Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6601124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 33
Found at i:823514 original size:2 final size:2
Alignment explanation
Indices: 823507--823539 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
823497 TTTATCCTTT
823507 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
823540 CCTTTGTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:823855 original size:13 final size:14
Alignment explanation
Indices: 823837--823865 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
823827 TCCAGCAAAG
823837 AAAGAA-GAAAAAA
1 AAAGAAGGAAAAAA
823850 AAAGAAGGAAAAAA
1 AAAGAAGGAAAAAA
823864 AA
1 AA
823866 CACAAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAGAAGGAAAAAA
Found at i:823895 original size:15 final size:16
Alignment explanation
Indices: 823859--823888 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
823849 AAAAGAAGGA
823859 AAAAAAACACAAAAAC
1 AAAAAAACACAAAAAC
823875 AAAAAAA-ACAAAAA
1 AAAAAAACACAAAAA
823889 GGAAAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAACACAAAAAC
Found at i:828957 original size:22 final size:22
Alignment explanation
Indices: 828902--828981 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 22
828892 TACATCTGCA
* * *
828902 CTTTTTAAAGATGATAGATTCT
1 CTTTTCAAAGATGACAAATTCT
** * *
828924 CACTTCAGAGATGACAAATTTT
1 CTTTTCAAAGATGACAAATTCT
* * *
828946 CTTTTTAAAGATGATAGATTCT
1 CTTTTCAAAGATGACAAATTCT
828968 CTTTTCAAAGATGA
1 CTTTTCAAAGATGA
828982 AAGCTTTATG
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (22 bp):
CTTTTCAAAGATGACAAATTCT
Found at i:829817 original size:76 final size:76
Alignment explanation
Indices: 829643--830361 Score: 1132
Period size: 77 Copynumber: 9.4 Consensus size: 76
829633 TATTTCCCAT
* * ** *
829643 ATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCAAGAGCTTTTTGATATTTTCAA
1 ATCTGTAAGTCCTTCAGTGCATGATG-TTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
829708 AAACCTTCGGGTC
64 AAACCTTAGGGTC
*
829721 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAA
1 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
*
829786 ACCTTCGGGTC
66 ACCTTAGGGTC
* * ** *
829797 ATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCAAGAGCTTTTTGATATTTTCAA
1 ATCTGTAAGTCCTTCAGTGCATGATG-TTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
829862 AGCCTTCGGGTC
65 AACCTTAGGGTC
*
829874 ATCTGTAAGTCCTTTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-AA
829939 AACCTTAGGGTC
65 AACCTTAGGGTC
* * *
829951 ATCTATAAGTCCTTCAGTGTATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAA
1 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-AA
*
830016 AACCTTCGGGTC
65 AACCTTAGGGTC
830028 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
*
830093 GCCTTAGGGTC
66 ACCTTAGGGTC
*
830104 ATCTGTAAGTCCTTTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
*
830169 GCCTTAGGGTC
66 ACCTTAGGGTC
*
830180 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
830245 AGCCTTAGGGTC
66 A-CCTTAGGGTC
*
830257 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGACTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
*
830322 GCCTTAGGGTC
66 ACCTTAGGGTC
* *
830333 ATCTGTAAGCCCTTCAGTGCCTGATGTTT
1 ATCTGTAAGTCCTTCAGTGCATGATGTTT
830362 TCAACATTTT
Statistics
Matches: 602, Mismatches: 36, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
76 258 0.43
77 319 0.53
78 25 0.04
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (76 bp):
ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
ACCTTAGGGTC
Found at i:829925 original size:153 final size:152
Alignment explanation
Indices: 829643--830361 Score: 1159
Period size: 153 Copynumber: 4.7 Consensus size: 152
829633 TATTTCCCAT
* * **
829643 ATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCAAGAGCTTTTTGATATTTTCAA
1 ATCTGTAAGTCCTTCAGTGCATGATG-TTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTC-A
*
829708 AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
64 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
* *
829773 TGATATTTTCAAAACCTTCGGGTC
129 TGATGTTTTCAAAACCTTAGGGTC
* * **
829797 ATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCAAGAGCTTTTTGATATTTTCAA
1 ATCTGTAAGTCCTTCAGTGCATGATG-TTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
*
829862 AGCCTTCGGGTCATCTGTAAGTCCTTTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
65 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
829927 GATGTTTTCAAAAACCTTAGGGTC
130 GATGTTTTC-AAAACCTTAGGGTC
* *
829951 ATCTATAAGTCCTTCAGTGTATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAA
1 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTC-AA
*
830016 AACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
65 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
830081 GATGTTTTCAAAGCCTTAGGGTC
130 GATGTTTTCAAAACCTTAGGGTC
* *
830104 ATCTGTAAGTCCTTTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAA
* *
830169 GCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTG
66 GCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
830234 ATGTTTTCAAAAGCCTTAGGGTC
131 ATGTTTTCAAAA-CCTTAGGGTC
* *
830257 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGACTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAA
* * *
830322 GCCTTAGGGTCATCTGTAAGCCCTTCAGTGCCTGATGTTT
66 GCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
830362 TCAACATTTT
Statistics
Matches: 537, Mismatches: 25, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
152 76 0.14
153 288 0.54
154 173 0.32
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (152 bp):
ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAA
GCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
ATGTTTTCAAAACCTTAGGGTC
Found at i:830494 original size:3 final size:3
Alignment explanation
Indices: 830488--830555 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
830478 TCATTTAAAT
** * *
830488 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA GTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
830536 TAA TTA TATA TTA TTTA TTA
1 TTA TTA T-TA TTA -TTA TTA
830556 AATATTACAA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
3 47 0.89
4 6 0.11
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:830509 original size:18 final size:18
Alignment explanation
Indices: 830482--830562 Score: 78
Period size: 18 Copynumber: 4.5 Consensus size: 18
830472 TTTTTTTCAT
*
830482 TTAAATTTATTATTATTA
1 TTAAAATTATTATTATTA
830500 TTAAAATTATTATTATTA
1 TTAAAATTATTATTATTA
* *
830518 GT---ATTATTATTATAA
1 TTAAAATTATTATTATTA
*
830533 TTATAATTATATATTATTTA
1 TTAAAATTAT-TATTA-TTA
830553 TTAAATATTA
1 TTAAA-ATTA
830563 CAAAGCCCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
15 13 0.25
18 23 0.45
19 5 0.10
20 6 0.12
21 4 0.08
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (18 bp):
TTAAAATTATTATTATTA
Found at i:833424 original size:23 final size:23
Alignment explanation
Indices: 833404--833461 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
833394 GTATAATTAT
833404 ACCGAAGTGCCACGTAGAATTGC
1 ACCGAAGTGCCACGTAGAATTGC
* *
833427 ACCGGAGTGCCGCGTAGAATTGC
1 ACCGAAGTGCCACGTAGAATTGC
*
833450 ACCGTAGTGCCA
1 ACCGAAGTGCCA
833462 TATAATAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.26, C:0.28, G:0.29, T:0.17
Consensus pattern (23 bp):
ACCGAAGTGCCACGTAGAATTGC
Found at i:833652 original size:103 final size:103
Alignment explanation
Indices: 833477--833792 Score: 569
Period size: 103 Copynumber: 3.1 Consensus size: 103
833467 TAATGTCCAT
* * * *
833477 AAGGACTACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
833542 GAGTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
833580 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
833645 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
833683 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
* *
833748 GACTTCACATATGTTCCAAAGAATACATATATGTCTCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
833786 AAGGACC
1 AAGGACC
833793 GCGTAGACCC
Statistics
Matches: 206, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 206 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:835504 original size:21 final size:21
Alignment explanation
Indices: 835478--835521 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
835468 TTTTTATTCG
* *
835478 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
835499 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
835520 CT
1 CT
835522 AGCCCAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:840863 original size:46 final size:45
Alignment explanation
Indices: 840765--840851 Score: 138
Period size: 46 Copynumber: 1.9 Consensus size: 45
840755 GATAAAATCT
** *
840765 CTTACCATTTATCCCATAAGCTCGTAAGTTTATTTTACTAAATTA
1 CTTACCATTTATCCCATAAGCTCGTAAGCATATTTTACCAAATTA
840810 CTTACCATTTAATCCCATAAGCTCGTAAGCATATTTTACCAA
1 CTTACCATTT-ATCCCATAAGCTCGTAAGCATATTTTACCAA
840852 TATCCTTACC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
45 10 0.26
46 28 0.74
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (45 bp):
CTTACCATTTATCCCATAAGCTCGTAAGCATATTTTACCAAATTA
Found at i:843254 original size:43 final size:43
Alignment explanation
Indices: 843206--843334 Score: 249
Period size: 43 Copynumber: 3.0 Consensus size: 43
843196 ACAATTCACT
843206 CTCTAAAAGTTGGAGCTTTACATCATTCATCTTAGAGAACAAC
1 CTCTAAAAGTTGGAGCTTTACATCATTCATCTTAGAGAACAAC
*
843249 CTCTAAAAGTTGGAGCTTTGCATCATTCATCTTAGAGAACAAC
1 CTCTAAAAGTTGGAGCTTTACATCATTCATCTTAGAGAACAAC
843292 CTCTAAAAGTTGGAGCTTTACATCATTCATCTTAGAGAACAAC
1 CTCTAAAAGTTGGAGCTTTACATCATTCATCTTAGAGAACAAC
843335 TTGGCGAATA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 84 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (43 bp):
CTCTAAAAGTTGGAGCTTTACATCATTCATCTTAGAGAACAAC
Found at i:847343 original size:28 final size:26
Alignment explanation
Indices: 847273--847358 Score: 75
Period size: 28 Copynumber: 3.1 Consensus size: 26
847263 ATATAAAAAA
*
847273 ATTATTTATATTATTAAAATAAAATT
1 ATTATTTATATTATTAAAATATAATT
847299 ATAATATCTT-TATTATTAAAATATAATT
1 AT--TAT-TTATATTATTAAAATATAATT
* *
847327 GATTATTATATAATATTTAATATATATATT
1 -ATTATT-TATATTA-TTAAAATATA-ATT
847357 AT
1 AT
847359 AATATTAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
26 3 0.06
27 4 0.08
28 24 0.49
29 15 0.31
30 3 0.06
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (26 bp):
ATTATTTATATTATTAAAATATAATT
Found at i:847352 original size:14 final size:15
Alignment explanation
Indices: 847333--847368 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
847323 AATTGATTAT
847333 TATATAATATT-TAA
1 TATATAATATTATAA
847347 TATAT-ATATTATAA
1 TATATAATATTATAA
847361 TAT-TAATA
1 TATATAATA
847369 AATAAACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATATAATATTATAA
Found at i:847595 original size:42 final size:42
Alignment explanation
Indices: 847537--847656 Score: 204
Period size: 42 Copynumber: 2.9 Consensus size: 42
847527 ATGAATTACA
* *
847537 TTCCGGAAAACCAATTACGTGAAACAAACACAGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
847579 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* *
847621 TTCCGGAAAATGAATTACATGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
847657 TTCGGGGAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.47, C:0.19, G:0.17, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:852702 original size:16 final size:16
Alignment explanation
Indices: 852640--852709 Score: 70
Period size: 16 Copynumber: 4.3 Consensus size: 16
852630 ATTTATATAT
852640 TTTATTATAGTTTAAA
1 TTTATTATAGTTTAAA
* *
852656 TTGA-TATAATTTAAA
1 TTTATTATAGTTTAAA
* * *
852671 TATAATAATATTTTTAAA
1 T-TTATTATA-GTTTAAA
852689 TTTATTATAGTTTAAA
1 TTTATTATAGTTTAAA
852705 TTTAT
1 TTTAT
852710 GTGATTCATA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
15 11 0.26
16 16 0.37
17 9 0.21
18 7 0.16
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (16 bp):
TTTATTATAGTTTAAA
Found at i:852759 original size:52 final size:51
Alignment explanation
Indices: 852693--852840 Score: 132
Period size: 52 Copynumber: 3.0 Consensus size: 51
852683 TTTAAATTTA
852693 TTATAGTTTAAATTTATGTGATTCATATATAAGTGTAAATATAATTTAAATG
1 TTATAGTTTAAATTTAT-TGATTCATATATAAGTGTAAATATAATTTAAATG
* * * * *
852745 TTATATTTTTAATTTA--CA-ACATA-AT--GTCTATAATAT--TTTAAATTG
1 TTATAGTTTAAATTTATTGATTCATATATAAGTGTA-AATATAATTTAAA-TG
* * *
852790 ATATAGTTTAAATTGATATGATTCATATGTAAGTGTAAATATAATTTAAAT
1 TTATAGTTTAAATTTAT-TGATTCATATATAAGTGTAAATATAATTTAAAT
852841 ACTATATTTT
Statistics
Matches: 72, Mismatches: 13, Indels: 22
0.67 0.12 0.21
Matches are distributed among these distances:
44 6 0.08
45 18 0.25
46 5 0.07
47 2 0.03
48 5 0.07
49 5 0.07
50 1 0.01
51 5 0.07
52 19 0.26
53 6 0.08
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (51 bp):
TTATAGTTTAAATTTATTGATTCATATATAAGTGTAAATATAATTTAAATG
Found at i:852797 original size:97 final size:99
Alignment explanation
Indices: 852675--852876 Score: 327
Period size: 97 Copynumber: 2.1 Consensus size: 99
852665 TTTAAATATA
* * *
852675 ATAATATTTTTAAATTTATTATAGTTTAAATTTATGTGATTCATATATAAGTGTAAATATAATTT
1 ATAATATTTTTAAATTGATTATAGTTTAAATTGATATGATTCATATATAAGTGTAAATATAATTT
**
852740 AAATGTTATATTTTTAATTTACAACATAATGTCT
66 AAATACTATATTTTTAATTTACAACATAATGTCT
*
852774 ATAATA-TTTTAAATTGA-TATAGTTTAAATTGATATGATTCATATGTAAGTGTAAATATAATTT
1 ATAATATTTTTAAATTGATTATAGTTTAAATTGATATGATTCATATATAAGTGTAAATATAATTT
*
852837 AAATACTATATTTTTAATTTACAATATAATGTCT
66 AAATACTATATTTTTAATTTACAACATAATGTCT
852871 ATAATA
1 ATAATA
852877 GATATTTTAT
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
97 80 0.83
98 10 0.10
99 6 0.06
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (99 bp):
ATAATATTTTTAAATTGATTATAGTTTAAATTGATATGATTCATATATAAGTGTAAATATAATTT
AAATACTATATTTTTAATTTACAACATAATGTCT
Found at i:853204 original size:16 final size:15
Alignment explanation
Indices: 853180--853222 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
853170 AAATAAGTGC
*
853180 TTAATTGAAATAATT
1 TTAATTGAAATAATA
853195 TTATATTGAAA-AATA
1 TTA-ATTGAAATAATA
*
853210 TTAACTGAAATAA
1 TTAATTGAAATAA
853223 AATTTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 6 0.25
15 11 0.46
16 7 0.29
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (15 bp):
TTAATTGAAATAATA
Found at i:854354 original size:15 final size:16
Alignment explanation
Indices: 854334--854372 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
854324 ATTTAAAATT
*
854334 AAATAA-ATAATTTTA
1 AAATAATATAATTTCA
*
854349 AAATAATATTATTTCA
1 AAATAATATAATTTCA
854365 AAATAATA
1 AAATAATA
854373 AAAATTAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATAATATAATTTCA
Found at i:854367 original size:16 final size:15
Alignment explanation
Indices: 854316--854372 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 15
854306 TTGGTTTAGT
854316 ATAATATTATTTAAA
1 ATAATATTATTTAAA
*
854331 ATTAAATAAATAATTTTAAA
1 A-T-AAT--ATTA-TTTAAA
854351 ATAATATTATTTCAAA
1 ATAATATTATTT-AAA
854367 ATAATA
1 ATAATA
854373 AAAATTAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
15 4 0.12
16 13 0.38
17 3 0.09
18 3 0.09
19 4 0.12
20 7 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATATTATTTAAA
Found at i:855466 original size:59 final size:60
Alignment explanation
Indices: 855393--855523 Score: 135
Period size: 60 Copynumber: 2.2 Consensus size: 60
855383 ATTTTAAGGG
* * *
855393 AAAAG-TACATAAATG-GTTCCTGACTATAGGATATT-ATTTTATTAAGT-CATTTGATTATT
1 AAAAGTTACA-AAATGAGTTCCTGACTATAGAATATTGA-TTTATTAAGTCCA-TCGACTATT
* ** *
855452 AAAAGTTACAAAATGATTTTTTGACTATAGAATGTTGATTTATTAAGTCCATCGACTATT
1 AAAAGTTACAAAATGAGTTCCTGACTATAGAATATTGATTTATTAAGTCCATCGACTATT
*
855512 AAAAATTACAAA
1 AAAAGTTACAAA
855524 TTTATCACAT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
59 10 0.17
60 47 0.78
61 3 0.05
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (60 bp):
AAAAGTTACAAAATGAGTTCCTGACTATAGAATATTGATTTATTAAGTCCATCGACTATT
Found at i:858825 original size:17 final size:18
Alignment explanation
Indices: 858799--858851 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
858789 TTATATAAAA
*
858799 TATATATTTATTATA-AT
1 TATATTTTTATTATATAT
*
858816 TATATTTTTATTTATATTTT
1 TATATTTTTA-TTATA-TAT
858836 TATATATTTTATTATA
1 TATAT-TTTTATTATA
858852 GTTTAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 9 0.30
18 5 0.17
20 11 0.37
21 5 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TATATTTTTATTATATAT
Found at i:858828 original size:21 final size:21
Alignment explanation
Indices: 858803--858848 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
858793 ATAAAATATA
858803 TATTTATTATAATTATAT-TTT
1 TATTTA-TATAATTATATATTT
**
858824 TATTTATATTTTTATATATTT
1 TATTTATATAATTATATATTT
858845 TATT
1 TATT
858849 ATAGTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TATTTATATAATTATATATTT
Found at i:858832 original size:12 final size:13
Alignment explanation
Indices: 858801--858840 Score: 55
Period size: 12 Copynumber: 3.0 Consensus size: 13
858791 ATATAAAATA
858801 TATATTTATTATAAT
1 TATATTT-TTAT-AT
858816 TATATTTTTAT-T
1 TATATTTTTATAT
858828 TATATTTTTATAT
1 TATATTTTTATAT
858841 ATTTTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.50
13 1 0.04
14 4 0.17
15 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATATTTTTATAT
Found at i:858843 original size:10 final size:11
Alignment explanation
Indices: 858814--858851 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
858804 ATTTATTATA
858814 ATTATATTTTT
1 ATTATATTTTT
858825 ATTTATATTTTT
1 A-TTATATTTTT
858837 A-TATA-TTTT
1 ATTATATTTTT
858846 ATTATA
1 ATTATA
858852 GTTTAAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 5 0.20
10 8 0.32
11 1 0.04
12 11 0.44
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
ATTATATTTTT
Found at i:858856 original size:27 final size:27
Alignment explanation
Indices: 858801--858869 Score: 63
Period size: 27 Copynumber: 2.6 Consensus size: 27
858791 ATATAAAATA
*
858801 TATATTTATTATAATTATATTTTTATT
1 TATATTTATTATAATTATATTTATATT
*
858828 TATATTT-TTATATATTTTA-TTATAGTT
1 TATATTTATTATA-ATTATATTTATA-TT
* *
858855 TAAATTGA-TATAATT
1 TATATTTATTATAATT
858870 TAAATATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
26 12 0.34
27 23 0.66
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (27 bp):
TATATTTATTATAATTATATTTATATT
Found at i:858906 original size:15 final size:15
Alignment explanation
Indices: 858843--858908 Score: 71
Period size: 15 Copynumber: 4.3 Consensus size: 15
858833 TTTTATATAT
858843 TTTATTATAGTTTAAA
1 TTTA-TATAGTTTAAA
* *
858859 TTGATATAATTTAAA
1 TTTATATAGTTTAAA
* *
858874 TATA-ATATTTTTAAA
1 TTTATATA-GTTTAAA
858889 TTTATATAGTTTAAA
1 TTTATATAGTTTAAA
858904 TTTAT
1 TTTAT
858909 GATTCATATA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
14 3 0.07
15 32 0.78
16 6 0.15
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (15 bp):
TTTATATAGTTTAAA
Found at i:858987 original size:90 final size:91
Alignment explanation
Indices: 858874--859061 Score: 285
Period size: 90 Copynumber: 2.1 Consensus size: 91
858864 ATAATTTAAA
* *
858874 TATAATATTTTTAAATTTATATAGTTTAAATTTATGATTCATATA-TAAGTGTAAATATAATTTA
1 TATAATATTTTTAAATTGATATAGTTTAAATTGATGATTCATA-AGTAAGTGTAAA-ATAATTTA
*
858938 AATA-TA-TTTTAATTTACAACATAATG
64 AATACTATTTTTAATTTACAACATAATC
858964 TCATAATA-TTTTAAATTGATATAGTTTAAATTGATGATTCATAAGTAAGTGTAAAATAATTTAA
1 T-ATAATATTTTTAAATTGATATAGTTTAAATTGATGATTCATAAGTAAGTGTAAAATAATTTAA
*
859028 ATACTATTTTTAATTTACAATATAATC
65 ATACTATTTTTAATTTACAACATAATC
859055 TATAATA
1 TATAATA
859062 GACATTTATT
Statistics
Matches: 90, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
89 13 0.14
90 52 0.58
91 25 0.28
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (91 bp):
TATAATATTTTTAAATTGATATAGTTTAAATTGATGATTCATAAGTAAGTGTAAAATAATTTAAA
TACTATTTTTAATTTACAACATAATC
Found at i:859388 original size:16 final size:15
Alignment explanation
Indices: 859364--859406 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
859354 AAATAAGTGC
*
859364 TTAATTGAAATAATT
1 TTAATTGAAATAATA
859379 TTATATTGAAA-AATA
1 TTA-ATTGAAATAATA
*
859394 TTAACTGAAATAA
1 TTAATTGAAATAA
859407 AATTTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 6 0.25
15 11 0.46
16 7 0.29
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (15 bp):
TTAATTGAAATAATA
Found at i:863021 original size:25 final size:29
Alignment explanation
Indices: 862991--863051 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
862981 TTGTTTTTCA
862991 AATTTATA-AT-TTT-GAAA-AAAATATT
1 AATTTATATATATTTAGAAATAAAATATT
*
863016 AATTTATATATATTTATAAATAAAATATT
1 AATTTATATATATTTAGAAATAAAATATT
*
863045 TATTTAT
1 AATTTAT
863052 TTAGAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 8 0.27
26 2 0.07
27 3 0.10
28 3 0.10
29 14 0.47
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (29 bp):
AATTTATATATATTTAGAAATAAAATATT
Found at i:863253 original size:115 final size:113
Alignment explanation
Indices: 863056--863270 Score: 285
Period size: 114 Copynumber: 1.9 Consensus size: 113
863046 ATTTATTTAG
* *
863056 AAATATCAGAAAATGACTTCTAGGTGCCTTAAGACAGTTCTTTTCTTCGATATTAAAAATAAATA
1 AAATATCAGAAAAAGACTTCTAGGTGCCTTAAGACAGTTCTTTTCTTCAATATTAAAAATAAATA
863121 AATAATTAAAACAATTAATATA-TAATTTATAAAATAAGATATTTAATAA
66 AATAATTAAAACAATTAA-A-AGTAATTTATAAAATAAGATATTTAATAA
* *
863170 AAATATCAGAAAACAGACTTCTAGGTGCTTTAAGACAG-TCATTTTCTT-AATATTGAAAATAAA
1 AAATATCAGAAAA-AGACTTCTAGGTGCCTTAAGACAGTTC-TTTTCTTCAATATTAAAAATAAA
* * *
863233 TATAT-ATTAAAATATGATTAAAAGTAATTTATGAAATA
64 TAAATAATTAAAACA--ATTAAAAGTAATTTATAAAATA
863271 TAGGATTTTA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
113 9 0.10
114 46 0.52
115 34 0.38
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.35
Consensus pattern (113 bp):
AAATATCAGAAAAAGACTTCTAGGTGCCTTAAGACAGTTCTTTTCTTCAATATTAAAAATAAATA
AATAATTAAAACAATTAAAAGTAATTTATAAAATAAGATATTTAATAA
Found at i:863379 original size:7 final size:7
Alignment explanation
Indices: 863320--863388 Score: 52
Period size: 7 Copynumber: 9.4 Consensus size: 7
863310 ATATATATTT
863320 ATAAATA
1 ATAAATA
*
863327 ATAAAAA
1 ATAAATA
863334 ATATAATGA
1 ATA-AAT-A
863343 A-ATAATA
1 ATA-AATA
*
863350 ATTAAAGCA
1 A-TAAA-TA
863359 ATAAATA
1 ATAAATA
863366 AT-AATA
1 ATAAATA
*
863372 ATATATA
1 ATAAATA
863379 ATAAATA
1 ATAAATA
863386 ATA
1 ATA
863389 TTGCAAATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
6 6 0.12
7 26 0.52
8 13 0.26
9 5 0.10
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (7 bp):
ATAAATA
Found at i:864702 original size:3 final size:3
Alignment explanation
Indices: 864696--864760 Score: 68
Period size: 3 Copynumber: 23.0 Consensus size: 3
864686 AATAATTATT
864696 TAA TAA TAA T-A TAA T-A TAA T-A TAA T-A TAA T-A TATA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
**
864737 TAA TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
864761 AAACAAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
2 10 0.19
3 39 0.75
4 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:864711 original size:5 final size:5
Alignment explanation
Indices: 864696--864741 Score: 67
Period size: 5 Copynumber: 9.0 Consensus size: 5
864686 AATAATTATT
864696 TAATAA TAATA TAATA TAATA TAATA TAATA T-ATA TAATAA TAATA
1 TAAT-A TAATA TAATA TAATA TAATA TAATA TAATA TAAT-A TAATA
864742 ATTTTAATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.11
5 25 0.66
6 9 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAATA
Found at i:864760 original size:18 final size:17
Alignment explanation
Indices: 864684--864760 Score: 88
Period size: 18 Copynumber: 4.6 Consensus size: 17
864674 ATCTGGGCTT
* *
864684 ATAATAATTATTTAATA
1 ATAATAATAATATAATA
864701 ATAAT-ATAATATAAT-
1 ATAATAATAATATAATA
864716 ATAAT-ATAATATATATA
1 ATAATAATAATATA-ATA
*
864733 ATAATAATAATTTTAATA
1 ATAATAATAA-TATAATA
864751 ATAATAATAA
1 ATAATAATAA
864761 AAACAAAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
15 13 0.25
16 10 0.19
17 10 0.19
18 17 0.32
19 3 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAATAATAATATAATA
Found at i:865157 original size:149 final size:152
Alignment explanation
Indices: 864912--865689 Score: 1335
Period size: 149 Copynumber: 5.2 Consensus size: 152
864902 GTCTTAAAAC
* * * * *
864912 ACATCATGCACTGAAGGGCTTACAGCTGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCGAA
1 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGG-CTTTGAAAACATCAAAAAGCTCCCGAA
*
864977 GGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
65 GGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
865042 AAGCTCCCGAAGGC-TTTTGGAA
130 AAGCTCCCGAAGGCTTTTTGGAA
865064 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGC-TTGAAAACATCAAAAAGCTCCCGAAG
1 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
*
865128 GC-TTTTGGAAACATCATGCACTGTAGGACTTATAGATGACCCTAAGGCTTTG-AAACATCAAAA
66 GCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAA
865191 AGCTCCCGAAGGC-TTTTGG-A
131 AGCTCCCGAAGGCTTTTTGGAA
865211 A-A-CATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
1 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
865274 GCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAA
66 GCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAA
865339 AGCTCCCGAAGGCTTTTTGGAA
131 AGCTCCCGAAGGCTTTTTGGAA
865361 ACATCATGCACTGTAGGACTTACAGATGACCCT-AGGCTTTGAAAACATCAAAAAGCTCCCGAAG
1 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
865425 GCTTTTTGGAAA-A-CATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAA
66 GCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAA
865488 AGCTCCCGAAGGCTTTTTGGAA
131 AGCTCCCGAAGGCTTTTTGGAA
* * *
865510 ACATCATGCACTGTAGGACATACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGTTCCCAAAG
1 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
** * *
865575 GCTTTTTGGAAACATCATGCACTACAGGACTTACAAATGACCCTAAGGTTTTGAAAACATCAAAA
66 GCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAA
*
865640 AGCTCCCGAAGTCTTTTTGGAA
131 AGCTCCCGAAGGCTTTTTGGAA
865662 ACATCATGCACTGTAGGACTTACAGATG
1 ACATCATGCACTGTAGGACTTACAGATG
865690 TGGAAAATAG
Statistics
Matches: 599, Mismatches: 17, Indels: 20
0.94 0.03 0.03
Matches are distributed among these distances:
145 34 0.06
146 29 0.05
147 51 0.09
148 54 0.09
149 158 0.26
150 72 0.12
151 45 0.08
152 156 0.26
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (152 bp):
ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
GCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAA
AGCTCCCGAAGGCTTTTTGGAA
Found at i:865503 original size:225 final size:228
Alignment explanation
Indices: 864912--865689 Score: 1335
Period size: 225 Copynumber: 3.5 Consensus size: 228
864902 GTCTTAAAAC
* * * * *
864912 ACATCATGCACTGAAGGGCTTACAGCTGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCGAA
1 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGG-CTTTGAAAACATCAAAAAGCTCCCGAA
*
864977 GGCTTTTTGAAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
65 GGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
865042 AAGCTCCCGAAGGC-TTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGC-TTG
130 AAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTG
865105 AAAACATCAAAAAGCTCCCGAAGGC-TTTTGGAA
195 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAA
*
865138 ACATCATGCACTGTAGGACTTATAGATGACCCTAAGGCTTTG-AAACATCAAAAAGCTCCCGAAG
1 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
865202 GC-TTTTGG-AA-A-CATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAA
66 GCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAA
865263 AGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGA
131 AGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGA
865328 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAA
196 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAA
865361 ACATCATGCACTGTAGGACTTACAGATGACCCT-AGGCTTTGAAAACATCAAAAAGCTCCCGAAG
1 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
865425 GCTTTTTGGAAA-A-CATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAA
66 GCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAA
*
865488 AGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACATACAGATGACCCTAAGGCTTTGA
131 AGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGA
* *
865553 AAACATCAAAAAGTTCCCAAAGGCTTTTTGGAA
196 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAA
** * *
865586 ACATCATGCACTACAGGACTTACAAATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAG
1 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
*
865651 TCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
66 GCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
865690 TGGAAAATAG
Statistics
Matches: 527, Mismatches: 16, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
220 63 0.12
221 47 0.09
222 38 0.07
223 69 0.13
224 30 0.06
225 182 0.35
226 73 0.14
227 1 0.00
228 24 0.05
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (228 bp):
ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
GCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAA
AGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGA
AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAA
Found at i:865716 original size:76 final size:76
Alignment explanation
Indices: 864912--865689 Score: 1335
Period size: 76 Copynumber: 10.4 Consensus size: 76
864902 GTCTTAAAAC
* * * * *
864912 ACATCATGCACTGAAGGGCTTACAGCTGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCGAA
1 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGG-CTTTGAAAACATCAAAAAGCTCCCGAA
*
864977 GGCTTTTTGAAA
65 GGCTTTTTGGAA
864989 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
1 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
865054 GC-TTTTGGAA
66 GCTTTTTGGAA
865064 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGC-TTGAAAACATCAAAAAGCTCCCGAAG
1 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
865128 GC-TTTTGGAA
66 GCTTTTTGGAA
*
865138 ACATCATGCACTGTAGGACTTATAGATGACCCTAAGGCTTTG-AAACATCAAAAAGCTCCCGAAG
1 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
865202 GC-TTTTGG-A
66 GCTTTTTGGAA
865211 A-A-CATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
1 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
865274 GCTTTTTGGAA
66 GCTTTTTGGAA
865285 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
1 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
865350 GCTTTTTGGAA
66 GCTTTTTGGAA
865361 ACATCATGCACTGTAGGACTTACAGATGACCCT-AGGCTTTGAAAACATCAAAAAGCTCCCGAAG
1 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
865425 GCTTTTTGGAA
66 GCTTTTTGGAA
865436 A-A-CATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
1 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
865499 GCTTTTTGGAA
66 GCTTTTTGGAA
* * *
865510 ACATCATGCACTGTAGGACATACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGTTCCCAAAG
1 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
865575 GCTTTTTGGAA
66 GCTTTTTGGAA
** * *
865586 ACATCATGCACTACAGGACTTACAAATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAG
1 ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
*
865651 TCTTTTTGGAA
66 GCTTTTTGGAA
865662 ACATCATGCACTGTAGGACTTACAGATG
1 ACATCATGCACTGTAGGACTTACAGATG
865690 TGGAAAATAG
Statistics
Matches: 670, Mismatches: 22, Indels: 19
0.94 0.03 0.03
Matches are distributed among these distances:
71 37 0.06
72 25 0.04
73 37 0.06
74 149 0.22
75 93 0.14
76 296 0.44
77 33 0.05
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (76 bp):
ACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
GCTTTTTGGAA
Found at i:866399 original size:22 final size:22
Alignment explanation
Indices: 866365--866441 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
866355 CATAAAGCTT
*
866365 TCATATTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
866387 TCATCTTTAAAAAGAGAACCTA
1 TCATCTTTGAAAAGAGAATCTA
866409 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
866431 TCATCTTTGAA
1 TCATCTTTGAA
866442 GAGTGTAGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:868950 original size:110 final size:110
Alignment explanation
Indices: 868757--868969 Score: 372
Period size: 110 Copynumber: 1.9 Consensus size: 110
868747 GATCATGCAG
* * * *
868757 TTCATCTTTTAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
868822 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTATGAGCAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTATGAGCAA
* *
868867 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
868932 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTA
868970 CTACGAGAAC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
110 97 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (110 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTATGAGCAA
Found at i:870654 original size:32 final size:32
Alignment explanation
Indices: 870613--870674 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
870603 GAAGAAATGA
*
870613 TTGTTATGCTCATCTTGTAGAGATACTTCTCG
1 TTGTTATGCTCATCTCGTAGAGATACTTCTCG
870645 TTGTTATGCTCATCTCGTAGAGATACTTCT
1 TTGTTATGCTCATCTCGTAGAGATACTTCT
870675 TGTGTCTGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (32 bp):
TTGTTATGCTCATCTCGTAGAGATACTTCTCG
Found at i:871260 original size:18 final size:19
Alignment explanation
Indices: 871212--871260 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
871202 TTTTTTCTCA
* *
871212 TTTTTCCTTTTTCATCTTT
1 TTTTTTCTTCTTCATCTTT
*
871231 TTTTTTCATCTTCATC-TT
1 TTTTTTCTTCTTCATCTTT
871249 TTTTTTCTTCTT
1 TTTTTTCTTCTT
871261 TCTTTGTTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTTCTTCTTCATCTTT
Found at i:875654 original size:443 final size:443
Alignment explanation
Indices: 874828--875707 Score: 1715
Period size: 443 Copynumber: 2.0 Consensus size: 443
874818 ACCTCAGCAA
874828 ATCTTCTTCTCTCTGGGCGCCCCTACTGATACTCTTACCTTTGAAGATTTTTGGTATTAATCTAG
1 ATCTTCTTCTCTCTGGGCGCCCCTACTGATACTCTTACCTTTGAAGATTTTTGGTATTAATCTAG
*
874893 CAGGACCTTCGGTTACCAAACTAGGTCGAACATTTACCATAAATTGTAAGGTTCCATGATCCAAA
66 CAGGACCTTCGGTTACCAAACTAGGTCGAACATTTAACATAAATTGTAAGGTTCCATGATCCAAA
*
874958 AGACTTTGGACTCGACGTTTGAAGGCAAGACAATTCTCAATAGTATGTCCTTGAGCTCCGGCATG
131 AGACTTTAGACTCGACGTTTGAAGGCAAGACAATTCTCAATAGTATGTCCTTGAGCTCCGGCATG
875023 ATATTCACAATAAACGTTGATGTCATACCAATTCAGATATGGAGGTTGGAACGGTTTTATGTAGT
196 ATATTCACAATAAACGTTGATGTCATACCAATTCAGATATGGAGGTTGGAACGGTTTTATGTAGT
875088 ACGGGGCCACTTCTTGCCCTTCAAGTAGCTTTTCATATAACTCTTTATATGATATAGGTATAGCA
261 ACGGGGCCACTTCTTGCCCTTCAAGTAGCTTTTCATATAACTCTTTATATGATATAGGTATAGCA
875153 TCAACATGAGAACCGCCTTTTATCTTGGATTGAACCTGAGTTTTAGACGTCGGGAGCAGACTAAA
326 TCAACATGAGAACCGCCTTTTATCTTGGATTGAACCTGAGTTTTAGACGTCGGGAGCAGACTAAA
875218 CTTCATTGATTTTAGATTATATGATTTCTTCTCATCTCTGGGAGCTTCTTCTC
391 CTTCATTGATTTTAGATTATATGATTTCTTCTCATCTCTGGGAGCTTCTTCTC
875271 ATCTTCTTCTCTCTGGGCGCCCCTACTGATACTCTTACCTTTGAAGATTTTTGGTATTAATCTAG
1 ATCTTCTTCTCTCTGGGCGCCCCTACTGATACTCTTACCTTTGAAGATTTTTGGTATTAATCTAG
*
875336 CAGGACCTTCGGTTACCAAACTAGGTCGATCATTTAACATAAATTGTAAGGTTCCATGATCCAAA
66 CAGGACCTTCGGTTACCAAACTAGGTCGAACATTTAACATAAATTGTAAGGTTCCATGATCCAAA
875401 AGACTTTAGACTCGACGTTTGAAGGCAAGACAATTCTCAATAGTATGTCCTTGAGCTCCGGCATG
131 AGACTTTAGACTCGACGTTTGAAGGCAAGACAATTCTCAATAGTATGTCCTTGAGCTCCGGCATG
875466 ATATTCACAATAAACGTTGATGTCATACCAATTCAGATATGGAGGTTGGAACGGTTTTATGTAGT
196 ATATTCACAATAAACGTTGATGTCATACCAATTCAGATATGGAGGTTGGAACGGTTTTATGTAGT
*
875531 ACGGGGCCACTTCTTGCCCTTCAAGTAGCTTTTCATATAACTCTTTATATGATATAGGTATATCA
261 ACGGGGCCACTTCTTGCCCTTCAAGTAGCTTTTCATATAACTCTTTATATGATATAGGTATAGCA
*
875596 TCAACATGAGAACCGCCTTTTGTCTTGGATTGAACCTGAGTTTTAGACGTCGGGAGCAGACTAAA
326 TCAACATGAGAACCGCCTTTTATCTTGGATTGAACCTGAGTTTTAGACGTCGGGAGCAGACTAAA
875661 CTTCATTGATTTTAGATTATATGATTTCTTCTCATCTCTGGGAGCTT
391 CTTCATTGATTTTAGATTATATGATTTCTTCTCATCTCTGGGAGCTT
875708 TTACAGTTGT
Statistics
Matches: 432, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
443 432 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (443 bp):
ATCTTCTTCTCTCTGGGCGCCCCTACTGATACTCTTACCTTTGAAGATTTTTGGTATTAATCTAG
CAGGACCTTCGGTTACCAAACTAGGTCGAACATTTAACATAAATTGTAAGGTTCCATGATCCAAA
AGACTTTAGACTCGACGTTTGAAGGCAAGACAATTCTCAATAGTATGTCCTTGAGCTCCGGCATG
ATATTCACAATAAACGTTGATGTCATACCAATTCAGATATGGAGGTTGGAACGGTTTTATGTAGT
ACGGGGCCACTTCTTGCCCTTCAAGTAGCTTTTCATATAACTCTTTATATGATATAGGTATAGCA
TCAACATGAGAACCGCCTTTTATCTTGGATTGAACCTGAGTTTTAGACGTCGGGAGCAGACTAAA
CTTCATTGATTTTAGATTATATGATTTCTTCTCATCTCTGGGAGCTTCTTCTC
Found at i:876831 original size:23 final size:26
Alignment explanation
Indices: 876801--876856 Score: 82
Period size: 23 Copynumber: 2.3 Consensus size: 26
876791 TTAATACCTG
*
876801 AATAAAATAA-ATAAAAA-AAT-ATT
1 AATAAAATAATATAAAAATAATAAGT
876824 AATAAAATAATATAAAAATAATAAGT
1 AATAAAATAATATAAAAATAATAAGT
876850 AATAAAA
1 AATAAAA
876857 AATTTCAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 10 0.34
24 7 0.24
25 3 0.10
26 9 0.31
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (26 bp):
AATAAAATAATATAAAAATAATAAGT
Found at i:876846 original size:14 final size:13
Alignment explanation
Indices: 876804--876858 Score: 53
Period size: 11 Copynumber: 4.2 Consensus size: 13
876794 ATACCTGAAT
876804 AAAATAA-ATAAA
1 AAAATAATATAAA
*
876816 AAAAT-AT-TAAT
1 AAAATAATATAAA
876827 AAAATAATATAAA
1 AAAATAATATAAA
876840 AATAATAAGTAATAAA
1 AA-AATAA-T-ATAAA
876856 AAA
1 AAA
876859 TTTCAAAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
11 9 0.26
12 7 0.20
13 5 0.14
14 5 0.14
15 2 0.06
16 7 0.20
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (13 bp):
AAAATAATATAAA
Found at i:877360 original size:25 final size:29
Alignment explanation
Indices: 877330--877390 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
877320 CTGTTTTTCA
877330 AATTTATA-AT-TTT-GAAA-AAAATATT
1 AATTTATATATATTTAGAAATAAAATATT
*
877355 AATTTATATATATTTATAAATAAAATATT
1 AATTTATATATATTTAGAAATAAAATATT
*
877384 TATTTAT
1 AATTTAT
877391 TTAGAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 8 0.27
26 2 0.07
27 3 0.10
28 3 0.10
29 14 0.47
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (29 bp):
AATTTATATATATTTAGAAATAAAATATT
Found at i:877485 original size:20 final size:19
Alignment explanation
Indices: 877446--877487 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
877436 TTTCTTCAAT
877446 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
877465 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
877485 ATT
1 ATT
877488 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:877691 original size:15 final size:14
Alignment explanation
Indices: 877667--877719 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
877657 TATTTATATA
877667 AATAATAAAATAAT
1 AATAATAAAATAAT
877681 AATAATGAAAATAATT
1 AATAAT-AAAATAA-T
*
877697 AAAGCAAT-AAATAAT
1 -AA-TAATAAAATAAT
877712 AATAATAA
1 AATAATAA
877720 TAAAAATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
13 3 0.09
14 9 0.28
15 8 0.25
16 7 0.22
17 2 0.06
18 3 0.09
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (14 bp):
AATAATAAAATAAT
Found at i:877801 original size:29 final size:27
Alignment explanation
Indices: 877752--877812 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 27
877742 AAAAAAAGGA
877752 ATTAAAAATATAGTATTAAAATGTAAAAT
1 ATTAAAAATATAGTA-TAAAATG-AAAAT
877781 ATTAAAAATCATAGTCA-AAAATGAAAAT
1 ATTAAAAAT-ATAGT-ATAAAATGAAAAT
877809 -TTAA
1 ATTAA
877813 TGATTAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
27 4 0.13
28 5 0.17
29 15 0.50
30 5 0.17
31 1 0.03
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (27 bp):
ATTAAAAATATAGTATAAAATGAAAAT
Found at i:879041 original size:3 final size:3
Alignment explanation
Indices: 879035--879107 Score: 98
Period size: 3 Copynumber: 25.0 Consensus size: 3
879025 AATAATTATT
879035 TAA TAA T-A TAA T-A TAA TATA TAA T-A TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
**
879078 TAA TAA TTT TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
879108 AAATGAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
2 6 0.10
3 53 0.85
4 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:879067 original size:15 final size:14
Alignment explanation
Indices: 879023--879107 Score: 90
Period size: 12 Copynumber: 6.3 Consensus size: 14
879013 ATCTGGGCTT
* *
879023 ATAATAATTATTTA
1 ATAATAATAATATA
879037 ATAAT-ATAATATA
1 ATAATAATAATATA
879050 AT-AT-ATAATATA
1 ATAATAATAATATA
879062 ATAATAAT-A-ATA
1 ATAATAATAATATA
*
879074 ATAATAATAATTTTA
1 ATAATAATAA-TATA
879089 ATAATAATAATAATA
1 ATAATAATAAT-ATA
879104 ATAA
1 ATAA
879108 AAATGAAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
12 23 0.38
13 12 0.20
14 8 0.13
15 18 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAATAATAATATA
Found at i:880098 original size:97 final size:98
Alignment explanation
Indices: 879968--880162 Score: 293
Period size: 97 Copynumber: 2.0 Consensus size: 98
879958 ATGTAATATT
* * *
879968 TTTTAAATTTATTATAGTTTAAATTTATGTGATTCATATATAAGTGTAAATATAATTTAAATGTT
1 TTTTAAATTGATTATAGTTTAAATTGATGTGATTCATATATAAGTGTAAATATAATTTAAATATT
*
880033 GTATTTTTAATTTACAACATAATATCTATAATA
66 ATATTTTTAATTTACAACATAATATCTATAATA
* * * *
880066 TTTTAAATTGA-TGTAGTTTAAATTGATTTGATTTATATGTAAGTGTAAATATAATTTAAATATT
1 TTTTAAATTGATTATAGTTTAAATTGATGTGATTCATATATAAGTGTAAATATAATTTAAATATT
* *
880130 ATATTTTTAATTTACAATATAATGTCTATAATA
66 ATATTTTTAATTTACAACATAATATCTATAATA
880163 GATATTTTAT
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
97 77 0.89
98 10 0.11
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.49
Consensus pattern (98 bp):
TTTTAAATTGATTATAGTTTAAATTGATGTGATTCATATATAAGTGTAAATATAATTTAAATATT
ATATTTTTAATTTACAACATAATATCTATAATA
Found at i:884006 original size:3 final size:3
Alignment explanation
Indices: 883998--884134 Score: 94
Period size: 3 Copynumber: 42.7 Consensus size: 3
883988 ATTTAATATT
* * * *
883998 TAA TAA TAA TTAA CAA TAA TAA TAA TTAG TAA TAA CAA TAAA TAT TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA -TAA TAA TAA TAA T-AA TAA TAA
* * *
884046 TAA TAA TAA TAA TTAA TAA TAG TAA TTAA TAA TCA TAA TAA TTAA TAC
1 TAA TAA TAA TAA -TAA TAA TAA TAA -TAA TAA TAA TAA TAA -TAA TAA
* * * *
884094 TAA TAA CAA TTAA TATT TAT TAA TAA TAT TAA TTAA TAA TA
1 TAA TAA TAA -TAA TA-A TAA TAA TAA TAA TAA -TAA TAA TA
884135 TGCAAAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
3 81 0.77
4 24 0.23
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:884015 original size:13 final size:13
Alignment explanation
Indices: 883998--884134 Score: 102
Period size: 13 Copynumber: 10.4 Consensus size: 13
883988 ATTTAATATT
883998 TAATAATAATTAA
1 TAATAATAATTAA
*
884011 CAATAATAA-TAA
1 TAATAATAATTAA
* *
884023 TTAGTAATAA-CAA
1 -TAATAATAATTAA
*
884036 TAAATATTAA-TAA
1 T-AATAATAATTAA
884049 TAATAATAATTAA
1 TAATAATAATTAA
*
884062 TAATAGTAATTAA
1 TAATAATAATTAA
884075 TAATCATAATAATTAA
1 T-A--ATAATAATTAA
* *
884091 TACTAATAA-CAA
1 TAATAATAATTAA
* *
884103 TTAATATTTATTAA
1 -TAATAATAATTAA
*
884117 TAATATTAATTAA
1 TAATAATAATTAA
884130 TAATA
1 TAATA
884135 TGCAAAATTG
Statistics
Matches: 99, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
12 13 0.13
13 71 0.72
14 3 0.03
15 1 0.01
16 11 0.11
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (13 bp):
TAATAATAATTAA
Found at i:884019 original size:16 final size:16
Alignment explanation
Indices: 883998--884108 Score: 125
Period size: 16 Copynumber: 6.9 Consensus size: 16
883988 ATTTAATATT
*
883998 TAATAATAATTAACAA
1 TAATAATAATTAATAA
*
884014 TAATAATAATTAGTAA
1 TAATAATAATTAATAA
* * *
884030 TAACAATAAATATTAA
1 TAATAATAATTAATAA
884046 TAATAATAA-TAATTAA
1 TAATAATAATTAA-TAA
*
884062 TAATAGTAATTAATAA
1 TAATAATAATTAATAA
* *
884078 TCATAATAATTAATAC
1 TAATAATAATTAATAA
*
884094 TAATAACAATTAATA
1 TAATAATAATTAATA
884109 TTTATTAATA
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
15 2 0.03
16 75 0.94
17 3 0.04
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.35
Consensus pattern (16 bp):
TAATAATAATTAATAA
Found at i:884023 original size:29 final size:28
Alignment explanation
Indices: 883991--884121 Score: 95
Period size: 29 Copynumber: 4.5 Consensus size: 28
883981 CATATATATT
*
883991 TAATATTTAATAATAATTAACAATAATAA
1 TAATAATTAATAATAA-TAACAATAATAA
* * **
884020 TAATTAGTAATAACAATAAATATTAATAATAA
1 TAA-TA--ATTAATAAT-AATAACAATAATAA
* * *
884052 TAATAATTAATAATAGTAATTAATAATCA
1 TAATAATTAATAATAATAA-CAATAATAA
*
884081 TAATAATTAATACTAATAACAAT--TAA
1 TAATAATTAATAATAATAACAATAATAA
* *
884107 TATTTATTAATAATA
1 TAATAATTAATAATA
884122 TTAATTAATA
Statistics
Matches: 80, Mismatches: 17, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
26 14 0.17
28 6 0.08
29 35 0.44
30 2 0.03
31 2 0.03
32 19 0.24
33 2 0.03
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (28 bp):
TAATAATTAATAATAATAACAATAATAA
Found at i:886288 original size:57 final size:56
Alignment explanation
Indices: 886224--886332 Score: 200
Period size: 57 Copynumber: 1.9 Consensus size: 56
886214 CCCAACTTTC
886224 TTTTATTTCAATTTAATCATCATATTTTTATTTATTTTATTTTTTAATTTATTCCTA
1 TTTTATTTCAATTTAATCATCATATTTTTATTTA-TTTATTTTTTAATTTATTCCTA
*
886281 TTTTATTTCAATTTAATCATCATATTTTTATTTATTTATTTTTTATTTTATT
1 TTTTATTTCAATTTAATCATCATATTTTTATTTATTTATTTTTTAATTTATT
886333 ACTTTGGTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
56 17 0.33
57 34 0.67
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (56 bp):
TTTTATTTCAATTTAATCATCATATTTTTATTTATTTATTTTTTAATTTATTCCTA
Found at i:886791 original size:9 final size:9
Alignment explanation
Indices: 886777--886824 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
886767 TTTTGTTTTG
886777 TTTTATTTA
1 TTTTATTTA
886786 TTTTATTGT-
1 TTTTATT-TA
886795 TTTGT-TTTA
1 TTT-TATTTA
886804 -TTT-TTTA
1 TTTTATTTA
886811 TTTTATTTA
1 TTTTATTTA
886820 TTTTA
1 TTTTA
886825 CTTTGTTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
7 5 0.15
8 6 0.18
9 21 0.62
10 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (9 bp):
TTTTATTTA
Found at i:886814 original size:5 final size:5
Alignment explanation
Indices: 886766--886861 Score: 51
Period size: 5 Copynumber: 19.6 Consensus size: 5
886756 TCTTCCCTTC
* *
886766 ATTTT GTTTT GTTTT A-TTT ATTTT ATTGTT -TTGTT -TTATT -TTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATT-TT ATT-TT ATT-TT ATTTT
* * * * *
886810 ATTTT A-TTT ATTTT ACTTT GTTTT CTCTTT -TTTC GTTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT AT-TTT ATTTT ATTTT ATTTT ATTTT
886859 ATT
1 ATT
886862 CTTTATCCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
4 12 0.16
5 58 0.77
6 5 0.07
ACGTcount: A:0.12, C:0.04, G:0.06, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:886851 original size:39 final size:35
Alignment explanation
Indices: 886767--886857 Score: 112
Period size: 34 Copynumber: 2.5 Consensus size: 35
886757 CTTCCCTTCA
* *
886767 TTTTGTTTTGTTTTATTTATTTTATTGTTTTGTTT
1 TTTTGTTTTATTTTATTTATTTTATTGTTTTCTTT
*
886802 TATT-TTTTATTTTATTTATTTTACTTTGTTTTCTCTT
1 TTTTGTTTTATTTTATTTATTTTA--TTGTTTTCT-TT
886839 TTTTCGTTTTATTTTATTT
1 TTTT-GTTTTATTTTATTT
886858 TATTCTTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
34 18 0.38
35 3 0.06
36 8 0.17
37 5 0.11
39 13 0.28
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (35 bp):
TTTTGTTTTATTTTATTTATTTTATTGTTTTCTTT
Found at i:890858 original size:96 final size:96
Alignment explanation
Indices: 890717--890980 Score: 329
Period size: 96 Copynumber: 2.7 Consensus size: 96
890707 AGATTATAAT
* * * * *
890717 ATTATATATATACTATAAAGCTTGAGTTGTCCCTCTAAATCAATTGGTTAAACGCCCCGACTTTA
1 ATTATATATTTACAATAAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTA
890782 TGGATAAGATTAAGCTAAGCCTAATAAAGGT-G
66 TGGATAAGATTAAGCT-AGCCTAATAAA-GTCG
* *
890814 ATTATA-ATTTACAATAAAACTTGAGTTGTCCCTCTAGAGAAATTGGTTAAACG-CCCTAGCTTT
1 ATTATATATTTACAATAAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGA-CTTT
* *
890877 ATGGATAATATTCAGCTAGCCTAATAAAGTCG
65 ATGGATAAGATTAAGCTAGCCTAATAAAGTCG
* * * *
890909 ATTATAATATCTATACAATGATA-TTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCT
1 ATTAT-ATAT-T-TACAATAAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACT
890973 TTATGGAT
63 TTATGGAT
890981 TCAACTAGCC
Statistics
Matches: 145, Mismatches: 15, Indels: 13
0.84 0.09 0.08
Matches are distributed among these distances:
94 2 0.01
95 21 0.14
96 61 0.42
97 8 0.06
98 42 0.29
99 11 0.08
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (96 bp):
ATTATATATTTACAATAAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTA
TGGATAAGATTAAGCTAGCCTAATAAAGTCG
Found at i:892157 original size:72 final size:76
Alignment explanation
Indices: 892074--892216 Score: 206
Period size: 72 Copynumber: 1.9 Consensus size: 76
892064 CTTGATATTG
* * *
892074 TTTTTCTTAAAA-TAGACTTTATCTCACTTGAGACTATTTT-ACTCGAAAGAA-G-ATTTC-TTT
1 TTTTTCTTAAAACAAGA-TTTATCTAACTTGAGACCATTTTCACTCGAAAGAAGGCATTTCATTT
892134 CACTCAAGTTTT
65 CACTCAAGTTTT
*
892146 TTTTTCTTAAAACAAGATTTGTCTAACTTGAGACCATTTTCACTCGAAAGAAGGCATTTCATTTC
1 TTTTTCTTAAAACAAGATTTATCTAACTTGAGACCATTTTCACTCGAAAGAAGGCATTTCATTTC
892211 ACTCAA
66 ACTCAA
892217 AACTGTTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
72 32 0.52
73 14 0.23
74 1 0.02
75 5 0.08
76 10 0.16
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (76 bp):
TTTTTCTTAAAACAAGATTTATCTAACTTGAGACCATTTTCACTCGAAAGAAGGCATTTCATTTC
ACTCAAGTTTT
Found at i:892362 original size:37 final size:37
Alignment explanation
Indices: 892229--892372 Score: 171
Period size: 39 Copynumber: 3.8 Consensus size: 37
892219 CTGTTTTTAA
* *
892229 TCTCTCTTGAGATAGTTTCCCTCGAAATAAAAGATTTTG
1 TCTCGCTTGAGATAGTTTCCCTCGAAA-CAAA-ATTTTG
*
892268 TCTCGCTTGAGATAGTTTCCCTCGAAACAAAATTTTTTA
1 TCTCGCTTGAGATAGTTTCCCTCGAAACAAAA--TTTTG
* *
892307 TCTCGCTTGAGATAGTTTCCCTTGAAACCAAATTTTG
1 TCTCGCTTGAGATAGTTTCCCTCGAAACAAAATTTTG
* * * *
892344 TCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TCTCGCTTGAGATAGTTTCCCTCGAAACA
892373 TAAACATTGA
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
37 30 0.32
38 3 0.03
39 60 0.65
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.38
Consensus pattern (37 bp):
TCTCGCTTGAGATAGTTTCCCTCGAAACAAAATTTTG
Found at i:892371 original size:76 final size:78
Alignment explanation
Indices: 892222--892372 Score: 207
Period size: 76 Copynumber: 2.0 Consensus size: 78
892212 CTCAAAACTG
* * *
892222 TTTTTAATCTCTCTTGAGATAGTTTCCCTCGAAATAAAAGATTTTGTCTCGCTTGAGATAGTTTC
1 TTTTTAATCTCGCTTGAGATAGTTTCCCTCGAAATAAAAGATTTTGTCTCCCTTGAGACAGTTTC
892287 CCTCGAAACAAAA
66 CCTCGAAACAAAA
* * **
892300 TTTTTTATCTCGCTTGAGATAGTTTCCCTTGAAA-CCAA-ATTTTGTCTCCCTTGAGACAGTTTC
1 TTTTTAATCTCGCTTGAGATAGTTTCCCTCGAAATAAAAGATTTTGTCTCCCTTGAGACAGTTTC
* *
892363 TCTTGAAACA
66 CCTCGAAACA
892373 TAAACATTGA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
76 31 0.48
77 2 0.03
78 31 0.48
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (78 bp):
TTTTTAATCTCGCTTGAGATAGTTTCCCTCGAAATAAAAGATTTTGTCTCCCTTGAGACAGTTTC
CCTCGAAACAAAA
Found at i:892446 original size:37 final size:37
Alignment explanation
Indices: 892402--892474 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
892392 CCTTGAAATG
* *
892402 AATTTTGTCTCTCTTGAGATAGTTTGC-CTTGAAACAA
1 AATTTTGTCTCCCTTGAGACAGTTT-CTCTTGAAACAA
892439 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
892475 TAAACATTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 1 0.03
37 32 0.97
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
Found at i:892488 original size:102 final size:101
Alignment explanation
Indices: 892302--893308 Score: 1635
Period size: 102 Copynumber: 10.0 Consensus size: 101
892292 AAACAAAATT
* *
892302 TTTTATCTCGCTTGAGATAGTTTCCCTTGAAACCAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
1 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAA-CAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
892367 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAA
65 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAA
*
892404 TTTTGTCTCTCTTGAGATAGTTTGCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
1 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTT
892469 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAA
65 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAA
892506 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
1 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTT
* *
892571 GAAACATAAACATAGAAAACATTTCCCTTGAAATCAA
65 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAA
*
892608 TTTTGTCTCTCTTGAGATAGTTTGCCTTGAAACAAA--TTGTCTCCCTTGAGACAGTTTCTCTTG
1 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
* *
892671 AAACATAAACATTGGAAACATTTCTCTTGAAATGAA
66 AAACATAAACATTGAAAACATTTCCCTTGAAATGAA
*
892707 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACGAAATTTTGTCTTCCTTGAGACAGTTTCTCTT
1 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTT
*
892772 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAG
65 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAA
*
892809 TTTTGTCTCTCTTGAGATAGTTTGCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
1 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
* * *
892874 AAGCATAAACATTCAAAACATTTCTCTTGAAATGAA
66 AAACATAAACATTGAAAACATTTCCCTTGAAATGAA
** *
892910 TTTTACCTCTCTTGAGATAGTTTCCCTTGAAACGAAATTTTGTCTTCCTTGAGACAGTTTCTCTT
1 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTT
892975 GAAACATAAACATTGAAAACATTTCCCTTGAAATG-A
65 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAA
* *
893011 GTTTGTCTCTCTTGAGATAGTTTGCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
1 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
* * *
893076 AAGCATAAACATTCAAAACATTTCTCTTGAAATGAA
66 AAACATAAACATTGAAAACATTTCCCTTGAAATGAA
** * * *
893112 TTTTACCTCTCTTGAGATAGTTTCCCTTGAAATAAA-ATTGACTCCCTTGAGACAGTTTCTCTTG
1 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
* *
893176 AAACATAAACATTGAAAATATTTCCCTTGAAATGAG
66 AAACATAAACATTGAAAACATTTCCCTTGAAATGAA
* * *
893212 TTTTGTCTCTCTTGATATAGTTTACCTTGAAGCAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
1 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
* *
893277 AAACATAAACTTTGAAAACGTTTCCCTTGAAA
66 AAACATAAACATTGAAAACATTTCCCTTGAAA
893309 AATAAAATAT
Statistics
Matches: 838, Mismatches: 60, Indels: 15
0.92 0.07 0.02
Matches are distributed among these distances:
99 91 0.11
100 152 0.18
101 214 0.26
102 381 0.45
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (101 bp):
TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
AAACATAAACATTGAAAACATTTCCCTTGAAATGAA
Found at i:892557 original size:37 final size:37
Alignment explanation
Indices: 892490--892576 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
892480 ATTGAAAACA
** * *
892490 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
892526 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
892563 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
892577 TAAACATAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 12 0.27
37 33 0.73
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:892656 original size:34 final size:34
Alignment explanation
Indices: 892596--892777 Score: 101
Period size: 37 Copynumber: 5.3 Consensus size: 34
892586 AAAACATTTC
* * *
892596 CCTTGAAATCAATTTTGTCTCTCTTGAGATAGTTT
1 CCTTGAAA-CAATATTGTCTCCCTTGAGACAGTTT
892631 GCCTTGAAACAA-ATTGTCTCCCTTGAGACAGTTT
1 -CCTTGAAACAATATTGTCTCCCTTGAGACAGTTT
** * *
892665 CTCTTGAAAC-ATA--AACAT---TGGAAACA-TTT
1 C-CTTGAAACAATATTGTC-TCCCTTGAGACAGTTT
* * * *
892694 CTCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTT
1 C-CTTGAAA-CAATATTGTCTCCCTTGAGACAGTTT
* *
892730 CCCTTGAAACGAAATTTTGTCTTCCTTGAGACAGTTT
1 -CCTTGAAAC--AATATTGTCTCCCTTGAGACAGTTT
892767 CTCTTGAAACA
1 C-CTTGAAACA
892778 TAAACATTGA
Statistics
Matches: 113, Mismatches: 18, Indels: 31
0.70 0.11 0.19
Matches are distributed among these distances:
29 12 0.11
30 6 0.05
31 2 0.02
32 2 0.02
33 4 0.04
34 28 0.25
35 9 0.08
36 19 0.17
37 31 0.27
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (34 bp):
CCTTGAAACAATATTGTCTCCCTTGAGACAGTTT
Found at i:892748 original size:37 final size:36
Alignment explanation
Indices: 892691--892776 Score: 120
Period size: 37 Copynumber: 2.4 Consensus size: 36
892681 ATTGGAAACA
* *
892691 TTTCTCTTGAAATGAATTTTGTC-TCTCTTGAGATAG
1 TTTCTCTTGAAACGAATTTTGTCTTC-CTTGAGACAG
*
892727 TTTCCCTTGAAACGAAATTTTGTCTTCCTTGAGACAG
1 TTTCTCTTGAAACG-AATTTTGTCTTCCTTGAGACAG
892764 TTTCTCTTGAAAC
1 TTTCTCTTGAAAC
892777 ATAAACATTG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 12 0.27
37 30 0.68
38 2 0.05
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (36 bp):
TTTCTCTTGAAACGAATTTTGTCTTCCTTGAGACAG
Found at i:892748 original size:201 final size:202
Alignment explanation
Indices: 892302--893308 Score: 1671
Period size: 201 Copynumber: 5.0 Consensus size: 202
892292 AAACAAAATT
* *
892302 TTTTATCTCGCTTGAGATAGTTTCCCTTGAAACCAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
1 TTTTATCTCTCTTGAGATAGTTTCCCTTGAAACGAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
892367 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTGCCTT
66 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTGCCTT
*
892432 GAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCT
131 GAAAC-AAA-TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCTCT
892497 TGAAATGAA
194 TGAAATGAA
* *
892506 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
1 TTTTATCTCTCTTGAGATAGTTTCCCTTGAAACGAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
* *
892571 GAAACATAAACATAGAAAACATTTCCCTTGAAATCAATTTTGTCTCTCTTGAGATAGTTTGCCTT
66 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTGCCTT
*
892636 GAAACAAA-TTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGGAAACATTTCTCTTG
131 GAAACAAATTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCTCTTG
892700 AAATGAA
196 AAATGAA
* *
892707 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACGAAATTTTGTCTTCCTTGAGACAGTTTCTCTT
1 TTTTATCTCTCTTGAGATAGTTTCCCTTGAAACGAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
*
892772 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAGTTTTGTCTCTCTTGAGATAGTTTGCCTT
66 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTGCCTT
* *
892837 GAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCATAAACATTCAAAACATTTCTCTT
131 GAAACAAA-TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCTCTT
892902 GAAATGAA
195 GAAATGAA
* *
892910 TTTTACCTCTCTTGAGATAGTTTCCCTTGAAACGAAATTTTGTCTTCCTTGAGACAGTTTCTCTT
1 TTTTATCTCTCTTGAGATAGTTTCCCTTGAAACGAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
*
892975 GAAACATAAACATTGAAAACATTTCCCTTGAAATG-AGTTTGTCTCTCTTGAGATAGTTTGCCTT
66 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTGCCTT
* *
893039 GAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCATAAACATTCAAAACATTTCTCTT
131 GAAACAAA-TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCTCTT
893104 GAAATGAA
195 GAAATGAA
* * * *
893112 TTTTACCTCTCTTGAGATAGTTTCCCTTGAAA-TAAA-ATTGACTCCCTTGAGACAGTTTCTCTT
1 TTTTATCTCTCTTGAGATAGTTTCCCTTGAAACGAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
* * * *
893175 GAAACATAAACATTGAAAATATTTCCCTTGAAATGAGTTTTGTCTCTCTTGATATAGTTTACCTT
66 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTGCCTT
* * * *
893240 GAAGCAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAACGTTTCCCTT
131 GAAACAAA-TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCTCTT
893305 GAAA
195 GAAA
893309 AATAAAATAT
Statistics
Matches: 766, Mismatches: 34, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
200 58 0.08
201 285 0.37
202 132 0.17
203 161 0.21
204 130 0.17
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (202 bp):
TTTTATCTCTCTTGAGATAGTTTCCCTTGAAACGAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
GAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTGCCTT
GAAACAAATTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCTCTTG
AAATGAA
Found at i:893050 original size:303 final size:304
Alignment explanation
Indices: 892302--893308 Score: 1646
Period size: 303 Copynumber: 3.3 Consensus size: 304
892292 AAACAAAATT
*
892302 TTTTATCTCGCTTGAGATAGTTTCCCTTGAAACCAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
1 TTTTATCTCTCTTGAGATAGTTTCCCTTGAAA-CAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
892367 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTGCCTT
65 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTGCCTT
892432 GAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCT
130 GAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCT
892497 TGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACA
195 TGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACA
* *
892562 GTTTCTCTTGAAACATAAACATAGAAAACATTTCCCTTGAAATCAA
259 GTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAA
* *
892608 TTTTGTCTCTCTTGAGATAGTTTGCCTTGAAACAAA--TTGTCTCCCTTGAGACAGTTTCTCTTG
1 TTTTATCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
* * *
892671 AAACATAAACATTGGAAACATTTCTCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTG
66 AAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTGCCTTG
* *
892736 AAACGAAATTTTGTCTTCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTT
131 AAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTT
* *
892801 GAAATGAGTTTTGTCTCTCTTGAGATAGTTTGCCTTGAAACAAATTTTGTCTCCCTTGAGACAGT
196 GAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGT
* * *
892866 TTCTCTTGAAGCATAAACATTCAAAACATTTCTCTTGAAATGAA
261 TTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAA
* *
892910 TTTTACCTCTCTTGAGATAGTTTCCCTTGAAACGAAATTTTGTCTTCCTTGAGACAGTTTCTCTT
1 TTTTATCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTT
*
892975 GAAACATAAACATTGAAAACATTTCCCTTGAAATG-AGTTTGTCTCTCTTGAGATAGTTTGCCTT
65 GAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTGCCTT
* * *
893039 GAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCATAAACATTCAAAACATTTCTCT
130 GAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCT
** * * *
893103 TGAAATGAATTTTACCTCTCTTGAGATAGTTTCCCTTGAAATAAA-ATTGACTCCCTTGAGACAG
195 TGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
* *
893167 TTTCTCTTGAAACATAAACATTGAAAATATTTCCCTTGAAATGAG
260 TTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAA
* * * *
893212 TTTTGTCTCTCTTGATATAGTTTACCTTGAAGCAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
1 TTTTATCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
* *
893277 AAACATAAACTTTGAAAACGTTTCCCTTGAAA
66 AAACATAAACATTGAAAACATTTCCCTTGAAA
893309 AATAAAATAT
Statistics
Matches: 651, Mismatches: 47, Indels: 11
0.92 0.07 0.02
Matches are distributed among these distances:
301 61 0.09
302 178 0.27
303 289 0.44
304 32 0.05
305 62 0.10
306 29 0.04
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (304 bp):
TTTTATCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
AAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTGCCTTG
AAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTT
GAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGT
TTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAA
Found at i:893305 original size:29 final size:31
Alignment explanation
Indices: 893259--893340 Score: 89
Period size: 29 Copynumber: 2.7 Consensus size: 31
893249 TTTGTCTCCC
* * *
893259 TTGAGACAGTTTCTCTTGAAACAT-AAA-CT
1 TTGAAACAGTTTCCCTTGAAACATAAAATAT
*
893288 TTGAAA-ACGTTTCCCTTGAAAAATAAAATAT
1 TTGAAACA-GTTTCCCTTGAAACATAAAATAT
*
893319 TTGAATCAGTTTCCCTTGAAAC
1 TTGAAACAGTTTCCCTTGAAAC
893341 GAGTTTTTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
28 1 0.02
29 19 0.44
30 3 0.07
31 19 0.44
32 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (31 bp):
TTGAAACAGTTTCCCTTGAAACATAAAATAT
Found at i:893482 original size:66 final size:66
Alignment explanation
Indices: 893347--893502 Score: 222
Period size: 66 Copynumber: 2.3 Consensus size: 66
893337 AAACGAGTTT
* *** ** *
893347 TTGAGACAATTTCCCTTGAAACACCCACATTTGAGATTGTTTCCCTTGAAACGTGTTTTGTCTCT
1 TTGAGACAATTTCCCTTGAAACACCAACATTTGAGATTGTTTCCCTTGAAACAAATTTCATCTCG
893412 C
66 C
* *
893413 TTGAGACAGTTTCTCTTGAAACACCAACATTTGAGATTGTTTCCCTTGAAACAAATTTCATCTCG
1 TTGAGACAATTTCCCTTGAAACACCAACATTTGAGATTGTTTCCCTTGAAACAAATTTCATCTCG
893478 C
66 C
893479 TTGAGACAATTTTCCCTTGAAACA
1 TTGAGACAA-TTTCCCTTGAAACA
893503 AGAAATTTTA
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
66 65 0.83
67 13 0.17
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (66 bp):
TTGAGACAATTTCCCTTGAAACACCAACATTTGAGATTGTTTCCCTTGAAACAAATTTCATCTCG
C
Found at i:893503 original size:16 final size:16
Alignment explanation
Indices: 893452--893503 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 16
893442 TTTGAGATTG
893452 TTTCCCTTGAAACAAAT
1 TTTCCCTTGAAAC-AAT
*
893469 TTCATCTCGCTTGAGACAAT
1 TT--TC-C-CTTGAAACAAT
893489 TTTCCCTTGAAACAA
1 TTTCCCTTGAAACAA
893504 GAAATTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
16 9 0.31
17 3 0.10
18 2 0.07
19 2 0.07
20 6 0.21
21 7 0.24
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.35
Consensus pattern (16 bp):
TTTCCCTTGAAACAAT
Found at i:893582 original size:29 final size:31
Alignment explanation
Indices: 893545--893617 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
893535 TAAAACAGAT
* *
893545 TTTCTCTTGAAACAT-AAA-CTTTGAAA-ACG
1 TTTCCCTTGAAACATAAAATATTTGAAACA-G
* *
893574 TTTCCCTTGAAAAATAAAATATTTGAATCAG
1 TTTCCCTTGAAACATAAAATATTTGAAACAG
893605 TTTCCCTTGAAAC
1 TTTCCCTTGAAAC
893618 GAGTTTTTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 13 0.36
30 3 0.08
31 19 0.53
32 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.36
Consensus pattern (31 bp):
TTTCCCTTGAAACATAAAATATTTGAAACAG
Found at i:893759 original size:66 final size:66
Alignment explanation
Indices: 893624--893779 Score: 222
Period size: 66 Copynumber: 2.3 Consensus size: 66
893614 AAACGAGTTT
* *** ** *
893624 TTGAGACAATTTCCCTTGAAACACCCACATTTGAGATTGTTTCCCTTGAAACGTGTTTTGTCTCT
1 TTGAGACAATTTCCCTTGAAACACCAACATTTGAGATTGTTTCCCTTGAAACAAATTTCATCTCG
893689 C
66 C
* *
893690 TTGAGACAGTTTCTCTTGAAACACCAACATTTGAGATTGTTTCCCTTGAAACAAATTTCATCTCG
1 TTGAGACAATTTCCCTTGAAACACCAACATTTGAGATTGTTTCCCTTGAAACAAATTTCATCTCG
893755 C
66 C
893756 TTGAGACAATTTTCCCTTGAAACA
1 TTGAGACAA-TTTCCCTTGAAACA
893780 AGAAATTTTA
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
66 65 0.83
67 13 0.17
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (66 bp):
TTGAGACAATTTCCCTTGAAACACCAACATTTGAGATTGTTTCCCTTGAAACAAATTTCATCTCG
C
Found at i:893762 original size:277 final size:277
Alignment explanation
Indices: 893268--893823 Score: 1112
Period size: 277 Copynumber: 2.0 Consensus size: 277
893258 CTTGAGACAG
893268 TTTCTCTTGAAACATAAACTTTGAAAACGTTTCCCTTGAAAAATAAAATATTTGAATCAGTTTCC
1 TTTCTCTTGAAACATAAACTTTGAAAACGTTTCCCTTGAAAAATAAAATATTTGAATCAGTTTCC
893333 CTTGAAACGAGTTTTTGAGACAATTTCCCTTGAAACACCCACATTTGAGATTGTTTCCCTTGAAA
66 CTTGAAACGAGTTTTTGAGACAATTTCCCTTGAAACACCCACATTTGAGATTGTTTCCCTTGAAA
893398 CGTGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCAACATTTGAGATTGTTTCCCTTGAA
131 CGTGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCAACATTTGAGATTGTTTCCCTTGAA
893463 ACAAATTTCATCTCGCTTGAGACAATTTTCCCTTGAAACAAGAAATTTTATCTCACCCGAGAGAG
196 ACAAATTTCATCTCGCTTGAGACAATTTTCCCTTGAAACAAGAAATTTTATCTCACCCGAGAGAG
893528 TTTTTCTTAAAACAGAT
261 TTTTTCTTAAAACAGAT
893545 TTTCTCTTGAAACATAAACTTTGAAAACGTTTCCCTTGAAAAATAAAATATTTGAATCAGTTTCC
1 TTTCTCTTGAAACATAAACTTTGAAAACGTTTCCCTTGAAAAATAAAATATTTGAATCAGTTTCC
893610 CTTGAAACGAGTTTTTGAGACAATTTCCCTTGAAACACCCACATTTGAGATTGTTTCCCTTGAAA
66 CTTGAAACGAGTTTTTGAGACAATTTCCCTTGAAACACCCACATTTGAGATTGTTTCCCTTGAAA
893675 CGTGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCAACATTTGAGATTGTTTCCCTTGAA
131 CGTGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCAACATTTGAGATTGTTTCCCTTGAA
893740 ACAAATTTCATCTCGCTTGAGACAATTTTCCCTTGAAACAAGAAATTTTATCTCACCCGAGAGAG
196 ACAAATTTCATCTCGCTTGAGACAATTTTCCCTTGAAACAAGAAATTTTATCTCACCCGAGAGAG
893805 TTTTTCTTAAAACAGAT
261 TTTTTCTTAAAACAGAT
893822 TT
1 TT
893824 CTTATTCATT
Statistics
Matches: 279, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
277 279 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (277 bp):
TTTCTCTTGAAACATAAACTTTGAAAACGTTTCCCTTGAAAAATAAAATATTTGAATCAGTTTCC
CTTGAAACGAGTTTTTGAGACAATTTCCCTTGAAACACCCACATTTGAGATTGTTTCCCTTGAAA
CGTGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCAACATTTGAGATTGTTTCCCTTGAA
ACAAATTTCATCTCGCTTGAGACAATTTTCCCTTGAAACAAGAAATTTTATCTCACCCGAGAGAG
TTTTTCTTAAAACAGAT
Found at i:893780 original size:16 final size:16
Alignment explanation
Indices: 893729--893780 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 16
893719 TTTGAGATTG
893729 TTTCCCTTGAAACAAAT
1 TTTCCCTTGAAAC-AAT
*
893746 TTCATCTCGCTTGAGACAAT
1 TT--TC-C-CTTGAAACAAT
893766 TTTCCCTTGAAACAA
1 TTTCCCTTGAAACAA
893781 GAAATTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
16 9 0.31
17 3 0.10
18 2 0.07
19 2 0.07
20 6 0.21
21 7 0.24
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.35
Consensus pattern (16 bp):
TTTCCCTTGAAACAAT
Found at i:896150 original size:18 final size:19
Alignment explanation
Indices: 896114--896151 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
896104 CATATATATA
896114 TTTTTCTATTTTTATTCAT
1 TTTTTCTATTTTTATTCAT
896133 TTTTTCT-TTTATTA-TCAT
1 TTTTTCTATTT-TTATTCAT
896151 T
1 T
896152 ATCCTTATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTCTATTTTTATTCAT
Found at i:898288 original size:25 final size:25
Alignment explanation
Indices: 898260--898308 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
898250 TATTCCAATT
898260 AAGAGATAAA-CTTATAAAATTTTAG
1 AAGAGATAAATC-TATAAAATTTTAG
898285 AAGAGATAAATCTATAAAATTTTA
1 AAGAGATAAATCTATAAAATTTTA
898309 AGATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.53, C:0.04, G:0.10, T:0.33
Consensus pattern (25 bp):
AAGAGATAAATCTATAAAATTTTAG
Found at i:898371 original size:25 final size:23
Alignment explanation
Indices: 898311--898378 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 23
898301 AAATTTTAAG
898311 ATAAAAATAAATTATTGATAAAAAA
1 ATAAAAATAAATTATT--TAAAAAA
*
898336 ATAAAAATAAATTATTTAAAATAT
1 ATAAAAATAAATTATTTAAAA-AA
*
898360 ATAAACATTAAATT-TTTAA
1 ATAAA-AATAAATTATTTAA
898379 GAAATACGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
23 5 0.13
24 11 0.28
25 23 0.59
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (23 bp):
ATAAAAATAAATTATTTAAAAAA
Found at i:901876 original size:29 final size:29
Alignment explanation
Indices: 901838--901906 Score: 120
Period size: 29 Copynumber: 2.3 Consensus size: 29
901828 CTCCTGTGTC
*
901838 CCAGTATCTTATTCGTTATCCTCTCCTAT
1 CCAGTATCTTATTCGCTATCCTCTCCTAT
901867 CCAGTATCTTATTCGCTATCCTCTCCTAT
1 CCAGTATCTTATTCGCTATCCTCTCCTAT
901896 CCAAGTATCTT
1 CC-AGTATCTT
901907 CAACTCCATT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 30 0.79
30 8 0.21
ACGTcount: A:0.19, C:0.32, G:0.07, T:0.42
Consensus pattern (29 bp):
CCAGTATCTTATTCGCTATCCTCTCCTAT
Found at i:905885 original size:2 final size:2
Alignment explanation
Indices: 905878--905914 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
905868 TCAATCTACA
* *
905878 AT AT AT AT AT AT AT GT AT AT GT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
905915 AAATTTATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:906088 original size:82 final size:83
Alignment explanation
Indices: 905944--906095 Score: 211
Period size: 82 Copynumber: 1.8 Consensus size: 83
905934 ACGATACATG
* * * *
905944 AATGTGTGTCATCTTTTTTAATGATGTGTGCTTCAATAACACGCAATGTAAGTCATACATGCGTG
1 AATGTGTGTCATCTTATTTAATGATGTGGGCTTCAATAACACGCAATGTAAGTCATAAATGCGCG
906009 TCATATATTTATGACACA
66 TCATATATTTATGACACA
* *
906027 AATGTGTGTCATCTTAATTT-ATGATG-GGGCTTCAATGACACTCAATG-AACGTCATAAATGCG
1 AATGTGTGTCATCTT-ATTTAATGATGTGGGCTTCAATAACACGCAATGTAA-GTCATAAATGCG
906089 CGTCATA
64 CGTCATA
906096 AATGTGTGTC
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
81 2 0.03
82 35 0.57
83 21 0.34
84 3 0.05
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.35
Consensus pattern (83 bp):
AATGTGTGTCATCTTATTTAATGATGTGGGCTTCAATAACACGCAATGTAAGTCATAAATGCGCG
TCATATATTTATGACACA
Found at i:906092 original size:13 final size:13
Alignment explanation
Indices: 906076--906121 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
906066 ACTCAATGAA
906076 CGTCATAAATGCG
1 CGTCATAAATGCG
*
906089 CGTCATAAATGTG
1 CGTCATAAATGCG
*
906102 TGTCATAAATGCG
1 CGTCATAAATGCG
906115 CGTCATA
1 CGTCATA
906122 GATTTATGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (13 bp):
CGTCATAAATGCG
Found at i:906099 original size:26 final size:26
Alignment explanation
Indices: 906070--906121 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
906060 AATGACACTC
906070 AATGAACGTCATAAATGCGCGTCATA
1 AATGAACGTCATAAATGCGCGTCATA
***
906096 AATGTGTGTCATAAATGCGCGTCATA
1 AATGAACGTCATAAATGCGCGTCATA
906122 GATTTATGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (26 bp):
AATGAACGTCATAAATGCGCGTCATA
Found at i:906120 original size:82 final size:83
Alignment explanation
Indices: 905951--906120 Score: 184
Period size: 82 Copynumber: 2.1 Consensus size: 83
905941 ATGAATGTGT
* * * * *
905951 GTCATCTTTTTTAATGATGTGTGCTTCAATAACACGCAATGTAAGTCATACATGCGTGTCATATA
1 GTCATCTTATTTAATGATGTGGGCTTCAATAACACGCAATGTAAGTCATAAATGCGCGTCATAAA
* * *
906016 TTTATGACACAAATGTGT
66 TGTATGACACAAATGCGC
* *
906034 GTCATCTTAATTT-ATGATG-GGGCTTCAATGACACTCAATG-AACGTCATAAATGCGCGTCATA
1 GTCATCTT-ATTTAATGATGTGGGCTTCAATAACACGCAATGTAA-GTCATAAATGCGCGTCATA
* * *
906096 AATGTGTGTCATAAATGCGC
64 AATGTATGACACAAATGCGC
906116 GTCAT
1 GTCAT
906121 AGATTTATGA
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
81 2 0.03
82 53 0.74
83 14 0.19
84 3 0.04
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (83 bp):
GTCATCTTATTTAATGATGTGGGCTTCAATAACACGCAATGTAAGTCATAAATGCGCGTCATAAA
TGTATGACACAAATGCGC
Found at i:907085 original size:16 final size:16
Alignment explanation
Indices: 907064--907095 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
907054 ATTTGAAACA
907064 AATTTAAGATTTTTAT
1 AATTTAAGATTTTTAT
*
907080 AATTTAATATTTTTAT
1 AATTTAAGATTTTTAT
907096 TACAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
AATTTAAGATTTTTAT
Found at i:908670 original size:11 final size:11
Alignment explanation
Indices: 908650--908678 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
908640 GGTTTATGTT
908650 AACA-AAAACA
1 AACAGAAAACA
908660 AACAGAAAACA
1 AACAGAAAACA
908671 AACAGAAA
1 AACAGAAA
908679 TATAGTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.76, C:0.17, G:0.07, T:0.00
Consensus pattern (11 bp):
AACAGAAAACA
Found at i:908801 original size:25 final size:25
Alignment explanation
Indices: 908767--908841 Score: 141
Period size: 25 Copynumber: 3.0 Consensus size: 25
908757 TCAAAAAACT
908767 GAGAGTCCCTAAGTCCAAGGCTTGC
1 GAGAGTCCCTAAGTCCAAGGCTTGC
908792 GAGAGTCCCTAAGTCCAAGGCTTGC
1 GAGAGTCCCTAAGTCCAAGGCTTGC
*
908817 GAGAGTCCCTAAGTCTAAGGCTTGC
1 GAGAGTCCCTAAGTCCAAGGCTTGC
908842 ATGTTGATAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.24, C:0.27, G:0.28, T:0.21
Consensus pattern (25 bp):
GAGAGTCCCTAAGTCCAAGGCTTGC
Found at i:909513 original size:85 final size:85
Alignment explanation
Indices: 909370--909536 Score: 334
Period size: 85 Copynumber: 2.0 Consensus size: 85
909360 TTCCATATGG
909370 AACCCATTTGTTCCATATTAAACCGAATAGGCAATTTTTGTAAAAAAAAATTATAGTTTCAAGTG
1 AACCCATTTGTTCCATATTAAACCGAATAGGCAATTTTTGTAAAAAAAAATTATAGTTTCAAGTG
909435 ATTTTTTCATTGAAAAAACC
66 ATTTTTTCATTGAAAAAACC
909455 AACCCATTTGTTCCATATTAAACCGAATAGGCAATTTTTGTAAAAAAAAATTATAGTTTCAAGTG
1 AACCCATTTGTTCCATATTAAACCGAATAGGCAATTTTTGTAAAAAAAAATTATAGTTTCAAGTG
909520 ATTTTTTCATTGAAAAA
66 ATTTTTTCATTGAAAAA
909537 CCGAAAAATC
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (85 bp):
AACCCATTTGTTCCATATTAAACCGAATAGGCAATTTTTGTAAAAAAAAATTATAGTTTCAAGTG
ATTTTTTCATTGAAAAAACC
Found at i:909558 original size:18 final size:19
Alignment explanation
Indices: 909535--909598 Score: 73
Period size: 17 Copynumber: 3.5 Consensus size: 19
909525 TTCATTGAAA
909535 AACCGAAAAAT-CGAACCG
1 AACCGAAAAATCCGAACCG
909553 AACCGAAAAATCCGAACCG
1 AACCGAAAAATCCGAACCG
* *
909572 TTA---AAAAACCCGAACCG
1 -AACCGAAAAATCCGAACCG
909589 AACCGAAAAA
1 AACCGAAAAA
909599 ACCGGTTTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 1 0.03
17 13 0.34
18 11 0.29
19 12 0.32
20 1 0.03
ACGTcount: A:0.52, C:0.28, G:0.14, T:0.06
Consensus pattern (19 bp):
AACCGAAAAATCCGAACCG
Found at i:910423 original size:28 final size:28
Alignment explanation
Indices: 910391--910457 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
910381 TAAAAATACA
* *
910391 TAACATTTCAAACTCAAC-AAATTTTCCT
1 TAACATTTCAAACTAAACAAAATATT-CT
910419 TAACATTTCAAACTAAACAAAATATTCT
1 TAACATTTCAAACTAAACAAAATATTCT
910447 TAACATTTCAA
1 TAACATTTCAA
910458 TACCCTTACA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 30 0.83
29 6 0.17
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (28 bp):
TAACATTTCAAACTAAACAAAATATTCT
Found at i:911391 original size:78 final size:78
Alignment explanation
Indices: 911262--911417 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
911252 TAAACTATAC
911262 TGTTAGAAAATCTGTGAAAGCTTTTTCAAAAATAAAAAGTAAAAATTAAGAATCCAAATATTAAT
1 TGTTAGAAAATCTGTGAAAGCTTTTTCAAAAATAAAAAGTAAAAATTAAGAATCCAAATATTAAT
911327 TCTCCATAACTCA
66 TCTCCATAACTCA
*
911340 TGTTAGAAAATCTGTGAAAGCTTTTTTAAAAATAAAAAGTAAAAATTAAGAATCCAAATATTAAT
1 TGTTAGAAAATCTGTGAAAGCTTTTTCAAAAATAAAAAGTAAAAATTAAGAATCCAAATATTAAT
911405 TCTCCATAACTCA
66 TCTCCATAACTCA
911418 ATTTGGCTTA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (78 bp):
TGTTAGAAAATCTGTGAAAGCTTTTTCAAAAATAAAAAGTAAAAATTAAGAATCCAAATATTAAT
TCTCCATAACTCA
Found at i:911691 original size:28 final size:28
Alignment explanation
Indices: 911658--911724 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
911648 GATATAGCTA
911658 ATCATATATTATTTAGAC-AATAAAGTTG
1 ATCATATATTATTTAGACTAA-AAAGTTG
911686 ATCATATATTATTTAGACTAAAAAGTTG
1 ATCATATATTATTTAGACTAAAAAGTTG
*
911714 ATCAAATATTA
1 ATCATATATTA
911725 ATCATGCGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
28 35 0.95
29 2 0.05
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (28 bp):
ATCATATATTATTTAGACTAAAAAGTTG
Found at i:912656 original size:3 final size:3
Alignment explanation
Indices: 912648--912672 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
912638 TTTCATGGTT
912648 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
912673 CTGATTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:914494 original size:4 final size:4
Alignment explanation
Indices: 914485--914512 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
914475 ATATTCACAA
914485 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
914513 TCTTTACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:915445 original size:21 final size:22
Alignment explanation
Indices: 915415--915513 Score: 100
Period size: 21 Copynumber: 4.6 Consensus size: 22
915405 GATTTACATA
* *
915415 TTCGCATTGCGA-TAGTCCAAG
1 TTCGCGTTGCGATTATTCCAAG
915436 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA-TTATTCCAAG
915459 TT--CGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA-TTATTCCAAG
* *
915480 TTCGCGTTACGATTTATTCCAAA
1 TTCGCGTTGCGA-TTATTCCAAG
915503 TT--CGTTGCGAT
1 TTCGCGTTGCGAT
915514 AGTCCAAAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
20 1 0.01
21 39 0.57
23 29 0.42
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.38
Consensus pattern (22 bp):
TTCGCGTTGCGATTATTCCAAG
Found at i:915460 original size:23 final size:21
Alignment explanation
Indices: 915430--915513 Score: 114
Period size: 21 Copynumber: 3.8 Consensus size: 21
915420 ATTGCGATAG
915430 TCCAAGTTCGCGTTGCGATTTAT
1 TCCAAGTT--CGTTGCGATTTAT
915453 TCCAAGTTCGTTGCGATTTAT
1 TCCAAGTTCGTTGCGATTTAT
*
915474 TCCAAGTTCGCGTTACGATTTAT
1 TCCAAGTT--CGTTGCGATTTAT
*
915497 TCCAAATTCGTTGCGAT
1 TCCAAGTTCGTTGCGAT
915514 AGTCCAAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
21 29 0.52
23 27 0.48
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.39
Consensus pattern (21 bp):
TCCAAGTTCGTTGCGATTTAT
Found at i:915483 original size:44 final size:44
Alignment explanation
Indices: 915430--915513 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
915420 ATTGCGATAG
* *
915430 TCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATTTAT
1 TCCAAGTTCGCGTTACGATTTATTCCAAATTCGTTGCGATTTAT
915474 TCCAAGTTCGCGTTACGATTTATTCCAAATTCGTTGCGAT
1 TCCAAGTTCGCGTTACGATTTATTCCAAATTCGTTGCGAT
915514 AGTCCAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.39
Consensus pattern (44 bp):
TCCAAGTTCGCGTTACGATTTATTCCAAATTCGTTGCGATTTAT
Found at i:915621 original size:6 final size:6
Alignment explanation
Indices: 915610--915642 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
915600 GACACGTATT
915610 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
915643 TGAGACGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:916146 original size:6 final size:6
Alignment explanation
Indices: 916135--916161 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
916125 TCTCGTCTCG
916135 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
916162 AATACGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:916284 original size:21 final size:21
Alignment explanation
Indices: 916258--916327 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
916248 ATTTTGGACT
916258 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
916279 ATCGCAACGTGAACTTCGACT--
1 ATCGCAAC--GAATTTGGAATAA
916300 ATCGCAACGAATTTGG-A-AA
1 ATCGCAACGAATTTGGAATAA
916319 ATCGCAACG
1 ATCGCAACG
916328 TGAACTTCGA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
19 15 0.38
21 16 0.41
23 8 0.21
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:916345 original size:21 final size:21
Alignment explanation
Indices: 916279--916346 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
916269 TTTGGAATAA
916279 ATCGCAACGTGAACTTCGACT
1 ATCGCAACGTGAACTTCGACT
* * **
916300 ATCGCAAC--GAATTTGGAAA
1 ATCGCAACGTGAACTTCGACT
916319 ATCGCAACGTGAACTTCGACT
1 ATCGCAACGTGAACTTCGACT
916340 ATCGCAA
1 ATCGCAA
916347 TGCGAATATG
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 15 0.41
21 22 0.59
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (21 bp):
ATCGCAACGTGAACTTCGACT
Found at i:916353 original size:42 final size:42
Alignment explanation
Indices: 916254--916346 Score: 172
Period size: 40 Copynumber: 2.3 Consensus size: 42
916244 TGCGATTTTG
916254 GACTATCGCAACGAATTTGGAATAAATCGCAACGTGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGTGAACTTC
916296 GACTATCGCAACGAATTTGG-A-AAATCGCAACGTGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGTGAACTTC
916336 GACTATCGCAA
1 GACTATCGCAA
916347 TGCGAATATG
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 30 0.59
41 1 0.02
42 20 0.39
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGTGAACTTC
Found at i:917237 original size:71 final size:71
Alignment explanation
Indices: 917121--917267 Score: 267
Period size: 71 Copynumber: 2.1 Consensus size: 71
917111 AAGTAAAGAC
917121 AAAACCATGGCGACCACCTGTTGTCTTCTTCTTATATCTTTTCATGTTTCAACTGCTCCTAGTCT
1 AAAACCATGGCGACCACCTGTTGTCTTCTTCTTATATCTTTTCATGTTTCAACTGCTCCTAGTCT
917186 TGTCCT
66 TGTCCT
* * *
917192 AAAACCATGGTGATCACCTGTTGTCTTCTTCTTATTTCTTTTCATGTTTCAACTGCTCCTAGTCT
1 AAAACCATGGCGACCACCTGTTGTCTTCTTCTTATATCTTTTCATGTTTCAACTGCTCCTAGTCT
917257 TGTCCT
66 TGTCCT
917263 AAAAC
1 AAAAC
917268 TATAAGTATA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.41
Consensus pattern (71 bp):
AAAACCATGGCGACCACCTGTTGTCTTCTTCTTATATCTTTTCATGTTTCAACTGCTCCTAGTCT
TGTCCT
Found at i:919742 original size:18 final size:17
Alignment explanation
Indices: 919691--919743 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
919681 CACTCACTGC
* *
919691 AAAAATAATTTAAATTT
1 AAAAATAAATTAAATAT
*
919708 CAAAATAAATTAAAAATAT
1 AAAAATAAATT--AAATAT
919727 AAAATATAAATTAAATA
1 AAAA-ATAAATTAAATA
919744 ATTTAGTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 9 0.31
18 5 0.17
19 8 0.28
20 7 0.24
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAAATAAATTAAATAT
Found at i:927331 original size:19 final size:19
Alignment explanation
Indices: 927307--927355 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
927297 GTGATTTTGA
*
927307 AAAATGTGTTGTGATAGTT
1 AAAATGTGTTGTGATAGCT
*
927326 AAAATGTATTGTGATAGCT
1 AAAATGTGTTGTGATAGCT
927345 AAAATGTGTTG
1 AAAATGTGTTG
927356 CGAGAGTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.35, C:0.02, G:0.24, T:0.39
Consensus pattern (19 bp):
AAAATGTGTTGTGATAGCT
Found at i:927400 original size:19 final size:19
Alignment explanation
Indices: 927376--927412 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
927366 AAAAACGTGT
927376 TGTTGCGATAGTGAAAAAG
1 TGTTGCGATAGTGAAAAAG
927395 TGTTGCGATAGTGAAAAA
1 TGTTGCGATAGTGAAAAA
927413 TCCAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.30, T:0.27
Consensus pattern (19 bp):
TGTTGCGATAGTGAAAAAG
Found at i:927898 original size:40 final size:40
Alignment explanation
Indices: 927835--928021 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
927825 TCGCAACACG
* * *
927835 AACGTGAACTTGGACTATTGCAACGAATTTGGAAAATCGC
1 AACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGC
*
927875 AACGCGAACTTCGAATATCGCAACGAATTTGGAAAATCGC
1 AACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGC
* * *
927915 AACGTGAACTTGGATTATCGCAACGAATTTGGAAAATCGC
1 AACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGC
* * * * * **
927955 AACGGGAACTTTGACTATAGCAACGTGAACTTCGACTATCGC
1 AACGCGAACTTCGACTATCGCAAC--GAATTTGGAAAATCGC
*
927997 AACGCGAACTTCGACCATCGCAACG
1 AACGCGAACTTCGACTATCGCAACG
928022 CGAACTTCGA
Statistics
Matches: 126, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
40 94 0.75
42 32 0.25
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (40 bp):
AACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCGC
Found at i:927937 original size:61 final size:61
Alignment explanation
Indices: 927870--928204 Score: 282
Period size: 61 Copynumber: 5.6 Consensus size: 61
927860 AATTTGGAAA
* * * *
927870 ATCGCAACGCGAACTTCGAATATCGCAACGAATTTGGAAAATCGCAACGTGAACTTGGATT
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTGGACT
* ** ** * * *
927931 ATCGCAA--CGAATTTGGAAAATCGCAACGGGAACTTT-GACTATAGCAACGTGAACTTCGACT
1 ATCGCAACGCGAACTTGGACTATCGCAAC--GAA-TTTGGAAAATCGCAACGCGAACTTGGACT
* * * * ** * **
927992 ATCGCAACGCGAACTTCGACCATCGCAACGCGAACTTCGACTATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACTATCGCAA--CGAATTTGGAAAATCGCAACGCGAACTTGGACT
* *
928053 ATCGTAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCG-A-----ACT
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTGGACT
* * * *
928108 -TCG-AACGTGAACTTTGACTATCGCAACGAATTTGAAAAATCGCAATGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTGGACT
*
928167 ATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGA
928205 CTAACGTAAA
Statistics
Matches: 222, Mismatches: 34, Indels: 36
0.76 0.12 0.12
Matches are distributed among these distances:
53 43 0.19
54 4 0.02
55 1 0.00
59 35 0.16
60 4 0.02
61 101 0.45
62 5 0.02
63 28 0.13
65 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (61 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTGGACT
Found at i:928078 original size:40 final size:40
Alignment explanation
Indices: 927974--928269 Score: 206
Period size: 40 Copynumber: 7.6 Consensus size: 40
927964 TTTGACTATA
* * * **
927974 GCAACGTGAACTTCGACTATCGCAACGCGAACTTCGACCATC
1 GCAACGTGAACTTGGACTATCGCAA--CGAATTTGGAAAATC
* *
928016 GCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATC
1 GCAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATC
*
928056 GTAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATC
1 GCAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATC
* * * **
928096 GCAACGCGAACTTCGA--A-CG---TGAACTTT-GACTATC
1 GCAACGTGAACTTGGACTATCGCAACGAA-TTTGGAAAATC
* * ** * **
928130 GCAAC--GAATTTGAAAAATCGCAATGCGAACTTGGACTATC
1 GCAACGTGAACTTGGACTATCGCAA--CGAATTTGGAAAATC
928170 GCAACGTGAACTTGGACTATCGCAACGAATTTGG---A-C
1 GCAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATC
* * * ** *
928206 -TAACGTAAATTTGGAAAATTGCAACGAATTTGGAAAATC
1 GCAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATC
*
928245 GCAACGCGAACTTGGACTATCGCAA
1 GCAACGTGAACTTGGACTATCGCAA
928270 AATCGCGTTG
Statistics
Matches: 200, Mismatches: 37, Indels: 36
0.73 0.14 0.13
Matches are distributed among these distances:
32 6 0.03
34 14 0.07
35 32 0.16
36 1 0.00
37 3 0.01
38 2 0.01
39 3 0.01
40 101 0.50
42 38 0.19
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (40 bp):
GCAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATC
Found at i:928091 original size:143 final size:141
Alignment explanation
Indices: 927835--928175 Score: 457
Period size: 143 Copynumber: 2.5 Consensus size: 141
927825 TCGCAACACG
* * * *
927835 AACGTGAACTTGGACTATTGCAACGAATTTGGAAAATCGCAACGCGAACTTCGAATATCGCAACG
1 AACGTGAACTTCGACTATCGCAACGAACTTCGAAAATCGCAACGCGAACTTCGAATATCGCAACG
* *
927900 AATTTGGAAAATCGCAACGTGAACTTGGATTATCGCAACGAATTTGGAAAATCGCAACGGGAACT
66 AATTTGGAAAATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACT
927965 TTGACTATAGC
131 TTGACTATAGC
** *
927976 AACGTGAACTTCGACTATCGCAACGCGAACTTCGACCATCGCAACGCGAACTTCGACTATCGCAA
1 AACGTGAACTTCGACTATCGCAA--CGAACTTCGAAAATCGCAACGCGAACTTCGAATATCGCAA
*
928041 CGAATTTGGAAAATCGTAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAA
64 CGAATTTGGAAAATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAA
928106 C-TT--C----G-
129 CTTTGACTATAGC
* * * * *
928111 AACGTGAACTTTGACTATCGCAACGAA-TTTGAAAAATCGCAATGCGAACTTGGACTATCGCAAC
1 AACGTGAACTTCGACTATCGCAACGAACTTCG-AAAATCGCAACGCGAACTTCGAATATCGCAAC
928175 G
65 G
928176 TGAACTTGGA
Statistics
Matches: 181, Mismatches: 16, Indels: 14
0.86 0.08 0.07
Matches are distributed among these distances:
132 3 0.02
133 33 0.18
135 22 0.12
136 1 0.01
140 1 0.01
141 21 0.12
142 2 0.01
143 98 0.54
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (141 bp):
AACGTGAACTTCGACTATCGCAACGAACTTCGAAAATCGCAACGCGAACTTCGAATATCGCAACG
AATTTGGAAAATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACT
TTGACTATAGC
Found at i:928138 original size:53 final size:58
Alignment explanation
Indices: 928053--928204 Score: 206
Period size: 53 Copynumber: 2.7 Consensus size: 58
928043 AATTTGGAAA
*
928053 ATCGTAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAA-CG-C-GAACT
1 ATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAAGCGACTGAACT
* * *
928108 -TCG-AACGTGAACTTTGACTATCGCAACGAATTTGAAAAATCGCAATGCGAACTTGGACT
1 ATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAA-GCG-AC-TGAACT
928167 ATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGA
1 ATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGA
928205 CTAACGTAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
53 40 0.48
54 3 0.04
55 2 0.02
57 1 0.01
59 4 0.05
60 3 0.04
61 31 0.37
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (58 bp):
ATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAAGCGACTGAACT
Found at i:928170 original size:21 final size:19
Alignment explanation
Indices: 927840--928269 Score: 221
Period size: 21 Copynumber: 21.9 Consensus size: 19
927830 ACACGAACGT
*
927840 GAACTTGGACTATTGCAAC
1 GAACTTGGACTATCGCAAC
* **
927859 GAATTTGGAAAATCGCAACGC
1 GAACTTGGACTATCGCAA--C
* *
927880 GAACTTCGAATATCGCAAC
1 GAACTTGGACTATCGCAAC
* **
927899 GAATTTGGAAAATCGCAAC
1 GAACTTGGACTATCGCAAC
*
927918 GTGAACTTGGATTATCGCAAC
1 --GAACTTGGACTATCGCAAC
* **
927939 GAATTTGGAAAATCGCAAC
1 GAACTTGGACTATCGCAAC
* *
927958 GGGAACTTTGACTATAGCAAC
1 --GAACTTGGACTATCGCAAC
*
927979 GTGAACTTCGACTATCGCAACGC
1 --GAACTTGGACTATCGCAA--C
* *
928002 GAACTTCGACCATCGCAACGC
1 GAACTTGGACTATCGCAA--C
*
928023 GAACTTCGACTATCGCAAC
1 GAACTTGGACTATCGCAAC
* ** *
928042 GAATTTGGAAAATCGTAAC
1 GAACTTGGACTATCGCAAC
928061 GTGAACTTGGACTATCGCAAC
1 --GAACTTGGACTATCGCAAC
* **
928082 GAATTTGGAAAATCGCAAC
1 GAACTTGGACTATCGCAAC
*
928101 G--C--GAACT-TCG-AAC
1 GAACTTGGACTATCGCAAC
*
928114 GTGAACTTTGACTATCGCAAC
1 --GAACTTGGACTATCGCAAC
* * **
928135 GAATTTGAAAAATCGCAATGC
1 GAACTTGGACTATCGCAA--C
928156 GAACTTGGACTATCGCAAC
1 GAACTTGGACTATCGCAAC
928175 GTGAACTTGGACTATCGCAAC
1 --GAACTTGGACTATCGCAAC
* * *
928196 GAATTTGGACTAACG-TA-
1 GAACTTGGACTATCGCAAC
* ** *
928213 -AATTTGGAAAATTGCAAC
1 GAACTTGGACTATCGCAAC
* **
928231 GAATTTGGAAAATCGCAACGC
1 GAACTTGGACTATCGCAA--C
928252 GAACTTGGACTATCGCAA
1 GAACTTGGACTATCGCAA
928270 AATCGCGTTG
Statistics
Matches: 319, Mismatches: 65, Indels: 52
0.73 0.15 0.12
Matches are distributed among these distances:
13 3 0.01
14 3 0.01
15 3 0.01
16 10 0.03
17 2 0.01
18 1 0.00
19 125 0.39
20 3 0.01
21 168 0.53
23 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (19 bp):
GAACTTGGACTATCGCAAC
Found at i:928220 original size:35 final size:35
Alignment explanation
Indices: 928172--928239 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
928162 GGACTATCGC
* **
928172 AACGTGAACTTGGACTATCGCAACGAATTTGGACT
1 AACGTAAACTTGGAAAATCGCAACGAATTTGGACT
* *
928207 AACGTAAATTTGGAAAATTGCAACGAATTTGGA
1 AACGTAAACTTGGAAAATCGCAACGAATTTGGA
928240 AAATCGCAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (35 bp):
AACGTAAACTTGGAAAATCGCAACGAATTTGGACT
Found at i:928628 original size:25 final size:21
Alignment explanation
Indices: 928584--928633 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
928574 ATCGATATCG
928584 AAAATATTATATAATTTAATCA
1 AAAATATTATATAATTTAAT-A
*
928606 AAAATATTATTTAAGTTGATAATA
1 AAAATATTATATAA-TT--TAATA
928630 AAAA
1 AAAA
928634 CGGTAATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 13 0.54
23 2 0.08
24 5 0.21
25 4 0.17
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (21 bp):
AAAATATTATATAATTTAATA
Found at i:928896 original size:118 final size:117
Alignment explanation
Indices: 928688--929170 Score: 413
Period size: 117 Copynumber: 4.2 Consensus size: 117
928678 AAATATATAT
* * * * ** * * *
928688 GATAACATAATCAGTTAATTACCGTTAACTTTAAAAAGCACAATAACATATTAGGTATCACTTAT
1 GATAACATAATCGGTTAATTACTGTAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTAT
* *
928753 ATAACGTAATAGGTAGTGTC-TTTTTAAAGCTGATAGGGCTTTGGAAATACGAC
66 ATAACGTAATAGGTAGCG-CATTTTT-AAGCTGATAGGGCTTTGGAAATCCGAC
*
928806 GATAACATAATCGGTTAATTACTGTAAACATTATCAAGCATAATAGCATATTAGGTAGCGCTTAT
1 GATAACATAATCGGTTAATTACTGTAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTAT
*
928871 ATAACGTAATAGGTAGCGCATTTTTAAGCTGAT-GGGCCTTTGGAAATCTGAC
66 ATAACGTAATAGGTAGCGCATTTTTAAGCTGATAGGG-CTTTGGAAATCCGAC
* ** * *** * * * *
928923 GATAACAAAATATGTAAATTACT-TAATTTGTTAT-TAGTATTATCAACATATTAGGTAACGC--
1 GATAACATAATCGGTTAATTACTGTAA-ACATTATCAAGCATAAT-AACATATTAGGTAGCGCTT
* * ** ** * *
928984 --CTAA---AAT-GTTA-C-CAAAGTTTAAGCTGATAAAGCCTTAGAAATCCGAC
64 ATATAACGTAATAGGTAGCGC-ATTTTTAAGCTGATAGGGCTTTGGAAATCCGAC
* * *
929031 GATAACATAACCGGTTAATCAGTAG-AAACATTATCAAGCATAATAACATATTAGGTAGC-CTTA
1 GATAACATAATCGGTTAATTACT-GTAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTA
* * * *
929094 TAAAACGTAATAGGTAGCGTATTTTTAAAGTTGATGGGGCTTTGGAAATCCGAC
65 TATAACGTAATAGGTAGCGCATTTTT-AAGCTGATAGGGCTTTGGAAATCCGAC
* *
929148 GATAACAAAATTGGTTAATTACT
1 GATAACATAATCGGTTAATTACT
929171 TAATTTGTTA
Statistics
Matches: 280, Mismatches: 65, Indels: 41
0.73 0.17 0.11
Matches are distributed among these distances:
107 2 0.01
108 59 0.21
109 12 0.04
110 3 0.01
111 2 0.01
113 3 0.01
114 3 0.01
115 3 0.01
116 17 0.06
117 99 0.35
118 77 0.28
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (117 bp):
GATAACATAATCGGTTAATTACTGTAAACATTATCAAGCATAATAACATATTAGGTAGCGCTTAT
ATAACGTAATAGGTAGCGCATTTTTAAGCTGATAGGGCTTTGGAAATCCGAC
Done.