Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 184 of 218
Found at i:55086805 original size:21 final size:21
Alignment explanation
Indices: 55086781--55086821 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
55086771 CACTGTTCTA
*
55086781 ATAAAGATTTTT-TTTTAAATT
1 ATAAA-ATTTTTATTCTAAATT
55086802 ATAAAATTTTTATTCTAAAT
1 ATAAAATTTTTATTCTAAAT
55086822 ACATTTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
ATAAAATTTTTATTCTAAATT
Found at i:55087456 original size:14 final size:15
Alignment explanation
Indices: 55087434--55087510 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
55087424 CAATCAAACA
55087434 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
55087448 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
55087463 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
55087483 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
55087497 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
55087511 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:55087475 original size:20 final size:20
Alignment explanation
Indices: 55087450--55087489 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
55087440 AATATTTTCC
*
55087450 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
55087470 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
55087490 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:55087495 original size:34 final size:35
Alignment explanation
Indices: 55087438--55087504 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
55087428 CAAACACCAG
*
55087438 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
55087473 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
55087505 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:55090563 original size:7 final size:7
Alignment explanation
Indices: 55090553--55090587 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
55090543 AATCCAAAAT
55090553 TAAACCC
1 TAAACCC
55090560 TAAACCC
1 TAAACCC
55090567 TAAACCC
1 TAAACCC
*
55090574 TCAACCC
1 TAAACCC
*
55090581 TCAACCC
1 TAAACCC
55090588 AACAACCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.37, C:0.49, G:0.00, T:0.14
Consensus pattern (7 bp):
TAAACCC
Found at i:55090644 original size:14 final size:14
Alignment explanation
Indices: 55090625--55090683 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 14
55090615 CCACCGATAT
55090625 ACCATAAACCTTAA
1 ACCATAAACCTTAA
*
55090639 ACCATAAATCTTAA
1 ACCATAAACCTTAA
* ** *
55090653 GCCCCAAACCCTAA
1 ACCATAAACCTTAA
* *
55090667 ACTATAAACCGTAA
1 ACCATAAACCTTAA
55090681 ACC
1 ACC
55090684 CCAAATCGCA
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.46, C:0.32, G:0.03, T:0.19
Consensus pattern (14 bp):
ACCATAAACCTTAA
Found at i:55090662 original size:28 final size:28
Alignment explanation
Indices: 55090630--55090688 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
55090620 GATATACCAT
* * * *
55090630 AAACCTTAAACCATAAATCTTAAGCCCC
1 AAACCCTAAACCATAAACCGTAAACCCC
*
55090658 AAACCCTAAACTATAAACCGTAAACCCC
1 AAACCCTAAACCATAAACCGTAAACCCC
55090686 AAA
1 AAA
55090689 TCGCAATCCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.47, C:0.32, G:0.03, T:0.17
Consensus pattern (28 bp):
AAACCCTAAACCATAAACCGTAAACCCC
Found at i:55092203 original size:27 final size:28
Alignment explanation
Indices: 55092173--55092231 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
55092163 AAATTTTAGA
55092173 TTTAATTATATATATACATATATA-TTT
1 TTTAATTATATATATACATATATACTTT
* * *
55092200 TTTATTTATATATATACTTCTATACTTT
1 TTTAATTATATATATACATATATACTTT
55092228 TTTA
1 TTTA
55092232 TACTTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (28 bp):
TTTAATTATATATATACATATATACTTT
Found at i:55092289 original size:29 final size:28
Alignment explanation
Indices: 55092244--55092307 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 28
55092234 CTTTAAAATT
*
55092244 TATATATATTATACATACAT-TTTTATAA
1 TATATATAATATACATACATATTTT-TAA
55092272 TATATATACATATACATACATATTTTTAA
1 TATATATA-ATATACATACATATTTTTAA
*
55092301 TTTATAT
1 TATATAT
55092308 CATTTTACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 8 0.25
29 20 0.62
30 4 0.12
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (28 bp):
TATATATAATATACATACATATTTTTAA
Found at i:55092316 original size:29 final size:29
Alignment explanation
Indices: 55092235--55092317 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 29
55092225 TTTTTTATAC
*
55092235 TTTAAAATTTATAT-ATATTATACATACATT
1 TTTATAATTTATATCAT-TT-TACATACATT
* *
55092265 TTTATAATATATATACA-TATACATACATAT
1 TTTATAATTTATAT-CATTTTACATACAT-T
55092295 TTT-TAATTTATATCATTTTACAT
1 TTTATAATTTATATCATTTTACAT
55092318 TTTTAAATGT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
28 2 0.05
29 24 0.55
30 17 0.39
32 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTATAATTTATATCATTTTACATACATT
Found at i:55092319 original size:23 final size:23
Alignment explanation
Indices: 55092293--55092336 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
55092283 ATACATACAT
*
55092293 ATTTTT-AATTTATATCATTTTAC
1 ATTTTTAAATGTAT-TCATTTTAC
55092316 ATTTTTAAATGTATTCATTTT
1 ATTTTTAAATGTATTCATTTT
55092337 CTTTATTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (23 bp):
ATTTTTAAATGTATTCATTTTAC
Found at i:55093621 original size:13 final size:13
Alignment explanation
Indices: 55093603--55093632 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
55093593 TCCAGCAACT
55093603 ATGAATTTATTTC
1 ATGAATTTATTTC
*
55093616 ATGAATTTATTTG
1 ATGAATTTATTTC
55093629 ATGA
1 ATGA
55093633 TTATCCAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:55093789 original size:50 final size:50
Alignment explanation
Indices: 55093726--55094018 Score: 469
Period size: 50 Copynumber: 5.8 Consensus size: 50
55093716 ATTTGGGTAA
*
55093726 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
55093776 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
55093826 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
55093876 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
55093926 AGAGGTCCCCCGTAAGACCATATCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
55093976 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
55094019 TGTTATGATC
Statistics
Matches: 223, Mismatches: 19, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
50 190 0.85
51 33 0.15
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:55096107 original size:20 final size:20
Alignment explanation
Indices: 55096084--55096129 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
55096074 GGGTTAAGAT
55096084 TGAGCTAAATTGAGCTCGAA-
1 TGAGCTAAATTGAGCTC-AAG
* *
55096104 TGAGCTGACTTGAGCTCAAG
1 TGAGCTAAATTGAGCTCAAG
55096124 TGAGCT
1 TGAGCT
55096130 GGAAACGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (20 bp):
TGAGCTAAATTGAGCTCAAG
Found at i:55096130 original size:20 final size:20
Alignment explanation
Indices: 55096093--55096130 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
55096083 TTGAGCTAAA
55096093 TTGAGCTCGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTGAC
55096113 TTGAGCTC-AAGTGAGCTG
1 TTGAGCTCGAA-TGAGCTG
55096131 GAAACGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTGAC
Found at i:55103696 original size:29 final size:29
Alignment explanation
Indices: 55103659--55103714 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
55103649 TTCGGGCCTT
55103659 GGGGAAAAAT-GTAATTATGCAAAAGTTTA
1 GGGGAAAAATCGTAATTATG-AAAAGTTTA
* *
55103688 GGGGCAAAATCGTAATTTTGAAAAGTT
1 GGGGAAAAATCGTAATTATGAAAAGTT
55103715 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.29
Consensus pattern (29 bp):
GGGGAAAAATCGTAATTATGAAAAGTTTA
Found at i:55103946 original size:13 final size:13
Alignment explanation
Indices: 55103928--55103957 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
55103918 TCCAGCAACT
55103928 ATGAATTTATTTC
1 ATGAATTTATTTC
*
55103941 ATGAATTTATTTG
1 ATGAATTTATTTC
55103954 ATGA
1 ATGA
55103958 TTATCCAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:55104127 original size:50 final size:50
Alignment explanation
Indices: 55104052--55104344 Score: 462
Period size: 50 Copynumber: 5.8 Consensus size: 50
55104042 ATTTGGGTAA
*
55104052 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
55104102 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
55104152 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
55104202 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
55104252 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGTATGGGCACCG-GTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG-ATG
** *
55104302 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
55104345 TGTTATGATC
Statistics
Matches: 223, Mismatches: 18, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
49 1 0.00
50 189 0.85
51 33 0.15
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:55106474 original size:20 final size:20
Alignment explanation
Indices: 55106451--55106491 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
55106441 CAAACAGTAT
*
55106451 CCTTAAACCCTAAACCCAAA
1 CCTTAAACCCCAAACCCAAA
*
55106471 CCTTAAACCCCAAATCCAAA
1 CCTTAAACCCCAAACCCAAA
55106491 C
1 C
55106492 TCTAACACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (20 bp):
CCTTAAACCCCAAACCCAAA
Found at i:55106557 original size:22 final size:21
Alignment explanation
Indices: 55106532--55106589 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
55106522 TAAACATTAT
55106532 ACCATAAACCTTAAAGCTCTAA
1 ACCATAAACCTTAAAGCT-TAA
* * *
55106554 ACCATAGACATTAAATCTTAA
1 ACCATAAACCTTAAAGCTTAA
*
55106575 ATTC-TAAACCTTAAA
1 A-CCATAAACCTTAAA
55106590 CATTAAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.28
Consensus pattern (21 bp):
ACCATAAACCTTAAAGCTTAA
Found at i:55106898 original size:40 final size:40
Alignment explanation
Indices: 55106807--55106901 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
55106797 GTGTTTTCCT
* * *
55106807 AAAAGCGCCGCAAATACTCGATCTATAGCGGCATTTTCTA
1 AAAAGCGCCGCTAATACTCGATATATAGCGGCATTTTATA
* * *
55106847 AAAAGCGCCGCTAATACTTGATATATAGCGGTATTTTATT
1 AAAAGCGCCGCTAATACTCGATATATAGCGGCATTTTATA
*
55106887 AATAGCGCCGCTAAT
1 AAAAGCGCCGCTAAT
55106902 GCGACTAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (40 bp):
AAAAGCGCCGCTAATACTCGATATATAGCGGCATTTTATA
Found at i:55110992 original size:12 final size:12
Alignment explanation
Indices: 55110971--55111006 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
55110961 TCTTTTAAAG
55110971 TTACAAATATAA
1 TTACAAATATAA
*
55110983 TTACAGATATAA
1 TTACAAATATAA
*
55110995 TTACAATTATAA
1 TTACAAATATAA
55111007 CTATAGATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (12 bp):
TTACAAATATAA
Found at i:55111818 original size:21 final size:21
Alignment explanation
Indices: 55111788--55111827 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
55111778 TAACAGGACC
55111788 GCTGACGTGGCAAGTTAACCA
1 GCTGACGTGGCAAGTTAACCA
*
55111809 GCTGATGTGGCAAGTTAAC
1 GCTGACGTGGCAAGTTAAC
55111828 TTGCCACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (21 bp):
GCTGACGTGGCAAGTTAACCA
Found at i:55112322 original size:18 final size:18
Alignment explanation
Indices: 55112301--55112454 Score: 103
Period size: 18 Copynumber: 8.2 Consensus size: 18
55112291 TTCTATTTCA
* *
55112301 ATTTTAATTTCAATTCTG
1 ATTTTGATTTCAATTTTG
**
55112319 ATTTTGATTTTGATTTTG
1 ATTTTGATTTCAATTTTG
**
55112337 ATTTTGATTTTGATTTTG
1 ATTTTGATTTCAATTTTG
55112355 ATTTTGATTTCAATTTTG
1 ATTTTGATTTCAATTTTG
*** * *
55112373 AAACACTCACTAATTCTGATTTTG
1 --ATTTTGA-T--TTC-AATTTTG
*
55112397 ATTTTGATTTCAATTTCG
1 ATTTTGATTTCAATTTTG
* *
55112415 ATCTCGATTT-AGATTTTG
1 ATTTTGATTTCA-ATTTTG
*
55112433 ATTTTGATTTCAATTTGG
1 ATTTTGATTTCAATTTTG
55112451 ATTT
1 ATTT
55112455 CGATGAGGTT
Statistics
Matches: 105, Mismatches: 23, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
17 1 0.01
18 83 0.79
19 4 0.04
20 3 0.03
21 2 0.02
22 3 0.03
23 3 0.03
24 6 0.06
ACGTcount: A:0.23, C:0.08, G:0.12, T:0.56
Consensus pattern (18 bp):
ATTTTGATTTCAATTTTG
Found at i:55112326 original size:6 final size:6
Alignment explanation
Indices: 55112317--55112364 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
55112307 ATTTCAATTC
55112317 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
55112365 CAATTTTGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (6 bp):
TGATTT
Found at i:55112370 original size:12 final size:12
Alignment explanation
Indices: 55112318--55112458 Score: 86
Period size: 12 Copynumber: 11.2 Consensus size: 12
55112308 TTTCAATTCT
*
55112318 GATTTTGATTTT
1 GATTTTGATTTC
*
55112330 GATTTTGATTTT
1 GATTTTGATTTC
*
55112342 GATTTTGATTTT
1 GATTTTGATTTC
55112354 GATTTTGATTTC
1 GATTTTGATTTC
* **
55112366 AATTTTGAAACACTC
1 GATTTTG--A-TTTC
*
55112381 -ACTAATTCTGATTTT
1 GA-T--TT-TGATTTC
55112396 GATTTTGATTTC
1 GATTTTGATTTC
* * *
55112408 AATTTCGATCTC
1 GATTTTGATTTC
* *
55112420 GATTTAGATTTT
1 GATTTTGATTTC
55112432 GATTTTGATTTC
1 GATTTTGATTTC
* *
55112444 AATTTGGATTTC
1 GATTTTGATTTC
55112456 GAT
1 GAT
55112459 GAGGTTATTA
Statistics
Matches: 101, Mismatches: 20, Indels: 16
0.74 0.15 0.12
Matches are distributed among these distances:
12 86 0.85
13 2 0.02
14 2 0.02
15 5 0.05
16 2 0.02
17 2 0.02
18 2 0.02
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.55
Consensus pattern (12 bp):
GATTTTGATTTC
Found at i:55112430 original size:36 final size:36
Alignment explanation
Indices: 55112390--55112458 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
55112380 CACTAATTCT
55112390 GATTTTGATTTTGATTTCAATTTCGATCTCGATTTA
1 GATTTTGATTTTGATTTCAATTTCGATCTCGATTTA
* *
55112426 GATTTTGATTTTGATTTCAATTTGGATTTCGAT
1 GATTTTGATTTTGATTTCAATTTCGATCTCGAT
55112459 GAGGTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.54
Consensus pattern (36 bp):
GATTTTGATTTTGATTTCAATTTCGATCTCGATTTA
Found at i:55112435 original size:42 final size:44
Alignment explanation
Indices: 55112336--55112442 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 44
55112326 TTTTGATTTT
* *
55112336 GATTTTGATTTTGATTTTGATTTTGATTTCAATTTTGAAACACTC
1 GATTTAGATTTTGATTTTGATTTTGATTTCAATTTCG-AACACTC
* * *
55112381 -A-CTA-ATTCTGATTTTGATTTTGATTTCAATTTCG-A-TCTC
1 GATTTAGATTTTGATTTTGATTTTGATTTCAATTTCGAACACTC
55112420 GATTTAGATTTTGATTTTGATTT
1 GATTTAGATTTTGATTTTGATTT
55112443 CAATTTGGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
39 3 0.06
40 2 0.04
41 2 0.04
42 43 0.83
43 1 0.02
44 1 0.02
ACGTcount: A:0.23, C:0.09, G:0.13, T:0.54
Consensus pattern (44 bp):
GATTTAGATTTTGATTTTGATTTTGATTTCAATTTCGAACACTC
Found at i:55112454 original size:6 final size:6
Alignment explanation
Indices: 55112389--55112442 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
55112379 TCACTAATTC
** * * * *
55112389 TGATTT TGATTT TGATTT CAATTT CGATCT CGATTT AGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
55112437 TGATTT
1 TGATTT
55112443 CAATTTGGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.20, C:0.07, G:0.15, T:0.57
Consensus pattern (6 bp):
TGATTT
Found at i:55112931 original size:15 final size:15
Alignment explanation
Indices: 55112913--55112942 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55112903 GAAATGTTTG
55112913 GTAGTGATATGTCTA
1 GTAGTGATATGTCTA
*
55112928 GTAGTGATTTGTCTA
1 GTAGTGATATGTCTA
55112943 ATAGGATAAG
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:0.23, C:0.07, G:0.27, T:0.43
Consensus pattern (15 bp):
GTAGTGATATGTCTA
Found at i:55116470 original size:28 final size:29
Alignment explanation
Indices: 55116439--55116503 Score: 66
Period size: 28 Copynumber: 2.3 Consensus size: 29
55116429 ACATATATGT
55116439 ATATACATAT-ATAAG-CAAATATATAATA
1 ATATACATATAATAAGACAAATATATAA-A
* *
55116467 ATATTA-ATATAATAAGACACATATTTAAA
1 ATA-TACATATAATAAGACAAATATATAAA
55116496 AT-TACATA
1 ATATACATA
55116504 AGTAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
27 2 0.06
28 10 0.32
29 10 0.32
30 9 0.29
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (29 bp):
ATATACATATAATAAGACAAATATATAAA
Found at i:55116555 original size:3 final size:3
Alignment explanation
Indices: 55116533--55116588 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
55116523 ATATAATGAG
* * * *
55116533 AAT AAC AAT GAT ATAT AAT AAT AAT AAT AAT AAT ACT AAT ACT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
55116579 AAT AAT AAT A
1 AAT AAT AAT A
55116589 TAAAATTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:55117782 original size:17 final size:17
Alignment explanation
Indices: 55117760--55117795 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
55117750 ATTAGTTTTC
55117760 GGCTT-GTTGGGTATTTG
1 GGCTTGGTT-GGTATTTG
55117777 GGCTTGGTTGGTATTTG
1 GGCTTGGTTGGTATTTG
55117794 GG
1 GG
55117796 TTATGCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.06, C:0.06, G:0.44, T:0.44
Consensus pattern (17 bp):
GGCTTGGTTGGTATTTG
Found at i:55118331 original size:46 final size:46
Alignment explanation
Indices: 55118257--55119193 Score: 1437
Period size: 46 Copynumber: 20.4 Consensus size: 46
55118247 CCATTGTATT
* * * *
55118257 AGGAAGATAAGAT-TCACCATCTTTGATCTACTCCGCTGCCAAATAC
1 AGGAAGATAAGATCT-GCTATCTTCGATCTCCTCCGCTGCCAAATAC
* *
55118303 AGGAAGACAAGACCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
55118349 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* *
55118395 AGGAATATAAGATTTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
*
55118441 AGGAAGATAAGATCTGCTATCTTTGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
*
55118487 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCTGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
*
55118533 AGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* * **
55118579 AGGAAGACAAGATATGCTATCTTCGATCTCCTCTACTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* *
55118625 AGGAAGATAAGATCTCCTATCTTCGATCTCCTCCTCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* *
55118671 AGGAAGACAAGATCTGCTATCTTCGATCTCCTTCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
*
55118717 AGGAAGACT-AGATCTGCTATCTTCTATCTCCTCCGCTGCCAAATAC
1 AGGAAGA-TAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* * * *
55118763 AGGAAGATAAGATATGCTATATTCGATCTCCCCCGCTGCCAAATAT
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
*
55118809 AGGAAGATAAGATCTGTTATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* * * * *
55118855 AGGAAGATAAGATATACCATTTTTGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* * * * * *
55118901 GGGAATACAAGATCTACTATCTTCGATCTCCTCCACTGCCAAATAT
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* *
55118947 AGGAATATAAGATCTGCTATCTTTGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
*
55118993 AGGAAGATAAGATCTACTATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* *
55119039 AGGAAGATAAGATCTGCTATCTTTGATCTCCTCCACTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* * * *
55119085 AGGAAGATAAGATCTGCTATCTTTGATCTCCTCCACTGTCAAATAT
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
55119131 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
55119177 AGGAAGATAAGATCTGC
1 AGGAAGATAAGATCTGC
55119194 AACTTCATTG
Statistics
Matches: 813, Mismatches: 75, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.00
46 811 1.00
47 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
Found at i:55120297 original size:21 final size:21
Alignment explanation
Indices: 55120273--55120319 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
55120263 TGTATAGCAA
55120273 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
*** *
55120294 GATCACTTTATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
55120315 GATCA
1 GATCA
55120320 ATATTTGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.36, G:0.11, T:0.28
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:55120424 original size:8 final size:8
Alignment explanation
Indices: 55120413--55120459 Score: 76
Period size: 8 Copynumber: 5.6 Consensus size: 8
55120403 CCATTTTAAC
55120413 TTTTTCAT
1 TTTTTCAT
55120421 TTTTTCAT
1 TTTTTCAT
55120429 TTTTTCAT
1 TTTTTCAT
55120437 TTTTTCAT
1 TTTTTCAT
55120445 TTTCATTCAT
1 TTT--TTCAT
55120455 TTTTT
1 TTTTT
55120460 TTACTCAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
8 29 0.78
10 8 0.22
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTTCAT
Found at i:55121282 original size:9 final size:9
Alignment explanation
Indices: 55121270--55121295 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
55121260 TTTTGTTGTT
55121270 TTTTTTTTA
1 TTTTTTTTA
55121279 TTTTTTTTA
1 TTTTTTTTA
55121288 TTTTTTTT
1 TTTTTTTT
55121296 GAGTCTGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:55122344 original size:23 final size:23
Alignment explanation
Indices: 55122316--55122359 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
55122306 TTTTTTTACT
55122316 GTAGTAATTTTCGGGGTATTATA
1 GTAGTAATTTTCGGGGTATTATA
55122339 GTAGTAATTTTCGGGGTATTA
1 GTAGTAATTTTCGGGGTATTA
55122360 CATACATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.05, G:0.27, T:0.43
Consensus pattern (23 bp):
GTAGTAATTTTCGGGGTATTATA
Found at i:55125544 original size:45 final size:45
Alignment explanation
Indices: 55125480--55125659 Score: 245
Period size: 45 Copynumber: 4.0 Consensus size: 45
55125470 GTAACGGTAG
* * *
55125480 CAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCTGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGTCGAATCAGTAA
* *
55125525 CAGTAACAGTAATAGTATTCGACACACAAAGTGTCGAATCGGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGTCGAATCAGTAA
*
55125570 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGTCGAATCAGTAA
* * * * *
55125615 TCAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTAATCAGTAA
1 -CAGTAACAGTAACAGTATTCGACACACAAAGTGTCGAATCAGTAA
55125660 GCCGGCAAAT
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
45 99 0.80
46 24 0.20
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGTCGAATCAGTAA
Found at i:55129538 original size:13 final size:13
Alignment explanation
Indices: 55129520--55129547 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
55129510 GAATCATAAA
55129520 ATATAAAATACAT
1 ATATAAAATACAT
55129533 ATATAAAATACAT
1 ATATAAAATACAT
55129546 AT
1 AT
55129548 TTTAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (13 bp):
ATATAAAATACAT
Found at i:55129714 original size:21 final size:21
Alignment explanation
Indices: 55129688--55129728 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
55129678 ATATAAGCAT
55129688 ATATATAAAAATATATAAAAA
1 ATATATAAAAATATATAAAAA
** *
55129709 ATATATGTATATATATAAAA
1 ATATATAAAAATATATAAAA
55129729 GCAATTATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
ATATATAAAAATATATAAAAA
Found at i:55131605 original size:100 final size:100
Alignment explanation
Indices: 55131468--55131656 Score: 229
Period size: 100 Copynumber: 1.9 Consensus size: 100
55131458 CCGTTACGGT
* * * * * *
55131468 TTCAATCTTTTAATTGTAATGTCGGGAAAGCAAGATTCGCCATTGT-GACTTTAATCTATTCCAT
1 TTCAATCTTTTAACTGCAATATCGGGAAAGCAAGATTCGCCATCGTAG-CTTCAATCTATTCCAC
* *
55131532 TGCATCGCCAGGGAA-GTGAGATTCGCTGTTGTAGC
65 TGCACCGCCAGGGAAGGTAAGATTCGCTGTTGTAGC
* * * *
55131567 TTCAATCTATTTAACTGCAATATCGGGGAAGCGAGATTCGTCATCGTAGCTTCAATCTGTTCCAC
1 TTCAATCT-TTTAACTGCAATATCGGGAAAGCAAGATTCGCCATCGTAGCTTCAATCTATTCCAC
*
55131632 TGCACCGCCTGGGAAGGTAAGATTC
65 TGCACCGCCAGGGAAGGTAAGATTC
55131657 ATCGTCTTCG
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
99 8 0.11
100 57 0.77
101 9 0.12
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (100 bp):
TTCAATCTTTTAACTGCAATATCGGGAAAGCAAGATTCGCCATCGTAGCTTCAATCTATTCCACT
GCACCGCCAGGGAAGGTAAGATTCGCTGTTGTAGC
Found at i:55131806 original size:132 final size:132
Alignment explanation
Indices: 55131661--55132599 Score: 1466
Period size: 132 Copynumber: 7.1 Consensus size: 132
55131651 AGATTCATCG
* * * *
55131661 TCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCAATCTATTCTACTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCC
** * *
55131726 GCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGC
66 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
55131791 CA
131 CA
* *
55131793 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCC
** * * *
55131858 GCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGC
66 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
55131923 CA
131 CA
* * *
55131925 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCC
** * ***
55131990 GCCCAGGGAGATAGGATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCCAT
66 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
*
55132055 AA
131 CA
55132057 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCC
* *
55132122 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTATAGTCACAGGGAGGTAAAATCTGC
66 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
55132187 CA
131 CA
* * *
55132189 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCTACAGCC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCC
* * *
55132254 AACCAGAGAGATAGAATTACCGGCTTCAATGTACTCCACTATAGCCACAGGGAGGTAAAAT-TCG
66 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCT-G
55132318 CCA
130 CCA
* **
55132321 TTTTTTATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCC
*
55132386 AACCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
66 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
55132451 CA
131 CA
* * * *
55132453 TCTTCGATCTGCTCCACTACTACTTGGGGAGATAAGATTTGTAATCTTCAATTTATTCCACTGCC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCC
* *
55132518 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCATAGGGAGGTAAAATCTGC
66 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
55132583 CA
131 CA
*
55132585 TCTTCGATTTGCTCC
1 TCTTCGATCTGCTCC
55132600 GCTGTCGATG
Statistics
Matches: 754, Mismatches: 51, Indels: 4
0.93 0.06 0.00
Matches are distributed among these distances:
131 1 0.00
132 752 1.00
133 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCC
AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
CA
Found at i:55131865 original size:88 final size:88
Alignment explanation
Indices: 55131661--55132243 Score: 324
Period size: 88 Copynumber: 6.6 Consensus size: 88
55131651 AGATTCATCG
* * * * * * * *
55131661 TCTTCGATCTGCTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCAATCTATTCTACTACT
1 TCTTCAATCTACTCCACTGCTGCCCAGGGAGATAAAATCTATAATCTTCAATCTACTCCACTACT
* * *
55131726 GCCCAGGGAGAT-AGA-AT-TAT
66 GCTCAGGGAGATAAGATCTGTAA
* * * *** * *
55131746 TGGCTTCAATGTACTCCACTG-TAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCAC
1 T--CTTCAATCTACTCCACTGCT-GCC-CAGGGAGATAAAATCTATAATCTTCAATCTACTCCAC
*
55131810 TACTGCTTAGGGAGATAAGATCTGTAA
62 TACTGCTCAGGGAGATAAGATCTGTAA
* * * *** *
55131837 TCTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAAT-TATTGGCTTCAATGTACTCCACTGTA
1 TCTTCAATCTACTCCACTGCTGCCCAGGGAGATAAAATCTATAATCTTCAATCTACTCCAC--T-
* * * * **
55131901 AC--CACAGGGAGGTAAAATCCGCCA
63 ACTGCTCAGGGAGATAAGATCTGTAA
* * * ** * *
55131925 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTACT
1 TCTTCAATCTACTCCACTGCTGCCCAGGGAGATAAAATCTATAATCTTCAATCTACTCCACTACT
* * * **
55131990 GCCCAGGGAGATAGGAT-TATCG
66 GCTCAGGGAGATAAGATCTGTAA
* * * * * *
55132012 GCTTCAATGTACTCCACTG-TAGCCACAGGGAGGTAAAATCCATAATCTTCGATCTGCTCCACTA
1 TCTTCAATCTACTCCACTGCT-GCC-CAGGGAGATAAAATCTATAATCTTCAATCTACTCCACTA
*
55132076 CTGCTTAGGGAGATAAGATCTGTAA
64 CTGCTCAGGGAGATAAGATCTGTAA
* *** * *** *
55132101 TCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAAT-TATCGGCTTCAATGTACTCCACTA-T
1 TCTTCAATCTACTCCACTGCTGCCCAGGGAGATAAAATCTATAATCTTCAATCTACTCCACTACT
* * * **
55132164 AGTCACAGGGAGGTAAAATCTGCCA
66 -G-CTCAGGGAGATAAGATCTGTAA
** * * ** * *
55132189 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTA
1 TCTTCAATCTACTCCACTGCTGCCCAGGGAGATAAAATCTATAATCTTCAATCTA
55132244 TTCTACAGCC
Statistics
Matches: 359, Mismatches: 118, Indels: 38
0.70 0.23 0.07
Matches are distributed among these distances:
85 1 0.00
86 5 0.01
87 65 0.18
88 213 0.59
89 68 0.19
90 4 0.01
91 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (88 bp):
TCTTCAATCTACTCCACTGCTGCCCAGGGAGATAAAATCTATAATCTTCAATCTACTCCACTACT
GCTCAGGGAGATAAGATCTGTAA
Found at i:55132394 original size:44 final size:44
Alignment explanation
Indices: 55132346--55132530 Score: 119
Period size: 44 Copynumber: 4.2 Consensus size: 44
55132336 ACTACTGCTT
*
55132346 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCAACC
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCCAACC
* *** *
55132390 AGGGAGAT-AGAGT-TATCGGCTTCAATGTACTCCACTGTAGCC-A-C
1 AGGGAGATAAGA-TCTGTAATCTTCAATCTACTCCAC--T-GCCAACC
* * ** * * * * *
55132434 AGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT-ACTACTT
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCCAAC-C
* * * *
55132478 GGGGAGATAAGATTTGTAATCTTCAATTTATTCCACTGCCAACC
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCCAACC
55132522 AGGGAGATA
1 AGGGAGATA
55132531 GAATTATCGG
Statistics
Matches: 100, Mismatches: 31, Indels: 20
0.66 0.21 0.13
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 20 0.20
44 53 0.53
45 22 0.22
46 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (44 bp):
AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCCAACC
Found at i:55132558 original size:43 final size:43
Alignment explanation
Indices: 55132366--55132558 Score: 104
Period size: 44 Copynumber: 4.4 Consensus size: 43
55132356 GATCTGTAAT
* * *
55132366 CTTCAATCTATTCCACTGCCAACCAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAACCAGGGAGATAGAATTATCAG
* * * ** *
55132409 CTTCAATGTACTCCACTGTAGCC-A-CAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCAC--T-GCCAACCAGGGAGATAGAAT-TATCAG
* * * * ** * * * *
55132454 CTTCGATCTGCTCCACT-ACTACTTGGGGAGATAAGATTTGTAAT
1 CTTCAATCTACTCCACTGCCAAC-CAGGGAGAT-AGAATTATCAG
* * *
55132498 CTTCAATTTATTCCACTGCCAACCAGGGAGATAGAATTATCGG
1 CTTCAATCTACTCCACTGCCAACCAGGGAGATAGAATTATCAG
*
55132541 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
55132559 TAGTCATAGG
Statistics
Matches: 106, Mismatches: 35, Indels: 18
0.67 0.22 0.11
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 37 0.35
44 41 0.39
45 23 0.22
46 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (43 bp):
CTTCAATCTACTCCACTGCCAACCAGGGAGATAGAATTATCAG
Found at i:55132643 original size:45 final size:44
Alignment explanation
Indices: 55132594--55132729 Score: 100
Period size: 44 Copynumber: 3.1 Consensus size: 44
55132584 ATCTTCGATT
55132594 TGCTCCGCTGTCGATGCAGGAGGGCAAGATCTGCTATCTTCAACC
1 TGCTCCGCTGTCGATG-AGGAGGGCAAGATCTGCTATCTTCAACC
* * * * * * *
55132639 TGCTCCACT-ACAACTGAGG-GAGGCAAG-GCTTG-TGTCTTCGATC
1 TGCTCCGCTGTCGA-TGAGGAG-GGCAAGATC-TGCTATCTTCAACC
* * * *
55132682 TGCTTCGCTGTCGATGTAGAAAGGCAATATCTGCTATCTTCAACC
1 TGCTCCGCTGTCGATG-AGGAGGGCAAGATCTGCTATCTTCAACC
55132727 TGC
1 TGC
55132730 CCCACTACTG
Statistics
Matches: 65, Mismatches: 18, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
43 19 0.29
44 24 0.37
45 22 0.34
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.27
Consensus pattern (44 bp):
TGCTCCGCTGTCGATGAGGAGGGCAAGATCTGCTATCTTCAACC
Found at i:55133906 original size:42 final size:42
Alignment explanation
Indices: 55133847--55133958 Score: 179
Period size: 42 Copynumber: 2.6 Consensus size: 42
55133837 AAGATCACCA
*
55133847 TATGCCCCGATCTGATCAAAATTTGAGCTGCTCCGATCGCCT
1 TATGCCCCAATCTGATCAAAATTTGAGCTGCTCCGATCGCCT
* *
55133889 TATGCCCCAATCTGATCAAAATTTGAGCTGCTCTGATTGCCT
1 TATGCCCCAATCTGATCAAAATTTGAGCTGCTCCGATCGCCT
*
55133931 TATGCCCCAATTTGATCCAAAATTTGAG
1 TATGCCCCAATCTGAT-CAAAATTTGAG
55133959 TCGCCCTTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
42 54 0.83
43 11 0.17
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (42 bp):
TATGCCCCAATCTGATCAAAATTTGAGCTGCTCCGATCGCCT
Found at i:55139241 original size:13 final size:13
Alignment explanation
Indices: 55139223--55139247 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55139213 GAATCATAAA
55139223 ATATAAAATACAT
1 ATATAAAATACAT
55139236 ATATAAAATACA
1 ATATAAAATACA
55139248 CATTTTAAAA
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:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
ATATAAAATACAT
Found at i:55139396 original size:12 final size:12
Alignment explanation
Indices: 55139381--55139410 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
55139371 GTATATAAGT
*
55139381 ATATATATAAAA
1 ATATATAAAAAA
55139393 ATATATAAAAAA
1 ATATATAAAAAA
55139405 ATATAT
1 ATATAT
55139411 GTATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATATATAAAAAA
Found at i:55139443 original size:3 final size:3
Alignment explanation
Indices: 55139435--55139466 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
55139425 GCAATTATAC
*
55139435 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
55139467 TGAAATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:55140465 original size:15 final size:15
Alignment explanation
Indices: 55140445--55140475 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
55140435 CAAATTAGTT
55140445 TTGGGCCTGAGGTAG
1 TTGGGCCTGAGGTAG
*
55140460 TTGGGCTTGAGGTAG
1 TTGGGCCTGAGGTAG
55140475 T
1 T
55140476 AATTGGGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.10, G:0.45, T:0.32
Consensus pattern (15 bp):
TTGGGCCTGAGGTAG
Found at i:55141600 original size:17 final size:17
Alignment explanation
Indices: 55141574--55141617 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
55141564 CGAGTTTTCA
*
55141574 TTATTCAGATAGTTCTC
1 TTATTCAGATAATTCTC
*
55141591 TTATTTAGATAATTCTC
1 TTATTCAGATAATTCTC
* *
55141608 ATAGTCAGAT
1 TTATTCAGAT
55141618 GCAAAATCAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (17 bp):
TTATTCAGATAATTCTC
Found at i:55147137 original size:25 final size:25
Alignment explanation
Indices: 55147103--55147153 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
55147093 GCTTGGTTTC
55147103 TGTAGTATATAATATATATAG-ATTT
1 TGTAGTATATAATATATA-AGTATTT
* *
55147128 TGTATTATATATTATATAAGTATTT
1 TGTAGTATATAATATATAAGTATTT
55147153 T
1 T
55147154 CAAACAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (25 bp):
TGTAGTATATAATATATAAGTATTT
Found at i:55149223 original size:35 final size:36
Alignment explanation
Indices: 55149167--55149241 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 36
55149157 TATAATTTTT
* * *
55149167 TTTATTTTTTTTATAAGTTTATATCAATTTTAATACA
1 TTTATTTTTTTTAT-AGTTTATATAAAATTCAATACA
*
55149204 TTTATTTTTTTTAT-TTTTATATAAAATTCAATACA
1 TTTATTTTTTTTATAGTTTATATAAAATTCAATACA
55149239 TTT
1 TTT
55149242 TTATAAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 20 0.59
37 14 0.41
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.61
Consensus pattern (36 bp):
TTTATTTTTTTTATAGTTTATATAAAATTCAATACA
Found at i:55149245 original size:37 final size:38
Alignment explanation
Indices: 55149165--55149245 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 38
55149155 TTTATAATTT
* * *
55149165 TTTTTATTTTTTTTATAAGTTTATATCAATTTTAATACA
1 TTTTTATTTTTTTTAT-AGTTTATATAAAATTCAATACA
*
55149204 --TTTATTTTTTTTAT-TTTTATATAAAATTCAATACA
1 TTTTTATTTTTTTTATAGTTTATATAAAATTCAATACA
55149239 TTTTTAT
1 TTTTTAT
55149246 AAAATTTTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
35 17 0.47
37 19 0.53
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (38 bp):
TTTTTATTTTTTTTATAGTTTATATAAAATTCAATACA
Found at i:55149328 original size:29 final size:29
Alignment explanation
Indices: 55149239--55149360 Score: 90
Period size: 29 Copynumber: 4.1 Consensus size: 29
55149229 ATTCAATACA
* *
55149239 TTTTTATAAAATTT-TACAATATTTAAAAT
1 TTTTTATAAAATTTATAAAAT-TTTATAAT
* * * *
55149268 ATTTGTTATTAATTTTAT-AATTTATTAGAAT
1 -TTT-TTATAAAATTTATAAAATT-TTATAAT
55149299 TTTTTATAAAATTTATAAAATTTTATAA-
1 TTTTTATAAAATTTATAAAATTTTATAAT
* *
55149327 TTTTTAT-AACTTTATATCAATTTTCATAAT
1 TTTTTATAAAATTTATA-AAATTTT-ATAAT
55149357 TTTT
1 TTTT
55149361 GATTTTTTTA
Statistics
Matches: 74, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
27 8 0.11
28 13 0.18
29 20 0.27
30 15 0.20
31 17 0.23
32 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.57
Consensus pattern (29 bp):
TTTTTATAAAATTTATAAAATTTTATAAT
Found at i:55149332 original size:19 final size:19
Alignment explanation
Indices: 55149278--55149335 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
55149268 ATTTGTTATT
*
55149278 AATTTTATAATTTATTAGAA
1 AATTTTATAATTT-TTATAA
** **
55149298 TTTTTTATAAAATTTATAA
1 AATTTTATAATTTTTATAA
55149317 AATTTTATAATTTTTATAA
1 AATTTTATAATTTTTATAA
55149336 CTTTATATCA
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
19 20 0.69
20 9 0.31
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
AATTTTATAATTTTTATAA
Found at i:55149377 original size:9 final size:9
Alignment explanation
Indices: 55149280--55149378 Score: 65
Period size: 9 Copynumber: 10.4 Consensus size: 9
55149270 TTGTTATTAA
55149280 TTTTATAAT
1 TTTTATAAT
*
55149289 TTATTAGAATT
1 TT-TTATAA-T
*
55149300 TTTTATAAA
1 TTTTATAAT
* *
55149309 ATTTATAAAA
1 TTTTAT-AAT
55149319 TTTTATAAT
1 TTTTATAAT
55149328 TTTTATAACT
1 TTTTATAA-T
*
55149338 TTATATCAAT
1 TTTTAT-AAT
*
55149348 TTTCATAAT
1 TTTTATAAT
*
55149357 TTTTGAT-TT
1 TTTT-ATAAT
*
55149366 TTTTATCAT
1 TTTTATAAT
55149375 TTTT
1 TTTT
55149379 TGAAAAAAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
8 2 0.03
9 33 0.46
10 31 0.44
11 5 0.07
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:55157750 original size:65 final size:65
Alignment explanation
Indices: 55157644--55157777 Score: 259
Period size: 65 Copynumber: 2.1 Consensus size: 65
55157634 TAAAACATTA
55157644 TCTAACATGAGAAGCTGCAAAACAAACTTCACATCTAAGACTGAATTCTCTTTGATTCACTGATG
1 TCTAACATGAGAAGCTGCAAAACAAACTTCACATCTAAGACTGAATTCTCTTTGATTCACTGATG
*
55157709 TCTAACATGAGAAGCTGCAAAACAAACTTCACATCTGAGACTGAATTCTCTTTGATTCACTGATG
1 TCTAACATGAGAAGCTGCAAAACAAACTTCACATCTAAGACTGAATTCTCTTTGATTCACTGATG
55157774 TCTA
1 TCTA
55157778 GTATTTGGTA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (65 bp):
TCTAACATGAGAAGCTGCAAAACAAACTTCACATCTAAGACTGAATTCTCTTTGATTCACTGATG
Found at i:55158006 original size:54 final size:54
Alignment explanation
Indices: 55157924--55158031 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
55157914 TAAAATAAAG
55157924 TATGTGTAACTAACTTACAGGACAACCAGCAGACTGCAATTTGATAGAAACAGC
1 TATGTGTAACTAACTTACAGGACAACCAGCAGACTGCAATTTGATAGAAACAGC
55157978 TATGTGTAACTAACTTACAGGACAACCAGCAGACTGCAATTTGATAGAAACAGC
1 TATGTGTAACTAACTTACAGGACAACCAGCAGACTGCAATTTGATAGAAACAGC
55158032 CGAATGAAAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (54 bp):
TATGTGTAACTAACTTACAGGACAACCAGCAGACTGCAATTTGATAGAAACAGC
Found at i:55159455 original size:30 final size:29
Alignment explanation
Indices: 55159419--55159480 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 29
55159409 CCTTCTTTCA
*
55159419 CAAACCCAACTCCGTAAGGAGAAATGCTCG
1 CAAACCCAACTCCATAAGGAGAAATGCT-G
55159449 CAAACCCAACTCCATAAGGAGAAATGCTG
1 CAAACCCAACTCCATAAGGAGAAATGCTG
55159478 CAA
1 CAA
55159481 CATATACAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.13
30 27 0.87
ACGTcount: A:0.40, C:0.29, G:0.18, T:0.13
Consensus pattern (29 bp):
CAAACCCAACTCCATAAGGAGAAATGCTG
Found at i:55166943 original size:93 final size:93
Alignment explanation
Indices: 55166776--55167150 Score: 499
Period size: 93 Copynumber: 4.0 Consensus size: 93
55166766 TGATTGTCCA
* * * * * * *
55166776 CCAAAATTCTCTACATCTCTTGAGATGGAAATCATAGGCAAGGCATTTACCGCACAAGAACTATC
1 CCAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTACCCCACAAGCACTCTC
* *
55166841 TGT-AGTTTGTATCAAGGCAGTCTTTTCT
66 T-TCATTTTGTATCAGGGCAGTCTTTTCT
* * * *
55166869 CCAACATTCTCCACATCTCTTGGGTTGGAAGTTATAGGCATAGCATTTACCCCACAAGCACTCTC
1 CCAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTACCCCACAAGCACTCTC
55166934 TTCATTTTGTATCAGGGCAGTCTTTTC-
66 TTCATTTTGTATCAGGGCAGTCTTTTCT
* *
55166961 CGCAACATTCTCCATATCTCTTGGGATGGAAATTATAGGCAAAGCATTTACCCCACAAGCACTAC
1 C-CAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTACCCCACAAGCACT-C
55167026 -CTTCATTTTGTATCAGGGCAGTCTTTTCT
64 TCTTCATTTTGTATCAGGGCAGTCTTTTCT
* *
55167055 CCAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTAACCAACAAGCAC-CAT
1 CCAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTACCCCACAAGCACTC-T
* *
55167119 CTTCATTTTGTA-CTGGGTCATTCTTTTCT
65 CTTCATTTTGTATCAGGG-CAGTCTTTTCT
55167148 CCA
1 CCA
55167151 GCTGGTATTT
Statistics
Matches: 252, Mismatches: 23, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
91 1 0.00
92 6 0.02
93 243 0.96
94 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (93 bp):
CCAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTACCCCACAAGCACTCTC
TTCATTTTGTATCAGGGCAGTCTTTTCT
Found at i:55168245 original size:15 final size:15
Alignment explanation
Indices: 55168225--55168258 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
55168215 TTGGCTTACT
55168225 TAAAAATACATCTCC
1 TAAAAATACATCTCC
55168240 TAAAAATACATCTCC
1 TAAAAATACATCTCC
55168255 TAAA
1 TAAA
55168259 TTATGCTCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATACATCTCC
Found at i:55168947 original size:23 final size:23
Alignment explanation
Indices: 55168921--55168964 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
55168911 GTAACATTAA
55168921 TATAATTATTTT-AATTATTTATT
1 TATAA-TATTTTCAATTATTTATT
*
55168944 TATAATATTTTCTATTATTTA
1 TATAATATTTTCAATTATTTA
55168965 ATTTTTTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TATAATATTTTCAATTATTTATT
Found at i:55173273 original size:2 final size:2
Alignment explanation
Indices: 55173266--55173291 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
55173256 ATAACATTTC
55173266 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
55173292 GCACACACAC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55180126 original size:14 final size:16
Alignment explanation
Indices: 55180107--55180138 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
55180097 TGCCTTTCTG
55180107 ATTA-TTTTAA-ATAA
1 ATTATTTTTAATATAA
55180121 ATTATTTTTAATATAA
1 ATTATTTTTAATATAA
55180137 AT
1 AT
55180139 GCGTTGCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 6 0.38
16 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTATTTTTAATATAA
Found at i:55184973 original size:22 final size:22
Alignment explanation
Indices: 55184948--55184995 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
55184938 TAAGACAAGT
*
55184948 AAAGAAATTATTACAGGAGATG
1 AAAGAAATTATTACAAGAGATG
55184970 AAAGAAATTATTACAAGAGATG
1 AAAGAAATTATTACAAGAGATG
55184992 AAAG
1 AAAG
55184996 GGAAAGGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.54, C:0.04, G:0.21, T:0.21
Consensus pattern (22 bp):
AAAGAAATTATTACAAGAGATG
Found at i:55187536 original size:2 final size:2
Alignment explanation
Indices: 55187529--55187553 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
55187519 ATAACATTTC
55187529 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
55187554 CATTCGTTTA
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:55194197 original size:46 final size:46
Alignment explanation
Indices: 55194130--55194224 Score: 156
Period size: 46 Copynumber: 2.1 Consensus size: 46
55194120 AGGTTAATAT
55194130 TTATTTATTTATTTAGATAATTCTAAAGAGTTTTATTAGGATTCAA
1 TTATTTATTTATTTAGATAATTCTAAAGAGTTTTATTAGGATTCAA
* *
55194176 TTATTTATTT-TCTTAGATAATTTTAAAGAGTTTTATTAGGGTTCAA
1 TTATTTATTTAT-TTAGATAATTCTAAAGAGTTTTATTAGGATTCAA
55194222 TTA
1 TTA
55194225 CTCTTGTCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 1 0.02
46 45 0.98
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.52
Consensus pattern (46 bp):
TTATTTATTTATTTAGATAATTCTAAAGAGTTTTATTAGGATTCAA
Found at i:55194724 original size:22 final size:22
Alignment explanation
Indices: 55194699--55194746 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
55194689 TCAAAAACAC
*
55194699 TTTTCATCGGTTTCGTCAATTT
1 TTTTCATCGGTTTCATCAATTT
*
55194721 TTTTCATCGGTTTCATCGATTT
1 TTTTCATCGGTTTCATCAATTT
55194743 TTTT
1 TTTT
55194747 AAAAAAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.12, C:0.17, G:0.12, T:0.58
Consensus pattern (22 bp):
TTTTCATCGGTTTCATCAATTT
Found at i:55194786 original size:20 final size:20
Alignment explanation
Indices: 55194763--55194834 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
55194753 AGTAGTTAAT
55194763 AAAAAAAAGCAAAAAGCGTA
1 AAAAAAAAGCAAAAAGCGTA
* * *
55194783 AAAAAAAGTTGAAAAAAATCGTA
1 AAAAAAA--AG-CAAAAAGCGTA
* *
55194806 AAAAAAAAGCAAACAGCGCA
1 AAAAAAAAGCAAAAAGCGTA
55194826 AAAAAAAAG
1 AAAAAAAAG
55194835 TTGTCTACCT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
20 23 0.56
21 1 0.02
22 1 0.02
23 16 0.39
ACGTcount: A:0.69, C:0.10, G:0.14, T:0.07
Consensus pattern (20 bp):
AAAAAAAAGCAAAAAGCGTA
Found at i:55200363 original size:23 final size:23
Alignment explanation
Indices: 55200332--55200409 Score: 65
Period size: 23 Copynumber: 3.4 Consensus size: 23
55200322 TATTTATTTA
*
55200332 TTTTTTTAGATAATTTTAAAGAG
1 TTTTATTAGATAATTTTAAAGAG
*
55200355 TTTTATTAGGATTCAATTATT---TA-
1 TTTTATTA-GA-T-AATT-TTAAAGAG
*
55200378 TTTTCTTAGATAATTTTAAAGAG
1 TTTTATTAGATAATTTTAAAGAG
55200401 TTTTATTAG
1 TTTTATTAG
55200410 GGTTCAATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 16
0.67 0.08 0.25
Matches are distributed among these distances:
19 2 0.05
20 4 0.10
21 1 0.02
22 3 0.07
23 22 0.52
24 3 0.07
25 1 0.02
26 4 0.10
27 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.54
Consensus pattern (23 bp):
TTTTATTAGATAATTTTAAAGAG
Found at i:55200391 original size:46 final size:46
Alignment explanation
Indices: 55200325--55200419 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
55200315 AGGTTATTAT
*
55200325 TTATTTATTTTTTTAGATAATTTTAAAGAGTTTTATTAGGATTCAA
1 TTATTTATTTTCTTAGATAATTTTAAAGAGTTTTATTAGGATTCAA
*
55200371 TTATTTATTTTCTTAGATAATTTTAAAGAGTTTTATTAGGGTTCAA
1 TTATTTATTTTCTTAGATAATTTTAAAGAGTTTTATTAGGATTCAA
55200417 TTA
1 TTA
55200420 CTCTTGTCTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.54
Consensus pattern (46 bp):
TTATTTATTTTCTTAGATAATTTTAAAGAGTTTTATTAGGATTCAA
Found at i:55202953 original size:3 final size:3
Alignment explanation
Indices: 55202941--55202989 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
55202931 AATGAAAACC
*
55202941 ATA A-A ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
55202988 AT
1 AT
55202990 GAAAGTCAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:55212701 original size:23 final size:23
Alignment explanation
Indices: 55212647--55212691 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
55212637 AATTTACTTC
55212647 AAATATATAAT--TTATATATTT
1 AAATATATAATGGTTATATATTT
55212668 AAATATATAATGGTTATAT-TTT
1 AAATATATAATGGTTATATATTT
55212690 AA
1 AA
55212692 TATTTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 11 0.50
22 5 0.23
23 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
AAATATATAATGGTTATATATTT
Found at i:55212860 original size:22 final size:23
Alignment explanation
Indices: 55212832--55212879 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
55212822 AGTTGATTGC
* *
55212832 ATTAAAGGATGAGAGG-TGAAGT
1 ATTAAAGGATGAAAGGAGGAAGT
55212854 ATTAAAGGATGAAAGGAGGAAGT
1 ATTAAAGGATGAAAGGAGGAAGT
55212877 ATT
1 ATT
55212880 TTCGAAACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (23 bp):
ATTAAAGGATGAAAGGAGGAAGT
Found at i:55214115 original size:26 final size:25
Alignment explanation
Indices: 55214060--55214115 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
55214050 TTTTAGGGAT
**
55214060 AATTTTTTAGAATTAAAATTCCGCC
1 AATTTTTTAGAATTAAAATTCAACC
* * *
55214085 TATTTTTTAGAATTCAAATTTAACTC
1 AATTTTTTAGAATTAAAATTCAAC-C
55214111 AATTT
1 AATTT
55214116 CTACCACATA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.46
Consensus pattern (25 bp):
AATTTTTTAGAATTAAAATTCAACC
Found at i:55221358 original size:25 final size:26
Alignment explanation
Indices: 55221330--55221387 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
55221320 AAAAAAAGAG
*
55221330 AAAATTTTAAAGAACATAAAA-GAAA
1 AAAATATTAAAGAACATAAAACGAAA
* ** *
55221355 AAAAAATTAAATTACTTAAAACGAAA
1 AAAATATTAAAGAACATAAAACGAAA
55221381 AAAATAT
1 AAAATAT
55221388 AGAAATCAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 16 0.62
26 10 0.38
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.22
Consensus pattern (26 bp):
AAAATATTAAAGAACATAAAACGAAA
Found at i:55225313 original size:16 final size:18
Alignment explanation
Indices: 55225286--55225318 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
55225276 TATAATTCGG
55225286 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
55225303 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
55225319 TTTAGCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:55225672 original size:29 final size:29
Alignment explanation
Indices: 55225625--55225692 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
55225615 ACTAAAAAAA
55225625 GCCATATTTTTACAATATTTACC-GAAATGG
1 GCCAT-TTTTTACAATATTTACCAG-AATGG
* *
55225655 GTCGATTTTTTA-ATTATTTACCAGAATGG
1 G-CCATTTTTTACAATATTTACCAGAATGG
55225684 GCCATTTTT
1 GCCATTTTT
55225693 CGCGAAATCG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 7 0.21
29 15 0.45
30 8 0.24
31 3 0.09
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (29 bp):
GCCATTTTTTACAATATTTACCAGAATGG
Found at i:55226662 original size:29 final size:29
Alignment explanation
Indices: 55226628--55226683 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
55226618 CGCAGAAAAT
*
55226628 GGCCCATTCCGGTAAATAATT-AAAAAACC
1 GGCCCATTCCAGTAAAT-ATTGAAAAAACC
*
55226657 GGCCCATTTCAGTAAATATTGAAAAAA
1 GGCCCATTCCAGTAAATATTGAAAAAA
55226684 AAGGGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (29 bp):
GGCCCATTCCAGTAAATATTGAAAAAACC
Found at i:55228129 original size:21 final size:20
Alignment explanation
Indices: 55228081--55228130 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
55228071 TTTTAAAATA
55228081 TTTTTAAAATTCTTTTTTAT
1 TTTTTAAAATTCTTTTTTAT
*
55228101 TTTTTAAAATT-TTTTTGTGT
1 TTTTTAAAATTCTTTTT-TAT
55228121 TTATTTAAAA
1 TT-TTTAAAA
55228131 AACGGGTCGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 15 0.56
21 7 0.26
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (20 bp):
TTTTTAAAATTCTTTTTTAT
Found at i:55230222 original size:24 final size:24
Alignment explanation
Indices: 55230188--55230239 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
55230178 TTTCTAGAAG
*
55230188 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
*
55230212 ATTTAGCATTTATTAGTATAATTT
1 ATTTAGCATTTATTAGTATAATAT
55230236 ATTT
1 ATTT
55230240 GACCTATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:55231302 original size:25 final size:27
Alignment explanation
Indices: 55231269--55231318 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
55231259 ATTATGATAT
* *
55231269 GCAAGTAAAA-AT-AATAAGAGTCACA
1 GCAAATAAAAGATAAATAAAAGTCACA
55231294 GCAAATAAAAGATAAATAAAAGTCA
1 GCAAATAAAAGATAAATAAAAGTCA
55231319 AATTAATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
26 2 0.10
27 10 0.48
ACGTcount: A:0.60, C:0.10, G:0.14, T:0.16
Consensus pattern (27 bp):
GCAAATAAAAGATAAATAAAAGTCACA
Found at i:55231746 original size:10 final size:10
Alignment explanation
Indices: 55231717--55231747 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
55231707 ATATGTAAGT
*
55231717 ATGTATATAT
1 ATGTATATAA
55231727 ATGTATATAA
1 ATGTATATAA
55231737 ATGTATATAA
1 ATGTATATAA
55231747 A
1 A
55231748 AATTATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (10 bp):
ATGTATATAA
Found at i:55231761 original size:25 final size:26
Alignment explanation
Indices: 55231733--55231797 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
55231723 ATATATGTAT
*
55231733 ATAAATGTATATAAAAAT-TATGAAA
1 ATAAATGTATATAAAAATATATAAAA
*
55231758 ATAAAAT-AATATAAAAAATATATAAAA
1 AT-AAATGTATAT-AAAAATATATAAAA
**
55231785 ATATGTGTATATA
1 ATAAATGTATATA
55231798 TATTTTTACA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
25 6 0.19
26 13 0.42
27 12 0.39
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (26 bp):
ATAAATGTATATAAAAATATATAAAA
Found at i:55231844 original size:33 final size:33
Alignment explanation
Indices: 55231780--55231845 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
55231770 AAAAAATATA
*
55231780 TAAAAATATGTGTATATATATTTTTACAAAAGT
1 TAAAAATATGTGTATATATATTTATACAAAAGT
55231813 TAAAAATATGTACGTATATATA-TTATA-AAAAGT
1 TAAAAATATGT--GTATATATATTTATACAAAAGT
55231846 ATGTATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 17 0.57
34 4 0.13
35 9 0.30
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.39
Consensus pattern (33 bp):
TAAAAATATGTGTATATATATTTATACAAAAGT
Found at i:55231852 original size:18 final size:18
Alignment explanation
Indices: 55231826--55231866 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
55231816 AAATATGTAC
55231826 GTATATATATTATAAAAA
1 GTATATATATTATAAAAA
*
55231844 GTATGTATATTATAAAAA
1 GTATATATATTATAAAAA
55231862 -TATAT
1 GTATAT
55231867 GCATGTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (18 bp):
GTATATATATTATAAAAA
Found at i:55231995 original size:26 final size:27
Alignment explanation
Indices: 55231944--55231995 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
55231934 TAATAAGGTA
*
55231944 AGTAATAATAAATACAATAATAGTAAT
1 AGTAATAATAAATAAAATAATAGTAAT
*
55231971 AGTAATATTAAA-AAAATAATAGTAA
1 AGTAATAATAAATAAAATAATAGTAA
55231996 AAATAATGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (27 bp):
AGTAATAATAAATAAAATAATAGTAAT
Found at i:55232653 original size:2 final size:2
Alignment explanation
Indices: 55232648--55232692 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
55232638 TATATATATA
55232648 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
55232690 TG T
1 TG T
55232693 ACGATTAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:55233082 original size:13 final size:13
Alignment explanation
Indices: 55233064--55233090 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55233054 TTTTCTGATT
55233064 TGATGCTTTGGGC
1 TGATGCTTTGGGC
55233077 TGATGCTTTGGGC
1 TGATGCTTTGGGC
55233090 T
1 T
55233091 ATTAGGGTTT
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:0.07, C:0.15, G:0.37, T:0.41
Consensus pattern (13 bp):
TGATGCTTTGGGC
Found at i:55243960 original size:12 final size:11
Alignment explanation
Indices: 55243943--55243976 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
55243933 AAATTTTTCC
55243943 TCTTTTTTCTTT
1 TCTTTTTT-TTT
55243955 TCTTTTTTTTT
1 TCTTTTTTTTT
55243966 T-TTTTTTTTT
1 TCTTTTTTTTT
55243976 T
1 T
55243977 GCCAATATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.45
11 4 0.18
12 8 0.36
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:55246026 original size:15 final size:16
Alignment explanation
Indices: 55246006--55246043 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
55245996 GAAAAATTAT
55246006 AAACTAAATAAATA-A
1 AAACTAAATAAATACA
55246021 AAACT-AATAAATACA
1 AAACTAAATAAATACA
*
55246036 TAACTAAA
1 AAACTAAA
55246044 AGGTAACACC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 8 0.40
15 10 0.50
16 2 0.10
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (16 bp):
AAACTAAATAAATACA
Found at i:55246785 original size:20 final size:20
Alignment explanation
Indices: 55246756--55246796 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
55246746 TGACTATCTT
55246756 AGTAAAAAATTCC-ACAAAA
1 AGTAAAAAATTCCAACAAAA
55246775 AGTACAAAAATTCCAACAAAA
1 AGTA-AAAAATTCCAACAAAA
55246796 A
1 A
55246797 AAAAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 9 0.45
21 7 0.35
ACGTcount: A:0.63, C:0.17, G:0.05, T:0.15
Consensus pattern (20 bp):
AGTAAAAAATTCCAACAAAA
Found at i:55247426 original size:24 final size:24
Alignment explanation
Indices: 55247399--55247481 Score: 66
Period size: 24 Copynumber: 3.3 Consensus size: 24
55247389 ATAGTTTCTT
55247399 TCTATATAAATTATTTAAAAAATC
1 TCTATATAAATTATTTAAAAAATC
55247423 TCTATAT---TT-TTTAAAAAAATAGTTTC
1 TCTATATAAATTATTT--AAAAA-A---TC
55247449 TTTCTATATAAATTATTTAAAAAATC
1 --TCTATATAAATTATTTAAAAAATC
55247475 TCTATAT
1 TCTATAT
55247482 TTTTTAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 24
0.66 0.00 0.34
Matches are distributed among these distances:
20 3 0.06
21 2 0.04
22 5 0.11
23 1 0.02
24 14 0.30
26 4 0.09
28 7 0.15
29 1 0.02
30 5 0.11
31 2 0.04
32 3 0.06
ACGTcount: A:0.43, C:0.08, G:0.01, T:0.47
Consensus pattern (24 bp):
TCTATATAAATTATTTAAAAAATC
Found at i:55247485 original size:51 final size:51
Alignment explanation
Indices: 55247358--55247524 Score: 280
Period size: 52 Copynumber: 3.2 Consensus size: 51
55247348 AAATTATTTA
55247358 TATTTAAAAAATCTCTATATTTTTAAAAAAAATAGTTTCTTTCTATATAAAT
1 TATTTAAAAAATCTCTATATTTTT-AAAAAAATAGTTTCTTTCTATATAAAT
55247410 TATTTAAAAAATCTCTATATTTTTTAAAAAAATAGTTTCTTTCTATATAAAT
1 TATTTAAAAAATCTCTATA-TTTTTAAAAAAATAGTTTCTTTCTATATAAAT
* * *
55247462 TATTTAAAAAATCTCTATATTTTTTAAAAAATAGTTACTTTATATATAAAT
1 TATTTAAAAAATCTCTATATTTTTAAAAAAATAGTTTCTTTCTATATAAAT
55247513 TATTTAATAAAA
1 TATTTAA-AAAA
55247525 ACATTTTTTA
Statistics
Matches: 110, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
51 36 0.33
52 69 0.63
53 5 0.05
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.47
Consensus pattern (51 bp):
TATTTAAAAAATCTCTATATTTTTAAAAAAATAGTTTCTTTCTATATAAAT
Found at i:55250123 original size:21 final size:21
Alignment explanation
Indices: 55250099--55250139 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
55250089 TTATGTGTTA
55250099 ACCTCTTGGAA-TACAGTGCAG
1 ACCT-TTGGAATTACAGTGCAG
55250120 ACCTTTGGAATTTACAGTGC
1 ACCTTTGGAA-TTACAGTGC
55250140 TATAGATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (21 bp):
ACCTTTGGAATTACAGTGCAG
Found at i:55254271 original size:13 final size:13
Alignment explanation
Indices: 55254253--55254340 Score: 54
Period size: 13 Copynumber: 7.5 Consensus size: 13
55254243 AGTATTAGAA
55254253 TTTATTTATATAT
1 TTTATTTATATAT
55254266 TTTA--T-TA-A-
1 TTTATTTATATAT
55254274 TTTATTTATATAT
1 TTTATTTATATAT
55254287 TTTATTTATA-A-
1 TTTATTTATATAT
* * *
55254298 TATATTAAAATAT
1 TTTATTTATATAT
*
55254311 TATA-TTA-ATA-
1 TTTATTTATATAT
55254321 -TTATTTATATAT
1 TTTATTTATATAT
55254333 TTCTATTT
1 TT-TATTT
55254341 CATTTGCATT
Statistics
Matches: 58, Mismatches: 5, Indels: 23
0.67 0.06 0.27
Matches are distributed among these distances:
8 4 0.07
9 3 0.05
10 6 0.10
11 16 0.28
12 5 0.09
13 19 0.33
14 5 0.09
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTATTTATATAT
Found at i:55254277 original size:21 final size:21
Alignment explanation
Indices: 55254251--55254339 Score: 97
Period size: 21 Copynumber: 4.0 Consensus size: 21
55254241 TTAGTATTAG
55254251 AATTTATTTATATATTTTATT
1 AATTTATTTATATATTTTATT
55254272 AATTTATTTATATATTTTATTTAT
1 AATTTATTTATATATTTTA--T-T
* * * *
55254296 AATATATTAAAATATTATATT
1 AATTTATTTATATATTTTATT
55254317 AATATTATTTATATATTTCTATT
1 AAT-TTATTTATATATTT-TATT
55254340 TCATTTGCAT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
21 23 0.42
22 11 0.20
23 5 0.09
24 16 0.29
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (21 bp):
AATTTATTTATATATTTTATT
Found at i:55257517 original size:17 final size:16
Alignment explanation
Indices: 55257495--55257528 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
55257485 TTAATTAAGC
55257495 TTAGGTAATTATATTAA
1 TTAGGT-ATTATATTAA
*
55257512 TTAGGTTTTATATTAA
1 TTAGGTATTATATTAA
55257528 T
1 T
55257529 AATTTAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (16 bp):
TTAGGTATTATATTAA
Found at i:55264885 original size:457 final size:455
Alignment explanation
Indices: 55264027--55264925 Score: 1753
Period size: 457 Copynumber: 2.0 Consensus size: 455
55264017 AAGCTGAGTT
55264027 TTGTTTACTATAGGGAGGTAAGGTTTTCTTCTTTTAGCTTCGTTTTTTAACCAAACGTCGAACTC
1 TTGTTTACTATAGGGAGGTAAGGTTTTCTTCTTTTAGCTTCGTTTTTTAACCAAACGTCGAACTC
*
55264092 TGTTGATAGTAACTTTAAACTGGTTTACGCTTGTGAAAAAAATGGTCTCTGTACCTTATAGATTT
66 TGTTGATAGTAACTTTAAACTGGTTTACGCTTGTGAAAAAAATGGTCTCTGTACCTTATAGATCT
55264157 ATGTTTTCTTGATTGCCACTGATTGTTTTAGAGTCTAGAGTTGCAATGATTTTGTCTCATTAATT
131 ATGTTTTCTTGATTGCCACTGATTGTTTTAGAGTCTAGAGTTGCAATGATTTTGTCTCATTAATT
55264222 TTTTTTCCAAATTTCTTGATTTTCCTTTAAAATCTGGTTGTTCTCTATAATAAATTGTGCAAGTG
196 TTTTTTCCAAATTTCTTGATTTTCCTTTAAAATCTGGTTGTTCTCTATAATAAATTGTGCAAGTG
55264287 ACGATAAAGATAGACAGGGACATCAGTACCCATTGGAGGATGATGAGTTGTCTAAAATGGGAATC
261 ACGATAAAGATAGACAGGGACATCAGTACCCATTGGAGGATGATGAGTTGTCTAAAATGGGAATC
55264352 TCTCTGATGCACAAAACTAATTGGTTTTATTTCATGCATGAGTTTCTTTTTCATGATTTGATAAA
326 TCTCTGATGCACAAAACTAATTGGTTTTATTTCATGCATGAGTTTCTTTTTCATGATTTGATAAA
*
55264417 ATTTGTACAAAATTTTAGATGAAAGGTTTCTAAGGAGTATTTTGGTGTATGCACAAAACTAATCC
391 ATTTATACAAAATTTTAGATGAAAGGTTTCTAAGGAGTATTTTGGTGTATGCACAAAACTAATCC
55264482 TTGTTTACTATAGGGAGGTAAGGTTTTCTTCTTTTAGCTTCGTTTTTTAACCAAACGTCGAACTC
1 TTGTTTACTATAGGGAGGTAAGGTTTTCTTCTTTTAGCTTCGTTTTTTAACCAAACGTCGAACTC
55264547 TGTTGATAGTAACTTTAAACTGGTTTACGCTTGTGAAAAAAATGGTCTCTGTACCTTATAGATCT
66 TGTTGATAGTAACTTTAAACTGGTTTACGCTTGTGAAAAAAATGGTCTCTGTACCTTATAGATCT
55264612 ATGTTTTCTTGATTGCCACTGATTGTTTTAGAGTCTAGAGTTGCAATGATTTTGTCTCATTAATT
131 ATGTTTTCTTGATTGCCACTGATTGTTTTAGAGTCTAGAGTTGCAATGATTTTGTCTCATTAA--
*
55264677 TTTTTTTTCCAAATTTCTTGTTTTTCCTTTAAAATCTGGTTGTTCTCTATAATAAATTGTGCAAG
194 TTTTTTTTCCAAATTTCTTGATTTTCCTTTAAAATCTGGTTGTTCTCTATAATAAATTGTGCAAG
55264742 TGACGATAAAGATAGACAGGGACATCAGTACCCATTGGAGGATGATGAGTTGTCTAAAATGGGAA
259 TGACGATAAAGATAGACAGGGACATCAGTACCCATTGGAGGATGATGAGTTGTCTAAAATGGGAA
55264807 TCTCTCTGATGCACAAAACTAATTGGTTTTATTTCATGCATGAGTTTCTTTTTCATGATTTGATA
324 TCTCTCTGATGCACAAAACTAATTGGTTTTATTTCATGCATGAGTTTCTTTTTCATGATTTGATA
55264872 AAATTTATACAAAATTTTAGATGAAAGGTTTCTAAGGAGTATTTTGGTGTATGC
389 AAATTTATACAAAATTTTAGATGAAAGGTTTCTAAGGAGTATTTTGGTGTATGC
55264926 TTAATCCATT
Statistics
Matches: 439, Mismatches: 3, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
455 192 0.44
457 247 0.56
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (455 bp):
TTGTTTACTATAGGGAGGTAAGGTTTTCTTCTTTTAGCTTCGTTTTTTAACCAAACGTCGAACTC
TGTTGATAGTAACTTTAAACTGGTTTACGCTTGTGAAAAAAATGGTCTCTGTACCTTATAGATCT
ATGTTTTCTTGATTGCCACTGATTGTTTTAGAGTCTAGAGTTGCAATGATTTTGTCTCATTAATT
TTTTTTCCAAATTTCTTGATTTTCCTTTAAAATCTGGTTGTTCTCTATAATAAATTGTGCAAGTG
ACGATAAAGATAGACAGGGACATCAGTACCCATTGGAGGATGATGAGTTGTCTAAAATGGGAATC
TCTCTGATGCACAAAACTAATTGGTTTTATTTCATGCATGAGTTTCTTTTTCATGATTTGATAAA
ATTTATACAAAATTTTAGATGAAAGGTTTCTAAGGAGTATTTTGGTGTATGCACAAAACTAATCC
Found at i:55268072 original size:18 final size:16
Alignment explanation
Indices: 55268060--55268303 Score: 58
Period size: 16 Copynumber: 16.5 Consensus size: 16
55268050 AATAATTATT
55268060 AAATATATTATAATTA
1 AAATATATTATAATTA
*
55268076 AAATATATAATTTAA-TA
1 AAATATAT--TATAATTA
55268093 AAAT-TATTA-AATT-
1 AAATATATTATAATTA
*
55268106 ---TAT-TCA-AATTA
1 AAATATATTATAATTA
* *
55268117 TAATATATGAT-ATTA
1 AAATATATTATAATTA
*
55268132 TAAA-ATA-TA-ATTTA
1 -AAATATATTATAATTA
* *
55268146 ACATA-ATTATTATT-
1 AAATATATTATAATTA
55268160 AAATATATTATAATTA
1 AAATATATTATAATTA
*
55268176 AAATATATGAT--TTAA
1 AAATATATTATAATT-A
* *
55268191 TAAATTTATTAATAATCA
1 -AAATATATT-ATAATTA
* *
55268209 ATAT-TCTTAT-A-T-
1 AAATATATTATAATTA
*
55268221 AAATTTATT-TAAATTA
1 AAATATATTAT-AATTA
* * *
55268237 TAATATATGATACTATA
1 AAATATATTATAAT-TA
55268254 AAATATA--AT--TTA
1 AAATATATTATAATTA
* *
55268266 ATATA-ATTATTATT-
1 AAATATATTATAATTA
55268280 AAATATATTATAATTA
1 AAATATATTATAATTA
55268296 AAATATAT
1 AAATATAT
55268304 AATTTAATAA
Statistics
Matches: 164, Mismatches: 29, Indels: 70
0.62 0.11 0.27
Matches are distributed among these distances:
10 7 0.04
11 2 0.01
12 10 0.06
13 11 0.07
14 24 0.15
15 35 0.21
16 49 0.30
17 20 0.12
18 5 0.03
19 1 0.01
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (16 bp):
AAATATATTATAATTA
Found at i:55268093 original size:21 final size:21
Alignment explanation
Indices: 55268017--55268093 Score: 51
Period size: 21 Copynumber: 3.8 Consensus size: 21
55268007 TAAGATTATT
55268017 AATAT-TAATATTAATAA-T-A
1 AATATATAAT-TTAATAATTAA
* *
55268036 AATAATTTAATTATAATAATTATT
1 AAT-ATATAATT-TAATAATTA-A
55268060 AA-ATAT-A-TT-ATAATTAA
1 AATATATAATTTAATAATTAA
55268077 AATATATAATTTAATAA
1 AATATATAATTTAATAA
55268094 AATTATTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 18
0.68 0.05 0.27
Matches are distributed among these distances:
17 2 0.04
18 11 0.24
19 5 0.11
20 6 0.13
21 15 0.33
22 4 0.09
24 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AATATATAATTTAATAATTAA
Found at i:55268161 original size:100 final size:102
Alignment explanation
Indices: 55268011--55268202 Score: 284
Period size: 100 Copynumber: 1.9 Consensus size: 102
55268001 ATTTAATAAG
* * *
55268011 ATTATTAATAT-TAATATTAATAATAA-ATAATTTAATTATAATAATTATTAAATATATTATAAT
1 ATTA-TAATATATAATATTATTAATAATATAATTTAA-CATAATTATTATTAAATATATTATAAT
55268074 TAAAATATATAATTTAATAAAATTATTAAATTTATTCAA
64 TAAAATATATAATTTAATAAAATTATTAAATTTATTCAA
*
55268113 ATTATAATATATGATATTA-TAA-AATATAATTTAACATAATTATTATTAAATATATTATAATTA
1 ATTATAATATATAATATTATTAATAATATAATTTAACATAATTATTATTAAATATATTATAATTA
* *
55268176 AAATATATGATTTAATAAATTTATTAA
66 AAATATATAATTTAATAAAATTATTAA
55268203 TAATCAATAT
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
100 54 0.65
101 18 0.22
102 11 0.13
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (102 bp):
ATTATAATATATAATATTATTAATAATATAATTTAACATAATTATTATTAAATATATTATAATTA
AAATATATAATTTAATAAAATTATTAAATTTATTCAA
Found at i:55268200 original size:44 final size:44
Alignment explanation
Indices: 55268113--55268310 Score: 124
Period size: 44 Copynumber: 4.8 Consensus size: 44
55268103 ATTTATTCAA
55268113 ATTATAATATATGATATTATAAAATATAATTTAACATAATTATT
1 ATTATAATATATGATATTATAAAATATAATTTAACATAATTATT
* * *
55268157 ATTA-AATATATTATAATTA-AAATATATGATTT-A-ATAAAT-TT
1 ATTATAATATATGAT-ATTATAAA-ATATAATTTAACATAATTATT
* * * * **
55268198 A-T-TAATA-ATCAATATTCTTATATA-AATTT-ATTTAA--A--
1 ATTATAATATAT-GATATTATAAAATATAATTTAACATAATTATT
* *
55268234 -TTATAATATATGATACTATAAAATATAATTTAATATAATTATT
1 ATTATAATATATGATATTATAAAATATAATTTAACATAATTATT
*
55268277 ATTA-AATATATTATAATTA-AAATATATAATTTAA
1 ATTATAATATATGAT-ATTATAAA-ATATAATTTAA
55268311 TAAAATTTTT
Statistics
Matches: 118, Mismatches: 17, Indels: 38
0.68 0.10 0.22
Matches are distributed among these distances:
36 1 0.01
37 14 0.12
38 12 0.10
39 16 0.14
40 8 0.07
41 4 0.03
42 5 0.04
43 25 0.21
44 33 0.28
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (44 bp):
ATTATAATATATGATATTATAAAATATAATTTAACATAATTATT
Found at i:55268235 original size:120 final size:120
Alignment explanation
Indices: 55268096--55268354 Score: 432
Period size: 120 Copynumber: 2.2 Consensus size: 120
55268086 TTTAATAAAA
*
55268096 TTAT-TAAATTTATTCAAATTATAATATATGATATTATAAAATATAATTTAACATAATTATTATT
1 TTATATAAATTTATTCAAATTATAATATATGATACTATAAAATATAATTTAACATAATTATTATT
*
55268160 AAATATATTATAATTAAAATATATGATTTAAT-AAATTTATTAATAATCAATATTC
66 AAATATATTATAATTAAAATATATAATTTAATAAAATTT-TTAATAATCAATATTC
* *
55268215 TTATATAAATTTATTTAAATTATAATATATGATACTATAAAATATAATTTAATATAATTATTATT
1 TTATATAAATTTATTCAAATTATAATATATGATACTATAAAATATAATTTAACATAATTATTATT
*
55268280 AAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATAATTAATATTC
66 AAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATAATCAATATTC
* *
55268335 TTATATGAATTTATTGAAAT
1 TTATATAAATTTATTCAAAT
55268355 AAGATAATTT
Statistics
Matches: 131, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
119 4 0.03
120 121 0.92
121 6 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (120 bp):
TTATATAAATTTATTCAAATTATAATATATGATACTATAAAATATAATTTAACATAATTATTATT
AAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATAATCAATATTC
Found at i:55268366 original size:100 final size:100
Alignment explanation
Indices: 55268258--55268447 Score: 344
Period size: 100 Copynumber: 1.9 Consensus size: 100
55268248 ACTATAAAAT
* *
55268258 ATAATTTAATATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAA
1 ATAATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAA
* *
55268323 TAATTAATATTCTTATATGAATTTATTGAAATAAG
66 TAATTAATATGCATATATGAATTTATTGAAATAAG
55268358 ATAATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAA
1 ATAATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAA
55268423 TAATTAATATGCATATATGAATTTA
66 TAATTAATATGCATATATGAATTTA
55268448 CTAAAATTAT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 86 1.00
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.46
Consensus pattern (100 bp):
ATAATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAA
TAATTAATATGCATATATGAATTTATTGAAATAAG
Found at i:55268401 original size:16 final size:16
Alignment explanation
Indices: 55268358--55268429 Score: 53
Period size: 16 Copynumber: 4.5 Consensus size: 16
55268348 TTGAAATAAG
*
55268358 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
55268374 ATTATT-AAATATATT
1 ATAATTAAAATATATT
55268389 ATAATTAAAATATATAAT
1 ATAATTAAAATATAT--T
*
55268407 TTAA-TAAAAT-TATT
1 ATAATTAAAATATATT
55268421 AATAATTAA
1 -ATAATTAA
55268430 TATGCATATA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
14 5 0.11
15 13 0.29
16 17 0.38
17 6 0.13
18 4 0.09
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:55268403 original size:18 final size:18
Alignment explanation
Indices: 55268382--55268429 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
55268372 TTATTATTAA
55268382 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
55268400 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
55268417 -TAT-TAATAATTAA
1 ATATATTATAATTAA
55268430 TATGCATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:55268410 original size:14 final size:15
Alignment explanation
Indices: 55268358--55268412 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
55268348 TTGAAATAAG
55268358 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
55268374 ATTATTAAATATATT
1 ATAATTAAATATATT
55268389 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
55268402 ATAATTTAATA
1 ATAATTAAATA
55268413 AAATTATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:55268457 original size:220 final size:219
Alignment explanation
Indices: 55268037--55268516 Score: 693
Period size: 220 Copynumber: 2.2 Consensus size: 219
55268027 TTAATAATAA
*
55268037 ATAATTTAATTATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTA
1 ATAATTTAA-TATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTA
* *
55268102 AATTTATTCAAATTATAATATATGATATTATAAAATATAATTTAACATAATTATTATTAAATATA
65 AATTAATTCAAATTAT-ATATATGATATTATAAAAGATAATTTAACATAATTATTATTAAATATA
* * * * * *
55268167 TTATAATTAAAATATATGATTTAATAAATTTATTAATAATCAATATTCTTATATAAATTTATTTA
129 TTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAATATGCATATATAAATTTACTAA
55268232 AATTATAATATATGATACTATAAAAT
194 AATTATAATATATGATACTATAAAAT
*
55268258 ATAATTTAATATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT-TTTA
1 ATAATTTAATATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAA
*
55268322 A-TAATT-AATATTCT-TATATGA-ATTTATTGAAATAAGATAATTTAACATAATTATTATTAAA
66 ATTAATTCAA-ATTATATATATGATA-TTA-T--AA-AAGATAATTTAACATAATTATTATTAAA
* *
55268383 TATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAATATGCATATATGAATTTA
125 TATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAATATGCATATATAAATTTA
*
55268448 CTAAAATTATAATATATGATGCTATAAAAT
190 CTAAAATTATAATATATGATACTATAAAAT
* *
55268478 ATAATTTGAA-ATAATTAATATTAAATATATTTTAATTAA
1 ATAATTT-AATATAATTATTATTAAATATATTATAATTAA
55268517 TATTAAATAA
Statistics
Matches: 236, Mismatches: 16, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
215 1 0.00
216 10 0.04
217 3 0.01
218 8 0.03
219 6 0.03
220 197 0.83
221 11 0.05
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (219 bp):
ATAATTTAATATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAA
ATTAATTCAAATTATATATATGATATTATAAAAGATAATTTAACATAATTATTATTAAATATATT
ATAATTAAAATATATAATTTAATAAAATTATTAATAATCAATATGCATATATAAATTTACTAAAA
TTATAATATATGATACTATAAAAT
Found at i:55269756 original size:137 final size:138
Alignment explanation
Indices: 55269507--55269777 Score: 447
Period size: 137 Copynumber: 2.0 Consensus size: 138
55269497 AACTTAAAAT
* * *
55269507 TGAAATCAATTATGGAATGCGTTACATTCAAAATAACAATAAACAAAATATGGATATAACACTAG
1 TGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAA
* * *
55269572 CTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTCACCTGAAAGTG-AGATATGAAAGAT
66 CTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCA-ATATGAAAGAC
55269636 ATGCCCAAA
130 ATGCCCAAA
* *
55269645 TGAAATCATTTATGGCATGAGTTACATTCAAAATAACAAT-AACAAAAGATGGATATAACACTAA
1 TGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAA
55269709 CTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACA
66 CTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACA
55269774 TGCC
131 TGCC
55269778 ATTTTCTGAA
Statistics
Matches: 124, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
137 86 0.69
138 38 0.31
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (138 bp):
TGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAA
CTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACA
TGCCCAAA
Found at i:55276246 original size:32 final size:31
Alignment explanation
Indices: 55276193--55276252 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
55276183 TAAAAAAAAG
* * *
55276193 TAAATTAACTAAAATTTAAAAATTAAAAGGT
1 TAAATTAACTAAAAATAAAAAATAAAAAGGT
*
55276224 TAAATTATTCTAAAAATAAAAAATAAAAA
1 TAAATTA-ACTAAAAATAAAAAATAAAAA
55276253 TAGTAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 7 0.29
32 17 0.71
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (31 bp):
TAAATTAACTAAAAATAAAAAATAAAAAGGT
Found at i:55285385 original size:50 final size:50
Alignment explanation
Indices: 55285327--55285429 Score: 179
Period size: 50 Copynumber: 2.1 Consensus size: 50
55285317 AGTAGGATTG
* *
55285327 TTTCCGAACTACGTTAACAAACGATTGTGTGCAAATCTCTTCTTACCTTC
1 TTTCCGAACTACGTTAACAAACAATTGTGTGCAAATCTCTTCTTACCTAC
*
55285377 TTTCCGAACTACGTTAACAAACAATTGTGTGCAAATCTTTTCTTACCTAC
1 TTTCCGAACTACGTTAACAAACAATTGTGTGCAAATCTCTTCTTACCTAC
55285427 TTT
1 TTT
55285430 GATTTTCGTA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (50 bp):
TTTCCGAACTACGTTAACAAACAATTGTGTGCAAATCTCTTCTTACCTAC
Found at i:55288153 original size:14 final size:14
Alignment explanation
Indices: 55288124--55288152 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
55288114 CAATATTTAC
55288124 TTATTTTGAAATTT
1 TTATTTTGAAATTT
55288138 TTATTTT-AAATTT
1 TTATTTTGAAATTT
55288151 TT
1 TT
55288153 TTCTCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (14 bp):
TTATTTTGAAATTT
Found at i:55300834 original size:41 final size:41
Alignment explanation
Indices: 55300784--55300882 Score: 155
Period size: 41 Copynumber: 2.4 Consensus size: 41
55300774 ATTGATCTCG
*
55300784 GTTTCGCACACTTAGTGCCCGTTATTTAACATCATTATTTA
1 GTTTCGCACACTTAGTGCCCGTTATTTAACATCATCATTTA
* *
55300825 GTTTTGCACACTTAGTGCTCGTTATTTAACATCATCATTTA
1 GTTTCGCACACTTAGTGCCCGTTATTTAACATCATCATTTA
*
55300866 -ATTCGCACACTTAGTGC
1 GTTTCGCACACTTAGTGC
55300883 TAATCATATA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 15 0.28
41 38 0.72
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (41 bp):
GTTTCGCACACTTAGTGCCCGTTATTTAACATCATCATTTA
Found at i:55302999 original size:22 final size:22
Alignment explanation
Indices: 55302974--55303018 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
55302964 AAAATGAAAG
55302974 TTAAATAACAT-AAAAGAAAAAA
1 TTAAATAAC-TCAAAAGAAAAAA
* *
55302996 TTAAATTACTCAAAATAAAAAA
1 TTAAATAACTCAAAAGAAAAAA
55303018 T
1 T
55303019 ATAAGGATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (22 bp):
TTAAATAACTCAAAAGAAAAAA
Found at i:55312267 original size:16 final size:16
Alignment explanation
Indices: 55312231--55312267 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
55312221 TTAGTTCGCT
*
55312231 GTAATGGAATAGAGGT
1 GTAATGGAATAGAGGC
*
55312247 ATAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
55312263 GTAAT
1 GTAAT
55312268 AATAATTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.32, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:55312313 original size:45 final size:43
Alignment explanation
Indices: 55312249--55312341 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 43
55312239 ATAGAGGTAT
*
55312249 AATGGAATAGAGGCGTAATAATAATTCAATTG-TTTGGTTGAATGG
1 AATGGAATAGAAGCGTAATAAT-ATTC--TTGATTTGGTTGAATGG
** *
55312294 AATGGAATAGAATTGTAATAGTATTCTTGTATTTGGTTGAATGG
1 AATGGAATAGAAGCGTAATAATATTCTTG-ATTTGGTTGAATGG
55312338 AATG
1 AATG
55312342 AAGTTGTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
42 3 0.07
44 21 0.50
45 18 0.43
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (43 bp):
AATGGAATAGAAGCGTAATAATATTCTTGATTTGGTTGAATGG
Done.