Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000580.1 Hibiscus syriacus cultivar Beakdansim tig00001132_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: 209095
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
File 1 of 2
Found at i:25444 original size:20 final size:21
Alignment explanation
Indices: 25419--25470 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
25409 TTTTCCCAAT
*
25419 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
25439 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
25460 TCGCAATGCGA
1 TCGCAATGCGA
25471 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:25484 original size:20 final size:20
Alignment explanation
Indices: 25459--25572 Score: 95
Period size: 20 Copynumber: 5.7 Consensus size: 20
25449 AATTGGGAAA
*
25459 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
** *
25479 ATCGCAATTCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
25499 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
25520 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
25540 TTCACAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
25560 TTCGCAACGCGAT
1 ATCGCAACGCGAT
25573 TTACATAGCG
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
19 2 0.03
20 60 0.78
21 13 0.17
22 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:25565 original size:61 final size:61
Alignment explanation
Indices: 25456--25572 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
25446 GCGAATTGGG
* * * ** * *
25456 AAAATCGCAATGCGATACTGACTATCGCAATTCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCACAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
25517 AAAATCGCAACGAGATACTGACTTTCACAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCACAACGCGATACTGACTATCGCAACGCGAT
25573 TTACATAGCG
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 46 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCACAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:26160 original size:19 final size:19
Alignment explanation
Indices: 26124--26165 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
26114 ACGAGAGAAT
*
26124 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
* *
26143 CGCAACGCGAAACCAAAAT
1 CGCAACGCGAAACAAAAAA
26162 CGCA
1 CGCA
26166 TTGCGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.29, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:26183 original size:19 final size:19
Alignment explanation
Indices: 26161--26200 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
26151 GAAACCAAAA
26161 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
26180 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
26199 TC
1 TC
26201 AACCAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.12, C:0.23, G:0.17, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:28363 original size:42 final size:42
Alignment explanation
Indices: 28287--28489 Score: 176
Period size: 42 Copynumber: 4.8 Consensus size: 42
28277 GACTCGCCTG
* * * * * *
28287 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCACTCCCACCGTTCAAGAGGCCACTA
* *
28329 TCATTCCTCGAGAGTCCTCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCACTCCCACCGTTCAAGAGGCCACTA
* * * * * * * * *
28371 TCGTCCCTCAAGAGTCCAATCCTATCATTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCACTCCCACCGTTCAAGAGGCCACTA
* *
28413 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCACTCCCACCGTTCAAGAGGCCACTA
* * *
28455 TCA-TCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCACTCCCACCGTTCAAGAG
28490 CCCGATTCAC
Statistics
Matches: 126, Mismatches: 33, Indels: 4
0.77 0.20 0.02
Matches are distributed among these distances:
41 4 0.03
42 118 0.94
43 4 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCACTCCCACCGTTCAAGAGGCCACTA
Found at i:28447 original size:21 final size:21
Alignment explanation
Indices: 28423--28489 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
28413 TCATTCCTCG
28423 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
28444 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
28465 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
28486 AGAG
1 AGAG
28490 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:28468 original size:84 final size:84
Alignment explanation
Indices: 28284--28459 Score: 316
Period size: 84 Copynumber: 2.1 Consensus size: 84
28274 CCCGACTCGC
* * *
28284 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCTCT
1 CTGTCATCCCTCAAGAGTCCAATCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
28349 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
*
28368 CTGTCGTCCCTCAAGAGTCCAATCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCAATCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
28433 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
28452 CTGTCATC
1 CTGTCATC
28460 GTTGAAGAGG
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 87 1.00
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.24
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCAATCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:28489 original size:84 final size:84
Alignment explanation
Indices: 28284--28489 Score: 270
Period size: 84 Copynumber: 2.5 Consensus size: 84
28274 CCCGACTCGC
* * * * * *
28284 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCTCT
1 CTGTCATCCCTCAAGAGTCCAATCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
28349 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
* * * *
28368 CTGTCGTCCCTCAAGAGTCCAATCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCAATCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
28433 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
** * *
28452 CTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CTGTCATCCCTCAAGA-GTCCAATCCCACCATTCAAGAG
28490 CCCGATTCAC
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
84 105 0.96
85 4 0.04
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCAATCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:29991 original size:19 final size:19
Alignment explanation
Indices: 29967--30025 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
29957 AAAAAGTACT
29967 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
29986 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
30000 ATAGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
30019 ATCGCAA
1 ATCGCAA
30026 CAAGAGAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 9 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 16 0.52
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:30012 original size:33 final size:33
Alignment explanation
Indices: 29970--30056 Score: 129
Period size: 33 Copynumber: 2.6 Consensus size: 33
29960 AAGTACTATC
*
29970 GCAATGCGAAATGAAAATCGCAACGAGAGAATA
1 GCAATGCGAAATGAAAATCGCAACAAGAGAATA
*
30003 GCAATGCGAAATGAAAATCGCAACAAGAGAATC
1 GCAATGCGAAATGAAAATCGCAACAAGAGAATA
* * *
30036 GCAACGCGAAATTAAATTCGC
1 GCAATGCGAAATGAAAATCGC
30057 GTTGCGATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
GCAATGCGAAATGAAAATCGCAACAAGAGAATA
Found at i:30074 original size:19 final size:19
Alignment explanation
Indices: 30052--30202 Score: 71
Period size: 19 Copynumber: 8.7 Consensus size: 19
30042 CGAAATTAAA
30052 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
30071 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
30086 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* * *
30104 TTCACATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
30118 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
30137 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
30152 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
30170 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
30189 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
30203 AGACATTAAG
Statistics
Matches: 94, Mismatches: 22, Indels: 31
0.64 0.15 0.21
Matches are distributed among these distances:
14 27 0.29
16 6 0.06
17 6 0.06
19 45 0.48
20 10 0.11
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:30098 original size:33 final size:32
Alignment explanation
Indices: 30056--30182 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
30046 ATTAAATTCG
30056 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* **
30089 CGTTGCGATTTTCATTTCACATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
30122 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
30155 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
30183 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:30129 original size:66 final size:66
Alignment explanation
Indices: 30049--30181 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
30039 ACGCGAAATT
*
30049 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCACATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCACATTGC
30114 G
66 G
* *
30115 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCACATTGC
30180 G
66 G
30181 A
1 A
30182 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCACATTGC
G
Found at i:31694 original size:24 final size:24
Alignment explanation
Indices: 31660--31713 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
31650 CTGAAACATC
*
31660 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
31684 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
31708 ATCAAA
1 ATCAAA
31714 TTTTGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:32488 original size:20 final size:20
Alignment explanation
Indices: 32460--32508 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
32450 TATTATCTCG
32460 TTGCGAAAGTCAGAATCGCA
1 TTGCGAAAGTCAGAATCGCA
* *
32480 TTGCAAAAGTCAGAATCGCG
1 TTGCGAAAGTCAGAATCGCA
32500 TTGCGAAAG
1 TTGCGAAAG
32509 GCAATCATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (20 bp):
TTGCGAAAGTCAGAATCGCA
Found at i:32759 original size:19 final size:20
Alignment explanation
Indices: 32721--32770 Score: 93
Period size: 19 Copynumber: 2.5 Consensus size: 20
32711 ATTCATTTGA
32721 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
32741 CTATCGCAACGCG-AAATGG
1 CTATCGCAACGCGAAAATGG
32760 CTATCGCAACG
1 CTATCGCAACG
32771 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.32, C:0.28, G:0.24, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:32858 original size:20 final size:20
Alignment explanation
Indices: 32833--32871 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32823 CGATTCTCTC
32833 GTTGCGATAATCAGTTTTGT
1 GTTGCGATAATCAGTTTTGT
* *
32853 GTTGCGATAGTCTGTTTTG
1 GTTGCGATAATCAGTTTTG
32872 CCTTCAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.10, G:0.28, T:0.46
Consensus pattern (20 bp):
GTTGCGATAATCAGTTTTGT
Found at i:32973 original size:14 final size:14
Alignment explanation
Indices: 32954--32990 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
32944 CATCAATTAA
32954 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
32968 ACAAATCATCTTTT
1 ACAAATCAACATTT
32982 ACAAATCAA
1 ACAAATCAA
32991 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:34883 original size:20 final size:20
Alignment explanation
Indices: 34841--34906 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
34831 TAGTTTACTT
* * **
34841 TCGCAACACGAAACTTAAAA
1 TCGCAACACGAAAATGACTA
*
34861 TCGGAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* *
34881 TCGCAACGCGAAAATGGCTA
1 TCGCAACACGAAAATGACTA
34901 TCGCAA
1 TCGCAA
34907 TGCGAAATGA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:34911 original size:20 final size:20
Alignment explanation
Indices: 34869--34927 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
34859 AATCGGAACA
34869 CGAAAATGACTATCGCAACG
1 CGAAAATGACTATCGCAACG
* *
34889 CGAAAATGGCTATCGCAATG
1 CGAAAATGACTATCGCAACG
**
34909 CG-AAATGAAAATCGCAACG
1 CGAAAATGACTATCGCAACG
34928 ACAAAATCGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 13 0.39
20 20 0.61
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (20 bp):
CGAAAATGACTATCGCAACG
Found at i:34926 original size:39 final size:33
Alignment explanation
Indices: 34900--34964 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
34890 GAAAATGGCT
34900 ATCGCAATGCGAAATGAAAATCGCAA--CGACAAA
1 ATCGCAATGCGAAATG-AAATCGCAACGCGA-AAA
34933 ATCGCAATGCGAAATGAAATCGCAACGCGAAA
1 ATCGCAATGCGAAATGAAATCGCAACGCGAAA
34965 CACAAATCGC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 9 0.30
33 18 0.60
34 3 0.10
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAATCGCAACGCGAAAA
Found at i:34981 original size:19 final size:18
Alignment explanation
Indices: 34931--34981 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
34921 CGCAACGACA
**
34931 AAATCGCAATGCGAAATG
1 AAATCGCAATGCGAAAAC
*
34949 AAATCGCAACGCGAAACAC
1 AAATCGCAATGCGAAA-AC
*
34968 AAATCGCATTGCGA
1 AAATCGCAATGCGA
34982 TTTTCATTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.43, C:0.24, G:0.20, T:0.14
Consensus pattern (18 bp):
AAATCGCAATGCGAAAAC
Found at i:35015 original size:14 final size:14
Alignment explanation
Indices: 34993--35047 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
34983 TTTCATTTCA
*
34993 CGTTACGATTTTGT
1 CGTTGCGATTTTGT
*
35007 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
35023 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
35039 CGTTGCGAT
1 CGTTGCGAT
35048 AGCCATTTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 17 0.50
16 8 0.24
18 9 0.26
ACGTcount: A:0.13, C:0.18, G:0.24, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:35023 original size:32 final size:32
Alignment explanation
Indices: 34976--35047 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
34966 ACAAATCGCA
*
34976 TTGCGATTTTCATTTCACGTTACGATTTTGTCG
1 TTGCGA-TTTCATTTCACATTACGATTTTGTCG
* *
35009 TTGCGATTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTCATTTCACATTACGATTTTGTCG
35041 TTGCGAT
1 TTGCGAT
35048 AGCCATTTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
32 30 0.83
33 6 0.17
ACGTcount: A:0.14, C:0.18, G:0.21, T:0.47
Consensus pattern (32 bp):
TTGCGATTTCATTTCACATTACGATTTTGTCG
Found at i:35075 original size:20 final size:20
Alignment explanation
Indices: 35039--35092 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
35029 GCGATTTTGT
**
35039 CGTTGCGATAGCCATTTCCG
1 CGTTGCGATAGTAATTTCCG
*
35059 CGTTGCGATAGTAATTTTCG
1 CGTTGCGATAGTAATTTCCG
* *
35079 TGTTGCGAAAGTAA
1 CGTTGCGATAGTAA
35093 ACTATTCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTAATTTCCG
Found at i:35594 original size:18 final size:18
Alignment explanation
Indices: 35568--35612 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
35558 GTCGATCAGA
*
35568 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGGGAGG
*
35586 TGATAGCTCTGGGGGAGG
1 TGATGGCTCTGGGGGAGG
35604 TGATGGCTC
1 TGATGGCTC
35613 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.13, G:0.47, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGGGAGG
Found at i:36956 original size:20 final size:20
Alignment explanation
Indices: 36931--36974 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
36921 AATAGTTTCT
36931 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
** *
36951 GAAAATGACTATCGCAACGC
1 GAAAATGAAAATCGCAACAC
36971 GAAA
1 GAAA
36975 CTAAATTCGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.50, C:0.20, G:0.18, T:0.11
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:37002 original size:19 final size:19
Alignment explanation
Indices: 36980--37031 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
36970 CGAAACTAAA
36980 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
36999 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
37018 TTCGCGTTGCGATT
1 TTCGCGTTGCGATT
37032 CTCGGTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.46
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:37278 original size:22 final size:23
Alignment explanation
Indices: 37235--37279 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
37225 GATGGAGATA
*
37235 GACGGATTTCGCCGGGAGATGGG
1 GACGGATTTCGCCGAGAGATGGG
*
37258 GACGGATTTCGTC-AGAGATGGG
1 GACGGATTTCGCCGAGAGATGGG
37280 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.20, C:0.16, G:0.44, T:0.20
Consensus pattern (23 bp):
GACGGATTTCGCCGAGAGATGGG
Found at i:37493 original size:20 final size:20
Alignment explanation
Indices: 37468--37519 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
37458 ATTATGTATT
37468 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
* *
37488 ATCGCGTTGCAAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
*
37508 ATCTCGTTGCGA
1 ATCGCGTTGCGA
37520 TTTTGTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:37553 original size:20 final size:20
Alignment explanation
Indices: 37528--37581 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
37518 GATTTTGTAT
37528 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
37548 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
37568 TATCGCATTGCGAT
1 TATCGCATTGCGAT
37582 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:37553 original size:61 final size:61
Alignment explanation
Indices: 37447--37584 Score: 186
Period size: 61 Copynumber: 2.3 Consensus size: 61
37437 CGCTTTGAAA
* * * *
37447 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCAAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCAAAAGTCAGT
* * * * * *
37508 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCAAAAGTCAGT
37569 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
37585 CCCAATTCGC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCAAAAGTCAGT
Found at i:37600 original size:61 final size:61
Alignment explanation
Indices: 37447--37602 Score: 152
Period size: 61 Copynumber: 2.6 Consensus size: 61
37437 CGCTTTGAAA
* ** * * * *
37447 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCAAAAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCAAAAGTCAGT
* * ** * * * * *
37508 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCAAAAGTCAGT
37569 ATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
37603 TTACTTATTC
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
61 76 0.97
62 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (61 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCAAAAGTCAGT
Found at i:37692 original size:21 final size:21
Alignment explanation
Indices: 37652--37692 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
37642 ATTGTAGACC
**
37652 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
37673 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
37693 GCGAATTTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:41077 original size:21 final size:20
Alignment explanation
Indices: 41048--41096 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
41038 TATCAAACGG
*
41048 TTATAAAATAATCATTAAATT
1 TTATCAAATAATCATTAAA-T
* *
41069 TTATCAAATAGTTATTAAAT
1 TTATCAAATAATCATTAAAT
41089 TTATCAAA
1 TTATCAAA
41097 GATCATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (20 bp):
TTATCAAATAATCATTAAAT
Found at i:41083 original size:32 final size:31
Alignment explanation
Indices: 40986--41088 Score: 120
Period size: 32 Copynumber: 3.2 Consensus size: 31
40976 CTTGAAGTAA
40986 ATAAAATAAAT-ATTAAATTTATCAAATTA-TT
1 ATAAAAT-AATCATTAAATTTATCAAA-TAGTT
**
41017 ATAAAAATAATCATTAAAATTTATCAAACGGTT
1 AT-AAAATAATCATT-AAATTTATCAAATAGTT
41050 ATAAAATAATCATTAAATTTTATCAAATAGTT
1 ATAAAATAATCATTAAA-TTTATCAAATAGTT
*
41082 ATTAAAT
1 ATAAAAT
41089 TTATCAAAGA
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
31 8 0.13
32 38 0.61
33 16 0.26
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (31 bp):
ATAAAATAATCATTAAATTTATCAAATAGTT
Found at i:42667 original size:90 final size:90
Alignment explanation
Indices: 42554--42727 Score: 217
Period size: 90 Copynumber: 1.9 Consensus size: 90
42544 AAATCAAGGA
* ** * * *
42554 AACTAAAGCTAAACACATGCAAAATAGATAT-GACTAACTTTGGCCAGAATAAACCTTCCTTG-T
1 AACTAAAGCTAAAAACAAACAAAACAAATATAG-CTAACTTTGGCCAGAATAAACCTTCCTCGCT
*
42617 TCAGTATACTGTGTTGATCAAGAAGTT
65 T-AGTATACTGGGTTGATCAAGAAGTT
* **
42644 AACTAAAGCTAAAAACAAACAAAACAAATATAGCTAACTTTGTCCAGAATGTACCTTCCTCGCTT
1 AACTAAAGCTAAAAACAAACAAAACAAATATAGCTAACTTTGGCCAGAATAAACCTTCCTCGCTT
*
42709 AGTATATTGGGTTGATCAA
66 AGTATACTGGGTTGATCAA
42728 CCAAAAGTTG
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
90 68 0.96
91 3 0.04
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.28
Consensus pattern (90 bp):
AACTAAAGCTAAAAACAAACAAAACAAATATAGCTAACTTTGGCCAGAATAAACCTTCCTCGCTT
AGTATACTGGGTTGATCAAGAAGTT
Found at i:45012 original size:19 final size:19
Alignment explanation
Indices: 44988--45024 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
44978 AACTAAATCG
44988 CAATGCGATCGATAATTCA
1 CAATGCGATCGATAATTCA
45007 CAATGCGATCGATAATTC
1 CAATGCGATCGATAATTC
45025 GCAACGTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (19 bp):
CAATGCGATCGATAATTCA
Found at i:45035 original size:19 final size:19
Alignment explanation
Indices: 44992--45035 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
44982 AAATCGCAAT
*
44992 GCGATCGATAATTCACAAT
1 GCGATCGATAATTCACAAC
*
45011 GCGATCGATAATTCGCAAC
1 GCGATCGATAATTCACAAC
*
45030 GTGATC
1 GCGATC
45036 TCCGGTATCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (19 bp):
GCGATCGATAATTCACAAC
Found at i:45112 original size:21 final size:21
Alignment explanation
Indices: 45083--45135 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
45073 ATTCTGACTA
45083 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
45104 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
45125 TCGCAATGCGA
1 TCGCATTGCGA
45136 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:45167 original size:20 final size:20
Alignment explanation
Indices: 45144--45210 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
45134 GAATACGTAA
* *
45144 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGATTCTGACT
*
45164 ATCGCAACGAGATTCTGATT
1 ATCGCAACGAGATTCTGACT
45184 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
45204 ATCGCAA
1 ATCGCAA
45211 TACTGAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:46326 original size:14 final size:14
Alignment explanation
Indices: 46297--46333 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
46287 AGAAAAAGAA
46297 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
46312 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
46326 GAAGAAAA
1 GAAGAAAA
46334 TGCCATGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:48565 original size:20 final size:21
Alignment explanation
Indices: 48540--48628 Score: 114
Period size: 20 Copynumber: 4.4 Consensus size: 21
48530 CAACACGGAA
48540 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAATATGACT
*
48560 ATCGCAACACGGAA-ATGACT
1 ATCGCAACGCGGAATATGACT
*
48580 ATCACAACGCGGAAT-TGACT
1 ATCGCAACGCGGAATATGACT
* *
48600 ACCGCAACGC-GAAAATGACT
1 ATCGCAACGCGGAATATGACT
48620 ATCGCAACG
1 ATCGCAACG
48629 AGAGAATCGC
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
19 3 0.05
20 53 0.90
21 3 0.05
ACGTcount: A:0.37, C:0.27, G:0.20, T:0.16
Consensus pattern (21 bp):
ATCGCAACGCGGAATATGACT
Found at i:48657 original size:33 final size:34
Alignment explanation
Indices: 48602--48695 Score: 145
Period size: 33 Copynumber: 2.8 Consensus size: 34
48592 AATTGACTAC
* **
48602 CGCAACGCGAAAATGACTATCGCAACGAGAGAAT
1 CGCAATGCGAAAATGAAAATCGCAACGAGAGAAT
*
48636 CGCAATGCG-AAATGAAAATCGCAACGAGTGAAT
1 CGCAATGCGAAAATGAAAATCGCAACGAGAGAAT
48669 CGCAATGCGAAAATGAAAATCGCAACG
1 CGCAATGCGAAAATGAAAATCGCAACG
48696 CGAATTTAGT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 30 0.55
34 25 0.45
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.13
Consensus pattern (34 bp):
CGCAATGCGAAAATGAAAATCGCAACGAGAGAAT
Found at i:48691 original size:20 final size:19
Alignment explanation
Indices: 48633--48699 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
48623 GCAACGAGAG
48633 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
48652 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
48666 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
48686 AATCGCAACGCGAA
1 AATCGCAATGCGAA
48700 TTTAGTTTCG
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
14 8 0.21
16 5 0.13
17 2 0.05
18 3 0.08
19 10 0.26
20 11 0.28
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:48772 original size:33 final size:34
Alignment explanation
Indices: 48710--48786 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 34
48700 TTTAGTTTCG
**
48710 CGTTGCGATTTTCATTTTTGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCACATTGCGATTCACT
*
48744 CGTTACGATTTTCA-TTTCACATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCACATTGCGATTCACT
*
48777 CATTGCGATT
1 CGTTGCGATT
48787 CTCTCGTTGC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
33 25 0.66
34 13 0.34
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCACATTGCGATTCACT
Found at i:48782 original size:14 final size:14
Alignment explanation
Indices: 48763--48799 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
48753 TTTCATTTCA
48763 CATTGCGATTCACT
1 CATTGCGATTCACT
*
48777 CATTGCGATTCTCT
1 CATTGCGATTCACT
*
48791 CGTTGCGAT
1 CATTGCGAT
48800 AGTCATTTCC
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:0.16, C:0.27, G:0.19, T:0.38
Consensus pattern (14 bp):
CATTGCGATTCACT
Found at i:48944 original size:14 final size:14
Alignment explanation
Indices: 48925--48961 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
48915 CATCAATTAA
48925 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
48939 ACAAATCATCTTTT
1 ACAAATCAACATTT
48953 ACAAATCAA
1 ACAAATCAA
48962 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:50818 original size:20 final size:20
Alignment explanation
Indices: 50793--50844 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
50783 GACACTTAAA
50793 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
50813 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
50833 ATCGTAATGCGA
1 ATCGCAATGCGA
50845 TAGTCAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.21
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:50863 original size:20 final size:20
Alignment explanation
Indices: 50840--50905 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
50830 ACTATCGTAA
**
50840 TGCGATAGTCAAATTCGCAT
1 TGCGATAGTCATTTTCGCAT
50860 TGCGATAGTCATTTTCGCAT
1 TGCGATAGTCATTTTCGCAT
*
50880 TGCGATAGTCATTTTCGCGT
1 TGCGATAGTCATTTTCGCAT
50900 TGCGAT
1 TGCGAT
50906 TTTGTTGTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (20 bp):
TGCGATAGTCATTTTCGCAT
Found at i:50949 original size:14 final size:14
Alignment explanation
Indices: 50930--50966 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
50920 TTTTATTTCG
50930 CATTGCGATTCTCT
1 CATTGCGATTCTCT
50944 CATTGCGATTCTCT
1 CATTGCGATTCTCT
50958 CATTGCGAT
1 CATTGCGAT
50967 AGTCATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.16, C:0.27, G:0.16, T:0.41
Consensus pattern (14 bp):
CATTGCGATTCTCT
Found at i:50989 original size:20 final size:20
Alignment explanation
Indices: 50958--51009 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
50948 GCGATTCTCT
50958 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
* *
50978 CGTTGTGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
50998 CATTGCGATAGT
1 CATTGCGATAGT
51010 AAACTATTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.40
Consensus pattern (20 bp):
CATTGCGATAGTCATTTTCG
Found at i:52916 original size:20 final size:20
Alignment explanation
Indices: 52893--52947 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
52883 CTGAAACTTT
52893 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
*
52913 AAATCGCAATACGAAAATGA
1 AAATCGCAACACGAAAATGA
** *
52933 CTATCGCAACGCGAA
1 AAATCGCAACACGAA
52948 TTTAACTATC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.49, C:0.22, G:0.16, T:0.13
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:53003 original size:33 final size:34
Alignment explanation
Indices: 52935--53007 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
52925 GAAAATGACT
* **
52935 ATCGCAACGCGAATTTAACTATCGCAACGCAAGA
1 ATCGCAACGCGAATATAAAAATCGCAACGCAAGA
*
52969 ATCGCAACGCGAA-ATAAAAATCGCAATG-ACAGA
1 ATCGCAACGCGAATATAAAAATCGCAACGCA-AGA
53002 ATCGCA
1 ATCGCA
53008 TTGCGATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 1 0.03
33 20 0.59
34 13 0.38
ACGTcount: A:0.42, C:0.25, G:0.18, T:0.15
Consensus pattern (34 bp):
ATCGCAACGCGAATATAAAAATCGCAACGCAAGA
Found at i:53364 original size:22 final size:22
Alignment explanation
Indices: 53334--53392 Score: 100
Period size: 22 Copynumber: 2.7 Consensus size: 22
53324 TGACCGTGAA
53334 TGATTTCGTCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGAGAC
* *
53356 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGAGAC
53378 TGATTTCGTCGGAGA
1 TGATTTCGTCGGAGA
53393 GAGTGAGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.22, C:0.14, G:0.37, T:0.27
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGAGAC
Found at i:53608 original size:20 final size:20
Alignment explanation
Indices: 53574--53646 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
53564 CGATAGTCAG
* *
53574 ATTCGCGTTGTGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
53594 ATTCACATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
53614 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
53634 ATTCGCATTGCGA
1 ATTCGCATTGCGA
53647 ATTAGGAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:56188 original size:20 final size:20
Alignment explanation
Indices: 56160--56210 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
56150 CACAGTTTCA
56160 AAATACGCAACGCGAATTTGT
1 AAAT-CGCAACGCGAATTTGT
56181 AAATCGCAACGCGAATTTGT
1 AAATCGCAACGCGAATTTGT
56201 AAATCGCAAC
1 AAATCGCAAC
56211 ACAGTTTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 26 0.87
21 4 0.13
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.22
Consensus pattern (20 bp):
AAATCGCAACGCGAATTTGT
Found at i:56361 original size:20 final size:20
Alignment explanation
Indices: 56336--56383 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
56326 CGGTAATTAG
56336 CGTTGCGAATTTGAAAATCT
1 CGTTGCGAATTTGAAAATCT
56356 CGTTGCGAATTTGAAAATCT
1 CGTTGCGAATTTGAAAATCT
56376 CGTTGCGA
1 CGTTGCGA
56384 TACTACTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (20 bp):
CGTTGCGAATTTGAAAATCT
Found at i:56448 original size:57 final size:57
Alignment explanation
Indices: 56356--56498 Score: 234
Period size: 57 Copynumber: 2.5 Consensus size: 57
56346 TTGAAAATCT
* *
56356 CGTTGCGAATTTGAAAATCTCGTTGCGATACTACTGTTTACCTATATCGGTAATTAG
1 CGTTGCAAATTTGAAAATCGCGTTGCGATACTACTGTTTACCTATATCGGTAATTAG
*
56413 CGTTGCAAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAG
1 CGTTGCAAATTTGAAAATCGCGTTGCGATACTACTGTTTACCTATATCGGTAATTAG
*
56470 CGTTGCGAAA-TTGAAAATCGCTTTGCGAT
1 CGTTGC-AAATTTGAAAATCGCGTTGCGAT
56499 TTACATATTC
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
57 78 0.96
58 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (57 bp):
CGTTGCAAATTTGAAAATCGCGTTGCGATACTACTGTTTACCTATATCGGTAATTAG
Found at i:59391 original size:23 final size:23
Alignment explanation
Indices: 59360--59404 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
59350 TTTAAAATTT
59360 AAATCATTAACAGATAATTATCA
1 AAATCATTAACAGATAATTATCA
* *
59383 AAATTATTAACATATAATTATC
1 AAATCATTAACAGATAATTATC
59405 TATATAGTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.36
Consensus pattern (23 bp):
AAATCATTAACAGATAATTATCA
Found at i:59815 original size:14 final size:14
Alignment explanation
Indices: 59779--59819 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
59769 ATGGTTTATC
*
59779 ATTAT-ATAAGTAA
1 ATTATAATAATTAA
*
59792 A-TAAAATAATTAA
1 ATTATAATAATTAA
59805 ATTATAATAATTAA
1 ATTATAATAATTAA
59819 A
1 A
59820 AATATTTACT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
12 2 0.09
13 9 0.39
14 12 0.52
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
ATTATAATAATTAA
Found at i:70475 original size:20 final size:20
Alignment explanation
Indices: 70436--70474 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
70426 ATATTATAAA
* *
70436 AATATAATATTTTATATTTT
1 AATATAAAATATTATATTTT
70456 AATATAAAATATTAT-TTTT
1 AATATAAAATATTATATTTT
70475 TCGACCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AATATAAAATATTATATTTT
Found at i:72723 original size:14 final size:14
Alignment explanation
Indices: 72704--72738 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
72694 TTGTGTTCGT
72704 AATATAATATAGAG
1 AATATAATATAGAG
72718 AATATAATATAGAG
1 AATATAATATAGAG
*
72732 AAAATAA
1 AATATAA
72739 CTTCAGTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (14 bp):
AATATAATATAGAG
Found at i:72925 original size:21 final size:21
Alignment explanation
Indices: 72901--72941 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
72891 ACTATCACAT
72901 TTGCGATTTTCCAAATTCGCG
1 TTGCGATTTTCCAAATTCGCG
*
72922 TTGCGATTTTCCTAATTCGC
1 TTGCGATTTTCCAAATTCGC
72942 AATGCGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.41
Consensus pattern (21 bp):
TTGCGATTTTCCAAATTCGCG
Found at i:72947 original size:21 final size:21
Alignment explanation
Indices: 72902--72948 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
72892 CTATCACATT
**
72902 TGCGATTTTCCAAATTCGCGT
1 TGCGATTTTCCAAATTCGCAA
*
72923 TGCGATTTTCCTAATTCGCAA
1 TGCGATTTTCCAAATTCGCAA
72944 TGCGA
1 TGCGA
72949 ATACGTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.36
Consensus pattern (21 bp):
TGCGATTTTCCAAATTCGCAA
Found at i:72963 original size:20 final size:20
Alignment explanation
Indices: 72938--73030 Score: 168
Period size: 20 Copynumber: 4.7 Consensus size: 20
72928 TTTTCCTAAT
72938 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
72958 TCGCAATGCGAATACGTACA
1 TCGCAATGCGAATACGTAAA
72978 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
72998 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
73018 TCGCAACGCGAAT
1 TCGCAATGCGAAT
73031 CTGACTATCA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:73044 original size:20 final size:20
Alignment explanation
Indices: 73017--73103 Score: 129
Period size: 20 Copynumber: 4.3 Consensus size: 20
73007 GAATACGTAA
* *
73017 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGATTCTGACT
*
73037 ATCACAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
*
73057 ATCGCAAGGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
*
73077 ATCGCAACGCGATTCTGACT
1 ATCGCAACGAGATTCTGACT
73097 ATCGCAA
1 ATCGCAA
73104 TACTGAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:74024 original size:20 final size:21
Alignment explanation
Indices: 73999--74089 Score: 145
Period size: 20 Copynumber: 4.5 Consensus size: 21
73989 CAACGTGGAA
73999 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAATATGACT
*
74019 ATCGCAACACGGAA-ATGACT
1 ATCGCAACGCGGAATATGACT
74039 ATCGCAACGCGGAAT-TGACT
1 ATCGCAACGCGGAATATGACT
74059 ATCGCAACGCGGAA-ATGACT
1 ATCGCAACGCGGAATATGACT
74079 ATCGCAACGCG
1 ATCGCAACGCG
74090 AATTTAGTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
20 63 0.95
21 3 0.05
ACGTcount: A:0.34, C:0.26, G:0.23, T:0.16
Consensus pattern (21 bp):
ATCGCAACGCGGAATATGACT
Found at i:74058 original size:40 final size:39
Alignment explanation
Indices: 73999--74093 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 39
73989 CAACGTGGAA
73999 ATCGCAACGCGAATATGACTATCGCAACACGGAAATGACT
1 ATCGCAACGCGAAT-TGACTATCGCAACACGGAAATGACT
*
74039 ATCGCAACGCGGAATTGACTATCGCAACGCGGAAATGACT
1 ATCGCAACGC-GAATTGACTATCGCAACACGGAAATGACT
74079 ATCGCAACGCGAATT
1 ATCGCAACGCGAATT
74094 TAGTTTCGCG
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
39 5 0.09
40 44 0.83
41 4 0.08
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (39 bp):
ATCGCAACGCGAATTGACTATCGCAACACGGAAATGACT
Found at i:74122 original size:20 final size:19
Alignment explanation
Indices: 74097--74167 Score: 80
Period size: 20 Copynumber: 3.9 Consensus size: 19
74087 GCGAATTTAG
*
74097 TTTCGCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
74116 TTTTCGCATTGCGA--TTC-
1 -TTTCGCATTGCGATTTTCA
*
74133 TCTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
74150 TTTCGCATTGCGATTTTC
1 TTTCGCATTGCGATTTTC
74168 TCGTTGCGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
14 6 0.14
16 7 0.16
17 4 0.09
18 3 0.07
19 11 0.26
20 12 0.28
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:74159 original size:33 final size:34
Alignment explanation
Indices: 74102--74197 Score: 149
Period size: 33 Copynumber: 2.9 Consensus size: 34
74092 TTTAGTTTCG
74102 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
*
74136 CGTTGCGATTTTCA-TTTCGCATTGCGATTTTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
** *
74169 CGTTGCGATAGTCATTTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
74198 AGTCTGTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 30 0.53
34 27 0.47
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.45
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:74174 original size:14 final size:14
Alignment explanation
Indices: 74124--74177 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
74114 CATTTTCGCA
*
74124 TTGCGATTCTCTCG
1 TTGCGATTTTCTCG
74138 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
74155 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
74171 TTGCGAT
1 TTGCGAT
74178 AGTCATTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 17 0.50
16 3 0.09
17 3 0.09
19 11 0.32
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.46
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:74187 original size:20 final size:20
Alignment explanation
Indices: 74162--74201 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
74152 TCGCATTGCG
*
74162 ATTTTCTCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTC
74182 ATTTTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTC
74202 TGTTTTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.20, G:0.23, T:0.42
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGTC
Found at i:74322 original size:14 final size:14
Alignment explanation
Indices: 74303--74339 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
74293 CATCAATTAA
74303 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
74317 ACAAATCATCTTTT
1 ACAAATCAACATTT
74331 ACAAATCAA
1 ACAAATCAA
74340 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:78957 original size:21 final size:21
Alignment explanation
Indices: 78931--78970 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
78921 CAGAACCCCA
*
78931 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
78952 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
78971 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:78999 original size:19 final size:20
Alignment explanation
Indices: 78953--79012 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
78943 TTCCCCTGTG
78953 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TC-AA
78976 GGGGGAATCGGTTCCCTC-A
1 GGGGGAATCGGTTCCCTCAA
* *
78995 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
79013 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.22
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCTCAA
Found at i:86061 original size:20 final size:20
Alignment explanation
Indices: 85924--86054 Score: 148
Period size: 20 Copynumber: 6.8 Consensus size: 20
85914 AATAGAATCT
85924 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
* *
85944 GAAAATGACTATCCCAATGC
1 GAAAATGACTATCGCAACGC
*
85964 GAAAATGACTATCGCAATGC
1 GAAAATGACTATCGCAACGC
**
85984 GAATTTGACTATCGCAA--C
1 GAAAATGACTATCGCAACGC
*
86002 G-AGA-GA--ATCGCAATGCGC
1 GAAAATGACTATCGCAA--CGC
86020 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
86040 GAAAATGACTATCGC
1 GAAAATGACTATCGC
86055 GTTGCGATTT
Statistics
Matches: 95, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
14 7 0.07
16 2 0.02
17 1 0.01
18 4 0.04
19 2 0.02
20 72 0.76
22 7 0.07
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:86106 original size:33 final size:34
Alignment explanation
Indices: 86051--86129 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 34
86041 AAAATGACTA
* * * **
86051 TCGCGTTGCGATTTTGTTGTTGCAATTTTCA-TT
1 TCGCGTTGCGATTCTCTCGTTGCAATAGTCATTT
* *
86084 TCGCATTGCGATTCTCTCGTTGCGATAGTCATTT
1 TCGCGTTGCGATTCTCTCGTTGCAATAGTCATTT
86118 TCGCGTTGCGAT
1 TCGCGTTGCGAT
86130 AGTCATTTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
33 24 0.65
34 13 0.35
ACGTcount: A:0.13, C:0.20, G:0.23, T:0.44
Consensus pattern (34 bp):
TCGCGTTGCGATTCTCTCGTTGCAATAGTCATTT
Found at i:86126 original size:20 final size:20
Alignment explanation
Indices: 86101--86152 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
86091 GCGATTCTCT
86101 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
86121 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
86141 CATTGCGATAGT
1 CGTTGCGATAGT
86153 AAACTATTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:88477 original size:22 final size:22
Alignment explanation
Indices: 88415--88479 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
88405 TGACCGTAAA
* *
88415 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
*
88437 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
88459 TGATTTCGTCGGAGATGGGGA
1 TGATTTCGTCGGAGATGGGGA
88480 TGGATGTCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.22, C:0.14, G:0.40, T:0.25
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:88752 original size:21 final size:21
Alignment explanation
Indices: 88700--88752 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
88690 ATTTACGTAT
*
88700 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* * *
88721 TCGCGACGCGAATTTGGAAAA
1 TCGCAATGCGAATTAGGAAAA
88742 TCGCAATGCGA
1 TCGCAATGCGA
88753 TAGTCAGAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:91937 original size:2 final size:2
Alignment explanation
Indices: 91926--91983 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
91916 TAGCTAAAAG
91926 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91967 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
91984 AAAAAAAAAC
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92281 original size:126 final size:125
Alignment explanation
Indices: 92051--92298 Score: 383
Period size: 126 Copynumber: 2.0 Consensus size: 125
92041 TGTAAACACT
* * *
92051 TCCCGAATCCAACCTGACTCGCTGTCTAAATAATCGGCTAATCATGGCTTGCATCAATAGGGGTG
1 TCCCAAATCCAACCTGACTCGCTGTCCAAATAATCGGCTAATCATGGCTTGCATCAATAGGAGTG
* *
92116 CCGGTCCTGGCCTGTGAGATGCTATTGCCATAAACTGTAACCAGCCTCAACTTTGTGAGA
66 CCGGTCCTGGCCTGTGAGATCCTATTGCCATAAACTGTAACCAGCCTCAACTGTGTGAGA
*
92176 TCCCAAATCCGACCTGACTCGCTGTCCAAATGAA-CTGGCTAATCATGGCTTGCATCAATAGGAG
1 TCCCAAATCCAACCTGACTCGCTGTCCAAAT-AATC-GGCTAATCATGGCTTGCATCAATAGGAG
* *
92240 TGCCGGTCCTGGCCTGTGAGATCCTATTTG-CATAAATTGTAACCAGCTTCAACTGTGTG
64 TGCCGGTCCTGGCCTGTGAGATCCTA-TTGCCATAAACTGTAACCAGCCTCAACTGTGTG
92299 CTGTTAAGCC
Statistics
Matches: 112, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
125 29 0.26
126 80 0.71
127 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (125 bp):
TCCCAAATCCAACCTGACTCGCTGTCCAAATAATCGGCTAATCATGGCTTGCATCAATAGGAGTG
CCGGTCCTGGCCTGTGAGATCCTATTGCCATAAACTGTAACCAGCCTCAACTGTGTGAGA
Found at i:110193 original size:2 final size:2
Alignment explanation
Indices: 110186--110246 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
110176 CTAACCACCG
110186 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
110228 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
110247 GCGACTTCAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:115172 original size:51 final size:51
Alignment explanation
Indices: 115061--115621 Score: 678
Period size: 51 Copynumber: 10.8 Consensus size: 51
115051 AACGTGTCTT
* * * * * *
115061 CTCCCTATTCATTCAGGGAGTATAAGACTCAAACAATCTTCAACAAACGTGTCTG
1 CTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCCG
* * * * ** *
115116 CTCCCTATTCGTTCAGGGAGTATAAGACTCGATCTTCAATAAACATGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
* **
115167 CTCCCTATTCCTTCAGAGAG--CAGGACTCAAACAATCTTCAACGAACGGGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCCG
* * * ** * **
115220 CTCTCTATT-CTATCATAGAGTACATAACTCGAACAATCTTCAACAAAACGGGTCCG
1 CTCCCTATTCCT-TCAGAGAGTATAGGACT----CAATCTTCAAC-GAACTTGTCCG
*
115276 CTCTCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
115327 CTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
* * *
115378 CTCTCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACAAACTTGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
*
115429 CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
* * *
115480 CTCCCTATTCATTCAGAGAGTATAAGACTCAATCTTCAATGAACTTGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
*
115531 CTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAATGAACTTGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
115582 CTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAAC
1 CTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAAC
115622 AAACGAATTT
Statistics
Matches: 459, Mismatches: 38, Indels: 22
0.88 0.07 0.04
Matches are distributed among these distances:
49 5 0.01
51 328 0.71
52 13 0.03
53 32 0.07
55 47 0.10
56 32 0.07
57 2 0.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (51 bp):
CTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
Found at i:116787 original size:15 final size:14
Alignment explanation
Indices: 116756--116860 Score: 85
Period size: 15 Copynumber: 7.5 Consensus size: 14
116746 TGAACCCTCC
* *
116756 TTTTATTTCTCTTT
1 TTTTATTTTTCTCT
116770 TTTTCATTTTTCTCT
1 TTTT-ATTTTTCTCT
116785 TTTTATTTTTCT-T
1 TTTTATTTTTCTCT
*
116798 TCTTT-TTTTTC-AT
1 T-TTTATTTTTCTCT
116811 TTTTATTTTT-TCT
1 TTTTATTTTTCTCT
*
116824 CATTT-TTTTTCTTCT
1 -TTTTATTTTTC-TCT
*
116839 TTTTCTTTTTCTCAT
1 TTTTATTTTTCTC-T
116854 TTTTATT
1 TTTTATT
116861 ATTTTATTTC
Statistics
Matches: 75, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
12 3 0.04
13 21 0.28
14 23 0.31
15 28 0.37
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTATTTTTCTCT
Found at i:116807 original size:35 final size:33
Alignment explanation
Indices: 116756--116865 Score: 123
Period size: 34 Copynumber: 3.2 Consensus size: 33
116746 TGAACCCTCC
*
116756 TTTTATTTCTCTTTTTTTCATTTTTCTCTTTTTA
1 TTTTTTTTCT-TTTTTTTCATTTTTCTCTTTTTA
* *
116790 TTTTTCTTTCTTTTTTTTCATTTTTATTTTTTCTCA
1 TTTTT-TTTCTTTTTTTTCATTTTTCTCTTTT-T-A
*
116826 TTTTTTTTCTTCTTTTTC-TTTTTCTCATTTTTA
1 TTTTTTTTCTTTTTTTTCATTTTTCTC-TTTTTA
*
116859 TTATTTT
1 TTTTTTT
116866 ATTTCTTCTT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
33 7 0.11
34 30 0.46
35 22 0.34
36 6 0.09
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (33 bp):
TTTTTTTTCTTTTTTTTCATTTTTCTCTTTTTA
Found at i:116819 original size:16 final size:16
Alignment explanation
Indices: 116761--116857 Score: 71
Period size: 17 Copynumber: 6.2 Consensus size: 16
116751 CCTCCTTTTA
116761 TTTCTCTTTTTTTCATT
1 TTTCT-TTTTTTTCATT
*
116778 TTTCTCTTTTTATT-TTT
1 TTTCT-TTTTT-TTCATT
116795 CTTTCTTTTTTTTCATT
1 -TTTCTTTTTTTTCATT
* *
116812 TTTATTTTTTCTCA--
1 TTTCTTTTTTTTCATT
*
116826 TTT-TTTTTCTTC-TT
1 TTTCTTTTTTTTCATT
*
116840 TTTC-TTTTTCTCATT
1 TTTCTTTTTTTTCATT
116855 TTT
1 TTT
116858 ATTATTTTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
13 7 0.11
14 12 0.18
15 5 0.08
16 14 0.22
17 20 0.31
18 7 0.11
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTCTTTTTTTTCATT
Found at i:116848 original size:43 final size:41
Alignment explanation
Indices: 116776--116865 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 41
116766 CTTTTTTTCA
*
116776 TTTTTCTCTTTTTATTTTTCTTTCTTTTTTTTCATTTTTAT
1 TTTTTCTCTTTTTATTTTTCTTTCTTTTTTCTCATTTTTAT
*
116817 TTTTTCTCATTTTT-TTTCTTCTTTTTCTTTTTCTCATTTTTAT
1 TTTTTCTC-TTTTTATTT-TTCTTTCT-TTTTTCTCATTTTTAT
116860 TATTTT
1 T-TTTT
116866 ATTTCTTCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
41 11 0.26
42 12 0.28
43 16 0.37
44 4 0.09
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (41 bp):
TTTTTCTCTTTTTATTTTTCTTTCTTTTTTCTCATTTTTAT
Found at i:116851 original size:27 final size:27
Alignment explanation
Indices: 116776--116857 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
116766 CTTTTTTTCA
116776 TTTTTC-TCTTTTTATTTTTCT--TTCT
1 TTTTTCTTCTTTTTATTTTTCTCATT-T
116801 TTTTT-TTCATTTTTATTTTTTCTCATTT
1 TTTTTCTTC-TTTTTA-TTTTTCTCATTT
*
116829 TTTTTCTTCTTTTTCTTTTTCTCATTT
1 TTTTTCTTCTTTTTATTTTTCTCATTT
116856 TT
1 TT
116858 ATTATTTTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
25 7 0.14
26 6 0.12
27 21 0.42
28 11 0.22
29 5 0.10
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (27 bp):
TTTTTCTTCTTTTTATTTTTCTCATTT
Found at i:116856 original size:14 final size:13
Alignment explanation
Indices: 116776--116857 Score: 55
Period size: 12 Copynumber: 6.1 Consensus size: 13
116766 CTTTTTTTCA
116776 TTTTTCTC-TTTT
1 TTTTTCTCATTTT
116788 TATTTT-TC-TTTCT
1 T-TTTTCTCATTT-T
*
116801 TTTTTTTCATTTTTAT
1 TTTTTCTCA--TTT-T
116817 TTTTTCTCA-TTT
1 TTTTTCTCATTTT
*
116829 TTTTTCTTCTTTTT
1 TTTTTC-TCATTTT
116843 CTTTTTCTCATTTT
1 -TTTTTCTCATTTT
116857 T
1 T
116858 ATTATTTTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
12 17 0.30
13 13 0.23
14 9 0.16
15 6 0.11
16 12 0.21
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTCTCATTTT
Found at i:116866 original size:51 final size:52
Alignment explanation
Indices: 116776--116874 Score: 123
Period size: 53 Copynumber: 1.9 Consensus size: 52
116766 CTTTTTTTCA
* *
116776 TTTTTCTCTTTTTATTTTTCTTTCTTTTTTTTCATTTTTATTTTTTCTCATTT
1 TTTTTCTCTTTTTATTTTTC-TTCTTTTTATTCATTTTTATTTCTTCTCATTT
*
116829 TTTTTCTTCTTTTTCTTTTTC-TCATTTTTATT-A-TTTTATTTCTTCT
1 TTTTTC-TCTTTTTATTTTTCTTC-TTTTTATTCATTTTTATTTCTTCT
116875 TCAAGCAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
51 12 0.29
52 3 0.07
53 13 0.32
54 13 0.32
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (52 bp):
TTTTTCTCTTTTTATTTTTCTTCTTTTTATTCATTTTTATTTCTTCTCATTT
Found at i:129957 original size:42 final size:42
Alignment explanation
Indices: 129905--129985 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
129895 ATACAAATTG
* * *
129905 CCAGTTATGCAGGAAGTTGATCCCTTAGCTTCTTGTTCCGTA
1 CCAGCTATGCAGGAAGCTGATCCCCTAGCTTCTTGTTCCGTA
129947 CCAGCTATGCAGGAAGCTGATCCCCTAGCTTCTTGTTCC
1 CCAGCTATGCAGGAAGCTGATCCCCTAGCTTCTTGTTCC
129986 TTACTACTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (42 bp):
CCAGCTATGCAGGAAGCTGATCCCCTAGCTTCTTGTTCCGTA
Found at i:159293 original size:13 final size:13
Alignment explanation
Indices: 159275--159308 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
159265 AATTTGAAGC
159275 ACTTCATCTTTAG
1 ACTTCATCTTTAG
159288 ACTTCATCTTTAG
1 ACTTCATCTTTAG
159301 ACTTCATC
1 ACTTCATC
159309 CGATACACCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.24, C:0.26, G:0.06, T:0.44
Consensus pattern (13 bp):
ACTTCATCTTTAG
Found at i:164206 original size:41 final size:39
Alignment explanation
Indices: 164169--164250 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 39
164159 TTAAATTAAT
*
164169 TCAAACT-TTTTAAAATATTTTATATCAGTTCTCAAATTA
1 TCAAACTATTTTAAAATATTTT-TATCAATTCTCAAATTA
* ** * *
164208 TGATCCTATTTTAAAATATTTTTATCAATTCTCGAACTA
1 TCAAACTATTTTAAAATATTTTTATCAATTCTCAAATTA
164247 TCAA
1 TCAA
164251 TATCATTCTA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
39 20 0.59
40 14 0.41
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.45
Consensus pattern (39 bp):
TCAAACTATTTTAAAATATTTTTATCAATTCTCAAATTA
Found at i:164617 original size:32 final size:36
Alignment explanation
Indices: 164515--164618 Score: 101
Period size: 32 Copynumber: 2.9 Consensus size: 36
164505 TTTATATAGC
*
164515 ATGAAATTTATATTAAAATTATTATTATAAATCTAATTTGA
1 ATGAAA-TTATAATAAAATTATTATTAT--A--TAATTTGA
*
164556 ATGAAATTATAATAAAATTA-TATAAATATAATTTGA
1 ATGAAATTATAATAAAATTATTAT-TATATAATTTGA
164592 AT-AAA-T-T-ATAAAATTATTATTATATAA
1 ATGAAATTATAATAAAATTATTATTATATAA
164619 AGAAAAAATA
Statistics
Matches: 58, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
32 15 0.26
33 4 0.07
34 1 0.02
35 3 0.05
36 10 0.17
38 1 0.02
39 3 0.05
40 15 0.26
41 6 0.10
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (36 bp):
ATGAAATTATAATAAAATTATTATTATATAATTTGA
Found at i:165146 original size:47 final size:47
Alignment explanation
Indices: 165070--165163 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 47
165060 TAGAAGATTG
165070 AAAAATCAATTAATTAAAAAATATTGAATTTATTATTATATTAATTAAT
1 AAAAATCAATTAATT--AAAATATTGAATTTATTATTATATTAATTAAT
165119 AAAAATCAATTAGATT-AAATATTGAATTTATTATTATATTAATTA
1 AAAAATCAATTA-ATTAAAATATTGAATTTATTATTATATTAATTA
165164 CAAATTGCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
47 29 0.66
49 12 0.27
50 3 0.07
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (47 bp):
AAAAATCAATTAATTAAAATATTGAATTTATTATTATATTAATTAAT
Found at i:165996 original size:17 final size:16
Alignment explanation
Indices: 165965--165995 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
165955 ACTATTGAAA
*
165965 CTTGAACTCAAAAAAG
1 CTTGAACTAAAAAAAG
165981 CTTGAACTAAAAAAA
1 CTTGAACTAAAAAAA
165996 ATTTAAAAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.16, G:0.10, T:0.19
Consensus pattern (16 bp):
CTTGAACTAAAAAAAG
Found at i:167566 original size:12 final size:12
Alignment explanation
Indices: 167549--167574 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
167539 TGATGTATAT
167549 ATACATACACAC
1 ATACATACACAC
167561 ATACATACACAC
1 ATACATACACAC
167573 AT
1 AT
167575 CAACACTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (12 bp):
ATACATACACAC
Found at i:169096 original size:10 final size:9
Alignment explanation
Indices: 169071--169095 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
169061 GGCAAGAATT
169071 AAAAAAATA
1 AAAAAAATA
169080 AAAAAAATA
1 AAAAAAATA
169089 AAAAAAA
1 AAAAAAA
169096 ACACTAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATA
Found at i:169290 original size:22 final size:22
Alignment explanation
Indices: 169265--169307 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
169255 ATGGGAAAGA
*
169265 AATAACAATA-ATAAAATAAAAT
1 AATAAAAATAGATAAAA-AAAAT
169287 AATAAAAATAGATAAAAAAAA
1 AATAAAAATAGATAAAAAAAA
169308 GGTTAAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (22 bp):
AATAAAAATAGATAAAAAAAAT
Found at i:169296 original size:14 final size:14
Alignment explanation
Indices: 169264--169293 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
169254 TATGGGAAAG
169264 AAATAACAATAATA
1 AAATAACAATAATA
169278 AAATAA-AATAATA
1 AAATAACAATAATA
169291 AAA
1 AAA
169294 ATAGATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAACAATAATA
Found at i:169301 original size:13 final size:14
Alignment explanation
Indices: 169264--169296 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
169254 TATGGGAAAG
169264 AAATAACAATAAT-A
1 AAATAA-AATAATAA
169278 AAATAAAATAATAA
1 AAATAAAATAATAA
169292 AAATA
1 AAATA
169297 GATAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAAATAATAA
Found at i:170502 original size:30 final size:31
Alignment explanation
Indices: 170456--170514 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
170446 ATCTTGGACC
170456 TGAAACAAAAAATAATAAATAAATAAATAAA
1 TGAAACAAAAAATAATAAATAAATAAATAAA
* * *
170487 TGAAA-AAAAATTAATAGATAAATTAATA
1 TGAAACAAAAAATAATAAATAAATAAATA
170515 TAAAACATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (31 bp):
TGAAACAAAAAATAATAAATAAATAAATAAA
Found at i:170614 original size:19 final size:18
Alignment explanation
Indices: 170577--170615 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
170567 CCACATAACG
*
170577 TATAAATAATTTCAAAAC
1 TATAAATAATTTAAAAAC
*
170595 TATAAATATTTTTAAAAAC
1 TATAAATA-ATTTAAAAAC
170614 TA
1 TA
170616 ATTTTCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
TATAAATAATTTAAAAAC
Found at i:170662 original size:14 final size:13
Alignment explanation
Indices: 170604--170664 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
170594 CTATAAATAT
170604 TTTTAAAAACTAA
1 TTTTAAAAACTAA
*
170617 TTTTCAAAACT-A
1 TTTTAAAAACTAA
*
170629 ---TAAATA-TATA
1 TTTTAAAAACTA-A
170639 TTTTAAAAACTAA
1 TTTTAAAAACTAA
170652 TTTTCAAAAACTA
1 TTTT-AAAAACTA
170665 TATAATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
8 1 0.03
9 4 0.11
10 1 0.03
12 1 0.03
13 20 0.54
14 10 0.27
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (13 bp):
TTTTAAAAACTAA
Found at i:170705 original size:32 final size:33
Alignment explanation
Indices: 170586--170706 Score: 165
Period size: 32 Copynumber: 3.6 Consensus size: 33
170576 GTATAAATAA
*
170586 TTTCAAAACTATA-AATATTTTTAAAAACTAAT
1 TTTCAAAACTATATAATATATTTAAAAACTAAT
*
170618 TTTCAAAACTATAAATATATATTTTAAAAACTAAT
1 TTTCAAAACTATATA-ATATA-TTTAAAAACTAAT
*
170653 TTTCAAAAACTATATAATATATTTAGAAACTAAT
1 TTTC-AAAACTATATAATATATTTAAAAACTAAT
*
170687 TTT-AAAATTATATAATATAT
1 TTTCAAAACTATATAATATAT
170707 ATGTTTTTCA
Statistics
Matches: 81, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
32 29 0.36
33 1 0.01
34 19 0.23
35 22 0.27
36 10 0.12
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.41
Consensus pattern (33 bp):
TTTCAAAACTATATAATATATTTAAAAACTAAT
Found at i:170792 original size:13 final size:13
Alignment explanation
Indices: 170774--170798 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
170764 ATATAATATG
170774 TATTTTCAAAAAA
1 TATTTTCAAAAAA
170787 TATTTTCAAAAA
1 TATTTTCAAAAA
170799 CTATATTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
TATTTTCAAAAAA
Found at i:170841 original size:32 final size:32
Alignment explanation
Indices: 170733--170853 Score: 104
Period size: 33 Copynumber: 3.7 Consensus size: 32
170723 TTTTTAAAAG
* * * * *
170733 ATATATT-TATATATTAAAAAAATTCAAAACA
1 ATATATTATATATTTTCAAAATATTAAAAACC
* *
170764 ATATAATATGTATTTTCAAAAAATATTTTCAAAAA-C
1 ATATATTATATATTTTC--AAAATA--TT-AAAAACC
170800 -TATATTATATATTTTCAAAATATTAAAAACC
1 ATATATTATATATTTTCAAAATATTAAAAACC
170831 ATATATTATATAATTTTCAAAAT
1 ATATATTATAT-ATTTTCAAAAT
170854 GATTTCAGAC
Statistics
Matches: 72, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
30 5 0.07
31 9 0.12
32 16 0.22
33 17 0.24
34 5 0.07
35 14 0.19
36 2 0.03
37 4 0.06
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.40
Consensus pattern (32 bp):
ATATATTATATATTTTCAAAATATTAAAAACC
Found at i:170860 original size:66 final size:64
Alignment explanation
Indices: 170696--170860 Score: 145
Period size: 67 Copynumber: 2.5 Consensus size: 64
170686 TTTTAAAATT
* * *
170696 ATATAATATATATGTTTTTCAAGAATGTTTTTAAAAGATATATTTATATATTAAAAAAATTCAAA
1 ATATAATATATA---TTTTCAA-AATGATTTCAAAAGATATATTTATATATTAAAAAAATTAAAA
170761 ACA
62 ACA
* * * *
170764 ATATAATATGTATTTTCAAAAAAT-ATTTTCAAAA-ACTATATTATATATTTTCAAAATATTAAA
1 ATATAATATATATTTTC--AAAATGA-TTTCAAAAGA-TATATT-TATATATTAAAAAAATTAAA
*
170827 AACC
61 AACA
*
170831 ATATATTATATAATTTTCAAAATGATTTCA
1 ATATAATATAT-ATTTTCAAAATGATTTCA
170861 GACTATATAA
Statistics
Matches: 80, Mismatches: 10, Indels: 16
0.75 0.09 0.15
Matches are distributed among these distances:
65 6 0.08
66 26 0.32
67 31 0.39
68 17 0.21
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.42
Consensus pattern (64 bp):
ATATAATATATATTTTCAAAATGATTTCAAAAGATATATTTATATATTAAAAAAATTAAAAACA
Found at i:171695 original size:84 final size:83
Alignment explanation
Indices: 171499--172240 Score: 743
Period size: 84 Copynumber: 8.9 Consensus size: 83
171489 GGGTCTTTGG
* * * *
171499 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGCA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAA
* *
171564 CTCGAAGGTC-TTTGATGA
66 CTCAAAGGTCTTTTG-TTA
* * * * *
171582 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCGTT-GAGCTGAGCGTAGTCAA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC-TTAGAGCTGAGCGTAGTCGA
171646 ACTCAAAGGTCTTTTGTTAA
65 ACTCAAAGGTCTTTTGTT-A
* * * * * * *
171666 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTT-GAAGCTGA-TGTAATCG
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CCTTAG-AGCTGAGCGTAGTCG
* * *
171729 AACTTAAGGGTC-TTTG--G
64 AACTCAAAGGTCTTTTGTTA
* * * *
171746 CAGATAACCCTTCTTGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAA
*
171811 CTCAAAGGTCTTTGGTTA
66 CTCAAAGGTCTTTTGTTA
* * * * * *
171829 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTT-GAAGCTGAGTGTAATCG
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CCTTAG-AGCTGAGCGTAGTCG
* * * *
171893 AACTTAAGGGTCTTTAGTTGG
64 AACTCAAAGGTCTTTTGTT-A
* * * *
171914 CAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCGA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTAG-AGCTGAGCGTAGTCGA
* * *
171979 ACTCGAGGGTC-TTTG--G
65 ACTCAAAGGTCTTTTGTTA
* * * * *
171995 CAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAA
172060 CTCAAAGGTCTTTTGTTA
66 CTCAAAGGTCTTTTGTTA
* * * * * *
172078 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTT-GAAGCTGAGTGTAATCG
1 CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CCTTAG-AGCTGAGCGTAGTCG
* *
172142 AACTTAAGGGTCTTTTGTTA
64 AACTCAAAGGTCTTTTGTTA
* * *
172162 GCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCTTCAAAGCTGAACGTAGTCG
1 -CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTT-AGAGCTGAGCGTAGTCG
*
172227 AACTCGAAGGTCTT
64 AACTCAAAGGTCTT
172241 GGTGGACAGA
Statistics
Matches: 547, Mismatches: 90, Indels: 42
0.81 0.13 0.06
Matches are distributed among these distances:
79 10 0.02
80 75 0.14
81 51 0.09
83 138 0.25
84 145 0.27
85 128 0.23
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (83 bp):
CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAA
CTCAAAGGTCTTTTGTTA
Found at i:171752 original size:164 final size:165
Alignment explanation
Indices: 171425--172282 Score: 758
Period size: 164 Copynumber: 5.2 Consensus size: 165
171415 TGACAAATAG
* * * * * * * * * *
171425 CCCTTCTTGCCTTGAGCTATGTTGTAACTGATATGACC-TCGAAGTTGAGTGTAATCGAACCCAG
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATATG-CCTTCGAAGCTGAGCGTAGTCGAACTCAA
* * * * * *
171489 GGGTC-TTTG--GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT-AGAGC
65 AGGTCTTTTGTTACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGA-AGC
* * * *
171550 TGAGCGTAGTCGCACTCGAA-GGTCTTTGATGACAGATAA
129 TGAGCGTAATCGAACT-TAAGGGTCTTT--TGGCAGATAA
* *
171589 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCGTT-G-AGCTGAGCGTAGTCAAACTCAA
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCC-TTCGAAGCTGAGCGTAGTCGAACTCAA
* * * *
171652 AGGTCTTTTGTTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAG
65 AGGTCTTTTGTT-ACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG-CCTTGAAG
*
171717 CTGA-TGTAATCGAACTTAAGGGTC-TTTGGCAGATAA
128 CTGAGCGTAATCGAACTTAAGGGTCTTTTGGCAGATAA
* * * * * * *
171753 CCCTTCTTGACTTAAGCTATTCTGCAAATGATGTGCCTT-GGAGCTGAGCGTAGTCGAACTCAAA
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTCGAAGCTGAGCGTAGTCGAACTCAAA
* * * *
171817 GGTCTTTGGTTACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCT
66 GGTCTTTTGTTACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG-CCTTGAAGCT
*
171882 GAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCAGATAA
130 GAGCGTAATCGAACTTAAGGGTC-TT--TTGGCAGATAA
* * * * * * * *
171921 CCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGAG
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTCGAAGCTGAGCGTAGTCGAACTCAAA
* * * * * * *
171986 GGTC-TTTG--GCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTG
66 GGTCTTTTGTTACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGAAGCTG
* * * *
172048 AGCGTAGTCGAACTCAAAGGTCTTTTGTTACAGATAA
131 AGCGTAATCGAACTTAAGGGTCTTTTG--GCAGATAA
* * * *
172085 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTT-GAAGCTGAGTGTAATCGAACTTAA
1 CCCTTCTAGCCTTGAGTTATGCTGCAAATGATATG-CCTTCGAAGCTGAGCGTAGTCGAACTCAA
* * * *
172149 GGGTCTTTTGTTAGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCTTCAAAG
65 AGGTCTTTTGTTA-CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTT-GAAG
* * * * *
172214 CTGAACGTAGTCGAACTCGAA-GGTCTTGGTGGACAGATAG
128 CTGAGCGTAATCGAACT-TAAGGGTCTT-TTGG-CAGATAA
* * *
172254 CCCTTCTGGCCTTGAGCTAAGCTGCAAAT
1 CCCTTCTAGCCTTGAGTTATGCTGCAAAT
172283 AGTTTGTTTA
Statistics
Matches: 583, Mismatches: 84, Indels: 49
0.81 0.12 0.07
Matches are distributed among these distances:
162 3 0.01
163 80 0.14
164 189 0.32
165 37 0.06
166 39 0.07
167 47 0.08
168 103 0.18
169 81 0.14
170 4 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (165 bp):
CCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTCGAAGCTGAGCGTAGTCGAACTCAAA
GGTCTTTTGTTACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGAAGCTG
AGCGTAATCGAACTTAAGGGTCTTTTGGCAGATAA
Found at i:172049 original size:249 final size:249
Alignment explanation
Indices: 171489--172260 Score: 1208
Period size: 249 Copynumber: 3.1 Consensus size: 249
171479 TCGAACCCAG
* *
171489 GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAG
1 GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAG
* * * *
171554 CGTAGTCGCACTCGAAGGTCTTTGATGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
66 CGTAGTCGAACTCAAAGGTCTTTGGTTACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
* * * * * * * * *
171619 ATATGCCGTTG-AGCTGAGCGTAGTCAAACTCAAAGGTCTTTTGTTAACAGATAACCCTTCTAGC
131 ATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTTGTTAGCAGATAACCCTTCTTGA
* * * * * * **
171683 CTTGAGTTATGCTGTAAATGTTATGCCCTT-GAAGCTG-ATGTAATCGAACTTAA
196 CTTAAGTTATGCTGCAAATGATGTG-CCTTCGAAGCTGAACGTAGTCGAACTCGA
* *
171736 GGGTCTTTGGCAGATAACCCTTCTTGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAG
1 GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAG
171801 CGTAGTCGAACTCAAAGGTCTTTGGTTACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
66 CGTAGTCGAACTCAAAGGTCTTTGGTTACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
* *
171866 ATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTAGTTGGCAGATAACCCTTCTTGA
131 ATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTTGTTAGCAGATAACCCTTCTTGA
*
171931 CTTAAGTTATACTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGA
196 CTTAAGTTATGCTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGA
171985 GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAG
1 GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAG
*
172050 CGTAGTCGAACTCAAAGGTCTTTTGTTACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
66 CGTAGTCGAACTCAAAGGTCTTTGGTTACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
172115 ATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTTGTTAGCAGATAACCCTTCTTGA
131 ATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTTGTTAGCAGATAACCCTTCTTGA
*
172180 CTTAAGTTATGCTGCAAATGATGTGCCTTCAAAGCTGAACGTAGTCGAACTCGA
196 CTTAAGTTATGCTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGA
*
172234 AGGTCTTGGTGGACAGATAGCCCTTCT
1 GGGTCTT--TGG-CAGATAGCCCTTCT
172261 GGCCTTGAGC
Statistics
Matches: 483, Mismatches: 36, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
247 136 0.28
248 70 0.14
249 260 0.54
251 3 0.01
252 14 0.03
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (249 bp):
GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAG
CGTAGTCGAACTCAAAGGTCTTTGGTTACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
ATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTTGTTAGCAGATAACCCTTCTTGA
CTTAAGTTATGCTGCAAATGATGTGCCTTCGAAGCTGAACGTAGTCGAACTCGA
Found at i:175630 original size:18 final size:19
Alignment explanation
Indices: 175589--175633 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
175579 AGTTAATGTG
175589 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
175608 AATGCAAAGAAAATAA-GA
1 AATGCAAAGAAAATAACAA
175626 AATGCAAA
1 AATGCAAA
175634 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:177432 original size:10 final size:10
Alignment explanation
Indices: 177417--177476 Score: 57
Period size: 10 Copynumber: 5.5 Consensus size: 10
177407 GGCAAGAATT
177417 AAAAAAAATA
1 AAAAAAAATA
177427 AAAAAAAATA
1 AAAAAAAATA
177437 AAAAAAACACTA
1 AAAAAAA-A-TA
**
177449 AAGTCAAAATA
1 AA-AAAAAATA
177460 AACAAAAGAATA
1 AA-AAAA-AATA
177472 AAAAA
1 AAAAA
177477 GATAAAAAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
10 17 0.41
11 10 0.24
12 11 0.27
13 3 0.07
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:177642 original size:13 final size:14
Alignment explanation
Indices: 177619--177648 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
177609 TATGGGAAAG
177619 AAATAACAATAATA
1 AAATAACAATAATA
177633 AAATAA-AATAATA
1 AAATAACAATAATA
177646 AAA
1 AAA
177649 AATAGATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAACAATAATA
Found at i:178726 original size:16 final size:15
Alignment explanation
Indices: 178700--178730 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
178690 ATGTGTGACC
178700 GGTCATCCCGGGATG
1 GGTCATCCCGGGATG
178715 GGTCAGTCCCGGGATG
1 GGTCA-TCCCGGGATG
178731 CCGGCCGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.13, C:0.26, G:0.42, T:0.19
Consensus pattern (15 bp):
GGTCATCCCGGGATG
Found at i:179026 original size:21 final size:22
Alignment explanation
Indices: 179002--179044 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
178992 CCACATAACG
*
179002 TATAA-ATAATTTTCAAAACTA
1 TATAATATAATTTTAAAAACTA
*
179023 TATAATATATTTTTAAAAACTA
1 TATAATATAATTTTAAAAACTA
179045 ATTTTCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (22 bp):
TATAATATAATTTTAAAAACTA
Found at i:179077 original size:37 final size:36
Alignment explanation
Indices: 179005--179317 Score: 258
Period size: 34 Copynumber: 8.8 Consensus size: 36
178995 CATAACGTAT
179005 AAATAATTTTCAAAACTATAT-A-ATATATTTTTAA
1 AAATAATTTTCAAAACTATATAATATATATTTTTAA
179039 AAACTAATTTTCAAAACTATATAATATATATTTTTAA
1 AAA-TAATTTTCAAAACTATATAATATATATTTTTAA
179076 AAACTAATTTTCAAAACTATAT-A-ATATA--TTTAGA
1 AAA-TAATTTTCAAAACTATATAATATATATTTTTA-A
* *
179110 AACTAATTTTCAAAATTATATAATATATATGTTTTTCAA
1 AAATAATTTTCAAAACTATATAATATATA--TTTTT-AA
* * * * *
179149 GAAT-GTTTTTAAAAGCTATATATTATATATATTTAA
1 AAATAATTTTCAAAA-CTATATAATATATATTTTTAA
* * * *
179185 AAA-AA-ATTCAAAACAATATAATATGTATTTTCAA
1 AAATAATTTTCAAAACTATATAATATATATTTTTAA
* *
179219 AAA-ATATTTTCAAAAACTATATATTATATA-TTTTCA
1 AAATA-ATTTTC-AAAACTATATAATATATATTTTTAA
** * * * *
179255 AAATAA-TTAAAAAACCATATATTATATAATTTTCA
1 AAATAATTTTCAAAACTATATAATATATATTTTTAA
* *
179290 AAATGA-TTTC-AGACTATATAATATATAT
1 AAATAATTTTCAAAACTATATAATATATAT
179318 ATAAATAAAA
Statistics
Matches: 227, Mismatches: 34, Indels: 36
0.76 0.11 0.12
Matches are distributed among these distances:
33 21 0.09
34 58 0.26
35 50 0.22
36 17 0.07
37 54 0.24
38 8 0.04
39 18 0.08
40 1 0.00
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.42
Consensus pattern (36 bp):
AAATAATTTTCAAAACTATATAATATATATTTTTAA
Done.