Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004193.1 Hibiscus syriacus cultivar Beakdansim tig00009171_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: 101736
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:3606 original size:3 final size:3
Alignment explanation
Indices: 3598--3636 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
3588 TATGAATAAG
3598 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3637 AAATAGACGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8513 original size:24 final size:24
Alignment explanation
Indices: 8486--8532 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
8476 TGTCATTTTG
*
8486 AGAGGATTGGGAGGAGGGTTTGGA
1 AGAGGATTGAGAGGAGGGTTTGGA
* *
8510 AGAGGATTTAGAGGTGGGTTTGG
1 AGAGGATTGAGAGGAGGGTTTGG
8533 TGGTTGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.51, T:0.26
Consensus pattern (24 bp):
AGAGGATTGAGAGGAGGGTTTGGA
Found at i:9229 original size:22 final size:21
Alignment explanation
Indices: 9203--9259 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
9193 ATACTAGCTT
9203 AGTAGTATCGATACCTA-GCAA
1 AGTAGTATCGATACCTATG-AA
* *
9224 GAGTAGTATTGATA-CTATGTA
1 -AGTAGTATCGATACCTATGAA
9245 AGTAGTATCGATACC
1 AGTAGTATCGATACC
9260 AAGTGCACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 12 0.40
21 5 0.17
22 13 0.43
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (21 bp):
AGTAGTATCGATACCTATGAA
Found at i:15109 original size:44 final size:44
Alignment explanation
Indices: 15020--15109 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 44
15010 TGCAACCCAA
* * *
15020 TAGTATCGATAGCGTTCAACGAGTATCGATACTACTATGTATAG
1 TAGTATCGATAGCCTTCAACGAGTATCAATACTACTATATATAG
* *
15064 TAGTATCGATA-CCTTCCAAGGAGTATCAATACTACTATATGTAG
1 TAGTATCGATAGCCTT-CAACGAGTATCAATACTACTATATATAG
15108 TA
1 TA
15110 TAGTAGTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 3 0.08
44 37 0.93
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (44 bp):
TAGTATCGATAGCCTTCAACGAGTATCAATACTACTATATATAG
Found at i:20861 original size:64 final size:64
Alignment explanation
Indices: 20759--20886 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
20749 ACTTATTACA
* * *
20759 ACAATGTTTTGTCTATATTTTTGCCTTTTAGAAATGAATAATTCTTTTTACTCAATCCCTATAC
1 ACAATGTTTTGTCTATATTTTTACCCTTTAGAAATGAATAATTCTTTTTACTCAATCCCCATAC
* *
20823 ACAATGTTTTGTCTATATTTTTACCCTTTAGAAGTGAATAATTCTTTTTACTCGATCCCCATAC
1 ACAATGTTTTGTCTATATTTTTACCCTTTAGAAATGAATAATTCTTTTTACTCAATCCCCATAC
20887 GCATTCAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.27, C:0.19, G:0.09, T:0.45
Consensus pattern (64 bp):
ACAATGTTTTGTCTATATTTTTACCCTTTAGAAATGAATAATTCTTTTTACTCAATCCCCATAC
Found at i:25987 original size:21 final size:21
Alignment explanation
Indices: 25936--25988 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
25926 ATTATGACTA
25936 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
* **
25957 TTGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
25978 TCGCAATGCGA
1 TCGCAATGCGA
25989 ATAAGTAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:26003 original size:20 final size:21
Alignment explanation
Indices: 25978--26029 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
25968 TTTTCCCAAT
*
25978 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
25998 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
26019 TCGCAATGCGA
1 TCGCAATGCGA
26030 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:26008 original size:41 final size:41
Alignment explanation
Indices: 25963--26129 Score: 115
Period size: 41 Copynumber: 4.0 Consensus size: 41
25953 AATTTTGCGT
*
25963 TGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATAAGTAAATCGCAA
* *** * * *
26004 TGCGAATTTGGAAAATCGCAATGCG-AT-ACTGACTATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAATAAGT-A-AATCGCAA
* * * * * **
26045 TGCAATTTTCCTAATTCGCATTGCGATTTACGT-ATTCGCGT
1 TGCGATTTTCCTAATTCGCAATGCGA-ATAAGTAAATCGCAA
* * *
26086 TGCGATTTTCATAATTCGCAATGCGAATTAGGAAAATCGCAA
1 TGCGATTTTCCTAATTCGCAATGCGAA-TAAGTAAATCGCAA
26128 TG
1 TG
26130 TGAATACGTA
Statistics
Matches: 89, Mismatches: 30, Indels: 13
0.67 0.23 0.10
Matches are distributed among these distances:
39 2 0.02
40 3 0.03
41 75 0.84
42 7 0.08
43 1 0.01
44 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (41 bp):
TGCGATTTTCCTAATTCGCAATGCGAATAAGTAAATCGCAA
Found at i:26073 original size:21 final size:21
Alignment explanation
Indices: 26039--26111 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
26029 ATACTGACTA
* *
26039 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
26060 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
26080 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
26101 TCGCAATGCGA
1 TCGCAATGCGA
26112 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:26125 original size:21 final size:21
Alignment explanation
Indices: 26101--26154 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
26091 TTTTCATAAT
*
26101 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
26122 TCGCAATGTGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
26142 TCGCAATGCGAAT
1 TCGCAATGCGAAT
26155 CTTACTATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:26164 original size:20 final size:20
Alignment explanation
Indices: 26141--26189 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
26131 GAATACGTAA
26141 ATCGCAATGCGAATCTTACT
1 ATCGCAATGCGAATCTTACT
*
26161 ATCGCAATGCGATTCTTACT
1 ATCGCAATGCGAATCTTACT
*
26181 ATCACAATG
1 ATCGCAATG
26190 TGATTTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (20 bp):
ATCGCAATGCGAATCTTACT
Found at i:26772 original size:19 final size:19
Alignment explanation
Indices: 26748--26792 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
26738 GCAACGAGAG
*
26748 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
26767 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
26786 AATCGCA
1 AATCGCA
26793 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:26829 original size:14 final size:14
Alignment explanation
Indices: 26810--26898 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
26800 TTTCATTTCG
26810 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
26824 CGTTGCAATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
26843 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
26857 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
26876 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
26890 CGTTGCGAT
1 CGTTGCGAT
26899 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:26840 original size:33 final size:33
Alignment explanation
Indices: 26793--26922 Score: 206
Period size: 33 Copynumber: 3.9 Consensus size: 33
26783 CAAAATCGCA
**
26793 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
* **
26826 TTGCAATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
26859 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
26892 TTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 TTGCGATAGTCATTT-CGCGTTGCGATTCTC
26923 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:29116 original size:21 final size:21
Alignment explanation
Indices: 29092--29158 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
29082 TCATTCCTCG
29092 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
29113 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
29134 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
29155 AGAG
1 AGAG
29159 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:29116 original size:42 final size:42
Alignment explanation
Indices: 29040--29158 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
29030 GACTCGCCTG
* * * * * * *
29040 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
29082 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
29124 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
29159 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:30531 original size:14 final size:14
Alignment explanation
Indices: 30512--30547 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
30502 ATTGTTTAAT
30512 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
30526 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
30540 TGATTTGT
1 TGATTTGT
30548 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:30678 original size:19 final size:18
Alignment explanation
Indices: 30654--30712 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
30644 AAAAAGTACT
30654 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
30673 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
*
30687 ATCGCGACGCGAAATGAAA
1 ATCGC-AAGCGAAATGAAA
30706 ATCGCAA
1 ATCGCAA
30713 CGAGAGAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 11
0.67 0.09 0.24
Matches are distributed among these distances:
14 8 0.26
15 2 0.06
16 2 0.06
17 2 0.06
18 2 0.06
19 15 0.48
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:30691 original size:14 final size:14
Alignment explanation
Indices: 30672--30728 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
30662 GCGAAATGAA
30672 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
30686 AATCGCGACGCGAAATGAA
1 AATCGC-A-ACG--A-GAG
30705 AATCGCAACGAGAG
1 AATCGCAACGAGAG
30719 AATCGCAACG
1 AATCGCAACG
30729 CGAAATTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 2 0.06
17 2 0.06
18 2 0.06
19 8 0.24
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:30699 original size:33 final size:33
Alignment explanation
Indices: 30654--30743 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
30644 AAAAAGTACT
*
30654 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
30687 ATCGCGACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
30720 ATCGCAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
30744 GTTGCGATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:30785 original size:33 final size:32
Alignment explanation
Indices: 30743--30870 Score: 186
Period size: 33 Copynumber: 3.9 Consensus size: 32
30733 ATTAAATTCG
30743 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* *
30776 CGTTGCGATTTTGATTTCGCATTGCGAAATT-CG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
30809 CGTTGCGATTTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGA-TTTTCATTTCGCATTGCGATTC-CT
30843 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
30871 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
32 3 0.03
33 54 0.63
34 26 0.30
35 3 0.03
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:30834 original size:20 final size:19
Alignment explanation
Indices: 30739--30870 Score: 87
Period size: 14 Copynumber: 7.7 Consensus size: 19
30729 CGAAATTAAA
*
30739 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
30758 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
* *
30774 CTCG--TTGCGATTTTGAT
1 TTCGCATTGCGATTTTCAT
*
30791 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
*
30805 TTCGCGTTGCGATTTTTCAT
1 TTCGCATTGCGA-TTTTCAT
30825 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
30841 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
30858 TTCGCATTGCGAT
1 TTCGCATTGCGAT
30871 AGTAATTTCC
Statistics
Matches: 85, Mismatches: 12, Indels: 32
0.66 0.09 0.25
Matches are distributed among these distances:
14 24 0.28
16 12 0.14
17 13 0.15
19 24 0.28
20 12 0.14
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:30836 original size:67 final size:66
Alignment explanation
Indices: 30736--30869 Score: 241
Period size: 67 Copynumber: 2.0 Consensus size: 66
30726 ACGCGAAATT
*
30736 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTGATTTCGCATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
30801 G
66 G
*
30802 AAATTCGCGTTGCGATTTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTG
1 AAATTCGCGTTGCGA-TTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTG
30867 CG
65 CG
30869 A
1 A
30870 TAGTAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
66 15 0.23
67 50 0.77
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (66 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:33176 original size:12 final size:12
Alignment explanation
Indices: 33159--33195 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
33149 TCTTTGGGGA
33159 CTTTTTCTTCTT
1 CTTTTTCTTCTT
33171 CTTTTTCTTCTT
1 CTTTTTCTTCTT
*
33183 ATTTTTCTTCTT
1 CTTTTTCTTCTT
33195 C
1 C
33196 AGGATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:33404 original size:24 final size:24
Alignment explanation
Indices: 33370--33437 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
33360 CTGAAACATC
*
33370 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
33394 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
33418 ATCAAATTTCGAATATTGAC
1 ATCAAAATCCGAGTATTGAC
33438 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:34226 original size:20 final size:21
Alignment explanation
Indices: 34197--34248 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
34187 TTTTCCTAAT
* *
34197 TCGCATTGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
*
34217 TCGCAATGCGAATTTAGAAAA
1 TCGCAATGCGAATTAAGAAAA
34238 TCGCAATGCGA
1 TCGCAATGCGA
34249 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:34322 original size:20 final size:20
Alignment explanation
Indices: 34275--34324 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
34265 GAGATAATAC
*
34275 AAAATCGCAATGAGATTCTG
1 AAAATCGCAACGAGATTCTG
***
34295 ACTTTCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
34315 AAAATCGCAA
1 AAAATCGCAA
34325 TCATCTTCAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (20 bp):
AAAATCGCAACGAGATTCTG
Found at i:34563 original size:20 final size:20
Alignment explanation
Indices: 34538--34584 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
34528 CAACGGGGAA
34538 ATCGCAACGCAAAAATAGCT
1 ATCGCAACGCAAAAATAGCT
* *
34558 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCAAAAATAGCT
34578 ATCGCAA
1 ATCGCAA
34585 TGAGAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.26, G:0.19, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCAAAAATAGCT
Found at i:34591 original size:20 final size:20
Alignment explanation
Indices: 34538--34593 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
34528 CAACGGGGAA
34538 ATCGCAACGCA-AAAATAGCT
1 ATCGCAACG-AGAAAATAGCT
* *
34558 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGAGAAAATAGCT
*
34578 ATCGCAATGAGAAAAT
1 ATCGCAACGAGAAAAT
34594 CGCAATGCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (20 bp):
ATCGCAACGAGAAAATAGCT
Found at i:34653 original size:19 final size:19
Alignment explanation
Indices: 34612--34679 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
34602 GAAATGAAAA
34612 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
34628 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
34645 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
34664 TTGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
34680 TCGTTGCGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
14 11 0.24
16 3 0.07
17 3 0.07
19 29 0.63
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.49
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:36740 original size:20 final size:20
Alignment explanation
Indices: 36717--36770 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
36707 GAAACTTAAA
*
36717 ATCGCAACGTGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
36737 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGCGAAAATGACT
*
36757 ATCGCAATGCGAAA
1 ATCGCAACGCGAAA
36771 TGCAAATCGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:36779 original size:19 final size:18
Alignment explanation
Indices: 36757--36847 Score: 90
Period size: 14 Copynumber: 5.4 Consensus size: 18
36747 GGAAATGGCT
36757 ATCGCAATGCGAAATGCAA
1 ATCGCAATGCGAAATG-AA
*
36776 ATCGCAA--CGACA--AA
1 ATCGCAATGCGAAATGAA
36790 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG-AA
*
36809 ATCGCAA--CGACA--AA
1 ATCGCAATGCGAAATGAA
36823 ATCGCAATGCGAAATGAA
1 ATCGCAATGCGAAATGAA
36841 ATCGCAA
1 ATCGCAA
36848 CAACAAAATC
Statistics
Matches: 59, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
14 18 0.31
16 8 0.14
17 8 0.14
18 9 0.15
19 16 0.27
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.13
Consensus pattern (18 bp):
ATCGCAATGCGAAATGAA
Found at i:36793 original size:14 final size:14
Alignment explanation
Indices: 36774--36863 Score: 72
Period size: 14 Copynumber: 5.8 Consensus size: 14
36764 TGCGAAATGC
36774 AAATCGCAACGACA
1 AAATCGCAACGACA
*
36788 AAATCGCAATGCGAAATGA
1 AAATCGCAA--CG--A-CA
36807 AAATCGCAACGACA
1 AAATCGCAACGACA
*
36821 AAATCGCAATGCGAAA
1 AAATCGCAA--CGACA
*
36837 TGAAATCGCAACAACA
1 --AAATCGCAACGACA
36853 AAATCGCAACG
1 AAATCGCAACG
36864 CGAAACACAA
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
14 29 0.48
15 1 0.02
16 9 0.15
17 2 0.03
18 10 0.16
19 10 0.16
ACGTcount: A:0.49, C:0.23, G:0.17, T:0.11
Consensus pattern (14 bp):
AAATCGCAACGACA
Found at i:36799 original size:33 final size:33
Alignment explanation
Indices: 36757--36879 Score: 194
Period size: 33 Copynumber: 3.8 Consensus size: 33
36747 GGAAATGGCT
36757 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
*
36790 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
*
36823 ATCGCAATGCGAAATG-AAATCGCAACAACAAA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
* **
36855 ATCGCAACGCGAAACACAAATCGCA
1 ATCGCAATGCGAAATGCAAATCGCA
36880 TTGCGACTTT
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
32 28 0.33
33 56 0.67
ACGTcount: A:0.47, C:0.24, G:0.17, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGCAAATCGCAACGACAAA
Found at i:36876 original size:65 final size:66
Alignment explanation
Indices: 36757--36879 Score: 196
Period size: 65 Copynumber: 1.9 Consensus size: 66
36747 GGAAATGGCT
* * *
36757 ATCGCAATGCGAAATGCAAATCGCAACGACAAAATCGCAATGCGAAATGAAAATCGCAACGACAA
1 ATCGCAATGCGAAATGCAAATCGCAACAACAAAATCGCAACGCGAAATCAAAATCGCAACGACAA
36822 A
66 A
36823 ATCGCAATGCGAAATG-AAATCGCAACAACAAAATCGCAACGCGAAA-CACAAATCGCA
1 ATCGCAATGCGAAATGCAAATCGCAACAACAAAATCGCAACGCGAAATCA-AAATCGCA
36880 TTGCGACTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
64 1 0.02
65 36 0.68
66 16 0.30
ACGTcount: A:0.47, C:0.24, G:0.17, T:0.11
Consensus pattern (66 bp):
ATCGCAATGCGAAATGCAAATCGCAACAACAAAATCGCAACGCGAAATCAAAATCGCAACGACAA
A
Found at i:36885 original size:19 final size:18
Alignment explanation
Indices: 36785--36879 Score: 71
Period size: 14 Copynumber: 5.6 Consensus size: 18
36775 AATCGCAACG
*
36785 ACAAAATCGCAATGCGAA
1 ACAAAATCGCAACGCGAA
*
36803 ATGAAAATCGCAA--CG--
1 A-CAAAATCGCAACGCGAA
*
36818 ACAAAATCGCAATGCGAA
1 ACAAAATCGCAACGCGAA
**
36836 ATGAAATCGCAA--C--A
1 ACAAAATCGCAACGCGAA
36850 ACAAAATCGCAACGCGAA
1 ACAAAATCGCAACGCGAA
36868 ACACAAATCGCA
1 ACA-AAATCGCA
36880 TTGCGACTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
14 21 0.34
15 1 0.02
16 4 0.07
17 2 0.03
18 15 0.25
19 18 0.30
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.11
Consensus pattern (18 bp):
ACAAAATCGCAACGCGAA
Found at i:36897 original size:19 final size:18
Alignment explanation
Indices: 36875--36971 Score: 93
Period size: 19 Copynumber: 5.7 Consensus size: 18
36865 GAAACACAAA
36875 TCGCATTGCGACTTTCATT
1 TCGCATTGCGA-TTTCATT
*
36894 TCGCATTGCGATTT--TG
1 TCGCATTGCGATTTCATT
36910 TCG--TTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
*
36927 TCGCATTGCGATTT--TG
1 TCGCATTGCGATTTCATT
36943 TCG--TTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
36960 TCGCATTGCGAT
1 TCGCATTGCGAT
36972 AGCCATTTCC
Statistics
Matches: 64, Mismatches: 4, Indels: 21
0.72 0.04 0.24
Matches are distributed among these distances:
14 12 0.19
15 6 0.09
16 8 0.12
17 8 0.12
18 7 0.11
19 23 0.36
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:36918 original size:14 final size:14
Alignment explanation
Indices: 36899--36955 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
36889 TCATTTCGCA
36899 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
36913 TTGCGATTTTCATTTCG
1 TTGCGA-TTT--TGTCG
36930 CATTGCGATTTTGTCG
1 --TTGCGATTTTGTCG
36946 TTGCGATTTT
1 TTGCGATTTT
36956 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.17
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.51
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:36924 original size:33 final size:33
Alignment explanation
Indices: 36880--36971 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
36870 ACAAATCGCA
*
36880 TTGCGACTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
36913 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
36946 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
36972 AGCCATTTCC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.13, C:0.20, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:36978 original size:19 final size:20
Alignment explanation
Indices: 36956--36999 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
36946 TTGCGATTTT
36956 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCGATAGC
* *
36975 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCATTGCGATAGC
36995 CATTT
1 CATTT
37000 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:37007 original size:20 final size:20
Alignment explanation
Indices: 36965--37021 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
36955 TCATTTCGCA
* * *
36965 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGTCATTTTCACG
*
36985 TTGCGATAGTCATTTTCATG
1 TTGCGATAGTCATTTTCACG
* *
37005 TTGCGAAATTCATTTTC
1 TTGCGATAGTCATTTTC
37022 CCAAAAGACA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCACG
Found at i:37474 original size:18 final size:18
Alignment explanation
Indices: 37448--37492 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
37438 GTCGATCAGA
**
37448 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGACGAGG
*
37466 TGATAGCTCTGGACGAGG
1 TGATGGCTCTGGACGAGG
37484 TGATGGCTC
1 TGATGGCTC
37493 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGACGAGG
Found at i:38860 original size:20 final size:20
Alignment explanation
Indices: 38812--38870 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
38802 AATAGTTTCT
** *
38812 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
38832 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
38852 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
38871 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:39163 original size:22 final size:22
Alignment explanation
Indices: 39133--39176 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
39123 GATGGAGATA
*
39133 GACGGATTTCGCCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
*
39155 GACGAATTTCGTCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
39177 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGAATTTCGCCGGAGATGGG
Found at i:39375 original size:21 final size:21
Alignment explanation
Indices: 39345--39460 Score: 82
Period size: 20 Copynumber: 5.7 Consensus size: 21
39335 CGCTTTGAAA
39345 ATCGCATTGCGATTATGTATT
1 ATCGCATTGCGATTATGTATT
* * **
39366 ATCGCGTTGCGA--AAGTCAGA
1 ATCGCATTGCGATTATGT-ATT
* *
39386 ATCGCGTTGCGATTTTGTATT
1 ATCGCATTGCGATTATGTATT
*
39407 ATCGCATTGCGA-TA-GTAAGT
1 ATCGCATTGCGATTATGT-ATT
* *
39427 ATCTCATTGCGA-TA-GTCAGT
1 ATCGCATTGCGATTATGT-ATT
39447 ATCGCATTGCGATT
1 ATCGCATTGCGATT
39461 TTCCCAATTC
Statistics
Matches: 76, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
19 5 0.07
20 45 0.59
21 24 0.32
22 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.35
Consensus pattern (21 bp):
ATCGCATTGCGATTATGTATT
Found at i:39434 original size:20 final size:20
Alignment explanation
Indices: 39406--39459 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
39396 GATTTTGTAT
39406 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
* *
39426 TATCTCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
39446 TATCGCATTGCGAT
1 TATCGCATTGCGAT
39460 TTTCCCAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:39437 original size:41 final size:41
Alignment explanation
Indices: 39344--39458 Score: 135
Period size: 41 Copynumber: 2.8 Consensus size: 41
39334 GCGCTTTGAA
* *
39344 AATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAG
1 AATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAG
* * *
39385 AATCGCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAG
1 AATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAG
* * *
39426 TATCTCATTGCGA-TA-GTCAGTATCGCATTGCGA
1 AATCGCATTGCGATTATGT-ATTATCGCATTGCGA
39459 TTTTCCCAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.03
40 15 0.24
41 46 0.73
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.34
Consensus pattern (41 bp):
AATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAG
Found at i:39451 original size:61 final size:62
Alignment explanation
Indices: 39345--39462 Score: 159
Period size: 61 Copynumber: 1.9 Consensus size: 62
39335 CGCTTTGAAA
* * *
39345 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGATTTTGTATT
1 ATCGCATTGCGATTATGTAGTATCGCATTGCGAAAGTCAGAATCGCATTGCGATTTTGTATT
* * *
39407 ATCGCATTGCGA-TA-GTAAGTATCTCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGATTATGT-AGTATCGCATTGCGAAAGTCAGAATCGCATTGCGATTTT
39463 CCCAATTCGC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
60 2 0.04
61 35 0.71
62 12 0.24
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (62 bp):
ATCGCATTGCGATTATGTAGTATCGCATTGCGAAAGTCAGAATCGCATTGCGATTTTGTATT
Found at i:39570 original size:21 final size:21
Alignment explanation
Indices: 39530--39570 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
39520 ACTGTAGACC
** *
39530 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
39551 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
39571 GCGAATTTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:42698 original size:26 final size:27
Alignment explanation
Indices: 42656--42706 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
42646 ATAAAAAGAT
* *
42656 AAGAAATAAATAAATTAAATTAAAATG
1 AAGAAATAAACAAATTAAATAAAAATG
42683 AAGAAA-AAACAAATTAAATAAAAA
1 AAGAAATAAACAAATTAAATAAAAA
42707 AAATAAGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.20
Consensus pattern (27 bp):
AAGAAATAAACAAATTAAATAAAAATG
Found at i:42710 original size:14 final size:14
Alignment explanation
Indices: 42677--42782 Score: 53
Period size: 15 Copynumber: 7.4 Consensus size: 14
42667 AAATTAAATT
42677 AAAATGAAGA-AAAA
1 AAAAT-AAGATAAAA
42691 ACAAATTAA-ATAAAA
1 A-AAA-TAAGATAAAA
42706 AAAATAAGATAAAGA
1 AAAATAAGATAAA-A
42721 AAACA-AAGAT-AAA
1 AAA-ATAAGATAAAA
* * *
42734 ATAGTAAGTAATATAA
1 AAAATAAG--ATAAAA
*
42750 AAAAT-ATATAAAA
1 AAAATAAGATAAAA
*
42763 AAGAAAAAGA-AAAA
1 AA-AATAAGATAAAA
42777 AAAATA
1 AAAATA
42783 TATAAATAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 25
0.67 0.10 0.24
Matches are distributed among these distances:
13 19 0.27
14 20 0.29
15 24 0.34
16 7 0.10
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (14 bp):
AAAATAAGATAAAA
Found at i:42785 original size:27 final size:28
Alignment explanation
Indices: 42743--42831 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 28
42733 AATAGTAAGT
42743 AATATAAAAAATATATAAAAAAGAAAAAG
1 AATA-AAAAAATATATAAAAAAGAAAAAG
*
42772 AA-AAAAAAATATATAAATAAA-ACAAATG
1 AATAAAAAAATATATAAA-AAAGA-AAAAG
* *
42800 AATAAAATAATA-ATAAAAAAGTAAAAAT
1 AATAAAAAAATATATAAAAAAG-AAAAAG
42828 AATA
1 AATA
42832 TATATATATA
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 18 0.35
28 22 0.43
29 11 0.22
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.19
Consensus pattern (28 bp):
AATAAAAAAATATATAAAAAAGAAAAAG
Found at i:42828 original size:25 final size:25
Alignment explanation
Indices: 42746--42863 Score: 78
Period size: 27 Copynumber: 4.4 Consensus size: 25
42736 AGTAAGTAAT
42746 ATAAAAAATATATAAAAAAGAAAAAGA
1 ATAAAAAATATATAAAAAAG-AAAA-A
*
42773 AAAAAAAATATATAAATAAA-ACAAATGA
1 ATAAAAAATATATAAA-AAAGA-AAA--A
*
42801 ATAAAATAATA-ATAAAAAAGTAAAA
1 ATAAAA-AATATATAAAAAAGAAAAA
* * * *
42826 ATAATATATATATATATATAATAAAAA
1 ATAA-A-AAATATATAAAAAAGAAAAA
42853 CATAAAAAATA
1 -ATAAAAAATA
42864 GTAAATATAT
Statistics
Matches: 73, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
25 5 0.07
26 9 0.12
27 36 0.49
28 19 0.26
29 4 0.05
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (25 bp):
ATAAAAAATATATAAAAAAGAAAAA
Found at i:42831 original size:28 final size:27
Alignment explanation
Indices: 42746--42831 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
42736 AGTAAGTAAT
*
42746 ATAAAAAATATATAAAAAAGAAAAAGA
1 ATAAAAAATATATAAAAAAGAAAAATA
* *
42773 AAAAAAAATATATAAATAAA-ACAAATGA
1 ATAAAAAATATATAAA-AAAGAAAAAT-A
42801 ATAAAATAATA-ATAAAAAAGTAAAAATA
1 ATAAAA-AATATATAAAAAAG-AAAAATA
42829 ATA
1 ATA
42832 TATATATATA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
27 22 0.45
28 18 0.37
29 9 0.18
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.19
Consensus pattern (27 bp):
ATAAAAAATATATAAAAAAGAAAAATA
Found at i:42862 original size:55 final size:52
Alignment explanation
Indices: 42746--42863 Score: 123
Period size: 55 Copynumber: 2.2 Consensus size: 52
42736 AGTAAGTAAT
42746 ATAAAAAAT-ATATAAAAAAGAAAAAGAAAAAAAAATATATAAATAAAACAA
1 ATAAAAAATAATATAAAAAAGAAAAAGAAAAAAAAATATATAAATAAAACAA
* * * * *
42797 ATGAATAAAATAATAATAAAAAAGTAAAAATAATATATATATATATATAATAAAA-AC
1 AT-AA-AAAATAAT-ATAAAAAAG-AAAAAGAA-AAAAAAATATATA-AATAAAACAA
42854 ATAAAAAATA
1 ATAAAAAATA
42864 GTAAATATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
51 2 0.04
52 2 0.04
53 5 0.09
54 2 0.04
55 15 0.27
56 9 0.16
57 13 0.24
58 7 0.13
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (52 bp):
ATAAAAAATAATATAAAAAAGAAAAAGAAAAAAAAATATATAAATAAAACAA
Found at i:42872 original size:33 final size:34
Alignment explanation
Indices: 42809--42876 Score: 88
Period size: 33 Copynumber: 2.0 Consensus size: 34
42799 GAATAAAATA
*
42809 ATAATAAAAAAGTAAAAATAATATATATATATAT
1 ATAATAAAAAAGTAAAAATAATATAAATATATAT
42843 ATAATAAAAACA-T-AAAA-AATAGTAAATATATAT
1 ATAATAAAAA-AGTAAAAATAATA-TAAATATATAT
42876 A
1 A
42877 AATTAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
32 4 0.13
33 15 0.48
34 11 0.35
35 1 0.03
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (34 bp):
ATAATAAAAAAGTAAAAATAATATAAATATATAT
Found at i:42888 original size:35 final size:35
Alignment explanation
Indices: 42808--42887 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
42798 TGAATAAAAT
*
42808 AATAATAAAAA-AGT-AAAAATAATATATATATATA
1 AATAATAAAAACA-TAAAAAATAATAAATATATATA
* *
42842 TATAATAAAAACATAAAAAATAGTAAATATATATA
1 AATAATAAAAACATAAAAAATAATAAATATATATA
42877 AATTAATAAAA
1 AA-TAATAAAA
42888 CGGATAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
34 11 0.28
35 20 0.51
36 8 0.21
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.29
Consensus pattern (35 bp):
AATAATAAAAACATAAAAAATAATAAATATATATA
Found at i:43526 original size:37 final size:37
Alignment explanation
Indices: 43476--43550 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
43466 ATGCTTGTGG
*
43476 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTACTAAAACTCT
43513 ATCCTATTTTTAGGAGTTTGAATCCTACTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTACTAAAACTCT
43550 A
1 A
43551 ACGTTTGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTACTAAAACTCT
Found at i:44030 original size:34 final size:35
Alignment explanation
Indices: 43987--44069 Score: 123
Period size: 35 Copynumber: 2.4 Consensus size: 35
43977 AAGGTCTTGA
* *
43987 GTTTCAAGAGAAACATTTTCAAA-GTTTTTTTTGT
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTCGT
*
44021 GTTTCAAGAGAAATAATTTCAAAGGTTTTTTTCGT
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTCGT
*
44056 GTTTCAAGATAAAC
1 GTTTCAAGAGAAAC
44070 TGTCCCAAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 21 0.49
35 22 0.51
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.42
Consensus pattern (35 bp):
GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTCGT
Found at i:44155 original size:67 final size:67
Alignment explanation
Indices: 44054--44181 Score: 177
Period size: 67 Copynumber: 1.9 Consensus size: 67
44044 GGTTTTTTTC
* * * *
44054 GTGTTTCAAGATAAACTGTCCCAAGGGAGGCAAAATTTTGTTTCAAGAGAAACATAT-TCAAAGA
1 GTGTTTCAAGAGAAACTGTCCCAAGAGAGACAAAACTTTGTTTCAAGAGAAAC-TATCTCAAAGA
44118 TTG
65 TTG
* * *
44121 GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTTAAGGGAAACTATCTCAA
1 GTGTTTCAAGAGAAACTGTCCCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTATCTCAA
44182 GGGAGACGAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
66 3 0.06
67 50 0.94
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (67 bp):
GTGTTTCAAGAGAAACTGTCCCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTATCTCAAAGAT
TG
Found at i:44232 original size:102 final size:104
Alignment explanation
Indices: 44066--44260 Score: 279
Period size: 102 Copynumber: 1.9 Consensus size: 104
44056 GTTTCAAGAT
* * * *
44066 AAACTGTCCCAAGGGAGGCAAAATTTTGTTTCAAGAGAAACATATTCAAAGATTGGTGTTTCAAG
1 AAACTATCCCAAGGGAGACAAAATTTTATTTCAAGAGAAACAGATTCAAAGATTGGTGTTTCAAG
44131 AGAAACTGTCTCAAGAGAGACAAAACTTTGTTTTAAGGG
66 AGAAACTGTCTCAAGAGAGACAAAACTTTGTTTTAAGGG
* * *
44170 AAACTATCTCAAGGGAGACGAAA-TTTATTTCAAG-GAAAACAGATTCAAAGATT-TTGTTTCAA
1 AAACTATCCCAAGGGAGACAAAATTTTATTTCAAGAG-AAACAGATTCAAAGATTGGTGTTTCAA
* *
44232 GGGAAACTGTCTCAAGAGAGATAAAACTT
65 GAGAAACTGTCTCAAGAGAGACAAAACTT
44261 GGAAACTGTC
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
102 36 0.44
103 26 0.32
104 19 0.23
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (104 bp):
AAACTATCCCAAGGGAGACAAAATTTTATTTCAAGAGAAACAGATTCAAAGATTGGTGTTTCAAG
AGAAACTGTCTCAAGAGAGACAAAACTTTGTTTTAAGGG
Found at i:44592 original size:106 final size:106
Alignment explanation
Indices: 44408--44668 Score: 400
Period size: 106 Copynumber: 2.5 Consensus size: 106
44398 GTATTGTTTT
* * * * *
44408 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACT-GGAAATTGTATGTTGATA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTTTGAAATTGGGAAATTGTATGTTGACA
*
44471 ACCAGTCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGTCGTCCCTTCGCTGTGAAGTTGAACTTATGTTGTCTC
* *
44513 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTTTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTTTGAAATTGGGAAATTGTATGTTGACAA
*
44578 CCAGTCGTCCCTTCGCTGTTAAGTTGAACTTATGTTGTCTC
66 CCAGTCGTCCCTTCGCTGTGAAGTTGAACTTATGTTGTCTC
* *
44619 GAGTCTAATATCCTTCACTGTGAAGTTGAAATTGGCTTTGAAATTGGGAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTTTGAAATTGGGAA
44669 GCCCCTTCAT
Statistics
Matches: 142, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
105 38 0.27
106 104 0.73
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTTTGAAATTGGGAAATTGTATGTTGACAA
CCAGTCGTCCCTTCGCTGTGAAGTTGAACTTATGTTGTCTC
Found at i:45420 original size:33 final size:32
Alignment explanation
Indices: 45331--45443 Score: 129
Period size: 33 Copynumber: 3.5 Consensus size: 32
45321 TTCATATCAG
* * * * *
45331 GATGTTGAAT-TCCAAAGATGCCCCAATATTC
1 GATGTTGAATCTCAAAAAATACCCCAACATTT
*
45362 GATGTTGAATCTAAAAAAATACCCCAACATTT
1 GATGTTGAATCTCAAAAAATACCCCAACATTT
* *
45394 GATGTTAAATCTCCAAAAAATTCCCCAACATTT
1 GATGTTGAATCT-CAAAAAATACCCCAACATTT
45427 GATGTTGAATCTTCAAA
1 GATGTTGAATC-TCAAA
45444 GATGCCCTCA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
31 10 0.14
32 26 0.38
33 32 0.46
34 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (32 bp):
GATGTTGAATCTCAAAAAATACCCCAACATTT
Found at i:46575 original size:13 final size:12
Alignment explanation
Indices: 46524--46583 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
46514 TTTTCCTTTG
*
46524 TTTTTGTTTCTC
1 TTTTTTTTTCTC
46536 TTTTTTATTTTCTC
1 -TTTTT-TTTTCTC
*
46550 TTTACTTTTTCT-
1 TTT-TTTTTTCTC
*
46562 TTGTTTTTTCTC
1 TTTTTTTTTCTC
46574 TTTTTCTTTT
1 TTTTT-TTTT
46584 TTTGATTGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
11 7 0.18
12 6 0.16
13 18 0.47
14 7 0.18
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.78
Consensus pattern (12 bp):
TTTTTTTTTCTC
Found at i:49637 original size:26 final size:27
Alignment explanation
Indices: 49599--49655 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
49589 ATACAAATAT
*
49599 AAGAAATAAATAAATTAAATTAAAAAG
1 AAGAAATAAATAAATTAAATAAAAAAG
*
49626 AAGAAA-AAATAAATTAAATAAAAAAT
1 AAGAAATAAATAAATTAAATAAAAAAG
49652 AAGA
1 AAGA
49656 TAAAGAAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 22 0.79
27 6 0.21
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (27 bp):
AAGAAATAAATAAATTAAATAAAAAAG
Found at i:49735 original size:44 final size:45
Alignment explanation
Indices: 49620--49735 Score: 107
Period size: 44 Copynumber: 2.6 Consensus size: 45
49610 AAATTAAATT
* *
49620 AAAAAGAAG-AAAAAATAAATTAAATAAAAAATAAGATAAAGAAAG
1 AAAAAGAAGAAAAAAAT-AAGTAAATAAAAAATAAGATAAAAAAAG
* * * * *
49665 -CAAAG-ATAAAATAGTAAGTAATATAAAAAAT-ATATAAAAAAAG
1 AAAAAGAAGAAAAAAATAAGTAA-ATAAAAAATAAGATAAAAAAAG
49708 AAAAAGAAGAAAAAAATATA-TAAATAAA
1 AAAAAGAAGAAAAAAATA-AGTAAATAAA
49736 TGTTGAGTTA
Statistics
Matches: 55, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
43 16 0.29
44 27 0.49
45 11 0.20
46 1 0.02
ACGTcount: A:0.73, C:0.01, G:0.09, T:0.16
Consensus pattern (45 bp):
AAAAAGAAGAAAAAAATAAGTAAATAAAAAATAAGATAAAAAAAG
Found at i:52749 original size:20 final size:20
Alignment explanation
Indices: 52692--52751 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
52682 ATCATAACTC
52692 ATGGGGGTATCGATTCCCTA
1 ATGGGGGTATCGATTCCCTA
* * * *
52712 AAGGAGGGAATCGGTTCCCTT
1 ATGG-GGGTATCGATTCCCTA
52733 ATGGGGGTATCGATTCCCT
1 ATGGGGGTATCGATTCCCT
52752 CTGCCAAATA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.28
Consensus pattern (20 bp):
ATGGGGGTATCGATTCCCTA
Found at i:56355 original size:64 final size:64
Alignment explanation
Indices: 56219--56343 Score: 171
Period size: 64 Copynumber: 2.0 Consensus size: 64
56209 TAAAATAAAG
* * * ** *
56219 ACATCAAATGCAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAA
1 ACATCGAATGCAATTCGTGCATCGATGCAAAAGGAGTGCATCGATGCATCCCAGCAATAATGAA
*
56283 ACATCGAATGCAA-TCGGTGCATCGATGTAAAAGGAGTGCATCGATGCATCCCAGCAATAAT
1 ACATCGAATGCAATTC-GTGCATCGATGCAAAAGGAGTGCATCGATGCATCCCAGCAATAAT
56344 ACTACATCGA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
63 2 0.04
64 51 0.96
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (64 bp):
ACATCGAATGCAATTCGTGCATCGATGCAAAAGGAGTGCATCGATGCATCCCAGCAATAATGAA
Found at i:56930 original size:16 final size:16
Alignment explanation
Indices: 56909--56993 Score: 65
Period size: 16 Copynumber: 5.4 Consensus size: 16
56899 TCGAGGGTTT
56909 ACATATGTTTAAAGGC
1 ACATATGTTTAAAGGC
**
56925 ACATATG---AACAGTTT
1 ACATATGTTTAA-AG-GC
56940 ACATATGTTTAAAGGC
1 ACATATGTTTAAAGGC
*
56956 ACATATG---AACAGTC
1 ACATATGTTTAA-AGGC
56970 TACATATGTTTAAAGGC
1 -ACATATGTTTAAAGGC
56987 ACATATG
1 ACATATG
56994 AACAGTTTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 20
0.67 0.08 0.25
Matches are distributed among these distances:
13 4 0.08
14 5 0.09
15 14 0.26
16 21 0.40
17 5 0.09
18 4 0.08
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (16 bp):
ACATATGTTTAAAGGC
Found at i:56943 original size:31 final size:31
Alignment explanation
Indices: 56905--57188 Score: 433
Period size: 31 Copynumber: 9.2 Consensus size: 31
56895 AGAGTCGAGG
56905 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
56936 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
56967 GTCTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
** *
56998 GTTTGTATATGTTTAAAGGCATATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
57029 ATCTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* ** * *
57060 ATTTGTATATGTTTAAAGACACAAATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
57091 GTCTACATATGTTTAAAGGCATATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
**
57122 GTTTGTATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
57153 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
57184 GTTTA
1 GTTTA
57189 TATTGTGACC
Statistics
Matches: 225, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 225 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:56983 original size:62 final size:62
Alignment explanation
Indices: 56908--57187 Score: 479
Period size: 62 Copynumber: 4.5 Consensus size: 62
56898 GTCGAGGGTT
**
56908 TACATATGTTTAAAGGCACATATGAACAGTTTACATATGTTTAAAGGCACATATGAACAGTC
1 TACATATGTTTAAAGGCACATATGAACAGTTTGTATATGTTTAAAGGCACATATGAACAGTC
* *
56970 TACATATGTTTAAAGGCACATATGAACAGTTTGTATATGTTTAAAGGCATATATGAACAATC
1 TACATATGTTTAAAGGCACATATGAACAGTTTGTATATGTTTAAAGGCACATATGAACAGTC
* * *
57032 TACATATGTTTAAAGGCACATATGAACAATTTGTATATGTTTAAAGACACAAATGAACAGTC
1 TACATATGTTTAAAGGCACATATGAACAGTTTGTATATGTTTAAAGGCACATATGAACAGTC
* *
57094 TACATATGTTTAAAGGCATATATGAACAGTTTGTATATGTTTAAAGGCACATATGAACAGTT
1 TACATATGTTTAAAGGCACATATGAACAGTTTGTATATGTTTAAAGGCACATATGAACAGTC
57156 TACATATGTTTAAAGGCACATATGAACAGTTT
1 TACATATGTTTAAAGGCACATATGAACAGTTT
57188 ATATTGTGAC
Statistics
Matches: 203, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 203 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (62 bp):
TACATATGTTTAAAGGCACATATGAACAGTTTGTATATGTTTAAAGGCACATATGAACAGTC
Found at i:60431 original size:64 final size:64
Alignment explanation
Indices: 60295--60419 Score: 180
Period size: 64 Copynumber: 2.0 Consensus size: 64
60285 TAAAATAAAG
* * * ** *
60295 ACATCAAATGCAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAA
1 ACATCGAATGCAATTCGTGCATCGATGCAAAAGGAGTGCATCGATGCATCCCAGCAATAATGAA
60359 ACATCGAATGCAA-TCGGTGCATCGATGCAAAAGGAGTGCATCGATGCATCCCAGCAATAAT
1 ACATCGAATGCAATTC-GTGCATCGATGCAAAAGGAGTGCATCGATGCATCCCAGCAATAAT
60420 ACTACATCGA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 2 0.04
64 52 0.96
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (64 bp):
ACATCGAATGCAATTCGTGCATCGATGCAAAAGGAGTGCATCGATGCATCCCAGCAATAATGAA
Found at i:61029 original size:31 final size:31
Alignment explanation
Indices: 60981--61264 Score: 388
Period size: 31 Copynumber: 9.2 Consensus size: 31
60971 AGAGTCGAGG
* *
60981 GTTTACACATGTGTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
61012 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* * *
61043 GTCTACATATATTTAAAGGCACATATGAATA
1 GTTTACATATGTTTAAAGGCACATATGAACA
**
61074 GTTTGTATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
61105 GTCTACAAATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
** *
61136 GTTTGTATATGTTTAAAGGCACATATGAGCA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* * *
61167 ATCTACATATGTTTAAAGGCACATATGAATA
1 GTTTACATATGTTTAAAGGCACATATGAACA
** *
61198 GTTTGTATATGTTTAAAGGCACATATAAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
**
61229 GTTTGTATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
61260 GTTTA
1 GTTTA
61265 TATTGTGACC
Statistics
Matches: 220, Mismatches: 33, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 220 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:61037 original size:16 final size:16
Alignment explanation
Indices: 61016--61069 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
61006 TGAACAGTTT
61016 ACATATGTTTAAAGGC
1 ACATATGTTTAAAGGC
*
61032 ACATATG---AACAGTC
1 ACATATGTTTAA-AGGC
*
61046 TACATATATTTAAAGGC
1 -ACATATGTTTAAAGGC
61063 ACATATG
1 ACATATG
61070 AATAGTTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
13 2 0.07
14 3 0.10
15 6 0.21
16 13 0.45
17 3 0.10
18 2 0.07
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (16 bp):
ACATATGTTTAAAGGC
Found at i:61069 original size:62 final size:62
Alignment explanation
Indices: 60984--61263 Score: 434
Period size: 62 Copynumber: 4.5 Consensus size: 62
60974 GTCGAGGGTT
* * **
60984 TACACATGTGTAAAGGCACATATGAACAGTTTACATATGTTTAAAGGCACATATGAACAGTC
1 TACATATGTTTAAAGGCACATATGAACAGTTTGTATATGTTTAAAGGCACATATGAACAGTC
* *
61046 TACATATATTTAAAGGCACATATGAATAGTTTGTATATGTTTAAAGGCACATATGAACAGTC
1 TACATATGTTTAAAGGCACATATGAACAGTTTGTATATGTTTAAAGGCACATATGAACAGTC
* * *
61108 TACAAATGTTTAAAGGCACATATGAACAGTTTGTATATGTTTAAAGGCACATATGAGCAATC
1 TACATATGTTTAAAGGCACATATGAACAGTTTGTATATGTTTAAAGGCACATATGAACAGTC
* * *
61170 TACATATGTTTAAAGGCACATATGAATAGTTTGTATATGTTTAAAGGCACATATAAACAGTT
1 TACATATGTTTAAAGGCACATATGAACAGTTTGTATATGTTTAAAGGCACATATGAACAGTC
**
61232 TGTATATGTTTAAAGGCACATATGAACAGTTT
1 TACATATGTTTAAAGGCACATATGAACAGTTT
61264 ATATTGTGAC
Statistics
Matches: 198, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 198 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (62 bp):
TACATATGTTTAAAGGCACATATGAACAGTTTGTATATGTTTAAAGGCACATATGAACAGTC
Found at i:64691 original size:20 final size:20
Alignment explanation
Indices: 64655--64709 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
64645 CGTTAAACAA
*
64655 GGGGGAATCGG-TACCCCTG
1 GGGGGAATCGGTTCCCCCTG
64674 GGGGGAATCGGTTCCCCCTG
1 GGGGGAATCGGTTCCCCCTG
64694 GGGGGAATCGGTTCCC
1 GGGGGAATCGGTTCCC
64710 TCCGAGCATA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 11 0.32
20 23 0.68
ACGTcount: A:0.13, C:0.27, G:0.42, T:0.18
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCCCTG
Found at i:65078 original size:2 final size:2
Alignment explanation
Indices: 65073--65097 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
65063 AGTAAAAATA
65073 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 A
65098 ATAAAAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65782 original size:37 final size:37
Alignment explanation
Indices: 65732--65839 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
65722 TTGTGGATCC
*
65732 TATTTTTAGGAGTTTGAATCGTAGTAAAACTCTATCA
1 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
*
65769 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCT
1 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
*
65806 TATTTTTAGGAGTTTGAATCCTATTAAAACTCTA
1 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTA
65840 ACGTTTGTTT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (37 bp):
TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
Found at i:66207 original size:22 final size:22
Alignment explanation
Indices: 66182--66232 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
66172 TTATTTATTT
66182 TTTTAAATA-AAAATATTTTAAA
1 TTTTAAATATAAAAT-TTTTAAA
66204 TTTTAAATATAAAATTTTTAAA
1 TTTTAAATATAAAATTTTTAAA
*
66226 TATTAAA
1 TTTTAAA
66233 AATCAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTTAAATATAAAATTTTTAAA
Found at i:66222 original size:15 final size:16
Alignment explanation
Indices: 66204--66233 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
66194 ATATTTTAAA
66204 TTTTAAATA-TAAAAT
1 TTTTAAATATTAAAAT
66219 TTTTAAATATTAAAA
1 TTTTAAATATTAAAA
66234 ATCAAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTTAAATATTAAAAT
Found at i:66240 original size:22 final size:23
Alignment explanation
Indices: 66186--66242 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
66176 TTATTTTTTT
*
66186 AAATAAAAATATTTTAAATTTTAA
1 AAAT-AAAATATTTTAAATATTAA
*
66210 ATATAAAAT-TTTTAAATATTAA
1 AAATAAAATATTTTAAATATTAA
*
66232 AAATCAAATAT
1 AAATAAAATAT
66243 AACAATACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 19 0.68
23 6 0.21
24 3 0.11
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATAAAATATTTTAAATATTAA
Found at i:66336 original size:21 final size:21
Alignment explanation
Indices: 66310--66352 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
66300 GGATAAGTAT
66310 AACATAGTATCGTGAATTATC
1 AACATAGTATCGTGAATTATC
66331 AACATAGTATCGTGAATTATC
1 AACATAGTATCGTGAATTATC
66352 A
1 A
66353 CGTTAATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (21 bp):
AACATAGTATCGTGAATTATC
Found at i:71855 original size:19 final size:21
Alignment explanation
Indices: 71831--71879 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
71821 ATATATATTA
71831 AAAATAGTA-CATAG-TTTTG
1 AAAATAGTATCATAGTTTTTG
*
71850 AAAATA-TATTATAGTTTTTG
1 AAAATAGTATCATAGTTTTTG
71870 AAAATAGTAT
1 AAAATAGTAT
71880 AAATATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 2 0.08
19 10 0.38
20 11 0.42
21 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.41
Consensus pattern (21 bp):
AAAATAGTATCATAGTTTTTG
Found at i:71897 original size:31 final size:31
Alignment explanation
Indices: 71851--71941 Score: 152
Period size: 31 Copynumber: 3.0 Consensus size: 31
71841 ATAGTTTTGA
71851 AAATATA-T-TATAGTTTTTGAAAATAGTAT
1 AAATATATTATATAGTTTTTGAAAATAGTAT
71880 AAATATATTATATAGTTTTTGAAAATAGTAT
1 AAATATATTATATAGTTTTTGAAAATAGTAT
*
71911 AAATATATTATATAG-TTTTGAAAATAATAT
1 AAATATATTATATAGTTTTTGAAAATAGTAT
71941 A
1 A
71942 TAGTTTTAGA
Statistics
Matches: 59, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
29 7 0.12
30 16 0.27
31 36 0.61
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (31 bp):
AAATATATTATATAGTTTTTGAAAATAGTAT
Found at i:82068 original size:30 final size:30
Alignment explanation
Indices: 82001--82090 Score: 143
Period size: 28 Copynumber: 3.1 Consensus size: 30
81991 TAAATTTTAG
82001 TTTTCATCCCTCTATTATGCTTAC-AATTT
1 TTTTCATCCCTCTATTATGCTTACAAATTT
82030 TTTT-ATCCCTCTATTATGCTTACAAATTT
1 TTTTCATCCCTCTATTATGCTTACAAATTT
*
82059 TTTTCATCCCTCTATTACGCTT--AAATTT
1 TTTTCATCCCTCTATTATGCTTACAAATTT
82087 TTTT
1 TTTT
82091 AATAGTCTAA
Statistics
Matches: 58, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
28 29 0.50
29 13 0.22
30 16 0.28
ACGTcount: A:0.21, C:0.22, G:0.03, T:0.53
Consensus pattern (30 bp):
TTTTCATCCCTCTATTATGCTTACAAATTT
Found at i:84128 original size:7 final size:7
Alignment explanation
Indices: 84116--84181 Score: 55
Period size: 7 Copynumber: 9.1 Consensus size: 7
84106 TTTTAAAAAA
84116 TATTTTT
1 TATTTTT
84123 TA-TTTT
1 TATTTTT
84129 TA-TTTT
1 TATTTTT
*
84135 TATTAATAT
1 TATT--TTT
*
84144 TATTTAT
1 TATTTTT
*
84151 TATTATTAA
1 TATT-TT-T
84160 TATTTTT
1 TATTTTT
84167 TATTTTT
1 TATTTTT
84174 TATTTTT
1 TATTTTT
84181 T
1 T
84182 TTTACAGAGC
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
6 12 0.24
7 25 0.50
8 3 0.06
9 10 0.20
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TATTTTT
Found at i:84130 original size:6 final size:6
Alignment explanation
Indices: 84119--84184 Score: 53
Period size: 6 Copynumber: 10.7 Consensus size: 6
84109 TAAAAAATAT
** * **
84119 TTTTTA TTTTTA TTTTTA TTAATA TTATTTA TTATTA TTAATA TTTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TT-TTTA TTTTTA TTTTTA -TTTTTA
84169 TTTTTTA TTTTT- TTTT
1 -TTTTTA TTTTTA TTTT
84185 ACAGAGCCCA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
5 4 0.08
6 31 0.62
7 15 0.30
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:84134 original size:25 final size:25
Alignment explanation
Indices: 84106--84157 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
84096 TTGTCCATTT
* *
84106 TTTTAAAAAATATTTTTTATTTTTA
1 TTTTAAAAAATATTATTTATTATTA
* **
84131 TTTTTATTAATATTATTTATTATTA
1 TTTTAAAAAATATTATTTATTATTA
84156 TT
1 TT
84158 AATATTTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTAAAAAATATTATTTATTATTA
Found at i:84138 original size:19 final size:19
Alignment explanation
Indices: 84116--84184 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 19
84106 TTTTAAAAAA
84116 TATTTTTTATTTTTATTTT
1 TATTTTTTATTTTTATTTT
*
84135 TATTAATATTATTTATTATTATT
1 TATT--TTTTATTT-TTATT-TT
84158 AATATTTTTTATTTTTTATTTT
1 --TATTTTTTA-TTTTTATTTT
84180 T-TTTT
1 TATTTT
84185 ACAGAGCCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
19 8 0.20
20 1 0.02
21 7 0.17
22 7 0.17
23 11 0.27
24 3 0.07
25 4 0.10
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (19 bp):
TATTTTTTATTTTTATTTT
Found at i:84155 original size:16 final size:15
Alignment explanation
Indices: 84128--84166 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
84118 TTTTTTATTT
84128 TTATTTTTATTAATA
1 TTATTTTTATTAATA
*
84143 TTATTTATTATTATTA
1 TTATTT-TTATTAATA
*
84159 ATATTTTT
1 TTATTTTT
84167 TATTTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATTTTTATTAATA
Found at i:84163 original size:25 final size:25
Alignment explanation
Indices: 84114--84163 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
84104 TTTTTTAAAA
* * **
84114 AATATTTTTTATTTTTATTTTTATT
1 AATATTATTTATTATTATTAATATT
84139 AATATTATTTATTATTATTAATATT
1 AATATTATTTATTATTATTAATATT
84164 TTTTATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (25 bp):
AATATTATTTATTATTATTAATATT
Found at i:85377 original size:3 final size:3
Alignment explanation
Indices: 85366--85422 Score: 96
Period size: 3 Copynumber: 18.7 Consensus size: 3
85356 ATGATTTTTT
*
85366 TTA TATA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
85412 TTA TTA TTA TT
1 TTA TTA TTA TT
85423 TTACTCAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:89737 original size:84 final size:83
Alignment explanation
Indices: 89589--90774 Score: 1156
Period size: 84 Copynumber: 14.3 Consensus size: 83
89579 CTATTTACAA
* * * * * * *
89589 CATAGCTCAAGGCAAGAAGGGCTATTTTCCAACAAAAGACCTTCGAGTTCGACTATGCTAAGCTC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTC
89654 CAAGGCACATCATTTGCAG
65 CAAGGCACATCATTTGCAG
* * *
89673 CATAACTCAAGGCTAGAAGGGTTATATACCAACAAAAGACCTTCGAGTTCGACTATGCTCAGCTC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTC
*
89738 CAAGGCACATCATTTGCAA
65 CAAGGCACATCATTTGCAG
* * * * * * *
89757 AATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAA-ATGTCTTTGAGTTCGACTACGCTCAGCT
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGA--CCTTCGAGTTCGACTACGCTCAGCT
*
89821 CCAAGGCACATCATTTACAG
64 CCAAGGCACATCATTTGCAG
* * * *
89841 CATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGGTCAGCTCT
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
89906 AAGGCACATCATTTGCAG
66 AAGGCACATCATTTGCAG
* * * * * * * * *
89924 CATAGCTTAAGTCGAGAAGGGCTATCT---ACCAAAGACCTTTGAGTTTGACTACACTCAGCT-C
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
*
89985 AATGGCACATCATTTGTAG
66 AA-GGCACATCATTTGCAG
* * * * * * * * * *
90004 TATAACTTAAGTCGAGAAGGGCTATCTGCTAACCAAAGACCTTCGAGTTTGATTACACTCAGTTT
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACGCTCAG-CT
* * *
90069 CGAGGGCACATCATTTGTAG
64 CCAAGGCACATCATTTGCAG
* * *
90089 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGTTTAGCTCG
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
* * *
90154 AAGGCATATAATTTGTAG
66 AAGGCACATCATTTGCAG
* * * * * * * ***
90172 TATAGCTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACCTTCGAGTTCGATTATATTCAGCTT
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACGCTCAGC-T
* * * *
90237 CGAGGGCATAACATTTGCAG
64 CCAAGGCACATCATTTGCAG
* *
90257 CATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACGCTCGGCTCC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
*
90322 AAGGCACATCATTTGTAG
66 AAGGCACATCATTTGCAG
* * ** * * * *
90340 CATAACTTAA-GTTGAGAAGGACTATCT---ACCAAAGACCCTCGAGTTCGATTACACTCAGCTT
1 CATAACTCAAGGCT-AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGC-T
* * * *
90401 CGAGGGCACATCATTTACAA
64 CCAAGGCACATCATTTGCAG
* * * *
90421 CATAACTCAAGGGTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
* * *
90486 AAGCCATATCATTTGTAG
66 AAGGCACATCATTTGCAG
* * * ** *
90504 CATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTTAAGTTCGACT-CAGCCCAGCT
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTAC-GCTCAGCT
*
90568 CCAAGGCACATCATTTGTAG
64 CCAAGGCACATCATTTGCAG
* * * * * **
90588 CATAGCTTAAGTCGAGAAGGGTTATCTG-C--CAAAGACCTTCGAGTTCGATTACATTCAGCTTC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGC-TC
* * *
90650 GAGGGCACATCATTTGTAG
65 CAAGGCACATCATTTGCAG
* * *
90669 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGATCG
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
* *
90734 AAGACACATCATTTACAG
66 AAGGCACATCATTTGCAG
*
90752 CATAACTCAAGGCAAGAAGGGTT
1 CATAACTCAAGGCTAGAAGGGTT
90775 GTATGTCAAT
Statistics
Matches: 917, Mismatches: 160, Indels: 51
0.81 0.14 0.05
Matches are distributed among these distances:
79 2 0.00
80 118 0.13
81 80 0.09
82 6 0.01
83 227 0.25
84 397 0.43
85 86 0.09
86 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (83 bp):
CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
AAGGCACATCATTTGCAG
Found at i:90373 original size:416 final size:414
Alignment explanation
Indices: 89581--90758 Score: 1458
Period size: 416 Copynumber: 2.8 Consensus size: 414
89571 AATTTTTTCT
* * * * *
89581 ATTTACAACATAGCTCAAG-GCAAGAAGGGCTAT-TTTCCAACAAAAGACCTTCGAGTTCGACTA
1 ATTTACAACATAACTCAAGCG-TAGAAGGGCTATCTGT--AACCAAAGACCTTCGAGTTTGACTA
** * * * *
89644 TGCTAAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATATACCAACAAA
63 CACTCAGCTCCAAGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AA
* * * * * *
89709 AGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCACATCATTTGCAAAATAGCTCAAGGCAAGA
127 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGAATAGCTTAAGTCGAGA
* * * * * * ** * *
89774 AGGGCTATTTGCCAACAAAATG-TCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTT
192 AGGGTTATCTG-CAACCAAA-GACCTTCGAGTTCGATTACATTCAGCTTCGAGGGCACATCATTT
* * *
89837 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGGTCAG
255 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACGCTCAG
* * * * *
89902 CTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCTTTGAG
320 CTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGACTATCTACCAAAGACCCTCGAG
* *
89967 TTTGACTACACTCAGC-TCAATGGCACATC
385 TTCGACTACACTCAGCTTCAAGGGCACATC
** ** * *
89996 ATTTGTAGTATAACTTAAGTCG-AGAAGGGCTATCTGCTAACCAAAGACCTTCGAGTTTGATTAC
1 ATTTACAACATAACTCAAG-CGTAGAAGGGCTATCTG-TAACCAAAGACCTTCGAGTTTGACTAC
* * *
90060 ACTCAGTTTCGAGGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAA
64 ACTCAG-CTCCAAGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAA
* * * * * *
90125 GACCTTCGAGTTCGACTACGTTTAGCTCGAAGGCATATAATTTGTAGTATAGCTTAAGTCGAGAA
128 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGAATAGCTTAAGTCGAGAA
* * *
90190 GGGTTATCTGCTAACCAAAGACCTTCGAGTTCGATTATATTCAGCTTCGAGGGCATAACATTTGC
193 GGGTTATCTGC-AACCAAAGACCTTCGAGTTCGATTACATTCAGCTTCGAGGGCACATCATTTGC
*
90255 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACGCTCGGCT
257 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACGCTCAGCT
* *
90320 CCAAGGCACATCATTTGTAGCATAACTTAAGTTGAGAAGGACTATCTACCAAAGACCCTCGAGTT
322 CCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGACTATCTACCAAAGACCCTCGAGTT
* *
90385 CGATTACACTCAGCTTCGAGGGCACATC
387 CGACTACACTCAGCTTCAAGGGCACATC
* * * *
90413 ATTTACAACATAACTCAAGGGTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTTGACTACGC
1 ATTTACAACATAACTCAAGCGTAGAAGGGCTATCTGTAACCAAAGACCTTCGAGTTTGACTACAC
* * * * *
90478 TCAGCTCCAAGCCATATCATTTGTAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGA
66 TCAGCTCCAAGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGA
** * *
90543 CCTTTAAGTTCGACT-CAGCCCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAG
130 CCTTCGAGTTCGACTAC-GCTCAGCTCCAAGGCACATCATTTGTAGAATAGCTTAAGTCGAGAAG
*
90607 GGTTATCTG---CCAAAGACCTTCGAGTTCGATTACATTCAGCTTCGAGGGCACATCATTTGTAG
194 GGTTATCTGCAACCAAAGACCTTCGAGTTCGATTACATTCAGCTTCGAGGGCACATCATTTGCAG
* * * *
90669 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGATCG
259 CATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
* *
90734 AAGACACATCATTTACAGCATAACT
324 AAGGCACATCATTTGCAGCATAACT
90759 CAAGGCAAGA
Statistics
Matches: 653, Mismatches: 98, Indels: 27
0.84 0.13 0.03
Matches are distributed among these distances:
412 131 0.20
414 2 0.00
415 185 0.28
416 295 0.45
417 40 0.06
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (414 bp):
ATTTACAACATAACTCAAGCGTAGAAGGGCTATCTGTAACCAAAGACCTTCGAGTTTGACTACAC
TCAGCTCCAAGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGAC
CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGAATAGCTTAAGTCGAGAAGGG
TTATCTGCAACCAAAGACCTTCGAGTTCGATTACATTCAGCTTCGAGGGCACATCATTTGCAGCA
TAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA
GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGACTATCTACCAAAGACCCTCGAGTTCGAC
TACACTCAGCTTCAAGGGCACATC
Found at i:90773 original size:248 final size:248
Alignment explanation
Indices: 89623--90774 Score: 1206
Period size: 248 Copynumber: 4.6 Consensus size: 248
89613 TTTTCCAACA
*** * *
89623 AAAGACCTTCGAGTTCGACTATGCTAAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTA
1 AAAGACCTTCGAGTTCGACTACATTCAGCTCGAAGGCACATCATTTGCAGCATAACTCAAGGCTA
* * *
89688 GAAGGGTTATATACCAACAAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCACATCATTT
66 GAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
** * * * * * *
89753 GCAAAATAGCTCAAGGCAAGAAGGGCTATTTGCCAACAAAATG-TCTTTGAGTTCGACTACGCTC
130 GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAA-GACCTTCGAGTTCGACTACGCTC
** *
89817 AGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC
194 AGCTCCAAGGCACATCATTTGTAGCATAACTCAAGGCGAGAAGGGTTATCTG-C-CC
** * * * * *
89874 AAAGACCTTCGAGTTCGACTACGGTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACATTCAGCTCGAAGGCACATCATTTGCAGCATAACTCAAGGCTA
* * * * *
89939 GAAGGGCTATCT---ACCAAAGACCTTTGAGTTTGACTACACTCAGCT-CAATGGCACATCATTT
66 GAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTT
* * * * * * * * * *
90000 GTAGTATAACTTAAGTCGAGAAGGGCTATCTGCTAACCAAAGACCTTCGAGTTTGATTACACTCA
130 GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCA
* * * *
90065 GTTTCGAGGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC
195 G-CTCCAAGGCACATCATTTGTAGCATAACTCAAGGCGAGAAGGGTTATCTGCC--C
* * * * * * * * * *
90122 AAAGACCTTCGAGTTCGACTACGTTTAGCTCGAAGGCATATAATTTGTAGTATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACATTCAGCTCGAAGGCACATCATTTGCAGCATAACTCAAGGCTA
* * *** * * * *
90187 GAAGGGTTATCTGCTAACCAAAGACCTTCGAGTTCGATTATATTCAGCTTCGAGGGCATAACATT
66 GAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
* *
90252 TGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAA-CAAAGACCTTCGAGTTCGACTACGCTC
129 TGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTC
* * ** ** *
90316 GGCTCCAAGGCACATCATTTGTAGCATAACTTAAGTTGAGAAGGACTATCT-ACC
194 AGCTCCAAGGCACATCATTTGTAGCATAACTCAAGGCGAGAAGGGTTATCTGCCC
* * * * * * *
90370 AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGGT
1 AAAGACCTTCGAGTTCGACTACATTCAGC-TCGAAGGCACATCATTTGCAGCATAACTCAAGGCT
* * * * *
90435 AGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGCCATATCATTT
65 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* * * ** *
90500 GTAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTTAAGTTCGACT-CAGCCC
130 GCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC-GCTC
* * *
90564 AGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGTTATCTG-CC
194 AGCTCCAAGGCACATCATTTGTAGCATAACTCAAGGCGAGAAGGGTTATCTGCCC
* * *
90618 AAAGACCTTCGAGTTCGATTACATTCAGCTTCGAGGGCACATCATTTGTAGCATAACTCAAGGCT
1 AAAGACCTTCGAGTTCGACTACATTCAGC-TCGAAGGCACATCATTTGCAGCATAACTCAAGGCT
* * * *
90683 AGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGATCGAAGACACATCATTT
65 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
*
90748 ACAGCATAACTCAAGGCAAGAAGGGTT
130 GCAGCATAACTCAAGGCAAGAAGGGTT
90775 GTATGTCAAT
Statistics
Matches: 751, Mismatches: 135, Indels: 33
0.82 0.15 0.04
Matches are distributed among these distances:
246 5 0.01
247 133 0.18
248 376 0.50
249 38 0.05
250 1 0.00
251 108 0.14
252 50 0.07
253 39 0.05
254 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (248 bp):
AAAGACCTTCGAGTTCGACTACATTCAGCTCGAAGGCACATCATTTGCAGCATAACTCAAGGCTA
GAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
CAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
CTCCAAGGCACATCATTTGTAGCATAACTCAAGGCGAGAAGGGTTATCTGCCC
Found at i:95137 original size:26 final size:25
Alignment explanation
Indices: 95108--95156 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
95098 AGTGATAACA
*
95108 GTAATTCATATAATAATAATAAAATG
1 GTAACTCATATAATAA-AATAAAATG
* *
95134 GTAACTGATATGATAAAATAAAA
1 GTAACTCATATAATAAAATAAAA
95157 CTAGCCTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.55, C:0.04, G:0.10, T:0.31
Consensus pattern (25 bp):
GTAACTCATATAATAAAATAAAATG
Found at i:96593 original size:251 final size:243
Alignment explanation
Indices: 96151--97024 Score: 830
Period size: 251 Copynumber: 3.5 Consensus size: 243
96141 ATATACCAAA
** * * * *
96151 TCATAAAACTTTTTGCTC-TAACTTATTTTGTTCTCGTGGG-AACTCCGAGGCTCCATCTGCTAA
1 TCATAAAA-TTTAAGCTCTTAACTTATTTTATTATAGTGGGAAACT-CAAGGCTCCATC-GCTAA
* * * *
96214 AA-CTTCATAATATTTTAGGCTCAATCACTTTATTGT-GAAATAATAAGATCACAAATTGCAATG
63 AATC-TCATAATATTTTAGGCGCAATCACTTTATTATAAAAATAATAAGAT-ACAGATTGCAATG
96277 CTTTCTTAGGGGGTCATGATATTTGGGTGCAA-CTATTTTATTAATACAAAATTTAACATTACAA
126 CTTTCTTA-GGGG-CATGA-ATTTGGGTGCAATCTA-TTTATTAATAC-AAATTT-ACATTACAA
* * *
96341 GTCGCATCTTGTTTCATTTAGAACCATTATGTTAT-TAGCTATCGTATCTATTATTCATAT
185 GTCGCA-CTTATTTCATTTAGAACCATTATGTTATGTAGCAACCGTATCTA-TATTCATAT
* * *
96401 TCATAAGATTTTAAGCTCTTAACTTA-TTTA-TATAGTGGCAAACTTCAAGGCTCTATCAGCTAA
1 TCATAA-AATTTAAGCTCTTAACTTATTTTATTATAGTGGGAAAC-TCAAGGCTCCATC-GCTAA
* * *
96464 AATTTCTTAATATTTTAGGCGCAATCACTTTTATTATAAAAAATTAATAAGA-ATAGATTGCAAT
63 AATCTCATAATATTTTAGGCGCAATCAC-TTTATTAT-AAAAA-TAATAAGATACAGATTGCAA-
* *
96528 TGCTTTCTTAGAGGGCCAT-AACTTCTGGGTGCAATCTATTCTGTTAATAC-AATTTATATTACA
124 TGCTTTCTTAG-GGG-CATGAA-TT-TGGGTGCAATCTATT-TATTAATACAAATTTACATTACA
* *
96591 AGTCGCAACTTATTACATTTAGAACCATTATGTTATTGTGAGCAACCATATCTAGTATT-ATAT
184 AGTCGC-ACTTATTTCATTTAGAACCATTATGTTA-TGT-AGCAACCGTATCTA-TATTCATAT
* * *
96654 TCATAAAACTTAAGCCCTTAACTTATTTTATTATCA-TGGGGAAC-CAAGGCTCCATCGACTAAA
1 TCATAAAATTTAAGCTCTTAACTTATTTTATTAT-AGTGGGAAACTCAAGGCTCCATCG-CTAAA
96717 A-CTCATAATATTTTAGGCGCAATCACTTTATTATAAAAATAATAAGATTACAGATTGCAACATG
64 ATCTCATAATATTTTAGGCGCAATCACTTTATTATAAAAATAATAAGA-TACAGATTGC-A-ATG
* * * * *
96781 CTTT-ATAGGGGCATGAAATTTTAGGCGCAATCTATTTATTAATACAAATTAACATTACAAGTCA
126 CTTTCTTAGGGGCATG-AA-TTTGGGTGCAATCTATTTATTAATACAAATTTACATTACAAGTCG
* * * * * * *
96845 CAATTATTTCATTTAGAACTATGATATT-TGGATGCAACCGTATCTATATGCCA-AA
189 CACTTATTTCATTTAGAACCATTATGTTATGTA-GCAACCGTATCTATAT-TCATAT
** *
96900 TCATAAAACTTTGTGCTCTTAACTTATTTTATTATCGTGGGAAACTCCAAGGCTCCATCGGCTTA
1 TCATAAAA-TTTAAGCTCTTAACTTATTTTATTATAGTGGGAAACT-CAAGGCTCCATC-GC-TA
* * *
96965 AACTCTCATAATATTTGAGGTGCAATCACTTTTATTATAAAAATAATAAGATTACAGATT
62 AAATCTCATAATATTTTAGGCGCAATCAC-TTTATTATAAAAATAATAAGA-TACAGATT
97025 AACATGATTC
Statistics
Matches: 522, Mismatches: 61, Indels: 80
0.79 0.09 0.12
Matches are distributed among these distances:
245 4 0.01
246 23 0.04
247 30 0.06
248 41 0.08
249 56 0.11
250 86 0.16
251 109 0.21
252 84 0.16
253 45 0.09
254 43 0.08
255 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (243 bp):
TCATAAAATTTAAGCTCTTAACTTATTTTATTATAGTGGGAAACTCAAGGCTCCATCGCTAAAAT
CTCATAATATTTTAGGCGCAATCACTTTATTATAAAAATAATAAGATACAGATTGCAATGCTTTC
TTAGGGGCATGAATTTGGGTGCAATCTATTTATTAATACAAATTTACATTACAAGTCGCACTTAT
TTCATTTAGAACCATTATGTTATGTAGCAACCGTATCTATATTCATAT
Done.