Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 39 of 345
Found at i:11086538 original size:23 final size:21
Alignment explanation
Indices: 11086471--11086543 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 21
11086461 AGGCACTTTA
* *
11086471 TGTGTCCTATCAGACACCTCG
1 TGTGTCGTATCAGGCACCTCG
11086492 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * **
11086513 TGTGTCGTTTCAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
11086534 TGTGTCGTAT
1 TGTGTCGTAT
11086544 ACTGCTTCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:11091605 original size:53 final size:53
Alignment explanation
Indices: 11091542--11091649 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
11091532 AAGGACCTTA
11091542 ACTTTAAGGTTCTATAGCTATTTGACACCTTTAGCTATTAGAACTCAAGTTTT
1 ACTTTAAGGTTCTATAGCTATTTGACACCTTTAGCTATTAGAACTCAAGTTTT
11091595 ACTTTAAGGTTCTATAGCTATTTGACACCTTTAGCTATTAGAACTCAAGTTTT
1 ACTTTAAGGTTCTATAGCTATTTGACACCTTTAGCTATTAGAACTCAAGTTTT
11091648 AC
1 AC
11091650 ACTTTACGCT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.41
Consensus pattern (53 bp):
ACTTTAAGGTTCTATAGCTATTTGACACCTTTAGCTATTAGAACTCAAGTTTT
Found at i:11092269 original size:13 final size:13
Alignment explanation
Indices: 11092253--11092277 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11092243 AATAAAAATA
11092253 AAAATTAAATAAC
1 AAAATTAAATAAC
11092266 AAAATTAAATAA
1 AAAATTAAATAA
11092278 AACAAAATAA
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:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATTAAATAAC
Found at i:11101169 original size:6 final size:6
Alignment explanation
Indices: 11101158--11101189 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
11101148 CATGGCTAGG
11101158 TTTTCT TTTTCT TTTTCT TTTTCT TTTT-T TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT
11101190 GTGGAAGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTCT
Found at i:11102788 original size:44 final size:44
Alignment explanation
Indices: 11102739--11102827 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
11102729 CCGGTAAGTC
* *
11102739 ACCTTTTGTTGATTAAACTATTTTATATAAAATAATCTTATGAA
1 ACCTTTTCTTGATTAAACTATTTCATATAAAATAATCTTATGAA
*
11102783 ACCTTTTCTTGATTAAACTATTTCATATAAAATTATCTTATGAA
1 ACCTTTTCTTGATTAAACTATTTCATATAAAATAATCTTATGAA
11102827 A
1 A
11102828 ACGCTAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (44 bp):
ACCTTTTCTTGATTAAACTATTTCATATAAAATAATCTTATGAA
Found at i:11104246 original size:18 final size:18
Alignment explanation
Indices: 11104225--11104259 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11104215 TAATATTATA
11104225 AAATAAAATAATTATTTC
1 AAATAAAATAATTATTTC
* *
11104243 AAATATAATTATTATTT
1 AAATAAAATAATTATTT
11104260 TTATATGTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATAAAATAATTATTTC
Found at i:11104549 original size:13 final size:13
Alignment explanation
Indices: 11104531--11104558 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11104521 ACGATATATT
11104531 TATTAATTAAAAA
1 TATTAATTAAAAA
11104544 TATTAATTAAAAA
1 TATTAATTAAAAA
11104557 TA
1 TA
11104559 AAAAAAAAGC
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:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:11108912 original size:20 final size:19
Alignment explanation
Indices: 11108878--11108915 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
11108868 TTAATATATT
*
11108878 TATTTTATTTTACCACACG
1 TATTTCATTTTACCACACG
11108897 TATTTCATTATTACCACAC
1 TATTTCATT-TTACCACAC
11108916 ACTTGTCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.29, C:0.24, G:0.03, T:0.45
Consensus pattern (19 bp):
TATTTCATTTTACCACACG
Found at i:11109573 original size:11 final size:11
Alignment explanation
Indices: 11109557--11109581 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11109547 AAAACCATAA
11109557 ATAAATCAATC
1 ATAAATCAATC
11109568 ATAAATCAATC
1 ATAAATCAATC
11109579 ATA
1 ATA
11109582 GCATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAATCAATC
Found at i:11111810 original size:27 final size:23
Alignment explanation
Indices: 11111771--11111859 Score: 83
Period size: 25 Copynumber: 3.7 Consensus size: 23
11111761 ATCATCAAAC
*
11111771 TTTTTTATT-TTTTATTTTTTAACTT
1 TTTTTTCTTCTTTT-TTTTTT--CTT
11111796 TTTTTTCTCTCTTTTCTTTTTTCTT
1 TTTTTTCT-TCTTTT-TTTTTTCTT
*
11111821 TTTTTTCTTCTTCTTTTTTTTGTT
1 TTTTTTCTTCTT-TTTTTTTTCTT
*
11111845 TTTTTT-TGCTTTTTT
1 TTTTTTCTTCTTTTTT
11111860 GTCTTTTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
22 4 0.07
23 4 0.07
24 18 0.32
25 20 0.35
26 1 0.02
27 10 0.18
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.82
Consensus pattern (23 bp):
TTTTTTCTTCTTTTTTTTTTCTT
Found at i:11111815 original size:16 final size:16
Alignment explanation
Indices: 11111796--11111829 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11111786 TTTTTAACTT
11111796 TTTTTTCTCTCTTTTC
1 TTTTTTCTCTCTTTTC
* *
11111812 TTTTTTCTTTTTTTTC
1 TTTTTTCTCTCTTTTC
11111828 TT
1 TT
11111830 CTTCTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTCTCTCTTTTC
Found at i:11111819 original size:7 final size:7
Alignment explanation
Indices: 11111770--11111859 Score: 53
Period size: 7 Copynumber: 13.0 Consensus size: 7
11111760 AATCATCAAA
11111770 CTTTTTT
1 CTTTTTT
*
11111777 ATTTTTT
1 CTTTTTT
*
11111784 ATTTTTT
1 CTTTTTT
***
11111791 AACTTTT
1 CTTTTTT
*
11111798 -TTTTCT
1 CTTTTTT
*
11111804 CTCTTTT
1 CTTTTTT
11111811 CTTTTTT
1 CTTTTTT
11111818 CTTTTTT
1 CTTTTTT
11111825 -TTCTTCTT
1 CTT-TT-TT
11111833 CTTTTTT
1 CTTTTTT
11111840 -TTGTTTT
1 CTT-TTTT
*
11111847 -TTTTTG
1 CTTTTTT
11111853 CTTTTTT
1 CTTTTTT
11111860 GTCTTTTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
6 10 0.15
7 50 0.76
8 4 0.06
9 2 0.03
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.81
Consensus pattern (7 bp):
CTTTTTT
Found at i:11111849 original size:12 final size:12
Alignment explanation
Indices: 11111770--11111851 Score: 67
Period size: 12 Copynumber: 6.8 Consensus size: 12
11111760 AATCATCAAA
*
11111770 CTTTTTTATTTT
1 CTTTTTTTTTTT
* **
11111782 -TTATTTTTTAA
1 CTTTTTTTTTTT
*
11111793 CTTTTTTTTCTCT
1 CTTTTTTTT-TTT
*
11111806 CTTTTCTTTTTT
1 CTTTTTTTTTTT
*
11111818 CTTTTTTTTCTT
1 CTTTTTTTTTTT
*
11111830 CTTCTTTTTTTT
1 CTTTTTTTTTTT
*
11111842 GTTTTTTTTT
1 CTTTTTTTTT
11111852 GCTTTTTTGT
Statistics
Matches: 53, Mismatches: 15, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
11 7 0.13
12 37 0.70
13 9 0.17
ACGTcount: A:0.05, C:0.12, G:0.01, T:0.82
Consensus pattern (12 bp):
CTTTTTTTTTTT
Found at i:11111851 original size:25 final size:25
Alignment explanation
Indices: 11111793--11111850 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 25
11111783 TATTTTTTAA
11111793 CTTTTTTTTCTCTCTTTTCTTTTTT
1 CTTTTTTTTCTCTCTTTTCTTTTTT
11111818 CTTTTTTTTCT-TCTTCTT-TTTTTT
1 CTTTTTTTTCTCTCTT-TTCTTTTTT
*
11111842 GTTTTTTTT
1 CTTTTTTTT
11111851 TGCTTTTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
24 18 0.58
25 13 0.42
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.83
Consensus pattern (25 bp):
CTTTTTTTTCTCTCTTTTCTTTTTT
Found at i:11111866 original size:20 final size:20
Alignment explanation
Indices: 11111833--11111872 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11111823 TTTTCTTCTT
* *
11111833 CTTTTTTTTGTTTTTTTTTG
1 CTTTTTTGTCTTTTTTTTTG
11111853 CTTTTTTGTCTTTTTTTTTG
1 CTTTTTTGTCTTTTTTTTTG
11111873 TGGAACATGA
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:0.00, C:0.07, G:0.10, T:0.82
Consensus pattern (20 bp):
CTTTTTTGTCTTTTTTTTTG
Found at i:11111873 original size:12 final size:11
Alignment explanation
Indices: 11111770--11111871 Score: 75
Period size: 11 Copynumber: 8.9 Consensus size: 11
11111760 AATCATCAAA
11111770 CTTTTTTATTTT
1 CTTTTTT-TTTT
**
11111782 -TTATTTTTTAA
1 CTT-TTTTTTTT
11111793 CTTTTTTTTCTCT
1 CTTTTTTTT-T-T
11111806 CTTTTCTTTTTT
1 CTTTT-TTTTTT
11111818 CTTTTTTTTCTT
1 CTTTTTTTT-TT
11111830 CTTCTTTTTTTT
1 CTT-TTTTTTTT
* *
11111842 GTTTTTTTTTG
1 CTTTTTTTTTT
*
11111853 C--TTTTTTGT
1 CTTTTTTTTTT
11111862 CTTTTTTTTT
1 CTTTTTTTTT
11111872 GTGGAACATG
Statistics
Matches: 71, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
9 7 0.10
11 27 0.38
12 21 0.30
13 12 0.17
14 4 0.06
ACGTcount: A:0.04, C:0.12, G:0.03, T:0.81
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:11112540 original size:18 final size:18
Alignment explanation
Indices: 11112517--11112554 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
11112507 GGATACTCCC
11112517 CGTGATCAATGATGACAG
1 CGTGATCAATGATGACAG
11112535 CGTGATCAATGATGACAG
1 CGTGATCAATGATGACAG
11112553 CG
1 CG
11112555 GCCACGGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (18 bp):
CGTGATCAATGATGACAG
Found at i:11122488 original size:96 final size:96
Alignment explanation
Indices: 11122276--11122499 Score: 250
Period size: 96 Copynumber: 2.3 Consensus size: 96
11122266 ACATCACCTC
* * * * * * * *
11122276 GTGGATAAACCATTGGTCATTACAGATAAACTACCAATGATGAAATTATTGGTGGATGAACCATC
1 GTGGATGAACCACTGGTCGTTGCAGATAAACTACCAACGATAAAAATATTGGTGGATGAACCACC
*
11122341 CATCGATGTAGATAAAAGCTATTAGCAAATT
66 CATCGATGAAGATAAAAGCTATTAGCAAATT
** ** * * *
11122372 GTGGATGAATTACTAATCGTTGCAGATGAATTACTAACGATAAAAATATTGGTGGATGAACCACC
1 GTGGATGAACCACTGGTCGTTGCAGATAAACTACCAACGATAAAAATATTGGTGGATGAACCACC
* * * * *
11122437 CATTGGTGAAGATAAAAGCTGTTAGTACATT
66 CATCGATGAAGATAAAAGCTATTAGCAAATT
*
11122468 GTGGATGAACCACTGGTCGTTGTAGATAAACT
1 GTGGATGAACCACTGGTCGTTGCAGATAAACT
11122500 GTAGATTGAA
Statistics
Matches: 100, Mismatches: 28, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
96 100 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (96 bp):
GTGGATGAACCACTGGTCGTTGCAGATAAACTACCAACGATAAAAATATTGGTGGATGAACCACC
CATCGATGAAGATAAAAGCTATTAGCAAATT
Found at i:11122525 original size:49 final size:49
Alignment explanation
Indices: 11122470--11122598 Score: 132
Period size: 49 Copynumber: 2.6 Consensus size: 49
11122460 AGTACATTGT
* * * *
11122470 GGATGAACCACTGGTCGTTGTAGATAAACTGTAGATTGAAATACGTTGC
1 GGATGAACCACTGGTCATTGTAGATAAACTGCAGACTAAAATACGTTGC
** * * * ** *
11122519 GGATGAAATACTGGTCATTATAGATAAACTACCGACTAAAATGTGTTGT
1 GGATGAACCACTGGTCATTGTAGATAAACTGCAGACTAAAATACGTTGC
* *
11122568 GGATGAACCATTGGTCATTGCAGATAAACTG
1 GGATGAACCACTGGTCATTGTAGATAAACTG
11122599 ATGACTCTTC
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
49 62 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (49 bp):
GGATGAACCACTGGTCATTGTAGATAAACTGCAGACTAAAATACGTTGC
Found at i:11122689 original size:33 final size:34
Alignment explanation
Indices: 11122647--11122727 Score: 112
Period size: 33 Copynumber: 2.4 Consensus size: 34
11122637 ATGCAACATG
*
11122647 ACATGCTTATAAC-AGATCAATACGGTAGCAA-AA
1 ACATGCTTATAACAAG-TCAATACAGTAGCAATAA
*
11122680 ACATGCTTATAACAAGTCAATACAGTAGCAATTA
1 ACATGCTTATAACAAGTCAATACAGTAGCAATAA
*
11122714 TCATGCTTATAACA
1 ACATGCTTATAACA
11122728 TAACAACAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.63
34 16 0.37
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (34 bp):
ACATGCTTATAACAAGTCAATACAGTAGCAATAA
Found at i:11127557 original size:35 final size:34
Alignment explanation
Indices: 11127510--11127811 Score: 307
Period size: 35 Copynumber: 8.6 Consensus size: 34
11127500 TTTCCTCATT
* * * *
11127510 GAAATACAATACCTACATTTCACAAATCGGTATG
1 GAAATACCATACCTACGTTTCACAACTCAGTATG
* * **
11127544 AGAAATGCCATACCTATGTTTCTTAACTCAGTATG
1 -GAAATACCATACCTACGTTTCACAACTCAGTATG
11127579 GATAATACCATACCTACGTTTCACAACTCAGTATG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATG
* * *
11127614 GTTAATACCATACCTACATTTCACAACTCGGTATTG
1 G-AAATACCATACCTACGTTTCACAACTCAGTA-TG
** *
11127650 TTAATACCATACCTACGTTTCACAACTCAGTATA
1 GAAATACCATACCTACGTTTCACAACTCAGTATG
* *
11127684 GATGATACCATACCTACGTTTCACAACTTAGTATG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATG
* * * *
11127719 GTTAATACCATACCTATGTTTCACAACTTAGTATA
1 G-AAATACCATACCTACGTTTCACAACTCAGTATG
* * *
11127754 GATGATACCATACCTACGTTTCAAAACTCAATATG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATG
* *
11127789 GATGATACCATACCTATGTTTCA
1 GA-AATACCATACCTACGTTTCA
11127812 TACTTTGTCA
Statistics
Matches: 225, Mismatches: 36, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
34 3 0.01
35 220 0.98
36 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (34 bp):
GAAATACCATACCTACGTTTCACAACTCAGTATG
Found at i:11127625 original size:70 final size:70
Alignment explanation
Indices: 11127512--11127811 Score: 368
Period size: 70 Copynumber: 4.3 Consensus size: 70
11127502 TCCTCATTGA
* * * * * * **
11127512 AATACAATACCTACATTTCACAAATCGGTATGAGA-AATGCCATACCTATGTTTCTTAACTCAGT
1 AATACCATACCTACGTTTCACAACTCAGTAT-AGATAATACCATACCTACGTTTCACAACTCAGT
11127576 ATGGAT
65 ATGGAT
* * * *
11127582 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACATTTCACAACTCGGTA
1 AATACCATACCTACGTTTCACAACTCAGTATAGATAATACCATACCTACGTTTCACAACTCAGTA
* *
11127647 TTGTT
66 TGGAT
* *
11127652 AATACCATACCTACGTTTCACAACTCAGTATAGATGATACCATACCTACGTTTCACAACTTAGTA
1 AATACCATACCTACGTTTCACAACTCAGTATAGATAATACCATACCTACGTTTCACAACTCAGTA
*
11127717 TGGTT
66 TGGAT
* * * * *
11127722 AATACCATACCTATGTTTCACAACTTAGTATAGATGATACCATACCTACGTTTCAAAACTCAATA
1 AATACCATACCTACGTTTCACAACTCAGTATAGATAATACCATACCTACGTTTCACAACTCAGTA
11127787 TGGAT
66 TGGAT
* *
11127792 GATACCATACCTATGTTTCA
1 AATACCATACCTACGTTTCA
11127812 TACTTTGTCA
Statistics
Matches: 201, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
69 1 0.00
70 200 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (70 bp):
AATACCATACCTACGTTTCACAACTCAGTATAGATAATACCATACCTACGTTTCACAACTCAGTA
TGGAT
Found at i:11127694 original size:105 final size:105
Alignment explanation
Indices: 11127512--11127811 Score: 404
Period size: 105 Copynumber: 2.9 Consensus size: 105
11127502 TCCTCATTGA
* * * * * **
11127512 AATACAATACCTACATTTCACAAATCGGTA-TGAGAAATGCCATACCTATGTTTCTTAACTCAGT
1 AATACCATACCTACATTTCACAACTCGGTATTGA-TAATACCATACCTACGTTTCAAAACTCAGT
*
11127576 ATGGATAATACCATACCTACGTTTCACAACTCAGTATGGTT
65 ATGGATGATACCATACCTACGTTTCACAACTCAGTATGGTT
* *
11127617 AATACCATACCTACATTTCACAACTCGGTATTGTTAATACCATACCTACGTTTCACAACTCAGTA
1 AATACCATACCTACATTTCACAACTCGGTATTGATAATACCATACCTACGTTTCAAAACTCAGTA
* *
11127682 TAGATGATACCATACCTACGTTTCACAACTTAGTATGGTT
66 TGGATGATACCATACCTACGTTTCACAACTCAGTATGGTT
** ** * * *
11127722 AATACCATACCTATGTTTCACAACTTAGTATAGATGATACCATACCTACGTTTCAAAACTCAATA
1 AATACCATACCTACATTTCACAACTCGGTATTGATAATACCATACCTACGTTTCAAAACTCAGTA
*
11127787 TGGATGATACCATACCTATGTTTCA
66 TGGATGATACCATACCTACGTTTCA
11127812 TACTTTGTCA
Statistics
Matches: 172, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
105 170 0.99
106 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (105 bp):
AATACCATACCTACATTTCACAACTCGGTATTGATAATACCATACCTACGTTTCAAAACTCAGTA
TGGATGATACCATACCTACGTTTCACAACTCAGTATGGTT
Found at i:11133287 original size:16 final size:17
Alignment explanation
Indices: 11133266--11133298 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11133256 CACATTGAAG
11133266 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
11133282 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
11133299 CTTCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:11134062 original size:28 final size:27
Alignment explanation
Indices: 11133961--11134062 Score: 71
Period size: 28 Copynumber: 3.5 Consensus size: 27
11133951 TCAGTGTTAA
* *
11133961 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
* *
11133989 TTGGGCCATAGCCTCTTA-CAGTATCAGAGTAT
1 CTGGGCC-TAGCC-CATATCAGTATC--A--AT
*
11134021 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
11134049 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
11134063 TATTGCAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 6 0.10
28 24 0.41
29 3 0.05
30 2 0.03
31 3 0.05
32 14 0.24
33 7 0.12
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:11134082 original size:60 final size:59
Alignment explanation
Indices: 11133962--11134098 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
11133952 CAGTGTTAAC
* * *
11133962 TGGGCCTTAGCCCATATCAATATTAATTTGGGCCATAGCCTCTTACAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCTATTACAG-ATCAGAGTATAT
* * *
11134023 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTGCA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAG-CCTATTACAGA-TCAGAG-TATAT
*
11134083 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
11134099 TAACATAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 4 0.06
60 49 0.74
61 13 0.20
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCTATTACAGATCAGAGTATAT
Found at i:11136314 original size:17 final size:18
Alignment explanation
Indices: 11136287--11136320 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11136277 AATAAAATAT
11136287 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
11136305 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
11136321 TAAAAAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:11137771 original size:9 final size:8
Alignment explanation
Indices: 11137743--11137819 Score: 54
Period size: 7 Copynumber: 9.6 Consensus size: 8
11137733 AAATAGTGTA
11137743 TATATTAT
1 TATATTAT
11137751 T-TATATAT
1 TATAT-TAT
*
11137759 TAT-TCAT
1 TATATTAT
11137766 TATATTATT
1 TATATTA-T
11137775 TATATTAT
1 TATATTAT
11137783 TATA-TAT
1 TATATTAT
*
11137790 TTTATTTAT
1 TATA-TTAT
* *
11137799 AAATTTTAT
1 -TATATTAT
11137808 TATA-TAT
1 TATATTAT
11137815 TATAT
1 TATAT
11137820 ATTTTACTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
7 21 0.40
8 15 0.28
9 16 0.30
10 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:11137780 original size:21 final size:21
Alignment explanation
Indices: 11137741--11137835 Score: 86
Period size: 23 Copynumber: 4.3 Consensus size: 21
11137731 AAAAATAGTG
11137741 TATATATTATTTATA-TATTA
1 TATATATTATTTATATTATTA
11137761 TTCATTATATTATTTATATTATTA
1 -T-A-TATATTATTTATATTATTA
*
11137785 TATATTTTATTTATAAATT-TTA
1 TATATATTATTTAT--ATTATTA
* * *
11137807 TTATATATTATATATTTTACTA
1 -TATATATTATTTATATTATTA
11137829 TATATAT
1 TATATAT
11137836 CATTCCTTAC
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
21 21 0.34
22 7 0.11
23 29 0.47
24 5 0.08
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TATATATTATTTATATTATTA
Found at i:11137783 original size:12 final size:12
Alignment explanation
Indices: 11137741--11137879 Score: 66
Period size: 12 Copynumber: 12.2 Consensus size: 12
11137731 AAAAATAGTG
11137741 TATA-TATTATT
1 TATATTATTATT
11137752 TATA-TATTATT
1 TATATTATTATT
*
11137763 CAT-TATATTATT
1 TATAT-TATTATT
11137775 TATATTATTA--
1 TATATTATTATT
11137785 TATATT-TTATT
1 TATATTATTATT
11137796 TATAAATT-TTA-T
1 TAT--ATTATTATT
*
11137808 TATA-TATTATA
1 TATATTATTATT
* * *
11137819 TATTTTACTATA
1 TATATTATTATT
* **
11137831 TATATCATTCCT
1 TATATTATTATT
* *
11137843 TACATTTTTATT
1 TATATTATTATT
* *
11137855 T-TATTATAACT
1 TATATTATTATT
11137866 TATA-TATTATT
1 TATATTATTATT
11137877 TAT
1 TAT
11137880 TATTCATTAA
Statistics
Matches: 95, Mismatches: 22, Indels: 22
0.68 0.16 0.16
Matches are distributed among these distances:
9 4 0.04
10 10 0.11
11 34 0.36
12 40 0.42
13 7 0.07
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATTATTATT
Found at i:11137787 original size:42 final size:39
Alignment explanation
Indices: 11137741--11137831 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 39
11137731 AAAAATAGTG
*
11137741 TATATATTATTTATATATTATTCATTATATTATT-TATATTAT
1 TATATATTATTTATAAATT-TT-ATTATA-TATTATATATT-T
11137783 TATATATTTTATTTATAAATTTTATTATATATTATATATTT
1 TATATA--TTATTTATAAATTTTATTATATATTATATATTT
11137824 TACTATAT
1 TA-TATAT
11137832 ATATCATTCC
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
40 1 0.02
41 7 0.16
42 22 0.50
43 2 0.05
44 12 0.27
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (39 bp):
TATATATTATTTATAAATTTTATTATATATTATATATTT
Found at i:11137814 original size:44 final size:44
Alignment explanation
Indices: 11137741--11137835 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 44
11137731 AAAAATAGTG
* *
11137741 TATATATTATTTATATATTATTCATTATATTATTTATATTATTA
1 TATATATTATTTATATATTATTCATTATATTATATATATTACTA
* * *
11137785 TATATTTTATTTATAAATT-TT-ATTATATATTATATATTTTACTA
1 TATATATTATTTATATATTATTCA-T-TATATTATATATATTACTA
11137829 TATATAT
1 TATATAT
11137836 CATTCCTTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
42 1 0.02
43 3 0.07
44 39 0.91
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (44 bp):
TATATATTATTTATATATTATTCATTATATTATATATATTACTA
Found at i:11149851 original size:44 final size:44
Alignment explanation
Indices: 11149800--11150374 Score: 769
Period size: 44 Copynumber: 13.1 Consensus size: 44
11149790 TCACCGGTAG
* ** * *
11149800 CAGATTTGACGTCTCTGTATTCTCAGAAAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * *
11149844 TAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGATGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * *
11149888 CAGATTTGGCGTCTCTGTATTGTCAGAAAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * *
11149932 TAGATTTGGCGTCTCTGTATTGAAAGAGAACAGATCGAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
11149976 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
** *
11150020 CAGATTTGGCCCCTCTGTATTGAC--AGAGTAGATCGAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
*
11150062 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * * *
11150106 CAGATTTGGCATCTCTGTATTGTCAGAAAGCAAATCGAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * * *
11150150 CAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGATGATAA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * *
11150194 AAGATTTGGCGTCTCTGTATTGTCAGAGAGCAAATCGAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * * *
11150238 CAGATTTGGCGTCTCTTTATTGTCATAGAGTAGATCGAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* *
11150282 CAGATTTGACGTCTCTGTATTGACAGAGAGCAGATCAAAGAT-A
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
* * * *
11150325 GCAGATTTGGTGTCTCTGTATTAACAGAGAGCAGATCGGAGATAA
1 -CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
11150370 CAGAT
1 CAGAT
11150375 CTGACATTTG
Statistics
Matches: 467, Mismatches: 60, Indels: 8
0.87 0.11 0.01
Matches are distributed among these distances:
42 39 0.08
43 1 0.00
44 426 0.91
45 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (44 bp):
CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGA
Found at i:11150024 original size:132 final size:132
Alignment explanation
Indices: 11149800--11150457 Score: 797
Period size: 132 Copynumber: 5.0 Consensus size: 132
11149790 TCACCGGTAG
* ** * *
11149800 CAGATTTGACGTCTCTGTATTCTCAGAAAGCAGATCGAAGATAATAGATTTGGCATCTCTGTATT
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATT
* * *
11149865 GACAGAGAGCAGATCGATGATGACAGATTTGGCGTCTCTGTATTGTCAGAAAGCAGATCGAAGAT
66 GACAGAGAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAT
11149930 AA
131 AA
* * * * *
11149932 TAGATTTGGCGTCTCTGTATTGAAAGAGAACAGATCGAAGATGACAGATTTGGCGTCTCTGTATT
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATT
** *
11149997 GACAGAGAGCAGATCGAAGATGACAGATTTGGCCCCTCTGTATTGAC--AGAGTAGATCGAAGAT
66 GACAGAGAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAT
*
11150060 GA
131 AA
11150062 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATT
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATT
* * * * * *
11150127 GTCAGAAAGCAAATCGAAGATGACAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGATGAT
66 GACAGAGAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAT
11150192 AA
131 AA
* * * * * *
11150194 AAGATTTGGCGTCTCTGTATTGTCAGAGAGCAAATCGAAGATGACAGATTTGGCGTCTCTTTATT
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATT
* * * * *
11150259 GTCATAGAGTAGATCGAAGATGACAGATTTGACGTCTCTGTATTGACAGAGAGCAGATCAAAGAT
66 GACAGAGAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAT
*
11150324 AG
131 AA
* * * * *
11150326 CAGATTTGGTGTCTCTGTATTAACAGAGAGCAGATCGGAGATAACAGATCTGACAT-T-TGTATG
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAT-
* * * * * *
11150389 CTCACATTGAG-GCAGATTGAAGATGACAAATTTGGCCTCTCTATATTAGACA-AGGAGTAGATC
65 -TGACA--GAGAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATT-GACAGA-GAGCAGATC
*
11150452 AAAGAT
125 GAAGAT
11150458 TTCAGCTTGG
Statistics
Matches: 450, Mismatches: 68, Indels: 14
0.85 0.13 0.03
Matches are distributed among these distances:
130 120 0.27
131 1 0.00
132 278 0.62
133 31 0.07
134 20 0.04
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (132 bp):
CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATT
GACAGAGAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAT
AA
Found at i:11152109 original size:12 final size:12
Alignment explanation
Indices: 11152067--11152149 Score: 54
Period size: 12 Copynumber: 7.1 Consensus size: 12
11152057 AAAAATAGTG
11152067 TATA-TATTATT
1 TATATTATTATT
11152078 TATA-TATTATT
1 TATATTATTATT
*
11152089 CAT-TATATTATT
1 TATAT-TATTATT
11152101 TATATTATTA--
1 TATATTATTATT
*
11152111 TACATT-TTATT
1 TATATTATTATT
11152122 TATAAATT-TTATT
1 TAT--ATTATTATT
11152135 ATATATTATATATT
1 -TATATTAT-TATT
11152149 T
1 T
11152150 TACTATATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
9 3 0.05
10 5 0.09
11 15 0.26
12 17 0.29
13 11 0.19
14 7 0.12
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (12 bp):
TATATTATTATT
Found at i:11152125 original size:21 final size:23
Alignment explanation
Indices: 11152069--11152121 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 23
11152059 AAATAGTGTA
*
11152069 TATATTATTTATATATTATTCAT
1 TATATTATTTATATATTATACAT
11152092 TATATTATTTATATTATTATACAT
1 TATATTATTTATA-TATTATACAT
*
11152116 TTTATT
1 TATATT
11152122 TATAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
TATATTATTTATATATTATACAT
Found at i:11152456 original size:32 final size:32
Alignment explanation
Indices: 11152391--11152457 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
11152381 TCATCTAATA
* * *
11152391 TATATATTTTTTAAAATATTTTTTATATTATT
1 TATATATTGTTTAAAATATTTTTTACATCATT
*
11152423 TATATATTGGTTT-AAATATTTTTTACCTCATT
1 TATATATT-GTTTAAAATATTTTTTACATCATT
11152455 TAT
1 TAT
11152458 TTTTCCAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 27 0.90
33 3 0.10
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.61
Consensus pattern (32 bp):
TATATATTGTTTAAAATATTTTTTACATCATT
Found at i:11183897 original size:12 final size:14
Alignment explanation
Indices: 11183853--11183898 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
11183843 ATTAATAAAA
* *
11183853 TTCTCTTTAAGTTT
1 TTCTCTTGAAGATT
*
11183867 TTCTCTTGAAGAAT
1 TTCTCTTGAAGATT
11183881 TTCTCTTG-AG-TT
1 TTCTCTTGAAGATT
11183893 TTCTCT
1 TTCTCT
11183899 GAGAATAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 7 0.25
13 2 0.07
14 19 0.68
ACGTcount: A:0.15, C:0.17, G:0.11, T:0.57
Consensus pattern (14 bp):
TTCTCTTGAAGATT
Found at i:11188607 original size:62 final size:62
Alignment explanation
Indices: 11188526--11188876 Score: 242
Period size: 62 Copynumber: 5.7 Consensus size: 62
11188516 CAACCCATTG
* * * *
11188526 TCTCAAATTCGAAGTCAGTGAGTTCCACAGCCTGGACACATACCCTTGTGTTAGCCCATGTA
1 TCTCAAATCCGAAGTCAGTGAGTTACACAGCCTGGACACACACCCTTGTGTTAGCCCGTGTA
* ** * ** * * *
11188588 TCTCAGATCCGAAGTCAGTGAGTTACATGGCCTAGACACATGCCCGTGTATTAGCCCGTGCA
1 TCTCAAATCCGAAGTCAGTGAGTTACACAGCCTGGACACACACCCTTGTGTTAGCCCGTGTA
* * * * * ** *
11188650 TTTTAGATCC-AGAGTCTGTAAGTTACATGGCCTGGACACGCACCCTTGTGTTAGCCCGTGTAA
1 TCTCAAATCCGA-AGTCAGTGAGTTACACAGCCTGGACACACACCCTTGTGTTAGCCCGTGT-A
* * ** ** * * * *
11188713 TC-CAAATCCAAATTTTGTGAGTTACATGGTCT-GA-ACACACGCCTGTGTGTCAGCTCGTGTG
1 TCTCAAATCCGAAGTCAGTGAGTTACACAGCCTGGACACACAC-CCT-TGTGTTAGCCCGTGTA
* * * * * * * ** *
11188774 TTTTAAATCTGAATTCAGAGAGTTACACAGCCTGGACACACACTCGTGTGTTAGCCTATGTT
1 TCTCAAATCCGAAGTCAGTGAGTTACACAGCCTGGACACACACCCTTGTGTTAGCCCGTGTA
* * *
11188836 TCTTAAAACCGAAGTCAGTGAGTTACACAGCTTGGACACAC
1 TCTCAAATCCGAAGTCAGTGAGTTACACAGCCTGGACACAC
11188877 GATTGTGTGT
Statistics
Matches: 225, Mismatches: 56, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
60 5 0.02
61 7 0.03
62 201 0.89
63 6 0.03
64 6 0.03
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (62 bp):
TCTCAAATCCGAAGTCAGTGAGTTACACAGCCTGGACACACACCCTTGTGTTAGCCCGTGTA
Found at i:11192047 original size:17 final size:15
Alignment explanation
Indices: 11192019--11192064 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
11192009 GAAATTTAAG
11192019 AAAATAAA-ATGATT
1 AAAATAAAGATGATT
*
11192033 AAATTGGAAAGATGA-T
1 AAAAT--AAAGATGATT
11192049 AAAATAAAGATGATT
1 AAAATAAAGATGATT
11192064 A
1 A
11192065 TCATCATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
14 12 0.46
15 2 0.08
16 8 0.31
17 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (15 bp):
AAAATAAAGATGATT
Found at i:11193148 original size:25 final size:25
Alignment explanation
Indices: 11192923--11193148 Score: 94
Period size: 25 Copynumber: 9.2 Consensus size: 25
11192913 GAGCTCAAAA
* *
11192923 GAGCATCCCGTTATA-AGCTC-TCAT
1 GAGCTTCCCGTTATATGGCTCGT-AT
* * * **
11192947 GAGCTTCCCGGTATATGGTTCTTGC
1 GAGCTTCCCGTTATATGGCTCGTAT
* * * *
11192972 GAGCTTCCCATT-TGTAGCTCTTAT
1 GAGCTTCCCGTTATATGGCTCGTAT
*
11192996 GAGCTTCCCGATTA-ATTGGCTC-TCT
1 GAGCTTCCCG-TTATA-TGGCTCGTAT
* *
11193021 AGAGCTT-CC-TAATATTAGCTCGCT-T
1 -GAGCTTCCCGTTATA-TGGCTCG-TAT
* * * **
11193046 GAACTTCCTGTTA-ATGGCTCTTCG
1 GAGCTTCCCGTTATATGGCTCGTAT
* *
11193070 GAGCTTCCCGTTACATGGCTCATAT
1 GAGCTTCCCGTTATATGGCTCGTAT
* * *
11193095 GAGCTTCTCGTTATATGGCTCGAAA
1 GAGCTTCCCGTTATATGGCTCGTAT
*
11193120 GAGCTTCCCGTT-TATGTACTCGTAT
1 GAGCTTCCCGTTATATG-GCTCGTAT
11193145 GAGC
1 GAGC
11193149 ATTCTCGAAT
Statistics
Matches: 149, Mismatches: 39, Indels: 27
0.69 0.18 0.13
Matches are distributed among these distances:
23 3 0.02
24 61 0.41
25 70 0.47
26 15 0.10
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCGTAT
Found at i:11205092 original size:47 final size:47
Alignment explanation
Indices: 11205038--11205130 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
11205028 ATTTATATGC
11205038 TTAAATTCTTAATGAGTCTATTTTCAAGAGAAACAAATGGGAACATT
1 TTAAATTCTTAATGAGTCTATTTTCAAGAGAAACAAATGGGAACATT
*
11205085 TTAAATTCTTAATGAGTCTATTTTCAGGAGAAACAAATGGGAACAT
1 TTAAATTCTTAATGAGTCTATTTTCAAGAGAAACAAATGGGAACAT
11205131 CATCCAAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (47 bp):
TTAAATTCTTAATGAGTCTATTTTCAAGAGAAACAAATGGGAACATT
Found at i:11205700 original size:20 final size:20
Alignment explanation
Indices: 11205675--11205724 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
11205665 GCGTGTGTGA
11205675 CCACACGGGCGTGTCCCAAG
1 CCACACGGGCGTGTCCCAAG
*
11205695 CCACACGGGCGTTTCCCAAG
1 CCACACGGGCGTGTCCCAAG
*
11205715 CCACAAGGGC
1 CCACACGGGC
11205725 ATGTGACCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.40, G:0.28, T:0.10
Consensus pattern (20 bp):
CCACACGGGCGTGTCCCAAG
Found at i:11208952 original size:19 final size:19
Alignment explanation
Indices: 11208910--11208959 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
11208900 AACTCAAAAT
**
11208910 AAATTCAAAATAATTTTTA
1 AAATTCAAAATAATTTAAA
11208929 AAATTCAAAAT-ATTTAAA
1 AAATTCAAAATAATTTAAA
11208947 AGAATTCCAAAAT
1 A-AATT-CAAAAT
11208960 TTATATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 6 0.22
19 15 0.56
20 6 0.22
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (19 bp):
AAATTCAAAATAATTTAAA
Found at i:11209918 original size:19 final size:19
Alignment explanation
Indices: 11209894--11209930 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11209884 TTGAATTAAA
*
11209894 TTAATCACTCTATTATTAT
1 TTAATCACTATATTATTAT
*
11209913 TTAATCTCTATATTATTA
1 TTAATCACTATATTATTA
11209931 AAAAAGAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.54
Consensus pattern (19 bp):
TTAATCACTATATTATTAT
Found at i:11210632 original size:16 final size:16
Alignment explanation
Indices: 11210584--11210634 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
11210574 CGTAAAATAG
11210584 AAAATTTTAAA-TAA-
1 AAAATTTTAAATTAAT
** *
11210598 AGTATTTTAAAATTTAT
1 AAAATTTT-AAATTAAT
11210615 AAAATTTTAAATTAAT
1 AAAATTTTAAATTAAT
11210631 AAAA
1 AAAA
11210635 GTAAAATTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 6 0.21
15 3 0.11
16 13 0.46
17 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (16 bp):
AAAATTTTAAATTAAT
Found at i:11217729 original size:21 final size:23
Alignment explanation
Indices: 11217688--11217731 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
11217678 AAAAAATACA
*
11217688 TATGCGTAGTATATATAAAAATG
1 TATGCGTAATATATATAAAAATG
11217711 TATGCGTAATATA-ATAAAAAT
1 TATGCGTAATATATATAAAAAT
11217732 TACATAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.34
Consensus pattern (23 bp):
TATGCGTAATATATATAAAAATG
Found at i:11219252 original size:27 final size:27
Alignment explanation
Indices: 11219204--11219362 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
11219194 GCGAGGCTGC
* *
11219204 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
11219231 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
11219257 CAGATATATGTGGCAAAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
11219284 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
11219311 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
11219338 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
11219363 GACACTTCAT
Statistics
Matches: 116, Mismatches: 8, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 101 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:11219363 original size:54 final size:54
Alignment explanation
Indices: 11219204--11219366 Score: 249
Period size: 54 Copynumber: 3.0 Consensus size: 54
11219194 GCGAGGCTGC
* * * * *
11219204 CAGATAT-TGTGACGAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
11219257 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
*
11219311 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
11219365 CA
1 CA
11219367 CTTCATCCAT
Statistics
Matches: 102, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
53 12 0.12
54 90 0.88
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (54 bp):
CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:11223193 original size:44 final size:43
Alignment explanation
Indices: 11223145--11223564 Score: 316
Period size: 44 Copynumber: 9.7 Consensus size: 43
11223135 ATGCCTTCGA
* *
11223145 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTGTAAATTCGG
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGATC-TGTAAATTCAG
* * *
11223189 TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-T-CATCCTC-G
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGA-TCTGTAAAT--TCAG
** *
11223232 ATCTGTTTTCCTACTGCTTAGGGGGTTAAGATCTTGTAAATTCGG
1 -TCTGTTACCCTACTGCTTAGGGGGTTAAGATC-TGTAAATTCAG
* * * * **
11223277 TCTGTTACCTTACTTCTTAGGGGTTTAAGACCCTTCGT--CCTC-G
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGA-TC-T-GTAAATTCAG
* * * *
11223320 ATCTGTTTCCCTACTACTTACGGGATTAAGATCTGTAAATTCAG
1 -TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAG
* * ** * ** * *
11223364 TTTGTTACCCTACTGCTTAAGGGGTTAAAGCCCAT-CATCTTTAA
1 TCTGTTACCCTACTGCTTAGGGGGTT-AAGATC-TGTAAATTCAG
* * *
11223408 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATCAATTCAG
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAG
* * * * *
11223451 CCTGTTGCCCTACTGCTTAGAGGGTTAAGGTCTATAAATTCAG
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAG
* * *
11223494 CCTGTTACCCTACAGCTTAGGGGGTTAAGATCTGTCAATTCAG
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAG
*
11223537 -CTTGTTAGCCTACTGCTTAGGGGGTTAA
1 TC-TGTTACCCTACTGCTTAGGGGGTTAA
11223565 AGCTTGTGAA
Statistics
Matches: 297, Mismatches: 61, Indels: 37
0.75 0.15 0.09
Matches are distributed among these distances:
41 2 0.01
42 5 0.02
43 134 0.45
44 145 0.49
45 7 0.02
46 4 0.01
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (43 bp):
TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAG
Found at i:11223214 original size:88 final size:84
Alignment explanation
Indices: 11223019--11223564 Score: 465
Period size: 88 Copynumber: 6.3 Consensus size: 84
11223009 TTTTAGCCTT
* * * * * * *
11223019 TTACCCTACTGCTTAGGGGTCAAGGCTCATCGTCTTTGATCTG-CTCCACTACTGTTTAGGGAGA
1 TTACCCTACTGCTTAGGGGTTAAGGTTCATC--CTTCGATCTGTTTCC-CTACTGCTTAGGGGGT
* * *
11223083 TAAGATCTGAAAATTTAGCCTG
63 TAAGATCTGTAAATTCAGTCTG
* *
11223105 TTACCCTACTACTTAGCGGTTTAAGGTTCAATGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAG-GGGTTAAGGTTC-AT-CCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
*
11223170 TAAGATCTTGTAAATTCGGTCTG
63 TAAGATC-TGTAAATTCAGTCTG
* *
11223193 TTACCCTACTGCTTAGGGGTTTAAGACCCTTCATCC-TCGATCTGTTTTCCTACTGCTTAGGGGG
1 TTACCCTACTGCTTAGGGG-TTAAG---GTTCATCCTTCGATCTGTTTCCCTACTGCTTAGGGGG
*
11223257 TTAAGATCTTGTAAATTCGGTCTG
62 TTAAGATC-TGTAAATTCAGTCTG
* * * * * * *
11223281 TTACCTTACTTCTTAGGGGTTTAAGACCCTTCGTCC-TCGATCTGTTTCCCTACTACTTACGGGA
1 TTACCCTACTGCTTAGGGG-TTAAG---GTTCATCCTTCGATCTGTTTCCCTACTGCTTAGGGGG
*
11223345 TTAAGATCTGTAAATTCAGTTTG
62 TTAAGATCTGTAAATTCAGTCTG
* ** **
11223368 TTACCCTACTGCTTAAGGGGTTAAAGCCCATCATCTTTAATCTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTT-AGGGGTTAAGGTTCATC--CTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* * *
11223433 TAAGATCTATCAATTCAGCCTG
63 TAAGATCTGTAAATTCAGTCTG
* ** * * *
11223455 TTGCCCTACTGCTTAGAGGGTTAAGG-TCTATAAATTC-AGCCTGTTACCCTACAGCTTAGGGGG
1 TTACCCTACTGCTTAG-GGGTTAAGGTTC-AT-CCTTCGA-TCTGTTTCCCTACTGCTTAGGGGG
*
11223518 TTAAGATCTGTCAATTCAG-CTTG
62 TTAAGATCTGTAAATTCAGTC-TG
*
11223541 TTAGCCTACTGCTTAGGGGGTTAA
1 TTACCCTACTGCTTA-GGGGTTAA
11223565 AGCTTGTGAA
Statistics
Matches: 387, Mismatches: 54, Indels: 38
0.81 0.11 0.08
Matches are distributed among these distances:
84 3 0.01
85 2 0.01
86 82 0.21
87 135 0.35
88 157 0.41
89 3 0.01
90 2 0.01
91 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (84 bp):
TTACCCTACTGCTTAGGGGTTAAGGTTCATCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAA
GATCTGTAAATTCAGTCTG
Found at i:11223376 original size:43 final size:43
Alignment explanation
Indices: 11223322--11223564 Score: 236
Period size: 43 Copynumber: 5.6 Consensus size: 43
11223312 CGTCCTCGAT
* * * * * *
11223322 CTGTTTCCCTACTACTTACGGGATTAAGATCTGTAAATTCAGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTATAAATTCAGC
* * * * ** * **
11223365 TTGTTACCCTACTGCTTAAGGGGTTAA-AGCCCATCATCTTTAAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGA-TCTAT-AAATTCAGC
* *
11223409 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATCAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTATAAATTCAGC
* * *
11223452 CTGTTGCCCTACTGCTTAGAGGGTTAAGGTCTATAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTATAAATTCAGC
* * *
11223495 CTGTTACCCTACAGCTTAGGGGGTTAAGATCTGTCAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTATAAATTCAGC
* *
11223538 TTGTTAGCCTACTGCTTAGGGGGTTAA
1 CTGTTACCCTACTGCTTAGGGGGTTAA
11223565 AGCTTGTGAA
Statistics
Matches: 161, Mismatches: 36, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
42 1 0.01
43 127 0.79
44 32 0.20
45 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGATCTATAAATTCAGC
Found at i:11223422 original size:175 final size:175
Alignment explanation
Indices: 11223019--11223567 Score: 512
Period size: 175 Copynumber: 3.1 Consensus size: 175
11223009 TTTTAGCCTT
* * * * * * * *
11223019 TTACCCTACTGCTTAGGGGTCAAGGCTCATCGTCTTTGATCTG-CTCCACTACTGTTTAGGGAGA
1 TTACCCTACTGCTTAGGGGTTAAAGCCCATCATCTTTGATCTGTTTCC-CTACTGCTTAGGGGGT
* *
11223083 TAAGATC-TGAAAATTTAGCCTGTTACCCTACTACTTAGCGGTTTAAGGTTCAATGCCTTCGATC
65 TAAGATCTTGAAAATTCAGCCTGTTACCCTACTACTTAGCGGTTTAAGCTTCAATGCCTTCGATC
* * * *
11223147 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTTGTAAATTCGGTCTG
130 TGTTTCCCTACTACTTACGGGATTAAGATCTTGTAAATTCAGTCTG
* * * * *
11223193 TTACCCTACTGCTTAGGGGTTTAAGACCCTTCATCCTCGATCTGTTTTCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTAAAG-CCCATCATCTTTGATCTGTTTCCCTACTGCTTAGGGGGT
* * * * * * *
11223258 TAAGATCTTGTAAATTCGGTCTGTTACCTTACTTCTTAGGGGTTTAAGACCCTTC-GT-CC-TCG
65 TAAGATCTTGAAAATTCAGCCTGTTACCCTACTACTTAGCGGTTTAAG---CTTCAATGCCTTCG
*
11223320 ATCTGTTTCCCTACTACTTACGGGATTAAGATC-TGTAAATTCAGTTTG
127 ATCTGTTTCCCTACTACTTACGGGATTAAGATCTTGTAAATTCAGTCTG
*
11223368 TTACCCTACTGCTTAAGGGGTTAAAGCCCATCATCTTTAATCTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTT-AGGGGTTAAAGCCCATCATCTTTGATCTGTTTCCCTACTGCTTAGGGGGT
* * * * * * * ***
11223433 TAAGATC-T-ATCAATTCAGCCTGTTGCCCTACTGCTTAGAGGGTTAAG-GTCTATAAATTC-AG
65 TAAGATCTTGA-AAATTCAGCCTGTTACCCTACTACTTAGCGGTTTAAGCTTCAATGCCTTCGA-
* * * * *
11223494 CCTGTTACCCTAC-AGCTTAGGGGGTTAAGATC-TGTCAATTCAG-CTTG
128 TCTGTTTCCCTACTA-CTTACGGGATTAAGATCTTGTAAATTCAGTC-TG
*
11223541 TTAGCCTACTGCTTAGGGGGTTAAAGC
1 TTACCCTACTGCTTA-GGGGTTAAAGC
11223568 TTGTGAATTC
Statistics
Matches: 307, Mismatches: 53, Indels: 31
0.79 0.14 0.08
Matches are distributed among these distances:
170 2 0.01
171 1 0.00
172 3 0.01
173 64 0.21
174 52 0.17
175 101 0.33
176 78 0.25
177 2 0.01
178 1 0.00
179 3 0.01
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.35
Consensus pattern (175 bp):
TTACCCTACTGCTTAGGGGTTAAAGCCCATCATCTTTGATCTGTTTCCCTACTGCTTAGGGGGTT
AAGATCTTGAAAATTCAGCCTGTTACCCTACTACTTAGCGGTTTAAGCTTCAATGCCTTCGATCT
GTTTCCCTACTACTTACGGGATTAAGATCTTGTAAATTCAGTCTG
Found at i:11223735 original size:66 final size:66
Alignment explanation
Indices: 11223629--11223760 Score: 228
Period size: 66 Copynumber: 2.0 Consensus size: 66
11223619 TCTATGCTTA
**
11223629 TGTCAAATGGTTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATGAAT
11223694 G
66 G
**
11223695 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAATTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATGAAT
11223760 G
66 G
11223761 GTATATGAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATGAAT
G
Found at i:11230359 original size:21 final size:23
Alignment explanation
Indices: 11230318--11230361 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
11230308 GAAAAATACA
*
11230318 TATGCGTAGTATATATAAAAATG
1 TATGCGTAATATATATAAAAATG
11230341 TATGCGTAATATA-ATAAAAAT
1 TATGCGTAATATATATAAAAAT
11230362 TACATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.34
Consensus pattern (23 bp):
TATGCGTAATATATATAAAAATG
Found at i:11230562 original size:22 final size:21
Alignment explanation
Indices: 11230536--11230593 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 21
11230526 TTAAATTAGT
11230536 TAGTA-TAAAAGTAATAGTGTA
1 TAGTACTAAAAGTAATAGT-TA
*
11230557 TAAGTAATTAAAA--AAT-GTTA
1 T-AGT-ACTAAAAGTAATAGTTA
11230577 TAGTACTAAAAGTAATA
1 TAGTACTAAAAGTAATA
11230594 ATACAATAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 12
0.70 0.02 0.28
Matches are distributed among these distances:
18 6 0.20
19 3 0.10
20 6 0.20
21 3 0.10
22 6 0.20
23 1 0.03
24 5 0.17
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.33
Consensus pattern (21 bp):
TAGTACTAAAAGTAATAGTTA
Found at i:11232585 original size:16 final size:17
Alignment explanation
Indices: 11232564--11232597 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
11232554 ATATCTTTTC
11232564 ATATATTTTATA-AAAA
1 ATATATTTTATATAAAA
11232580 ATATATTTTATATAAAA
1 ATATATTTTATATAAAA
11232597 A
1 A
11232598 ATTATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATATTTTATATAAAA
Found at i:11232602 original size:28 final size:28
Alignment explanation
Indices: 11232571--11232627 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
11232561 TTCATATATT
* *
11232571 TTATAAAAAAT-ATATTTTATATAAAAAA
1 TTAT-AAAAATCAAATTTTAAATAAAAAA
11232599 TTATAAAAATCAAATTTTAAATAAAAAA
1 TTATAAAAATCAAATTTTAAATAAAAAA
11232627 T
1 T
11232628 CAAATTCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (28 bp):
TTATAAAAATCAAATTTTAAATAAAAAA
Found at i:11238682 original size:12 final size:12
Alignment explanation
Indices: 11238667--11238691 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11238657 TTATATCATT
11238667 TCATTATTATCA
1 TCATTATTATCA
11238679 TCATTATTATCA
1 TCATTATTATCA
11238691 T
1 T
11238692 ATAGTACTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TCATTATTATCA
Found at i:11244832 original size:5 final size:5
Alignment explanation
Indices: 11244822--11244857 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
11244812 AAGAAATTGT
11244822 TATTA TATTA TATTTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TA-TTA TATTA TATTA TATTA TATTA
11244858 CATAAATAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:11246599 original size:47 final size:47
Alignment explanation
Indices: 11246543--11246649 Score: 178
Period size: 47 Copynumber: 2.3 Consensus size: 47
11246533 CGGATATTGT
* *
11246543 TACTGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCG
1 TACTGTTACTGTTCCGGATTTGTTCCGATAAGGTACTCTGTGTACCG
11246590 TACTGTTACTGTTCCGGATTTGTTCCGATAAGGTACTCTGTGTACCG
1 TACTGTTACTGTTCCGGATTTGTTCCGATAAGGTACTCTGTGTACCG
* *
11246637 TATTGCTACTGTT
1 TACTGTTACTGTT
11246650 ACTGTTACTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (47 bp):
TACTGTTACTGTTCCGGATTTGTTCCGATAAGGTACTCTGTGTACCG
Found at i:11246825 original size:18 final size:18
Alignment explanation
Indices: 11246777--11246896 Score: 116
Period size: 18 Copynumber: 6.7 Consensus size: 18
11246767 AAAGATCAAC
* *
11246777 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-CTGAT
11246796 TGTTACTGAATAACTGAT
1 TGTTACTGAATAACTGAT
* * *
11246814 TATTATTGAATAATTGAT
1 TGTTACTGAATAACTGAT
*
11246832 TGTTACCGAATAACTGAT
1 TGTTACTGAATAACTGAT
* *
11246850 TGTTACTGAATAAATAAT
1 TGTTACTGAATAACTGAT
* * *
11246868 CGTT-CTGATTAACTGGT
1 TGTTACTGAATAACTGAT
*
11246885 TGTTAATGAATA
1 TGTTACTGAATA
11246897 TTACTAATTG
Statistics
Matches: 80, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
17 12 0.15
18 55 0.69
19 13 0.16
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (18 bp):
TGTTACTGAATAACTGAT
Found at i:11255493 original size:27 final size:27
Alignment explanation
Indices: 11255445--11255585 Score: 180
Period size: 27 Copynumber: 5.2 Consensus size: 27
11255435 GTGACGAAGT
11255445 CACCAGATACAGATAT-TGTGGCAGAGC
1 CACCAGA-ACAGATATATGTGGCAGAGC
* *
11255472 CACTAGAACAGAGATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
11255499 CACCAGATCAGATA-ATCGTGGCATAGC
1 CACCAGAACAGATATAT-GTGGCAGAGC
11255526 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
11255553 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
11255580 CACCAG
1 CACCAG
11255586 GACGCTTCCT
Statistics
Matches: 100, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
26 10 0.10
27 88 0.88
28 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:11255520 original size:54 final size:54
Alignment explanation
Indices: 11255445--11255585 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
11255435 GTGACGAAGT
* *
11255445 CACCAGATACAGAT-ATTGTGGCAGAGCCACTAGAACAGAGATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGAGATATGTGGCAGAGC
* *
11255499 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGAGATATGTGGCAGAGC
11255553 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
11255586 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGAGATATGTGGCAGAGC
Found at i:11255718 original size:26 final size:27
Alignment explanation
Indices: 11255689--11255764 Score: 91
Period size: 26 Copynumber: 2.8 Consensus size: 27
11255679 CAAAATTAAC
* *
11255689 CCTAGGGGTATAATGGTAATTTTGC-A
1 CCTAGGGGTATAATAGTAATTTTCCAA
*
11255715 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAATAGTAATTTTCCA-A
* *
11255743 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
11255765 AAATACTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 22 0.52
28 20 0.48
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCCAA
Found at i:11257235 original size:26 final size:26
Alignment explanation
Indices: 11257205--11257312 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
11257195 TGAAATTCCC
*
11257205 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
11257231 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
11257257 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
11257283 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
11257309 ATCA
1 ATCA
11257313 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:11259494 original size:20 final size:21
Alignment explanation
Indices: 11259471--11259519 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
11259461 AATTATATTG
11259471 AATTGAAAAAAAATAT-AATT
1 AATTGAAAAAAAATATGAATT
**
11259491 AATT-AATTAAAATATGAATT
1 AATTGAAAAAAAATATGAATT
11259511 AATTGAAAA
1 AATTGAAAA
11259520 CAGAAAAGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 9 0.39
20 12 0.52
21 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (21 bp):
AATTGAAAAAAAATATGAATT
Found at i:11259662 original size:12 final size:12
Alignment explanation
Indices: 11259645--11259669 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11259635 GCCGACTACT
11259645 GTTACTGTTACC
1 GTTACTGTTACC
11259657 GTTACTGTTACC
1 GTTACTGTTACC
11259669 G
1 G
11259670 ATTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:11259767 original size:47 final size:47
Alignment explanation
Indices: 11259698--11259804 Score: 178
Period size: 47 Copynumber: 2.3 Consensus size: 47
11259688 CGGATATTGT
* *
11259698 TACTGTTACTATTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCG
1 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCG
11259745 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCG
1 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCG
* *
11259792 TATTGCTACTGTT
1 TACTGTTACTGTT
11259805 ACTGTTACTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (47 bp):
TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCG
Found at i:11259997 original size:18 final size:18
Alignment explanation
Indices: 11259932--11260017 Score: 109
Period size: 18 Copynumber: 4.7 Consensus size: 18
11259922 AAAGATCGAC
*
11259932 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-TTGAT
*
11259951 TGTTACTGAATAACTGAT
1 TGTTACTGAATAATTGAT
* *
11259969 TATTATTGAATAATTGAT
1 TGTTACTGAATAATTGAT
* *
11259987 TGTTACCGAATAATTGAC
1 TGTTACTGAATAATTGAT
11260005 TGTTACTGAATAA
1 TGTTACTGAATAA
11260018 ATAATCGTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
18 44 0.77
19 13 0.23
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:11264497 original size:21 final size:22
Alignment explanation
Indices: 11264467--11264507 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
11264457 TTATTTTATT
*
11264467 ATATTGTAAT-TTATATTAATG
1 ATATTATAATATTATATTAATG
*
11264488 ATATTATAATATTATTTTAA
1 ATATTATAATATTATATTAA
11264508 CGATTGTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (22 bp):
ATATTATAATATTATATTAATG
Found at i:11266319 original size:47 final size:47
Alignment explanation
Indices: 11266263--11266369 Score: 169
Period size: 47 Copynumber: 2.3 Consensus size: 47
11266253 CGGATATTGT
* *
11266263 TACTGTTACTGTTTCGGATTTGTTCCGATAAGGTACTCTGTGTACCG
1 TACTGTTACTGTTCCGAATTTGTTCCGATAAGGTACTCTGTGTACCG
*
11266310 TACTGTTACTGTTCCGAATTTGTTCCGATGAGGTACTCTGTGTACCG
1 TACTGTTACTGTTCCGAATTTGTTCCGATAAGGTACTCTGTGTACCG
* *
11266357 TATTGCTACTGTT
1 TACTGTTACTGTT
11266370 ACTGTTACTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.41
Consensus pattern (47 bp):
TACTGTTACTGTTCCGAATTTGTTCCGATAAGGTACTCTGTGTACCG
Found at i:11266580 original size:36 final size:37
Alignment explanation
Indices: 11266494--11266582 Score: 99
Period size: 36 Copynumber: 2.4 Consensus size: 37
11266484 TGGAAAGATC
*
11266494 GACTGTTACTGAATAATTTAATTGTTACTAAATAACT
1 GACTGTTACTGAATAATTTAATTGTTACCAAATAACT
** * * * * *
11266531 GGTTATTATTGAATAA-TTGATTTTTACCGAATAACT
1 GACTGTTACTGAATAATTTAATTGTTACCAAATAACT
11266567 GACTGTTACTGAATAA
1 GACTGTTACTGAATAA
11266583 ATAATCGTTC
Statistics
Matches: 40, Mismatches: 12, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
36 28 0.70
37 12 0.30
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.40
Consensus pattern (37 bp):
GACTGTTACTGAATAATTTAATTGTTACCAAATAACT
Found at i:11268016 original size:94 final size:94
Alignment explanation
Indices: 11267847--11268383 Score: 533
Period size: 94 Copynumber: 5.7 Consensus size: 94
11267837 GGGGTGTAAC
* * * *
11267847 GCTACAAATCCTATACCCCTGAAGTCGTAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATT
1 GCTACAAATCCTATACCCCTAAAGTCGCAGTGGGTCGGATTGAAGCTACCATAGCGAATCTTATC
* * *
11267912 TCCTTGAAGTTACAGTGAAGTAAGATAAA
66 TCCCTGAAGTTACAGTGGAGCAAGATAAA
* * * *
11267941 GCTACAAATTCTATACCCCTAAAATTGCAGTGGGTCGGATTGAAGCTACCATAG-TAAGTCTTAT
1 GCTACAAATCCTATACCCCTAAAGTCGCAGTGGGTCGGATTGAAGCTACCATAGCGAA-TCTTAT
* **
11268005 CTCCCTAAAGTTGTAGTGGAGCAAGATAAA
65 CTCCCTGAAGTTACAGTGGAGCAAGATAAA
* * * * * *
11268035 GCTACAAATTCTATACCCCTGAAGTCGTAGTGGGTCAGG-TTAAAGCTATCATAACGAATCTTAT
1 GCTACAAATCCTATACCCCTAAAGTCGCAGTGGGTC-GGATTGAAGCTACCATAGCGAATCTTAT
* * * * *
11268099 CTCCCTAAAGTTGCAGTGGGGCAAGATGAT
65 CTCCCTGAAGTTACAGTGGAGCAAGATAAA
* * * * *
11268129 GTTACAAATCCTATACCCCTAAAGTTGCAATGGGTC-GAATGAAACTACCATAGCGAATCTTATC
1 GCTACAAATCCTATACCCCTAAAGTCGCAGTGGGTCGGATTGAAGCTACCATAGCGAATCTTATC
* * *
11268193 TCTCTGAAGTTACAGTGAAGCAAGATTAA
66 TCCCTGAAGTTACAGTGGAGCAAGATAAA
* * * * * * *
11268222 GCTACAGATCCTGTACCCTTAAAGTCACAGTGGGTCAGAATGGAA-CTACAATAGCGAATCTTAT
1 GCTACAAATCCTATACCCCTAAAGTCGCAGTGGGTC-GGATTGAAGCTACCATAGCGAATCTTAT
* * *
11268286 CTCCTTGAAGTTACAATGGAGCAAGATGAA
65 CTCCCTGAAGTTACAGTGGAGCAAGATAAA
* * * * * * * * * * *
11268316 GCTACAAATCATATATCGCTAAAGTTGTAGTAGATCGGATTGAAACTACAATAGCAAATCTCATC
1 GCTACAAATCCTATACCCCTAAAGTCGCAGTGGGTCGGATTGAAGCTACCATAGCGAATCTTATC
11268381 TCC
66 TCC
11268384 ACGAAGATGC
Statistics
Matches: 361, Mismatches: 75, Indels: 14
0.80 0.17 0.03
Matches are distributed among these distances:
92 1 0.00
93 80 0.22
94 272 0.75
95 8 0.02
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (94 bp):
GCTACAAATCCTATACCCCTAAAGTCGCAGTGGGTCGGATTGAAGCTACCATAGCGAATCTTATC
TCCCTGAAGTTACAGTGGAGCAAGATAAA
Found at i:11268282 original size:187 final size:187
Alignment explanation
Indices: 11267847--11268383 Score: 594
Period size: 187 Copynumber: 2.9 Consensus size: 187
11267837 GGGGTGTAAC
*
11267847 GCTACAAATCCTATACCCCTGAAGTCGTAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATT
1 GCTACAAATCCTATACCCCTGAAGTCGTAGTGGGTCAGATTGAAGCTA-CATAGCGAATCTTATC
* * * * * *
11267912 TCCTTGAAGTTACAGTGAAGTAAGATAAAGCTACAAATTCTATACCCCTAAAATTGCAGTGGGTC
65 TCCTTGAAGTTACAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGCAATGGGTC
* * * ** *
11267977 GGATTGAAGCTACCATAGTAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAAGATAAA
130 GGAATGAAACTACCATAGGAAGTCTTATCTCCCTAAAGTTACAGTGAAGCAAGATAAA
* * * *
11268035 GCTACAAATTCTATACCCCTGAAGTCGTAGTGGGTCAGGTTAAAGCTATCATAACGAATCTTATC
1 GCTACAAATCCTATACCCCTGAAGTCGTAGTGGGTCAGATTGAAGCTA-CATAGCGAATCTTATC
* * * * * *
11268100 TCCCTAAAGTTGCAGTGGGGCAAGATGATGTTACAAATCCTATACCCCTAAAGTTGCAATGGGTC
65 TCCTTGAAGTTACAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGCAATGGGTC
* * *
11268165 -GAATGAAACTACCATAGCGAA-TCTTATCTCTCTGAAGTTACAGTGAAGCAAGATTAA
130 GGAATGAAACTACCATAG-GAAGTCTTATCTCCCTAAAGTTACAGTGAAGCAAGATAAA
* * * * ** *
11268222 GCTACAGATCCTGTACCCTTAAAGTCACAGTGGGTCAGAATGGAA-CTACAATAGCGAATCTTAT
1 GCTACAAATCCTATACCCCTGAAGTCGTAGTGGGTCAG-ATTGAAGCTAC-ATAGCGAATCTTAT
* * * * * * * *
11268286 CTCCTTGAAGTTACAATGGAGCAAGATGAAGCTACAAATCATATATCGCTAAAGTTGTAGTAGAT
64 CTCCTTGAAGTTACAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGCAATGGGT
* * * * *
11268351 CGGATTGAAACTACAATAGCAAATCTCATCTCC
129 CGGAATGAAACTACCATAGGAAGTCTTATCTCC
11268384 ACGAAGATGC
Statistics
Matches: 287, Mismatches: 57, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
186 1 0.00
187 146 0.51
188 140 0.49
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (187 bp):
GCTACAAATCCTATACCCCTGAAGTCGTAGTGGGTCAGATTGAAGCTACATAGCGAATCTTATCT
CCTTGAAGTTACAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGCAATGGGTCG
GAATGAAACTACCATAGGAAGTCTTATCTCCCTAAAGTTACAGTGAAGCAAGATAAA
Found at i:11268528 original size:44 final size:44
Alignment explanation
Indices: 11268474--11268626 Score: 123
Period size: 44 Copynumber: 3.3 Consensus size: 44
11268464 AATCTTATCT
11268474 CCCTGAAGTTGCAATAGAGTAAGATGAAGCTACAAATCCTATAC
1 CCCTGAAGTTGCAATAGAGTAAGATGAAGCTACAAATCCTATAC
* * * * * *
11268518 CCTTGAAGTTGTAGT-GGGTTGAA-ATGAAACTACAATGGCAAATCTTAT-C
1 CCCTGAAGTTGCAATAGAG-T-AAGATGAAGCT---A---CAAATCCTATAC
* *
11268567 TCCCTGAAGTTGTAGTAGAGTAAGATGAAGCTACAAATCCTATAC
1 -CCCTGAAGTTGCAATAGAGTAAGATGAAGCTACAAATCCTATAC
*
11268612 CCCTAAAGTTGCAAT
1 CCCTGAAGTTGCAAT
11268627 GGATTAGAAT
Statistics
Matches: 84, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
43 2 0.02
44 41 0.49
45 3 0.04
47 2 0.02
49 3 0.04
50 31 0.37
51 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (44 bp):
CCCTGAAGTTGCAATAGAGTAAGATGAAGCTACAAATCCTATAC
Found at i:11268568 original size:94 final size:94
Alignment explanation
Indices: 11267847--11268689 Score: 519
Period size: 94 Copynumber: 9.0 Consensus size: 94
11267837 GGGGTGTAAC
* * * * * * *
11267847 GCTACAAATCCTATACCCCTGAAGTCGTAGTGGG-TCAGATTGAAGCTACCATAGCGAATCTTAT
1 GCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTTGA-AATGAAACTACAATAGCAAATCTTAT
* * * * * *
11267911 TTCCTTGAAGTTACAGTGAAGTAAGATAAA
65 CTCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * * * * * * * * *
11267941 GCTACAAATTCTATACCCCTAAAATTGCAGTGGGTCGGATTGAAGCTACCATAGTAAGTCTTATC
1 GCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTTGAAATGAAACTACAATAGCAAATCTTATC
* * *
11268006 TCCCTAAAGTTGTAGTGGAGCAAGATAAA
66 TCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * * * ** * * *
11268035 GCTACAAATTCTATACCCCTGAAGTCGTAGTGGG-TCAGGTTAAAGCTATC-ATAACGAATCTTA
1 GCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTTGAAATGAAA-CTA-CAATAGCAAATCTTA
* * *
11268098 TCTCCCTAAAGTTGCAGTGGGGCAAGATGAT
64 TCTCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * * * * *
11268129 GTTACAAATCCTATACCCCTAAAGTTGCAATGGGTCG-AATGAAACTACCATAGCGAATCTTATC
1 GCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTTGAAATGAAACTACAATAGCAAATCTTATC
* * * *
11268193 TCTCTGAAGTTACAGTGAAGCAAGATTAA
66 TCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * * *** * * *
11268222 GCTACAGATCCTGTACCCTTAAAGTCACAGTGGG-TCAGAATGGAACTACAATAGCGAATCTTAT
1 GCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTTGA-AATGAAACTACAATAGCAAATCTTAT
* * *
11268286 CTCCTTGAAGTTACAATGGAGCAAGATGAA
65 CTCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * * * * * * * *
11268316 GCTACAAATCATATATCGCTAAAGTTGTAGTAGATCGGATTGAAACTACAATAGCAAATCTCATC
1 GCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTTGAAATGAAACTACAATAGCAAATCTTATC
* * * * * *
11268381 TCCAC-GAAGATGCAATGGCGTATGATAAA
66 TCC-CTGAAGTTGCAGTGGAGCAAGATGAA
* ** * ** ** * * **
11268410 GGTACAACAT--TA-A-ATCT--AGTTTTCTTGAATTTGCAGTGAAA-T-GGATGAAGCAGCAAT
1 GCTACAA-ATCCTATACCCCTAAAGTTGTAGTG-GGTTGAAATGAAACTACAAT--AGCA--AAT
* * *
11268467 CTTATCTCCCTGAAGTTGCAATAGAGTAAGATGAA
60 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * *
11268502 GCTACAAATCCTATACCCTTGAAGTTGTAGTGGGTTGAAATGAAACTACAATGGCAAATCTTATC
1 GCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTTGAAATGAAACTACAATAGCAAATCTTATC
* * *
11268567 TCCCTGAAGTTGTAGTAGAGTAAGATGAA
66 TCCCTGAAGTTGCAGTGGAGCAAGATGAA
* * * * * *
11268596 GCTACAAATCCTATACCCCTAAAGTTGCAATGGATT-AGAATGAAACTACTACAACAAATCTTAT
1 GCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTTGA-AATGAAACTACAATAGCAAATCTTAT
* * * *
11268660 CTCCTTGAAGTTGCAATGAAGCAAGTTGAA
65 CTCCCTGAAGTTGCAGTGGAGCAAGATGAA
11268690 ACTGTGACAC
Statistics
Matches: 575, Mismatches: 149, Indels: 50
0.74 0.19 0.06
Matches are distributed among these distances:
88 2 0.00
89 7 0.01
90 12 0.02
91 5 0.01
92 38 0.07
93 74 0.13
94 411 0.71
95 4 0.01
96 12 0.02
97 8 0.01
98 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (94 bp):
GCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTTGAAATGAAACTACAATAGCAAATCTTATC
TCCCTGAAGTTGCAGTGGAGCAAGATGAA
Found at i:11268595 original size:50 final size:47
Alignment explanation
Indices: 11268464--11268602 Score: 128
Period size: 50 Copynumber: 3.0 Consensus size: 47
11268454 ATGAAGCAGC
* *
11268464 AATCTTATCTCCCTGAAGTTGCAATAGAGTAAGATGAAGCT---ACA
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAAGATGAAGCTACAACA
* * * *
11268508 AATCCTATAC-CCTTGAAGTTGTAGT-GGGTTGAA-ATGAAACTACAATGGCA
1 AATCTTAT-CTCCCTGAAGTTGTAGTAGAG-T-AAGATGAAGCTACAA---CA
11268558 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAAGATGAAGCTACAA
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAAGATGAAGCTACAA
11268603 ATCCTATACC
Statistics
Matches: 73, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
43 2 0.03
44 27 0.37
45 3 0.04
47 1 0.01
49 3 0.04
50 35 0.48
51 2 0.03
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (47 bp):
AATCTTATCTCCCTGAAGTTGTAGTAGAGTAAGATGAAGCTACAACA
Found at i:11275187 original size:19 final size:18
Alignment explanation
Indices: 11275143--11275198 Score: 66
Period size: 17 Copynumber: 3.3 Consensus size: 18
11275133 AGGTGGCAAA
11275143 TATAAATT--TTAAAAAT
1 TATAAATTAATTAAAAAT
*
11275159 TA-AAAATAATTAAAAAT
1 TATAAATTAATTAAAAAT
11275176 ATATAAATTAA-TAAAAAT
1 -TATAAATTAATTAAAAAT
11275194 TATAA
1 TATAA
11275199 TTTTTTTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
15 4 0.12
16 2 0.06
17 13 0.38
18 9 0.26
19 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TATAAATTAATTAAAAAT
Found at i:11275436 original size:7 final size:7
Alignment explanation
Indices: 11275424--11275449 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
11275414 TTTGAAAATA
11275424 TATAATT
1 TATAATT
11275431 TATAATT
1 TATAATT
11275438 TATAATT
1 TATAATT
11275445 TATAA
1 TATAA
11275450 AAAATTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TATAATT
Found at i:11280175 original size:22 final size:22
Alignment explanation
Indices: 11280138--11280190 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
11280128 TAATAATATA
11280138 TTTTTAAAA-A-AAATTCCAAG
1 TTTTTAAAATATAAATTCCAAG
* *
11280158 TTTTTATAATATAAATTCCATG
1 TTTTTAAAATATAAATTCCAAG
11280180 TTTTTAAAATA
1 TTTTTAAAATA
11280191 AGTTCGAGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 8 0.29
21 1 0.04
22 19 0.68
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (22 bp):
TTTTTAAAATATAAATTCCAAG
Found at i:11280387 original size:22 final size:23
Alignment explanation
Indices: 11280362--11280405 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11280352 TTGCATTTTT
11280362 TATTTT-TATTAATTTTAGAAAA
1 TATTTTATATTAATTTTAGAAAA
* *
11280384 TATTTTATATTATTTTTTGAAA
1 TATTTTATATTAATTTTAGAAA
11280406 TTTTAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (23 bp):
TATTTTATATTAATTTTAGAAAA
Found at i:11284663 original size:19 final size:19
Alignment explanation
Indices: 11284639--11284677 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
11284629 GACACATGGA
11284639 ACATAACTCACTATCTTAT
1 ACATAACTCACTATCTTAT
11284658 ACATAACTCACTATCTTAT
1 ACATAACTCACTATCTTAT
11284677 A
1 A
11284678 AAATTTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (19 bp):
ACATAACTCACTATCTTAT
Found at i:11287049 original size:177 final size:176
Alignment explanation
Indices: 11286622--11287243 Score: 805
Period size: 176 Copynumber: 3.5 Consensus size: 176
11286612 TTGAGGCACC
11286622 AAATTATGTCAAAATTAAAGTATAGAGATTAAATATCAAATTTGAGCGAAATATAGGAAGCAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATATCAAATTTGAGCGAAATATAGGAAGCAAAA
* ** * **
11286687 CTAAAATTTAGCTGTTCTTATATAATCTTTAAAAAGTTGATGGATTAGAATTGAAATTTAACGTT
66 CTAAAATTTAACCATTCTTATATAATCTTTAAAAAGTTGATGGATTAGAATTGAAATTTAGCCAT
* * *
11286752 AGTTTTCTATGACAAAAGAAAAGAAAGAAAGAATGGAGATGTGTCT
131 AATTTTCTATGTCAAAAGAAAAGAAAGAAAGAATGGACATGTGTCT
* * * * * *
11286798 AAATTATGTCTAAAGTAAAGTATAGAGATTAAATCTCAAATTTAAGCTAAATATAGGGAGCAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATATCAAATTTGAGCGAAATATAGGAAGCAAAA
* * * * * *
11286863 ATGAAATTTAGCCACTCTTATATAATCTTTAAAAATTTGATGGATTAGAATTGAAATTTAGCCAG
66 CTAAAATTTAACCATTCTTATATAATCTTTAAAAAGTTGATGGATTAGAATTGAAATTTAGCCAT
* *
11286928 AATTTTCTACGTCAAAAGAAAAGGAAAGAAAGAATGGCCATGTGTCT
131 AATTTTCTATGTCAAAAGAAAA-GAAAGAAAGAATGGACATGTGTCT
* * * * *
11286975 AAATTATGTCAAAATTAAAGTATAGAGATTAAATCTTAAATTTGAGCAAAATATAGGGATCAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATATCAAATTTGAGCGAAATATAGGAAGCAAAA
* * * *
11287040 CTAAAATTTAACCATTCTTATATAATC-TTAAAAAGGTAGAGGGATTAGAACTAAAATTTAGCCA
66 CTAAAATTTAACCATTCTTATATAATCTTTAAAAA-GTTGATGGATTAGAATTGAAATTTAGCCA
* * * *
11287104 CTACTTTTTTCATGTCAAAAGAAAAGAAAAAAAGAATGGACAAGTGTCT
130 -TAATTTTCT-ATGTCAAAAGAAAAGAAAGAAAGAATGGACATGTGTCT
* * * * **
11287153 AAATTATATCAAAATTAAAGTATAGAAATTAAATATCAAATTTGAGTGAAATATAAGAATTAAAA
1 AAATTATGTCAAAATTAAAGTATAGAGATTAAATATCAAATTTGAGCGAAATATAGGAAGCAAAA
* *
11287218 TTAAAATTTAACCATTTTTATATAAT
66 CTAAAATTTAACCATTCTTATATAAT
11287244 TCTAAAAGTA
Statistics
Matches: 388, Mismatches: 54, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
176 140 0.36
177 128 0.33
178 107 0.28
179 13 0.03
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.31
Consensus pattern (176 bp):
AAATTATGTCAAAATTAAAGTATAGAGATTAAATATCAAATTTGAGCGAAATATAGGAAGCAAAA
CTAAAATTTAACCATTCTTATATAATCTTTAAAAAGTTGATGGATTAGAATTGAAATTTAGCCAT
AATTTTCTATGTCAAAAGAAAAGAAAGAAAGAATGGACATGTGTCT
Found at i:11287820 original size:18 final size:20
Alignment explanation
Indices: 11287793--11287836 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
11287783 AAATAGGGGC
*
11287793 TAAAATATTA-TTTT-ACTT
1 TAAAAAATTAGTTTTGACTT
11287811 TAAAAAATTAGTTTTGACTT
1 TAAAAAATTAGTTTTGACTT
11287831 TAAAAA
1 TAAAAA
11287837 CCATATGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.39
19 4 0.17
20 10 0.43
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (20 bp):
TAAAAAATTAGTTTTGACTT
Found at i:11292035 original size:21 final size:22
Alignment explanation
Indices: 11292009--11292056 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
11291999 AGAAGTATAT
**
11292009 TTATATTA-AAATTTATTTAAA
1 TTATATTAGAAAAATATTTAAA
11292030 TTATATTATGAAAAATATTTAAA
1 TTATATTA-GAAAAATATTTAAA
11292053 TTAT
1 TTAT
11292057 TTTTAGGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
23 15 0.65
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TTATATTAGAAAAATATTTAAA
Found at i:11306758 original size:22 final size:23
Alignment explanation
Indices: 11306710--11306765 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
11306700 ACTTTATGTT
11306710 TATT-ACATAA-AATTAATATTA
1 TATTAACATAATAATTAATATTA
*
11306731 TATTAACATAATAATTATTATT-
1 TATTAACATAATAATTAATATTA
*
11306753 TCTTAA-ATAATAA
1 TATTAACATAATAA
11306766 GTAAATACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 11 0.35
22 11 0.35
23 9 0.29
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (23 bp):
TATTAACATAATAATTAATATTA
Found at i:11309998 original size:8 final size:7
Alignment explanation
Indices: 11309978--11310012 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
11309968 GGTATTCTAC
11309978 TTTTTCT
1 TTTTTCT
11309985 TTTTTCT
1 TTTTTCT
11309992 TTGTTTCTT
1 TT-TTTC-T
11310001 TTTTTCT
1 TTTTTCT
11310008 TTTTT
1 TTTTT
11310013 AGAATCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 15 0.58
8 8 0.31
9 3 0.12
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:11310000 original size:15 final size:16
Alignment explanation
Indices: 11309980--11310009 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11309970 TATTCTACTT
11309980 TTTC-TTTTTTCTTTG
1 TTTCTTTTTTTCTTTG
11309995 TTTCTTTTTTTCTTT
1 TTTCTTTTTTTCTTT
11310010 TTTAGAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTCTTTTTTTCTTTG
Found at i:11312766 original size:59 final size:57
Alignment explanation
Indices: 11312700--11312888 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
11312690 ATTTTATTAA
11312700 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
11312759 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
11312820 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
11312879 ATCATATATT
1 ATCATATATT
11312889 ATTATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:11312797 original size:66 final size:64
Alignment explanation
Indices: 11312727--11312925 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
11312717 AAATATATTT
*
11312727 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
11312792 G
64 G
* * * * **
11312793 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
* *
11312847 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
11312912 G
64 G
*
11312913 AATATTGATTATT
1 AATATTAATTATT
11312926 AAGAATTTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 9 0.09
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.26
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
Found at i:11312819 original size:120 final size:120
Alignment explanation
Indices: 11312689--11312978 Score: 476
Period size: 120 Copynumber: 2.4 Consensus size: 120
11312679 AATTATTTTA
* * *
11312689 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
11312753 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
11312809 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
11312874 ATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
11312929 AATTTTATTAAATTC-TATATTTTAATTATAATATATCTAATAATAATTAT
1 AATTTTATTAAA-TCATATATTTTAATTATAATATATTTAATAATAATTAT
11312979 ATTTAAATAT
Statistics
Matches: 159, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
120 156 0.98
121 3 0.02
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:11312829 original size:61 final size:61
Alignment explanation
Indices: 11312762--11312949 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
11312752 TTATAGTATC
*
11312762 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * *
11312823 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATTATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
11312881 C
61 T
*
11312882 ATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
*
11312943 CTATATT
1 ATATATT
11312950 TTAATTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 17 0.18
61 24 0.25
62 7 0.07
63 11 0.11
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:11312849 original size:15 final size:15
Alignment explanation
Indices: 11312814--11312865 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
11312804 TTAAGAATTT
*
11312814 TATTAAATTAT-ATA
1 TATTTAATTATAATA
11312828 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
11312842 TATTTAATAATAAT-
1 TATTTAATTATAATA
11312856 TATGTTAATT
1 TAT-TTAATT
11312866 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:11313221 original size:16 final size:16
Alignment explanation
Indices: 11313200--11313251 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
11313190 GATTTGCTAT
11313200 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11313216 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
**
11313232 TACAATTCTAATCCAA
1 TACACCTCTAATCCAA
11313248 TACA
1 TACA
11313252 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:11314234 original size:29 final size:31
Alignment explanation
Indices: 11314175--11314239 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
11314165 AAATTTCAAA
* * *
11314175 ATTATATATGAATTTTGATTTATTTTGTAAT
1 ATTATATATAAATTTTGATTTATTGTATAAT
11314206 ATTATATATAAATTTTGA-TT-TTGTATAAT
1 ATTATATATAAATTTTGATTTATTGTATAAT
*
11314235 TTTAT
1 ATTAT
11314240 GTGTGTATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 11 0.37
30 2 0.07
31 17 0.57
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (31 bp):
ATTATATATAAATTTTGATTTATTGTATAAT
Found at i:11314237 original size:16 final size:16
Alignment explanation
Indices: 11314216--11314258 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
11314206 ATTATATATA
11314216 AATTTTGATTTTGTAT
1 AATTTTGATTTTGTAT
*
11314232 AATTTT-ATGTGTGTAT
1 AATTTTGAT-TTTGTAT
*
11314248 CATTTTGATTT
1 AATTTTGATTT
11314259 AATTCAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
15 2 0.09
16 18 0.82
17 2 0.09
ACGTcount: A:0.23, C:0.02, G:0.14, T:0.60
Consensus pattern (16 bp):
AATTTTGATTTTGTAT
Found at i:11319595 original size:43 final size:42
Alignment explanation
Indices: 11319502--11319630 Score: 231
Period size: 42 Copynumber: 3.0 Consensus size: 42
11319492 CCGTGGATGA
11319502 TAAGGATGATTTCATGGAATGAGTGTTTTTCCAATCTCATTT
1 TAAGGATGATTTCATGGAATGAGTGTTTTTCCAATCTCATTT
11319544 TAAGGATGATTTCATGGAATGAGTGTTTTTCCAAATCTCATTT
1 TAAGGATGATTTCATGGAATGAGTGTTTTTCC-AATCTCATTT
*
11319587 TAAGGATGATTTTGATGGAATGAGTGTTTTTCCAATCTCATTT
1 TAAGGATGA-TTTCATGGAATGAGTGTTTTTCCAATCTCATTT
11319630 T
1 T
11319631 TAGGCAAGTT
Statistics
Matches: 84, Mismatches: 1, Indels: 3
0.95 0.01 0.03
Matches are distributed among these distances:
42 32 0.38
43 30 0.36
44 22 0.26
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.43
Consensus pattern (42 bp):
TAAGGATGATTTCATGGAATGAGTGTTTTTCCAATCTCATTT
Found at i:11328009 original size:42 final size:42
Alignment explanation
Indices: 11327946--11328049 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 42
11327936 CTTCGTTTTC
** *
11327946 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* *
11327989 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
11328030 TCGATGCCATAGCCCAACTA
1 TCGATGCCATAGCCCAACTA
11328050 CACGAATCAC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
41 2 0.04
42 51 0.94
43 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:11328216 original size:31 final size:30
Alignment explanation
Indices: 11328181--11328350 Score: 241
Period size: 31 Copynumber: 5.5 Consensus size: 30
11328171 GTAGCCGAAA
*
11328181 CTACCACTATTCACTGATCAGGTAGTCGGAG
1 CTACCACTTTTCACTGATCAGGTAG-CGGAG
* *
11328212 CTACCATTTTTCACTGATTAGGTAGCCGGAG
1 CTACCACTTTTCACTGATCAGGTAG-CGGAG
*
11328243 CTACCACTTTTCACTGATCAGGTAGCCGGAA
1 CTACCACTTTTCACTGATCAGGTAG-CGGAG
*
11328274 CTACCACTTTTCACTGATCAGGTAGCAGAAG
1 CTACCACTTTTCACTGATCAGGTAGC-GGAG
*
11328305 CTACCACTTTTCACTGATCAGGTAGCTGAAG
1 CTACCACTTTTCACTGATCAGGTAGC-GGAG
11328336 CTACCACTTTTCACT
1 CTACCACTTTTCACT
11328351 TGTCATTTGT
Statistics
Matches: 128, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
30 1 0.01
31 127 0.99
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (30 bp):
CTACCACTTTTCACTGATCAGGTAGCGGAG
Found at i:11328330 original size:93 final size:93
Alignment explanation
Indices: 11328171--11328350 Score: 281
Period size: 93 Copynumber: 1.9 Consensus size: 93
11328161 CTTGTCACTT
* * *
11328171 GTAGCCGAAACTACCACTATTCACTGATCAGGTAGTCGGAGCTACCATTTTTCACTGATTAGGTA
1 GTAGCCGAAACTACCACTATTCACTGATCAGGTAGTCGAAGCTACCACTTTTCACTGATCAGGTA
*
11328236 GCCGGAGCTACCACTTTTCACTGATCAG
66 GCCGAAGCTACCACTTTTCACTGATCAG
* *
11328264 GTAGCCGGAACTACCACTTTTCACTGATCAGGTAG-CAGAAGCTACCACTTTTCACTGATCAGGT
1 GTAGCCGAAACTACCACTATTCACTGATCAGGTAGTC-GAAGCTACCACTTTTCACTGATCAGGT
*
11328328 AGCTGAAGCTACCACTTTTCACT
65 AGCCGAAGCTACCACTTTTCACT
11328351 TGTCATTTGT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 1 0.01
93 78 0.99
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (93 bp):
GTAGCCGAAACTACCACTATTCACTGATCAGGTAGTCGAAGCTACCACTTTTCACTGATCAGGTA
GCCGAAGCTACCACTTTTCACTGATCAG
Found at i:11328432 original size:50 final size:51
Alignment explanation
Indices: 11328326--11328454 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
11328316 CACTGATCAG
* * *
11328326 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
11328377 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
11328427 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
11328455 TGTCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:11329910 original size:31 final size:31
Alignment explanation
Indices: 11329868--11329929 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
11329858 AGTTATGAAA
11329868 TAACTTATAATGTCTAGAAAAAGTATTAATT
1 TAACTTATAATGTCTAGAAAAAGTATTAATT
* *
11329899 TAACTTGTAATGTCTATAAAAAGTATTAATT
1 TAACTTATAATGTCTAGAAAAAGTATTAATT
11329930 GAGAAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (31 bp):
TAACTTATAATGTCTAGAAAAAGTATTAATT
Found at i:11331093 original size:50 final size:51
Alignment explanation
Indices: 11331016--11331144 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
11331006 GACCATGACA
11331016 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
11331067 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
11331117 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
11331145 CTGATCAATG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:11331160 original size:31 final size:31
Alignment explanation
Indices: 11331120--11331299 Score: 245
Period size: 31 Copynumber: 5.8 Consensus size: 31
11331110 ACAAATGACA
*
11331120 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * * *
11331151 AATGAAAAGTTGTAGCTTCTGCTACATGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
11331182 AGTGAAAGGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
*
11331213 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
11331244 AGTGAAAAATGGTAGCTCCGGTTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
11331275 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
11331300 AAGTGACAAG
Statistics
Matches: 130, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
30 2 0.02
31 127 0.98
32 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:11331473 original size:42 final size:42
Alignment explanation
Indices: 11331425--11331522 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 42
11331415 TTCGTGTAGT
*
11331425 TGGGCTATGGCAT-AGGTATATGAATATGTGTAAGACCATAGC
1 TGGGCTATGGCATCA-GTATATGAAGATGTGTAAGACCATAGC
* * *
11331467 TGGGCTATGGCATCATTATGTGAAGATGTGTAAGACCATAGT
1 TGGGCTATGGCATCAGTATATGAAGATGTGTAAGACCATAGC
**
11331509 TGAACTATGGCATC
1 TGGGCTATGGCATC
11331523 GAGAAAACGA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
42 48 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (42 bp):
TGGGCTATGGCATCAGTATATGAAGATGTGTAAGACCATAGC
Found at i:11344969 original size:18 final size:18
Alignment explanation
Indices: 11344948--11345011 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
11344938 GAGGCATGCT
* *
11344948 CAGCAACAGCAGCATCAG
1 CAGCAACAGCAACAGCAG
*
11344966 CAGCAACAACAACAGCAG
1 CAGCAACAGCAACAGCAG
11344984 CAGCAACAGCAACAGCCA-
1 CAGCAACAGCAACAG-CAG
11345002 CAGCAACAGC
1 CAGCAACAGC
11345012 CACAACGCCA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
18 39 0.95
19 2 0.05
ACGTcount: A:0.44, C:0.36, G:0.19, T:0.02
Consensus pattern (18 bp):
CAGCAACAGCAACAGCAG
Found at i:11344987 original size:6 final size:6
Alignment explanation
Indices: 11344948--11345011 Score: 74
Period size: 6 Copynumber: 10.7 Consensus size: 6
11344938 GAGGCATGCT
* * * * *
11344948 CAGCAA CAGCAG CATCAG CAGCAA CAACAA CAGCAG CAGCAA CAGCAA
1 CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA
*
11344996 CAGCCA CAGCAA CAGC
1 CAGCAA CAGCAA CAGC
11345012 CACAACGCCA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.44, C:0.36, G:0.19, T:0.02
Consensus pattern (6 bp):
CAGCAA
Found at i:11345472 original size:28 final size:28
Alignment explanation
Indices: 11345410--11345464 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
11345400 AAAAAAAAAA
11345410 GTCATGTATTATTTCCTTTATTTGCTTG
1 GTCATGTATTATTTCCTTTATTTGCTTG
11345438 GTCATGTATTATTTCCTTTATTTGCTT
1 GTCATGTATTATTTCCTTTATTTGCTT
11345465 TGTTATGTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.13, T:0.58
Consensus pattern (28 bp):
GTCATGTATTATTTCCTTTATTTGCTTG
Found at i:11362475 original size:124 final size:124
Alignment explanation
Indices: 11362342--11362644 Score: 375
Period size: 124 Copynumber: 2.5 Consensus size: 124
11362332 TCATACTCAA
*
11362342 TTTTTTCCCTTTATTT-TCTAAATGATTGTACCAAAAGATTCTATCATAAATTTTCAAAATTTTC
1 TTTTTTCCCTTTATTTGT-TGAATGATTGTACCAAAAGATTCTATCATAAATTTTCAAAATTTTC
* * *
11362406 AAATACTTCAAAACAAAATTTACACAATTTATTTTAG-CCATTACTTACATTTTACCCCCT
65 AAACACTTCAAAACAAAATTTACACAATTTACTTTAGTCCATTACTTACATATTA-CCCCT
* * * **
11362466 TTTTTTCCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCA-CAGTTTACCAATTTTTTC
1 TTTTTTCCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCATAAATTT-TCAAAATTTTC
* * **
11362530 AAACACTTCAAAACAAAATTTATACTATTTACTTTAGTCTTTTACTTACATATTACCCCT
65 AAACACTTCAAAACAAAATTTACACAATTTACTTTAGTCCATTACTTACATATTACCCCT
* * * **
11362590 TTTTTT---TGTATTTGTTGAATTATTGTACCAAAAAATTCTATCATAGTTTTTCAAA
1 TTTTTTCCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCATAAATTTTCAAA
11362645 CACTTCAAAA
Statistics
Matches: 154, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
121 37 0.24
122 3 0.02
123 4 0.03
124 95 0.62
125 15 0.10
ACGTcount: A:0.32, C:0.17, G:0.05, T:0.45
Consensus pattern (124 bp):
TTTTTTCCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCATAAATTTTCAAAATTTTCA
AACACTTCAAAACAAAATTTACACAATTTACTTTAGTCCATTACTTACATATTACCCCT
Found at i:11364743 original size:18 final size:18
Alignment explanation
Indices: 11364720--11364764 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
11364710 AAAAAAAGTG
* *
11364720 ATAAAAAAAGTACAAAAA
1 ATAAAAAAAGAAAAAAAA
* *
11364738 ATAAAATACGAAAAAAAA
1 ATAAAAAAAGAAAAAAAA
11364756 ATAAAAAAA
1 ATAAAAAAA
11364765 ATTCTGTAGG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.11
Consensus pattern (18 bp):
ATAAAAAAAGAAAAAAAA
Found at i:11381600 original size:16 final size:17
Alignment explanation
Indices: 11381578--11381622 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
11381568 CTTTTGTAGG
11381578 ATTAATATATTAAAATT
1 ATTAATATATTAAAATT
*
11381595 -TTAATA-ATTAAATTT
1 ATTAATATATTAAAATT
11381610 ATTAATATTATTA
1 ATTAATA-TATTA
11381623 TATTTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.33
16 12 0.50
18 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTAATATATTAAAATT
Found at i:11382849 original size:25 final size:25
Alignment explanation
Indices: 11382821--11382868 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
11382811 AAATTTTCAA
*
11382821 TACA-AATTATTAACTTATCAAAATG
1 TACATAATTATTAACATA-CAAAATG
*
11382846 TACATAATTTTTAACATACAAAA
1 TACATAATTATTAACATACAAAA
11382869 AAAAATTCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 9 0.45
26 11 0.55
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.35
Consensus pattern (25 bp):
TACATAATTATTAACATACAAAATG
Found at i:11383833 original size:3 final size:3
Alignment explanation
Indices: 11383825--11383853 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11383815 GTTATGACTT
11383825 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11383854 CTCTCTTTTG
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:11385627 original size:20 final size:20
Alignment explanation
Indices: 11385598--11385635 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11385588 CAATATTTGT
*
11385598 GGTTCAAAGTTCTGGATTGA
1 GGTTCAAAGTTCAGGATTGA
*
11385618 GGTTCTAAGTTCAGGATT
1 GGTTCAAAGTTCAGGATT
11385636 CAGGATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.37
Consensus pattern (20 bp):
GGTTCAAAGTTCAGGATTGA
Found at i:11392159 original size:5 final size:5
Alignment explanation
Indices: 11392149--11392187 Score: 69
Period size: 5 Copynumber: 7.6 Consensus size: 5
11392139 TATATTAAGA
11392149 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAGT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA-T ATA
11392188 TTTATTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 29 0.88
6 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:11395788 original size:64 final size:64
Alignment explanation
Indices: 11395679--11395808 Score: 170
Period size: 64 Copynumber: 2.0 Consensus size: 64
11395669 ATAAACATCT
* * * * *
11395679 TGATCGGTAGTAATCTTGCATATGTTGCAAACATACTGCATCTCTTTGTGAGCGTCCTGTTATA
1 TGATCGGTAGTAATCCTGCATATGTTGCAAACATACCGCAGCTCTTTATGAGCATCCTGTTATA
* * * **
11395743 TGATTGGTAGTGATCCTGCATGTGTTGCGGACATACCGCAGCTCTTTATGAGCATCCTGTTATA
1 TGATCGGTAGTAATCCTGCATATGTTGCAAACATACCGCAGCTCTTTATGAGCATCCTGTTATA
11395807 TG
1 TG
11395809 GCTCTCTGGA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (64 bp):
TGATCGGTAGTAATCCTGCATATGTTGCAAACATACCGCAGCTCTTTATGAGCATCCTGTTATA
Found at i:11398377 original size:35 final size:35
Alignment explanation
Indices: 11398306--11398470 Score: 217
Period size: 35 Copynumber: 4.7 Consensus size: 35
11398296 TGGAAAAATG
* *
11398306 TGAAACGTAGTTATGGTA-TTTCCATACCGAGTTA
1 TGAAACGTAGGTATGGTATTTTCCATACTGAGTTA
* * *
11398340 TGATACGTAGGTATGGTAATTTCCATACTGAGCTA
1 TGAAACGTAGGTATGGTATTTTCCATACTGAGTTA
* *
11398375 TGATACGTAGGTATGGTATTTTCCATA-TCGAGTTG
1 TGAAACGTAGGTATGGTATTTTCCATACT-GAGTTA
* *
11398410 TGAAACGTAGGTTTGGTATTTTCCATACTGAGTTG
1 TGAAACGTAGGTATGGTATTTTCCATACTGAGTTA
*
11398445 TGAAATGTAGGTATGGTATTTTCCAT
1 TGAAACGTAGGTATGGTATTTTCCAT
11398471 GAGGAAAACT
Statistics
Matches: 117, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
34 17 0.15
35 99 0.85
36 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (35 bp):
TGAAACGTAGGTATGGTATTTTCCATACTGAGTTA
Found at i:11412831 original size:40 final size:40
Alignment explanation
Indices: 11412776--11412857 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
11412766 TGTTTAGAGA
11412776 TAGCAAAACAAATCATGGTAAAGCACTCACTTCAAAAAAC
1 TAGCAAAACAAATCATGGTAAAGCACTCACTTCAAAAAAC
*
11412816 TAGCAAAATAAATCATGGTAAAGCACTCACTTCAAAAAAC
1 TAGCAAAACAAATCATGGTAAAGCACTCACTTCAAAAAAC
11412856 TA
1 TA
11412858 AGTTTCCCAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.50, C:0.21, G:0.10, T:0.20
Consensus pattern (40 bp):
TAGCAAAACAAATCATGGTAAAGCACTCACTTCAAAAAAC
Found at i:11414165 original size:20 final size:18
Alignment explanation
Indices: 11414136--11414258 Score: 58
Period size: 18 Copynumber: 6.7 Consensus size: 18
11414126 AAGGGTTAAT
*
11414136 TTTAAT-TTTTGAATATTA
1 TTTAATATTTTTAAT-TTA
*
11414154 TTTAATATTTTT--TTCA
1 TTTAATATTTTTAATTTA
* * *
11414170 TTTATGTAATTTTAATTAA
1 TTTA-ATATTTTTAATTTA
*
11414189 TTTTAAT-TTTTGAATATTA
1 -TTTAATATTTTTAAT-TTA
*
11414208 TTTAATATTTTTTATTTA
1 TTTAATATTTTTAATTTA
*
11414226 TGTAAT-TTTAATTAATTTGTA
1 TTTAATATTT--TTAA-TT-TA
*
11414247 TTTTATATTTTT
1 TTTAATATTTTT
11414259 TTATAACAAT
Statistics
Matches: 78, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
16 6 0.08
17 10 0.13
18 26 0.33
19 19 0.24
20 8 0.10
21 6 0.08
22 3 0.04
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (18 bp):
TTTAATATTTTTAATTTA
Done.