Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 198 of 316
Found at i:64231781 original size:24 final size:25
Alignment explanation
Indices: 64231736--64231784 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
64231726 AATAAAAAAT
*
64231736 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAATAT-ATAAAACAAATATA
64231762 TTTAAAAATAT-TAAAACAAATAT
1 TTTAAAAATATATAAAACAAATAT
64231785 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.50
26 11 0.50
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
TTTAAAAATATATAAAACAAATATA
Found at i:64231782 original size:12 final size:12
Alignment explanation
Indices: 64231767--64231795 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
64231757 ATATATTTAA
64231767 AAATATTAAAAC
1 AAATATTAAAAC
64231779 AAATATTAAAAC
1 AAATATTAAAAC
64231791 AAATA
1 AAATA
64231796 AAAATAACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:64235236 original size:24 final size:24
Alignment explanation
Indices: 64235186--64235236 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
64235176 TTTTGAGCAA
*
64235186 TTTAATTATTTTCTTTTATGTTCT
1 TTTAATTATTTTCTTTTATCTTCT
* *
64235210 TTTAATTATTTTCTTTTTTCTTTT
1 TTTAATTATTTTCTTTTATCTTCT
64235234 TTT
1 TTT
64235237 CATTCTCTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTAATTATTTTCTTTTATCTTCT
Found at i:64235524 original size:89 final size:89
Alignment explanation
Indices: 64235373--64235545 Score: 328
Period size: 89 Copynumber: 1.9 Consensus size: 89
64235363 TGTTAAAGCT
*
64235373 AAATATCCTTGATTACATACTTTGTGTATAAACTCAAAGACTGTTTTCGATCACTGCAAGATGAA
1 AAATATCCTTGATTACATACTTTGTGTATAAACTCAAAGACTATTTTCGATCACTGCAAGATGAA
*
64235438 TAAATCAATCTTATTGAATGAGCC
66 TAAATCAATCCTATTGAATGAGCC
64235462 AAATATCCTTGATTACATACTTTGTGTATAAACTCAAAGACTATTTTCGATCACTGCAAGATGAA
1 AAATATCCTTGATTACATACTTTGTGTATAAACTCAAAGACTATTTTCGATCACTGCAAGATGAA
64235527 TAAATCAATCCTATTGAAT
66 TAAATCAATCCTATTGAAT
64235546 TAATCAATAC
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 82 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (89 bp):
AAATATCCTTGATTACATACTTTGTGTATAAACTCAAAGACTATTTTCGATCACTGCAAGATGAA
TAAATCAATCCTATTGAATGAGCC
Found at i:64237766 original size:36 final size:36
Alignment explanation
Indices: 64237719--64237791 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
64237709 ACACTGGCGA
64237719 CCACATGCTCGTGTGGTGTCAACAGTGGTTTTTTAG
1 CCACATGCTCGTGTGGTGTCAACAGTGGTTTTTTAG
64237755 CCACATGCTCGTGTGGTGTCAACAGTGGTTTTTTAG
1 CCACATGCTCGTGTGGTGTCAACAGTGGTTTTTTAG
64237791 C
1 C
64237792 TTTCTCGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.16, C:0.21, G:0.27, T:0.36
Consensus pattern (36 bp):
CCACATGCTCGTGTGGTGTCAACAGTGGTTTTTTAG
Found at i:64247723 original size:20 final size:21
Alignment explanation
Indices: 64247689--64247728 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
64247679 ACATGACTGA
64247689 TATTGTGATAAATGATTGATC
1 TATTGTGATAAATGATTGATC
*
64247710 TATT-TGATATATGATTGAT
1 TATTGTGATAAATGATTGAT
64247729 TGTATGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (21 bp):
TATTGTGATAAATGATTGATC
Found at i:64251836 original size:46 final size:46
Alignment explanation
Indices: 64251786--64251911 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
64251776 TGGTTGAGCA
*
64251786 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
64251832 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
64251878 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
64251912 GGGGCGGGTT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:64252173 original size:19 final size:20
Alignment explanation
Indices: 64252136--64252173 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
64252126 ATAAGGTGGT
64252136 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
64252156 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
64252174 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:64259374 original size:46 final size:46
Alignment explanation
Indices: 64259324--64259496 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
64259314 TGGTTGAGCA
*
64259324 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
64259370 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
64259417 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * **
64259463 CCCGAGCTCGTTGAGTTGAGTTTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
64259497 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.56
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:64259758 original size:19 final size:20
Alignment explanation
Indices: 64259721--64259758 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
64259711 ATAAGGTGGT
64259721 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
64259741 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
64259759 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:64264616 original size:20 final size:21
Alignment explanation
Indices: 64264583--64264626 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
64264573 GTTCGAATGT
* *
64264583 TTTCTGTTTCTTTTGC-TTTG
1 TTTCTGTTTATTTTACTTTTG
*
64264603 TTTCTTTTTATTTTACTTTTG
1 TTTCTGTTTATTTTACTTTTG
64264624 TTT
1 TTT
64264627 ATTATTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.05, C:0.11, G:0.09, T:0.75
Consensus pattern (21 bp):
TTTCTGTTTATTTTACTTTTG
Found at i:64264800 original size:23 final size:22
Alignment explanation
Indices: 64264766--64264817 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
64264756 TAGTTTATTC
64264766 ATTAATATAATAATATAATATCA
1 ATTAATATAATAATA-AATATCA
64264789 ATTAAT-TAAATAATAAATAT-A
1 ATTAATAT-AATAATAAATATCA
*
64264810 ATGAATAT
1 ATTAATAT
64264818 CTATTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.23
22 7 0.27
23 13 0.50
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
ATTAATATAATAATAAATATCA
Found at i:64266543 original size:33 final size:33
Alignment explanation
Indices: 64266500--64266565 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
64266490 CTATATGTGA
*
64266500 TTACCATGTATCCTTAACGATTCTGAATGGTTC
1 TTACCATGTATCCTTAACGATTCTAAATGGTTC
*
64266533 TTACCGTGTATCCTTAACGATTCTAAATGGTTC
1 TTACCATGTATCCTTAACGATTCTAAATGGTTC
64266566 AATGGGCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (33 bp):
TTACCATGTATCCTTAACGATTCTAAATGGTTC
Found at i:64271900 original size:19 final size:19
Alignment explanation
Indices: 64271876--64271916 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
64271866 TTGAAAAGTC
64271876 GAGAAATT-TGAGGCTATGT
1 GAGAAATTATGAGGCTA-GT
64271895 GAGAAATTGATGAGGCTAGT
1 GAGAAATT-ATGAGGCTAGT
64271915 GA
1 GA
64271917 AAGCAAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 4 0.20
21 8 0.40
ACGTcount: A:0.34, C:0.05, G:0.34, T:0.27
Consensus pattern (19 bp):
GAGAAATTATGAGGCTAGT
Found at i:64272716 original size:24 final size:24
Alignment explanation
Indices: 64272684--64272732 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
64272674 AATCTAGCTA
64272684 GCCCGTACCTCCCATTTCAAAATT
1 GCCCGTACCTCCCATTTCAAAATT
64272708 GCCCGTACCTCCCATTTCAAAATT
1 GCCCGTACCTCCCATTTCAAAATT
64272732 G
1 G
64272733 TTAAAGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.37, G:0.10, T:0.29
Consensus pattern (24 bp):
GCCCGTACCTCCCATTTCAAAATT
Found at i:64273882 original size:40 final size:40
Alignment explanation
Indices: 64273827--64273905 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
64273817 TTTTAATTTG
64273827 ACTAAGTTATATCATTGAAAGTTCGAATGGTCGATATGGT
1 ACTAAGTTATATCATTGAAAGTTCGAATGGTCGATATGGT
64273867 ACTAAGTTATATCATTGAAAGTTCGAATGGTCGATATGG
1 ACTAAGTTATATCATTGAAAGTTCGAATGGTCGATATGG
64273906 AATATCTGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (40 bp):
ACTAAGTTATATCATTGAAAGTTCGAATGGTCGATATGGT
Found at i:64276225 original size:23 final size:24
Alignment explanation
Indices: 64276199--64276257 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
64276189 TTTATTTTCT
64276199 TTAATATAATATCT-TAA-TTTTAA
1 TTAATATAATAT-TATAAGTTTTAA
64276222 TTAATATAAT-TTATAATGTTTTAA
1 TTAATATAATATTATAA-GTTTTAA
64276246 TTAA-ATAATATT
1 TTAATATAATATT
64276258 TTTATAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.03
22 4 0.12
23 15 0.47
24 12 0.38
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTAATATAATATTATAAGTTTTAA
Found at i:64278110 original size:42 final size:40
Alignment explanation
Indices: 64278045--64278194 Score: 140
Period size: 42 Copynumber: 3.6 Consensus size: 40
64278035 TTTCACGAGT
* * *
64278045 TTCTGTTTAACTCATATGAGTTTCTGTTCAGCCCTATTAAGC
1 TTCTGTTTAACCCTTATGGGTTTCTGTTCAG-CCT-TTAAGC
* *
64278087 TGCTGTTTAACCCTGATGGGTTTCTGTTCAG-CTCTTACGAGC
1 TTCTGTTTAACCCTTATGGGTTTCTGTTCAGCCT-TTA--AGC
* * * *
64278129 TTTTGTTTAGCCCTTATGGGTTTCTGTTAAGCTCTTATGAGC
1 TTCTGTTTAACCCTTATGGGTTTCTGTTCAGC-CTT-TAAGC
*
64278171 TTCTGTTCAACCCTTATGGGTTTC
1 TTCTGTTTAACCCTTATGGGTTTC
64278195 CGTTTAGCTC
Statistics
Matches: 88, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
40 5 0.06
42 79 0.90
43 1 0.01
44 3 0.03
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.43
Consensus pattern (40 bp):
TTCTGTTTAACCCTTATGGGTTTCTGTTCAGCCTTTAAGC
Found at i:64278113 original size:21 final size:21
Alignment explanation
Indices: 64278089--64278200 Score: 84
Period size: 21 Copynumber: 5.3 Consensus size: 21
64278079 TATTAAGCTG
*
64278089 CTGTTTAACCCTGATGGGTTT
1 CTGTTTAACCCTTATGGGTTT
* * * * *
64278110 CTGTTCAGCTCTTACGAGCTTT
1 CTGTTTAACCCTTATG-GGTTT
*
64278132 -TGTTTAGCCCTTATGGGTTT
1 CTGTTTAACCCTTATGGGTTT
* * *
64278152 CTG-TTAAGCTCTTATGAGCTT
1 CTGTTTAA-CCCTTATGGGTTT
*
64278173 CTGTTCAACCCTTATGGGTTT
1 CTGTTTAACCCTTATGGGTTT
*
64278194 CCGTTTA
1 CTGTTTA
64278201 GCTCTCATGA
Statistics
Matches: 67, Mismatches: 20, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
20 7 0.10
21 53 0.79
22 7 0.10
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.44
Consensus pattern (21 bp):
CTGTTTAACCCTTATGGGTTT
Found at i:64278204 original size:42 final size:42
Alignment explanation
Indices: 64278084--64278221 Score: 177
Period size: 42 Copynumber: 3.3 Consensus size: 42
64278074 AGCCCTATTA
* * * * *
64278084 AGCTGCTGTTTAACCCTGATGGGTTTCTGTTCAGCTCTTACG
1 AGCTTCTGTTCAACCCTTATGGGTTTCTGTTAAGCTCTTATG
* * *
64278126 AGCTTTTGTTTAGCCCTTATGGGTTTCTGTTAAGCTCTTATG
1 AGCTTCTGTTCAACCCTTATGGGTTTCTGTTAAGCTCTTATG
* * *
64278168 AGCTTCTGTTCAACCCTTATGGGTTTCCGTTTAGCTCTCATG
1 AGCTTCTGTTCAACCCTTATGGGTTTCTGTTAAGCTCTTATG
64278210 AGCTTCTGTTCA
1 AGCTTCTGTTCA
64278222 GCTTTCGAGC
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.14, C:0.22, G:0.21, T:0.42
Consensus pattern (42 bp):
AGCTTCTGTTCAACCCTTATGGGTTTCTGTTAAGCTCTTATG
Found at i:64279465 original size:75 final size:75
Alignment explanation
Indices: 64279357--64279516 Score: 302
Period size: 75 Copynumber: 2.1 Consensus size: 75
64279347 TTAGGTGACA
64279357 TGGCCGTGTGTCCCCTATATCTTAAATTGGCACAAAACAGAATGCTCACACAGCCTAGCACACGG
1 TGGCCGTGTGTCCCCTATATCTTAAATTGGCACAAAACAGAATGCTCACACAGCCTAGCACACGG
64279422 GCGTGTGGCT
66 GCGTGTGGCT
* *
64279432 TGGCCGTGTGTCCCCTATATCTTAAATTTGCACAAAAGAGAATGCTCACACAGCCTAGCACACGG
1 TGGCCGTGTGTCCCCTATATCTTAAATTGGCACAAAACAGAATGCTCACACAGCCTAGCACACGG
64279497 GCGTGTGGCT
66 GCGTGTGGCT
64279507 TGGCCGTGTG
1 TGGCCGTGTG
64279517 ACCTAAGTTA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
75 83 1.00
ACGTcount: A:0.24, C:0.27, G:0.26, T:0.24
Consensus pattern (75 bp):
TGGCCGTGTGTCCCCTATATCTTAAATTGGCACAAAACAGAATGCTCACACAGCCTAGCACACGG
GCGTGTGGCT
Found at i:64281124 original size:26 final size:27
Alignment explanation
Indices: 64281076--64281129 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
64281066 AAAGGAAATA
*
64281076 AAGTGACAAAAAATAGAATTTTGAGTT
1 AAGTGAAAAAAAATAGAATTTTGAGTT
64281103 AAGTGAAAAAAAATAGAA-TTTGAGTT
1 AAGTGAAAAAAAATAGAATTTTGAGTT
64281129 A
1 A
64281130 TGTCAACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.52, C:0.02, G:0.19, T:0.28
Consensus pattern (27 bp):
AAGTGAAAAAAAATAGAATTTTGAGTT
Found at i:64281140 original size:26 final size:27
Alignment explanation
Indices: 64281083--64281140 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
64281073 ATAAAGTGAC
*
64281083 AAAAAATAGAATTTTGAGTTAAGTGAA
1 AAAAAATAGAATTTTGAGTTAAGTCAA
*
64281110 AAAAAATAGAA-TTTGAGTTATGTCAA
1 AAAAAATAGAATTTTGAGTTAAGTCAA
*
64281136 CAAAA
1 AAAAA
64281141 TCTGTTTGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.53, C:0.03, G:0.16, T:0.28
Consensus pattern (27 bp):
AAAAAATAGAATTTTGAGTTAAGTCAA
Found at i:64281140 original size:27 final size:28
Alignment explanation
Indices: 64281081--64281140 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
64281071 AAATAAAGTG
*
64281081 ACAAAAAATAGAATTTTGAGTTAAGTGA
1 ACAAAAAATAGAATTTTGAGTTAAGTCA
*
64281109 A-AAAAAATAGAA-TTTGAGTTATGTCA
1 ACAAAAAATAGAATTTTGAGTTAAGTCA
64281135 ACAAAA
1 ACAAAA
64281141 TCTGTTTGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 13 0.45
27 15 0.52
28 1 0.03
ACGTcount: A:0.53, C:0.05, G:0.15, T:0.27
Consensus pattern (28 bp):
ACAAAAAATAGAATTTTGAGTTAAGTCA
Found at i:64282233 original size:21 final size:21
Alignment explanation
Indices: 64282209--64282379 Score: 150
Period size: 21 Copynumber: 8.2 Consensus size: 21
64282199 TCATACGAGT
64282209 TTCTGTTCAGCTC-TATTGAGC
1 TTCTGTTCAGCTCTTA-TGAGC
* * * * * *
64282230 TTCTGTTTAACCCTGATGGGT
1 TTCTGTTCAGCTCTTATGAGC
*
64282251 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTATGAGC
* * *
64282272 TTCTGTTTAGCCCTTATGGGC
1 TTCTGTTCAGCTCTTATGAGC
*
64282293 TTCTGTTAAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTATGAGC
* * * *
64282314 TTCTGTTCAACCCTTATGGGT
1 TTCTGTTCAGCTCTTATGAGC
* *
64282335 TTCTGTTTAGCTCTCATGAGC
1 TTCTGTTCAGCTCTTATGAGC
*
64282356 TTCTGTTCAGCT-TT-CGAGC
1 TTCTGTTCAGCTCTTATGAGC
64282375 TTCTG
1 TTCTG
64282380 CTAACAATGT
Statistics
Matches: 115, Mismatches: 34, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
19 9 0.08
20 1 0.01
21 104 0.90
22 1 0.01
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTATGAGC
Found at i:64282235 original size:42 final size:42
Alignment explanation
Indices: 64282188--64282362 Score: 226
Period size: 42 Copynumber: 4.2 Consensus size: 42
64282178 TTTCACGAGT
* * * *
64282188 TTCTGTTTAACTCATACGAGTTTCTGTTCAGCTC-TATTGAGC
1 TTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTA-TGAGC
* *
64282230 TTCTGTTTAACCCTGATGGGTTTCTGTTCAGCTCTTACGAGC
1 TTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
* * *
64282272 TTCTGTTTAGCCCTTATGGGCTTCTGTTAAGCTCTTATGAGC
1 TTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
* * *
64282314 TTCTGTTCAACCCTTATGGGTTTCTGTTTAGCTCTCATGAGC
1 TTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
64282356 TTCTGTT
1 TTCTGTT
64282363 CAGCTTTCGA
Statistics
Matches: 116, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 114 0.98
43 2 0.02
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.43
Consensus pattern (42 bp):
TTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGC
Found at i:64282270 original size:63 final size:64
Alignment explanation
Indices: 64282184--64282362 Score: 186
Period size: 63 Copynumber: 2.8 Consensus size: 64
64282174 TAGCTTTCAC
* * *
64282184 GAGTTTCTGTTTAACTCATACGAGTTTCTGTTCAGCTCTATTGAGCTTCTGTTTAA-CCCTGAT
1 GAGTTTCTGTTCAACTCTTACGAGTTTCTGTTTAGCTCTATTGAGCTTCTGTTTAAGCCCTGAT
* * * * * * *
64282247 GGGTTTCTGTTCAGCTCTTACGAGCTTCTGTTTAGCCCT-TATGGGCTTCTG-TTAAGCTCTTAT
1 GAGTTTCTGTTCAACTCTTACGAGTTTCTGTTTAGCTCTAT-TGAGCTTCTGTTTAAGCCCTGAT
* * * *
64282310 GAGCTTCTGTTCAACCCTTATGGGTTTCTGTTTAGCTCTCA-TGAGCTTCTGTT
1 GAGTTTCTGTTCAACTCTTACGAGTTTCTGTTTAGCTCT-ATTGAGCTTCTGTT
64282363 CAGCTTTCGA
Statistics
Matches: 92, Mismatches: 19, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
62 5 0.05
63 86 0.93
64 1 0.01
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (64 bp):
GAGTTTCTGTTCAACTCTTACGAGTTTCTGTTTAGCTCTATTGAGCTTCTGTTTAAGCCCTGAT
Found at i:64282364 original size:42 final size:42
Alignment explanation
Indices: 64282165--64282362 Score: 218
Period size: 42 Copynumber: 4.7 Consensus size: 42
64282155 TTTGTGTTTA
* * * * * * * * *
64282165 GTTTTTGTTTAGCTTTCACGAGTTTCTGTTTAACTCATACGA
1 GTTTCTGTTCAGCTCTCATGAGCTTCTGTTTAACCCTTATGG
*
64282207 GTTTCTGTTCAGCTCT-ATTGAGCTTCTGTTTAACCCTGATGG
1 GTTTCTGTTCAGCTCTCA-TGAGCTTCTGTTTAACCCTTATGG
* * *
64282249 GTTTCTGTTCAGCTCTTACGAGCTTCTGTTTAGCCCTTATGG
1 GTTTCTGTTCAGCTCTCATGAGCTTCTGTTTAACCCTTATGG
* * * *
64282291 GCTTCTGTTAAGCTCTTATGAGCTTCTGTTCAACCCTTATGG
1 GTTTCTGTTCAGCTCTCATGAGCTTCTGTTTAACCCTTATGG
*
64282333 GTTTCTGTTTAGCTCTCATGAGCTTCTGTT
1 GTTTCTGTTCAGCTCTCATGAGCTTCTGTT
64282363 CAGCTTTCGA
Statistics
Matches: 133, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
41 1 0.01
42 131 0.98
43 1 0.01
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (42 bp):
GTTTCTGTTCAGCTCTCATGAGCTTCTGTTTAACCCTTATGG
Found at i:64282906 original size:27 final size:27
Alignment explanation
Indices: 64282852--64282908 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
64282842 TGTGGCTATG
* *
64282852 GTTGAATGATATGTTTATGATTGCTGT
1 GTTGAATGATATGTCTATGATAGCTGT
*
64282879 GTTGAATGATCTGTCTATGACTAG-TGT
1 GTTGAATGATATGTCTATGA-TAGCTGT
64282906 GTT
1 GTT
64282909 ATGCATATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.21, C:0.07, G:0.26, T:0.46
Consensus pattern (27 bp):
GTTGAATGATATGTCTATGATAGCTGT
Found at i:64283895 original size:18 final size:18
Alignment explanation
Indices: 64283874--64283909 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
64283864 GCTATATGAT
64283874 ATGAAATGACTATTATTC
1 ATGAAATGACTATTATTC
64283892 ATGAAATGACTATTATTC
1 ATGAAATGACTATTATTC
64283910 GATCTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (18 bp):
ATGAAATGACTATTATTC
Found at i:64285663 original size:47 final size:49
Alignment explanation
Indices: 64285594--64285770 Score: 206
Period size: 47 Copynumber: 3.7 Consensus size: 49
64285584 ATTTGTGTGT
64285594 CAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCACATTAT-GAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATCGAGAGC
* * * * *
64285641 CAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCGATT-TCGATAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATCGAGAGC
*
64285690 CAGTGTAAGACCATGTCTGGGACATGGCATC-G--AC-TTGATGGATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-ATCGA-GAGC
* *
64285737 CAGTGTAAGACCATGTTTGAGACATGGCATCGGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC
64285771 ATTATACCCT
Statistics
Matches: 110, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
44 2 0.02
46 4 0.04
47 56 0.51
48 11 0.10
49 37 0.34
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATCGAGAGC
Found at i:64300483 original size:31 final size:31
Alignment explanation
Indices: 64300447--64300508 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
64300437 AAATTTTACA
64300447 GCACATGTATTCATAAAATTTCAGAATTTTT
1 GCACATGTATTCATAAAATTTCAGAATTTTT
64300478 GCACATGTATTCATAAAATTTCAGAATTTTT
1 GCACATGTATTCATAAAATTTCAGAATTTTT
64300509 CATCAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (31 bp):
GCACATGTATTCATAAAATTTCAGAATTTTT
Found at i:64300528 original size:20 final size:20
Alignment explanation
Indices: 64300487--64300531 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
64300477 TGCACATGTA
* *
64300487 TTCATAAAATTTCAGAATTT
1 TTCATAAAATTTCACAACTT
64300507 TTCATCAAAATTT-ACAACTT
1 TTCAT-AAAATTTCACAACTT
64300527 TTCAT
1 TTCAT
64300532 TTTAGTCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.38, C:0.16, G:0.02, T:0.44
Consensus pattern (20 bp):
TTCATAAAATTTCACAACTT
Found at i:64306570 original size:16 final size:16
Alignment explanation
Indices: 64306549--64306579 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64306539 ATTAGATCGA
*
64306549 AAAAATTATTTAATTG
1 AAAAATTAATTAATTG
64306565 AAAAATTAATTAATT
1 AAAAATTAATTAATT
64306580 TACATTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AAAAATTAATTAATTG
Found at i:64307403 original size:19 final size:19
Alignment explanation
Indices: 64307379--64307417 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
64307369 TATTTTATTG
64307379 TTATTGTTTGGATATTGTA
1 TTATTGTTTGGATATTGTA
64307398 TTATTGTTTGGATATTGTA
1 TTATTGTTTGGATATTGTA
64307417 T
1 T
64307418 AACTCTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (19 bp):
TTATTGTTTGGATATTGTA
Found at i:64310464 original size:27 final size:27
Alignment explanation
Indices: 64310434--64310574 Score: 151
Period size: 27 Copynumber: 5.2 Consensus size: 27
64310424 ACAAAATTTT
* * *
64310434 TTCTTTCAAAGTTCACTGCAAAGGTTA
1 TTCTTTCAGAGTTCGCTACAAAGGTTA
* * *
64310461 TTCTTTTAGAGTTCG-TGACAAAGGCTG
1 TTCTTTCAGAGTTCGCT-ACAAAGGTTA
* * *
64310488 TTCTTTCAGAGTTCGCCATAGAGGTTA
1 TTCTTTCAGAGTTCGCTACAAAGGTTA
64310515 TTCTTTCAGAGCTT-GCTACAAAGGTTA
1 TTCTTTCAGAG-TTCGCTACAAAGGTTA
* *
64310542 TTCTTTCAGAGTTCGCCACAAAGGCTA
1 TTCTTTCAGAGTTCGCTACAAAGGTTA
64310569 TTCTTT
1 TTCTTT
64310575 GTTTTCATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
26 3 0.03
27 88 0.95
28 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (27 bp):
TTCTTTCAGAGTTCGCTACAAAGGTTA
Found at i:64315282 original size:21 final size:22
Alignment explanation
Indices: 64315256--64315296 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
64315246 CACTTGACAC
64315256 AGGGGC-ACACGCCCATGTGGG
1 AGGGGCAACACGCCCATGTGGG
*
64315277 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCATGTG
64315297 ACCAATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.29, G:0.41, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCATGTGGG
Found at i:64316306 original size:47 final size:50
Alignment explanation
Indices: 64316235--64316367 Score: 175
Period size: 47 Copynumber: 2.7 Consensus size: 50
64316225 AGGTATGATA
*
64316235 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCA-TATC-TCAAGT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATTATCATCAAGT
* * *
64316283 -TGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATTGTCATCAAGT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATTATCATCAAGT
* * *
64316331 CCGACGCCATGTCCCAGACATGTTCTTACACTAGCTC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
64316368 TCGCATATTC
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
46 1 0.01
47 35 0.49
48 6 0.08
49 30 0.42
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (50 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATTATCATCAAGT
Found at i:64319816 original size:3 final size:3
Alignment explanation
Indices: 64319808--64319843 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
64319798 AATTAATCTC
64319808 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
64319844 TTGGATTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:64328395 original size:21 final size:20
Alignment explanation
Indices: 64328371--64328415 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
64328361 TAACTCAAGG
64328371 GAAACAATATTAAAATCGAGT
1 GAAACAAT-TTAAAATCGAGT
* * *
64328392 GAAACAGTTTTAAATCGATT
1 GAAACAATTTAAAATCGAGT
64328412 GAAA
1 GAAA
64328416 ACTTTTAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.27
Consensus pattern (20 bp):
GAAACAATTTAAAATCGAGT
Found at i:64334135 original size:16 final size:16
Alignment explanation
Indices: 64334104--64334151 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
64334094 GAATTATTTT
64334104 TTAATAATAAATTATA
1 TTAATAATAAATTATA
64334120 TTAATTAATAAA-TATA
1 TTAA-TAATAAATTATA
*
64334136 ATAA-AA-AAATT-TA
1 TTAATAATAAATTATA
64334149 TTA
1 TTA
64334152 TCCATGTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 7 0.25
14 3 0.11
16 11 0.39
17 7 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAATAATAAATTATA
Found at i:64335005 original size:52 final size:50
Alignment explanation
Indices: 64334911--64335013 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 50
64334901 ACAAATTTAG
* * *
64334911 CTCTCAACTTTTACATATATATCAATTTACTCATAATTTTAAAAAAATTAA
1 CTCTCAAATTTTACAAATATATCAATTTACTCA-AATCTTAAAAAAATTAA
*
64334962 CTCTCAAATTTTACAAATATTTCTAATTTGATCTC-AATCTTAAAAAAATTAA
1 CTCTCAAATTTTACAAATATATC-AATTT-A-CTCAAATCTTAAAAAAATTAA
64335014 AAAATATATT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 20 0.44
52 21 0.47
53 1 0.02
54 3 0.07
ACGTcount: A:0.43, C:0.16, G:0.01, T:0.41
Consensus pattern (50 bp):
CTCTCAAATTTTACAAATATATCAATTTACTCAAATCTTAAAAAAATTAA
Found at i:64344664 original size:21 final size:21
Alignment explanation
Indices: 64344638--64344683 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
64344628 TGGTATGTGT
64344638 TTTGTACAGGAAATGGCATGA
1 TTTGTACAGGAAATGGCATGA
* * * *
64344659 TTTGTATATGAATTGGCATGT
1 TTTGTACAGGAAATGGCATGA
64344680 TTTG
1 TTTG
64344684 GTTGCCTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (21 bp):
TTTGTACAGGAAATGGCATGA
Found at i:64348725 original size:28 final size:29
Alignment explanation
Indices: 64348694--64348804 Score: 147
Period size: 28 Copynumber: 3.8 Consensus size: 29
64348684 GACATCAAAT
64348694 ATGGA-ACTTAGTGTGCGAAATATTGAGA
1 ATGGACACTTAGTGTGCGAAATATTGAGA
64348722 ATGGCACTTACTTAGTGTGCGAAATATTGAGA
1 ATGG-AC--ACTTAGTGTGCGAAATATTGAGA
* *
64348754 ATGG-CACTTAGTGTGCTAGATATTGAGA
1 ATGGACACTTAGTGTGCGAAATATTGAGA
*
64348782 AT-GACACTTAGTGTACGAAATAT
1 ATGGACACTTAGTGTGCGAAATAT
64348805 CGAATGATTT
Statistics
Matches: 73, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
27 1 0.01
28 43 0.59
29 1 0.01
30 1 0.01
32 27 0.37
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (29 bp):
ATGGACACTTAGTGTGCGAAATATTGAGA
Found at i:64348739 original size:32 final size:32
Alignment explanation
Indices: 64348699--64348791 Score: 131
Period size: 32 Copynumber: 3.0 Consensus size: 32
64348689 CAAATATGGA
64348699 ACTTAGTGTGCGAAATATTGAGAATGGCACTT
1 ACTTAGTGTGCGAAATATTGAGAATGGCACTT
64348731 ACTTAGTGTGCGAAATATTGAGAATGG--C--
1 ACTTAGTGTGCGAAATATTGAGAATGGCACTT
* * *
64348759 ACTTAGTGTGCTAGATATTGAGAATGACACTT
1 ACTTAGTGTGCGAAATATTGAGAATGGCACTT
64348791 A
1 A
64348792 GTGTACGAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
28 24 0.44
30 2 0.04
32 28 0.52
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (32 bp):
ACTTAGTGTGCGAAATATTGAGAATGGCACTT
Found at i:64349056 original size:17 final size:17
Alignment explanation
Indices: 64349031--64349069 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
64349021 AGATATGAAT
*
64349031 AATAGTTGTTTAAACTA
1 AATATTTGTTTAAACTA
64349048 AATATTTGTTTAAACTA
1 AATATTTGTTTAAACTA
64349065 AATAT
1 AATAT
64349070 ACATATGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (17 bp):
AATATTTGTTTAAACTA
Found at i:64359761 original size:25 final size:25
Alignment explanation
Indices: 64359733--64359782 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
64359723 ATTTGAAATG
64359733 TTAGTTGATATAAAGTGTTCTATTA
1 TTAGTTGATATAAAGTGTTCTATTA
64359758 TTAGTTGATATAAAGTGTTCTATTA
1 TTAGTTGATATAAAGTGTTCTATTA
64359783 AGTGGTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (25 bp):
TTAGTTGATATAAAGTGTTCTATTA
Found at i:64364262 original size:28 final size:28
Alignment explanation
Indices: 64364222--64364285 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
64364212 TAGGAAGTAG
*
64364222 TTGGGCCTGATGGGCCATATGAACGTGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
*
64364250 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
*
64364278 TTGAGCCT
1 TTGGGCCT
64364286 AAAGGGGCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.20, C:0.19, G:0.36, T:0.25
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACGAGA
Found at i:64364640 original size:27 final size:27
Alignment explanation
Indices: 64364602--64364862 Score: 303
Period size: 27 Copynumber: 9.7 Consensus size: 27
64364592 TAATAAAGAG
* *
64364602 AAATTACTGAAATACCCCCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
64364629 AAATTACTGAAATACCCTCGATTTGAA
1 AAATTACTGAAATACCCTCGATTTGTA
*
64364656 AAATTACTGAAATACCCTTGATTTTGTA
1 AAATTACTGAAATACCCTCGA-TTTGTA
*
64364684 AAATTATTGAAATACCCTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
64364710 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
64364737 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
64364764 AAATTA-TCAAAATACCCTCAATTTTTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
64364791 AAATTACTGAAACACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * * *
64364818 AAATTACCGACATACCCTTG-TAGTATA
1 AAATTACTGAAATACCCTCGAT-TTGTA
*
64364845 AAATTACCGAAATACCCT
1 AAATTACTGAAATACCCT
64364863 TGTAGTGTAA
Statistics
Matches: 201, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
26 25 0.12
27 151 0.75
28 25 0.12
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:64364847 original size:54 final size:54
Alignment explanation
Indices: 64364624--64364907 Score: 252
Period size: 54 Copynumber: 5.3 Consensus size: 54
64364614 TACCCCCAAT
* * *
64364624 TTGTAAAATTACTGAAATACCCTCGATTTGAAAAATTACTGAAATACCCTTGATT
1 TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTG-TA
* ** *
64364679 TTGTAAAATTATTGAAATACCCTCGA-TTGTAAAATTACTAAAATACCCTCG-A
1 TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGTA
* * * * **
64364731 TTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCAAAATACCC-TCAA
1 -TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGTA
* * * *
64364785 TTTTTAAAATTACTGAAACACCCTTGATTTGTAAAATTACCGACATACCCTTGTA
1 -TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGTA
* * * * * * * *
64364840 GTATAAAATTACCGAAATACCCTTG-TAGTGTAAAATGACCGACATACCCCTGTA
1 TTGTAAAATTACTGAAATACCCTCGAT-TTGTAAAATTACCGAAATACCCTTGTA
** *
64364894 GGGTAAAATGACTG
1 TTGTAAAATTACTG
64364908 TTTTGCCCTT
Statistics
Matches: 193, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
53 24 0.12
54 142 0.74
55 27 0.14
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (54 bp):
TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGTA
Found at i:64364863 original size:27 final size:27
Alignment explanation
Indices: 64364625--64364902 Score: 163
Period size: 27 Copynumber: 10.3 Consensus size: 27
64364615 ACCCCCAATT
* * *
64364625 TGTAAAATTACTGAAATACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * **
64364652 TGAAAAATTACTGAAATACCCTTGATTT
1 TGTAAAATTACCGAAATACCCTTG-TAG
** * *
64364680 TGTAAAATTATTGAAATACCCTCG-AT
1 TGTAAAATTACCGAAATACCCTTGTAG
** * *
64364706 TGTAAAATTACTAAAATACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * *
64364733 TGTAAAATTACCGAAACACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * ** *
64364760 TGTAAAATTATCAAAATACCC-TCAATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * * *
64364787 TTTAAAATTACTGAAACACCCTTG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
*
64364814 TGTAAAATTACCGACATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
64364841 TATAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * *
64364868 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
64364895 GGTAAAAT
1 TGTAAAAT
64364903 GACTGTTTTG
Statistics
Matches: 210, Mismatches: 35, Indels: 12
0.82 0.14 0.05
Matches are distributed among these distances:
26 24 0.11
27 162 0.77
28 24 0.11
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:64372261 original size:43 final size:43
Alignment explanation
Indices: 64372195--64372515 Score: 529
Period size: 43 Copynumber: 7.5 Consensus size: 43
64372185 TATTATAATT
* * **
64372195 GGGCCTTCGTACCTAGCATGCTTCGTGCCGGTGAACTGTATTC
1 GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
*
64372238 GGGCCTTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTGTATTC
1 GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
*
64372281 GAGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
1 GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
*
64372324 GGGCCTTCGTGCCTAGCAGGCTTCGTG-CTGTGATGTGTATTC
1 GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
* *
64372366 GGG-TTTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTGTATTC
1 GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
* *
64372408 GGGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATGTGTATTT
1 GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
64372451 GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
1 GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
64372494 GGGCCTTCGTGCCTAGCAGGCT
1 GGGCCTTCGTGCCTAGCAGGCT
64372516 ATGATGCTAG
Statistics
Matches: 258, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
41 21 0.08
42 34 0.13
43 203 0.79
ACGTcount: A:0.10, C:0.25, G:0.33, T:0.32
Consensus pattern (43 bp):
GGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTC
Found at i:64372413 original size:170 final size:170
Alignment explanation
Indices: 64372200--64372515 Score: 553
Period size: 170 Copynumber: 1.9 Consensus size: 170
64372190 TAATTGGGCC
*
64372200 TTCGTACCTAGCATGCTTCGTGCCGGTGAACTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCT-T
1 TTCGTACCTAGCAGGCTTCGTGCCGGTGAACTGTATTCGGGCCTTCGTGCCTAGCAGGCTT-TGT
64372264 GCCGGTGATGTGTATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCC
65 GCCGGTGATGTGTATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCC
64372329 TTCGTGCCTAGCAGGCTTCGTGCTGTGATGTGTATTCGGGT
130 TTCGTGCCTAGCAGGCTTCGTGCTGTGATGTGTATTCGGGT
* * **
64372370 TTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTG
1 TTCGTACCTAGCAGGCTTCGTGCCGGTGAACTGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTG
* *
64372435 CCGGTGATGTGTATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCT
66 CCGGTGATGTGTATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCT
64372500 TCGTGCCTAGCAGGCT
131 TCGTGCCTAGCAGGCT
64372516 ATGATGCTAG
Statistics
Matches: 138, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
169 1 0.01
170 137 0.99
ACGTcount: A:0.10, C:0.25, G:0.33, T:0.32
Consensus pattern (170 bp):
TTCGTACCTAGCAGGCTTCGTGCCGGTGAACTGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTG
CCGGTGATGTGTATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCT
TCGTGCCTAGCAGGCTTCGTGCTGTGATGTGTATTCGGGT
Found at i:64372553 original size:45 final size:45
Alignment explanation
Indices: 64372233--64372593 Score: 152
Period size: 43 Copynumber: 8.3 Consensus size: 45
64372223 CGGTGAACTG
* ** * *
64372233 TATTCGGGCCTTCGTGCCTAGCAGGCT-TCTTGCCGGTGATG-T-G
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGA-GATAC
* * ** * *
64372276 TATTCGAGCCTTCGTGCCTAGCAGGCT-TCGTGCCGGTGATG-T-G
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGA-GATAC
* ** * *
64372319 TATTCGGGCCTTCGTGCCTAGCAGGCT-TCGTG-CTGTGATG-T-G
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGA-GATAC
* * ** * *
64372361 TATTCGGG-TTTCGTGCCTAGCAGGCT-TCTTGCCGGTGATG-T-G
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGA-GATAC
* ** * *
64372403 TATTCGGGCCTTCGTGCCTAGCAGGCT-TTGTGCCGGTGATG-T-G
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGA-GATAC
* * ** * *
64372446 TATTTGGGCCTTCGTGCCTAGCAGGCT-TCGTGCCGGTGATG-T-G
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGA-GATAC
* * *
64372489 TATTCGGGCCTTCGTGCCTAGCAGGCTATGATGCTAGT-AGAATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAG-ATAC
* *
64372534 TATTCGGGCCTTTGAGCCTAGCATGCTATAATGCCAGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGATAC
* *
64372579 TATTCAGGCTTTCGA
1 TATTCGGGCCTTCGA
64372594 TAGCGGGCCT
Statistics
Matches: 285, Mismatches: 26, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
41 21 0.07
42 35 0.12
43 171 0.60
44 7 0.02
45 49 0.17
46 2 0.01
ACGTcount: A:0.14, C:0.23, G:0.31, T:0.32
Consensus pattern (45 bp):
TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGATAC
Found at i:64375615 original size:24 final size:24
Alignment explanation
Indices: 64375588--64375637 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
64375578 TTCAAGTGGT
* *
64375588 TTTCGGATACATACAAGGGGGACA
1 TTTCAGATACATACAAGGGAGACA
*
64375612 TTTCAGTTACATACAAGGGAGACA
1 TTTCAGATACATACAAGGGAGACA
64375636 TT
1 TT
64375638 ATACATCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (24 bp):
TTTCAGATACATACAAGGGAGACA
Found at i:64379282 original size:21 final size:23
Alignment explanation
Indices: 64379258--64379309 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
64379248 AATGTGTTTT
*
64379258 TGTTTGATAAG-TT-TTTAAATG
1 TGTTTAATAAGTTTGTTTAAATG
* *
64379279 TGTTTAATATGTTTGTTTTAATG
1 TGTTTAATAAGTTTGTTTAAATG
64379302 TGTTTAAT
1 TGTTTAAT
64379310 TGCAGGTGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 9 0.35
22 2 0.08
23 15 0.58
ACGTcount: A:0.25, C:0.00, G:0.17, T:0.58
Consensus pattern (23 bp):
TGTTTAATAAGTTTGTTTAAATG
Found at i:64379413 original size:24 final size:24
Alignment explanation
Indices: 64379386--64379434 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
64379376 TCCAAGTGGT
*
64379386 TTTCGGTTACATACAAGGGGGACA
1 TTTCGGTTACATACAAGGGAGACA
64379410 TTTCGGTTACATACAAGGGAGACA
1 TTTCGGTTACATACAAGGGAGACA
64379434 T
1 T
64379435 CATACATCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (24 bp):
TTTCGGTTACATACAAGGGAGACA
Found at i:64385235 original size:40 final size:40
Alignment explanation
Indices: 64385152--64385374 Score: 213
Period size: 40 Copynumber: 5.6 Consensus size: 40
64385142 TTGAATGCTG
* * * * *
64385152 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* * *
64385192 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
* **
64385232 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
**
64385272 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGA-ATTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-TACTAAA
* * *
64385312 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* *
64385351 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
64385375 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 34 0.21
40 114 0.72
41 10 0.06
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:64385289 original size:80 final size:79
Alignment explanation
Indices: 64385152--64385376 Score: 242
Period size: 80 Copynumber: 2.8 Consensus size: 79
64385142 TTGAATGCTG
* * * * * *
64385152 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTG-ATAAATCCGGGTTAAG-TCCCGAAGGCAT
64385215 TTGTGCGAGA-TACTAAA
63 TTGTGCGA-ATTACTAAA
* *
64385232 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTT
**
64385297 GTGCGAATTGTTAAA
65 GTGCGAATTACTAAA
* * * *
64385312 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTT-ACTAAATCCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGA-TAAATCCGGGTTAAGTCCCGAAGGCATTT
64385376 G
65 G
64385377 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
79 37 0.30
80 81 0.65
81 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAATTACTAAA
Found at i:64385394 original size:79 final size:80
Alignment explanation
Indices: 64385227--64385409 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
64385217 GTGCGAGATA
** *
64385227 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
** **
64385292 CATTCGTGCGAATTG
66 CATTCGAACGAAGAG
* * * *
64385307 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
* *
64385371 CATTTGAACGAGGAG
66 CATTCGAACGAAGAG
* *
64385386 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
64385410 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
CATTCGAACGAAGAG
Found at i:64385394 original size:119 final size:120
Alignment explanation
Indices: 64385152--64385409 Score: 281
Period size: 119 Copynumber: 2.2 Consensus size: 120
64385142 TTGAATGCTG
* * * * *
64385152 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCTTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCATT
* ** ** *
64385217 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
* * * *
64385272 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTG-TTAAATCCGGGTTATG-TCCCGAAGG-CA
1 TCCGGGTTAAGTCCCGAAGGC-TTCGTGCGAAGTGAATAAATCCGGATTAAGAT-CCGAAGGCCA
* * * * *
64385334 TTGTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATA
64 TTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
*
64385391 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
64385410 TACGTGATTT
Statistics
Matches: 115, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
118 15 0.13
119 51 0.44
120 39 0.34
121 10 0.09
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTCGTGCGAAGTGAATAAATCCGGATTAAGATCCGAAGGCCATT
GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAA
Found at i:64392306 original size:34 final size:34
Alignment explanation
Indices: 64392263--64392332 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
64392253 AATAAATGTG
*
64392263 AAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 AAAGTGTATATATATGTGATAAGGCCGAATGGCC
64392297 AAAGTGTATATATATGTGATAAGGCCGAATGGCC
1 AAAGTGTATATATATGTGATAAGGCCGAATGGCC
64392331 AA
1 AA
64392333 TGTGATGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.27
Consensus pattern (34 bp):
AAAGTGTATATATATGTGATAAGGCCGAATGGCC
Found at i:64392353 original size:49 final size:49
Alignment explanation
Indices: 64392297--64392701 Score: 614
Period size: 47 Copynumber: 8.5 Consensus size: 49
64392287 CCTAATGGCC
64392297 AAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 AAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* *
64392346 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
64392395 AAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 AAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
64392442 AAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 AAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* *
64392491 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* * *
64392540 AAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
1 AAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* *
64392587 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* * * * *
64392634 AAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTG
1 AAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
64392681 AAAGTGTATA-A-ATGTGATAAG
1 AAAGTGTATATATATGTGATAAG
64392702 TCCCGAAGGG
Statistics
Matches: 335, Mismatches: 17, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
47 185 0.55
48 1 0.00
49 149 0.44
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
Found at i:64392413 original size:96 final size:94
Alignment explanation
Indices: 64392305--64392701 Score: 605
Period size: 96 Copynumber: 4.2 Consensus size: 94
64392295 CCAAAGTGTA
64392305 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
* *
64392370 CCTAATGGCCGATGTGATGAATGTGAAAGTG
64 CCGAATGGCCAATGTGATGAATGTGAAAGTG
64392401 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
64392466 CCGAATGGCCAATGTGATGAATGTGAAAGTG
64 CCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
64392497 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 --TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* * *
64392562 CCTAATAGCCGATGTGATGAATGTGAAAGTG
64 CCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * *
64392593 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * *
64392658 GAGTGGCCAACGTGATGGATGTGAAAGTG
66 GAATGGCCAATGTGATGAATGTGAAAGTG
*
64392687 TATAAATGTGATAAG
1 TATATATGTGATAAG
64392702 TCCCGAAGGG
Statistics
Matches: 283, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
94 100 0.35
96 138 0.49
98 45 0.16
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (94 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
GAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:64392459 original size:145 final size:145
Alignment explanation
Indices: 64392297--64392701 Score: 665
Period size: 145 Copynumber: 2.8 Consensus size: 145
64392287 CCTAATGGCC
64392297 AAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATG
1 AAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATG
*
64392362 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
66 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCC
64392427 AATGTGATGAATGTG
131 AATGTGATGAATGTG
64392442 AAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATG
1 AAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATG
*
64392507 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
66 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCC
*
64392572 GATGTGATGAATGTG
131 AATGTGATGAATGTG
* *
64392587 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
1 AAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATG
* * * * * * * *
64392648 TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
64392702 TCCCGAAGGG
Statistics
Matches: 247, Mismatches: 13, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
141 54 0.22
143 45 0.18
145 148 0.60
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (145 bp):
AAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATG
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCC
AATGTGATGAATGTG
Found at i:64398376 original size:27 final size:27
Alignment explanation
Indices: 64398345--64398522 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
64398335 TAAATTGTAC
64398345 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
64398372 TGCACTAAGTGTGCGAAATGAAC-ATG-
1 AGCACTAAGTGTGCGATTTG-ACTATGT
* * *
64398398 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
64398426 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
64398454 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
64398481 AGCACTAACTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
64398508 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
64398523 GACTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.02
27 101 0.79
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:64398513 original size:82 final size:81
Alignment explanation
Indices: 64398342--64398522 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 81
64398332 GATTAAATTG
*
64398342 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAACATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
*
64398407 GTGTGCGAATTGACCA
66 CTGTGCGAATTGACCA
* * ** *
64398423 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACATGATGCAC
* **
64398486 TAACTGTGCGAGTTGATTA
63 TAACTGTGCGAATTGACCA
* *
64398505 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
64398523 GACTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 17 0.20
82 62 0.75
83 1 0.01
84 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACATGATGCACTAA
CTGTGCGAATTGACCA
Found at i:64404113 original size:3 final size:3
Alignment explanation
Indices: 64404105--64404152 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
64404095 CGTTCATTTA
* *
64404105 TTC TTC TTC TTC TTC TTC TTAC -TA TTC TTC TTC TTTC TTC TCC TTC
1 TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC TTC -TTC TTC TTC TTC
64404151 TT
1 TT
64404153 TTTGTTTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
3 34 0.89
4 4 0.11
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:64408115 original size:38 final size:38
Alignment explanation
Indices: 64408068--64408327 Score: 268
Period size: 38 Copynumber: 6.8 Consensus size: 38
64408058 TGAAATACAG
*
64408068 AATATACTGAATGTTGCTCAATCGAGAAAAATCTACTA
1 AATACACTGAATGTTGCTCAATCGAGAAAAATCTACTA
* * *
64408106 AACACACTGAATGTTGCTCAATCGAGCAAAATCTACTG
1 AATACACTGAATGTTGCTCAATCGAGAAAAATCTACTA
* * * **
64408144 AACACATTGAATGTTGCTCAATCGAGCAAAATCTACCG
1 AATACACTGAATGTTGCTCAATCGAGAAAAATCTACTA
* *
64408182 AATATACTAAATGTTGCTCAATCGAGAAAAATCTACTA
1 AATACACTGAATGTTGCTCAATCGAGAAAAATCTACTA
** ** * **
64408220 AATACACTGAATGTTGCTCAATTAAGTTAAACCTACCG
1 AATACACTGAATGTTGCTCAATCGAGAAAAATCTACTA
** * * * *
64408258 AATATGCCGAATGTTGCTTAATCGAGTAAAACCTACTAA
1 AATACACTGAATGTTGCTCAATCGAGAAAAATCTACT-A
* * *
64408297 AATATACTGAATGATGTTCAATCGAGAAAAA
1 AATACACTGAATGTTGCTCAATCGAGAAAAA
64408328 ATTCACTGAT
Statistics
Matches: 184, Mismatches: 37, Indels: 1
0.83 0.17 0.00
Matches are distributed among these distances:
38 159 0.86
39 25 0.14
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.27
Consensus pattern (38 bp):
AATACACTGAATGTTGCTCAATCGAGAAAAATCTACTA
Found at i:64408270 original size:114 final size:115
Alignment explanation
Indices: 64408066--64408327 Score: 337
Period size: 114 Copynumber: 2.3 Consensus size: 115
64408056 AATGAAATAC
*
64408066 AGAATATACTGAATGTTGCTCAATCGAGAAAAATCTACTAAACACACTGAATGTTGCTCAATCGA
1 AGAATATACTGAATGTTGCTCAATCGAGAAAAATCTACTAAACACACTGAATGTTGCTCAATCAA
* * ** *
64408131 GCAAAATCTACTGAACACATTGAATGTTGCTCAATCGAGCAAAATCTAC-
66 GCAAAACCTACCGAACACACCGAATGTTGCTCAATCGAGCAAAACCTACT
* * * *
64408180 CGAATATACTAAATGTTGCTCAATCGAGAAAAATCTACTAAATACACTGAATGTTGCTCAATTAA
1 AGAATATACTGAATGTTGCTCAATCGAGAAAAATCTACTAAACACACTGAATGTTGCTCAATCAA
** * ** * *
64408245 GTTAAACCTACCGAATATGCCGAATGTTGCTTAATCGAGTAAAACCTACT
66 GCAAAACCTACCGAACACACCGAATGTTGCTCAATCGAGCAAAACCTACT
* * *
64408295 AAAATATACTGAATGATGTTCAATCGAGAAAAA
1 AGAATATACTGAATGTTGCTCAATCGAGAAAAA
64408328 ATTCACTGAT
Statistics
Matches: 125, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
114 97 0.78
115 28 0.22
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (115 bp):
AGAATATACTGAATGTTGCTCAATCGAGAAAAATCTACTAAACACACTGAATGTTGCTCAATCAA
GCAAAACCTACCGAACACACCGAATGTTGCTCAATCGAGCAAAACCTACT
Found at i:64418270 original size:22 final size:23
Alignment explanation
Indices: 64418227--64418270 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
64418217 TTGGTTTCTC
64418227 TTTCTTTCTTTATCCTCCTTCAT
1 TTTCTTTCTTTATCCTCCTTCAT
*
64418250 TTTCTTTCTTT-TCCTCTTTCA
1 TTTCTTTCTTTATCCTCCTTCA
64418271 AGTGAGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTCTTTCTTTATCCTCCTTCAT
Found at i:64426707 original size:53 final size:53
Alignment explanation
Indices: 64426627--64426737 Score: 222
Period size: 53 Copynumber: 2.1 Consensus size: 53
64426617 AGACTATGGT
64426627 TATGTTAGAGTTGGTACAAGAATGTACGTAAAACTCATATGTAATGAGCTCGA
1 TATGTTAGAGTTGGTACAAGAATGTACGTAAAACTCATATGTAATGAGCTCGA
64426680 TATGTTAGAGTTGGTACAAGAATGTACGTAAAACTCATATGTAATGAGCTCGA
1 TATGTTAGAGTTGGTACAAGAATGTACGTAAAACTCATATGTAATGAGCTCGA
64426733 TATGT
1 TATGT
64426738 GATGAAACCT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 58 1.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (53 bp):
TATGTTAGAGTTGGTACAAGAATGTACGTAAAACTCATATGTAATGAGCTCGA
Found at i:64428434 original size:15 final size:14
Alignment explanation
Indices: 64428414--64428471 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 14
64428404 TTCCCTCCCC
64428414 TTTCTTCTTTTGTTT
1 TTTCTTCTTTT-TTT
*
64428429 TTTCTTTCTTTCTTT
1 TTTC-TTCTTTTTTT
* *
64428444 TTCCTCCTTTTTCATT
1 TTTCTTCTTTTT--TT
64428460 TTTCTTCTTTTT
1 TTTCTTCTTTTT
64428472 CCTCTTTCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 6 0.18
15 10 0.29
16 18 0.53
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTCTTTTTTT
Found at i:64428454 original size:23 final size:26
Alignment explanation
Indices: 64428427--64428475 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
64428417 CTTCTTTTGT
64428427 TTTTTC-TTTCT-TTCTTTTTCCTCC
1 TTTTTCATTTCTCTTCTTTTTCCTCC
*
64428451 TTTTTCATTTTTCTTCTTTTTCCTC
1 TTTTTCATTTCTCTTCTTTTTCCTC
64428476 TTTCAATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTTTCATTTCTCTTCTTTTTCCTCC
Found at i:64429564 original size:43 final size:42
Alignment explanation
Indices: 64429517--64429620 Score: 127
Period size: 43 Copynumber: 2.5 Consensus size: 42
64429507 AAGACACGGA
* *
64429517 CATCTGTCCAAGCCATGTGAACCACACGGGTAGAGGACATGGG
1 CATCTGTCCAAGCCGTGTGAACCACACAGGTA-AGGACATGGG
* * *
64429560 CATCTGTCTAGGCTGTGTGAACCACACAGGTAAGGACATGGG
1 CATCTGTCCAAGCCGTGTGAACCACACAGGTAAGGACATGGG
* * *
64429602 CGTTTGTACAAGCCGTGTG
1 CATCTGTCCAAGCCGTGTG
64429621 GCATAATAAT
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
42 23 0.46
43 27 0.54
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (42 bp):
CATCTGTCCAAGCCGTGTGAACCACACAGGTAAGGACATGGG
Found at i:64433427 original size:50 final size:50
Alignment explanation
Indices: 64433286--64433427 Score: 176
Period size: 50 Copynumber: 2.8 Consensus size: 50
64433276 TTAACTTCGA
* * *
64433286 TCACGTGTGTAGTACGAAGTGCAGGCTACTACGTGTATCAGATGGATAAG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAG
* * * * *
64433336 TCACATGTATAGTACTAAGTGTAGGCTACTACGTGTTCCAGATTGATAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAG
* * * *
64433386 TCGCATGTGTAGTACTACGTGCAGGCTACTATGCGTACCAGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
64433428 GAGCTTCGGT
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAG
Found at i:64433648 original size:16 final size:16
Alignment explanation
Indices: 64433627--64433658 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
64433617 AGAATGGAGT
64433627 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
64433643 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
64433659 TAAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:64435829 original size:15 final size:15
Alignment explanation
Indices: 64435809--64435852 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
64435799 TATGATATTG
64435809 TATCTTGGATTTC-C
1 TATCTTGGATTTCTC
64435823 TTATCTTGGATTTCTC
1 -TATCTTGGATTTCTC
*
64435839 TATCTTGGACTTCT
1 TATCTTGGATTTCT
64435853 TAATCCTGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.52
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:64435867 original size:30 final size:30
Alignment explanation
Indices: 64435809--64435867 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
64435799 TATGATATTG
* *
64435809 TATCTTGGATTTCCTTATCTTGGATTTCTC
1 TATCTTGGACTTCCTTATCCTGGATTTCTC
*
64435839 TATCTTGGACTT-CTTAATCCTGGTTTTCT
1 TATCTTGGACTTCCTT-ATCCTGGATTTCT
64435868 TGTTATCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.53
Consensus pattern (30 bp):
TATCTTGGACTTCCTTATCCTGGATTTCTC
Found at i:64438911 original size:52 final size:51
Alignment explanation
Indices: 64438833--64439061 Score: 229
Period size: 52 Copynumber: 4.5 Consensus size: 51
64438823 TGCGAACACA
* *
64438833 TGTGTAGTACTATGTGCAAGCTACTATGTGTTTAAGACAATTTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTTT-AGACAATTTTAGGTCACG
* * *
64438885 TGTGTAGTACTAAGTGCAGGCTACTA--TG--TA-CCAGATTGTTAGGTCTCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTTTAGACA-ATT-TTAGGTCACG
** ** * *
64438933 TGTGTAGTACTAAGTGCAGGCTACTATG-CATT-CCCAATAGTTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTTTAGACAAT--TTTAGGTCACG
*
64438984 TGTGTAGTACTAAGTGCAGGCTACTATGTTTTTAAGACAATTTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTTT-AGACAATTTTAGGTCACG
* *
64439036 TGTGTGGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
64439062 CACGTACTGG
Statistics
Matches: 147, Mismatches: 18, Indels: 24
0.78 0.10 0.13
Matches are distributed among these distances:
46 2 0.01
47 4 0.03
48 35 0.24
50 4 0.03
51 38 0.26
52 60 0.41
54 4 0.03
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTTTAGACAATTTTAGGTCACG
Found at i:64439090 original size:50 final size:50
Alignment explanation
Indices: 64438876--64439273 Score: 304
Period size: 50 Copynumber: 7.9 Consensus size: 50
64438866 AAGACAATTT
* * *
64438876 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA--TGTACCAGATTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGA
* * * * * *
64438924 TAGGTCTCATGTGTAGTACTAAGTGCAGGCTACTATGCATTCCCA-ATAGTT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGC-GTACCAGATTG-A
* * * * ** * *
64438975 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTTTTTAAGACA-ATT-T
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACG--CGT-A-CCAGATTGA
* * * * **
64439027 TAGGTCACGTGTGTGGTACTAAGTGTAGGCTACTACACGTACTGGATTGA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGA
* * * *
64439077 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGA
* * * * * *
64439126 CTTCGATCACATGTATAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGA
1 --TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGA
* * * * *
64439178 TAAGTCACGTGTGTAGTACTAAGTGCAGGTTATTACGTGTACCAGATTGA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGA
** * *
64439228 TAGGTCGTATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
64439274 GAGCTTCGGT
Statistics
Matches: 274, Mismatches: 63, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
48 33 0.12
49 7 0.03
50 119 0.43
51 75 0.27
52 36 0.13
54 4 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGA
Found at i:64439146 original size:153 final size:153
Alignment explanation
Indices: 64438829--64439270 Score: 588
Period size: 151 Copynumber: 2.9 Consensus size: 153
64438819 GTTGTGCGAA
* *
64438829 CACATGTGTAGTACTATGTGCAAGCTACTATGTGTTTAAGACAATTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTTTAAGACAATTTTAGGTCACGTGTGTAGTA
* *
64438894 CTAAGTGCAGGCTACT--ATGTACCAGATTGTTAGGTCTCATGTGTAGTACTAAGTGCAGGCTAC
66 CTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTAC
* **
64438957 TATGCATTCCCAATAGTTTCGAT
131 TATGCATACCCAATAACTTCGAT
* * *
64438980 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTTTTTAAGACAATTTTAGGTCACGTGTGTGGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTTTAAGACAATTTTAGGTCACGTGTGTAGTA
* * **
64439045 CTAAGTGTAGGCTACTACACGTACTGGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTAC
66 CTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTAC
* **
64439110 TATGCGTACCCGTTAACTTCGAT
131 TATGCATACCCAATAACTTCGAT
* * * * ** *
64439133 CACATGTATAGTACTAAGTGCAGGCTACTACGTGTATCAG---ATGGATAAGTCACGTGTGTAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTTTAAGACAAT-TTTAGGTCACGTGTGTAGT
* * * *
64439195 ACTAAGTGCAGGTTATTACGTGTACCAGATTGATAGGTCGTATGTGTAGTACTAAGTGCAGGCTA
65 ACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTA
64439260 CTATGCATACC
130 CTATGCATACC
64439271 AGAGAGCTTC
Statistics
Matches: 252, Mismatches: 36, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
150 2 0.01
151 157 0.62
153 93 0.37
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (153 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTTTAAGACAATTTTAGGTCACGTGTGTAGTA
CTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTAC
TATGCATACCCAATAACTTCGAT
Found at i:64439494 original size:16 final size:16
Alignment explanation
Indices: 64439473--64439504 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
64439463 AGAATGGAGT
64439473 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
64439489 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
64439505 TAAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:64440542 original size:17 final size:17
Alignment explanation
Indices: 64440498--64440555 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 17
64440488 TAATTGCTTT
*
64440498 AATATTAAATTAATA-A
1 AATATTAAATTAAGATA
*
64440514 AATACT--ATTAAGATA
1 AATATTAAATTAAGATA
* *
64440529 AATATTAAATTAAGTTT
1 AATATTAAATTAAGATA
64440546 AATATTAAAT
1 AATATTAAAT
64440556 CTATTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
14 6 0.18
15 6 0.18
16 5 0.15
17 17 0.50
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (17 bp):
AATATTAAATTAAGATA
Found at i:64451578 original size:207 final size:207
Alignment explanation
Indices: 64451223--64451642 Score: 840
Period size: 207 Copynumber: 2.0 Consensus size: 207
64451213 GTTCCCACCA
64451223 TCTCTTCCTTCTCACCTACACCCTAAATCAACACCATTCATACCCCTTTGACTTCTCAATGTGAT
1 TCTCTTCCTTCTCACCTACACCCTAAATCAACACCATTCATACCCCTTTGACTTCTCAATGTGAT
64451288 GGAATTATCAGCAAATCCATCGGTTCTGATGTAAGGCAGTGGGAAGTCCTTAATTTCTCACAGCT
66 GGAATTATCAGCAAATCCATCGGTTCTGATGTAAGGCAGTGGGAAGTCCTTAATTTCTCACAGCT
64451353 GTAAGGCAAAAAAAAGTCGGAGCACCTACGTGGTTGGAAAAAGAAAACCATTGAAATGATGGAGA
131 GTAAGGCAAAAAAAAGTCGGAGCACCTACGTGGTTGGAAAAAGAAAACCATTGAAATGATGGAGA
64451418 TTTAGGGTTTTG
196 TTTAGGGTTTTG
64451430 TCTCTTCCTTCTCACCTACACCCTAAATCAACACCATTCATACCCCTTTGACTTCTCAATGTGAT
1 TCTCTTCCTTCTCACCTACACCCTAAATCAACACCATTCATACCCCTTTGACTTCTCAATGTGAT
64451495 GGAATTATCAGCAAATCCATCGGTTCTGATGTAAGGCAGTGGGAAGTCCTTAATTTCTCACAGCT
66 GGAATTATCAGCAAATCCATCGGTTCTGATGTAAGGCAGTGGGAAGTCCTTAATTTCTCACAGCT
64451560 GTAAGGCAAAAAAAAGTCGGAGCACCTACGTGGTTGGAAAAAGAAAACCATTGAAATGATGGAGA
131 GTAAGGCAAAAAAAAGTCGGAGCACCTACGTGGTTGGAAAAAGAAAACCATTGAAATGATGGAGA
64451625 TTTAGGGTTTTG
196 TTTAGGGTTTTG
64451637 TCTCTT
1 TCTCTT
64451643 TAAAACATTA
Statistics
Matches: 213, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
207 213 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (207 bp):
TCTCTTCCTTCTCACCTACACCCTAAATCAACACCATTCATACCCCTTTGACTTCTCAATGTGAT
GGAATTATCAGCAAATCCATCGGTTCTGATGTAAGGCAGTGGGAAGTCCTTAATTTCTCACAGCT
GTAAGGCAAAAAAAAGTCGGAGCACCTACGTGGTTGGAAAAAGAAAACCATTGAAATGATGGAGA
TTTAGGGTTTTG
Found at i:64452109 original size:21 final size:23
Alignment explanation
Indices: 64452085--64452132 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
64452075 AGTTTGATTT
*
64452085 TTAAATTAATAA-AG-ATAAAAC
1 TTAAAATAATAATAGAATAAAAC
*
64452106 TTAAAATAATAATTGAATAAAAC
1 TTAAAATAATAATAGAATAAAAC
64452129 TTAA
1 TTAA
64452133 CAGATCCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.48
22 1 0.04
23 11 0.48
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (23 bp):
TTAAAATAATAATAGAATAAAAC
Found at i:64452641 original size:23 final size:24
Alignment explanation
Indices: 64452606--64452656 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
64452596 TGGCTTCAAT
*
64452606 TTTTTTTATTTCATTTAAATGATA
1 TTTTTTTATTTCACTTAAATGATA
*
64452630 TTTTTTTA-TTCACTTAAATTATA
1 TTTTTTTATTTCACTTAAATGATA
64452653 TTTT
1 TTTT
64452657 GATATAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTTTTTATTTCACTTAAATGATA
Found at i:64455053 original size:18 final size:19
Alignment explanation
Indices: 64455002--64455054 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
64454992 GGCAAAAATT
64455002 CAAAGTATCGATACCATTTG
1 CAAAGTATCGATA-CATTTG
*
64455022 CACAA-TACCGATACATTT-
1 CA-AAGTATCGATACATTTG
*
64455040 TAAAGTATCGATACA
1 CAAAGTATCGATACA
64455055 GTTATGAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 2 0.07
18 10 0.36
19 5 0.18
20 9 0.32
21 2 0.07
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (19 bp):
CAAAGTATCGATACATTTG
Found at i:64459790 original size:24 final size:24
Alignment explanation
Indices: 64459762--64459897 Score: 75
Period size: 24 Copynumber: 5.6 Consensus size: 24
64459752 CTATATAATG
* *
64459762 GGAAGCTCA-TAAGAGCAATAATCA
1 GGAAGCTCACAAAGAACAAT-ATCA
* *
64459786 GGAAGTTCACAAAGAACCATATCA
1 GGAAGCTCACAAAGAACAATATCA
* * * *
64459810 GGAAGCTCACAAAGAGCCATGTAA
1 GGAAGCTCACAAAGAACAATATCA
* * *
64459834 TGGGAAGCTC-CAGATAGCTAATATCA
1 --GGAAGCTCACAAAGAAC-AATATCA
*
64459860 GGAAG-T-TC-AAGCAAGCAATATCA
1 GGAAGCTCACAAAG-AA-CAATATCA
64459883 GGAAGCTCACAAAGA
1 GGAAGCTCACAAAGA
64459898 GCCAATTTAA
Statistics
Matches: 85, Mismatches: 17, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
22 1 0.01
23 15 0.18
24 39 0.46
25 15 0.18
26 15 0.18
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (24 bp):
GGAAGCTCACAAAGAACAATATCA
Found at i:64459840 original size:74 final size:73
Alignment explanation
Indices: 64459757--64459901 Score: 190
Period size: 74 Copynumber: 2.0 Consensus size: 73
64459747 CCAAGCTATA
*
64459757 TAATGGGAAGCT-CATAAGAGC-AATAATCAGGAAGTTC-A-CAAAGAACCATATCAGGAAGCTC
1 TAATGGGAAGCTCCA-AAGAGCTAAT-ATCAGGAAGTTCAAGC-AAG--CAATATCAGGAAGCTC
64459818 ACAAAGAGCCATG
61 ACAAAGAGCCATG
* *
64459831 TAATGGGAAGCTCCAGATAGCTAATATCAGGAAGTTCAAGCAAGCAATATCAGGAAGCTCACAAA
1 TAATGGGAAGCTCCAAAGAGCTAATATCAGGAAGTTCAAGCAAGCAATATCAGGAAGCTCACAAA
64459896 GAGCCA
66 GAGCCA
64459902 ATTTAACGAG
Statistics
Matches: 64, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
73 26 0.41
74 28 0.44
75 9 0.14
76 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (73 bp):
TAATGGGAAGCTCCAAAGAGCTAATATCAGGAAGTTCAAGCAAGCAATATCAGGAAGCTCACAAA
GAGCCATG
Found at i:64460410 original size:21 final size:21
Alignment explanation
Indices: 64460386--64460427 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
64460376 AATTTAATCA
*
64460386 TCAATTTTATACAATTCACAT
1 TCAATTTGATACAATTCACAT
* *
64460407 TCAATTTGATTCAATTTACAT
1 TCAATTTGATACAATTCACAT
64460428 CCTAGGCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.45
Consensus pattern (21 bp):
TCAATTTGATACAATTCACAT
Found at i:64463957 original size:79 final size:77
Alignment explanation
Indices: 64463855--64464066 Score: 255
Period size: 79 Copynumber: 2.7 Consensus size: 77
64463845 GCTCCTCGTT
* *
64463855 CAAATGCCTTCGGGACATAGCCCGGTTATATTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATATTATCTCGCACAAATGCCTTCGGG-CTTAACCCGG
64463920 -ATTTAATAACTCGCA
63 AATTT-ATAACTCGCA
* * *
64463935 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGAA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TATTATCTCGCACAAATGCCTTCGGGCTTAACCCGGAA
* *
64464000 TTTGTATCTCGCA
65 TTTATAACTCGCA
* * *
64464013 CAAATGCCTTCGGATCTTAGTCCGGATATTTGTATCTCGCACAAATGCCTTCGG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAT-TATCTCGCACAAATGCCTTCGG
64464067 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 31 0.27
79 47 0.41
80 37 0.32
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATATTATCTCGCACAAATGCCTTCGGGCTTAACCCGGAAT
TTATAACTCGCA
Found at i:64464056 original size:41 final size:40
Alignment explanation
Indices: 64463855--64464118 Score: 283
Period size: 39 Copynumber: 6.6 Consensus size: 40
64463845 GCTCCTCGTT
* * * *
64463855 CAAATGCCTTCGGGACATAGCCCGGTTATAT-TAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATTTGTATCTCGCA
* ** *
64463895 CAAATGCCTTCGGGACTTAACCCGGAT-TTAATAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATTTGTATCTCGCA
* *
64463935 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATATTTGTATCTCGCA
*
64463974 CAAATGCCTTCGGGCTTAGCCCGGA-ATTTGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATATTTGTATCTCGCA
*
64464013 CAAATGCCTTCGGATCTTAGTCCGGATATTTGTATCTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATTTGTATCTCGCA
* *
64464054 CAAATGCCTTCGGATCTTAGTCCGGATA-TTGTCA-CTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATTTGT-ATC-TCGCA
64464095 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
64464119 CATCATTCAA
Statistics
Matches: 203, Mismatches: 14, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
39 91 0.45
40 64 0.32
41 48 0.24
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGACTTAGCCCGGATATTTGTATCTCGCA
Found at i:64464102 original size:80 final size:78
Alignment explanation
Indices: 64463855--64464118 Score: 263
Period size: 80 Copynumber: 3.3 Consensus size: 78
64463845 GCTCCTCGTT
* * * * *
64463855 CAAATGCCTTCGGGACATAGCCCGG-TTATATTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTC-GGACTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGACTTAGCCCG
*
64463919 GAT-TTAATAAC-TCGCA
63 GATATT-GT-ACTTCGCA
* *
64463935 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGA-
1 CAAATGCCTTCGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGACTTAGCCCGGAT
64463999 ATTTGTA-TCTCGCA
66 A-TTGTACT-TCGCA
* * *
64464013 CAAATGCCTTCGGATCTTAGTCCGGATATTTGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGA-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGA-CTTAGCCCG
*
64464078 GATATTGTCACTTAGCA
63 GATATTGT-ACTTCGCA
64464095 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
64464119 CATCATTCAA
Statistics
Matches: 157, Mismatches: 15, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
77 1 0.01
78 31 0.20
79 44 0.28
80 54 0.34
81 19 0.12
82 7 0.04
83 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGACTTAGCCCGGAT
ATTGTACTTCGCA
Found at i:64475960 original size:25 final size:25
Alignment explanation
Indices: 64475909--64475960 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
64475899 CGGTAAAATT
* *
64475909 TTCTTATCAGAATTTTCATATGACA
1 TTCTTATCAGAATGTACATATGACA
*
64475934 TTCTTATCATAATGTACATCATG-CA
1 TTCTTATCAGAATGTACAT-ATGACA
64475959 TT
1 TT
64475961 AATATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.44
Consensus pattern (25 bp):
TTCTTATCAGAATGTACATATGACA
Found at i:64478965 original size:35 final size:35
Alignment explanation
Indices: 64478924--64478990 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
64478914 TATAAATATA
* *
64478924 AATATATTTTTATTTAATATAA-ATAACATAATCCT
1 AATATATTATTATCTAATATAATATAA-ATAATCCT
64478959 AATATATTATTATCTAATATAATATAAATAAT
1 AATATATTATTATCTAATATAATATAAATAAT
64478991 TTTTTAGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 25 0.86
36 4 0.14
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (35 bp):
AATATATTATTATCTAATATAATATAAATAATCCT
Found at i:64479003 original size:17 final size:17
Alignment explanation
Indices: 64478981--64479013 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
64478971 TCTAATATAA
*
64478981 TATAAATAATTTTTTAG
1 TATAAATAAATTTTTAG
64478998 TATAAATAAATTTTTA
1 TATAAATAAATTTTTA
64479014 TAATTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TATAAATAAATTTTTAG
Found at i:64479070 original size:24 final size:25
Alignment explanation
Indices: 64479043--64479089 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
64479033 AACATAAAAT
**
64479043 ATATTTTGTTATTTAATT-TATAAA
1 ATATTTTAATATTTAATTATATAAA
64479067 ATATTTTAATATTTAATTATATA
1 ATATTTTAATATTTAATTATATA
64479090 TACATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
ATATTTTAATATTTAATTATATAAA
Found at i:64479096 original size:24 final size:24
Alignment explanation
Indices: 64479052--64479100 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
64479042 TATATTTTGT
*
64479052 TATTTAATTTATAAAATATTTTAA
1 TATTTAATTTATAAAACATTTTAA
*
64479076 TATTTAA-TTATATATACATTTTAA
1 TATTTAATTTATA-AAACATTTTAA
64479100 T
1 T
64479101 TTAACGTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TATTTAATTTATAAAACATTTTAA
Found at i:64480002 original size:51 final size:49
Alignment explanation
Indices: 64479947--64480089 Score: 156
Period size: 51 Copynumber: 3.0 Consensus size: 49
64479937 CTACCTTGTA
*
64479947 ACATGTAACACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG
1 ACATGTAACGCATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG
* * * *
64479996 TTACATG-AATCGCATCCATTATTAACTTGGACCACTCAACGAGCTCGGATG
1 --ACATGTAA-CGCATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG
*
64480047 -C---T--CGCATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATG
1 ACATGTAACGCATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG
64480090 CCACATATCT
Statistics
Matches: 80, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
43 36 0.45
48 1 0.01
50 2 0.03
51 41 0.51
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (49 bp):
ACATGTAACGCATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG
Found at i:64480077 original size:43 final size:43
Alignment explanation
Indices: 64480005--64480090 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
64479995 GTTACATGAA
* * **
64480005 TCGCATCCATTATTAACTTGGACCACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
*
64480048 TCGCATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
64480091 CACATATCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
Found at i:64482121 original size:26 final size:29
Alignment explanation
Indices: 64482088--64482140 Score: 85
Period size: 26 Copynumber: 1.9 Consensus size: 29
64482078 TAAGTTGTTT
64482088 ATATATAAAATT-TT-AATAA-ATAAAAA
1 ATATATAAAATTATTAAATAATATAAAAA
64482114 ATATATAAAATTATTAAATAATATAAA
1 ATATATAAAATTATTAAATAATATAAA
64482141 TATTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 12 0.50
27 2 0.08
28 5 0.21
29 5 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
ATATATAAAATTATTAAATAATATAAAAA
Found at i:64486121 original size:23 final size:26
Alignment explanation
Indices: 64486091--64486148 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
64486081 AGCCCGGATA
64486091 AGCTTCCTGA-T-A-GGCTCTTTGTG
1 AGCTTCCTGATTAATGGCTCTTTGTG
*
64486114 AGCTTCCTAATTAATGGCTCTTTGTG
1 AGCTTCCTGATTAATGGCTCTTTGTG
*
64486140 AGTTTCCTG
1 AGCTTCCTG
64486149 TTATATGACT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.31
24 1 0.03
25 1 0.03
26 18 0.62
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.41
Consensus pattern (26 bp):
AGCTTCCTGATTAATGGCTCTTTGTG
Found at i:64489795 original size:33 final size:32
Alignment explanation
Indices: 64489758--64489832 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 32
64489748 CCTTGCCATA
* *
64489758 GTCTTACACTCGTAATGCCATAACCCAGTTATG
1 GTCTTACACTAG-AATGCCATAACCCAGCTATG
* * *
64489791 GTCTTATCATTAGAATGCTATAGCCCAGCTATG
1 GTCTTA-CACTAGAATGCCATAACCCAGCTATG
64489824 GTCTTACAC
1 GTCTTACAC
64489833 ATATACATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
32 2 0.06
33 29 0.83
34 4 0.11
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (32 bp):
GTCTTACACTAGAATGCCATAACCCAGCTATG
Found at i:64490951 original size:16 final size:17
Alignment explanation
Indices: 64490932--64490964 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
64490922 AGTCCTTCTT
64490932 TATTT-ATCACTTTAGC
1 TATTTAATCACTTTAGC
*
64490948 TATTTAATCATTTTAGC
1 TATTTAATCACTTTAGC
64490965 AAATTTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (17 bp):
TATTTAATCACTTTAGC
Found at i:64494159 original size:43 final size:43
Alignment explanation
Indices: 64494078--64494161 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
64494068 AAATCGTACA
**
64494078 ATGCCAACGTCCCAGACGTGGTCTTACATGTAGTCACATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATTG
64494121 ATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCGTAAACACATAT
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-GTAAACACATAT
64494162 CAGAATCACA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
42 3 0.08
43 32 0.89
44 1 0.03
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATTG
Found at i:64497634 original size:16 final size:15
Alignment explanation
Indices: 64497608--64497641 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
64497598 CAAAAGATAG
*
64497608 ATATAGCATTCATAC
1 ATATAGCATTCACAC
64497623 ATATAGGCATTCACAC
1 ATATA-GCATTCACAC
64497639 ATA
1 ATA
64497642 AAATGAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (15 bp):
ATATAGCATTCACAC
Found at i:64500066 original size:19 final size:18
Alignment explanation
Indices: 64500030--64500068 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
64500020 AGGGATTTTG
*
64500030 GGGGAAATTTAAGGATTA
1 GGGGAAATGTAAGGATTA
*
64500048 GGGGAAATGTAGAGTATTA
1 GGGGAAATGTA-AGGATTA
64500067 GG
1 GG
64500069 AAATCTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (18 bp):
GGGGAAATGTAAGGATTA
Found at i:64500585 original size:15 final size:15
Alignment explanation
Indices: 64500561--64500590 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
64500551 CCCCTTATCT
64500561 CTTAAACCTTAAACC
1 CTTAAACCTTAAACC
*
64500576 CTTAACCCTTAAACC
1 CTTAAACCTTAAACC
64500591 ATAAACCATA
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:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (15 bp):
CTTAAACCTTAAACC
Found at i:64500586 original size:22 final size:22
Alignment explanation
Indices: 64500552--64500597 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
64500542 AACCCATGTC
* * *
64500552 CCCTTATCTCTTAAACCTTAAA
1 CCCTTAACCCTTAAACCATAAA
64500574 CCCTTAACCCTTAAACCATAAA
1 CCCTTAACCCTTAAACCATAAA
64500596 CC
1 CC
64500598 ATAATCCATA
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:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (22 bp):
CCCTTAACCCTTAAACCATAAA
Found at i:64500597 original size:15 final size:14
Alignment explanation
Indices: 64500563--64500610 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
64500553 CCTTATCTCT
*
64500563 TAAACCTTAAACCCT
1 TAAACCTTAAA-CCA
*
64500578 TAACCCTTAAACCA
1 TAAACCTTAAACCA
* *
64500592 TAAACCATAATCCA
1 TAAACCTTAAACCA
64500606 TAAAC
1 TAAAC
64500611 ACATAATTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:64500615 original size:15 final size:14
Alignment explanation
Indices: 64500589--64500625 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
64500579 AACCCTTAAA
64500589 CCATAAACCATAAT
1 CCATAAACCATAAT
64500603 CCATAAACACATAAT
1 CCATAAAC-CATAAT
*
64500618 TCATAAAC
1 CCATAAAC
64500626 TTTAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (14 bp):
CCATAAACCATAAT
Found at i:64500631 original size:22 final size:23
Alignment explanation
Indices: 64500605--64500654 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
64500595 ACCATAATCC
*
64500605 ATAAACACA-TAATTCATAAACT
1 ATAAACACATTAACTCATAAACT
* *
64500627 TTAAA-ATATTAACTCATAAACT
1 ATAAACACATTAACTCATAAACT
64500649 ATAAAC
1 ATAAAC
64500655 CCCTAACTCC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (23 bp):
ATAAACACATTAACTCATAAACT
Found at i:64500697 original size:7 final size:7
Alignment explanation
Indices: 64500652--64500727 Score: 62
Period size: 7 Copynumber: 10.7 Consensus size: 7
64500642 ATAAACTATA
64500652 AACCCCT
1 AACCCCT
*
64500659 AACTCCT
1 AACCCCT
*
64500666 ATCCCCT
1 AACCCCT
*
64500673 ATCCCCTT
1 AACCCC-T
**
64500681 AACCTTT
1 AACCCCT
64500688 AACCCCT
1 AACCCCT
*
64500695 AACCACT
1 AACCCCT
*
64500702 AACCACT
1 AACCCCT
*
64500709 AACCCAT
1 AACCCCT
*
64500716 AAACCCT
1 AACCCCT
64500723 AACCC
1 AACCC
64500728 TTAAACACTA
Statistics
Matches: 54, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
7 50 0.93
8 4 0.07
ACGTcount: A:0.32, C:0.47, G:0.00, T:0.21
Consensus pattern (7 bp):
AACCCCT
Found at i:64500732 original size:14 final size:14
Alignment explanation
Indices: 64500680--64500738 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
64500670 CCTATCCCCT
* *
64500680 TAACCTTTAACCCC
1 TAACCCTTAAACCC
64500694 TAACCAC-T-AACCAC
1 TAACC-CTTAAACC-C
*
64500708 TAACCCATAAACCC
1 TAACCCTTAAACCC
*
64500722 TAACCCTTAAACAC
1 TAACCCTTAAACCC
64500736 TAA
1 TAA
64500739 ACTCATAATC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 4 0.11
14 29 0.78
15 4 0.11
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (14 bp):
TAACCCTTAAACCC
Found at i:64500745 original size:29 final size:29
Alignment explanation
Indices: 64500691--64500791 Score: 77
Period size: 29 Copynumber: 3.5 Consensus size: 29
64500681 AACCTTTAAC
* *
64500691 CCCTAACCAC-TAACCACT-AACCCATAAA
1 CCCTAACC-CTTAAACACTAAACTCATAAA
*
64500719 CCCTAACCCTTAAACACTAAACTCATAAT
1 CCCTAACCCTTAAACACTAAACTCATAAA
* *
64500748 CACTAAACCTTAAA-A-TATTAACTCATAAA
1 CCCTAACCCTTAAACACTA--AACTCATAAA
*
64500777 CCATTAA-CCTTAAAC
1 CC-CTAACCCTTAAAC
64500792 CATATACCCT
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
27 3 0.05
28 16 0.27
29 37 0.63
30 3 0.05
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.23
Consensus pattern (29 bp):
CCCTAACCCTTAAACACTAAACTCATAAA
Found at i:64500792 original size:14 final size:14
Alignment explanation
Indices: 64500753--64500808 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
64500743 ATAATCACTA
**
64500753 AACCTTAAAATATT
1 AACCTTAAACCATT
*
64500767 AACTCATAAACCATT
1 AAC-CTTAAACCATT
64500782 AACCTTAAACCA-T
1 AACCTTAAACCATT
*
64500795 ATACCCTAAACCAT
1 A-ACCTTAAACCAT
64500809 AATTATAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
13 2 0.06
14 21 0.62
15 11 0.32
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (14 bp):
AACCTTAAACCATT
Found at i:64501228 original size:39 final size:40
Alignment explanation
Indices: 64501180--64501262 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
64501170 TTGAATTTTT
* *
64501180 GCGGTGTTTT-CTAAAAACGCTGCTAATGCTTGA-CGTATA
1 GCGGCGTTTTGCTAAAAACACTGCTAATGCTTGATC-TATA
* * *
64501219 GCGGCGTTTTGGTAAAAGCATTGCTAATGCTTGATCTATA
1 GCGGCGTTTTGCTAAAAACACTGCTAATGCTTGATCTATA
64501259 GCGG
1 GCGG
64501263 TATTTTTAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 9 0.24
40 27 0.73
41 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
GCGGCGTTTTGCTAAAAACACTGCTAATGCTTGATCTATA
Found at i:64501276 original size:40 final size:40
Alignment explanation
Indices: 64501200--64501277 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
64501190 CTAAAAACGC
* *
64501200 TGCTAATGCTTGACGTATAGCGGCGTTTTGGTAAAAGCAT
1 TGCTAATGCTTGACGTATAGCGGAGTTTTAGTAAAAGCAT
*
64501240 TGCTAATGCTTGATC-TATAGCGGTATTTTTAG-AAAAGC
1 TGCTAATGCTTGA-CGTATAGCGG-AGTTTTAGTAAAAGC
64501278 GCTACAAGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 27 0.82
41 6 0.18
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (40 bp):
TGCTAATGCTTGACGTATAGCGGAGTTTTAGTAAAAGCAT
Found at i:64502637 original size:16 final size:15
Alignment explanation
Indices: 64502604--64502651 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
64502594 TTTTGTTTAA
64502604 ATATAAATATTTTTT
1 ATATAAATATTTTTT
64502619 ATATAAATATTTGTTT
1 ATATAAATATTT-TTT
*
64502635 ATATTAAGT-TTTTTT
1 ATA-TAAATATTTTTT
64502650 AT
1 AT
64502652 TTGTTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 17 0.57
16 9 0.30
17 4 0.13
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (15 bp):
ATATAAATATTTTTT
Done.