Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005763.1 Hibiscus syriacus cultivar Beakdansim tig00013492_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: 52514
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:4098 original size:29 final size:28
Alignment explanation
Indices: 4058--4114 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
4048 TCGACCCGAC
*
4058 CTGACTGTTGACCCAACTCGACCGTTGA
1 CTGACTGTTGACCCAACCCGACCGTTGA
* *
4086 CTGACTCGTTGACCCGACCCGATCGTTGA
1 CTGACT-GTTGACCCAACCCGACCGTTGA
4115 TCGTTGACCG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.19, C:0.33, G:0.23, T:0.25
Consensus pattern (28 bp):
CTGACTGTTGACCCAACCCGACCGTTGA
Found at i:4285 original size:29 final size:29
Alignment explanation
Indices: 4125--4279 Score: 240
Period size: 29 Copynumber: 5.3 Consensus size: 29
4115 TCGTTGACCG
*
4125 GGTGCTATTTTAGTAATTAATTCGAAATA
1 GGTGCTATTTTAGTAATTAATTCAAAATA
*
4154 GGTGCTATTTTAGTAATTAATTCGAAATA
1 GGTGCTATTTTAGTAATTAATTCAAAATA
*
4183 GGTGCTATTTTTGTAATTAATTCAAAATA
1 GGTGCTATTTTAGTAATTAATTCAAAATA
4212 GGTGCTATTTTAGTAATTAATTCAAAATA
1 GGTGCTATTTTAGTAATTAATTCAAAATA
* * *
4241 GGTACTATTTTAGTAATT-ATTTAAAAAA
1 GGTGCTATTTTAGTAATTAATTCAAAATA
4269 GTGTGCTATTT
1 G-GTGCTATTT
4280 CTGTAAAATG
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
28 9 0.08
29 109 0.92
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.43
Consensus pattern (29 bp):
GGTGCTATTTTAGTAATTAATTCAAAATA
Found at i:13292 original size:15 final size:15
Alignment explanation
Indices: 13272--13358 Score: 104
Period size: 15 Copynumber: 5.9 Consensus size: 15
13262 TGGTTTTTCC
13272 GAATTTGAATTACTG
1 GAATTTGAATTACTG
13287 GAATTTGAATTACTG
1 GAATTTGAATTACTG
* *
13302 AAATTTGAATTTCTG
1 GAATTTGAATTACTG
**
13317 GAAAATGAATTACTG
1 GAATTTGAATTACTG
*
13332 GAATTTAAATT-CTG
1 GAATTTGAATTACTG
**
13346 GAAAATGAATTAC
1 GAATTTGAATTAC
13359 ATTTCTGGAA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.19
15 48 0.81
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (15 bp):
GAATTTGAATTACTG
Found at i:13307 original size:30 final size:29
Alignment explanation
Indices: 13273--13358 Score: 118
Period size: 30 Copynumber: 2.9 Consensus size: 29
13263 GGTTTTTCCG
**
13273 AATTTGAATTACTGGAATTTGAATTACTGA
1 AATTTGAATT-CTGGAAAATGAATTACTGA
*
13303 AATTTGAATTTCTGGAAAATGAATTACTGG
1 AATTTGAA-TTCTGGAAAATGAATTACTGA
*
13333 AATTTAAATTCTGGAAAATGAATTAC
1 AATTTGAATTCTGGAAAATGAATTAC
13359 ATTTCTGGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
29 18 0.35
30 31 0.61
31 2 0.04
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (29 bp):
AATTTGAATTCTGGAAAATGAATTACTGA
Found at i:13364 original size:20 final size:20
Alignment explanation
Indices: 13341--13390 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
13331 GGAATTTAAA
*
13341 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATAAATTACAT
13361 TTCTGGAAAATAAATTACAT
1 TTCTGGAAAATAAATTACAT
13381 TTCTGGAAAA
1 TTCTGGAAAA
13391 CATCTGGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (20 bp):
TTCTGGAAAATAAATTACAT
Found at i:13489 original size:18 final size:17
Alignment explanation
Indices: 13466--13499 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13456 GTTTTTTAAA
13466 AATTATTATAATATAATT
1 AATTATT-TAATATAATT
*
13484 AATTATTTTATATAAT
1 AATTATTTAATATAAT
13500 ATTAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTATTTAATATAATT
Found at i:13513 original size:31 final size:32
Alignment explanation
Indices: 13475--13562 Score: 94
Period size: 31 Copynumber: 2.8 Consensus size: 32
13465 AAATTATTAT
13475 AATATAATTAATTATTTTATATAATATTAA-A
1 AATATAATTAATTATTTTATATAATATTAATA
*
13506 AATATAA-T-ATTATATTATTATAAATATTAATA
1 AATATAATTAATTATTTTA-TAT-AATATTAATA
* *
13538 AATATATTTTAAATATTTTA-ATAAT
1 AATATA-ATTAATTATTTTATATAAT
13563 TAATATTTTG
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
29 8 0.17
30 4 0.09
31 15 0.32
32 10 0.21
33 2 0.04
34 1 0.02
35 7 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
AATATAATTAATTATTTTATATAATATTAATA
Found at i:13516 original size:26 final size:26
Alignment explanation
Indices: 13478--13571 Score: 72
Period size: 23 Copynumber: 3.6 Consensus size: 26
13468 TTATTATAAT
13478 ATAAT-TAATTATTTTATATAATATTA
1 ATAATATAA-TATTTTATATAATATTA
*
13504 AAAATATAATATTATATTATTATAAATATTA
1 ATAATATAATA-T-T-TTA-TAT-AATATTA
* *
13535 ATAA-AT-ATATTTTAAAT-ATTTTA
1 ATAATATAATATTTTATATAATATTA
13558 ATAAT-TAATATTTT
1 ATAATATAATATTTT
13572 GATGAAAATG
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
23 10 0.18
24 7 0.12
25 2 0.04
26 9 0.16
27 5 0.09
28 2 0.04
29 6 0.11
30 5 0.09
31 10 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
ATAATATAATATTTTATATAATATTA
Found at i:13519 original size:22 final size:23
Alignment explanation
Indices: 13494--13537 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
13484 AATTATTTTA
13494 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
13516 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
13538 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:13542 original size:22 final size:22
Alignment explanation
Indices: 13498--13554 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
13488 ATTTTATATA
* *
13498 ATATTAAAAATA-TAATATTAT
1 ATATTATAAATATTAATATAAT
13519 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
13541 ATATTTTAAATATT
1 ATATTATAAATATT
13555 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
22 13 0.42
23 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:13806 original size:42 final size:42
Alignment explanation
Indices: 13743--13862 Score: 179
Period size: 42 Copynumber: 2.9 Consensus size: 42
13733 ATGAATTACA
* * *
13743 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGAAAAACGAATTACGTGAAACAAACACGGAAAAACATT
* *
13785 TTTCGAAAAACAAATTACGTGAAACAAACACGGAAAAACATT
1 TTCCGAAAAACGAATTACGTGAAACAAACACGGAAAAACATT
*
13827 TTCCGGAAAACGAATTACGTGAAACAAACAC-GAAAA
1 TTCCGAAAAACGAATTACGTGAAACAAACACGGAAAA
13863 TTCAGGGAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 5 0.07
42 65 0.93
ACGTcount: A:0.48, C:0.18, G:0.17, T:0.17
Consensus pattern (42 bp):
TTCCGAAAAACGAATTACGTGAAACAAACACGGAAAAACATT
Found at i:17585 original size:18 final size:18
Alignment explanation
Indices: 17558--17708 Score: 134
Period size: 18 Copynumber: 8.6 Consensus size: 18
17548 TGCATAACAT
*
17558 AACCC-TTTTTAAAGTTGA
1 AACCCATTTTT-AAGTTGC
17576 AACCCATTTTTAAGTTGC
1 AACCCATTTTTAAGTTGC
17594 -ACCTCA-TTTTAAGTTGC
1 AACC-CATTTTTAAGTTGC
*
17611 AACCTATTTTTAAGTTGC
1 AACCCATTTTTAAGTTGC
*
17629 AACTCATTTTTAAGTTGC
1 AACCCATTTTTAAGTTGC
*
17647 -ACACCA-TTTTAAATTGC
1 AAC-CCATTTTTAAGTTGC
* * *
17664 AACCTATTTTGAAGTTGT
1 AACCCATTTTTAAGTTGC
* * *
17682 GACCTA-TTTTAACTTGC
1 AACCCATTTTTAAGTTGC
*
17699 AACTCATTTT
1 AACCCATTTT
17709 CTGGTGATGG
Statistics
Matches: 108, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
17 40 0.37
18 63 0.58
19 5 0.05
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (18 bp):
AACCCATTTTTAAGTTGC
Found at i:17620 original size:35 final size:35
Alignment explanation
Indices: 17564--17708 Score: 152
Period size: 35 Copynumber: 4.1 Consensus size: 35
17554 ACATAACCCT
* * *
17564 TTTTAAAGTTGAAACCCATTTTTAAGTTGCACCTCA
1 TTTTAAAGTTGCAACCTA-TTTTAAGTTGCAACTCA
17600 TTTT-AAGTTGCAACCTATTTTTAAGTTGCAACTCA
1 TTTTAAAGTTGCAACCTA-TTTTAAGTTGCAACTCA
* *
17635 TTTTTAAGTTGCACACC-ATTTTAAATTGCAAC-CTA
1 TTTTAAAGTTGCA-ACCTATTTTAAGTTGCAACTC-A
* ** *
17670 TTTTGAAGTTGTGACCTATTTTAACTTGCAACTCA
1 TTTTAAAGTTGCAACCTATTTTAAGTTGCAACTCA
17705 TTTT
1 TTTT
17709 CTGGTGATGG
Statistics
Matches: 96, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
34 4 0.04
35 75 0.78
36 14 0.15
37 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.43
Consensus pattern (35 bp):
TTTTAAAGTTGCAACCTATTTTAAGTTGCAACTCA
Found at i:17691 original size:53 final size:54
Alignment explanation
Indices: 17564--17680 Score: 175
Period size: 53 Copynumber: 2.2 Consensus size: 54
17554 ACATAACCCT
* * * *
17564 TTTTAAAGTTGAAACCCATTTTTAAGTTGCAC-CTCATTTTAAGTTGCAACCTA
1 TTTTGAAGTTGCAACTCATTTTTAAGTTGCACACTCATTTTAAATTGCAACCTA
*
17617 TTTTTAAGTTGCAACTCATTTTTAAGTTGCACAC-CATTTTAAATTGCAACCTA
1 TTTTGAAGTTGCAACTCATTTTTAAGTTGCACACTCATTTTAAATTGCAACCTA
17670 TTTTGAAGTTG
1 TTTTGAAGTTG
17681 TGACCTATTT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 57 0.98
54 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (54 bp):
TTTTGAAGTTGCAACTCATTTTTAAGTTGCACACTCATTTTAAATTGCAACCTA
Found at i:22937 original size:16 final size:17
Alignment explanation
Indices: 22913--22952 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
22903 TTACACACCT
*
22913 AGTTACACCCCA-TTTA
1 AGTTGCACCCCATTTTA
22929 AGTTGCACCCCATTTTA
1 AGTTGCACCCCATTTTA
22946 AGTTGCA
1 AGTTGCA
22953 ACTAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.33
Consensus pattern (17 bp):
AGTTGCACCCCATTTTA
Found at i:22960 original size:17 final size:18
Alignment explanation
Indices: 22925--23001 Score: 57
Period size: 22 Copynumber: 4.1 Consensus size: 18
22915 TTACACCCCA
* *
22925 TTTAAGTTGCACCCCA-T
1 TTTAAGTTGCAACCAATT
*
22942 TTTAAGTTGCAACTAATT
1 TTTAAGTTGCAACCAATT
* *
22960 TTTAAGTTACACCCAATTCATT
1 TTTAAGTTGCAACC-A---ATT
22982 TTTAAGTTGCAACCCAATT
1 TTTAAGTTGCAA-CCAATT
23001 T
1 T
23002 CTGGTGATGG
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
17 13 0.28
18 12 0.26
19 5 0.11
22 14 0.30
23 2 0.04
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (18 bp):
TTTAAGTTGCAACCAATT
Found at i:22977 original size:18 final size:17
Alignment explanation
Indices: 22913--22977 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
22903 TTACACACCT
*
22913 AGTTACACCCCA-TTTA
1 AGTTACACCCAATTTTA
* *
22929 AGTTGCACCCCATTTTA
1 AGTTACACCCAATTTTA
* * *
22946 AGTTGCAACTAATTTTTA
1 AGTTACACCCAA-TTTTA
22964 AGTTACACCCAATT
1 AGTTACACCCAATT
22978 CATTTTTAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
16 11 0.28
17 15 0.38
18 14 0.35
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.35
Consensus pattern (17 bp):
AGTTACACCCAATTTTA
Found at i:22985 original size:22 final size:23
Alignment explanation
Indices: 22957--23000 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
22947 GTTGCAACTA
22957 ATTTTTAAGTTAC-ACCCAATTC
1 ATTTTTAAGTTACAACCCAATTC
*
22979 ATTTTTAAGTTGCAACCCAATT
1 ATTTTTAAGTTACAACCCAATT
23001 TCTGGTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (23 bp):
ATTTTTAAGTTACAACCCAATTC
Found at i:23941 original size:19 final size:19
Alignment explanation
Indices: 23917--23953 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
23907 ATGACCAATA
*
23917 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
23936 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
23954 GAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:24001 original size:40 final size:42
Alignment explanation
Indices: 23919--24129 Score: 134
Period size: 41 Copynumber: 5.1 Consensus size: 42
23909 GACCAATAAA
* * * * *
23919 ATCGC-AATGCGA-TCTCTAAA-TCGCAACGCGATCTCGAGT
1 ATCGCAAATGCGAGTTTCCAAATTCGCAACGCGATTTTGACT
*
23958 ATCGCAAAT-C-AGTTTCCAGATTCGCAACGCGATTTTGACT
1 ATCGCAAATGCGAGTTTCCAAATTCGCAACGCGATTTTGACT
* * * * *
23998 ATCGC-ATTGCGATTTTCCAAATTCGCAATGCGAATATGACT
1 ATCGCAAATGCGAGTTTCCAAATTCGCAACGCGATTTTGACT
* * ** * *
24039 ATCGC-AACGCGA-TAATAGAAAATCGCAACGCGATTCTGACT
1 ATCGCAAATGCGAGT-TTCCAAATTCGCAACGCGATTTTGACT
* * * *
24080 ATCGC-AACGCGACGATAATACAAAATCGCAACGCGATTTTGACT
1 ATCGCAAATGCGA-G-T-TTCCAAATTCGCAACGCGATTTTGACT
24124 ATCGCA
1 ATCGCA
24130 TCACGATAAT
Statistics
Matches: 139, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
38 1 0.01
39 13 0.09
40 26 0.19
41 67 0.48
44 32 0.23
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATCGCAAATGCGAGTTTCCAAATTCGCAACGCGATTTTGACT
Found at i:24129 original size:20 final size:20
Alignment explanation
Indices: 23979--24091 Score: 84
Period size: 20 Copynumber: 5.5 Consensus size: 20
23969 GTTTCCAGAT
23979 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTTTGACTA
** * *
23999 TCGCATTGCGATTTT-CCAAA
1 TCGCAACGCGATTTTGAC-TA
* * *
24019 TTCGCAATGCGAATATGACTA
1 -TCGCAACGCGATTTTGACTA
* * **
24040 TCGCAACGCGATAATAGAAAA
1 TCGCAACGCGAT-TTTGACTA
*
24061 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTTTGACTA
24081 TCGCAACGCGA
1 TCGCAACGCGA
24092 CGATAATACA
Statistics
Matches: 68, Mismatches: 21, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
19 1 0.01
20 38 0.56
21 28 0.41
22 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATTTTGACTA
Found at i:24148 original size:41 final size:41
Alignment explanation
Indices: 23979--24160 Score: 202
Period size: 41 Copynumber: 4.4 Consensus size: 41
23969 GTTTCCAGAT
** ** * *
23979 TCGCAACGCGATTTTGACTATCGCATTGCGATTTTCCAAAT
1 TCGCAACGCGATTTTGACTATCGCATCACGATAATACAAAA
* * * * * *
24020 TCGCAATGCGAATATGACTATCGCAACGCGATAATAGAAAA
1 TCGCAACGCGATTTTGACTATCGCATCACGATAATACAAAA
* *
24061 TCGCAACGCGATTCTGACTATCGCAACGCGACGATAATACAAAA
1 TCGCAACGCGATTTTGACTATCGC-A-TC-ACGATAATACAAAA
24105 TCGCAACGCGATTTTGACTATCGCATCACGATAATACAAAA
1 TCGCAACGCGATTTTGACTATCGCATCACGATAATACAAAA
*
24146 TCGCAATGCGATTTT
1 TCGCAACGCGATTTT
24161 CCAAATTTAC
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
41 80 0.67
42 2 0.02
43 2 0.02
44 35 0.29
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (41 bp):
TCGCAACGCGATTTTGACTATCGCATCACGATAATACAAAA
Found at i:24644 original size:19 final size:19
Alignment explanation
Indices: 24620--24728 Score: 74
Period size: 19 Copynumber: 5.4 Consensus size: 19
24610 TTATTTTTGA
24620 TTTTTCACTATCACAACAC
1 TTTTTCACTATCACAACAC
*
24639 TTTTTCACTATCGCAACAAGAC
1 TTTTTCACTAT--C-ACAACAC
* *
24661 GTTTTTCAAACTCTCGCAACAC
1 -TTTTTC--ACTATCACAACAC
* * **
24683 ATTTTAACTATTGCAACAC
1 TTTTTCACTATCACAACAC
* *
24702 ATTTTAACTATCACAACAC
1 TTTTTCACTATCACAACAC
24721 ATTTTTCA
1 -TTTTTCA
24729 AAATCACTTT
Statistics
Matches: 71, Mismatches: 12, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
19 39 0.55
20 5 0.07
21 5 0.07
22 11 0.15
23 7 0.10
25 4 0.06
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.36
Consensus pattern (19 bp):
TTTTTCACTATCACAACAC
Found at i:24760 original size:20 final size:21
Alignment explanation
Indices: 24737--24790 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
24727 CAAAATCACT
*
24737 TTGCGAATCT-TACAATCGCG
1 TTGCGAATCTGGACAATCGCG
* * *
24757 TTGCAAATCTGGATATTCGCG
1 TTGCGAATCTGGACAATCGCG
*
24778 TTGCGAATTTGGA
1 TTGCGAATCTGGA
24791 AACTGAGTTG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (21 bp):
TTGCGAATCTGGACAATCGCG
Found at i:25633 original size:33 final size:34
Alignment explanation
Indices: 25608--25712 Score: 142
Period size: 34 Copynumber: 3.1 Consensus size: 34
25598 TTCTCCATTG
25608 TTTTTTTGTTTTGAAAATTTGTCTTCTCTGTTGA
1 TTTTTTTGTTTTGAAAATTTGTCTTCTCTGTTGA
* *
25642 TTTTTCTT-TTTTGAAAATTTATTTTCTCTGTTGA
1 TTTTT-TTGTTTTGAAAATTTGTCTTCTCTGTTGA
*
25676 TAATTTTTGTTGTTGAAAATTTGTC-TCTCTGTTGA
1 T-TTTTTTGTT-TTGAAAATTTGTCTTCTCTGTTGA
25711 TT
1 TT
25713 AAATATTCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
34 32 0.52
35 18 0.30
36 11 0.18
ACGTcount: A:0.17, C:0.09, G:0.13, T:0.61
Consensus pattern (34 bp):
TTTTTTTGTTTTGAAAATTTGTCTTCTCTGTTGA
Found at i:25847 original size:20 final size:19
Alignment explanation
Indices: 25824--25882 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
25814 TTTTTTTTTT
25824 TTGAAAATTTATTTTCTCTG
1 TTGAAAATTT-TTTTCTCTG
*
25844 TTG-ATA-TTTTTT-TC-G
1 TTGAAAATTTTTTTCTCTG
*
25859 TTGAAAATTTGTCTTCTCTG
1 TTGAAAATTT-TTTTCTCTG
25879 TTGA
1 TTGA
25883 TTATATATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
15 4 0.13
16 4 0.13
17 6 0.19
18 5 0.16
19 4 0.13
20 8 0.26
ACGTcount: A:0.20, C:0.10, G:0.14, T:0.56
Consensus pattern (19 bp):
TTGAAAATTTTTTTCTCTG
Found at i:25863 original size:35 final size:35
Alignment explanation
Indices: 25815--25883 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
25805 TCTCCATTGT
** *
25815 TTTTTTTTTTTGAAAATTTATTTTCTCTGTTGATA
1 TTTTTTTCGTTGAAAATTTATCTTCTCTGTTGATA
*
25850 TTTTTTTCGTTGAAAATTTGTCTTCTCTGTTGAT
1 TTTTTTTCGTTGAAAATTTATCTTCTCTGTTGAT
25884 TATATATTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.17, C:0.09, G:0.12, T:0.62
Consensus pattern (35 bp):
TTTTTTTCGTTGAAAATTTATCTTCTCTGTTGATA
Found at i:26505 original size:27 final size:27
Alignment explanation
Indices: 26467--26526 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
26457 CTGCGCCGCG
26467 CAGACCACGCACAAACATTAGGCTTCC
1 CAGACCACGCACAAACATTAGGCTTCC
* * *
26494 CAGATCACGCACATACATTAGGCTTCG
1 CAGACCACGCACAAACATTAGGCTTCC
26521 CAGACC
1 CAGACC
26527 GTTTATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.35, G:0.17, T:0.17
Consensus pattern (27 bp):
CAGACCACGCACAAACATTAGGCTTCC
Found at i:26696 original size:28 final size:28
Alignment explanation
Indices: 26660--26740 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
26650 TATTAAAATA
** *
26660 ATTTT-AAATAATTTAATAAGGTTATTT
1 ATTTTAAAATAATTTAATAAAATAATTT
*
26687 ATTTTAAAATAATTTATTAAAATAATTT
1 ATTTTAAAATAATTTAATAAAATAATTT
26715 ATTTTAAAATAATTTATTATAAAATA
1 ATTTTAAAATAATTTA--ATAAAATA
26741 TGGATTGATT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.11
28 34 0.74
30 7 0.15
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (28 bp):
ATTTTAAAATAATTTAATAAAATAATTT
Found at i:26703 original size:15 final size:15
Alignment explanation
Indices: 26683--26740 Score: 93
Period size: 15 Copynumber: 4.0 Consensus size: 15
26673 TAATAAGGTT
26683 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
26698 ATTTA--TTAAAATA
1 ATTTATTTTAAAATA
26711 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
26726 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
26741 TGGATTGATT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
13 13 0.32
15 27 0.68
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:26761 original size:37 final size:33
Alignment explanation
Indices: 26683--26903 Score: 148
Period size: 36 Copynumber: 6.5 Consensus size: 33
26673 TAATAAGGTT
*
26683 ATTTATTTTAAAATAATTTATTAA-A---A-TA
1 ATTTATTTTAAAATAATTTATTAATATGGATTG
26711 ATTTATTTTAAAATAATTTATTATAAAATATGGATTG
1 ATTTATTTTAAAATAATTTA-T-T--AATATGGATTG
*
26748 ATTTATTTTAAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAAATAATTTATTAATATGGATTG
* * * ** * *
26781 ATTTATTTTAAAATATGGATTGATTTATTTTAAATA
1 ATTTATTTTAAAATA---ATTTATTAATATGGATTG
** * *
26817 ATTTATTAGAATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAA---AATAATTTA--TT--AATATGGATTG
*
26857 ATTTATTTT-AAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAAATAATTTATTAATATGGATTG
26889 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
26904 TGTATTGATT
Statistics
Matches: 147, Mismatches: 26, Indels: 35
0.71 0.12 0.17
Matches are distributed among these distances:
28 20 0.14
29 1 0.01
30 1 0.01
32 21 0.14
33 31 0.21
34 2 0.01
35 1 0.01
36 32 0.22
37 21 0.14
38 2 0.01
39 3 0.02
40 12 0.08
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.51
Consensus pattern (33 bp):
ATTTATTTTAAAATAATTTATTAATATGGATTG
Found at i:26797 original size:22 final size:22
Alignment explanation
Indices: 26772--26814 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
26762 AATTTATTAG
26772 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
26794 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
26815 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:26833 original size:32 final size:31
Alignment explanation
Indices: 26795--26900 Score: 131
Period size: 32 Copynumber: 3.6 Consensus size: 31
26785 ATTTTAAAAT
26795 ATGGATTGATTTATTTTAAATAATTTATTAG
1 ATGGATTGATTTATTTTAAATAATTTATTAG
26826 AATGGATTGATTTATTTT--A-AA---A-T--
1 -ATGGATTGATTTATTTTAAATAATTTATTAG
26849 ATGGATTGATTTATTTTAAATAATTTATTAG
1 ATGGATTGATTTATTTTAAATAATTTATTAG
26880 TATGGATTGATTTATTTTAAA
1 -ATGGATTGATTTATTTTAAA
26901 ATATGTATTG
Statistics
Matches: 64, Mismatches: 0, Indels: 20
0.76 0.00 0.24
Matches are distributed among these distances:
22 17 0.27
24 1 0.02
25 3 0.05
26 1 0.02
28 1 0.02
29 3 0.05
30 1 0.02
32 37 0.58
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (31 bp):
ATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:26840 original size:54 final size:54
Alignment explanation
Indices: 26726--27631 Score: 418
Period size: 54 Copynumber: 16.8 Consensus size: 54
26716 TTTTAAAATA
*
26726 ATTTATTATAAAATATGGATTGATTTATTTTAAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAAATATGGATTGATTTATTTT-AAATAATTTATTAGTATGGATTG
*
26781 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGAATGGATTG
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
26835 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* *
26889 ATTTATTTTAAAATATGTATTGATTTA--TT--AT--TGTAGTT-GTATGGATTG
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTG
*
26937 ATTTATTTTAAATAATTTATTAGTGTAGATTGATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTT--A-AA---A-TA-TG--GATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* *
27001 ATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATAGATTG
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTG
** * * * ** * * *
27049 ATTTATTTT-AAATAATTTATT-AGTATGAATTGATTTATTTTA-AAATATGGATTG
1 ATTTATTTTAAAAT-ATGGATTGA-T-TTATTTTAAATAATTTATTAGTATGGATTG
*** **
27103 ATTTATTATTGTAGTTGTATATATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTA-T-TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* * * * * * *
27161 ATTTTTTTTAAAATATTGATTGATTTATTATT--GTAGTTGTA-TA-AATTGATTT
1 ATTTATTTTAAAATATGGATTGATTTATT-TTAAATAATT-TATTAGTATGGATTG
* * * * * *
27213 ATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGATT--TAT--TTTA
1 A-TTT--AT--TTTA-AAATATGGATTGATTTATTTT--AA-AT-AATTTATTAGTATGGATTG
* * ** * * * * *
27273 AATAATTTTTTAGTATGAATTGATTTATTTT-AA-AA--TA-T-GGATCGATTT
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* * * ** *
27321 A-TTATTGTAGTAGTAAAGATTGATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* *
27375 ATTTATTTTAAAATATAGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTG
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTG
** * * * ** * *
27423 ATTTATTTT-AAATAATTTATTAGCA--TATATTGATTTTTTTA-AAATATGGATTG
1 ATTTATTTTAAAAT-ATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTG
* *
27476 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTT
1 ATTTA-TTT---TAA---A--A-TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* *** *
27534 A-TTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
27588 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
27632 TTGTAGTTGT
Statistics
Matches: 652, Mismatches: 105, Indels: 189
0.69 0.11 0.20
Matches are distributed among these distances:
45 1 0.00
46 3 0.00
47 14 0.02
48 116 0.18
49 13 0.02
50 15 0.02
51 4 0.01
52 18 0.03
53 30 0.05
54 226 0.35
55 58 0.09
56 10 0.02
57 27 0.04
58 54 0.08
59 6 0.01
60 5 0.01
61 4 0.01
62 9 0.01
63 17 0.03
64 22 0.03
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (54 bp):
ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:26852 original size:22 final size:22
Alignment explanation
Indices: 26827--26868 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
26817 ATTTATTAGA
26827 ATGGATTGATTTATTTTAAAAT
1 ATGGATTGATTTATTTTAAAAT
26849 ATGGATTGATTTATTTTAAA
1 ATGGATTGATTTATTTTAAA
26869 TAATTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (22 bp):
ATGGATTGATTTATTTTAAAAT
Found at i:26948 original size:80 final size:80
Alignment explanation
Indices: 26831--27476 Score: 389
Period size: 80 Copynumber: 8.0 Consensus size: 80
26821 ATTAGAATGG
* * **
26831 ATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT
1 ATTGA-TTATTGTATAATATGGATTGATTTATTTTAAATAATTTATTAGTATAAATTGATTTATT
26896 TTAAAATATGTATTG-
65 TTAAAATATGTATTGA
* ** * *
26911 ATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTGTAGATTGATTTATT
1 ATTGATTATTGTA-TAATATGGATTGATTTATTTTAAATAATTTATTAGTATAAATTGATTTATT
26976 TTAAATAATTTAT-TAGTATGA
65 TT-AA-AA--TATGTA-T-TGA
* * * *
26997 ATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATAGATTGATTTAT
1 ATTGA-TTATTGTATAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATAAATTGATTTAT
27055 TTTAAATAATTTAT-TAGTATGA
64 TTT-AA-AA--TATGTA-T-TGA
* * * *
27077 ATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATATATTGATTTAT
1 ATTGA-TTATTGTATAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATAAATTGATTTAT
*
27135 TTTAAATAATTTAT-TAGTATGG
64 TTT-AA-AA--TATGTA-T-TGA
* * * * *
27157 ATTGATTTTTTTTAAAATATTGATTGATTTA--TT--AT--TGTAGTT-GTATAAATTGATTTAT
1 ATTGA-TTATTGTATAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATAAATTGATTTAT
27215 TTTAAATAATTTAT-TAGTATGA
64 TTT-AA-AA--TATGTA-T-TGA
* * * * *
27237 ATTGATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTTTTAGTATGAATTGATTTATT
1 ATTGA-TTATTGTATAATATGGATTGATTTATTTTAAATAATTTATTAGTATAAATTGATTTATT
* *
27302 TTAAAATATGGATCG-
65 TTAAAATATGTATTGA
* * ** *
27317 ATTTATTATTGTAGTAGTAAAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATT
1 ATTGATTATTGTA-TAATATGGATTGATTTATTTTAAATAATTTATTAGTATAAATTGATTTATT
27382 TTAAAATATAG-ATTG-
65 TTAAAATAT-GTATTGA
* ** * *
27397 ATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGCATATATTGATTT-TT
1 ATTGATTATTGTA-TAATATGGATTGATTTATTTTAAATAATTTATTAGTATAAATTGATTTATT
*
27461 TTAAAATATGGATTGA
65 TTAAAATATGTATTGA
27477 TTTATTTTAA
Statistics
Matches: 501, Mismatches: 43, Indels: 44
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.00
79 29 0.06
80 391 0.78
81 6 0.01
82 10 0.02
83 3 0.01
84 10 0.02
85 6 0.01
86 38 0.08
87 7 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (80 bp):
ATTGATTATTGTATAATATGGATTGATTTATTTTAAATAATTTATTAGTATAAATTGATTTATTT
TAAAATATGTATTGA
Found at i:26956 original size:14 final size:14
Alignment explanation
Indices: 26937--26989 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
26927 GTATGGATTG
26937 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
26951 ATTTATTAGTGTAGATTG
1 ATTTATT--T-TA-AATA
26969 ATTTATTTTAAATA
1 ATTTATTTTAAATA
26983 ATTTATT
1 ATTTATT
26990 AGTATGAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 16 0.52
15 2 0.06
16 2 0.06
17 2 0.06
18 9 0.29
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:26973 original size:32 final size:31
Alignment explanation
Indices: 26927--27012 Score: 136
Period size: 32 Copynumber: 2.7 Consensus size: 31
26917 TATTGTAGTT
26927 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
*
26959 GTGTAGATTGATTTATTTTAAATAATTTATTA
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
26991 GTATGAATTGATTTATTTTAAA
1 GTATG-ATTGATTTATTTTAAA
27013 ATATGGATTG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
31 1 0.02
32 49 0.98
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (31 bp):
GTATGATTGATTTATTTTAAATAATTTATTA
Found at i:27150 original size:160 final size:162
Alignment explanation
Indices: 26798--27306 Score: 594
Period size: 160 Copynumber: 3.1 Consensus size: 162
26788 TTAAAATATG
*
26798 GATTGATTTATTTTAAATAATTTATTAGAATGGATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-
* * *
26863 TTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-GTATTG-ATTTA-TTA
65 -TT--AT--TGTAGTT-GTATAGATTGATTTATTTTAAATAATTTATTAGTA-TGAATTGATTTA
* *** * *
26919 TTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTGTA
123 TTTTA-AAATATGGATTGATTTA--TT-AAT-ATGTATTAGTATA
*
26964 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
27029 TATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
66 TATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
27094 TATGGATTGATTTATT-AT-TGTAGTT-GTATA
131 TATGGATTGATTTATTAATATGTA-TTAGTATA
* * *
27124 TATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTTTTTTAAAATATTGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
*
27189 TATTGTAGTTGTATAAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
66 TATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
* * *
27254 TATGAATTGATTTATTTTAAATAATTTTTTAGTAT-
131 TATGGATTGATTTA--TT-AAT-ATGTATTAGTATA
27289 GAATTGATTTATTTTAAA
1 G-ATTGATTTATTTTAAA
27307 ATATGGATCG
Statistics
Matches: 305, Mismatches: 20, Indels: 36
0.84 0.06 0.10
Matches are distributed among these distances:
160 166 0.54
161 6 0.02
162 8 0.03
164 8 0.03
165 5 0.02
166 105 0.34
167 7 0.02
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (162 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
TATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
TATGGATTGATTTATTAATATGTATTAGTATA
Found at i:27245 original size:32 final size:32
Alignment explanation
Indices: 27199--27306 Score: 128
Period size: 32 Copynumber: 3.7 Consensus size: 32
27189 TATTGTAGTT
*
27199 GTATAAATTGATTTATTTTAAATAATTTATTA
1 GTATGAATTGATTTATTTTAAATAATTTATTA
27231 GTATGAATTGATTTA-TTT---TAA---A--A
1 GTATGAATTGATTTATTTTAAATAATTTATTA
*
27254 -TATGAATTGATTTATTTTAAATAATTTTTTA
1 GTATGAATTGATTTATTTTAAATAATTTATTA
27285 GTATGAATTGATTTATTTTAAA
1 GTATGAATTGATTTATTTTAAA
27307 ATATGGATCG
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
22 14 0.22
23 4 0.06
25 1 0.02
26 3 0.05
28 3 0.05
31 4 0.06
32 35 0.55
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (32 bp):
GTATGAATTGATTTATTTTAAATAATTTATTA
Found at i:27257 original size:22 final size:22
Alignment explanation
Indices: 27232--27274 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
27222 AATTTATTAG
27232 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
27254 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
27275 TAATTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:27265 original size:214 final size:213
Alignment explanation
Indices: 27045--27616 Score: 984
Period size: 214 Copynumber: 2.7 Consensus size: 213
27035 AGTTGTATAG
27045 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT
* *
27110 ATTGTAGTTGTATATATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTTTTTTAAAAT
66 ATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT
* *
27175 ATTGATTGATTTATTATTGTAGTTGTATAAATTGATTTATTTTAAATAATTTATTAGTATGA-AT
131 ATAGATTGATTTATTATTGTAGTTGTATAAATTGATTTATTTTAAATAATTTATTAGCAT-ATAT
27239 TGATTTATTTTAAAATATGA
195 TGATTT-TTTTAAAATATGA
* *
27259 ATTGATTTATTTTAAATAATTTTTTAGTATGAATTGATTTATTTTAAAATATGGATCGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT
* * *
27324 ATTGTAGTAGTAAAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAAT
66 ATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT
**
27389 ATAGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGCATATATT
131 ATAGATTGATTTATTATTGTAGTTGTATAAATTGATTTATTTTAAATAATTTATTAGCATATATT
*
27454 GATTTTTTTAAAATATGG
196 GATTTTTTTAAAATATGA
* *
27472 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT
27537 ATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT
66 ATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT
*
27602 ATGGATTGATTTATT
131 ATAGATTGATTTATT
27617 TTAAATAATT
Statistics
Matches: 337, Mismatches: 20, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
213 150 0.45
214 187 0.55
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (213 bp):
ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT
ATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT
ATAGATTGATTTATTATTGTAGTTGTATAAATTGATTTATTTTAAATAATTTATTAGCATATATT
GATTTTTTTAAAATATGA
Found at i:27289 original size:294 final size:290
Alignment explanation
Indices: 26962--27616 Score: 955
Period size: 294 Copynumber: 2.2 Consensus size: 290
26952 TTTATTAGTG
26962 TAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTT
1 TAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTT
* *
27027 ATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAA
66 ATTATTGTAGTAGTAAAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAA
* * * *
27092 AATATGGATTGATTTATTATTGTAGTTGTATATATTGATTTATTTTAAATAATTTATTAGTATGG
131 AATATAGATTGATTTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGCATAG
*
27157 ATTGATTTTTTTTAAAATATTGATTGATTTA-TT-AT-TGTAGTT-GTATAAATTGATTTATTTT
196 ATTGA-TTTTTTTAAAATATGGATTGATTTATTTAATATGTA-TTAGTATAAATTGATTTATTTT
*
27218 AAATAATTTATTAG-TATGAATTGATTTATTTTA-AAATA
259 -AA-AA--TA-TAGAT-TG-ATTGA-TTATTGTAGAAATA
* *
27256 T-GAATTGATTTATTTTAAATAATTTTTTAGTATGAATTGATTTATTTTAAAATATGGATCGATT
1 TAG-ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATT
27320 TATTATTGTAGTAGTAAAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTA
65 TATTATTGTAGTAGTAAAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTA
*
27385 AAATATAGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGCATA
130 AAATATAGATTGATTTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGCATA
* * **
27450 TATTGATTTTTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT
195 GATTGATTTTTTTAAAATATGGATTGATTTA-TTT-AAT-ATGTATTAGTATAAATTGATTTATT
* ***
27515 TTAAAATATAGATTGATTTATTATTGTAGTTGTA
257 TTAAAATATAGATTGATTGATTATTGTAGAAATA
*
27549 TAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTT
1 TAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTT
27614 ATT
66 ATT
27617 TTAAATAATT
Statistics
Matches: 328, Mismatches: 22, Indels: 23
0.88 0.06 0.06
Matches are distributed among these distances:
292 7 0.02
293 94 0.29
294 194 0.59
295 5 0.02
297 4 0.01
298 4 0.01
299 20 0.06
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (290 bp):
TAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTT
ATTATTGTAGTAGTAAAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAA
AATATAGATTGATTTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGCATAG
ATTGATTTTTTTAAAATATGGATTGATTTATTTAATATGTATTAGTATAAATTGATTTATTTTAA
AATATAGATTGATTGATTATTGTAGAAATA
Found at i:27494 original size:53 final size:54
Alignment explanation
Indices: 27414--27536 Score: 203
Period size: 53 Copynumber: 2.3 Consensus size: 54
27404 ATTGTAGTTG
*
27414 TATGGATTGATTTATTTTAAATAATTTATTAGCATATATTGATTT-TTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGCATAGATTGATTTATTTTAAAA
* *
27467 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGCATAGATTGATTTATTTTAAAA
*
27521 TATAGATTGATTTATT
1 TATGGATTGATTTATT
27537 ATTGTAGTTG
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 42 0.65
54 23 0.35
ACGTcount: A:0.35, C:0.01, G:0.11, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGCATAGATTGATTTATTTTAAAA
Found at i:27524 original size:133 final size:132
Alignment explanation
Indices: 27205--27631 Score: 548
Period size: 133 Copynumber: 3.2 Consensus size: 132
27195 AGTTGTATAA
27205 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATAT-GAATTGATTTAT
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAG-ATTGATTTA-
** * ** * * * *
27269 TTTAAATAAT-TTTTTAGTATGAATTGATTTATTTTAAA-ATATGGA-TCGATTTATT-ATTGTA
64 -TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATA-ATTTATTAGATATATTGATTTTT
* *
27330 GTAGTAA-A--G
122 TTA-AAATATGG
27339 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATTGATTTATT
27404 ATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGCATATATTGATTTTTTTAAAATA
66 ATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG-ATATATTGATTTTTTTAAAATA
27469 TGG
130 TGG
*
27472 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATTGATTTATT
*
27537 ATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAG-TATGGATTGATTTATTTTAAAA
66 ATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGATAT--ATTGATTT-TTTTAAAA
27601 TATGG
128 TATGG
27606 ATTGATTTATTTTAAATAATTTATTA
1 ATTGATTTATTTTAAATAATTTATTA
27632 TTGTAGTTGT
Statistics
Matches: 268, Mismatches: 13, Indels: 24
0.88 0.04 0.08
Matches are distributed among these distances:
128 25 0.09
129 6 0.02
130 10 0.04
131 10 0.04
132 2 0.01
133 114 0.43
134 100 0.37
135 1 0.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (132 bp):
ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATTGATTTATT
ATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGATATATTGATTTTTTTAAAATAT
GG
Found at i:27604 original size:22 final size:22
Alignment explanation
Indices: 27579--27621 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
27569 AATTTATTAG
27579 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
27601 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
27622 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:27681 original size:31 final size:31
Alignment explanation
Indices: 27646--27704 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
27636 AGTTGTATGG
* *
27646 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
27677 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
27705 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:28155 original size:22 final size:22
Alignment explanation
Indices: 28128--28193 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
28118 CAATTTGGTA
*
28128 TGTCTTTTGGCATGTTTTCGT-
1 TGTCTTTTGACATGTTTTCGTC
*
28149 TCGTCTTTTGACACG-TTTCGTC
1 T-GTCTTTTGACATGTTTTCGTC
* *
28171 TGTCTTTTGATATGTTTTGGTC
1 TGTCTTTTGACATGTTTTCGTC
28193 T
1 T
28194 TTTTTATTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
21 18 0.49
22 19 0.51
ACGTcount: A:0.08, C:0.17, G:0.21, T:0.55
Consensus pattern (22 bp):
TGTCTTTTGACATGTTTTCGTC
Found at i:28187 original size:21 final size:20
Alignment explanation
Indices: 28128--28187 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
28118 CAATTTGGTA
*
28128 TGTCTTTTGGCATGTTTTCGT
1 TGTCTTTTGACATG-TTTCGT
*
28149 TCGTCTTTTGACACGTTTCGT
1 T-GTCTTTTGACATGTTTCGT
*
28170 CTGTCTTTTGATATGTTT
1 -TGTCTTTTGACATGTTT
28188 TGGTCTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.08, C:0.17, G:0.20, T:0.55
Consensus pattern (20 bp):
TGTCTTTTGACATGTTTCGT
Found at i:32127 original size:39 final size:39
Alignment explanation
Indices: 32021--32131 Score: 111
Period size: 40 Copynumber: 2.9 Consensus size: 39
32011 ACAAAGTGTC
* *
32021 GTCTCACTAGAGACAA--TTTTCTTAAAAACAAA-TTTT
1 GTCTCGCTTGAGACAACTTTTTCTTAAAAACAAATTTTT
** *
32057 GTCTCGCTTGAGACAACTTTCACTAAAAAAACAAATTTTT
1 GTCTCGCTTGAGACAACTTTTTCT-TAAAAACAAATTTTT
* ** *
32097 GTCTCGCTTGCGACATTTTTTTCTTTAAAACAAAT
1 GTCTCGCTTGAGACAACTTTTTCTTAAAAACAAAT
32132 CCTGAAATTA
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
36 14 0.24
38 4 0.07
39 18 0.31
40 23 0.39
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (39 bp):
GTCTCGCTTGAGACAACTTTTTCTTAAAAACAAATTTTT
Found at i:32350 original size:28 final size:28
Alignment explanation
Indices: 32297--32384 Score: 88
Period size: 32 Copynumber: 3.0 Consensus size: 28
32287 GAAACGCATC
* ** *
32297 ATCTTTGAGTCTGTTTTTCTTGAAACAA
1 ATCTTTGAGTATGTTTCCCTTAAAACAA
32325 ATCTTTGAGTATGTTTCCCTTAAAACACA
1 ATCTTTGAGTATGTTTCCCTTAAAACA-A
32354 ACCCTCTTTGAG-ATTGTTTCCCTTAAAACAA
1 A---TCTTTGAGTA-TGTTTCCCTTAAAACAA
32385 GTTTTGTGTC
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
28 23 0.45
29 2 0.04
31 2 0.04
32 24 0.47
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.40
Consensus pattern (28 bp):
ATCTTTGAGTATGTTTCCCTTAAAACAA
Found at i:32450 original size:126 final size:127
Alignment explanation
Indices: 32230--32541 Score: 395
Period size: 126 Copynumber: 2.5 Consensus size: 127
32220 CTTAAGAAAT
* * * * *
32230 CATCTTTGAG-TCGTTTCCCTTGAAACGAATTTTGTCTCTTTTGAGACAGTTGCTTTAGAAACGC
1 CATCTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAATTTCTTTTGAAACAC
* * *
32294 ATCATCTTTGAGTCTGTTTTTCTTGAAAC-AAA-TCTTTGAGT-ATGTTTC-CCTTAAAACACAA
66 ATCATCTTTGAGGCTATTTCTCTTGAAACAAAAGTCTTTGAGTCA-GTTTCTCC-TAAAACA-AA
* * * * *
32355 CCCTCTTTGAGATTGTTTCCCTTAAAAC-AAGTTTTGTGTCCCTTGAGACAATTTCTTTTGAAAC
1 -CATCTTTGAGATCGTTTCCCTTGAAACGAA-TTTTGTCTCTCTTGAGACAATTTCTTTTGAAAC
*
32419 ACCT-ATCTTTGAGGCTATTTCTCTTGAAACAAAAGTCTTTGAGTCAGTTTCTCCTAAAACAAA
64 ACATCATCTTTGAGGCTATTTCTCTTGAAACAAAAGTCTTTGAGTCAGTTTCTCCTAAAACAAA
*
32482 CATTTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAATTTCTTTTGA
1 CATCTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAATTTCTTTTGA
32542 TAAAAAAATC
Statistics
Matches: 159, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
126 85 0.53
127 50 0.31
128 21 0.13
129 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (127 bp):
CATCTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAATTTCTTTTGAAACAC
ATCATCTTTGAGGCTATTTCTCTTGAAACAAAAGTCTTTGAGTCAGTTTCTCCTAAAACAAA
Found at i:32470 original size:30 final size:30
Alignment explanation
Indices: 32436--32508 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
32426 TTTGAGGCTA
32436 TTTCTCTTGAAACAAA-AGTCTTTGAG-TCAG
1 TTTCTCTTGAAACAAACA-TCTTTGAGATC-G
* * *
32466 TTTCTCCTAAAACAAACATTTTTGAGATCG
1 TTTCTCTTGAAACAAACATCTTTGAGATCG
*
32496 TTTCCCTTGAAAC
1 TTTCTCTTGAAAC
32509 GAATTTTGTC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
30 32 0.91
31 3 0.09
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (30 bp):
TTTCTCTTGAAACAAACATCTTTGAGATCG
Found at i:32565 original size:66 final size:67
Alignment explanation
Indices: 32486--32616 Score: 167
Period size: 67 Copynumber: 2.0 Consensus size: 67
32476 AACAAACATT
* * *
32486 TTTGAGATCGTTTCCCTT-GAAACGAA-TTTTGTCTCTCTTGAGACAATTTCTTTTGATAAAAAA
1 TTTGAGATCGTTT-CCTTGGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCTTTTAAGAAAAAA
32549 ATC
65 ATC
* * * * *
32552 TTTGAGTTTGTTTCTTTGGAAACAAAGTTTTGTCTCTTTTGCGACAATTTCTTTTAAGAAAAAAA
1 TTTGAGATCGTTTCCTTGGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCTTTTAAGAAAAAAA
32617 ATCATCTTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
65 3 0.05
66 18 0.33
67 34 0.62
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.43
Consensus pattern (67 bp):
TTTGAGATCGTTTCCTTGGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCTTTTAAGAAAAAAA
TC
Found at i:32566 original size:126 final size:127
Alignment explanation
Indices: 32230--32577 Score: 390
Period size: 126 Copynumber: 2.8 Consensus size: 127
32220 CTTAAGAAAT
* * * * *
32230 CATCTTTGAG-TCGTTTCCCTTGAAACGAATTTTGTCTCTTTTGAGACAGTTGCTTTAGAAACGC
1 CATCTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAATTTCTTTTGAAAC-A
** *
32294 ATCATCTTTGAGTCTGTTTTTCTTGAAAC-AAATCTTTGAGTATGTTTCCCTTAAAACACAAC
65 AAAATCTTTGAGTCTGTTTCTCTTGAAACAAAATCTTTGAGTATGTTTCCCTTAAAACACAAC
* * * * *
32356 CCTCTTTGAGATTGTTTCCCTTAAAAC-AAGTTTTGTGTCCCTTGAGACAATTTCTTTTGAAACA
1 CATCTTTGAGATCGTTTCCCTTGAAACGAA-TTTTGTCTCTCTTGAGACAATTTCTTTTGAAACA
*** * *
32420 CCTATCTTTGAGGCTATTTCTCTTGAAACAAAAGTCTTTGAGTCA-GTTTCTCC-TAAAACA-AA
65 AAAATCTTTGAGTCTGTTTCTCTTGAAACAAAA-TCTTTGAGT-ATGTTTC-CCTTAAAACACAA
32482 -
127 C
*
32482 CATTTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAATTTCTTTTGATAA-A
1 CATCTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAATTTCTTTTGA-AACA
*
32546 AAAATCTTTGAGTTTGTTTCT-TTGGAAACAAA
65 AAAATCTTTGAGTCTGTTTCTCTT-GAAACAAA
32578 GTTTTGTCTC
Statistics
Matches: 185, Mismatches: 28, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
125 2 0.01
126 109 0.59
127 50 0.27
128 21 0.11
129 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (127 bp):
CATCTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAATTTCTTTTGAAACAA
AAATCTTTGAGTCTGTTTCTCTTGAAACAAAATCTTTGAGTATGTTTCCCTTAAAACACAAC
Found at i:33008 original size:131 final size:131
Alignment explanation
Indices: 32769--33188 Score: 499
Period size: 131 Copynumber: 3.2 Consensus size: 131
32759 TGAAACCATT
*
32769 ACCCCTAGATAACCAGCCGTCATCATCACGTAGGAACCGTGTTATCA-TCCTTAAAGATGGCT-T
1 ACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCATTCC-TAAAGATGG-TAT
* * * * ** *
32832 GCCGTCGTCATCACGTAGGAACCATGTCATCCCCTGACCAGACCTCCTCATCACT-TAGGAGTCG
64 GTCGTCCTCATCACGTAGGAATCGTGTCATCCATTGACCAGACCTCCTCATCA-TATAGGAGCCG
32896 TGTC
128 TGTC
* * *
32900 ACCCTTAGATAATCAGCCGTCCTCATCACGTAGGGACCGTGTTATCATTCCTAAAGATGGTATGT
1 ACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCATTCCTAAAGATGGTATGT
* *
32965 CATCCTCATCACGTAGGAATCGTGTCATCCATTGATCAGACCTCCTCATCATATAGGAGCCGTGT
66 CGTCCTCATCACGTAGGAATCGTGTCATCCATTGACCAGACCTCCTCATCATATAGGAGCCGTGT
33030 C
131 C
* * *** * * * **
33031 AACCTTAGATAA-CATGTTATCTTCATCACGTAGGTACCGTGTTATTATTCCTAAAGATGACATG
1 ACCCCTAGATAACCA-GCCGTCCTCATCACGTAGGAACCGTGTTATCATTCCTAAAGATGGTATG
* ** *
33095 TCGTCCTCATCACGTAGGAATTGTGT-ACTCCATCAACCAGACCTCCTCATCATGTAGGAGCCGT
65 TCGTCCTCATCACGTAGGAATCGTGTCA-TCCATTGACCAGACCTCCTCATCATATAGGAGCCGT
*
33159 ATC
129 GTC
*
33162 ACCCCTAGATAACCAACCGTCCTCATC
1 ACCCCTAGATAACCAGCCGTCCTCATC
33189 GCATATAAAC
Statistics
Matches: 247, Mismatches: 36, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
130 5 0.02
131 237 0.96
132 5 0.02
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (131 bp):
ACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCATTCCTAAAGATGGTATGT
CGTCCTCATCACGTAGGAATCGTGTCATCCATTGACCAGACCTCCTCATCATATAGGAGCCGTGT
C
Found at i:33324 original size:44 final size:40
Alignment explanation
Indices: 33229--33326 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 40
33219 AGATGGCCAA
* * * * *
33229 AACTCTTCATCACGTATGAGCCGTGTTATCCACCGACTAT
1 AACTCTTCATCACGTAGGAGCCGTGTCACCCAACGACTAG
* *
33269 ATCTCCTCATCACGTAGGAGCCGTGTCACCCCTTAGACGACTAG
1 AACTCTTCATCACGTAGGAGCCGTGTCA-CCC--A-ACGACTAG
33313 AACTCTTCATCACG
1 AACTCTTCATCACG
33327 GATGAGTAGT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
40 24 0.53
41 2 0.04
43 1 0.02
44 18 0.40
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (40 bp):
AACTCTTCATCACGTAGGAGCCGTGTCACCCAACGACTAG
Found at i:35603 original size:5 final size:5
Alignment explanation
Indices: 35590--35620 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
35580 TTCTTTTCAC
*
35590 TTTTA TTTTG TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
35621 CTTTGTGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:38542 original size:45 final size:45
Alignment explanation
Indices: 38482--38579 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
38472 ATTCCAGCAA
38482 CTCCACGTTACAAATTCCA-TAAGCTTCCAGCACTGCCAGCA-TCTC
1 CTCCACGTTACAAATTCCAGT-AGCTTCCAGCACTGCCAGCAGTC-C
**
38527 CTCCACGTTGTAAATTCCAGTAGCTTCCAGCACTGCCAGCAGTCC
1 CTCCACGTTACAAATTCCAGTAGCTTCCAGCACTGCCAGCAGTCC
38572 CTCCACGT
1 CTCCACGT
38580 CCCCGTTCCA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
45 46 0.94
46 3 0.06
ACGTcount: A:0.23, C:0.38, G:0.14, T:0.24
Consensus pattern (45 bp):
CTCCACGTTACAAATTCCAGTAGCTTCCAGCACTGCCAGCAGTCC
Found at i:39340 original size:63 final size:64
Alignment explanation
Indices: 39241--39376 Score: 150
Period size: 63 Copynumber: 2.1 Consensus size: 64
39231 AAATTTTCAT
* * ** * * ** *
39241 TTTAGCCACTAAAATCAATTTTTATATGTTTTAATTCTA-TCTTTTAATTTTGTTTTA-CTATAA
1 TTTAGTCACTAAAATAAATTTCCATATATTTTAATTC-AGTATTCGAATTTTATTTTATCTATAA
* *
39304 TTTAGTCACTACAATAAATTTCCATATATTTTAATTCAGTATTCGAATTTTATTTTATTTATAA
1 TTTAGTCACTAAAATAAATTTCCATATATTTTAATTCAGTATTCGAATTTTATTTTATCTATAA
39368 TTTAGTCAC
1 TTTAGTCAC
39377 CGTATATATA
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
62 1 0.02
63 45 0.75
64 14 0.23
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.51
Consensus pattern (64 bp):
TTTAGTCACTAAAATAAATTTCCATATATTTTAATTCAGTATTCGAATTTTATTTTATCTATAA
Found at i:39642 original size:11 final size:11
Alignment explanation
Indices: 39626--39650 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
39616 TCCTTTAAAT
39626 TTTAATTATTA
1 TTTAATTATTA
39637 TTTAATTATTA
1 TTTAATTATTA
39648 TTT
1 TTT
39651 TATTTTAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTAATTATTA
Found at i:43417 original size:72 final size:72
Alignment explanation
Indices: 43300--43436 Score: 213
Period size: 72 Copynumber: 1.9 Consensus size: 72
43290 ATATACAATA
* * * * *
43300 AAGCTTGAGTTATTCCCCTAAAGCAATTGGTTAATCGCTCCGGCTTTATGGATAATATTCAGCTA
1 AAGCTAGAGTTATCCCCCTAAAGAAATTGGTTAATCACCCCGGCTTTATGGATAATATTCAGCTA
43365 GCCTGTT
66 GCCTGTT
43372 AAGCTAGAGTTA-CCCCTCTAAAGAAATTGGTTAATCACCCCGGCTTTATGGATAATATTCAGCT
1 AAGCTAGAGTTATCCCC-CTAAAGAAATTGGTTAATCACCCCGGCTTTATGGATAATATTCAGCT
43436 A
65 A
43437 ACTTGTTATA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 3 0.05
72 56 0.95
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (72 bp):
AAGCTAGAGTTATCCCCCTAAAGAAATTGGTTAATCACCCCGGCTTTATGGATAATATTCAGCTA
GCCTGTT
Found at i:45059 original size:16 final size:18
Alignment explanation
Indices: 45034--45067 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
45024 AATGAGACAG
45034 AAATGTGTGAAG-AATGA
1 AAATGTGTGAAGCAATGA
45051 AAATG-GTGAAGCAATGA
1 AAATGTGTGAAGCAATGA
45068 CAGTAGAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.47, C:0.03, G:0.29, T:0.21
Consensus pattern (18 bp):
AAATGTGTGAAGCAATGA
Found at i:45367 original size:55 final size:54
Alignment explanation
Indices: 45231--45446 Score: 301
Period size: 54 Copynumber: 4.0 Consensus size: 54
45221 TGATTGAGAA
* *
45231 ATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATG-TTTACCAAC
1 ATCTGGGCAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGTTTTACGAAC
*
45284 ATCTAGGG-AGAAGCCACAAGAAATGATGAATGTGTTGTCAAATGTTTTACGAAAC
1 ATCT-GGGCAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGTTTTACG-AAC
* * * *
45339 ATCTGGGCAGAAGCCATAGGAAAAGATGAATGTGTTGTTAAATGCTTTACGAAC
1 ATCTGGGCAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGTTTTACGAAC
* * * *
45393 ATATGTGCAGAAACCACAGGAAATGATGAATGTGTTGTCAAATGTTTTATGAAC
1 ATCTGGGCAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGTTTTACGAAC
45447 TATTGATTAT
Statistics
Matches: 143, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
53 38 0.27
54 60 0.42
55 45 0.31
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (54 bp):
ATCTGGGCAGAAGCCACAGGAAATGATGAATGTGTTGTCAAATGTTTTACGAAC
Found at i:45437 original size:109 final size:108
Alignment explanation
Indices: 45231--45441 Score: 325
Period size: 109 Copynumber: 1.9 Consensus size: 108
45221 TGATTGAGAA
* * *
45231 ATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTACCAACATCTAGGGAGAA
1 ATCTGGGCAGAAGCCACAGGAAAAGATGAATGTGTTGTCAAATGTTTACCAACATATAGGCAGAA
*
45296 GCCACAAGAAATGATGAATGTGTTGTCAAATGTTTTACGAAAC
66 ACCACAAGAAATGATGAATGTGTTGTCAAATGTTTTACGAAAC
* * *
45339 ATCTGGGCAGAAGCCATAGGAAAAGATGAATGTGTTGTTAAATGCTTTACGAACATAT-GTGCAG
1 ATCTGGGCAGAAGCCACAGGAAAAGATGAATGTGTTGTCAAATG-TTTACCAACATATAG-GCAG
*
45403 AAACCACAGGAAATGATGAATGTGTTGTCAAATGTTTTA
64 AAACCACAAGAAATGATGAATGTGTTGTCAAATGTTTTA
45442 TGAACTATTG
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
108 42 0.45
109 51 0.55
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (108 bp):
ATCTGGGCAGAAGCCACAGGAAAAGATGAATGTGTTGTCAAATGTTTACCAACATATAGGCAGAA
ACCACAAGAAATGATGAATGTGTTGTCAAATGTTTTACGAAAC
Found at i:46619 original size:73 final size:73
Alignment explanation
Indices: 46536--46796 Score: 432
Period size: 73 Copynumber: 3.6 Consensus size: 73
46526 GGATGTTTTC
* *
46536 AAATATCAATTTATCTCAATTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
46601 TTCACTTG
66 TTCACTTG
* ** * *
46609 AAATAACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAATTTGTTTCTCTCTAGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
46674 TTCACTTG
66 TTCACTTG
* *
46682 AAATAGCAATTTATCTCACTTGAGAGTGTTTTTCTTAAAACAAACTCTTTCTCGCTGGAGAAAGT
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
*
46747 TTCACTCG
66 TTCACTTG
46755 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
1 AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
46797 TTTCAAGAAT
Statistics
Matches: 173, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 173 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (73 bp):
AAATAGCAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGT
TTCACTTG
Found at i:46875 original size:39 final size:39
Alignment explanation
Indices: 46832--47100 Score: 342
Period size: 39 Copynumber: 6.9 Consensus size: 39
46822 AGAATGTGTT
* * * *
46832 TGAAGAGGAATAAAAAGTTCTTAGTATGAAGAACTCATA
1 TGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAACTCATC
* * *
46871 TGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACTCGTC
1 TGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAACTCATC
* *
46910 TGAAGAGGAAGAAGAAGTTCATAGTCTGAAGAACTCGTC
1 TGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAACTCATC
* * * *
46949 TAAAGAGGAA-AAAGGAGTTCATAATCTGAAGAACTCGTC
1 TGAAGAGGAAGAAA-AAGTTCATAGTCTGAAGAACTCATC
* * * *
46988 TGAAGAGCAAGAAGAAGTTCAAAGTCTGAAGAACTCATA
1 TGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAACTCATC
** *
47027 TGAAGAGGAAGAATGAGTTCATAATCTGAAGAACTCATC
1 TGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAACTCATC
47066 TGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAACT
1 TGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAACT
47101 TATTCAACCT
Statistics
Matches: 199, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
38 2 0.01
39 195 0.98
40 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (39 bp):
TGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAACTCATC
Found at i:46940 original size:78 final size:77
Alignment explanation
Indices: 46801--47100 Score: 422
Period size: 78 Copynumber: 3.8 Consensus size: 77
46791 AAAACATTTC
* * * * *
46801 AAGAATGAGTTCATAATCTGAAGAA-TGTGTTTGAAGAGGAATAAAAAGTTCTTAGTATGAAGAA
1 AAGAA-GAGTTCATAATCTGAAGAACT-CGTCTGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAA
46865 CTCATATGAAGAGG
64 CTCATATGAAGAGG
*
46879 AAGAAGAAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAAGAAGTTCATAGTCTGAAGAAC
1 AAGAAG-AGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAAC
* * *
46944 TCGTCTAAAGAGG
65 TCATATGAAGAGG
* * * *
46957 AAAAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGCAAGAAGAAGTTCAAAGTCTGAAGAAC
1 AAGAA-GAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAAC
47022 TCATATGAAGAGG
65 TCATATGAAGAGG
*
47035 AAGAATGAGTTCATAATCTGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAAC
1 AAGAA-GAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAAC
47100 T
65 T
47101 TATTCAACCT
Statistics
Matches: 198, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
77 1 0.01
78 195 0.98
79 2 0.01
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (77 bp):
AAGAAGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAACT
CATATGAAGAGG
Found at i:47007 original size:117 final size:117
Alignment explanation
Indices: 46801--47100 Score: 374
Period size: 117 Copynumber: 2.6 Consensus size: 117
46791 AAAACATTTC
** * * * * * *
46801 AAGAATGAGTTCATAATCTGAAGAA-TGTGTTTGAAGAGGAATAAAAAGTTCTTAGTATGAAGAA
1 AAGAATGAGTTCATAATCTGAAGAACT-CATCTAAAGAGGAAGAAAAAGTTCATAATCTGAAGAA
* * *
46865 CTCATATGAAGAGGAAGAAGAAGTTCATAA-TCTGAAGAACTCGTCTGAAGAGG
65 CTCATATGAAGAGCAAGAAGAAGTTCA-AAGTCTGAAGAACTCATATGAAGAGG
* * *
46918 AAGAA-GAAGTTCATAGTCTGAAGAACTCGTCTAAAGAGGAA-AAAGGAGTTCATAATCTGAAGA
1 AAGAATG-AGTTCATAATCTGAAGAACTCATCTAAAGAGGAAGAAA-AAGTTCATAATCTGAAGA
* *
46981 ACTCGTCTGAAGAGCAAGAAGAAGTTCAAAGTCTGAAGAACTCATATGAAGAGG
64 ACTCATATGAAGAGCAAGAAGAAGTTCAAAGTCTGAAGAACTCATATGAAGAGG
* *
47035 AAGAATGAGTTCATAATCTGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAGTCTGAAGAAC
1 AAGAATGAGTTCATAATCTGAAGAACTCATCTAAAGAGGAAGAAAAAGTTCATAATCTGAAGAAC
47100 T
66 T
47101 TATTCAACCT
Statistics
Matches: 159, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
116 6 0.04
117 148 0.93
118 5 0.03
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (117 bp):
AAGAATGAGTTCATAATCTGAAGAACTCATCTAAAGAGGAAGAAAAAGTTCATAATCTGAAGAAC
TCATATGAAGAGCAAGAAGAAGTTCAAAGTCTGAAGAACTCATATGAAGAGG
Found at i:47518 original size:44 final size:45
Alignment explanation
Indices: 47397--47518 Score: 133
Period size: 45 Copynumber: 2.7 Consensus size: 45
47387 ATTCCAGCAG
* * *
47397 CTCCACGTTACAAATTCCATCATCTTCCAGCACTGCCAGAAGCCC
1 CTCCACGTTCCAAATTCCATCAGCTTCCAGCAATGCCAGAAGCCC
* *
47442 CTCCACGTTGCAAATTCCAGT-AGCTTCCAGCAATGCCAGCAA-TCC
1 CTCCACGTTCCAAATTCCA-TCAGCTTCCAGCAATGCCAG-AAGCCC
***
47487 CTCCACG-TCCCCGTTCCATCAGCTTCCAGCAA
1 CTCCACGTTCCAAATTCCATCAGCTTCCAGCAA
47519 GCATCAACCG
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
43 1 0.02
44 19 0.29
45 43 0.65
46 3 0.05
ACGTcount: A:0.25, C:0.40, G:0.13, T:0.22
Consensus pattern (45 bp):
CTCCACGTTCCAAATTCCATCAGCTTCCAGCAATGCCAGAAGCCC
Found at i:48230 original size:63 final size:64
Alignment explanation
Indices: 48146--48282 Score: 181
Period size: 63 Copynumber: 2.2 Consensus size: 64
48136 AAAATTTCAT
* * * * *
48146 TTTAGCCACTAAAATCAATTTTTATATATTTTAATTCTATCT-TT-TAATTTTGTTTTA-TTATA
1 TTTAGTCACTAAAATAAATTTTCATATATTTTAATTC-AT-TATTCAAATTTTATTTTATTTATA
48208 A
64 A
*
48209 TTTAGTCACTACAATAAATTTTCATATATTTTAATTCATTATTCAAATTTTATTTTATTTATAA
1 TTTAGTCACTAAAATAAATTTTCATATATTTTAATTCATTATTCAAATTTTATTTTATTTATAA
48273 TTTAGTCACT
1 TTTAGTCACT
48283 GTATATATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
61 1 0.02
62 4 0.06
63 44 0.68
64 16 0.25
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.54
Consensus pattern (64 bp):
TTTAGTCACTAAAATAAATTTTCATATATTTTAATTCATTATTCAAATTTTATTTTATTTATAA
Found at i:51959 original size:3 final size:3
Alignment explanation
Indices: 51941--51987 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
51931 GATCTGTTTG
* *
51941 TAA TAA T-A TAA TTAA TAA TAA TAA TAA TAA AAA TAA TAA AAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
51986 TA
1 TA
51988 CAATAACAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Done.