Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007807.1 Hibiscus syriacus cultivar Beakdansim tig00110126_pilon, whole genome shotgun sequence
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: 2195110
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 4 of 9
Found at i:559233 original size:90 final size:90
Alignment explanation
Indices: 559080--559268 Score: 369
Period size: 90 Copynumber: 2.1 Consensus size: 90
559070 ACTGAACTTG
559080 GTTTGATTACAAGCAAATAGCAAAAGCTCTGCATATCTACATATTATTCATTTAGTGAATTGTTG
1 GTTTGATTACAAGCAAATAGCAAAAGCTCTGCATATCTACATATTATTCATTTAGTGAATTGTTG
*
559145 TTCATTGGATTATCTTGCCACTTCT
66 TTCATTAGATTATCTTGCCACTTCT
559170 GTTTGATTACAAGCAAATAGCAAAAGCTCTGCATATCTACATATTATTCATTTAGTGAATTGTTG
1 GTTTGATTACAAGCAAATAGCAAAAGCTCTGCATATCTACATATTATTCATTTAGTGAATTGTTG
559235 TTCATTAGATTATCTTGCCACTTCT
66 TTCATTAGATTATCTTGCCACTTCT
559260 GTTTGATTA
1 GTTTGATTA
559269 TATTGTCAAA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 98 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (90 bp):
GTTTGATTACAAGCAAATAGCAAAAGCTCTGCATATCTACATATTATTCATTTAGTGAATTGTTG
TTCATTAGATTATCTTGCCACTTCT
Found at i:560689 original size:175 final size:170
Alignment explanation
Indices: 560398--560744 Score: 475
Period size: 175 Copynumber: 2.0 Consensus size: 170
560388 TGGTTTACCA
* * * *
560398 GAGGGAAGAGTAAGTTACAAAGGTTGTACCTTATAGACTGTAACCGGTCCATATATGAAGTAAAA
1 GAGGGAAGAGTAAGTTACAAAGGTTGGACCTTATAGACTATAACCGGACCATATATAAAGTAAAA
*
560463 TTTGTTTCAATGATCAATGGGTATTGAGGAAGAGTGAAGCCAGAGGCTGTTTTTATCCATTTGAT
66 TTTGTTTCAATGATCAATGGGTATTGAGGAAGAGAGAAGCCAGAGGCTGTTTTTATCCATTTGAT
* *
560528 TTGAT-TTTATTTAAATTTTACTTTATTTACTTTGTTTCAATTCTT
131 TT--TCTTTA---AAA-TCTACTTTATTTACTTTCTTTCAATTCTT
* * * *
560573 GAGGGAAGAGTGAGTTACAAGGGTTGGACCTTATAGACTATAATC-GACACATATCTAAAGTAAA
1 GAGGGAAGAGTAAGTTACAAAGGTTGGACCTTATAGACTATAACCGGAC-CATATATAAAGTAAA
* *
560637 ATTTGTTTCAATGATCATTGGTTATTGAGGAAGAGAGAAGCTCA-AGGCTGTTTTTATCCATTTG
65 ATTTGTTTCAATGATCAATGGGTATTGAGGAAGAGAGAAGC-CAGAGGCTGTTTTTATCCATTTG
*
560701 ATTTTCTTTAAAATCTATTTTATTTACTTTCTTTCAATTCTT
129 ATTTTCTTTAAAATCTACTTTATTTACTTTCTTTCAATTCTT
560743 GA
1 GA
560745 ATTTTTACCT
Statistics
Matches: 155, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
170 28 0.18
171 3 0.02
173 1 0.01
174 6 0.04
175 115 0.74
176 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (170 bp):
GAGGGAAGAGTAAGTTACAAAGGTTGGACCTTATAGACTATAACCGGACCATATATAAAGTAAAA
TTTGTTTCAATGATCAATGGGTATTGAGGAAGAGAGAAGCCAGAGGCTGTTTTTATCCATTTGAT
TTTCTTTAAAATCTACTTTATTTACTTTCTTTCAATTCTT
Found at i:561747 original size:3 final size:3
Alignment explanation
Indices: 561733--561762 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
561723 AATTATATAT
561733 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
561763 GTCATATCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:566215 original size:27 final size:29
Alignment explanation
Indices: 566180--566237 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
566170 TTTTTATTAA
566180 GCCTCGATGGAAA-A-AAATGATAGTAAG
1 GCCTCGATGGAAACACAAATGATAGTAAG
* * *
566207 GCCTTGATGGAAACACGAATGGTAGTAAG
1 GCCTCGATGGAAACACAAATGATAGTAAG
566236 GC
1 GC
566238 AAGAAACATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 12 0.46
28 1 0.04
29 13 0.50
ACGTcount: A:0.38, C:0.14, G:0.29, T:0.19
Consensus pattern (29 bp):
GCCTCGATGGAAACACAAATGATAGTAAG
Found at i:566810 original size:30 final size:29
Alignment explanation
Indices: 566739--566928 Score: 143
Period size: 32 Copynumber: 6.1 Consensus size: 29
566729 TTTTAAATAC
566739 TTTT-AAATTAAGATAAAAATAAAATATA
1 TTTTAAAATTAAGATAAAAATAAAATATA
* *
566767 TTTTAAAAAAATTAAGATAATAATAACCATATA
1 TTTT---AAAATTAAGATAAAAATAA-AATATA
*
566800 TTTTAAAATTAAGATAAGAATAAAAT-TA
1 TTTTAAAATTAAGATAAAAATAAAATATA
* *
566828 -TTTAATAATTTTATATAAAAATAAAATATA
1 TTTTAA-AA-TTAAGATAAAAATAAAATATA
* * *
566858 TTTTTAAAGTTGAGCTCTATTAAAATAAAAAATATA
1 -TTTTAAAATTAAG----A-TAAAA-ATAAAATATA
566894 TATTTAAAAGTTAAGATAAAAATAAAAATATA
1 T-TTTAAAA-TTAAGATAAAAAT-AAAATATA
566926 TTT
1 TTT
566929 GTCGGAACCG
Statistics
Matches: 129, Mismatches: 14, Indels: 35
0.72 0.08 0.20
Matches are distributed among these distances:
27 5 0.04
28 8 0.06
29 17 0.13
30 23 0.18
31 4 0.03
32 36 0.28
33 10 0.08
34 1 0.01
35 6 0.05
36 15 0.12
37 4 0.03
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (29 bp):
TTTTAAAATTAAGATAAAAATAAAATATA
Found at i:567323 original size:17 final size:17
Alignment explanation
Indices: 567301--567336 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
567291 AGAACTAATG
*
567301 AAATAAGGAAAATAAAA
1 AAATAAAGAAAATAAAA
*
567318 AAATAAAGAAGATAAAA
1 AAATAAAGAAAATAAAA
567335 AA
1 AA
567337 TGAATATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAATAAAGAAAATAAAA
Found at i:567387 original size:19 final size:18
Alignment explanation
Indices: 567344--567389 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
567334 AAATGAATAT
*
567344 AAAAATGAATAGAATAAA
1 AAAAATAAATAGAATAAA
*
567362 AAGAAATAAATAGAATGAAG
1 AA-AAATAAATAGAAT-AAA
567382 AAAAATAA
1 AAAAATAA
567390 TAACACTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 18 0.75
20 4 0.17
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (18 bp):
AAAAATAAATAGAATAAA
Found at i:567573 original size:2 final size:2
Alignment explanation
Indices: 567566--567643 Score: 61
Period size: 2 Copynumber: 39.5 Consensus size: 2
567556 CCGAAAGTAA
* * * * *
567566 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AA AG A- AA AA AT GAG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
* * *
567607 AA AT AT AA AT AA AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
567644 ATACTAATGA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
1 2 0.03
2 61 0.95
3 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (2 bp):
AT
Found at i:568887 original size:2 final size:2
Alignment explanation
Indices: 568880--568953 Score: 116
Period size: 2 Copynumber: 37.5 Consensus size: 2
568870 CCTGTACACA
568880 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
568922 AT AT AT AT AT AGT AT GT AT AT -T AT AT A- AT AT A
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A
568954 GTTAGCAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
1 2 0.03
2 63 0.94
3 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:569904 original size:106 final size:106
Alignment explanation
Indices: 569719--569980 Score: 355
Period size: 106 Copynumber: 2.5 Consensus size: 106
569709 GTATTGCTCC
* * * *
569719 GAGTCCAATATCCTTC-ATCGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGAT-GTGAAGTTGAAATTGGATCTGAAATTGGGAAATTGTTTGTTAACA
* * *
569783 GTCAGCCACCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTT
65 ATCAGCCACCCCTTCGTCGTGAAGTTAAGCTTGTGCTGTCTT
* * * *
569825 GAGTCCAATGTCCTTCGCTGTAAAGTTGAAATTGGATCTGAAATTGGGGAATTGTTTGTTAACAA
1 GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGATCTGAAATTGGGAAATTGTTTGTTAACAA
***
569890 TCAGTTGCCCCTTCGTCGTGAAGTTAAGCTTGTGCTGTCTT
66 TCAGCCACCCCTTCGTCGTGAAGTTAAGCTTGTGCTGTCTT
* * *
569931 GAGTCCAATAACCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
1 GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGATCTGAAATTGGGAA
569981 GCCCCTTCGT
Statistics
Matches: 135, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
106 134 0.99
107 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGATCTGAAATTGGGAAATTGTTTGTTAACAA
TCAGCCACCCCTTCGTCGTGAAGTTAAGCTTGTGCTGTCTT
Found at i:572987 original size:21 final size:21
Alignment explanation
Indices: 572963--573002 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
572953 TCTGGCTCAC
572963 GTTTTGTAAAGAGGCGGGAAT
1 GTTTTGTAAAGAGGCGGGAAT
*
572984 GTTTTGTAAAGAGGTGGGA
1 GTTTTGTAAAGAGGCGGGA
573003 CTGTCATAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.40, T:0.30
Consensus pattern (21 bp):
GTTTTGTAAAGAGGCGGGAAT
Found at i:579335 original size:28 final size:27
Alignment explanation
Indices: 579298--579354 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
579288 AAAATAAAAA
*
579298 TTTTAAGTTAAA-ATTAAATATTATATAT
1 TTTTAAGTTAAAGA-TAAAAATT-TATAT
579326 TTTTAAGTTAAAGATAAAAATTTATAT
1 TTTTAAGTTAAAGATAAAAATTTATAT
579353 TT
1 TT
579355 CTAAAGTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 7 0.26
28 19 0.70
29 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (27 bp):
TTTTAAGTTAAAGATAAAAATTTATAT
Found at i:579361 original size:28 final size:28
Alignment explanation
Indices: 579281--579366 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
579271 TAAGTTAAGA
* *
579281 TAAAATT-AAAA-TAAAAATTTT-AAGT
1 TAAAATTAAAAATTATATATTTTAAAGT
* *
579306 TAAAATTAAATATTATATATTTTTAAGT
1 TAAAATTAAAAATTATATATTTTAAAGT
579334 TAAAGA-TAAAAATT-TATATTTCTAAAGT
1 TAAA-ATTAAAAATTATATATTT-TAAAGT
*
579362 AAAAA
1 TAAAA
579367 ATATTTTCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
25 7 0.14
26 3 0.06
27 16 0.32
28 23 0.46
29 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.40
Consensus pattern (28 bp):
TAAAATTAAAAATTATATATTTTAAAGT
Found at i:579564 original size:6 final size:6
Alignment explanation
Indices: 579553--579583 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
579543 CGTTGAGTTT
579553 GGGTTC GGGTTC GGGTTC GGGTTC GGGTTC G
1 GGGTTC GGGTTC GGGTTC GGGTTC GGGTTC G
579584 AATCCTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.32
Consensus pattern (6 bp):
GGGTTC
Found at i:581851 original size:30 final size:29
Alignment explanation
Indices: 581817--582078 Score: 150
Period size: 30 Copynumber: 8.6 Consensus size: 29
581807 CTTAAAATTA
* *
581817 AAATTAAGATAATAATAACCATATATTTTT
1 AAATTAAGATAAAAATAA-AATATATTTTT
*
581847 AAATTAAGATAAAAATAAAATATATTTAAT
1 AAATTAAGATAAAAATAAAATATATTT-TT
* * * **
581877 AATTTCATATAAAAATAAAATATATTTAG
1 AAATTAAGATAAAAATAAAATATATTTTT
* * *
581906 ATATTTTATATAAAAATAAAATATATTTTTT
1 A-AATTAAGATAAAAATAAAATATA-TTTTT
* * * *
581937 AAAGTTGAGCTCTATTAAAATAAAAAAATGTTTTT
1 AAA-TTAAG----ATAAAAAT-AAAATATATTTTT
*
581972 AAAAGTTAAGATAAAAATAAAAATATATTAATT
1 -AAA-TTAAGATAAAAAT-AAAATATATT-TTT
* *
582005 AAGTTAAGATAAAATTAAAATA-ATTTTTT
1 AAATTAAGATAAAAATAAAATATA-TTTTT
* * **
582034 AAGTTAAAAT-AAAATATTATATATTTTT
1 AAATTAAGATAAAAATAAAATATATTTTT
* *
582062 AAGTTAAAGACAAAAAT
1 AAATT-AAGATAAAAAT
582079 GTATATTTCT
Statistics
Matches: 187, Mismatches: 30, Indels: 30
0.76 0.12 0.12
Matches are distributed among these distances:
28 18 0.10
29 26 0.14
30 78 0.42
31 19 0.10
32 18 0.10
33 2 0.01
35 12 0.06
36 14 0.07
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.38
Consensus pattern (29 bp):
AAATTAAGATAAAAATAAAATATATTTTT
Found at i:582045 original size:29 final size:29
Alignment explanation
Indices: 581952--582069 Score: 98
Period size: 31 Copynumber: 4.0 Consensus size: 29
581942 TGAGCTCTAT
* * *
581952 TAAAATAAAAAAATGTTTTTAAAAGTTAAGA
1 TAAAATAAAATAATATTTTT--AAGTTAAAA
* *
581983 TAAAAATAAAA-ATATATTAATTAAGTTAAGA
1 T-AAAATAAAATA-ATATT-TTTAAGTTAAAA
582014 TAAAATTAAAATAAT-TTTTTAAGTTAAAA
1 TAAAA-TAAAATAATATTTTTAAGTTAAAA
**
582043 TAAAATATTAT-ATATTTTTAAGTTAAA
1 TAAAATAAAATAATATTTTTAAGTTAAA
582070 GACAAAAATG
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
27 2 0.03
28 17 0.23
29 15 0.20
30 6 0.08
31 19 0.25
32 14 0.19
33 2 0.03
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (29 bp):
TAAAATAAAATAATATTTTTAAGTTAAAA
Found at i:582069 original size:28 final size:27
Alignment explanation
Indices: 581993--582069 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 27
581983 TAAAAATAAA
* *
581993 AATATATTAATTAAGTTAAGATAAAATT
1 AATATATT-TTTAAGTTAAAATAAAATT
*
582021 AAAATAATTTTTTAAGTTAAAATAAAATAT
1 AATAT-A-TTTTTAAGTTAAAATAAAAT-T
*
582051 TATATATTTTTAAGTTAAA
1 AATATATTTTTAAGTTAAA
582070 GACAAAAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
28 17 0.41
29 18 0.44
30 6 0.15
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (27 bp):
AATATATTTTTAAGTTAAAATAAAATT
Found at i:582086 original size:27 final size:28
Alignment explanation
Indices: 582029--582084 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
582019 TTAAAATAAT
*
582029 TTTTTAAGTTAAAATAAAATATTATATA
1 TTTTTAAGTTAAAACAAAATATTATATA
582057 TTTTTAAGTTAAAGACAAAA-ATGTATAT
1 TTTTTAAGTTAAA-ACAAAATAT-TATAT
582085 TTCTAAATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (28 bp):
TTTTTAAGTTAAAACAAAATATTATATA
Found at i:586610 original size:35 final size:34
Alignment explanation
Indices: 586525--586611 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
586515 AAAATAATTT
*
586525 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
* *
586559 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGG
586597 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
586612 ACTGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:588973 original size:17 final size:18
Alignment explanation
Indices: 588932--588970 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
588922 ATTATATAAG
588932 TAAAATA-TTAAATAAAT
1 TAAAATACTTAAATAAAT
588949 TAAAATACTTAAATAAAT
1 TAAAATACTTAAATAAAT
588967 TAAA
1 TAAA
588971 TACAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATACTTAAATAAAT
Found at i:590822 original size:12 final size:12
Alignment explanation
Indices: 590805--590836 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
590795 TTAAGTGTTC
590805 GAAACAAGGTAA
1 GAAACAAGGTAA
590817 GAAACAAGGTAA
1 GAAACAAGGTAA
590829 GAAACAAG
1 GAAACAAG
590837 ATTATAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.09, G:0.25, T:0.06
Consensus pattern (12 bp):
GAAACAAGGTAA
Found at i:590991 original size:3 final size:3
Alignment explanation
Indices: 590983--591021 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
590973 AATAGTAATA
590983 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
591022 AAGAATATGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:595181 original size:21 final size:20
Alignment explanation
Indices: 595155--595195 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
595145 ATAGAATAAT
*
595155 GACTTTGGCCAAAGGAAAAGA
1 GACTTTGG-CAAAAGAAAAGA
*
595176 GACTTTTGCAAAAGAAAAGA
1 GACTTTGGCAAAAGAAAAGA
595196 AAGAACTCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.46, C:0.12, G:0.24, T:0.17
Consensus pattern (20 bp):
GACTTTGGCAAAAGAAAAGA
Found at i:598063 original size:21 final size:19
Alignment explanation
Indices: 598048--598193 Score: 120
Period size: 19 Copynumber: 7.2 Consensus size: 19
598038 GAGAGAGAAG
598048 AAGATAAAAAAAAGAGAAAAA
1 AAGA-AAAAAAAAGAG-AAAA
*
598069 AAGAGAAAAAAAGAGAAAGA
1 AAGAAAAAAAAAGAGAAA-A
*
598089 AA-AGAAAAAAAGA-AAAA
1 AAGAAAAAAAAAGAGAAAA
598106 AAGAAAAAGAAAAGAGAAAA
1 AAGAAAAA-AAAAGAGAAAA
598126 TATAGAAAAAGAAGAAG-GAAAA
1 -A-AGAAAAA-AA-AAGAGAAAA
*
598148 AAGAGAAAAGAAAGAAGAAACA
1 AAGA-AAAAAAAAG-AGAAA-A
598170 AGAGAAAAAGAAAA-AGAAAA
1 A-AGAAAAA-AAAAGAGAAAA
598190 AAGA
1 AAGA
598194 GAGAGAAAAT
Statistics
Matches: 108, Mismatches: 4, Indels: 28
0.77 0.03 0.20
Matches are distributed among these distances:
17 3 0.03
18 7 0.06
19 26 0.24
20 23 0.21
21 19 0.18
22 21 0.19
23 9 0.08
ACGTcount: A:0.77, C:0.01, G:0.20, T:0.02
Consensus pattern (19 bp):
AAGAAAAAAAAAGAGAAAA
Found at i:598078 original size:22 final size:21
Alignment explanation
Indices: 598039--598191 Score: 99
Period size: 21 Copynumber: 7.5 Consensus size: 21
598029 GATAAAAATG
* * *
598039 AGAGAGAAGAAGATAAAAAAA
1 AGAGAAAAAAAGAAAAAAAAA
*
598060 AGAGAAAAAAAG-AGAAAAAA
1 AGAGAAAAAAAGAAAAAAAAA
598080 AGAG----AAAGAAAAGAAAAA
1 AGAGAAAAAAAGAAAA-AAAAA
*
598098 A-AGAAAAAAAGAAAAAGAAA
1 AGAGAAAAAAAGAAAAAAAAA
* *
598118 AGAGAAAATATAGAAAAAGAAGA
1 AGAGAAAA-AAAGAAAAA-AAAA
*
598141 AG-GAAAAAAGAGAAAAGAAAGA
1 AGAGAAAAAA-AGAAAA-AAAAA
* * *
598163 AGA-AACAAGAGAAAAAGAAA
1 AGAGAAAAAAAGAAAAAAAAA
598183 A-AGAAAAAA
1 AGAGAAAAAA
598192 GAGAGAGAAA
Statistics
Matches: 103, Mismatches: 16, Indels: 27
0.71 0.11 0.18
Matches are distributed among these distances:
16 4 0.04
17 4 0.04
18 6 0.06
19 1 0.01
20 23 0.22
21 31 0.30
22 29 0.28
23 5 0.05
ACGTcount: A:0.76, C:0.01, G:0.21, T:0.02
Consensus pattern (21 bp):
AGAGAAAAAAAGAAAAAAAAA
Found at i:598092 original size:31 final size:30
Alignment explanation
Indices: 598048--598178 Score: 117
Period size: 31 Copynumber: 4.3 Consensus size: 30
598038 GAGAGAGAAG
*
598048 AAGATAAAAAAAAGAGAAAA-AAAGAGAAAAA
1 AAGAGAAAAAA-AGAGAAAAGAAAGA-AAAAA
*
598079 AAGAGAAAGAAA-AGAAAA-AAAG-AAAAA
1 AAGAGAAAAAAAGAGAAAAGAAAGAAAAAA
* * * *
598106 AAGAAAAAGAAAAGAGAAAATATAGAAAAAG
1 AAGAGAAA-AAAAGAGAAAAGAAAGAAAAAA
* *
598137 AAGAAGGAAAAAAGAGAAAAGAAAGAAGAAAC
1 AAG-AGAAAAAAAGAGAAAAGAAAGAA-AAAA
598169 AAGAGAAAAA
1 AAGAGAAAAA
598179 GAAAAAGAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
27 12 0.15
28 3 0.04
29 16 0.20
30 4 0.05
31 38 0.46
32 9 0.11
ACGTcount: A:0.77, C:0.01, G:0.20, T:0.02
Consensus pattern (30 bp):
AAGAGAAAAAAAGAGAAAAGAAAGAAAAAA
Found at i:598114 original size:43 final size:45
Alignment explanation
Indices: 598043--598187 Score: 120
Period size: 49 Copynumber: 3.1 Consensus size: 45
598033 AAAATGAGAG
* * *
598043 AGAAGAAGATAAAAAA-AAGAGAA-AAAAAGAGA-AAAAAAGAGAA
1 AGAAGAAGA-AAAAAAGAAAAAAAGAAAAAGAGAGAAAAAAGAAAA
598086 AGAA-AAGAAAAAAAGAAAAAAAGAAAAAGAAAAGAGAAAATATAGAAAA
1 AGAAGAAGAAAAAAAGAAAAAAAGAAAAAG---AGAGAAAA-A-AGAAAA
*
598135 AGAAGAAGGAAAAAAGAGAAAAGAAAGAAGAAACA-AGAGAAAAAGAAAA
1 AGAAGAA-GAAAAAA-AGAAAA-AAAGAA-AAAGAGAGA-AAAAAGAAAA
598184 AGAA
1 AGAA
598188 AAAAGAGAGA
Statistics
Matches: 84, Mismatches: 4, Indels: 22
0.76 0.04 0.20
Matches are distributed among these distances:
41 6 0.07
42 9 0.11
43 10 0.12
46 3 0.04
47 4 0.05
48 1 0.01
49 19 0.23
50 6 0.07
51 11 0.13
52 6 0.07
53 6 0.07
54 3 0.04
ACGTcount: A:0.77, C:0.01, G:0.21, T:0.02
Consensus pattern (45 bp):
AGAAGAAGAAAAAAAGAAAAAAAGAAAAAGAGAGAAAAAAGAAAA
Found at i:598191 original size:43 final size:41
Alignment explanation
Indices: 598043--598197 Score: 115
Period size: 40 Copynumber: 3.8 Consensus size: 41
598033 AAAATGAGAG
* * *
598043 AGAAGAAGATAAAAAAAAGAGAAAAAAAGAGAAAA-AAAG-
1 AGAAAAAGAGAAAAAAAAAAGAAAAAAAGAGAAAAGAAAGA
* *
598082 AGAAAGAAAAGAAAAAAAGAAA-AAAAGAAAAAGAAAAG--AGA
1 AGAAA-AAGAGAAAAAAA-AAAGAAAA-AAAGAGAAAAGAAAGA
* * * * * *
598123 AAATATAGA-AAAAGAAGAAGGAAAAAAGAGAAAAGAAAGA
1 AGAAAAAGAGAAAAAAAAAAGAAAAAAAGAGAAAAGAAAGA
598163 AGAAACAAGAGAAAAAGAAAAAGAAAAAAGAGAGA
1 AGAAA-AAGAGAAAAA-AAAAAGAAAAAA-AGAGA
598198 GAAAATAAAT
Statistics
Matches: 85, Mismatches: 19, Indels: 19
0.69 0.15 0.15
Matches are distributed among these distances:
38 12 0.14
39 13 0.15
40 24 0.28
41 17 0.20
42 4 0.05
43 10 0.12
44 5 0.06
ACGTcount: A:0.76, C:0.01, G:0.21, T:0.02
Consensus pattern (41 bp):
AGAAAAAGAGAAAAAAAAAAGAAAAAAAGAGAAAAGAAAGA
Found at i:598195 original size:21 final size:20
Alignment explanation
Indices: 598055--598193 Score: 115
Period size: 21 Copynumber: 6.8 Consensus size: 20
598045 AAGAAGATAA
* *
598055 AAAAAAGAGAAAA-AAAGAG
1 AAAAAAGAAAAAAGAAAAAG
*
598074 AAAAAA-AGAGAAAG-AAAAG
1 AAAAAAGA-AAAAAGAAAAAG
598093 AAAAAAAGAAAAAAAGAAAAAG
1 -AAAAAAG-AAAAAAGAAAAAG
*
598115 AAAAGAGAAAATATAGAAAAAG
1 AAAAAAGAAAA-A-AGAAAAAG
* *
598137 AAGAAGGAAAAAAGAGAAAAG
1 AAAAAAGAAAAAAGA-AAAAG
*
598158 AAAGAAGAAACAAGAGAAAAAG
1 AAAAAAGAAA-AA-AGAAAAAG
598180 -AAAAAGAAAAAAGA
1 AAAAAAGAAAAAAGA
598194 GAGAGAAAAT
Statistics
Matches: 97, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
18 1 0.01
19 16 0.16
20 15 0.15
21 33 0.34
22 29 0.30
23 3 0.03
ACGTcount: A:0.78, C:0.01, G:0.20, T:0.01
Consensus pattern (20 bp):
AAAAAAGAAAAAAGAAAAAG
Found at i:598201 original size:77 final size:74
Alignment explanation
Indices: 598032--598204 Score: 197
Period size: 79 Copynumber: 2.3 Consensus size: 74
598022 ATATAGAGAT
* *
598032 AAAAATGAGAGAGAAGAAGATAAAAAAAAGAGAAAAAAAGAGAAAAAAAGAGAAAGAAAAGAAAA
1 AAAAAAGAGAGAGAA-AATATAAAAAAAAGAGAAAAAAAGAGAAAAAAAGAGAAAGAAAAGAAAA
598097 AAAGAAAAAA
65 AAAGAAAAAA
* * *
598107 AGAAAAAGAAAAGAGAAAATATAGAAAAAGAAGAAGGAAAAAAGAGAAAAGAAAGA-AGAA-ACA
1 A-AAAAAG-AGAGAGAAAATATA-AAAAA-AAG-AGAAAAAAAGAGAAAA-AAAGAGA-AAGAAA
* *
598170 AGAGAAAAAGAAAAAG
59 AGAAAAAAAGAAAAAA
598186 AAAAAAGAGAGAGAAAATA
1 AAAAAAGAGAGAGAAAATA
598205 AATCAAATAT
Statistics
Matches: 83, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
75 1 0.01
76 10 0.12
77 23 0.28
78 9 0.11
79 33 0.40
80 7 0.08
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.03
Consensus pattern (74 bp):
AAAAAAGAGAGAGAAAATATAAAAAAAAGAGAAAAAAAGAGAAAAAAAGAGAAAGAAAAGAAAAA
AAGAAAAAA
Found at i:600036 original size:38 final size:38
Alignment explanation
Indices: 599973--600607 Score: 769
Period size: 38 Copynumber: 16.6 Consensus size: 38
599963 TTTTGATCTC
* * * *
599973 CCTCATGAAGAGTATTCGATCTTTGTTATTCTTGACTT
1 CCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTT
* *
600011 CCTCGTGAAGAGAAGTCAATATTTGTCT-TTATTGACTT
1 CCTCGTGAAGAGAAGTCAATCTTTGT-TATTCTTGACTT
600049 CCTCGTG-AGAGAAGTCAATCTTTGTTATTCTTGACTT
1 CCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTT
* * *
600086 CCTCATGAAGAGAAGTCGATCTTTTTTATTCTTGACTT
1 CCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTT
** *
600124 CCTTATGAAGAGAAATCAATCTTTGTTATTCTTGACTT
1 CCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTT
* * * *
600162 CTTCATTAAGAGAAGTCGATCTTTGTTATTCTTGACTT
1 CCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTT
* * * *
600200 CCTCTTGAAGAGAATTCAATATTTGTT-TTCCTTAACTT
1 CCTCGTGAAGAGAAGTCAATCTTTGTTATT-CTTGACTT
*
600238 CCTCATGAAGAGAAGTTC-ATCTTTGTTATTCTTGACTT
1 CCTCGTGAAGAGAAG-TCAATCTTTGTTATTCTTGACTT
*
600276 CCTCGTGAAGAGAAGTCAATCTTTGTTATTCTGGACTT
1 CCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTT
* *
600314 CCTCGTGAAGAGAAGTCGATCTTTTTTATTCTTGACTT
1 CCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTT
* * * * *
600352 TCTCTTGAAGAGAAGCCAATCTTTGTCT-TCCTTGACTA
1 CCTCGTGAAGAGAAGTCAATCTTTGT-TATTCTTGACTT
* * *
600390 CCTTGTGAAGAGAAATCACTCTTTGTTATTCTTGACTT
1 CCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTT
* * *
600428 CCTTGTGAAAAGAAGTCGATCTTTGTTATTCTTGACTT
1 CCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTT
*
600466 CCTCGTGAAGAGAAGTCAATGTTTGTTATTCTTGACTT
1 CCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTT
* * *
600504 CCTCATGAAGAGAAGTCAATCTTAGTTATTCTTGACTC
1 CCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTT
* *
600542 CCTCATAAAGATG-AGTCAATCTTTCAGTGTTATTCTTGACTT
1 CCTCGTGAAGA-GAAGTCAATC-TT---TGTTATTCTTGACTT
*
600584 TCTCGTGAAGAGAAGTCAATCTTT
1 CCTCGTGAAGAGAAGTCAATCTTT
600608 CAGCATTGTC
Statistics
Matches: 513, Mismatches: 69, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.00
37 37 0.07
38 434 0.85
39 9 0.02
41 3 0.01
42 29 0.06
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.41
Consensus pattern (38 bp):
CCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTT
Found at i:600631 original size:45 final size:45
Alignment explanation
Indices: 600555--601056 Score: 481
Period size: 45 Copynumber: 11.4 Consensus size: 45
600545 CATAAAGATG
*
600555 AGTCAATCTTTCAG---TGTTATTCTTGACTTTCTCGTGAAGAGA
1 AGTCAATCTTTCAGTATTGTCATTCTTGACTTTCTCGTGAAGAGA
* *
600597 AGTCAATCTTTCAGCATTGTCATTCTTGACTTTCTCGTGAATAGA
1 AGTCAATCTTTCAGTATTGTCATTCTTGACTTTCTCGTGAAGAGA
* * *
600642 ATTCAATCTCTCAGTATTGTCATTATTGACTTTCTCGTGAAGATG-
1 AGTCAATCTTTCAGTATTGTCATTCTTGACTTTCTCGTGAAGA-GA
* * * *
600687 ACTCAATCTTTCA--A-TGTTATTCTTGACTTTCACGTGAAAAGA
1 AGTCAATCTTTCAGTATTGTCATTCTTGACTTTCTCGTGAAGAGA
* *
600729 AGTCAATCTGTCAGTATTGTCATTCTTGACTTTCTCGTGAAGAGG
1 AGTCAATCTTTCAGTATTGTCATTCTTGACTTTCTCGTGAAGAGA
* * * *
600774 AGTCAATATTTCAGTGTTGTC-TTCCTTGACTTTCTCGTAAAGAGG
1 AGTCAATCTTTCAGTATTGTCATT-CTTGACTTTCTCGTGAAGAGA
* * * * * * *
600819 AGTCAATATTTTAGTGTTGTCCTTCTTGACTTTATCGCGAAGAGG
1 AGTCAATCTTTCAGTATTGTCATTCTTGACTTTCTCGTGAAGAGA
* * * * *
600864 AGTCAATCTTTTAGTGTCT-TCATTATTAACTTTCTCGTGAGGA-A
1 AGTCAATCTTTCAGTAT-TGTCATTCTTGACTTTCTCGTGAAGAGA
* * *
600908 GAGTTAATATTTCAG---TGTTATTCTTGACTTTCTCGTGAAGAGA
1 -AGTCAATCTTTCAGTATTGTCATTCTTGACTTTCTCGTGAAGAGA
** * * *
600951 AGTCAATCCCTCAGTATTGTCATTATTGAATTTCTCGTGAAGAGG
1 AGTCAATCTTTCAGTATTGTCATTCTTGACTTTCTCGTGAAGAGA
* * * * * * *
600996 AGTCAATATTTTAGTGTTGTCCTTCTTGACTTTCTCGCGGAGAGG
1 AGTCAATCTTTCAGTATTGTCATTCTTGACTTTCTCGTGAAGAGA
*
601041 AGTCAATTTTTCAGTA
1 AGTCAATCTTTCAGTA
601057 GTATTATTCA
Statistics
Matches: 380, Mismatches: 63, Indels: 31
0.80 0.13 0.07
Matches are distributed among these distances:
41 2 0.01
42 77 0.20
43 2 0.01
44 3 0.01
45 292 0.77
46 4 0.01
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (45 bp):
AGTCAATCTTTCAGTATTGTCATTCTTGACTTTCTCGTGAAGAGA
Found at i:600723 original size:132 final size:132
Alignment explanation
Indices: 600451--601056 Score: 437
Period size: 132 Copynumber: 4.7 Consensus size: 132
600441 AGTCGATCTT
* * * * *
600451 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATGTTT--G---T-T-ATTCTTGACTTCCTCA
1 TGTTATTCTTGACTTTCACGTGAAGAGAAGTCAATCTTTCAGCATTGTCATTCTTGACTTTCTCG
* * ** *
600509 TGAAGAGAAGTC-A-ATCT---TAGT-TATTC-TTGACTCCCTCATAAAGATGAGTCAATCTTTC
66 TGAAGAGAAGTCAATATCTCAGTATTGTCTTCATTGACTTTCTCGTAAAGATGAGTCAATCTTTC
600567 AG
131 AG
*
600569 TGTTATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAGCATTGTCATTCTTGACTTTCTCG
1 TGTTATTCTTGACTTTCACGTGAAGAGAAGTCAATCTTTCAGCATTGTCATTCTTGACTTTCTCG
* * * * *
600634 TGAATAGAATTCAATCTCTCAGTATTGTCATT-ATTGACTTTCTCGTGAAGATGACTCAATCTTT
66 TGAAGAGAAGTCAATATCTCAGTATTGTC-TTCATTGACTTTCTCGTAAAGATGAGTCAATCTTT
*
600698 CAA
130 CAG
* * *
600701 TGTTATTCTTGACTTTCACGTGAAAAGAAGTCAATCTGTCAGTATTGTCATTCTTGACTTTCTCG
1 TGTTATTCTTGACTTTCACGTGAAGAGAAGTCAATCTTTCAGCATTGTCATTCTTGACTTTCTCG
* * * * * * *
600766 TGAAGAGGAGTCAATATTTCAGTGTTGTCTTCCTTGACTTTCTCGTAAAGAGGAGTCAATATTTT
66 TGAAGAGAAGTCAATATCTCAGTATTGTCTTCATTGACTTTCTCGTAAAGATGAGTCAATCTTTC
600831 AG
131 AG
* * * * ** * *
600833 TGTTGTCCTTCTTGACTTT-ATCGCGAAGAGGAGTCAATCTTTTAGTGTCT-TCATTATTAACTT
1 TG-T-T-ATTCTTGACTTTCA-CGTGAAGAGAAGTCAATCTTTCAGCAT-TGTCATTCTTGACTT
* * * * * *
600896 TCTCGTGAGGA-AGAGTTAATATTTCAGT-GT-TATTC-TTGACTTTCTCGTGAAGA-GAAGTCA
61 TCTCGTGAAGAGA-AGTCAATATCTCAGTATTGTCTTCATTGACTTTCTCGTAAAGATG-AGTCA
**
600956 ATCCCTCAG
124 ATCTTTCAG
* * * * * * * ** *
600965 TATTGTCATTATTGAATTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTTCTTGACTTTC
1 ---TGTTATTCTTGACTTTCACGTGAAGAGAAGTCAATCTTTCAGCATTGTCATTCTTGACTTTC
* * * * *
601030 TCGCGGAGAGGAGTCAATTTTTCAGTA
63 TCGTGAAGAGAAGTCAATATCTCAGTA
601057 GTATTATTCA
Statistics
Matches: 391, Mismatches: 67, Indels: 45
0.78 0.13 0.09
Matches are distributed among these distances:
118 37 0.09
120 1 0.00
123 1 0.00
124 1 0.00
125 24 0.06
126 1 0.00
127 3 0.01
130 3 0.01
131 5 0.01
132 236 0.60
133 5 0.01
134 4 0.01
135 69 0.18
136 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (132 bp):
TGTTATTCTTGACTTTCACGTGAAGAGAAGTCAATCTTTCAGCATTGTCATTCTTGACTTTCTCG
TGAAGAGAAGTCAATATCTCAGTATTGTCTTCATTGACTTTCTCGTAAAGATGAGTCAATCTTTC
AG
Found at i:600804 original size:177 final size:176
Alignment explanation
Indices: 600554--601053 Score: 486
Period size: 177 Copynumber: 2.8 Consensus size: 176
600544 TCATAAAGAT
* * * *
600554 GAGTCAATCTTTCAGTGTTATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTCAGCATTGTCA
1 GAGTCAATATGTCAGTGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAATATTTCAGCATTGTCA
* * * * * *
600619 TTCTTGACTTTCTCGTGAATAGAATTCAATCTCTCAGTATTGTCATTATTGACTTTCTCGTGAAG
66 TTCTTGACTTTCTCGTAAAGAGAAGTCAATATCTCAGTATTGTCATTATTGACTTTATCGCGAAG
* * *
600684 ATGACTCAATCTTTCAATG-TT-ATTCTTGACTTTCACGTGA-AAA
131 AGGACTCAATCTTTCAATGCTTCATTATTAACTTTCACGTGAGAAA
* * **
600727 GAAGTCAATCTGTCAGTATTGTCATTCTTGACTTTCTCGTGAAGAGGAGTCAATATTTCAGTGTT
1 G-AGTCAATATGTCAG---TGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAATATTTCAGCATT
* * * * * *
600792 GTC-TTCCTTGACTTTCTCGTAAAGAGGAGTCAATATTTTAGTGTTGTCCTTCTTGACTTTATCG
62 GTCATT-CTTGACTTTCTCGTAAAGAGAAGTCAATATCTCAGTATTGTCATTATTGACTTTATCG
* * * * *
600856 CGAAGAGGAGTCAATCTTTTAGTGTCTTCATTATTAACTTTCTCGTGAGGAA
126 CGAAGAGGACTCAATCTTTCAATG-CTTCATTATTAACTTTCACGTGAGAAA
* * * *** *
600908 GAGTTAATATTTCAGTGTTATTCTTGACTTTCTCGTGAAGAGAAGTCAATCCCTCAGTATTGTCA
1 GAGTCAATATGTCAGTGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAATATTTCAGCATTGTCA
* * * * * * * * * * *
600973 TTATTGAATTTCTCGTGAAGAGGAGTCAATATTTTAGTGTTGTCCTTCTTGACTTTCTCGCGGAG
66 TTCTTGACTTTCTCGTAAAGAGAAGTCAATATCTCAGTATTGTCATTATTGACTTTATCGCGAAG
* *
601038 AGGAGTCAATTTTTCA
131 AGGACTCAATCTTTCA
601054 GTAGTATTAT
Statistics
Matches: 275, Mismatches: 42, Indels: 16
0.83 0.13 0.05
Matches are distributed among these distances:
173 1 0.00
174 13 0.05
176 2 0.01
177 225 0.82
178 2 0.01
179 2 0.01
180 27 0.10
181 3 0.01
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (176 bp):
GAGTCAATATGTCAGTGTCATTCTTGACTTTCTCGTGAAGAGAAGTCAATATTTCAGCATTGTCA
TTCTTGACTTTCTCGTAAAGAGAAGTCAATATCTCAGTATTGTCATTATTGACTTTATCGCGAAG
AGGACTCAATCTTTCAATGCTTCATTATTAACTTTCACGTGAGAAA
Found at i:602134 original size:132 final size:132
Alignment explanation
Indices: 601848--602173 Score: 352
Period size: 132 Copynumber: 2.5 Consensus size: 132
601838 AAATTTCTCC
* * * * * * * * * *
601848 TCTTTCAGTTTTGGTCTTACTGAAGAGAAACAAAGCAATTCACGTTCGATTCAATCTTCTCTGAA
1 TCTTTCAGATTTGATATTCCTGAAAAGAAGCGAAGCAAATCAAGTTCGATTCAATCTTC-CAGAA
* * * * *
601913 GAGCAGTGAAGTGGATCAAAATTTCCTCGAGTCCGATCTCCCCTAAAGAGTAGTGGGGAAGATTC
65 GAGCAGTGAAGAGGATCAAAATTT-CTCAAGTCCAATCTCCCCTAAAGAGTAGTGGAGAAGATCC
601978 TTCT
129 TTCT
601982 TCTTTCAGATTTGATATTCCTGAAAAGAAGCGAAGCAAATCAAGCTT-GATTCAATCTTCCAAGA
1 TCTTTCAGATTTGATATTCCTGAAAAGAAGCGAAGCAAATCAAG-TTCGATTCAATCTTCC-AGA
* * * * * *
602046 AGAGTAGTGAAGAGGGTCAAAGTTT-TCAAGTCTAATCTCCCCTAAAGAGTAGTGGAGTAGGTCC
64 AGAGCAGTGAAGAGGATCAAAATTTCTCAAGTCCAATCTCCCCTAAAGAGTAGTGGAGAAGAT-C
602110 CTT-T
128 CTTCT
* * * * *
602114 TCTTTTAGATTTGGTATTCCTGAAGAGCAGTGAAGCAAATCAAGTTCGATTCAATCTTCC
1 TCTTTCAGATTTGATATTCCTGAAAAGAAGCGAAGCAAATCAAGTTCGATTCAATCTTCC
602174 CTAAAGAGCA
Statistics
Matches: 162, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
131 2 0.01
132 84 0.52
133 4 0.02
134 70 0.43
135 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (132 bp):
TCTTTCAGATTTGATATTCCTGAAAAGAAGCGAAGCAAATCAAGTTCGATTCAATCTTCCAGAAG
AGCAGTGAAGAGGATCAAAATTTCTCAAGTCCAATCTCCCCTAAAGAGTAGTGGAGAAGATCCTT
CT
Found at i:602470 original size:3 final size:3
Alignment explanation
Indices: 602462--602491 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
602452 AATAGTAATA
*
602462 TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
602492 AAGAATATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:604242 original size:35 final size:35
Alignment explanation
Indices: 604196--604270 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
604186 AAAATACTTT
*
604196 AATTTAGGGTTTATAATACAATTAAAGTATTTTGG
1 AATTTAGGGTTTAGAATACAATTAAAGTATTTTGG
** *
604231 AATTTAGGGTTTAGAATGTAATTAAAGTGTTTTGG
1 AATTTAGGGTTTAGAATACAATTAAAGTATTTTGG
604266 AATTT
1 AATTT
604271 TGAACATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.44
Consensus pattern (35 bp):
AATTTAGGGTTTAGAATACAATTAAAGTATTTTGG
Found at i:606981 original size:172 final size:172
Alignment explanation
Indices: 606695--607032 Score: 660
Period size: 172 Copynumber: 2.0 Consensus size: 172
606685 CAAATGTCGA
606695 TGTCGACTCCAAAACTATTTATTTTTTCTTTATTTTAAAACCTAACCTTTTCCAAGATTAAGTTG
1 TGTCGACTCCAAAACTATTTATTTTTTCTTTATTTTAAAACCTAACCTTTTCCAAGATTAAGTTG
606760 GATTGTTTCCCGCCATAGCCCTAAAAAGCTTAAGTATCGTTCCAACAATAACCAAGAAATCAAAA
66 GATTGTTTCCCGCCATAGCCCTAAAAAGCTTAAGTATCGTTCCAACAATAACCAAGAAATC-AAA
606825 AGATCTCCCTTATGAAGGTG-ACGGTAAAGATGATGAGTGTGG
130 AGATCTCCCTTATGAAGGTGAACGGTAAAGATGATGAGTGTGG
606867 TGTCGACTCCAAAACTATTTATTTTTTCTTTATTTTAAAACCTAACCTTTTCCAAGATTAAGTTG
1 TGTCGACTCCAAAACTATTTATTTTTTCTTTATTTTAAAACCTAACCTTTTCCAAGATTAAGTTG
606932 GATTGTTTCCCGCCATAGCCCTAAAAAGCTTAAGTATCGTTCCAACAATAACCAAGAAATCAAAA
66 GATTGTTTCCCGCCATAGCCCTAAAAAGCTTAAGTATCGTTCCAACAATAACCAAGAAATCAAAA
606997 GATCTCCCTTATGAAGGTGAACGGTAAAGATGATGA
131 GATCTCCCTTATGAAGGTGAACGGTAAAGATGATGA
607033 TCGTGTGGAT
Statistics
Matches: 165, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
171 23 0.14
172 142 0.86
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (172 bp):
TGTCGACTCCAAAACTATTTATTTTTTCTTTATTTTAAAACCTAACCTTTTCCAAGATTAAGTTG
GATTGTTTCCCGCCATAGCCCTAAAAAGCTTAAGTATCGTTCCAACAATAACCAAGAAATCAAAA
GATCTCCCTTATGAAGGTGAACGGTAAAGATGATGAGTGTGG
Found at i:613496 original size:84 final size:85
Alignment explanation
Indices: 613391--613603 Score: 279
Period size: 84 Copynumber: 2.5 Consensus size: 85
613381 AATGACGTGT
* * *
613391 GCTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTATGT
1 GCTTCAATGACGCTCAATGTAAGTCATACATGCGAGTCATAAATTTATGACACACAAATGTATGT
* *
613456 CAAGTTGATTTATGA-CAGG
66 CAACTTGATATATGATCAGG
* *
613475 GCTTCAATGACGTTCAATGTAAGTCATACATGCGAGTCATAAATTTATGACACACAAATGTGTGT
1 GCTTCAATGACGCTCAATGTAAGTCATACATGCGAGTCATAAATTTATGACACACAAATGTATGT
* * **
613540 CATCTTTATATATGATGGGG
66 CAACTTGATATATGATCAGG
*
613560 GCTTCAATGACGCTCAATG-AACGTCATAAATGC-ACGTCATAAAT
1 GCTTCAATGACGCTCAATGTAA-GTCATACATGCGA-GTCATAAAT
613604 GTGTGTCATA
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
84 74 0.65
85 39 0.35
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (85 bp):
GCTTCAATGACGCTCAATGTAAGTCATACATGCGAGTCATAAATTTATGACACACAAATGTATGT
CAACTTGATATATGATCAGG
Found at i:613596 original size:13 final size:13
Alignment explanation
Indices: 613575--613631 Score: 69
Period size: 13 Copynumber: 4.4 Consensus size: 13
613565 AATGACGCTC
*
613575 AATGAACGTCATA
1 AATGCACGTCATA
613588 AATGCACGTCATA
1 AATGCACGTCATA
***
613601 AATGTGTGTCATA
1 AATGCACGTCATA
*
613614 AATGCGCGTCATA
1 AATGCACGTCATA
613627 AATGC
1 AATGC
613632 GCATCATAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (13 bp):
AATGCACGTCATA
Found at i:613604 original size:26 final size:26
Alignment explanation
Indices: 613575--613630 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
613565 AATGACGCTC
613575 AATGAACGTCATAAATGCACGTCATA
1 AATGAACGTCATAAATGCACGTCATA
*** *
613601 AATGTGTGTCATAAATGCGCGTCATA
1 AATGAACGTCATAAATGCACGTCATA
613627 AATG
1 AATG
613631 CGCATCATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (26 bp):
AATGAACGTCATAAATGCACGTCATA
Found at i:613632 original size:13 final size:13
Alignment explanation
Indices: 613581--613639 Score: 82
Period size: 13 Copynumber: 4.5 Consensus size: 13
613571 GCTCAATGAA
*
613581 CGTCATAAATGCA
1 CGTCATAAATGCG
*
613594 CGTCATAAATGTG
1 CGTCATAAATGCG
*
613607 TGTCATAAATGCG
1 CGTCATAAATGCG
613620 CGTCATAAATGCG
1 CGTCATAAATGCG
*
613633 CATCATA
1 CGTCATA
613640 GATTTATGAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (13 bp):
CGTCATAAATGCG
Found at i:615112 original size:15 final size:15
Alignment explanation
Indices: 615094--615122 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
615084 TTGGAATTAC
615094 GTCACACCAAATTTT
1 GTCACACCAAATTTT
615109 GTCACACCAAATTT
1 GTCACACCAAATTT
615123 CGTAACAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (15 bp):
GTCACACCAAATTTT
Found at i:622053 original size:7 final size:7
Alignment explanation
Indices: 622043--622067 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
622033 ATTGTCAATG
622043 AAATTTT
1 AAATTTT
622050 AAATTTT
1 AAATTTT
622057 AAATTTT
1 AAATTTT
622064 AAAT
1 AAAT
622068 ACTAAATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AAATTTT
Found at i:622709 original size:43 final size:43
Alignment explanation
Indices: 622648--622733 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
622638 TCAGAAATGC
622648 ACATTAGGAAGAAAAGAACTACAAACTTAATACATTAACATAA
1 ACATTAGGAAGAAAAGAACTACAAACTTAATACATTAACATAA
622691 ACATTAGGAAGAAAAGAACTACAAACTTAATACATTAACATAA
1 ACATTAGGAAGAAAAGAACTACAAACTTAATACATTAACATAA
622734 TGTCGTAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.56, C:0.14, G:0.09, T:0.21
Consensus pattern (43 bp):
ACATTAGGAAGAAAAGAACTACAAACTTAATACATTAACATAA
Found at i:628705 original size:18 final size:20
Alignment explanation
Indices: 628682--628721 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
628672 GCATTGCATC
628682 AACATTGCA-TTTACTT-TT
1 AACATTGCATTTTACTTATT
628700 AACATTGCATTTTACTTATT
1 AACATTGCATTTTACTTATT
628720 AA
1 AA
628722 TAGTCATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.45
19 7 0.35
20 4 0.20
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.47
Consensus pattern (20 bp):
AACATTGCATTTTACTTATT
Found at i:633088 original size:112 final size:112
Alignment explanation
Indices: 632888--633188 Score: 379
Period size: 112 Copynumber: 2.7 Consensus size: 112
632878 TTTACAGATC
* * * * * *
632888 TGATATTCCCTTTAGAAGAAGCAGAACAAATTCCTCTTTTCCAAGATTTGATATTCCCTTAGAAT
1 TGATATTACCTATACAAGAAGCAGAACAAATCCCTCTCTTCCAAGATTTGATATTCCCTTAGAAG
** * * * * *
632953 AAGTGGAACAAGTCTACCTCGATTTAATGGATCAACTCCCCTAGA-T
66 AAGCAGAACAAGTCTACCCCGATTAAATGGATAAACTCCCCCAAACT
* * * *
632999 ATGATATTATCTATACAATAAGCGGAACAAATCCCTCTCTTCCAAGATTTCATATTCCCTTAGAA
1 -TGATATTACCTATACAAGAAGCAGAACAAATCCCTCTCTTCCAAGATTTGATATTCCCTTAGAA
*
633064 GAAGCAGAACAAGTCTACCCCGATTAAATGTATAAACTCCCCCAAACT
65 GAAGCAGAACAAGTCTACCCCGATTAAATGGATAAACTCCCCCAAACT
* * * *
633112 TGATATTCCCTTTACAAGAAGCAGAACAAATCCCTCTCTTCCAAAATTTGATATTCCCTTTACAA
1 TGATATTACCTATACAAGAAGCAGAACAAATCCCTCTCTTCCAAGATTTGATATTCCC-TTAGAA
633177 GAAGCAGAACAA
65 GAAGCAGAACAA
633189 ATCCCTCTCT
Statistics
Matches: 161, Mismatches: 26, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
112 143 0.89
113 18 0.11
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.29
Consensus pattern (112 bp):
TGATATTACCTATACAAGAAGCAGAACAAATCCCTCTCTTCCAAGATTTGATATTCCCTTAGAAG
AAGCAGAACAAGTCTACCCCGATTAAATGGATAAACTCCCCCAAACT
Found at i:633167 original size:48 final size:48
Alignment explanation
Indices: 633111--633235 Score: 225
Period size: 48 Copynumber: 2.6 Consensus size: 48
633101 TCCCCCAAAC
633111 TTGATATTCCCTTTACAAGAAGCAGAACAAATCCCTCTCTTCCAAAAT
1 TTGATATTCCCTTTACAAGAAGCAGAACAAATCCCTCTCTTCCAAAAT
633159 TTGATATTCCCTTTACAAGAAGCAGAACAAATCCCTCTCTTCCAAAAT
1 TTGATATTCCCTTTACAAGAAGCAGAACAAATCCCTCTCTTCCAAAAT
* *
633207 TTGATATTCCC-TTAGAAGAAGCGGAACAA
1 TTGATATTCCCTTTACAAGAAGCAGAACAA
633236 GTCTACCCCG
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
47 16 0.21
48 59 0.79
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (48 bp):
TTGATATTCCCTTTACAAGAAGCAGAACAAATCCCTCTCTTCCAAAAT
Found at i:633189 original size:160 final size:159
Alignment explanation
Indices: 633012--633339 Score: 507
Period size: 160 Copynumber: 2.1 Consensus size: 159
633002 ATATTATCTA
* * *
633012 TACAATAAGCGGAACAAATCCCTCTCTTCCAAGATTTCATATTCCCTTAGAAGAAGCAGAACAAG
1 TACAAGAAGCAGAACAAATCCCTCTCTTCCAAAATTTCATATTCCCTTAGAAGAAGCAGAACAAG
*
633077 TCTACCCCGATTAAATGTATAAACTCCCCCAAA-CTTGATATTCCCTTTACAAG-AAGCAGAACA
66 TCTACCCCGATTAAATGGATAAACTCCCCCAAATC-TGATATTCCCTTTACAAGAAAG-AGAACA
633140 AATCCCTCTCTTCCAAAATTTGATATTCCCTT
129 AATCCCTCTCTTCCAAAATTTGATATTCCC-T
* *
633172 TACAAGAAGCAGAACAAATCCCTCTCTTCCAAAATTTGATATTCCCTTAGAAGAAGCGGAACAAG
1 TACAAGAAGCAGAACAAATCCCTCTCTTCCAAAATTTCATATTCCCTTAGAAGAAGCAGAACAAG
* * * *
633237 TCTACCCCGATTCAATGGATCAACTCCCCCAGATCTGATATTCTCTTTACAAGAAAGAGAACAAA
66 TCTACCCCGATTAAATGGATAAACTCCCCCAAATCTGATATTCCCTTTACAAGAAAGAGAACAAA
*
633302 TCCCTCTCTTCCAAGATTTGATATTCCCT
131 TCCCTCTCTTCCAAAATTTGATATTCCCT
*
633331 TAGAAGAAG
1 TACAAGAAG
633340 TGGAACAAGT
Statistics
Matches: 154, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
159 9 0.06
160 141 0.92
161 4 0.03
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.27
Consensus pattern (159 bp):
TACAAGAAGCAGAACAAATCCCTCTCTTCCAAAATTTCATATTCCCTTAGAAGAAGCAGAACAAG
TCTACCCCGATTAAATGGATAAACTCCCCCAAATCTGATATTCCCTTTACAAGAAAGAGAACAAA
TCCCTCTCTTCCAAAATTTGATATTCCCT
Found at i:633300 original size:112 final size:111
Alignment explanation
Indices: 633160--634048 Score: 929
Period size: 111 Copynumber: 8.1 Consensus size: 111
633150 TTCCAAAATT
* * *
633160 TGATATTCCCTTTACAAGAAGCAGAACAAATCCCTCTCTTCCAAAATTTGATATTCCCTTAGAAG
1 TGATATTCCC-TTACAAGAAGCAGAACAAATCCATCTCTTCCAAGATTTGATATTCCCTGAGAAG
633225 AAGCGGAACAAGTCTACCCCGATTCAATGGATCAACTCCCCCAGATC
65 AAGCGGAACAAGTCTACCCCGATTCAATGGATCAACTCCCCCAGATC
* * *
633272 TGATATTCTCTTTACAAGAAAG-AGAACAAATCCCTCTCTTCCAAGATTTGATATTCCCTTAGAA
1 TGATATTC-CCTTACAAG-AAGCAGAACAAATCCATCTCTTCCAAGATTTGATATTCCCTGAGAA
* *
633336 GAAGTGGAACAAGTCTACCCCTATTCAATGGATCAACTCCCCCCAGATC
64 GAAGCGGAACAAGTCTACCCCGATTCAATGGATCAACT-CCCCCAGATC
* * * * *
633385 TGATATTCCCTTTACAAGAAGCGGAATAGATCCATCTCTTCCAAGATTTGATATTCCTTTAGAAG
1 TGATATTCCC-TTACAAGAAGCAGAACAAATCCATCTCTTCCAAGATTTGATATTCCCTGAGAAG
* * *
633450 AAGCGGAACATGTCTTCCCCGATTCAATGGATTAACTCCCCC--A--
65 AAGCGGAACAAGTCTACCCCGATTCAATGGATCAACTCCCCCAGATC
* * * * * * * *
633493 -GATATTCCCTTTACAAGAAGCGGAATAGATCCATCTCTTCTAATATTTGATATTCCATTAAAAA
1 TGATATTCCC-TTACAAGAAGCAGAACAAATCCATCTCTTCCAAGATTTGATATTCC-CTGAGAA
* * **
633557 AAAGTGGAACAAGTCTACCCCGATTCAATAAATCAACTCCCCCAGATC
64 GAAGCGGAACAAGTCTACCCCGATTCAATGGATCAACTCCCCCAGATC
* * ** *
633605 TGATATTCCCTTAGAAGAAGCGGAAC--AT--ATCAATTCCAAGATTTGATATTCCCTGAGTAAC
1 TGATATTCCCTTACAAGAAGCAGAACAAATCCATCTCTTCCAAGATTTGATATTCCCTGAG-AAG
* * * * * * *
633666 AA-TGAAACAAGTATGCCCTGATTCAATGGATCAACT-CCCCATATA
65 AAGCGGAACAAGTCTACCCCGATTCAATGGATCAACTCCCCCAGATC
* * * * * *
633711 TGATATTCCCTTAGAAGAAGC-GGA-ATAT--ATCACTTCCAGGATTTGATATTCCCTGAG-TGA
1 TGATATTCCCTTACAAGAAGCAGAACAAATCCATCTCTTCCAAGATTTGATATTCCCTGAGAAGA
* * * * *
633771 CAACGGAACAAGTCTGCCCTGATTCAATGGATCAACTCCCCTAGTTC
66 -AGCGGAACAAGTCTACCCCGATTCAATGGATCAACTCCCCCAGATC
* * * *
633818 TGATATTCCCTTAGAAGAAGCAGAACATAT-CACTCTCTTCAAAGATTTGATATTCCCTGAG-TG
1 TGATATTCCCTTACAAGAAGCAGAACAAATCCA-TCTCTTCCAAGATTTGATATTCCCTGAGAAG
*
633881 ATAGCGGAACAAGTCTGCCCCGATTCAATGGATCAACTCCCCCAGATC
65 A-AGCGGAACAAGTCTACCCCGATTCAATGGATCAACTCCCCCAGATC
* * * * *
633929 TAATATTCCCTTAGAAGAAGCAAAACAAATCCCTCTCTTCCAAGATTTGATATTCCCTGAG-TGA
1 TGATATTCCCTTACAAGAAGCAGAACAAATCCATCTCTTCCAAGATTTGATATTCCCTGAGAAGA
* * * *
633993 CAGCGGAACAAGTCTACCCTGATTCAATGGATCAGCAT-CCCCAAATA
66 -AGCGGAACAAGTCTACCCCGATTCAATGGATCAAC-TCCCCCAGATC
634040 TGATATTCC
1 TGATATTCC
634049 TTGAGTGACA
Statistics
Matches: 677, Mismatches: 77, Indels: 47
0.85 0.10 0.06
Matches are distributed among these distances:
104 1 0.00
105 3 0.00
106 88 0.13
107 110 0.16
108 67 0.10
109 4 0.01
110 5 0.01
111 174 0.26
112 117 0.17
113 108 0.16
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (111 bp):
TGATATTCCCTTACAAGAAGCAGAACAAATCCATCTCTTCCAAGATTTGATATTCCCTGAGAAGA
AGCGGAACAAGTCTACCCCGATTCAATGGATCAACTCCCCCAGATC
Found at i:633376 original size:272 final size:273
Alignment explanation
Indices: 632888--633459 Score: 846
Period size: 272 Copynumber: 2.1 Consensus size: 273
632878 TTTACAGATC
* * * *
632888 TGATATTCCCTTTAGAAGAAGCAGAACAAATTCCTCTTTTCCAAGATTTGATATTCCCTTAGAAT
1 TGATATTCCCTTTAGAAGAAGCAGAACAAATCCCTCTCTTCCAAAATTTGATATTCCCTTAGAAG
* * * * *
632953 AAGTGGAACAAGTCTACCTCGATTTAATGGATCAACTCCCCTAGATATGATATTATCTATACAAT
66 AAGCGGAACAAGTCTACCCCGATTCAATGGATCAACTCCCCCAGATATGATATTATCTATACAAA
*
633018 AAGCGGAACAAATCCCTCTCTTCCAAGATTTCATATTCCCTTAGAAGAAGCAGAACAAGTCTACC
131 AAGCAGAACAAATCCCTCTCTTCCAAGATTTCATATTCCCTTAGAAGAAGCAGAACAAGTCTACC
* *
633083 CCGATTAAATGTATAAACT-CCCCCAAA-CTTGATATTCCCTTTACAAGAAGCAGAACAAATCCC
196 CCGATTAAATGGATAAACTCCCCCCAAATC-TGATATTCCCTTTACAAGAAGCAGAACAAATCCA
633146 TCTCTTCCAAAATT
260 TCTCTTCCAAAATT
*
633160 TGATATTCCCTTTACAAGAAGCAGAACAAATCCCTCTCTTCCAAAATTTGATATTCCCTTAGAAG
1 TGATATTCCCTTTAGAAGAAGCAGAACAAATCCCTCTCTTCCAAAATTTGATATTCCCTTAGAAG
* * *
633225 AAGCGGAACAAGTCTACCCCGATTCAATGGATCAACTCCCCCAGATCTGATATTCTCTTTACAAG
66 AAGCGGAACAAGTCTACCCCGATTCAATGGATCAACTCCCCCAGATATGATATTATCTATACAA-
* **
633290 AAAG-AGAACAAATCCCTCTCTTCCAAGATTTGATATTCCCTTAGAAGAAGTGGAACAAGTCTAC
130 AAAGCAGAACAAATCCCTCTCTTCCAAGATTTCATATTCCCTTAGAAGAAGCAGAACAAGTCTAC
* * * * * * *
633354 CCCTATTCAATGGATCAACTCCCCCCAGATCTGATATTCCCTTTACAAGAAGCGGAATAGATCCA
195 CCCGATTAAATGGATAAACTCCCCCCAAATCTGATATTCCCTTTACAAGAAGCAGAACAAATCCA
*
633419 TCTCTTCCAAGATT
260 TCTCTTCCAAAATT
*
633433 TGATATT-CCTTTAGAAGAAGCGGAACA
1 TGATATTCCCTTTAGAAGAAGCAGAACA
633460 TGTCTTCCCC
Statistics
Matches: 268, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
272 207 0.77
273 60 0.22
274 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (273 bp):
TGATATTCCCTTTAGAAGAAGCAGAACAAATCCCTCTCTTCCAAAATTTGATATTCCCTTAGAAG
AAGCGGAACAAGTCTACCCCGATTCAATGGATCAACTCCCCCAGATATGATATTATCTATACAAA
AAGCAGAACAAATCCCTCTCTTCCAAGATTTCATATTCCCTTAGAAGAAGCAGAACAAGTCTACC
CCGATTAAATGGATAAACTCCCCCCAAATCTGATATTCCCTTTACAAGAAGCAGAACAAATCCAT
CTCTTCCAAAATT
Found at i:636533 original size:17 final size:17
Alignment explanation
Indices: 636505--636552 Score: 87
Period size: 17 Copynumber: 2.8 Consensus size: 17
636495 CAAGTTTTTC
636505 ATTTTAATTAAAATTAAT
1 ATTTT-ATTAAAATTAAT
636523 ATTTTATTAAAATTAAT
1 ATTTTATTAAAATTAAT
636540 ATTTTATTAAAAT
1 ATTTTATTAAAAT
636553 GGAAAATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 25 0.83
18 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTTATTAAAATTAAT
Found at i:638609 original size:16 final size:16
Alignment explanation
Indices: 638590--638620 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
638580 TAAATTAAAA
638590 TTAAAATAAAAAATAT
1 TTAAAATAAAAAATAT
*
638606 TTAAATTAAAAAATA
1 TTAAAATAAAAAATA
638621 AATATGCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TTAAAATAAAAAATAT
Found at i:638625 original size:20 final size:21
Alignment explanation
Indices: 638587--638625 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
638577 AAATAAATTA
638587 AAATTAAAATAAAAAATATTT
1 AAATTAAAATAAAAAATATTT
*
638608 AAATTAAAA-AATAAATAT
1 AAATTAAAATAAAAAATAT
638626 GCAATGCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATTAAAATAAAAAATATTT
Found at i:639464 original size:2 final size:2
Alignment explanation
Indices: 639459--639526 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
639449 TTTAACCAGA
639459 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
639501 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
639527 TGAACTGGAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:639954 original size:23 final size:24
Alignment explanation
Indices: 639921--639981 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
639911 ACTTAGGTTA
*
639921 GGGCTTTAGTTTTGGCCTATGTTT
1 GGGCTTTAGTTTGGGCCTATGTTT
*
639945 GGGC-TTAGTTTGGGCCTGTGTTT
1 GGGCTTTAGTTTGGGCCTATGTTT
* *
639968 AGG-TTTGGTTTGGG
1 GGGCTTTAGTTTGGG
639982 TTTGTAATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 28 0.88
24 4 0.12
ACGTcount: A:0.07, C:0.10, G:0.38, T:0.46
Consensus pattern (24 bp):
GGGCTTTAGTTTGGGCCTATGTTT
Found at i:640035 original size:3 final size:3
Alignment explanation
Indices: 640029--640103 Score: 125
Period size: 3 Copynumber: 25.3 Consensus size: 3
640019 TTTTATTTTT
* *
640029 ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
640077 ATA AT- ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
640104 AATGTAATGG
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
2 2 0.03
3 65 0.97
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:640663 original size:203 final size:202
Alignment explanation
Indices: 640367--640794 Score: 583
Period size: 203 Copynumber: 2.1 Consensus size: 202
640357 GCTAATGTTG
* * * *
640367 ATCCAACTCCTTATGTGATGGATGAACCAAAGTCGGTGCTGTTCCAACTCCTTATGTGGTGGAAT
1 ATCCAACTCCATATGAGATGGATGAACCAAAGTCGGTGCTGTTCCAACTCCTTATGTGATGGAAA
* *
640432 CAAGTTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCCT-CCTCATCGGATGAGTTCTTC
66 CAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTT-ATCCTCCCTCATCGGATGAGTTCTTC
* ** * * * *
640496 TCATTATGAACTCTCC-GTTGGAAATGTTGATCCACCTTATTCTGTGATGGAATCGAACAAAGTG
130 TCATTATGAACTATCCACAT-GAAATGTTGATCCACCTCATTCTGTAATGGAATCAAACAAAGTA
640560 ATGATCCTA
194 ATGATCCTA
* * *
640569 ATCCAACTCCATATGAGATGGATGAGCC-AAGTATTGGTGTTGTTCCAACTCCTTATGTGATGGA
1 ATCCAACTCCATATGAGATGGATGAACCAAAG--TCGGTGCTGTTCCAACTCCTTATGTGATGGA
* * * *
640633 AACGAGCTAAGGTTGAACAAGTTTTTCTCATTATGAACTTATTCTCCCTCATTGGATGAGTTCTT
64 AACAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTATCCTCCCTCATCGGATGAGTTCTT
*
640698 CTCATTATGAACTATCCACATGAATTGTTGATCCACCTCATTCTGTAATGGAATCAAACAAAGTA
129 CTCATTATGAACTATCCACATGAAATGTTGATCCACCTCATTCTGTAATGGAATCAAACAAAGTA
* *
640763 ATGATGCTG
194 ATGATCCTA
*
640772 ATCCAACTCCATATGCGATGGAT
1 ATCCAACTCCATATGAGATGGAT
640795 TCAATGTGTT
Statistics
Matches: 198, Mismatches: 24, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
201 3 0.02
202 28 0.14
203 166 0.84
204 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (202 bp):
ATCCAACTCCATATGAGATGGATGAACCAAAGTCGGTGCTGTTCCAACTCCTTATGTGATGGAAA
CAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTATCCTCCCTCATCGGATGAGTTCTTCT
CATTATGAACTATCCACATGAAATGTTGATCCACCTCATTCTGTAATGGAATCAAACAAAGTAAT
GATCCTA
Found at i:649804 original size:18 final size:19
Alignment explanation
Indices: 649764--649804 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
649754 TATTTTTCAT
*
649764 TTTAATAAAAAATATCAAT
1 TTTAATAAAAAATATCAAA
649783 TTTAATTAAAAAA-A-CAAA
1 TTTAA-TAAAAAATATCAAA
649801 TTTA
1 TTTA
649805 CAGTCTCCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 7 0.35
19 6 0.30
20 7 0.35
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TTTAATAAAAAATATCAAA
Found at i:650858 original size:26 final size:25
Alignment explanation
Indices: 650829--650890 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 25
650819 TGAAACCTCA
**
650829 AATAAAAAAGCAAAATGCATAAAAGT
1 AATAAAAAAGCAAAATAAATAAAA-T
*
650855 AATAAATAAATCAAAATAAATAAAAT
1 AATAAA-AAAGCAAAATAAATAAAAT
650881 AATAATAAAA
1 AATAA-AAAA
650891 AGGGCTGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 15 0.48
27 16 0.52
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.19
Consensus pattern (25 bp):
AATAAAAAAGCAAAATAAATAAAAT
Found at i:652882 original size:134 final size:134
Alignment explanation
Indices: 652544--653217 Score: 725
Period size: 134 Copynumber: 5.0 Consensus size: 134
652534 TTTTTTTATT
* * ** * * * * **
652544 CACTTTGCTACTCTTCAAGGAAGGTTGAACCGAACTTGATTTGCTTCGCTGCCCTTCAGAAATCC
1 CACTTCGCTACTCTTCAGGGAAGACTGAATCGAATTTGATTTGCTTCGCTGCTCTTCAGGAAGAC
* * * * * * **
652609 CAAATCTGAAAGAA-AGAGAATCTACTCCACTACTCTTTAGTGGAGATCAAACTCGAGAAATTTT
66 CAAATATGAAAGAAGA-AGAATTTGCTCCACTACTCTTTAGGGGAGATCAGACTCAAGAAA-ACT
652673 TTGATC
129 TTGATC
* * * ** * * * *
652679 TACTTCGCTGCTCTTTAAAGAAAACTAAATCGAACTTAATTTGCTTCGCTGCTCTTCAGGAAGAC
1 CACTTCGCTACTCTTCAGGGAAGACTGAATCGAATTTGATTTGCTTCGCTGCTCTTCAGGAAGAC
* * *
652744 CAAATATGAAAGAAGAAGAATTTGTTCTACTACTCTTTAGGGGAGATCAGGA-TCAAGAAAGCTT
66 CAAATATGAAAGAAGAAGAATTTGCTCCACTACTCTTTAGGGGAGATCA-GACTCAAGAAAACTT
652808 TGATC
130 TGATC
* * *
652813 CACTTCG-TAACTCTTCAGGGAAGACTGAATCAAATTTGATTTACTTCGCTACTCTTCAGGAAGA
1 CACTTCGCT-ACTCTTCAGGGAAGACTGAATCGAATTTGATTTGCTTCGCTGCTCTTCAGGAAGA
* * * * *
652877 CCAAATCTGAAAGAAGAAGAATCTGCTCCACTATTCTTTATGGGAGATCAGAATCAAGAAAACTT
65 CCAAATATGAAAGAAGAAGAATTTGCTCCACTACTCTTTAGGGGAGATCAGACTCAAGAAAACTT
652942 TGATC
130 TGATC
* * * * * * *
652947 CACTTAGCTGCTCTTTAGGAAAGACTGGATCGAATTTGATTTGTTTTGCTGCT-TTCAGGAAGAC
1 CACTTCGCTACTCTTCAGGGAAGACTGAATCGAATTTGATTTGCTTCGCTGCTCTTCAGGAAGAC
* *
653011 CAAA-ACTAAAAGAAGAAGAATTTGCTCCACTACTCTTTAGGGGAGATCAGATTCAAGAAAACTT
66 CAAATA-TGAAAGAAGAAGAATTTGCTCCACTACTCTTTAGGGGAGATCAGACTCAAGAAAACTT
653075 TGATC
130 TGATC
* * * * *
653080 CACTTCGCTGA-TCTTCAGTGAATATTGAATCGAATGTT-ATTTGCTTCGCCGCTCTTCAGGAGG
1 CACTTCGCT-ACTCTTCAGGGAAGACTGAATCGAAT-TTGATTTGCTTCGCTGCTCTTCAGGAAG
* * * *
653143 ACCAAATCTTAAAGAAGAAGAATATGCTCCACTACTCTTTA-GGGAGATCAGACTCAAAAAAACT
64 ACCAAATATGAAAGAAGAAGAATTTGCTCCACTACTCTTTAGGGGAGATCAGACTCAAGAAAACT
653207 TTGATC
129 TTGATC
653213 CACTT
1 CACTT
653218 TGCTTCTGTT
Statistics
Matches: 452, Mismatches: 77, Indels: 22
0.82 0.14 0.04
Matches are distributed among these distances:
133 146 0.32
134 205 0.45
135 99 0.22
136 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (134 bp):
CACTTCGCTACTCTTCAGGGAAGACTGAATCGAATTTGATTTGCTTCGCTGCTCTTCAGGAAGAC
CAAATATGAAAGAAGAAGAATTTGCTCCACTACTCTTTAGGGGAGATCAGACTCAAGAAAACTTT
GATC
Found at i:653069 original size:267 final size:268
Alignment explanation
Indices: 652579--653217 Score: 819
Period size: 267 Copynumber: 2.4 Consensus size: 268
652569 TGAACCGAAC
* * ** *
652579 TTGATTTGCTTCGCTGCCCTTCAGAAATCCCAAATCTGAAAGAA-AGAGAATCTACTCCACTACT
1 TTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAATCTGAAAGAAGA-AGAATCTGCTCCACTACT
* ** * *
652643 CTTTAGTGGAGATCA-AACTCGAGAAATTTTTTGATCTACTTCGCTGCTCTTTAAAGAAAACTAA
65 CTTTAG-GGAGATCAGAA-TCAAGAAA-ACTTTGATCCACTTAGCTGCTCTTTAAAGAAAACTAA
* * *
652707 ATCGAACTTAATTTGCTTCGCTGCTCTTCAGGAAGACCAAATATGAAAGAAGAAGAATTTGTTCT
127 ATCGAACTTAATTTGCTTCGCTGCTCTTCAGGAAGACCAAATATAAAAGAAGAAGAATTTGCTCC
*
652772 ACTACTCTTTAGGGGAGATCAGGATCAAGAAAGCTTTGATCCACTTCG-TAACTCTTCAGGGAAG
192 ACTACTCTTTAGGGGAGATCAGGATCAAGAAAACTTTGATCCACTTCGCTAA-TCTTCAGGGAAG
652836 ACTGAATCAAAT-
256 ACTGAATCAAATG
* * *
652848 TTGATTTACTTCGCTACTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTATTC
1 TTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTC
* **
652913 TTTATGGGAGATCAGAATCAAGAAAACTTTGATCCACTTAGCTGCTCTTT-AGGAAAGACTGGAT
66 TTTA-GGGAGATCAGAATCAAGAAAACTTTGATCCACTTAGCTGCTCTTTAAAGAAA-ACTAAAT
* * * *
652977 CGAATTTGATTTGTTTTGCTGCT-TTCAGGAAGACCAAA-ACTAAAAGAAGAAGAATTTGCTCCA
129 CGAACTTAATTTGCTTCGCTGCTCTTCAGGAAGACCAAATA-TAAAAGAAGAAGAATTTGCTCCA
* * *
653040 CTACTCTTTAGGGGAGATCA-GATTCAAGAAAACTTTGATCCACTTCGCTGATCTTCAGTGAATA
193 CTACTCTTTAGGGGAGATCAGGA-TCAAGAAAACTTTGATCCACTTCGCTAATCTTCAGGGAAGA
* *
653104 TTGAATCGAATG
257 CTGAATCAAATG
* * * *
653116 TT-ATTTGCTTCGCCGCTCTTCAGGAGGACCAAATCTTAAAGAAGAAGAATATGCTCCACTACTC
1 TTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTC
* *
653180 TTTAGGGAGATCAGACTCAAAAAAACTTTGATCCACTT
66 TTTAGGGAGATCAGAATCAAGAAAACTTTGATCCACTT
653218 TGCTTCTGTT
Statistics
Matches: 324, Mismatches: 38, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
266 35 0.11
267 162 0.50
268 49 0.15
269 74 0.23
270 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (268 bp):
TTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAATCTGCTCCACTACTC
TTTAGGGAGATCAGAATCAAGAAAACTTTGATCCACTTAGCTGCTCTTTAAAGAAAACTAAATCG
AACTTAATTTGCTTCGCTGCTCTTCAGGAAGACCAAATATAAAAGAAGAAGAATTTGCTCCACTA
CTCTTTAGGGGAGATCAGGATCAAGAAAACTTTGATCCACTTCGCTAATCTTCAGGGAAGACTGA
ATCAAATG
Found at i:655918 original size:130 final size:131
Alignment explanation
Indices: 655721--656030 Score: 370
Period size: 131 Copynumber: 2.4 Consensus size: 131
655711 AAGGCATAAG
* * ** * **
655721 AGGTCATTTATTCTCGATTGAAAATAATTTGATATTGCCATTTTCTCTCGAATTAATATCG-ATT
1 AGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCGAACCAATATCGAATT
* * * * * **
655785 TTTAGACGAAATATTAATATCTCTTTATTTCAATTGGGGTAATAAATGATTGTTTTAATGTATTA
66 TTAAGACGAAATAGTAATATCTCTTTATTTCAATTGGAGTAATAAATGATTGATTTAATGCACGA
655850 A
131 A
* * * * * *
655851 AGGTCGTTTATTCTCGATTGGAAATCATTAGATGTTATTATTTTCACTTGAACCAATATTGAATT
1 AGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCGAACCAATATCGAATT
* * *
655916 TTAAGATGAAATAGTAATATCTCTTTATTTCAATTGGAGTAATAAATTATTGATTTCATGCACGA
66 TTAAGACGAAATAGTAATATCTCTTTATTTCAATTGGAGTAATAAATGATTGATTTAATGCACGA
655981 A
131 A
* ** *
655982 AGGTCATTTATTCTCAATAAGAAATAATTAGATATTATCGTTTTCACTC
1 AGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTC
656031 TTAAAATTAT
Statistics
Matches: 147, Mismatches: 32, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
130 48 0.33
131 99 0.67
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (131 bp):
AGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCGAACCAATATCGAATT
TTAAGACGAAATAGTAATATCTCTTTATTTCAATTGGAGTAATAAATGATTGATTTAATGCACGA
A
Found at i:660837 original size:111 final size:111
Alignment explanation
Indices: 660643--661398 Score: 930
Period size: 111 Copynumber: 6.8 Consensus size: 111
660633 TTTGATCCCG
* * ** * *
660643 ATTCAATGGATCAACTCCCCTAGATATGATATTCCCTTAGAAGAAGTAGAACAAATCACTCACTT
1 ATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCGGAACATATCACTCTCTT
* * * **
660708 CCAAGATTTGATATTCCCTGAGTGATAGTGAAACAAGAATGCCCCA
66 TCAAGATTTGATATTCCCTGAGTGACAGCGAAACAAGTCTGCCCCA
* * *
660754 ATTCAATGGATCAACTCCCCTAGATATGAGATTCCCTTAGAAGAAGCGGAACATATCACTCTCTT
1 ATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCGGAACATATCACTCTCTT
* *
660819 CCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCA
66 TCAAGATTTGATATTCCCTGAGTGACAGCGAAACAAGTCTGCCCCA
* * *
660865 ATTCAATGGATCAACTCCCCCAGACCTGATATTCCCTTAGAAGAAGTGAAACATATCA----CTT
1 ATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCGGAACATATCACTCTCTT
* ** * * *
660926 TCAAGATTTGATATTCCTTGAGTGACAATGAAACAAGTCTACTCCG
66 TCAAGATTTGATATTCCCTGAGTGACAGCGAAACAAGTCTGCCCCA
* * * * * * * *
660972 ATTCAATAGATCAACTCCCCCAGATATGATATTCCCTTATAATAAGCAGAAAAAACCACTCTCTT
1 ATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCGGAACATATCACTCTCTT
* * *
661037 TCAAGATTTGATATTCCCTGAGTGATAGCGGAACAAGTCTGCCCCG
66 TCAAGATTTGATATTCCCTGAGTGACAGCGAAACAAGTCTGCCCCA
* ** * ** *
661083 ATTCAATGGATCAACTCCCCCAAATCTGATATTCCCTTAGAAGAAGTAGAACAAATCGTTCTCCT
1 ATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCGGAACATATCACTCTCTT
* *
661148 TCAAGATTTGATATTTCCTGAGTGACAGCGGAACAAGTCTGCCCCA
66 TCAAGATTTGATATTCCCTGAGTGACAGCGAAACAAGTCTGCCCCA
** * * *
661194 ATTCAATTAATCAACTCCCCCTA-ATCTAATATTCCCTTAGAAGAAGCGAAACATATCCCTCTCT
1 ATTCAATGGATCAACTCCCCC-AGATCTGATATTCCCTTAGAAGAAGCGGAACATATCACTCTCT
* * *
661258 TTCAAGATTTTATATTCCCTGAGTGACAGC-AGAACAAGTCTACCCCG
65 TTCAAGATTTGATATTCCCTGAGTGACAGCGA-AACAAGTCTGCCCCA
* *
661305 ATTCAATGGATCAACTCCCCCAGATCTGATACTCCCTTAGAAGAAGCGGAACATATCCCTCTCTT
1 ATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCGGAACATATCACTCTCTT
* * *
661370 TCAAGATTTAATCTTCCCTGACTGACAGC
66 TCAAGATTTGATATTCCCTGAGTGACAGC
661399 AGAATGGATC
Statistics
Matches: 559, Mismatches: 79, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
107 88 0.16
110 1 0.00
111 469 0.84
112 1 0.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (111 bp):
ATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCGGAACATATCACTCTCTT
TCAAGATTTGATATTCCCTGAGTGACAGCGAAACAAGTCTGCCCCA
Found at i:661238 original size:329 final size:330
Alignment explanation
Indices: 660639--661390 Score: 1030
Period size: 329 Copynumber: 2.3 Consensus size: 330
660629 CAGGTTTGAT
* * * *
660639 CCCGATTCAATGGATCAACTCCCCTAGATATGATATTCCCTTAGAAGAAGTAGAACAAATCACTC
1 CCCGATTCAATGGATCAACTCCCCCAGATATGATATTCCCTTAGAAGAAGCAGAAAAAACCACTC
* * *
660704 ACTTCCAAGATTTGATATTCCCTGAGTGATAGTGAAACAAGAATGCCCCAATTCAATGGATCAAC
66 TCTTTCAAGATTTGATATTCCCTGAGTGATAGCGAAACAAGAATGCCCCAATTCAATGGATCAAC
* * * *
660769 TCCCCTAGATATGAGATTCCCTTAGAAGAAGCGGAACATATCACTCTCTTCCAAGATTTGATATT
131 TCCCCCAAATATGAGATTCCCTTAGAAGAAGCAGAACAAATCACTCTCTTCCAAGATTTGATATT
* *
660834 CCCTGAGTGACAGCGGAACAAGTCTGCCCCAATTCAATGGATCAACTCCCCCAGACCTGATATTC
196 CCCTGAGTGACAGCGGAACAAGTCTGCCCCAATTCAATGAATCAACTCCCCCAGACCTAATATTC
* *
660899 CCTTAGAAGAAGTGAAACATA-TCACTTTCAAGATTTGATATTCCTTGAGTGACA--ATGAAACA
261 CCTTAGAAGAAGCGAAACATACTCACTTTCAAGATTTGATATTCCCTGAGTGACAGCA-G-AACA
660961 AGTCTAC
324 AGTCTAC
* * * *
660968 TCCGATTCAATAGATCAACTCCCCCAGATATGATATTCCCTTATAATAAGCAGAAAAAACCACTC
1 CCCGATTCAATGGATCAACTCCCCCAGATATGATATTCCCTTAGAAGAAGCAGAAAAAACCACTC
* ** *
661033 TCTTTCAAGATTTGATATTCCCTGAGTGATAGCGGAACAAGTCTGCCCCGATTCAATGGATCAAC
66 TCTTTCAAGATTTGATATTCCCTGAGTGATAGCGAAACAAGAATGCCCCAATTCAATGGATCAAC
* * * **
661098 TCCCCCAAATCTGATATTCCCTTAGAAGAAGTAGAACAAATCGTTCTCCTT-CAAGATTTGATAT
131 TCCCCCAAATATGAGATTCCCTTAGAAGAAGCAGAACAAATCACTCT-CTTCCAAGATTTGATAT
* * *
661162 TTCCTGAGTGACAGCGGAACAAGTCTGCCCCAATTCAATTAATCAACTCCCCCTA-ATCTAATAT
195 TCCCTGAGTGACAGCGGAACAAGTCTGCCCCAATTCAATGAATCAACTCCCCC-AGACCTAATAT
* *
661226 TCCCTTAGAAGAAGCGAAACATATCCCTCTCTTTCAAGATTTTATATTCCCTGAGTGACAGCAGA
259 TCCCTTAGAAGAAGCGAAACATA---CTCACTTTCAAGATTTGATATTCCCTGAGTGACAGCAGA
661291 ACAAGTCTAC
321 ACAAGTCTAC
* * * * *
661301 CCCGATTCAATGGATCAACTCCCCCAGATCTGATACTCCCTTAGAAGAAGCGGAACATATCC-CT
1 CCCGATTCAATGGATCAACTCCCCCAGATATGATATTCCCTTAGAAGAAGCAGAA-AAAACCACT
* *
661365 CTCTTTCAAGATTTAATCTTCCCTGA
65 CTCTTTCAAGATTTGATATTCCCTGA
661391 CTGACAGCAG
Statistics
Matches: 370, Mismatches: 44, Indels: 14
0.86 0.10 0.03
Matches are distributed among these distances:
329 245 0.66
330 4 0.01
333 115 0.31
334 5 0.01
335 1 0.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (330 bp):
CCCGATTCAATGGATCAACTCCCCCAGATATGATATTCCCTTAGAAGAAGCAGAAAAAACCACTC
TCTTTCAAGATTTGATATTCCCTGAGTGATAGCGAAACAAGAATGCCCCAATTCAATGGATCAAC
TCCCCCAAATATGAGATTCCCTTAGAAGAAGCAGAACAAATCACTCTCTTCCAAGATTTGATATT
CCCTGAGTGACAGCGGAACAAGTCTGCCCCAATTCAATGAATCAACTCCCCCAGACCTAATATTC
CCTTAGAAGAAGCGAAACATACTCACTTTCAAGATTTGATATTCCCTGAGTGACAGCAGAACAAG
TCTAC
Found at i:667516 original size:111 final size:109
Alignment explanation
Indices: 667322--667974 Score: 711
Period size: 111 Copynumber: 5.9 Consensus size: 109
667312 TAGGTTCGAT
* * * * *
667322 CCCGATTCAATGGATCAACTCCCACATATCTGATATTCCCTTAGAAGAAGCAGAACAAATCACTC
1 CCCGATTCAATGAATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCGGAACATAT-ACTC
* * * *
667387 TCTTCCAAG-TTATTATATTCCCTGAGTGACAGCGGAACAAGTCTAC
65 T-TTTCAAGATT-TGATATTCCCTGAGTGAAAGCGGAACAAGTCTGC
*
667433 CCCGATTCAAT-AGATCAACTCCCCCAGATCTGATATTCCCCTAGAAGAAGCGGAACATATAACT
1 CCCGATTCAATGA-ATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCGGAACATAT-ACT
* *
667497 CTTTTCCAAGATTTGATATTCCCTGAGTGAAAGAGGAACAAGTTTGC
64 CTTTT-CAAGATTTGATATTCCCTGAGTGAAAGCGGAACAAGTCTGC
*** * * * *
667544 GATGATTCAATGGATCAACTCACCCAGATCTGATATTCCCTTAGAAGAAGTGGAACATAT-CAC-
1 CCCGATTCAATGAATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCGGAACATATACTCT
* * * *
667607 TTTCAAGATTTGATATTCCTTGAGTGACATCGAAACAAGTCTGC
66 TTTCAAGATTTGATATTCCCTGAGTGAAAGCGGAACAAGTCTGC
* *
667651 CCCGATTCAATGAATCAACTCCCCCAGATCTGCTATTCCCTTAGAAGAAGCAGAACATATCACTC
1 CCCGATTCAATGAATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCGGAACATAT-ACTC
* * * * *
667716 TCTTCCAATATTTGATATTCCCTGAATGAAACCGAAACAAGTCTGC
65 T-TTTCAAGATTTGATATTCCCTGAGTGAAAGCGGAACAAGTCTGC
* * * * * *
667762 CCCAATTCAATGAATTAACTCCCCCAGTTATGATATTCCCTTAGAAGAAGAGGAACATATCCATC
1 CCCGATTCAATGAATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCGGAACATATAC-TC
* *
667827 TCTTTCAAGATTTGATATTCCCTGAGTGAAAGAGGAACAAGTCTGA
65 T-TTTCAAGATTTGATATTCCCTGAGTGAAAGCGGAACAAGTCTGC
* * * ** * * * *
667873 CCTGATTTAATGAATCAACTCCCCCAGATCTAATATTATCTTAGAAGAATCGAAACAGATCCATC
1 CCCGATTCAATGAATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCGGAACATATAC-TC
** **
667938 TCTTTCAAGATTCAATATTCCCTGAGTGGCAGCGGAA
65 T-TTTCAAGATTTGATATTCCCTGAGTGAAAGCGGAA
667975 TGGATCAACA
Statistics
Matches: 458, Mismatches: 75, Indels: 18
0.83 0.14 0.03
Matches are distributed among these distances:
107 87 0.19
108 3 0.01
109 4 0.01
110 3 0.01
111 359 0.78
112 2 0.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (109 bp):
CCCGATTCAATGAATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCGGAACATATACTCT
TTTCAAGATTTGATATTCCCTGAGTGAAAGCGGAACAAGTCTGC
Found at i:667709 original size:218 final size:218
Alignment explanation
Indices: 667324--667921 Score: 745
Period size: 218 Copynumber: 2.7 Consensus size: 218
667314 GGTTCGATCC
* *
667324 CGATTCAATGGATCAACTCCCACATATCTGATATTCCCTTAGAAGAAGCA-GAACAAATCACTCT
1 CGATTCAATGGATCAACTCCC-CAGATCTGATATTCCCTTAGAAGAAG-AGGAACATATCA-TCT
* *
667388 CTTCCAAG-TTATTATATTCCCTGAGTGACAGCGGAACAAGTCTACCCCGATTCAAT-AGATCAA
63 -TT-CAAGATT-TGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGA-ATCAA
* * *
667451 CTCCCCCAGATCTGATATTCCCCTAGAAGAAGCGGAACATATAACTCTTTTCCAAGATTTGATAT
124 CTCCCCCAGATCTGATATTCCCTTAGAAGAAGCAGAACATATAACTCTCTTCCAAGATTTGATAT
* * * * *
667516 TCCCTGAGTGAAAGAGGAACAAGTTTGCGA
189 TCCCTGAATGAAACAGAAACAAGTCTGCCA
* *
667546 TGATTCAATGGATCAACTCACCCAGATCTGATATTCCCTTAGAAGAAGTGGAACATATCA-CTTT
1 CGATTCAATGGATCAACTC-CCCAGATCTGATATTCCCTTAGAAGAAGAGGAACATATCATCTTT
* * *
667610 CAAGATTTGATATTCCTTGAGTGACATCGAAACAAGTCTGCCCCGATTCAATGAATCAACTCCCC
65 CAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGAATCAACTCCCC
* * *
667675 CAGATCTGCTATTCCCTTAGAAGAAGCAGAACATATCACTCTCTTCCAATATTTGATATTCCCTG
130 CAGATCTGATATTCCCTTAGAAGAAGCAGAACATATAACTCTCTTCCAAGATTTGATATTCCCTG
* *
667740 AATGAAACCGAAACAAGTCTGCCC
195 AATGAAACAGAAACAAGTCTGCCA
* * * * *
667764 CAATTCAATGAATTAACTCCCCCAGTTATGATATTCCCTTAGAAGAAGAGGAACATATCCATCTC
1 CGATTCAATGGATCAACT-CCCCAGATCTGATATTCCCTTAGAAGAAGAGGAACATAT-CA--TC
* * * * *
667829 TTTCAAGATTTGATATTCCCTGAGTGAAAGAGGAACAAGTCTGACCTGATTTAATGAATCAACTC
62 TTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGAATCAACTC
* **
667894 CCCCAGATCTAATATTATCTTAGAAGAA
127 CCCCAGATCTGATATTCCCTTAGAAGAA
667922 TCGAAACAGA
Statistics
Matches: 326, Mismatches: 41, Indels: 18
0.85 0.11 0.05
Matches are distributed among these distances:
218 180 0.55
219 8 0.02
220 2 0.01
222 134 0.41
223 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (218 bp):
CGATTCAATGGATCAACTCCCCAGATCTGATATTCCCTTAGAAGAAGAGGAACATATCATCTTTC
AAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATGAATCAACTCCCCC
AGATCTGATATTCCCTTAGAAGAAGCAGAACATATAACTCTCTTCCAAGATTTGATATTCCCTGA
ATGAAACAGAAACAAGTCTGCCA
Found at i:667920 original size:329 final size:329
Alignment explanation
Indices: 667322--667921 Score: 879
Period size: 329 Copynumber: 1.8 Consensus size: 329
667312 TAGGTTCGAT
* *
667322 CCCGATTCAATGGATCAACTCCCACATATCTGATATTCCCTTAGAAGAAGCAGAACAAATCACTC
1 CCCGATTCAATGAATCAACTCCCACAGATCTGATATTCCCTTAGAAGAAGCAGAACAAATCACTC
* * * * *
667387 TCTTCCAAGTTATTATATTCCCTGAGTGACAGCGGAACAAGTCTACCCCGATTCAATAGATCAAC
66 TCTTCCAAGTTATTATATTCCCTGAATGAAACCGAAACAAGTCTACCCCAATTCAATAGATCAAC
* *
667452 TCCCCCAGATCTGATATTCCCCTAGAAGAAGCGGAACATATAACTCTTTTCCAAGATTTGATATT
131 TCCCCCAGATATGATATTCCCCTAGAAGAAGAGGAACATATAACTCTTTTCCAAGATTTGATATT
* * * *
667517 CCCTGAGTGAAAGAGGAACAAGTTTGCGATGATTCAATGGATCAACTCACCCAGATCTGATATTC
196 CCCTGAGTGAAAGAGGAACAAGTCTGCGATGATTCAATGAATCAACTCACCCAGATCTAATATTA
667582 CCTTAGAAGAAGTGGAACATATCACTTTCAAGATTTGATATTCCTTGAGTGACATCGAAACAAGT
261 CCTTAGAAGAAGTGGAACATATCACTTTCAAGATTTGATATTCCTTGAGTGACATCGAAACAAGT
667647 CTGC
326 CTGC
* * *
667651 CCCGATTCAATGAATCAACTCCCCCAGATCTGCTATTCCCTTAGAAGAAGCAGAACATATCACTC
1 CCCGATTCAATGAATCAACTCCCACAGATCTGATATTCCCTTAGAAGAAGCAGAACAAATCACTC
* *
667716 TCTTCCAA--TATTTGATATTCCCTGAATGAAACCGAAACAAGTCTGCCCCAATTCAAT-GAATT
66 TCTTCCAAGTTA-TT-ATATTCCCTGAATGAAACCGAAACAAGTCTACCCCAATTCAATAG-ATC
* * *
667778 AACTCCCCCAGTTATGATATTCCCTTAGAAGAAGAGGAACATAT-CCATCTCTTT-CAAGATTTG
128 AACTCCCCCAGATATGATATTCCCCTAGAAGAAGAGGAACATATAAC-TCT-TTTCCAAGATTTG
* * *
667841 ATATTCCCTGAGTGAAAGAGGAACAAGTCTGAC-CTGATTTAATGAATCAACTCCCCCAGATCTA
191 ATATTCCCTGAGTGAAAGAGGAACAAGTCTG-CGATGATTCAATGAATCAACTCACCCAGATCTA
*
667905 ATATTATCTTAGAAGAA
255 ATATTACCTTAGAAGAA
667922 TCGAAACAGA
Statistics
Matches: 240, Mismatches: 25, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
327 2 0.01
328 4 0.02
329 230 0.96
330 4 0.02
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (329 bp):
CCCGATTCAATGAATCAACTCCCACAGATCTGATATTCCCTTAGAAGAAGCAGAACAAATCACTC
TCTTCCAAGTTATTATATTCCCTGAATGAAACCGAAACAAGTCTACCCCAATTCAATAGATCAAC
TCCCCCAGATATGATATTCCCCTAGAAGAAGAGGAACATATAACTCTTTTCCAAGATTTGATATT
CCCTGAGTGAAAGAGGAACAAGTCTGCGATGATTCAATGAATCAACTCACCCAGATCTAATATTA
CCTTAGAAGAAGTGGAACATATCACTTTCAAGATTTGATATTCCTTGAGTGACATCGAAACAAGT
CTGC
Found at i:671422 original size:51 final size:49
Alignment explanation
Indices: 671354--671489 Score: 157
Period size: 51 Copynumber: 2.7 Consensus size: 49
671344 TGAAAGATTG
671354 ACTCCTCTGCACGAGAAAGTCAAGTTGAGGAATGATACTAT-TGAAAAGTTA
1 ACTCCTCT-CACGAGAAAGTCAAGTTGA-GAATGATA-TATATGAAAAGTTA
* * * *
671405 ACTCCTCTCTACAAGAAAGTCAAGTTGAGAAGGATATATACTGAAACGTTG
1 ACTCCTCTC-ACGAGAAAGTCAAGTTGAGAATGATATATA-TGAAAAGTTA
* *
671456 ACTCCTCTAAGCGAGAAGGTCAAGTTGAGAATGA
1 ACTCCTCTCA-CGAGAAAGTCAAGTTGAGAATGA
671490 CATCACTAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
49 3 0.04
50 9 0.12
51 61 0.84
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (49 bp):
ACTCCTCTCACGAGAAAGTCAAGTTGAGAATGATATATATGAAAAGTTA
Found at i:671529 original size:51 final size:49
Alignment explanation
Indices: 671346--671530 Score: 142
Period size: 51 Copynumber: 3.6 Consensus size: 49
671336 AACATCATTG
** * *
671346 AAAGATTGACTCCTCTGCACGAGAAAGTCAAGTTGAGGAATGATA-CTATTGA
1 AAAG-TTGACTCCTCTATACAAGAAAGTCAAGTTGA-GAATGATATC-ACT-A
* * * *
671398 AAAGTTAACTCCTCTCTACAAGAAAGTCAAGTTGAGAAGGATATATACTGA
1 AAAGTTGACTCCTCTATACAAGAAAGTCAAGTTGAGAATGATAT-CACT-A
* * * *
671449 AACGTTGACTCCTCTA-AGCGAGAAGGTCAAGTTGAGAATGACATCACTAA
1 AAAGTTGACTCCTCTATA-CAAGAAAGTCAAGTTGAGAATGATATCACT-A
*
671499 AAAGGTTGACTCCTCT-TTCTAAGAAAGTCAAG
1 AAA-GTTGACTCCTCTATAC-AAGAAAGTCAAG
671531 AATCACAACA
Statistics
Matches: 107, Mismatches: 20, Indels: 13
0.76 0.14 0.09
Matches are distributed among these distances:
50 15 0.14
51 88 0.82
52 4 0.04
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (49 bp):
AAAGTTGACTCCTCTATACAAGAAAGTCAAGTTGAGAATGATATCACTA
Found at i:671560 original size:45 final size:45
Alignment explanation
Indices: 671483--671783 Score: 220
Period size: 45 Copynumber: 6.7 Consensus size: 45
671473 GGTCAAGTTG
* * * *
671483 AGAATGACATCACTAAAAAGGTTGACTCCTCTTTC-TAAGAAAGTCA
1 AGAATGACAACACT-AAAAGATTGACTTCTC-TTCACAAGAAAGTCA
* * * **
671529 AGAATCACAACACTGAAAGATTGACTTCTCTTAACGGGAAAGTCA
1 AGAATGACAACACTAAAAGATTGACTTCTCTTCACAAGAAAGTCA
* * * *
671574 AGAATGACAATACTAAAAGATTGAATCCTCTTCACGAA-AAAGTTA
1 AGAATGACAACACTAAAAGATTGACTTCTCTTCAC-AAGAAAGTCA
* * *
671619 GGAATGAAAAAACT-AAAGATTGAC-TCATCTTCACGAA-AAAGTCA
1 AGAATGACAACACTAAAAGATTGACTTC-TCTTCAC-AAGAAAGTCA
* * *
671663 AGAATGACAACTCTGAAAGATTGAC-TCTTCTTCACGAGAAAGTCA
1 AGAATGACAACACTAAAAGATTGACTTC-TCTTCACAAGAAAGTCA
* * * *** *
671708 AGTAA-GACAACACTAAAATATTGACTCCTATTCGTGAGAAAGTCG
1 AG-AATGACAACACTAAAAGATTGACTTCTCTTCACAAGAAAGTCA
* * * *
671753 AGAATAACATCACTAAAAGGTTGAATTCTCT
1 AGAATGACAACACTAAAAGATTGACTTCTCT
671784 CCATGAGGAA
Statistics
Matches: 202, Mismatches: 45, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
43 1 0.00
44 40 0.20
45 146 0.72
46 15 0.07
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (45 bp):
AGAATGACAACACTAAAAGATTGACTTCTCTTCACAAGAAAGTCA
Found at i:671723 original size:89 final size:89
Alignment explanation
Indices: 671520--671734 Score: 247
Period size: 89 Copynumber: 2.4 Consensus size: 89
671510 CCTCTTTCTA
* * **
671520 AGAAAGTCAAGAATCACAACACTGAAAGATTGACTTCTCTTAACGGGAAAGTCAAGAATGACAAT
1 AGAAAGTCAAGAATGACAACACTAAAAGATTGAC-TCTCTTAACGAAAAAGTCAAGAATGACAAT
671585 ACTAAAAGATTGAATCCTCTTCACG
65 ACTAAAAGATTGAATCCTCTTCACG
* * * * * *
671610 AAAAAGTTAGGAATGAAAAAACT-AAAGATTGACTCATCTTCACGAAAAAGTCAAGAATGACAAC
1 AGAAAGTCAAGAATGACAACACTAAAAGATTGACTC-TCTTAACGAAAAAGTCAAGAATGACAA-
* * *
671674 T-CTGAAAGATTGACTCTTCTTCACG
64 TACTAAAAGATTGAATCCTCTTCACG
*
671699 AGAAAGTCAAGTAA-GACAACACTAAAATATTGACTC
1 AGAAAGTCAAG-AATGACAACACTAAAAGATTGACTC
671735 CTATTCGTGA
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
88 2 0.02
89 70 0.68
90 31 0.30
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (89 bp):
AGAAAGTCAAGAATGACAACACTAAAAGATTGACTCTCTTAACGAAAAAGTCAAGAATGACAATA
CTAAAAGATTGAATCCTCTTCACG
Found at i:671768 original size:134 final size:133
Alignment explanation
Indices: 671481--671769 Score: 307
Period size: 134 Copynumber: 2.1 Consensus size: 133
671471 AAGGTCAAGT
* * * * *
671481 TGAGAATGACATCACTAAAAAGGTTGACTCCTCTTTCTAAGAAAGTCAAGAATCACAACACTGAA
1 TGAGAATAACATCACT--AAAGATTGACTCATCTTACGAAGAAAGTCAAGAATCACAACACTGAA
* * *
671546 AGATTGACTTCTCTTAACGGGAAAGTCAAGAATGACAATACTAAAAGATTGAATCCTCTTCACGA
64 AGATTGACTTCTCTTAACGAGAAAGTCAAGAATGACAACACTAAAAGATTGAATCCTATTCACGA
671611 AAAAG
129 AAAAG
* ** * *
671616 TTAGGAATGAA-AAAACTAAAGATTGACTCATCTTCACGAA-AAAGTCAAGAATGACAACTCTGA
1 TGA-GAAT-AACATCACTAAAGATTGACTCATCTT-ACGAAGAAAGTCAAGAATCACAACACTGA
* * * *
671679 AAGATTGAC-TCTTCTTCACGAGAAAGTCAAGTAA-GACAACACTAAAATATTGACTCCTATTCG
63 AAGATTGACTTC-TCTTAACGAGAAAGTCAAG-AATGACAACACTAAAAGATTGAATCCTATTCA
* *
671742 TGAGAAAG
126 CGAAAAAG
671750 TCGAGAATAACATCACTAAA
1 T-GAGAATAACATCACTAAA
671770 AGGTTGAATT
Statistics
Matches: 125, Mismatches: 22, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
133 4 0.03
134 104 0.83
135 8 0.06
136 8 0.06
137 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.24
Consensus pattern (133 bp):
TGAGAATAACATCACTAAAGATTGACTCATCTTACGAAGAAAGTCAAGAATCACAACACTGAAAG
ATTGACTTCTCTTAACGAGAAAGTCAAGAATGACAACACTAAAAGATTGAATCCTATTCACGAAA
AAG
Found at i:672080 original size:30 final size:30
Alignment explanation
Indices: 672046--672105 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
672036 AATTGTTTAA
*
672046 TTTCTCTTTCTTCAT-TCTATTTTTTTTCTT
1 TTTCTCTTTCTT-ATCTCTATTTTTTCTCTT
* *
672076 TTTCTTTTTCTTTTCTCTATTTTTTCTCTT
1 TTTCTCTTTCTTATCTCTATTTTTTCTCTT
672106 ATTTTTCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (30 bp):
TTTCTCTTTCTTATCTCTATTTTTTCTCTT
Found at i:672091 original size:28 final size:29
Alignment explanation
Indices: 672046--672102 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
672036 AATTGTTTAA
*
672046 TTTCTCTTTCTTCATTCTATTTTTTTTCTT
1 TTTCTCTTTCTT-ATTCTATATTTTTTCTT
* *
672076 TTTCTTTTTCTT-TTCTCTATTTTTTCT
1 TTTCTCTTTCTTATTCTATATTTTTTCT
672103 CTTATTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 13 0.54
30 11 0.46
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.75
Consensus pattern (29 bp):
TTTCTCTTTCTTATTCTATATTTTTTCTT
Found at i:672275 original size:42 final size:42
Alignment explanation
Indices: 672228--672307 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
672218 TGAAAGACTT
*
672228 ATCATCGTGCTCGAAAGACTGACAGATGACTCGAAGGATTTA
1 ATCATCATGCTCGAAAGACTGACAGATGACTCGAAGGATTTA
* ** *
672270 ATCATCATGCTCGAAAGACTTATTGATGGCTCGAAGGA
1 ATCATCATGCTCGAAAGACTGACAGATGACTCGAAGGA
672308 CATATCAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.25
Consensus pattern (42 bp):
ATCATCATGCTCGAAAGACTGACAGATGACTCGAAGGATTTA
Found at i:672635 original size:250 final size:254
Alignment explanation
Indices: 672151--672717 Score: 707
Period size: 250 Copynumber: 2.2 Consensus size: 254
672141 TGCACTCAGG
* * * * * * * *
672151 AAAATCACTTTCTCATTTTTCAAATTATCATATGAAAGCATCTTGCCCAAAGGTCTTATAGATGG
1 AAAATCAGTTTCTCATTTTTCAAA-AATCATGTGAAAACATCCTGTCCGAAGGACTTATAGATGG
* * *
672216 CCTGAAAGACTTATCATCGTGCTCGAAAGACTGACAGATGACTCGAAGGATTTAATCATCATGCT
65 CCTCAAAGACTTATCATCGTGCTCGAAAGACTGACAGATGACCCAAAGGATTTAATCATCATGCT
* ** *
672281 CGAAAGACTTATTGATGGCTCGAAGGACATATCAATTTTGGAAATAGTCTACTGGGTAAGAAACT
130 CGAAAGAC-T-TTGA--GCTCGAAGGACATACCAATTTTACAAATAGTCTACTGGGCAAGAAACT
* * *
672346 TTGGAAATCACTTTCTTACTCTTCAAAACTTTAATTTTCTGAAAACATTAAATGAAAAACTTTG
191 TTGGAAATCACTTTCTTACTCTTCAAAAATTTAATTTTCTGAAAACACTAAATGAAAAACTTTA
* * *
672410 GAAATCGGTTTCTCATTTTTCAAAAATCACGTGAAAACATCCTGTCCGAAGGACTTATAGATGGC
1 AAAATCAGTTTCTCATTTTTCAAAAATCATGTGAAAACATCCTGTCCGAAGGACTTATAGATGGC
* * *
672475 C-CAAAGGACTTATCATCTTGCTTGAAAGATTGACAGATGACCCAAAGGATTTAATCATCATGCT
66 CTCAAA-GACTTATCATCGTGCTCGAAAGACTGACAGATGACCCAAAGGATTTAATCATCATGCT
* *
672539 CGAAAGAC-TT-A-CT-GAAGGACTTACCAATTTTACAAATAGTCTATTGGGCAAGAAACTTTGG
130 CGAAAGACTTTGAGCTCGAAGGACATACCAATTTTACAAATAGTCTACTGGGCAAGAAACTTTGG
* * * *
672600 AAATCGCTTTCTTACTCTTCAAAAATTTTATTTTCTGAAAATACTAAATGAGAAACTTTA
195 AAATCACTTTCTTACTCTTCAAAAATTTAATTTTCTGAAAACACTAAATGAAAAACTTTA
* ** *
672660 AAAATCATTTTCTCATTTTTTTAAAATCATGT-AGAAACAT-CTTTCCCGAAGGACTTAT
1 AAAATCAGTTTCTCATTTTTCAAAAATCATGTGA-AAACATCCTGT-CCGAAGGACTTAT
672718 CAACTTGCTT
Statistics
Matches: 268, Mismatches: 37, Indels: 15
0.84 0.12 0.05
Matches are distributed among these distances:
249 4 0.01
250 140 0.52
251 2 0.01
254 1 0.00
255 2 0.01
257 3 0.01
258 95 0.35
259 21 0.08
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (254 bp):
AAAATCAGTTTCTCATTTTTCAAAAATCATGTGAAAACATCCTGTCCGAAGGACTTATAGATGGC
CTCAAAGACTTATCATCGTGCTCGAAAGACTGACAGATGACCCAAAGGATTTAATCATCATGCTC
GAAAGACTTTGAGCTCGAAGGACATACCAATTTTACAAATAGTCTACTGGGCAAGAAACTTTGGA
AATCACTTTCTTACTCTTCAAAAATTTAATTTTCTGAAAACACTAAATGAAAAACTTTA
Found at i:690746 original size:6 final size:7
Alignment explanation
Indices: 690729--690758 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
690719 GAGAAAATCT
690729 TTTTTTC
1 TTTTTTC
690736 TTTTTTC
1 TTTTTTC
690743 TTTTTTC
1 TTTTTTC
690750 TTTTTTC
1 TTTTTTC
690757 TT
1 TT
690759 CTTTGAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTC
Found at i:692115 original size:69 final size:70
Alignment explanation
Indices: 692004--692142 Score: 226
Period size: 69 Copynumber: 2.0 Consensus size: 70
691994 TTAAGAATTT
* * *
692004 GAACAATCTTCAAGTAATCATATATTTTATGCGAAAACTCGAATCGAATT-TTCCCTAATTAAAA
1 GAACAATCTTCAAGTAATCAGACATTTTATGCAAAAACTCGAATCGAATTGTTCCCTAATTAAAA
692068 CTAAG
66 CTAAG
* *
692073 GAACAATCTTCGAGTAATCAGACATTTTATGCAAAAACTCGAATGGAATTGTTCCCTAATTAAAA
1 GAACAATCTTCAAGTAATCAGACATTTTATGCAAAAACTCGAATCGAATTGTTCCCTAATTAAAA
692138 CTAAG
66 CTAAG
692143 ATGAGATCCT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
69 45 0.70
70 19 0.30
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.30
Consensus pattern (70 bp):
GAACAATCTTCAAGTAATCAGACATTTTATGCAAAAACTCGAATCGAATTGTTCCCTAATTAAAA
CTAAG
Found at i:693095 original size:44 final size:44
Alignment explanation
Indices: 693041--693129 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
693031 CCCCACTCCA
* * *
693041 ACCACTGCGAAGATGAATCGATCCTTCGGTTCGACTTCCCTCTT
1 ACCACTGCGAAGACGAACCGATCCTTCGGTTCGACTCCCCTCTT
693085 ACCACTGCGAAGACGAACCGATCCTTCGGTTCGACTCCCCTCTT
1 ACCACTGCGAAGACGAACCGATCCTTCGGTTCGACTCCCCTCTT
693129 A
1 A
693130 GGTAATTCTC
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:0.21, C:0.35, G:0.18, T:0.26
Consensus pattern (44 bp):
ACCACTGCGAAGACGAACCGATCCTTCGGTTCGACTCCCCTCTT
Found at i:693654 original size:3 final size:3
Alignment explanation
Indices: 693646--693764 Score: 231
Period size: 3 Copynumber: 40.0 Consensus size: 3
693636 GGGTGTTGTA
693646 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
693694 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
693742 AAT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
693765 GTAATGGTGA
Statistics
Matches: 115, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 113 0.98
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:698206 original size:28 final size:28
Alignment explanation
Indices: 698152--698206 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
698142 TTTTAATCAA
*
698152 TATATTATATATGTATGTTTATATGTTG
1 TATATTATATATGTATATTTATATGTTG
*
698180 TATATTATATATCTTATATTTAT-TGTT
1 TATATTATATAT-GTATATTTATATGTT
698207 TTGTTTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.60
Consensus pattern (28 bp):
TATATTATATATGTATATTTATATGTTG
Found at i:698334 original size:2 final size:2
Alignment explanation
Indices: 698327--698416 Score: 121
Period size: 2 Copynumber: 45.0 Consensus size: 2
698317 TCTCTGTCTT
698327 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
698369 TA TA TA TCA TA T- TA T- TCA TA TA TA TA TG TG TG TA TA TA TA TA
1 TA TA TA T-A TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
698411 TA TA TA
1 TA TA TA
698417 AATAACACTT
Statistics
Matches: 82, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
1 2 0.02
2 77 0.94
3 3 0.04
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:707655 original size:19 final size:18
Alignment explanation
Indices: 707619--707668 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
707609 TAGATCTTTG
707619 TATTTTAATTTTCTTTAT
1 TATTTTAATTTTCTTTAT
707637 TATTTGTAATTTT-TATTAT
1 TATTT-TAATTTTCT-TTAT
*
707656 TTTGTTTAATTTT
1 TAT-TTTAATTTT
707669 AATATTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 6 0.21
19 20 0.71
20 2 0.07
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (18 bp):
TATTTTAATTTTCTTTAT
Found at i:707663 original size:28 final size:25
Alignment explanation
Indices: 707626--707678 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
707616 TTGTATTTTA
*
707626 ATTTTCTTTATTATTTGTAATTTTTATT
1 ATTTTCTTTA--ATTT-TAATATTTATT
*
707654 ATTTTGTTTAATTTTAATATTTATT
1 ATTTTCTTTAATTTTAATATTTATT
707679 TAATTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 10 0.43
26 4 0.17
28 9 0.39
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (25 bp):
ATTTTCTTTAATTTTAATATTTATT
Found at i:707685 original size:22 final size:22
Alignment explanation
Indices: 707660--707701 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
707650 TATTATTTTG
707660 TTTAATTT-TAATATTTATTTAA
1 TTTAATTTGTAAT-TTTATTTAA
*
707682 TTTATTTTGTAATTTTATTT
1 TTTAATTTGTAATTTTATTT
707702 GTAATTAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTAATTTGTAATTTTATTTAA
Found at i:719169 original size:7 final size:6
Alignment explanation
Indices: 719149--719213 Score: 80
Period size: 6 Copynumber: 10.7 Consensus size: 6
719139 ACTACGCCTG
*
719149 AAAAGA AAAAGA AAAAGGAA AAAAGA AAAAGA GAACAGA AAAAGA AAAAG-
1 AAAAGA AAAAGA AAAA-G-A AAAAGA AAAAGA -AAAAGA AAAAGA AAAAGA
719199 AAAAG- AAAAGA AAAA
1 AAAAGA AAAAGA AAAA
719214 AGGAGAGGTT
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
5 10 0.19
6 31 0.58
7 7 0.13
8 5 0.09
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:719173 original size:8 final size:7
Alignment explanation
Indices: 719149--719215 Score: 59
Period size: 7 Copynumber: 9.7 Consensus size: 7
719139 ACTACGCCTG
719149 AAAAG-A
1 AAAAGAA
719155 AAAAGAA
1 AAAAGAA
*
719162 AAAGGAA
1 AAAAGAA
719169 AAAAG-A
1 AAAAGAA
*
719175 AAAAGAG
1 AAAAGAA
*
719182 AACAG-A
1 AAAAGAA
719188 AAAAGAA
1 AAAAGAA
*
719195 AAAGAAAA
1 AAA-AGAA
719203 GAAAAGAA
1 -AAAAGAA
719211 AAAAG
1 AAAAG
719216 GAGAGGTTCG
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
6 15 0.31
7 24 0.50
8 6 0.12
9 3 0.06
ACGTcount: A:0.79, C:0.01, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:720126 original size:44 final size:44
Alignment explanation
Indices: 720076--720553 Score: 152
Period size: 44 Copynumber: 10.8 Consensus size: 44
720066 TCAACTTTTT
* *
720076 GCTCGATTCTATCACAGAAGAAGATAGATCAACATCGACATCTC
1 GCTCGATTCCATCACAGAAGAAGGTAGATCAACATCGACATCTC
* * * * * **** *
720120 GTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATTTTC
1 GCTCGATTCCATCACAGAAGAAGGTAGATCAACATCGACA-TCTC
* * * * * * * * * * *
720165 GCTCAAATCCATCACAGAAGGAGTTGGATCAGCGTCAACTTTTT
1 GCTCGATTCCATCACAGAAGAAGGTAGATCAACATCGACATCTC
* * * *
720209 GCTCGATTCTATCAAAGAAGAAGGTAGATCAGCATCGAAATCTC
1 GCTCGATTCCATCACAGAAGAAGGTAGATCAACATCGACATCTC
* * * * **** *
720253 GTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTC
1 GCTCGATTCCATCACAGAAGAAGGTAGATCAACATCGACA-TCTC
* * * * * * * * * * * * *
720298 GCTCAAATCCATCGCAAAAGGAGTTGGATCAGCGTCAACTTTTT
1 GCTCGATTCCATCACAGAAGAAGGTAGATCAACATCGACATCTC
* * *
720342 GCTCGATTCTATCATAGAA-AGAGGTAGATCAGCATCGACATCTC
1 GCTCGATTCCATCACAGAAGA-AGGTAGATCAACATCGACATCTC
* * * * **** *
720386 GTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTC
1 GCTCGATTCCATCACAGAAGAAGGTAGATCAACATCGACA-TCTC
* * * * * * * * * * * *
720431 GCTCAAATCCATCGCAGAAGGA-TTTGATCAGCGTCAACTTTTT
1 GCTCGATTCCATCACAGAAGAAGGTAGATCAACATCGACATCTC
* * * *
720474 GTTCGATTCTATCACAAAAGGAGGTAGATCAACATCGACATCTC
1 GCTCGATTCCATCACAGAAGAAGGTAGATCAACATCGACATCTC
* * * * *
720518 GTTCGAATCCATTACAGAA-AGAGGTGGATCGACATC
1 GCTCGATTCCATCACAGAAGA-AGGTAGATCAACATC
720554 ATAATATATC
Statistics
Matches: 299, Mismatches: 128, Indels: 14
0.68 0.29 0.03
Matches are distributed among these distances:
43 19 0.06
44 200 0.67
45 80 0.27
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (44 bp):
GCTCGATTCCATCACAGAAGAAGGTAGATCAACATCGACATCTC
Found at i:720259 original size:133 final size:133
Alignment explanation
Indices: 720047--720552 Score: 813
Period size: 133 Copynumber: 3.8 Consensus size: 133
720037 TCACAGAAGG
* * *
720047 AGAAGGAGTTAGATCAGCGTCAACTTTTTGCTCGATTCTATCACAGAAGAAGATAGATCAACATC
1 AGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCAAAGAAGAAGGTAGATCAACATC
720112 GACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCAT
66 GACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCAT
*
720177 CAC
131 CGC
*
720180 AGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCAAAGAAGAAGGTAGATCAGCATC
1 AGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCAAAGAAGAAGGTAGATCAACATC
* *
720245 GAAATCTCGTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCAT
66 GACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCAT
720310 CGC
131 CGC
* * *
720313 AAAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCATAGAA-AGAGGTAGATCAGCAT
1 AGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCAAAGAAGA-AGGTAGATCAACAT
*
720377 CGACATCTCGTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCA
65 CGACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCA
720442 TCGC
130 TCGC
* * *
720446 AGAAGGA-TTTGATCAGCGTCAACTTTTTGTTCGATTCTATCACAA-AAGGAGGTAGATCAACAT
1 AGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCA-AAGAAGAAGGTAGATCAACAT
* *
720509 CGACATCTCGTTCGAATCCATTACAGAAA-GAGGTGGATCGACAT
65 CGACATCTCGTTCGATTCCATCACA-AAAGGAGGTGGATCGACAT
720553 CATAATATAT
Statistics
Matches: 350, Mismatches: 19, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
132 87 0.25
133 263 0.75
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (133 bp):
AGAAGGAGTTGGATCAGCGTCAACTTTTTGCTCGATTCTATCAAAGAAGAAGGTAGATCAACATC
GACATCTCGTTCGATTCCATCACAAAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCAT
CGC
Found at i:720584 original size:33 final size:33
Alignment explanation
Indices: 720541--720619 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
720531 ACAGAAAGAG
*
720541 GTGGATCGACATCATAATAT-ATCACATGAGG-A
1 GTGGATCGACATCATAAT-TCATCACATAAGGAA
**
720573 GCTGGATCGACATTTTAATTCATCACATAAGGAA
1 G-TGGATCGACATCATAATTCATCACATAAGGAA
*
720607 GTGGATTGACATC
1 GTGGATCGACATC
720620 TCCAACGAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 2 0.05
33 35 0.90
34 2 0.05
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (33 bp):
GTGGATCGACATCATAATTCATCACATAAGGAA
Found at i:721865 original size:19 final size:18
Alignment explanation
Indices: 721829--721878 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
721819 TAGATCTTTG
721829 TATTTTAATTTTCTTTAT
1 TATTTTAATTTTCTTTAT
721847 TATTTGTAATTTT-TATTAT
1 TATTT-TAATTTTCT-TTAT
*
721866 TTTGTTTAATTTT
1 TAT-TTTAATTTT
721879 AGTATTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 6 0.21
19 20 0.71
20 2 0.07
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (18 bp):
TATTTTAATTTTCTTTAT
Found at i:723314 original size:26 final size:28
Alignment explanation
Indices: 723270--723322 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
723260 TTTTTTATAT
723270 TACAAAAATATATTAATTTTTATTTAAG
1 TACAAAAATATATTAATTTTTATTTAAG
*
723298 TACATAAAT-TATT-ATTTTTATTTAA
1 TACAAAAATATATTAATTTTTATTTAA
723323 AATAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 12 0.50
27 4 0.17
28 8 0.33
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (28 bp):
TACAAAAATATATTAATTTTTATTTAAG
Found at i:723333 original size:23 final size:22
Alignment explanation
Indices: 723257--723339 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 22
723247 AGTTTTAGTT
*
723257 TATTTTTTTATATTACAAA-AATA
1 TATTTTTTTAT-TTA-AAATAAAA
*
723280 TATTAATTTTTATTTAAGTACATAAAT
1 TATT--TTTTTATTTAA--A-ATAAAA
723307 TATTATTTTTATTTAAAATAAAA
1 TATT-TTTTTATTTAAAATAAAA
723330 TATTTTTTTA
1 TATTTTTTTA
723340 CATACGAACT
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
22 6 0.12
23 14 0.27
24 4 0.08
25 8 0.16
26 13 0.25
27 6 0.12
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (22 bp):
TATTTTTTTATTTAAAATAAAA
Found at i:725584 original size:22 final size:22
Alignment explanation
Indices: 725558--725608 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
725548 TGCATTATAA
*
725558 ATTTAGCCTTTTACCCAAAGGC
1 ATTTAGCCTTTTACCCAAAGAC
725580 ATTTAGCCTTTTACCCAAAGAC
1 ATTTAGCCTTTTACCCAAAGAC
725602 ATTTAGC
1 ATTTAGC
725609 ATTTCGTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (22 bp):
ATTTAGCCTTTTACCCAAAGAC
Found at i:725726 original size:81 final size:81
Alignment explanation
Indices: 725587--726241 Score: 988
Period size: 81 Copynumber: 8.1 Consensus size: 81
725577 GGCATTTAGC
* ** * * * * * * * *
725587 CTTTTACCCAAAGACATTTAGCATTTCGTCTAACTTGCATGATTGACACTTTTGTGCCAAATGTA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCA
*
725652 CAACTAGGCTATTAAT
66 CAACTAGGCCATTAAT
*
725668 CTTTTACTCAAAGCTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCA
**
725733 CAGTTAGGCCATTAAT
66 CAACTAGGCCATTAAT
* * * *
725749 CATTTACTCAAAGGTATTTAACCTTTCATTTAACTGGCATAACTGACACCTTTTTGCCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCA
*
725814 CAGCTAGGCCATTAAT
66 CAACTAGGCCATTAAT
*
725830 CATTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCA
*
725895 CAACTAGACCATTAAT
66 CAACTAGGCCATTAAT
** *
725911 CTTTTACTCAAAATATATTTAACCTTTCATCTAACTGACATAA-TGACACCTTTCTGCCAAATGC
1 CTTTTACTC-AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
725975 ACAGCTAGGCCATTAAT
65 ACAACTAGGCCATTAAT
* *
725992 ATTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCA
*
726057 CAAGCTAGACCATTAAT
66 CAA-CTAGGCCATTAAT
* *
726074 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTTCCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCA
*
726139 CAGCTAGGCCATTAAT
66 CAACTAGGCCATTAAT
*
726155 CTTTTACTCAAAGGTATTTAACCTTCCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCA
726220 CAACTAGGCCATTAAT
66 CAACTAGGCCATTAAT
726236 CTTTTA
1 CTTTTA
726242 TTTTAGAACT
Statistics
Matches: 523, Mismatches: 48, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
80 29 0.06
81 389 0.74
82 105 0.20
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (81 bp):
CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCA
CAACTAGGCCATTAAT
Found at i:726176 original size:325 final size:324
Alignment explanation
Indices: 725630--726241 Score: 1046
Period size: 325 Copynumber: 1.9 Consensus size: 324
725620 CTTGCATGAT
* * * * *
725630 TGACACTTTTGTGCCAAATGTACAACTAGGCTATTAATCTTTTACTCAAAGCTATTTAACCTTTC
1 TGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATATTTTACTCAAAGCTATTTAACCTTTC
* * *
725695 ATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGTTAGGCCATTAATCATTTACTCAA
66 ATCTAACTAGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGACCATTAATCATTTACTCAA
* *
725760 AGGTATTTAACCTTTCATTTAACTGGCATAACTGACACCTTTTTGCCAAATGCACAGCTAGGCCA
131 AGGTATTTAACCTTTCATCTAACTGGCATAACTGACACATTTTTGCCAAATGCACAGCTAGGCCA
*
725825 TTAATCATTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
196 TTAATCATTTACTCAAAGGTATTTAACCTTCCATCTAACTGGCATAATTGACACCTTTCTGCCAA
725890 ATGCACAACTAGACCATTAATCTTTTACTCAAAATATATTTAACCTTTCATCTAACTGACATAA
261 ATGCACAACTAGACCATTAATCTTTTACTCAAAATATATTTAACCTTTCATCTAACTGACATAA
* *
725954 TGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGGTATTTAACCTTTC
1 TGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATATTTTACTCAAAGCTATTTAACCTTTC
*
726019 ATCTAACTAGCATAATTGACACCTTTCTGCCAAATGCACAAGCTAGACCATTAATCTTTTACTCA
66 ATCTAACTAGCATAATTGACACCTTTCTGCCAAATGCAC-AGCTAGACCATTAATCATTTACTCA
*
726084 AAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTT-CCAAATGCACAGCTAGGC
130 AAGGTATTTAACCTTTCATCTAACTGGCATAACTGACACATTT-TTGCCAAATGCACAGCTAGGC
*
726148 CATTAATCTTTTACTCAAAGGTATTTAACCTTCCATCTAACTGGCATAATTGACACCTTTCTGCC
194 CATTAATCATTTACTCAAAGGTATTTAACCTTCCATCTAACTGGCATAATTGACACCTTTCTGCC
*
726213 AAATGCACAACTAGGCCATTAATCTTTTA
259 AAATGCACAACTAGACCATTAATCTTTTA
726242 TTTTAGAACT
Statistics
Matches: 269, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
324 96 0.36
325 171 0.64
326 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (324 bp):
TGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATATTTTACTCAAAGCTATTTAACCTTTC
ATCTAACTAGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGACCATTAATCATTTACTCAA
AGGTATTTAACCTTTCATCTAACTGGCATAACTGACACATTTTTGCCAAATGCACAGCTAGGCCA
TTAATCATTTACTCAAAGGTATTTAACCTTCCATCTAACTGGCATAATTGACACCTTTCTGCCAA
ATGCACAACTAGACCATTAATCTTTTACTCAAAATATATTTAACCTTTCATCTAACTGACATAA
Found at i:741960 original size:20 final size:20
Alignment explanation
Indices: 741935--741985 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
741925 TCTGCCCATG
741935 ACTCCATTGAGTTTGAAGGA
1 ACTCCATTGAGTTTGAAGGA
741955 ACTCCATTGAGTTTGAAGGA
1 ACTCCATTGAGTTTGAAGGA
*
741975 ACTCCACTGAG
1 ACTCCATTGAG
741986 CCAAGCTCTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (20 bp):
ACTCCATTGAGTTTGAAGGA
Found at i:750423 original size:20 final size:20
Alignment explanation
Indices: 750398--750442 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
750388 ACACTGCTGG
750398 CGACAATACATTCCAAGCCT
1 CGACAATACATTCCAAGCCT
750418 CGACAATACATTCCAAGCCT
1 CGACAATACATTCCAAGCCT
750438 CGACA
1 CGACA
750443 TTGAATGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.36, G:0.11, T:0.18
Consensus pattern (20 bp):
CGACAATACATTCCAAGCCT
Found at i:755343 original size:81 final size:81
Alignment explanation
Indices: 755209--755699 Score: 676
Period size: 81 Copynumber: 6.1 Consensus size: 81
755199 TCCTTTAGTC
* * * * * *
755209 TTTTACCCAAAGGGATTTAGCCATTCATCTAACTTGCATAATTGAAACTTTTCTGCCAAATGCAC
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGAAACCTTTCTGCCAAATGCAC
* *
755274 AGCTAGGCCATTAATC
66 AACTAGGCCATTAATA
* * * * * *
755290 TTTTACTTAAATGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTTCCAAATGCAA
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGAAACCTTTCTGCCAAATGCAC
*
755355 AACTAGGCCATTAATC
66 AACTAGGCCATTAATA
* *
755371 TTTTACTCAAATGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGAAACCTTTCTGCCAAATGCAC
* **
755436 AACAATTCCATTAATA
66 AACTAGGCCATTAATA
*
755452 TTTTACTCAAAGGTATTTAACCTTTTATCTAACTGGCATAATTGAAACCTTTCTGCCAAATGCAC
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGAAACCTTTCTGCCAAATGCAC
*
755517 AACAAGGCCATTAATA
66 AACTAGGCCATTAATA
* * *
755533 TTTTACTCAAAGGTATTTAACCATTCATCTAACTAGCATAATTGAAACCTTTCTTCCAAATGCAC
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGAAACCTTTCTGCCAAATGCAC
* *
755598 AGCTAGGTCATTAATA
66 AACTAGGCCATTAATA
* * * * *
755614 TTTTACTCAAAGGTATTTAATCTTTCATCTTACTGGCATAATTGACACCTTTCTTCCACATGCAC
1 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGAAACCTTTCTGCCAAATGCAC
* *
755679 AGCTAGGCCATTAATC
66 AACTAGGCCATTAATA
755695 TTTTA
1 TTTTA
755700 TTTTAGAACT
Statistics
Matches: 370, Mismatches: 40, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 370 1.00
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.35
Consensus pattern (81 bp):
TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGAAACCTTTCTGCCAAATGCAC
AACTAGGCCATTAATA
Found at i:758760 original size:32 final size:26
Alignment explanation
Indices: 758724--758789 Score: 132
Period size: 26 Copynumber: 2.5 Consensus size: 26
758714 AAGCCTGTTA
758724 AGGTCCAGGTCCTGAAACTTTTGCTG
1 AGGTCCAGGTCCTGAAACTTTTGCTG
758750 AGGTCCAGGTCCTGAAACTTTTGCTG
1 AGGTCCAGGTCCTGAAACTTTTGCTG
758776 AGGTCCAGGTCCTG
1 AGGTCCAGGTCCTG
758790 CAGATTGTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (26 bp):
AGGTCCAGGTCCTGAAACTTTTGCTG
Found at i:760545 original size:28 final size:28
Alignment explanation
Indices: 760513--760569 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
760503 TTCATAGAAA
* *
760513 ATATAT-TATTGTATT-ATTTTCAATTT
1 ATATATATATTGTATTAAATTTAAATTT
*
760539 ATATATATATTTTATTAAATTTAAATTT
1 ATATATATATTGTATTAAATTTAAATTT
760567 ATA
1 ATA
760570 AAATTTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.23
27 8 0.31
28 12 0.46
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (28 bp):
ATATATATATTGTATTAAATTTAAATTT
Found at i:761943 original size:17 final size:17
Alignment explanation
Indices: 761923--761959 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
761913 TCAATTAAGT
*
761923 TAGTTTACTAATTAAAC
1 TAGTTTACTAACTAAAC
*
761940 TAGTTTATTAACTAAAC
1 TAGTTTACTAACTAAAC
761957 TAG
1 TAG
761960 CTCTTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.41
Consensus pattern (17 bp):
TAGTTTACTAACTAAAC
Found at i:765724 original size:17 final size:17
Alignment explanation
Indices: 765687--765746 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
765677 ATAAATTAAA
* *
765687 AAGCATGCTACTTCATGT
1 AAGCATG-TATTTCATTT
765705 AAGCATGTATTTCATTT
1 AAGCATGTATTTCATTT
* *
765722 AAGCATG-ATTTCGTTA
1 AAGCATGTATTTCATTT
765738 AAGCATGTA
1 AAGCATGTA
765747 GGTTTTTATG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
16 14 0.38
17 16 0.43
18 7 0.19
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.37
Consensus pattern (17 bp):
AAGCATGTATTTCATTT
Found at i:765741 original size:16 final size:17
Alignment explanation
Indices: 765686--765746 Score: 63
Period size: 16 Copynumber: 3.6 Consensus size: 17
765676 CATAAATTAA
*
765686 AAAGCATGCTACTTCATGT
1 AAAGCATG-TATTTCAT-T
765705 -AAGCATGTATTTCATT
1 AAAGCATGTATTTCATT
* *
765721 TAAGCATG-ATTTCGTT
1 AAAGCATGTATTTCATT
765737 AAAGCATGTA
1 AAAGCATGTA
765747 GGTTTTTATG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 15 0.41
17 15 0.41
18 7 0.19
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (17 bp):
AAAGCATGTATTTCATT
Found at i:765818 original size:17 final size:17
Alignment explanation
Indices: 765782--765851 Score: 77
Period size: 18 Copynumber: 4.0 Consensus size: 17
765772 AGTATGCTCT
*
765782 TTCATTAAATAAAGCTAG
1 TTCATTAATTAAA-CTAG
*
765800 TTCACTAATTAAACTAG
1 TTCATTAATTAAACTAG
* *
765817 TTCATTCATTTAAGCTAG
1 TTCATT-AATTAAACTAG
*
765835 TTCATTAACTAAACTAG
1 TTCATTAATTAAACTAG
765852 CTCTTTAATG
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
17 17 0.40
18 26 0.60
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (17 bp):
TTCATTAATTAAACTAG
Found at i:767526 original size:11 final size:12
Alignment explanation
Indices: 767510--767541 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
767500 ACTTGTTTTG
767510 TTTATT-TTTAT
1 TTTATTATTTAT
767521 TTTATTATTTA-
1 TTTATTATTTAT
767532 TTTATTATTT
1 TTTATTATTT
767542 TAATGTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTATTATTTAT
Found at i:767727 original size:31 final size:31
Alignment explanation
Indices: 767682--767772 Score: 137
Period size: 31 Copynumber: 2.9 Consensus size: 31
767672 AAATATGCGC
* * *
767682 TATATTTATTACTAATTATATAATTAATACT
1 TATATCTATAACTAATTATATACTTAATACT
767713 TATATCTATAACTAATTATATACTTAATACT
1 TATATCTATAACTAATTATATACTTAATACT
* *
767744 CATATCTTTAACTAATTATATACTTAATA
1 TATATCTATAACTAATTATATACTTAATA
767773 TATACCTATT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 55 1.00
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (31 bp):
TATATCTATAACTAATTATATACTTAATACT
Found at i:767822 original size:18 final size:18
Alignment explanation
Indices: 767799--767835 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
767789 ATTTTTTGTC
767799 ATATTTTCATATTCTCGG
1 ATATTTTCATATTCTCGG
767817 ATATTTTCATATTCTCGG
1 ATATTTTCATATTCTCGG
767835 A
1 A
767836 AAGGGGTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.49
Consensus pattern (18 bp):
ATATTTTCATATTCTCGG
Found at i:776016 original size:54 final size:55
Alignment explanation
Indices: 775952--776063 Score: 136
Period size: 55 Copynumber: 2.1 Consensus size: 55
775942 AGTCTAGTGA
** * * * *
775952 TCTTGGCAAGCTTGATA-TCTATCTTGAACATCCTGTCAGATACTTGTACTAATG
1 TCTTGGCAAGCCCGACACTCTATCTTGAACATCCTGTCAGACACTTGCACCAATG
* * *
776006 TCTTGGCAAGCCCGACACTTTATCTTGAACCTCCTGTCGGACACTTGCACCAATG
1 TCTTGGCAAGCCCGACACTCTATCTTGAACATCCTGTCAGACACTTGCACCAATG
776061 TCT
1 TCT
776064 CGGACCCAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
54 14 0.29
55 34 0.71
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (55 bp):
TCTTGGCAAGCCCGACACTCTATCTTGAACATCCTGTCAGACACTTGCACCAATG
Found at i:780304 original size:18 final size:18
Alignment explanation
Indices: 780283--780333 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
780273 ATTATAATTC
780283 TAATTATTTTTATTATAT
1 TAATTATTTTTATTATAT
*
780301 TAATTA---TAATTATAT
1 TAATTATTTTTATTATAT
* *
780316 CAATAATTTTTATTATAT
1 TAATTATTTTTATTATAT
780334 AATAAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
15 12 0.46
18 14 0.54
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TAATTATTTTTATTATAT
Found at i:781694 original size:18 final size:19
Alignment explanation
Indices: 781671--781706 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
781661 TTATTTGTTG
781671 TTAAAAATTAAAA-ATAAT
1 TTAAAAATTAAAATATAAT
*
781689 TTAAAATTTAAAATATAA
1 TTAAAAATTAAAATATAA
781707 AACTATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TTAAAAATTAAAATATAAT
Found at i:781701 original size:24 final size:24
Alignment explanation
Indices: 781674--781724 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
781664 TTTGTTGTTA
*
781674 AAAAT-TAAAAATAATTTAAAATTT
1 AAAATATAAAAAT-ATTTAAAAATT
*
781698 AAAATATAAAACTATTTAAAAATT
1 AAAATATAAAAATATTTAAAAATT
781722 AAA
1 AAA
781725 TGCAAAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
AAAATATAAAAATATTTAAAAATT
Found at i:782472 original size:32 final size:32
Alignment explanation
Indices: 782348--782476 Score: 123
Period size: 33 Copynumber: 3.9 Consensus size: 32
782338 TGGACACTAC
* * * * *
782348 AAGTTACTCGAATCATACCATGTTGCCCTAATT
1 AAGTTGCTCGAA-CATGCCCTGTTACCCTAATA
* * * *
782381 AAGTTGCTCGAACTATGCCTTGCTACCATGATA
1 AAGTTGCTCGAAC-ATGCCCTGTTACCCTAATA
*
782414 AAGTTGCTCGAACCATGCCCTGTTACCCTAATC
1 AAGTTGCTCGAA-CATGCCCTGTTACCCTAATA
* *
782447 AAGTTGCTCGAGCATGCCCTATTACCCTAA
1 AAGTTGCTCGAACATGCCCTGTTACCCTAA
782477 CACTTCAACA
Statistics
Matches: 79, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
32 18 0.23
33 60 0.76
34 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (32 bp):
AAGTTGCTCGAACATGCCCTGTTACCCTAATA
Found at i:782700 original size:33 final size:33
Alignment explanation
Indices: 782622--782700 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
782612 CATGTAGAAG
* * *
782622 GGCATGATTCGAACAACTTTATTAGGGTAGCAA
1 GGCATGATTCGAGCAACTTGATTAGGGTAACAA
782655 GGCATGATTCGAGCAACTTGATTAGGGTAACAA
1 GGCATGATTCGAGCAACTTGATTAGGGTAACAA
*
782688 GGTATGATTCGAG
1 GGCATGATTCGAG
782701 AACATTGTAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.27
Consensus pattern (33 bp):
GGCATGATTCGAGCAACTTGATTAGGGTAACAA
Found at i:789706 original size:21 final size:21
Alignment explanation
Indices: 789675--789734 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
789665 ACCACTAAGT
789675 TATTC-AATGATGATTAACGC
1 TATTCAAATGATGATTAACGC
789695 TATTCAAATGATGATTAACGC
1 TATTCAAATGATGATTAACGC
*
789716 TATTCAAATGATGCTTAAC
1 TATTCAAATGATGATTAAC
789735 TTACTTGATA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 5 0.13
21 33 0.87
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (21 bp):
TATTCAAATGATGATTAACGC
Found at i:793946 original size:20 final size:20
Alignment explanation
Indices: 793892--793949 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
793882 AATTGACCCA
* *
793892 ATTCAACCAGTATCAATATT
1 ATTCAACCAATATCGATATT
793912 ATTCAACCAATATCGATATT
1 ATTCAACCAATATCGATATT
* *
793932 GTTCATCCAATATCGATA
1 ATTCAACCAATATCGATA
793950 CCCTAACCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (20 bp):
ATTCAACCAATATCGATATT
Found at i:794295 original size:19 final size:19
Alignment explanation
Indices: 794278--794358 Score: 68
Period size: 19 Copynumber: 4.5 Consensus size: 19
794268 TGAAAAGATT
794278 TAATAAAATAAAATAGATAA
1 TAAT-AAATAAAATAGATAA
794298 TAATAAATAAAA-AGGA-AA
1 TAATAAATAAAATA-GATAA
794316 -AAT-AATAAAATA-ATGAA
1 TAATAAATAAAATAGAT-AA
* *
794333 TAATGAATTAAA-A-ATAA
1 TAATAAATAAAATAGATAA
794350 TAATAAATA
1 TAATAAATA
794359 TAAAAGGGTG
Statistics
Matches: 52, Mismatches: 3, Indels: 15
0.74 0.04 0.21
Matches are distributed among these distances:
15 1 0.02
16 7 0.13
17 15 0.29
18 9 0.17
19 16 0.31
20 4 0.08
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (19 bp):
TAATAAATAAAATAGATAA
Found at i:794303 original size:20 final size:21
Alignment explanation
Indices: 794278--794328 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
794268 TGAAAAGATT
*
794278 TAATAAAATAAAATA-G-ATAA
1 TAATAAAATAAAA-AGGAAAAA
794298 TAAT-AAATAAAAAGGAAAAA
1 TAATAAAATAAAAAGGAAAAA
794318 TAATAAAATAA
1 TAATAAAATAA
794329 TGAATAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 1 0.04
19 9 0.33
20 11 0.41
21 6 0.22
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.22
Consensus pattern (21 bp):
TAATAAAATAAAAAGGAAAAA
Found at i:794355 original size:35 final size:35
Alignment explanation
Indices: 794278--794355 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 35
794268 TGAAAAGATT
794278 TAATAA-AATAAAATAGATAATAATAAATAAAAAG
1 TAATAATAATAAAATAGATAATAATAAATAAAAAG
* * *
794312 GAAAAATAATAAAATA-ATGAATAATGAATTAAAAA-
1 TAATAATAATAAAATAGAT-AATAAT-AAATAAAAAG
794347 TAATAATAA
1 TAATAATAA
794356 ATATAAAAGG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
34 6 0.17
35 22 0.61
36 8 0.22
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.24
Consensus pattern (35 bp):
TAATAATAATAAAATAGATAATAATAAATAAAAAG
Done.