Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 72 of 103
Found at i:27042610 original size:8 final size:8
Alignment explanation
Indices: 27042555--27042615 Score: 61
Period size: 8 Copynumber: 7.5 Consensus size: 8
27042545 AAAGTTCCTT
27042555 TTTTTTTG
1 TTTTTTTG
*
27042563 TTGTTTTG
1 TTTTTTTG
27042571 TTTTTTATG
1 TTTTTT-TG
**
27042580 TTTCGTTG
1 TTTTTTTG
*
27042588 TTTTTTTA
1 TTTTTTTG
27042596 TTTTTTT-
1 TTTTTTTG
27042603 TTTGTTTTG
1 TTT-TTTTG
27042612 TTTT
1 TTTT
27042616 AAATGAGACT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
7 3 0.07
8 31 0.72
9 9 0.21
ACGTcount: A:0.03, C:0.02, G:0.13, T:0.82
Consensus pattern (8 bp):
TTTTTTTG
Found at i:27042714 original size:38 final size:38
Alignment explanation
Indices: 27042616--27042799 Score: 221
Period size: 38 Copynumber: 4.9 Consensus size: 38
27042606 GTTTTGTTTT
* *
27042616 AAATGAGACTCCTCAAAGCTGAGGCAACGAAACTTTAA
1 AAATGAAACTCCTCAAAACTGAGGCAACGAAACTTTAA
* * * *
27042654 ACATG-AACTCCTCAAAATTGAGGCTATGAAACTTTAA
1 AAATGAAACTCCTCAAAACTGAGGCAACGAAACTTTAA
27042691 AAATGAAACTCCTCAAAACTGAGGCAACGAAACTTTAA
1 AAATGAAACTCCTCAAAACTGAGGCAACGAAACTTTAA
* *
27042729 AAATGAAACTCCCCAAAGCTGAGGCAAC-ATAACTTTAA
1 AAATGAAACTCCTCAAAACTGAGGCAACGA-AACTTTAA
*** *
27042767 AAAT-ATGGTTCCTCAAAGCTGAGGCAACGAAAC
1 AAATGA-AACTCCTCAAAACTGAGGCAACGAAAC
27042800 CATTTTTTCT
Statistics
Matches: 126, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
37 33 0.26
38 92 0.73
39 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (38 bp):
AAATGAAACTCCTCAAAACTGAGGCAACGAAACTTTAA
Found at i:27042782 original size:76 final size:75
Alignment explanation
Indices: 27042616--27043846 Score: 533
Period size: 76 Copynumber: 16.1 Consensus size: 75
27042606 GTTTTGTTTT
* * * * *
27042616 AAATGAGACTCCTCAAAGCTGAGGCAACGAAACTTTAAACATGAACTCCTCAAAATTGAGGCTAT
1 AAATGAAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCCCAAAACTGAGGCTAA
*
27042681 GAAACTTTAA
66 CAAACTTTAA
* *
27042691 AAATGAAACTCCTCAAAACTGAGGCAACGAAACTTTAAAAATGAAACTCCCCAAAGCTGAGGC-A
1 AAATGAAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATG-AACTCCCCAAAACTGAGGCTA
27042755 ACATAACTTTAA
65 ACA-AACTTTAA
*** * ****** ****
27042767 AAAT-ATGGTTCCTCAAAGCTGAGGCAACGAAACCATTT-----T----TTCTTTTTTCT-TTTT
1 AAATGA-AACTCCTCAAAGCTGAGGCAACGAAA-C-TTTAAAAATGAACTCCCCAAAACTGAGGC
** *** **
27042821 TTTC-TTTTTTTT
63 TAACAAACTTTAA
* ** * * *
27042833 AAAT-AAACTCCCCAAAATTGAGGCAATGAAACTTTAAAAATAAAACTCCCCAAAGCTGAGGC-A
1 AAATGAAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAAT-GAACTCCCCAAAACTGAGGCTA
27042896 AC-AACTTTAA
65 ACAAACTTTAA
* * * ** *
27042906 AAAT-ATGACTCCTCAAAGCTAAGGCAACGAGACTTTTAAAAATGAACTCTTCAAAACTGA-GCC
1 AAATGA-AACTCCTCAAAGCTGAGGCAACGAAAC-TTTAAAAATGAACTCCCCAAAACTGAGGCT
**
27042969 AACGAGATTTTTTTTTAAATA
64 AAC-A-A----ACTTT--A-A
* * ** * * * *
27042990 AAATAAAATAAACTCCTTAAAATTGAGACAATGAAACTTTAAAAATGAACTCCTCAAAGCTGAGG
1 AAAT----GAAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCCCAAAACTGAGG
* *
27043055 C-AACGAAATTTTTTTTTTA
62 CTAAC-AAA-----CTTTAA
** * * ** * * *
27043074 AAAT-AAACTCCTCAAAATTGAGCCAAGGAGATTTTTAAAAATGAATTCCTCAAAGCTGAGG-TA
1 AAATGAAACTCCTCAAAGCTGAGGCAACGA-AACTTTAAAAATGAACTCCCCAAAACTGAGGCTA
*
27043137 ACGAGACTTTTAA
65 AC-AAAC-TTTAA
* * * *
27043150 AAATG-AACTCCTCAAAGCTGAGGCAATGAAACTTTTAAAAATGAACTCCTCAAAGCTGATGC-A
1 AAATGAAACTCCTCAAAGCTGAGGCAACGAAAC-TTTAAAAATGAACTCCCCAAAACTGAGGCTA
*
27043213 ACGAGACTTTTAA
65 AC-AAAC-TTTAA
* *
27043226 AAAT-AAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGCTGAGGC-AA
1 AAATGAAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCCCAAAACTGAGGCTAA
*
27043289 CATGACTTTAAA
66 CA-AACTTT-AA
** * *
27043301 AAATG-AACTCCTCAAAGCTGAGATAACGAAACTTTAAAAATGAAACTCCTCAAAGCTGAGGC-A
1 AAATGAAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATG-AACTCCCCAAAACTGAGGCTA
* **
27043364 ATGAAACTTTTTTTTTTT
65 A-CAAAC------TTTAA
* ** * ** *
27043382 AAATGAGACTCCTCAAAATTGAGGCAA-TAAGACTTTAAAAATGAACTCTTCAAAGCTGAGG-TA
1 AAATGAAACTCCTCAAAGCTGAGGCAACGAA-ACTTTAAAAATGAACTCCCCAAAACTGAGGCTA
*
27043445 ACGAGACTTTAA
65 AC-AAACTTTAA
* * *** * *
27043457 AAATG-AACTCCTCAAAACTGAGGCAACGAGACTCTTTTTTTTTTTAATGAACTCCTCAAAATTG
1 AAATGAAACTCCTCAAAGCTGAGGCAACGA-A-AC-----TTTAAAAATGAACTCCCCAAAACTG
27043521 AGGC-AACGAAACTTT-A
59 AGGCTAAC-AAACTTTAA
** * * *
27043537 AAATGGGACTCCTCAAAGCTGAGGCAAC-ATGACTTTAAAAAATGAACTCCTCAAAGCTGAGGC-
1 AAATGAAACTCCTCAAAGCTGAGGCAACGA-AACTTT-AAAAATGAACTCCCCAAAACTGAGGCT
*
27043600 AACGAAGCTTTAA
64 AAC-AAACTTTAA
* ** * *
27043613 AAATGAAACTCCTCAAAGCTGAGGCAATGAAACTTTTTTTTTTTAAATGAGACTCCTCAAAATTG
1 AAATGAAACTCCTCAAAGCTGAGGCAACGAAAC------TTTAAAAATGA-ACTCCCCAAAACTG
*
27043678 AGGC-AACGAGACTTTAA
59 AGGCTAAC-AAACTTTAA
* * * * **
27043695 AAAT-TAACTCCTCAAAGTTGAGGCAACGAGACTTTAAAAATGAACTCCTCAAAGTTGAGGC-AA
1 AAATGAAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCCCAAAACTGAGGCTAA
**
27043758 CGAGGCTTTAA
66 C-AAACTTTAA
* * *
27043769 AAATG-AACTCCTCAAAGTTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGCTGAGGC-AA
1 AAATGAAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCCCAAAACTGAGGCTAA
* *
27043832 CGTAACTTCAA
66 C-AAACTTTAA
27043843 AAAT
1 AAAT
27043847 CTTGAAACTA
Statistics
Matches: 910, Mismatches: 163, Indels: 167
0.73 0.13 0.13
Matches are distributed among these distances:
63 3 0.00
64 1 0.00
65 19 0.02
66 8 0.01
68 6 0.01
73 16 0.02
74 162 0.18
75 177 0.19
76 201 0.22
77 4 0.00
78 3 0.00
79 23 0.03
80 41 0.05
81 114 0.13
82 65 0.07
83 1 0.00
84 10 0.01
86 1 0.00
87 33 0.04
88 21 0.02
89 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (75 bp):
AAATGAAACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAATGAACTCCCCAAAACTGAGGCTAA
CAAACTTTAA
Found at i:27042909 original size:36 final size:36
Alignment explanation
Indices: 27042833--27042948 Score: 117
Period size: 36 Copynumber: 3.1 Consensus size: 36
27042823 TCTTTTTTTT
** *
27042833 AAAT-AAACTCCCCAAAATTGAGGCAATGAAACTTTAA
1 AAATAAAACTCCCCAAAGCTGAGGCAA--CAACTTTAA
27042870 AAATAAAACTCCCCAAAGCTGAGGCAACAACTTTAA
1 AAATAAAACTCCCCAAAGCTGAGGCAACAACTTTAA
** * *
27042906 AAATATGACTCCTCAAAGCTAAGGCAACGAGACTTTTAA
1 AAATAAAACTCCCCAAAGCTGAGGCAAC-A-AC-TTTAA
27042945 AAAT
1 AAAT
27042949 GAACTCTTCA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
36 32 0.47
37 5 0.07
38 22 0.32
39 9 0.13
ACGTcount: A:0.47, C:0.21, G:0.12, T:0.21
Consensus pattern (36 bp):
AAATAAAACTCCCCAAAGCTGAGGCAACAACTTTAA
Found at i:27042974 original size:38 final size:38
Alignment explanation
Indices: 27042833--27043833 Score: 843
Period size: 38 Copynumber: 25.7 Consensus size: 38
27042823 TCTTTTTTTT
* * ** * *
27042833 AAATAAACTCCCCAAAATTGAGGCAATGAAAC-TTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAA
* * *
27042870 AAATAAAACTCCCCAAAGCTGAGGCAAC-A-ACTTTAAA
1 AAAT-GAACTCCTCAAAGCTGAGGCAACGAGACTTTTAA
*
27042907 AATATG-ACTCCTCAAAGCTAAGGCAACGAGACTTTTAA
1 AA-ATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAA
* * * *
27042945 AAATGAACTCTTCAAAACTGAGCCAACGAGATTTTTTTTTAAATAAAATA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAGA-----CTTT---T---A-A
* * ** * * *
27042995 AAATAAACTCCTTAAAATTGAGACAATGAAAC-TTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAA
* * *
27043032 AAATGAACTCCTCAAAGCTGAGGCAACGAAATTTTTTTTTTA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAGA----CTTTTAA
* ** * * *
27043074 AAATAAACTCCTCAAAATTGAGCCAAGGAGATTTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAA
* *
27043112 AAATGAATTCCTCAAAGCTGAGGTAACGAGACTTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAA
* *
27043150 AAATGAACTCCTCAAAGCTGAGGCAATGAAACTTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAA
*
27043188 AAATGAACTCCTCAAAGCTGATGCAACGAGACTTTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAA
* *
27043226 AAATAAACTCCTCAAAGCTGAGGCAACGAAAC-TTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAA
*
27043263 AAATGAACTCCTCAAAGCTGAGGCAAC-ATGACTTTAAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGA-GACTTTTAA
** *
27043301 AAATGAACTCCTCAAAGCTGAGATAACGAAAC-TTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAA
* * **
27043338 AAATGAAACTCCTCAAAGCTGAGGCAATGAAACTTTTTTTTTTT
1 AAATG-AACTCCTCAAAGCTGAGGCAACGAGAC-----TTTTAA
** **
27043382 AAATGAGACTCCTCAAAATTGAGGCAATAAGAC-TTTAA
1 AAATGA-ACTCCTCAAAGCTGAGGCAACGAGACTTTTAA
* *
27043420 AAATGAACTCTTCAAAGCTGAGGTAACGAGAC-TTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAA
* **
27043457 AAATGAACTCCTCAAAACTGAGGCAACGAGACTCTTTTTTTTTT
1 AAATGAACTCCTCAAAGCTGAGGCAACGAGA--C----TTTTAA
* ** *
27043501 TAATGAACTCCTCAAAATTGAGGCAACGAAAC-TTT-A
1 AAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAA
* *
27043537 AAATGGGACTCCTCAAAGCTGAGGCAAC-ATGACTTTAAA
1 AAAT-GAACTCCTCAAAGCTGAGGCAACGA-GACTTTTAA
27043576 AAATGAACTCCTCAAAGCTGAGGCAACGA-AGC-TTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAGA-CTTTTAA
* * **
27043613 AAATGAAACTCCTCAAAGCTGAGGCAATGAAACTTTTTTTTTTT
1 AAATG-AACTCCTCAAAGCTGAGGCAACGAGAC-----TTTTAA
**
27043657 AAATGAGACTCCTCAAAATTGAGGCAACGAGAC-TTTAA
1 AAATGA-ACTCCTCAAAGCTGAGGCAACGAGACTTTTAA
* *
27043695 AAATTAACTCCTCAAAGTTGAGGCAACGAGAC-TTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAA
* *
27043732 AAATGAACTCCTCAAAGTTGAGGCAACGAGGC-TTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAA
* *
27043769 AAATGAACTCCTCAAAGTTGAGGCAACGAAAC-TTTAA
1 AAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAA
27043806 AAATGAACTCCTCAAAGCTGAGGCAACG
1 AAATGAACTCCTCAAAGCTGAGGCAACG
27043834 TAACTTCAAA
Statistics
Matches: 797, Mismatches: 111, Indels: 112
0.78 0.11 0.11
Matches are distributed among these distances:
36 26 0.03
37 298 0.37
38 308 0.39
39 9 0.01
41 1 0.00
42 30 0.04
43 5 0.01
44 93 0.12
46 1 0.00
49 1 0.00
50 25 0.03
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (38 bp):
AAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAA
Found at i:27043442 original size:37 final size:37
Alignment explanation
Indices: 27043025--27043832 Score: 700
Period size: 37 Copynumber: 20.9 Consensus size: 37
27043015 AGACAATGAA
27043025 ACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA-
1 ACTTTAAAAATGAACTCCTCAAAGCTGAGGCAAC-AAG
* * * ** * **
27043062 ATTTTTTTTTTAAAATAAACTCCTCAAAATTGAGCCAAGGAG
1 A-----CTTTAAAAATGAACTCCTCAAAGCTGAGGCAACAAG
* * * *
27043104 ATTTTTAAAAATGAATTCCTCAAAGCTGAGGTAACGAG
1 A-CTTTAAAAATGAACTCCTCAAAGCTGAGGCAACAAG
*
27043142 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAATGAA-
1 AC-TTTAAAAATGAACTCCTCAAAGCTGAGGCAA-CAAG
* *
27043180 ACTTTTAAAAATGAACTCCTCAAAGCTGATGCAACGAG
1 AC-TTTAAAAATGAACTCCTCAAAGCTGAGGCAACAAG
*
27043218 ACTTTTAAAAATAAACTCCTCAAAGCTGAGGCAACGAA-
1 AC-TTTAAAAATGAACTCCTCAAAGCTGAGGCAAC-AAG
*
27043256 ACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACATG
1 ACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACAAG
**
27043293 ACTTTAAAAAATGAACTCCTCAAAGCTGAGATAACGAA-
1 ACTTT-AAAAATGAACTCCTCAAAGCTGAGGCAAC-AAG
*
27043331 ACTTTAAAAATGAAACTCCTCAAAGCTGAGGCAATGAA-
1 ACTTTAAAAATG-AACTCCTCAAAGCTGAGGCAA-CAAG
** ** *
27043369 ACTTTTTTTTTTTAAATGAGACTCCTCAAAATTGAGGCAATAAG
1 AC------TTTAAAAATGA-ACTCCTCAAAGCTGAGGCAACAAG
* * *
27043413 ACTTTAAAAATGAACTCTTCAAAGCTGAGGTAACGAG
1 ACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACAAG
* *
27043450 ACTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAG
1 ACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACAAG
*** **
27043487 ACTCTTTTTTTTTTTAATGAACTCCTCAAAATTGAGGCAACGAA-
1 A--C-----TTTAAAAATGAACTCCTCAAAGCTGAGGCAAC-AAG
* *
27043531 ACTTT-AAAATGGGACTCCTCAAAGCTGAGGCAACATG
1 ACTTTAAAAAT-GAACTCCTCAAAGCTGAGGCAACAAG
27043568 ACTTTAAAAAATGAACTCCTCAAAGCTGAGGCAACGAAG
1 ACTTT-AAAAATGAACTCCTCAAAGCTGAGGCAAC-AAG
*
27043607 -CTTTAAAAATGAAACTCCTCAAAGCTGAGGCAATGAA-
1 ACTTTAAAAATG-AACTCCTCAAAGCTGAGGCAA-CAAG
** ** *
27043644 ACTTTTTTTTTTTAAATGAGACTCCTCAAAATTGAGGCAACGAG
1 AC------TTTAAAAATGA-ACTCCTCAAAGCTGAGGCAACAAG
* * *
27043688 ACTTTAAAAATTAACTCCTCAAAGTTGAGGCAACGAG
1 ACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACAAG
* *
27043725 ACTTTAAAAATGAACTCCTCAAAGTTGAGGCAACGAG
1 ACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACAAG
* *
27043762 GCTTTAAAAATGAACTCCTCAAAGTTGAGGCAACGAA-
1 ACTTTAAAAATGAACTCCTCAAAGCTGAGGCAAC-AAG
27043799 ACTTTAAAAATGAACTCCTCAAAGCTGAGGCAAC
1 ACTTTAAAAATGAACTCCTCAAAGCTGAGGCAAC
27043833 GTAACTTCAA
Statistics
Matches: 643, Mismatches: 80, Indels: 96
0.79 0.10 0.12
Matches are distributed among these distances:
36 5 0.01
37 257 0.40
38 250 0.39
39 11 0.02
41 1 0.00
42 28 0.04
43 5 0.01
44 85 0.13
45 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (37 bp):
ACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACAAG
Found at i:27043574 original size:275 final size:269
Alignment explanation
Indices: 27043112--27043832 Score: 1097
Period size: 275 Copynumber: 2.7 Consensus size: 269
27043102 AGATTTTTAA
* ** * *
27043112 AAATGA-ATTCCTCAAAGCTGAGGTAACGAGACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAA
1 AAATGAGACTCCTCAAAATTGAGGCAACAAGAC-TTTAAAAATGAACTCCTCAAAGCTGAGGCAA
* * * *
27043176 TGAAACTTTTAAAAATGAACTCCTCAAAGCTGATGCAACGAGACTTTTAAAAATAAACTCCTCAA
65 CGAGAC-TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAAAAATGAACTCCTCAA
*
27043241 AGCTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACATGACTTTAAAAAATG
129 AGTTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACATGACTTTAAAAAATG
*
27043306 AACTCCTCAAAGCTGAGATAACGAAACTTTAAAAATGAAACTCCTCAAAGCTGAGGCAATGAAAC
194 AACTCCTCAAAGCTGAGACAACGAAACTTTAAAAATGAAACTCCTCAAAGCTGAGGCAATGAAAC
27043371 TTTTTTTTTTT
259 TTTTTTTTTTT
* * *
27043382 AAATGAGACTCCTCAAAATTGAGGCAATAAGACTTTAAAAATGAACTCTTCAAAGCTGAGGTAAC
1 AAATGAGACTCCTCAAAATTGAGGCAACAAGACTTTAAAAATGAACTCCTCAAAGCTGAGGCAAC
* ***
27043447 GAGACTTTAAAAATGAACTCCTCAAAACTGAGGCAACGAGACTCTTTTTTTTTTTAATGAACTCC
66 GAGACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAGA--C----TTTTAAAAATGAACTCC
* *
27043512 TCAAAATTGAGGCAACGAAACTTT-AAAATGGGACTCCTCAAAGCTGAGGCAACATGACTTTAAA
125 TCAAAGTTGAGGCAACGAAACTTTAAAAAT-GAACTCCTCAAAGCTGAGGCAACATGACTTTAAA
* *
27043576 AAATGAACTCCTCAAAGCTGAGGCAACGAAGCTTTAAAAATGAAACTCCTCAAAGCTGAGGCAAT
189 AAATGAACTCCTCAAAGCTGAGACAACGAAACTTTAAAAATGAAACTCCTCAAAGCTGAGGCAAT
27043641 GAAACTTTTTTTTTTT
254 GAAACTTTTTTTTTTT
* * *
27043657 AAATGAGACTCCTCAAAATTGAGGCAACGAGACTTTAAAAATTAACTCCTCAAAGTTGAGGCAAC
1 AAATGAGACTCCTCAAAATTGAGGCAACAAGACTTTAAAAATGAACTCCTCAAAGCTGAGGCAAC
* *
27043722 GAGACTTTAAAAATGAACTCCTCAAAGTTGAGGCAACGAGGC-TTTAAAAATGAACTCCTCAAAG
66 GAGACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAAAAATGAACTCCTCAAAG
27043786 TTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGCTGAGGCAAC
131 TTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGCTGAGGCAAC
27043833 GTAACTTCAA
Statistics
Matches: 406, Mismatches: 36, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
268 58 0.14
269 39 0.10
270 39 0.10
271 21 0.05
273 1 0.00
274 5 0.01
275 243 0.60
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (269 bp):
AAATGAGACTCCTCAAAATTGAGGCAACAAGACTTTAAAAATGAACTCCTCAAAGCTGAGGCAAC
GAGACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAAAAATGAACTCCTCAAAG
TTGAGGCAACGAAACTTTAAAAATGAACTCCTCAAAGCTGAGGCAACATGACTTTAAAAAATGAA
CTCCTCAAAGCTGAGACAACGAAACTTTAAAAATGAAACTCCTCAAAGCTGAGGCAATGAAACTT
TTTTTTTTT
Found at i:27052020 original size:14 final size:13
Alignment explanation
Indices: 27052001--27052042 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
27051991 CTTTTGAAGT
27052001 TTATTTTTATTTTA
1 TTATTTTT-TTTTA
27052015 TTATTTTTTTATTA
1 TTATTTTTTT-TTA
*
27052029 TTATATTTTTTTA
1 TTATTTTTTTTTA
27052042 T
1 T
27052043 CTTTTCATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 6 0.23
14 20 0.77
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATTTTTTTTTA
Found at i:27052025 original size:16 final size:16
Alignment explanation
Indices: 27052004--27052064 Score: 70
Period size: 16 Copynumber: 3.6 Consensus size: 16
27051994 TTGAAGTTTA
27052004 TTTTTATTTTATTATT
1 TTTTTATTTTATTATT
27052020 TTTTTATTATTA-TATT
1 TTTTTATT-TTATTATT
27052036 TTTTTATCTTTTCATTATAT
1 TTTTTA--TTTT-ATTAT-T
27052056 TTTTTATTT
1 TTTTTATTT
27052065 ATTTAAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
16 18 0.46
17 5 0.13
18 6 0.15
19 3 0.08
20 7 0.18
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTATTTTATTATT
Found at i:27052042 original size:24 final size:24
Alignment explanation
Indices: 27052000--27052068 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
27051990 GCTTTTGAAG
*
27052000 TTTATT-TT-TATTTTATTATTTT
1 TTTATTATTATATTTTTTTATTTT
*
27052022 TTTATTATTATATTTTTTTATCTT
1 TTTATTATTATATTTTTTTATTTT
* *
27052046 TTCATTA-TATTTTTTATTTATTT
1 TTTATTATTATATTTT-TTTATTT
27052069 AAAATTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
22 6 0.15
23 9 0.23
24 24 0.62
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (24 bp):
TTTATTATTATATTTTTTTATTTT
Found at i:27052067 original size:11 final size:11
Alignment explanation
Indices: 27052006--27052068 Score: 51
Period size: 11 Copynumber: 5.6 Consensus size: 11
27051996 GAAGTTTATT
27052006 TTTATTTTATTA
1 TTTATTTT-TTA
27052018 TTT-TTTTATTA
1 TTTATTTT-TTA
*
27052029 -TTATATTTT-
1 TTTATTTTTTA
*
27052038 TTTATCTTTTCA
1 TTTAT-TTTTTA
27052050 TTATATTTTTTA
1 TT-TATTTTTTA
27052062 TTTATTT
1 TTTATTT
27052069 AAAATTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
10 8 0.19
11 19 0.45
12 12 0.29
13 3 0.07
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:27055424 original size:19 final size:19
Alignment explanation
Indices: 27055397--27055434 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
27055387 CCATTTGACT
27055397 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
27055416 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
27055435 GTTAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:27059292 original size:15 final size:14
Alignment explanation
Indices: 27059272--27059324 Score: 70
Period size: 15 Copynumber: 3.6 Consensus size: 14
27059262 GGTTTAAAGA
27059272 TTAAAGATTTTGGTT
1 TTAAAG-TTTTGGTT
27059287 TTAAAGTTTTGGATT
1 TTAAAGTTTTGG-TT
*
27059302 TTAAAGTTTTTAGTT
1 TTAAAG-TTTTGGTT
27059317 TTAAAGTT
1 TTAAAGTT
27059325 GTTTTATGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
14 8 0.23
15 22 0.63
16 5 0.14
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (14 bp):
TTAAAGTTTTGGTT
Found at i:27063995 original size:16 final size:17
Alignment explanation
Indices: 27063976--27064010 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
27063966 ATATATGTTT
*
27063976 TTATTTTTATAT-TATA
1 TTATTCTTATATATATA
27063992 TTATTCTTATATATATA
1 TTATTCTTATATATATA
27064009 TT
1 TT
27064011 TATATTACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATTCTTATATATATA
Found at i:27067831 original size:36 final size:35
Alignment explanation
Indices: 27067770--27067840 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 35
27067760 ATGAGAGCAT
* * *
27067770 AAAGGCCATATGTAGGTGTCATACCACATGCGTAA
1 AAAGGCCAAATGTAGGTGTCATACCAAATGAGTAA
**
27067805 AAAGGCCAAATGTTAGGTGTTGTACCAAATGAGTAA
1 AAAGGCCAAATG-TAGGTGTCATACCAAATGAGTAA
27067841 GCCAAATGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 11 0.37
36 19 0.63
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (35 bp):
AAAGGCCAAATGTAGGTGTCATACCAAATGAGTAA
Found at i:27069451 original size:21 final size:21
Alignment explanation
Indices: 27069422--27069461 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27069412 AAAACAGAAA
* *
27069422 GATTTTCGCTGCAGCGAGATT
1 GATTCTCGCTGCAACGAGATT
27069443 GATTCTCGCTGCAACGAGA
1 GATTCTCGCTGCAACGAGA
27069462 AGCTACAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.28
Consensus pattern (21 bp):
GATTCTCGCTGCAACGAGATT
Found at i:27069758 original size:37 final size:37
Alignment explanation
Indices: 27069717--27069893 Score: 252
Period size: 37 Copynumber: 4.8 Consensus size: 37
27069707 ACATACATCG
* * *
27069717 TCATCATGTGTGCACACCCTACTCGCACACTTTGTCA
1 TCATCATGTGTGCACTCCCTACTCGCACACTCTATCA
* * *
27069754 TCATCACGTGTGCACTCCTTACTCGCACACTCCATCA
1 TCATCATGTGTGCACTCCCTACTCGCACACTCTATCA
*
27069791 TCATCATGTGTGCACTTCC-ATCTCG--CACTCTATCA
1 TCATCATGTGTGCACTCCCTA-CTCGCACACTCTATCA
27069826 TCATCATGTGTGCACTCCCTACTCGCACACTCTATCA
1 TCATCATGTGTGCACTCCCTACTCGCACACTCTATCA
*
27069863 TCATCATGTGTGCACTCCTTACTCGCACACT
1 TCATCATGTGTGCACTCCCTACTCGCACACT
27069894 TGAACATCAC
Statistics
Matches: 124, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
35 31 0.25
36 2 0.02
37 91 0.73
ACGTcount: A:0.21, C:0.37, G:0.12, T:0.31
Consensus pattern (37 bp):
TCATCATGTGTGCACTCCCTACTCGCACACTCTATCA
Found at i:27069888 original size:72 final size:72
Alignment explanation
Indices: 27069712--27069890 Score: 243
Period size: 72 Copynumber: 2.5 Consensus size: 72
27069702 CATATACATA
* * * * * *
27069712 CATCGTCATCATGTGTGCACACCCTACTCGCACACTTTGTCATCATCACGTGTGCACTCCTTACT
1 CATCATCATCATGTGTGCACTCCATACTCG--CACTCTATCATCATCACGTGTGCACTCCCTACT
27069777 CGCACACTC
64 CGCACACTC
*
27069786 CATCATCATCATGTGTGCACTTCCAT-CTCGCACTCTATCATCATCATGTGTGCACTCCCTACTC
1 CATCATCATCATGTGTGCAC-TCCATACTCGCACTCTATCATCATCACGTGTGCACTCCCTACTC
27069850 GCACACTC
65 GCACACTC
* *
27069858 TATCATCATCATGTGTGCACTCCTTACTCGCAC
1 CATCATCATCATGTGTGCACTCCATACTCGCAC
27069891 ACTTGAACAT
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
71 4 0.04
72 64 0.68
74 23 0.24
75 3 0.03
ACGTcount: A:0.21, C:0.37, G:0.12, T:0.30
Consensus pattern (72 bp):
CATCATCATCATGTGTGCACTCCATACTCGCACTCTATCATCATCACGTGTGCACTCCCTACTCG
CACACTC
Found at i:27070747 original size:19 final size:19
Alignment explanation
Indices: 27070700--27070748 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
27070690 ATGGAAGGAG
*
27070700 GAAGAAGAAGAAGCTGCTG
1 GAAGAAGAAGAAGCTGCTA
*
27070719 GAA-ATTGAAGAAGCTGCTA
1 GAAGA-AGAAGAAGCTGCTA
*
27070738 GAAGGAGAAGA
1 GAAGAAGAAGA
27070749 TATTTATAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
18 1 0.04
19 23 0.96
ACGTcount: A:0.45, C:0.08, G:0.35, T:0.12
Consensus pattern (19 bp):
GAAGAAGAAGAAGCTGCTA
Found at i:27071349 original size:34 final size:34
Alignment explanation
Indices: 27071297--27071364 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
27071287 CTATGAAATT
* **
27071297 CTTTTTCAAGGCTAAAGCATAACCTTTACAATGC
1 CTTTTTCAAGGCTAAAGCACAACCCATACAATGC
** *
27071331 CTTTTTCTGGGCTCAAGCACAACCCATACAATGC
1 CTTTTTCAAGGCTAAAGCACAACCCATACAATGC
27071365 AATGCCTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.29
Consensus pattern (34 bp):
CTTTTTCAAGGCTAAAGCACAACCCATACAATGC
Found at i:27072086 original size:15 final size:15
Alignment explanation
Indices: 27072054--27072118 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 15
27072044 CATCTCTTAA
* *
27072054 ATATATTTTTAATGTC
1 ATATA-TTTTATTTTC
27072070 ATATATTTTATTTTC
1 ATATATTTTATTTTC
* *
27072085 AT-TGTTATTATAATTTT
1 ATATATT-TTAT--TTTC
27072102 ATATATTTTATTTTC
1 ATATATTTTATTTTC
27072117 AT
1 AT
27072119 TTCTTTAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
14 3 0.08
15 19 0.49
16 5 0.13
17 9 0.23
18 3 0.08
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (15 bp):
ATATATTTTATTTTC
Found at i:27072106 original size:32 final size:34
Alignment explanation
Indices: 27072070--27072151 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 34
27072060 TTTTAATGTC
*
27072070 ATATATTTTATTTTCA-TT-GTTATTATAATTTT
1 ATATATTTTATTTTCATTTCGTTAATATAATTTT
*
27072102 ATATATTTTATTTTCATTTCTTTAATATAATTTT
1 ATATATTTTATTTTCATTTCGTTAATATAATTTT
*
27072136 TTATATTATATATTTT
1 ATATATT-T-TATTTT
27072152 ATATTAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 16 0.37
33 2 0.05
34 18 0.42
35 1 0.02
36 6 0.14
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (34 bp):
ATATATTTTATTTTCATTTCGTTAATATAATTTT
Found at i:27072202 original size:31 final size:31
Alignment explanation
Indices: 27072155--27072228 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
27072145 ATATTTTATA
*
27072155 TTAATTTCTT-TTACTTATATTATATAAATT
1 TTAATTTCTTATAACTTATATTATATAAATT
* * *
27072185 TTAATTTCTTATAACTTATTTTATTTTAATT
1 TTAATTTCTTATAACTTATATTATATAAATT
27072216 TCTAATTT-TTATA
1 T-TAATTTCTTATA
27072229 TTATATATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 10 0.26
31 22 0.58
32 6 0.16
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (31 bp):
TTAATTTCTTATAACTTATATTATATAAATT
Found at i:27072249 original size:20 final size:20
Alignment explanation
Indices: 27072220--27072260 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
27072210 TTAATTTCTA
*
27072220 ATTTTTATATTATATATTTT
1 ATTTTAATATTATATATTTT
* *
27072240 ATTTTAATATTTTTTATTTT
1 ATTTTAATATTATATATTTT
27072260 A
1 A
27072261 ATTATAACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTAATATTATATATTTT
Found at i:27072258 original size:15 final size:15
Alignment explanation
Indices: 27072221--27072262 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
27072211 TAATTTCTAA
*
27072221 TTTTTATATT-ATAT
1 TTTTTATTTTAATAT
*
27072235 ATTTTATTTTAATAT
1 TTTTTATTTTAATAT
27072250 TTTTTATTTTAAT
1 TTTTTATTTTAAT
27072263 TATAACATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTATTTTAATAT
Found at i:27072640 original size:21 final size:21
Alignment explanation
Indices: 27072593--27072637 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
27072583 CAATATATAT
*
27072593 AGAACATATATTGATAAATGA
1 AGAACATATATGGATAAATGA
*
27072614 AGAACATATATGGATAGAT-A
1 AGAACATATATGGATAAATGA
27072634 AGAA
1 AGAA
27072638 ACAAAAAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.53, C:0.04, G:0.18, T:0.24
Consensus pattern (21 bp):
AGAACATATATGGATAAATGA
Found at i:27073388 original size:27 final size:25
Alignment explanation
Indices: 27073354--27073410 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 25
27073344 ATATTAATAT
* *
27073354 ATAAATTATCAATTATTAATATTTTAA
1 ATAAATTATAAATT-TTAA-AATTTAA
27073381 ATAAATTATAAATTTTAAAATTTAA
1 ATAAATTATAAATTTTAAAATTTAA
27073406 A-AAAT
1 ATAAAT
27073411 AACGTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 4 0.14
25 7 0.25
26 4 0.14
27 13 0.46
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
ATAAATTATAAATTTTAAAATTTAA
Found at i:27073527 original size:7 final size:7
Alignment explanation
Indices: 27073517--27073644 Score: 50
Period size: 7 Copynumber: 19.3 Consensus size: 7
27073507 TAATATTTAA
27073517 ATAAATT
1 ATAAATT
27073524 ATAAATT
1 ATAAATT
27073531 ATTAATATT
1 A-TAA-ATT
*
27073540 TTAAATT
1 ATAAATT
27073547 A-AAA-T
1 ATAAATT
27073552 A-AAA-T
1 ATAAATT
*
27073557 A-AAATA
1 ATAAATT
* *
27073563 AT-CATA
1 ATAAATT
27073569 ATAACATT
1 ATAA-ATT
27073577 A-AAATT
1 ATAAATT
27073583 ATAAA-T
1 ATAAATT
27073589 A-AAA-T
1 ATAAATT
27073594 ATTAATATT
1 A-TAA-ATT
*
27073603 -TAAATG
1 ATAAATT
27073609 ATAAATT
1 ATAAATT
27073616 ATTAATATT
1 A-TAA-ATT
27073625 AT-AA--
1 ATAAATT
27073629 ATAAATT
1 ATAAATT
27073636 ATAAATT
1 ATAAATT
27073643 AT
1 AT
27073645 TAATATTTAA
Statistics
Matches: 96, Mismatches: 8, Indels: 34
0.70 0.06 0.25
Matches are distributed among these distances:
4 2 0.02
5 17 0.18
6 18 0.19
7 37 0.39
8 14 0.15
9 8 0.08
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.40
Consensus pattern (7 bp):
ATAAATT
Found at i:27073573 original size:131 final size:133
Alignment explanation
Indices: 27073361--27073634 Score: 346
Period size: 131 Copynumber: 2.1 Consensus size: 133
27073351 TATATAAATT
*
27073361 ATCAATTATTAATATTTTAAATAAATTATAAATTTTAAAATTTAAAAAATAACGTAAAATAAAAA
1 ATCAAATATTAATATTTTAAATAAATTATAAATTTTAAAATTT-AAAAAT-A--TAAAATAAAAA
* * * * *
27073426 TATATAATCTTAATAACATTTAAATTATAAATAAAATATTAGTATTTTATAATG-TTAATGATTA
62 TAAATAATCATAATAACATTAAAATTATAAATAAAATATTAATA-TTTA-AATGATAAATGATTA
27073490 A-ATTATAA
125 ATATTATAA
* *
27073498 ATCAAATATTAATA-TTTAAATAAATTATAAATTATTAATATTT-TAAAT-TAAAAT-AAAATAA
1 ATCAAATATTAATATTTTAAATAAATTATAAATT-TTAAAATTTAAAAATATAAAATAAAAAT-A
*
27073559 AATAATCATAATAACATTAAAATTATAAATAAAATATTAATATTTAAATGATAAATTATTAATAT
64 AATAATCATAATAACATTAAAATTATAAATAAAATATTAATATTTAAATGATAAATGATTAATAT
27073624 TATAA
129 TATAA
27073629 AT-AAAT
1 ATCAAAT
27073635 TATAAATTAT
Statistics
Matches: 124, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
129 4 0.03
130 22 0.18
131 54 0.44
135 4 0.03
136 19 0.15
137 21 0.17
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (133 bp):
ATCAAATATTAATATTTTAAATAAATTATAAATTTTAAAATTTAAAAATATAAAATAAAAATAAA
TAATCATAATAACATTAAAATTATAAATAAAATATTAATATTTAAATGATAAATGATTAATATTA
TAA
Found at i:27073670 original size:89 final size:85
Alignment explanation
Indices: 27073489--27073708 Score: 202
Period size: 89 Copynumber: 2.6 Consensus size: 85
27073479 GTTAATGATT
* *
27073489 AAATTATAAATCAAATATTAATATTTAAATAAATTATAAATTATTAATATTTTAAATTAAAATAA
1 AAATTATAAATAAAATATTAATA-TT--ATAAA-TATAAATTATTAATATTATAAATTAAAATAA
* * * *
27073554 AATAAAATAATCATAATAACATTA
62 AATAAAATAATAAAAATAAAATAA
27073578 AAATTATAAATAAAATATTAATATT-TAAATGATAAATTATTAATATTATAAA-TAAATTATAAA
1 AAATTATAAATAAAATATTAATATTATAAAT-ATAAATTATTAATATTATAAATTAAA--ATAAA
* * *
27073641 TTATTAATATTTAAAAAATAAAATAA
63 ATA-AAATA-AT-AAAAATAAAATAA
* *
27073667 AAATCAT-AATAATAT-TTAA-ATTATAAAT-TAAA-TATTAATATT
1 AAATTATAAATAAAATATTAATATTATAAATATAAATTATTAATATT
27073709 TTATAATGTT
Statistics
Matches: 113, Mismatches: 11, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
84 15 0.13
85 28 0.25
86 10 0.09
87 13 0.12
88 10 0.09
89 37 0.33
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (85 bp):
AAATTATAAATAAAATATTAATATTATAAATATAAATTATTAATATTATAAATTAAAATAAAATA
AAATAATAAAAATAAAATAA
Found at i:27073700 original size:106 final size:112
Alignment explanation
Indices: 27073504--27073739 Score: 337
Period size: 106 Copynumber: 2.2 Consensus size: 112
27073494 ATAAATCAAA
27073504 TATTAATATT-TAAATAAATTATAAATTATTAATATTTTAAATTAAAATAAAATAAAATAATCAT
1 TATTAATATTATAAATAAATTATAAATTATTAATATTTTAAA-TAAAATAAAATAAAATAATCAT
27073568 AATAACATTAAAATTATAAATAAAATATTAATA-TTTA-AATGATAAAT
65 AATAACATTAAAATTATAAATAAAATATTAATATTTTATAATG-TAAAT
27073615 TATTAATATTATAAATAAATTATAAATTATTAATA-TTT-AA-AAAATAAAAT-AAA-AATCATA
1 TATTAATATTATAAATAAATTATAAATTATTAATATTTTAAATAAAATAAAATAAAATAATCATA
* * * *
27073675 ATAATATTTAAATTATAAATTAAATATTAATATTTTATAATGTTAAT
66 ATAACATTAAAATTATAAATAAAATATTAATATTTTATAATGTAAAT
**
27073722 GGTTAA-ATTATAAATAAA
1 TATTAATATTATAAATAAA
27073740 ATAATAATAT
Statistics
Matches: 116, Mismatches: 6, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
106 48 0.41
107 15 0.13
108 14 0.12
110 2 0.02
111 13 0.11
112 24 0.21
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (112 bp):
TATTAATATTATAAATAAATTATAAATTATTAATATTTTAAATAAAATAAAATAAAATAATCATA
ATAACATTAAAATTATAAATAAAATATTAATATTTTATAATGTAAAT
Found at i:27073784 original size:237 final size:241
Alignment explanation
Indices: 27073330--27073843 Score: 672
Period size: 237 Copynumber: 2.1 Consensus size: 241
27073320 TTTAATGATT
* * * *
27073330 AAATTATAAATAAAATATTAATATATAAATTATCAATTATTAATATTTTAAATAAATTATAAATT
1 AAATTATAAATAAAATATTAATATTTAAATGATAAATTATTAATATTATAAATAAATTATAAATT
*
27073395 TTAAAATTTAAAAAATAACGTAAAATAAAAATATATAATCTTAATAACATTTAAATTATAAATAA
66 TTAAAATTT-AAAAATAAC-TAAAATAAAAATACATAA--TTAAT-A-ATTTAAATTATAAATAA
* * *
27073460 AATATTAGTATTTTATAATGTTAATGATTAAATTATAAATCAAATATTAATATTTAAATAAATTA
125 AATATTAATATTTTATAATGTTAATGATTAAATTATAAATAAAATAATAATATTT--ATAAATTA
27073525 TAAATTATTAATATTTTAAATTA-AAA-TAAAATAAAATAATCATAATAACATTA
188 TAAATTATTAATATTTTAAATTATAAATTAAAAT-AAATAATCATAATAACATTA
27073578 AAATTATAAATAAAATATTAATATTTAAATGATAAATTATTAATATTATAAATAAATTATAAATT
1 AAATTATAAATAAAATATTAATATTTAAATGATAAATTATTAATATTATAAATAAATTATAAATT
* *
27073643 ATTAATATTT-AAAA-AA-TAAAATAAAAAT-CATAA-TAAT-ATTTAAATTATAAATTAAATAT
66 -TTAAAATTTAAAAATAACTAAAATAAAAATACATAATTAATAATTTAAATTATAAATAAAATAT
*
27073702 TAATATTTTATAATGTTAATGGTTAAATTATAAATAAAATAATAATA-TT-TAAATTATCAAATT
130 TAATATTTTATAATGTTAATGATTAAATTATAAATAAAATAATAATATTTATAAATTAT-AAATT
* *
27073765 -TTAATATTTTAAATAAATTATAAATGTTAAAATTAATAATCATAATAACATTT
194 ATTAATA-TTT---TAAATTATAAA--TTAAAATAAATAATCATAATAACATTA
*
27073818 AAATTATAAATAAAATATTAGTATTT
1 AAATTATAAATAAAATATTAATATTT
27073844 TAGTCCAAAT
Statistics
Matches: 242, Mismatches: 14, Indels: 28
0.85 0.05 0.10
Matches are distributed among these distances:
233 14 0.06
234 8 0.03
236 2 0.01
237 71 0.29
238 3 0.01
240 47 0.19
241 6 0.02
243 4 0.02
244 12 0.05
246 2 0.01
247 4 0.02
248 61 0.25
249 8 0.03
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (241 bp):
AAATTATAAATAAAATATTAATATTTAAATGATAAATTATTAATATTATAAATAAATTATAAATT
TTAAAATTTAAAAATAACTAAAATAAAAATACATAATTAATAATTTAAATTATAAATAAAATATT
AATATTTTATAATGTTAATGATTAAATTATAAATAAAATAATAATATTTATAAATTATAAATTAT
TAATATTTTAAATTATAAATTAAAATAAATAATCATAATAACATTA
Found at i:27079215 original size:2 final size:2
Alignment explanation
Indices: 27079208--27079264 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
27079198 TCCTTCATTT
27079208 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
27079250 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
27079265 CGTCATGTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27083955 original size:2 final size:2
Alignment explanation
Indices: 27083948--27083990 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
27083938 NNNNNNNNNN
27083948 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
27083990 G
1 G
27083991 GGTTGAAGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:27106823 original size:722 final size:722
Alignment explanation
Indices: 27105701--27107148 Score: 2488
Period size: 722 Copynumber: 2.0 Consensus size: 722
27105691 TTTCATCAGT
*
27105701 TTGTATCTTATTCACAACTGAGACATTGTTCACTACTGTTTTGCTATTCCTGTAGTTTTGTTTTC
1 TTGTATCTTATTCACAACTGAGACATTGTTCACTACTGCTTTGCTATTCCTGTAGTTTTGTTTTC
27105766 CTTTTATGAACTTAAAATCATATGAAAAACCTACACACCTATAGCATTTCTCCATTATGTGACCC
66 CTTTTATGAACTTAAAATCATATGAAAAACCTACACACCTATAGCATTTCTCCATTATGTGACCC
* *
27105831 TTCTTACCACAATGGTTATAAATTAAGTCCTTCCTCATTTTCTTTTTCCCATCTGAAATAAGTTG
131 TTCTTACCACAATGGTTACAAATTAAGTCCTTCCTCATTTTCTTCTTCCCATCTGAAATAAGTTG
* * *
27105896 AATTACATTTCCCACATTCGCAATGAGGCAATGGATGAAAGGTCTTAAGTTTTTCCCAAATTCCC
196 AATTACATTTCCCACATTCGCAATGAGGCAATGGATGAAAAGTCCTAAGTTCTTCCCAAATTCCC
* *
27105961 TTTAGCTCAACAAAATAGGTGTCGATATATTTGCTCCCCCATGTCACATTTCTTAGAATGTATTG
261 TTTAGCTCAACAAAATAGGTGTCAATAGATTTGCTCCCCCATGTCACATTTCTTAGAATGTATTG
*
27106026 TAAGCTACACACCTTAGTATCAAAAGGTTGTGCAAAGTTCTCTTTCGAGGCATTCCAAATTTCAA
326 TAAGCTACACACCCTAGTATCAAAAGGTTGTGCAAAGTTCTCTTTCGAGGCATTCCAAATTTCAA
*
27106091 CTCTTGAATGCATGTAGAATATAGTTGAAACTATTGATTGAGAAACTAATTCTAATAGCCAACCA
391 CTCCTGAATGCATGTAGAATATAGTTGAAACTATTGATTGAGAAACTAATTCTAATAGCCAACCA
27106156 ACTATTAAATTGTTGCAACAAGCCCTA-GATGAATACAAGGGATCTGTAAAAGCAAGATTTGATA
456 ACTATTAAATTGTTGCAACAAGCCC-AGGATGAATACAAGGGATCTGTAAAAGCAAGATTTGATA
* *
27106220 TGGTTCCTTTTATGAATCCTAGTTTGCTCCTAATGGACGACGCTAGGAGAAATGATCTGCTTTAA
520 TGGTTCCTTTTATGAATCCTAGTTTGCTCCTAATGGACGACGCTAGGAGAAATGATATGCTTCAA
* * * *
27106285 GCCAGATTGTTGCTTAAAGTCAGCTTTGGATTGATTATTACATATCTTAGATGATTTGTGTGATG
585 GCCAGATAGTTGCTTAAAGTCAGCTTTGGATTGATGATTACATATCCTAGATGATTTGTGTGATA
*
27106350 CAAATAATATGGTGATTGACAATCTACAATTGAGGGTAATTGTTGTCTCGATTCAAACATAGTTT
650 CAAATAATATGGTGATTGACAAGCTACAATTGAGGGTAATTGTTGTCTCGATTCAAACATAGTTT
27106415 GGGACTTG
715 GGGACTTG
*
27106423 TTGTATCTTATTCACAACTGAGACATTGTTCGCTACTGCTTTGCTATTCCTGTAGTTTTGTTTTC
1 TTGTATCTTATTCACAACTGAGACATTGTTCACTACTGCTTTGCTATTCCTGTAGTTTTGTTTTC
* *
27106488 CTTTTATGAACTTAAAATCATATGGAAAACCTACTA-ACTTATAGCATTTCTCCATTATGTGACC
66 CTTTTATGAACTTAAAATCATATGAAAAACCTAC-ACACCTATAGCATTTCTCCATTATGTGACC
* *
27106552 CTTCTTGCCACAATGGTTGCAAATTAAGTCCTTCCTCATTTTCTTCTTCCCATCTGAAATAAGTT
130 CTTCTTACCACAATGGTTACAAATTAAGTCCTTCCTCATTTTCTTCTTCCCATCTGAAATAAGTT
27106617 GAATTACATTTCCCACATTCGCAATGAGGCAATGGATGAAAAGTCCTAAGTTCTTCCCAAATTCC
195 GAATTACATTTCCCACATTCGCAATGAGGCAATGGATGAAAAGTCCTAAGTTCTTCCCAAATTCC
*
27106682 CTTTAGCTCAACAAAATAAGG-GTCAATAGATTTGTTCCCCCATGTCACATTTCTTAGAATGTAT
260 CTTTAGCTCAACAAAAT-AGGTGTCAATAGATTTGCTCCCCCATGTCACATTTCTTAGAATGTAT
27106746 TGTAAGCTACACACCCTAGTATCAAAAGGTTGTGCAAAGTTCTCTTTCGAGGCATTCCAAATTTC
324 TGTAAGCTACACACCCTAGTATCAAAAGGTTGTGCAAAGTTCTCTTTCGAGGCATTCCAAATTTC
* * *
27106811 AACTCCTGAATGCATGTAGAATATGGTTTAAACTATTGATTGAGAAACTAATTCTAATAGCCAAG
389 AACTCCTGAATGCATGTAGAATATAGTTGAAACTATTGATTGAGAAACTAATTCTAATAGCCAAC
* * * *
27106876 CAACTATTAAATTGTTGCAACAAGTCCAGGATGAATACAAGGGATTTGTAACAGCAGGATTTGAT
454 CAACTATTAAATTGTTGCAACAAGCCCAGGATGAATACAAGGGATCTGTAAAAGCAAGATTTGAT
* *
27106941 ATGGTTCCTTTTATGAATCCTGGTTTGTTCCTAATGGACGACGCTAGGAGAAATGATATGCTTCA
519 ATGGTTCCTTTTATGAATCCTAGTTTGCTCCTAATGGACGACGCTAGGAGAAATGATATGCTTCA
* * * *
27107006 AGCTAGGTAGTTGCTTAAAGTCGGCTTTGGATTGATGATTACATATCCTGGATGATTTGTGTGAT
584 AGCCAGATAGTTGCTTAAAGTCAGCTTTGGATTGATGATTACATATCCTAGATGATTTGTGTGAT
* * *
27107071 ACAGATAATATGGTGATTGACAAGCTACAATTGAGGGTAATTGTTGTCTCGATTCAGATATAGTT
649 ACAAATAATATGGTGATTGACAAGCTACAATTGAGGGTAATTGTTGTCTCGATTCAAACATAGTT
*
27107136 TGGTACTTG
714 TGGGACTTG
27107145 TTGT
1 TTGT
27107149 CTCGAACTAG
Statistics
Matches: 683, Mismatches: 40, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
721 1 0.00
722 678 0.99
723 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (722 bp):
TTGTATCTTATTCACAACTGAGACATTGTTCACTACTGCTTTGCTATTCCTGTAGTTTTGTTTTC
CTTTTATGAACTTAAAATCATATGAAAAACCTACACACCTATAGCATTTCTCCATTATGTGACCC
TTCTTACCACAATGGTTACAAATTAAGTCCTTCCTCATTTTCTTCTTCCCATCTGAAATAAGTTG
AATTACATTTCCCACATTCGCAATGAGGCAATGGATGAAAAGTCCTAAGTTCTTCCCAAATTCCC
TTTAGCTCAACAAAATAGGTGTCAATAGATTTGCTCCCCCATGTCACATTTCTTAGAATGTATTG
TAAGCTACACACCCTAGTATCAAAAGGTTGTGCAAAGTTCTCTTTCGAGGCATTCCAAATTTCAA
CTCCTGAATGCATGTAGAATATAGTTGAAACTATTGATTGAGAAACTAATTCTAATAGCCAACCA
ACTATTAAATTGTTGCAACAAGCCCAGGATGAATACAAGGGATCTGTAAAAGCAAGATTTGATAT
GGTTCCTTTTATGAATCCTAGTTTGCTCCTAATGGACGACGCTAGGAGAAATGATATGCTTCAAG
CCAGATAGTTGCTTAAAGTCAGCTTTGGATTGATGATTACATATCCTAGATGATTTGTGTGATAC
AAATAATATGGTGATTGACAAGCTACAATTGAGGGTAATTGTTGTCTCGATTCAAACATAGTTTG
GGACTTG
Found at i:27124194 original size:22 final size:22
Alignment explanation
Indices: 27124169--27124231 Score: 117
Period size: 22 Copynumber: 2.9 Consensus size: 22
27124159 TTTAAAACCA
*
27124169 CTTTAAAACCAAAAACTCTTAT
1 CTTTAAAACCAAAAGCTCTTAT
27124191 CTTTAAAACCAAAAGCTCTTAT
1 CTTTAAAACCAAAAGCTCTTAT
27124213 CTTTAAAACCAAAAGCTCT
1 CTTTAAAACCAAAAGCTCT
27124232 GATACCAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.43, C:0.24, G:0.03, T:0.30
Consensus pattern (22 bp):
CTTTAAAACCAAAAGCTCTTAT
Found at i:27127120 original size:2 final size:2
Alignment explanation
Indices: 27127113--27127146 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
27127103 NNNNNNNNNN
27127113 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27127147 TAAAAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27127407 original size:20 final size:20
Alignment explanation
Indices: 27127382--27127421 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
27127372 ATAACTAATT
27127382 ACATTCTACAATCAAGAAAC
1 ACATTCTACAATCAAGAAAC
27127402 ACATTCTACAATCAAGAAAC
1 ACATTCTACAATCAAGAAAC
27127422 CTCAAGTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.25, G:0.05, T:0.20
Consensus pattern (20 bp):
ACATTCTACAATCAAGAAAC
Found at i:27132466 original size:28 final size:27
Alignment explanation
Indices: 27132427--27132479 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
27132417 TGTCCTGGTG
**
27132427 GTGAAAAATTACTGTTTTGCCCCTAGA
1 GTGAAAAATTACCATTTTGCCCCTAGA
27132454 GTGATAAAATTACCATTTTGCCCCTA
1 GTGA-AAAATTACCATTTTGCCCCTA
27132480 TGCTTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (27 bp):
GTGAAAAATTACCATTTTGCCCCTAGA
Found at i:27133432 original size:252 final size:252
Alignment explanation
Indices: 27132894--27133445 Score: 567
Period size: 252 Copynumber: 2.2 Consensus size: 252
27132884 TAAACTTGAG
* ** *
27132894 AATAAAAGTTTAAATGTTTAATTTTTTAAAAAATTATATTTATTTGACATAATTGACTTGTTACA
1 AATAAAAATTTAAATGTTTAATTTTCCAAAAAATTATATTTATTTGACATAATTGACTTATTACA
* * * *
27132959 TTAAATCTCATATATTTATATCAATATTATGACCATTATTGTTCCACCTTTATAAATTTTTACAT
66 TTAAATCTCACACATTTATATCAATATTATGACCAATATTATTCCACCTTTATAAATTTTTACAT
* ** * * * *
27133024 TGATTCTTACTGCATTACCTCAACGTTTTTCAACTATTAATTTACTCTATAATTATTTTTATTCT
131 TAATTCTTACAACATTACCTCAAAGTTTTTCAACTACTAATTTACACTATAATTATTTTTATCCT
* *** * *
27133089 TACTATTATTAATTCATAGATTAAAATTTGTAAGTTATAAAATACTTTAAACACGAG
196 TACTATTATTAATTCATAAATTAAAATTTGTAAACCATAAAATACTTTAAACACAAA
* * * *
27133146 AATAAAAATTTATATCTTTAATTGCTCC-AAAAATTATATTTATTTTA-ATTTAATTGACTTATT
1 AATAAAAATTTAAATGTTTAATT-TTCCAAAAAATTATATTTATTTGACA--TAATTGACTTATT
* * * * * *
27133209 ACGTTAAATCTCACACA-TTA-AGTCAATATTTTGA-TAATACTTATTCCACTTTTATTATTTTT
63 ACATTAAATCTCACACATTTATA-TCAATATTATGACCAATA-TTATTCCACCTTTATAAATTTT
* ** ** * *
27133271 TATATTAATTCTTACAATTTTATGTCAAAGTTTTTCAACTGCTAATTTTCACTATAATTATTTTT
126 TACATTAATTCTTACAACATTACCTCAAAGTTTTTCAACTACTAATTTACACTATAATTATTTTT
* * * * * * *
27133336 CTCCTTACTATTTTTCATTTATAAATTAAAATTTGTAAACCGTTAAATATTTTAAACTA-AAA
191 ATCCTTACTATTATTAATTCATAAATTAAAATTTGTAAACCATAAAATACTTTAAAC-ACAAA
** * *
27133398 AATAATGATTTAAATGTTTACTTTTCCAAAAAATTATATTTGTTTGAC
1 AATAAAAATTTAAATGTTTAATTTTCCAAAAAATTATATTTATTTGAC
27133446 TTCATTAATT
Statistics
Matches: 239, Mismatches: 53, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
251 8 0.03
252 203 0.85
253 28 0.12
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.47
Consensus pattern (252 bp):
AATAAAAATTTAAATGTTTAATTTTCCAAAAAATTATATTTATTTGACATAATTGACTTATTACA
TTAAATCTCACACATTTATATCAATATTATGACCAATATTATTCCACCTTTATAAATTTTTACAT
TAATTCTTACAACATTACCTCAAAGTTTTTCAACTACTAATTTACACTATAATTATTTTTATCCT
TACTATTATTAATTCATAAATTAAAATTTGTAAACCATAAAATACTTTAAACACAAA
Found at i:27134605 original size:252 final size:249
Alignment explanation
Indices: 27133767--27135568 Score: 1514
Period size: 252 Copynumber: 7.3 Consensus size: 249
27133757 TTATGTTTTA
* * * ** *
27133767 AGTGAAAATTATTAATTGAAAAACTTTGACATAAAATAGTAAGAATTAATATAAAAAGTTATAAA
1 AGTG-AAATTAGTAGTTGAAAAACTTTGACATAAAGTAGTAAGAATTAACGTAAAAAATTATAAA
* ** * * * * * * * * * *
27133832 GGTTAAATAAGCATTATCAATATATTGACATAAATGTGTGAAATTTCACGTAATAAATCAATTAT
65 AGTGGAATAAGTATTGTCAAAATATTGACGTAAATATGTGAGATTTAACATAATAAGTTAATTAT
** * * * * * *
27133897 GTCAAATAAGTATAATTTTTTTGAAAAATTAAATATTTATATTTATATTCTAGAGTTTAAATTAT
130 GTCAAATAAACATAA-TTTTTTGAGAAATTAAACATTTAAATTTTTATTCTCGAGTTTAAAGTAT
** * * * * *
27133962 TTAACAATTTAAAAATTTTAATATATAAATAAAAAATAGTAAAGATAAAAGTAATTAT
194 TTAACAGCTTACAAATTTTAATA-A-GAATGAATAATAGTAAAGATAAAAATAATTAT
* * * *
27134020 AGTAAAAATTAGTAGTTGAAAAACCTTT-ACATAAAATAGTAAAAATTAATGTAAAAAATTATAA
1 AGT-GAAATTAGTAGTTGAAAAA-CTTTGACATAAAGTAGTAAGAATTAACGTAAAAAATTATAA
* * * * * ** *
27134084 AAGTGGAACAAAG-ATTGTTAAAATATTAACGAAAATTTGTGAGATTTAATGTAACAAGTTAATT
64 AAGTGGAA-TAAGTATTGTCAAAATATTGACGTAAATATGTGAGATTTAACATAATAAGTTAATT
* * * * *
27134148 ATATCAAATAAACATAATTTTTTAAGAAATTAAATATTTAAATTTTTATTCTCGAATTTAATGTA
128 ATGTCAAATAAACATAATTTTTTGAGAAATTAAACATTTAAATTTTTATTCTCGAGTTTAAAGTA
* * * * **
27134213 TGTAACGGCTTACAAATTTTAATCTTTA-AATGAAAATAATAGTAAGGATAAAACGAATTAT
193 TTTAACAGCTTACAAATTTTAA---TAAGAATG--AATAATAGTAAAGATAAAAATAATTAT
** * *
27134274 AGTGAAAATTAGTAGTTGAAAAACGCTGACATAAAGTAGTAGGAATTAATGTAAAAAATTATAAA
1 AGTG-AAATTAGTAGTTGAAAAACTTTGACATAAAGTAGTAAGAATTAACGTAAAAAATTATAAA
* * ** * * ** *
27134339 AGTAGAATAAGTATTGTAAAAATATTGGTGTTAACATGTGAGATTTAATGTAATTAGTTAATTAT
65 AGTGGAATAAGTATTGTCAAAATATTGACGTAAATATGTGAGATTTAACATAATAAGTTAATTAT
*
27134404 GTCAAATAAGCATAATTTTTTTGAGAAATTAAACATTTAAATTTTTATTCTCGAGTTTAAAGTAT
130 GTCAAATAAACATAA-TTTTTTGAGAAATTAAACATTTAAATTTTTATTCTCGAGTTTAAAGTAT
* * *
27134469 ATAACAGCTTACAAAATTTAATAAGAAAATGAATAATAGTAAGGATAAAAATAATTAT
194 TTAACAGCTTACAAATTTTAATAAG--AATGAATAATAGTAAAGATAAAAATAATTAT
* * * * * *
27134527 TGTGAAATTAGTAGTT-AAAAAATCTTGACATAAAGCTA-CACGAATTAACATATAAAATTATAA
1 AGTGAAATTAGTAGTTGAAAAACT-TTGACATAAAG-TAGTAAGAATTAACGTAAAAAATTATAA
* *
27134590 AAGTGGAATAAGTATTGTCAAAATATTGACGTAAA-AGTGTGAGATTTAATATAACAAGTTAATT
64 AAGTGGAATAAGTATTGTCAAAATATTGACGTAAATA-TGTGAGATTTAACATAATAAGTTAATT
* * * * *
27134654 ATATTAAATAAACATAATTTTTTGAGAAATTAAATATTTGAAA-TTTTAATCTCAAGTTTAAAGT
128 ATGTCAAATAAACATAATTTTTTGAGAAATTAAACATTT-AAATTTTTATTCTCGAGTTTAAAGT
* * * *
27134718 ATGTACCAACTTACAAATTTTAAT----A-G--T-A-AG----GATTAAAATAATTAT
192 ATTTAACAGCTTACAAATTTTAATAAGAATGAATAATAGTAAAGATAAAAATAATTAT
* * * *
27134763 AATAAATATTAGTAGTTCAAAAA-TCTTGACGTAAAGTA-TCAAGAATTAACGTAAAAAATTATA
1 AGTGAA-ATTAGTAGTTGAAAAACT-TTGACATAAAGTAGT-AAGAATTAACGTAAAAAATTATA
** * * * * *
27134826 AAAGTAAAACAAATATTATCAAAATATTGACGTAAATGTGTGAGATTTAACATAATAAGTCAATT
63 AAAGTGGAATAAGTATTGTCAAAATATTGACGTAAATATGTGAGATTTAACATAATAAGTTAATT
* * *
27134891 ATGTCAAATAAACATAA-TTTTTGAGAAAATTAAACATTTAACTTTTT-TCTCTTGAATTTAAAG
128 ATGTCAAATAAACATAATTTTTTGAG-AAATTAAACATTTAAATTTTTAT-TCTCGAGTTTAAAG
* * *
27134954 TGTTTTAC-GACTTATAAATTTTAATATATGAATGAGA-AATAGTAAAGAT-AAAATAATTAT
191 TATTTAACAG-CTTACAAATTTTAATA-A-GAATGA-ATAATAGTAAAGATAAAAATAATTAT
* ** * *
27135014 AAT-ATTAATTAGTAGTTGAAAAACCTTTGAGGTAAAGT-GATAAGAATTAACCTAAAATATTAT
1 AGTGA--AATTAGTAGTTGAAAAA-CTTTGACATAAAGTAG-TAAGAATTAACGTAAAAAATTAT
* * * * * *
27135077 AAAAGTGGAAAAAGAATTATCAAAATATTGACGTAAATATATAAGATTTAACATAATAAGTCAAT
62 AAAAGTGGAATAAGTATTGTCAAAATATTGACGTAAATATGTGAGATTTAACATAATAAGTTAAT
* * * * * * *
27135142 TATGTCAAATAAATATAATTTTTTAAAAAATTAAACATTTAAATTGTTATTTTCGAATTTAAAAT
127 TATGTCAAATAAACATAATTTTTTGAGAAATTAAACATTTAAATTTTTATTCTCGAGTTTAAAGT
* * ** * ** *
27135207 GTTTTATTGCTTACGAATTTTAATCTTTGCATGAATAATAGTAAAGATAAAAATAATTAT
192 ATTTAACAGCTTACAAATTTTAA--TAAGAATGAATAATAGTAAAGATAAAAATAATTAT
*
27135267 AGTGAAAATTAGTAGTTGAGAAACTTTGAC----A-TA--AAG---TAA--T-AAAAATTATAAA
1 AGTG-AAATTAGTAGTTGAAAAACTTTGACATAAAGTAGTAAGAATTAACGTAAAAAATTATAAA
* * * * * * *
27135319 GGTGGAATAAGAATTGTCAAAATATTAACGTAAATGTATGAGATTTAACGTAATAATTTAATTAT
65 AGTGGAATAAGTATTGTCAAAATATTGACGTAAATATGTGAGATTTAACATAATAAGTTAATTAT
* * * * **
27135384 GTTAAATAAACATAA-ATTTTGAAAAATTAAACATTAAAATTTTTATTCTTAAGTTTAAAGTATT
130 GTCAAATAAACATAATTTTTTGAGAAATTAAACATTTAAATTTTTATTCTCGAGTTTAAAGTATT
* ** * * *
27135448 TTATGGCTTACAAGTTTTAATCTATGAATGAATAATAATAAAGATAAAAATAATTAT
195 TAACAGCTTACAAATTTTAA--TAAGAATGAATAATAGTAAAGATAAAAATAATTAT
* * * * *
27135505 TGTGAAAGTTAGTAGTTGAAAAACTTTAACATAAAGCAGGAAGAATTAA-TTAAAAAATTATAAA
1 AGTGAAA-TTAGTAGTTGAAAAACTTTGACATAAAGTAGTAAGAATTAACGTAAAAAATTATAAA
27135569 GGTAAAGTAG
Statistics
Matches: 1282, Mismatches: 195, Indels: 147
0.79 0.12 0.09
Matches are distributed among these distances:
236 29 0.02
237 160 0.12
238 118 0.09
239 80 0.06
240 3 0.00
241 1 0.00
242 5 0.00
243 2 0.00
244 2 0.00
245 7 0.01
247 2 0.00
248 6 0.00
249 1 0.00
250 13 0.01
251 96 0.07
252 356 0.28
253 183 0.14
254 149 0.12
255 69 0.05
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (249 bp):
AGTGAAATTAGTAGTTGAAAAACTTTGACATAAAGTAGTAAGAATTAACGTAAAAAATTATAAAA
GTGGAATAAGTATTGTCAAAATATTGACGTAAATATGTGAGATTTAACATAATAAGTTAATTATG
TCAAATAAACATAATTTTTTGAGAAATTAAACATTTAAATTTTTATTCTCGAGTTTAAAGTATTT
AACAGCTTACAAATTTTAATAAGAATGAATAATAGTAAAGATAAAAATAATTAT
Found at i:27134923 original size:237 final size:234
Alignment explanation
Indices: 27134502--27135191 Score: 710
Period size: 237 Copynumber: 2.9 Consensus size: 234
27134492 AGAAAATGAA
* * * *
27134502 TAATAGTAAGGATAAAAATAATTATTGTGAA-ATTAGTAGTTAAAAAATCTTGACATAAAGCTA-
1 TAATAGTAAGGATTAAAATAATTATTATAAATATTAGTAGTTAAAAAATCTTGACGTAAAG-TAT
* * * * * * *
27134565 CACGAATTAACATATAAAATTATAAAAGTGGAATAAGTATTGTCAAAATATTGACGTAAAAGTGT
65 CAAGAATTAACATAAAAAATTATAAAAGT-AAAAAAATATTATCAAAATATTGACGTAAATGTGT
* * * * * *
27134630 GAGATTTAATATAACAAGTTAATTATATTAAATAAACATAATTTTTTGAG-AAATTAAATATTTG
129 GAGATTTAACATAATAAGTCAATTATGTCAAATAAACATAA-TTTTTGAGAAAATTAAACATTT-
27134694 AAATTTTAATCTC-AAGTTTAAAGT-ATGTACCAACTTACAAATTT
192 AAATTTT-ATCTCTAA-TTTAAAGTGATGTA-CAACTTACAAATTT
* *
27134738 TAATAGTAAGGATTAAAATAATTATAATAAATATTAGTAGTTCAAAAATCTTGACGTAAAGTATC
1 TAATAGTAAGGATTAAAATAATTATTATAAATATTAGTAGTTAAAAAATCTTGACGTAAAGTATC
*
27134803 AAGAATTAACGTAAAAAATTATAAAAGTAAAACAAATATTATCAAAATATTGACGTAAATGTGTG
66 AAGAATTAACATAAAAAATTATAAAAGTAAAA-AAATATTATCAAAATATTGACGTAAATGTGTG
*
27134868 AGATTTAACATAATAAGTCAATTATGTCAAATAAACATAATTTTTGAGAAAATTAAACATTTAAC
130 AGATTTAACATAATAAGTCAATTATGTCAAATAAACATAATTTTTGAGAAAATTAAACATTTAAA
* * * * *
27134933 TTTTTTCTCTTGAATTTAAAGTGTTTTACGACTTATAAATTT
195 TTTTATCTC-T-AATTTAAAGTGATGTACAACTTACAAATTT
* * * *
27134975 TAATATATGAATGAGAAATAGTAAAGATAAAATAATTATAATATTAATTAGTAGTTGAAAAACCT
1 TAATA-GT-AA-G-G--AT--TAAA-AT--AATTATTATAA-A-T-ATTAGTAGTTAAAAAATC-
* * * *
27135040 TTGAGGTAAAGTGAT-AAGAATTAACCTAAAATATTATAAAAGTGGAAAAAGA-ATTATCAAAAT
51 TTGACGTAAAGT-ATCAAGAATTAACATAAAAAATTATAAAAGT--AAAAAAATATTATCAAAAT
* * * * * *
27135103 ATTGACGTAAATATATAAGATTTAACATAATAAGTCAATTATGTCAAATAAATATAATTTTTTAA
113 ATTGACGTAAATGTGTGAGATTTAACATAATAAGTCAATTATGTCAAATAAACATAATTTTTGAG
27135168 AAAATTAAACATTTAAATTGTTAT
178 AAAATTAAACATTTAAATT-TTAT
27135192 TTTCGAATTT
Statistics
Matches: 384, Mismatches: 43, Indels: 37
0.83 0.09 0.08
Matches are distributed among these distances:
235 4 0.01
236 45 0.12
237 154 0.40
238 6 0.02
239 2 0.01
240 1 0.00
241 1 0.00
243 2 0.01
245 4 0.01
246 2 0.01
248 9 0.02
249 1 0.00
250 1 0.00
251 16 0.04
252 125 0.33
253 7 0.02
254 4 0.01
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (234 bp):
TAATAGTAAGGATTAAAATAATTATTATAAATATTAGTAGTTAAAAAATCTTGACGTAAAGTATC
AAGAATTAACATAAAAAATTATAAAAGTAAAAAAATATTATCAAAATATTGACGTAAATGTGTGA
GATTTAACATAATAAGTCAATTATGTCAAATAAACATAATTTTTGAGAAAATTAAACATTTAAAT
TTTATCTCTAATTTAAAGTGATGTACAACTTACAAATTT
Found at i:27135228 original size:489 final size:486
Alignment explanation
Indices: 27134249--27135628 Score: 1251
Period size: 489 Copynumber: 2.8 Consensus size: 486
27134239 TAAATGAAAA
* * * *
27134249 TAATAGTAAGGATAAAACGAATTATAGTGAAA-ATTAGTAGTTGAAAAA-CGCTGACATAAAGTA
1 TAATAGTAAGGATAAAA-TAATTATAAT-AAATATTAGTAGTTGAAAAATC-TTGACGTAAAGTA
* * * * ** * **
27134312 GTAGGAATTAATGTAAAAAATTATAAAAGTAGAATAAGTATTGTAAAAATATTGGTGTTAACATG
63 -TAAGAATTAAAGTAAAAAATTATAAAAGTAGAATAAATATTGTCAAAATATTGACGTAAATGTG
* * *
27134377 TGAGATTTAATGTAATTAGTTAATTATGTCAAATAAGCATAATTTTTTTGAG-AAATTAAACATT
127 TGAGATTTAACGTAATAAGTTAATTATGTCAAATAAACATAA--TTTTTGAGAAAATTAAACATT
* * * * *
27134441 TAAATTTTTATTCTCGAGTTTAAAGTATATAAC-AGCTTACAAAATTTAATA-A-GAAAATGAAT
190 TAAATTTTTATTCTTGAATTTAAAGTATTTTACGA-CTTACAAATTTTAATATATG--AATGAAT
* * * *
27134503 AATAGTAAGGATAAAAATAATTATTGTGAAATTAGTAGTTAAAAAATCTTGACATAAAGCTACAC
252 AATAGTAAAGATAAAAATAATTATTATGAAATTAGTAGTTAAAAAACCTTGACATAAAGCTACAA
* * * * *
27134568 GAATTAACATATAAAATTATAAAAGTGGAATAAGTATTGTCAAAATATTGACGTAAAAGTGTGAG
317 GAATTAACATATAAAATTATAAAAGTGGAAAAAGAATTATCAAAATATTGACGTAAAAGTATAAG
* * * * * *
27134633 ATTTAATATAACAAGTTAATTATATTAAATAAACATAATTTTTTGAGAAATTAAATATTTGAAAT
382 ATTTAACATAACAAGTCAATTATATCAAATAAACATAATTTTTTAAAAAATTAAACATTTGAAAT
27134698 TTTAATCTCAAGTTTAAAGTATGTACCAACTTACAAATTT
447 TTTAATCTCAAGTTTAAAGTATGTACCAACTTACAAATTT
*
27134738 TAATAGTAAGGATTAAAATAATTATAATAAATATTAGTAGTTCAAAAATCTTGACGTAAAGTATC
1 TAATAGTAAGGA-TAAAATAATTATAATAAATATTAGTAGTTGAAAAATCTTGACGTAAAGTAT-
* * * *
27134803 AAGAATTAACGTAAAAAATTATAAAAGTAAAACAAATATTATCAAAATATTGACGTAAATGTGTG
64 AAGAATTAAAGTAAAAAATTATAAAAGTAGAATAAATATTGTCAAAATATTGACGTAAATGTGTG
* * *
27134868 AGATTTAACATAATAAGTCAATTATGTCAAATAAACATAATTTTTGAGAAAATTAAACATTTAAC
129 AGATTTAACGTAATAAGTTAATTATGTCAAATAAACATAATTTTTGAGAAAATTAAACATTTAAA
* *
27134933 TTTTT-TCTCTTGAATTTAAAGTGTTTTACGACTTATAAATTTTAATATATGAATGAGA-AATAG
194 TTTTTAT-TCTTGAATTTAAAGTATTTTACGACTTACAAATTTTAATATATGAATGA-ATAATAG
* * ** *
27134996 TAAAGAT-AAAATAATTATAATAT-TAATTAGTAGTTGAAAAACCTTTGAGGTAAAG-TGATAAG
257 TAAAGATAAAAATAATTAT--TATGAAATTAGTAGTTAAAAAACC-TTGACATAAAGCT-ACAAG
*
27135058 AATTAACCTA-AAATATTATAAAAGTGGAAAAAGAATTATCAAAATATTGACGTAAATA-TATAA
318 AATTAACATATAAA-ATTATAAAAGTGGAAAAAGAATTATCAAAATATTGACGTAAA-AGTATAA
* * *
27135121 GATTTAACATAATAAGTCAATTATGTCAAATAAATATAATTTTTTAAAAAATTAAACATTT-AAA
381 GATTTAACATAACAAGTCAATTATATCAAATAAACATAATTTTTTAAAAAATTAAACATTTGAAA
* * * *** *
27135185 TTGTTATTTTCGAA-TTTAAAATGT-TTTA-TTGCTTACGAATTT
446 TT-TTAATCTC-AAGTTT-AAA-GTATGTACCAACTTACAAATTT
* * * * * ** *
27135227 TAATCTTTGCATGAATAATAGTAAAGATAA-AAATAATTA-TAG-TGAAAATTAGTAGTTGA-G-
1 TAA---TAGTAAGGATAA-AATAATTATAATAAAT-ATTAGTAGTTGAAAA--A-T-CTTGACGT
* * * * *
27135287 AAACT-T-TGACA-TAAAGTAATAAAAATTATAAAGGTGGAATAAGA-ATTGTCAAAATATTAAC
57 AAAGTATAAGA-ATTAAAGT-A-AAAAATTATAAAAGTAGAATAA-ATATTGTCAAAATATTGAC
* * * *
27135348 GTAAATGTATGAGATTTAACGTAATAATTTAATTATGTTAAATAAACATAAATTTTGA-AAAATT
118 GTAAATGTGTGAGATTTAACGTAATAAGTTAATTATGTCAAATAAACATAATTTTTGAGAAAATT
* * * * *
27135412 AAACATTAAAATTTTTATTCTT-AAGTTTAAAGTATTTTATGGCTTACAAGTTTTAATCTATGAA
183 AAACATTTAAATTTTTATTCTTGAA-TTTAAAGTATTTTACGACTTACAAATTTTAATATATGAA
* * * * *
27135476 TGAATAATAATAAAGATAAAAATAATTATTGTGAAAGTTAGTAGTTGAAAAACTTTAACATAAAG
247 TGAATAATAGTAAAGATAAAAATAATTATTATGAAA-TTAGTAGTTAAAAAACCTTGACATAAAG
* * * * * * * *
27135541 C-AGGAAGAATTAA-TTAAAAAATTAT-AAAG-GTAAAGTAGATATTATTAAAATATTAACAT-A
311 CTA-CAAGAATTAACATATAAAATTATAAAAGTGGAAA-AAGA-ATTATCAAAATATTGACGTAA
* * *
27135601 AACTAATGAGATTTAACTTAACAAGTCA
373 AAGT-ATAAGATTTAACATAACAAGTCA
27135629 TAATAATAAT
Statistics
Matches: 735, Mismatches: 110, Indels: 92
0.78 0.12 0.10
Matches are distributed among these distances:
487 25 0.03
488 107 0.15
489 332 0.45
490 116 0.16
491 126 0.17
492 23 0.03
493 2 0.00
494 4 0.01
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (486 bp):
TAATAGTAAGGATAAAATAATTATAATAAATATTAGTAGTTGAAAAATCTTGACGTAAAGTATAA
GAATTAAAGTAAAAAATTATAAAAGTAGAATAAATATTGTCAAAATATTGACGTAAATGTGTGAG
ATTTAACGTAATAAGTTAATTATGTCAAATAAACATAATTTTTGAGAAAATTAAACATTTAAATT
TTTATTCTTGAATTTAAAGTATTTTACGACTTACAAATTTTAATATATGAATGAATAATAGTAAA
GATAAAAATAATTATTATGAAATTAGTAGTTAAAAAACCTTGACATAAAGCTACAAGAATTAACA
TATAAAATTATAAAAGTGGAAAAAGAATTATCAAAATATTGACGTAAAAGTATAAGATTTAACAT
AACAAGTCAATTATATCAAATAAACATAATTTTTTAAAAAATTAAACATTTGAAATTTTAATCTC
AAGTTTAAAGTATGTACCAACTTACAAATTT
Found at i:27135613 original size:741 final size:741
Alignment explanation
Indices: 27133817--27135628 Score: 1758
Period size: 743 Copynumber: 2.4 Consensus size: 741
27133807 AAGAATTAAT
** * * * * * *
27133817 ATAAAAAGTTATAAAGGTTAAATAAGCATTATCAATATATTGACATAAATGTGTGAAATTTCACG
1 ATAAAAA-TTATAAAGGTGGAATAAGAATTGTCAAAATATTGACGTAAATGTGTGAGATTTAACG
* * ** * * *
27133882 TAATAAATCAATTATGTCAAATAAGTATAATTTTTTTGAAAAATTAAATATTTATATTTATATTC
65 TAATAAATTAATTATGTTAAATAAACATAA-TTTTTTGAAAAATTAAATATTAAAATTTTTATTC
* * * * *
27133947 -TAGAGTTTAAATTATTTAACAATTTAAAAATTTTAATATATAAATAAAAAATAGTAAAGATAAA
129 TTA-AGTTTAAAGTATTTTAC---TT-ACAATTTTAATCTAT-AAT-AATAATAGTAAAGATAAA
* * * *
27134011 AGTAATTATAGTAAAAATTAGTAGTTGAAAAACCTTTACATAAAATAGTAAAAATTAATGTAAAA
187 AATAATTATAGT-AAAATTAGTAGTTGAAAAA-CTTTACATAAAGTAGCAAGAATTAAT-TAAAA
* * * **
27134076 AATTATAAAAGTGGAACAAAGATTGTTAAAATATTAACGA-AAATTTGTGAGATTTAATGTAACA
249 AATTATAAAAGT-AAACAAATATTATTAAAATATTAAC-ATAAA-TTGTGAGATTTAACATAACA
* * *
27134140 AGTTAATTATATCAAATAAACATAATTTTTTAAGAAATTAAATATTTAAATTTTTATTCTCGAAT
311 AGTCAATTATATCAAATAAACATAATTTTTGAAGAAATTAAACATTTAAATTTTTATTCTCGAAT
* * * * *
27134205 TTAATGTATGTAACGGCTTACAAATTTTAATCTTTAAATGAAAATAATAGTAAGGATAAAACGAA
376 TTAAAGTATGTAACGACTTACAAATTTTAATATATAAATGAAAATAATAGTAAAGATAAAACGAA
* * **
27134270 TTATAGTGAAAATTAGTAGTTGAAAAACGCTGACATAAAGTAGTAGGAATTAATGTAAAAAATTA
441 TTATAATGAAAATTAGTAGTTGAAAAACGCTGACATAAAGTAGTAAGAATTAACCTAAAAAATTA
* * * ** * * * ** * *
27134335 TAAAAGTAGAATAAGTATTGTAAAAATATTGGTGTTAACATGTGAGATTTAATGTAATTAGTTAA
506 TAAAAGTAGAAAAAGAATTATAAAAATATTGACGTAAACATATAAGATTTAACATAATAAGTCAA
* * * * *
27134400 TTATGTCAAATAAGCATAATTTTTTTGAGAAATTAAACATTTAAATTTTTATTCTCGAGTTTAAA
571 TTATGTCAAATAAACATAATTTTTTTAAAAAATTAAACATTTAAATTGTTATTCTCGAATTTAAA
* * *
27134465 GTATATAACAGCTTACAAAATTTAATAAGAAAATGAATAATAGTAAGGATAAAAATAATTATTGT
636 ATATATAACAGCTTACAAAATTTAATAAGAAAATGAATAATAGTAAAGATAAAAATAATTATAGT
27134530 GAAATTAGTAGTTAAAAAATCTTGACATAAAGCTACACGAATTAAC
701 GAAATTAGTAGTTAAAAAATCTTGACAT-AA-C-ACACG-A-TAAC
* * * **
27134576 ATATAAAATTATAAAAGTGGAATAAGTATTGTCAAAATATTGACGTAAAAGTGTGAGATTTAATA
1 ATA-AAAATTATAAAGGTGGAATAAGAATTGTCAAAATATTGACGTAAATGTGTGAGATTTAACG
* * * * * *
27134641 TAACAAGTTAATTATATTAAATAAACATAATTTTTTGAGAAATTAAATATTTGAAA-TTTTAATC
65 TAATAAATTAATTATGTTAAATAAACATAATTTTTTGAAAAATTAAATA-TTAAAATTTTTATTC
* * * ** * *
27134705 TCAAGTTTAAAGTA-TGTAC---CAA-CTT-A-C-A-AATTTTAATAGTAAGGATTAAAATAATT
129 TTAAGTTTAAAGTATTTTACTTACAATTTTAATCTATAATAATAATAGTAAAGATAAAAATAATT
* * * * * *
27134761 ATAATAAATATTAGTAGTTCAAAAATCTTGACGTAAAGTATCAAGAATTAACGTAAAAAATTATA
194 ATAGTAAA-ATTAGTAGTTGAAAAA-CTTTACATAAAGTAGCAAGAATTAA-TTAAAAAATTATA
* * * *
27134826 AAAGTAAAACAAATATTATCAAAATATTGACGTAAATGTGTGAGATTTAACATAATAAGTCAATT
256 AAAGT-AAACAAATATTATTAAAATATTAACATAAAT-TGTGAGATTTAACATAACAAGTCAATT
* * *
27134891 ATGTCAAATAAACATAATTTTTG-AGAAAATTAAACATTTAACTTTTT-TCTCTTGAATTTAAAG
319 ATATCAAATAAACATAATTTTTGAAG-AAATTAAACATTTAAATTTTTAT-TCTCGAATTTAAAG
* * * * * * *
27134954 TGTTTTACGACTTATAAATTTTAATATATGAATG-AGA-AATAGTAAAGATAAAA-TAATTATAA
382 TATGTAACGACTTACAAATTTTAATATATAAATGAAAATAATAGTAAAGATAAAACGAATTATAA
* ** *
27135016 T-ATTAATTAGTAGTTGAAAAAC-CTTTGAGGTAAAGT-GATAAGAATTAACCTAAAATATTATA
447 TGA-AAATTAGTAGTTGAAAAACGC--TGACATAAAGTAG-TAAGAATTAACCTAAAAAATTATA
* * *
27135078 AAAGTGGAAAAAGAATTATCAAAATATTGACGTAAATATATAAGATTTAACATAATAAGTCAATT
508 AAAGTAGAAAAAGAATTATAAAAATATTGACGTAAACATATAAGATTTAACATAATAAGTCAATT
* *
27135143 ATGTCAAATAAATATAA-TTTTTTAAAAAATTAAACATTTAAATTGTTATTTTCGAATTTAAAAT
573 ATGTCAAATAAACATAATTTTTTTAAAAAATTAAACATTTAAATTGTTATTCTCGAATTTAAAAT
* * * ** * * ******
27135207 GTTTTATTGCTTACGAATTTTAATCTTTGCATGAATAATAGTAAAGATAAAAATAATTATAGTGA
638 ATATAACAGCTTACAAAATTTAATAAGAAAATGAATAATAGTAAAGATAAAAATAATTATAGTG-
* *
27135272 AAATTAGTAGTTGAGAAA-CTTTGACAT-A-A-A-G-T-A-
702 AAATTAGTAGTTAAAAAATC-TTGACATAACACACGATAAC
* *
27135305 ATAAAAATTATAAAGGTGGAATAAGAATTGTCAAAATATTAACGTAAATGTATGAGATTTAACGT
1 ATAAAAATTATAAAGGTGGAATAAGAATTGTCAAAATATTGACGTAAATGTGTGAGATTTAACGT
* * *
27135370 AATAATTTAATTATGTTAAATAAACATAA-ATTTTGAAAAATTAAACATTAAAATTTTTATTCTT
66 AATAAATTAATTATGTTAAATAAACATAATTTTTTGAAAAATTAAATATTAAAATTTTTATTCTT
*
27135434 AAGTTTAAAGTATTTTATGGCTTACAAGTTTTAATCTATGAATGAATAATAATAAAGATAAAAAT
131 AAGTTTAAAGTATTTTA---CTTACAA-TTTTAATCTAT-AAT-AATAATAGTAAAGATAAAAAT
* * * *
27135499 AATTATTGTGAAAGTTAGTAGTTGAAAAACTTTAACATAAAGCAGGAAGAATTAATTAAAAAATT
190 AATTATAGT-AAAATTAGTAGTTGAAAAACTTT-ACATAAAGTAGCAAGAATTAATTAAAAAATT
* * * ** *
27135564 ATAAAGGTAAAGTAGATATTATTAAAATATTAACATAAACTAATGAGATTTAACTTAACAAGTCA
253 ATAAAAGTAAA-CAAATATTATTAAAATATTAACATAAA-TTGTGAGATTTAACATAACAAGTCA
27135629 TAATAATAAT
Statistics
Matches: 852, Mismatches: 166, Indels: 88
0.77 0.15 0.08
Matches are distributed among these distances:
726 5 0.01
727 35 0.04
728 84 0.10
729 3 0.00
730 1 0.00
731 2 0.00
734 4 0.00
735 1 0.00
736 3 0.00
737 1 0.00
738 1 0.00
739 4 0.00
740 121 0.14
741 196 0.23
742 64 0.08
743 201 0.24
744 3 0.00
746 1 0.00
748 1 0.00
749 2 0.00
750 2 0.00
757 3 0.00
758 34 0.04
759 76 0.09
760 4 0.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (741 bp):
ATAAAAATTATAAAGGTGGAATAAGAATTGTCAAAATATTGACGTAAATGTGTGAGATTTAACGT
AATAAATTAATTATGTTAAATAAACATAATTTTTTGAAAAATTAAATATTAAAATTTTTATTCTT
AAGTTTAAAGTATTTTACTTACAATTTTAATCTATAATAATAATAGTAAAGATAAAAATAATTAT
AGTAAAATTAGTAGTTGAAAAACTTTACATAAAGTAGCAAGAATTAATTAAAAAATTATAAAAGT
AAACAAATATTATTAAAATATTAACATAAATTGTGAGATTTAACATAACAAGTCAATTATATCAA
ATAAACATAATTTTTGAAGAAATTAAACATTTAAATTTTTATTCTCGAATTTAAAGTATGTAACG
ACTTACAAATTTTAATATATAAATGAAAATAATAGTAAAGATAAAACGAATTATAATGAAAATTA
GTAGTTGAAAAACGCTGACATAAAGTAGTAAGAATTAACCTAAAAAATTATAAAAGTAGAAAAAG
AATTATAAAAATATTGACGTAAACATATAAGATTTAACATAATAAGTCAATTATGTCAAATAAAC
ATAATTTTTTTAAAAAATTAAACATTTAAATTGTTATTCTCGAATTTAAAATATATAACAGCTTA
CAAAATTTAATAAGAAAATGAATAATAGTAAAGATAAAAATAATTATAGTGAAATTAGTAGTTAA
AAAATCTTGACATAACACACGATAAC
Found at i:27141159 original size:2 final size:2
Alignment explanation
Indices: 27141147--27141184 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
27141137 TTTCTTTCTT
*
27141147 TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
27141185 CACATAATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:27151801 original size:46 final size:45
Alignment explanation
Indices: 27151749--27151844 Score: 156
Period size: 46 Copynumber: 2.1 Consensus size: 45
27151739 TCTAGTCGAT
*
27151749 AAAGGTCAATGGACTGTCATATATGCATTATGCTCACCTTGACTGA
1 AAAGGTCAATGGACTGTCATATATGCATTAGGCTCACCTTG-CTGA
* *
27151795 AAAGGTCAATGGACTGTCATATATGCATTAGGCTCAGCTTGTTGA
1 AAAGGTCAATGGACTGTCATATATGCATTAGGCTCACCTTGCTGA
27151840 AAAGG
1 AAAGG
27151845 GCACAAATTA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 8 0.17
46 39 0.83
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (45 bp):
AAAGGTCAATGGACTGTCATATATGCATTAGGCTCACCTTGCTGA
Found at i:27152901 original size:45 final size:44
Alignment explanation
Indices: 27152837--27153099 Score: 364
Period size: 45 Copynumber: 5.8 Consensus size: 44
27152827 CACACTATGA
* * *
27152837 TGTTACACGTCATGTACAAAAAGCTGTAACAAGCTATGGTTAGCG
1 TGTTACACGCCATGTACAAAAA-CTGTGACAAGCCATGGTTAGCG
27152882 TGTTACACGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCG
1 TGTTACACGCCATGTACAAAAA-CTGTGACAAGCCATGGTTAGCG
* * *
27152927 TGTTACACACCATGTACAAAAACCTGTGACAAGCTATGGTTACCG
1 TGTTACACGCCATGTACAAAAA-CTGTGACAAGCCATGGTTAGCG
* * * *
27152972 TGTTATATGCCATCTACAAAAACTTGTGACAAGCCATGATTAGCG
1 TGTTACACGCCATGTACAAAAAC-TGTGACAAGCCATGGTTAGCG
*
27153017 TGTTACACGCCATGTACAAAAACATGTGACAAGCCATGGTTAGCT
1 TGTTACACGCCATGTACAAAAAC-TGTGACAAGCCATGGTTAGCG
*
27153062 TGTTACACGCCATGTACAAAAATATGTGACAAGCCATG
1 TGTTACACGCCATGTACAAAAA-CTGTGACAAGCCATG
27153100 TACAAAAACC
Statistics
Matches: 195, Mismatches: 21, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
44 1 0.01
45 194 0.99
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (44 bp):
TGTTACACGCCATGTACAAAAACTGTGACAAGCCATGGTTAGCG
Found at i:27153079 original size:135 final size:135
Alignment explanation
Indices: 27152851--27153095 Score: 402
Period size: 135 Copynumber: 1.8 Consensus size: 135
27152841 ACACGTCATG
* * *
27152851 TACAAAAAGCTGTAACAAGCTATGGTTAGCGTGTTACACGCCATGTACAAAAACCTGTGACAAGC
1 TACAAAAAGCTGTAACAAGCCATGATTAGCGTGTTACACGCCATGTACAAAAACATGTGACAAGC
*
27152916 CATGGTTAGCGTGTTACACACCATGTACAAAAACCTGTGACAAGCTATGGTTACCGTGTTATATG
66 CATGGTTAGCGTGTTACACACCATGTACAAAAACATGTGACAAGCTATGGTTACCGTGTTATATG
27152981 CCATC
131 CCATC
*
27152986 TACAAAAA-CTTGTGACAAGCCATGATTAGCGTGTTACACGCCATGTACAAAAACATGTGACAAG
1 TACAAAAAGC-TGTAACAAGCCATGATTAGCGTGTTACACGCCATGTACAAAAACATGTGACAAG
* * *
27153050 CCATGGTTAGCTTGTTACACGCCATGTACAAAAATATGTGACAAGC
65 CCATGGTTAGCGTGTTACACACCATGTACAAAAACATGTGACAAGC
27153096 CATGTACAAA
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
134 1 0.01
135 100 0.99
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (135 bp):
TACAAAAAGCTGTAACAAGCCATGATTAGCGTGTTACACGCCATGTACAAAAACATGTGACAAGC
CATGGTTAGCGTGTTACACACCATGTACAAAAACATGTGACAAGCTATGGTTACCGTGTTATATG
CCATC
Found at i:27153101 original size:69 final size:69
Alignment explanation
Indices: 27153025--27153168 Score: 236
Period size: 69 Copynumber: 2.1 Consensus size: 69
27153015 CGTGTTACAC
*
27153025 GCCATGTACAAAAACATGTGACAAGCCATGGTTAGCTTGTTACACGCCATGTACAAAAA-TATGT
1 GCCATGTACAAAAACATATGACAAGCCATGGTTAGCTTGTTACACGCCATGTACAAAAACT-TGT
27153089 GACAA
65 GACAA
* **
27153094 GCCATGTACAAAAACCTATGACAAGTTATGGTTAGCTTGTTACACGCCATGTACAAAAACTTGTG
1 GCCATGTACAAAAACATATGACAAGCCATGGTTAGCTTGTTACACGCCATGTACAAAAACTTGTG
27153159 ACAA
66 ACAA
27153163 GCCATG
1 GCCATG
27153169 GTTAGGTTAT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
69 69 0.99
70 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (69 bp):
GCCATGTACAAAAACATATGACAAGCCATGGTTAGCTTGTTACACGCCATGTACAAAAACTTGTG
ACAA
Found at i:27153115 original size:24 final size:24
Alignment explanation
Indices: 27153070--27153118 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
27153060 CTTGTTACAC
* *
27153070 GCCATGTACAAAAATATGTGACAA
1 GCCATGTACAAAAACATATGACAA
*
27153094 GCCATGTACAAAAACCTATGACAA
1 GCCATGTACAAAAACATATGACAA
27153118 G
1 G
27153119 TTATGGTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.18
Consensus pattern (24 bp):
GCCATGTACAAAAACATATGACAA
Found at i:27153197 original size:45 final size:45
Alignment explanation
Indices: 27153094--27153190 Score: 131
Period size: 45 Copynumber: 2.2 Consensus size: 45
27153084 TATGTGACAA
** *
27153094 GCCATGTACAAAAACCTATGACAAGTTATGGTTAGCTTGTTACAC
1 GCCATGTACAAAAACCTATGACAAGCCATGGTTAGCTTATTACAC
* * *
27153139 GCCATGTACAAAAACTTGTGACAAGCCATGGTTAGGTTATTACAC
1 GCCATGTACAAAAACCTATGACAAGCCATGGTTAGCTTATTACAC
*
27153184 GTCATGT
1 GCCATGT
27153191 TGAAAAAAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (45 bp):
GCCATGTACAAAAACCTATGACAAGCCATGGTTAGCTTATTACAC
Found at i:27153197 original size:114 final size:114
Alignment explanation
Indices: 27152980--27153190 Score: 323
Period size: 114 Copynumber: 1.9 Consensus size: 114
27152970 CGTGTTATAT
* *
27152980 GCCATCTACAAAAACTTGTGACAAGCCATGATTAGCGTGTTACACGCCATGTACAAAAACATGTG
1 GCCATCTACAAAAACCTATGACAAGCCATGATTAGCGTGTTACACGCCATGTACAAAAACATGTG
*
27153045 ACAAGCCATGGTTAGCTTGTTACACGCCATGTACAAAAATATGTGACAA
66 ACAAGCCATGGTTAGCTTATTACACGCCATGTACAAAAATATGTGACAA
* ** * * *
27153094 GCCATGTACAAAAACCTATGACAAGTTATGGTTAGCTTGTTACACGCCATGTACAAAAACTTGTG
1 GCCATCTACAAAAACCTATGACAAGCCATGATTAGCGTGTTACACGCCATGTACAAAAACATGTG
* *
27153159 ACAAGCCATGGTTAGGTTATTACACGTCATGT
66 ACAAGCCATGGTTAGCTTATTACACGCCATGT
27153191 TGAAAAAAAC
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 86 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (114 bp):
GCCATCTACAAAAACCTATGACAAGCCATGATTAGCGTGTTACACGCCATGTACAAAAACATGTG
ACAAGCCATGGTTAGCTTATTACACGCCATGTACAAAAATATGTGACAA
Found at i:27153331 original size:29 final size:28
Alignment explanation
Indices: 27153275--27153351 Score: 75
Period size: 29 Copynumber: 2.8 Consensus size: 28
27153265 GCCATGTTAA
* ** *
27153275 AAAAAATATTGTTATTACACGCCCTATT
1 AAAAAATATTGTTGTTACACTACATATT
*
27153303 GAAAAAATATTGTTGTTACACTATATATT
1 -AAAAAATATTGTTGTTACACTACATATT
* *
27153332 CAAAAACATT-TTGTTACACT
1 AAAAAATATTGTTGTTACACT
27153352 TTAATGTCTA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 10 0.24
28 8 0.20
29 23 0.56
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (28 bp):
AAAAAATATTGTTGTTACACTACATATT
Found at i:27153374 original size:28 final size:28
Alignment explanation
Indices: 27153305--27153376 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
27153295 GCCCTATTGA
27153305 AAAAATATTGTTGTTACACTATATATTC
1 AAAAATATTGTTGTTACACTATATATTC
* *
27153333 AAAAACATT-TTGTTACACTTTA-ATGTC
1 AAAAATATTGTTGTTACACTATATAT-TC
* *
27153360 TAAAATGTTGTTGTTAC
1 AAAAATATTGTTGTTAC
27153377 TTACGAACCA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 2 0.05
27 20 0.54
28 15 0.41
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (28 bp):
AAAAATATTGTTGTTACACTATATATTC
Found at i:27159483 original size:64 final size:66
Alignment explanation
Indices: 27159293--27159472 Score: 193
Period size: 66 Copynumber: 2.8 Consensus size: 66
27159283 TATTCTCCTG
* ** * * * * *
27159293 ACATCCAATAAGTCGTTCCTTAATATGCTCTTCCAAGACCAGCACGTTGTCCCATGATTGAGCTC
1 ACATCCAATAAGACAATCCTTAACATGCTCTTCCATGACAAGCACATTCTCCCATGATTGAGCTC
27159358 A
66 A
* * ** * * *
27159359 ACATCCAATAAGCCAATCCTTAACGTGCTCTTTTATGACAAGCACGTTCTCCCATCATTGAGCTT
1 ACATCCAATAAGACAATCCTTAACATGCTCTTCCATGACAAGCACATTCTCCCATGATTGAGCTC
27159424 A
66 A
* *
27159425 ACATCCAATAA-ACATTCTTTAACAT-CTCTTCCATGACAAGCACATTCT
1 ACATCCAATAAGACAATCCTTAACATGCTCTTCCATGACAAGCACATTCT
27159473 GTTATGATTG
Statistics
Matches: 95, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
64 20 0.21
65 10 0.11
66 65 0.68
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.30
Consensus pattern (66 bp):
ACATCCAATAAGACAATCCTTAACATGCTCTTCCATGACAAGCACATTCTCCCATGATTGAGCTC
A
Found at i:27164176 original size:65 final size:66
Alignment explanation
Indices: 27164068--27164190 Score: 178
Period size: 65 Copynumber: 1.9 Consensus size: 66
27164058 CTCATTCTCC
*
27164068 TAACATCCAATAAGCCATTCCTTAATGTACTTTTCCATAACAAGCAC-TTTCTTCCATGGTTGAG
1 TAACATCCAATAAGCCATTCCTTAACGTACTTTTCCATAACAAGCACATTT-TTCCATGGTTGAG
27164132 CT
65 CT
* * * *
27164134 TAACATCCAATAA-CTATTCTTTAACGTGCTTTTCCATGACAAGCACATTTTTCCATG
1 TAACATCCAATAAGCCATTCCTTAACGTACTTTTCCATAACAAGCACATTTTTCCATG
27164191 ATTCAATGTG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
65 35 0.69
66 16 0.31
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (66 bp):
TAACATCCAATAAGCCATTCCTTAACGTACTTTTCCATAACAAGCACATTTTTCCATGGTTGAGC
T
Found at i:27190797 original size:74 final size:74
Alignment explanation
Indices: 27190713--27190859 Score: 258
Period size: 74 Copynumber: 2.0 Consensus size: 74
27190703 CCTCGATCTA
* *
27190713 GTTTGCACTAATCATGATACAAGATAAAAATTATCTTATCTTACTCTTATTAATCCTTGCGCACA
1 GTTTGCACTAATCATGATACAAGATAAAAATTATCTTATCTTACTCTTATTAACCCTTGCCCACA
27190778 CTAAACATT
66 CTAAACATT
*
27190787 GTTTGCACTAATCATGATATAAGATAAAAATTATCTTATCTTACTCTTATTAACCCTTGCCCACA
1 GTTTGCACTAATCATGATACAAGATAAAAATTATCTTATCTTACTCTTATTAACCCTTGCCCACA
*
27190852 CTAGACAT
66 CTAAACAT
27190860 AGGATAGGCT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (74 bp):
GTTTGCACTAATCATGATACAAGATAAAAATTATCTTATCTTACTCTTATTAACCCTTGCCCACA
CTAAACATT
Found at i:27205914 original size:15 final size:15
Alignment explanation
Indices: 27205890--27205919 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27205880 TTTTCAATAA
*
27205890 TTATATAATAAATTT
1 TTATAAAATAAATTT
27205905 TTATAAAATAAATTT
1 TTATAAAATAAATTT
27205920 AATTTTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTATAAAATAAATTT
Found at i:27206180 original size:13 final size:13
Alignment explanation
Indices: 27206156--27206187 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
27206146 TAATGAATAC
27206156 TGATTT-TTTATA
1 TGATTTATTTATA
27206168 TGATTTATTTATA
1 TGATTTATTTATA
27206181 TG-TTTAT
1 TGATTTAT
27206188 CTCAATTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (13 bp):
TGATTTATTTATA
Found at i:27207019 original size:15 final size:15
Alignment explanation
Indices: 27206999--27207030 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
27206989 GGGTTTATCC
27206999 TGGTCACAGTAGTTT
1 TGGTCACAGTAGTTT
27207014 TGGTCACAGTAGTTT
1 TGGTCACAGTAGTTT
27207029 TG
1 TG
27207031 TTCATTTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.12, G:0.28, T:0.41
Consensus pattern (15 bp):
TGGTCACAGTAGTTT
Found at i:27211976 original size:1 final size:1
Alignment explanation
Indices: 27211970--27211998 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
27211960 AATGAGAATT
27211970 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
27211999 CCAACAAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:27212278 original size:2 final size:2
Alignment explanation
Indices: 27212271--27212304 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
27212261 ATTGGTACTA
*
27212271 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27212305 GAAAGACTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27229298 original size:20 final size:21
Alignment explanation
Indices: 27229263--27229301 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27229253 TGATATATTT
*
27229263 TAATTATATTTCGAATATTAA
1 TAATTACATTTCGAATATTAA
27229284 TAATTACATTT-GAATATT
1 TAATTACATTTCGAATATT
27229302 TGATTCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (21 bp):
TAATTACATTTCGAATATTAA
Found at i:27240770 original size:2 final size:2
Alignment explanation
Indices: 27240758--27240815 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
27240748 TAATTAGATT
*
27240758 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
*
27240800 AA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
27240816 ACCAACCATT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:27241570 original size:7 final size:7
Alignment explanation
Indices: 27241558--27241591 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
27241548 AATAAAGCCT
27241558 TTTTTTC
1 TTTTTTC
27241565 TTTTTTC
1 TTTTTTC
27241572 TTTTTTC
1 TTTTTTC
27241579 TTTTTTC
1 TTTTTTC
27241586 TTTTTT
1 TTTTTT
27241592 AAAAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:27243885 original size:21 final size:22
Alignment explanation
Indices: 27243846--27243886 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
27243836 GGAGTCTGAC
* *
27243846 ATTTATTATAATATGATAGTTA
1 ATTTATCATAATATCATAGTTA
27243868 ATTTATCA-AATATCATAGT
1 ATTTATCATAATATCATAGT
27243887 AAAATGCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (22 bp):
ATTTATCATAATATCATAGTTA
Found at i:27245255 original size:130 final size:131
Alignment explanation
Indices: 27245109--27245370 Score: 463
Period size: 131 Copynumber: 2.0 Consensus size: 131
27245099 TTCAAAAACC
* *
27245109 TTCTCTTTATATTTATTTTATTAAG-AAAAAAAATGTTTAAATTCACTAGTCATGTGGTGGTTAT
1 TTCTATTTATATTTATTTTATTAAGAAAAAAAAAGGTTTAAATTCACTAGTCATGTGGTGGTTAT
** *
27245173 GATTTAACTCATGTTTACTAGTATAAAAATTTAAAGGAGAGCATCTTAGAATCAACATATATAGA
66 GATCCAACTCATGTTTACTAGTATAAAAATTTAAAGGAGAGCACCTTAGAATCAACATATATAGA
27245238 A
131 A
27245239 TTCTATTTATATTTATTTTATTAAGAAAAAAAAAGGTTTAAATTCACTAGTCATGTGGTGGTTAT
1 TTCTATTTATATTTATTTTATTAAGAAAAAAAAAGGTTTAAATTCACTAGTCATGTGGTGGTTAT
*
27245304 GATCCAACTCATGTTTACTAGTATAAAAATTTAGAGGAGAGCACCTTAGAATCAACATATATAGA
66 GATCCAACTCATGTTTACTAGTATAAAAATTTAAAGGAGAGCACCTTAGAATCAACATATATAGA
27245369 A
131 A
27245370 T
1 T
27245371 CAGTGGTGAG
Statistics
Matches: 125, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
130 24 0.19
131 101 0.81
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.38
Consensus pattern (131 bp):
TTCTATTTATATTTATTTTATTAAGAAAAAAAAAGGTTTAAATTCACTAGTCATGTGGTGGTTAT
GATCCAACTCATGTTTACTAGTATAAAAATTTAAAGGAGAGCACCTTAGAATCAACATATATAGA
A
Found at i:27247892 original size:39 final size:39
Alignment explanation
Indices: 27247849--27247932 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 39
27247839 ATAAAGATAG
* *
27247849 CTTTACGTAAAACATAATAAATAT-TTAAAGTAAATTCAA
1 CTTTAAGTAAAACATAATAAAT-TGCTAAAGTAAATTCAA
* * *
27247888 CTTTAAGTAAAATATAATAGATTGCTAACGTAAATTCAA
1 CTTTAAGTAAAACATAATAAATTGCTAAAGTAAATTCAA
27247927 CTTTAA
1 CTTTAA
27247933 TTTGGTATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 1 0.03
39 38 0.97
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.35
Consensus pattern (39 bp):
CTTTAAGTAAAACATAATAAATTGCTAAAGTAAATTCAA
Found at i:27249882 original size:42 final size:40
Alignment explanation
Indices: 27249823--27249904 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
27249813 GTCTTACAAA
* **
27249823 ATCAACCGTAACCATAACTTTTAGAATATTTATCAAAAGTTT
1 ATCAACCATAACCATAAC-CATA-AATATTTATCAAAAGTTT
*
27249865 ATCAACCATAACCATAACCATAATTATTTATCAAAAGTTT
1 ATCAACCATAACCATAACCATAAATATTTATCAAAAGTTT
27249905 GAAGTGATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 17 0.47
41 2 0.06
42 17 0.47
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (40 bp):
ATCAACCATAACCATAACCATAAATATTTATCAAAAGTTT
Found at i:27252683 original size:21 final size:23
Alignment explanation
Indices: 27252658--27252707 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 23
27252648 TTTAAAATTT
27252658 TTTCTCTCCTATTC-AAAAAAAA
1 TTTCTCTCCTATTCAAAAAAAAA
27252680 --T-TCTCCTATTCAAAAAAAAA
1 TTTCTCTCCTATTCAAAAAAAAA
27252700 TTTCTCTC
1 TTTCTCTC
27252708 TACCTTACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 10 0.42
20 9 0.38
22 1 0.04
23 4 0.17
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (23 bp):
TTTCTCTCCTATTCAAAAAAAAA
Found at i:27252701 original size:20 final size:19
Alignment explanation
Indices: 27252662--27252698 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
27252652 AAATTTTTTC
27252662 TCTCCTATTCAAAAAAAAT
1 TCTCCTATTCAAAAAAAAT
27252681 TCTCCTATTCAAAAAAAA
1 TCTCCTATTCAAAAAAAA
27252699 ATTTCTCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (19 bp):
TCTCCTATTCAAAAAAAAT
Found at i:27253298 original size:18 final size:19
Alignment explanation
Indices: 27253277--27253315 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
27253267 TGCTTTAATC
27253277 ATTACTATTATATTAA-AA
1 ATTACTATTATATTAATAA
*
27253295 ATTACTATTATTTTAATAA
1 ATTACTATTATATTAATAA
27253314 AT
1 AT
27253316 AAAGATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTACTATTATATTAATAA
Found at i:27253413 original size:15 final size:15
Alignment explanation
Indices: 27253401--27253438 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
27253391 ATTTATATAC
27253401 ATTATAATTATATTA
1 ATTATAATTATATTA
*
27253416 ATTATAATTAAATTA
1 ATTATAATTATATTA
*
27253431 TTTATAAT
1 ATTATAAT
27253439 CACATTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATAATTATATTA
Found at i:27257328 original size:19 final size:18
Alignment explanation
Indices: 27257300--27257339 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
27257290 CTATTAATAT
* *
27257300 TAAATTTTATTATATTTGA
1 TAAATATTATGATATTT-A
27257319 TAAATATTATGATATTTA
1 TAAATATTATGATATTTA
27257337 TAA
1 TAA
27257340 TTTTTGTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
TAAATATTATGATATTTA
Found at i:27258294 original size:63 final size:63
Alignment explanation
Indices: 27258193--27258319 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
27258183 GGGACATATA
27258193 TCATTGCAATTAATTATCTTTACTTAATAATTTCATTTATGGAAGAATAAGAAAAAATAGCCT
1 TCATTGCAATTAATTATCTTTACTTAATAATTTCATTTATGGAAGAATAAGAAAAAATAGCCT
*
27258256 TCATTGCAATTAATTATCTTTACTTAATAATTTTATTTATGGAAGAATAAGAAAAAATAGCCT
1 TCATTGCAATTAATTATCTTTACTTAATAATTTCATTTATGGAAGAATAAGAAAAAATAGCCT
27258319 T
1 T
27258320 GCTTATTTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.39
Consensus pattern (63 bp):
TCATTGCAATTAATTATCTTTACTTAATAATTTCATTTATGGAAGAATAAGAAAAAATAGCCT
Found at i:27259106 original size:14 final size:15
Alignment explanation
Indices: 27259087--27259121 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
27259077 TTACCTATGA
*
27259087 ATTAATTTTAA-TTT
1 ATTAATTTAAATTTT
27259101 ATTAATTTAAATTTT
1 ATTAATTTAAATTTT
27259116 ATTAAT
1 ATTAAT
27259122 AATATATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTAATTTAAATTTT
Found at i:27262739 original size:2 final size:2
Alignment explanation
Indices: 27262732--27262760 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
27262722 AAAACTTGAA
27262732 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27262761 GAAAAGGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27263107 original size:34 final size:34
Alignment explanation
Indices: 27263064--27263160 Score: 112
Period size: 33 Copynumber: 2.9 Consensus size: 34
27263054 TCATGTCTTA
*
27263064 AATAT-ATTTTTAATATCATATATTTTATTTTTT
1 AATATAATTTTTAATATTATATATTTTATTTTTT
* *
27263097 ATTATAA-TTTTATATATTTTAT-TTTTA-TTTTT
1 AATATAATTTTTA-ATATTATATATTTTATTTTTT
* *
27263129 AATATATTTTTTTATATTATATATTTTATTTT
1 AATATAATTTTTAATATTATATATTTTATTTT
27263161 AATTTTTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
32 18 0.35
33 23 0.44
34 11 0.21
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (34 bp):
AATATAATTTTTAATATTATATATTTTATTTTTT
Found at i:27263112 original size:10 final size:9
Alignment explanation
Indices: 27263081--27263157 Score: 53
Period size: 7 Copynumber: 9.2 Consensus size: 9
27263071 TTTTAATATC
27263081 ATATATTTT
1 ATATATTTT
27263090 AT-T-TTTT
1 ATATATTTT
27263097 ATTATAATTTT
1 A-TAT-ATTTT
27263108 ATATA-TTT
1 ATATATTTT
27263116 -TAT-TTTT
1 ATATATTTT
*
27263123 AT-T-TTTA
1 ATATATTTT
27263130 ATATATTTT
1 ATATATTTT
* *
27263139 -TTTATATT
1 ATATATTTT
27263147 ATATATTTT
1 ATATATTTT
27263156 AT
1 AT
27263158 TTTAATTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 18
0.69 0.08 0.23
Matches are distributed among these distances:
7 17 0.32
8 13 0.25
9 15 0.28
10 3 0.06
11 5 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
ATATATTTT
Found at i:27263114 original size:22 final size:21
Alignment explanation
Indices: 27263089--27263166 Score: 67
Period size: 22 Copynumber: 3.8 Consensus size: 21
27263079 TCATATATTT
27263089 TATTTTTTATTATAATTTT-ATA
1 TATTTTTT-TT-TAATTTTAATA
*
27263111 TATTTTATTTTTATTTTTAATA
1 TATTTT-TTTTTAATTTTAATA
*
27263133 TA--TTTTTTT-ATATT-ATA
1 TATTTTTTTTTAATTTTAATA
*
27263150 TATTTTATTTTAATTTT
1 TATTTTTTTTTAATTTT
27263167 TTTTAAAAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
17 5 0.11
18 3 0.07
19 11 0.24
20 6 0.13
21 6 0.13
22 13 0.28
23 2 0.04
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (21 bp):
TATTTTTTTTTAATTTTAATA
Found at i:27263131 original size:27 final size:27
Alignment explanation
Indices: 27263068--27263133 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
27263058 GTCTTAAATA
27263068 TATTTTTAATATCATATATTTTATTTT
1 TATTTTTAATATCATATATTTTATTTT
* * *
27263095 T-TATTATAATTTTATATATTTTATTTT
1 TAT-TTTTAATATCATATATTTTATTTT
27263122 TATTTTTAATAT
1 TATTTTTAATAT
27263134 ATTTTTTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
26 1 0.03
27 30 0.94
28 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (27 bp):
TATTTTTAATATCATATATTTTATTTT
Found at i:27263136 original size:17 final size:16
Alignment explanation
Indices: 27263065--27263160 Score: 58
Period size: 17 Copynumber: 5.9 Consensus size: 16
27263055 CATGTCTTAA
* * *
27263065 ATATATTTTTAATATC
1 ATATATTTTTATTTTT
27263081 ATATA-TTTTATTTTTT
1 ATATATTTTTA-TTTTT
* *
27263097 ATTATAATTTTATATATT
1 A-TATATTTTTAT-TTTT
27263115 -T-TATTTTTATTTTT
1 ATATATTTTTATTTTT
27263129 AATATATTTTT-TTATATT
1 -ATATATTTTTATT-T-TT
27263147 ATATA-TTTTATTTT
1 ATATATTTTTATTTT
27263161 AATTTTTTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 21
0.70 0.07 0.23
Matches are distributed among these distances:
14 3 0.05
15 14 0.22
16 17 0.27
17 20 0.31
18 10 0.16
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (16 bp):
ATATATTTTTATTTTT
Found at i:27263146 original size:27 final size:27
Alignment explanation
Indices: 27263068--27263155 Score: 65
Period size: 26 Copynumber: 3.2 Consensus size: 27
27263058 GTCTTAAATA
*
27263068 TATTTTTAATATCATATATTTTAT-TTTT
1 TATTTTTAATAT-AT-TTTTTTATATTTT
* * * *
27263096 TA-TTATAATTTTATATATTT-TATTTT
1 TATTTTTAA-TATATTTTTTTATATTTT
*
27263122 TATTTTTAATATATTTTTTTATATTATA
1 TATTTTTAATATATTTTTTTATATT-TT
27263150 TATTTT
1 TATTTT
27263156 ATTTTAATTT
Statistics
Matches: 45, Mismatches: 10, Indels: 10
0.69 0.15 0.15
Matches are distributed among these distances:
25 1 0.02
26 17 0.38
27 16 0.36
28 11 0.24
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (27 bp):
TATTTTTAATATATTTTTTTATATTTT
Found at i:27263156 original size:27 final size:27
Alignment explanation
Indices: 27263081--27263156 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 27
27263071 TTTTAATATC
*
27263081 ATATATTTTATTTTTTATTATA-ATTTT-
1 ATATA-TTT-TTTTATATTATATATTTTA
*
27263108 ATATA---TTTTAT-TTTTAT-TTTTA
1 ATATATTTTTTTATATTATATATTTTA
27263130 ATATATTTTTTTATATTATATATTTTA
1 ATATATTTTTTTATATTATATATTTTA
27263157 TTTTAATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
21 8 0.21
22 10 0.26
25 6 0.15
26 5 0.13
27 10 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (27 bp):
ATATATTTTTTTATATTATATATTTTA
Found at i:27263405 original size:13 final size:13
Alignment explanation
Indices: 27263387--27263411 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27263377 TATAATGTGA
27263387 TTACATTATAATT
1 TTACATTATAATT
27263400 TTACATTATAAT
1 TTACATTATAAT
27263412 AATTTATTAT
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:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
TTACATTATAATT
Found at i:27264614 original size:2 final size:2
Alignment explanation
Indices: 27264607--27264632 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27264597 TAACTTGTCT
27264607 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
27264633 AACATGGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:27274200 original size:29 final size:29
Alignment explanation
Indices: 27274171--27274270 Score: 114
Period size: 29 Copynumber: 3.4 Consensus size: 29
27274161 AAAAAATTTA
27274171 AAATAAATTTTTTAT-TTTTTATTATATT
1 AAATAAATTTTTTATATTTTTATTATATT
* * *
27274199 AATTAAATTTTTAATATTTTTANTATATTT
1 AAATAAATTTTTTATATTTTTATTATA-TT
* *
27274229 AATTAAA-TTTTTATATTTTTATTTTGAGTT
1 AAATAAATTTTTTATATTTTTATTAT-A-TT
27274259 AAATAAATTTTT
1 AAATAAATTTTT
27274271 ATAATTAATT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 13 0.22
29 25 0.42
30 18 0.30
31 4 0.07
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
AAATAAATTTTTTATATTTTTATTATATT
Found at i:27274219 original size:30 final size:29
Alignment explanation
Indices: 27274174--27274273 Score: 123
Period size: 30 Copynumber: 3.4 Consensus size: 29
27274164 AAATTTAAAA
27274174 TAAATTTTT-TATTTTTTATTATA-TTAAT
1 TAAATTTTTATA-TTTTTATTATAGTTAAT
* *
27274202 TAAATTTTTAATATTTTTANTATATTTAAT
1 TAAATTTTT-ATATTTTTATTATAGTTAAT
* *
27274232 TAAATTTTTATATTTTTATTTTGAGTTAAA
1 TAAATTTTTATATTTTTATTAT-AGTTAAT
27274262 TAAATTTTTATA
1 TAAATTTTTATA
27274274 ATTAATTAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
28 9 0.14
29 21 0.33
30 33 0.52
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (29 bp):
TAAATTTTTATATTTTTATTATAGTTAAT
Found at i:27299419 original size:12 final size:11
Alignment explanation
Indices: 27299402--27299441 Score: 55
Period size: 10 Copynumber: 3.5 Consensus size: 11
27299392 ATCGAGAAAT
27299402 CAAAAAATATACC
1 CAAAAAA-ATA-C
27299415 CAAAAAAATA-
1 CAAAAAAATAC
27299425 CAAAAAAATAC
1 CAAAAAAATAC
27299436 CAAAAA
1 CAAAAA
27299442 TCAATCGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.38
11 6 0.23
12 3 0.12
13 7 0.27
ACGTcount: A:0.72, C:0.17, G:0.00, T:0.10
Consensus pattern (11 bp):
CAAAAAAATAC
Found at i:27300266 original size:2 final size:2
Alignment explanation
Indices: 27300254--27300300 Score: 85
Period size: 2 Copynumber: 23.0 Consensus size: 2
27300244 CAATGGAAAA
27300254 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27300297 AT AT
1 AT AT
27300301 NNNNNNNNNN
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 42 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27308392 original size:13 final size:13
Alignment explanation
Indices: 27308374--27308400 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27308364 GAAATGTATC
27308374 TCTCTTTGATAAT
1 TCTCTTTGATAAT
27308387 TCTCTTTGATAAT
1 TCTCTTTGATAAT
27308400 T
1 T
27308401 AGAATGATAC
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:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (13 bp):
TCTCTTTGATAAT
Found at i:27312506 original size:14 final size:15
Alignment explanation
Indices: 27312480--27312509 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
27312470 TCAATCCCAA
27312480 AATGTTAAATTAATT
1 AATGTTAAATTAATT
27312495 AATGTT-AATTAATT
1 AATGTTAAATTAATT
27312509 A
1 A
27312510 TAATGTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
AATGTTAAATTAATT
Found at i:27319102 original size:24 final size:24
Alignment explanation
Indices: 27319070--27319117 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
27319060 TTATATTTAA
27319070 TGAAACCTAGATCTTAGTTGTTTT
1 TGAAACCTAGATCTTAGTTGTTTT
27319094 TGAAACCTAGATCTTAGTTGTTTT
1 TGAAACCTAGATCTTAGTTGTTTT
27319118 CCATCTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (24 bp):
TGAAACCTAGATCTTAGTTGTTTT
Found at i:27320365 original size:13 final size:13
Alignment explanation
Indices: 27320349--27320373 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27320339 ATAGGATTTT
27320349 TCTATAATAAAAA
1 TCTATAATAAAAA
27320362 TCTATAATAAAA
1 TCTATAATAAAA
27320374 TGATATAGAA
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:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (13 bp):
TCTATAATAAAAA
Found at i:27322334 original size:2 final size:2
Alignment explanation
Indices: 27322327--27322351 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27322317 ATAAAGTAGT
27322327 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
27322352 AAAGAAACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27327072 original size:94 final size:95
Alignment explanation
Indices: 27326905--27327096 Score: 305
Period size: 94 Copynumber: 2.0 Consensus size: 95
27326895 GCTCCGTGCA
* * *
27326905 AGGTGAATCTGAGGTGTCCATTTTGATATTTATCATCGTACTATTTTCCTTATGTTGTTCAAATT
1 AGGTGAATCTGAGCTGTCCATTTTGATATTTATCATCGTACTATTTTCCTTATCTTGTACAAATT
*
27326970 TTAATGTTGTAACTAGGGGGACTAAGACAG
66 TTAATGTTGTAAATAGGGGGACTAAGACAG
* *
27327000 AGGTGAATCTGAGCTGTCCA-TTTGATATTTATCATTGTCCTATTTTCCTTATCTTGTACAAATT
1 AGGTGAATCTGAGCTGTCCATTTTGATATTTATCATCGTACTATTTTCCTTATCTTGTACAAATT
* *
27327064 TTATTGTTGTAAATAGGGGGACTGAGACAG
66 TTAATGTTGTAAATAGGGGGACTAAGACAG
27327094 AGG
1 AGG
27327097 AGCAAATCTT
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
94 70 0.79
95 19 0.21
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (95 bp):
AGGTGAATCTGAGCTGTCCATTTTGATATTTATCATCGTACTATTTTCCTTATCTTGTACAAATT
TTAATGTTGTAAATAGGGGGACTAAGACAG
Found at i:27330222 original size:28 final size:29
Alignment explanation
Indices: 27330156--27330231 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 29
27330146 GATCATTAAT
*
27330156 AATAAAAATTTATTTAACTCAAAATAAAA
1 AATAAAAATTTATTTAAATCAAAATAAAA
* * *
27330185 ATATAAAAATTTAATTAAAT-ATATTAAAA
1 A-ATAAAAATTTATTTAAATCAAAATAAAA
27330214 AATAAAAATTTATTTAAA
1 AATAAAAATTTATTTAAA
27330232 AATTTTCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 16 0.39
29 9 0.22
30 16 0.39
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (29 bp):
AATAAAAATTTATTTAAATCAAAATAAAA
Found at i:27332729 original size:161 final size:161
Alignment explanation
Indices: 27332464--27332786 Score: 565
Period size: 161 Copynumber: 2.0 Consensus size: 161
27332454 GGAAAACATG
* *
27332464 ACAATAGACACCGTTAGAACTTGCAAATGCTGATGGAATACAAATATGGGGAAACAACTGGTAGA
1 ACAATAGACACCGTTAGAACTTGCAAATGCTGATGGAATACAAATACGGGGAAACAACAGGTAGA
* * *
27332529 ATAAAATCTTGCATGAAAAGATGTCTGAGCCAACCTTATGTCGTAATAATATGTGCAATCAAAAG
66 ATAAAATCTTGCATGAAAAGATGACTCAGCCAACCTTATGTCGTAATAATATGGGCAATCAAAAG
*
27332594 TCTTACACACGTAAAGTATTAGATTTATATT
131 TCTTACACACATAAAGTATTAGATTTATATT
*
27332625 ACAATAGACACCGTTAGAACTTGTAAATGCTGATGGAATACAAATACGGGGAAACAACAGGTAGA
1 ACAATAGACACCGTTAGAACTTGCAAATGCTGATGGAATACAAATACGGGGAAACAACAGGTAGA
*
27332690 ATAAAATCTTGCATGAAAAGATGACTCAGTCAACCTTATGTCGTAATAATATGGGCAATCAAAAG
66 ATAAAATCTTGCATGAAAAGATGACTCAGCCAACCTTATGTCGTAATAATATGGGCAATCAAAAG
*
27332755 TCTTACACACATAAGGTATTAGATTTATATT
131 TCTTACACACATAAAGTATTAGATTTATATT
27332786 A
1 A
27332787 TATTGTCAAA
Statistics
Matches: 153, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
161 153 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.27
Consensus pattern (161 bp):
ACAATAGACACCGTTAGAACTTGCAAATGCTGATGGAATACAAATACGGGGAAACAACAGGTAGA
ATAAAATCTTGCATGAAAAGATGACTCAGCCAACCTTATGTCGTAATAATATGGGCAATCAAAAG
TCTTACACACATAAAGTATTAGATTTATATT
Found at i:27333729 original size:32 final size:32
Alignment explanation
Indices: 27333655--27333730 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
27333645 TCATTCCAGA
* *
27333655 AAACTTAAACCTAGTTGAATAAGTATGAAAAG
1 AAACTTAAACTTAGTTGAATAAGCATGAAAAG
27333687 AAACTTAAACTTAGTTGAATAAGCATGAAAAG
1 AAACTTAAACTTAGTTGAATAAGCATGAAAAG
*
27333719 AAAGTTAAACTT
1 AAACTTAAACTT
27333731 GAAAATTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.50, C:0.09, G:0.14, T:0.26
Consensus pattern (32 bp):
AAACTTAAACTTAGTTGAATAAGCATGAAAAG
Found at i:27339908 original size:125 final size:125
Alignment explanation
Indices: 27339686--27339932 Score: 476
Period size: 125 Copynumber: 2.0 Consensus size: 125
27339676 TCTCCAATAG
27339686 TAATTACTTCCAGTTTGTACACTCTAAAGTAGCCAAAACAAGATAGACCAGATATTTGCACATAA
1 TAATTACTTCCAGTTTGTACACTCTAAAGTAGCCAAAACAAGATAGACCAGATATTTGCACATAA
27339751 ACCTTGTAGCTACTTAATAATTAACCTTGATCTTTGCAAATTATTGACCTCTCTTTCTAA
66 ACCTTGTAGCTACTTAATAATTAACCTTGATCTTTGCAAATTATTGACCTCTCTTTCTAA
27339811 TAATTACTTCCAGTTTGTACACTCTAAAGTAGCCAAAACAAGATAGACCAGATATTTGCACATAA
1 TAATTACTTCCAGTTTGTACACTCTAAAGTAGCCAAAACAAGATAGACCAGATATTTGCACATAA
* *
27339876 ACCTTGTAGCTTCTTAATACTTAACCTTGATCTTTGCAAATTATTGACCTCTCTTTC
66 ACCTTGTAGCTACTTAATAATTAACCTTGATCTTTGCAAATTATTGACCTCTCTTTC
27339933 GAAATCTTTA
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 120 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (125 bp):
TAATTACTTCCAGTTTGTACACTCTAAAGTAGCCAAAACAAGATAGACCAGATATTTGCACATAA
ACCTTGTAGCTACTTAATAATTAACCTTGATCTTTGCAAATTATTGACCTCTCTTTCTAA
Found at i:27343997 original size:26 final size:25
Alignment explanation
Indices: 27343959--27344033 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 25
27343949 NNNNNNNNNN
27343959 TAAT-ATTTT-AATTATATTAATAT
1 TAATAATTTTAAATTATATTAATAT
27343982 TAATAATGTTTAAATTATATATAAAATAT
1 TAATAAT-TTTAAATTATAT-T--AATAT
* *
27344011 TAAT-ATTTTAAATTTTATAAATA
1 TAATAATTTTAAATTATATTAATA
27344034 ATTCTTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
23 4 0.09
24 6 0.14
25 3 0.07
26 8 0.18
27 12 0.27
28 2 0.05
29 9 0.20
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (25 bp):
TAATAATTTTAAATTATATTAATAT
Found at i:27344028 original size:29 final size:29
Alignment explanation
Indices: 27343977--27344034 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
27343967 TAATTATATT
*
27343977 AATATTAATAATGTTTAAATTATATATAA
1 AATATTAATAATGTTTAAATTATAAATAA
27344006 AATATTAAT-AT-TTTAAATTTTATAAATAA
1 AATATTAATAATGTTTAAA--TTATAAATAA
27344035 TTCTTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 6 0.23
28 2 0.08
29 18 0.69
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
AATATTAATAATGTTTAAATTATAAATAA
Found at i:27344368 original size:21 final size:21
Alignment explanation
Indices: 27344339--27344387 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
27344329 ATCATATTCG
* * *
27344339 GTTGCTGCCGTTGCCGTCGTC
1 GTTGTTGCCGTCGCCGTCGCC
27344360 GTTGTTGCCGTCGCCGTCGCC
1 GTTGTTGCCGTCGCCGTCGCC
*
27344381 GGTGTTG
1 GTTGTTG
27344388 AGTTCCAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.00, C:0.31, G:0.37, T:0.33
Consensus pattern (21 bp):
GTTGTTGCCGTCGCCGTCGCC
Found at i:27344448 original size:23 final size:23
Alignment explanation
Indices: 27344398--27344450 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
27344388 AGTTCCAGTT
* * *
27344398 AGAGAGAGAATGAGAGAGGGAGA
1 AGAGAGAGAAAGAGAAAGGGAAA
27344421 AGAGAGAGAAAGA-AAAGGGAAA
1 AGAGAGAGAAAGAGAAAGGGAAA
27344443 ATGAGAGA
1 A-GAGAGA
27344451 AAAAAAGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.55, C:0.00, G:0.42, T:0.04
Consensus pattern (23 bp):
AGAGAGAGAAAGAGAAAGGGAAA
Found at i:27345798 original size:39 final size:42
Alignment explanation
Indices: 27345754--27345835 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
27345744 ACGTACACAT
* *
27345754 ACATGTTTAATACACTTG-T-A-ATACGACACGACACGATTA
1 ACATGTTTAATAAACGTGTTAATATACGACACGACACGATTA
* *
27345793 ACATGTTTATTAAACGTGTTAATATATGACACGACACGATTA
1 ACATGTTTAATAAACGTGTTAATATACGACACGACACGATTA
27345835 A
1 A
27345836 TAACACGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 15 0.42
40 1 0.03
41 1 0.03
42 19 0.53
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (42 bp):
ACATGTTTAATAAACGTGTTAATATACGACACGACACGATTA
Found at i:27345850 original size:9 final size:9
Alignment explanation
Indices: 27345836--27345865 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
27345826 ACACGATTAA
27345836 TAACACGAT
1 TAACACGAT
*
27345845 TAACACGTT
1 TAACACGAT
27345854 TAACACGAT
1 TAACACGAT
27345863 TAA
1 TAA
27345866 ATAAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (9 bp):
TAACACGAT
Found at i:27350509 original size:28 final size:28
Alignment explanation
Indices: 27350472--27350557 Score: 118
Period size: 28 Copynumber: 3.1 Consensus size: 28
27350462 TCTAGGATAA
* *
27350472 CAATATTATTAAGGATGTTTGCGTTCTT
1 CAATATTATTATGGATGTTTGTGTTCTT
* *
27350500 CAATATTATTATGAATGTTTTTGTTCTT
1 CAATATTATTATGGATGTTTGTGTTCTT
* *
27350528 GAATATTATTATGGATATTTGTGTTCTT
1 CAATATTATTATGGATGTTTGTGTTCTT
27350556 CA
1 CA
27350558 TTAATATCTT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.26, C:0.08, G:0.15, T:0.51
Consensus pattern (28 bp):
CAATATTATTATGGATGTTTGTGTTCTT
Found at i:27351553 original size:33 final size:33
Alignment explanation
Indices: 27351504--27351573 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
27351494 AGAAGAGGGC
27351504 ACTAGTCGATCACAATTGACTAAACCAATCAAA
1 ACTAGTCGATCACAATTGACTAAACCAATCAAA
* * *
27351537 ACTAGTTGATCGCAATTGATTAAACCAATCAAA
1 ACTAGTCGATCACAATTGACTAAACCAATCAAA
27351570 ACTA
1 ACTA
27351574 ACCTAATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.24
Consensus pattern (33 bp):
ACTAGTCGATCACAATTGACTAAACCAATCAAA
Found at i:27354640 original size:14 final size:15
Alignment explanation
Indices: 27354612--27354650 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
27354602 TCTCTAGAAC
*
27354612 TTTTCTTTAAGTTTT
1 TTTTTTTTAAGTTTT
27354627 TTTTTTTTAA-TTTT
1 TTTTTTTTAAGTTTT
*
27354641 GTTTTTTTAA
1 TTTTTTTTAA
27354651 AAAACCTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (15 bp):
TTTTTTTTAAGTTTT
Found at i:27358805 original size:16 final size:17
Alignment explanation
Indices: 27358777--27358811 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
27358767 TTGCTCCCCC
27358777 AAGAAAAAGAGAAAAGA
1 AAGAAAAAGAGAAAAGA
27358794 AAGAAAAA-AGAAAAGA
1 AAGAAAAAGAGAAAAGA
27358810 AA
1 AA
27358812 AGGGGGGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (17 bp):
AAGAAAAAGAGAAAAGA
Found at i:27359143 original size:3 final size:3
Alignment explanation
Indices: 27359135--27359161 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
27359125 CAACAAAAGA
27359135 ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG
27359162 CCCAAACTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:27360277 original size:3 final size:3
Alignment explanation
Indices: 27360269--27360297 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
27360259 GTATTCCTTC
27360269 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
27360298 TAATAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:27366421 original size:22 final size:22
Alignment explanation
Indices: 27366393--27366449 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
27366383 ACCAAGTTGT
*
27366393 AGGCTTCATCTATTGATGGGAA
1 AGGCTTCATCTAATGATGGGAA
*
27366415 AGGCTTCGTCTAATGATGGGAA
1 AGGCTTCATCTAATGATGGGAA
27366437 AGGCTTCAT-TAAT
1 AGGCTTCATCTAAT
27366450 ATGATTTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 4 0.12
22 28 0.88
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (22 bp):
AGGCTTCATCTAATGATGGGAA
Found at i:27377756 original size:20 final size:20
Alignment explanation
Indices: 27377723--27377766 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
27377713 TTTTCTACAA
27377723 TGAATCTATCGATACATTCT
1 TGAATCTATCGATACATTCT
* * *
27377743 TGAATGTATTGATAGATTCT
1 TGAATCTATCGATACATTCT
27377763 TGAA
1 TGAA
27377767 AGTACCGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (20 bp):
TGAATCTATCGATACATTCT
Found at i:27377776 original size:20 final size:20
Alignment explanation
Indices: 27377732--27377778 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
27377722 ATGAATCTAT
* *
27377732 CGATACATTCTTGAATGTAT
1 CGATACATTCTTGAAAGTAC
* *
27377752 TGATAGATTCTTGAAAGTAC
1 CGATACATTCTTGAAAGTAC
27377772 CGATACA
1 CGATACA
27377779 ATAGTGAAAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (20 bp):
CGATACATTCTTGAAAGTAC
Found at i:27378469 original size:68 final size:68
Alignment explanation
Indices: 27378314--27378495 Score: 177
Period size: 68 Copynumber: 2.7 Consensus size: 68
27378304 ATTTCATAAG
* * * * * ** * *
27378314 GTATATGAAAAATAAATCATATACATGATCTCATGACATTCATCATGCTTTTTTATTCATCTCAT
1 GTATATGAAATATACATCATATACATAATCTCATGGCATTCATCATGCATACTTAATCACCTCAT
*
27378379 GTA
66 ATA
* * *
27378382 GTATGTGAAATATAGATCATATACATAATCTCATGGCATTCATTATGCATACTTAATCACCTCAT
1 GTATATGAAATATACATCATATACATAATCTCATGGCATTCATCATGCATACTTAATCACCTCAT
*
27378447 ATG
66 ATA
* * * * *
27378450 GTATAT-AGAATTTACATCATATACACAATCTTATGGTATTGATCAT
1 GTATATGA-AATATACATCATATACATAATCTCATGGCATTCATCAT
27378496 ACCAAACATG
Statistics
Matches: 92, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
67 1 0.01
68 91 0.99
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (68 bp):
GTATATGAAATATACATCATATACATAATCTCATGGCATTCATCATGCATACTTAATCACCTCAT
ATA
Found at i:27379455 original size:21 final size:20
Alignment explanation
Indices: 27379431--27379469 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
27379421 TTGAAAAAAT
*
27379431 TGTATCGATACATTATGAACA
1 TGTATCAATACATT-TGAACA
*
27379452 TGTATTAATACATTTGAA
1 TGTATCAATACATTTGAA
27379470 ACAGAATGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (20 bp):
TGTATCAATACATTTGAACA
Found at i:27390290 original size:3 final size:3
Alignment explanation
Indices: 27390282--27390312 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
27390272 GCAAATGAAG
27390282 TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
27390313 CTCCATCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:27391233 original size:25 final size:25
Alignment explanation
Indices: 27391199--27391248 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
27391189 CTTACAATTT
27391199 GGAATATTCAAATTTTATGAAAATA
1 GGAATATTCAAATTTTATGAAAATA
27391224 GGAATATTCAAATTTTATGAAAATA
1 GGAATATTCAAATTTTATGAAAATA
27391249 ATGAAACTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.36
Consensus pattern (25 bp):
GGAATATTCAAATTTTATGAAAATA
Found at i:27392117 original size:88 final size:87
Alignment explanation
Indices: 27392015--27392283 Score: 309
Period size: 88 Copynumber: 3.1 Consensus size: 87
27392005 GCGGTAAAGA
*
27392015 AGAAAGGCGAGCAAGAAAAAGGGAAGAAAAAGAAAAAAGAAGAAGGAATGAGGGAACGACGACTG
1 AGAAAGGCGAGCAAGAGAAAGGGAAGAAAAAGAAAAAAGAAGAAGGAATGAGGGAACGACGACTG
*
27392080 AAAGAGAGGTCAGGCGGCAAGGG
66 GAAGAGAGGTC-GGCGGCAAGGG
* *
27392103 AGAAAGGCGAGCAAGAGAAAGGGAA-AGAAAAGAAAAAAGAAAAAGGAATGAGGGAAC-ATCGGC
1 AGAAAGGCGAGCAAGAGAAAGGGAAGA-AAAAGAAAAAAGAAGAAGGAATGAGGGAACGA-CGAC
* *
27392166 TGGAAGAGAGGTCGGCGACAAGGC
64 TGGAAGAGAGGTCGGCGGCAAGGG
* ** * * * * *
27392190 AAAAAATCGAGCAAGAGAGAGGGAAG-----GAAAAAAAAAGAAGGAATAAGGGAATGTCGACTG
1 AGAAAGGCGAGCAAGAGAAAGGGAAGAAAAAGAAAAAAGAAGAAGGAATGAGGGAACGACGACTG
* *
27392250 GAAGAGAGGCCGACGGCAAGGG
66 GAAGAGAGGTCGGCGGCAAGGG
*
27392272 AGAAAGCCGAGC
1 AGAAAGGCGAGC
27392284 CTGTTGTGGA
Statistics
Matches: 154, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
82 54 0.35
87 32 0.21
88 68 0.44
ACGTcount: A:0.48, C:0.10, G:0.37, T:0.04
Consensus pattern (87 bp):
AGAAAGGCGAGCAAGAGAAAGGGAAGAAAAAGAAAAAAGAAGAAGGAATGAGGGAACGACGACTG
GAAGAGAGGTCGGCGGCAAGGG
Done.