Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007302.1 Hibiscus syriacus cultivar Beakdansim tig00019439_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: 101247
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:2953 original size:16 final size:16
Alignment explanation
Indices: 2932--2974 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
2922 AGAGCCTGTA
2932 TGGTTCAACCATCAGG
1 TGGTTCAACCATCAGG
*
2948 TGGTTCAGCCATCAGG
1 TGGTTCAACCATCAGG
*
2964 TGGTACAACCA
1 TGGTTCAACCA
2975 ATTGAACTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (16 bp):
TGGTTCAACCATCAGG
Found at i:6413 original size:36 final size:36
Alignment explanation
Indices: 6335--6480 Score: 249
Period size: 36 Copynumber: 4.1 Consensus size: 36
6325 GTAAAGGATG
* *
6335 AGAAATTCACTGAGCAAAGCTGAAGAAAAAAGTTGA
1 AGAAATTCACTGAGCAAAGCTGAAGGAAAAAGCTGA
6371 AG-AATTCACTGAGCAAAGCTGAAGGAAAAAGCTGA
1 AGAAATTCACTGAGCAAAGCTGAAGGAAAAAGCTGA
*
6406 AGAAATTCACTGAGCAAAGTTGAAGGAAAAAGCTGA
1 AGAAATTCACTGAGCAAAGCTGAAGGAAAAAGCTGA
*
6442 AGAAATTCACTGAGCAAAGATGAAGGAAAAAGCTGA
1 AGAAATTCACTGAGCAAAGCTGAAGGAAAAAGCTGA
6478 AGA
1 AGA
6481 TTAAGCATGT
Statistics
Matches: 105, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
35 33 0.31
36 72 0.69
ACGTcount: A:0.49, C:0.12, G:0.25, T:0.15
Consensus pattern (36 bp):
AGAAATTCACTGAGCAAAGCTGAAGGAAAAAGCTGA
Found at i:6476 original size:72 final size:71
Alignment explanation
Indices: 6335--6480 Score: 247
Period size: 71 Copynumber: 2.0 Consensus size: 71
6325 GTAAAGGATG
* *
6335 AGAAATTCACTGAGCAAAGCTGAAGAAAAAAGTTGAAGAATTCACTGAGCAAAGCTGAAGGAAAA
1 AGAAATTCACTGAGCAAAGCTGAAGAAAAAAGCTGAAGAATTCACTGAGCAAAGATGAAGGAAAA
6400 AGCTGA
66 AGCTGA
* *
6406 AGAAATTCACTGAGCAAAGTTGAAGGAAAAAGCTGAAGAAATTCACTGAGCAAAGATGAAGGAAA
1 AGAAATTCACTGAGCAAAGCTGAAGAAAAAAGCTGAAG-AATTCACTGAGCAAAGATGAAGGAAA
6471 AAGCTGA
65 AAGCTGA
6478 AGA
1 AGA
6481 TTAAGCATGT
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
71 35 0.50
72 35 0.50
ACGTcount: A:0.49, C:0.12, G:0.25, T:0.15
Consensus pattern (71 bp):
AGAAATTCACTGAGCAAAGCTGAAGAAAAAAGCTGAAGAATTCACTGAGCAAAGATGAAGGAAAA
AGCTGA
Found at i:15028 original size:59 final size:58
Alignment explanation
Indices: 14786--15032 Score: 184
Period size: 59 Copynumber: 4.2 Consensus size: 58
14776 GAACAGTGCT
* * *
14786 CTATCTGGAAGAT-CATA-CACTTAGTATGCTTCCCCTTTCATTTTAGCACA-AGAAGTGCC
1 CTATCTGGAA-ATCCATACCA-TTAGTATGATT-CCCTTCCATTTTAGCACATA-AAATGCC
** *** *
14845 CTAT-TCAAAAATCCATACCATTAGTATGATTTTGTTACCATTTTAGCACATGAAATGCC
1 CTATCT-GGAAATCCATACCATTAGTATGATTCCCTT-CCATTTTAGCACATAAAATGCC
* * * * * * * *
14904 CTATGTGAAAATCCATACCATTAGTATGATTTCCTTCC-TTGTAGCACCCT-TAGTGCT
1 CTATCTGGAAATCCATACCATTAGTATGATTCCCTTCCATTTTAGCA-CATAAAATGCC
* * *
14961 TTATCTGGAAATTCATA-CACTCAGTATGATTCCCTTACCATTTTAGCACATAAAATGCC
1 CTATCTGGAAATCCATACCA-TTAGTATGATTCCCTT-CCATTTTAGCACATAAAATGCC
15020 CTATCTGGAAATC
1 CTATCTGGAAATC
15033 TATATTTTCA
Statistics
Matches: 147, Mismatches: 30, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
56 2 0.01
57 38 0.26
58 13 0.09
59 91 0.62
60 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (58 bp):
CTATCTGGAAATCCATACCATTAGTATGATTCCCTTCCATTTTAGCACATAAAATGCC
Found at i:15048 original size:116 final size:117
Alignment explanation
Indices: 14879--15127 Score: 272
Period size: 117 Copynumber: 2.1 Consensus size: 117
14869 TATGATTTTG
* * * *
14879 TTACCATTTTAGCACATGAAATGCCCTATGTGAAAATCCATACCATTAGTATGA-TTTCCT-TCC
1 TTACCATTTTAGCACATAAAATGCCCTATCTGAAAATCCATACCATTAATATGATTTTCCTATCA
* * ** * *
14942 TTGTAGCACCCTTAGTGCTTTATCTGGAAAT-TCATACACTCAGTATGATTCCC
66 TT-TAGCACACTCAGTGCTCCATATGAAAATCT-ATACACTCAGTATGATTCCC
* * ** *
14995 TTACCATTTTAGCACATAAAATGCCCTATCTGGAAATCTATA-TTTTCAATATGATTTTCTTATC
1 TTACCATTTTAGCACATAAAATGCCCTATCTGAAAATCCATACCATT-AATATGATTTTCCTATC
* *
15059 ATTTAGCACACTCGGTGCTCCATATGAAAATCTATACACTCAGTATGATTTCC
65 ATTTAGCACACTCAGTGCTCCATATGAAAATCTATACACTCAGTATGATTCCC
* *
15112 TTATCATCTTAGCACA
1 TTACCATTTTAGCACA
15128 CAAAGTGTCA
Statistics
Matches: 110, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
115 2 0.02
116 44 0.40
117 59 0.54
118 5 0.05
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (117 bp):
TTACCATTTTAGCACATAAAATGCCCTATCTGAAAATCCATACCATTAATATGATTTTCCTATCA
TTTAGCACACTCAGTGCTCCATATGAAAATCTATACACTCAGTATGATTCCC
Found at i:19198 original size:60 final size:60
Alignment explanation
Indices: 19126--19238 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 60
19116 AATGAAGGAA
*
19126 ATAGTTTGAGGATGAAAATAAAATATTGAAAAGTTTAAAGACTAATTTAAAATTATAGTC
1 ATAGTTTAAGGATGAAAATAAAATATTGAAAAGTTTAAAGACTAATTTAAAATTATAGTC
* *** * **
19186 ATAGTTTAAGGATGAAATTGGTATATTTAAAAGTTTAGGGACTAATTTAAAAT
1 ATAGTTTAAGGATGAAAATAAAATATTGAAAAGTTTAAAGACTAATTTAAAAT
19239 AAAAACCATA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.35
Consensus pattern (60 bp):
ATAGTTTAAGGATGAAAATAAAATATTGAAAAGTTTAAAGACTAATTTAAAATTATAGTC
Found at i:19450 original size:17 final size:18
Alignment explanation
Indices: 19411--19457 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
19401 TGTTTCTGAG
*
19411 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTATGAA
*
19429 GGAATTGGAATCTAT-CA
1 GGAATTGGAATCTATGAA
19446 GGAATTGGAATC
1 GGAATTGGAATC
19458 CAATTACATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (18 bp):
GGAATTGGAATCTATGAA
Found at i:20269 original size:228 final size:225
Alignment explanation
Indices: 19873--20340 Score: 683
Period size: 228 Copynumber: 2.0 Consensus size: 225
19863 TGAATTAGAA
*
19873 ACCCGACCCGAAATAATAAAAAAATTATTTTTATTAAATAAAAATAGTGACTTAATTGAAAAAAA
1 ACCCGACCCGAAATAATAAAAAAATTATTTTTATTAAATAAAAACAGTGACTTAATTGAAAAAAA
* * *
19938 TTATATATAGAAGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTTTTTG
66 TTATATATAGAAGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATTATTCG
*
20003 GGTCGGGTCGGGTATTTTTCACCC--TAAACCTAAACCCGACCCGACCCGAATATCACACTTAAA
131 GGTCGGGTCGGGTATTTTTCACCCTATAAACC---ACTCGACCCGACCCGAATATCACACTT-AA
*
20066 AAAAACCAACCCGACCTGACCAAAATAAAGTTTC
192 AAAAACCAACCCGACCCGACCAAAATAAAGTTTC
* *
20100 ACCCGACCCGAAATAATAAAAAATTTATTTTTATTCAATAAAAACAGTGACTTAATTAGAAAAAA
1 ACCCGACCCGAAATAATAAAAAAATTATTTTTATTAAATAAAAACAGTGACTTAATT-GAAAAAA
* *
20165 ATTATATATATAGGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATATATT
65 ATTATATATAGAAGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATAT-TATT
20230 CGGGTCGGGTCGGGTTGAGTATTTTTCA-CCT-TAAACCCGAACTCGACCCGACCCGAATATCAC
129 CGGGTCGGGTC--G--G-GTATTTTTCACCCTATAAA-CC--ACTCGACCCGACCCGAATATCAC
*
20293 ACTTAAAAAAACCGACCCGACCCGACCAAAATAAAGTTTC
186 ACTTAAAAAAACCAACCCGACCCGACCAAAATAAAGTTTC
20333 ACCCGACC
1 ACCCGACC
20341 TGACCCGAAT
Statistics
Matches: 220, Mismatches: 12, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
227 54 0.25
228 64 0.29
229 13 0.06
231 1 0.00
233 45 0.20
234 41 0.19
235 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.29
Consensus pattern (225 bp):
ACCCGACCCGAAATAATAAAAAAATTATTTTTATTAAATAAAAACAGTGACTTAATTGAAAAAAA
TTATATATAGAAGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATTATTCG
GGTCGGGTCGGGTATTTTTCACCCTATAAACCACTCGACCCGACCCGAATATCACACTTAAAAAA
ACCAACCCGACCCGACCAAAATAAAGTTTC
Found at i:31704 original size:21 final size:21
Alignment explanation
Indices: 31674--31750 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 21
31664 ATTATGACTA
* * *
31674 TCGCAATGCGATTTTTCAATT
1 TCGCATTGCGATTTTCCAAAT
*
31695 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
*
31716 TCGCATTGCGACGATTTTCCCAAT
1 TCGCATT--G-CGATTTTCCAAAT
*
31740 TCGCAATGCGA
1 TCGCATTGCGA
31751 ATAAGTAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
21 26 0.57
22 1 0.02
23 1 0.02
24 18 0.39
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:31735 original size:24 final size:24
Alignment explanation
Indices: 31703--31750 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
31693 TTTCGCGTTG
*
31703 CGATTTTCCAAATTCGCATTGCGA
1 CGATTTTCCAAATTCGCAATGCGA
*
31727 CGATTTTCCCAATTCGCAATGCGA
1 CGATTTTCCAAATTCGCAATGCGA
31751 ATAAGTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (24 bp):
CGATTTTCCAAATTCGCAATGCGA
Found at i:31765 original size:20 final size:21
Alignment explanation
Indices: 31740--31791 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
31730 TTTTCCCAAT
*
31740 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
31760 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
31781 TCGCAATGCGA
1 TCGCAATGCGA
31792 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:31826 original size:41 final size:41
Alignment explanation
Indices: 31737--31873 Score: 102
Period size: 41 Copynumber: 3.3 Consensus size: 41
31727 CGATTTTCCC
* * * **
31737 AATTCGCAATGCGAAT-AAGTAAATCGCAATGCGAATTTGGA-
1 AATTCGCAATGCGATTGACGT-ATTCGCAATGC-AATTTTCAT
* *
31778 AAATCGCAATGCGATACTGAC-TA-TCGCAATGCAATTTTCCT
1 AATTCGCAATGCGAT--TGACGTATTCGCAATGCAATTTTCAT
* * ** *
31819 AATTCGCATTGCGATTTACGTATTCGCGTTGCGATTTTCAT
1 AATTCGCAATGCGATTGACGTATTCGCAATGCAATTTTCAT
31860 AATTCGCAATGCGA
1 AATTCGCAATGCGA
31874 ATTAGGAAAA
Statistics
Matches: 76, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
39 3 0.04
40 7 0.09
41 62 0.82
42 1 0.01
43 2 0.03
44 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (41 bp):
AATTCGCAATGCGATTGACGTATTCGCAATGCAATTTTCAT
Found at i:31835 original size:21 final size:21
Alignment explanation
Indices: 31801--31873 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
31791 ATACTGACTA
* *
31801 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
31822 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
31842 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
31863 TCGCAATGCGA
1 TCGCAATGCGA
31874 ATTAGGAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:31929 original size:20 final size:20
Alignment explanation
Indices: 31740--31934 Score: 76
Period size: 20 Copynumber: 9.6 Consensus size: 20
31730 TTTTCCCAAT
*
31740 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATACGTAAA
** *
31760 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
31781 TCGCAATGCG-ATAC-TGACTA
1 TCGCAATGCGAATACGT-A-AA
* * *
31801 TCGCAATGC-AATTTTCCTAAT
1 TCGCAATGCGAA--TACGTAAA
* * *
31822 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGA-ATACGTAAA
** * * * *
31842 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGA-ATACGTAAA
* *
31863 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
31884 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
31904 TTGCAATGCGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
31924 TCGCAATGCGA
1 TCGCAATGCGA
31935 TTTACATAGC
Statistics
Matches: 132, Mismatches: 31, Indels: 24
0.71 0.17 0.13
Matches are distributed among these distances:
19 5 0.04
20 70 0.53
21 52 0.39
22 4 0.03
23 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:32515 original size:19 final size:19
Alignment explanation
Indices: 32491--32535 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
32481 GCAACGAGAG
*
32491 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
32510 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
32529 AATCGCA
1 AATCGCA
32536 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:32572 original size:14 final size:14
Alignment explanation
Indices: 32553--32641 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
32543 TTTCATTTCG
32553 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
32567 CGTTGCAATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
32586 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
32600 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
32619 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
32633 CGTTGCGAT
1 CGTTGCGAT
32642 AGTCATTTCC
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 29 0.49
16 5 0.08
17 5 0.08
19 20 0.34
ACGTcount: A:0.11, C:0.25, G:0.22, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:32583 original size:33 final size:33
Alignment explanation
Indices: 32536--32665 Score: 206
Period size: 33 Copynumber: 3.9 Consensus size: 33
32526 CAAAATCGCA
**
32536 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
* **
32569 TTGCAATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
32602 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
32635 TTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 TTGCGATAGTCATTT-CGCGTTGCGATTCTC
32666 ATTATCTCGT
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
33 77 0.84
34 15 0.16
ACGTcount: A:0.12, C:0.25, G:0.22, T:0.42
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
Found at i:43720 original size:19 final size:20
Alignment explanation
Indices: 43696--43743 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
43686 AACTATTTTC
*
43696 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
43715 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
43735 TTTTGAAAA
1 TTTTGAAAA
43744 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:45113 original size:19 final size:19
Alignment explanation
Indices: 45086--45151 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 19
45076 AATGTTTTTA
* *
45086 TAAATAGTAATTTACTATT
1 TAAACAGTAAATTACTATT
45105 TAAACAGTAAATTACTATT
1 TAAACAGTAAATTACTATT
* * *
45124 TGAACAGTAAATCACTGTT
1 TAAACAGTAAATTACTATT
*
45143 TGAACAGTA
1 TAAACAGTA
45152 CCCCCGAGGC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (19 bp):
TAAACAGTAAATTACTATT
Found at i:46930 original size:21 final size:21
Alignment explanation
Indices: 46906--46972 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
46896 TCATTCCTCG
46906 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
46927 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
46948 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
46969 AGAG
1 AGAG
46973 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:46930 original size:42 final size:42
Alignment explanation
Indices: 46854--46972 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
46844 GACTCGCATG
* * * * * * *
46854 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
46896 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
46938 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
46973 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:48348 original size:14 final size:14
Alignment explanation
Indices: 48329--48362 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
48319 ATTGTTTAAT
48329 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
48343 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
48357 TGATTT
1 TGATTT
48363 TTAATTGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:48506 original size:14 final size:14
Alignment explanation
Indices: 48487--48543 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
48477 GCGAAATGAA
48487 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
48501 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
48520 AATCGCAACGAGAG
1 AATCGCAACGAGAG
48534 AATCGCAACG
1 AATCGCAACG
48544 CGAAATTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:48514 original size:33 final size:33
Alignment explanation
Indices: 48469--48558 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
48459 AAAAAGTACT
*
48469 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
48502 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
48535 ATCGCAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
48559 GTTGCGATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:48528 original size:19 final size:19
Alignment explanation
Indices: 48469--48529 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
48459 AAAAAGTACT
*
48469 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
48488 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
48502 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
48521 ATCGCAACG
1 ATCGCAACG
48530 AGAGAATCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 19 0.54
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:48601 original size:33 final size:32
Alignment explanation
Indices: 48558--48684 Score: 148
Period size: 33 Copynumber: 3.9 Consensus size: 32
48548 ATTAAATTCG
*
48558 CGTTGCGATTTTCATTTCACATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* * **
48591 CGTTGAGATTTTCATTTGGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
48624 CGTTGCGATTTTCATTTTGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
*
48657 CGTTGCGATTTTCATTTCGTATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
48685 AGTAATTTCT
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
31 3 0.04
33 73 0.92
35 3 0.04
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.44
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:48659 original size:66 final size:66
Alignment explanation
Indices: 48551--48683 Score: 203
Period size: 66 Copynumber: 2.0 Consensus size: 66
48541 ACGCGAAATT
* *
48551 AAATTCGCGTTGCGATTTTCATTTCACATTGCGATTCCCTCGTTGAGATTTTCATTTGGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCACATTGCGATTCCCTCGTTGAGATTTTCATTTCGCATTGC
48616 G
66 G
** * * *
48617 AAATTAGCGTTGCGATTTTCATTTTGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGTATTGC
1 AAATTAGCGTTGCGATTTTCATTTCACATTGCGATTCCCTCGTTGAGATTTTCATTTCGCATTGC
48682 G
66 G
48683 A
1 A
48684 TAGTAATTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.43
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCACATTGCGATTCCCTCGTTGAGATTTTCATTTCGCATTGC
G
Found at i:48681 original size:19 final size:18
Alignment explanation
Indices: 48626--48684 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
48616 GAAATTAGCG
*
48626 TTGCGATTTTCATTTTGCA
1 TTGCGATTTTCATTTCG-A
*
48645 TTGCGA--TTC-TCTCG-
1 TTGCGATTTTCATTTCGA
48659 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCG-A
48678 TTGCGAT
1 TTGCGAT
48685 AGTAATTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 6 0.19
16 6 0.19
17 7 0.22
19 13 0.41
ACGTcount: A:0.14, C:0.19, G:0.19, T:0.49
Consensus pattern (18 bp):
TTGCGATTTTCATTTCGA
Found at i:50993 original size:12 final size:12
Alignment explanation
Indices: 50976--51000 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50966 TCTTCGGGGA
50976 CTTTTTCTTCTT
1 CTTTTTCTTCTT
50988 CTTTTTCTTCTT
1 CTTTTTCTTCTT
51000 C
1 C
51001 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:52038 original size:20 final size:21
Alignment explanation
Indices: 52013--52064 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
52003 TTTTCCTAAT
*
52013 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
52033 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
52054 TCGCAATGCGA
1 TCGCAATGCGA
52065 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:52086 original size:20 final size:20
Alignment explanation
Indices: 52053--52132 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
52043 AATTTGGAAA
* *
52053 ATCGCAATGCGATACTGACT
1 ATCGCAACGAGATACTGACT
* *
52073 ATCGCAACGAGATAAT-ACAAAA
1 ATCGCAACGAGATACTGAC---T
*
52095 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATACTGACT
* *
52115 TTCGCAACGAGATTCTGA
1 ATCGCAACGAGATACTGA
52133 AAATCGCAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
19 2 0.04
20 30 0.62
22 14 0.29
23 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGAGATACTGACT
Found at i:52139 original size:20 final size:20
Alignment explanation
Indices: 52092--52141 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
52082 AGATAATACA
52092 AAAATCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
***
52112 ACTTTCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
52132 AAAATCGCAA
1 AAAATCGCAA
52142 TCATCTTCAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGAGATTCTG
Found at i:52380 original size:20 final size:20
Alignment explanation
Indices: 52355--52450 Score: 104
Period size: 20 Copynumber: 4.8 Consensus size: 20
52345 CAACGGGGAA
*
52355 ATCGCAACTCAAAAATGGCT
1 ATCGCAACTCGAAAATGGCT
*
52375 ATCGCAACGCGAAAATGGCT
1 ATCGCAACTCGAAAATGGCT
* ***
52395 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACTCGAAAATG-GCT
*
52415 ATCGCAACGCGAAAATGGCT
1 ATCGCAACTCGAAAATGGCT
*
52435 ATCGCAACTAGAAAAT
1 ATCGCAACTCGAAAAT
52451 CGCAATGCGA
Statistics
Matches: 60, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
19 5 0.08
20 50 0.83
21 5 0.08
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.18
Consensus pattern (20 bp):
ATCGCAACTCGAAAATGGCT
Found at i:52513 original size:19 final size:19
Alignment explanation
Indices: 52491--52536 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
52481 TTTCTCGTTA
52491 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
52510 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
*
52529 TGATTTTC
1 CGATTTTC
52537 TCGTTGCGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.15, C:0.20, G:0.15, T:0.50
Consensus pattern (19 bp):
CGATTTTCATTTCGCATTG
Found at i:52692 original size:14 final size:14
Alignment explanation
Indices: 52673--52709 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
52663 CATCAATTAA
52673 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
52687 ACAAATCATCTTTT
1 ACAAATCAACATTT
52701 ACAAATCAA
1 ACAAATCAA
52710 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:54177 original size:21 final size:20
Alignment explanation
Indices: 54153--54212 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
54143 AACGGTGGGG
54153 GGGGACTCTTGAGGGA-GGATA
1 GGGGACTCTTGAGGGATGG--A
* **
54174 GGGGCCTCTTGAACGATTGGA
1 GGGGACTCTTGAGGGA-TGGA
54195 GGGGACTCTTGAGGGATG
1 GGGGACTCTTGAGGGATG
54213 ACAGGTGAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
23 2 0.06
ACGTcount: A:0.20, C:0.13, G:0.45, T:0.22
Consensus pattern (20 bp):
GGGGACTCTTGAGGGATGGA
Found at i:54634 original size:19 final size:20
Alignment explanation
Indices: 54579--54646 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
54569 GAAACTTAAA
54579 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
54599 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGACT
* **
54619 ATCGCAATGC-AAAATGAAA
1 ATCGCAACGCGAAAATGACT
54638 ATCGCAACG
1 ATCGCAACG
54647 ACAAAATCGC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 14 0.33
20 28 0.67
ACGTcount: A:0.41, C:0.24, G:0.21, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:54661 original size:33 final size:33
Alignment explanation
Indices: 54619--54711 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
54609 GAAAATGGCT
*
54619 ATCGCAATGCAAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
54652 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
54685 ATCGCAATGCGAAATG-AAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
54712 CGAAACACAA
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 10 0.18
33 47 0.82
ACGTcount: A:0.47, C:0.20, G:0.18, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:54692 original size:14 final size:14
Alignment explanation
Indices: 54635--54693 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
54625 ATGCAAAATG
*
54635 AAAATCGCAACGAC
1 AAAATCGCAATGAC
*
54649 AAAATCGCAATGCGAAATG
1 AAAATCGCAAT--G--A-C
54668 AAAATCGCAATGAC
1 AAAATCGCAATGAC
54682 AAAATCGCAATG
1 AAAATCGCAATG
54694 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 22 0.59
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.30
ACGTcount: A:0.49, C:0.20, G:0.17, T:0.14
Consensus pattern (14 bp):
AAAATCGCAATGAC
Found at i:54725 original size:19 final size:18
Alignment explanation
Indices: 54683--54727 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
54673 CGCAATGACA
* **
54683 AAATCGCAATGCGAAATG
1 AAATCGCAACGCGAAAAC
54701 AAATCGCAACGCGAAACAC
1 AAATCGCAACGCGAAA-AC
54720 AAATCGCA
1 AAATCGCA
54728 TTGCGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.11
Consensus pattern (18 bp):
AAATCGCAACGCGAAAAC
Found at i:54733 original size:19 final size:18
Alignment explanation
Indices: 54650--54733 Score: 61
Period size: 19 Copynumber: 4.8 Consensus size: 18
54640 CGCAACGACA
54650 AAATCGCAATGCGAAATGA-
1 AAATCGCAATGCGAAA--AC
*
54669 AAATCGCAAT--G-ACA-
1 AAATCGCAATGCGAAAAC
**
54683 AAATCGCAATGCGAAATG
1 AAATCGCAATGCGAAAAC
*
54701 AAATCGCAACGCGAAACAC
1 AAATCGCAATGCGAAA-AC
*
54720 AAATCGCATTGCGA
1 AAATCGCAATGCGA
54734 TTTTCATTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
14 11 0.21
16 2 0.04
17 2 0.04
18 15 0.29
19 22 0.42
ACGTcount: A:0.45, C:0.21, G:0.19, T:0.14
Consensus pattern (18 bp):
AAATCGCAATGCGAAAAC
Found at i:54745 original size:19 final size:18
Alignment explanation
Indices: 54723--54819 Score: 93
Period size: 19 Copynumber: 5.7 Consensus size: 18
54713 GAAACACAAA
54723 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTT-ATT
*
54742 TCGCATTGCGA-TTT-TG
1 TCGCATTGCGATTTTATT
54758 TCG--TTGCGATTTTAATT
1 TCGCATTGCGATTTT-ATT
*
54775 TCGCATTGCGA-TTT-TG
1 TCGCATTGCGATTTTATT
54791 T--CATTGCGATTTTCATT
1 TCGCATTGCGATTTT-ATT
54808 TCGCATTGCGAT
1 TCGCATTGCGAT
54820 AGCCATTTCC
Statistics
Matches: 64, Mismatches: 4, Indels: 20
0.73 0.05 0.23
Matches are distributed among these distances:
14 14 0.22
15 6 0.09
16 6 0.09
17 6 0.09
18 6 0.09
19 26 0.41
ACGTcount: A:0.15, C:0.19, G:0.20, T:0.46
Consensus pattern (18 bp):
TCGCATTGCGATTTTATT
Found at i:54765 original size:33 final size:33
Alignment explanation
Indices: 54726--54819 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
54716 ACACAAATCG
54726 CATTGCGATTTTCATTTCGCATTGCGATTTTGT
1 CATTGCGATTTTCATTTCGCATTGCGATTTTGT
* *
54759 CGTTGCGATTTTAATTTCGCATTGCGATTTTGT
1 CATTGCGATTTTCATTTCGCATTGCGATTTTGT
54792 CATTGCGATTTTCATTTCGCATTGCGAT
1 CATTGCGATTTTCATTTCGCATTGCGAT
54820 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.16, C:0.18, G:0.19, T:0.47
Consensus pattern (33 bp):
CATTGCGATTTTCATTTCGCATTGCGATTTTGT
Found at i:54766 original size:14 final size:14
Alignment explanation
Indices: 54747--54803 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
54737 TCATTTCGCA
54747 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
54761 TTGCGATTTTAATTTCG
1 TTGCGA-TTT--TGTCG
*
54778 CATTGCGATTTTGTCA
1 --TTGCGATTTTGTCG
54794 TTGCGATTTT
1 TTGCGATTTT
54804 CATTTCGCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 16 0.46
15 3 0.09
16 3 0.09
17 4 0.11
18 3 0.09
19 6 0.17
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.51
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:54826 original size:19 final size:20
Alignment explanation
Indices: 54804--54847 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
54794 TTGCGATTTT
54804 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCGATAGC
* *
54823 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCATTGCGATAGC
54843 CATTT
1 CATTT
54848 TCATGTTGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTGCGATAGC
Found at i:54855 original size:20 final size:20
Alignment explanation
Indices: 54813--54858 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
54803 TCATTTCGCA
*
54813 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCACG
* * *
54833 TTGCGATAGTCATTTTCATG
1 TTGCGATAGCCATTTCCACG
54853 TTGCGA
1 TTGCGA
54859 AAGTAAACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCACG
Found at i:55378 original size:18 final size:19
Alignment explanation
Indices: 55340--55385 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
55330 GTCGATCAGA
*
55340 TGATGGCTCTGGGATGAGG
1 TGATGGCTCTGGGACGAGG
*
55359 TGATAGCTCTGGG-CGAGG
1 TGATGGCTCTGGGACGAGG
55377 TGATGGCTC
1 TGATGGCTC
55386 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.15, C:0.15, G:0.43, T:0.26
Consensus pattern (19 bp):
TGATGGCTCTGGGACGAGG
Found at i:56712 original size:20 final size:20
Alignment explanation
Indices: 56689--56742 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
56679 AAAAATAAAA
*
56689 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
56709 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
56729 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
56743 CTAAAATCGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:57226 original size:21 final size:22
Alignment explanation
Indices: 57196--57291 Score: 87
Period size: 20 Copynumber: 4.6 Consensus size: 22
57186 CGCTTTGAAA
*
57196 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGATTATGTCAGT
* *
57217 ATCGCGTTGCGA--AAGTCAGT
1 ATCGCATTGCGATTATGTCAGT
* * * *
57237 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGATTATGTCAGT
57258 ATCGCATTGCGA-TA-GTCAGT
1 ATCGCATTGCGATTATGTCAGT
57278 ATCGCATTGCGATT
1 ATCGCATTGCGATT
57292 TTCCCAATTC
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
19 5 0.08
20 28 0.47
21 24 0.41
22 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.38
Consensus pattern (22 bp):
ATCGCATTGCGATTATGTCAGT
Found at i:57259 original size:41 final size:41
Alignment explanation
Indices: 57196--57293 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 41
57186 CGCTTTGAAA
* *
57196 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTCAGT
* * *
57237 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTCAGT
57278 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
57294 CCCAATTCGC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.39
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTCAGT
Found at i:57309 original size:41 final size:41
Alignment explanation
Indices: 57196--57311 Score: 117
Period size: 41 Copynumber: 2.8 Consensus size: 41
57186 CGCTTTGAAA
* ** * *
57196 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGT
* * ** * *
57237 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGT
57278 ATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
57312 TTACTTATTC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 61 0.97
42 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (41 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGT
Found at i:58850 original size:77 final size:77
Alignment explanation
Indices: 58727--58890 Score: 285
Period size: 77 Copynumber: 2.1 Consensus size: 77
58717 ACTCATTGAT
58727 CAAAATAAAACAGATCGATAATATAAGTGATTAAATCGTTTATTTTTTCAAAATCAATTACTAAA
1 CAAAATAAAACAGATCGATAATATAAGTGATTAAATCGTTTATTTTTTCAAAATCAATTACTAAA
*
58792 ATAAAACAGATG
66 ATAAAACAGATC
*
58804 CAAAATAAAACAGATCGATAATATAAGTGATTAAATCGTTGT-TTTTTTCAAAATCAATTACTGA
1 CAAAATAAAACAGATCGATAATATAAGTGATTAAATCGTT-TATTTTTTCAAAATCAATTACTAA
*
58868 AATAAAAGAGATC
65 AATAAAACAGATC
58881 CAAAATAAAA
1 CAAAATAAAA
58891 GTGACGAACC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
77 82 0.99
78 1 0.01
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (77 bp):
CAAAATAAAACAGATCGATAATATAAGTGATTAAATCGTTTATTTTTTCAAAATCAATTACTAAA
ATAAAACAGATC
Found at i:72070 original size:20 final size:19
Alignment explanation
Indices: 72041--72080 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
72031 TTTATCACAT
*
72041 TAAATTCTCTCAAATTCTC
1 TAAATTCTCTCAAATACTC
72060 TAAATTTCTCTCAAATACTC
1 TAAA-TTCTCTCAAATACTC
72080 T
1 T
72081 CTTTTTAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATTCTCTCAAATACTC
Found at i:72082 original size:12 final size:10
Alignment explanation
Indices: 72042--72081 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
72032 TTATCACATT
72042 AAATTCTCTC
1 AAATTCTCTC
72052 AAATTCTCT-
1 AAATTCTCTC
72061 AAATTTCTCTC
1 AAA-TTCTCTC
*
72072 AAATACTCTC
1 AAATTCTCTC
72082 TTTTTAAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 21 0.78
11 3 0.11
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTCTCTC
Found at i:72345 original size:109 final size:111
Alignment explanation
Indices: 72205--72424 Score: 354
Period size: 109 Copynumber: 2.0 Consensus size: 111
72195 TGGAAGTCAT
* * *
72205 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTACTAATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
* * *
72270 T-ATTAGTT-ATTTATTTAATGCATGATTATTATATTAATAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
* *
72314 ATATCTCGACACTTTACTAATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTATTAA
1 ATATCTCGACACTTTACTAATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
72379 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
72425 TTTTTGTAAT
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
109 61 0.60
110 7 0.07
111 33 0.33
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (111 bp):
ATATCTCGACACTTTACTAATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:74319 original size:6 final size:6
Alignment explanation
Indices: 74308--74341 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
74298 ACCTGCGCAA
* *
74308 GATGAC GATGAC GACGAC GACGAC GATGAC GATG
1 GATGAC GATGAC GATGAC GATGAC GATGAC GATG
74342 GTGATAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.32, C:0.21, G:0.35, T:0.12
Consensus pattern (6 bp):
GATGAC
Found at i:74543 original size:26 final size:24
Alignment explanation
Indices: 74472--74543 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
74462 TTATATTTGT
74472 ATTTACTTTATTTTGTTAAATTATA
1 ATTTACTTTATTTTGTTAAATT-TA
*
74497 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
74519 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
74544 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:77068 original size:21 final size:21
Alignment explanation
Indices: 77042--77087 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
77032 TCAATATTTT
77042 AACATGCTCATTTGATACGAA
1 AACATGCTCATTTGATACGAA
77063 AACATGCTCATTTGATACGAA
1 AACATGCTCATTTGATACGAA
77084 AACA
1 AACA
77088 ATGCCGGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (21 bp):
AACATGCTCATTTGATACGAA
Found at i:83436 original size:11 final size:11
Alignment explanation
Indices: 83420--83473 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
83410 CCAAAAATAT
83420 TATATATATTA
1 TATATATATTA
83431 TATATATAATTA
1 TATATAT-ATTA
* *
83443 -ATATAAAATA
1 TATATATATTA
*
83453 TATAAAATATTA
1 TAT-ATATATTA
83465 TATATATAT
1 TATATATAT
83474 ATAATAGGGG
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
10 3 0.09
11 19 0.56
12 12 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TATATATATTA
Found at i:83461 original size:16 final size:17
Alignment explanation
Indices: 83432--83479 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
83422 TATATATTAT
83432 ATATATAATTAATATAAA
1 ATATATAA-TAATATAAA
* *
83450 ATATATAA-AATATTAT
1 ATATATAATAATATAAA
83466 ATATATATATAATA
1 ATATATA-ATAATA
83480 GGGGTTGGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 13 0.50
17 1 0.04
18 12 0.46
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATATAATAATATAAA
Found at i:91409 original size:83 final size:83
Alignment explanation
Indices: 91231--91415 Score: 273
Period size: 83 Copynumber: 2.2 Consensus size: 83
91221 CCTATTGCAA
* * *
91231 CATAGCTCCAGGCGAGAAGGGCTATATGTCAACAAACCTTCGAGTTCGATTACACTCAGCTCAAA
1 CATAACTCAAGGCGAGAAGGGCTATATGTCAACAAACCTTCAAGTTCGATTACACTCAGCTCAAA
91296 GACATATCAAATTTACAG
66 GACATATCAAATTTACAG
* * * * *
91314 CATAGCTCAAGGCGAGAAGGGCTATTTGTCAACAAACCTTCAAGTTTGATTACA-TTAGCTCAAG
1 CATAACTCAAGGCGAGAAGGGCTATATGTCAACAAACCTTCAAGTTCGATTACACTCAGCTCAAA
*
91378 GGCATATCAAATTTACAG
66 GACATATCAAATTTACAG
91396 CATAACTCAAAGGCGAGAAG
1 CATAACTC-AAGGCGAGAAG
91416 AGTTGTCTGT
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
82 32 0.34
83 61 0.66
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (83 bp):
CATAACTCAAGGCGAGAAGGGCTATATGTCAACAAACCTTCAAGTTCGATTACACTCAGCTCAAA
GACATATCAAATTTACAG
Found at i:91458 original size:83 final size:82
Alignment explanation
Indices: 91231--91466 Score: 235
Period size: 83 Copynumber: 2.9 Consensus size: 82
91221 CCTATTGCAA
* * * * * * * *
91231 CATAGCTCCAGGCGAGAAGGGCTATATGTCAACAAACCTTCGAGTTCGATTACACTCAGCTCAAA
1 CATAACTCAAGGCGAGAAGAGCTATCTGTCAACAAACCTTCAAGATCGATTA-ATTCAGCTCAAG
*
91296 GACATATCAAATTTACAG
65 GGCATATCAAATTTACAG
* * * * *
91314 CATAGCTCAAGGCGAGAAGGGCTATTTGTCAACAAACCTTCAAGTTTGATTACATT-AGCTCAAG
1 CATAACTCAAGGCGAGAAGAGCTATCTGTCAACAAACCTTCAAGATCGATTA-ATTCAGCTCAAG
91378 GGCATATCAAATTTACAG
65 GGCATATCAAATTTACAG
* * * *
91396 CATAACTCAAAGGCGAGAAGAGTTGTCTGTCAACAAGAACTTTCGAGATCGA-T-ATTCAGCTCA
1 CATAACTC-AAGGCGAGAAGAGCTATCTGTCAAC-A-AACCTTCAAGATCGATTAATTCAGCTCA
*
91459 AGAGCATA
63 AGGGCATA
91467 CTTGCCGCAA
Statistics
Matches: 132, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
82 34 0.26
83 85 0.64
84 2 0.02
85 11 0.08
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.24
Consensus pattern (82 bp):
CATAACTCAAGGCGAGAAGAGCTATCTGTCAACAAACCTTCAAGATCGATTAATTCAGCTCAAGG
GCATATCAAATTTACAG
Found at i:93300 original size:12 final size:13
Alignment explanation
Indices: 93268--93301 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
93258 GTATGTATAT
93268 TTTATTTTATTCA
1 TTTATTTTATTCA
93281 TTTATTTTATT-A
1 TTTATTTTATTCA
*
93293 TTTGTTTTA
1 TTTATTTTA
93302 CTAATATTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (13 bp):
TTTATTTTATTCA
Found at i:93439 original size:2 final size:2
Alignment explanation
Indices: 93432--93466 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
93422 ATTTATTATC
93432 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
93467 TTTTCCTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:93706 original size:23 final size:23
Alignment explanation
Indices: 93646--93711 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 23
93636 TACCTAATAG
93646 TTATATATATTTTTATTTTTTCATTA
1 TTAT-TAT-TTTTTA-TTTTTCATTA
*
93672 TTATTATTTTTTGTTTTTCATT-
1 TTATTATTTTTTATTTTTCATTA
* *
93694 TTTTTCTTCTTTTATTTT
1 TTATTATT-TTTTATTTT
93712 ATTTGATTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 6 0.17
23 17 0.49
24 5 0.14
25 3 0.09
26 4 0.11
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.76
Consensus pattern (23 bp):
TTATTATTTTTTATTTTTCATTA
Found at i:93764 original size:20 final size:23
Alignment explanation
Indices: 93741--93790 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
93731 TTTAGTTAAC
93741 TTATTTG-ATTT-TTAT-TTTTT
1 TTATTTGTATTTATTATCTTTTT
*
93761 TTATTTTGTATTTATTTTCTTTTT
1 TTA-TTTGTATTTATTATCTTTTT
93785 TTATTT
1 TTATTT
93791 CGTGACAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 4 0.16
22 4 0.16
23 6 0.24
24 8 0.32
ACGTcount: A:0.14, C:0.02, G:0.04, T:0.80
Consensus pattern (23 bp):
TTATTTGTATTTATTATCTTTTT
Found at i:93778 original size:16 final size:15
Alignment explanation
Indices: 93741--93784 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
93731 TTTAGTTAAC
*
93741 TTATTTGATTTTTAT
1 TTATTTTATTTTTAT
*
93756 TTTTTTTATTTTGTAT
1 TTATTTTATTTT-TAT
*
93772 TTATTTTCTTTTT
1 TTATTTTATTTTT
93785 TTATTTCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.80
Consensus pattern (15 bp):
TTATTTTATTTTTAT
Found at i:94393 original size:14 final size:14
Alignment explanation
Indices: 94362--94409 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 14
94352 AAATGTCACG
94362 AAATAAAAATAAAT
1 AAATAAAAATAAAT
*
94376 AAATACAAAATATAAA
1 AAATA-AAAATA-AAT
94392 ATAATAAAAAGTAAAT
1 A-AATAAAAA-TAAAT
94408 AA
1 AA
94410 GTTAACTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 5 0.18
15 7 0.25
16 10 0.36
17 6 0.21
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:94789 original size:2 final size:2
Alignment explanation
Indices: 94782--94814 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
94772 AAAAACACTA
94782 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
94815 ATGGTATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94857 original size:2 final size:2
Alignment explanation
Indices: 94852--94906 Score: 71
Period size: 2 Copynumber: 29.0 Consensus size: 2
94842 ATGAAAAAAT
* *
94852 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA -A TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
94893 TA TA -A T- TA TA TA TA
1 TA TA TA TA TA TA TA TA
94907 GAATATAGTC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
1 3 0.06
2 44 0.94
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:94895 original size:25 final size:25
Alignment explanation
Indices: 94849--94913 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
94839 ATAATGAAAA
* *
94849 AATTATATATA-TATATATATATAT
1 AATTATATATAGAATATATAAATAT
94873 -A-TATATATAGAATATATAAATAT
1 AATTATATATAGAATATATAAATAT
94896 AATTATATATAGAATATA
1 AATTATATATAGAATATA
94914 GTCAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
22 8 0.22
23 12 0.33
24 1 0.03
25 15 0.42
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (25 bp):
AATTATATATAGAATATATAAATAT
Found at i:99947 original size:21 final size:22
Alignment explanation
Indices: 99909--99952 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
99899 ACTAATTAAC
*
99909 TTCTCCTCTTAAATTATT-TAT
1 TTCTCCTCTTAAAATATTATAT
99930 TTCT-CTCTTAAAAATATTATAT
1 TTCTCCTCTT-AAAATATTATAT
99952 T
1 T
99953 ACTTTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 11 0.55
22 4 0.20
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.55
Consensus pattern (22 bp):
TTCTCCTCTTAAAATATTATAT
Done.