Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 189 of 325
Found at i:61353789 original size:45 final size:45
Alignment explanation
Indices: 61353738--61353864 Score: 220
Period size: 45 Copynumber: 2.8 Consensus size: 45
61353728 TATCGTACGG
*
61353738 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
61353783 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
61353828 TACTATTCGGGCCTTCGAGCCTAGCAGGCGA-AATGCC
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
61353865 AGTGGATGAA
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
44 6 0.08
45 73 0.92
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.25
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:61359357 original size:82 final size:81
Alignment explanation
Indices: 61359241--61359396 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
61359231 AAATTGTACA
* * * *
61359241 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGAGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGAGAAATGAATACG-TGGCACTAAGTG
61359305 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
61359322 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGAGAAATGAATACGTGGCACTAAGTG
*
61359387 TGCGAGTTGA
65 TGCGAATTGA
61359397 TTGTATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 18 0.28
82 46 0.72
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGAGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61359363 original size:55 final size:52
Alignment explanation
Indices: 61359240--61359393 Score: 166
Period size: 55 Copynumber: 2.9 Consensus size: 52
61359230 TAAATTGTAC
* * *
61359240 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGAGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
61359293 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
61359348 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
61359394 TGATTGTATA
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
53 3 0.04
54 35 0.41
55 46 0.54
56 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:61359398 original size:27 final size:27
Alignment explanation
Indices: 61359241--61359396 Score: 154
Period size: 27 Copynumber: 5.7 Consensus size: 27
61359231 AAATTGTACA
*
61359241 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* * *
61359268 GCACTAAGTGTGAGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
61359295 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
61359322 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
61359350 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
61359377 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
61359397 TTGTATAGCA
Statistics
Matches: 106, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
27 81 0.76
28 25 0.24
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:61359407 original size:27 final size:27
Alignment explanation
Indices: 61359240--61359417 Score: 144
Period size: 27 Copynumber: 6.6 Consensus size: 27
61359230 TAAATTGTAC
*
61359240 AGCACTAAGTGTGCGA-TTCGACTATGT
1 AGCACTAAGTGTGCGAGTT-GATTATGT
* * ** *
61359267 TGCACTAAGTGTGAGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
* ** *
61359293 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
61359321 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
61359349 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
61359376 GGCACTAAGTGTGCGAGTTGATTGTAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
61359403 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61359418 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
27 98 0.81
28 23 0.19
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:61359408 original size:82 final size:81
Alignment explanation
Indices: 61359233--61359417 Score: 201
Period size: 82 Copynumber: 2.3 Consensus size: 81
61359223 GCGGGATTAA
* * * *
61359233 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGAGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGAGAAATGAATACGATGCA
61359298 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * * ** *
61359314 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGAGAAATGAATACGAT-G
*
61359378 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
61359396 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
61359418 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 21, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
81 21 0.26
82 60 0.74
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGAGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:61373775 original size:55 final size:54
Alignment explanation
Indices: 61373703--61373821 Score: 127
Period size: 55 Copynumber: 2.2 Consensus size: 54
61373693 CATGTGCGAC
* * * *
61373703 ACTGACTTTAGGGCACGGC-CATGACACACGCCCCTGTGGCCTACCCGTGGGCAAT
1 ACTGACTTTAGGACACGGCACA-G-CACACGCCCCTGTGGCCTAACCATGGACAAT
* *
61373758 ACTGACTTATA-GACACGGCTACAGCACATGCCCGTGTGGCCTAACCATGGACAAT
1 ACTGACTT-TAGGACACGGC-ACAGCACACGCCCCTGTGGCCTAACCATGGACAAT
61373813 ACTGA-TTTA
1 ACTGACTTTA
61373822 AAAGTTTAAG
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 46 0.84
56 3 0.05
57 2 0.04
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (54 bp):
ACTGACTTTAGGACACGGCACAGCACACGCCCCTGTGGCCTAACCATGGACAAT
Found at i:61374690 original size:49 final size:49
Alignment explanation
Indices: 61374575--61374702 Score: 136
Period size: 49 Copynumber: 2.6 Consensus size: 49
61374565 AAGTTGCCAC
** * *
61374575 TGCCATGTCCCAGACATGGTCTTACGTTGGCTATCTGCATCGAGGCTGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTATCTGCATCGAGACTGA
* * * *
61374624 TGCCATGCCCCAAACATGGTCTTACACTAGCTCTCATGTATACGA-ACTGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCTATC-TGCAT-CGAGACTGA
*
61374674 TG-CATGTCCCAGACAT-GTCTTACAGTAGC
1 TGCCATGTCCCAGACATGGTCTTACACTAGC
61374703 ACGAAACTTA
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
48 12 0.18
49 41 0.62
50 10 0.15
51 3 0.05
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.27
Consensus pattern (49 bp):
TGCCATGTCCCAGACATGGTCTTACACTAGCTATCTGCATCGAGACTGA
Found at i:61375722 original size:15 final size:16
Alignment explanation
Indices: 61375693--61375725 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
61375683 ATGATAGTTT
61375693 TGGAGAAGAAAGAAAA
1 TGGAGAAGAAAGAAAA
61375709 TGGAGAAG-AAGAAAA
1 TGGAGAAGAAAGAAAA
61375724 TG
1 TG
61375726 ATAGCTAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.58, C:0.00, G:0.33, T:0.09
Consensus pattern (16 bp):
TGGAGAAGAAAGAAAA
Found at i:61377782 original size:42 final size:41
Alignment explanation
Indices: 61377674--61377786 Score: 129
Period size: 44 Copynumber: 2.7 Consensus size: 41
61377664 TTCTGATGTG
* *
61377674 TGATTTCGTGTAAGACCATGTCTGGGACGTTGGTATCGATT
1 TGATTTCGTGTAAGACCATATCTGGGACATTGGTATCGATT
* *
61377715 TGAGATTTAAGTGTAAGACCATATCTGGGACATT-GTCATTGTATT
1 T--GATTT-CGTGTAAGACCATATCTGGGACATTGGT-ATCG-ATT
*
61377760 TGATTTCGTGTAAGACCCTATCTGGGA
1 TGATTTCGTGTAAGACCATATCTGGGA
61377787 TAGCGGCATC
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
41 1 0.02
42 19 0.31
43 12 0.20
44 25 0.41
45 4 0.07
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATATCTGGGACATTGGTATCGATT
Found at i:61377804 original size:43 final size:42
Alignment explanation
Indices: 61377674--61377820 Score: 118
Period size: 42 Copynumber: 3.4 Consensus size: 42
61377664 TTCTGATGTG
* * * *
61377674 TGATTTCGTGTAAGACCATGTCTGGGAC-GTTGGTATCG-ATT
1 TGATTACGTGTAAGACCATATCTGGGACAG-CGGCATCGTATT
* ** * *
61377715 TGAGATTTAAGTGTAAGACCATATCTGGGACATTGTCATTGTATT
1 T--GA-TTACGTGTAAGACCATATCTGGGACAGCGGCATCGTATT
* * *
61377760 TGATTTCGTGTAAGACCCTATCTGGGATAGCGGCATCGATATT
1 TGATTACGTGTAAGACCATATCTGGGACAGCGGCATCG-TATT
*
61377803 TGATTACATGTAAGACCA
1 TGATTACGTGTAAGACCA
61377821 CGTTTGGGAC
Statistics
Matches: 82, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
41 1 0.01
42 27 0.33
43 23 0.28
44 27 0.33
45 4 0.05
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (42 bp):
TGATTACGTGTAAGACCATATCTGGGACAGCGGCATCGTATT
Found at i:61399327 original size:44 final size:44
Alignment explanation
Indices: 61399274--61399361 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
61399264 TCCGATGTGT
* *
61399274 GATTTCGTGTAAGACCACGCCTGGGACATTGGTATCG-ATTTGA
1 GATTTCGTGTAAGACCACGCCTGGGACATCGATATCGTATTTGA
* * *
61399317 GATTTACGTGTAAGATCATGTCTGGGACATCGATATCGTATTTGA
1 GATTT-CGTGTAAGACCACGCCTGGGACATCGATATCGTATTTGA
61399362 TTTTGTATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
43 5 0.13
44 27 0.71
45 6 0.16
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (44 bp):
GATTTCGTGTAAGACCACGCCTGGGACATCGATATCGTATTTGA
Found at i:61403718 original size:27 final size:26
Alignment explanation
Indices: 61403683--61403794 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
61403673 AGCATGGCTG
* *
61403683 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
61403709 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
61403737 CTAGAACAGATATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
61403764 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
61403791 CCAG
1 CCAG
61403795 GATGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.71
28 15 0.21
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:61404227 original size:8 final size:8
Alignment explanation
Indices: 61404211--61404247 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
61404201 AAAATACCAA
*
61404211 CTTTCCGG
1 CTTTTCGG
*
61404219 CATTTCGG
1 CTTTTCGG
61404227 CTTTTCGG
1 CTTTTCGG
61404235 CTTTTCGG
1 CTTTTCGG
61404243 CTTTT
1 CTTTT
61404248 GCCGATCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.03, C:0.27, G:0.22, T:0.49
Consensus pattern (8 bp):
CTTTTCGG
Found at i:61405268 original size:24 final size:24
Alignment explanation
Indices: 61405233--61405305 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
61405223 ACACAGTTTA
*
61405233 CCCTAATTAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
61405257 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* *
61405281 CCCTTATCAGCTCCTAAATCTTCT
1 CCCTAATCAGCTCCTAAATCCTCT
61405305 C
1 C
61405306 TAGACAGACT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.23, C:0.40, G:0.04, T:0.33
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:61411606 original size:27 final size:26
Alignment explanation
Indices: 61411571--61411683 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
61411561 AGCATGGCTG
* *
61411571 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
61411597 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
61411625 CTAGAACAGATATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
61411652 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
61411679 CCAGA
1 CCAGA
61411684 CACTTCCTTC
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.71
28 15 0.21
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:61411940 original size:16 final size:16
Alignment explanation
Indices: 61411919--61411958 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
61411909 ATACATAAGG
* *
61411919 GCTGTAATTGAATAGA
1 GCTGTAATGGAATAAA
61411935 GCTGTAATGGAATAAA
1 GCTGTAATGGAATAAA
61411951 GCTGTAAT
1 GCTGTAAT
61411959 AAGTAATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAAA
Found at i:61412032 original size:44 final size:46
Alignment explanation
Indices: 61411940--61412033 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 46
61411930 ATAGAGCTGT
*
61411940 AATGGAATAAAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAAAGCTGTAATAAGTAATTCAACTGTTTGGCTGAATGG
***
61411986 AATGGAATAGAA-CTGTAAT-AGT-ATTCTTGTGTTTGGCTGAATGG
1 AATGGAATA-AAGCTGTAATAAGTAATTCAACTGTTTGGCTGAATGG
61412030 AATG
1 AATG
61412034 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
44 22 0.51
45 3 0.07
46 16 0.37
47 2 0.05
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (46 bp):
AATGGAATAAAGCTGTAATAAGTAATTCAACTGTTTGGCTGAATGG
Found at i:61412227 original size:17 final size:17
Alignment explanation
Indices: 61412205--61412237 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
61412195 AATTATTATT
61412205 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
61412222 AAATATAATTTAATAA
1 AAATATAATTTAATAA
61412238 CATTCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:61412534 original size:32 final size:32
Alignment explanation
Indices: 61412493--61412557 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
61412483 TTGCAATTTG
*
61412493 TTTTATATTTGCCCTTAGCCTTTACATCTATC
1 TTTTATATTTGCCCTTAGACTTTACATCTATC
* *
61412525 TTTTATATTTGCCCTTGGATTTTACATCTATC
1 TTTTATATTTGCCCTTAGACTTTACATCTATC
61412557 T
1 T
61412558 CGTCATCTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.18, C:0.22, G:0.08, T:0.52
Consensus pattern (32 bp):
TTTTATATTTGCCCTTAGACTTTACATCTATC
Found at i:61412776 original size:12 final size:12
Alignment explanation
Indices: 61412759--61412785 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
61412749 TAGATTTATG
61412759 CAAAACAATACC
1 CAAAACAATACC
61412771 CAAAACAATACC
1 CAAAACAATACC
61412783 CAA
1 CAA
61412786 TAATTATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.33, G:0.00, T:0.07
Consensus pattern (12 bp):
CAAAACAATACC
Found at i:61415830 original size:13 final size:13
Alignment explanation
Indices: 61415812--61415837 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61415802 CTGAAAAGAG
61415812 GGAGAAGGGTGGA
1 GGAGAAGGGTGGA
61415825 GGAGAAGGGTGGA
1 GGAGAAGGGTGGA
61415838 ACGAAATAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.62, T:0.08
Consensus pattern (13 bp):
GGAGAAGGGTGGA
Found at i:61415856 original size:53 final size:53
Alignment explanation
Indices: 61415772--61415877 Score: 151
Period size: 53 Copynumber: 2.0 Consensus size: 53
61415762 TGAAAAAGAG
* * *
61415772 GGAGAAGGGTGAAATGAAATGGGAATAAGACTGAAAAGAGGGAGAAGGGTGGA
1 GGAGAAGGGTGAAACGAAATAGGAATAAGACTGAAAAGAGGGAAAAGGGTGGA
* *
61415825 GGAGAAGGGTGGAACGAAATAGGAACT-AGACTGAAAAGAGGGAAAATGGTGGA
1 GGAGAAGGGTGAAACGAAATAGGAA-TAAGACTGAAAAGAGGGAAAAGGGTGGA
61415878 ACGAAAGAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 46 0.98
54 1 0.02
ACGTcount: A:0.43, C:0.04, G:0.42, T:0.11
Consensus pattern (53 bp):
GGAGAAGGGTGAAACGAAATAGGAATAAGACTGAAAAGAGGGAAAAGGGTGGA
Found at i:61417382 original size:24 final size:24
Alignment explanation
Indices: 61417347--61417420 Score: 112
Period size: 24 Copynumber: 3.1 Consensus size: 24
61417337 ACACAGTTCA
*
61417347 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTGATCAGCTCCTAAATCCTCT
*
61417371 CCCTGATTAGCTCCTAAATCCTCT
1 CCCTGATCAGCTCCTAAATCCTCT
* *
61417395 CCCTTATCAGCTCCTAAATCTTCT
1 CCCTGATCAGCTCCTAAATCCTCT
61417419 CC
1 CC
61417421 AGACAGACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.22, C:0.41, G:0.05, T:0.32
Consensus pattern (24 bp):
CCCTGATCAGCTCCTAAATCCTCT
Found at i:61423225 original size:44 final size:44
Alignment explanation
Indices: 61423141--61423225 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
61423131 TATATATGGG
* * *
61423141 GCATCCGAGCTCGTTGAGTTATTCCAAGTTCATTACGGATGCGA
1 GCATACGAGCTCGTTGAGTTAGTCCAAGTTCATAACGGATGCGA
* ** *
61423185 GCATACGAGCTCGTTGAGTTGGTCTGAGTTCATAATGGATG
1 GCATACGAGCTCGTTGAGTTAGTCCAAGTTCATAACGGATG
61423226 TGATACATGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (44 bp):
GCATACGAGCTCGTTGAGTTAGTCCAAGTTCATAACGGATGCGA
Found at i:61431121 original size:44 final size:45
Alignment explanation
Indices: 61431071--61431156 Score: 156
Period size: 44 Copynumber: 1.9 Consensus size: 45
61431061 AAGGCATCCA
*
61431071 AGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGTGA-ACATCTG
1 AGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGTGATACATCTG
61431115 AGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGTGATACAT
1 AGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGTGATACAT
61431157 GTAAGTGGGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 36 0.90
45 4 0.10
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (45 bp):
AGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGTGATACATCTG
Found at i:61447116 original size:13 final size:13
Alignment explanation
Indices: 61447098--61447125 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
61447088 ACAGCCTGGC
61447098 ACACGACCGTGTG
1 ACACGACCGTGTG
61447111 ACACGACCGTGTG
1 ACACGACCGTGTG
61447124 AC
1 AC
61447126 CCTACTCAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.32, G:0.29, T:0.14
Consensus pattern (13 bp):
ACACGACCGTGTG
Found at i:61449565 original size:8 final size:8
Alignment explanation
Indices: 61449552--61449579 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
61449542 AAGGAAGTGT
61449552 AGTGGTTA
1 AGTGGTTA
61449560 AGTGGTTA
1 AGTGGTTA
61449568 AGTGGTTA
1 AGTGGTTA
61449576 AGTG
1 AGTG
61449580 CTTCTTAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.39, T:0.36
Consensus pattern (8 bp):
AGTGGTTA
Found at i:61449665 original size:61 final size:61
Alignment explanation
Indices: 61449570--61449692 Score: 203
Period size: 61 Copynumber: 2.0 Consensus size: 61
61449560 AGTGGTTAAG
* *
61449570 TGGTTAAGTGCTTCTTAACTATCCTTTAAGTCTCTAGTTCGAACCTTTATGTG-TCTATTAT
1 TGGTTAAGTGCTCCTTAACTATCCTTTAAGTCTCTAGTTCGAACCCTTATGTGCT-TATTAT
*
61449631 TGGTTAAGTGCTCCTTAACTATCCTTTAAGTCTCTAGTTTGAACCCTTATGTGCTTATTAT
1 TGGTTAAGTGCTCCTTAACTATCCTTTAAGTCTCTAGTTCGAACCCTTATGTGCTTATTAT
61449692 T
1 T
61449693 TTTATTTAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 57 0.98
62 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.46
Consensus pattern (61 bp):
TGGTTAAGTGCTCCTTAACTATCCTTTAAGTCTCTAGTTCGAACCCTTATGTGCTTATTAT
Found at i:61459813 original size:6 final size:6
Alignment explanation
Indices: 61459792--61459853 Score: 63
Period size: 6 Copynumber: 10.2 Consensus size: 6
61459782 TATTAGAACT
* * * *
61459792 AGAATC AAAATA AGAATC AGAATC AGGATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
61459841 AGAATC AGAATC A
1 AGAATC AGAATC A
61459854 AAATTACGTG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
5 1 0.02
6 41 0.89
7 3 0.07
8 1 0.02
ACGTcount: A:0.50, C:0.15, G:0.19, T:0.16
Consensus pattern (6 bp):
AGAATC
Found at i:61459842 original size:31 final size:31
Alignment explanation
Indices: 61459804--61459913 Score: 94
Period size: 31 Copynumber: 3.4 Consensus size: 31
61459794 AATCAAAATA
*
61459804 AGAATCAGAATCAGGATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
* * *
61459835 AGAATCAGAATCAGAATCAAAATTACGTGACAAAATT
1 AGAATCAGAATCAGAATC------AGGTGACAGAATC
* * *
61459872 AGAATTAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
61459903 AAAATCAGAAT
1 AGAATCAGAAT
61459914 GTGAATGCAA
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
31 35 0.57
37 26 0.43
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:61459906 original size:37 final size:36
Alignment explanation
Indices: 61459792--61459913 Score: 110
Period size: 37 Copynumber: 3.5 Consensus size: 36
61459782 TATTAGAACT
* *
61459792 AGAATCAAAATAAGAATCAGAATCAGGATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGT-AC
* * * *
61459829 AGAATCAGAATCAGAATCAGAATCAAAATTACGT--
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAC
* * *
61459863 -G-A-CAAAATTAGAATTAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGT-AC
61459897 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
61459914 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 14, Indels: 12
0.71 0.15 0.13
Matches are distributed among these distances:
31 22 0.34
32 1 0.02
33 1 0.02
35 1 0.02
36 1 0.02
37 39 0.60
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (36 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAC
Found at i:61460376 original size:27 final size:27
Alignment explanation
Indices: 61460346--61460486 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
61460336 GGGAAAAATG
* * * *
61460346 GTAATTTTACCCCATAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
61460373 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
61460400 GTATTTCTACCCTATAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
61460427 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
61460454 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
61460481 ATAATT
1 GTAATT
61460487 TAGTAAATCG
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:61460411 original size:54 final size:54
Alignment explanation
Indices: 61460349--61460486 Score: 206
Period size: 54 Copynumber: 2.6 Consensus size: 54
61460339 AAAAATGGTA
* * *
61460349 ATTT-TACCCCATAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGT
*
61460402 ATTTCTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGT
* * *
61460456 AATTCTACCCTACAAGGGTATTTCAATAATT
1 ATTTCTACCCTATAAGGGTATTTCAGTAATT
61460487 TAGTAAATCG
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
53 4 0.05
54 72 0.95
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (54 bp):
ATTTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGT
Found at i:61462569 original size:6 final size:6
Alignment explanation
Indices: 61462548--61462669 Score: 61
Period size: 6 Copynumber: 19.8 Consensus size: 6
61462538 TATTAGAACT
* * * *
61462548 AGAATC AAAATA AGAATC AGAATC AGGATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * * * * *
61462597 AGAATC AGAGTC AAAATT ACGTGA-C AGAATT AGAATT AGAATC AGTATC
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC
*
61462646 A-AATAAC AGAATC AAAATC AGAAT
1 AGAAT--C AGAATC AGAATC AGAAT
61462670 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 21, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
5 4 0.05
6 71 0.83
7 6 0.07
8 5 0.06
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:61462589 original size:37 final size:37
Alignment explanation
Indices: 61462548--61462648 Score: 112
Period size: 37 Copynumber: 2.7 Consensus size: 37
61462538 TATTAGAACT
* ** *
61462548 AGAATCAAAATAAGAATCAGAATCAGGATCAGGTGAC
1 AGAATCAGAATAAGAATCAGAATCAAAATCACGTGAC
* * *
61462585 AGAATCAGAATCAGAATCAGAGTCAAAATTACGTGAC
1 AGAATCAGAATAAGAATCAGAATCAAAATCACGTGAC
* * *
61462622 AGAATTAGAATTAGAATCAGTATCAAA
1 AGAATCAGAATAAGAATCAGAATCAAA
61462649 TAACAGAATC
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATAAGAATCAGAATCAAAATCACGTGAC
Found at i:61463137 original size:27 final size:27
Alignment explanation
Indices: 61463107--61463214 Score: 162
Period size: 27 Copynumber: 4.0 Consensus size: 27
61463097 AGGGCAAAAT
* * * *
61463107 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
61463134 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
61463161 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
61463188 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
61463215 AATAATTTAG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:61463245 original size:54 final size:54
Alignment explanation
Indices: 61463133--61463250 Score: 130
Period size: 54 Copynumber: 2.2 Consensus size: 54
61463123 AAGGGTATCT
* * ** ***
61463133 CGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTT
1 CGGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCAAACAAGGGTAAAA
** *
61463187 CGGTAATTCTACCCTACAAGGGTATTTCAATAATT-TAGTAAATCGAGGGTAAAA
1 CGGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCAAA-CAAGGGTAAAA
61463241 CGGTAATTCT
1 CGGTAATTCT
61463251 GTAAATCAGG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 3 0.06
54 50 0.94
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (54 bp):
CGGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCAAACAAGGGTAAAA
Found at i:61465313 original size:6 final size:6
Alignment explanation
Indices: 61465283--61465385 Score: 66
Period size: 6 Copynumber: 16.8 Consensus size: 6
61465273 TATTAGAACT
* * * * *
61465283 AGAATC AAAATA AGAATC AGGATC AGAATC AGAATC AGAATC AAAATT
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
* * * * *
61465331 AG-GTGAC AGAATT AGAATC AAAATC AGTATC AGGTAAT- AGAATC AAAATC
1 AGAAT--C AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
61465381 AGAAT
1 AGAAT
61465386 GTGAATGCAA
Statistics
Matches: 71, Mismatches: 20, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
5 4 0.06
6 60 0.85
7 4 0.06
8 3 0.04
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:61465373 original size:31 final size:30
Alignment explanation
Indices: 61465276--61465373 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 30
61465266 GAAACATTAT
* *
61465276 TAGAACTAGAATCAAAATAAGAATCAGG-A
1 TAGAATTAGAATCAAAATCAGAATCAGGTA
* * * *
61465305 TCAGAATCAGAATCAGAATCAAAATTAGGTGA
1 T-AGAATTAGAATCAAAATCAGAATCAGGT-A
* *
61465337 CAGAATTAGAATCAAAATCAGTATCAGGTAA
1 TAGAATTAGAATCAAAATCAGAATCAGGT-A
61465368 TAGAAT
1 TAGAAT
61465374 CAAAATCAGA
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
29 1 0.02
30 21 0.40
31 29 0.56
32 1 0.02
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.21
Consensus pattern (30 bp):
TAGAATTAGAATCAAAATCAGAATCAGGTA
Found at i:61465602 original size:29 final size:28
Alignment explanation
Indices: 61465504--61465615 Score: 84
Period size: 29 Copynumber: 3.9 Consensus size: 28
61465494 GCGAGGCTAC
* * *
61465504 CAGATATTGTGACGAAGTCACCAGA-TA
1 CAGATATTGTGGCGAAGCCACCAGATTG
* * * *
61465531 CAGATATTGTTGCTAGGCCACCAGAATAG
1 CAGATATTGTGGCGAAGCCACCAG-ATTG
* *
61465560 ATATATATATGTGGCGAAGCCACCAGATTG
1 -CAGATAT-TGTGGCGAAGCCACCAGATTG
61465590 CAGATATTTGTGGC-ATAGCCACCAGA
1 CAGATA-TTGTGGCGA-AGCCACCAGA
61465616 ACACTTCCTC
Statistics
Matches: 64, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
27 19 0.30
28 2 0.03
29 20 0.31
30 9 0.14
31 14 0.22
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (28 bp):
CAGATATTGTGGCGAAGCCACCAGATTG
Found at i:61465851 original size:27 final size:27
Alignment explanation
Indices: 61465820--61465960 Score: 185
Period size: 27 Copynumber: 5.2 Consensus size: 27
61465810 GGGCAAAATG
* * *
61465820 GTAATTTTACCCTACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
61465847 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
61465874 GTATTTCTATCCTACGAA-GGTATTTCA
1 GTAATTCTACCCTAC-AAGGGTATTTCA
*
61465901 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
61465928 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
61465955 ATAATT
1 GTAATT
61465961 TTGTAAATCG
Statistics
Matches: 98, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 96 0.98
28 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:61468890 original size:5 final size:5
Alignment explanation
Indices: 61468880--61468904 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
61468870 GATGCCAACC
61468880 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
61468905 TTTTTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:61477798 original size:14 final size:16
Alignment explanation
Indices: 61477764--61477800 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
61477754 CAAAGAGGGT
*
61477764 ATTTTTGAAAAATCTA
1 ATTTTTGAAAAATCAA
61477780 ATTTTTG-AAAA-CAA
1 ATTTTTGAAAAATCAA
61477794 ATTTTTG
1 ATTTTTG
61477801 TTGAAAGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 4 0.20
16 7 0.35
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (16 bp):
ATTTTTGAAAAATCAA
Found at i:61485892 original size:43 final size:43
Alignment explanation
Indices: 61485756--61485929 Score: 151
Period size: 43 Copynumber: 4.0 Consensus size: 43
61485746 CATAGGATTC
* * * *
61485756 TGATATGTGATTTCGTGTAAGACCACGTTTGGGACATTAGCAT
1 TGATATTTGATTTCGTGTAAGACCACGTCTGGGACAGTGGCAT
* * * * *
61485799 CGAT-TTGAGATTTACGTGTAAGATCATGTCTGGGACA-TCGACA-
1 TGATATT-TGATTT-CGTGTAAGACCACGTCTGGGACAGT-GGCAT
*
61485842 TCATATTTGATTTCGTGTAAGACC-CTGTCTGGGACAGTGGCAT
1 TGATATTTGATTTCGTGTAAGACCAC-GTCTGGGACAGTGGCAT
* * *
61485885 TGATATTTGATTACATATAAGACCACGTCTGGGAC-GTTGGCAT
1 TGATATTTGATTTCGTGTAAGACCACGTCTGGGACAG-TGGCAT
61485928 TG
1 TG
61485930 TACGAGCTTT
Statistics
Matches: 104, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 25 0.24
43 54 0.52
44 25 0.24
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
TGATATTTGATTTCGTGTAAGACCACGTCTGGGACAGTGGCAT
Found at i:61486939 original size:6 final size:6
Alignment explanation
Indices: 61486909--61487010 Score: 75
Period size: 6 Copynumber: 16.7 Consensus size: 6
61486899 AAGAAACATT
* *
61486909 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
61486957 ATCAGGTG AT-AGA ATTAGA ATCAAA ATCAGT ATCAGGTA A-CAGA ATCAAA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
61487007 ATCA
1 ATCA
61487011 AAATATGAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
5 5 0.07
6 62 0.82
7 6 0.08
8 3 0.04
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:61486977 original size:31 final size:31
Alignment explanation
Indices: 61486936--61487014 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
61486926 AATGAGAATC
*
61486936 AGAATCAGAATCAGAATCAGAATCAGGTGAT
1 AGAATCAGAATCAAAATCAGAATCAGGTGAT
* * * *
61486967 AGAATTAGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAGAATCAAAATCAGAATCAGGTGAT
*
61486998 AGAATCAAAATCAAAAT
1 AGAATCAGAATCAAAAT
61487015 ATGAATGCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAAAATCAGAATCAGGTGAT
Found at i:61487205 original size:33 final size:32
Alignment explanation
Indices: 61487154--61487217 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
61487144 ACAAAGTCAC
* *
61487154 TAGATACAGATATTGTGGCTAGGCCACCAGAA
1 TAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
61487186 TAGATATATATATATGTGGCGAAGCCACCAGA
1 TAGATACAGATAT-TGTGGCGAAGCCACCAGA
61487218 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (32 bp):
TAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:61487482 original size:27 final size:27
Alignment explanation
Indices: 61487452--61487994 Score: 608
Period size: 27 Copynumber: 20.1 Consensus size: 27
61487442 TAACACGCTA
** * *
61487452 AGGGTAAAATGGTAATTTTATAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
61487479 AGGGTAAAACGGTAATTCTGTAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * *
61487506 ATGGTAAAACAGTAATTTTGTAAATTG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * *
61487533 AGGGTAAAATAGTAATTTTGTAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
61487560 AGGGTAAAACAGTAATTTTGTCAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
61487587 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * *
61487614 AGGGTAAAATAGTAATTTTGTAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
61487641 AGGATAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
61487668 AGGGTAAAATAGTAATTCTGTCAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * * *
61487695 AGGGTCAAACGGTAATTCTATAAATTG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
61487722 AGGGTAAAACAGTAATTTTGTAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * * *
61487749 ATGGTAAAATAGTAATTCTATAAATTG
1 AGGGTAAAACAGTAATTCTGTAAATCG
*
61487776 AGGGTAAAACAGTAATTCTGTAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATCG
* *
61487803 AGGGTAAAACGGTAATTCTGTCAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
*
61487830 AGGGTAAAAC-GATAATTCTATAAATCG
1 AGGGTAAAACAG-TAATTCTGTAAATCG
* * *
61487857 AGGGTAAAATAGTAATTTTGTAAATTG
1 AGGGTAAAACAGTAATTCTGTAAATCG
*
61487884 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * **
61487911 AGGGTAAAATAGTAATTTTGTAAATAA
1 AGGGTAAAACAGTAATTCTGTAAATCG
*
61487938 AGGGTAAAAC-GATAATTTTGTAAATCG
1 AGGGTAAAACAG-TAATTCTGTAAATCG
*
61487965 AGGGTAAAA-TGATAATTCTGTAAATC-
1 AGGGTAAAACAG-TAATTCTGTAAATCG
61487991 AGGG
1 AGGG
61487995 GTACTTTGGT
Statistics
Matches: 433, Mismatches: 79, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
26 6 0.01
27 426 0.98
28 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
AGGGTAAAACAGTAATTCTGTAAATCG
Found at i:61488036 original size:27 final size:27
Alignment explanation
Indices: 61488006--61488068 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
61487996 TACTTTGGTT
61488006 ATTTTACAAGTCGAGGGTATTTCAATA
1 ATTTTACAAGTCGAGGGTATTTCAATA
* * * * *
61488033 ATTTTATAGGTCGATGGTATTTTAGTA
1 ATTTTACAAGTCGAGGGTATTTCAATA
*
61488060 ATTTCACAA
1 ATTTTACAA
61488069 ATTAGGGGTA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (27 bp):
ATTTTACAAGTCGAGGGTATTTCAATA
Found at i:61488204 original size:26 final size:27
Alignment explanation
Indices: 61488048--61488197 Score: 203
Period size: 27 Copynumber: 5.6 Consensus size: 27
61488038 ATAGGTCGAT
* * **
61488048 GGTATTTTAGTAATTTCACAAATTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
61488075 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
61488102 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*** *
61488129 GGTATTTTGGTAATTTGGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
61488156 GGTATTTTAGTAATTTTACAAACCA-G
1 GGTATTTTGGTAATTTTACAAACCAGG
61488182 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
61488198 GGAAAACTAA
Statistics
Matches: 110, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 16 0.15
27 94 0.85
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACCAGG
Found at i:61488212 original size:26 final size:26
Alignment explanation
Indices: 61488075--61488213 Score: 104
Period size: 27 Copynumber: 5.2 Consensus size: 26
61488065 ACAAATTAGG
* * *
61488075 GGTATTTTGGTAATTT-TACAAACTAGG
1 GGTATTTTGGTAATTTGGA-AAACCA-A
* *
61488102 GGTATTTTGGTAATTT-TACAAACCAGG
1 GGTATTTTGGTAATTTGGA-AAACCA-A
*
61488129 GGTATTTTGGTAATTTGGTAAACCAA
1 GGTATTTTGGTAATTTGGAAAACCAA
* * *
61488155 GGGTATTTTAGTAATTT-TACAAACCAG
1 -GGTATTTTGGTAATTTGGA-AAACCAA
*
61488182 GGTATTTTGGTAATTTGGAAAACTAA
1 GGTATTTTGGTAATTTGGAAAACCAA
*
61488208 AGTATT
1 GGTATT
61488214 CTAAACAGGG
Statistics
Matches: 95, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
26 25 0.26
27 70 0.74
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.39
Consensus pattern (26 bp):
GGTATTTTGGTAATTTGGAAAACCAA
Found at i:61490741 original size:42 final size:42
Alignment explanation
Indices: 61490626--61490793 Score: 214
Period size: 43 Copynumber: 4.0 Consensus size: 42
61490616 ACCGAGATGA
* *
61490626 GATTACATGTAAGACCATGTCTGGGACATTAGCATTGTATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTA-TGT
*
61490669 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATGT
*
61490712 GATTACATGTAA-ACCATGTCTGGGACATTGGCATCGATATGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATGT
* * * * *
61490754 GATAACATGTAATACCATATCTGGGATA-TGGCATTGTATG
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATG
61490794 AGCTTTATGT
Statistics
Matches: 113, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
41 4 0.04
42 46 0.41
43 61 0.54
44 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATGT
Found at i:61490771 original size:85 final size:85
Alignment explanation
Indices: 61490626--61490787 Score: 220
Period size: 85 Copynumber: 1.9 Consensus size: 85
61490616 ACCGAGATGA
* * * * *
61490626 GATTACATGTAAGACCATGTCTGGGACATTAGCATTGTATTGTGATTACGTGTAAGACCATGTCT
1 GATTACATGTAAGACCATGTCTGGGACATTAGCATCGTATTGAGATAACATGTAAGACCATATCT
61490691 GGGACATTGGCATCGTTATGT
66 GGGACA-TGGCATCGTTATGT
* *
61490712 GATTACATGTAA-ACCATGTCTGGGACATTGGCATCG-ATATGAGATAACATGTAATACCATATC
1 GATTACATGTAAGACCATGTCTGGGACATTAGCATCGTAT-TGAGATAACATGTAAGACCATATC
*
61490775 TGGGATATGGCAT
65 TGGGACATGGCAT
61490788 TGTATGAGCT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
84 8 0.12
85 47 0.70
86 12 0.18
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (85 bp):
GATTACATGTAAGACCATGTCTGGGACATTAGCATCGTATTGAGATAACATGTAAGACCATATCT
GGGACATGGCATCGTTATGT
Found at i:61491262 original size:33 final size:33
Alignment explanation
Indices: 61491222--61491313 Score: 112
Period size: 33 Copynumber: 2.8 Consensus size: 33
61491212 TAAGTTGTCG
*
61491222 AATAAGACCATAGCTGGGCTATGGCAATCGAAT
1 AATAAGACCATAGCTGGACTATGGCAATCGAAT
* *
61491255 AATAAGACCATAGCTAGACTATGGCAATCGACT
1 AATAAGACCATAGCTGGACTATGGCAATCGAAT
* * * **
61491288 AAAAAGACTATAACTGGTTTATGGCA
1 AATAAGACCATAGCTGGACTATGGCA
61491314 CGTGAAAGAA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (33 bp):
AATAAGACCATAGCTGGACTATGGCAATCGAAT
Found at i:61514441 original size:45 final size:45
Alignment explanation
Indices: 61514382--61514640 Score: 331
Period size: 45 Copynumber: 5.8 Consensus size: 45
61514372 TCATATGATG
* * **
61514382 CCATAGCATCTTTTAGCTATAGTCTTACTCATTTTTATCATGATG
1 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
* * * * * * * *
61514427 CCACAACATATTTTAGCTATGTTCTTGCTCACTTTTATCATGACG
1 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
*
61514472 CCATAGCATCTTTCAGCTATGGTCTTACTAATTTTTATCATGACA
1 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
* * * * * *
61514517 TCATAGCATATTTCAACTATGGTCTTGCTCACTTTTATCATAACA
1 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
61514562 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
1 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
*
61514607 CCATAGCATCTTTCAGTTAT-GTCTTACTCATTTT
1 CCATAGCATCTTTCAGCTATGGTCTTACTCATTTT
61514641 AGGTTTAAAA
Statistics
Matches: 183, Mismatches: 31, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
44 14 0.08
45 169 0.92
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (45 bp):
CCATAGCATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACA
Found at i:61514865 original size:20 final size:19
Alignment explanation
Indices: 61514819--61514865 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
61514809 AGAGCGAAAG
61514819 AAACGAG-AAACGGGCCAA
1 AAACGAGAAAACGGGCCAA
* *
61514837 CAACGGAGAAAATGGGCCAA
1 AAAC-GAGAAAACGGGCCAA
61514857 AATACGAGA
1 AA-ACGAGA
61514866 TCAACACGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.13
19 3 0.13
20 15 0.65
21 2 0.09
ACGTcount: A:0.49, C:0.19, G:0.28, T:0.04
Consensus pattern (19 bp):
AAACGAGAAAACGGGCCAA
Found at i:61514969 original size:13 final size:13
Alignment explanation
Indices: 61514951--61514975 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61514941 AAATAATCAC
61514951 ACACGGGCGTGTT
1 ACACGGGCGTGTT
61514964 ACACGGGCGTGT
1 ACACGGGCGTGT
61514976 CCCTGCCGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:61531784 original size:50 final size:48
Alignment explanation
Indices: 61531661--61531793 Score: 125
Period size: 50 Copynumber: 2.8 Consensus size: 48
61531651 CATTGAGACA
*
61531661 AGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGT
1 AGAG-CAGTGTAAGACCATGTCTGAGACATGGCATCGGCTACGAGATGT
* * * *
61531708 -G-TCAGTATAAGACTATGTCT-AGGACATGGCATCGGC-ACGGATATGT
1 AGAGCAGTGTAAGACCATGTCTGA-GACATGGCATCGGCTAC-GAGATGT
*
61531754 GAGAGCTAGTGTAAGACCATGTCTGAGACATGGCGTCGGC
1 -AGAGC-AGTGTAAGACCATGTCTGAGACATGGCATCGGC
61531794 CTCGATTTCG
Statistics
Matches: 68, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
44 9 0.13
45 13 0.19
46 15 0.22
48 1 0.01
49 1 0.01
50 28 0.41
51 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.23
Consensus pattern (48 bp):
AGAGCAGTGTAAGACCATGTCTGAGACATGGCATCGGCTACGAGATGT
Found at i:61533154 original size:85 final size:85
Alignment explanation
Indices: 61533011--61533180 Score: 331
Period size: 85 Copynumber: 2.0 Consensus size: 85
61533001 AGATCGTCGG
61533011 AGGCAGCATCACACTATCAAGTCGCTATCTTTGGAATAATGAAGCATATATTAGAAATTTCAAGT
1 AGGCAGCATCACACTATCAAGTCGCTATCTTTGGAATAATGAAGCATATATTAGAAATTTCAAGT
*
61533076 AAGTGGCATTTATAGGGATC
66 AAATGGCATTTATAGGGATC
61533096 AGGCAGCATCACACTATCAAGTCGCTATCTTTGGAATAATGAAGCATATATTAGAAATTTCAAGT
1 AGGCAGCATCACACTATCAAGTCGCTATCTTTGGAATAATGAAGCATATATTAGAAATTTCAAGT
61533161 AAATGGCATTTATAGGGATC
66 AAATGGCATTTATAGGGATC
61533181 TAGTTGATTG
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.29
Consensus pattern (85 bp):
AGGCAGCATCACACTATCAAGTCGCTATCTTTGGAATAATGAAGCATATATTAGAAATTTCAAGT
AAATGGCATTTATAGGGATC
Found at i:61535543 original size:15 final size:16
Alignment explanation
Indices: 61535520--61535561 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
61535510 TGATATTTTC
61535520 TTCTGGATTTCTT-TA
1 TTCTGGATTTCTTATA
61535535 TGT-TGGATTT-TTATA
1 T-TCTGGATTTCTTATA
61535550 TTCTGGATTTCT
1 TTCTGGATTTCT
61535562 CCGTTATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 3 0.13
15 18 0.78
16 2 0.09
ACGTcount: A:0.14, C:0.10, G:0.17, T:0.60
Consensus pattern (16 bp):
TTCTGGATTTCTTATA
Found at i:61540910 original size:40 final size:40
Alignment explanation
Indices: 61540846--61540942 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
61540836 ACTCGATATC
* * ** *
61540846 TCACACACTAAGTGTCGTACATAGCCGAAGCTATCTTAAA
1 TCACACACTAAGTGCCATTTATAGCCGAAGCTATCTCAAA
* * * * *
61540886 TCGCACACTAAGTGCCATTTATAGCTGCAGCTATGTCAAG
1 TCACACACTAAGTGCCATTTATAGCCGAAGCTATCTCAAA
61540926 TCACACACTAAGTGCCA
1 TCACACACTAAGTGCCA
61540943 CAAATAGCCG
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (40 bp):
TCACACACTAAGTGCCATTTATAGCCGAAGCTATCTCAAA
Found at i:61543369 original size:26 final size:25
Alignment explanation
Indices: 61543340--61543388 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
61543330 AACTTTGATG
61543340 ATTTAACCTATGGTAAAATTTCGACA
1 ATTTAACC-ATGGTAAAATTTCGACA
** *
61543366 ATTTTTCCCTGGTAAAATTTCGA
1 ATTTAACCATGGTAAAATTTCGA
61543389 GAAAATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (25 bp):
ATTTAACCATGGTAAAATTTCGACA
Found at i:61548173 original size:47 final size:47
Alignment explanation
Indices: 61548104--61548265 Score: 170
Period size: 47 Copynumber: 3.5 Consensus size: 47
61548094 CCGATGCCAG
* * * *
61548104 GTCCCATACACGGTCTTACACTGGCTTATATCT-TAAGTCAAAGCCAT
1 GTCCCAGACATGGTCTTACACTGGCTTATATCTCTAAGCCGAAG-CAT
* *
61548151 GTCCCAGACATGGTCTTACACTGAC-TATCATCTCGT-AGCCGACGCAT
1 GTCCCAGACATGGTCTTACACTGGCTTAT-ATCTC-TAAGCCGAAGCAT
** * * *
61548198 GTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGGCCGATGCAT
1 GTCCCAGACATGGTCTTACACTGGCTTATATCTCTAAGCCGAAGCAT
61548244 GTCCCAGACATGGTCTTACACT
1 GTCCCAGACATGGTCTTACACT
61548266 AGCTCTCACA
Statistics
Matches: 97, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
46 39 0.40
47 52 0.54
48 5 0.05
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GTCCCAGACATGGTCTTACACTGGCTTATATCTCTAAGCCGAAGCAT
Found at i:61548231 original size:46 final size:47
Alignment explanation
Indices: 61548148--61548265 Score: 170
Period size: 46 Copynumber: 2.5 Consensus size: 47
61548138 AAGTCAAAGC
61548148 CATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA-GCCGACG
1 CATGTCCCAGACATGGTCTTACACTGACTATCATCTCG-AGGCCGACG
* * *
61548195 CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGACTAT-CATCTCGAGGCCGACG
61548241 CATGTCCCAGACATGGTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
61548266 AGCTCTCACA
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
45 2 0.03
46 39 0.60
47 24 0.37
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.26
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGACTATCATCTCGAGGCCGACG
Found at i:61554573 original size:40 final size:40
Alignment explanation
Indices: 61554506--61554682 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
61554496 ACCCAAGTAT
*
61554506 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
61554545 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
61554585 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * *
61554625 CTTCGGGACATAGCTCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
61554665 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
61554683 TTATCATCCG
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 102 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:61558236 original size:46 final size:46
Alignment explanation
Indices: 61558109--61558270 Score: 166
Period size: 47 Copynumber: 3.5 Consensus size: 46
61558099 CCGATGCCAG
* * * * *
61558109 GTCCCAGACACGGTCTTACACTGGCTTATATCTCAAGTCAAAGCCAA
1 GTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGCCAAAG-CAT
* * *
61558156 GTCCCAAACATGGTCTTACACTGAC-TATCATCTCGTAGCCAACGCAT
1 GTCCCAGACATGGTCTTACACTGGCTTA-CATCTCG-AGCCAAAGCAT
* * *
61558203 GTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGGCCGATGCAT
1 GTCCCAGACATGGTCTTACACTGGCTTACATCTCGA-GCCAAAGCAT
*
61558249 TTCCCAGACATGGTCTTACACT
1 GTCCCAGACATGGTCTTACACT
61558271 AGCTCTCACA
Statistics
Matches: 96, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
45 1 0.01
46 38 0.40
47 51 0.53
48 6 0.06
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (46 bp):
GTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGCCAAAGCAT
Found at i:61559687 original size:20 final size:21
Alignment explanation
Indices: 61559649--61559687 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
61559639 AATTATTATC
*
61559649 ATTATTTTAAATTATTTAAAT
1 ATTATTTTAAATTAATTAAAT
*
61559670 ATTA-TTTAATTTAATTAA
1 ATTATTTTAAATTAATTAA
61559688 TTTTTTTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATTTTAAATTAATTAAAT
Found at i:61563867 original size:17 final size:15
Alignment explanation
Indices: 61563845--61563878 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
61563835 GAGGGCAACG
61563845 GGTGAGGGAGAGAGGGA
1 GGTGAGGGA-A-AGGGA
61563862 GGTGAGGGAAAGGGA
1 GGTGAGGGAAAGGGA
61563877 GG
1 GG
61563879 GGGACTTCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 1 0.06
17 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.65, T:0.06
Consensus pattern (15 bp):
GGTGAGGGAAAGGGA
Found at i:61569782 original size:79 final size:81
Alignment explanation
Indices: 61569646--61569828 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
61569636 TCGAATGATG
* *
61569646 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
61569710 TGTGTGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
61569725 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
61569787 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
61569805 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
61569829 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:61569844 original size:40 final size:40
Alignment explanation
Indices: 61569647--61569830 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
61569637 CGAATGATGT
* * * *
61569647 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
61569687 CCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
61569727 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
61569765 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
61569806 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
61569831 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 81 0.65
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:61569852 original size:79 final size:79
Alignment explanation
Indices: 61569699--61569863 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
61569689 GGACTAAGAT
* * **
61569699 CCGAAGGCATTTGTGTGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
61569764 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
61569778 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
61569841 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
61569857 CCGAAGG
1 CCGAAGG
61569864 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:61571626 original size:22 final size:21
Alignment explanation
Indices: 61571601--61571655 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
61571591 TACAGGGCTC
**
61571601 ACACACCCGTGTGGTCCAAGGG
1 ACACACCCGTGTGACCCAA-GG
* * *
61571623 ACACGCCCATGTGACCCTAGG
1 ACACACCCGTGTGACCCAAGG
61571644 ACACACCCGTGT
1 ACACACCCGTGT
61571656 TGAAGGCTGT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.24, C:0.36, G:0.25, T:0.15
Consensus pattern (21 bp):
ACACACCCGTGTGACCCAAGG
Found at i:61581336 original size:40 final size:40
Alignment explanation
Indices: 61581238--61581500 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
61581228 TCCTCGTTCA
* * * * *
61581238 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
61581277 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
61581317 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
61581357 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
61581397 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
61581437 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
61581477 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61581501 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:61584761 original size:29 final size:29
Alignment explanation
Indices: 61584719--61584776 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
61584709 ATGGCACTTC
61584719 TCACCAAACAGATAATGTCGCCATATTTT
1 TCACCAAACAGATAATGTCGCCATATTTT
61584748 TCACCAAACAGATAATGTCGCCATATTTT
1 TCACCAAACAGATAATGTCGCCATATTTT
61584777 CAAAGCGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.31
Consensus pattern (29 bp):
TCACCAAACAGATAATGTCGCCATATTTT
Found at i:61589313 original size:40 final size:40
Alignment explanation
Indices: 61589215--61589477 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
61589205 TCCTCGTTCA
* * * * *
61589215 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
61589254 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
61589294 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
61589334 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
61589374 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
61589414 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
61589454 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61589478 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:61593277 original size:42 final size:42
Alignment explanation
Indices: 61593230--61593320 Score: 182
Period size: 42 Copynumber: 2.2 Consensus size: 42
61593220 GACCCTTAGA
61593230 CCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAAG
1 CCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAAG
61593272 CCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAAG
1 CCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAAG
61593314 CCCATTT
1 CCCATTT
61593321 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (42 bp):
CCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAAG
Found at i:61593501 original size:25 final size:25
Alignment explanation
Indices: 61593468--61593537 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
61593458 CTCTTTTAAT
*
61593468 AACTAGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
61593493 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
61593518 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
61593538 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:61599594 original size:43 final size:43
Alignment explanation
Indices: 61599517--61599598 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
61599507 GCTGGTATTA
* **
61599517 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
* *
61599560 TATTCGGGCCTTTGTGCCTAGTAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
61599599 AATGATATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.12, C:0.23, G:0.34, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
Found at i:61601568 original size:27 final size:28
Alignment explanation
Indices: 61601537--61601605 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
61601527 TACGGAACAT
*
61601537 AAGGGCATATT-C-GTCATTTTACCATAC
1 AAGGGC-TATTACGGTCACTTTACCATAC
*
61601564 AAGGG-TATTACGGTCACTTTACCCTAC
1 AAGGGCTATTACGGTCACTTTACCATAC
61601591 AAGGGCT-TTACGGTC
1 AAGGGCTATTACGGTC
61601606 TTTTTACCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
25 4 0.11
26 1 0.03
27 31 0.84
28 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (28 bp):
AAGGGCTATTACGGTCACTTTACCATAC
Found at i:61601611 original size:27 final size:27
Alignment explanation
Indices: 61601549--61601613 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
61601539 GGGCATATTC
61601549 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACCATACAAGGGTATTACG
* *
61601576 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCATTTTACCATACAAGGG-TATTACG
*
61601603 GTCTTTTTACC
1 GTCATTTTACC
61601614 TATTAGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGTATTACG
Found at i:61601697 original size:27 final size:27
Alignment explanation
Indices: 61601667--61601828 Score: 87
Period size: 27 Copynumber: 5.9 Consensus size: 27
61601657 GTAAATCCAC
61601667 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
* **
61601694 AAACTAATAGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
*
61601720 AGAAAGTCAAGGGTATTTCTATAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
** * * *
61601750 AAATTAGGGGTATTT-TGGTAATTTTAT
1 AAACCAAGGGTATTTCT-ATAATTTTGT
*** * * ***
61601777 AAATTGAGGGTGTTTCGATAATTTCAC
1 AAACCAAGGGTATTTCTATAATTTTGT
* *
61601804 AAACCAATGGTATTTCGATAATTTT
1 AAACCAAGGGTATTTCTATAATTTT
61601829 ACAAACTAGG
Statistics
Matches: 104, Mismatches: 24, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
26 2 0.02
27 76 0.73
28 7 0.07
29 18 0.17
30 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:61601832 original size:27 final size:27
Alignment explanation
Indices: 61601703--61601880 Score: 142
Period size: 27 Copynumber: 6.5 Consensus size: 27
61601693 TAAACTAATA
* * * *
61601703 GTATTTCTATAATTTTTAGAAAGTCAAGG
1 GTATTTCGATAA-TTTTACAAACT-AGGG
* ** *
61601732 GTATTTCTATAATTTTGTAAATTAGGG
1 GTATTTCGATAATTTTACAAACTAGGG
* * * *
61601759 GTATTTTGGTAATTTTATAAA-TTGAGG
1 GTATTTCGATAATTTTACAAACTAG-GG
* * * **
61601786 GTGTTTCGATAATTTCACAAACCAATG
1 GTATTTCGATAATTTTACAAACTAGGG
61601813 GTATTTCGATAATTTTACAAACTAGGG
1 GTATTTCGATAATTTTACAAACTAGGG
* *
61601840 GTATTTTGGTAATTTTACAAACTAGGG
1 GTATTTCGATAATTTTACAAACTAGGG
*
61601867 GTATTTCGGTAATT
1 GTATTTCGATAATT
61601881 CTATCCTACA
Statistics
Matches: 121, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
26 2 0.02
27 99 0.82
28 8 0.07
29 12 0.10
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
GTATTTCGATAATTTTACAAACTAGGG
Found at i:61601874 original size:81 final size:81
Alignment explanation
Indices: 61601731--61601880 Score: 212
Period size: 81 Copynumber: 1.9 Consensus size: 81
61601721 GAAAGTCAAG
* ** * * * *
61601731 GGTATTTCTATAATTTTGTAAATTAGGGGTATTTTGGTAATTTTATAAATTGAGGGTGTTTCGAT
1 GGTATTTCGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGAT
61601796 AATTTCACAAACCAAT
66 AATTTCACAAACCAAT
*
61601812 GGTATTTCGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGG
1 GGTATTTCGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGA
61601876 TAATT
65 TAATT
61601881 CTATCCTACA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
81 58 0.97
82 2 0.03
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (81 bp):
GGTATTTCGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGAT
AATTTCACAAACCAAT
Found at i:61601920 original size:27 final size:27
Alignment explanation
Indices: 61601754--61601913 Score: 128
Period size: 27 Copynumber: 5.9 Consensus size: 27
61601744 TTTTGTAAAT
* * *
61601754 TAGGGGTATTTTGGTAATTTTATAAA-
1 TAGGGGTATTTCGGTAATTTCACAAAC
* * *
61601780 TTGAGGGTGTTTCGATAATTTCACAAAC
1 TAG-GGGTATTTCGGTAATTTCACAAAC
* ** * *
61601808 CAATGGTATTTCGATAATTTTACAAAC
1 TAGGGGTATTTCGGTAATTTCACAAAC
* *
61601835 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTCGGTAATTTCACAAAC
**
61601862 TAGGGGTATTTCGGTAA-TTCTATCCTAC
1 TAGGGGTATTTCGGTAATTTC-A-CAAAC
*
61601890 -AGGGGTATTTCAGTAATTTCACAA
1 TAGGGGTATTTCGGTAATTTCACAA
61601914 TCGAGGGTAA
Statistics
Matches: 105, Mismatches: 24, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
26 5 0.05
27 94 0.90
28 6 0.06
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
TAGGGGTATTTCGGTAATTTCACAAAC
Found at i:61601946 original size:27 final size:27
Alignment explanation
Indices: 61601912--61602109 Score: 247
Period size: 27 Copynumber: 7.3 Consensus size: 27
61601902 GTAATTTCAC
*
61601912 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
61601939 GA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTTTGTA
*
61601966 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
61601993 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
61602020 AATCGAGGGTAAAATGGTAATTTAT-TA
1 AATCGAGGGTAAAATGGTAATTT-TGTA
* ** * *
61602047 AATCGAGGGTGAAACAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* **
61602074 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTTTGTA
61602101 AATCGAGGG
1 AATCGAGGG
61602110 CATTTCTGTA
Statistics
Matches: 153, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
26 2 0.01
27 149 0.97
28 2 0.01
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:61602028 original size:81 final size:81
Alignment explanation
Indices: 61601912--61602109 Score: 283
Period size: 81 Copynumber: 2.4 Consensus size: 81
61601902 GTAATTTCAC
* * * *
61601912 AATCGAGGGTAAAACGGTAATTTTGTAGA-CTGAGGGTAAAATGGTAATTT-TGTAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAATGGTAATTTAT-TAAATCGAGGG
** *
61601975 TAAAATGGTAATTCTGTA
64 TAAAACAGTAATTCTATA
*
61601993 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTATTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTATTAAATCGAGGGTA
61602058 AAACAGTAATTCTATA
66 AAACAGTAATTCTATA
*
61602074 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
61602110 CATTTCTGTA
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
81 104 0.98
82 2 0.02
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTATTAAATCGAGGGTA
AAACAGTAATTCTATA
Found at i:61602315 original size:17 final size:17
Alignment explanation
Indices: 61602295--61602337 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
61602285 AACTTATCCA
*
61602295 ATTGGGCTCGTAGGCCC
1 ATTGGGCCCGTAGGCCC
61602312 ATTGGGCCCGTAGGCCC
1 ATTGGGCCCGTAGGCCC
61602329 ATTGGGCCC
1 ATTGGGCCC
61602338 ACATGGCCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.12, C:0.33, G:0.35, T:0.21
Consensus pattern (17 bp):
ATTGGGCCCGTAGGCCC
Found at i:61616453 original size:22 final size:21
Alignment explanation
Indices: 61616428--61616469 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
61616418 CTTTTTAACT
*
61616428 AATTAAGTATTTTGCCATTTTC
1 AATTAAGT-TCTTGCCATTTTC
*
61616450 AATTTAGTTCTTGCCATTTT
1 AATTAAGTTCTTGCCATTTT
61616470 TCTCTAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (21 bp):
AATTAAGTTCTTGCCATTTTC
Found at i:61617704 original size:24 final size:24
Alignment explanation
Indices: 61617668--61617713 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
61617658 TCAATACAGG
*
61617668 ACAACACCAAAGTACATAATCAAA
1 ACAAAACCAAAGTACATAATCAAA
* *
61617692 ACAAAACCGAAGTGCATAATCA
1 ACAAAACCAAAGTACATAATCA
61617714 GGATAGCACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.54, C:0.24, G:0.09, T:0.13
Consensus pattern (24 bp):
ACAAAACCAAAGTACATAATCAAA
Found at i:61624522 original size:110 final size:110
Alignment explanation
Indices: 61624288--61624487 Score: 355
Period size: 110 Copynumber: 1.8 Consensus size: 110
61624278 ATGTTTTAAA
61624288 ATATGAATGAAATTTTATGGCCCGGTTTGCATGACTGTTTGTATTTAAGTTCGGTAATGCCTCGT
1 ATATGAATGAAATTTTATGGCCCGGTTTGCATGACTGTTTGTATTTAAGTTCGGTAATGCCTCGT
* ** *
61624353 ACCCTGTCCCGGCGTTGGACACGGGTAGGAGGTGTTACAAGAATG
66 ACCCTATCCCGGCGTTGGACACAAGTAGGAGGTATTACAAGAATG
61624398 ATATGAATGAAATTTTATGGCCCGGTTTGCATGACTGTTTGTATTTAAGTTCGGTAATGCCTCGT
1 ATATGAATGAAATTTTATGGCCCGGTTTGCATGACTGTTTGTATTTAAGTTCGGTAATGCCTCGT
*
61624463 ACCCTATCCCGGCGTTGGACCCAAG
66 ACCCTATCCCGGCGTTGGACACAAG
61624488 ATGAGTTAAT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 86 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (110 bp):
ATATGAATGAAATTTTATGGCCCGGTTTGCATGACTGTTTGTATTTAAGTTCGGTAATGCCTCGT
ACCCTATCCCGGCGTTGGACACAAGTAGGAGGTATTACAAGAATG
Found at i:61626571 original size:40 final size:40
Alignment explanation
Indices: 61626509--61626766 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
61626499 AAGCCAAGTC
* * * * *
61626509 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
61626548 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61626588 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
61626628 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61626668 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
61626708 CCTTCGGGACTTAGCCC-AAAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
61626748 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61626767 TTATCATCCA
Statistics
Matches: 199, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 14 0.07
40 185 0.93
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61633971 original size:40 final size:40
Alignment explanation
Indices: 61633892--61634189 Score: 449
Period size: 40 Copynumber: 7.5 Consensus size: 40
61633882 AAGCCAAGTA
* * * * *
61633892 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
61633931 CCTTTGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
61633971 CCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61634011 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61634051 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
61634091 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
61634131 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
61634171 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61634190 TTATCATCCA
Statistics
Matches: 241, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
39 12 0.05
40 229 0.95
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61637818 original size:49 final size:50
Alignment explanation
Indices: 61637630--61637823 Score: 198
Period size: 49 Copynumber: 3.9 Consensus size: 50
61637620 ATCTATTGTG
* *
61637630 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATACGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT
* * * * * **
61637681 CGATCACGTGTGTAGTACTAAATGCAGGCTAC---GTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* * * * *
61637728 AGGTCACGTATGTAGTACTAAGTCCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* * *
61637778 -GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
61637824 GCTTTGGCTA
Statistics
Matches: 114, Mismatches: 26, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
47 29 0.25
48 7 0.06
49 38 0.33
50 11 0.10
51 29 0.25
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
Found at i:61642900 original size:50 final size:50
Alignment explanation
Indices: 61642809--61643039 Score: 250
Period size: 50 Copynumber: 4.6 Consensus size: 50
61642799 ATCTATTGTG
* * *
61642809 AGGTCACGTGTGTAGTACTAAGTGCAGCCTACTACATGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * *
61642859 -GGTCGCATAGTGTAGTACTAAGTACAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACAT-GTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * * **
61642910 CGATCACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
61642960 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
61643010 -GGTCGCATGTGTAGCACTAAGTGCAGGCTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTA
61643040 TTATGCGTAC
Statistics
Matches: 148, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
49 32 0.22
50 78 0.53
51 33 0.22
52 5 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:61642989 original size:101 final size:99
Alignment explanation
Indices: 61642812--61643039 Score: 260
Period size: 101 Copynumber: 2.3 Consensus size: 99
61642802 TATTGTGAGG
* * *
61642812 TCACGTGTGTAGTACTAAGTGCAGCCTACTACATGTACCGGATAATTGGTCGCATAGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACATAGTGTAGTAC
*
61642877 TAAGTACAGGCTACTATGCGTACCCGATAACTTCGA
66 TAAGTACAGGCTACTACGCGTACCCGATAA-TT-GA
* * * ** *
61642913 TCACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTATCAGATGGTTAGGTCACGT-GTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT-GGTCACATAGTGTAGTA
** * * *
61642977 CTAAGTGTAGGCTACTACGTGTACCGGATAATTGG
65 CTAAGTACAGGCTACTACGCGTACCCGATAATTGA
* * *
61643012 TCGCATGTGTAGCACTAAGTGCAGGCTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTA
61643040 TTATGCGTAC
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
99 25 0.23
100 2 0.02
101 74 0.69
102 6 0.06
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACATAGTGTAGTAC
TAAGTACAGGCTACTACGCGTACCCGATAATTGA
Found at i:61650719 original size:23 final size:22
Alignment explanation
Indices: 61650694--61650735 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
61650684 GAGATCAACA
61650694 AAAATAT-AATCACATACATATT
1 AAAATATCAATCACAT-CATATT
*
61650716 AAAATATCAATCTCATCATA
1 AAAATATCAATCACATCATA
61650736 ATAATCACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATATCAATCACATCATATT
Found at i:61653655 original size:25 final size:26
Alignment explanation
Indices: 61653610--61653661 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
61653600 TTTAATACAT
*
61653610 ATATTAATAGTATTCTATTAAT-TTA
1 ATATTAATAGTATTATATTAATATTA
*
61653635 ATATTAA-AGTGATTATCTTAATATTA
1 ATATTAATAGT-ATTATATTAATATTA
61653661 A
1 A
61653662 ATTTAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 3 0.13
25 16 0.70
26 4 0.17
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (26 bp):
ATATTAATAGTATTATATTAATATTA
Found at i:61653772 original size:26 final size:26
Alignment explanation
Indices: 61653721--61653772 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
61653711 GATTAAATAT
* *
61653721 TAAATATAATATAATATTTATCTTAA
1 TAAATATAATATAATATTAATATTAA
*
61653747 TAAATATTATATCAAT-TTAATATTAA
1 TAAATATAATAT-AATATTAATATTAA
61653773 AGTGATTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
TAAATATAATATAATATTAATATTAA
Found at i:61655707 original size:6 final size:6
Alignment explanation
Indices: 61655689--61655881 Score: 101
Period size: 6 Copynumber: 31.3 Consensus size: 6
61655679 AAGAAACATT
* *
61655689 ATCAGA A-CTAGA ATCAGA ATCAGA ATTAGA ATTAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
61655736 GTGACAGA ATCAAA ATCAGA ACCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * * * *
61655787 ATCAGT ATCAGGTA A-CAAA ATTAGA ATCAGA ACCAAA ATCAGA ATTAGGTA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* * * *
61655838 A-CAGA ATCAAA ATTAGT ATAAAGTA A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT-CAG-A ATCAGA ATCAGA ATCAGA AT
61655882 ATGAATGCAA
Statistics
Matches: 141, Mismatches: 29, Indels: 34
0.69 0.14 0.17
Matches are distributed among these distances:
5 10 0.07
6 111 0.79
7 13 0.09
8 7 0.05
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:61655746 original size:19 final size:19
Alignment explanation
Indices: 61655722--61655791 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
61655712 AATTAGAATT
*
61655722 AGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGGTAAC
*
61655741 AGAATCAAAATCA-G-AACC
1 AGAATCAGAATCAGGTAA-C
*
61655759 AGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGGTAAC
61655778 AGAATCAGAATCAG
1 AGAATCAGAATCAG
61655792 TATCAGGTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
17 1 0.02
18 13 0.30
19 27 0.63
20 2 0.05
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.16
Consensus pattern (19 bp):
AGAATCAGAATCAGGTAAC
Found at i:61655763 original size:37 final size:37
Alignment explanation
Indices: 61655703--61655791 Score: 124
Period size: 37 Copynumber: 2.4 Consensus size: 37
61655693 GAACTAGAAT
* ** *
61655703 CAGAATCAGAATTAGAATTAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAACCAGAATCAGAATCAGGTAA
* *
61655740 CAGAATCAAAATCAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAACCAGAATCAGAATCAGGTAA
61655777 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
61655792 TATCAGGTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (37 bp):
CAGAATCAGAATCAGAACCAGAATCAGAATCAGGTAA
Found at i:61655780 original size:25 final size:25
Alignment explanation
Indices: 61655752--61655818 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
61655742 GAATCAAAAT
* *
61655752 CAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
61655777 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
61655802 CAAAATTAGAATCAGAA
1 CAGAATCAGAATCAGAA
61655819 CCAAAATCAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:61655784 original size:31 final size:31
Alignment explanation
Indices: 61655749--61655846 Score: 99
Period size: 31 Copynumber: 3.2 Consensus size: 31
61655739 ACAGAATCAA
61655749 AATCAGAACCAGAATCAGAATTAGGTAACAG
1 AATCAGAACCAGAATCAGAATTAGGTAACAG
* * * * *** *
61655780 AATCAGAATCAGTATCAG-GTAACAAAATTAG
1 AATCAGAACCAGAATCAGAATTAGGTAA-CAG
*
61655811 AATCAGAACCAAAATCAGAATTAGGTAACAG
1 AATCAGAACCAGAATCAGAATTAGGTAACAG
61655842 AATCA
1 AATCA
61655847 AAATTAGTAT
Statistics
Matches: 48, Mismatches: 17, Indels: 4
0.70 0.25 0.06
Matches are distributed among these distances:
30 4 0.08
31 40 0.83
32 4 0.08
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.18
Consensus pattern (31 bp):
AATCAGAACCAGAATCAGAATTAGGTAACAG
Found at i:61655798 original size:62 final size:62
Alignment explanation
Indices: 61655724--61655880 Score: 224
Period size: 62 Copynumber: 2.5 Consensus size: 62
61655714 TTAGAATTAG
* * * * *
61655724 AATCAGAATCAGGTGACAGAATCAAAATCAGAACCAGAATCAGAATTAGGTAACAGAATCAG
1 AATCAGTATCAGGTAACAGAATCAGAATCAGAACCAAAATCAGAATTAGGTAACAGAATCAA
* *
61655786 AATCAGTATCAGGTAACAAAATTAGAATCAGAACCAAAATCAGAATTAGGTAACAGAATCAA
1 AATCAGTATCAGGTAACAGAATCAGAATCAGAACCAAAATCAGAATTAGGTAACAGAATCAA
* * *
61655848 AATTAGTATAAAGTAACAGAATCAGAATCAGAA
1 AATCAGTATCAGGTAACAGAATCAGAATCAGAA
61655881 TATGAATGCA
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 83 1.00
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.18
Consensus pattern (62 bp):
AATCAGTATCAGGTAACAGAATCAGAATCAGAACCAAAATCAGAATTAGGTAACAGAATCAA
Found at i:61655848 original size:25 final size:25
Alignment explanation
Indices: 61655814--61655882 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 25
61655804 AAATTAGAAT
* * *
61655814 CAGAACCAAAATCAGAATTAGGTAA
1 CAGAATCAAAATCAGAATAAAGTAA
* *
61655839 CAGAATCAAAATTAGTATAAAGTAA
1 CAGAATCAAAATCAGAATAAAGTAA
*
61655864 CAGAATCAGAATCAGAATA
1 CAGAATCAAAATCAGAATA
61655883 TGAATGCAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.54, C:0.13, G:0.14, T:0.19
Consensus pattern (25 bp):
CAGAATCAAAATCAGAATAAAGTAA
Found at i:61656048 original size:27 final size:26
Alignment explanation
Indices: 61656000--61656059 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
61655990 GCGAGGCTGC
*
61656000 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
61656027 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
61656053 CAGATAT
1 CAGATAT
61656060 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:61656416 original size:27 final size:27
Alignment explanation
Indices: 61656386--61656741 Score: 473
Period size: 27 Copynumber: 13.2 Consensus size: 27
61656376 AACACCCTAG
* *
61656386 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
**
61656413 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
61656440 GGGTAAAATAGAAATTTTGTAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
61656467 GGGTAAAATAGTAATTCTATCAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
61656494 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
61656521 GGGTAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
61656548 GGGTAAAATAGTAACTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
61656575 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
61656602 GGGTAAAA-CGATAATTTTGTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
*
61656629 GGGTAAACT-GATAATTTTGTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
* *
61656656 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
61656683 GGGTAAAATAATAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
61656710 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
61656737 GGGTA
1 GGGTA
61656742 CTTTGATAAT
Statistics
Matches: 290, Mismatches: 36, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.00
27 288 0.99
28 1 0.00
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:61656751 original size:54 final size:54
Alignment explanation
Indices: 61656386--61656795 Score: 450
Period size: 54 Copynumber: 7.6 Consensus size: 54
61656376 AACACCCTAG
* * * * *
61656386 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTATAAATCGA
* * * *
61656440 GGGTAAAATAGAAATTTTGTAAATTGAGGGTAAAAT-AGTAATTCTATCAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGA-TAATTTTATAAATCGA
* * *
61656494 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAAT-AGTAATTTTGTAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGA-TAATTTTATAAATCGA
* * *
61656548 GGGTAAAATAGTAACTCTGTAAATCGAGGGTAAAAT-AGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGA-TAATTTTATAAATCGA
* * *
61656602 GGGTAAAA-CGATAATTTTGTAAATCGAGGGTAAACTGATAATTTTGTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGAGGGTAAAATGATAATTTTATAAATCGA
* * * *
61656656 GGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAATAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTATAAATCGA
* *** * **
61656710 GGGTAAAATGGTAATTTTGTAAATCGAGGGTACTTTGATAATTTTACATGTCGA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTATAAATCGA
*** * *
61656764 GGGTATTTTAGTAATTTTGCAAATTGAGGGTA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTA
61656796 TTTCGATAAT
Statistics
Matches: 301, Mismatches: 51, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
53 1 0.00
54 298 0.99
55 2 0.01
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (54 bp):
GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTATAAATCGA
Found at i:61656763 original size:27 final size:26
Alignment explanation
Indices: 61656693--61656866 Score: 123
Period size: 27 Copynumber: 6.5 Consensus size: 26
61656683 GGGTAAAATA
* * **
61656693 ATAATTCTATAAATCGAGGGTAAAATG
1 ATAATTTTACAAATCGAGGGT-ATTTG
* **
61656720 GTAATTTTGTAAATCGAGGGTACTTTG
1 ATAATTTTACAAATCGAGGGTA-TTTG
** *
61656747 ATAATTTTACATGTCGAGGGTATTTT
1 ATAATTTTACAAATCGAGGGTATTTG
* *
61656773 AGTAATTTTGCAAATTGAGGGTATTTCG
1 A-TAATTTTACAAATCGAGGGTATTT-G
* *
61656801 ATAATTTTACAAATTGAGGATATTTGG
1 ATAATTTTACAAATCGAGGGTATTT-G
* * * *
61656828 GTAATTTTATAAACCGATGGTACTTTG
1 ATAATTTTACAAATCGAGGGTA-TTTG
*
61656855 GTAATTTTACAA
1 ATAATTTTACAA
61656867 CTGGGGGTAT
Statistics
Matches: 117, Mismatches: 26, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
26 5 0.04
27 108 0.92
28 4 0.03
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (26 bp):
ATAATTTTACAAATCGAGGGTATTTG
Found at i:61656806 original size:108 final size:108
Alignment explanation
Indices: 61656386--61656795 Score: 507
Period size: 108 Copynumber: 3.8 Consensus size: 108
61656376 AACACCCTAG
* * * **
61656386 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAG
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTACAAATCGAGGGTAAAATAG
* * *
61656451 AAATTTTGTAAATTGAGGGTAAAATAGTAATTCTATCAATCGA
66 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
** ** *
61656494 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAAT-AGTAATTTTGTAAATTGAGGGTAAAATA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGA-TAATTTTACAAATCGAGGGTAAAATA
* *
61656558 GTAACTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
65 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
* * * ** *
61656602 GGGTAAAACGATAATTTTGTAAATCGAGGGTAAACTGATAATTTTGTAAATCGAGGGTAAAACAG
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTACAAATCGAGGGTAAAATAG
* *
61656667 TAATTCTGTAAATCGAGGGTAAAATAATAATTCTATAAATCGA
66 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
*** ** ***
61656710 GGGTAAAATGGTAATTTTGTAAATCGAGGGTACTTTGATAATTTTACATGTCGAGGGTATTTTAG
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTACAAATCGAGGGTAAAATAG
* *
61656775 TAATTTTGCAAATTGAGGGTA
66 TAATTTTGTAAATCGAGGGTA
61656796 TTTCGATAAT
Statistics
Matches: 266, Mismatches: 34, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
108 265 1.00
109 1 0.00
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (108 bp):
GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTACAAATCGAGGGTAAAATAG
TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
Found at i:61656825 original size:54 final size:54
Alignment explanation
Indices: 61656613--61656866 Score: 161
Period size: 54 Copynumber: 4.7 Consensus size: 54
61656603 GGTAAAACGA
* *** ** * ****
61656613 TAATTTTGTAAATCGAGGGTAAACTGATAATTTTGTAAATCGAGGGTAAAACAG
1 TAATTTTGCAAATCGAGGGTACTTTGATAATTTTACAAATCGAGGATATTTGAG
* * *** * * * * **
61656667 TAATTCTGTAAATCGAGGGTAAAATAATAATTCTATAAATCGAGGGTAAAATG-G
1 TAATTTTGCAAATCGAGGGTACTTTGATAATTTTACAAATCGAGGAT-ATTTGAG
* ** * *
61656721 TAATTTTGTAAATCGAGGGTACTTTGATAATTTTACATGTCGAGGGTATTTTAG
1 TAATTTTGCAAATCGAGGGTACTTTGATAATTTTACAAATCGAGGATATTTGAG
* * *
61656775 TAATTTTGCAAATTGAGGGTA-TTTCGATAATTTTACAAATTGAGGATATTTGGG
1 TAATTTTGCAAATCGAGGGTACTTT-GATAATTTTACAAATCGAGGATATTTGAG
** * * *
61656829 TAATTTTATAAACCGATGGTACTTTGGTAATTTTACAA
1 TAATTTTGCAAATCGAGGGTACTTTGATAATTTTACAA
61656867 CTGGGGGTAT
Statistics
Matches: 163, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
53 5 0.03
54 152 0.93
55 6 0.04
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.37
Consensus pattern (54 bp):
TAATTTTGCAAATCGAGGGTACTTTGATAATTTTACAAATCGAGGATATTTGAG
Found at i:61659413 original size:18 final size:17
Alignment explanation
Indices: 61659386--61659424 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
61659376 ATTTTGTAAA
61659386 AATTCATAAAAGGACTT
1 AATTCATAAAAGGACTT
* *
61659403 AATTGCATAAAATGAGTT
1 AATT-CATAAAAGGACTT
61659421 AATT
1 AATT
61659425 TTTCTATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (17 bp):
AATTCATAAAAGGACTT
Found at i:61659891 original size:37 final size:37
Alignment explanation
Indices: 61659830--61660489 Score: 540
Period size: 37 Copynumber: 18.3 Consensus size: 37
61659820 AATGAATATC
* * *
61659830 GATTCTATTG-AAGTGCT-GAACGAGCAATATCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
*
61659865 GATTCTACTAAAAGTGCTCAAACGAGCAATATCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
61659902 GATTCTATTGAACGTGCTCAAACAAG--A-A---A-T
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * * *
61659932 -A-TCTACTGAAAGTGCTC-AATGAGCAAT-GCCACA
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
61659965 GATCCTACTGAATGTGCTCAAACGAG-AATGTCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * * *
61660001 GATTTTACTGGAAGTGCTCAAACAAGCAATATCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
61660038 GATTCTACTGAAAGTGCTCAAACGAGTAATACCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
61660075 GGTACTACAGAAAGTGCTC-AACGAGCAATATCTA--
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * * * * *
61660109 -ATCCTATTGAATA-TGATCAAATGAACAATGTCTACT
1 GATTCTACTGAA-AGTGCTCAAACGAGCAATATCTACT
* *
61660145 GATTCTACTGAAAGTGCTCAAACAAGAAATATCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* *
61660182 GATTCTACTGAAAGTGCTC-AACGAGAAATATCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * * * * * *
61660218 GATCCTACTGAATGTGCTCAACCAAGCAATGTTTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
*
61660255 GATTCTACT-AAAGTGCTCAAATGAGCAATATCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* *
61660291 GGTTCTACT-AGAAGTGCTC-AACGAGCAATATCTGCT
1 GATTCTACTGA-AAGTGCTCAAACGAGCAATATCTACT
* * ** * *
61660327 GATCCTACTGAATGTAATCAAACAAGCAATGTCTACT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * * *
61660364 GATTTTACTG-AAGTGCTCAAACAAGAAATATCTATT
1 GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
* * *
61660400 GATTCTACTGATTAGTTGCTCAAACGAGCAATATCCATT
1 GATTCTACTGA-AAG-TGCTCAAACGAGCAATATCTACT
* * * *
61660439 GATTATACTGAATGCTTGCTCAAACGAGCATTATCCACT
1 GATTCTACTGAAAG--TGCTCAAACGAGCAATATCTACT
*
61660478 GATTATACTGAA
1 GATTCTACTGAA
61660490 TAAGATTTTT
Statistics
Matches: 499, Mismatches: 98, Indels: 52
0.77 0.15 0.08
Matches are distributed among these distances:
27 4 0.01
28 14 0.03
29 2 0.00
30 1 0.00
31 1 0.00
32 1 0.00
33 11 0.02
34 15 0.03
35 26 0.05
36 167 0.33
37 190 0.38
38 3 0.01
39 64 0.13
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (37 bp):
GATTCTACTGAAAGTGCTCAAACGAGCAATATCTACT
Found at i:61660057 original size:73 final size:73
Alignment explanation
Indices: 61659969--61660489 Score: 466
Period size: 73 Copynumber: 7.1 Consensus size: 73
61659959 GCCACAGATC
* * *
61659969 CTACTGAATGTGCTCAAACGAG-AATGTCTACTGATTTTACTGGAAGTGCTCAAACAAGCAATAT
1 CTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACT-GAAGTGCTCAAACAAGCAATAT
*
61660033 CTATTGATT
65 CTACTGATT
* * * * * * *
61660042 CTACTGAAAGTGCTCAAACGAGTAATACCTATTGGTACTACAGAAAGTGCTC-AACGAGCAATAT
1 CTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTG-AAGTGCTCAAACAAGCAATAT
*
61660106 CTA---ATC
65 CTACTGATT
* * * * * *
61660112 CTATTGAATA-TGATCAAATGAACAATGTCTACTGATTCTACTGAAAGTGCTCAAACAAGAAATA
1 CTACTGAA-AGTGCTCAAACGAGCAATATCTACTGATTCTACTG-AAGTGCTCAAACAAGCAATA
61660176 TCTACTGATT
64 TCTACTGATT
* * * * *
61660186 CTACTGAAAGTGCTC-AACGAGAAATATCTATTGATCCTACTGAATGTGCTCAACCAAGCAATGT
1 CTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAA-GTGCTCAAACAAGCAATAT
* *
61660250 TTATTGATT
65 CTACTGATT
* * *
61660259 CTACT-AAAGTGCTCAAATGAGCAATATCTACTGGTTCTACTAGAAGTGCTC-AACGAGCAATAT
1 CTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACT-GAAGTGCTCAAACAAGCAATAT
* *
61660322 CTGCTGATC
65 CTACTGATT
* ** * * * *
61660331 CTACTGAATGTAATCAAACAAGCAATGTCTACTGATTTTACTGAAGTGCTCAAACAAGAAATATC
1 CTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAGTGCTCAAACAAGCAATATC
*
61660396 TATTGATT
66 TACTGATT
* * * * *
61660404 CTACTGATTAGTTGCTCAAACGAGCAATATCCATTGATTATACTGAATGCTTGCTCAAACGAGCA
1 CTACTGA-AAG-TGCTCAAACGAGCAATATCTACTGATTCTACTGAA-G--TGCTCAAACAAGCA
* *
61660469 TTATCCACTGATT
61 ATATCTACTGATT
*
61660482 ATACTGAA
1 CTACTGAA
61660490 TAAGATTTTT
Statistics
Matches: 352, Mismatches: 78, Indels: 32
0.76 0.17 0.07
Matches are distributed among these distances:
70 41 0.12
71 14 0.04
72 39 0.11
73 164 0.47
74 37 0.11
75 28 0.08
76 1 0.00
78 28 0.08
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (73 bp):
CTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAGTGCTCAAACAAGCAATATC
TACTGATT
Found at i:61660489 original size:39 final size:39
Alignment explanation
Indices: 61660142--61660490 Score: 162
Period size: 36 Copynumber: 9.4 Consensus size: 39
61660132 AACAATGTCT
* * * * *
61660142 ACTGATTCTACTGAAAG--TGCTCAAACAAGAAATATCT
1 ACTGATTATACTGAATGCTTGCTCAAACGAGCAATATCC
* * * *
61660179 ACTGATTCTACTGAAAG--TGCTC-AACGAGAAATATCT
1 ACTGATTATACTGAATGCTTGCTCAAACGAGCAATATCC
* ** * * * **
61660215 ATTGATCCTACTGAATG--TGCTCAACCAAGCAATGTTT
1 ACTGATTATACTGAATGCTTGCTCAAACGAGCAATATCC
* * * * *
61660252 ATTGATTCTACT-AAAG--TGCTCAAATGAGCAATATCT
1 ACTGATTATACTGAATGCTTGCTCAAACGAGCAATATCC
* * *
61660288 ACTGGTTCTACTAGAA-G--TGCTC-AACGAGCAATATCT
1 ACTGATTATACT-GAATGCTTGCTCAAACGAGCAATATCC
* ** ** * * *
61660324 GCTGATCCTACTGAATG--TAATCAAACAAGCAATGTCT
1 ACTGATTATACTGAATGCTTGCTCAAACGAGCAATATCC
* * * *
61660361 ACTGATTTTACTGAA-G--TGCTCAAACAAGAAATATCT
1 ACTGATTATACTGAATGCTTGCTCAAACGAGCAATATCC
* * *
61660397 ATTGATTCTACTGATTAG-TTGCTCAAACGAGCAATATCC
1 ACTGATTATACTGAAT-GCTTGCTCAAACGAGCAATATCC
* *
61660436 ATTGATTATACTGAATGCTTGCTCAAACGAGCATTATCC
1 ACTGATTATACTGAATGCTTGCTCAAACGAGCAATATCC
61660475 ACTGATTATACTGAAT
1 ACTGATTATACTGAAT
61660491 AAGATTTTTT
Statistics
Matches: 260, Mismatches: 43, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
35 3 0.01
36 115 0.44
37 72 0.28
38 4 0.02
39 66 0.25
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (39 bp):
ACTGATTATACTGAATGCTTGCTCAAACGAGCAATATCC
Found at i:61672571 original size:40 final size:40
Alignment explanation
Indices: 61672494--61672714 Score: 297
Period size: 40 Copynumber: 5.5 Consensus size: 40
61672484 ACCCAAGTAT
* *
61672494 CTTCGGGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
*
61672533 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
61672573 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
61672613 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
61672653 CTTCGGATCTTAGTCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
61672693 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
61672715 CATTCGAATA
Statistics
Matches: 161, Mismatches: 16, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.07
40 146 0.91
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:61675928 original size:23 final size:22
Alignment explanation
Indices: 61675876--61675928 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
61675866 TCCACGTCTT
*
61675876 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
61675898 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
61675921 TTTCTTTT
1 TTTCTTTT
61675929 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:61680486 original size:48 final size:48
Alignment explanation
Indices: 61680419--61680647 Score: 227
Period size: 48 Copynumber: 4.9 Consensus size: 48
61680409 CACATGGTAG
* * * *
61680419 GATGCCAATGTCATATCCCAGATATGGTCTTACATGCGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * *
61680467 GATGCCAATGCTATGTCCCAAACATGGTCTTACATGGGATCATAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * *
61680515 GATGCCAATGCCGTGTCCCAGACATGGTCTTACATTGGATCATATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * ** *
61680563 GATGCC---G--ATATCCCAG-CTATGGTCTTATACGAAATTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
* **
61680606 CATGCCAAAACCATGTCCCAGACATGGTCTTACATGGGATCA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
61680648 TACATAACCC
Statistics
Matches: 144, Mismatches: 30, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
42 1 0.01
43 30 0.21
45 1 0.01
48 111 0.77
49 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:61683957 original size:49 final size:49
Alignment explanation
Indices: 61683901--61684073 Score: 174
Period size: 49 Copynumber: 3.6 Consensus size: 49
61683891 TGTTGTGTGT
*
61683901 CAGTGTAAGACCTATCT-GGATCATGGCATCAACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTATCTGGGA-CATGGCATCAAC-CTCGATAGATGAAAGC
* * ** * *
61683950 CAGTGTAAGACCTGTCTGGGACACGGCATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTATCTGGGACATGGCATCAACCTCGATAGATGAAAGC
* * * **
61683999 CAGTGTAAGACCTATCTGGGACATGGCATCGACTTTGA-AG-TGCTAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCAACCTCGATAGATGAAAGC
*
61684046 CAGTGTAAGACCATCTCTGGGACATGGC
1 CAGTGTAAGACC-TATCTGGGACATGGC
61684074 GTCGGCATCT
Statistics
Matches: 104, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
47 16 0.15
48 16 0.15
49 69 0.66
50 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTATCTGGGACATGGCATCAACCTCGATAGATGAAAGC
Done.