Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 56
Found at i:835374 original size:17 final size:16
Alignment explanation
Indices: 835355--835388 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
835345 ATTTTATAAA
835355 TTTATTTCTTCTTAAAAT
1 TTTA-TTCTTC-TAAAAT
835373 TTTATTCTTCTAAAAT
1 TTTATTCTTCTAAAAT
835389 AAAATTATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 6 0.38
18 4 0.25
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTATTCTTCTAAAAT
Found at i:836042 original size:34 final size:34
Alignment explanation
Indices: 835999--836080 Score: 164
Period size: 34 Copynumber: 2.4 Consensus size: 34
835989 GTGTGAACAC
835999 AGACAATGTTATAAGCAAGTTTGGTAGAGGGAAT
1 AGACAATGTTATAAGCAAGTTTGGTAGAGGGAAT
836033 AGACAATGTTATAAGCAAGTTTGGTAGAGGGAAT
1 AGACAATGTTATAAGCAAGTTTGGTAGAGGGAAT
836067 AGACAATGTTATAA
1 AGACAATGTTATAA
836081 AAGGTATAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.40, C:0.06, G:0.27, T:0.27
Consensus pattern (34 bp):
AGACAATGTTATAAGCAAGTTTGGTAGAGGGAAT
Found at i:840793 original size:30 final size:30
Alignment explanation
Indices: 840757--840816 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
840747 GCATTTTTAA
840757 GATAAAATATACAAAT-AGTCTCTTAATTAT
1 GATAAAATATACAAATGA-TCTCTTAATTAT
*
840787 GATAAAATATACAAATGATCTTTTAATTAT
1 GATAAAATATACAAATGATCTCTTAATTAT
840817 AGGGTATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (30 bp):
GATAAAATATACAAATGATCTCTTAATTAT
Found at i:850402 original size:28 final size:28
Alignment explanation
Indices: 850370--850426 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
850360 CTCTTCATTT
* *
850370 ACATTATGTAATCGAGTCAGTGTTTGAA
1 ACATTATGTAATCGAGCCAGTGCTTGAA
**
850398 ACATTATGTCGTCGAGCCAGTGCTTGAA
1 ACATTATGTAATCGAGCCAGTGCTTGAA
850426 A
1 A
850427 GCAACGTCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (28 bp):
ACATTATGTAATCGAGCCAGTGCTTGAA
Found at i:853398 original size:14 final size:15
Alignment explanation
Indices: 853374--853403 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
853364 AAATTTAAAT
853374 ATTATAAATAAATAA
1 ATTATAAATAAATAA
853389 ATTA-AAATAAATAA
1 ATTATAAATAAATAA
853403 A
1 A
853404 CATATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTATAAATAAATAA
Found at i:853845 original size:4 final size:4
Alignment explanation
Indices: 853838--853975 Score: 77
Period size: 4 Copynumber: 34.5 Consensus size: 4
853828 GAACGTTCAT
* * * **
853838 AATA AATA AATA TATA AATT CA-A AATA AATA AATA AAT- TTTA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
* * * * * * *
853884 ACTA AATA AATC AATC AATCA AACAA AATT ATTA AATA AATA AATA AATT
1 AATA AATA AATA AATA AAT-A AA-TA AATA AATA AATA AATA AATA AATA
* * *
853934 ATTA GAAAA AATTA AA-A AA-A AATA AATA AATC AATA AATA AA
1 AATA -AATA AA-TA AATA AATA AATA AATA AATA AATA AATA AA
853976 AATTACCTCC
Statistics
Matches: 99, Mismatches: 28, Indels: 14
0.70 0.20 0.10
Matches are distributed among these distances:
3 8 0.08
4 81 0.82
5 10 0.10
ACGTcount: A:0.67, C:0.05, G:0.01, T:0.28
Consensus pattern (4 bp):
AATA
Found at i:853882 original size:38 final size:39
Alignment explanation
Indices: 853840--853933 Score: 106
Period size: 38 Copynumber: 2.5 Consensus size: 39
853830 ACGTTCATAA
* *
853840 TAAATAAATATATAAATTCAAAATAAAT-AAA-TAAATT-T
1 TAAATAAATAAATAAATTC--AATAAATCAAACAAAATTAT
* *
853878 TAAATAACTAAATAAA-TCAATCAATCAAACAAAATTAT
1 TAAATAAATAAATAAATTCAATAAATCAAACAAAATTAT
853916 TAAATAAATAAATAAATT
1 TAAATAAATAAATAAATT
853934 ATTAGAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
35 6 0.13
36 3 0.06
37 7 0.15
38 30 0.64
39 1 0.02
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (39 bp):
TAAATAAATAAATAAATTCAATAAATCAAACAAAATTAT
Found at i:854287 original size:21 final size:21
Alignment explanation
Indices: 854247--854301 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
854237 GATTCTTGAC
854247 AATCGCAATGCGATAGTACA-
1 AATCGCAATGCGATAGTACAG
* **
854267 AATTCGCATTGCGATTTTACAG
1 AA-TCGCAATGCGATAGTACAG
*
854289 AATCGCAACGCGA
1 AATCGCAATGCGA
854302 ATATGAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (21 bp):
AATCGCAATGCGATAGTACAG
Found at i:854383 original size:20 final size:20
Alignment explanation
Indices: 854289--854517 Score: 212
Period size: 20 Copynumber: 11.4 Consensus size: 20
854279 GATTTTACAG
* ** *
854289 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
854309 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
854329 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
854349 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
854369 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
854389 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
854409 TATCGCAACGCATATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
854429 AATCGCAACG-ATAATCAGTA
1 AATCGCAACGCGT-ATCCGTA
* * * *
854449 AATCGCAATGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
* *
854469 AATCGCAATG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
854489 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
854509 AATCACAAC
1 AATCGCAAC
854518 ACTGAAATTT
Statistics
Matches: 176, Mismatches: 27, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
19 3 0.02
20 171 0.97
21 2 0.01
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:855249 original size:24 final size:24
Alignment explanation
Indices: 855210--855256 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
855200 AAATTTGGTC
855210 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
855234 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
855257 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:855448 original size:12 final size:12
Alignment explanation
Indices: 855431--855455 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
855421 ATATAATCCT
855431 GAAGAAGAAAAA
1 GAAGAAGAAAAA
855443 GAAGAAGAAAAA
1 GAAGAAGAAAAA
855455 G
1 G
855456 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:857763 original size:33 final size:33
Alignment explanation
Indices: 857712--857961 Score: 186
Period size: 33 Copynumber: 7.2 Consensus size: 33
857702 CGGAAATTAC
* *
857712 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACAAGAAAATCGCAATGCGAAATGAA
*
857745 AATCCCAACAAGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACAAGAAAATCGCAATGC-GAAATGAA
* * *
857779 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-C
1 AATCGCAA--C--AA-GAAAATCGCAATGCGA-AAT-GAA
*
857818 AAT-GCGAA-ATGAAAATCGCAATGCGAAATGAA
1 AATCGC-AACAAGAAAATCGCAATGCGAAATGAA
* *
857850 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACAAGAAAATCGCAATGCGAAATGAA
* * *
857883 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-C
1 AATCGCAA--C--AA-GAAAATCGCAATGCGA-AAT-GAA
* *
857922 AATGCGGAA-ATGAAAATCGCAATGCGAAATGAA
1 AAT-CGCAACAAGAAAATCGCAATGCGAAATGAA
857955 AATCGCA
1 AATCGCA
857962 TTGCGATTCT
Statistics
Matches: 171, Mismatches: 25, Indels: 43
0.72 0.10 0.18
Matches are distributed among these distances:
31 1 0.01
32 12 0.07
33 73 0.43
34 30 0.18
35 2 0.01
36 1 0.01
37 1 0.01
38 19 0.11
39 26 0.15
40 6 0.04
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (33 bp):
AATCGCAACAAGAAAATCGCAATGCGAAATGAA
Found at i:857795 original size:19 final size:19
Alignment explanation
Indices: 857726--857967 Score: 281
Period size: 19 Copynumber: 13.7 Consensus size: 19
857716 GCAACGAGAG
857726 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
857745 AATCCCAA--C--AA-GAA
1 AATCGCAATGCGAAATGAA
857759 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
857779 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
857798 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
857812 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
857831 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
857850 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
857864 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
857883 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
857902 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
857916 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
857936 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
857955 AATCGCATTGCGA
1 AATCGCAATGCGA
857968 TTCTCTCGTT
Statistics
Matches: 192, Mismatches: 9, Indels: 44
0.78 0.04 0.18
Matches are distributed among these distances:
14 40 0.21
15 5 0.03
16 6 0.03
17 8 0.04
18 2 0.01
19 104 0.54
20 27 0.14
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:857849 original size:52 final size:53
Alignment explanation
Indices: 857726--857961 Score: 431
Period size: 52 Copynumber: 4.5 Consensus size: 53
857716 GCAACGAGAG
* * *
857726 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
857779 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
857831 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
857883 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
857936 AATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
857962 TTGCGATTCT
Statistics
Matches: 179, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
52 104 0.58
53 75 0.42
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
Found at i:858001 original size:53 final size:52
Alignment explanation
Indices: 857938--858053 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 52
857928 GAAATGAAAA
*
857938 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** **
857990 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
858043 TCGCATTGCGA
1 TCGCATTGCGA
858054 TTTTCATTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 11 0.20
53 45 0.80
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:858016 original size:19 final size:19
Alignment explanation
Indices: 857976--858063 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
857966 GATTCTCTCG
857976 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
857996 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
858015 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
858029 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
858048 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
858064 AACATAATGC
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.10
16 7 0.11
17 7 0.11
19 26 0.43
20 15 0.25
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:858173 original size:14 final size:14
Alignment explanation
Indices: 858154--858190 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
858144 CATCAATTAC
858154 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
858168 ACAAATCATCTTTT
1 ACAAATCAACTTTT
858182 ACAAATCAA
1 ACAAATCAA
858191 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:860157 original size:19 final size:19
Alignment explanation
Indices: 860115--860268 Score: 139
Period size: 19 Copynumber: 8.6 Consensus size: 19
860105 TAGTTTACTT
* *
860115 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
860135 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
860154 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
860173 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
860192 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
860206 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
860225 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
860239 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
860258 TCGCAATGCGA
1 TCGCAACGCGA
860269 TTTTGGTTTC
Statistics
Matches: 109, Mismatches: 15, Indels: 21
0.75 0.10 0.14
Matches are distributed among these distances:
14 18 0.17
15 1 0.01
16 7 0.06
17 7 0.06
18 1 0.01
19 63 0.58
20 12 0.11
ACGTcount: A:0.45, C:0.23, G:0.21, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:860209 original size:14 final size:14
Alignment explanation
Indices: 860190--860246 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
860180 GCGAAATGAA
*
860190 AATCGCAACGACAG
1 AATCGCAACGAAAG
860204 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
860221 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
860237 AATCGCAACG
1 AATCGCAACG
860247 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:860217 original size:33 final size:33
Alignment explanation
Indices: 860133--860263 Score: 181
Period size: 33 Copynumber: 3.8 Consensus size: 33
860123 CGAAACTTAA
* *
860133 AATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAA
1 AATCGCAACGCGAAATGAAAATCGCAAC--G--A-CAG
860171 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
860204 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
860237 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
860264 TGCGATTTTG
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
33 59 0.67
34 1 0.01
36 1 0.01
38 27 0.31
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:860260 original size:52 final size:51
Alignment explanation
Indices: 860132--860268 Score: 141
Period size: 52 Copynumber: 2.6 Consensus size: 51
860122 ACGAAACTTA
* * * *
860132 AAATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAAAATCGCAACGCG
1 AAATCGCAACGCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAG
* ** * * **
860183 AAAT-GAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAACGAG
1 AAATCGCAACGCGAAATGA-A-AATCGCAATGCGAAACCAAAATCGCAACGAG
860235 AGAATCGCAACGCGAAATGAAAATCGCAATGCGA
1 A-AATCGCAACGCGAAATGAAAATCGCAATGCGA
860269 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
50 9 0.14
51 4 0.06
52 40 0.61
53 4 0.06
54 9 0.14
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.10
Consensus pattern (51 bp):
AAATCGCAACGCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAG
Found at i:860299 original size:14 final size:14
Alignment explanation
Indices: 860280--860338 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
860270 TTTGGTTTCG
860280 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
860294 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
860311 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
860327 CGTTGCGATTTT
1 CGTTGCGATTTT
860339 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:860306 original size:33 final size:33
Alignment explanation
Indices: 860264--860387 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
860254 AAAATCGCAA
*
860264 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
860297 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
860330 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
860363 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
860388 AAGTAAACTA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:860318 original size:19 final size:18
Alignment explanation
Indices: 860264--860355 Score: 83
Period size: 19 Copynumber: 5.4 Consensus size: 18
860254 AAAATCGCAA
860264 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
860283 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
860297 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
860316 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
860330 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
860349 TGCGATT
1 TGCGATT
860356 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 23 0.38
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 30 0.50
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:860365 original size:14 final size:14
Alignment explanation
Indices: 860313--860369 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
860303 TTTGGTTTCG
*
860313 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
860327 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
860346 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
860360 CGTTGCGATT
1 CGTTGCGATT
860370 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:860644 original size:93 final size:93
Alignment explanation
Indices: 860485--860800 Score: 605
Period size: 93 Copynumber: 3.4 Consensus size: 93
860475 TCAGGGTATT
860485 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
860550 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
860578 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
860643 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
860671 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
* *
860736 GACTATTTCACAGTGTTAAAGAATACAT
66 TACTATTTCACAGTGTTAAAGAATACAC
*
860764 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
860801 AAGCAATCTA
Statistics
Matches: 220, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 220 1.00
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:862517 original size:20 final size:20
Alignment explanation
Indices: 862486--862582 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
862476 TTTTGGTTGA
862486 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
862506 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
862526 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
862545 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
862560 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
862580 AAT
1 AAT
862583 CGCAACGTGA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.06
17 2 0.03
19 15 0.24
20 20 0.32
21 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:862538 original size:21 final size:21
Alignment explanation
Indices: 862484--862548 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
862474 TCTTTTGGTT
862484 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
862505 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
862525 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
862546 GAA
1 GAA
862549 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:862552 original size:14 final size:14
Alignment explanation
Indices: 862533--862589 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
862523 GAGAAATGAA
862533 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
862547 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
862566 AATCGCAACGAGAG
1 AATCGCAACGAGAG
862580 AATCGCAACG
1 AATCGCAACG
862590 TGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:862565 original size:33 final size:33
Alignment explanation
Indices: 862484--862606 Score: 156
Period size: 33 Copynumber: 3.5 Consensus size: 33
862474 TCTTTTGGTT
862484 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GA
*
862525 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGA
*
862558 GAAATGAAAATCGCAACGAGAGAATCGCAACGT
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGA
862591 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
862607 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
33 49 0.61
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.28
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGA
Found at i:862655 original size:33 final size:33
Alignment explanation
Indices: 862607--862686 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
862597 AAAATCGCAA
** * *
862607 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTACAATTCTCTCGT
862640 TGCGATTTTCATTTCGCGTTACAATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTACAATTCTCTCGT
862673 TGCGATTTTCATTT
1 TGCGATTTTCATTT
862687 TTCTCGTTGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.11, C:0.21, G:0.20, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTACAATTCTCTCGT
Found at i:862692 original size:21 final size:21
Alignment explanation
Indices: 862667--862740 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
862657 GTTACAATTC
862667 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
862688 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
862709 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
862730 TCTCGTTGCGA
1 TCTCGTTGCGA
862741 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:862862 original size:33 final size:33
Alignment explanation
Indices: 862820--862890 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
862810 AATACTAACT
862820 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
862853 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
862886 TGAAA
1 TGAAA
862891 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:863295 original size:20 final size:20
Alignment explanation
Indices: 863270--863461 Score: 253
Period size: 20 Copynumber: 9.6 Consensus size: 20
863260 CTTTAAAAAT
863270 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
863290 CGCGTTGCGATTTACTGATTA
1 CGCGTTGCGATTTACGGA-TA
*
863311 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
863330 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
863350 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
863370 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
863390 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
863410 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
863430 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
863450 CGCGTTGCGATT
1 CGCGTTGCGATT
863462 CTTGAAAATC
Statistics
Matches: 152, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
19 2 0.01
20 147 0.97
21 3 0.02
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:864383 original size:21 final size:22
Alignment explanation
Indices: 864357--864401 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
864347 ATAGTAATAT
*
864357 ACGGT-ATGAACAGTACCGTGA
1 ACGGTAATGAACAATACCGTGA
864378 ACGGTAATGAACAATACCGTGA
1 ACGGTAATGAACAATACCGTGA
864400 AC
1 AC
864402 AGTACCGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (22 bp):
ACGGTAATGAACAATACCGTGA
Found at i:865144 original size:13 final size:13
Alignment explanation
Indices: 865126--865155 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
865116 GTACATTGAG
865126 GTTGTGCACTAAT
1 GTTGTGCACTAAT
865139 GTTGTGCACTAAT
1 GTTGTGCACTAAT
865152 GTTG
1 GTTG
865156 CCACCACATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (13 bp):
GTTGTGCACTAAT
Found at i:865254 original size:31 final size:31
Alignment explanation
Indices: 865218--865280 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
865208 TGACCTATGT
* *
865218 AATTGTCCTTATGTTCCGAATAACATAGGTA
1 AATTGTCCATATGTTCCGAAGAACATAGGTA
*
865249 AATTGTCCATATGTTCCGTAGAACATAGGTA
1 AATTGTCCATATGTTCCGAAGAACATAGGTA
865280 A
1 A
865281 CCCTCAACTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (31 bp):
AATTGTCCATATGTTCCGAAGAACATAGGTA
Found at i:865544 original size:19 final size:19
Alignment explanation
Indices: 865516--865552 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
865506 CGCATGTCAT
*
865516 ATCATGTAACATATATTTC
1 ATCATATAACATATATTTC
*
865535 ATCATATAACATGTATTT
1 ATCATATAACATATATTT
865553 TTTTCAAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (19 bp):
ATCATATAACATATATTTC
Found at i:866375 original size:7 final size:7
Alignment explanation
Indices: 866365--866418 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
866355 TATATATATA
866365 ATATTTT
1 ATATTTT
866372 ATATTTT
1 ATATTTT
*
866379 ATATATT
1 ATATTTT
*
866386 A-ATTAT
1 ATATTTT
* *
866392 ATATATA
1 ATATTTT
866399 ATATTTT
1 ATATTTT
866406 ATATTTTT
1 ATA-TTTT
866414 ATATT
1 ATATT
866419 AATAATATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
6 4 0.11
7 26 0.70
8 7 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (7 bp):
ATATTTT
Found at i:866393 original size:34 final size:33
Alignment explanation
Indices: 866355--866438 Score: 141
Period size: 33 Copynumber: 2.5 Consensus size: 33
866345 CGATTATATA
866355 TATATATATAATATTTTATATTTTATATATTAAT
1 TATATATATAATATTTTATATTTT-TATATTAAT
866389 TATATATATAATATTTTATATTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTATATTAAT
* *
866422 AATATATAAAATATTTT
1 TATATATATAATATTTT
866439 TGGGTTCGGG
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 24 0.50
34 24 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (33 bp):
TATATATATAATATTTTATATTTTTATATTAAT
Found at i:866395 original size:27 final size:29
Alignment explanation
Indices: 866348--866430 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 29
866338 CCCGACCCGA
* *
866348 TTATATATATATATATAATATTTTATATT
1 TTATATATATATATATAATATATAATATT
866377 TTATATAT-TA-AT-TATATATATAATATT
1 TTATATATATATATATA-ATATATAATATT
* *
866404 TTATATTTTTATATTAATAATATATAA
1 TTATATATATATA-T-ATAATATATAA
866431 AATATTTTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
26 2 0.04
27 19 0.42
28 4 0.09
29 9 0.20
30 1 0.02
31 8 0.18
32 2 0.04
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
TTATATATATATATATAATATATAATATT
Found at i:871000 original size:52 final size:52
Alignment explanation
Indices: 870939--871086 Score: 149
Period size: 52 Copynumber: 2.8 Consensus size: 52
870929 GCCACATCAA
870939 GAATCTCAACAGAACTTGCTTTCTGCAGAA-AGCGAGGTCCCTACGGC-T-TTAG
1 GAATCTCAACAGAACTTGCTTTCTGCAGAACA-CGAGGTCCCTAC--CATGTTAG
* * * *
870991 GAATCTCAACAGAACTTGTTTTATGCATAACACGAGGTCCCTTCCATGTTAG
1 GAATCTCAACAGAACTTGCTTTCTGCAGAACACGAGGTCCCTACCATGTTAG
* * * ** **
871043 AAATCTCAGCAGAACTCGCTTTCTATAGAACATAAGGTCCCTAC
1 GAATCTCAACAGAACTTGCTTTCTGCAGAACACGAGGTCCCTAC
871087 AACCTAATAT
Statistics
Matches: 78, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
50 1 0.01
51 1 0.01
52 75 0.96
53 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (52 bp):
GAATCTCAACAGAACTTGCTTTCTGCAGAACACGAGGTCCCTACCATGTTAG
Found at i:874843 original size:205 final size:202
Alignment explanation
Indices: 874415--874858 Score: 489
Period size: 205 Copynumber: 2.2 Consensus size: 202
874405 TAGTTTGGAG
* *
874415 CCATTTTCAACGTGACTTTTA-CATTGTTTACAAATGTCTCGTATATGCAAATATCAATCTCAAG
1 CCATTTTCAACGTGATTTTTACCA-AGTTTAC-AATGTCTCGTATATGCAAATATCAATCTCAAG
* * * * *
874479 TGCAAGATAAGTTCCAATAATATGCCTCTAAGCTTAAACATTACAAAAAATTTCCGATTAACTTC
64 TGAAAGATAAGTTCCAACAATAAGCCTCTAAGCTTAAAAATTACAAAAAATTTCCAATTAACTTC
* * ** * ** **
874544 CCAGAAAAAACCCCTCGAATATGCCTATCAAGTTATTTTAACTTGTTATTCGTACATTAAATTAA
129 CCAGAAAAAACCCATCGAACATGCCTATCAAGCCATTTTAACTTGTTATTCATACACAAAACCAA
* *
874609 GCTTTGGAA
194 ACTTTAGAA
* ** * * * * *
874618 CCATTTTCAATGTGATTTTTACCCCGTTTACAATGTCTTGTA-GTGCCAATATCAGTCTTAAGTG
1 CCATTTTCAACGTGATTTTTACCAAGTTTACAATGTCTCGTATATGCAAATATCAATCTCAAGTG
* * * * *
874682 AAAGATAAGTTCTAACACTAAGTCTCTAAGCTTAAAAATTACAACAACAAAAATTTCTAATTTAC
66 AAAGATAAGTTCCAACAATAAGCCTCTAAGCTTAAAAATT---AC-A-AAAAATTTCCAATTAAC
* * *
874747 TTCCC-GAAAAAACCCATCGAACATGCCTATCAAGCCATTTTAGCTTGTTCTTCATCCACAAAAC
126 TTCCCAGAAAAAACCCATCGAACATGCCTATCAAGCCATTTTAACTTGTTATTCATACACAAAAC
874811 CAAACTTTAGAA
191 CAAACTTTAGAA
*
874823 CCATTTTCAACGTAATTTTTACCAAGTTTACAATGT
1 CCATTTTCAACGTGATTTTTACCAAGTTTACAATGT
874859 TTTATATGTG
Statistics
Matches: 198, Mismatches: 37, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
201 51 0.26
202 10 0.05
203 25 0.13
204 3 0.02
205 90 0.45
206 19 0.10
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (202 bp):
CCATTTTCAACGTGATTTTTACCAAGTTTACAATGTCTCGTATATGCAAATATCAATCTCAAGTG
AAAGATAAGTTCCAACAATAAGCCTCTAAGCTTAAAAATTACAAAAAATTTCCAATTAACTTCCC
AGAAAAAACCCATCGAACATGCCTATCAAGCCATTTTAACTTGTTATTCATACACAAAACCAAAC
TTTAGAA
Found at i:875920 original size:3 final size:3
Alignment explanation
Indices: 875912--875936 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
875902 TGTTCAAAAT
875912 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
875937 AACTCTATTC
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:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:879976 original size:21 final size:22
Alignment explanation
Indices: 879927--879978 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
879917 TTATGTATTT
*
879927 TATTTTAATTAAAATAACTTAAA
1 TATTTTAAATAAAATAAC-TAAA
879950 TA-TTTAAAT-AAATAAC-AATA
1 TATTTTAAATAAAATAACTAA-A
879970 TATTTTAAA
1 TATTTTAAA
879979 ATAATACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 2 0.08
20 3 0.12
21 13 0.50
22 6 0.23
23 2 0.08
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
TATTTTAAATAAAATAACTAAA
Found at i:879980 original size:18 final size:18
Alignment explanation
Indices: 879959--879993 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
879949 ATATTTAAAT
879959 AAATAACAATATATTTTA
1 AAATAACAATATATTTTA
* *
879977 AAATAATACTATATTTT
1 AAATAACAATATATTTT
879994 TTAATATCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATAACAATATATTTTA
Found at i:882077 original size:5 final size:5
Alignment explanation
Indices: 882069--882103 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
882059 TGATTTGTGG
* *
882069 AAATT AAATT ATATT AAATT AAAAT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT
882104 CTTCAATCGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:887844 original size:10 final size:10
Alignment explanation
Indices: 887831--887880 Score: 55
Period size: 10 Copynumber: 4.6 Consensus size: 10
887821 AACATAAATG
887831 AACGAACATA
1 AACGAACATA
887841 AACGAACGAATGTA
1 AACGAAC--A--TA
887855 AACGAACATA
1 AACGAACATA
*
887865 AACGAACGTA
1 AACGAACATA
887875 AACGAA
1 AACGAA
887881 TGCAACGACA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
10 24 0.69
12 2 0.06
14 9 0.26
ACGTcount: A:0.56, C:0.18, G:0.16, T:0.10
Consensus pattern (10 bp):
AACGAACATA
Found at i:887872 original size:14 final size:14
Alignment explanation
Indices: 887821--887861 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
887811 ATGATAAACA
*
887821 AACATAAATGAACG
1 AACATAAACGAACG
887835 AACATAAACGAACG
1 AACATAAACGAACG
**
887849 AATGTAAACGAAC
1 AACATAAACGAAC
887862 ATAAACGAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.56, C:0.17, G:0.15, T:0.12
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:892861 original size:24 final size:23
Alignment explanation
Indices: 892834--892887 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
892824 GTGCACAAAG
* *
892834 GCACTGATACATGAGTGCATATTT
1 GCACTAATACAGGAGTG-ATATTT
* *
892858 GCACTAATATAGGAGTGATGTTT
1 GCACTAATACAGGAGTGATATTT
892881 GCACTAA
1 GCACTAA
892888 CATAGGATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 12 0.46
24 14 0.54
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (23 bp):
GCACTAATACAGGAGTGATATTT
Found at i:892885 original size:23 final size:24
Alignment explanation
Indices: 892846--892894 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
892836 ACTGATACAT
*
892846 GAGTGCATATTTGCACTAATATAG
1 GAGTGCATATTTGCACTAACATAG
*
892870 GAGTG-ATGTTTGCACTAACATAG
1 GAGTGCATATTTGCACTAACATAG
892893 GA
1 GA
892895 TCAAATGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (24 bp):
GAGTGCATATTTGCACTAACATAG
Found at i:894582 original size:3 final size:3
Alignment explanation
Indices: 894574--894634 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
894564 AATTTTAATC
* * * *
894574 TTA TTA TTA TTA TTA ATG TTA TTA TTA TAA TT- TTGT TTA TTAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TT-A TTA
894620 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
894635 ATTACATATT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
2 2 0.04
3 41 0.85
4 5 0.10
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:894595 original size:18 final size:18
Alignment explanation
Indices: 894568--894625 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
894558 CTATTTAATT
*
894568 TTAATCTTATTATTATTA
1 TTAATGTTATTATTATTA
*
894586 TTAATGTTATTATTATAA
1 TTAATGTTATTATTATTA
*
894604 TT-TTGTTTATTAATTATTA
1 TTAATG-TTATT-ATTATTA
894623 TTA
1 TTA
894626 TTATTATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 2 0.06
18 23 0.70
19 8 0.24
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (18 bp):
TTAATGTTATTATTATTA
Found at i:901389 original size:27 final size:26
Alignment explanation
Indices: 901359--901432 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 26
901349 ATATCAAAGT
* *
901359 GAAGAGAATAGAAAAACAAAGGGAAAA
1 GAAGA-AAAAGAAAAACAAAGAGAAAA
*
901386 GAAGCAAAGAA-AAAAACAAAGAGCAAA
1 GAAG-AAA-AAGAAAAACAAAGAGAAAA
* *
901413 GAAAAAAAAGAAAAAAAAAG
1 GAAGAAAAAGAAAAACAAAG
901433 CAAAAACAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
25 2 0.05
26 12 0.31
27 23 0.59
28 2 0.05
ACGTcount: A:0.73, C:0.05, G:0.20, T:0.01
Consensus pattern (26 bp):
GAAGAAAAAGAAAAACAAAGAGAAAA
Found at i:901421 original size:20 final size:20
Alignment explanation
Indices: 901383--901420 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
901373 AACAAAGGGA
901383 AAAGAAGCAAAGAAAAAAAC
1 AAAGAAGCAAAGAAAAAAAC
901403 AAAG-AGCAAAGAAAAAAA
1 AAAGAAGCAAAGAAAAAAA
901421 AGAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.76, C:0.08, G:0.16, T:0.00
Consensus pattern (20 bp):
AAAGAAGCAAAGAAAAAAAC
Found at i:901430 original size:11 final size:10
Alignment explanation
Indices: 901410--901447 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
901400 AACAAAGAGC
901410 AAAG-AAAAA
1 AAAGAAAAAA
901419 AAAGAAAAAA
1 AAAGAAAAAA
*
901429 AAAGCAAAAAC
1 AAAG-AAAAAA
901440 AAAGAAAA
1 AAAGAAAA
901448 TAGCAAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 4 0.15
10 13 0.50
11 9 0.35
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:901437 original size:17 final size:18
Alignment explanation
Indices: 901397--901461 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 18
901387 AAGCAAAGAA
** *
901397 AAAAACAAAGAGCAAAGA
1 AAAAACAAAGAAAAAAGC
* *
901415 AAAAAAAGAAAAAAAAAGC
1 AAAAACA-AAGAAAAAAGC
*
901434 AAAAACAAAGAAAATAGC
1 AAAAACAAAGAAAAAAGC
901452 AAAGAACAAA
1 AAA-AACAAA
901462 AAGATGACAA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
18 18 0.49
19 19 0.51
ACGTcount: A:0.77, C:0.09, G:0.12, T:0.02
Consensus pattern (18 bp):
AAAAACAAAGAAAAAAGC
Found at i:901459 original size:19 final size:18
Alignment explanation
Indices: 901383--901461 Score: 71
Period size: 18 Copynumber: 4.6 Consensus size: 18
901373 AACAAAGGGA
*
901383 AAAGAAGCAAAGAAAAAAAC
1 AAAGAA-CAAAG-AAAAAGC
*
901403 AAAGAGCAAAGAAAAA--
1 AAAGAACAAAGAAAAAGC
901419 AAAG-A-AAA-AAAAAGC
1 AAAGAACAAAGAAAAAGC
901434 AAA-AACAAAGAAAATAGC
1 AAAGAACAAAGAAAA-AGC
901452 AAAGAACAAA
1 AAAGAACAAA
901462 AAGATGACAA
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
13 5 0.10
14 3 0.06
15 4 0.08
16 7 0.14
17 4 0.08
18 11 0.22
19 11 0.22
20 5 0.10
ACGTcount: A:0.76, C:0.09, G:0.14, T:0.01
Consensus pattern (18 bp):
AAAGAACAAAGAAAAAGC
Found at i:902782 original size:4 final size:4
Alignment explanation
Indices: 902773--908738 Score: 10244
Period size: 4 Copynumber: 1527.5 Consensus size: 4
902763 GAGAAAAGCG
902773 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
902821 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
902869 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
902917 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
902965 TACA TACA TAC- TACA TACA T-CA TACA TACA TA-A TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
903010 TACA TACA TAC- -ACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
903056 TACA TACA TAC- -ACA TACA TACA TACA -ACA TACA TAC- TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
903100 TACA TACA TAC- TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
903147 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
903195 TACA TACA TACA TACA TACA TACA TACA TACA TACA -ACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
903242 TACA T-CA TACA TACA TACA TACA TACA TAC- -ACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
903287 TACA -ACA TACA TACA TACA TACC TACA TACA TACA GACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
903334 TACA TACA TACA TACA TACA TACA TACA TAC- -ACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
903380 TACA TACA TACA T-CA TACA TACA GACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
903427 TACA TACA TACA TACA TACC TACA TAC- TACA TACA TACA -AC- TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
903472 TACA TACA TACA TACA TACA TACA TACA TACA TAC- -ACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
903518 TACA -ACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
903565 TACA TACA TACA TACA TACA TA-A TACA TACA TACA TACA T-CA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
903611 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
903659 TACA TACA TACA TACA TACA TACA TACA TA-A TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
903706 TACA TACA TAACA T-CA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA T-ACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
903754 TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC- TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
903801 TACA TACA TACA TACA TACA TACA T-CA TACA TACA TACA -ACA TAC-
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
903846 -ACA TACA TACA TACC TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
903893 TACA TAC- TACA TAC- TACA TACA TACA TACA TAC- TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
903938 TACA TACA TAC- -ACA TACA TACA TACA TACA TCCA TA-A TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
903983 -ACA TACA TACA TACA TACA -ACA TACA TACA TACTA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TAC-A TACA TACA TACA
*
904030 TACA TACA TACA TACA TACC TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
904078 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
904126 TACA T--A TACA TACA TACA TACA TACA TACA TAC- TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
904171 TACA TACA TACA TACA TACA T--A TACA TACA TACA TACC TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
904217 TACA TACA TACA TACA GACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
904265 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
904313 TACA TACA TACA TATA TACA TACA TAC- -ACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
904359 TAC- TACA TACA TACA TACA TACA TACCA TACA -A-A TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TA-CA TACA TACA TACA TACA TACA
904405 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
904453 TACA TACA -ACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
904500 T-CA TACA TACA TACA TACA TACA TACA T-C- TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
904545 TACA TACA TACA T-CA TACA TACA TCCA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
904592 TACA TACA TACA TACA TACA TACA TACA -ACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
904639 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
904687 TACA TACA TACA TACA TACA TACA TACA TACA TATA CACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
904735 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
904783 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
904831 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
904879 TACA TACA TACA TACA TACA TACA TACA TAC- -ACA TACA TACA -AC-
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
904923 TACA TACA TACA TACA TACA TACA TACCA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TA-CA TACA TACA TACA TACA TACA
904972 TACA TACA TACA TACA TACA TACA TACA TACA TACA T-CA TAC- -ACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
905017 TACA TACA TACA TACA TACA TACA TACA T-CA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
905064 TACA TACA TACA TACA TAC- TACA TACA TACA TACA TACA T-CA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
905110 TACA TACA TACA TACA TACA TACA TACA TACA TACA -ACA TACA T--A
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
905155 TACA TACA TACA TACA TACA T-CA TACA TAC- TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
905201 TAC- -ACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
905247 TACA TACA TACA TACA TACA T-CA TACA TACA TAC- TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
905293 TACA T-CA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
905340 TACA TACA TACA TACA TAC- TAC- TACA TACA TAC- -ACA TACA TATCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA-CA
905385 TACA TACA TACA TACA TACA TAC- TACA TACA TAC- TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
905431 TACA TACA TACA TACA TACA TACA TACA TACC TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
905479 TACA TACA TACA TACA TACA T-CA TACA TACA TACA TAC- TCCA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
905525 TACA TACA TACA TACA TACA TACA T-CA TACA TACA TACA TACA -ACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
905571 TACA TACA TACA TACA TAC- -ACA TACA T-CA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
905616 TACA TACA TAC- -ACA TACA TACA TACA TACA TAC- TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
905661 TACA TAC- -ACA TACA TACA TACA TACA TAC- TACA TACCA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TA-CA TACA TACA
*
905707 TACC TACA TACA -ACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
905754 T-CA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
905801 TACA TACA TACA TACA TACA TACCA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TA-CA TACA TACA TACA TACA TACA TACA
905850 TACA TACA TCACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA T-ACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
905899 TACA TACA TACA TACA TACA CTACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA -TACA TACA TACA TACA TACA TACA TACA
905948 TACA TACA TACA TACA TACA TACA TACA TACA TACA T-CA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
905995 TACA TACA TACA TACA TACA TACA TAC- -ACA TACA TACA TACA TAC-
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
906040 TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC- TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
906087 TACA TACA TACA TCCA TACA TACA TACA TACA TACA TACCA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TA-CA TACA TACA
* *
906136 TACA TACC TACA TACA TACA GAC- -ACA TACA TACA TACA TAACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T-ACA TACA
906183 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T--A TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
906229 TACA TACA TACA TACA TACA T-CA TACA TACA TACA TACA TACA T-CA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
906275 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
906323 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T--A
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
906369 TACA TACA TACA TACA TACA TACA TACA TACA GACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
906417 TACA TACA TACA TACA TACA TACA TACA TAC- -ACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
906463 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
906511 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
906559 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA -ACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
906606 T-CA TACA TACA TACA TACA TAC- -ACA TACA TAC- TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
906650 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
906698 TACA TACA TACA TCCA TACA TACA TACA TACA TACA TACA TACA GACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
906746 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC-
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
906793 -ACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC- -ACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
906838 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
906886 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
906934 TACA TACA TACA TACA TACA TACA TACA TACA TACC TACA TACC TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
906982 TACA TACA -ACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
907029 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
907077 TACA TACA TACA TACA TACA TACA TACA TAC- -ACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
907123 TACA TACA TAC- -ACA TACA TACA TACTA CACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TAC-A TACA TACA TACA TACA TACA
*
907170 T-CC TACA TACA TACA TACA TACA TACA TACA TACA TACA -ACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
907216 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
907264 TACA TACA TACA TACA TACA GACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
907312 TACA -ACA TACA TACA TACA TACA TACA GACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
907359 TACA TACA TACA TACA TACA TACA TACTA CACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TAC-A TACA TACA TACA TACA TACA
907408 TACA TACA TACA TACA TACA TAC- TACA TACA TACA TACA T-CA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
907454 TACA TACA TAC- TACA TACA TACA TACA TACA TACA -ACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
907500 TACA TACA TAC- TACA TACA TACA TACA TACA TACA TACA TACA TCCACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T--ACA
907549 TACA TACA TACA TACA TACA TAC- -ACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
907595 TACC TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
907643 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
907691 TACA TACA TACA TACA -ACA TACC TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
907738 TACA TACA TACA TACA TACA TACAA TAC- TACA TACA TACA TAC- TACA
1 TACA TACA TACA TACA TACA TAC-A TACA TACA TACA TACA TACA TACA
907785 TACA TAC- TACA TACA TACA TACA TACA TACA TAC- TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
907831 TACA TAC- TACA TACA TAC- -ACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
907876 TACA TACA TACA TACA TACA TACA TA-A CTACA TACA TACA GACA TACA
1 TACA TACA TACA TACA TACA TACA TACA -TACA TACA TACA TACA TACA
907924 TACA TAC- TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
907971 TACA TAC- -ACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
908017 TACA TACA TACA TACA TAC- TACA TACA TACA TAC- TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
908063 TACA TACA T-CA TACA TAC- TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
908109 TACA TACA TACA TACA TACA TACA TACA TACA CATCA TACC TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TA-CA TACA TACA TACA
908158 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
908206 TACA TACAA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TAC-A TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
908255 TACA TAC- TACA TACA TACA TACA TAC- TACA TCCA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
908301 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
908349 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
908397 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC- TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
908444 TACA T--A TACA TACA TACA TACC TACA TACA TACA TACA TACA TACCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA-CA
908491 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA -ACA T--A
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
908536 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
908584 -ACA TACA TACA T--A TACA TACA TACA TACA TACA TACA GACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
908629 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
908677 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TATA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
908725 TATA TACT TACA TA
1 TACA TACA TACA TA
908739 TATGTGCATA
Statistics
Matches: 5702, Mismatches: 77, Indels: 366
0.93 0.01 0.06
Matches are distributed among these distances:
2 70 0.01
3 272 0.05
4 5290 0.93
5 66 0.01
6 4 0.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:910395 original size:63 final size:64
Alignment explanation
Indices: 910327--910464 Score: 197
Period size: 64 Copynumber: 2.2 Consensus size: 64
910317 ATTTTATGAA
* * *
910327 AAACAAAGTTTTGTCTCTCTTGAGACAATTTCTTT-TGAAAAATCATTGAATCTGTTTCTTTGG
1 AAACAAAATTTTGTCTCTCTCGAGACAATTTCTTTGAGAAAAATCATTGAATCTGTTTCTTTGG
* * * * *
910390 AAACAAAATTTTGTTTCTCTCGAGACAGTTTCTTTGAGAAAAATCTTTGAGTTTGTTTCTTTGG
1 AAACAAAATTTTGTCTCTCTCGAGACAATTTCTTTGAGAAAAATCATTGAATCTGTTTCTTTGG
910454 AAACAAAATTT
1 AAACAAAATTT
910465 ACCATCTTTG
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
63 31 0.47
64 35 0.53
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.42
Consensus pattern (64 bp):
AAACAAAATTTTGTCTCTCTCGAGACAATTTCTTTGAGAAAAATCATTGAATCTGTTTCTTTGG
Found at i:910668 original size:28 final size:28
Alignment explanation
Indices: 910637--910716 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 28
910627 AACACATCAC
*
910637 CTTTGAGTTTGTTTTTCTTGAAAGAAAT
1 CTTTGAGTTTGTTTTTCTTGAAACAAAT
*
910665 CTTTGAGTCTGTTTCTT-TTGAAACAAAT
1 CTTTGAGTTTGTTT-TTCTTGAAACAAAT
* **
910693 CTTTGAGTTAGTTTCCCTTGAAAC
1 CTTTGAGTTTGTTTTTCTTGAAAC
910717 CATAATCACT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
28 42 0.95
29 2 0.05
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.46
Consensus pattern (28 bp):
CTTTGAGTTTGTTTTTCTTGAAACAAAT
Found at i:910878 original size:39 final size:38
Alignment explanation
Indices: 910824--910901 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 38
910814 CCTAAAGATG
* *
910824 ACCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCT
1 ACCAGAACTCCTCATCACGTAGGAGCCGTGTCA-CCCCT
* * *
910863 ACCAGATCTCCTCATCGCGTAGGAGCCGTGTTACCCCT
1 ACCAGAACTCCTCATCACGTAGGAGCCGTGTCACCCCT
910901 A
1 A
910902 GATAACCAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
38 6 0.18
39 28 0.82
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (38 bp):
ACCAGAACTCCTCATCACGTAGGAGCCGTGTCACCCCT
Found at i:910979 original size:132 final size:133
Alignment explanation
Indices: 910745--911036 Score: 450
Period size: 132 Copynumber: 2.2 Consensus size: 133
910735 CCAGCCGTCA
* * *
910745 TCATCACGTAGGAATCGTGTCATCCCC----TAACCAGCCGTCCTCATCGCGTAGTAACCGAGTT
1 TCATCACGTAGGAACCGTGTCA-CCCCTAGATAACCAGCCGTCCTCATCGCGTAGGAACAGAGTT
*
910806 ATCACATTCCTAAAGATGACCAGAACTCTTCATCACGTATGAGCCGTGTCAT-CCCCTACCAGAT
65 ATCACATTCCTAAAGATGACCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGAT
910870 CTCC
130 CTCC
* * *
910874 TCATCGCGTAGGAGCCGTGTTACCCCTAGATAACCAGCCGTCCTCATCGCGTAGGAACAGAGTTA
1 TCATCACGTAGGAACCGTGTCACCCCTAGATAACCAGCCGTCCTCATCGCGTAGGAACAGAGTTA
* *
910939 TCACATTCCTAAAGATGACCATAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATT
66 TCACATTCCTAAAGATGACCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATC
911004 TCC
131 TCC
*
911007 TCATCACGTAGGAACCGTGTCACCCTTAGA
1 TCATCACGTAGGAACCGTGTCACCCCTAGA
911037 CGACCAGAAC
Statistics
Matches: 145, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
128 4 0.03
129 18 0.12
132 83 0.57
133 40 0.28
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (133 bp):
TCATCACGTAGGAACCGTGTCACCCCTAGATAACCAGCCGTCCTCATCGCGTAGGAACAGAGTTA
TCACATTCCTAAAGATGACCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATC
TCC
Found at i:911242 original size:3 final size:3
Alignment explanation
Indices: 911234--911305 Score: 56
Period size: 3 Copynumber: 23.0 Consensus size: 3
911224 AATTTTAATC
* * * *
911234 TTA TTA TTA TTA TTA ATG TTA TTA TTA TTA TT- TTGT TTA TTAA TGA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TT-A TTA
*
911280 TTT TTA TTA TTA TTAA TTA TATA TTA
1 TTA TTA TTA TTA TT-A TTA T-TA TTA
911306 CAATATTTTG
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 2 0.04
3 43 0.78
4 10 0.18
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:911275 original size:18 final size:18
Alignment explanation
Indices: 911228--911265 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
911218 TCTATTAATT
*
911228 TTAATCTTATTATTATTA
1 TTAATGTTATTATTATTA
911246 TTAATGTTATTATTATTA
1 TTAATGTTATTATTATTA
911264 TT
1 TT
911266 TTGTTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
TTAATGTTATTATTATTA
Found at i:912695 original size:13 final size:13
Alignment explanation
Indices: 912677--912704 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
912667 ACCGGTCATA
912677 ACCCGACCCGTTG
1 ACCCGACCCGTTG
912690 ACCCGACCCGTTG
1 ACCCGACCCGTTG
912703 AC
1 AC
912705 TGTTGACCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.46, G:0.21, T:0.14
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:915132 original size:24 final size:23
Alignment explanation
Indices: 915105--915191 Score: 93
Period size: 24 Copynumber: 3.7 Consensus size: 23
915095 ATTTCCGAAT
*
915105 TGAATTCTGTTCTGATACATTACC
1 TGAATTCTGTTCTGATAC-TGACC
* *
915129 TGAATTCTGTTCTGATTCTGATC
1 TGAATTCTGTTCTGATACTGACC
* **
915152 TGGATTCTGTTCTGATATCTGATA
1 TGAATTCTGTTCTGATA-CTGACC
*
915176 TGAATTCTGTTTTGAT
1 TGAATTCTGTTCTGAT
915192 TTCTGATATC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
23 18 0.33
24 36 0.67
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.47
Consensus pattern (23 bp):
TGAATTCTGTTCTGATACTGACC
Found at i:915143 original size:12 final size:12
Alignment explanation
Indices: 915128--915196 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
915118 GATACATTAC
915128 CTGAATTCTGTT
1 CTGAATTCTGTT
*
915140 CTG-ATTCTGAT
1 CTGAATTCTGTT
*
915151 CTGGATTCTGTT
1 CTGAATTCTGTT
*
915163 CTG-ATATCTGAT
1 CTGAAT-TCTGTT
*
915175 ATGAATTCTGTT
1 CTGAATTCTGTT
* *
915187 TTGATTTCTG
1 CTGAATTCTG
915197 ATATCTCCGT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
11 12 0.26
12 33 0.70
13 2 0.04
ACGTcount: A:0.17, C:0.14, G:0.19, T:0.49
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:915196 original size:24 final size:24
Alignment explanation
Indices: 915129--915200 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
915119 ATACATTACC
*
915129 TGAATTCTGTTCTGA-TTCTGATC
1 TGAATTCTGTTCTGATTTCTGATA
* *
915152 TGGATTCTGTTCTGATATCTGATA
1 TGAATTCTGTTCTGATTTCTGATA
*
915176 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTCTGATTTCTGATA
915200 T
1 T
915201 CTCCGTTACC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 14 0.33
24 28 0.67
ACGTcount: A:0.19, C:0.12, G:0.18, T:0.50
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTGATA
Found at i:916067 original size:23 final size:23
Alignment explanation
Indices: 916041--916088 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
916031 ACACTCTAAT
*
916041 AAAAGATTGGTGGTGACTCCACG
1 AAAAGATTGGTGGCGACTCCACG
* *
916064 AAAAGGTTGGTGGCGACTTCACG
1 AAAAGATTGGTGGCGACTCCACG
916087 AA
1 AA
916089 CAATTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (23 bp):
AAAAGATTGGTGGCGACTCCACG
Found at i:917407 original size:19 final size:19
Alignment explanation
Indices: 917363--917400 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
917353 GAAGAAATAC
917363 TAGGATGCTTTCTTAAGAG
1 TAGGATGCTTTCTTAAGAG
*
917382 TAGGATGTTTTCTTAAGAG
1 TAGGATGCTTTCTTAAGAG
917401 GTAGATGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.39
Consensus pattern (19 bp):
TAGGATGCTTTCTTAAGAG
Found at i:917715 original size:13 final size:13
Alignment explanation
Indices: 917697--917738 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
917687 GGAATTACCA
917697 CATTTTGCATTTG
1 CATTTTGCATTTG
* *
917710 CATTTTGTATATG
1 CATTTTGCATTTG
*
917723 CA-TTTGCATTCG
1 CATTTTGCATTTG
917735 CATT
1 CATT
917739 GCATTAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (13 bp):
CATTTTGCATTTG
Found at i:920426 original size:13 final size:13
Alignment explanation
Indices: 920387--920426 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
920377 TGTTTCCCGA
920387 TATATGATGTTTT
1 TATATGATGTTTT
*
920400 GATATGATGTTTT
1 TATATGATGTTTT
*
920413 TATATGATATTTT
1 TATATGATGTTTT
920426 T
1 T
920427 GAAAAGTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (13 bp):
TATATGATGTTTT
Found at i:920766 original size:199 final size:198
Alignment explanation
Indices: 920403--920823 Score: 515
Period size: 199 Copynumber: 2.1 Consensus size: 198
920393 ATGTTTTGAT
* * * * * *
920403 ATGATGTTTTTATATGATATTTTTGAAAAGTAAGAAAGTAATTTTTAATGTTTCTTACTTAGTAG
1 ATGATGTTTTTATATGATATTTGTGAAAAATAAGAAAATAATTTTCAAAGTTTCTTACCTAGTAG
* * * *
920468 AATATTTCCATAATGATTAAGTCCTCTGGGCCATCAGTAAGTCTTTTGAGCATGATGATTAAATC
66 AATATTTCCATAATGAGTAAGTCATCCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATC
* * ** * * *
920533 CTTCAGGTTATTTGTGAATCTTCTGAGAAAGATGATAAGTCCTTTGGGCCATCTATAAGACCTCC
131 CTTCAGGTCATCTGTGAATCTTCCAAGAAAGATGATAAATCATATGGGCC-TCTATAAGACCTCC
920598 AGGC
195 AGGC
* * **
920602 ATGATGTTTTTGTATGATATTTGTGAAAAATACGAAAATGGTTTTCAAAGTTTCTTACCTAGTAG
1 ATGATGTTTTTATATGATATTTGTGAAAAATAAGAAAATAATTTTCAAAGTTTCTTACCTAGTAG
* *
920667 AATATTTCCATGATGAGTAAGTTATCCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATC
66 AATATTTCCATAATGAGTAAGTCATCCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATC
* * *
920732 C-TCTGAGTCATCTGT-AAGTCTTCCAAGCAAGATGATAAATCATATGTGCCTCTATAAGACCTC
131 CTTCAG-GTCATCTGTGAA-TCTTCCAAGAAAGATGATAAATCATATGGGCCTCTATAAGACCTC
**
920795 TGGGC
194 CAGGC
*
920800 ATGATATTTTCTACT-TGATATTTG
1 ATGATGTTTT-TA-TATGATATTTG
920824 GGGAAAAAAT
Statistics
Matches: 188, Mismatches: 30, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
198 30 0.16
199 157 0.84
200 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.37
Consensus pattern (198 bp):
ATGATGTTTTTATATGATATTTGTGAAAAATAAGAAAATAATTTTCAAAGTTTCTTACCTAGTAG
AATATTTCCATAATGAGTAAGTCATCCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATC
CTTCAGGTCATCTGTGAATCTTCCAAGAAAGATGATAAATCATATGGGCCTCTATAAGACCTCCA
GGC
Found at i:921219 original size:3 final size:3
Alignment explanation
Indices: 921211--921248 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
921201 TTTCAATTGT
921211 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTAA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TT
921249 TCTAATTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:928382 original size:642 final size:644
Alignment explanation
Indices: 927159--928446 Score: 2553
Period size: 642 Copynumber: 2.0 Consensus size: 644
927149 GGACGACTTA
927159 GATTTAGTTTGAATTTGAATTTGGGAACTATCACTTGTTTATTTTAAGATTTTATTTGAATATAT
1 GATTTAGTTTGAATTTGAATTTGGGAACTATCACTTGTTTATTTTAAGATTTTATTTGAATATAT
927224 TTTAGGACTTTATCCTTAGTTGTTTTCATTTTACTTTTAGGGTTTTAGAAAGCTATAAATACCCT
66 TTTAGGACTTTATCCTTAGTTGTTTTCATTTTACTTTTAGGGTTTTAGAAAGCTATAAATACCCT
927289 CTTAGGGTAAAGCTTGAAACATACTTCTACTTAGTTTTGTTCTTTGCTTTTTATTTTTATAAAAG
131 CTTAGGGTAAAGCTTGAAACATACTTCTACTTAGTTTTGTTCTTTGCTTTTTATTTTTATAAAAG
927354 TTTTCTTCTTTTCATCTTTATCTTTTCTTTATGTTCTTATTTTACTTTCTTTAAAAAATGCTAAG
196 TTTTCTTCTTTTCATCTTTATCTTTTCTTTATGTTCTTATTTTACTTTCTTTAAAAAATGCTAAG
927419 TATGATTTATATCCTGCTTAGCTAATTTTCTAGTAGGCCAAAGGTTTAAGTGATGACTCAATTTT
261 TATGATTTATATCCTGCTTAGCTAATTTTCTAGTAGGCCAAAGGTTTAAGTGATGACTCAATTTT
927484 GATCGTGAGAATTGAAAAACACCTAATATCTTCTGATATCTTTCTCAGTTTTTTGCAAACTTGGA
326 GATCGTGAGAATTGAAAAACACCTAATATCTTCTGATATCTTTCTCAGTTTTTTGCAAACTTGGA
927549 TCCGTAATTGGTCTTTCCTTTAAAAATTAAAACACTTTCATTCCAAAGGGTGCACATTGGCTTGG
391 TCCGTAATTGGTCTTTCCTTTAAAAATTAAAACACTTTCATTCCAAAGGGTGCACATTGGCTTGG
927614 ATGTTGTTCTGATTTAAAGTTGGGAGGAAGGATCGACTTGTAGCATATTCGACTTCCTATGAACT
456 ATGTTGTTCTGATTTAAAGTTGGGAGGAAGGATCGACTTGTAGCATATTCGACTTCCTATGAACT
927679 CACTTAGCGGTTGTCCTCTAAGGGAAGTTGAGATCTAAGAGAAATTAAGATCGGATTCGATTTTC
521 CACTTAGCGGTTGTCCTCTAAGGGAAGTTGAGATCTAAGAGAAATTAAGATCGGATTCGATTTTC
927744 ATTGAGACAACATGATTTGAGTC-GGGTTTTCC-ACGCTAAAACTAGATTGGTGCTAGC
586 ATTGAGACAACATGATTTGAGTCGGGGTTTTCCAACGCTAAAACTAGATTGGTGCTAGC
927801 GATTTAGTTTGAATTTGAATTTGGGAACTATCACTTGTTTATTTTAAGATTTTATTTGAATATAT
1 GATTTAGTTTGAATTTGAATTTGGGAACTATCACTTGTTTATTTTAAGATTTTATTTGAATATAT
927866 TTTAGGACTTTATCCTTAGTTGTTTTCATTTTACTTTTAGGGTTTTAGAAAGCTATAAATACCCT
66 TTTAGGACTTTATCCTTAGTTGTTTTCATTTTACTTTTAGGGTTTTAGAAAGCTATAAATACCCT
927931 CTTAGGGTAAAGCTTGAAACATACTTCTACTTAGTTTTGTTCTTTGCTTTTTATTTTTATAAAAG
131 CTTAGGGTAAAGCTTGAAACATACTTCTACTTAGTTTTGTTCTTTGCTTTTTATTTTTATAAAAG
927996 TTTTCTTCTTTTCATCTTTATCTTTTCTTTATGTTCTTATTTTACTTTCTTTAAAAAATGCTAAG
196 TTTTCTTCTTTTCATCTTTATCTTTTCTTTATGTTCTTATTTTACTTTCTTTAAAAAATGCTAAG
928061 TATGATTTATATCCTGCTTAGCTAATTTTCTAGTAGGCCAAAGGTTTAAGTGATGACTCAATTTT
261 TATGATTTATATCCTGCTTAGCTAATTTTCTAGTAGGCCAAAGGTTTAAGTGATGACTCAATTTT
928126 GATCGTGAGAATTGAAAAACACCTAATATCTTCTGATATCTTTCTCAGTTTTTTGCAAACTTGGA
326 GATCGTGAGAATTGAAAAACACCTAATATCTTCTGATATCTTTCTCAGTTTTTTGCAAACTTGGA
928191 TCCGTAATTGGTCTTTCCTTTAAAAATTAAAACACTTTCATTCCAAAGGGTGCACATTGGCTTGG
391 TCCGTAATTGGTCTTTCCTTTAAAAATTAAAACACTTTCATTCCAAAGGGTGCACATTGGCTTGG
*
928256 ATGTTGTTCTGATTTAAAGTTTGGAGGAAGGATCGACTTGTAGCATATTCGACTTCCTATGAACT
456 ATGTTGTTCTGATTTAAAGTTGGGAGGAAGGATCGACTTGTAGCATATTCGACTTCCTATGAACT
928321 CACTTAGCGGTTGTCCTCTAAGGGAAGTTGAGATCTAAGAGAAATTAAGATCGGATTCGATTTTC
521 CACTTAGCGGTTGTCCTCTAAGGGAAGTTGAGATCTAAGAGAAATTAAGATCGGATTCGATTTTC
928386 ATTGAGACAACATGATTTGAGTCGGGGTTTTCCAACGCTAAAACTAGATTGGTGCTAGC
586 ATTGAGACAACATGATTTGAGTCGGGGTTTTCCAACGCTAAAACTAGATTGGTGCTAGC
928445 GA
1 GA
928447 CGATAGTCGT
Statistics
Matches: 643, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
642 607 0.94
643 9 0.01
644 27 0.04
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (644 bp):
GATTTAGTTTGAATTTGAATTTGGGAACTATCACTTGTTTATTTTAAGATTTTATTTGAATATAT
TTTAGGACTTTATCCTTAGTTGTTTTCATTTTACTTTTAGGGTTTTAGAAAGCTATAAATACCCT
CTTAGGGTAAAGCTTGAAACATACTTCTACTTAGTTTTGTTCTTTGCTTTTTATTTTTATAAAAG
TTTTCTTCTTTTCATCTTTATCTTTTCTTTATGTTCTTATTTTACTTTCTTTAAAAAATGCTAAG
TATGATTTATATCCTGCTTAGCTAATTTTCTAGTAGGCCAAAGGTTTAAGTGATGACTCAATTTT
GATCGTGAGAATTGAAAAACACCTAATATCTTCTGATATCTTTCTCAGTTTTTTGCAAACTTGGA
TCCGTAATTGGTCTTTCCTTTAAAAATTAAAACACTTTCATTCCAAAGGGTGCACATTGGCTTGG
ATGTTGTTCTGATTTAAAGTTGGGAGGAAGGATCGACTTGTAGCATATTCGACTTCCTATGAACT
CACTTAGCGGTTGTCCTCTAAGGGAAGTTGAGATCTAAGAGAAATTAAGATCGGATTCGATTTTC
ATTGAGACAACATGATTTGAGTCGGGGTTTTCCAACGCTAAAACTAGATTGGTGCTAGC
Found at i:930396 original size:37 final size:37
Alignment explanation
Indices: 930325--930551 Score: 230
Period size: 37 Copynumber: 6.1 Consensus size: 37
930315 AGTTTTAAAA
** * *
930325 AAAACATTTTAAAAAACATATATAATATATAATTTTTT
1 AAAACATTTTTGAAAACATATAT-ATATATAAGTTTTG
* *
930363 AAAATCA-TTTTGAAAACTTATATATATATAATTTTTG
1 AAAA-CATTTTTGAAAACATATATATATATAAGTTTTG
* *
930400 AAAACATTTTTGAAAGCACATATAT-TAT-AGTTTTG
1 AAAACATTTTTGAAAACATATATATATATAAGTTTTG
* * *
930435 AAAATATTTTTGAAAACATTTATATATTATATAGTTTTT
1 AAAACATTTTTGAAAACATATATATA-TATA-AGTTTTG
* * *
930474 AAAACA-TTTTGAAAATAGATATA-ATATATAGTTTTT
1 AAAACATTTTTGAAAACATATATATATATA-AGTTTTG
*
930510 AAAACATTTTTGAAAACATATATATTATATAATTTTTG
1 AAAACATTTTTGAAAACATATATA-TATATAAGTTTTG
930548 AAAA
1 AAAA
930552 TATATATATA
Statistics
Matches: 159, Mismatches: 21, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
35 27 0.17
36 23 0.14
37 51 0.32
38 40 0.25
39 18 0.11
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.44
Consensus pattern (37 bp):
AAAACATTTTTGAAAACATATATATATATAAGTTTTG
Found at i:930404 original size:75 final size:75
Alignment explanation
Indices: 930325--930551 Score: 279
Period size: 75 Copynumber: 3.1 Consensus size: 75
930315 AGTTTTAAAA
* * *
930325 AAAACATTTTAAAAAACATATATAATATATAATTTTTTAAAATCA-TTTTGAAAACTTATATA-T
1 AAAACATTTT-GAAAACACATATAATATAT-AGTTTTTAAAATCATTTTTGAAAACTTATATATT
930388 ATATAATTTTTG
64 ATATAATTTTTG
* *
930400 AAAACATTTTTGAAAGCACATAT-AT-TATAGTTTTGAAAAT-ATTTTTGAAAACATTTATATAT
1 AAAACA-TTTTGAAAACACATATAATATATAGTTTTTAAAATCATTTTTGAAAAC--TTATATAT
*
930462 TATATAGTTTTT-
63 TATATAATTTTTG
* * *
930474 AAAACATTTTGAAAATAGATATAATATATAGTTTTTAAAA-CATTTTTGAAAACATATATATTAT
1 AAAACATTTTGAAAACACATATAATATATAGTTTTTAAAATCATTTTTGAAAACTTATATATTAT
930538 ATAATTTTTG
66 ATAATTTTTG
930548 AAAA
1 AAAA
930552 TATATATATA
Statistics
Matches: 131, Mismatches: 12, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
71 1 0.01
72 20 0.15
73 34 0.26
74 21 0.16
75 51 0.39
76 4 0.03
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.44
Consensus pattern (75 bp):
AAAACATTTTGAAAACACATATAATATATAGTTTTTAAAATCATTTTTGAAAACTTATATATTAT
ATAATTTTTG
Found at i:930547 original size:63 final size:67
Alignment explanation
Indices: 930480--930620 Score: 177
Period size: 63 Copynumber: 2.2 Consensus size: 67
930470 TTTTAAAACA
*
930480 TTTTGAAAATAGATATA-ATATATAG-TTTTT-AAAACAT-TTTT-GAAAACATATATATTATAT
1 TTTTGAAAATAGATATATAT-TATAGTTTTTTAAAAAAATATTTTAG-AAACATATATATTATAT
930540 A-AT
64 ATAT
* **
930543 TTTTGAAAATATATATATATTATAGTTTTTTAAAAAAATATTTTAGAAATTTATATATTATATAT
1 TTTTGAAAATAGATATATATTATAGTTTTTTAAAAAAATATTTTAGAAACATATATATTATATAT
*
930608 GT
66 AT
930610 TTTTGAAAATA
1 TTTTGAAAATA
930621 TTTTTATTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
63 21 0.31
64 7 0.10
65 6 0.09
66 20 0.30
67 13 0.19
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (67 bp):
TTTTGAAAATAGATATATATTATAGTTTTTTAAAAAAATATTTTAGAAACATATATATTATATAT
AT
Found at i:930558 original size:28 final size:26
Alignment explanation
Indices: 930515--930577 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
930505 TTTTTAAAAC
930515 ATTTTTGAAAACATATATATTATATA
1 ATTTTTGAAAACATATATATTATATA
*
930541 ATTTTTGAAAATATATATA-TATTATA
1 ATTTTTGAAAACATATATATTA-TATA
* *
930567 GTTTTTTAAAA
1 ATTTTTGAAAA
930578 AAATATTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 2 0.06
26 31 0.94
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (26 bp):
ATTTTTGAAAACATATATATTATATA
Found at i:930579 original size:28 final size:26
Alignment explanation
Indices: 930522--930583 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 26
930512 AACATTTTTG
*
930522 AAAACATATATATTATATAATTTTTGAA
1 AAAATATATATATTATAT-ATTTTT-AA
*
930550 AATATATATATATTATAGT-TTTTTAA
1 AAAATATATATATTATA-TATTTTTAA
930576 AAAA-ATAT
1 AAAATATAT
930584 TTTAGAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 4 0.13
26 5 0.17
27 5 0.17
28 15 0.50
29 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (26 bp):
AAAATATATATATTATATATTTTTAA
Found at i:930651 original size:23 final size:22
Alignment explanation
Indices: 930622--930665 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
930612 TTGAAAATAT
930622 TTTTATTTTTAT-TTATTATTATA
1 TTTTA-TTTTATGTTATT-TTATA
930645 TTTTATTTTATGTTATTTTAT
1 TTTTATTTTATGTTATTTTAT
930666 TCCTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTATTTTATGTTATTTTATA
Found at i:930675 original size:22 final size:24
Alignment explanation
Indices: 930625--930678 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
930615 AAAATATTTT
**
930625 TATTTTTAT-TTATTATTATATTT
1 TATTTTTATGTTATTATTATATCC
930648 TA-TTTTATGTTATT-TTAT-TCC
1 TATTTTTATGTTATTATTATATCC
930669 TATTTTTATG
1 TATTTTTATG
930679 CTTTGTTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 3 0.11
22 17 0.63
23 7 0.26
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (24 bp):
TATTTTTATGTTATTATTATATCC
Found at i:932009 original size:22 final size:21
Alignment explanation
Indices: 931984--932032 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
931974 TTTTTCCTCC
931984 TTTTATTTATTATTTTAGTTAAT
1 TTTTA-TTATTATTTTA-TTAAT
* *
932007 TTTTATTATTCTTTTATTCAT
1 TTTTATTATTATTTTATTAAT
932028 TTTTA
1 TTTTA
932033 ACATATCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTATTATTATTTTATTAAT
Found at i:932111 original size:12 final size:12
Alignment explanation
Indices: 932094--932124 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
932084 TCGAATCGGG
932094 TAATTTAAATTT
1 TAATTTAAATTT
932106 TAATTTAAATTT
1 TAATTTAAATTT
932118 TCAATTT
1 T-AATTT
932125 TCGCAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (12 bp):
TAATTTAAATTT
Found at i:933599 original size:17 final size:19
Alignment explanation
Indices: 933567--933610 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
933557 CATTTAGACA
933567 TTTGCATTTCGTTA-TTTC
1 TTTGCATTTCGTTATTTTC
933585 TTTGCATTT-GTTATTTTC
1 TTTGCATTTCGTTATTTTC
*
933603 TTTACATT
1 TTTGCATT
933611 CACATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.14, C:0.14, G:0.09, T:0.64
Consensus pattern (19 bp):
TTTGCATTTCGTTATTTTC
Found at i:937035 original size:84 final size:85
Alignment explanation
Indices: 936891--938261 Score: 1393
Period size: 84 Copynumber: 16.5 Consensus size: 85
936881 TAAACAAACT
* * * * ** * *
936891 ATTTGCAGCTTAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
936955 CTCAGCTCCAA-GGCATATC
66 CTCAGCTCCAACGGCATATC
* * * *
936974 ATTTGCAGTACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
**
937039 CTCAGCT-CAACGGCGCATC
66 CTCAGCTCCAACGGCATATC
* * * * * *
937058 ATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCCTTAAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
* * * *
937123 CTAAGCTTCAAGGGCATAAC
66 CTCAGCTCCAACGGCATATC
* * * * ** * *
937143 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCTACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
* *
937208 CTCAG-TTCAACGGCACATC
66 CTCAGCTCCAACGGCATATC
* * * * * *
937227 ATTTCCAGTATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCTTCGAGTTCGACTATG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
937288 CTCAGCTCCAA-GGCATATC
66 CTCAGCTCCAACGGCATATC
* *
937307 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTATG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
937372 CTCAGCTCCAA-GGCATATC
66 CTCAGCTCCAACGGCATATC
* * *
937391 ATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
937456 CTCAGCT-CAACGGCATATC
66 CTCAGCTCCAACGGCATATC
* * * * *** * *
937475 ATTTCCAGTATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
* * * *
937536 CTCAGCTTCGAGGGCACATC
66 CTCAGCTCCAACGGCATATC
* * * * * * * *
937556 ATTTGCAACGTAACTCAAGACTAGAAGGGTTATCT-CTGACCAAAAGACCTTTGAGTTTGACTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGC-CAACAAAAGACCTTTGAGTTCGACTAC
*
937620 GCTCAGCT-CAACGGCGTATC
65 GCTCAGCTCCAACGGCATATC
* * * * *
937640 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCCTTAAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
* * * *
937705 CTAAGCTTCAAGGGCATAAC
66 CTCAGCTCCAACGGCATATC
* * * * ** *
937725 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
* *
937790 CTCAG-TTCAACGGCACATC
66 CTCAGCTCCAACGGCATATC
* * * * * *
937809 ATTTCCAGTATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCTTCGAGTTCGACTATG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
937870 CTCAGCTCCAA-GGCATATC
66 CTCAGCTCCAACGGCATATC
* ** *
937889 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGACAAAAGACCTTCAAGTTCGACTATG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
937954 CTCAGCTCCAA-GGCATATC
66 CTCAGCTCCAACGGCATATC
* * * *
937973 ATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCCGCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
938038 CTCAGCT-CAACGGCATATC
66 CTCAGCTCCAACGGCATATC
* * * *** *
938057 ATTT-CTAGTATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCCCGAGTTCGATTAC
1 ATTTGC-AGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTAC
* * * * *
938117 ACTCAGCTTCGAGGGCACATC
65 GCTCAGCTCCAACGGCATATC
* * * * * * *
938138 ATTTGCAACGTAACTCAAGACTAGAAGGGTTATCT-CTGACCAAAAGACCTTTGAGTTCGACTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGC-CAACAAAAGACCTTTGAGTTCGACTAC
* *
938202 GCTCATCT-CAACGGCACATC
65 GCTCAGCTCCAACGGCATATC
* *
938222 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA
938262 AGACCCCTGG
Statistics
Matches: 1057, Mismatches: 199, Indels: 63
0.80 0.15 0.05
Matches are distributed among these distances:
80 179 0.17
81 83 0.08
82 1 0.00
83 44 0.04
84 569 0.54
85 181 0.17
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (85 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACG
CTCAGCTCCAACGGCATATC
Found at i:938075 original size:582 final size:582
Alignment explanation
Indices: 936930--938261 Score: 2393
Period size: 582 Copynumber: 2.3 Consensus size: 582
936920 TTATCTGTGA
** * * * * * *
936930 CCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCATATCATTTGC-A-GTACAACTTAA
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAACGT--AACTCAA
* * * *
936992 GTCTAGAAGGGTTGTCTGC-CAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCGCA
64 GACTAGAAGGGTTATCT-CTGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCGCA
*
937056 TCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCCTTAAGTTCGATTA
128 TCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCCTTAAGTTCGATTA
937121 CACTAAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
193 CACTAAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
*
937186 AAGACCTTTGAGTTCTACTACGCTCAGTTCAACGGCACATCATTTCCAGTATAGCTTAAGTCGAG
258 AAGACCTTTGAGTTCGACTACGCTCAGTTCAACGGCACATCATTTCCAGTATAGCTTAAGTCGAG
937251 AAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCATATCATTTGCAGC
323 AAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCATATCATTTGCAGC
*
937316 ATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTATGCTCAGCTCC
388 ATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCAAGTTCGACTATGCTCAGCTCC
*
937381 AAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAG
453 AAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCCGCCAACAAAAGACCTTTGAG
937446 TTCGACTACGCTCAGCTCAACGGCATATCATTTCCAGTATAGCTTAAGTCGAGAAGGGCTATCTG
518 TTCGACTACGCTCAGCTCAACGGCATATCATTTCCAGTATAGCTTAAGTCGAGAAGGGCTATCTG
937511 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAACGTAACTCAAGA
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAACGTAACTCAAGA
* *
937576 CTAGAAGGGTTATCTCTGACCAAAAGACCTTTGAGTTTGACTACGCTCAGCTCAACGGCGTATCA
66 CTAGAAGGGTTATCTCTGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCGCATCA
937641 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCCTTAAGTTCGATTACAC
131 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCCTTAAGTTCGATTACAC
937706 TAAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAG
196 TAAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAG
937771 ACCTTTGAGTTCGACTACGCTCAGTTCAACGGCACATCATTTCCAGTATAGCTTAAGTCGAGAAG
261 ACCTTTGAGTTCGACTACGCTCAGTTCAACGGCACATCATTTCCAGTATAGCTTAAGTCGAGAAG
937836 GGCTATCTGCCAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCATATCATTTGCAGCATA
326 GGCTATCTGCCAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCATATCATTTGCAGCATA
*
937901 ACTTAAGTCGAGAAGGGTTATCTGCCGACAAAAGACCTTCAAGTTCGACTATGCTCAGCTCCAAG
391 ACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCAAGTTCGACTATGCTCAGCTCCAAG
937966 GCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCCGCCAACAAAAGACCTTTGAGTTC
456 GCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCCGCCAACAAAAGACCTTTGAGTTC
*
938031 GACTACGCTCAGCTCAACGGCATATCATTTCTAGTATAGCTTAAGTCGAGAAGGGCTATCTG
521 GACTACGCTCAGCTCAACGGCATATCATTTCCAGTATAGCTTAAGTCGAGAAGGGCTATCTG
938093 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAACGTAACTCAAGA
1 CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAACGTAACTCAAGA
* *
938158 CTAGAAGGGTTATCTCTGACCAAAAGACCTTTGAGTTCGACTACGCTCATCTCAACGGCACATCA
66 CTAGAAGGGTTATCTCTGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCGCATCA
* *
938223 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
131 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA
938262 AGACCCCTGG
Statistics
Matches: 721, Mismatches: 26, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
581 28 0.04
582 690 0.96
583 1 0.00
584 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (582 bp):
CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAACGTAACTCAAGA
CTAGAAGGGTTATCTCTGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCGCATCA
TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCCTTAAGTTCGATTACAC
TAAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAG
ACCTTTGAGTTCGACTACGCTCAGTTCAACGGCACATCATTTCCAGTATAGCTTAAGTCGAGAAG
GGCTATCTGCCAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCATATCATTTGCAGCATA
ACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCAAGTTCGACTATGCTCAGCTCCAAG
GCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCCGCCAACAAAAGACCTTTGAGTTC
GACTACGCTCAGCTCAACGGCATATCATTTCCAGTATAGCTTAAGTCGAGAAGGGCTATCTG
Found at i:938258 original size:333 final size:331
Alignment explanation
Indices: 936891--938259 Score: 1523
Period size: 333 Copynumber: 4.1 Consensus size: 331
936881 TAAACAAACT
* * * * * *
936891 ATTTGCAGCTTAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGACAAAAGACCTTCGAGTTCGACTACG
* * *
936955 CTCAGCTCCAAGGCATATCATTTGCAGTACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAG
66 CTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAG
**
937020 ACCTTTGAGTTCGACTACGCTCAGCTCAACGGCGCATCATTTACAGCATAACTTAAGTCGAGAAG
131 ACCTTTGAGTTCGACTACGCTCAGCTCAACGGCATATCATTTACAGCATAACTTAAGTCGAGAAG
* * * * * *
937085 GGTTATCTG-CCAACCAAAGACCCTTAAGTTCGATTACACTAAGCTTCAAGGGCATAACATTT-A
196 GGTTATCTGACC-A--AAAGACCCTTGAGTTCGACTACACTCAGCTTCAACGGCACATCATTTCA
* * * * * * *
937148 CAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCTACTACGCTCAG
258 -AGTATAGCTCAAGTCGAGAAGGGCTATC--TG-CC-AAAGACCTTCGAGTTCGACTACGCTCAG
*
937213 TTCAACGGCACATC
318 CTCAACGGCACATC
* * * * *
937227 ATTTCCAGTATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCTTCGAGTTCGACTATG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGACAAAAGACCTTCGAGTTCGACTACG
*
937288 CTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAG
66 CTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAG
* * * * *
937353 ACCTTCGAGTTCGACTATGCTCAGCTCCAA-GGCATATCATTTGCAGCACAACTTAAGTCTAGAA
131 ACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCATATCATTTACAGCATAACTTAAGTCGAGAA
* * * * * *
937417 GGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCATATCATTTCC
195 GGGTTATCTG--ACCAAAAGACCCTTGAGTTCGACTACACTCAGCTTCAACGGCACATCATTTCA
* ** * * *
937481 AGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCG
258 AGTATAGCTCAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCA
*
937546 AGGGCACATC
322 ACGGCACATC
* * * * * * * *
937556 ATTTGCAACGTAACTCAAGACTAGAAGGGTTATCT-CTGACCAAAAGACCTTTGAGTTTGACTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGA-CAAAAGACCTTCGAGTTCGACTAC
* * *
937620 GCTCAGCT-CAACGGCGTATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
65 GCTCAGCTCCAA-GGCATATCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTGCCAACAAA
* * * * * * * * * *
937684 AGACCCTTAAGTTCGATTACACTAAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAG
129 AGACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCATATCATTTACAGCATAACTTAAGTCGAG
* *
937749 AAGGGTTATCTGTGACCAAAAGACCTTTGAGTTCGACTACGCTCAG-TTCAACGGCACATCATTT
193 AAGGGTTATC--TGACCAAAAGACCCTTGAGTTCGACTACACTCAGCTTCAACGGCACATCATTT
* * *
937813 CCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTATGCTCAGCTC
256 CAAGTATAGCTCAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGCT-
*
937878 CAA-GGCATATC
320 CAACGGCACATC
* *
937889 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGACAAAAGACCTTCAAGTTCGACTATG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGACAAAAGACCTTCGAGTTCGACTACG
* * *
937954 CTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCCGCCAACAAAAG
66 CTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAG
* *
938019 ACCTTTGAGTTCGACTACGCTCAGCTCAACGGCATATCATTT-CTAGTATAGCTTAAGTCGAGAA
131 ACCTTTGAGTTCGACTACGCTCAGCTCAACGGCATATCATTTAC-AGCATAACTTAAGTCGAGAA
* ** * * *
938083 GGGCTATCTG-CC-AAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAA
195 GGGTTATCTGACCAAAAGACCCTTGAGTTCGACTACACTCAGCTTCAACGGCACATCATTT-CAA
* * * * *
938146 CGTA-A-CTCAAGACTAGAAGGGTTATCTCTGACCAAAAGACCTTTGAGTTCGACTACGCTCATC
259 -GTATAGCTCAAGTCGAGAAGGGCTA--TCTG-CC-AAAGACCTTCGAGTTCGACTACGCTCAGC
938209 TCAACGGCACATC
319 TCAACGGCACATC
* *
938222 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCC
938260 AAAGACCCCT
Statistics
Matches: 874, Mismatches: 130, Indels: 61
0.82 0.12 0.06
Matches are distributed among these distances:
328 45 0.05
329 72 0.08
330 7 0.01
331 8 0.01
332 83 0.09
333 473 0.54
334 154 0.18
335 1 0.00
336 31 0.04
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (331 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCGACAAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAG
ACCTTTGAGTTCGACTACGCTCAGCTCAACGGCATATCATTTACAGCATAACTTAAGTCGAGAAG
GGTTATCTGACCAAAAGACCCTTGAGTTCGACTACACTCAGCTTCAACGGCACATCATTTCAAGT
ATAGCTCAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGG
CACATC
Found at i:938984 original size:35 final size:35
Alignment explanation
Indices: 938923--939021 Score: 89
Period size: 35 Copynumber: 2.9 Consensus size: 35
938913 TTTTAATAGT
* * *
938923 TTTTAAAACCATATATGT-ATAGTTTTAAAAAAACA
1 TTTTAAAAACATATATATAAT-TTTTTAAAAAAACA
*
938958 TTTTAAAAACATATATATAATTTTTT--AAAATCA
1 TTTTAAAAACATATATATAATTTTTTAAAAAAACA
* *
938991 -TTTGAAAACTTATATATATAATTTTTGAAAA
1 TTTTAAAAAC--ATATATATAATTTTTTAAAA
939022 CATTTTGAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
32 8 0.15
33 6 0.11
34 15 0.28
35 20 0.38
36 4 0.08
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.42
Consensus pattern (35 bp):
TTTTAAAAACATATATATAATTTTTTAAAAAAACA
Found at i:939011 original size:34 final size:34
Alignment explanation
Indices: 938952--939155 Score: 187
Period size: 34 Copynumber: 6.1 Consensus size: 34
938942 TAGTTTTAAA
* *
938952 AAAACATTTTAAAAAC--ATATATATAATTTTTT
1 AAAACATTTTGAAAACTTATATATATAAGTTTTT
938984 AAAATCA-TTTGAAAACTTATATATATAA-TTTTT
1 AAAA-CATTTTGAAAACTTATATATATAAGTTTTT
* ** *
939017 GAAAACATTTTGAAAGCACATAT-TAT-AGTTTTG
1 -AAAACATTTTGAAAACTTATATATATAAGTTTTT
*
939050 AAAA-TTTTTGAAAACATTATATAT-TATAGTTTTT
1 AAAACATTTTGAAAAC-TTATATATATA-AGTTTTT
*
939084 AAAACATTTTGAAAA-TAGATATAATATATAGTTTTT
1 AAAACATTTTGAAAACT-TATAT-ATATA-AGTTTTT
*
939120 AAAACATTTTGAAAAC-TATATATATAA-TTTTG
1 AAAACATTTTGAAAACTTATATATATAAGTTTTT
939152 AAAA
1 AAAA
939156 TAATATATAT
Statistics
Matches: 143, Mismatches: 14, Indels: 30
0.76 0.07 0.16
Matches are distributed among these distances:
31 9 0.06
32 30 0.21
33 19 0.13
34 45 0.31
35 15 0.10
36 25 0.17
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.42
Consensus pattern (34 bp):
AAAACATTTTGAAAACTTATATATATAAGTTTTT
Found at i:939054 original size:66 final size:66
Alignment explanation
Indices: 938952--939155 Score: 224
Period size: 66 Copynumber: 3.1 Consensus size: 66
938942 TAGTTTTAAA
* *
938952 AAAACATTTT-AAAAACATATATATAATTTTTTAAAATCATTTGAAAACTTATATATATAATTTT
1 AAAACATTTTGAAAGACATATATAT-AGTTTTTAAAATCATTTGAAAACTTATATATATAATTTT
939016 TG
65 TG
* * *
939018 AAAACATTTTGAAAGCACATAT-TATAGTTTTGAAAAT-TTTTGAAAACATTATATATTATAGTT
1 AAAACATTTTGAAAG-ACATATATATAGTTTTTAAAATCATTTGAAAAC-TTATATA-TATAATT
939081 TTT-
63 TTTG
*
939084 AAAACATTTTGAAAATAGATATAATATATAGTTTTTAAAA-CATTTTGAAAAC-TATATATATAA
1 AAAACATTTTG--AA-AGACAT-ATATATAGTTTTTAAAATCA-TTTGAAAACTTATATATATAA
939147 -TTTTG
61 TTTTTG
939152 AAAA
1 AAAA
939156 TAATATATAT
Statistics
Matches: 117, Mismatches: 9, Indels: 22
0.79 0.06 0.15
Matches are distributed among these distances:
65 9 0.08
66 38 0.32
67 19 0.16
68 19 0.16
69 10 0.09
70 13 0.11
71 9 0.08
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.42
Consensus pattern (66 bp):
AAAACATTTTGAAAGACATATATATAGTTTTTAAAATCATTTGAAAACTTATATATATAATTTTT
G
Found at i:939173 original size:23 final size:21
Alignment explanation
Indices: 939125--939171 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
939115 TTTTTAAAAC
939125 ATTTTGAAAACT-ATATATATA
1 ATTTTGAAAA-TAATATATATA
939146 ATTTTGAAAATAATATATATA
1 ATTTTGAAAATAATATATATA
*
939167 GTTTT
1 ATTTT
939172 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (21 bp):
ATTTTGAAAATAATATATATA
Found at i:940515 original size:10 final size:10
Alignment explanation
Indices: 940502--940526 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
940492 TATTTTATTA
940502 TTTTTTTTTG
1 TTTTTTTTTG
940512 TTTTTTTTTG
1 TTTTTTTTTG
940522 TTTTT
1 TTTTT
940527 ATTATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:940702 original size:12 final size:12
Alignment explanation
Indices: 940685--940709 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
940675 TCGAATCGGG
940685 TAATTTAAATTT
1 TAATTTAAATTT
940697 TAATTTAAATTT
1 TAATTTAAATTT
940709 T
1 T
940710 TCAATTTTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAATTTAAATTT
Found at i:944011 original size:20 final size:19
Alignment explanation
Indices: 943986--944026 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
943976 ATTTTTAGGA
943986 TAAATTA-CATGTTTAGTACC
1 TAAATTATCA-GTTTAG-ACC
944006 TAAATTATCAGTTTAGACC
1 TAAATTATCAGTTTAGACC
944025 TA
1 TA
944027 TTTTAGTACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 13 0.65
21 2 0.10
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
TAAATTATCAGTTTAGACC
Found at i:944259 original size:120 final size:121
Alignment explanation
Indices: 944102--944392 Score: 340
Period size: 120 Copynumber: 2.4 Consensus size: 121
944092 ATACCCGTTC
* * * *
944102 AAAAGTTTAGGTACTAAAACGAAACAAAATTGATAGTTTAGGTACT-AAGCGCGTTACGTTGTTA
1 AAAAGTTTAGGTACTAAAA-TAAACAAAACTGATAGTTTAAGTACTAAAGCG-GTTAAGTTGTTA
*
944166 AC-GTCGAGGTACTAAAATGAAACAAAAACTAAAAGTTAAGTATG-TTTTGAAAA-A-TT
64 ACGGT-G-GGTACTAAAATGAAACAAAAACTAAAAGTTAAGTATGATTTTAAAAATATTT
** *
944222 AAAAGTTTAGGTACTAAAATAAACCAAAACTGATAGTTTAAGTACTAAATTGGTTAAGTTTTTAA
1 AAAAGTTTAGGTACTAAAATAAA-CAAAACTGATAGTTTAAGTACTAAAGCGGTTAAGTTGTTAA
* * *
944287 CGGTGGGTGCTAAAATGAAACAAAAAGTAAACGTTAAGTATGATTTTAAAAATATTT
65 CGGTGGGTACTAAAATGAAACAAAAACTAAAAGTTAAGTATGATTTTAAAAATATTT
* ** * * *
944344 AAAAGTTTAGGTACTGAAATGGACTAAAATTAATAGTTTAAGTATTAAA
1 AAAAGTTTAGGTACTAAAATAAAC-AAAACTGATAGTTTAAGTACTAAA
944393 TGCGTAATTT
Statistics
Matches: 147, Mismatches: 17, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
119 37 0.25
120 60 0.41
121 7 0.05
122 43 0.29
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (121 bp):
AAAAGTTTAGGTACTAAAATAAACAAAACTGATAGTTTAAGTACTAAAGCGGTTAAGTTGTTAAC
GGTGGGTACTAAAATGAAACAAAAACTAAAAGTTAAGTATGATTTTAAAAATATTT
Found at i:946706 original size:39 final size:39
Alignment explanation
Indices: 946663--946745 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 39
946653 CTCATGATTT
*
946663 TATCAAAACCATGATAAACAATATCATATATAATAGTCA
1 TATCAAAACCATGATAAACAATATCATACATAATAGTCA
*
946702 TATCAAAGCCATGATAAACAATATCATACATAATAGTCA
1 TATCAAAACCATGATAAACAATATCATACATAATAGTCA
946741 TATCA
1 TATCA
946746 CATTCTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.49, C:0.17, G:0.06, T:0.28
Consensus pattern (39 bp):
TATCAAAACCATGATAAACAATATCATACATAATAGTCA
Found at i:946906 original size:37 final size:38
Alignment explanation
Indices: 946865--946948 Score: 100
Period size: 37 Copynumber: 2.2 Consensus size: 38
946855 AAACTCATTA
* * *
946865 TCAAATTCAGGACTT-ATTTCCAGACTCATAGGTTA-TT
1 TCAAATTCAGAACTTAATTT-CAGACCCATAGCTTATTT
*
946902 TCAAATTCATAACTTAATTTCAGACCCATAGCTTATTT
1 TCAAATTCAGAACTTAATTTCAGACCCATAGCTTATTT
*
946940 TCAAGTTCA
1 TCAAATTCA
946949 TAGCCCAATG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
37 26 0.65
38 14 0.35
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (38 bp):
TCAAATTCAGAACTTAATTTCAGACCCATAGCTTATTT
Found at i:953216 original size:19 final size:19
Alignment explanation
Indices: 953192--953234 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
953182 TTGGAGCACC
953192 TAAAATTATGTAATTTTAA
1 TAAAATTATGTAATTTTAA
* * *
953211 TAAAA-TATTTTATTTTAC
1 TAAAATTATGTAATTTTAA
953229 TAAAAT
1 TAAAAT
953235 ACCAAAGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
TAAAATTATGTAATTTTAA
Found at i:953544 original size:30 final size:31
Alignment explanation
Indices: 953505--953650 Score: 88
Period size: 30 Copynumber: 4.8 Consensus size: 31
953495 CAAATATTAA
* *
953505 TTATCCTTATTTTAAC-ATAAATTATATATT
1 TTATTCTTATTTTAACTATAAAATATATATT
* *
953535 TTATTCTTATTTTTAACTTTAAAATGTATATT
1 TTATTCTTA-TTTTAACTATAAAATATATATT
* * * * *
953567 CTATTTTTATTTTTA-TTTCAAAA-ATATATA
1 TTATTCTTATTTTAACTAT-AAAATATATATT
* * *
953597 TTATTTTTGTTTTAA-TTTAAAA-ATATATT
1 TTATTCTTATTTTAACTATAAAATATATATT
* * * *
953626 TAATTTTTATCTTAA-TTTAAAATAT
1 TTATTCTTATTTTAACTATAAAATAT
953651 TATAAGAATA
Statistics
Matches: 96, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
29 29 0.30
30 33 0.34
31 16 0.17
32 18 0.19
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (31 bp):
TTATTCTTATTTTAACTATAAAATATATATT
Found at i:953618 original size:29 final size:29
Alignment explanation
Indices: 953528--953647 Score: 118
Period size: 29 Copynumber: 4.0 Consensus size: 29
953518 AACATAAATT
* *
953528 ATATATTTTATTCTTATTTTTAACTTT-AAA
1 ATATATATTATTTTTA-TTTTAA-TTTAAAA
* *
953558 ATGTATATTCTATTTTTATTTTTATTTCAAAA
1 ATATATA-T-TATTTTTATTTTAATTT-AAAA
*
953590 ATATATATTATTTTTGTTTTAATTTAAAA
1 ATATATATTATTTTTATTTTAATTTAAAA
*
953619 ATATAT-TTAATTTTTATCTTAATTTAAAA
1 ATATATATT-ATTTTTATTTTAATTTAAAA
953648 TATTATAAGA
Statistics
Matches: 76, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
28 2 0.03
29 28 0.37
30 23 0.30
31 7 0.09
32 16 0.21
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (29 bp):
ATATATATTATTTTTATTTTAATTTAAAA
Found at i:953708 original size:30 final size:29
Alignment explanation
Indices: 953652--953804 Score: 184
Period size: 30 Copynumber: 5.1 Consensus size: 29
953642 TTAAAATATT
*
953652 ATAAGAATAAAATATAAATATTTAAGTTAAG
1 ATAAGAAT-AAATATATAT-TTTAAGTTAAG
*
953683 GTAAGAATAAATTATATATTTTAAGTTAAG
1 ATAAGAATAAA-TATATATTTTAAGTTAAG
* *
953713 A-AAAAATTAAAATATATATTTTAAGTTAAA
1 ATAAGAA-T-AAATATATATTTTAAGTTAAG
953743 ATAAGAATAAA-ATATATTTTCAAGTTAAG
1 ATAAGAATAAATATATATTTT-AAGTTAAG
953772 ATAAGAATAAATATATATTTTTAATGTTAAG
1 ATAAGAATAAATATATA-TTTTAA-GTTAAG
953803 AT
1 AT
953805 GTTAATTTAA
Statistics
Matches: 107, Mismatches: 7, Indels: 16
0.82 0.05 0.12
Matches are distributed among these distances:
28 9 0.08
29 25 0.23
30 41 0.38
31 32 0.30
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.37
Consensus pattern (29 bp):
ATAAGAATAAATATATATTTTAAGTTAAG
Found at i:953824 original size:18 final size:18
Alignment explanation
Indices: 953791--953840 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
953781 AATATATATT
*
953791 TTTAATGTTAAGATGTTAA
1 TTTAAT-TTAAGATGTGAA
*
953810 TTTAATTTAATATGTGAA
1 TTTAATTTAAGATGTGAA
*
953828 TTTAAATTAAGAT
1 TTTAATTTAAGAT
953841 ATATAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 21 0.78
19 6 0.22
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (18 bp):
TTTAATTTAAGATGTGAA
Found at i:955587 original size:46 final size:46
Alignment explanation
Indices: 955533--955690 Score: 232
Period size: 46 Copynumber: 3.5 Consensus size: 46
955523 ATCAATTATC
* *
955533 CCATAAGCTTGTAAGCTTATTTTACCAAAATACTTACCATTTAAT-
1 CCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAATA
* * *
955578 CACATAAGCTCGTAAGCTTATTTTCCCCATATGCTTACCATTTAATA
1 C-CATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAATA
*
955625 CCATAAGCTCGTAAGCTTATTTTACCAATATACTTGCCA-TT-ATA
1 CCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAATA
955669 CCATAAGCTCGTAAGCTTATTT
1 CCATAAGCTCGTAAGCTTATTT
955691 GCTTGCTTCA
Statistics
Matches: 102, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
44 25 0.25
45 3 0.03
46 73 0.72
47 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.37
Consensus pattern (46 bp):
CCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAATA
Found at i:955740 original size:20 final size:20
Alignment explanation
Indices: 955710--955755 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
955700 ATTTATTAAG
* *
955710 CAATAAACCATATACCATAGA
1 CAAT-AACCATAAACAATAGA
955731 CAATAACCATAAACAATAGA
1 CAATAACCATAAACAATAGA
955751 CAATA
1 CAATA
955756 GCCCAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.57, C:0.22, G:0.04, T:0.17
Consensus pattern (20 bp):
CAATAACCATAAACAATAGA
Found at i:956849 original size:30 final size:30
Alignment explanation
Indices: 956815--956881 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
956805 AACCCATCAA
* * *
956815 TTTTCTAGAATTTAC-AAATTGATCTCCAAC
1 TTTTCTAAAACTTACAAAATT-ATCCCCAAC
*
956845 TTTTC-AAAACTTACAAAATTATCCCCAAT
1 TTTTCTAAAACTTACAAAATTATCCCCAAC
956874 TTTTCTAA
1 TTTTCTAA
956882 GGCTTGTAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.40
Consensus pattern (30 bp):
TTTTCTAAAACTTACAAAATTATCCCCAAC
Found at i:957731 original size:30 final size:30
Alignment explanation
Indices: 957674--957737 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
957664 AAAATTACAT
* *
957674 TTTGATCCCTAAACTTTCCAAAGTTTATAC
1 TTTGATCCCTAAACTTTCCAAACTTTATAA
957704 TTTGATCACC-AAACTTTACC-AACTTTATAA
1 TTTGATC-CCTAAACTTT-CCAAACTTTATAA
957734 TTTG
1 TTTG
957738 GTCATTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 26 0.87
31 4 0.13
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (30 bp):
TTTGATCCCTAAACTTTCCAAACTTTATAA
Found at i:962606 original size:26 final size:26
Alignment explanation
Indices: 962536--962600 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
962526 TCCATCCGAG
962536 ACCCGACCCGACCAAAATAAAGTATC
1 ACCCGACCCGACCAAAATAAAGTATC
* *
962562 ACTCGACCCGACCAAAATAAAGTTTC
1 ACCCGACCCGACCAAAATAAAGTATC
962588 ACCCGACCCGACC
1 ACCCGACCCGACC
962601 CGAATATATG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.37, C:0.38, G:0.12, T:0.12
Consensus pattern (26 bp):
ACCCGACCCGACCAAAATAAAGTATC
Found at i:963060 original size:262 final size:255
Alignment explanation
Indices: 962565--963180 Score: 913
Period size: 262 Copynumber: 2.4 Consensus size: 255
962555 AAGTATCACT
962565 CGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGA
1 CGACCCGACCAAAATAAAGTTTCACCC-ACCCGACCCGAATATATGAATTAGAAACCCGACCCGA
* *
962630 CCTGAAATAATAAAAAAATATTTTTATTATTCAATAAAAACAGTGACTTAATTGGAAAAAAAATA
65 CCTGAAATAATAAAAAAAT-TATTT-TTATTCAATAAAAACAATGACTTAATTGGAAAAAAAATA
* *
962695 TATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTTTTTGGGTCA
128 TATAGAGGGGTATTATTGTAATTATTCCAAAATATATAAGGTAAAATTATATATTTTTCGGGTCA
*
962760 GGTATTTTTCACCCTAAACCCGAACCTGACCCGACCCGAATATCACACTT-AAAAAACCGACC
193 GATATTTTTCACCCTAAACCCGAACCTGACCCGACCCGAATATCACACTTAAAAAAACCGACC
*
962822 CGACCCGATCAAAATAAAGTTTCACCCAACCCGACCCGAATATATGAATTAGAAATCCGAACTGA
1 CGACCCGACCAAAATAAAGTTTCACCC-ACCCGACCCGAATATATGAATTAGAAA-CC---C-GA
* *
962887 CCCAACCCGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATT-GAAAGAAA
60 CCCGACCTGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGGAAA-AAA
*
962951 TTATATATAGAGGGGTATTATTGTAATTATTCCAAAATATATAAGGTAAAATTATATATATTTTC
124 -AATATATAGAGGGGTATTATTGTAATTATTCCAAAATATATAAGGTAAAATTATATAT-TTTTC
* * *
963016 GGGTTAGATATTTTTCACCCTAAACCCGAA-TTCGACCCGACCCGAATATCACACTTAAAAAAAT
187 GGGTCAGATATTTTTCACCCTAAACCCGAACCT-GACCCGACCCGAATATCACACTTAAAAAAAC
963080 CGACC
251 CGACC
* * *
963085 CGACCTGACCAAAATAAAATTT----CACCTGACCCGAATATATGAATTAGAAACCCGACCCGAC
1 CGACCCGACCAAAATAAAGTTTCACCCACCCGACCCGAATATATGAATTAGAAACCCGACCCGAC
* *
963146 CTGAAATAATAAAAAAAATATTTTTATTTAATAAA
66 CTGAAATAATAAAAAAATTATTTTTATTCAATAAA
963181 TGAATAAGTT
Statistics
Matches: 328, Mismatches: 21, Indels: 24
0.88 0.06 0.06
Matches are distributed among these distances:
253 39 0.12
254 1 0.00
257 55 0.17
258 28 0.09
259 5 0.02
260 29 0.09
261 62 0.19
262 79 0.24
263 30 0.09
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.27
Consensus pattern (255 bp):
CGACCCGACCAAAATAAAGTTTCACCCACCCGACCCGAATATATGAATTAGAAACCCGACCCGAC
CTGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGGAAAAAAAATATAT
AGAGGGGTATTATTGTAATTATTCCAAAATATATAAGGTAAAATTATATATTTTTCGGGTCAGAT
ATTTTTCACCCTAAACCCGAACCTGACCCGACCCGAATATCACACTTAAAAAAACCGACC
Found at i:963844 original size:38 final size:37
Alignment explanation
Indices: 963801--963902 Score: 132
Period size: 38 Copynumber: 2.7 Consensus size: 37
963791 TTATATTTTC
*
963801 AATTTTGTAAAAAACAATATATTAATTTTATGAATTTG
1 AATTTTGTAAAAAA-AATATATAAATTTTATGAATTTG
* *
963839 AATTTTTTTAAAGAAAATATATAAATTTTATGAATTTG
1 AA-TTTTGTAAAAAAAATATATAAATTTTATGAATTTG
* *
963877 AATTTTTTTAAAGAAAATATATAAAT
1 AA-TTTTGTAAAAAAAATATATAAAT
963903 ATTTTCCAAC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
38 50 0.83
39 10 0.17
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.45
Consensus pattern (37 bp):
AATTTTGTAAAAAAAATATATAAATTTTATGAATTTG
Found at i:967084 original size:17 final size:17
Alignment explanation
Indices: 967059--967108 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
967049 TTGTTCAAGG
*
967059 ATAACTTAAACAAATTA
1 ATAATTTAAACAAATTA
**
967076 ATAATTTAAAGTTAATTA
1 ATAATTTAAA-CAAATTA
*
967094 ACAATTTAAACAAAT
1 ATAATTTAAACAAAT
967109 AAAAAAAACT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (17 bp):
ATAATTTAAACAAATTA
Found at i:967207 original size:30 final size:29
Alignment explanation
Indices: 967152--967207 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
967142 TTTTAAAAAT
967152 AAAACGGAGTTTGATTAACTAAAAAAAGG
1 AAAACGGAGTTTGATTAACTAAAAAAAGG
* * *
967181 AAAATGGAGTTTTATTAACTTAAAAAA
1 AAAACGGAGTTTGATTAACTAAAAAAA
967208 TTACAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.52, C:0.05, G:0.16, T:0.27
Consensus pattern (29 bp):
AAAACGGAGTTTGATTAACTAAAAAAAGG
Found at i:967333 original size:3 final size:3
Alignment explanation
Indices: 967325--967380 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
967315 TCATCACCCT
* * *
967325 CAC CAC CAC CAC CAC CAC CAC CAC TAC CAC CAT CAC CAC CAC TACC
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA-C
*
967371 CAC CAT CAC C
1 CAC CAC CAC C
967381 CTTATCTACA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
3 42 0.95
4 2 0.05
ACGTcount: A:0.32, C:0.61, G:0.00, T:0.07
Consensus pattern (3 bp):
CAC
Found at i:967608 original size:29 final size:29
Alignment explanation
Indices: 967563--967618 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
967553 AAAATTTTGG
*
967563 TTAGTGACCAAAATATAAATTTTGAAAGT
1 TTAGTGACCAAAATATAAAGTTTGAAAGT
* *
967592 TTAGTGACTAAAGTATAAAGTTTGAAA
1 TTAGTGACCAAAATATAAAGTTTGAAA
967619 AAGTACATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (29 bp):
TTAGTGACCAAAATATAAAGTTTGAAAGT
Found at i:968541 original size:193 final size:193
Alignment explanation
Indices: 968200--968564 Score: 642
Period size: 193 Copynumber: 1.9 Consensus size: 193
968190 AAGTGGGTAT
* * *
968200 ATTAATGCAGAATAATATTTCTTTCAAAGTAGTGCAAACTGCAATAACATGAAATAAAATTTAGA
1 ATTAATACAAAATAATATTTCTTTCAAAGTAGTGCAAACTGCAAGAACATGAAATAAAATTTAGA
*
968265 ATGTGGTAAACTATGCATGTTATGATACTCTTATGATATGTGTTATCTTAGAATGTTTGAAATGA
66 ATGTGGTAAACTATGCATGTTATGATACTCATATGATATGTGTTATCTTAGAATGTTTGAAATGA
*
968330 GTTAATGTTATCACATTGGCATGATAAATTATGATATTTATTGAAAGAAATATTATTCTGTAG
131 GTCAATGTTATCACATTGGCATGATAAATTATGATATTTATTGAAAGAAATATTATTCTGTAG
* * *
968393 ATTAATACAAAATAATATTTCTTTTAAAGTAGTGCAAATTGCCAGAACATGAAATAAAATTTAGA
1 ATTAATACAAAATAATATTTCTTTCAAAGTAGTGCAAACTGCAAGAACATGAAATAAAATTTAGA
968458 ATGTGGTAAACTATGCATGTTATGATACTCATATGATATGTGTTATCTTAGAATGTTTGAAATGA
66 ATGTGGTAAACTATGCATGTTATGATACTCATATGATATGTGTTATCTTAGAATGTTTGAAATGA
968523 GTCAATGTTA-CTACATTGGCATGATAAATTATGATATTTATT
131 GTCAATGTTATC-ACATTGGCATGATAAATTATGATATTTATT
968565 ATACAAGGAA
Statistics
Matches: 163, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
192 1 0.01
193 162 0.99
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (193 bp):
ATTAATACAAAATAATATTTCTTTCAAAGTAGTGCAAACTGCAAGAACATGAAATAAAATTTAGA
ATGTGGTAAACTATGCATGTTATGATACTCATATGATATGTGTTATCTTAGAATGTTTGAAATGA
GTCAATGTTATCACATTGGCATGATAAATTATGATATTTATTGAAAGAAATATTATTCTGTAG
Found at i:969045 original size:19 final size:19
Alignment explanation
Indices: 969021--969083 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
969011 TATGCATTGG
969021 GCTATGAACT-TGAAAATAA
1 GCTATGAA-TATGAAAATAA
*
969040 GCTATGAATATGAAATTAA
1 GCTATGAATATGAAAATAA
* *
969059 GTTATGAATCTG-AAATAA
1 GCTATGAATATGAAAATAA
*
969077 GTTATGA
1 GCTATGA
969084 GTAAAAAACT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
18 13 0.33
19 26 0.67
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.32
Consensus pattern (19 bp):
GCTATGAATATGAAAATAA
Found at i:969075 original size:37 final size:37
Alignment explanation
Indices: 969034--969108 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
969024 ATGAACTTGA
** *
969034 AAATAAGCTATGAATATGAAATTAAGTTATGAATCTG
1 AAATAAGCTATGAATAAAAAACTAAGTTATGAATCTG
* * *
969071 AAATAAGTTATGAGTAAAAAACTAAGTTCTGAATCTG
1 AAATAAGCTATGAATAAAAAACTAAGTTATGAATCTG
969108 A
1 A
969109 TAATGAGTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.31
Consensus pattern (37 bp):
AAATAAGCTATGAATAAAAAACTAAGTTATGAATCTG
Found at i:969079 original size:18 final size:18
Alignment explanation
Indices: 969034--969083 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
969024 ATGAACTTGA
*
969034 AAATAAGCTATGAATATG
1 AAATAAGTTATGAATATG
*
969052 AAATTAAGTTATGAATCTG
1 AAA-TAAGTTATGAATATG
969071 AAATAAGTTATGA
1 AAATAAGTTATGA
969084 GTAAAAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 13 0.45
19 16 0.55
ACGTcount: A:0.48, C:0.04, G:0.16, T:0.32
Consensus pattern (18 bp):
AAATAAGTTATGAATATG
Found at i:969239 original size:18 final size:18
Alignment explanation
Indices: 969216--969280 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
969206 TGTAAAAGAA
969216 TATGATATGATTATTATG
1 TATGATATGATTATTATG
* *
969234 TATGATATTGTTTATTGTGG
1 TATGATA-TGATTATTAT-G
* *
969254 ATTTGATATGACTATTATG
1 -TATGATATGATTATTATG
969273 TATGATAT
1 TATGATAT
969281 TGTTTATCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
18 14 0.38
19 9 0.24
20 8 0.22
21 6 0.16
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.51
Consensus pattern (18 bp):
TATGATATGATTATTATG
Done.