Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 76 of 171
Found at i:26220609 original size:2 final size:2
Alignment explanation
Indices: 26220591--26220650 Score: 97
Period size: 2 Copynumber: 31.0 Consensus size: 2
26220581 CAAATTAAAA
*
26220591 AT AT AT A- AT AT -T TT 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
26220631 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
26220651 TTTAGAATAC
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
1 2 0.04
2 53 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:26220989 original size:23 final size:22
Alignment explanation
Indices: 26220951--26220998 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
26220941 TTATTTTAAC
* *
26220951 TTTTTTAAATTTAATTATATACT
1 TTTTTTAAAATAAATTATATA-T
*
26220974 TTTTTTAAAATAAATTTTATAT
1 TTTTTTAAAATAAATTATATAT
26220996 TTT
1 TTT
26220999 ATTAGTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTTTAAAATAAATTATATAT
Found at i:26221014 original size:22 final size:20
Alignment explanation
Indices: 26220989--26221035 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
26220979 TAAAATAAAT
*
26220989 TTTATATTTTATTAGTTTTATA
1 TTTATATTTTA-TAGCTTT-TA
26221011 TTTATATTTTATAGCTTTTA
1 TTTATATTTTATAGCTTTTA
26221031 TTTAT
1 TTTAT
26221036 TTAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 7 0.29
21 6 0.25
22 11 0.46
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (20 bp):
TTTATATTTTATAGCTTTTA
Found at i:26221088 original size:18 final size:17
Alignment explanation
Indices: 26221057--26221090 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
26221047 GGTTAAGTTG
26221057 TTTAAATTTCATAATTT
1 TTTAAATTTCATAATTT
*
26221074 TTTAATATTTTATAATT
1 TTTAA-ATTTCATAATT
26221091 ATAAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTAAATTTCATAATTT
Found at i:26221679 original size:12 final size:12
Alignment explanation
Indices: 26221662--26221698 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
26221652 AATTCAAATA
26221662 TTATTATTGTT-T
1 TTATTATT-TTAT
26221674 TTATTATTTTAT
1 TTATTATTTTAT
26221686 TTATT-TTTTAT
1 TTATTATTTTAT
26221697 TT
1 TT
26221699 TGTTAATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (12 bp):
TTATTATTTTAT
Found at i:26221765 original size:2 final size:2
Alignment explanation
Indices: 26221758--26221790 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
26221748 ATCTTTTAAA
26221758 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26221791 ATTTAGTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26222420 original size:53 final size:52
Alignment explanation
Indices: 26222362--26222465 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 52
26222352 ACTTAATATA
* *
26222362 AATTTGATACCTAAA-GACATTTTTTTTAATTTGGTATCTAAATTTTTTTATCT
1 AATTTGATACCTAAATGAC-TTTTTTTTAATTTAGTACCT-AATTTTTTTATCT
*
26222415 AATTTGATACTTAAACTTGACTTTTTTTTAATTTAGTACCTAATTTTTTTA
1 AATTTGATACCTAAA--TGACTTTTTTTTAATTTAGTACCTAATTTTTTTA
26222466 ATATTAATTC
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
53 14 0.31
54 10 0.22
55 18 0.40
56 3 0.07
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.54
Consensus pattern (52 bp):
AATTTGATACCTAAATGACTTTTTTTTAATTTAGTACCTAATTTTTTTATCT
Found at i:26231512 original size:242 final size:242
Alignment explanation
Indices: 26231074--26231546 Score: 664
Period size: 244 Copynumber: 2.0 Consensus size: 242
26231064 AAGGGGAATA
* *
26231074 TGATAATGCTTAAAAATAACATACTTTTGGGTATTATATATATATTGTGAGTATGATCTTATTAA
1 TGATAATGCTTAAAAATAACATACTTTTGGATATTATATATATATTGTGAGTATGATCCTATTAA
* *
26231139 TTTAAACTATTTGTGTTCCTTTTATTTCGTAGCGACTAAATTGAAGACAAAAGATAAATTAGGGC
66 TTTAAACTATTTGTGATCCGTTTATTTCGTAGCGACTAAATTGAAGACAAAAGATAAATTAGGGC
** * * * *
26231204 AAAAAGTGTGATTTTTGAAGAAAAAGAGAGAAGTTGTGAAATAGTGAAAGATTTGCAGAGAGTTT
131 AAAAAGCATGATTTTGGAAGAAAAAGAGAGAAGTTGTGAAAAAGTGAAAGACTTGAAGAGAGTTT
** * *
26231269 TTGTAGGACATAAAGACTTTATTTTAATTTATTTTATTTTAAACTCT
196 TTACAGGACAAAAAGACTTGATTTTAATTTATTTTATTTTAAACTCT
* *
26231316 TGATAATGCTTAAATATGACATACTTTTGGATATTATATATATATATTGTGAGTATGATCCTATT
1 TGATAATGCTTAAAAATAACATACTTTTGGATA-T-TATATATATATTGTGAGTATGATCCTATT
**** * *
26231381 AATTTGGGTTATTTGTGATCCGTTTATTTTGTAGGGACTAAATTGAAGACAAAAGATAAATT-GA
64 AATTTAAACTATTTGTGATCCGTTTATTTCGTAGCGACTAAATTGAAGACAAAAGATAAATTAG-
* * *
26231445 GGTAAAAAGCATGATTTTGGAAG-AGAA-CGAGAAGTTGTGAAAAAGTGAAAGACTTGAAGAGAG
128 GGCAAAAAGCATGATTTTGGAAGAAAAAGAGAGAAGTTGTGAAAAAGTGAAAGACTTGAAGAGAG
*
26231508 TTTTTACAGGACAAAAAGACTTGATTTTATTTTATTTTA
193 TTTTTACAGGACAAAAAGACTTGATTTTAATTTATTTTA
26231547 AAATTTTATT
Statistics
Matches: 202, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
242 96 0.48
243 5 0.02
244 101 0.50
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.38
Consensus pattern (242 bp):
TGATAATGCTTAAAAATAACATACTTTTGGATATTATATATATATTGTGAGTATGATCCTATTAA
TTTAAACTATTTGTGATCCGTTTATTTCGTAGCGACTAAATTGAAGACAAAAGATAAATTAGGGC
AAAAAGCATGATTTTGGAAGAAAAAGAGAGAAGTTGTGAAAAAGTGAAAGACTTGAAGAGAGTTT
TTACAGGACAAAAAGACTTGATTTTAATTTATTTTATTTTAAACTCT
Found at i:26232406 original size:15 final size:16
Alignment explanation
Indices: 26232386--26232418 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26232376 CTCCTCTATT
*
26232386 TTCTA-TTTCTTTTAA
1 TTCTATTTTCTCTTAA
26232401 TTCTATTTTCTCTTAA
1 TTCTATTTTCTCTTAA
26232417 TT
1 TT
26232419 TTTCCCTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.67
Consensus pattern (16 bp):
TTCTATTTTCTCTTAA
Found at i:26238922 original size:15 final size:15
Alignment explanation
Indices: 26238902--26238954 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
26238892 ATACTACAAA
26238902 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
26238917 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
* *
26238934 AAAATTTATTATTAAA
1 -ATATTTATTATTAAT
26238950 ATATT
1 ATATT
26238955 AATATTGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 13 0.43
16 4 0.13
17 5 0.17
18 8 0.27
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:26248793 original size:33 final size:31
Alignment explanation
Indices: 26248756--26248837 Score: 119
Period size: 33 Copynumber: 2.6 Consensus size: 31
26248746 TTTTTGGTCC
* *
26248756 AATTTGGTACTCAAACTTGACATTTTTTTTCCT
1 AATTTGGTACTTAAACTTGACACTTTTTTT--T
26248789 AATTTGGTACTTAAACTTGACACTTTTTTTT
1 AATTTGGTACTTAAACTTGACACTTTTTTTT
*
26248820 AAGTTGGTACTTAAACTT
1 AATTTGGTACTTAAACTT
26248838 TTTGGGGTCC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 18 0.39
33 28 0.61
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.48
Consensus pattern (31 bp):
AATTTGGTACTTAAACTTGACACTTTTTTTT
Found at i:26248875 original size:93 final size:91
Alignment explanation
Indices: 26248697--26248892 Score: 245
Period size: 93 Copynumber: 2.1 Consensus size: 91
26248687 TTAATATAAC
* ** *
26248697 ATTTGGTACCTAAACTTAACATTTTTTCTTAATTTGATACCTAAACTTTTTTTTGGTCCAATTTG
1 ATTTGGTACCTAAACTTAACATTTTTTCTTAAGTTGATACCTAAACTTTTTTGGGGTCCAAATTG
26248762 GTACTCAAACTTGACATTTTTTTTCCTA
66 GTACTCAAACTTGAC--TTTTTTTCCTA
* * * *
26248790 ATTTGGTACTTAAACTTGACACTTTTTT-TTAAGTTGGTACTTAAAC-TTTTTGGGGTCCAAATT
1 ATTTGGTACCTAAACTTAACA-TTTTTTCTTAAGTTGATACCTAAACTTTTTTGGGGTCCAAATT
* *
26248853 GGTAC-CTGAATTTGACTTTTTTTCCTA
65 GGTACTC-AAACTTGACTTTTTTTCCTA
26248880 ATTTGGTACCTAA
1 ATTTGGTACCTAA
26248893 TTTTTTTTAA
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
90 23 0.26
91 1 0.01
92 26 0.29
93 34 0.38
94 6 0.07
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (91 bp):
ATTTGGTACCTAAACTTAACATTTTTTCTTAAGTTGATACCTAAACTTTTTTGGGGTCCAAATTG
GTACTCAAACTTGACTTTTTTTCCTA
Found at i:26249128 original size:28 final size:28
Alignment explanation
Indices: 26249051--26249194 Score: 121
Period size: 28 Copynumber: 4.9 Consensus size: 28
26249041 TACCAAATCT
* *
26249051 TAAAAAAAAGTTTGAGTACCAAATTAAG
1 TAAAAAAAAGTTTAAGTACCAAATTAGG
* * *
26249079 -AAAACATGTCAAGTTTAGGTACCAAATTGGG
1 TAAAA-A---AAAGTTTAAGTACCAAATTAGG
*
26249110 TCAAAAAAAGTTTAAGTACCAAATTAGG
1 TAAAAAAAAGTTTAAGTACCAAATTAGG
* *
26249138 -AAAAAGTATCAAGTTCAAGTACCAAATTAGA
1 TAAAAA--A--AAGTTTAAGTACCAAATTAGG
*
26249169 TAAAAAAAAGTTTAAGTATCAAATTA
1 TAAAAAAAAGTTTAAGTACCAAATTA
26249195 AAAAAAAATG
Statistics
Matches: 92, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
27 8 0.09
28 37 0.40
29 1 0.01
30 1 0.01
31 37 0.40
32 8 0.09
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.26
Consensus pattern (28 bp):
TAAAAAAAAGTTTAAGTACCAAATTAGG
Found at i:26249131 original size:59 final size:58
Alignment explanation
Indices: 26249051--26249218 Score: 219
Period size: 59 Copynumber: 2.8 Consensus size: 58
26249041 TACCAAATCT
* * * * *
26249051 TAAAAAAAAGTTTGAGTACCAAATTAAGAAAACATGTCAAGTTTAGGTACCAAATTGGG
1 TAAAAAAAAGTTTAAGTACCAAATTAAGAAAA-ATGTCAAGTTCAAGTACCAAATTAGA
* * *
26249110 TCAAAAAAAGTTTAAGTACCAAATTAGGAAAAAGTATCAAGTTCAAGTACCAAATTAGA
1 TAAAAAAAAGTTTAAGTACCAAATTAAGAAAAA-TGTCAAGTTCAAGTACCAAATTAGA
* *
26249169 TAAAAAAAAGTTTAAGTATCAAATTAAAAAAAAATGTCAAGTTCAAGTAC
1 TAAAAAAAAGTTTAAGTACCAAATT-AAGAAAAATGTCAAGTTCAAGTAC
26249219 TATATGTTAT
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
58 1 0.01
59 87 0.93
60 6 0.06
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.25
Consensus pattern (58 bp):
TAAAAAAAAGTTTAAGTACCAAATTAAGAAAAATGTCAAGTTCAAGTACCAAATTAGA
Found at i:26249158 original size:31 final size:29
Alignment explanation
Indices: 26249065--26249218 Score: 93
Period size: 31 Copynumber: 5.2 Consensus size: 29
26249055 AAAAAGTTTG
* *
26249065 AGTACCAAATTAAGAAAACATGTCAAGTTTA
1 AGTACCAAATT-AGAAAA-ATATCAAGTTCA
* * * *
26249096 GGTACCAAATTGGGTCAAAA-A--AAGTTTA
1 AGTACCAAATT-AG-AAAAATATCAAGTTCA
26249124 AGTACCAAATTAGGAAAAAGTATCAAGTTCA
1 AGTACCAAATTA-GAAAAA-TATCAAGTTCA
* *
26249155 AGTACCAAATTAGATAAAA-A-AAAGTTTA
1 AGTACCAAATTAGA-AAAATATCAAGTTCA
* * *
26249183 AGTATCAAATTAAAAAAAAATGTCAAGTTCA
1 AGTACCAAATT--AGAAAAATATCAAGTTCA
26249214 AGTAC
1 AGTAC
26249219 TATATGTTAT
Statistics
Matches: 95, Mismatches: 17, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
27 4 0.04
28 34 0.36
29 6 0.06
30 4 0.04
31 44 0.46
32 3 0.03
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (29 bp):
AGTACCAAATTAGAAAAATATCAAGTTCA
Found at i:26249214 original size:24 final size:24
Alignment explanation
Indices: 26249169--26249214 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
26249159 CCAAATTAGA
* *
26249169 TAAAAAAAAGTTTAAGTATCAAAT
1 TAAAAAAAAATTCAAGTATCAAAT
26249193 TAAAAAAAAATGTCAAGT-TCAA
1 TAAAAAAAAAT-TCAAGTATCAA
26249215 GTACTATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.59, C:0.07, G:0.09, T:0.26
Consensus pattern (24 bp):
TAAAAAAAAATTCAAGTATCAAAT
Found at i:26254726 original size:19 final size:20
Alignment explanation
Indices: 26254699--26254738 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
26254689 AACAATTGGG
* *
26254699 TGATCATTTTATA-ATAATT
1 TGATAATTTTAGAGATAATT
26254718 TGATAATTTTAGAGATAATT
1 TGATAATTTTAGAGATAATT
26254738 T
1 T
26254739 TGCAAGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.50
Consensus pattern (20 bp):
TGATAATTTTAGAGATAATT
Found at i:26259022 original size:32 final size:30
Alignment explanation
Indices: 26258975--26259049 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
26258965 AAATTTTATA
26258975 TTAATAAATG-TAAAATTACATTTTAATCTTTT
1 TTAA-AAATGATAAAATTACA-TTTAATC-TTT
**
26259007 TTAAAAATGATAAAATTTGATTTAATCTTT
1 TTAAAAATGATAAAATTACATTTAATCTTT
*
26259037 TAAAAAAT-ATAAA
1 TTAAAAATGATAAA
26259050 TATATAGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
29 5 0.13
30 10 0.26
31 12 0.31
32 12 0.31
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (30 bp):
TTAAAAATGATAAAATTACATTTAATCTTT
Found at i:26261545 original size:27 final size:25
Alignment explanation
Indices: 26261502--26261561 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
26261492 ATTTCAGGTA
* *
26261502 TTTTTTTAATTATTTAC-TTATCTTT
1 TTTTTTTAATTAATTACATT-TCGTT
26261527 TTTTTTTAGATTAAATTACATTTCGTT
1 TTTTTTTA-ATT-AATTACATTTCGTT
26261554 TTTTTTTA
1 TTTTTTTA
26261562 TTTCAAGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 8 0.27
26 3 0.10
27 17 0.57
28 2 0.07
ACGTcount: A:0.22, C:0.07, G:0.03, T:0.68
Consensus pattern (25 bp):
TTTTTTTAATTAATTACATTTCGTT
Found at i:26271839 original size:106 final size:106
Alignment explanation
Indices: 26271650--26271863 Score: 410
Period size: 106 Copynumber: 2.0 Consensus size: 106
26271640 CAAATACACA
26271650 GAAAAACTTGGAAGCATAAAGAAAGTTGAACATATACCTGTATCTAACATTCACACCGAGTCCGA
1 GAAAAACTTGGAAGCATAAAGAAAGTTGAACATATACCTGTATCTAACATTCACACCGAGTCCGA
26271715 GTTAAAGCATTCTATATCTAGGTGTAGGCAACATCATAGAT
66 GTTAAAGCATTCTATATCTAGGTGTAGGCAACATCATAGAT
*
26271756 GAAAAACTTGGAAGCATAAAGAAAGTTGAACATATACCTGTATCTAACATTCACACTGAGTCCGA
1 GAAAAACTTGGAAGCATAAAGAAAGTTGAACATATACCTGTATCTAACATTCACACCGAGTCCGA
*
26271821 GTTAAAGCATTCTTTATCTAGGTGTAGGCAACATCATAGAT
66 GTTAAAGCATTCTATATCTAGGTGTAGGCAACATCATAGAT
26271862 GA
1 GA
26271864 GAATTTATGA
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 106 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (106 bp):
GAAAAACTTGGAAGCATAAAGAAAGTTGAACATATACCTGTATCTAACATTCACACCGAGTCCGA
GTTAAAGCATTCTATATCTAGGTGTAGGCAACATCATAGAT
Found at i:26272705 original size:22 final size:22
Alignment explanation
Indices: 26272677--26272722 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
26272667 ATTTCCCTCC
*
26272677 AAACCCATTAATTTTCTCATCA
1 AAACCCAATAATTTTCTCATCA
* *
26272699 AAACCCAATATTTTTCTCTTCA
1 AAACCCAATAATTTTCTCATCA
26272721 AA
1 AA
26272723 GAAAACCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (22 bp):
AAACCCAATAATTTTCTCATCA
Found at i:26293854 original size:2 final size:2
Alignment explanation
Indices: 26293847--26293876 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26293837 TTTATCCTTC
26293847 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
26293877 ACATAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:26294926 original size:62 final size:60
Alignment explanation
Indices: 26294810--26294926 Score: 144
Period size: 62 Copynumber: 1.9 Consensus size: 60
26294800 AACTAATACA
* * * * * *
26294810 AAATAGTGTCTAAATATTAATTTGAAAAAATAAAGTTTAATAATTGCGATATCTATGTAT
1 AAATAGTATCTAAATATTAATTGGAAAAAATAAACTTAAATAATTACAATATCTATGTAT
* *
26294870 AAATAGTATCTAAATATTAATTAGGTAAGAAATAAACTTAAATAATTATAATATCTA
1 AAATAGTATCTAAATATTAATT-GG-AAAAAATAAACTTAAATAATTACAATATCTA
26294927 ATAAAAAGCC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
60 21 0.45
61 1 0.02
62 25 0.53
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (60 bp):
AAATAGTATCTAAATATTAATTGGAAAAAATAAACTTAAATAATTACAATATCTATGTAT
Found at i:26297252 original size:12 final size:12
Alignment explanation
Indices: 26297225--26297349 Score: 84
Period size: 12 Copynumber: 10.8 Consensus size: 12
26297215 TTTTTTATTG
26297225 TTTTGATTGTTAT
1 TTTTG-TTGTTAT
*
26297238 TTTT-TTGTTGT
1 TTTTGTTGTTAT
*
26297249 TTTTGCTGTTAT
1 TTTTGTTGTTAT
**
26297261 TTTTGTTGTTGC
1 TTTTGTTGTTAT
*
26297273 TTTTGTTGCTA-
1 TTTTGTTGTTAT
26297284 -TTT-TTGTTAT
1 TTTTGTTGTTAT
26297294 TTTT-TATG-T-T
1 TTTTGT-TGTTAT
*
26297304 GTTTGTTGTTAT
1 TTTTGTTGTTAT
* * *
26297316 TTTTATTGCTGT
1 TTTTGTTGTTAT
*
26297328 TTTGGTTGTTAT
1 TTTTGTTGTTAT
*
26297340 TTTTGCTGTT
1 TTTTGTTGTT
26297350 TAGATGTTAT
Statistics
Matches: 85, Mismatches: 20, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
9 5 0.06
10 9 0.11
11 17 0.20
12 50 0.59
13 4 0.05
ACGTcount: A:0.07, C:0.04, G:0.18, T:0.70
Consensus pattern (12 bp):
TTTTGTTGTTAT
Found at i:26297252 original size:24 final size:22
Alignment explanation
Indices: 26297213--26297306 Score: 89
Period size: 24 Copynumber: 4.0 Consensus size: 22
26297203 TGTTTTAGTG
*
26297213 ATTTTTTTATTGTTTTGATTGTT
1 ATTTTTTTGTTGTTTTG-TTGTT
*
26297236 ATTTTTTTGTTGTTTTTGCTGTT
1 ATTTTTTTGTTG-TTTTGTTGTT
*
26297259 ATTTTTGTTGTTGCTTTTGTTGCT
1 ATTTTT-TTGTTG-TTTTGTTGTT
* *
26297283 ATTTTTGTTATTTTTTATGTTGTT
1 ATTTTT-TTGTTGTTT-TGTTGTT
26297307 TGTTGTTATT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
23 24 0.40
24 36 0.60
ACGTcount: A:0.09, C:0.03, G:0.16, T:0.72
Consensus pattern (22 bp):
ATTTTTTTGTTGTTTTGTTGTT
Found at i:26297312 original size:22 final size:25
Alignment explanation
Indices: 26297287--26297343 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 25
26297277 GTTGCTATTT
*
26297287 TTGTTATTTTTTA-TGTTG-TTT-G
1 TTGTTATTTTTTATTGCTGTTTTGG
26297309 TTGTTA-TTTTTATTGCTGTTTTGG
1 TTGTTATTTTTTATTGCTGTTTTGG
26297333 TTGTTATTTTT
1 TTGTTATTTTT
26297344 GCTGTTTAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.20
22 10 0.33
23 3 0.10
24 7 0.23
25 4 0.13
ACGTcount: A:0.09, C:0.02, G:0.18, T:0.72
Consensus pattern (25 bp):
TTGTTATTTTTTATTGCTGTTTTGG
Found at i:26297316 original size:55 final size:55
Alignment explanation
Indices: 26297231--26297344 Score: 151
Period size: 55 Copynumber: 2.1 Consensus size: 55
26297221 ATTGTTTTGA
* *
26297231 TTGTTATTTTTTTGTTGTTTTTGCTGTTATTTTTGTTGTTGCTTTT-GTTGCTATTT
1 TTGTTATTTTTTTGTTG-TTTTGCTGTTATTTTTATTGCTG-TTTTGGTTGCTATTT
* *
26297287 TTGTTATTTTTTATGTTG-TTTGTTGTTATTTTTATTGCTGTTTTGGTTGTTATTT
1 TTGTTATTTTTT-TGTTGTTTTGCTGTTATTTTTATTGCTGTTTTGGTTGCTATTT
26297342 TTG
1 TTG
26297345 CTGTTTAGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
54 4 0.08
55 31 0.60
56 12 0.23
57 5 0.10
ACGTcount: A:0.07, C:0.04, G:0.18, T:0.71
Consensus pattern (55 bp):
TTGTTATTTTTTTGTTGTTTTGCTGTTATTTTTATTGCTGTTTTGGTTGCTATTT
Found at i:26297515 original size:12 final size:11
Alignment explanation
Indices: 26297475--26297524 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
26297465 AATATAAAAA
26297475 TTTTTTTAATG
1 TTTTTTTAATG
* * *
26297486 TATTTTAAATT
1 TTTTTTTAATG
26297497 TTTTTTTAATG
1 TTTTTTTAATG
26297508 TTTGTTTTAATG
1 TTT-TTTTAATG
26297520 TTTTT
1 TTTTT
26297525 AAGTGTATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
11 21 0.66
12 11 0.34
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (11 bp):
TTTTTTTAATG
Found at i:26297523 original size:22 final size:22
Alignment explanation
Indices: 26297476--26297534 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
26297466 ATATAAAAAT
*
26297476 TTTTTTAATGTATTTTAAATTT
1 TTTTTTAATGTATTTTAAATTG
* *
26297498 TTTTTTAATGTTTGTTTTAA-TG
1 TTTTTTAATGTAT-TTTAAATTG
26297520 -TTTTTAAGTGTATTT
1 TTTTTTAA-TGTATTT
26297535 GATATATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 9 0.29
22 17 0.55
23 5 0.16
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.68
Consensus pattern (22 bp):
TTTTTTAATGTATTTTAAATTG
Found at i:26299240 original size:29 final size:30
Alignment explanation
Indices: 26299207--26299265 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
26299197 AATGGTTTAA
26299207 TGTGTAATTATATACATG-AATTTTGATTT
1 TGTGTAATTATATACATGAAATTTTGATTT
*
26299236 TGTGTAATTTTATACATGAAATTTTGATTT
1 TGTGTAATTATATACATGAAATTTTGATTT
26299266 GATCTAATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.53
Consensus pattern (30 bp):
TGTGTAATTATATACATGAAATTTTGATTT
Found at i:26299274 original size:30 final size:29
Alignment explanation
Indices: 26299211--26299274 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
26299201 GTTTAATGTG
*
26299211 TAATTATATACATGAATTTTGATTTTGTG
1 TAATTATATACATGAATTTTGATTTTGTC
*
26299240 TAATTTTATACATGAAATTTTGA-TTTGATC
1 TAATTATATACATG-AATTTTGATTTTG-TC
26299270 TAATT
1 TAATT
26299275 CTTGTGAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.52
Consensus pattern (29 bp):
TAATTATATACATGAATTTTGATTTTGTC
Found at i:26299475 original size:30 final size:30
Alignment explanation
Indices: 26299407--26299488 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 30
26299397 AATTAAATCA
26299407 AAATTAAAGTTTCAAGTATACATTTGAACC
1 AAATTAAAGTTTCAAGTATACATTTGAACC
* *
26299437 ATAATTAAAGTTTCACGTGCATA-A-TTGCACC
1 A-AATTAAAGTTTCAAGT--ATACATTTGAACC
*
26299468 AAATTAAAG-TTCATGTATACA
1 AAATTAAAGTTTCAAGTATACA
26299489 ATTGCATATT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
27 3 0.07
28 1 0.02
29 6 0.13
30 9 0.20
31 22 0.49
32 1 0.02
33 3 0.07
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATACATTTGAACC
Found at i:26327134 original size:20 final size:20
Alignment explanation
Indices: 26327109--26327152 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
26327099 TACAAAAAAA
*
26327109 AAAAATTCAAAATAATTTTC
1 AAAAATCCAAAATAATTTTC
*
26327129 AAAAATCCAAAATAATTTTT
1 AAAAATCCAAAATAATTTTC
26327149 AAAA
1 AAAA
26327153 TTGAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAATCCAAAATAATTTTC
Found at i:26327200 original size:9 final size:10
Alignment explanation
Indices: 26327182--26327230 Score: 66
Period size: 10 Copynumber: 5.1 Consensus size: 10
26327172 TTCCAAATTT
*
26327182 ATATTTAAAA
1 ATATATAAAA
26327192 ATAT-TAAAA
1 ATATATAAAA
26327201 ATATATAAAA
1 ATATATAAAA
*
26327211 AT-TCTAAAA
1 ATATATAAAA
26327220 ATATATAAAA
1 ATATATAAAA
26327230 A
1 A
26327231 GTTAAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 17 0.49
10 18 0.51
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (10 bp):
ATATATAAAA
Found at i:26327201 original size:10 final size:9
Alignment explanation
Indices: 26327186--26327230 Score: 56
Period size: 9 Copynumber: 4.8 Consensus size: 9
26327176 AAATTTATAT
26327186 TTAAAAATA
1 TTAAAAATA
26327195 TTAAAAATA
1 TTAAAAATA
26327204 TATAAAAAT-
1 T-TAAAAATA
26327213 TCTAAAAATA
1 T-TAAAAATA
26327223 TATAAAAA
1 T-TAAAAA
26327231 GTTAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
9 18 0.56
10 14 0.44
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (9 bp):
TTAAAAATA
Found at i:26327209 original size:19 final size:19
Alignment explanation
Indices: 26327182--26327230 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
26327172 TTCCAAATTT
*
26327182 ATATTTAAAAATAT-TAAAA
1 ATATATAAAAAT-TCTAAAA
26327201 ATATATAAAAATTCTAAAA
1 ATATATAAAAATTCTAAAA
26327220 ATATATAAAAA
1 ATATATAAAAA
26327231 GTTAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 1 0.04
19 27 0.96
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATATATAAAAATTCTAAAA
Found at i:26327857 original size:6 final size:6
Alignment explanation
Indices: 26327848--26327952 Score: 67
Period size: 6 Copynumber: 18.0 Consensus size: 6
26327838 TAAAATGATT
* * *
26327848 TTTAAA TTT-AT TTCTAAA ATTAAA TTT-AC TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* ** * *
26327895 TTCATT TTTAAA TTTAAA TTT-AG TTTAAA TTTGAAA --TAAT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA
* *
26327941 ATTAAA ATTAAA
1 TTTAAA TTTAAA
26327953 AAGCCCAAAA
Statistics
Matches: 75, Mismatches: 17, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
4 2 0.03
5 12 0.16
6 56 0.75
7 5 0.07
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:26327857 original size:24 final size:24
Alignment explanation
Indices: 26327824--26327916 Score: 73
Period size: 24 Copynumber: 3.7 Consensus size: 24
26327814 TTTGGGTCAA
* *
26327824 TTTT-AATTTAAGTTTAAAATGAT
1 TTTTAAATTTAAATTTAAAATAAT
*
26327847 TTTTAAATTT-ATTTCTAAAATTAAATT
1 TTTTAAATTTAAATT-TAAAA-T-AA-T
* *
26327874 TACTTTAAATTTAAATTTAAATTCAT
1 T--TTTAAATTTAAATTTAAAATAAT
26327900 TTTTAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
26327917 GTTTAAATTT
Statistics
Matches: 57, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
23 7 0.12
24 26 0.46
25 1 0.02
26 3 0.05
27 3 0.05
28 1 0.02
29 13 0.23
30 3 0.05
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (24 bp):
TTTTAAATTTAAATTTAAAATAAT
Found at i:26327881 original size:41 final size:41
Alignment explanation
Indices: 26327836--26327923 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
26327826 TTAATTTAAG
** *
26327836 TTTAAAATGATTTTTAAATTTATTTCTAAAATTAAATTTAC
1 TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
* * * * *
26327877 TTTAAATTTAAATTTAAATTCATTTTTAAATTTAAATTTAG
1 TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
26327918 TTTAAA
1 TTTAAA
26327924 TTTGAAATAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.52
Consensus pattern (41 bp):
TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
Found at i:26327887 original size:17 final size:18
Alignment explanation
Indices: 26327848--26327892 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
26327838 TAAAATGATT
*
26327848 TTTAAATTTATTTCTAAA
1 TTTAAATTTACTTCTAAA
*
26327866 ATTAAATTTACTT-TAAA
1 TTTAAATTTACTTCTAAA
26327883 TTTAAATTTA
1 TTTAAATTTA
26327893 AATTCATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAAATTTACTTCTAAA
Found at i:26327922 original size:35 final size:35
Alignment explanation
Indices: 26327883--26327949 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
26327873 TTACTTTAAA
* * *
26327883 TTTAAATTT-AAATTCATTTTTAAATTTAAATTTAG
1 TTTAAATTTGAAA-TAATTTTAAAATTAAAATTTAG
26327918 TTTAAATTTGAAATAATTTTAAAATTAAAATT
1 TTTAAATTTGAAATAATTTTAAAATTAAAATT
26327950 AAAAAGCCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 25 0.89
36 3 0.11
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (35 bp):
TTTAAATTTGAAATAATTTTAAAATTAAAATTTAG
Found at i:26327924 original size:41 final size:42
Alignment explanation
Indices: 26327848--26327931 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 42
26327838 TAAAATGATT
*
26327848 TTTAAATTTATTTCTAAAATTAAATTTACTTTAAATTT-AAA
1 TTTAAATTCATTTCTAAAATTAAATTTACTTTAAATTTGAAA
* * *
26327889 TTTAAATTCATTTTTAAATTTAAATTTAGTTTAAATTTGAAA
1 TTTAAATTCATTTCTAAAATTAAATTTACTTTAAATTTGAAA
26327931 T
1 T
26327932 AATTTTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
41 34 0.89
42 4 0.11
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (42 bp):
TTTAAATTCATTTCTAAAATTAAATTTACTTTAAATTTGAAA
Found at i:26327938 original size:17 final size:17
Alignment explanation
Indices: 26327867--26327951 Score: 73
Period size: 17 Copynumber: 4.9 Consensus size: 17
26327857 ATTTCTAAAA
** *
26327867 TTAAATTTACTTTAAAT
1 TTAAATTTAAATTAATT
*
26327884 TTAAATTTAAATTCATTT
1 TTAAATTTAAATT-AATT
* *
26327902 TTAAATTTAAATTTAGT
1 TTAAATTTAAATTAATT
26327919 TTAAATTTGAAA-TAATT
1 TTAAATTT-AAATTAATT
*
26327936 TTAAAATTAAAATTAA
1 TT-AAATTTAAATTAA
26327952 AAAGCCCAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
17 28 0.52
18 26 0.48
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
TTAAATTTAAATTAATT
Found at i:26329784 original size:29 final size:28
Alignment explanation
Indices: 26329742--26329961 Score: 136
Period size: 29 Copynumber: 7.5 Consensus size: 28
26329732 GGATGGTCAA
26329742 AAAATTACCATTTTACCACTAAACTTTCC
1 AAAATTACCATTTTACC-CTAAACTTTCC
**
26329771 AAAATT-CCATTTTTAACCC-CGA-TTTCACC
1 AAAATTACCA-TTTT-ACCCTAAACTTT--CC
*
26329800 AAAAATTACCATTTTACCCCTAAACTTTCT
1 -AAAATTACCATTTTA-CCCTAAACTTTCC
26329830 AAAATT-CCATTTTTAACCCT-AA-TTTCACC
1 AAAATTACCA-TTTT-ACCCTAAACTTT--CC
26329859 AAAAATTACCATTTTACCCCTAAACTTTCC
1 -AAAATTACCATTTTA-CCCTAAACTTTCC
* *
26329889 AAAATT-CAATTTTTTACCC-CAA-TTTCACC
1 AAAATTACCA--TTTTACCCTAAACTTT--CC
* *
26329918 AAAAATTACCATTTTACCCTCGAACTTTCT
1 -AAAATTACCATTTTACCCT-AAACTTTCC
26329948 AAAATT-CCATTTTA
1 AAAATTACCATTTTA
26329962 ACCCCGATTT
Statistics
Matches: 153, Mismatches: 11, Indels: 55
0.70 0.05 0.25
Matches are distributed among these distances:
27 9 0.06
28 21 0.14
29 55 0.36
30 46 0.30
31 13 0.08
32 9 0.06
ACGTcount: A:0.35, C:0.27, G:0.01, T:0.36
Consensus pattern (28 bp):
AAAATTACCATTTTACCCTAAACTTTCC
Found at i:26329834 original size:59 final size:59
Alignment explanation
Indices: 26329741--26330053 Score: 436
Period size: 59 Copynumber: 5.3 Consensus size: 59
26329731 TGGATGGTCA
* *
26329741 AAAAATTACCATTTTACCACTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACC
**
26329800 AAAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCTAATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACC
* * * *
26329859 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCAATTTTTTACCCCAATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACC
*
26329918 AAAAATTACCATTTTA-CCCTCGAACTTTCTAAAATTCCA-TTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCT-AAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACC
* * * * *
26329976 AAAAATTACTATTTTA-CCCTCGAATTTTCTAAAATTCC-CTTTTGACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCT-AAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACC
* *
26330034 CAAAATTACCATTTTGCCCC
1 AAAAATTACCATTTTACCCC
26330054 CGGGTATCCA
Statistics
Matches: 232, Mismatches: 19, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
58 88 0.38
59 144 0.62
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:26330038 original size:29 final size:29
Alignment explanation
Indices: 26329771--26330055 Score: 132
Period size: 29 Copynumber: 9.7 Consensus size: 29
26329761 TAAACTTTCC
*
26329771 AAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTCCA-TTTTGACCCCGATTTCACCA
* *
26329801 AAAATTACCATTTT-ACCCCTAAACTTT---CT
1 AAAATT-CCATTTTGACCCC--GA-TTTCACCA
* **
26329830 AAAATTCCATTTTTAACCCTAATTTCACCA
1 AAAATTCCA-TTTTGACCCCGATTTCACCA
*
26329860 AAAATTACCATTTT-ACCCCTAAACTTT--CC-
1 AAAATT-CCATTTTGACCCC--GA-TTTCACCA
* * *
26329889 AAAATTCAATTTTTTACCCCAATTTCACCA
1 AAAATTCCA-TTTTGACCCCGATTTCACCA
*
26329919 AAAATTACCATTTT-ACCCTCGAACTTT---CT
1 AAAATT-CCATTTTGACCC-CG-A-TTTCACCA
*
26329948 AAAATTCCATTTTAACCCCGATTTCACCA
1 AAAATTCCATTTTGACCCCGATTTCACCA
* * *
26329977 AAAATTACTATTTT-ACCCTCGAATTT--TCT
1 AAAATT-CCATTTTGACCC-CG-ATTTCACCA
* *
26330006 AAAATTCCCTTTTGACCCCGATTTCACCC
1 AAAATTCCATTTTGACCCCGATTTCACCA
*
26330035 AAAATTACCATTTTGCCCCCG
1 AAAATT-CCATTTTGACCCCG
26330056 GGTATCCAAA
Statistics
Matches: 203, Mismatches: 19, Indels: 66
0.70 0.07 0.23
Matches are distributed among these distances:
26 3 0.01
27 11 0.05
28 25 0.12
29 76 0.37
30 63 0.31
31 16 0.08
32 9 0.04
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (29 bp):
AAAATTCCATTTTGACCCCGATTTCACCA
Found at i:26334587 original size:17 final size:18
Alignment explanation
Indices: 26334550--26334592 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
26334540 AATTAACATA
**
26334550 TGTGAATTATGTTGGAAT
1 TGTGAATTATGTTCAAAT
26334568 TGTGAATTA-GTTCAAAT
1 TGTGAATTATGTTCAAAT
*
26334585 TGTAAATT
1 TGTGAATT
26334593 GCTCAACTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (18 bp):
TGTGAATTATGTTCAAAT
Found at i:26335880 original size:2 final size:2
Alignment explanation
Indices: 26335873--26335901 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
26335863 AATAGAATTG
26335873 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26335902 CCTGATGCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26338528 original size:17 final size:16
Alignment explanation
Indices: 26338506--26338543 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
26338496 ATGTTTTATT
26338506 GTTTTTGGTATTTAGGG
1 GTTTTTGGTATTTA-GG
*
26338523 GTTTTTGGTTTTTAGG
1 GTTTTTGGTATTTAGG
26338539 GTTTT
1 GTTTT
26338544 GATGGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.08, C:0.00, G:0.32, T:0.61
Consensus pattern (16 bp):
GTTTTTGGTATTTAGG
Found at i:26338611 original size:18 final size:17
Alignment explanation
Indices: 26338564--26338612 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
26338554 GTTGTTAGGT
26338564 TTTAGGGTTTTTTATGG
1 TTTAGGGTTTTTTATGG
* * *
26338581 ACTTAGAGATTTTTATGG
1 -TTTAGGGTTTTTTATGG
26338599 TTTAAGGGTTTTTT
1 TTT-AGGGTTTTTT
26338613 TATTGGTTTG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.18, C:0.02, G:0.24, T:0.55
Consensus pattern (17 bp):
TTTAGGGTTTTTTATGG
Found at i:26341443 original size:21 final size:22
Alignment explanation
Indices: 26341401--26341443 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
26341391 AATCTAGAAT
*
26341401 GAATAGATGAATGATATGTTGA
1 GAATAGATGAATGACATGTTGA
26341423 GAAT-GATGAATTGACAT-TTGA
1 GAATAGATGAA-TGACATGTTGA
26341444 ATTAATGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.40, C:0.02, G:0.26, T:0.33
Consensus pattern (22 bp):
GAATAGATGAATGACATGTTGA
Found at i:26344849 original size:27 final size:28
Alignment explanation
Indices: 26344801--26344853 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
26344791 AATTTTGTAG
26344801 CACAAATAAAAATTTAACGATAGTGGAC
1 CACAAATAAAAATTTAACGATAGTGGAC
* *
26344829 CACATATAAAAA-TTAATGATAGTGG
1 CACAAATAAAAATTTAACGATAGTGG
26344854 CAAAGCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.25
Consensus pattern (28 bp):
CACAAATAAAAATTTAACGATAGTGGAC
Found at i:26346462 original size:28 final size:28
Alignment explanation
Indices: 26346431--26346555 Score: 155
Period size: 28 Copynumber: 4.5 Consensus size: 28
26346421 AGTTCATTCA
* *
26346431 TATGCCTTTACGCTCGTCAGCTTGTACT
1 TATGCGTTTACGCTCGTCAACTTGTACT
* *
26346459 TATGCGTTTACGCTTG-CTAACTTATACT
1 TATGCGTTTACGCTCGTC-AACTTGTACT
*
26346487 TATG-ATTTACGCTCGTCAACTTGTACT
1 TATGCGTTTACGCTCGTCAACTTGTACT
* * *
26346514 TATGTGTTTACGCTCGCCAGCTTGTACT
1 TATGCGTTTACGCTCGTCAACTTGTACT
26346542 TATGCGTTTACGCT
1 TATGCGTTTACGCT
26346556 ATACAAAGAT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
27 23 0.28
28 60 0.72
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.41
Consensus pattern (28 bp):
TATGCGTTTACGCTCGTCAACTTGTACT
Found at i:26346470 original size:56 final size:54
Alignment explanation
Indices: 26346403--26346527 Score: 142
Period size: 55 Copynumber: 2.3 Consensus size: 54
26346393 CGCTCGTTTA
* * * * *
26346403 TATGCGTTTACGCTAATTAGTTCATTCATATGCCTTTACGCTCGTCAGCTTGTACT
1 TATGCGTTTACGCTAATAACTT-ATACATATG-ATTTACGCTCGTCAACTTGTACT
** *
26346459 TATGCGTTTACGCTTGCTAACTTATACTTATGATTTACGCTCGTCAACTTGTACT
1 TATGCGTTTACGC-TAATAACTTATACATATGATTTACGCTCGTCAACTTGTACT
*
26346514 TATGTGTTTACGCT
1 TATGCGTTTACGCT
26346528 CGCCAGCTTG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
54 1 0.02
55 33 0.56
56 20 0.34
57 5 0.08
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (54 bp):
TATGCGTTTACGCTAATAACTTATACATATGATTTACGCTCGTCAACTTGTACT
Found at i:26346510 original size:55 final size:56
Alignment explanation
Indices: 26346431--26346555 Score: 171
Period size: 55 Copynumber: 2.2 Consensus size: 56
26346421 AGTTCATTCA
* * * *
26346431 TATGCCTTTACGCTCGTCAGCTTGTACTTATGCGTTTACGCTTGCTAACTTATACT
1 TATGCATTTACGCTCGTCAACTTGTACTTATGCGTTTACGCTCGCCAACTTATACT
* * *
26346487 TATG-ATTTACGCTCGTCAACTTGTACTTATGTGTTTACGCTCGCCAGCTTGTACT
1 TATGCATTTACGCTCGTCAACTTGTACTTATGCGTTTACGCTCGCCAACTTATACT
*
26346542 TATGCGTTTACGCT
1 TATGCATTTACGCT
26346556 ATACAAAGAT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 48 0.80
56 12 0.20
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.41
Consensus pattern (56 bp):
TATGCATTTACGCTCGTCAACTTGTACTTATGCGTTTACGCTCGCCAACTTATACT
Found at i:26346641 original size:18 final size:18
Alignment explanation
Indices: 26346618--26346652 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
26346608 GCAAATTCCA
26346618 ATAAATATCAA-AAAAATT
1 ATAAATA-CAACAAAAATT
26346636 ATAAATACAACAAAAAT
1 ATAAATACAACAAAAAT
26346653 AAACTAAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.23
Consensus pattern (18 bp):
ATAAATACAACAAAAATT
Found at i:26357150 original size:20 final size:20
Alignment explanation
Indices: 26357104--26357156 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
26357094 ATTGAAGCAG
* **
26357104 AAGAAGAGAAAGGAAAAGAGG
1 AAGAAG-GAAAAGAAAAGAAA
*
26357125 AGGAAGGAAAAGAAAAGAAA
1 AAGAAGGAAAAGAAAAGAAA
*
26357145 AAGAAGAAAAAG
1 AAGAAGGAAAAG
26357157 TTGAAGAAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (20 bp):
AAGAAGGAAAAGAAAAGAAA
Found at i:26359881 original size:31 final size:31
Alignment explanation
Indices: 26359843--26359906 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
26359833 TGCTGTGACG
*
26359843 TTTACAGGCTGATCACTTTACTTCCCTTTCC
1 TTTACAGGCTGATCACTTAACTTCCCTTTCC
26359874 TTTACAGGCTGATCACTTAACTTCCCTTTCC
1 TTTACAGGCTGATCACTTAACTTCCCTTTCC
26359905 TT
1 TT
26359907 CCAAACTGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.17, C:0.31, G:0.09, T:0.42
Consensus pattern (31 bp):
TTTACAGGCTGATCACTTAACTTCCCTTTCC
Found at i:26360988 original size:19 final size:20
Alignment explanation
Indices: 26360966--26361004 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
26360956 ATATTGATTA
*
26360966 TGTG-ATTAAATGATAAAAT
1 TGTGAATTAAATGAAAAAAT
*
26360985 TGTGAATTAATTGAAAAAAT
1 TGTGAATTAAATGAAAAAAT
26361005 AGAGGTAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTGAATTAAATGAAAAAAT
Found at i:26361564 original size:25 final size:25
Alignment explanation
Indices: 26361536--26361598 Score: 85
Period size: 23 Copynumber: 2.6 Consensus size: 25
26361526 TAGGACATCT
26361536 TGTGCTCTCCATTATTAGCACTGTG
1 TGTGCTCTCCATTATTAGCACTGTG
* *
26361561 TGTGCTCT-C-TGATTAGCACTTTG
1 TGTGCTCTCCATTATTAGCACTGTG
26361584 TGTGCTCTCCGATTA
1 TGTGCTCTCC-ATTA
26361599 GTACTTTGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 20 0.62
24 2 0.06
25 8 0.25
26 2 0.06
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.41
Consensus pattern (25 bp):
TGTGCTCTCCATTATTAGCACTGTG
Found at i:26361599 original size:23 final size:23
Alignment explanation
Indices: 26361549--26361638 Score: 117
Period size: 23 Copynumber: 3.9 Consensus size: 23
26361539 GCTCTCCATT
* *
26361549 ATTAGCACTGTGTGTGCTCTCTG
1 ATTAGCACTTTGTGTGCTCTCCG
26361572 ATTAGCACTTTGTGTGCTCTCCG
1 ATTAGCACTTTGTGTGCTCTCCG
* * *
26361595 ATTAGTACTTTGTGTACTCTTCG
1 ATTAGCACTTTGTGTGCTCTCCG
* *
26361618 TTTAGCACTTTGTGTGTTCTC
1 ATTAGCACTTTGTGTGCTCTC
26361639 TGTTACCCAG
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.44
Consensus pattern (23 bp):
ATTAGCACTTTGTGTGCTCTCCG
Found at i:26366480 original size:19 final size:20
Alignment explanation
Indices: 26366433--26366484 Score: 74
Period size: 18 Copynumber: 2.8 Consensus size: 20
26366423 TTTTTTTGTT
*
26366433 TCTTAATAATTAACATATGG
1 TCTTAATAATTAAAATATGG
26366453 T-TT-ATAATTAAAATAT-G
1 TCTTAATAATTAAAATATGG
26366470 TCTTAATAATTAAAA
1 TCTTAATAATTAAAA
26366485 AAAATGGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 2 0.07
18 14 0.48
19 12 0.41
20 1 0.03
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (20 bp):
TCTTAATAATTAAAATATGG
Found at i:26367621 original size:18 final size:18
Alignment explanation
Indices: 26367598--26367641 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
26367588 TGAATTTCAC
*
26367598 AATTCGAATAACTTGAAT
1 AATTCGAATAACTCGAAT
26367616 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
*
26367634 TATTCGAA
1 AATTCGAA
26367642 CAACAGATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (18 bp):
AATTCGAATAACTCGAAT
Found at i:26367640 original size:9 final size:9
Alignment explanation
Indices: 26367598--26367641 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
26367588 TGAATTTCAC
26367598 AATTCGAAT
1 AATTCGAAT
26367607 AACTT-GAAT
1 AA-TTCGAAT
26367616 AATTCGAAT
1 AATTCGAAT
*
26367625 AACTCGAAT
1 AATTCGAAT
*
26367634 TATTCGAA
1 AATTCGAA
26367642 CAACAGATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 2 0.07
9 26 0.87
10 2 0.07
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:26367761 original size:21 final size:20
Alignment explanation
Indices: 26367722--26367760 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26367712 AAAATTACAA
* *
26367722 AAAAATTCAAATTAATTTTC
1 AAAAATCCAAAATAATTTTC
26367742 AAAAATCCAAAATAATTTT
1 AAAAATCCAAAATAATTTT
26367761 TAAATTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAATCCAAAATAATTTTC
Found at i:26374556 original size:17 final size:17
Alignment explanation
Indices: 26374534--26374568 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
26374524 CTCCACCTTG
* *
26374534 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACGA
26374551 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
26374568 A
1 A
26374569 TAAGTTCTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.26, G:0.11, T:0.17
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:26376283 original size:15 final size:16
Alignment explanation
Indices: 26376265--26376306 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
26376255 TAAATATGGC
26376265 ATTAATAATAACAAT-
1 ATTAATAATAACAATA
* *
26376280 ATTAATATTAATAATA
1 ATTAATAATAACAATA
*
26376296 ATAAATAATAA
1 ATTAATAATAA
26376307 TCCTAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTAATAATAACAATA
Found at i:26376629 original size:17 final size:17
Alignment explanation
Indices: 26376590--26376629 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
26376580 GAAAGGTTCA
*
26376590 AGTTTTTTTCAGATCTG
1 AGTTTTTTCCAGATCTG
26376607 -GATTTTTTCCAGATCTG
1 AG-TTTTTTCCAGATCTG
26376624 AGTTTT
1 AGTTTT
26376630 GTTTAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 1 0.05
17 18 0.90
18 1 0.05
ACGTcount: A:0.17, C:0.12, G:0.17, T:0.53
Consensus pattern (17 bp):
AGTTTTTTCCAGATCTG
Found at i:26377333 original size:29 final size:28
Alignment explanation
Indices: 26377291--26377544 Score: 125
Period size: 29 Copynumber: 8.7 Consensus size: 28
26377281 AAACAGTCCA
26377291 AAAATTACCATTTTACTCCCGAACTTTCC
1 AAAATTACCATTTTAC-CCCGAACTTTCC
*
26377320 AAAATT-CCATTTTTAACCTCG-A-TTTCACC
1 AAAATTACCA-TTTT-ACCCCGAACTTT--CC
26377349 AAAAATTACCATTTTACCCCCGAACTTTCC
1 -AAAATTACCATTTTA-CCCCGAACTTTCC
26377379 AAAATT-CCATTTTTAACCCCG-A-TTTCACC
1 AAAATTACCA-TTTT-ACCCCGAACTTT--CC
** *
26377408 AAAAATTACCATTTTACCCTTAAACTCTCC
1 -AAAATTACCATTTTACCC-CGAACTTTCC
* *
26377438 AAAATT-CCATTTTTAATCTCG-A-TTTCATC
1 AAAATTACCA-TTTT-ACCCCGAACTTTC--C
* * * *
26377467 GAAATTACCATTTTACCCCTAAATTTTCT
1 AAAATTACCATTTTACCCC-GAACTTTCC
* *
26377496 AAAATT-TCATTTTTGACCCCG-ATTTTACC
1 AAAATTACCA-TTTT-ACCCCGAACTTT-CC
26377525 AAAAATTACCATTTTACCCC
1 -AAAATTACCATTTTACCCC
26377545 CGGGTATCCA
Statistics
Matches: 174, Mismatches: 20, Indels: 62
0.68 0.08 0.24
Matches are distributed among these distances:
27 9 0.05
28 22 0.13
29 72 0.41
30 52 0.30
31 14 0.08
32 5 0.03
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCGAACTTTCC
Found at i:26377380 original size:59 final size:59
Alignment explanation
Indices: 26377288--26377546 Score: 358
Period size: 59 Copynumber: 4.4 Consensus size: 59
26377278 CCCAAACAGT
* *
26377288 CCAAAAATTACCATTTTACTCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
26377347 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
*** * * *
26377406 CCAAAAATTACCATTTTACCCTTAAACTCTCCAAAATTCCATTTTTAATCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * ** * * * * *
26377465 TC-GAAATTACCATTTTACCCCTAAATTTTCTAAAATTTCATTTTTGACCCCGATTTTA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
26377523 CCAAAAATTACCATTTTACCCCCG
1 CCAAAAATTACCATTTTACCCCCG
26377547 GGTATCCAAA
Statistics
Matches: 176, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
58 47 0.27
59 129 0.73
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.36
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:26377528 original size:117 final size:117
Alignment explanation
Indices: 26377288--26377544 Score: 372
Period size: 117 Copynumber: 2.2 Consensus size: 117
26377278 CCCAAACAGT
* *
26377288 CCAAAAATTACCATTTTACTCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAA
1 CCAAAAATTACCATTTTAC-CCCAAACTCTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAA
*
26377353 ATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
65 ATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * *
26377406 CCAAAAATTACCATTTTACCCTTAAACTCTCCAAAATTCCATTTTTAATCTCGATTTCATC-GAA
1 CCAAAAATTACCATTTTACCC-CAAACTCTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAA
* * * * * *
26377470 ATTACCATTTTACCCCTAAATTTTCTAAAATTTCATTTTTGACCCCGATTTTA
65 ATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
26377523 CCAAAAATTACCATTTTACCCC
1 CCAAAAATTACCATTTTACCCC
26377545 CGGGTATCCA
Statistics
Matches: 124, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
117 71 0.57
118 53 0.43
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.36
Consensus pattern (117 bp):
CCAAAAATTACCATTTTACCCCAAACTCTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAA
TTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:26377568 original size:117 final size:117
Alignment explanation
Indices: 26377288--26377580 Score: 363
Period size: 117 Copynumber: 2.5 Consensus size: 117
26377278 CCCAAACAGT
* *
26377288 CCAAAAATTACCATTTTACTCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCG-ACTATCCAAAATTCCATTTTTAACCTCGATTTCACCAAAA
*
26377353 ATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
65 ATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
*** * * * *
26377406 CCAAAAATTACCATTTTACCCTTAAACTCTCCAAAATTCCATTTTTAATCTCGATTTCATC-GAA
1 CCAAAAATTACCATTTTACCC-CCGACTATCCAAAATTCCATTTTTAACCTCGATTTCACCAAAA
* * * * * *
26377470 ATTACCATTTTACCCCTAAATTTTCTAAAATTTCATTTTTGACCCCGATTTTA
65 ATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
** * * *
26377523 CCAAAAATTACCATTTTACCCCCGGGTATCCAAAAGTCTCGTTTTTAACCTTGATTTC
1 CCAAAAATTACCATTTTACCCCCGACTATCCAAAATTC-CATTTTTAACCTCGATTTC
26377581 GTCGTTTCTT
Statistics
Matches: 148, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
116 10 0.07
117 85 0.57
118 53 0.36
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.37
Consensus pattern (117 bp):
CCAAAAATTACCATTTTACCCCCGACTATCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAA
TTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:26377579 original size:59 final size:58
Alignment explanation
Indices: 26377288--26377580 Score: 327
Period size: 59 Copynumber: 5.0 Consensus size: 58
26377278 CCCAAACAGT
*
26377288 CCAAAAATTACCATTTTACTCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCG-ACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
*
26377347 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCG-ACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
*** * *
26377406 CCAAAAATTACCATTTTACCCTTAAACTCTCCAAAATTCCATTTTTAATCTCGATTTCA
1 CCAAAAATTACCATTTTACCC-CCGACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
* * ** * * * * * *
26377465 TC-GAAATTACCATTTTACCCCTAAATTTTCTAAAATTTCATTTTTGACCCCGATTTTA
1 CCAAAAATTACCATTTTACCCC-CGACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
** * * * *
26377523 CCAAAAATTACCATTTTACCCCCGGGTATCCAAAAGTCTCGTTTTTAACCTTGATTTC
1 CCAAAAATTACCATTTTACCCCCGACTTTCCAAAATTC-CATTTTTAACCTCGATTTC
26377581 GTCGTTTCTT
Statistics
Matches: 196, Mismatches: 34, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
58 54 0.28
59 142 0.72
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.37
Consensus pattern (58 bp):
CCAAAAATTACCATTTTACCCCCGACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
Found at i:26383309 original size:23 final size:23
Alignment explanation
Indices: 26383279--26383452 Score: 88
Period size: 23 Copynumber: 7.5 Consensus size: 23
26383269 ACACTAGCGC
26383279 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGTTTAGCACTGTCT-GT
*
26383302 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCACTGTCTGT
* * * *
26383327 GCTCTCTGATTAGCACTTTGTAT
1 GCTCTCTGTTTAGCACTGTCTGT
* * * * * *
26383350 GCTCTCTGATTGGTATTTTGTGT
1 GCTCTCTGTTTAGCACTGTCTGT
* * * *
26383373 ACTTTCTGCTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTCTGT
* *
26383396 GCTCTCTGTTACCCAGCACT-TATGT
1 GCTCTCTGTT---TAGCACTGTCTGT
*
26383421 GCTCTCTG-TTAGTACT-T-TGGT
1 GCTCTCTGTTTAGCACTGTCT-GT
26383442 GCTCTCTGTTT
1 GCTCTCTGTTT
26383453 GTTCCGTATA
Statistics
Matches: 121, Mismatches: 22, Indels: 17
0.76 0.14 0.11
Matches are distributed among these distances:
20 1 0.01
21 16 0.13
22 2 0.02
23 62 0.51
24 2 0.02
25 29 0.24
26 9 0.07
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTCTGT
Found at i:26387196 original size:46 final size:46
Alignment explanation
Indices: 26387121--26387213 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
26387111 TTCTTTAACA
*
26387121 ATGCATACACATCTTGCACACACAAGTGCTCAAACACAGATCTCTT
1 ATGCATACACACCTTGCACACACAAGTGCTCAAACACAGATCTCTT
* * *
26387167 ATGCATACACACCTTGCATACATAGGTGCTCAAACACAGATCTCTT
1 ATGCATACACACCTTGCACACACAAGTGCTCAAACACAGATCTCTT
26387213 A
1 A
26387214 GGATAGATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.25
Consensus pattern (46 bp):
ATGCATACACACCTTGCACACACAAGTGCTCAAACACAGATCTCTT
Found at i:26388464 original size:40 final size:39
Alignment explanation
Indices: 26388355--26388482 Score: 159
Period size: 39 Copynumber: 3.3 Consensus size: 39
26388345 GTTACCATCG
* * *
26388355 GTTCAGTATT-TCTTTGTAGTGTTTACAGTTTCACTGCTA
1 GTTCAGTATTGT-TTTGCAGTGTTTACAGTGTCACTGCCA
* * *
26388394 GTTCAGTAGTGTTTTACAGTATTTACAGTGTCACTGTCCA
1 GTTCAGTATTGTTTTGCAGTGTTTACAGTGTCACTG-CCA
* *
26388434 GTTCAGTATTGTATTGCAGTGTTTATAGTGTCACTGCCA
1 GTTCAGTATTGTTTTGCAGTGTTTACAGTGTCACTGCCA
26388473 GTTCAGTATT
1 GTTCAGTATT
26388483 TTGATAACTC
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 42 0.55
40 34 0.45
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (39 bp):
GTTCAGTATTGTTTTGCAGTGTTTACAGTGTCACTGCCA
Found at i:26392976 original size:18 final size:19
Alignment explanation
Indices: 26392955--26392995 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
26392945 ATTTGAATTT
*
26392955 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
26392973 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTTGAA
26392992 TTTT
1 TTTT
26392996 TTTTATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:26393006 original size:19 final size:19
Alignment explanation
Indices: 26392946--26393007 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
26392936 AATAAAAAAA
*
26392946 TTTGAATTTTTTTATAAATAT
1 TTTGAATTTTTTT-TATA-AT
**** *
26392967 TTTGAATTTTAAAAATTAT
1 TTTGAATTTTTTTTATAAT
26392986 TTTGAATTTTTTTTATAAT
1 TTTGAATTTTTTTTATAAT
26393005 TTT
1 TTT
26393008 TATTGAGAGA
Statistics
Matches: 30, Mismatches: 11, Indels: 2
0.70 0.26 0.05
Matches are distributed among these distances:
19 19 0.63
20 1 0.03
21 10 0.33
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTGAATTTTTTTTATAAT
Found at i:26394666 original size:23 final size:23
Alignment explanation
Indices: 26394636--26394685 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
26394626 CAATAACTGT
*
26394636 TGTAACTGCAGCTCAACTGTTGC
1 TGTAACTGCAGCTCAACTGCTGC
26394659 TGTAACTGCAGCTCAACTGCTGC
1 TGTAACTGCAGCTCAACTGCTGC
26394682 TGTA
1 TGTA
26394686 GCTTGATACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (23 bp):
TGTAACTGCAGCTCAACTGCTGC
Found at i:26395737 original size:31 final size:29
Alignment explanation
Indices: 26395682--26395752 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 29
26395672 AAAGTTTGAA
*
26395682 TTAATTTTAAATTCATTTTTAAATTTATC
1 TTAAATTTAAATTCATTTTTAAATTTATC
* *
26395711 TTAAATTTAAATTTACTTATTTAAATTTATT
1 TTAAATTTAAATTCA-TT-TTTAAATTTATC
26395742 TTAAATTTAAA
1 TTAAATTTAAA
26395753 ATTAATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 13 0.35
30 2 0.05
31 22 0.59
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (29 bp):
TTAAATTTAAATTCATTTTTAAATTTATC
Found at i:26395749 original size:11 final size:11
Alignment explanation
Indices: 26395680--26395750 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
26395670 TTAAAGTTTG
*
26395680 AATTAATTTTA
1 AATTTATTTTA
*
26395691 AATTCATTTTTA
1 AATTTA-TTTTA
*
26395703 AATTTATCTTA
1 AATTTATTTTA
*
26395714 AATTTAAATTT-
1 AATTT-ATTTTA
*
26395725 -ACTTA-TTTA
1 AATTTATTTTA
26395734 AATTTATTTTA
1 AATTTATTTTA
26395745 AATTTA
1 AATTTA
26395751 AAATTAATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 3 0.06
9 1 0.02
10 7 0.15
11 24 0.50
12 13 0.27
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTATTTTA
Found at i:26395761 original size:17 final size:17
Alignment explanation
Indices: 26395729--26395763 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
26395719 AAATTTACTT
* *
26395729 ATTTAAATTTATTTTAA
1 ATTTAAAATTAATTTAA
26395746 ATTTAAAATTAATTTAA
1 ATTTAAAATTAATTTAA
26395763 A
1 A
26395764 ATAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAAATTAATTTAA
Found at i:26395846 original size:28 final size:29
Alignment explanation
Indices: 26395796--26395894 Score: 168
Period size: 29 Copynumber: 3.5 Consensus size: 29
26395786 CAATGTCCAT
*
26395796 TTAC-AAAAG-CCTAAATTAAAGGCCCGA
1 TTACAAAAAGCCCAAAATTAAAGGCCCGA
26395823 TTAC-AAAAGCCCAAAATTAAAGGCCCGA
1 TTACAAAAAGCCCAAAATTAAAGGCCCGA
26395851 TTACAAAAAGCCCAAAATTAAAGGCCCGA
1 TTACAAAAAGCCCAAAATTAAAGGCCCGA
26395880 TTACAAAAAGCCCAA
1 TTACAAAAAGCCCAA
26395895 TTGGGCTGAA
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
27 9 0.13
28 21 0.30
29 39 0.57
ACGTcount: A:0.47, C:0.24, G:0.13, T:0.15
Consensus pattern (29 bp):
TTACAAAAAGCCCAAAATTAAAGGCCCGA
Found at i:26396543 original size:12 final size:13
Alignment explanation
Indices: 26396508--26396546 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
26396498 GTTAACATTA
*
26396508 AATATTGTTAATG
1 AATATTATTAATG
26396521 AATATTATTAATG
1 AATATTATTAATG
26396534 AATA-TATTAATG
1 AATATTATTAATG
26396546 A
1 A
26396547 TAATAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 9 0.36
13 16 0.64
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (13 bp):
AATATTATTAATG
Found at i:26396847 original size:20 final size:19
Alignment explanation
Indices: 26396822--26396865 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
26396812 GGTTTTTTAA
* *
26396822 AAAAAAATAAAGAGAGAAAG
1 AAAAAAACAAAAAG-GAAAG
26396842 AAAAAAACAAAAAGGAAAG
1 AAAAAAACAAAAAGGAAAG
26396861 AAAAA
1 AAAAA
26396866 GAAGAGGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (19 bp):
AAAAAAACAAAAAGGAAAG
Found at i:26396862 original size:23 final size:22
Alignment explanation
Indices: 26396820--26396863 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
26396810 ATGGTTTTTT
*
26396820 AAAAAAAAATAAAGAGAGAAAG
1 AAAAAAAAATAAAGAAAGAAAG
26396842 AAAAAAACAA-AAAGGAAAGAAA
1 AAAAAAA-AATAAA-GAAAGAAA
26396864 AAGAAGAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (22 bp):
AAAAAAAAATAAAGAAAGAAAG
Found at i:26396900 original size:11 final size:11
Alignment explanation
Indices: 26396884--26396913 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
26396874 ATCCTACCTT
26396884 GGACGGCGGTC
1 GGACGGCGGTC
*
26396895 GGACGGTGGTC
1 GGACGGCGGTC
26396906 GGACGGCG
1 GGACGGCG
26396914 CGTGTACGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.10, C:0.23, G:0.57, T:0.10
Consensus pattern (11 bp):
GGACGGCGGTC
Found at i:26397572 original size:30 final size:28
Alignment explanation
Indices: 26397537--26397592 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
26397527 GCTTATAGGT
26397537 CCCCAAACAGTCCAAAAATTACCATTTTAC
1 CCCCAAACAGTCC-AAAATT-CCATTTTAC
**
26397567 CCCCAAACTTTCCAAAATTCCATTTT
1 CCCCAAACAGTCCAAAATTCCATTTT
26397593 TAACCCCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 6 0.25
30 11 0.46
ACGTcount: A:0.36, C:0.34, G:0.02, T:0.29
Consensus pattern (28 bp):
CCCCAAACAGTCCAAAATTCCATTTTAC
Found at i:26397584 original size:29 final size:28
Alignment explanation
Indices: 26397551--26397886 Score: 197
Period size: 30 Copynumber: 11.5 Consensus size: 28
26397541 AAACAGTCCA
*
26397551 AAAATTACCATTTTACCCCCAAACTTTCC
1 AAAATT-CCATTTTACCCCCGAACTTTCC
*
26397580 AAAATTCCATTTTTAACCCCG-A-TTTCATC
1 AAAATTCCA-TTTTACCCCCGAACTTTC--C
**
26397609 AAAATTTACCATTTTACCCTTGAACTTTCC
1 AAAA-TT-CCATTTTACCCCCGAACTTTCC
* * *
26397639 AAAATTCCATTTTTAACCTCG-ATTTTACC
1 AAAATTCCA-TTTTACCCCCGAACTTT-CC
* * * *
26397668 AAAAATTACTATTTTACCCTCGAACCTTCT
1 -AAAATT-CCATTTTACCCCCGAACTTTCC
*
26397698 AAAATTCCATTTTTAACCCCG-A-TTTCACC
1 AAAATTCCA-TTTTACCCCCGAACTTT--CC
* *
26397727 AAAAATTACCATTTTACCCCCGAACCTTCT
1 -AAAATT-CCATTTTACCCCCGAACTTTCC
*
26397757 AAAATTCCATTTTTAACCCCG-A-TTTCACC
1 AAAATTCCA-TTTTACCCCCGAACTTT--CC
*
26397786 AAAAATTACCATTTTACCCCTGAAC-TTCC
1 -AAAATT-CCATTTTACCCCCGAACTTTCC
* *
26397815 AAAATTCCATTTTTAACCCTG-A-TTTCATC
1 AAAATTCCA-TTTTACCCCCGAACTTTC--C
* *
26397844 GAAAATTACCATTTTACCCCCGAACCTTCT
1 -AAAATT-CCATTTTACCCCCGAACTTTCC
26397874 AAAATTCCATTTT
1 AAAATTCCATTTT
26397887 TAACCTCGGT
Statistics
Matches: 242, Mismatches: 31, Indels: 69
0.71 0.09 0.20
Matches are distributed among these distances:
27 15 0.06
28 41 0.17
29 75 0.31
30 79 0.33
31 23 0.10
32 9 0.04
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.36
Consensus pattern (28 bp):
AAAATTCCATTTTACCCCCGAACTTTCC
Found at i:26397641 original size:59 final size:59
Alignment explanation
Indices: 26397548--26397916 Score: 544
Period size: 59 Copynumber: 6.3 Consensus size: 59
26397538 CCCAAACAGT
* *
26397548 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * ** * * *
26397607 TCAAAATTTACCATTTTACCCTTGAACTTTCCAAAATTCCATTTTTAACCTCGATTTTA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
26397666 CCAAAAATTACTATTTTACCCTCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
*
26397725 CCAAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
26397784 CCAAAAATTACCATTTTACCCCTGAA-CTTCCAAAATTCCATTTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * * *
26397842 TCGAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCTCGGTTTCA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
26397901 CC-AAAATTACCATTTT
1 CCAAAAATTACCATTTT
26397917 GCCTCCGGGT
Statistics
Matches: 281, Mismatches: 28, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
58 67 0.24
59 214 0.76
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.36
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:26397956 original size:117 final size:116
Alignment explanation
Indices: 26397548--26397961 Score: 480
Period size: 118 Copynumber: 3.5 Consensus size: 116
26397538 CCCAAACAGT
* *
26397548 CCAAAAATTACCATTTTACCCC-CAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATC-AA
1 CCAAAAATTACCATTTTACCCCGC---GTATCCAAAATTCCATTTTTAACCCCGATTTCATCGAA
** * * *
26397611 AATTTACCATTTTACCCTTGAACTTTCCAAAATTCCATTTTTAACCTCGATTTTA
63 AA-TTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCTCGATTTCA
* * * * *
26397666 CCAAAAATTACTATTTTACCCTCGAACCT-TCTAAAATTCCATTTTTAACCCCGATTTCACCAAA
1 CCAAAAATTACCATTTTACCC-CG--CGTATCCAAAATTCCATTTTTAACCCCGATTTCATCGAA
*
26397730 AATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCA
63 AATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCTCGATTTCA
*
26397784 CCAAAAATTACCATTTTACCCCTGAAC-T-TCCAAAATTCCATTTTTAACCCTGATTTCATCGAA
1 CCAAAAATTACCATTTTACCCC-G--CGTATCCAAAATTCCATTTTTAACCCCGATTTCATCGAA
*
26397847 AATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCTCGGTTTCA
63 AATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCTCGATTTCA
* * * * ** *
26397901 CC-AAAATTACCATTTTGCCTCCGGGTATCCAAAAGTCCCGTTTTCCACCCCGATTTTATCG
1 CCAAAAATTACCATTTTACC-CCGCGTATCCAAAA-TTCCATTTTTAACCCCGATTTCATCG
26397962 TTTATCAATA
Statistics
Matches: 262, Mismatches: 24, Indels: 21
0.85 0.08 0.07
Matches are distributed among these distances:
115 1 0.00
116 24 0.09
117 109 0.42
118 120 0.46
119 7 0.03
122 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.35
Consensus pattern (116 bp):
CCAAAAATTACCATTTTACCCCGCGTATCCAAAATTCCATTTTTAACCCCGATTTCATCGAAAAT
TACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCTCGATTTCA
Found at i:26410135 original size:69 final size:69
Alignment explanation
Indices: 26410024--26410662 Score: 1101
Period size: 69 Copynumber: 9.3 Consensus size: 69
26410014 TCCAATCCGC
* * *
26410024 TTGAAATTGAAATAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCACC
1 TTGAAATTGAAGTAGAGTGGATGACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATC
26410089 CCCT
66 CCCT
* *
26410093 TTGAAATTGAAGTAGGGTGGATGACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCACC
1 TTGAAATTGAAGTAGAGTGGATGACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATC
26410158 CCCT
66 CCCT
26410162 TTGAAATTGAAGTAGAGTGGATGACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATC
1 TTGAAATTGAAGTAGAGTGGATGACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATC
26410227 CCCT
66 CCCT
*
26410231 TTGAAATTGAAGTAGAGTGGATGACACGTCTTTATCTCTAAAATTGAAGTAAGAGCAACGTCATC
1 TTGAAATTGAAGTAGAGTGGATGACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATC
26410296 CCCT
66 CCCT
26410300 TTGAAATTGAAGTAGAGTGGATGACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATC
1 TTGAAATTGAAGTAGAGTGGATGACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATC
26410365 CCCT
66 CCCT
* * *
26410369 TTGAAATGGAAGTAGAGTGGATGACACGTCTTTATCTCTAAAATTGAAGTAAGAGCAACGTCACC
1 TTGAAATTGAAGTAGAGTGGATGACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATC
26410434 CCCT
66 CCCT
* *
26410438 TTGAAATTGAAGTAGGGTGGATGACACGTCTTTATCTCTGAAATT---G-AAGAGCAACATCATC
1 TTGAAATTGAAGTAGAGTGGATGACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATC
26410499 CCCT
66 CCCT
*
26410503 TTGAAATTGAAGTAGAGTGGATGACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCACC
1 TTGAAATTGAAGTAGAGTGGATGACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATC
26410568 CCCT
66 CCCT
26410572 TTGAAATTGAAGTAGAGTGGATGACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATC
1 TTGAAATTGAAGTAGAGTGGATGACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATC
26410637 CCC-
66 CCCT
*
26410640 TT-AAAGTTGAAGTAAAGCTGGAT
1 TTGAAA-TTGAAGTAGAG-TGGAT
26410663 AACAAGCCTT
Statistics
Matches: 544, Mismatches: 20, Indels: 12
0.94 0.03 0.02
Matches are distributed among these distances:
65 61 0.11
66 1 0.00
67 3 0.01
68 13 0.02
69 466 0.86
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (69 bp):
TTGAAATTGAAGTAGAGTGGATGACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATC
CCCT
Found at i:26411028 original size:31 final size:29
Alignment explanation
Indices: 26410973--26411043 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 29
26410963 AAAGTTTGAA
*
26410973 TTAATTTTAAATTCATTTTTAAATTTATC
1 TTAAATTTAAATTCATTTTTAAATTTATC
* *
26411002 TTAAATTTAAATTTACTTATTTAAATTTATT
1 TTAAATTTAAATTCA-TT-TTTAAATTTATC
26411033 TTAAATTTAAA
1 TTAAATTTAAA
26411044 CTTAATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 13 0.35
30 2 0.05
31 22 0.59
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (29 bp):
TTAAATTTAAATTCATTTTTAAATTTATC
Found at i:26411040 original size:11 final size:11
Alignment explanation
Indices: 26410971--26411041 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
26410961 TTAAAGTTTG
*
26410971 AATTAATTTTA
1 AATTTATTTTA
*
26410982 AATTCATTTTTA
1 AATTTA-TTTTA
*
26410994 AATTTATCTTA
1 AATTTATTTTA
*
26411005 AATTTAAATTT-
1 AATTT-ATTTTA
*
26411016 -ACTTA-TTTA
1 AATTTATTTTA
26411025 AATTTATTTTA
1 AATTTATTTTA
26411036 AATTTA
1 AATTTA
26411042 AACTTAATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 3 0.06
9 1 0.02
10 7 0.15
11 24 0.50
12 13 0.27
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTATTTTA
Found at i:26411052 original size:17 final size:17
Alignment explanation
Indices: 26411020--26411054 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
26411010 AAATTTACTT
* *
26411020 ATTTAAATTTATTTTAA
1 ATTTAAACTTAATTTAA
26411037 ATTTAAACTTAATTTAA
1 ATTTAAACTTAATTTAA
26411054 A
1 A
26411055 ATAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAACTTAATTTAA
Found at i:26411181 original size:29 final size:27
Alignment explanation
Indices: 26411087--26411177 Score: 155
Period size: 27 Copynumber: 3.3 Consensus size: 27
26411077 CAATGTCCAT
26411087 TTACAAAAGCCCAAATTAAAGGCCCGA
1 TTACAAAAGCCCAAATTAAAGGCCCGA
26411114 TTACAAAAGCCCAAATTAAAGGCCCGA
1 TTACAAAAGCCCAAATTAAAGGCCCGA
*
26411141 TTACAAAAAGCCCAAAATTAAAGGCCCAA
1 TTAC-AAAAGCCC-AAATTAAAGGCCCGA
26411170 TTACAAAA
1 TTACAAAA
26411178 AGCCTAATTG
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
27 31 0.51
28 12 0.20
29 18 0.30
ACGTcount: A:0.48, C:0.24, G:0.12, T:0.15
Consensus pattern (27 bp):
TTACAAAAGCCCAAATTAAAGGCCCGA
Found at i:26411830 original size:12 final size:13
Alignment explanation
Indices: 26411802--26411833 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
26411792 TTAAATACTG
26411802 TTAATGAATATTA
1 TTAATGAATATTA
26411815 TTAATGAATA-TA
1 TTAATGAATATTA
26411827 TTAATGA
1 TTAATGA
26411834 TAATAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (13 bp):
TTAATGAATATTA
Found at i:26412122 original size:20 final size:19
Alignment explanation
Indices: 26412097--26412140 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
26412087 TTGTTTTTTT
*
26412097 AAAAAAATAAAGAGAGAAAG
1 AAAAAAATAAAAAG-GAAAG
26412117 AAAAAAATAAAAAGGAAAG
1 AAAAAAATAAAAAGGAAAG
26412136 AAAAA
1 AAAAA
26412141 GAAGAGGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.05
Consensus pattern (19 bp):
AAAAAAATAAAAAGGAAAG
Found at i:26412849 original size:30 final size:29
Alignment explanation
Indices: 26412815--26413070 Score: 143
Period size: 29 Copynumber: 8.8 Consensus size: 29
26412805 CCCCAAACAG
*
26412815 TCCAAAAATTATCATTTTACCTCCGAACTT
1 TCCAAAAATTACCATTTTACC-CCGAACTT
26412845 TCC-AAAATT-CCATTTTTAACCCCG-A-TT
1 TCCAAAAATTACCA-TTTT-ACCCCGAACTT
26412872 T-CATCAAAATTACCATTTTACCCCAGAACTT
1 TCCA--AAAATTACCATTTTACCCC-GAACTT
26412903 TCC-AAAATT-CCATTTTTAACCCCG-A-TT
1 TCCAAAAATTACCA-TTTT-ACCCCGAACTT
* *
26412930 TCATCAAAAAATACCATTTTACCCCCGAACCT
1 TC--CAAAAATTACCATTTTA-CCCCGAACTT
*
26412962 T-CTAAAATT-CCATTTTTAACCCCG-A-TT
1 TCCAAAAATTACCA-TTTT-ACCCCGAACTT
*
26412989 TCACCGAAAATTACCATTTT-CCCTCGAACTT
1 T--CCAAAAATTACCATTTTACCC-CGAACTT
* *
26413020 T-CTAAAATT-CCATTTTTAACCCCG-ATTT
1 TCCAAAAATTACCA-TTTT-ACCCCGAACTT
*
26413048 TACC-AAAATTACCATTTTGCCCC
1 T-CCAAAAATTACCATTTTACCCC
26413071 CGGGTATCCA
Statistics
Matches: 182, Mismatches: 10, Indels: 70
0.69 0.04 0.27
Matches are distributed among these distances:
26 1 0.01
27 12 0.07
28 38 0.21
29 66 0.36
30 49 0.27
31 13 0.07
32 3 0.02
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.35
Consensus pattern (29 bp):
TCCAAAAATTACCATTTTACCCCGAACTT
Found at i:26412974 original size:59 final size:59
Alignment explanation
Indices: 26412817--26413109 Score: 378
Period size: 58 Copynumber: 5.0 Consensus size: 59
26412807 CCAAACAGTC
* *
26412817 CAAAAATTATCATTTTACCTCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAT
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAT
*
26412876 C-AAAATTACCATTTTACCCCAGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAT
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAT
* * * *
26412934 CAAAAAATACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAT
* * * *
26412993 CGAAAATTACCATTTT-CCCTCGAACTTTCTAAAATTCCATTTTTAACCCCGATTTTA-
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAT
* * ** * * * *
26413050 CCAAAATTACCATTTTGCCCCCG-GGTATCCAAAAGTCTCGTTTTTCACCCCGATTTCAT
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTC-CATTTTTAACCCCGATTTCAT
26413109 C
1 C
26413110 GTTTATCAAT
Statistics
Matches: 207, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
57 24 0.12
58 115 0.56
59 68 0.33
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.34
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAT
Found at i:26413027 original size:117 final size:116
Alignment explanation
Indices: 26412817--26413072 Score: 381
Period size: 117 Copynumber: 2.2 Consensus size: 116
26412807 CCAAACAGTC
* * * *
26412817 CAAAAATTATCATTTTACCTCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCAAAAT
1 CAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAT
26412882 TACCATTTTACCCCAGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
66 TACCATTTTACCCCAGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
26412933 TCAAAAAATACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCACCGAAA
1 -CAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACC-AAA
* *
26412998 ATTACCATTTT-CCCTC-GAACTTTCTAAAATTCCATTTTTAACCCCGATTTTA
64 ATTACCATTTTACCC-CAGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
26413050 CCAAAATTACCATTTTGCCCCCG
1 CAAAAATTACCATTTTACCCCCG
26413073 GGTATCCAAA
Statistics
Matches: 126, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
116 20 0.16
117 91 0.72
118 15 0.12
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (116 bp):
CAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAT
TACCATTTTACCCCAGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:26420009 original size:23 final size:23
Alignment explanation
Indices: 26419961--26420010 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
26419951 CTAAACAAGA
*
26419961 AAAATAACAACCAAAACAACAGC
1 AAAATAACAACCAAAACAACACC
*
26419984 AAAATAACAA-CAAAGACAATACC
1 AAAATAACAACCAAA-ACAACACC
26420007 AAAA
1 AAAA
26420011 CAGTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.68, C:0.22, G:0.04, T:0.06
Consensus pattern (23 bp):
AAAATAACAACCAAAACAACACC
Found at i:26420059 original size:32 final size:34
Alignment explanation
Indices: 26420006--26420071 Score: 100
Period size: 32 Copynumber: 2.0 Consensus size: 34
26419996 AAGACAATAC
* *
26420006 CAAAACAGTAAAAAAACAGCACCAAAACAGCAAT
1 CAAAACAATAAAAAAACAGCACCAAAACAACAAT
26420040 CAAAACAAT-AAAAAA-AGCACCAAAACAACAAT
1 CAAAACAATAAAAAAACAGCACCAAAACAACAAT
26420072 ATAATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 16 0.53
33 6 0.20
34 8 0.27
ACGTcount: A:0.65, C:0.23, G:0.06, T:0.06
Consensus pattern (34 bp):
CAAAACAATAAAAAAACAGCACCAAAACAACAAT
Found at i:26433457 original size:20 final size:20
Alignment explanation
Indices: 26433432--26433481 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 20
26433422 TTGATATTTT
*
26433432 TAAAATCAAGTCGAGTGAAA
1 TAAAATCAAGTCGAGTCAAA
26433452 TAAAATTCAAGTCGAGTCAAA
1 TAAAA-TCAAGTCGAGTCAAA
*
26433473 TCAAATCAA
1 TAAAATCAA
26433482 ATTGAATCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.22
Consensus pattern (20 bp):
TAAAATCAAGTCGAGTCAAA
Found at i:26433478 original size:26 final size:24
Alignment explanation
Indices: 26433449--26433497 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
26433439 AAGTCGAGTG
26433449 AAATAAAATTCAAGTCGAGTCAAATC
1 AAATAAAATTCAA-TCGAGT-AAATC
* *
26433475 AAATCAAATTGAATCGAGTAAAT
1 AAATAAAATTCAATCGAGTAAAT
26433498 TTTTTCGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 6 0.29
26 11 0.52
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.24
Consensus pattern (24 bp):
AAATAAAATTCAATCGAGTAAATC
Found at i:26436862 original size:68 final size:69
Alignment explanation
Indices: 26436663--26436871 Score: 314
Period size: 69 Copynumber: 3.1 Consensus size: 69
26436653 CTCTACATCC
* * *
26436663 ACACACGGAGAAGC-AAAACAGTACCAATATCAACTTGTCTTTCCACAGGGTTCGATGGACATGT
1 ACACACGGAGAAGCTAAAACAGCACCAATATCAACCTGTCTATCCACAGGGTTCGATGGACATGT
26436727 TGAA
66 TGAA
* * *
26436731 ACACTCGGAGAAGCTAAAACAGCACCAATATCAACCTGTCTATCCAGAGGGTTCGATGAACATGT
1 ACACACGGAGAAGCTAAAACAGCACCAATATCAACCTGTCTATCCACAGGGTTCGATGGACATGT
26436796 TGAA
66 TGAA
* * * *
26436800 ACACACGGAGAAGCTAAAA-AGCACTAGTATCAACCTATCTATCCACAAGGTTCGATGGACATGT
1 ACACACGGAGAAGCTAAAACAGCACCAATATCAACCTGTCTATCCACAGGGTTCGATGGACATGT
26436864 TGAA
66 TGAA
26436868 ACAC
1 ACAC
26436872 TCAGAGACAT
Statistics
Matches: 127, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
68 60 0.47
69 67 0.53
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (69 bp):
ACACACGGAGAAGCTAAAACAGCACCAATATCAACCTGTCTATCCACAGGGTTCGATGGACATGT
TGAA
Found at i:26440741 original size:22 final size:22
Alignment explanation
Indices: 26440692--26440733 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
26440682 GAAAATGTTC
*
26440692 AAATAATAGTAAAATCTTTTAG
1 AAATAAAAGTAAAATCTTTTAG
*
26440714 AAATAAAAGTCAAATCTTTT
1 AAATAAAAGTAAAATCTTTT
26440734 TGGAATAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (22 bp):
AAATAAAAGTAAAATCTTTTAG
Found at i:26441367 original size:29 final size:29
Alignment explanation
Indices: 26441325--26441394 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
26441315 GGTATACATC
*
26441325 ATTTAGTTTCTATATTTTTATTTTCAAGA
1 ATTTAGTTTTTATATTTTTATTTTCAAGA
*
26441354 ATTTAGTTTTTATATTTTTATTTTTAAGA
1 ATTTAGTTTTTATATTTTTATTTTCAAGA
26441383 ATTTAGTCTTTT
1 ATTTAGT-TTTT
26441395 TACTTTTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 34 0.89
30 4 0.11
ACGTcount: A:0.26, C:0.04, G:0.07, T:0.63
Consensus pattern (29 bp):
ATTTAGTTTTTATATTTTTATTTTCAAGA
Found at i:26442563 original size:17 final size:16
Alignment explanation
Indices: 26442532--26442565 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26442522 GAAGTACAAG
26442532 AGGAAGATTTGAAAAA
1 AGGAAGATTTGAAAAA
*
26442548 AGGAATATTGTGAAAAA
1 AGGAAGATT-TGAAAAA
26442565 A
1 A
26442566 ATGGGAAGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.00, G:0.24, T:0.21
Consensus pattern (16 bp):
AGGAAGATTTGAAAAA
Found at i:26443875 original size:36 final size:36
Alignment explanation
Indices: 26443828--26443902 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
26443818 CTAGTTTGAA
*
26443828 GCTGCTAAAGGAGTGTTACTGAAAATGATGAGAGGT
1 GCTGCTAAAGGAGTGATACTGAAAATGATGAGAGGT
26443864 GCTGCTAAAGGAGTGATACTGAAAATGATGAGAGGT
1 GCTGCTAAAGGAGTGATACTGAAAATGATGAGAGGT
26443900 GCT
1 GCT
26443903 AAATCACCTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.33, C:0.09, G:0.33, T:0.24
Consensus pattern (36 bp):
GCTGCTAAAGGAGTGATACTGAAAATGATGAGAGGT
Found at i:26445355 original size:46 final size:47
Alignment explanation
Indices: 26445300--26445399 Score: 123
Period size: 47 Copynumber: 2.1 Consensus size: 47
26445290 ACCAGATCAT
* *
26445300 ATATATGTGGTCAAGCCACTAT-ATTGCAG-CAAAGATGCCAAAATAG
1 ATATGTGTGGTCAAGCCACTATAATTGCAGTC-AAGATGCCAAAACAG
* * * *
26445346 ATATGTGTGGTCGAGCCACTATAATTGTAGTCAAGCTGCCAGAACAG
1 ATATGTGTGGTCAAGCCACTATAATTGCAGTCAAGATGCCAAAACAG
26445393 ATATGTG
1 ATATGTG
26445400 GTTAAACCAC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
46 20 0.43
47 25 0.54
48 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (47 bp):
ATATGTGTGGTCAAGCCACTATAATTGCAGTCAAGATGCCAAAACAG
Found at i:26445945 original size:39 final size:39
Alignment explanation
Indices: 26445862--26446139 Score: 166
Period size: 39 Copynumber: 6.8 Consensus size: 39
26445852 TCGATCTGGT
*** *
26445862 AGTGTTTACAGTGTCACT-ACCTA-TTCAGTACAACATTAC
1 AGTGTTTACAGTGTCACTGA-C-AGTTCAGTATTGCATTGC
* * * * *
26445901 GGTGTTTACAGTGTCAAC-GTCAGTTCAGTATTTCTTTGT
1 AGTGTTTACAGTGTC-ACTGACAGTTCAGTATTGCATTGC
*
26445940 AGTGTTTACAGTGTCACTGACAGTTTAGTATTGCATTGC
1 AGTGTTTACAGTGTCACTGACAGTTCAGTATTGCATTGC
* *
26445979 AGTGTTTACAGTAATGTCTACTGTGTCACTTCCAGTTCAGTAATGTATTGC
1 AGTGTTTACAG---TGTC-AC--TG--A----CAGTTCAGTATTGCATTGC
* * * * *
26446030 AGTGTTTACAATGTCACTGCCAGTTCAGTAATGTATTGG
1 AGTGTTTACAGTGTCACTGACAGTTCAGTATTGCATTGC
* * ** * *
26446069 AGTGTTTACAATGTCACTGTCAGTTTTGTAATGTATTGC
1 AGTGTTTACAGTGTCACTGACAGTTCAGTATTGCATTGC
* * *
26446108 AGTGTTTACAGTGCCACTGCCAGTTTAGTATT
1 AGTGTTTACAGTGTCACTGACAGTTCAGTATT
26446140 TTGATAACTT
Statistics
Matches: 194, Mismatches: 29, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
38 3 0.02
39 146 0.75
40 2 0.01
42 4 0.02
43 2 0.01
45 4 0.02
47 3 0.02
48 4 0.02
51 26 0.13
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.39
Consensus pattern (39 bp):
AGTGTTTACAGTGTCACTGACAGTTCAGTATTGCATTGC
Found at i:26451548 original size:52 final size:52
Alignment explanation
Indices: 26451470--26451755 Score: 357
Period size: 52 Copynumber: 5.5 Consensus size: 52
26451460 TGCAAAAGGT
* *
26451470 TCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATAGGGC
1 TCGATAACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAGGGC
* * *
26451522 TCGATAACTATTTGTTATCGTGAGTATATGAATCCTTAACGGATTAT-GAGG-
1 TCGATAACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAG-GGC
* * *
26451573 TCGA-AGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATAAGGT
1 TCGATA-ACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAGGGC
* *
26451625 TCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTC
1 TCGATAACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT-AGGGC
* * * * *
26451678 -CGATGACTATGTGACATCGTGAGTGTATGAATCCTTTACGAATTATGAGGTC
1 TCGATAACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT-AGGGC
*
26451730 -CGATAACTATGTGTCATCTTGAGTAT
1 TCGATAACTATGTGTCATCGTGAGTAT
26451756 TAAATGAGAA
Statistics
Matches: 206, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
50 1 0.00
51 44 0.21
52 159 0.77
53 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (52 bp):
TCGATAACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAGGGC
Found at i:26451654 original size:103 final size:103
Alignment explanation
Indices: 26451470--26451755 Score: 428
Period size: 103 Copynumber: 2.8 Consensus size: 103
26451460 TGCAAAAGGT
* * * *
26451470 TCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATAGGGCTCGATAACTATTT
1 TCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTTCGATAACTATGT
*
26451535 GTTATCGTGAGTATATGAATCCTTAACGGATTATGAGG
66 GTCATCGTGAGTATATGAATCCTTAACGGATTATGAGG
* * *
26451573 TCGAAGACTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATAAGGTTCGATGACTATGT
1 TCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTTCGATAACTATGT
*
26451638 GTCATCGTGAGTATATGAATCCTTTACGGATTATGAGG
66 GTCATCGTGAGTATATGAATCCTTAACGGATTATGAGG
* * * * *
26451676 TCCGATGACTATGTGACATCGTGAGTGTATGAATCCTTTACGAATTATGAGGTCCGATAACTATG
1 T-CGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTTCGATAACTATG
*
26451741 TGTCATCTTGAGTAT
65 TGTCATCGTGAGTAT
26451756 TAAATGAGAA
Statistics
Matches: 164, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
103 95 0.58
104 69 0.42
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (103 bp):
TCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTTCGATAACTATGT
GTCATCGTGAGTATATGAATCCTTAACGGATTATGAGG
Found at i:26453176 original size:39 final size:39
Alignment explanation
Indices: 26453096--26453392 Score: 230
Period size: 39 Copynumber: 7.7 Consensus size: 39
26453086 ATCTGGTAGC
* *** *
26453096 GTTTACAGTGTCACTACCTA-TTCAGTACAACATTACGGT
1 GTTTACAGTGTCACTGCC-AGTTCAGTATTGCATTACAGT
* * * * *
26453135 GTTTACAATGTCACCGTCAGTTCAGTATTTCTTTACAGT
1 GTTTACAGTGTCACTGCCAGTTCAGTATTGCATTACAGT
* **
26453174 GTTTACAGTGTCACTACCAGTTCAGTATTGCATTGTAGT
1 GTTTACAGTGTCACTGCCAGTTCAGTATTGCATTACAGT
* * *
26453213 GTTTACAGTGTCACTGCCAGTTCAGTAATGTATTCCA--
1 GTTTACAGTGTCACTGCCAGTTCAGTATTGCATTACAGT
* * * * * * *
26453250 --AT-CAGTATCACTGTCAGTTCAGTAATGTATTGCAAT
1 GTTTACAGTGTCACTGCCAGTTCAGTATTGCATTACAGT
* * **
26453286 GTTTACAGTGTCACTGCCAATTCAGTAATT-TATTTGAGT
1 GTTTACAGTGTCACTGCCAGTTCAGT-ATTGCATTACAGT
* * * *
26453325 GTTTACAGTGTCACTGCCAATTCAGTAATGTATTGCAGT
1 GTTTACAGTGTCACTGCCAGTTCAGTATTGCATTACAGT
* *
26453364 GTTTACAGTGTCACTACTAGTTCAGTATT
1 GTTTACAGTGTCACTGCCAGTTCAGTATT
26453393 TTGATAACTT
Statistics
Matches: 209, Mismatches: 41, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
34 29 0.14
35 1 0.00
38 4 0.02
39 173 0.83
40 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.38
Consensus pattern (39 bp):
GTTTACAGTGTCACTGCCAGTTCAGTATTGCATTACAGT
Found at i:26453225 original size:78 final size:77
Alignment explanation
Indices: 26453096--26453394 Score: 256
Period size: 78 Copynumber: 3.9 Consensus size: 77
26453086 ATCTGGTAGC
* * * * *
26453096 GTTTACAGTGTCACTACCTA-TTCAGTACA-ACATTACGGTGTTTACAATGTCACCGTCAGTTCA
1 GTTTACAGTGTCACTACC-AGTTCAGTA-ATGCATTGCAGTGTTTACAGTGTCACCGCCAGTTCA
26453159 GT-ATTTCTTTACAGT
64 GTAATTT-TTT-CAGT
* * *
26453174 GTTTACAGTGTCACTACCAGTTCAGTATTGCATTGTAGTGTTTACAGTGTCACTGCCAGTTCAGT
1 GTTTACAGTGTCACTACCAGTTCAGTAATGCATTGCAGTGTTTACAGTGTCACCGCCAGTTCAGT
* *
26453239 AATGTATTCCA--
66 AAT-TTTTTCAGT
* * ** * * * *
26453250 --AT-CAGTATCACTGTCAGTTCAGTAATGTATTGCAATGTTTACAGTGTCACTGCCAATTCAGT
1 GTTTACAGTGTCACTACCAGTTCAGTAATGCATTGCAGTGTTTACAGTGTCACCGCCAGTTCAGT
*
26453312 AATTTATTTGAGT
66 AATTT-TTTCAGT
* * * ** *
26453325 GTTTACAGTGTCACTGCCAATTCAGTAATGTATTGCAGTGTTTACAGTGTCACTACTAGTTCAGT
1 GTTTACAGTGTCACTACCAGTTCAGTAATGCATTGCAGTGTTTACAGTGTCACCGCCAGTTCAGT
26453390 -ATTTT
66 AATTTT
26453395 GATAACTTTC
Statistics
Matches: 181, Mismatches: 30, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
72 1 0.01
73 58 0.32
74 1 0.01
76 1 0.01
77 6 0.03
78 109 0.60
79 4 0.02
80 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (77 bp):
GTTTACAGTGTCACTACCAGTTCAGTAATGCATTGCAGTGTTTACAGTGTCACCGCCAGTTCAGT
AATTTTTTCAGT
Found at i:26453268 original size:34 final size:34
Alignment explanation
Indices: 26453218--26453285 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
26453208 GTAGTGTTTA
*
26453218 CAGTGTCACTGCCAGTTCAGTAATGTATTCCAAT
1 CAGTATCACTGCCAGTTCAGTAATGTATTCCAAT
* *
26453252 CAGTATCACTGTCAGTTCAGTAATGTATTGCAAT
1 CAGTATCACTGCCAGTTCAGTAATGTATTCCAAT
26453286 GTTTACAGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (34 bp):
CAGTATCACTGCCAGTTCAGTAATGTATTCCAAT
Found at i:26453612 original size:74 final size:74
Alignment explanation
Indices: 26453478--26453615 Score: 179
Period size: 74 Copynumber: 1.9 Consensus size: 74
26453468 GCCCGTGTGT
* * * *
26453478 GTCACACGGTCTAGTACACGCCCGTGTGTCCAGACCATGTAACTCACTGTTTTCGCTTTCATAAA
1 GTCACACAGTCTAGCACACGCCCGTGTGTCCAGACCATGTAACTCACTATTTTCGATTTCATAAA
26453543 AACAGTATG
66 AACAGTATG
* * * * *
26453552 GTCACACAGTCTGGCACACGCCCGTGTGTCCA-ACCCGTGTAATTCTCTATTTTTGATTTCATAA
1 GTCACACAGTCTAGCACACGCCCGTGTGTCCAGA-CCATGTAACTCACTATTTTCGATTTCATAA
26453616 CAGAATATCC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
73 1 0.02
74 53 0.98
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (74 bp):
GTCACACAGTCTAGCACACGCCCGTGTGTCCAGACCATGTAACTCACTATTTTCGATTTCATAAA
AACAGTATG
Found at i:26455404 original size:109 final size:108
Alignment explanation
Indices: 26455257--26455461 Score: 249
Period size: 109 Copynumber: 1.9 Consensus size: 108
26455247 ATTTATCGAT
*
26455257 TTTTAAATAGGATGTTCAATTACTTAGGTTCAAAGAAAAATCAT-ACCAAATACGTTA-GGACAC
1 TTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAATCATAACC-AATACGTTATGG-CA-
*
26455320 AATTTCT-CGAATTCTCTAAAATAAAATAACATTGAATATTTACCAA
63 AATTTCTGCGAA-TCTCTAAAATAAAAGAACATTGAATATTTACCAA
* * * *
26455366 TTTTAAATAGGATATTTAATTA-TGTAAGGTT-AACGAAAATTCATAACCAATACGTTATGGCAT
1 TTTTAAATAGGATATTCAATTACT-T-AGGTTCAAAGAAAAATCATAACCAATACGTTATGGCAA
* *
26455429 ATTTTTGCGAATCTCTCAAATAAAAGAACATTG
64 ATTTCTGCGAATCTCTAAAATAAAAGAACATTG
26455462 CTTCTTTTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
108 26 0.31
109 47 0.57
110 10 0.12
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (108 bp):
TTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAATCATAACCAATACGTTATGGCAAAT
TTCTGCGAATCTCTAAAATAAAAGAACATTGAATATTTACCAA
Found at i:26455702 original size:24 final size:24
Alignment explanation
Indices: 26455670--26455736 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
26455660 ATAATCTTTC
* *
26455670 AATTAAACTCTGTTTATTTGTTTA
1 AATTAAACTCTCTTTAATTGTTTA
26455694 AATTAAACTCTCTTTAATTGTTTA
1 AATTAAACTCTCTTTAATTGTTTA
* *
26455718 AGTCAAACTCT-TATTAATT
1 AATTAAACTCTCT-TTAATT
26455737 TAGATTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 1 0.03
24 37 0.97
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.49
Consensus pattern (24 bp):
AATTAAACTCTCTTTAATTGTTTA
Done.