAATTTGGATTTAGGTTTCAATTACTCTATAAATCACGAGGA
* *
50837374 GAATGAAATTTATACTTAAAATTAGTTGAGTTTCAGTATGATTATATATCTCGAATTCAATTAGT
66 GAATAAAATTTATACTTAAAATTAGTTAAGTTTCAGTATGATTATATATCTCGAATTCAATTAGT
* *
50837439 ATGATTAAGAACGTGAATTTGAAAGATTTGAGTTTAGATTTCAATTACTCTATAAATCTCGAGGA
131 ATGATTAAGAACGTGAACTTGAAAGATTTGAGTTTAGATTTAAATTACTCTATAAATCTCGAGGA
*** * *
50837504 GAATGAAATTTCTACTCGAAATTAGTTGAGTTTCAGTATGATTATATATTTCGAATTCAATTAGC
196 GAATGAAAACGCTACTCGAAATTAGTTGAGTTTCAGCATGATTATATATTCCGAATTCAATTAGC
50837569 ATGATTAAGAACATGAACTTGAAAGCTCTGAGTTTAGATTTCAAGTACTCTATAAATCGTGAGAA
261 ATGATTAAGAACATGAACTTGAAAGCTCTGAGTTTAGATTTCAAGTACTCTATAAATCGTGAGAA
50837634 GAGTAAAATCTATAGTTAG
326 GAGTAAAATCTATAGTTAG
* * *
50837653 TATGATTAAGAATATGAATTTGAAACATTT-GAGTTT-GGATTTCAGTTACTCTATAAATCACGA
1 TATGATTAAGAACATGAACTTGAAA-ATTTGGA-TTTAGG-TTTCAATTACTCTATAAATCACGA
* * * *
50837716 GGAGAATAAAATGTT-TACTT-AAATTA-TTCAAGTTTCTGTTTGATTATATATTTCGAATT-TA
63 GGAGAATAAAAT-TTATACTTAAAATTAGTT-AAGTTTCAGTATGATTATATATCTCGAATTCAA
*
50837777 TATAGTATGATTAAGAACAG-GAACTTGAAAGCTTTGAGTTTAGATTTAAATTACTCTATAAATC
126 T-TAGTATGATTAAGAAC-GTGAACTTGAAAGATTTGAGTTTAGATTTAAATTACTCTATAAATC
* * **
50837841 GT-GAGGGGAGT-AAAACGCATA-TTTAAATTAGTTGAGTTTCAGCATGATTATATATTCCGAAT
189 -TCGAGGAGAATGAAAACGC-TACTCGAAATTAGTTGAGTTTCAGCATGATTATATATTCCGAAT
* * * * * *
50837903 TCAGTTAGTATGATTAAGAACATGAA-TTTAAAGACATTTGAGTTTAGATTTCAATTACTGTATA
252 TCAATTAGCATGATTAAGAACATGAACTTGAAAG-C-TCTGAGTTTAGATTTCAAGTACTCTATA
50837967 AATCGTGAG
315 AATCGTGAG
50837976 GAGAAAAAAA
Statistics
Matches: 281, Mismatches: 31, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
342 6 0.02
343 70 0.25
344 157 0.56
345 46 0.16
346 2 0.01
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.37
Consensus pattern (344 bp):
TATGATTAAGAACATGAACTTGAAAATTTGGATTTAGGTTTCAATTACTCTATAAATCACGAGGA
GAATAAAATTTATACTTAAAATTAGTTAAGTTTCAGTATGATTATATATCTCGAATTCAATTAGT
ATGATTAAGAACGTGAACTTGAAAGATTTGAGTTTAGATTTAAATTACTCTATAAATCTCGAGGA
GAATGAAAACGCTACTCGAAATTAGTTGAGTTTCAGCATGATTATATATTCCGAATTCAATTAGC
ATGATTAAGAACATGAACTTGAAAGCTCTGAGTTTAGATTTCAAGTACTCTATAAATCGTGAGAA
GAGTAAAATCTATAGTTAG
Found at i:50838342 original size:35 final size:35
Alignment explanation
Indices: 50838296--50838367 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
50838286 AAAATGGGAA
50838296 GATAGTGATTTTTCACTTCCTCTTGTGAGTGGTTT
1 GATAGTGATTTTTCACTTCCTCTTGTGAGTGGTTT
50838331 GATAGTGATTTTTCACTTCCTCTTGTGAGTGGTTT
1 GATAGTGATTTTTCACTTCCTCTTGTGAGTGGTTT
50838366 GA
1 GA
50838368 CTGTTTTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.15, C:0.14, G:0.24, T:0.47
Consensus pattern (35 bp):
GATAGTGATTTTTCACTTCCTCTTGTGAGTGGTTT
Found at i:50845368 original size:31 final size:31
Alignment explanation
Indices: 50845333--50845395 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
50845323 TTAACAACCT
* * * *
50845333 AATGACTTAAATAAAAACTTTCGAATAGTTC
1 AATGACTAAAACAAAAACTTTCAAATAATTC
*
50845364 AATGACTAAAACGAAAACTTTCAAATAATTC
1 AATGACTAAAACAAAAACTTTCAAATAATTC
50845395 A
1 A
50845396 GATATTATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (31 bp):
AATGACTAAAACAAAAACTTTCAAATAATTC
Found at i:50850115 original size:4 final size:4
Alignment explanation
Indices: 50850106--50850143 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
50850096 CATTCAAGTG
50850106 CATA CATA CATA CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CA
50850144 CACACATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:50863285 original size:163 final size:163
Alignment explanation
Indices: 50863015--50863343 Score: 640
Period size: 163 Copynumber: 2.0 Consensus size: 163
50863005 GCCACAAAGC
*
50863015 CTGTATTAAGGAGGAGAAGAATGTCAGTTAGACCTTCTTATGCAACTCCATGTAATCATAATAAT
1 CTGTATTAAGGAGGAGAAGAATGTCAGTTAGACCTTCTTATACAACTCCATGTAATCATAATAAT
50863080 CATGGTTTCCACAAATGCTATCATAAGGCTGATGGATATCCATAAATCATGTCCTTAATCTAAAG
66 CATGGTTTCCACAAATGCTATCATAAGGCTGATGGATATCCATAAATCATGTCCTTAATCTAAAG
50863145 CAAGCACAGTGCAGTGAACACAAGATCTTTTTT
131 CAAGCACAGTGCAGTGAACACAAGATCTTTTTT
*
50863178 CTGTATTAAGGAGGAGAAGAATGTCAGTTAGACCTTCTTATACAATTCCATGTAATCATAATAAT
1 CTGTATTAAGGAGGAGAAGAATGTCAGTTAGACCTTCTTATACAACTCCATGTAATCATAATAAT
50863243 CATGGTTTCCACAAATGCTATCATAAGGCTGATGGATATCCATAAATCATGTCCTTAATCTAAAG
66 CATGGTTTCCACAAATGCTATCATAAGGCTGATGGATATCCATAAATCATGTCCTTAATCTAAAG
50863308 CAAGCACAGTGCAGTGAACACAAGATCTTTTTT
131 CAAGCACAGTGCAGTGAACACAAGATCTTTTTT
50863341 CTG
1 CTG
50863344 AATCAATATT
Statistics
Matches: 164, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
163 164 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (163 bp):
CTGTATTAAGGAGGAGAAGAATGTCAGTTAGACCTTCTTATACAACTCCATGTAATCATAATAAT
CATGGTTTCCACAAATGCTATCATAAGGCTGATGGATATCCATAAATCATGTCCTTAATCTAAAG
CAAGCACAGTGCAGTGAACACAAGATCTTTTTT
Found at i:50868868 original size:10 final size:11
Alignment explanation
Indices: 50868806--50868875 Score: 69
Period size: 11 Copynumber: 6.5 Consensus size: 11
50868796 ATTATTTTTT
50868806 ATATTTTT-AA
1 ATATTTTTAAA
50868816 A-A-TTTTAAA
1 ATATTTTTAAA
50868825 ATATTTTTAAA
1 ATATTTTTAAA
*
50868836 ATATGTTTAAA
1 ATATTTTTAAA
50868847 ATACTTTTTTTAAA
1 ATA---TTTTTAAA
50868861 A-ATTTTTAAA
1 ATATTTTTAAA
50868871 A-ATTT
1 ATATTT
50868876 GGTGTTTATT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
8 4 0.08
9 4 0.08
10 15 0.29
11 20 0.38
13 1 0.02
14 8 0.15
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (11 bp):
ATATTTTTAAA
Found at i:50870236 original size:28 final size:27
Alignment explanation
Indices: 50870204--50870270 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
50870194 TATCAATGTT
50870204 AATAATTAATTAAATTCTTAAAAATAAA
1 AATAATTAATTAAATT-TTAAAAATAAA
* * * *
50870232 TATAAATAGATTTAATTTTAAATATAAA
1 AATAATTA-ATTAAATTTTAAAAATAAA
50870260 AATAATGTAAT
1 AATAAT-TAAT
50870271 GTTCAGAGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
28 22 0.71
29 9 0.29
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (27 bp):
AATAATTAATTAAATTTTAAAAATAAA
Found at i:50875933 original size:16 final size:16
Alignment explanation
Indices: 50875912--50875942 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50875902 TTTTTAAGTT
50875912 ATTTTAAATCAAATAA
1 ATTTTAAATCAAATAA
*
50875928 ATTTTAGATCAAATA
1 ATTTTAAATCAAATA
50875943 TTATCTATCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTTTAAATCAAATAA
Found at i:50879084 original size:14 final size:14
Alignment explanation
Indices: 50879065--50879091 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50879055 CTAATACCAA
50879065 CCCATAATGGATAC
1 CCCATAATGGATAC
50879079 CCCATAATGGATA
1 CCCATAATGGATA
50879092 TCCCTATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (14 bp):
CCCATAATGGATAC
Found at i:50880931 original size:31 final size:31
Alignment explanation
Indices: 50880895--50880962 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
50880885 TTAACCCCCC
* **
50880895 GAACTTGACAATTGTTCACATATTAGGGCTT
1 GAACTTGACAATTGTTCACACATTAGAACTT
50880926 GAACTTGACAATTGTTCACACATTAGAACTT
1 GAACTTGACAATTGTTCACACATTAGAACTT
50880957 GAACTT
1 GAACTT
50880963 CAGGGTTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (31 bp):
GAACTTGACAATTGTTCACACATTAGAACTT
Found at i:50907004 original size:13 final size:13
Alignment explanation
Indices: 50906986--50907012 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50906976 GGATGAAATT
50906986 TTTAATAGAAGAG
1 TTTAATAGAAGAG
50906999 TTTAATAGAAGAG
1 TTTAATAGAAGAG
50907012 T
1 T
50907013 CAATTTGCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (13 bp):
TTTAATAGAAGAG
Found at i:50911076 original size:2 final size:2
Alignment explanation
Indices: 50911071--50911099 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
50911061 TGCATATATA
50911071 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
50911100 AAAGGAAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:50913114 original size:17 final size:18
Alignment explanation
Indices: 50913087--50913126 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
50913077 ACAATATCGA
*
50913087 TAAAA-TTAAAA-CATTT
1 TAAAATTTAAAATCAATT
50913103 TAAAATTTAAAATCAATT
1 TAAAATTTAAAATCAATT
50913121 TAAAAT
1 TAAAAT
50913127 ATCAATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 6 0.29
18 10 0.48
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAATTTAAAATCAATT
Found at i:50925993 original size:99 final size:96
Alignment explanation
Indices: 50925866--50926047 Score: 265
Period size: 99 Copynumber: 1.9 Consensus size: 96
50925856 AGCAATTACA
* * *
50925866 CTAATAACATTATAAAAGTAATGAGACCAAATTATGTCAAATTAGAGGGATTAAAGCACAAATTT
1 CTAACAACATTATAAAAGTAACGAGACCAAATTATGTCAAATT--A-GGACTAAAGCACAAATTT
50925931 CAGTATAGTAGAAGGACTAAACAATTTGGACCTG
63 CAGTATAGTAGAAGGACTAAACAATTTGGACCTG
** * *
50925965 CTAACAACATTATAAAAGTAACGAGACCAAATTATGTCAAATTAGGACTAAATTATAATTTTCAG
1 CTAACAACATTATAAAAGTAACGAGACCAAATTATGTCAAATTAGGACTAAAGCACAAATTTCAG
*
50926030 TATAGTAGAGGGACTAAA
66 TATAGTAGAAGGACTAAA
50926048 ATCATGGGTA
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
96 33 0.44
97 1 0.01
99 41 0.55
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (96 bp):
CTAACAACATTATAAAAGTAACGAGACCAAATTATGTCAAATTAGGACTAAAGCACAAATTTCAG
TATAGTAGAAGGACTAAACAATTTGGACCTG
Found at i:50932742 original size:79 final size:79
Alignment explanation
Indices: 50932611--50932770 Score: 293
Period size: 79 Copynumber: 2.0 Consensus size: 79
50932601 TCAAGCACTC
50932611 AACAAGGCGCTCTTGCTCTATAAAGTTACAACCTTTCTAATTCGTGCTTTCTCAAGCACTCAAAT
1 AACAAGGCGCTCTTGCTCTATAAAGTTACAACCTTTCTAATTCGTGCTTTCTCAAGCACTCAAAT
*
50932676 TCTCTGTAAAATTA
66 TCTCTATAAAATTA
* *
50932690 AACAAGGCGCTCTTGCTCTGTGAAGTTACAACCTTTCTAATTCGTGCTTTCTCAAGCACTCAAAT
1 AACAAGGCGCTCTTGCTCTATAAAGTTACAACCTTTCTAATTCGTGCTTTCTCAAGCACTCAAAT
50932755 TCTCTATAAAATTA
66 TCTCTATAAAATTA
50932769 AA
1 AA
50932771 AGATGAAACA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.34
Consensus pattern (79 bp):
AACAAGGCGCTCTTGCTCTATAAAGTTACAACCTTTCTAATTCGTGCTTTCTCAAGCACTCAAAT
TCTCTATAAAATTA
Found at i:50934775 original size:26 final size:26
Alignment explanation
Indices: 50934746--50934797 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
50934736 TACGTAATGT
50934746 ATGCTCAGATTAGACACAGGGTTGAC
1 ATGCTCAGATTAGACACAGGGTTGAC
50934772 ATGCTCAGATTAGACACAGGGTTGAC
1 ATGCTCAGATTAGACACAGGGTTGAC
50934798 TATAACCAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (26 bp):
ATGCTCAGATTAGACACAGGGTTGAC
Found at i:50937787 original size:13 final size:13
Alignment explanation
Indices: 50937771--50937796 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50937761 AGAAAAACCC
50937771 CAAAAAAGAAGGG
1 CAAAAAAGAAGGG
50937784 CAAAAAAGAAGGG
1 CAAAAAAGAAGGG
50937797 GACAATGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.31, T:0.00
Consensus pattern (13 bp):
CAAAAAAGAAGGG
Found at i:50938257 original size:31 final size:30
Alignment explanation
Indices: 50938217--50938274 Score: 98
Period size: 31 Copynumber: 1.9 Consensus size: 30
50938207 TTTTGTTAAT
*
50938217 TTTTACTTTTTTGGTCACCCAACTATTCAA
1 TTTTACTTTTTTAGTCACCCAACTATTCAA
50938247 TTTTATCTTTTTTAGTCACCCAACTATT
1 TTTTA-CTTTTTTAGTCACCCAACTATT
50938275 TTGCATTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.22, C:0.22, G:0.05, T:0.50
Consensus pattern (30 bp):
TTTTACTTTTTTAGTCACCCAACTATTCAA
Found at i:50940593 original size:22 final size:22
Alignment explanation
Indices: 50940567--50940611 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
50940557 TTTTAAAATT
50940567 TTAAAATTAA-AAAAT-ATACATA
1 TTAAAA-TAACAAAATCATA-ATA
50940589 TTAAAATAACAAAATCATAATA
1 TTAAAATAACAAAATCATAATA
50940611 T
1 T
50940612 AAAGACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 3 0.14
22 15 0.71
23 3 0.14
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (22 bp):
TTAAAATAACAAAATCATAATA
Found at i:50947901 original size:18 final size:18
Alignment explanation
Indices: 50947864--50947903 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
50947854 AATTTTGGTT
*
50947864 AATTTGATTAATCGACTG
1 AATTTGATTAATCAACTG
* *
50947882 AATTTGATTAATTAATTG
1 AATTTGATTAATCAACTG
50947900 AATT
1 AATT
50947904 AATTAAGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (18 bp):
AATTTGATTAATCAACTG
Found at i:50949733 original size:16 final size:16
Alignment explanation
Indices: 50949700--50949733 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50949690 AGTTCATGTT
* *
50949700 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
50949716 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
50949732 AA
1 AA
50949734 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:50952557 original size:21 final size:21
Alignment explanation
Indices: 50952531--50952571 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50952521 AGACGAGCAA
* *
50952531 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
50952552 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
50952572 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:50954510 original size:16 final size:16
Alignment explanation
Indices: 50954477--50954510 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50954467 GGAGATTGTT
* *
50954477 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
50954493 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
50954509 AA
1 AA
50954511 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:50958292 original size:206 final size:207
Alignment explanation
Indices: 50957932--50958304 Score: 484
Period size: 206 Copynumber: 1.8 Consensus size: 207
50957922 TTTTTGGACA
* ** * * *
50957932 AAATTTTAATGAGTTTGGGTTTTAAATTGTGGTCACGGTCGCCATTTTTAGCATGTTGCTGTATA
1 AAATTTTAACGAGTTCAGGCTTTAAATTGTGGTCACGGTCGCCATTTTTAGCATGCTGCCGTATA
* * ** *
50957997 TGTTTGGTTATTACAACAGGCAAGGTGTATGCCATTTTGGTTAAGTGGACTAATAACAGCTTTGG
66 CGTTAGGTTATTACAACAGGCAAGGTGTATGCCACCTTGGTTAAGTGGACTAATAACAGCTTTAG
*
50958062 TCCTTTCTAGTTGTTAAATGTTCAA-TGAAGCCTTTTATTTTATTTTATTTTTTTACCAAATTTA
131 TCCTTTCTAATTGTTAAATGTTCAATTGAAGCCTTTTATTTTATTTTATTTTTTTACCAAATTTA
50958126 TCTTTGCCTCTC
196 TCTTTGCCTCTC
* ***
50958138 AAATTTTAACGAGTTCAGGCTTTACATTGTGGTCACGGTCGTGGTTTTT-GACATGCTGCCGTAT
1 AAATTTTAACGAGTTCAGGCTTTAAATTGTGGTCACGGTCGCCATTTTTAG-CATGCTGCCGTAT
* * * *
50958202 ACGTTAGGTTATTACAACATGCAGGGT-TTTCGCTC-CCTTGGTTAAGTGGACTAATAACAGTTT
65 ACGTTAGGTTATTACAACAGGCAAGGTGTAT-GC-CACCTTGGTTAAGTGGACTAATAACAGCTT
* * *
50958265 TAGTCCTTTCTAATTGTTTAGTGTTCAATTTAAGCCTTTT
128 TAGTCCTTTCTAATTGTTAAATGTTCAATTGAAGCCTTTT
50958305 TAGACAATTT
Statistics
Matches: 140, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
205 3 0.02
206 126 0.90
207 11 0.08
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.43
Consensus pattern (207 bp):
AAATTTTAACGAGTTCAGGCTTTAAATTGTGGTCACGGTCGCCATTTTTAGCATGCTGCCGTATA
CGTTAGGTTATTACAACAGGCAAGGTGTATGCCACCTTGGTTAAGTGGACTAATAACAGCTTTAG
TCCTTTCTAATTGTTAAATGTTCAATTGAAGCCTTTTATTTTATTTTATTTTTTTACCAAATTTA
TCTTTGCCTCTC
Found at i:50959542 original size:29 final size:29
Alignment explanation
Indices: 50959509--50959575 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
50959499 AAAATTGAAT
**
50959509 ATTGAGTGACCATTTTGTAACTTTTCATA
1 ATTGAGTGACCATTTTAAAACTTTTCATA
*
50959538 ATTGAGTGACTATTTTAAAACTTTTCATA
1 ATTGAGTGACCATTTTAAAACTTTTCATA
*
50959567 ATTAAGTGA
1 ATTGAGTGA
50959576 TAAAAAAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (29 bp):
ATTGAGTGACCATTTTAAAACTTTTCATA
Found at i:50962400 original size:21 final size:21
Alignment explanation
Indices: 50962374--50962414 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50962364 ATCTGCTCAA
* *
50962374 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
50962395 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
50962415 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:50967078 original size:4 final size:4
Alignment explanation
Indices: 50967069--50967115 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
50967059 ACTATTTCAA
50967069 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
50967116 TTCCATTCGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:50975785 original size:3 final size:3
Alignment explanation
Indices: 50975777--50975802 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
50975767 CGTCGAAGGG
50975777 GGT GGT GGT GGT GGT GGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GG
50975803 AGGAGAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (3 bp):
GGT
Found at i:50980487 original size:30 final size:30
Alignment explanation
Indices: 50980451--50980513 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
50980441 ATGCAATGAA
50980451 TATGAGCTATATCATAATTTAGTATTATTT
1 TATGAGCTATATCATAATTTAGTATTATTT
50980481 TATGAGCTATATCATAATTTAGTATTATTT
1 TATGAGCTATATCATAATTTAGTATTATTT
50980511 TAT
1 TAT
50980514 TCTTTTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.51
Consensus pattern (30 bp):
TATGAGCTATATCATAATTTAGTATTATTT
Found at i:50981114 original size:28 final size:29
Alignment explanation
Indices: 50981061--50981130 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
50981051 TTCAATCTTG
* *
50981061 TTAAGAAAAAAAAATAAAATTAAAAT-AA
1 TTAAGAAAAAATAATAAAATCAAAATAAA
50981089 TTAAGAAAAAATAATAAAA-CACAAATAAA
1 TTAAGAAAAAATAATAAAATCA-AAATAAA
*
50981118 TTAATAAGAAAAT
1 TTAAGAA-AAAAT
50981131 TTGTCTTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.03
28 22 0.61
29 8 0.22
30 5 0.14
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.21
Consensus pattern (29 bp):
TTAAGAAAAAATAATAAAATCAAAATAAA
Found at i:50987238 original size:12 final size:12
Alignment explanation
Indices: 50987221--50987269 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
50987211 CAAAATCCTC
*
50987221 TGCATGCATGCA
1 TGCATGCATACA
50987233 TGCATGCATACA
1 TGCATGCATACA
*
50987245 TACATGCATACA
1 TGCATGCATACA
* *
50987257 TACATACATACA
1 TGCATGCATACA
50987269 T
1 T
50987270 ATATATAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (12 bp):
TGCATGCATACA
Found at i:50987258 original size:4 final size:4
Alignment explanation
Indices: 50987239--50987270 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
50987229 TGCATGCATG
*
50987239 CATA CATA CATG CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA
50987271 TATATAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:50990829 original size:20 final size:22
Alignment explanation
Indices: 50990806--50990856 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
50990796 CATTTTTATT
50990806 TAAAATTTATGATTT-AAA-AA
1 TAAAATTTATGATTTAAAATAA
*
50990826 TAAATATTT-TTATTTAAAATAA
1 TAAA-ATTTATGATTTAAAATAA
50990848 TAAAATTTA
1 TAAAATTTA
50990857 ATTTACAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 9 0.35
21 11 0.42
22 6 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
TAAAATTTATGATTTAAAATAA
Done.