Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_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: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 54 of 55
Found at i:10828443 original size:12 final size:12
Alignment explanation
Indices: 10828428--10828477 Score: 64
Period size: 12 Copynumber: 3.9 Consensus size: 12
10828418 GTAAAAATGA
10828428 AAATGTAAATAC
1 AAATGTAAATAC
10828440 AAATGTAAAAAATAC
1 AAATGT---AAATAC
*
10828455 AAATGTAAATGC
1 AAATGTAAATAC
10828467 AAATGTAAATA
1 AAATGTAAATA
10828478 TATGAATGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 21 0.64
15 12 0.36
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.24
Consensus pattern (12 bp):
AAATGTAAATAC
Found at i:10828450 original size:27 final size:27
Alignment explanation
Indices: 10828416--10828475 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
10828406 AAATGTAATT
10828416 ATGT-AAAAATGA-AAATGTAAATACAA
1 ATGTAAAAAAT-ACAAATGTAAATACAA
*
10828442 ATGTAAAAAATACAAATGTAAATGCAA
1 ATGTAAAAAATACAAATGTAAATACAA
10828469 ATGTAAA
1 ATGTAAA
10828476 TATATGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
26 5 0.16
27 26 0.84
ACGTcount: A:0.60, C:0.05, G:0.12, T:0.23
Consensus pattern (27 bp):
ATGTAAAAAATACAAATGTAAATACAA
Found at i:10828454 original size:15 final size:15
Alignment explanation
Indices: 10828434--10828463 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10828424 ATGAAAATGT
10828434 AAATACAAATGTAAA
1 AAATACAAATGTAAA
10828449 AAATACAAATGTAAA
1 AAATACAAATGTAAA
10828464 TGCAAATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (15 bp):
AAATACAAATGTAAA
Found at i:10828569 original size:7 final size:7
Alignment explanation
Indices: 10828535--10828576 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
10828525 ATAAAAGTAT
10828535 AAATGCA
1 AAATGCA
* *
10828542 CAATGAA
1 AAATGCA
10828549 AAATGCA
1 AAATGCA
10828556 AAGATGCA
1 AA-ATGCA
10828564 AAATGC-
1 AAATGCA
10828570 AAATGCA
1 AAATGCA
10828577 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:10830595 original size:2 final size:2
Alignment explanation
Indices: 10830588--10830627 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
10830578 AAATTTAAAA
*
10830588 AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10830628 AATAAGATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:10831896 original size:44 final size:43
Alignment explanation
Indices: 10831825--10831948 Score: 132
Period size: 44 Copynumber: 2.9 Consensus size: 43
10831815 AGTTGATGCT
* *
10831825 TGCTGGAAGCTGTTTGAATGA-GGACGTGGAAGGGCTGCTGGCA
1 TGCTGGAAGCTGTTGGAAT-ATGCACGTGGAAGGGCTGCTGGCA
* * *
10831868 GTGCTGGAAGCTGTTGGAATTTGCACGTGGAGGGGATGCTGGCA
1 -TGCTGGAAGCTGTTGGAATATGCACGTGGAAGGGCTGCTGGCA
*
10831912 --CTGGAAGCTGCTGGAA-ATGCACGTGG-AGGAGCTGCTG
1 TGCTGGAAGCTGTTGGAATATGCACGTGGAAGG-GCTGCTG
10831949 TCGTTGGTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
39 2 0.03
40 15 0.22
41 15 0.22
44 37 0.54
ACGTcount: A:0.20, C:0.15, G:0.42, T:0.23
Consensus pattern (43 bp):
TGCTGGAAGCTGTTGGAATATGCACGTGGAAGGGCTGCTGGCA
Found at i:10834927 original size:2 final size:2
Alignment explanation
Indices: 10834920--10834953 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10834910 TCTCCAAATC
10834920 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
10834954 TCTATCAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10836056 original size:21 final size:21
Alignment explanation
Indices: 10836030--10836071 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
10836020 AAACTCTAAT
10836030 ATTAAAT-TCTAAATCCTAAAC
1 ATTAAATCTC-AAATCCTAAAC
10836051 ATTAAATCTCAAATCCTAAAC
1 ATTAAATCTCAAATCCTAAAC
10836072 TTCATACCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (21 bp):
ATTAAATCTCAAATCCTAAAC
Found at i:10845061 original size:19 final size:19
Alignment explanation
Indices: 10845011--10845061 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
10845001 AAATACAGTA
* * *
10845011 TGATCTATGATTTATGTTC
1 TGATCTCTGATATATGCTC
*
10845030 TGATCTCTAATATATGCTC
1 TGATCTCTGATATATGCTC
*
10845049 TGATTTCTGATAT
1 TGATCTCTGATAT
10845062 CTTATTTATG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (19 bp):
TGATCTCTGATATATGCTC
Found at i:10846835 original size:2 final size:2
Alignment explanation
Indices: 10846828--10846867 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
10846818 TAAATTTCAC
*
10846828 TA TA TA TA TA -A TC TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10846868 TTCAGTAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10861912 original size:22 final size:22
Alignment explanation
Indices: 10861884--10861936 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
10861874 TTAGAGAATG
10861884 GTTTTGGCAGTGGAATCAACGT
1 GTTTTGGCAGTGGAATCAACGT
10861906 GTTTTGGCAGTGGAATCAACGT
1 GTTTTGGCAGTGGAATCAACGT
*
10861928 GTGTTGGCA
1 GTTTTGGCA
10861937 CGCGGGGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.21, C:0.13, G:0.34, T:0.32
Consensus pattern (22 bp):
GTTTTGGCAGTGGAATCAACGT
Found at i:10865398 original size:26 final size:27
Alignment explanation
Indices: 10865368--10865418 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
10865358 AACCCTGCTA
10865368 TTGTTGAAG-CCTCTCACTGATGGCTG
1 TTGTTGAAGCCCTCTCACTGATGGCTG
10865394 TTGTTGAAGCCCTCTCACTGATGGC
1 TTGTTGAAGCCCTCTCACTGATGGC
10865419 ATTCGTCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.33
Consensus pattern (27 bp):
TTGTTGAAGCCCTCTCACTGATGGCTG
Found at i:10866771 original size:22 final size:23
Alignment explanation
Indices: 10866739--10866781 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
10866729 ATCGGTTAAA
**
10866739 ATTTATACCGGTTATATTATATT
1 ATTTATACCGGAAATATTATATT
10866762 ATTTA-ACCGGAAATATTATA
1 ATTTATACCGGAAATATTATA
10866782 AATTACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (23 bp):
ATTTATACCGGAAATATTATATT
Found at i:10866815 original size:23 final size:23
Alignment explanation
Indices: 10866789--10866836 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
10866779 ATAAATTACA
*
10866789 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
10866812 ATAATGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
10866835 AT
1 AT
10866837 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:10867570 original size:16 final size:17
Alignment explanation
Indices: 10867549--10867585 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
10867539 TGTGTCGGCA
10867549 CATTTT-AACCTATAAT
1 CATTTTCAACCTATAAT
*
10867565 CATTTTCTACCTATAAT
1 CATTTTCAACCTATAAT
10867582 -ATTT
1 CATTT
10867586 AATAAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.49
Consensus pattern (17 bp):
CATTTTCAACCTATAAT
Found at i:10868089 original size:20 final size:19
Alignment explanation
Indices: 10868034--10868080 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
10868024 TCCGGTATCA
10868034 TTTTACCAGTTTTATCATT
1 TTTTACCAGTTTTATCATT
* *
10868053 TTGATACCGGTTTTATCATAT
1 TT-TTACCAGTTTTATCAT-T
10868074 TTTTACC
1 TTTTACC
10868081 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTACCAGTTTTATCATT
Found at i:10868253 original size:20 final size:19
Alignment explanation
Indices: 10868208--10868253 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
10868198 TCCGGTAACG
10868208 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
10868227 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
10868248 TTTTAC
1 TTTTAC
10868254 TGGTATATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.17, C:0.15, G:0.11, T:0.57
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:10872776 original size:28 final size:28
Alignment explanation
Indices: 10872745--10872829 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 28
10872735 ATTTTATAAA
10872745 TAAAAACATTAAGATTATTATATTTTAT
1 TAAAAACATTAAGATTATTATATTTTAT
* * *
10872773 TAAAATCAATT-ATATTAAT-TA-TTTAT
1 TAAAAAC-ATTAAGATTATTATATTTTAT
* * *
10872799 TAAAAAAATAATAGATTATTA-ATTATAT
1 TAAAAACATTA-AGATTATTATATTTTAT
10872827 TAA
1 TAA
10872830 TTACTTATTA
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
25 2 0.05
26 10 0.23
27 9 0.21
28 19 0.44
29 3 0.07
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
TAAAAACATTAAGATTATTATATTTTAT
Found at i:10872863 original size:36 final size:38
Alignment explanation
Indices: 10872784--10872865 Score: 105
Period size: 39 Copynumber: 2.2 Consensus size: 38
10872774 AAAATCAATT
* * *
10872784 ATATTAATTATTTATTAAAAAAATAATAGATTATTAATT
1 ATATTAATTACTTATTAAAAAAATAATA-ACTATTAATA
*
10872823 ATATTAATTACTTATTAAAATAATAAT-ACTATTAA-A
1 ATATTAATTACTTATTAAAAAAATAATAACTATTAATA
10872859 ATATTAA
1 ATATTAA
10872866 AAATTATAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
36 7 0.18
37 7 0.18
39 25 0.64
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (38 bp):
ATATTAATTACTTATTAAAAAAATAATAACTATTAATA
Found at i:10872865 original size:8 final size:8
Alignment explanation
Indices: 10872835--10872884 Score: 57
Period size: 8 Copynumber: 6.2 Consensus size: 8
10872825 ATTAATTACT
10872835 TATTAAAA
1 TATTAAAA
* *
10872843 TAATAATAC
1 TATTAA-AA
10872852 TATTAAAA
1 TATTAAAA
10872860 TATTAAAA
1 TATTAAAA
*
10872868 -ATTATAA
1 TATTAAAA
10872875 TATTAAAA
1 TATTAAAA
10872883 TA
1 TA
10872885 AATATATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
7 6 0.18
8 22 0.65
9 6 0.18
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (8 bp):
TATTAAAA
Found at i:10872876 original size:15 final size:15
Alignment explanation
Indices: 10872853--10872882 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10872843 TAATAATACT
10872853 ATTAAAATATTAAAA
1 ATTAAAATATTAAAA
*
10872868 ATTATAATATTAAAA
1 ATTAAAATATTAAAA
10872883 TAAATATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATTAAAATATTAAAA
Found at i:10873026 original size:29 final size:29
Alignment explanation
Indices: 10872986--10873051 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
10872976 ATTAATAATC
* *
10872986 TATATATTATTAAAATAA-AAAATATATTA
1 TATATATAATTAAAACAATAAAA-ATATTA
*
10873015 TATATATAATTAGAACAATAAAAATATTA
1 TATATATAATTAAAACAATAAAAATATTA
10873044 TAT-TATAA
1 TATATATAA
10873052 AAGTATAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 5 0.15
29 24 0.73
30 4 0.12
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (29 bp):
TATATATAATTAAAACAATAAAAATATTA
Found at i:10878113 original size:2 final size:2
Alignment explanation
Indices: 10878106--10878162 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
10878096 ATTGAAGGGA
10878106 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
10878148 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
10878163 ACCTCAAAGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10878180 original size:16 final size:16
Alignment explanation
Indices: 10878161--10878195 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
10878151 TATATATATA
*
10878161 TAACCTCAAAGTGTAT
1 TAACCTCAAAGTGCAT
10878177 TAACCTCAAAGTGCAT
1 TAACCTCAAAGTGCAT
10878193 TAA
1 TAA
10878196 AATAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (16 bp):
TAACCTCAAAGTGCAT
Found at i:10883564 original size:27 final size:27
Alignment explanation
Indices: 10883533--10883593 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
10883523 CACTATTAGT
*
10883533 GAACCGGCTAGAACCGTTGAACCGTTC
1 GAACCGGCCAGAACCGTTGAACCGTTC
10883560 GAACCGGCCAGAACCGTTGAACCGTTC
1 GAACCGGCCAGAACCGTTGAACCGTTC
10883587 GAACCGG
1 GAACCGG
10883594 ACCGGCTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.31, G:0.28, T:0.15
Consensus pattern (27 bp):
GAACCGGCCAGAACCGTTGAACCGTTC
Found at i:10883565 original size:17 final size:18
Alignment explanation
Indices: 10883543--10883592 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
10883533 GAACCGGCTA
10883543 GAACCGTT-GAACCGTTC
1 GAACCGTTCGAACCGTTC
**
10883560 GAACCGGCCAGAACCGTT-
1 GAACCGTTC-GAACCGTTC
10883578 GAACCGTTCGAACCG
1 GAACCGTTCGAACCG
10883593 GACCGGCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 12 0.44
18 7 0.26
19 8 0.30
ACGTcount: A:0.26, C:0.32, G:0.26, T:0.16
Consensus pattern (18 bp):
GAACCGTTCGAACCGTTC
Found at i:10884326 original size:22 final size:22
Alignment explanation
Indices: 10884279--10884326 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
10884269 AAAAATTATT
* *
10884279 TTTTATTAAATATTTTTGATAT
1 TTTTATTAAATATTTTTAATAA
*
10884301 TTTTATTTAAT-TTTTTAAATAA
1 TTTTATTAAATATTTTT-AATAA
10884323 TTTT
1 TTTT
10884327 GACGTCATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTATTAAATATTTTTAATAA
Found at i:10893332 original size:2 final size:2
Alignment explanation
Indices: 10893325--10893357 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
10893315 AGATTATGAA
10893325 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
10893358 TTTATGTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10894490 original size:21 final size:21
Alignment explanation
Indices: 10894466--10894508 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
10894456 AATAGAATAA
10894466 TTTTGTCATTATGACACTTTT
1 TTTTGTCATTATGACACTTTT
* *
10894487 TTTTGTCTTTGTGACACTTTT
1 TTTTGTCATTATGACACTTTT
10894508 T
1 T
10894509 GCGTTTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.14, G:0.12, T:0.60
Consensus pattern (21 bp):
TTTTGTCATTATGACACTTTT
Found at i:10903417 original size:19 final size:20
Alignment explanation
Indices: 10903385--10903425 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
10903375 TCAAAATTTC
*
10903385 ATTTTGATTTTCAAAATCAA
1 ATTTTGATTTTCAAAACCAA
10903405 ATTTTGA-TTTCAAAACCAA
1 ATTTTGATTTTCAAAACCAA
10903424 AT
1 AT
10903426 CATTTTCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (20 bp):
ATTTTGATTTTCAAAACCAA
Found at i:10905309 original size:20 final size:21
Alignment explanation
Indices: 10905279--10905318 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
10905269 AGCCGTTGGG
10905279 GCCTGATGGTATCGATACTAT
1 GCCTGATGGTATCGATACTAT
10905300 GCCT-ATGGTATCGATACTA
1 GCCTGATGGTATCGATACTA
10905319 CTATACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (21 bp):
GCCTGATGGTATCGATACTAT
Found at i:10905963 original size:11 final size:11
Alignment explanation
Indices: 10905941--10905973 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
10905931 GGTGGGGTGG
10905941 TTTTACTATTTT
1 TTTTA-TATTTT
10905953 TTTT-TATTTT
1 TTTTATATTTT
10905963 TTTTATATTTT
1 TTTTATATTTT
10905974 AAATATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 6 0.30
12 4 0.20
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTATATTTT
Found at i:10905973 original size:20 final size:20
Alignment explanation
Indices: 10905950--10905998 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
10905940 GTTTTACTAT
*
10905950 TTTTTTTTATTTTTTTTATA
1 TTTTTTTTATTTTATTTATA
***
10905970 TTTTAAATATTTTATTTATA
1 TTTTTTTTATTTTATTTATA
10905990 TTTCTTTTT
1 TTT-TTTTT
10905999 TTAAAAATTC
Statistics
Matches: 21, Mismatches: 7, Indels: 1
0.72 0.24 0.03
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTTTATTTTATTTATA
Found at i:10906231 original size:25 final size:25
Alignment explanation
Indices: 10906203--10906261 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
10906193 AAATTATAAG
10906203 ATATGTGGATACATCATAAAAAAAC
1 ATATGTGGATACATCATAAAAAAAC
10906228 ATATGTGGATACATCATAAAAAAAC
1 ATATGTGGATACATCATAAAAAAAC
10906253 ATATGTGGA
1 ATATGTGGA
10906262 AAAGATATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.25
Consensus pattern (25 bp):
ATATGTGGATACATCATAAAAAAAC
Found at i:10912283 original size:31 final size:31
Alignment explanation
Indices: 10912221--10912285 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
10912211 CAACTATATG
* * * *
10912221 CATGAAACTTTGATTTTGGTTCGATTTTACA
1 CATGAAACTTTGATATTGATTCAATTCTACA
* *
10912252 CATGAAATTTTGGTATTGATTCAATTCTACA
1 CATGAAACTTTGATATTGATTCAATTCTACA
10912283 CAT
1 CAT
10912286 TTTATAAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (31 bp):
CATGAAACTTTGATATTGATTCAATTCTACA
Found at i:10920524 original size:24 final size:24
Alignment explanation
Indices: 10920497--10920629 Score: 151
Period size: 24 Copynumber: 5.5 Consensus size: 24
10920487 TATATCAAAA
* * *
10920497 ATCAAAACATAATTCATGTCAAGT
1 ATCAAATCAGAATCCATGTCAAGT
* * *
10920521 ATCATATCAAAATCCAGGTCAAGT
1 ATCAAATCAGAATCCATGTCAAGT
* *
10920545 ATCAGATCAGAATCCAAGTCAAGT
1 ATCAAATCAGAATCCATGTCAAGT
*
10920569 ATCAAATTAGAATCCATGTC-AGAT
1 ATCAAATCAGAATCCATGTCAAG-T
*
10920593 ATCAGATCAGAATCCATGTCAAGT
1 ATCAAATCAGAATCCATGTCAAGT
*
10920617 ATCAGATCAGAAT
1 ATCAAATCAGAAT
10920630 TCAAATCGAA
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
23 2 0.02
24 90 0.96
25 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (24 bp):
ATCAAATCAGAATCCATGTCAAGT
Found at i:10920645 original size:48 final size:48
Alignment explanation
Indices: 10920514--10920647 Score: 128
Period size: 48 Copynumber: 2.8 Consensus size: 48
10920504 CATAATTCAT
* * ** *
10920514 GTCAAGTATCATATCAAAATCCAGGTCA-AGTATCAGATCAGAATCCAA
1 GTCAAGTATCAAATCAGAATCCAAATCAGA-AATCAGATCAGAATCCAA
* ** * *
10920562 GTCAAGTATCAAATTAGAATCCATGTCAGATATCAGATCAGAATCCAT
1 GTCAAGTATCAAATCAGAATCCAAATCAGAAATCAGATCAGAATCCAA
* *
10920610 GTCAAGTATCAGATCAGAATTCAAATC-GAAAATCAGAT
1 GTCAAGTATCAAATCAGAATCCAAATCAG-AAATCAGAT
10920648 AAAATTTTCA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
47 1 0.01
48 71 0.97
49 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.25
Consensus pattern (48 bp):
GTCAAGTATCAAATCAGAATCCAAATCAGAAATCAGATCAGAATCCAA
Found at i:10926968 original size:12 final size:12
Alignment explanation
Indices: 10926951--10926975 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10926941 TATTTTCTAA
10926951 AAAAATGAAAAT
1 AAAAATGAAAAT
10926963 AAAAATGAAAAT
1 AAAAATGAAAAT
10926975 A
1 A
10926976 GTAAATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAAATGAAAAT
Found at i:10929117 original size:15 final size:15
Alignment explanation
Indices: 10929082--10929111 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10929072 TGAAATGACT
*
10929082 GTTGCATCAGCTGTA
1 GTTGCATCAGATGTA
10929097 GTTGCATCAGATGTA
1 GTTGCATCAGATGTA
10929112 TCTGCAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (15 bp):
GTTGCATCAGATGTA
Found at i:10930517 original size:2 final size:2
Alignment explanation
Indices: 10930510--10930534 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10930500 AAAATAATCC
10930510 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
10930535 TGACTTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10931271 original size:117 final size:114
Alignment explanation
Indices: 10931069--10931301 Score: 423
Period size: 117 Copynumber: 2.0 Consensus size: 114
10931059 CTCTCCAGGA
10931069 GGCTCAGCAAGACCTCCAGAGCCGTCCTCCCCTGCACTCGGGGCTTCTGCTGTTACCGAGGCTGA
1 GGCTCAGCAAGACCTCCAGAGCCGTCCTCCCCTGCACTCGGGGCTTCTGCTGTTACCGAGGCTGA
10931134 ACCTGAAGAGCCATATTACATGGGG-AATTAGGTGGTAGGAAAAAGAAG
66 ACCTGAAGAGCCATATTACATGGGGAAATTAGGTGGTAGGAAAAAGAAG
10931182 GGCTCAGCAAGACCTCCAGAGCCGTCCCTCCCCGGCTGCACTCGGGGCTTCTGCTGTTACCGAGG
1 GGCTCAGCAAGACCTCCAGAGCCGT-CCT-CCC--CTGCACTCGGGGCTTCTGCTGTTACCGAGG
10931247 CTGAACCTGAAGAGCCATATTACATGGGGAAATTAGGTGGTAGGAAAAAGAAG
62 CTGAACCTGAAGAGCCATATTACATGGGGAAATTAGGTGGTAGGAAAAAGAAG
10931300 GG
1 GG
10931302 TAGTTCGAAC
Statistics
Matches: 115, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
113 25 0.22
114 3 0.03
115 3 0.03
117 59 0.51
118 25 0.22
ACGTcount: A:0.25, C:0.26, G:0.30, T:0.19
Consensus pattern (114 bp):
GGCTCAGCAAGACCTCCAGAGCCGTCCTCCCCTGCACTCGGGGCTTCTGCTGTTACCGAGGCTGA
ACCTGAAGAGCCATATTACATGGGGAAATTAGGTGGTAGGAAAAAGAAG
Found at i:10932921 original size:592 final size:596
Alignment explanation
Indices: 10931496--10932943 Score: 2825
Period size: 597 Copynumber: 2.4 Consensus size: 596
10931486 CCGTGATTGC
10931496 TGATTGCTGAGTGT-ATATGGCTCTTCAGGTTCAGCCTCGGTTCTCCCGAGCACTTCTTAGGAGG
1 TGATTGCTGAGTGTAATATGGCTCTTCAGGTTCAGCCTCGGTTCTCCCGAGCACTTCTTAGGAGG
* *
10931560 GAGAGGGCTTTCGAGGCTATTAGGAAGTATGAAATGGCGATGCAGGATGTGCAGCTTTTGTTGGG
66 GCGAGGGCTTTCGAAGCTATTAGGAAGTATGAAATGGCGATGCAGGATGTGCAGCTTTTGTTGGG
10931625 GGATGACCCCAATCACAAGGATGCTTTGGAGATTGCGAGGAGATTAAGGACTGCATTGGGTACTC
131 GGATGACCCCAATCACAAGGATGCTTTGGAGATTGCGAGGAGATTAAGGACTGCATTGGGTACTC
10931690 TCCAGGAGGCTCAGCAAGACCTCCAGAGCCGTCCCTCCCCGGCTGCACTCGGGGCTTCTGCTGTT
196 TCCAGGAGGCTCAGCAAGACCTCCAGAGCCGTCCCTCCCCGGCTGCACTCGGGGCTTCTGCTGTT
*
10931755 ACCGAGGCTGAACCTGAAGAGCCATATTACATGGGGAAATTAGGTGGTAGGAAAAAGAAGGGTAG
261 ACCGAGGCTGAACCTGAAGAGCCATATTACATGGGGAAATCAGGTGGTAGGAAAAAGAAGGGTAG
10931820 TTCGAACCAGGTTTCCGTTGATAATCATTCTAGTAATACTAGTGCACATGCTAATGGTGGTGTTG
326 TTCGAACCAGGTTTCCGTTGATAATCATTCTAGTAATACTAGTGCACATGCTAATGGTGGTGTTG
10931885 ATTTAGACTCTTCTATATTTTTGAAAAGAGCCCATGAACTCAAAGAGGAAGGCAATAAGAGGTTT
391 ATTTAGACTCTTC-ATATTTTTGAAAAGAGCCCATGAACTCAAAGAGGAAGGCAATAAGAGGTTT
10931950 CAGAATAGGGATTACGTGGCTGCCCTTAAACACTATGATGATGCTCTTAAGCTTATCCCCAAAAC
455 CAGAATAGGGATTACGTGGCTGCCCTTAAACACTATGATGATGCTCTTAAGCTTATCCCCAAAAC
10932015 ACACCCCGACCGAGCTGTCTTTCACAGCAACCGAGCCGCTTGCTTGATGCAAATGAAACCCGCTG
520 ACACCCCGACCGAGCTGTCTTTCACAGCAACCGAGCCGCTTGCTTGATGCAAATGAAACCCGCTG
10932080 ATTATGACACCG
585 ATTATGACACCG
10932092 TGATTGCTGAGTGTAATATGGCTCTTCAGGTTCAGCCTCGGTTCTCCCGAGCACTTCTTAGGAGG
1 TGATTGCTGAGTGTAATATGGCTCTTCAGGTTCAGCCTCGGTTCTCCCGAGCACTTCTTAGGAGG
10932157 GCGAGGGCTTTCGAAGCTATTAGGAAGTATGAAATGGCGATGCAGGATGTGCAGCTTTTGTTGGG
66 GCGAGGGCTTTCGAAGCTATTAGGAAGTATGAAATGGCGATGCAGGATGTGCAGCTTTTGTTGGG
10932222 GGATGACCCCAATCACAAGGATGCTTTGGAGATTGCGAGGAGATTAAGGACTGCATTGGGTACTC
131 GGATGACCCCAATCACAAGGATGCTTTGGAGATTGCGAGGAGATTAAGGACTGCATTGGGTACTC
10932287 TCCAGGAGGCTCAGCAAGACCTCCAGAGCCGTCCCTCCCCGGCTGCACTCGGGGCTTCTGCTGTT
196 TCCAGGAGGCTCAGCAAGACCTCCAGAGCCGTCCCTCCCCGGCTGCACTCGGGGCTTCTGCTGTT
10932352 ACCGAGGCTGAACCTGAAGAGCCATATTACATGGGGAAATCAGGTGGTAGG-AAAAGAAGGGTAG
261 ACCGAGGCTGAACCTGAAGAGCCATATTACATGGGGAAATCAGGTGGTAGGAAAAAGAAGGGTAG
10932416 TTCGAACCAGGTTTCCGTTGATAATCATTCTAGTAATACTAGTGCACATGCTAATGGTGGTGTTG
326 TTCGAACCAGGTTTCCGTTGATAATCATTCTAGTAATACTAGTGCACATGCTAATGGTGGTGTTG
10932481 ATTTAGACTC-TC-TATTTTTGAAAAGAGCCCATGAACTCAAAGAGGAAGGCAATAAGAGGTTTC
391 ATTTAGACTCTTCATATTTTTGAAAAGAGCCCATGAACTCAAAGAGGAAGGCAATAAGAGGTTTC
10932544 AGAATAGGGATTACGTGGCTGCCCTTAAACACTATGATGATGCTCTTAAGCTTATCCCCAAAACA
456 AGAATAGGGATTACGTGGCTGCCCTTAAACACTATGATGATGCTCTTAAGCTTATCCCCAAAACA
10932609 CACCCCGACCGAGCTGTCTTTCACAGCAACCGAGCCGCTTGCTTGATGCAAATGAAACCCGCTGA
521 CACCCCGACCGAGCTGTCTTTCACAGCAACCGAGCCGCTTGCTTGATGCAAATGAAACCCGCTGA
10932674 TTATGACACCG
586 TTATGACACCG
10932685 TGA-TGCTGAGTGTAATATGGCTCTTCAGGTTCAGCCTCGGTTCTCCCGAGCACTTCTTAGGAGG
1 TGATTGCTGAGTGTAATATGGCTCTTCAGGTTCAGCCTCGGTTCTCCCGAGCACTTCTTAGGAGG
10932749 GCGAGGGCTTTCGAAGCTATTAGGAAGTATGAAATGGCGATGCAGGATGTGCAGCTTTTGTTGGG
66 GCGAGGGCTTTCGAAGCTATTAGGAAGTATGAAATGGCGATGCAGGATGTGCAGCTTTTGTTGGG
10932814 GGATGACCCCAATCACAAGGATGCTTTGGAGATTGCGAGGAGATTAAGGACTGCATTGGGTACTC
131 GGATGACCCCAATCACAAGGATGCTTTGGAGATTGCGAGGAGATTAAGGACTGCATTGGGTACTC
10932879 TCCAGGAGGCTCAGCAAGACCTCCAGAGCCGTCCCTCCCCGGCTGCACTCGGGGCTTCTGCTGTT
196 TCCAGGAGGCTCAGCAAGACCTCCAGAGCCGTCCCTCCCCGGCTGCACTCGGGGCTTCTGCTGTT
10932944 CGTGGTGCCC
Statistics
Matches: 848, Mismatches: 3, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
592 256 0.30
593 195 0.23
595 2 0.00
596 102 0.12
597 293 0.35
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (596 bp):
TGATTGCTGAGTGTAATATGGCTCTTCAGGTTCAGCCTCGGTTCTCCCGAGCACTTCTTAGGAGG
GCGAGGGCTTTCGAAGCTATTAGGAAGTATGAAATGGCGATGCAGGATGTGCAGCTTTTGTTGGG
GGATGACCCCAATCACAAGGATGCTTTGGAGATTGCGAGGAGATTAAGGACTGCATTGGGTACTC
TCCAGGAGGCTCAGCAAGACCTCCAGAGCCGTCCCTCCCCGGCTGCACTCGGGGCTTCTGCTGTT
ACCGAGGCTGAACCTGAAGAGCCATATTACATGGGGAAATCAGGTGGTAGGAAAAAGAAGGGTAG
TTCGAACCAGGTTTCCGTTGATAATCATTCTAGTAATACTAGTGCACATGCTAATGGTGGTGTTG
ATTTAGACTCTTCATATTTTTGAAAAGAGCCCATGAACTCAAAGAGGAAGGCAATAAGAGGTTTC
AGAATAGGGATTACGTGGCTGCCCTTAAACACTATGATGATGCTCTTAAGCTTATCCCCAAAACA
CACCCCGACCGAGCTGTCTTTCACAGCAACCGAGCCGCTTGCTTGATGCAAATGAAACCCGCTGA
TTATGACACCG
Found at i:10938870 original size:53 final size:51
Alignment explanation
Indices: 10938808--10938919 Score: 145
Period size: 53 Copynumber: 2.1 Consensus size: 51
10938798 AAATTTTAGG
*
10938808 GTGGACACTTCCTGTAAAATAAACAACTAACA-TAAAGAAATTCAGATTTCAAA
1 GTGGACACTTCCAGTAAAATAAACAACTAACATTAAA-AAA-TCAGATTTC-AA
* * *
10938861 GTGGACACTTTCAGTAAAATAAACAATTAATATTAAAAAATCAGATTTCAA
1 GTGGACACTTCCAGTAAAATAAACAACTAACATTAAAAAATCAGATTTCAA
10938912 GATGGACA
1 G-TGGACA
10938920 TGTGATCACC
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
51 3 0.06
52 15 0.28
53 31 0.58
54 4 0.08
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.26
Consensus pattern (51 bp):
GTGGACACTTCCAGTAAAATAAACAACTAACATTAAAAAATCAGATTTCAA
Found at i:10939212 original size:37 final size:37
Alignment explanation
Indices: 10939139--10939213 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
10939129 GTTGGAAAAT
* *
10939139 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
10939176 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
10939213 A
1 A
10939214 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:10956298 original size:26 final size:25
Alignment explanation
Indices: 10956253--10956312 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 25
10956243 AATAAAAAAT
10956253 AAAAAAAATATAAATATAAATTAAG
1 AAAAAAAATATAAATATAAATTAAG
*
10956278 AAAATAAAATA-AACATGTAAATTAAG
1 AAAA-AAAATATAA-ATATAAATTAAG
10956304 AAGAAAAAA
1 AA-AAAAAA
10956313 AAGAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
25 6 0.19
26 23 0.74
27 2 0.06
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.20
Consensus pattern (25 bp):
AAAAAAAATATAAATATAAATTAAG
Found at i:10956937 original size:31 final size:31
Alignment explanation
Indices: 10956902--10956971 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
10956892 TATAAAAATA
*
10956902 TAAAATATAGACACTTTTATTTTTATTTAAT
1 TAAAATATAGACAATTTTATTTTTATTTAAT
* *
10956933 TAAAATACAGTCAATTTTATTTTTATTTAAT
1 TAAAATATAGACAATTTTATTTTTATTTAAT
*
10956964 TAAGATAT
1 TAAAATAT
10956972 TATCGGAACC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (31 bp):
TAAAATATAGACAATTTTATTTTTATTTAAT
Found at i:10959179 original size:164 final size:164
Alignment explanation
Indices: 10958977--10961949 Score: 2716
Period size: 165 Copynumber: 18.1 Consensus size: 164
10958967 TACCTTGGGC
* ** * *
10958977 TATGCTGTAAATGATGTGCCTAAGAGCTTAGCGTAGTCGAACTCGAAGGTCTTTGTTGGTAGATA
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATA
* * * *
10959042 ACCCTTATAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGA
66 ACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGA
*
10959107 AGGTCTTTGGCAGATATCCCTTCTCGACTTAAGT
131 AGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
* *
10959141 TATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGATCTTTGGTTGGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGAT
* * * * * *
10959206 AACCCTTCTCGACTTAAGCTATGTTGCAAATGA--TGCACCTTGGAGCTGAGCGTAGTCGAACTC
65 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC-CCTCGAAGCTGAGTGTAATCGAACTC
* *
10959269 GAAGGTCTTTGGTTGGTAGATAACCCTTCTCGATTTAAGT
129 GAAGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAGT
* * * * *
10959309 TATGCTGCAAATGATATGCCTTGGAGCTAAACGTAGTCGAACTCGAAGGTCTTTGGTGACAGATA
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATA
* * * ** * *
10959374 ACCCTTCTAGCCTTGAGTTATGCTATAAATAATGTGCTCTCGAAGCTGAGTGTAATCGAACTCGA
66 ACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGA
* * *
10959439 GGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGT
131 AGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
* *
10959473 TATGCTACAAATGATGTGCCTTGGATCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGAT
10959538 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
65 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
** * * *
10959603 GGGGTCTTTGGCAAATAGCCCTTCTCGACTTAAGC
130 AAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
* * * * *
10959638 TATGCTGCAAATGATGTGCCTTGAAACTGAACGTAGTCGAACTCGAAGATCTTTGGTTAGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGAT
* * * * * *
10959703 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTTGAACTCG
65 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
* * * *
10959767 AAGGCCTTTCGTGACAGATAACCCTTCTAGCCTTGAGT
130 AAGGTCTTT-G-G-CAGATAACCCTTCTCGACTTAAGT
* * * * * * * * * *
10959805 TATTCTGTAAATGATATGCCCTCGAAGTTGAGTGTAATCGAACTCGAGGGTC--T-TTCGCAGAT
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGAT
* * * * * * * * *
10959867 AGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGCGCCTTAG-AGCTGAGCGCAGTCGAACTCG
65 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
*
10959931 AAGGTCTTTGGTATGCAGATAACCCTTCTCGATTTAAGT
130 AAGGTCTTT-G---GCAGATAACCCTTCTCGACTTAAGT
* * * *
10959970 TATACTGCAAATGATATGCCTTGGAGCTGAACGTAGTCGAACTCAAAGGT-TTT-TTGTGACAGA
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTG-G-CAGA
* * * * * * *
10960033 TAACCCTTCTAGCCTTGAGTTATGCTGTAAATAATGTTCTCTCGAAGCTGAGTGTAATCGAACTC
64 TAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC
* * * *
10960098 GAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGC
129 GAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
* *
10960134 TATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGAT
10960199 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
65 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
** ** * *
10960264 GGGGTCTTTCCCTAGATAGCCCTTCTCGACTTAAGC
130 AAGGTCTTTGGC-AGATAACCCTTCTCGACTTAAGT
* * * * *
10960300 TATGTTGCAAATGATGTGCCTTGGAACTGAACGTAGTCAAACTCGAAGGTCTTTGGTTGGTAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGAT
*
10960365 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATTGAACTCG
65 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
** **
10960430 GGGGTCTTTGGCAGATAACCCTTCTCGACTTAAAC
130 AAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
* * * * * *
10960465 TATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCAAACTCGAAGGTATTTTGGTGACATAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-CTTTGTTGGCAGAT
* * * * *
10960530 AACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGTTGAGTGTAATCGAACTTG
65 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
* * *
10960595 AGGGTCTTTAGCAGATAACCCTTTTCGACTTAAGT
130 AAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
** * * * * * * * *
10960630 TATTATGTAAATGATATGCCTTTGAGCTTAGCGTAGTCAAACTCAAAGGTCTTTGGTGACAGATA
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATA
* * * ** * *
10960695 ACCCTTCTAGCCTTGAGTTATATTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGA
66 ACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGA
* * * *
10960760 GGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGC
131 AGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
** * * * * * *
10960794 TATTTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGTCTTTGGTGACATATA
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATA
* * * * * *** *
10960859 ACCCTTCTAGCCTTGAGTTATGATGTAAATGATACACCCTCGAAGTTGAGTGTAATCGAACTCGA
66 ACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGA
* * *
10960924 GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGC
131 AGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
* * * *
10960958 TATGCTGCAAATGATGCGCCTTGGAGCTGAGCATAATCGAACTCGAAGGTATTTGGTTGGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGAT
* * * * * ** *
10961023 AACCCTTCTCGATTTAAGTTATGCTGCAAATGATATGTCTTAG-AGCTGAACG-AAGTCAAACTC
65 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA-TCGAACTC
* * *
10961086 GAAGGTCTTT-G--G-TGA-CCTTCTAGCCTTAAGT
129 GAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
* * * * * * *
10961117 TATGTTGTAAATGATGTG-CTATCGAAGCTGAGTGTAATCGAACTCGAGGGTC--T-TTGGCATA
1 TATGCTGCAAATGATGTGCCT-T-GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGA
* * * * * * * *
10961178 TAGCCCTTTTCGACTTAAGCTATGTTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTC
64 TAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC
* *
10961242 AAAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGT
129 GAAGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAGT
* * * * * * * **
10961282 TATGTTGCAAATGATGTGCCCTAGAAGCTGAGTGTAATTGAAGTCGGGGGTC--T-TTGGCAGAT
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGAT
** * * * * ** *
10961344 AGTCTTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAA-CTGAACGTAGTCGAACTCG
65 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
* *
10961408 AAGGTCTTTGGTTGGCAGATAA---TCCTCAACTTAAGT
130 AAGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAGT
* * * * * * *
10961444 TATGCTGCAAATAATGTGCCCTCGAAGCTGAGTGTAATTGAACTCG-GGGATC--T-TTGGCAGA
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGG-TCTTTGTTGGCAGA
* * * * * * ** *
10961505 TAGCCCTTATCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGATGAACGTAGTCGAACTC
64 TAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC
* * * * *
10961569 GAAGGTCTTTTGGTGATAAATAACCCTTCTAGCCTTGAGT
129 GAAGGTC-TTT-G-G-CAGATAACCCTTCTCGACTTAAGT
* * * * * * *
10961609 TATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTC--T-TTGGCAGAT
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGAT
* * * * * * * * *
10961671 AGCCCTTCTCGACTTAAGCTATTCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCA
65 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
* * * *
10961735 AAGGTCTTTGGTGATAGATAACCCTTCTAGCCTTGAGT
130 AAGGTCTTT-G-G-CAGATAACCCTTCTCGACTTAAGT
* * * * * * * * *
10961773 TATGTTGTAAATGATGTACCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTC--T-TTGGCAGAT
1 TATGCTGCAAATGATGT-GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGAT
* ** * * * * *
10961835 AGCCCTTCTCGACTTAAGTTATTATGCAAATGATATG-CCTTGGAGCTGAGTGTAGTCGAACTCA
65 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
* * *
10961899 AAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGT
130 AAGGTC--T-TTGGCAGATAACCCTTCTCGACTTAAGT
10961937 TATGCTGCAAATG
1 TATGCTGCAAATG
10961950 TCATCTTTTA
Statistics
Matches: 2422, Mismatches: 330, Indels: 114
0.85 0.12 0.04
Matches are distributed among these distances:
155 3 0.00
156 60 0.02
157 1 0.00
158 4 0.00
159 31 0.01
160 28 0.01
161 12 0.00
162 129 0.05
163 7 0.00
164 850 0.35
165 855 0.35
166 176 0.07
167 109 0.05
168 154 0.06
169 3 0.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (164 bp):
TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATA
ACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGA
AGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
Found at i:10959623 original size:165 final size:165
Alignment explanation
Indices: 10958977--10961949 Score: 2727
Period size: 164 Copynumber: 18.1 Consensus size: 165
10958967 TACCTTGGGC
* ** * *
10958977 TATGCTGTAAATGATGTGCCTAAGAGCTTAGCGTAGTCGAACTCGAAGGTCTTT-GTTGGTAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
* * * *
10959041 AACCCTTATAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
66 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
*
10959106 AAGGTCTTTGGCAGATATCCCTTCTCGACTTAAGT
131 AAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
* *
10959141 TATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTCGAAGATCTTTGGTTGGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
* * * * * *
10959206 AACCCTTCTCGACTTAAGCTATGTTGCAAATGA--TGCACCTTGGAGCTGAGCGTAGTCGAACTC
66 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC-CCTCGAAGCTGAGTGTAATCGAACTC
* *
10959269 GAAGGTCTTTGGTTGGTAGATAACCCTTCTCGATTTAAGT
130 GAAGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAGT
* * * *
10959309 TATGCTGCAAATGATATGCCTTGGAGCTAAACGTAGTCGAACTCGAAGGTCTTTGG-TGACAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
* * * ** * *
10959373 AACCCTTCTAGCCTTGAGTTATGCTATAAATAATGTGCTCTCGAAGCTGAGTGTAATCGAACTCG
66 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
* * *
10959438 AGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGT
131 AAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
* *
10959473 TATGCTACAAATGATGTGCCTTGGATCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
10959538 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
66 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
** * * *
10959603 GGGGTCTTTGGCAAATAGCCCTTCTCGACTTAAGC
131 AAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
* * * * *
10959638 TATGCTGCAAATGATGTGCCTTGAAACTGAACGTAGTCGAACTCGAAGATCTTTGGTTAGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
* * * * * *
10959703 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTTGAACTCG
66 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
* * * *
10959767 AAGGCCTTTCGTGACAGATAACCCTTCTAGCCTTGAGT
131 AAGGTCTTT-G-G-CAGATAACCCTTCTCGACTTAAGT
* * * * * * * * * *
10959805 TATTCTGTAAATGATATGCCCTCGAAGTTGAGTGTAATCGAACTCGAGGGTC--T--TTCGCAGA
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGA
* * * * * * * * *
10959866 TAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGCGCCTTAG-AGCTGAGCGCAGTCGAACTC
65 TAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC
*
10959930 GAAGGTCTTTGGTATGCAGATAACCCTTCTCGATTTAAGT
130 GAAGGTCTTT-G---GCAGATAACCCTTCTCGACTTAAGT
* * * * * * *
10959970 TATACTGCAAATGATATGCCTTGGAGCTGAACGTAGTCGAACTCAAAGGTTTTTTG-TGACAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
* * * * * * *
10960034 AACCCTTCTAGCCTTGAGTTATGCTGTAAATAATGTTCTCTCGAAGCTGAGTGTAATCGAACTCG
66 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
* * * *
10960099 AGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGC
131 AAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
* *
10960134 TATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
10960199 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
66 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
** ** * *
10960264 GGGGTCTTTCCCTAGATAGCCCTTCTCGACTTAAGC
131 AAGGTCTTTGGC-AGATAACCCTTCTCGACTTAAGT
* * * * *
10960300 TATGTTGCAAATGATGTGCCTTGGAACTGAACGTAGTCAAACTCGAAGGTCTTTGGTTGGTAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
*
10960365 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATTGAACTCG
66 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
** **
10960430 GGGGTCTTTGGCAGATAACCCTTCTCGACTTAAAC
131 AAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
* * * * *
10960465 TATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCAAACTCGAAGGTATTTTGG-TGACATA
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-CTTTGGTTGGCAGA
* * * * *
10960529 TAACCCTTCTAGACTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGTTGAGTGTAATCGAACTT
65 TAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC
* * *
10960594 GAGGGTCTTTAGCAGATAACCCTTTTCGACTTAAGT
130 GAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
** * * * * * * *
10960630 TATTATGTAAATGATATGCCTTTGAGCTTAGCGTAGTCAAACTCAAAGGTCTTTGG-TGACAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
* * * ** * *
10960694 AACCCTTCTAGCCTTGAGTTATATTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTG
66 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
* * * *
10960759 AGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGC
131 AAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
** * * * * *
10960794 TATTTTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGTCTTTGG-TGACATAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
* * * * * *** *
10960858 AACCCTTCTAGCCTTGAGTTATGATGTAAATGATACACCCTCGAAGTTGAGTGTAATCGAACTCG
66 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
* * *
10960923 AGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGC
131 AAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
* * * *
10960958 TATGCTGCAAATGATGCGCCTTGGAGCTGAGCATAATCGAACTCGAAGGTATTTGGTTGGCAGAT
1 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
* * * * * ** *
10961023 AACCCTTCTCGATTTAAGTTATGCTGCAAATGATATGTCTTAG-AGCTGAACG-AAGTCAAACTC
66 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA-TCGAACTC
* * *
10961086 GAAGGTCTTT-G--G-TGA-CCTTCTAGCCTTAAGT
130 GAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
* * * * * * *
10961117 TATGTTGTAAATGATGTG-CTATCGAAGCTGAGTGTAATCGAACTCGAGGGTC--T--TTGGCAT
1 TATGCTGCAAATGATGTGCCT-T-GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAG
* * * * * * * *
10961177 ATAGCCCTTTTCGACTTAAGCTATGTTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACT
64 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
* *
10961241 CAAAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGT
129 CGAAGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAGT
* * * * * * * **
10961282 TATGTTGCAAATGATGTGCCCTAGAAGCTGAGTGTAATTGAAGTCGGGGGTC--T--TTGGCAGA
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGA
** * * * * ** *
10961343 TAGTCTTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAA-CTGAACGTAGTCGAACTC
65 TAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC
* *
10961407 GAAGGTCTTTGGTTGGCAGATAA---TCCTCAACTTAAGT
130 GAAGGTC--T--TTGGCAGATAACCCTTCTCGACTTAAGT
* * * * * * *
10961444 TATGCTGCAAATAATGTGCCCTCGAAGCTGAGTGTAATTGAACTCG-GGGATC--T--TTGGCAG
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGG-TCTTTGGTTGGCAG
* * * * * * ** *
10961504 ATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGATGAACGTAGTCGAACT
64 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
* * * * *
10961568 CGAAGGTCTTTTGGTGATAAATAACCCTTCTAGCCTTGAGT
129 CGAAGGTC-TTT-G-G-CAGATAACCCTTCTCGACTTAAGT
* * * * * * *
10961609 TATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTC--T--TTGGCAGA
1 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGA
* * * * * * * *
10961670 TAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTC
65 TAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC
* * * * *
10961734 AAAGGTCTTTGGTGATAGATAACCCTTCTAGCCTTGAGT
130 GAAGGTCTTT-G-G-CAGATAACCCTTCTCGACTTAAGT
* * * * * * * * *
10961773 TATGTTGTAAATGATGTACCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTC--T--TTGGCAGA
1 TATGCTGCAAATGATGT-GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGA
* ** * * * *
10961834 TAGCCCTTCTCGACTTAAGTTATTATGCAAATGATATG-CCTTGGAGCTGAGTGTAGTCGAACTC
65 TAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC
* * * *
10961898 AAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGT
130 GAAGGTC--T-TTGGCAGATAACCCTTCTCGACTTAAGT
10961937 TATGCTGCAAATG
1 TATGCTGCAAATG
10961950 TCATCTTTTA
Statistics
Matches: 2423, Mismatches: 331, Indels: 110
0.85 0.12 0.04
Matches are distributed among these distances:
155 3 0.00
156 60 0.02
157 1 0.00
158 4 0.00
159 31 0.01
160 28 0.01
161 12 0.00
162 129 0.05
163 7 0.00
164 858 0.35
165 848 0.35
166 177 0.07
167 106 0.04
168 156 0.06
169 3 0.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (165 bp):
TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
AAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGT
Found at i:10961612 original size:327 final size:325
Alignment explanation
Indices: 10958977--10961949 Score: 1574
Period size: 329 Copynumber: 9.0 Consensus size: 325
10958967 TACCTTGGGC
* * * * * *
10958977 TATGCTGTAAATGATGTG-CCTA-AGAGCTTAGCGTAGTCGAACTCGAAGGTCTTTGTTGGTAGA
1 TATGCTGCAAATGATGTGCCCTAGA-AGCTGAGTGTAATCGAACTCGAGGGTC--T-TTGGCAGA
* * * * * * * * * ** *
10959040 TAACCCTTATAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTC
62 TAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATG-CCTTGGAGCTGAACGTAGTCGAACTC
* * * * * * *
10959105 GAAGGTCTTT-G-GCAGAT-ATCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGA
126 GAAGGTCTTTGGTGGAGATAAT-CC-TC-AGCCTTAAGTTATGTTGTAAATGATGTGCCCTCGAA
** * * * * * *
10959166 GCTGAACGTAGTCGAACTCGAAGATCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGTT
188 GCTGAGTGTAATCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTTATCGACTTAAGCTATGAT
** *
10959231 GCAAATGATGCACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGATAACCCT
249 GCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGG-TGGTAGATAACCCT
* ** *
10959296 TCTCGATTTAAGT
313 TCTAGCCTTGAGT
* * * * ** * *
10959309 TATGCTGCAAATGATATG-CCTTGGAGCTAAACGTAGTCGAACTCGAAGGTCTTTGGTGACAGAT
1 TATGCTGCAAATGATGTGCCCTAGAAGCTGAGTGTAATCGAACTCGAGGGTCTTT-G-G-CAGAT
* * * * * ** * * * * ** *
10959373 AACCCTTCTAGCCTTGAGTTATGCTATAAATAATGTGCTCTCGAAGCTGAGTGTAATCGAACTCG
63 AGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGC-CTTGGAGCTGAACGTAGTCGAACTCG
* * * * * * ** * * *
10959438 AGGGTCTTT-G-GCAGATAGCCCTTCTCA-ACTTAAGTTATGCTACAAATGATGTG-CCTTGGAT
127 AAGGTCTTTGGTGGAGATA---ATCCTCAGCCTTAAGTTATGTTGTAAATGATGTGCCCTCGAAG
* * * * * * *
10959499 CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTG
189 CTGAGTGTAATCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTTATCGACTTAAGCTATGATG
* * * * *** * * *
10959564 CAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-TT--TGGCAAATAGCCCTT
250 CAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGGTAGATAACCCTT
* * * *
10959626 CTCGACTTAAGC
314 CTAGCCTTGAGT
* * ** * * *
10959638 TATGCTGCAAATGATGTG-CCTTGAAACTGAACGTAGTCGAACTCGAAGATCTTTGGTTAGCAGA
1 TATGCTGCAAATGATGTGCCCTAGAAGCTGAGTGTAATCGAACTCGAGGGTCTTT-G---GCAGA
* * * *
10959702 TAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTTGAACTCG
62 TAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAACGTAGTCGAACTCG
* * * * * *
10959767 AAGGCCTTTCGTGACAGATAACCCTTCTAGCCTTGAGTTAT-TCTGTAAATGATATGCCCTCGAA
127 AAGGTCTTTGGTG-GAGATAATCC-TC-AGCCTTAAGTTATGT-TGTAAATGATGTGCCCTCGAA
* * * *
10959831 GTTGAGTGTAATCGAACTCGAGGGTCTTTCGCAGATAGCCCTTCTCGACTTAAGCTATGTTGCAA
188 GCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTATCGACTTAAGCTATGATGCAA
* * * * * * *
10959896 ATGATGCGCCTTAGAGCTGAGCGCAGTCGAACTCGAAGGTCTTTGGTATGCAGATAACCCTTCTC
253 ATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGT-GGTAGATAACCCTTCTA
** *
10959961 GATTTAAGT
317 GCCTTGAGT
* * * * ** * * * *
10959970 TATACTGCAAATGATATG-CCTTGGAGCTGAACGTAGTCGAACTCAAAGGTTTTTTGTGACAGAT
1 TATGCTGCAAATGATGTGCCCTAGAAGCTGAGTGTAATCGAACTC-GAGGGTCTTTG-G-CAGAT
* * * * * * * * * * * ** *
10960034 AACCCTTCTAGCCTTGAGTTATGCTGTAAATAATGTTCTCTCGAAGCTGAGTGTAATCGAACTCG
63 AGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGC-CTTGGAGCTGAACGTAGTCGAACTCG
* * * * * * * ** * *
10960099 AGGGTCTTT-G-GCAGATAGCCCTTCTCA-ACTTAAGCTATGCTACAAATGATGTG-CCTTGGAG
127 AAGGTCTTTGGTGGAGATA---ATCCTCAGCCTTAAGTTATGTTGTAAATGATGTGCCCTCGAAG
* * * * * * * *
10960160 CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGTTATGCTG
189 CTGAGTGTAATCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTTATCGACTTAAGCTATGATG
* * * * *** *** *
10960225 CAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT--CCCTAGATAGCCCTT
250 CAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGGTAGATAACCCTT
* * * *
10960288 CTCGACTTAAGC
314 CTAGCCTTGAGT
* * * ** * * * *
10960300 TATGTTGCAAATGATGTGCCTTGGAA-CTGAACGTAGTCAAACTCGAAGGTCTTTGGTTGGTAGA
1 TATGCTGCAAATGATGTGCCCTAGAAGCTGAGTGTAATCGAACTCGAGGGTC--T--TTGGCAGA
* * * * * ** * *
10960364 TAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATTGAACTC
62 TAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATG-CCTTGGAGCTGAACGTAGTCGAACTC
** * * * * ** * * * *
10960429 GGGGGTCTTT-G-GCAGATAACCCTTCTCGACTTAAACTATGCTGCAAATGATGTG-CCTTGGAG
126 GAAGGTCTTTGGTGGAGATAATCC-TC-AGCCTTAAGTTATGTTGTAAATGATGTGCCCTCGAAG
** * * * * * * * * * * *
10960491 CTGAACGTAGTCAAACTCGAAGGTATTTTGGTGACATATAACCCTTCTAGACTTGAGTTATGCTG
189 CTGAGTGTAATCGAACTCGAGGGT-CTTT-G-G-CAGATAGCCCTTATCGACTTAAGCTATGATG
* * * * * * ** * * *
10960556 TAAATGATGTGCCCTCGAAGTTGAGTGTAATCGAACTTGAGGGTC-TT--TAGCAGATAACCCTT
250 CAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGGTAGATAACCCTT
* * * *
10960618 TTCGACTTAAGT
314 CTAGCCTTGAGT
** * * * * * * * * * *
10960630 TATTATGTAAATGATATGCCTTTG-AGCTTAGCGTAGTCAAACTCAAAGGTCTTTGGTGACAGAT
1 TATGCTGCAAATGATGTGCCCTAGAAGCTGAGTGTAATCGAACTCGAGGGTCTTT-G-G-CAGAT
* * * * * ** * * * * ** * *
10960694 AACCCTTCTAGCCTTGAGTTATATTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTG
63 AGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATG-CCTTGGAGCTGAACGTAGTCGAACTCG
* * * * * * * * * * *
10960759 AGGGTCTTT-G-GCAGATAGCCCTTCTCA-ACTTAAGCTATTTTGCAAATGATATG-CCTTGGAG
127 AAGGTCTTTGGTGGAGATA---ATCCTCAGCCTTAAGTTATGTTGTAAATGATGTGCCCTCGAAG
* * * * * * * * * * * * *
10960820 CTGAGCGTAGTCAAACTCAAAGGTCTTTGGTGACATATAACCCTTCTAGCCTTGAGTTATGATGT
189 CTGAGTGTAATCGAACTCGAGGGTCTTT-G-G-CAGATAGCCCTTATCGACTTAAGCTATGATGC
*** * * * * * * * * *
10960885 AAATGATACACCCTCGAAGTTGAGTGTAATCGAACTCGAGGGTC-TT--TGGCAGATAGCCCTTC
251 AAATGAT-GTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGGTAGATAACCCTTC
* * * *
10960947 TCGACTTAAGC
315 TAGCCTTGAGT
* * * ** * *
10960958 TATGCTGCAAATGATGCG-CCTTGGAGCTGAGCATAATCGAACTCGAAGGTATTTGGTTGGCAGA
1 TATGCTGCAAATGATGTGCCCTAGAAGCTGAGTGTAATCGAACTCG-AGG-GTCT--TTGGCAGA
* * * * * * *
10961022 TAACCCTTCTCGATTTAAGTTATGCTGCAAATGATATGTCTTAGAGCTGAACGAAGTCAAACTCG
62 TAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAACGTAGTCGAACTCG
** **
10961087 AAGGTCTTTGGT-GACCT--T-CT-AGCCTTAAGTTATGTTGTAAATGATGTGCTATCGAAGCTG
127 AAGGTCTTTGGTGGAGATAATCCTCAGCCTTAAGTTATGTTGTAAATGATGTGCCCTCGAAGCTG
* * *
10961147 AGTGTAATCGAACTCGAGGGTCTTTGGCATATAGCCCTTTTCGACTTAAGCTATGTTGCAAATGA
192 AGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTATCGACTTAAGCTATGATGCAAATGA
* *
10961212 TGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGTAGATAACCCTTCTCGACT
257 TGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGG-TGGTAGATAACCCTTCTAGCCT
*
10961277 TAAGT
321 TGAGT
* * * * *
10961282 TATGTTGCAAATGATGTGCCCTAGAAGCTGAGTGTAATTGAAGTCGGGGGTCTTTGGCAGATAGT
1 TATGCTGCAAATGATGTGCCCTAGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGC
* * *
10961347 CTTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAACTGAACGTAGTCGAACTCGAAGG
66 CCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAACGTAGTCGAACTCGAAGG
* * * *
10961412 TCTTTGGTTGGCAGATAATCCTCA-ACTTAAGTTATGCTGCAAATAATGTGCCCTCGAAGCTGAG
131 TCTTTGG-TGG-AGATAATCCTCAGCCTTAAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAG
* *
10961476 TGTAATTGAACTCG-GGGATCTTTGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAATGAT
194 TGTAATCGAACTCGAGGG-TCTTTGGCAGATAGCCCTTATCGACTTAAGCTATGATGCAAATGAT
* * * * *
10961540 GTGCCTTGGAGATGAACGTAGTCGAACTCGAAGGTCTTTTGGTGATAAATAACCCTTCTAGCCTT
258 GTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTTGGTGGTAGATAACCCTTCTAGCCTT
10961605 GAGT
322 GAGT
* * *
10961609 TATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAGC
1 TATGCTGCAAATGATGTGCCCTAGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGC
* * *
10961674 CCTTCTCGACTTAAGCTATTCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGG
66 CCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAACGTAGTCGAACTCGAAGG
* * * *
10961739 TCTTTGGTGATAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTACCCTCGAAGCTGA
131 TCTTTGGTG-GAGATAATCC-TC-AGCCTTAAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGA
* * * *
10961804 GTGTAATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATTATGCAAATGAT
193 GTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTATCGACTTAAGCTATGATGCAAATGAT
* * * *
10961869 ATGCCTTGGAGCTGAGTGTAGTCGAACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTG
258 GTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGGTAGATAACCCTTCTAGCCTTG
10961934 AGT
323 AGT
10961937 TATGCTGCAAATG
1 TATGCTGCAAATG
10961950 TCATCTTTTA
Statistics
Matches: 2174, Mismatches: 382, Indels: 174
0.80 0.14 0.06
Matches are distributed among these distances:
320 26 0.01
321 106 0.05
322 3 0.00
323 27 0.01
324 72 0.03
325 21 0.01
326 16 0.01
327 277 0.13
328 260 0.12
329 465 0.21
330 168 0.08
331 252 0.12
332 387 0.18
333 90 0.04
334 2 0.00
335 1 0.00
336 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (325 bp):
TATGCTGCAAATGATGTGCCCTAGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGC
CCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAACGTAGTCGAACTCGAAGG
TCTTTGGTGGAGATAATCCTCAGCCTTAAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTG
TAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTATCGACTTAAGCTATGATGCAAATGATGTG
CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTGGTAGATAACCCTTCTAGCCTTGAGT
Found at i:10963267 original size:95 final size:94
Alignment explanation
Indices: 10963100--10963300 Score: 323
Period size: 95 Copynumber: 2.1 Consensus size: 94
10963090 GGACAACTTA
* * * *
10963100 ATATATAAATACCTTTATCAGGTTAGCTGAATCTTATCTATAAAGCCGGGGCGTTTAACCAATTA
1 ATATATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTA
*
10963165 TCTTAGAGGGACAGCTCAAGCTTTATTGT
66 TCTTAGAGGGACAACTCAAGCTTTATTGT
10963194 ATAGTATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATT
1 ATA-TATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATT
10963259 -TCTCTAGAGGGACAACTCAAGCTTTATTGT
65 ATCT-TAGAGGGACAACTCAAGCTTTATTGT
10963289 ATATATATATTA
1 ATATATA-ATTA
10963301 TTATAATCTG
Statistics
Matches: 99, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
94 10 0.10
95 89 0.90
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (94 bp):
ATATATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTA
TCTTAGAGGGACAACTCAAGCTTTATTGT
Found at i:10966897 original size:18 final size:18
Alignment explanation
Indices: 10966862--10966910 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
10966852 AAAATAAACA
*
10966862 AAAACAATAAAAATAATT
1 AAAATAATAAAAATAATT
10966880 AAAATAATAAAAGA-AATT
1 AAAATAATAAAA-ATAATT
*
10966898 CAAATGAATAAAA
1 AAAAT-AATAAAA
10966911 TAAAAAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (18 bp):
AAAATAATAAAAATAATT
Found at i:10966964 original size:17 final size:16
Alignment explanation
Indices: 10966942--10966986 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
10966932 GTTTTTTAAA
10966942 AAAATAAAAATAAGAAT
1 AAAATAAAAATAA-AAT
*
10966959 AAAATAATAAGTAAAAT
1 AAAATAA-AAATAAAAT
10966976 -AAATAAAAATA
1 AAAATAAAAATA
10966987 TATTCAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 4 0.16
16 6 0.24
17 10 0.40
18 5 0.20
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:10968284 original size:27 final size:26
Alignment explanation
Indices: 10968254--10968322 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 26
10968244 TTTAAATGAA
10968254 AATAAAATATTTTTAAATGAAGTTAAT
1 AATAAAATATTTTTAAAT-AAGTTAAT
*
10968281 AATAAAATATATTT-AATAAGTTAAT
1 AATAAAATATTTTTAAATAAGTTAAT
* *
10968306 ATAAAAAATAGTTTTAA
1 A-ATAAAATATTTTTAA
10968323 GTTAATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.25
26 13 0.36
27 14 0.39
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (26 bp):
AATAAAATATTTTTAAATAAGTTAAT
Found at i:10968312 original size:25 final size:26
Alignment explanation
Indices: 10968255--10968342 Score: 89
Period size: 25 Copynumber: 3.5 Consensus size: 26
10968245 TTAAATGAAA
*
10968255 ATAAAATATTTTTAAATGAAGTTAATA-
1 ATAAAATATATTT-AAT-AAGTTAATAT
10968282 ATAAAATATATTTAATAAGTTAATAT
1 ATAAAATATATTTAATAAGTTAATAT
10968308 A-AAAA-ATAGTTT--TAAGTTAATAT
1 ATAAAATATA-TTTAATAAGTTAATAT
10968331 ATAGAAA-ATATT
1 ATA-AAATATATT
10968343 ATGAATTTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 11
0.82 0.01 0.16
Matches are distributed among these distances:
23 12 0.21
24 6 0.11
25 22 0.39
26 4 0.07
27 12 0.21
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (26 bp):
ATAAAATATATTTAATAAGTTAATAT
Found at i:10970440 original size:18 final size:18
Alignment explanation
Indices: 10970417--10970536 Score: 72
Period size: 18 Copynumber: 6.8 Consensus size: 18
10970407 AAGACAATTC
10970417 TTATTTATTTATTTTGAA
1 TTATTTATTTATTTTGAA
*
10970435 TTATTTATTTATTTCGAA
1 TTATTTATTTATTTTGAA
**
10970453 GAATTTATTTAGTTTT--A
1 TTATTTATTTA-TTTTGAA
* *
10970470 TTCATTTATTTCGA-ATAG-A
1 TT-ATTTATTT--ATTTTGAA
* * *
10970489 TTAATGATTTA-TTT-AT
1 TTATTTATTTATTTTGAA
* *
10970505 TTACTTATTTATTTTGAT
1 TTATTTATTTATTTTGAA
10970523 TTATTTATTTATTT
1 TTATTTATTTATTT
10970537 GAAAGGTCGT
Statistics
Matches: 78, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
16 11 0.14
17 4 0.05
18 56 0.72
19 6 0.08
20 1 0.01
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (18 bp):
TTATTTATTTATTTTGAA
Found at i:10970504 original size:4 final size:4
Alignment explanation
Indices: 10970495--10970536 Score: 57
Period size: 4 Copynumber: 10.0 Consensus size: 4
10970485 TAGATTAATG
*
10970495 ATTT ATTT ATTT ACTT ATTT ATTTT GATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT A-TTT -ATTT ATTT ATTT ATTT
10970537 GAAAGGTCGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 27 0.79
5 6 0.18
6 1 0.03
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:10972516 original size:12 final size:12
Alignment explanation
Indices: 10972501--10972592 Score: 58
Period size: 12 Copynumber: 7.4 Consensus size: 12
10972491 ATGATATTGA
10972501 TGATGGTAATGG
1 TGATGGTAATGG
**
10972513 TGATGGTGGTGGTG
1 TGATGGTAAT-G-G
10972527 ATGATGGTAATGG
1 -TGATGGTAATGG
**
10972540 TGATGGTGGTGG
1 TGATGGTAATGG
* * *
10972552 TGATGATGATGT
1 TGATGGTAATGG
* *
10972564 TGATGTTAATGT
1 TGATGGTAATGG
* *
10972576 TGATGTTAATGT
1 TGATGGTAATGG
10972588 TGATG
1 TGATG
10972593 TTGATGAAGA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
12 54 0.82
13 2 0.03
14 2 0.03
15 8 0.12
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.39
Consensus pattern (12 bp):
TGATGGTAATGG
Found at i:10972520 original size:6 final size:6
Alignment explanation
Indices: 10972501--10972568 Score: 61
Period size: 6 Copynumber: 11.8 Consensus size: 6
10972491 ATGATATTGA
* * *
10972501 TGATGG TAATGG TGATGG TGGTGG TGA--- TGATGG TAATGG TGATGG
1 TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG
* * *
10972546 TGGTGG TGATGA TGATGT TGATG
1 TGATGG TGATGG TGATGG TGATG
10972569 TTAATGTTGA
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
3 3 0.06
6 46 0.94
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (6 bp):
TGATGG
Found at i:10972528 original size:27 final size:27
Alignment explanation
Indices: 10972498--10972559 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
10972488 TTGATGATAT
10972498 TGATGATGGTAATGGTGATGGTGGTGG
1 TGATGATGGTAATGGTGATGGTGGTGG
10972525 TGATGATGGTAATGGTGATGGTGGTGG
1 TGATGATGGTAATGGTGATGGTGGTGG
10972552 TGATGATG
1 TGATGATG
10972560 ATGTTGATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.34
Consensus pattern (27 bp):
TGATGATGGTAATGGTGATGGTGGTGG
Found at i:10972569 original size:6 final size:6
Alignment explanation
Indices: 10972552--10972598 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
10972542 ATGGTGGTGG
* * *
10972552 TGATGA TGATGT TGATGT TAATGT TGATGT TAATGT TGATGT TGATG
1 TGATGT TGATGT TGATGT TGATGT TGATGT TGATGT TGATGT TGATG
10972599 AAGATGGATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (6 bp):
TGATGT
Found at i:10977880 original size:59 final size:59
Alignment explanation
Indices: 10977781--10977917 Score: 186
Period size: 59 Copynumber: 2.3 Consensus size: 59
10977771 CAGCAGGCTG
** * *
10977781 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
* ** *
10977840 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
10977899 CATATTCGGG-ATAGCACTA
1 CATATTCGGGAATA-CACTA
10977918 CGGTGCTTAT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
58 1 0.02
59 64 0.98
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
Found at i:10977997 original size:20 final size:20
Alignment explanation
Indices: 10977959--10978011 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
10977949 CCTCAGGGTT
* *
10977959 GTATATTGGCTATTGTCTATT
1 GTATA-TGGTTATTGTCTATG
* *
10977980 GTTTATGGTTATTTTCTATG
1 GTATATGGTTATTGTCTATG
10978000 GTATATGGTTAT
1 GTATATGGTTAT
10978012 GGAATAATGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.19, C:0.06, G:0.21, T:0.55
Consensus pattern (20 bp):
GTATATGGTTATTGTCTATG
Found at i:10985299 original size:59 final size:59
Alignment explanation
Indices: 10985200--10985336 Score: 186
Period size: 59 Copynumber: 2.3 Consensus size: 59
10985190 CAGCAGGCTG
** * *
10985200 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
* ** *
10985259 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
10985318 CATATTCGGG-ATAGCACTA
1 CATATTCGGGAATA-CACTA
10985337 CGGTGCTTAT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
58 1 0.02
59 64 0.98
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
Found at i:10985418 original size:20 final size:20
Alignment explanation
Indices: 10985390--10985432 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10985380 TATATTAGGC
* *
10985390 TATTGTCTATTGTTTATGGT
1 TATTGTCTATGGTATATGGT
*
10985410 TATTTTCTATGGTATATGGT
1 TATTGTCTATGGTATATGGT
10985430 TAT
1 TAT
10985433 GGAATAATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.19, C:0.05, G:0.19, T:0.58
Consensus pattern (20 bp):
TATTGTCTATGGTATATGGT
Found at i:10988943 original size:6 final size:6
Alignment explanation
Indices: 10988932--10988966 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
10988922 TTAGAAAACA
*
10988932 TACATG TACATG TACATG TACATA TACATG TACAT
1 TACATG TACATG TACATG TACATG TACATG TACAT
10988967 ACATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (6 bp):
TACATG
Found at i:10988971 original size:16 final size:16
Alignment explanation
Indices: 10988929--10988987 Score: 73
Period size: 16 Copynumber: 3.6 Consensus size: 16
10988919 CTTTTAGAAA
*
10988929 ACATACATGTACATGT
1 ACATACATATACATGT
10988945 ACATGTACATATACATGT
1 ACA--TACATATACATGT
* *
10988963 ACATACATATATATAT
1 ACATACATATACATGT
10988979 ACATACATA
1 ACATACATA
10988988 CACACACATC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 23 0.61
18 15 0.39
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (16 bp):
ACATACATATACATGT
Found at i:10989745 original size:120 final size:121
Alignment explanation
Indices: 10989520--10989915 Score: 331
Period size: 120 Copynumber: 3.3 Consensus size: 121
10989510 AACGGTTAAT
* *
10989520 TTTTCAAACAAAATTGAAAGTTTAGGTATTAAAATGGATCAAAAATGATAGTTT-GAGTACTAAA
1 TTTTGAAA-AAAATTGAAAGTTTAGGTATTAAAATGGACCAAAAATGATAGTTTAG-GTACTAAA
** * *
10989584 CGCGTTAAGTTGTTAACAGTGAGTAATAAATGAAACAAAAACTAAACACTAGGTATGG
64 AACGTTAAGTTGTTAACAGTGAGTAATAAATGAAACAAAAACCAAACACTAGGTATGA
** * * *
10989642 TTTTG-AAAGCATTGAAAGTTTAGGTATTAAAACGGACCAAAAATAATAATTTAGGTAC-AAAAA
1 TTTTGAAAAAAATTGAAAGTTTAGGTATTAAAATGGACCAAAAATGATAGTTTAGGTACTAAAAA
* * ** * * * *
10989705 CGTTAATTTTTTAA-TTTTAGGTATTAAAATGAAATAAAAACCAAACATTAGGTATGA
66 CGTTAAGTTGTTAACAGTGA-GTAAT-AAATGAAACAAAAACCAAACACTAGGTATGA
** * * ** *
10989762 TTTTGAAAAAAAAAGGAAAGTTTAGGTACTAAAATGGACCAAAACTGATAGTTTAGGTGTTAAAC
1 TTTTG-AAAAAAATTGAAAGTTTAGGTATTAAAATGGACCAAAAATGATAGTTTAGGTACTAAAA
** * * * * * * *
10989827 ACACTAAGTCT-TTAATAG-GGGATACTAAAATGAAACAAAAACTAAACATTCGATATGA
65 ACGTTAAGT-TGTTAACAGTGAG-TAAT-AAATGAAACAAAAACCAAACACTAGGTATGA
* *
10989885 -TTT-AAAAAAAATGAAAGTTTAAGTATTAAAA
1 TTTTGAAAAAAATTGAAAGTTTAGGTATTAAAA
10989916 CGAACAAAAA
Statistics
Matches: 219, Mismatches: 46, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
118 2 0.01
119 19 0.09
120 100 0.46
121 3 0.01
122 50 0.23
123 44 0.20
124 1 0.00
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.29
Consensus pattern (121 bp):
TTTTGAAAAAAATTGAAAGTTTAGGTATTAAAATGGACCAAAAATGATAGTTTAGGTACTAAAAA
CGTTAAGTTGTTAACAGTGAGTAATAAATGAAACAAAAACCAAACACTAGGTATGA
Found at i:10998850 original size:16 final size:16
Alignment explanation
Indices: 10998829--10998860 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10998819 TAGTGAACTC
10998829 GAAGTGGCATCTTCTT
1 GAAGTGGCATCTTCTT
10998845 GAAGTGGCATCTTCTT
1 GAAGTGGCATCTTCTT
10998861 CTTACCTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (16 bp):
GAAGTGGCATCTTCTT
Found at i:11001336 original size:35 final size:32
Alignment explanation
Indices: 11001297--11001361 Score: 85
Period size: 35 Copynumber: 1.9 Consensus size: 32
11001287 CAGATTGAAC
*
11001297 AAGCTTAAATATCTCTTCAAAGTTTCATATTACTA
1 AAGCTTAAATATC-CAT-AAA-TTTCATATTACTA
*
11001332 AAGCTTAAATCTCCATAAATTTCATATTAC
1 AAGCTTAAATATCCATAAATTTCATATTAC
11001362 AACTTGAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 11 0.39
33 3 0.11
34 2 0.07
35 12 0.43
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.38
Consensus pattern (32 bp):
AAGCTTAAATATCCATAAATTTCATATTACTA
Found at i:11001344 original size:33 final size:34
Alignment explanation
Indices: 11001297--11001361 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 34
11001287 CAGATTGAAC
*
11001297 AAGCTTAAATATCTCTTCA-AAGTTTCATATTACTA
1 AAGCTTAAATATCTC--CATAAATTTCATATTACTA
11001332 AAGCTT-AA-ATCTCCATAAATTTCATATTAC
1 AAGCTTAAATATCTCCATAAATTTCATATTAC
11001362 AACTTGAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 2 0.07
32 13 0.46
33 5 0.18
34 2 0.07
35 6 0.21
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.38
Consensus pattern (34 bp):
AAGCTTAAATATCTCCATAAATTTCATATTACTA
Found at i:11013773 original size:29 final size:29
Alignment explanation
Indices: 11013727--11013782 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
11013717 GAGAAAGGGT
* * *
11013727 AGGTCGCCTGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGACGACCTACA
11013756 AGGTCGCCCGGAGGGCATGACGACCTA
1 AGGTCGCCCGGAGGGCATGACGACCTA
11013783 TGTGTTGGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.21, C:0.29, G:0.36, T:0.14
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGACGACCTACA
Found at i:11014132 original size:31 final size:30
Alignment explanation
Indices: 11014097--11014193 Score: 74
Period size: 31 Copynumber: 3.2 Consensus size: 30
11014087 ATGATCCCTT
11014097 GACTATAAGGTGTTGCTTTATTGAGTCACTC
1 GACTAT-AGGTGTTGCTTTATTGAGTCACTC
** ** *
11014128 GACTATTAGAAGTTG-TAAAATGA-TCA-TC
1 GACTA-TAGGTGTTGCTTTATTGAGTCACTC
* *
11014156 TGACTATAGGATGTTGCTTTGTTGAGTCTCTC
1 -GACTATAGG-TGTTGCTTTATTGAGTCACTC
11014188 GACTAT
1 GACTAT
11014194 TAAAAATTAT
Statistics
Matches: 48, Mismatches: 12, Indels: 12
0.67 0.17 0.17
Matches are distributed among these distances:
28 5 0.10
29 12 0.25
30 9 0.19
31 19 0.40
32 3 0.06
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (30 bp):
GACTATAGGTGTTGCTTTATTGAGTCACTC
Found at i:11014181 original size:60 final size:60
Alignment explanation
Indices: 11014096--11014213 Score: 166
Period size: 60 Copynumber: 2.0 Consensus size: 60
11014086 AATGATCCCT
* * *
11014096 TGACTATAAGGTGTTGCTTTATTGAGTCACTCGACTATTAGAAGTTGTAAAATGATCATC
1 TGACTATAAGGTGTTGCTTTATTGAGTCACTCGACTATTAAAAATTATAAAATGATCATC
* * *
11014156 TGACTAT-AGGATGTTGCTTTGTTGAGTCTCTCGACTATTAAAAATTATCAAATGATCA
1 TGACTATAAGG-TGTTGCTTTATTGAGTCACTCGACTATTAAAAATTATAAAATGATCA
11014214 CATAACTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
59 3 0.06
60 48 0.94
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.37
Consensus pattern (60 bp):
TGACTATAAGGTGTTGCTTTATTGAGTCACTCGACTATTAAAAATTATAAAATGATCATC
Found at i:11016843 original size:3 final size:3
Alignment explanation
Indices: 11016835--11016895 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
11016825 ATTAGGATTT
* * *
11016835 GAA GAA GAA GAC GAA GGAA GAA GGAA GAA GGAA GAA GGAA GAA GAG GGA
1 GAA GAA GAA GAA GAA -GAA GAA -GAA GAA -GAA GAA -GAA GAA GAA GAA
*
11016884 GGA GAA GAA GAA
1 GAA GAA GAA GAA
11016896 CCTTAAACGT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
3 36 0.75
4 12 0.25
ACGTcount: A:0.56, C:0.02, G:0.43, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:11016850 original size:6 final size:6
Alignment explanation
Indices: 11016835--11016895 Score: 50
Period size: 7 Copynumber: 9.5 Consensus size: 6
11016825 ATTAGGATTT
* * * *
11016835 GAAGAA GAAGAC GAAGGAA GAAGGAA GAAGGAA GAAGGAA GAAGAG GGAGGA
1 GAAGAA GAAGAA GAA-GAA GAA-GAA GAA-GAA GAA-GAA GAAGAA GAAGAA
11016887 GAAGAA GAA
1 GAAGAA GAA
11016896 CCTTAAACGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
6 20 0.43
7 26 0.57
ACGTcount: A:0.56, C:0.02, G:0.43, T:0.00
Consensus pattern (6 bp):
GAAGAA
Found at i:11016859 original size:7 final size:7
Alignment explanation
Indices: 11016838--11016878 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
11016828 AGGATTTGAA
11016838 GAAGAA-
1 GAAGAAG
*
11016844 GACGAAG
1 GAAGAAG
11016851 GAAGAAG
1 GAAGAAG
11016858 GAAGAAG
1 GAAGAAG
11016865 GAAGAAG
1 GAAGAAG
11016872 GAAGAAG
1 GAAGAAG
11016879 AGGGAGGAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 5 0.16
7 27 0.84
ACGTcount: A:0.56, C:0.02, G:0.41, T:0.00
Consensus pattern (7 bp):
GAAGAAG
Found at i:11019239 original size:17 final size:18
Alignment explanation
Indices: 11019202--11019243 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
11019192 AGAGGAGACG
*
11019202 AAAATATATTTTCAATAA
1 AAAATAGATTTTCAATAA
11019220 AAAATAGATTTTCAATAA
1 AAAATAGATTTTCAATAA
11019238 AAAATA
1 AAAATA
11019244 CAAAACAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (18 bp):
AAAATAGATTTTCAATAA
Found at i:11020734 original size:3 final size:3
Alignment explanation
Indices: 11020728--11020770 Score: 50
Period size: 3 Copynumber: 13.3 Consensus size: 3
11020718 TTTCATAATA
*
11020728 ATT ATT AATT ATT ATT AAT ATAT ATAT ATT ATT ATT ATT ATT A
1 ATT ATT -ATT ATT ATT ATT AT-T AT-T ATT ATT ATT ATT ATT A
11020771 AATATATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
3 26 0.72
4 10 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:11020759 original size:27 final size:27
Alignment explanation
Indices: 11020728--11020782 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 27
11020718 TTTCATAATA
11020728 ATTATTAATTATTATT-AATATATATAT
1 ATTATT-ATTATTATTAAATATATATAT
11020755 ATTATTATTATTATTAAATATATATAT
1 ATTATTATTATTATTAAATATATATAT
11020782 A
1 A
11020783 CGAATTACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
ATTATTATTATTATTAAATATATATAT
Found at i:11020765 original size:23 final size:24
Alignment explanation
Indices: 11020730--11020779 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
11020720 TCATAATAAT
*
11020730 TATTAATTATTATTAATATATATA
1 TATTAATTATTATTAATAAATATA
*
11020754 TATT-ATTATTATTATTAAATATA
1 TATTAATTATTATTAATAAATATA
11020777 TAT
1 TAT
11020780 ATACGAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TATTAATTATTATTAATAAATATA
Found at i:11021213 original size:12 final size:11
Alignment explanation
Indices: 11021194--11021227 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
11021184 AAAGAAAAAA
11021194 AAAGAAGAACG
1 AAAGAAGAACG
11021205 AAGAGAAGAACG
1 AA-AGAAGAACG
11021217 AAAGACAGAAC
1 AAAGA-AGAAC
11021228 CACAACAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.62, C:0.12, G:0.26, T:0.00
Consensus pattern (11 bp):
AAAGAAGAACG
Found at i:11022039 original size:27 final size:27
Alignment explanation
Indices: 11022009--11022072 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
11021999 TTAATTACTA
*
11022009 ATTATTTTTA-CTATAAGTTTTTATTTT
1 ATTATTTTTACCTATAA-TTTTAATTTT
* *
11022036 ATTATTTGTACCTATCATTTTAATTTT
1 ATTATTTTTACCTATAATTTTAATTTT
11022063 ATTGATTTTT
1 ATT-ATTTTT
11022073 GTCCTTGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 21 0.68
28 10 0.32
ACGTcount: A:0.25, C:0.06, G:0.05, T:0.64
Consensus pattern (27 bp):
ATTATTTTTACCTATAATTTTAATTTT
Found at i:11022310 original size:120 final size:120
Alignment explanation
Indices: 11022223--11022456 Score: 279
Period size: 120 Copynumber: 2.0 Consensus size: 120
11022213 ATTTTAATCA
* * * *
11022223 TGTTTTAA-TATTT-TTTATTTTTCAATAT-TAAG-AAAGGGCAGTCTTAA-CAACTGGATGTCC
1 TGTTTTAATTATTTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAGCAACTAGAAGTCC
*
11022283 ATTTTCTGATATTTTTAAATAAATAAA-TATCTTATTTTTATAATTATATATTAAT
66 -TTTTCTGATATTTCTAAATAAATAAATTATCTTATTTTTATAATTATATATTAAT
* * **
11022338 TGTTTTAATTATTTATTTATTTTTTAATATCGAAGAAAAGAGCTGTCTTAAGGCGCCTAGAAGTC
1 TGTTTTAATTATTTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAA-GCAACTAGAAGTC
* * *
11022403 CTTTTCTGATATTTCTAAATAAATAAA-TAT-TT-TATTTATAAATATATATAAAT
65 CTTTTCTGATATTTCTAAATAAATAAATTATCTTATTTTTATAATTATATATTAAT
11022456 T
1 T
11022457 AATATTTATT
Statistics
Matches: 101, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
115 8 0.08
116 5 0.05
117 14 0.14
118 22 0.22
119 15 0.15
120 28 0.28
121 9 0.09
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.47
Consensus pattern (120 bp):
TGTTTTAATTATTTATTTATTTTTCAATATCGAAGAAAAGAGCAGTCTTAAGCAACTAGAAGTCC
TTTTCTGATATTTCTAAATAAATAAATTATCTTATTTTTATAATTATATATTAAT
Found at i:11022348 original size:20 final size:19
Alignment explanation
Indices: 11022316--11022365 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
11022306 TAAATATCTT
11022316 ATTTTTATAATTATATATTA
1 ATTTTT-TAATTATATATTA
* *
11022336 ATTGTTTTAATTATTTATTT
1 ATT-TTTTAATTATATATTA
11022356 ATTTTTTAAT
1 ATTTTTTAAT
11022366 ATCGAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 7 0.26
20 17 0.63
21 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTTTTAATTATATATTA
Found at i:11022454 original size:29 final size:29
Alignment explanation
Indices: 11022421--11022477 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
11022411 ATATTTCTAA
11022421 ATAAATAAATATTTTATTT-ATAAATATAT
1 ATAAATAAATA-TTTATTTCATAAATATAT
* *
11022450 ATAAATTAATATTTATTTCATAATTATA
1 ATAAATAAATATTTATTTCATAAATATA
11022478 ATTTTGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (29 bp):
ATAAATAAATATTTATTTCATAAATATAT
Found at i:11022998 original size:16 final size:16
Alignment explanation
Indices: 11022952--11022999 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
11022942 TTTCTTTCAA
*
11022952 ATTTTTATTACTTATT
1 ATTTTTATTATTTATT
11022968 ATTTTTA-TATATTATT
1 ATTTTTATTAT-TTATT
11022984 ATTTTTATTATTTATT
1 ATTTTTATTATTTATT
11023000 TTATTCAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 2 0.07
16 24 0.83
17 3 0.10
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTTTATTATTTATT
Found at i:11023003 original size:9 final size:10
Alignment explanation
Indices: 11022955--11023004 Score: 52
Period size: 9 Copynumber: 5.2 Consensus size: 10
11022945 CTTTCAAATT
11022955 TTTATTACTTA
1 TTTATTA-TTA
*
11022966 -TTATTTTTA
1 TTTATTATTA
*
11022975 TATATTATTA
1 TTTATTATTA
11022985 TTT-TTATTA
1 TTTATTATTA
11022994 TTTATT-TTA
1 TTTATTATTA
11023003 TT
1 TT
11023005 CAAGTATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 17 0.52
10 16 0.48
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTATTATTA
Found at i:11023013 original size:32 final size:33
Alignment explanation
Indices: 11022952--11023021 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 33
11022942 TTTCTTTCAA
*
11022952 ATTTTTATTACTTATTATTTTTATATATT-ATT
1 ATTTTTATTACTTATTATTTTCATATATTAATT
*
11022984 ATTTTTATTATTTATT-TTATTCA-AGTATTAATT
1 ATTTTTATTACTTATTATT-TTCATA-TATTAATT
11023017 ATTTT
1 ATTTT
11023022 ATTTGTTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
31 3 0.09
32 22 0.67
33 8 0.24
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (33 bp):
ATTTTTATTACTTATTATTTTCATATATTAATT
Found at i:11028228 original size:16 final size:16
Alignment explanation
Indices: 11028218--11028309 Score: 86
Period size: 16 Copynumber: 5.8 Consensus size: 16
11028208 AAAAAAGATT
11028218 AAAAAAGAAAAATGAG
1 AAAAAAGAAAAATGAG
*
11028234 AAAAAAGGAAAAAAAGATG
1 AAAAAA-G-AAAAATGA-G
*
11028253 AAAAAGGAAAAATGAG
1 AAAAAAGAAAAATGAG
11028269 AAAAAAGAAAAA--AG
1 AAAAAAGAAAAATGAG
11028283 AAAAAAGGGAAAAA--AG
1 AAAAAA--GAAAAATGAG
11028299 -AAAAAGAAAAA
1 AAAAAAGAAAAA
11028310 ATGGAGAAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
13 6 0.09
14 8 0.12
15 5 0.07
16 26 0.39
17 8 0.12
18 8 0.12
19 6 0.09
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (16 bp):
AAAAAAGAAAAATGAG
Found at i:11028235 original size:9 final size:8
Alignment explanation
Indices: 11028218--11028310 Score: 72
Period size: 7 Copynumber: 11.6 Consensus size: 8
11028208 AAAAAAGATT
11028218 AAAAA-AG
1 AAAAAGAG
11028225 AAAAATGAG
1 AAAAA-GAG
*
11028234 AAAAAAGGAA
1 -AAAAA-GAG
11028244 AAAAAGATG
1 AAAAAGA-G
11028253 AAAAAG-G
1 AAAAAGAG
11028260 AAAAATGAG
1 AAAAA-GAG
11028269 AAAAA-AG
1 AAAAAGAG
11028276 AAAAA-AG
1 AAAAAGAG
*
11028283 AAAAAAGGG
1 -AAAAAGAG
11028292 AAAAA-AG
1 AAAAAGAG
11028299 AAAAAGA-
1 AAAAAGAG
11028306 AAAAA
1 AAAAA
11028311 TGGAGAAATT
Statistics
Matches: 72, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
7 31 0.43
8 14 0.19
9 20 0.28
10 7 0.10
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.03
Consensus pattern (8 bp):
AAAAAGAG
Found at i:11028257 original size:35 final size:34
Alignment explanation
Indices: 11028207--11028281 Score: 123
Period size: 35 Copynumber: 2.2 Consensus size: 34
11028197 AAAATCCAGC
*
11028207 AAAAAAAGATTAAAAAAGAAAAATGAGAAAAAAGG
1 AAAAAAAGATGAAAAAAGAAAAATGAGAAAAAA-G
*
11028242 AAAAAAAGATGAAAAAGGAAAAATGAGAAAAAAG
1 AAAAAAAGATGAAAAAAGAAAAATGAGAAAAAAG
11028276 AAAAAA
1 AAAAAA
11028282 GAAAAAAGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 7 0.18
35 31 0.82
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (34 bp):
AAAAAAAGATGAAAAAAGAAAAATGAGAAAAAAG
Found at i:11028310 original size:7 final size:7
Alignment explanation
Indices: 11028218--11028310 Score: 80
Period size: 9 Copynumber: 11.9 Consensus size: 7
11028208 AAAAAAGATT
11028218 AAAAAAG
1 AAAAAAG
11028225 AAAAATGAG
1 AAAAA--AG
11028234 AAAAAAGG
1 AAAAAA-G
11028242 AAAAAAAG
1 -AAAAAAG
11028250 ATGAAAAAGG
1 A--AAAAA-G
11028260 AAAAATGAG
1 AAAAA--AG
11028269 AAAAAAG
1 AAAAAAG
11028276 AAAAAAG
1 AAAAAAG
11028283 AAAAAAGGG
1 AAAAAA--G
11028292 AAAAAAG
1 AAAAAAG
11028299 -AAAAAG
1 AAAAAAG
11028305 AAAAAA
1 AAAAAA
11028311 TGGAGAAATT
Statistics
Matches: 74, Mismatches: 0, Indels: 24
0.76 0.00 0.24
Matches are distributed among these distances:
6 6 0.08
7 28 0.38
8 6 0.08
9 31 0.42
10 3 0.04
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:11030684 original size:114 final size:114
Alignment explanation
Indices: 11030468--11030673 Score: 349
Period size: 114 Copynumber: 1.8 Consensus size: 114
11030458 GTTCTCGTAG
* *
11030468 TAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGT
1 TAGAAATAAGGAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTCGGT
*
11030533 ATAAACCCCAAAACCAATCATTGGATTTAAAAGATGAATTTGCTCATAA
66 AGAAACCCCAAAACCAATCATTGGATTTAAAAGATGAATTTGCTCATAA
*
11030582 TAGAAATAAGGAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTCGGT
1 TAGAAATAAGGAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTCGGT
* * *
11030647 AGGAACTCCAGAACCAATCATTGGATT
66 AGAAACCCCAAAACCAATCATTGGATT
11030674 AGGAAGATGA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 85 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (114 bp):
TAGAAATAAGGAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTCGGT
AGAAACCCCAAAACCAATCATTGGATTTAAAAGATGAATTTGCTCATAA
Found at i:11031678 original size:35 final size:35
Alignment explanation
Indices: 11031627--11031693 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
11031617 TTTAACCAAA
11031627 AATAGAATATTGGGGCATT-TTGAAGGCTCATAAC
1 AATAGAATATTGGGGCATTCTTGAAGGCTCATAAC
* *
11031661 AATATGAATATTTGGGCATTCTTGGAGGCTCAT
1 AATA-GAATATTGGGGCATTCTTGAAGGCTCAT
11031694 CTCAACAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 4 0.14
35 14 0.48
36 11 0.38
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (35 bp):
AATAGAATATTGGGGCATTCTTGAAGGCTCATAAC
Found at i:11033260 original size:22 final size:22
Alignment explanation
Indices: 11033234--11033312 Score: 122
Period size: 22 Copynumber: 3.6 Consensus size: 22
11033224 ACATCTACAT
11033234 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
11033256 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* * *
11033278 TTTTTAAAGATGATATATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
11033300 TTTTCAAAGATGA
1 TCTTCAAAGATGA
11033313 AAGCTTTATG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.41
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:11034285 original size:76 final size:76
Alignment explanation
Indices: 11034159--11034790 Score: 1029
Period size: 76 Copynumber: 8.5 Consensus size: 76
11034149 CTATTTCCCA
*
11034159 CATCTGTAAGTCTTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
11034224 AGCCTTAGGGT
66 AGCCTTAGGGT
11034235 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
11034300 AGCCTTAGGGT
66 AGCCTTAGGGT
11034311 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
11034376 A-CCTTCGGGT
66 AGCCTTAGGGT
*
11034386 CATATGTAAGTCCTGCAGTGCATGATGTTTCC--AAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
11034449 A-CCTTCGGGT
66 AGCCTTAGGGT
*
11034459 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
11034524 AGCCTTAGGGT
66 AGCCTTAGGGT
*
11034535 CATCTGTAAGTCATGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
11034600 AGCCTTAGGGT
66 AGCCTTAGGGT
*
11034611 CATCTGTAAGTCCTGTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
11034675 A-CCTT-CGGT
66 AGCCTTAGGGT
*
11034684 CATC-GTAAGTCCTACAGTGC--GATGTTTCCAAAAAGCCTTCGGGAGC---TTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC--
* *
11034743 AAAACCTTCGGGT
64 AAAGCCTTAGGGT
* * *
11034756 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAA
11034791 CATTTTCATC
Statistics
Matches: 529, Mismatches: 17, Indels: 21
0.93 0.03 0.04
Matches are distributed among these distances:
68 11 0.02
70 29 0.05
71 4 0.01
72 21 0.04
73 93 0.18
74 4 0.01
75 97 0.18
76 270 0.51
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:11034556 original size:224 final size:226
Alignment explanation
Indices: 11034163--11034790 Score: 1024
Period size: 224 Copynumber: 2.8 Consensus size: 226
11034153 TTCCCACATC
*
11034163 TGTAAGTCTTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTGCAGTGCATGATGTTTCC-AAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA-CC
*
11034228 TTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG
64 TTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG
11034293 TTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
129 TTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
*
11034358 GCTTTTTGATGTTTTCAAA-CCTTCGGGTCATA
194 GCTTTTTGATGTTTTCAAAGCCTTAGGGTCATA
11034390 TGTAAGTCCTGCAGTGCATGATGTTTCC-AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAACCTT
1 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAACCTT
*
11034454 CGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTT
66 CGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
*
11034519 TTCAAAGCCTTAGGGTCATCTGTAAGTCATGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC
131 TTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC
*
11034584 TTTTTGATGTTTTCAAAGCCTTAGGGTCATC
196 TTTTTGATGTTTTCAAAGCCTTAGGGTCATA
*
11034615 TGTAAGTCCTGTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAAACCT
1 TGTAAGTCCTGCAGTGCATGATGTTTCC-AAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAACCT
*
11034679 TC-GGTCATC-GTAAGTCCTACAGTGC--GATGTTTCCAAAAAGCCTTCGGGAGC---TTGATGT
65 TCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
* * * * *
11034737 TTTCAAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
130 TTTC--AAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAA
11034791 CATTTTCATC
Statistics
Matches: 381, Mismatches: 15, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
219 11 0.03
221 42 0.11
222 25 0.07
224 163 0.43
225 77 0.20
226 21 0.06
227 42 0.11
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (226 bp):
TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAACCTT
CGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
TTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC
TTTTTGATGTTTTCAAAGCCTTAGGGTCATA
Found at i:11034932 original size:21 final size:21
Alignment explanation
Indices: 11034908--11034966 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
11034898 TAATTTTTTC
11034908 ATAATAAATTATATTATTAAT
1 ATAATAAATTATATTATTAAT
*
11034929 ATAATATATATTATTATTATTTAT
1 ATAATA-A-ATTA-TATTATTAAT
*
11034953 -TATTAAATATATAT
1 ATAATAAAT-TATAT
11034967 ATATATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 11 0.34
22 4 0.12
23 8 0.25
24 9 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAATAAATTATATTATTAAT
Found at i:11034938 original size:18 final size:17
Alignment explanation
Indices: 11034909--11034976 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 17
11034899 AATTTTTTCA
11034909 TAATA-AATTATATTAT
1 TAATATAATTATATTAT
11034925 TAATATAATATATATTAT
1 TAATATAAT-TATATTAT
11034943 T-AT-T-ATT-TATTAT
1 TAATATAATTATATTAT
11034956 TAA-ATATATATATATATAT
1 TAATATA-AT-TATAT-TAT
11034975 TA
1 TA
11034977 CAAATTACAT
Statistics
Matches: 43, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
13 7 0.16
14 3 0.07
15 2 0.05
16 8 0.19
17 6 0.14
18 12 0.28
19 5 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATATAATTATATTAT
Found at i:11036004 original size:27 final size:27
Alignment explanation
Indices: 11035974--11036037 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
11035964 TTAATTACTA
*
11035974 ATTATTTTTA-CTATAAGTTTTTATTTT
1 ATTATTTTTACCTATAA-TTTTAATTTT
* *
11036001 ATTATTTGTACCTATCATTTTAATTTT
1 ATTATTTTTACCTATAATTTTAATTTT
11036028 ATTGATTTTT
1 ATT-ATTTTT
11036038 GTCCTTGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 21 0.68
28 10 0.32
ACGTcount: A:0.25, C:0.06, G:0.05, T:0.64
Consensus pattern (27 bp):
ATTATTTTTACCTATAATTTTAATTTT
Found at i:11036333 original size:120 final size:118
Alignment explanation
Indices: 11036191--11036429 Score: 293
Period size: 120 Copynumber: 2.0 Consensus size: 118
11036181 ATTTTAATCC
* * * *
11036191 TGTTTTAATATTTATTTATTTTTCAATAT-TAAG-AAAGGGCAGTCTTAAAACAACTGGATGTCC
1 TGTTTTAATATTTATTTATTTTT-AATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAGT-C
* * *
11036254 ATTTTCTGATATTTTTAAATAAATAAATATCCTATTTTTATAAATTATATATTAAT
64 ATTTTCTGATATTTCTAAATAAATAAATATCCTATTTATATAAA-TATATATAAAT
* ** * *
11036310 TGTTTTAATTATTTATTTATTTTTAATATCGAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCT
1 TGTTTTAA-TATTTATTTATTTTTAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCA
** *
11036375 TTTTCTGATATTTCTAAATAAATAAATATTTTATTTATATATATATATATAAAT
65 TTTTCTGATATTTCTAAATAAATAAATATCCTATTTATATAAATATATATAAAT
11036429 T
1 T
11036430 AATATTTATT
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
119 24 0.24
120 57 0.56
121 21 0.21
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.46
Consensus pattern (118 bp):
TGTTTTAATATTTATTTATTTTTAATATCGAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCAT
TTTCTGATATTTCTAAATAAATAAATATCCTATTTATATAAATATATATAAAT
Found at i:11036434 original size:31 final size:31
Alignment explanation
Indices: 11036392--11036450 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
11036382 ATATTTCTAA
*
11036392 ATAAATAAATATTTTATTT-ATATATATATAT
1 ATAAATAAATA-TTTATTTCATAAATATATAT
*
11036423 ATAAATTAATATTTATTTCATAAATATA
1 ATAAATAAATATTTATTTCATAAATATA
11036451 ATTTTGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (31 bp):
ATAAATAAATATTTATTTCATAAATATATAT
Found at i:11037736 original size:4 final size:4
Alignment explanation
Indices: 11037727--11037753 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
11037717 CTAATTATGT
11037727 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
11037754 ATTGGAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:11043136 original size:2 final size:2
Alignment explanation
Indices: 11043129--11043160 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11043119 TTTGGTGTGC
11043129 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
11043161 TGTTAAAGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11048660 original size:12 final size:12
Alignment explanation
Indices: 11048643--11048674 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
11048633 TGAAAGATAC
11048643 GATGGTGACGGA
1 GATGGTGACGGA
11048655 GATGGTGACGGA
1 GATGGTGACGGA
11048667 GATGGTGA
1 GATGGTGA
11048675 TGGTGGTATA
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:0.25, C:0.06, G:0.50, T:0.19
Consensus pattern (12 bp):
GATGGTGACGGA
Found at i:11049560 original size:38 final size:38
Alignment explanation
Indices: 11049489--11049571 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
11049479 TTCATTTATC
11049489 AAAATTTTTATTATTTTAGTAATTAATTATTTTATTTA
1 AAAATTTTTATTATTTTAGTAATTAATTATTTTATTTA
* * *
11049527 AAAATTTTGTATTATTTTA-TTATTATTTTTTTTATTTA
1 AAAATTTT-TATTATTTTAGTAATTAATTATTTTATTTA
*
11049565 AACATTT
1 AAAATTT
11049572 GAAAGTTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 30 0.75
39 10 0.25
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (38 bp):
AAAATTTTTATTATTTTAGTAATTAATTATTTTATTTA
Found at i:11054408 original size:3 final size:3
Alignment explanation
Indices: 11054400--11054440 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
11054390 AACTATGTTT
11054400 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
11054441 GGCTGTCCCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:11054637 original size:3 final size:3
Alignment explanation
Indices: 11054629--11054702 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
11054619 GTCATTTCAC
11054629 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
11054677 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
11054703 CGTGTAATGT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11056161 original size:21 final size:21
Alignment explanation
Indices: 11056134--11056187 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
11056124 TTAAAGAGGT
**
11056134 GGTATTGATACTCGTTCATAGA
1 GGTATTGATACTC-CCCATAGA
*
11056156 -GTATTGATATTCCCCATAGA
1 GGTATTGATACTCCCCATAGA
11056176 GGTATTGATACT
1 GGTATTGATACT
11056188 AGGGTATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (21 bp):
GGTATTGATACTCCCCATAGA
Found at i:11056280 original size:20 final size:21
Alignment explanation
Indices: 11056237--11056289 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
11056227 ATATTAGGCA
*
11056237 AGTATCGATACCCCAGCACTAG
1 AGTATCGATA-CTCAGCACTAG
*
11056259 AGTATTGATACTCAGC-CTAG
1 AGTATCGATACTCAGCACTAG
11056279 AGTATCGATAC
1 AGTATCGATAC
11056290 AACATTACCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 14 0.50
21 5 0.18
22 9 0.32
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (21 bp):
AGTATCGATACTCAGCACTAG
Found at i:11058497 original size:163 final size:159
Alignment explanation
Indices: 11058227--11058604 Score: 458
Period size: 163 Copynumber: 2.4 Consensus size: 159
11058217 CCCTAATTTA
* * * * *
11058227 ATTATTTCTTCAATTCCTCATTCATTTTAAGTATA-TTTTTAACCAAATTTAAACTACATGCTCC
1 ATTATTTCTTCAATTCGTCATTTATTTTAAGTCTATTTTTTAACCAAATTTAAACCACATACTCC
*
11058291 TAAACTATAGTACAATACATGTGTACTTTCAATTCCTCTTTTTGATAATAAATCTTTTATTTTTC
66 TAAACTATAGTACAATACATGTGTACTTTCAATTCCTCTTTTTGATAACAAATCTTTTATTTTTC
*
11058356 AATTTAGTTTGTCCTTCAATTTTTCATAATCT-
131 AATTTA----ATCCTTCAATTTTTCATAATCTC
* * * *
11058388 ACTTATTTCTTCAATTCGTCATTTATTTTAATTCTATTTTTTTACCAAATTTAAGCCATATACTC
1 A-TTATTTCTTCAATTCGTCATTTATTTTAAGTCTATTTTTTAACCAAATTTAAACCACATACTC
* * * * *
11058453 CTAAA-TCATGGTAGAATATATGTGTACTTTTAATTCCTCTTTTTGATAACAAATTTTTTATTTT
65 CTAAACT-ATAGTACAATACATGTGTACTTTCAATTCCTCTTTTTGATAACAAATCTTTTATTTT
*
11058517 TTAATTTAATCCTTCAATTTTTCATAATCTC
129 TCAATTTAATCCTTCAATTTTTCATAATCTC
* * * * * * *
11058548 ATTATTCCTTTAATTTGTGATTTATTTTAAGTC-ATTTTTTCACTAAATTTGAACCAC
1 ATTATTTCTTCAATTCGTCATTTATTTTAAGTCTATTTTTTAACCAAATTTAAACCAC
11058605 GTGCTCATAT
Statistics
Matches: 186, Mismatches: 27, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
158 19 0.10
159 48 0.26
160 1 0.01
161 1 0.01
162 31 0.17
163 86 0.46
ACGTcount: A:0.29, C:0.16, G:0.05, T:0.49
Consensus pattern (159 bp):
ATTATTTCTTCAATTCGTCATTTATTTTAAGTCTATTTTTTAACCAAATTTAAACCACATACTCC
TAAACTATAGTACAATACATGTGTACTTTCAATTCCTCTTTTTGATAACAAATCTTTTATTTTTC
AATTTAATCCTTCAATTTTTCATAATCTC
Found at i:11061434 original size:23 final size:23
Alignment explanation
Indices: 11061408--11061455 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
11061398 ATAAAGTACA
*
11061408 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
11061431 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
11061454 AT
1 AT
11061456 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:11062203 original size:18 final size:18
Alignment explanation
Indices: 11062180--11062216 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11062170 CGAAATATAT
11062180 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
11062198 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
11062216 A
1 A
11062217 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:11062446 original size:23 final size:23
Alignment explanation
Indices: 11062420--11062484 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
11062410 ATGCGAGATA
11062420 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
* **
11062443 GATACATATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
11062466 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
11062485 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:11062868 original size:21 final size:22
Alignment explanation
Indices: 11062843--11062894 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
11062833 ACACTTTACA
*
11062843 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
11062866 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
11062889 ATATAA
1 ATATAA
11062895 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:11062879 original size:23 final size:23
Alignment explanation
Indices: 11062853--11062915 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
11062843 ATATAACCAC
11062853 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
11062876 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
11062899 TACCTATTACATCATAT
1 TACCTATTACATTATAT
11062916 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:11063264 original size:428 final size:430
Alignment explanation
Indices: 11062422--11063440 Score: 1990
Period size: 428 Copynumber: 2.4 Consensus size: 430
11062412 GCGAGATAGA
*
11062422 TACCTATTACATTATATAAACGATACATATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
*
11062487 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
11062552 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAA-TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
11062617 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
195 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
11062682 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
260 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
11062747 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
325 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
11062812 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
390 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
11062853 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
11062918 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
11062983 TGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
131 TGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
11063048 TTTCATTTGCACAAAAAATTATTTGATTG-TTTTATATTTTATAAAATATTATTTAGAA-TTTTA
196 TTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTA
11063111 ATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTA
261 ATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTA
11063176 ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGA
326 ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGA
11063241 CACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
391 CACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
11063281 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
11063346 TTACCTA-TTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
11063410 TGTAATTTATGTTTCAATTTTTTAACAGTGT
131 TGTAATTTATGTTTCAATTTTTTAACAGTGT
11063441 ACTGCGAATT
Statistics
Matches: 586, Mismatches: 2, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
427 88 0.15
428 247 0.42
429 29 0.05
430 77 0.13
431 145 0.25
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (430 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
TGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
TTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTA
ATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTA
ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGA
CACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
Found at i:11063296 original size:21 final size:22
Alignment explanation
Indices: 11063271--11063322 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
11063261 ACACTTTACA
*
11063271 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
11063294 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
11063317 ATATAA
1 ATATAA
11063323 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:11063307 original size:23 final size:23
Alignment explanation
Indices: 11063281--11063343 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
11063271 ATATAACCAC
11063281 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
11063304 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
11063327 TACCTATTACATCATAT
1 TACCTATTACATTATAT
11063344 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:11064131 original size:184 final size:184
Alignment explanation
Indices: 11063822--11064299 Score: 893
Period size: 184 Copynumber: 2.6 Consensus size: 184
11063812 TTTTAAATGG
* *
11063822 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
11063887 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
11063952 GATGTATAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 AATGTATAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
11064006 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
11064071 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
* * *
11064136 AATGTGTAAAATGTCGATACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 AATGTATAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
11064190 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
11064255 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATT
11064300 TTATTATATG
Statistics
Matches: 287, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
184 287 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
AATGTATAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Done.