Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000658.1 Hibiscus syriacus cultivar Beakdansim tig00001280_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: 243114
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:5207 original size:20 final size:21
Alignment explanation
Indices: 5182--5233 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
5172 TTTTCCCAAT
*
5182 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
5202 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
5223 TCGCAATGCGA
1 TCGCAATGCGA
5234 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:5247 original size:20 final size:20
Alignment explanation
Indices: 5222--5335 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
5212 AATTGGGAAA
*
5222 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
5242 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
5262 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
5283 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
5303 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
5323 TTCGCAACGCGAT
1 ATCGCAACGCGAT
5336 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:5266 original size:61 final size:61
Alignment explanation
Indices: 5219--5335 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
5209 GCGAATTGGG
* * * * *
5219 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
5280 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
5336 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:5916 original size:19 final size:19
Alignment explanation
Indices: 5856--5936 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
5846 TTCGAGAATG
5856 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
** *
5876 ACTATCGCAA--CGAGAT-
1 AAAATCGCAACGCGAAATA
5892 --AATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
5909 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
5928 AAAATCGCA
1 AAAATCGCA
5937 TTGCGATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
14 7 0.14
16 5 0.10
17 4 0.08
18 1 0.02
19 24 0.49
20 8 0.16
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:5959 original size:19 final size:19
Alignment explanation
Indices: 5932--6116 Score: 147
Period size: 19 Copynumber: 10.1 Consensus size: 19
5922 GAAACCAAAA
*
5932 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
5951 TCACGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
5970 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
5989 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
6009 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
6025 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
6042 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
6056 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
6075 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
* **
6095 ATCTCGTTGATATTTTCATT
1 -TCGCGTTGCGATTTTCATT
6115 TC
1 TC
6117 AACCAAAAGA
Statistics
Matches: 134, Mismatches: 19, Indels: 26
0.75 0.11 0.15
Matches are distributed among these distances:
14 20 0.15
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 58 0.43
20 47 0.35
21 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:6008 original size:39 final size:38
Alignment explanation
Indices: 5932--6021 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 38
5922 GAAACCAAAA
*
5932 TCGCATTGCGATTTTCATTTCACGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCACGTTGCGATTTTCATT
* *
5970 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCAC-GTTGCGATTTTCATT
6009 TCGCGTTGCGATT
1 TCGCGTTGCGATT
6022 GTCTGGTCGC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 20 0.42
39 28 0.58
ACGTcount: A:0.12, C:0.20, G:0.21, T:0.47
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCACGTTGCGATTTTCATT
Found at i:6032 original size:39 final size:39
Alignment explanation
Indices: 5955--6032 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
5945 TTCATTTCAC
* **
5955 GTTGCGATTTTCATTTCGCGTTGCGATTTTTATTTCGCG
1 GTTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCG
5994 GTTGCGATTTTCATTTCGCGTTGCGATTGTCT-GGTCGCG
1 GTTGCGATTTTCATTTCGCGTTGCGATT-TCTAGGTCGCG
6033 ATAGTCATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
39 33 0.94
40 2 0.06
ACGTcount: A:0.09, C:0.19, G:0.27, T:0.45
Consensus pattern (39 bp):
GTTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCG
Found at i:6041 original size:33 final size:33
Alignment explanation
Indices: 6004--6091 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
5994 GTTGCGATTT
* *
6004 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
6037 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
6070 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
6092 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:6102 original size:20 final size:19
Alignment explanation
Indices: 6056--6103 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
6046 GTTGCGATTC
*
6056 TCTCGTTGCGATAGTCATT
1 TCTCGTTGCGATACTCATT
* *
6075 TCCGCGTTGCGATTCTCATT
1 T-CTCGTTGCGATACTCATT
6095 ATCTCGTTG
1 -TCTCGTTG
6104 ATATTTTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.12, C:0.25, G:0.21, T:0.42
Consensus pattern (19 bp):
TCTCGTTGCGATACTCATT
Found at i:8169 original size:42 final size:42
Alignment explanation
Indices: 8109--8231 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
8099 GCCTGACTCG
* * *
8109 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
8151 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
8193 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
8232 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:8189 original size:21 final size:21
Alignment explanation
Indices: 8165--8231 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
8155 TCATTCCTCG
8165 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
8186 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
8207 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
8228 AGAG
1 AGAG
8232 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:9609 original size:14 final size:14
Alignment explanation
Indices: 9590--9625 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
9580 ATTGTTTAAT
9590 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
9604 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
9618 TGATTTGT
1 TGATTTGT
9626 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:9847 original size:33 final size:31
Alignment explanation
Indices: 9822--9883 Score: 106
Period size: 33 Copynumber: 1.9 Consensus size: 31
9812 GCGATTCCCT
9822 CGTTGCGATTTTCATTTCGCATTGCGAAATTAG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTAG
9855 CGTTGCGATTTTCATTTCGCATTGCGATT
1 CGTTGCGATTTTCATTTCGCATTGCGATT
9884 TTCATTTCGC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 3 0.10
33 26 0.90
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (31 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTAG
Found at i:9848 original size:19 final size:19
Alignment explanation
Indices: 9824--9901 Score: 94
Period size: 19 Copynumber: 4.4 Consensus size: 19
9814 GATTCCCTCG
9824 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* * *
9843 TTGCGA-----AATTAGCG
1 TTGCGATTTTCATTTCGCA
9857 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
9876 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
9895 TTGCGAT
1 TTGCGAT
9902 AGTAATTTCC
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
14 11 0.23
19 37 0.77
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:9909 original size:19 final size:19
Alignment explanation
Indices: 9868--9910 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
9858 TGCGATTTTC
** *
9868 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATAGTA
9887 ATTTCGCATTGCGATAGTA
1 ATTTCGCATTGCGATAGTA
9906 ATTTC
1 ATTTC
9911 CACGTTGCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (19 bp):
ATTTCGCATTGCGATAGTA
Found at i:12414 original size:24 final size:24
Alignment explanation
Indices: 12380--12433 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
12370 CTGAAACATC
* * *
12380 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTAACCAAG
*
12404 ATCAAAGTCCGGGTATTAACCAAG
1 ATCAAAATCCGGGTATTAACCAAG
12428 ATCAAA
1 ATCAAA
12434 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTAACCAAG
Found at i:13522 original size:20 final size:20
Alignment explanation
Indices: 13493--13550 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
13483 ATTCATTTGA
*
13493 CTATCACAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
13513 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
13533 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
13551 CGCAATGCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:13614 original size:19 final size:19
Alignment explanation
Indices: 13569--13636 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
13559 GAAATGAAAA
13569 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
13585 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
13602 TCGCATTGTGATTTTCATT
1 TCGCATTGCGATTTTCATT
13621 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
13637 TCATTGCGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
14 11 0.24
16 3 0.07
17 3 0.07
19 28 0.62
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.49
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:13772 original size:14 final size:14
Alignment explanation
Indices: 13753--13789 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
13743 CATCAATTAA
13753 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
13767 ACAAATCATCTTTT
1 ACAAATCAACATTT
13781 ACAAATCAA
1 ACAAATCAA
13790 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:15682 original size:19 final size:19
Alignment explanation
Indices: 15658--15724 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
15648 GAAACTTAAA
15658 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
15677 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCG-AAATGACT
* **
15697 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
15716 ATCGCAACG
1 ATCGCAACG
15725 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:15774 original size:14 final size:14
Alignment explanation
Indices: 15755--15810 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
15745 ACAAATCGCA
15755 TTGCGATTTTGTCG
1 TTGCGATTTTGTCG
*
15769 TTGCGATTTCATTTCG
1 TTGCGATTT--TGTCG
15785 CATTGCGATTTTGTCG
1 --TTGCGATTTTGTCG
*
15801 TTGCAATTTT
1 TTGCGATTTT
15811 CATTTCGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 18 0.51
16 8 0.23
18 9 0.26
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.50
Consensus pattern (14 bp):
TTGCGATTTTGTCG
Found at i:15791 original size:32 final size:33
Alignment explanation
Indices: 15750--15826 Score: 129
Period size: 32 Copynumber: 2.4 Consensus size: 33
15740 GAAACACAAA
*
15750 TCGCATTGCGATTTTGTCGTTGCGA-TTTCATT
1 TCGCATTGCGATTTTGTCGTTGCAATTTTCATT
15782 TCGCATTGCGATTTTGTCGTTGCAATTTTCATT
1 TCGCATTGCGATTTTGTCGTTGCAATTTTCATT
*
15815 TCGTATTGCGAT
1 TCGCATTGCGAT
15827 AGCCATTTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
32 24 0.57
33 18 0.43
ACGTcount: A:0.14, C:0.18, G:0.21, T:0.47
Consensus pattern (33 bp):
TCGCATTGCGATTTTGTCGTTGCAATTTTCATT
Found at i:15792 original size:18 final size:16
Alignment explanation
Indices: 15750--15800 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
15740 GAAACACAAA
15750 TCGCATTGCGATTTTG
1 TCGCATTGCGATTTTG
*
15766 TCG--TTGCGATTTCATT
1 TCGCATTGCGATTT--TG
15782 TCGCATTGCGATTTTG
1 TCGCATTGCGATTTTG
15798 TCG
1 TCG
15801 TTGCAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.31
16 11 0.38
18 9 0.31
ACGTcount: A:0.12, C:0.20, G:0.24, T:0.45
Consensus pattern (16 bp):
TCGCATTGCGATTTTG
Found at i:15845 original size:20 final size:20
Alignment explanation
Indices: 15820--15865 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
15810 TCATTTCGTA
15820 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* * *
15840 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGCG
15860 TTGCGA
1 TTGCGA
15866 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:16373 original size:18 final size:18
Alignment explanation
Indices: 16347--16391 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
16337 GTCGATCAGA
*
16347 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
16365 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
16383 TGATGGCTC
1 TGATGGCTC
16392 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:17736 original size:20 final size:20
Alignment explanation
Indices: 17711--17764 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
17701 AATAGTTTCT
17711 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
** *
17731 GAAAATGACTATCGCAACGC
1 GAAAATGAAAATCGCAACAC
*
17751 GAAACT-AAAATCGC
1 GAAAATGAAAATCGC
17765 GTTACGATTC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:18006 original size:22 final size:22
Alignment explanation
Indices: 17979--18022 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
17969 GATGGAGATA
17979 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
18001 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
18023 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:18285 original size:41 final size:41
Alignment explanation
Indices: 18190--18287 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 41
18180 CGCTTTGAAA
* *
18190 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
* * * * * *
18231 ATCTCGTTACGATTTTTTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
18272 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
18288 CCCAATTCGC
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.40
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
Found at i:18303 original size:41 final size:41
Alignment explanation
Indices: 18273--18365 Score: 143
Period size: 41 Copynumber: 2.3 Consensus size: 41
18263 ATAGTCAGTA
* *
18273 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTATTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCATGTAT
*
18314 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACT-TAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCA-TGTAT
18355 TCGCATTGCGA
1 TCGCATTGCGA
18366 ATTGGGAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 50 0.98
42 1 0.02
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCATGTAT
Found at i:18338 original size:21 final size:21
Alignment explanation
Indices: 18273--18365 Score: 93
Period size: 20 Copynumber: 4.5 Consensus size: 21
18263 ATAGTCAGTA
18273 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* **
18294 TCGCGTTGCGATTTAT--TTAT
1 TCGCATTGCGATTT-TCCCAAT
18314 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
18335 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
18355 TCGCATTGCGA
1 TCGCATTGCGA
18366 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
19 1 0.02
20 31 0.53
21 25 0.43
22 1 0.02
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:21058 original size:60 final size:60
Alignment explanation
Indices: 20935--21108 Score: 205
Period size: 60 Copynumber: 3.0 Consensus size: 60
20925 AGTTACATGT
* * * * * * *
20935 ACTCGAGTGTTGAGCATTTTAT-AGAATAGATCTAATATGTTACAGTCTAGATAAAAAGT
1 ACTCAAGTGTTGAGCATTTTATAAAAATAAATCTAATATGTTACAATTTAGATAAAAGGA
* * *
20994 ACTCAGGTGTTGAGCGTTTTATAAAAATAAATCTAATATGTTGCAATTTAGATAAAAGGA
1 ACTCAAGTGTTGAGCATTTTATAAAAATAAATCTAATATGTTACAATTTAGATAAAAGGA
* *
21054 ACTCAAGT-TT-AGAATTTTATAAAAAT-AA-CTAATATGTTACAAGTTAGATAAAAGG
1 ACTCAAGTGTTGAGCATTTTATAAAAATAAATCTAATATGTTACAATTTAGATAAAAGG
21109 TAAAAAATAT
Statistics
Matches: 99, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
56 25 0.25
57 2 0.02
58 14 0.14
59 21 0.21
60 37 0.37
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (60 bp):
ACTCAAGTGTTGAGCATTTTATAAAAATAAATCTAATATGTTACAATTTAGATAAAAGGA
Found at i:22461 original size:17 final size:17
Alignment explanation
Indices: 22439--22471 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22429 TGTGTGTGTG
*
22439 TGTATATATATATATAA
1 TGTATATAAATATATAA
22456 TGTATATAAATATATA
1 TGTATATAAATATATA
22472 GATTTTTCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (17 bp):
TGTATATAAATATATAA
Found at i:31064 original size:27 final size:28
Alignment explanation
Indices: 31005--31066 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
30995 TTTTTTTTAG
* * *
31005 AATAATGAGTTGGTAAAAAGTGGTCAAT
1 AATAATAATTTGGTAAAAAGTGGTAAAT
*
31033 AATAATAATTTGGTAAGAA-TGGTAAAT
1 AATAATAATTTGGTAAAAAGTGGTAAAT
*
31060 CATAATA
1 AATAATA
31067 TCAATAATAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 13 0.45
28 16 0.55
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (28 bp):
AATAATAATTTGGTAAAAAGTGGTAAAT
Found at i:33645 original size:17 final size:18
Alignment explanation
Indices: 33610--33642 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33600 ATGTTTTTGA
33610 TATAAAATAGAACTAAAT
1 TATAAAATAGAACTAAAT
33628 TATAAAA-AGAA-TAAA
1 TATAAAATAGAACTAAA
33643 ATTGTTGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 4 0.27
18 7 0.47
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (18 bp):
TATAAAATAGAACTAAAT
Found at i:39406 original size:22 final size:23
Alignment explanation
Indices: 39361--39409 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
39351 TTTGTGTTTC
39361 TTTTTAAAATATATATAATTTTAT
1 TTTTTAAAATATATATAA-TTTAT
* *
39385 TTTTTAAATTTTATATAA-TTAT
1 TTTTTAAAATATATATAATTTAT
39407 TTT
1 TTT
39410 AAATTATCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 7 0.30
24 16 0.70
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTTTAAAATATATATAATTTAT
Found at i:47762 original size:2 final size:2
Alignment explanation
Indices: 47755--47811 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
47745 AAATCTATTA
47755 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47797 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
47812 CTTTATCTCG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:48122 original size:2 final size:2
Alignment explanation
Indices: 48117--48145 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
48107 AAATTTATTA
48117 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 A
48146 AAAATTAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49219 original size:20 final size:19
Alignment explanation
Indices: 49196--49254 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 19
49186 CCTCGGATTC
49196 CCTCGCATGCTCTCGGATGG
1 CCTCG-ATGCTCTCGGATGG
*
49216 CCTCG--G---TCAGATGG
1 CCTCGATGCTCTCGGATGG
49230 CCTCGGATGCTCTCGGATGG
1 CCTC-GATGCTCTCGGATGG
49250 CCTCG
1 CCTCG
49255 GTCGGATGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 13
0.67 0.04 0.28
Matches are distributed among these distances:
14 11 0.35
15 1 0.03
17 2 0.06
19 1 0.03
20 16 0.52
ACGTcount: A:0.10, C:0.34, G:0.32, T:0.24
Consensus pattern (19 bp):
CCTCGATGCTCTCGGATGG
Found at i:49240 original size:34 final size:34
Alignment explanation
Indices: 49196--49273 Score: 129
Period size: 34 Copynumber: 2.3 Consensus size: 34
49186 CCTCGGATTC
*
49196 CCTCGCATGCTCTCGGATGGCCTCGGTCAGATGG
1 CCTCGGATGCTCTCGGATGGCCTCGGTCAGATGG
*
49230 CCTCGGATGCTCTCGGATGGCCTCGGTCGGATGG
1 CCTCGGATGCTCTCGGATGGCCTCGGTCAGATGG
*
49264 CCTCAGATGC
1 CCTCGGATGC
49274 CCAGCGTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.12, C:0.32, G:0.33, T:0.23
Consensus pattern (34 bp):
CCTCGGATGCTCTCGGATGGCCTCGGTCAGATGG
Found at i:49261 original size:14 final size:14
Alignment explanation
Indices: 49208--49267 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 14
49198 TCGCATGCTC
49208 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
*
49222 TCAGATGGCCTCGGATG
1 TCGGATGGCCTC-G--G
49239 CTCTCGGATGGCCTCGG
1 ---TCGGATGGCCTCGG
49256 TCGGATGGCCTC
1 TCGGATGGCCTC
49268 AGATGCCCAG
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
17 2 0.05
19 1 0.03
20 11 0.29
ACGTcount: A:0.10, C:0.30, G:0.37, T:0.23
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:49349 original size:29 final size:29
Alignment explanation
Indices: 49312--49369 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
49302 GCAATCTCTT
* *
49312 GTAGCTCGCCGGGAATACATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
* *
49341 GTAGGTCGCCCGGAAGGCATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
49370 CGGCCAACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.22, C:0.28, G:0.34, T:0.16
Consensus pattern (29 bp):
GTAGCTCGCCCGGAAGACATGGCGACCTA
Found at i:50266 original size:43 final size:42
Alignment explanation
Indices: 50219--50950 Score: 225
Period size: 43 Copynumber: 17.1 Consensus size: 42
50209 GCGAGTTCCA
* *
50219 TAATTATTTTAATATAACTTTTTATATTTATAGTTAAGACTCC
1 TAATT-TTTTAATCTAACTTTTTATATTTATAATTAAGACTCC
* * * * * *
50262 TAATTTTTTCATCTCATTTTTTATTTTTATAATTGAGGA-TCA
1 TAATTTTTTAATCTAACTTTTTATATTTATAATT-AAGACTCC
* *
50304 TAATTTTTTCAATCTAACTTTTTACATTTATAATTAAGACCCC
1 TAATTTTTT-AATCTAACTTTTTATATTTATAATTAAGACTCC
* * ** * * *
50347 TAATTTTTTCAT-TCCACTTTTTACCTTTATAATTGAGTCCCC
1 TAATTTTTTAATCT-AACTTTTTATATTTATAATTAAGACTCC
* * ** * * * *
50389 TTATTTTGTTCATCCCACGTTTTA-ATTTTATATTTGAGGC-CC
1 TAATTTT-TTAATCTAACTTTTTATA-TTTATAATTAAGACTCC
* * * ** *
50431 TTAATTTTTTTTAATATCACTTTCTACCTTTATGATTGAAG-C-CC
1 -TAA--TTTTTTAATCTAACTTTTTATATTTATAATT-AAGACTCC
* * * *
50475 TTAATTTTTTTTATTCTCACTTTTTACT-TTTATAATTGAG-GTCC
1 -TAA--TTTTTTAATCTAACTTTTTA-TATTTATAATTAAGACTCC
* * ** *
50519 TTAATTTTTTCAATCTCACTTTATAGCTTTATAATTGAA-AC-CTA
1 -TAATTTTTT-AATCTAACTTTTTATATTTATAATT-AAGACTC-C
* ** * **
50563 TAATTTTTTGAATCTCACTTTTTACCTTTATAGCTT-AGGTTCC
1 TAATTTTTT-AATCTAACTTTTTATATTTATA-ATTAAGACTCC
* * * *
50606 TAATTTTTGAATCTCACTTTTTATCTTTATAATTAATG-CCCC
1 TAATTTTTTAATCTAACTTTTTATATTTATAATTAA-GACTCC
* * * *
50648 TAATTTTTTGAATTTCACTTTCTATCTTTATAATTGAAG-C-CC
1 TAATTTTTT-AATCTAACTTTTTATATTTATAATT-AAGACTCC
* * ** * *
50690 TAATTTTTGCAATCT-ACATTTTACCTTTATAATCGAAGTC-CC
1 TAATTTTT-TAATCTAACTTTTTATATTTATAAT-TAAGACTCC
* *** *
50732 TAATTTTTTTAATCTTACTTTTTATATTTATAACCGAGAC-CAT
1 TAA-TTTTTTAATCTAACTTTTTATATTTATAATTAAGACTC-C
* * * * *
50775 TCATTTTTTCAATCTCACTTTTTATCTTTATAACTAAG-GTCC
1 TAATTTTTT-AATCTAACTTTTTATATTTATAATTAAGACTCC
* * *
50817 TTAATTTTTTCAATCTAACATTCTATCTTTATAATTGAAG-C-CC
1 -TAATTTTTT-AATCTAACTTTTTATATTTATAATT-AAGACTCC
* ** * *
50860 ATAGTTCTTTTATATC--ACTTTTTAGCTTTATAATTGAG-GTCCC
1 -TAATT-TTTTA-ATCTAACTTTTTATATTTATAATTAAGACT-CC
* * * * *
50903 AAATTTTCTAATCCAACTTTTTACT-TTTATAATTTAGACCCC
1 TAATTTTTTAATCTAACTTTTTA-TATTTATAATTAAGACTCC
50945 TAATTT
1 TAATTT
50951 AATCATTTTT
Statistics
Matches: 537, Mismatches: 108, Indels: 89
0.73 0.15 0.12
Matches are distributed among these distances:
40 3 0.01
41 27 0.05
42 190 0.35
43 237 0.44
44 74 0.14
45 6 0.01
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (42 bp):
TAATTTTTTAATCTAACTTTTTATATTTATAATTAAGACTCC
Found at i:50395 original size:85 final size:85
Alignment explanation
Indices: 50219--50950 Score: 465
Period size: 85 Copynumber: 8.6 Consensus size: 85
50209 GCGAGTTCCA
* * * * *
50219 TAATTATTTT-AATATAACTTTTTATATTTATAGTTAAGACTCCTAATTTTTTC-ATCTCATTTT
1 TAATT-TTTTCAATCTAACTTTTTACATTTATAATTAAGACCCCTAATTTTTTCAATCTCACTTT
** *
50282 TTATTTTTATAATTGAGGAT-CA
65 TTACCTTTATAATTGA-G-TCCC
*
50304 TAATTTTTTCAATCTAACTTTTTACATTTATAATTAAGACCCCTAATTTTTTCATTC-CACTTTT
1 TAATTTTTTCAATCTAACTTTTTACATTTATAATTAAGACCCCTAATTTTTTCAATCTCACTTTT
50368 TACCTTTATAATTGAGTCCCC
66 TACCTTTATAATTGAGT-CCC
* ** * * * * * * *
50389 TTATTTTGTTC-ATCCCACGTTTTA-ATTTTATATTTGAGGCCCTTAATTTTTTTTAATATCACT
1 TAATTTT-TTCAATCTAACTTTTTACA-TTTATAATTAAGACCCCTAA-TTTTTTCAATCTCACT
* *
50452 TTCTACCTTTATGATTGAAG-CCC
63 TTTTACCTTTATAATTG-AGTCCC
* * * * * ** *
50475 TTAATTTTTTTTATTCTCACTTTTTACTTTTATAATTGAGGTCCTTAATTTTTTCAATCTCACTT
1 -TAA-TTTTTTCAATCTAACTTTTTACATTTATAATTAAGACCCCTAATTTTTTCAATCTCACTT
* * ** *
50540 TATAGCTTTATAATTGAAACCTA
64 TTTACCTTTATAATTGAGTCC-C
* * * * *** *
50563 TAATTTTTTGAATCTCACTTTTTACCTTTATAGCTT-AGGTTCCTAA-TTTTTGAATCTCACTTT
1 TAATTTTTTCAATCTAACTTTTTACATTTATA-ATTAAGACCCCTAATTTTTTCAATCTCACTTT
* * *
50626 TTATCTTTATAATTAATGCCCC
65 TTACCTTTATAATTGA-GTCCC
* * * * * *
50648 TAATTTTTTGAATTTCACTTTCTATC-TTTATAATTGAAG--CCCTAATTTTTGCAATCT-ACAT
1 TAATTTTTTCAATCTAACTTTTTA-CATTTATAATT-AAGACCCCTAATTTTTTCAATCTCACTT
*
50709 TTTACCTTTATAATCGAAGTCCC
64 TTTACCTTTATAATTG-AGTCCC
* * * *** ** *
50732 TAATTTTTTTAATCTTACTTTTTATATTTATAACCGAGACCATTCATTTTTTCAATCTCACTTTT
1 TAATTTTTTCAATCTAACTTTTTACATTTATAATTAAGACCCCTAATTTTTTCAATCTCACTTTT
* * * *
50797 TATCTTTATAACTAAGGTCCT
66 TACCTTTATAATTGA-GTCCC
* * * * *
50818 TAATTTTTTCAATCTAACATTCTATC-TTTATAATTGAAG-CCCATAGTTCTTTT--ATATCACT
1 TAATTTTTTCAATCTAACTTTTTA-CATTTATAATT-AAGACCCCTAATT-TTTTCAATCTCACT
*
50879 TTTTAGCTTTATAATTGAGGTCCC
63 TTTTACCTTTATAATTGA-GTCCC
* * * * *
50903 AAATTTTCT-AATCCAACTTTTTACTTTTATAATTTAGACCCCTAATTT
1 TAATTTTTTCAATCTAACTTTTTACATTTATAATTAAGACCCCTAATTT
50951 AATCATTTTT
Statistics
Matches: 511, Mismatches: 104, Indels: 66
0.75 0.15 0.10
Matches are distributed among these distances:
83 7 0.01
84 87 0.17
85 212 0.41
86 107 0.21
87 64 0.13
88 34 0.07
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (85 bp):
TAATTTTTTCAATCTAACTTTTTACATTTATAATTAAGACCCCTAATTTTTTCAATCTCACTTTT
TACCTTTATAATTGAGTCCC
Found at i:50469 original size:87 final size:86
Alignment explanation
Indices: 50330--50556 Score: 237
Period size: 87 Copynumber: 2.6 Consensus size: 86
50320 ACTTTTTACA
* * * *
50330 TTTATAATTAAGACCCCTAATTTTTTC-AT-TCCACTTTTTACCTTTATAATTGAGTCCCCTT-A
1 TTTATAATTGAGGCCCTTAATTTTTTCAATAT-CACTTTATACCTTTATAATTGAG--CCCTTAA
50392 TTTTGTTCA-TCCCACGTTTTAAT
63 TTTTGTTCATTCCCACGTTTTAAT
* * * *
50415 TTTATATTTGAGGCCCTTAATTTTTTTTAATATCACTTTCTACCTTTATGATTGAAGCCCTTAAT
1 TTTATAATTGAGGCCCTTAA-TTTTTTCAATATCACTTTATACCTTTATAATTG-AGCCCTTAAT
* * * * *
50480 TTTTTTTATTCTCACTTTTTACT
64 TTTGTTCATTCCCACGTTTTAAT
* * *
50503 TTTATAATTGAGGTCCTTAATTTTTTCAATCTCACTTTATAGCTTTATAATTGA
1 TTTATAATTGAGGCCCTTAATTTTTTCAATATCACTTTATACCTTTATAATTGA
50557 AACCTATAAT
Statistics
Matches: 117, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
85 16 0.14
86 12 0.10
87 57 0.49
88 32 0.27
ACGTcount: A:0.24, C:0.18, G:0.07, T:0.51
Consensus pattern (86 bp):
TTTATAATTGAGGCCCTTAATTTTTTCAATATCACTTTATACCTTTATAATTGAGCCCTTAATTT
TGTTCATTCCCACGTTTTAAT
Found at i:50783 original size:212 final size:215
Alignment explanation
Indices: 50304--50896 Score: 539
Period size: 212 Copynumber: 2.8 Consensus size: 215
50294 TTGAGGATCA
* * * ** ** *
50304 TAATTTTTTCAATCTAACTTTTTACATTTATAA-TTAAGACCCCTAATTTTTTCATTC-CACTTT
1 TAATTTTTTCAATCTCACTTTATAGATTTATAACCGAA-ACCTATAATTTTTTCAATCTCACTTT
* * ** * * * *
50367 TTACCTTTATAATTGA-GTCCCCTT-ATTTTGTTC-ATCCCACGTTTTAAT-TTTATATTTGAGG
65 TTACCTTTATAACTAAGGT--CCTTAATTTT-TTCAATCTAACATTCT-ATCTTTATAATTGAAG
* * ** *
50428 CCCTTAATTTTTTTTAATATCACTTTCTACCTTTATGATTGAAGCCCTTAATTTTTTTTATTCTC
126 CCCATAA--TTTTTTAATATCACTTTCTACCTTTATAATTGAAGCCCTTAATTTTTTGCAATCTC
* * * * *
50493 ACTTTTTACTTTTATAATTGAGGTCCT
189 ACATTTTACCTTTATAATCGAAGTCCC
* ** *
50520 TAATTTTTTCAATCTCACTTTATAGCTTTATAATTGAAACCTATAATTTTTTGAATCTCACTTTT
1 TAATTTTTTCAATCTCACTTTATAGATTTATAACCGAAACCTATAATTTTTTCAATCTCACTTTT
* * * * * *
50585 TACCTTTATAGCTTAGGTTCC-TAA-TTTTTGAATCTCACTTTTTATCTTTATAATT-AATGCCC
66 TACCTTTATAACTAAGG-TCCTTAATTTTTTCAATCTAACATTCTATCTTTATAATTGAA-GCCC
* * *
50647 CTAATTTTTTGAATTTCACTTTCTATCTTTATAATTGAAGCCC-TAA-TTTTTGCAATCT-ACAT
129 ATAATTTTTT-AATATCACTTTCTACCTTTATAATTGAAGCCCTTAATTTTTTGCAATCTCACAT
50709 TTTACCTTTATAATCGAAGTCCC
193 TTTACCTTTATAATCGAAGTCCC
* * * * * *
50732 TAATTTTTTTAATCTTACTTTTTATATTTATAACCGAGACC-ATTCATTTTTTCAATCTCACTTT
1 TAATTTTTTCAATCTCACTTTATAGATTTATAACCGAAACCTA-TAATTTTTTCAATCTCACTTT
*
50796 TTATCTTTATAACTAAGGTCCTTAATTTTTTCAATCTAACATTCTATCTTTATAATTGAAGCCCA
65 TTACCTTTATAACTAAGGTCCTTAATTTTTTCAATCTAACATTCTATCTTTATAATTGAAGCCCA
* * *
50861 TAGTTCTTTT-ATATCACTTTTTAGCTTTATAATTGA
130 TAATT-TTTTAATATCACTTTCTACCTTTATAATTGA
50897 GGTCCCAAAT
Statistics
Matches: 312, Mismatches: 51, Indels: 32
0.79 0.13 0.08
Matches are distributed among these distances:
211 4 0.01
212 115 0.37
213 44 0.14
214 15 0.05
215 34 0.11
216 73 0.23
217 25 0.08
218 1 0.00
219 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.06, T:0.50
Consensus pattern (215 bp):
TAATTTTTTCAATCTCACTTTATAGATTTATAACCGAAACCTATAATTTTTTCAATCTCACTTTT
TACCTTTATAACTAAGGTCCTTAATTTTTTCAATCTAACATTCTATCTTTATAATTGAAGCCCAT
AATTTTTTAATATCACTTTCTACCTTTATAATTGAAGCCCTTAATTTTTTGCAATCTCACATTTT
ACCTTTATAATCGAAGTCCC
Found at i:51311 original size:22 final size:24
Alignment explanation
Indices: 51254--51312 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
51244 TATATTTTTA
* *
51254 TTAAAATTTAAAATATAAATTATT
1 TTAATATTTTAAATATAAATTATT
**
51278 TTAATAAATTAAATATAAA-TA-T
1 TTAATATTTTAAATATAAATTATT
51300 TTAATATTTTAAA
1 TTAATATTTTAAA
51313 ATTTATTATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 12 0.41
23 2 0.07
24 15 0.52
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TTAATATTTTAAATATAAATTATT
Found at i:57310 original size:29 final size:29
Alignment explanation
Indices: 57258--57380 Score: 120
Period size: 29 Copynumber: 4.1 Consensus size: 29
57248 AATTTAATAC
* *
57258 TTGTACTTTGACAGAATATTTAATGTGATAT
1 TTGTACTTTTA-A-AATATCTAATGTGATAT
* *
57289 TTATACTTTTAAAATATCTAATTTGATAT
1 TTGTACTTTTAAAATATCTAATGTGATAT
* * * *
57318 TTGTATTTTTAAAATGTCTAATATAATAT
1 TTGTACTTTTAAAATATCTAATGTGATAT
* *
57347 TTGTACTTTAAAGAAAATCTAATGTGATACT
1 TTGTACTTTTAA-AATATCTAATGTGATA-T
57378 TTG
1 TTG
57381 ACAAAATATT
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
29 49 0.65
30 13 0.17
31 13 0.17
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.47
Consensus pattern (29 bp):
TTGTACTTTTAAAATATCTAATGTGATAT
Found at i:63654 original size:35 final size:35
Alignment explanation
Indices: 63591--63676 Score: 111
Period size: 35 Copynumber: 2.5 Consensus size: 35
63581 AGAAAGGAAG
* *
63591 CAAAACCCTAATT-CAAGTAACTCGTCGTAAATTA
1 CAAAACCCTAATTCCAAGTAAATCATCGTAAATTA
* *
63625 CAAAACTCTAATTCCAAGTAAATCATCGTAAATTG
1 CAAAACCCTAATTCCAAGTAAATCATCGTAAATTA
* *
63660 CGAAACCCTAAATCCAA
1 CAAAACCCTAATTCCAA
63677 ATGGATCAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 12 0.27
35 32 0.73
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.24
Consensus pattern (35 bp):
CAAAACCCTAATTCCAAGTAAATCATCGTAAATTA
Found at i:64758 original size:25 final size:26
Alignment explanation
Indices: 64722--64773 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
64712 CTCATTTTAA
*
64722 AAAACTATTTGTTCAACTA-AAAAAC
1 AAAACTATTTGTTCAAATAGAAAAAC
*
64747 AAAA-TATATTGTTTAAATAGAAAAAC
1 AAAACTAT-TTGTTCAAATAGAAAAAC
64773 A
1 A
64774 TTTTAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 3 0.13
25 13 0.57
26 7 0.30
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.29
Consensus pattern (26 bp):
AAAACTATTTGTTCAAATAGAAAAAC
Found at i:67246 original size:24 final size:25
Alignment explanation
Indices: 67205--67251 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
67195 ACTTAAAAAA
67205 AAAATTAGAAGCTCGATTGAAGTCT
1 AAAATTAGAAGCTCGATTGAAGTCT
* *
67230 AAAATTCG-AGCTTGATTGAAGT
1 AAAATTAGAAGCTCGATTGAAGT
67252 GAAAGAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (25 bp):
AAAATTAGAAGCTCGATTGAAGTCT
Found at i:69532 original size:24 final size:23
Alignment explanation
Indices: 69505--69549 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
69495 GGTGAACGGT
*
69505 TAAATACATACAGAAATTAACTGC
1 TAAAAACATACAGAAA-TAACTGC
*
69529 TAAAAACATTCAGAAATAACT
1 TAAAAACATACAGAAATAACT
69550 TACTTTTCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.53, C:0.16, G:0.07, T:0.24
Consensus pattern (23 bp):
TAAAAACATACAGAAATAACTGC
Found at i:84753 original size:10 final size:10
Alignment explanation
Indices: 84736--84784 Score: 80
Period size: 10 Copynumber: 4.9 Consensus size: 10
84726 TCTATCTTAC
84736 AATTTAATCT
1 AATTTAATCT
*
84746 ACTTTAATCT
1 AATTTAATCT
84756 AATTTAATCT
1 AATTTAATCT
*
84766 ACTTTAATCT
1 AATTTAATCT
84776 AATTTAATC
1 AATTTAATC
84785 ATTAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (10 bp):
AATTTAATCT
Found at i:84755 original size:129 final size:129
Alignment explanation
Indices: 84525--84764 Score: 462
Period size: 129 Copynumber: 1.9 Consensus size: 129
84515 TATTTTTTAT
84525 TTTTTATGTTTGTTGTATTTTTATGTTTCAAAAAATTAGTATGTTTATTTATCTAATTTCAATAT
1 TTTTTATGTTTGTTGTATTTTTATGTTTCAAAAAATTAGTATGTTTATTTATCTAATTTCAATAT
*
84590 ATTTTTATCTATCTTGCAATTTAATCTACTTTAATCTAATTTAATCATTAAAAAAAATTCTATG
66 ATTTTTATCTATCTTACAATTTAATCTACTTTAATCTAATTTAATCATTAAAAAAAATTCTATG
*
84654 TTTTTATGTTTGTTGTATTTTTATGTTTCAAAAAATTAGTATGTTTATTTATCTAATTTCAATGT
1 TTTTTATGTTTGTTGTATTTTTATGTTTCAAAAAATTAGTATGTTTATTTATCTAATTTCAATAT
84719 ATTTTTATCTATCTTACAATTTAATCTACTTTAATCTAATTTAATC
66 ATTTTTATCTATCTTACAATTTAATCTACTTTAATCTAATTTAATC
84765 TACTTTAATC
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 109 1.00
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (129 bp):
TTTTTATGTTTGTTGTATTTTTATGTTTCAAAAAATTAGTATGTTTATTTATCTAATTTCAATAT
ATTTTTATCTATCTTACAATTTAATCTACTTTAATCTAATTTAATCATTAAAAAAAATTCTATG
Found at i:84761 original size:20 final size:20
Alignment explanation
Indices: 84736--84784 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
84726 TCTATCTTAC
84736 AATTTAATCTACTTTAATCT
1 AATTTAATCTACTTTAATCT
84756 AATTTAATCTACTTTAATCT
1 AATTTAATCTACTTTAATCT
84776 AATTTAATC
1 AATTTAATC
84785 ATTAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTTAATCTACTTTAATCT
Found at i:84772 original size:149 final size:150
Alignment explanation
Indices: 84607--84924 Score: 593
Period size: 149 Copynumber: 2.1 Consensus size: 150
84597 TCTATCTTGC
84607 AATTTAATCTACTTTAATCTAATTTAATCATTAAAAAAAATTCTATGTTTTTATGTTTGTTGTAT
1 AATTTAATCTACTTTAATCTAATTTAATCATTAAAAAAAATTCTATGTTTTTATGTTTGTTGTAT
*
84672 TTTTATGTTTCAAAAAATTAGTATGTTTATTTATCTAATTTCAATGTA-TTTTTATCTATCTTAC
66 TTTTATGTTTCAAAAAATTAGTATATTTATTTATCTAATTTCAATGTATTTTTTATCTATCTTAC
*
84736 AATTTAATCTACTTTAATCT
131 AATTTAATCTACTTCAATCT
84756 AATTTAATCTACTTTAATCTAATTTAATCATTAAAAAAAATTCTATGTTTTTATGTTTGTTGTAT
1 AATTTAATCTACTTTAATCTAATTTAATCATTAAAAAAAATTCTATGTTTTTATGTTTGTTGTAT
*
84821 TTTTATGTTTCAAAAAATTAGTATATTTATTTATCTAATTTCAATGTATTTTTTATCTATCTTGC
66 TTTTATGTTTCAAAAAATTAGTATATTTATTTATCTAATTTCAATGTATTTTTTATCTATCTTAC
84886 AATTTAATCTACTTCAATCT
131 AATTTAATCTACTTCAATCT
*
84906 AATTTAATCTAATTTAATC
1 AATTTAATCTACTTTAATC
84925 ATTTAAAAAA
Statistics
Matches: 164, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
149 112 0.68
150 52 0.32
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (150 bp):
AATTTAATCTACTTTAATCTAATTTAATCATTAAAAAAAATTCTATGTTTTTATGTTTGTTGTAT
TTTTATGTTTCAAAAAATTAGTATATTTATTTATCTAATTTCAATGTATTTTTTATCTATCTTAC
AATTTAATCTACTTCAATCT
Found at i:84924 original size:20 final size:20
Alignment explanation
Indices: 84886--84924 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
84876 TCTATCTTGC
*
84886 AATTTAATCTACTTCAATCT
1 AATTTAATCTAATTCAATCT
*
84906 AATTTAATCTAATTTAATC
1 AATTTAATCTAATTCAATC
84925 ATTTAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTTAATCTAATTCAATCT
Found at i:91103 original size:30 final size:30
Alignment explanation
Indices: 91069--91130 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
91059 TTCTTTTTTC
91069 AAATTCCCAATTTCCTAACTCACAATCCCT
1 AAATTCCCAATTTCCTAACTCACAATCCCT
* * **
91099 AAATTCCCAATTTCTTGACTCGTAATCCCT
1 AAATTCCCAATTTCCTAACTCACAATCCCT
91129 AA
1 AA
91131 TTCTTGACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.32
Consensus pattern (30 bp):
AAATTCCCAATTTCCTAACTCACAATCCCT
Found at i:91155 original size:21 final size:22
Alignment explanation
Indices: 91103--91155 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
91093 ATCCCTAAAT
**
91103 TCCC-AATTTCTTGACTCGTAA
1 TCCCTAATTTCTTGACTCCCAA
91124 TCCCTAA-TTCTTGAC-CCCAA
1 TCCCTAATTTCTTGACTCCCAA
91144 TCCCTAATTTCT
1 TCCCTAATTTCT
91156 CCTCCAGGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 10 0.36
21 16 0.57
22 2 0.07
ACGTcount: A:0.23, C:0.34, G:0.06, T:0.38
Consensus pattern (22 bp):
TCCCTAATTTCTTGACTCCCAA
Found at i:100895 original size:2 final size:2
Alignment explanation
Indices: 100888--100915 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
100878 GATTAATTCA
100888 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100916 TAATTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107936 original size:16 final size:16
Alignment explanation
Indices: 107895--107950 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
107885 AGATATTAAT
107895 TATATTATT-TAAAATA
1 TATATT-TTATAAAATA
*
107911 TTTAATTTTTATAAAATA
1 TAT-A-TTTTATAAAATA
107929 TATATTTTA-AAATATA
1 TATATTTTATAAA-ATA
107945 TATATT
1 TATATT
107951 ATTTTATAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
15 3 0.09
16 16 0.47
17 4 0.12
18 11 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATATTTTATAAAATA
Found at i:111179 original size:33 final size:35
Alignment explanation
Indices: 111103--111183 Score: 144
Period size: 35 Copynumber: 2.3 Consensus size: 35
111093 GGTTTAGGGT
*
111103 TTATATTATATAATTAATATAAGAAAATATAAAATA
1 TTATA-TATATAATTAATATAAAAAAATATAAAATA
111139 TTATATATATAATTAATATAAAAAAATATAAAATA
1 TTATATATATAATTAATATAAAAAAATATAAAATA
111174 TTATATATAT
1 TTATATATAT
111184 GTATATAATC
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 39 0.89
36 5 0.11
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (35 bp):
TTATATATATAATTAATATAAAAAAATATAAAATA
Found at i:113123 original size:107 final size:108
Alignment explanation
Indices: 112874--113136 Score: 303
Period size: 107 Copynumber: 2.4 Consensus size: 108
112864 TAGGCCTTAG
* * * * * * *
112874 AAATCTGACGATAATAAAATAGGTTAATTGCTTAATTTGTTATCAATATTATCAACATATTAGCT
1 AAATCCGACGACAATAAAATAGATCAATTACTTATTTTGTTATAAATATTATCAACATATTAGCT
* *
112939 AGCGCCTAAAATATTACCAAGGTTTAAATCGATGGAGCCTTAA
66 AGCGCCTAAAATATTACCAAAGTTTAAATCGATGGAGCATTAA
* * * *
112982 AAATCCGACGATAATAAAATAGGTTAATTACTTATTTTGTTATTAATATTATCAACATATTAG-T
1 AAATCCGACGACAATAAAATAGATCAATTACTTATTTTGTTATAAATATTATCAACATATTAGCT
* * * * * * **
113046 AGTGCCTAAAATGTTATCAAAGTTTAAGTTGATGGGGCATTCG
66 AGCGCCTAAAATATTACCAAAGTTTAAATCGATGGAGCATTAA
* * *
113089 AAATCCGACTACAATAAAATATATCAATTTCTTATTTTGTTATAAATA
1 AAATCCGACGACAATAAAATAGATCAATTACTTATTTTGTTATAAATA
113137 AATATTAACC
Statistics
Matches: 134, Mismatches: 21, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
107 75 0.56
108 59 0.44
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (108 bp):
AAATCCGACGACAATAAAATAGATCAATTACTTATTTTGTTATAAATATTATCAACATATTAGCT
AGCGCCTAAAATATTACCAAAGTTTAAATCGATGGAGCATTAA
Found at i:113795 original size:23 final size:23
Alignment explanation
Indices: 113769--113838 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
113759 CGGTAGCTAG
113769 TTTAACGTAATAGGTAACGCTTA
1 TTTAACGTAATAGGTAACGCTTA
* *
113792 TTT-A-GTAATAAGTAGCG-TCTA
1 TTTAACGTAATAGGTAACGCT-TA
* * *
113813 TTTAACATAATAGGCAACGCGTA
1 TTTAACGTAATAGGTAACGCTTA
113836 TTT
1 TTT
113839 TATTTAACCG
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
20 1 0.03
21 16 0.44
22 2 0.06
23 17 0.47
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (23 bp):
TTTAACGTAATAGGTAACGCTTA
Found at i:114001 original size:75 final size:74
Alignment explanation
Indices: 113911--114243 Score: 373
Period size: 75 Copynumber: 4.4 Consensus size: 74
113901 GTAACACTTA
** * * * * * *
113911 TTTAACGTAATAGGTAGCGTATATTTTATCTTATCATTTAAATTATTATTAACTTTTAAACAAAT
1 TTTAACGTAATAGGTAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAA-
*
113976 CGGTAGCTAG
65 CGGTAGGTAG
* * *
113986 TTTAATGTAATAGGTAACGTCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
1 TTTAACGTAATAGGTAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
114051 TGGTAGGTAG
66 -GGTAGGTAG
* ** * *
114061 TTTAACGTAATAGGTAGTGCCTATTTTATTTTACCGTTTTTATTATCAGTAATCTTTAAACAAAC
1 TTTAACGTAATAGGTAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAA-
*
114126 CGGTAGGTAT
65 CGGTAGGTAG
** * * *
114136 TTTAACGTAATAATTAGCACCTATTTTATTTTATCGTTTACATTATTAGTAACCTTCAAACAAAC
1 TTTAACGTAATAGGTAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
114201 AGGTA-G-ACG
66 -GGTAGGTA-G
* *
114210 CTTTAACATAATAGGTAACGCCTATTTTATTTTA
1 -TTTAACGTAATAGGTAGCGCCTATTTTATTTTA
114244 ACCGGTTAAG
Statistics
Matches: 218, Mismatches: 35, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
73 1 0.00
74 3 0.01
75 213 0.98
76 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (74 bp):
TTTAACGTAATAGGTAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACCTTTAAACAAAC
GGTAGGTAG
Found at i:114011 original size:98 final size:98
Alignment explanation
Indices: 113796--114011 Score: 256
Period size: 98 Copynumber: 2.2 Consensus size: 98
113786 CGCTTATTTA
* * * *
113796 GTAATAAGTAGCGTCTATTTAACATAATAGGCAACGCGTATTTTATTTAACCGTTTACATTATTA
1 GTAATAAGTAACGTCTATTTAACATAATAGGCAACGCATATTTTATTTAACCATTTAAATTATTA
*
113861 TTAACCTTTAAACAAATCGGTAGTTAGTTTAAC
66 TTAACCTTTAAACAAATCGGTAGCTAGTTTAAC
* * * * * * * *
113894 GTAGTATGTAAC-ACTTATTTAACGTAATAGGTAGCGTATATTTTATCTT-ATCATTTAAATTAT
1 GTAATAAGTAACGTC-TATTTAACATAATAGGCAACGCATATTTTAT-TTAACCATTTAAATTAT
* *
113957 TATTAACTTTTAAACAAATCGGTAGCTAGTTTAAT
64 TATTAACCTTTAAACAAATCGGTAGCTAGTTTAAC
*
113992 GTAATAGGTAACGTCTATTT
1 GTAATAAGTAACGTCTATTT
114012 TATTTTACCG
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
97 1 0.01
98 93 0.96
99 3 0.03
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (98 bp):
GTAATAAGTAACGTCTATTTAACATAATAGGCAACGCATATTTTATTTAACCATTTAAATTATTA
TTAACCTTTAAACAAATCGGTAGCTAGTTTAAC
Found at i:114708 original size:2 final size:2
Alignment explanation
Indices: 114701--114769 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
114691 TATGAGTACT
114701 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
114743 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 T
114770 TAGGGATGGC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:114946 original size:15 final size:15
Alignment explanation
Indices: 114926--114962 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
114916 TGAGACATTA
*
114926 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
114941 CCCGCCCCACATCCG
1 CCCGCCCCACATCCG
114956 CCCGCCC
1 CCCGCCC
114963 AACTAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.08, C:0.70, G:0.16, T:0.05
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:121458 original size:20 final size:20
Alignment explanation
Indices: 121435--121483 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
121425 AATGTAAATG
121435 TAAAATTATAAGTGGGAATA
1 TAAAATTATAAGTGGGAATA
** *
121455 TAAAATTACCAGTGGGAATG
1 TAAAATTATAAGTGGGAATA
*
121475 TAAGATTAT
1 TAAAATTAT
121484 CAGGTAATAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.20, T:0.31
Consensus pattern (20 bp):
TAAAATTATAAGTGGGAATA
Found at i:127444 original size:15 final size:15
Alignment explanation
Indices: 127426--127468 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
127416 ACAAAATTAA
*
127426 AAATTAAATTATATG
1 AAATTAAATTAAATG
*
127441 AAATTAAAATAAATG
1 AAATTAAATTAAATG
127456 -AATTAAATCTAAA
1 AAATTAAAT-TAAA
127469 ATTTGGACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (15 bp):
AAATTAAATTAAATG
Found at i:128115 original size:108 final size:104
Alignment explanation
Indices: 127927--128138 Score: 379
Period size: 108 Copynumber: 2.0 Consensus size: 104
127917 TAGGCATCCT
*
127927 GGCTTAAATGCATCATCGTCATTTAACTCTTTTACATATTTCGGGCATTGTAACGATCACACTTG
1 GGCTTAAATGCATCATCGTCATTTAACACTTTTACATATTTCGGGCATTGTAACGATCACACTTG
127992 GGTTACCGAACATGAATGCCTTGTAGATTCCAGTGTCTCCAA
66 GGTTACCGAACATGAATGCC-T-T-GATTCCAGTGTCTCCAA
128034 GGCTTAAATGCATCATCGTCATTTAACACTCTTTACATATTTCGGGCATTGTAACGATCACACTT
1 GGCTTAAATGCATCATCGTCATTTAACACT-TTTACATATTTCGGGCATTGTAACGATCACACTT
128099 GGGTTACCGAACATGAATGCCTTGATTCCAGTGTCTCCAA
65 GGGTTACCGAACATGAATGCCTTGATTCCAGTGTCTCCAA
128139 ATCTGCATTA
Statistics
Matches: 103, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
105 17 0.17
106 1 0.01
107 30 0.29
108 55 0.53
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (104 bp):
GGCTTAAATGCATCATCGTCATTTAACACTTTTACATATTTCGGGCATTGTAACGATCACACTTG
GGTTACCGAACATGAATGCCTTGATTCCAGTGTCTCCAA
Found at i:128168 original size:27 final size:27
Alignment explanation
Indices: 128130--128184 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
128120 TTGATTCCAG
128130 TGTCTCCAAATCTGCATTAAAATGGTT
1 TGTCTCCAAATCTGCATTAAAATGGTT
128157 TGTCTCCAAATCTGCATTAAAATGGTT
1 TGTCTCCAAATCTGCATTAAAATGGTT
128184 T
1 T
128185 AAATTAGGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (27 bp):
TGTCTCCAAATCTGCATTAAAATGGTT
Found at i:129374 original size:42 final size:42
Alignment explanation
Indices: 129270--129387 Score: 184
Period size: 41 Copynumber: 2.8 Consensus size: 42
129260 TTCTCCGAAA
* *
129270 TCTCATGTTTGTTTTATGTAATTCGTTTTTCGGAAAATATTT
1 TCTCGTGTTTGTTTCATGTAATTCGTTTTTCGGAAAATATTT
* * *
129312 TC-CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
1 TCTCGTGTTTGTTTCATGTAATTCGTTTTTCGGAAAATATTT
129353 TCTCGTGTTTGTTTCATGTAATTCGTTTTTCGGAA
1 TCTCGTGTTTGTTTCATGTAATTCGTTTTTCGGAA
129388 CGTAATTCAT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 36 0.53
42 32 0.47
ACGTcount: A:0.18, C:0.14, G:0.18, T:0.51
Consensus pattern (42 bp):
TCTCGTGTTTGTTTCATGTAATTCGTTTTTCGGAAAATATTT
Found at i:129591 original size:30 final size:32
Alignment explanation
Indices: 129557--129628 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 32
129547 TTCATCAAAA
*
129557 TATTAATTATTAAAAT-ATTTAA-AATATATT
1 TATTAATTATTAAAATAATATAATAATATATT
* * *
129587 TATTAATTTTTATAATAATATAATATTATATT
1 TATTAATTATTAAAATAATATAATAATATATT
129619 T-TTAA-TATTA
1 TATTAATTATTA
129629 TATAAATATC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 18 0.51
31 9 0.26
32 8 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (32 bp):
TATTAATTATTAAAATAATATAATAATATATT
Found at i:129624 original size:22 final size:23
Alignment explanation
Indices: 129594--129669 Score: 70
Period size: 22 Copynumber: 3.3 Consensus size: 23
129584 ATTTATTAAT
129594 TTTTATAATA-ATATAATATTATA
1 TTTT-TAATATATATAATATTATA
129617 TTTTTAATATTATATAA-A-TATCA
1 TTTTTAATA-TATATAATATTAT-A
*
129640 TTATT-ATATATATAAGATATTATA
1 TTTTTAATATATAT-A-ATATTATA
129664 TTTTTA
1 TTTTTA
129670 TTTTAATAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
21 5 0.12
22 12 0.28
23 11 0.26
24 12 0.28
25 3 0.07
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (23 bp):
TTTTTAATATATATAATATTATA
Found at i:129631 original size:24 final size:23
Alignment explanation
Indices: 129587--129725 Score: 85
Period size: 24 Copynumber: 5.9 Consensus size: 23
129577 AAAATATATT
*
129587 TATTA-ATTTTTATAATAATATAA
1 TATTATATTTTTAT-ATTATATAA
129610 TATTATATTTTTAATATTATATAA
1 TATTATATTTTT-ATATTATATAA
*
129634 -A-TATCATTATTATA-TATATAAGA
1 TATTAT-ATTTTTATATTATAT-A-A
*
129657 TATTATATTTTTATTTTA-ATAA
1 TATTATATTTTTATATTATATAA
*
129679 TATATAATAAATTTTTATA-TATTTAA
1 TAT-T-AT--ATTTTTATATTATATAA
* *
129705 TAATGATAATTTTAT-TTATAT
1 T-ATTATATTTTTATATTATAT
129726 TTTAAATAAT
Statistics
Matches: 92, Mismatches: 9, Indels: 30
0.70 0.07 0.23
Matches are distributed among these distances:
21 5 0.05
22 11 0.12
23 25 0.27
24 26 0.28
25 11 0.12
26 12 0.13
27 2 0.02
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (23 bp):
TATTATATTTTTATATTATATAA
Found at i:129700 original size:52 final size:55
Alignment explanation
Indices: 129597--129737 Score: 136
Period size: 52 Copynumber: 2.7 Consensus size: 55
129587 TATTAATTTT
* * *
129597 TATAATAAT-ATAA-TAT-TATAT-TTTTAATATTATATAAATATCATTATTATA
1 TATAATAATGATAATTATATTTATATTTTAATAATATATAAAAATCATTATTATA
* **
129648 TAT-ATAA-GAT-ATTATATTTTTATTTTAATAATATATAATAAATTTTTA-TATA
1 TATAATAATGATAATTATATTTATATTTTAATAATATATAA-AAATCATTATTATA
* *
129700 TTTAATAATGATAATTTTATTTATATTTTAAATAATAT
1 TATAATAATGATAATTATATTTATATTTT-AATAATAT
129738 TTTAGTAAAG
Statistics
Matches: 72, Mismatches: 9, Indels: 13
0.77 0.10 0.14
Matches are distributed among these distances:
49 1 0.01
50 9 0.12
51 6 0.08
52 21 0.29
53 10 0.14
54 3 0.04
55 14 0.19
56 8 0.11
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (55 bp):
TATAATAATGATAATTATATTTATATTTTAATAATATATAAAAATCATTATTATA
Found at i:129713 original size:25 final size:26
Alignment explanation
Indices: 129676--129727 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
129666 TTTATTTTAA
129676 TAATATATAATAAATTTT-TATATATT
1 TAATATATAAT-AATTTTATATATATT
* *
129702 TAATA-ATGATAATTTTATTTATATT
1 TAATATATAATAATTTTATATATATT
129727 T
1 T
129728 TAAATAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 6 0.26
25 12 0.52
26 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
TAATATATAATAATTTTATATATATT
Found at i:129932 original size:22 final size:22
Alignment explanation
Indices: 129879--129922 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
129869 TAAAATTATA
129879 AAATAATATTT-A-ATAATAAAT
1 AAATAAT-TTTAATATAATAAAT
129900 AAATAATTTTAATATAATAAAT
1 AAATAATTTTAATATAATAAAT
129922 A
1 A
129923 TTAAGTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 3 0.14
21 8 0.38
22 10 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AAATAATTTTAATATAATAAAT
Found at i:129938 original size:22 final size:21
Alignment explanation
Indices: 129891--129932 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
129881 ATAATATTTA
*
129891 ATAATAAATAAATAATTTTAAT
1 ATAATAAAT-ATTAATTTTAAT
129913 ATAATAAATATTAAGTTTTA
1 ATAATAAATATTAA-TTTTA
129933 TGATAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATAATAAATATTAATTTTAAT
Found at i:130098 original size:14 final size:15
Alignment explanation
Indices: 130079--130143 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 15
130069 CCAGAAATGT
130079 AATTCATTTTCCA-A
1 AATTCATTTTCCAGA
** *
130093 AATTCAAATTCCAGT
1 AATTCATTTTCCAGA
* *
130108 AATTCATTTTTCAGT
1 AATTCATTTTCCAGA
** *
130123 AATTCAAATTCCAGT
1 AATTCATTTTCCAGA
130138 AATTCA
1 AATTCA
130144 AATTTCGAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
14 11 0.27
15 30 0.73
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (15 bp):
AATTCATTTTCCAGA
Found at i:130103 original size:20 final size:20
Alignment explanation
Indices: 130045--130095 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
130035 ATAAAACGTT
130045 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
130065 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
130085 TTTTCCA-AAAT
1 TTTTCCAGAAAT
130096 TCAAATTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 4 0.13
20 27 0.87
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:130113 original size:15 final size:15
Alignment explanation
Indices: 130093--130147 Score: 83
Period size: 15 Copynumber: 3.7 Consensus size: 15
130083 CATTTTCCAA
130093 AATTCAAATTCCAGT
1 AATTCAAATTCCAGT
** *
130108 AATTCATTTTTCAGT
1 AATTCAAATTCCAGT
130123 AATTCAAATTCCAGT
1 AATTCAAATTCCAGT
130138 AATTCAAATT
1 AATTCAAATT
130148 TCGAAAAACC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.40
Consensus pattern (15 bp):
AATTCAAATTCCAGT
Found at i:130127 original size:30 final size:29
Alignment explanation
Indices: 130077--130143 Score: 107
Period size: 30 Copynumber: 2.3 Consensus size: 29
130067 TTCCAGAAAT
130077 GTAATTCATTTTCCAAAATTCAAATTCCA
1 GTAATTCATTTTCCAAAATTCAAATTCCA
* *
130106 GTAATTCATTTTTCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCA-AAATTCAAATTCCA
130136 GTAATTCA
1 GTAATTCA
130144 AATTTCGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 14 0.40
30 21 0.60
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.40
Consensus pattern (29 bp):
GTAATTCATTTTCCAAAATTCAAATTCCA
Found at i:133145 original size:23 final size:23
Alignment explanation
Indices: 133104--133165 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
133094 CCAAACGACC
*
133104 GAAAAACGTGTCA-AAAGACAGA
1 GAAAAACGTGTCATACAGACAGA
133126 -AGAAAACGTGTCATACAGACAGA
1 GA-AAAACGTGTCATACAGACAGA
*
133149 GAAAAACATGTCATACA
1 GAAAAACGTGTCATACA
133166 TAAAGACTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 1 0.03
22 11 0.31
23 22 0.63
24 1 0.03
ACGTcount: A:0.52, C:0.16, G:0.19, T:0.13
Consensus pattern (23 bp):
GAAAAACGTGTCATACAGACAGA
Found at i:134741 original size:140 final size:139
Alignment explanation
Indices: 134488--134758 Score: 353
Period size: 140 Copynumber: 1.9 Consensus size: 139
134478 TTTCATTAAC
* *
134488 TCCATATTTTACTAAATAAAAATAAAAAATTCGAGTCAAATAAAATCATATGAGATACCAAAATT
1 TCCATATTTTACTAAATAAAAATAAAAAAATCGAGTCAAACAAAATCATATGAGATACCAAAATT
** * * ** * * * * * *
134553 CAGTTCAAGTTCTGGTGAAGGGTGCATTTCTCGAGCCGAGTTAGATCACATTAACCGGAAACTTG
66 CAAATCAACTTCAGGTGAAAAGTACATTTCTCGAGCCAAATCAAATCACATTAACCGAAAACTTG
134618 ATCATTAGG
131 ATCATTAGG
* * * *
134627 TCCATATTTTACTAATTAAAAATAAAAAAAATCGAGTCAAACCATATCATGTGAGATACCAAAAT
1 TCCATATTTTACTAAATAAAAAT-AAAAAAATCGAGTCAAACAAAATCATATGAGATACCAAAAT
* *
134692 TCAAATCAACTTCAGGTGAAAAGTACATTTCTCGAGTCAAATCAAATCACATTAATCGAAAACTT
65 TCAAATCAACTTCAGGTGAAAAGTACATTTCTCGAGCCAAATCAAATCACATTAACCGAAAACTT
134757 GA
130 GA
134759 CCTATTATTA
Statistics
Matches: 111, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
139 22 0.20
140 89 0.80
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (139 bp):
TCCATATTTTACTAAATAAAAATAAAAAAATCGAGTCAAACAAAATCATATGAGATACCAAAATT
CAAATCAACTTCAGGTGAAAAGTACATTTCTCGAGCCAAATCAAATCACATTAACCGAAAACTTG
ATCATTAGG
Found at i:140464 original size:32 final size:30
Alignment explanation
Indices: 140423--140503 Score: 90
Period size: 32 Copynumber: 2.6 Consensus size: 30
140413 TGTCTTTCGA
*
140423 GACATATGGACAGTATACCTATGTTCTAAGG
1 GACATATGGACAGT-TACCTAGGTTCTAAGG
* **
140454 GAACATATGGATAGTTTACCTAGGTTCTTCGG
1 G-ACATATGGACAG-TTACCTAGGTTCTAAGG
*
140486 GACCTATGGACAGTTACC
1 GACATATGGACAGTTACC
140504 GAGGATCTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
30 5 0.12
31 11 0.26
32 25 0.60
33 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (30 bp):
GACATATGGACAGTTACCTAGGTTCTAAGG
Found at i:140556 original size:30 final size:30
Alignment explanation
Indices: 140486--140558 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
140476 GGTTCTTCGG
* * *
140486 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCAAGGATCTTTAT
*
140516 GACCTCTGGATAGTTACCAAGGGTCTTTAT
1 GACCTCTGGATAGTTACCAAGGATCTTTAT
140546 GACCTCTGGATAG
1 GACCTCTGGATAG
140559 GTCCTTCGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCAAGGATCTTTAT
Found at i:146734 original size:77 final size:78
Alignment explanation
Indices: 146501--146737 Score: 395
Period size: 78 Copynumber: 3.1 Consensus size: 78
146491 TTGAAATTTC
* *
146501 ATACCTCTAATTAAATCACTTAAGTTAATTACATTGTTCATTTATCAAAGTAGACCCATTGATTA
1 ATACCTCTAATTAAATCACTTAAGTTAATTACATTGCTCATTTATCAAAGTAGACCCATTAATTA
146566 GTATTGACAAAAT
66 GTATTGACAAAAT
*
146579 ATACCTCTAATTAAATCACTTAAGTTAATTACATTGCTCATTTATCAAAGTAGACCCATGAATTA
1 ATACCTCTAATTAAATCACTTAAGTTAATTACATTGCTCATTTATCAAAGTAGACCCATTAATTA
*
146644 ATATTGACAAAAT
66 GTATTGACAAAAT
* * * *
146657 ATACCTCTAACTATATTACTTAAGATAATTACATTG-TCATTTATCAAAGTAGACCCATTAATTA
1 ATACCTCTAATTAAATCACTTAAGTTAATTACATTGCTCATTTATCAAAGTAGACCCATTAATTA
146721 GTATTGACAAAAT
66 GTATTGACAAAAT
146734 ATAC
1 ATAC
146738 TTATTTTGTA
Statistics
Matches: 149, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
77 43 0.29
78 106 0.71
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (78 bp):
ATACCTCTAATTAAATCACTTAAGTTAATTACATTGCTCATTTATCAAAGTAGACCCATTAATTA
GTATTGACAAAAT
Found at i:151375 original size:34 final size:34
Alignment explanation
Indices: 151316--151382 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
151306 TTCTTGATAG
*
151316 TTGTTTTCTCCTTTTTATCAAGAGAGAA-TTGTCA
1 TTGTTTTCTCCTTTTAATC-AGAGAGAAGTTGTCA
151350 TTGTTTTCTCCTTGTTAAATC-GAGAGAAGTTGT
1 TTGTTTTCTCCTT-TT-AATCAGAGAGAAGTTGT
151383 AATTCCTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 20 0.69
35 6 0.21
36 3 0.10
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.46
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTAATCAGAGAGAAGTTGTCA
Found at i:153007 original size:444 final size:444
Alignment explanation
Indices: 152172--153057 Score: 1346
Period size: 444 Copynumber: 2.0 Consensus size: 444
152162 ATCGTGTGAG
* *
152172 AAGACATCCCAATTGACACTCAGATTATGTTATAGAAGGAAATATTGCATACTGCCTTTTAACAG
1 AAGACATCCCAATTGACACTCAAATTATGTTATAGAAAGAAATATTGCATACTGCCTTTTAACAG
* *
152237 AGGACGGTGAGCCATCAATATACCAGGAGGCAATAAACAGCTCAGATGCTTCACTGTGGATGATG
66 AGGACGGTGAGCCATCAACATACCAGGAGGCAATAAACAGCTCAGATGCTTCACTGTAGATGATG
* ** *
152302 GCAATGCAAGAAGAAATTGAATTCATTCATAAAAATAATACATGAGACCTTGTGCCACTACCACA
131 GCAATGCAAGAAGAAATCGAAGCCATTCATAAAAATAATACATGAGACCTTGTGCCACTACCAAA
* * * *
152367 AGGAAGGAAGCCAATTGGTAAAAAATAGGTCTTTAAAATCAAGCGCAATTGTAACGATCAAGTTG
196 AAGAAGGAAGCCAATTGATAAAAAATAGGTCTTCAAAATCAAGCGCAAATGTAACGATCAAGTTG
*
152432 AGAGGTATCGTGCAAGACTAATGGTCAAAGGATATGCTCAAAAAGAAGGTATTGATTTCAATGAA
261 AAAGGTATCGTGCAAGACTAATGGTCAAAGGATATGCTCAAAAAGAAGGTATTGATTTCAATGAA
* * * * *
152497 ATCTTTTCTCCTGTGGTTCGACTAATAACAGTTCGAGTAGTATTGACAATTTGTGTTACATTGAA
326 ATCTTTTCTCATGTGGTTCGACTAACAACAGTTCGAGTAGTATTGACAATGTGCGATACATTGAA
152562 TTTACATCTAGAGCAGCTAGATGTTAAAACAGA-TTTTCTTAATGAAAATCTTTA
391 TTTACATCTAGAGCAGCTAGATGTTAAAACA-ATTTTTCTTAATGAAAATCTTTA
* * *
152616 AAGACGTCCCAATTGGCACTCAAATTATGTTATAGAAAGAAATATTGCATACTGTCTTTTAACAG
1 AAGACATCCCAATTGACACTCAAATTATGTTATAGAAAGAAATATTGCATACTGCCTTTTAACAG
* * *
152681 AGTACGGTGAGCCATCAACATACCAGGAGGCAATAAACAGTTCATATGCTTCACTGTAGATGATG
66 AGGACGGTGAGCCATCAACATACCAGGAGGCAATAAACAGCTCAGATGCTTCACTGTAGATGATG
* * * *
152746 GCGATGCAAGAAGAAATCGAAGCCCTTCATAAAAATAATACATGGGACCTTGTGCCACTACTAAA
131 GCAATGCAAGAAGAAATCGAAGCCATTCATAAAAATAATACATGAGACCTTGTGCCACTACCAAA
* * *
152811 AAGAAGGAAGCCAATTGATAACAAAT-GAGTCTTCAAAATCAAGCG-AAATGATGATGATCAAGT
196 AAGAAGGAAGCCAATTGATAAAAAATAG-GTCTTCAAAATCAAGCGCAAATG-TAACGATCAAGT
** * *
152874 TGAAAGGTATCGTGCAAGACTGGTGGTCAAAGGATATGCTTAAAAAGAAGGTATTGATTTTAATG
259 TGAAAGGTATCGTGCAAGACTAATGGTCAAAGGATATGCTCAAAAAGAAGGTATTGATTTCAATG
* * * * *
152939 AAATCTTTTCTCATGTGGTTTGACTAACAACAGTTCGTGTATTCTTGGCAATGTGCGATACATTG
324 AAATCTTTTCTCATGTGGTTCGACTAACAACAGTTCGAGTAGTATTGACAATGTGCGATACATTG
* *
153004 AATTTACATCTAGAGCAGCTATATGTTAAAACAATTTTTCTTCATGAAAATCTT
389 AATTTACATCTAGAGCAGCTAGATGTTAAAACAATTTTTCTTAATGAAAATCTT
153058 GAAGAAGAGA
Statistics
Matches: 397, Mismatches: 42, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
443 6 0.02
444 391 0.98
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (444 bp):
AAGACATCCCAATTGACACTCAAATTATGTTATAGAAAGAAATATTGCATACTGCCTTTTAACAG
AGGACGGTGAGCCATCAACATACCAGGAGGCAATAAACAGCTCAGATGCTTCACTGTAGATGATG
GCAATGCAAGAAGAAATCGAAGCCATTCATAAAAATAATACATGAGACCTTGTGCCACTACCAAA
AAGAAGGAAGCCAATTGATAAAAAATAGGTCTTCAAAATCAAGCGCAAATGTAACGATCAAGTTG
AAAGGTATCGTGCAAGACTAATGGTCAAAGGATATGCTCAAAAAGAAGGTATTGATTTCAATGAA
ATCTTTTCTCATGTGGTTCGACTAACAACAGTTCGAGTAGTATTGACAATGTGCGATACATTGAA
TTTACATCTAGAGCAGCTAGATGTTAAAACAATTTTTCTTAATGAAAATCTTTA
Found at i:157950 original size:277 final size:277
Alignment explanation
Indices: 157144--161291 Score: 8038
Period size: 277 Copynumber: 15.0 Consensus size: 277
157134 ATTATGATTA
*
157144 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTATGTTATTTATCCAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
*
157209 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAATCGGCCTCAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
* *
157274 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
157339 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
157404 CCTACAATCTATAAAAC
261 CCTACAATCTATAAAAC
157421 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAA-TTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
157485 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
157550 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
157615 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
157680 CCTACAATCTATAAAAC
261 CCTACAATCTATAAAAC
157697 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
*
157762 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTAAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
* *
157827 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
157892 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
157957 CCTACAATCTATAAAAC
261 CCTACAATCTATAAAAC
157974 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
158039 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
158104 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
158169 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
158234 CCTACAATCTATAAAAC
261 CCTACAATCTATAAAAC
158251 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
158316 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
* *
158381 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
*
158446 CATGAAACAGGGCGCTGATACCAACCAGTGCTTTTCGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
158511 CCTACAATCTATAAAAC
261 CCTACAATCTATAAAAC
158528 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
158593 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
158658 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
158723 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
158788 CCTACAATCTATAAAAC
261 CCTACAATCTATAAAAC
158805 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTAC-A
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
*
158869 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTAAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
* *
158934 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
158999 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
159064 CCTACAATCTATAAAAC
261 CCTACAATCTATAAAAC
*
159081 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCTAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
159146 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
159211 AGCATATCCGAGTATGTCAAAGGA-TTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
159275 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
159340 CCTACAATCTATAAAAC
261 CCTACAATCTATAAAAC
159357 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
*
159422 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTAAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
* *
159487 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
*
159552 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTTGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
159617 CCTACAATCTATAAAAC
261 CCTACAATCTATAAAAC
159634 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
159699 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
159764 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
159829 CATG-AACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
159893 CCTACAATCTATAAAAC
261 CCTACAATCTATAAAAC
159910 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
159975 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
* *
160040 AGCAAATCAGAGTATGTCAAAGGA-TTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
*
160104 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCATAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
160169 CCTACAATCTATAAAAC
261 CCTACAATCTATAAAAC
160186 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
160251 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
160316 AGCATATCCGAGTATGTCAAAGGA-TTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
160380 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
160445 CCTACAATCTATAAAAC
261 CCTACAATCTATAAAAC
160462 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
160527 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
* *
160592 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
160657 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
160722 CCTACAATCTATAAAAC
261 CCTACAATCTATAAAAC
160739 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
160804 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
160869 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
160934 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
160999 CCTACAATCTATAAAAC
261 CCTACAATCTATAAAAC
*
161016 CCTCCATTGATTCTCCACCATATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
161081 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
161146 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
161211 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
161276 CCTACAATCTATAAAA
261 CCTACAATCTATAAAA
161292 AGAAGCACGA
Statistics
Matches: 3823, Mismatches: 43, Indels: 10
0.99 0.01 0.00
Matches are distributed among these distances:
275 44 0.01
276 1546 0.40
277 2233 0.58
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (277 bp):
CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
CCTACAATCTATAAAAC
Found at i:159427 original size:553 final size:554
Alignment explanation
Indices: 157144--161291 Score: 8146
Period size: 553 Copynumber: 7.5 Consensus size: 554
157134 ATTATGATTA
*
157144 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTATGTTATTTATCCAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
*
157209 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAATCGGCCTCAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
157274 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
157339 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
157404 CCTACAATCTATAAAACCCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCC
261 CCTACAATCTATAAAACCCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCC
157469 AGGAA-TTTCCGTACAAAAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAA
326 AGGAATTTTCCGTACAAAAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAA
157533 CCGGCCTCAAGATAATGAGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTT
391 CCGGCCTCAAGATAATGAGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTT
157598 TATGGAGCTGTAGATGACATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGA
456 TATGGAGCTGTAGATGACATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGA
157663 CTATTCCCACAATAAACCCTACAATCTATAAAAC
521 CTATTCCCACAATAAACCCTACAATCTATAAAAC
157697 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
*
157762 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTAAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
157827 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
157892 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
157957 CCTACAATCTATAAAACCCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCC
261 CCTACAATCTATAAAACCCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCC
158022 AGGAATTTTCCGTACAAAAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAA
326 AGGAATTTTCCGTACAAAAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAA
158087 CCGGCCTCAAGATAATGAGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTT
391 CCGGCCTCAAGATAATGAGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTT
158152 TATGGAGCTGTAGATGACATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGA
456 TATGGAGCTGTAGATGACATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGA
158217 CTATTCCCACAATAAACCCTACAATCTATAAAAC
521 CTATTCCCACAATAAACCCTACAATCTATAAAAC
158251 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
158316 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
158381 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
*
158446 CATGAAACAGGGCGCTGATACCAACCAGTGCTTTTCGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
158511 CCTACAATCTATAAAACCCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCC
261 CCTACAATCTATAAAACCCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCC
158576 AGGAATTTTCCGTACAAAAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAA
326 AGGAATTTTCCGTACAAAAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAA
158641 CCGGCCTCAAGATAATGAGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTT
391 CCGGCCTCAAGATAATGAGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTT
158706 TATGGAGCTGTAGATGACATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGA
456 TATGGAGCTGTAGATGACATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGA
158771 CTATTCCCACAATAAACCCTACAATCTATAAAAC
521 CTATTCCCACAATAAACCCTACAATCTATAAAAC
158805 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTAC-A
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
*
158869 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTAAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
158934 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
158999 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
*
159064 CCTACAATCTATAAAACCCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCT
261 CCTACAATCTATAAAACCCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCC
159129 AGGAATTTTCCGTACAAAAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAA
326 AGGAATTTTCCGTACAAAAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAA
159194 CCGGCCTCAAGATAATGAGCATATCCGAGTATGTCAAAGGA-TTTTATGCTTACCCTATCAATTT
391 CCGGCCTCAAGATAATGAGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTT
159258 TATGGAGCTGTAGATGACATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGA
456 TATGGAGCTGTAGATGACATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGA
159323 CTATTCCCACAATAAACCCTACAATCTATAAAAC
521 CTATTCCCACAATAAACCCTACAATCTATAAAAC
159357 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
*
159422 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTAAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
159487 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
*
159552 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTTGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
159617 CCTACAATCTATAAAACCCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCC
261 CCTACAATCTATAAAACCCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCC
159682 AGGAATTTTCCGTACAAAAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAA
326 AGGAATTTTCCGTACAAAAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAA
159747 CCGGCCTCAAGATAATGAGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTT
391 CCGGCCTCAAGATAATGAGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTT
159812 TATGGAGCTGTAGATGACATG-AACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGA
456 TATGGAGCTGTAGATGACATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGA
159876 CTATTCCCACAATAAACCCTACAATCTATAAAAC
521 CTATTCCCACAATAAACCCTACAATCTATAAAAC
159910 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
159975 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
160040 AGCAAATCAGAGTATGTCAAAGGA-TTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
*
160104 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCATAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
160169 CCTACAATCTATAAAACCCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCC
261 CCTACAATCTATAAAACCCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCC
160234 AGGAATTTTCCGTACAAAAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAA
326 AGGAATTTTCCGTACAAAAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAA
160299 CCGGCCTCAAGATAATGAGCATATCCGAGTATGTCAAAGGA-TTTTATGCTTACCCTATCAATTT
391 CCGGCCTCAAGATAATGAGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTT
160363 TATGGAGCTGTAGATGACATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGA
456 TATGGAGCTGTAGATGACATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGA
160428 CTATTCCCACAATAAACCCTACAATCTATAAAAC
521 CTATTCCCACAATAAACCCTACAATCTATAAAAC
160462 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
160527 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
160592 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
160657 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
160722 CCTACAATCTATAAAACCCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCC
261 CCTACAATCTATAAAACCCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCC
160787 AGGAATTTTCCGTACAAAAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAA
326 AGGAATTTTCCGTACAAAAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAA
160852 CCGGCCTCAAGATAATGAGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTT
391 CCGGCCTCAAGATAATGAGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTT
160917 TATGGAGCTGTAGATGACATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGA
456 TATGGAGCTGTAGATGACATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGA
160982 CTATTCCCACAATAAACCCTACAATCTATAAAAC
521 CTATTCCCACAATAAACCCTACAATCTATAAAAC
*
161016 CCTCCATTGATTCTCCACCATATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
1 CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
161081 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
66 AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
* *
161146 AGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
131 AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
161211 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
196 CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
161276 CCTACAATCTATAAAA
261 CCTACAATCTATAAAA
161292 AGAAGCACGA
Statistics
Matches: 3572, Mismatches: 17, Indels: 11
0.99 0.00 0.00
Matches are distributed among these distances:
551 44 0.01
552 690 0.19
553 1561 0.44
554 1277 0.36
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (554 bp):
CCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCCAGGAATTTTCCGTACAA
AAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAACCGGCCTCAAGATAATG
AGCAAATCAGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTTTATGGAGCTGTAGATGA
CATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGACTATTCCCACAATAAAC
CCTACAATCTATAAAACCCTCCATTGATTCTCCACCCTATATCTTCTAAACTACGTTATTTATCC
AGGAATTTTCCGTACAAAAAGAGAGCTAATTACACATGTATTATACTAGCTTTAGTAGATATAAA
CCGGCCTCAAGATAATGAGCATATCCGAGTATGTCAAAGGATTTTTATGCTTACCCTATCAATTT
TATGGAGCTGTAGATGACATGAAACAGGGCGCTGATACCAACCAGTGCCTTTCGAAATGGAGAGA
CTATTCCCACAATAAACCCTACAATCTATAAAAC
Found at i:175322 original size:22 final size:23
Alignment explanation
Indices: 175287--175334 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
175277 CATTTAAATT
175287 TTTAACTAATTTATAA-TTATACA
1 TTTAACTAATTTATAATTTA-ACA
*
175310 TTTAA-TACTTTATAATTTAACA
1 TTTAACTAATTTATAATTTAACA
175332 TTT
1 TTT
175335 TAGAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTAACTAATTTATAATTTAACA
Found at i:176338 original size:2 final size:2
Alignment explanation
Indices: 176331--176375 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
176321 TAATTATGTC
176331 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
176373 AT A
1 AT A
176376 AAAAAGATCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:181129 original size:12 final size:12
Alignment explanation
Indices: 181112--181148 Score: 65
Period size: 12 Copynumber: 3.0 Consensus size: 12
181102 ATAACTAATA
181112 ATATTAAATATT
1 ATATTAAATATT
181124 ATATTAAATAATT
1 ATATTAAAT-ATT
181137 ATATTAAATATT
1 ATATTAAATATT
181149 TATGTATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
ATATTAAATATT
Found at i:181139 original size:13 final size:13
Alignment explanation
Indices: 181107--181151 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
181097 AAATTATAAC
*
181107 TAATAATATTAAA
1 TAATTATATTAAA
181120 T-ATTATATTAAA
1 TAATTATATTAAA
181132 TAATTATATTAAA
1 TAATTATATTAAA
*
181145 TATTTAT
1 TAATTAT
181152 GTATTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TAATTATATTAAA
Found at i:184141 original size:8 final size:8
Alignment explanation
Indices: 184128--184168 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
184118 CTCATTTTCA
184128 GAGAATTT
1 GAGAATTT
184136 GAGAATTT
1 GAGAATTT
*
184144 -AGAGTTT
1 GAGAATTT
184151 GAGAATTT
1 GAGAATTT
184159 GAGAATTT
1 GAGAATTT
184167 GA
1 GA
184169 AAGATTGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:184153 original size:15 final size:16
Alignment explanation
Indices: 184128--184168 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
184118 CTCATTTTCA
184128 GAGAATTTGAGAATTT
1 GAGAATTTGAGAATTT
*
184144 -AGAGTTTGAGAATTT
1 GAGAATTTGAGAATTT
184159 GAGAATTTGA
1 GAGAATTTGA
184169 AAGATTGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (16 bp):
GAGAATTTGAGAATTT
Found at i:184694 original size:126 final size:126
Alignment explanation
Indices: 184236--184963 Score: 1408
Period size: 125 Copynumber: 5.8 Consensus size: 126
184226 CTATAATCGG
184236 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
184301 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTA-
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
184361 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
184426 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTA-TAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
184486 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
184551 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
184612 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
184677 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
184738 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCAATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
184803 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
184864 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGG-GCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
184928 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
184964 ATAACTTAAA
Statistics
Matches: 595, Mismatches: 6, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
124 2 0.00
125 308 0.52
126 285 0.48
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (126 bp):
TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:184903 original size:251 final size:251
Alignment explanation
Indices: 184236--184963 Score: 1415
Period size: 251 Copynumber: 2.9 Consensus size: 251
184226 CTATAATCGG
184236 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
184301 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTA-TTCA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
184365 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
131 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
184430 TGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATAT
196 TGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATAT
184486 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
184551 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
184616 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
131 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
184681 TGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
196 TGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTA-TAT
*
184738 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCAATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
184803 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
66 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
184868 CTATTCACGTGAAGGCGCGTTCCCGGGGG-GCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
131 CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
184932 TGCCCTATTATGTCACTCATGTCCCTCGGGGA
196 TGCCCTATTATGTCACTCATGTCCCTCGGGGA
184964 ATAACTTAAA
Statistics
Matches: 474, Mismatches: 2, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
250 124 0.26
251 189 0.40
252 161 0.34
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (251 bp):
TTCACTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
CTATTCACGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
TGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATAT
Found at i:185411 original size:33 final size:34
Alignment explanation
Indices: 185350--185449 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 34
185340 AAATTTAATG
*
185350 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
185384 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
185417 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
185450 AACATTTATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.50
34 28 0.50
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:186063 original size:21 final size:21
Alignment explanation
Indices: 185975--186068 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
185965 TATGGTATAA
*
185975 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
185996 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
186017 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
186038 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
186059 AACCCTGCGG
1 AACCCTGCGG
186069 AGATGACATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 3 0.04
21 63 0.91
22 3 0.04
ACGTcount: A:0.20, C:0.27, G:0.35, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:187840 original size:30 final size:34
Alignment explanation
Indices: 187776--187854 Score: 101
Period size: 33 Copynumber: 2.4 Consensus size: 34
187766 TTAATAATTC
* *
187776 TAAATAAATAATAATTATATAAATATTATTTTA-A
1 TAAA-AAATAATAATTACATAAATATTATTTAATA
*
187810 TAAAAAATAATATTTACATAAATA-TA-TTAATA
1 TAAAAAATAATAATTACATAAATATTATTTAATA
187842 TAAAAAATAATAA
1 TAAAAAATAATAA
187855 CTATTTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
31 3 0.08
32 15 0.38
33 18 0.45
34 4 0.10
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (34 bp):
TAAAAAATAATAATTACATAAATATTATTTAATA
Found at i:189298 original size:2 final size:2
Alignment explanation
Indices: 189293--189322 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
189283 ATAAGTTTAA
189293 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
189323 GATTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:191900 original size:36 final size:35
Alignment explanation
Indices: 191853--192113 Score: 177
Period size: 36 Copynumber: 7.3 Consensus size: 35
191843 AAAGCCGGTG
191853 TATATAGTTTTTGAAAATTTTTGAAAACATATATAA
1 TATATAG-TTTTGAAAATTTTTGAAAACATATATAA
*
191889 TGTATAGTTTTTGAAAATACTTTT-AAAA-ATATATAA
1 TATATAG-TTTTGAAAAT--TTTTGAAAACATATATAA
*
191925 TATATAGTTTT-AAAATCATTTTGAAAAAATATATATAA
1 TATATAGTTTTGAAAAT--TTTTG--AAAACATATATAA
*
191963 TATATAGTTTTGAAAACATTTTTTGAAATC-T-TAT-A
1 TATATAGTTTTG-AAA-A-TTTTTGAAAACATATATAA
*
191998 TA-ATA-TTTTTAAATTATTTTTGAAAAC-TATATAA
1 TATATAGTTTTGAAA--ATTTTTGAAAACATATATAA
* * * *
192032 TGTATAGTTTTGTAAATTTTT--TAAGA-ATATAA
1 TATATAGTTTTGAAAATTTTTGAAAACATATATAA
* * *
192064 TATATAGTTTTAAAAAAATATTTTTAAAATATATATATA
1 TATATAGTTTT--GAAAAT-TTTTGAAAACATATATA-A
192103 TTATATAGTTT
1 -TATATAGTTT
192114 ATATTATATT
Statistics
Matches: 182, Mismatches: 19, Indels: 44
0.74 0.08 0.18
Matches are distributed among these distances:
32 32 0.18
33 8 0.04
34 24 0.13
35 14 0.08
36 40 0.22
37 12 0.07
38 31 0.17
39 1 0.01
40 18 0.10
41 1 0.01
42 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (35 bp):
TATATAGTTTTGAAAATTTTTGAAAACATATATAA
Found at i:192523 original size:21 final size:22
Alignment explanation
Indices: 192497--192540 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
192487 ACCACAGTAC
192497 ATCGAG-AAACAACAG-ACCACA
1 ATCGAGTAAACAA-AGAACCACA
*
192518 ATCGAGTACACAAAGAACCACA
1 ATCGAGTAAACAAAGAACCACA
192540 A
1 A
192541 CCATTACACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.52, C:0.27, G:0.14, T:0.07
Consensus pattern (22 bp):
ATCGAGTAAACAAAGAACCACA
Found at i:195892 original size:3 final size:3
Alignment explanation
Indices: 195886--195961 Score: 134
Period size: 3 Copynumber: 25.0 Consensus size: 3
195876 TTATTTAAAT
*
195886 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
195934 TTA TTA TTA TTA TTA TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA
195962 AATAAATATA
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
3 67 0.96
4 3 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:197294 original size:20 final size:21
Alignment explanation
Indices: 197248--197294 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
197238 CTGCTTTTAA
197248 ATATATTGTTCTAATTGTATT
1 ATATATTGTTCTAATTGTATT
* *
197269 -TTTATTGTTTTAATTGT-TT
1 ATATATTGTTCTAATTGTATT
197288 ATATATT
1 ATATATT
197295 TAAATATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.64
Consensus pattern (21 bp):
ATATATTGTTCTAATTGTATT
Found at i:197374 original size:23 final size:24
Alignment explanation
Indices: 197340--197384 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
197330 TATATATGAT
197340 AAATAATAA-TTT-ATATTTTTTA
1 AAATAATAATTTTAATATTTTTTA
*
197362 AAATAAATTATTTTAATATTTTT
1 AAAT-AATAATTTTAATATTTTT
197385 CAATATCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 4 0.21
24 3 0.16
25 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
AAATAATAATTTTAATATTTTTTA
Found at i:199717 original size:14 final size:14
Alignment explanation
Indices: 199697--199749 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
199687 ATTTTAAATA
199697 ATTTACATTTACAT
1 ATTTACATTTACAT
* *
199711 TTTTACATTTGCAT
1 ATTTACATTTACAT
*
199725 ATCTACATTTGACAT
1 ATTTACATTT-ACAT
* *
199740 CTTTGCATTT
1 ATTTACATTT
199750 GTATTGCACA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
14 20 0.67
15 10 0.33
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (14 bp):
ATTTACATTTACAT
Found at i:205338 original size:83 final size:83
Alignment explanation
Indices: 205199--205463 Score: 460
Period size: 83 Copynumber: 3.2 Consensus size: 83
205189 AATGGAACAA
*
205199 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
205264 AATCATTGAATTTAGAAG
66 AATCATTGAATTTAGAAG
*
205282 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
205347 AATCATTGAATTTAGAAG
66 AATCATTGAATTTAGAAG
* * *
205365 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGGACAGAAC
1 ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAAAAC
*
205429 CAATCATTGAATTTGGAAG
65 CAATCATTGAATTTAGAAG
205448 ATGAATTTGCTCATAG
1 ATGAATTTGCTCATAG
205464 TAGAAATAAG
Statistics
Matches: 175, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
82 4 0.02
83 171 0.98
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (83 bp):
ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
AATCATTGAATTTAGAAG
Found at i:208082 original size:22 final size:22
Alignment explanation
Indices: 208051--208105 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
208041 ATCTACACTC
*
208051 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
208073 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
208095 TTCAAAGATGA
1 TTCAAAGATGA
208106 AAGCTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:208710 original size:24 final size:23
Alignment explanation
Indices: 208667--208711 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
208657 GTTCATAATG
*
208667 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
208690 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
208712 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:208823 original size:24 final size:23
Alignment explanation
Indices: 208780--208824 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
208770 GTTCATAATG
*
208780 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
208803 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
208825 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:209049 original size:24 final size:23
Alignment explanation
Indices: 209006--209050 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
208996 GTTCATAATG
*
209006 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
209029 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
209051 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:209123 original size:339 final size:339
Alignment explanation
Indices: 208503--209730 Score: 2352
Period size: 339 Copynumber: 3.6 Consensus size: 339
208493 TTTTAGCAAA
* * * *
208503 GTTCAAATCCATCAT-TCGATGGATCAGCATTTCCAGAGGAA-GTTCATAATGAGAAGAACTCAT
1 GTTCAAATCCATCATCT-AATGGATTATCATTGCCAGA-GAAGGTTCATAATGAGAAGAACTCAT
208566 CTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCAC
64 CTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCAC
208631 TTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGA
129 TTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGA
208696 AATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTCAAATCCATCATCTAATGGATTATCATTG
194 AATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTCAAATCCATCATCTAATGGATTATCATTG
208761 CCAGAGAAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGA
259 CCAGAGAAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGA
208826 ATTTGTTCAACCTTTT
324 ATTTGTTCAACCTTTT
208842 GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
1 GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
208907 GAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCACTT
66 GAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCACTT
208972 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAA
131 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAA
209037 TTCATAATGAGAAGAATTTGTTCAACCTTTTGTTCAAATCCATCATCTAATGGATTATCATTGCC
196 TTCATAATGAGAAGAATTTGTTCAACCTTTTGTTCAAATCCATCATCTAATGGATTATCATTGCC
209102 AGAGAAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
261 AGAGAAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
209167 TTGTTCAACCTTTT
326 TTGTTCAACCTTTT
209181 GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
1 GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
209246 GAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCACTT
66 GAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCACTT
209311 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAA
131 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAA
209376 TTCATAATGAGAAGAATTTGTTCAACCTTTTGTTCAAATCCATCATCTAATGGATTATCATTGCC
196 TTCATAATGAGAAGAATTTGTTCAACCTTTTGTTCAAATCCATCATCTAATGGATTATCATTGCC
209441 AGAGAAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
261 AGAGAAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
209506 TTGTTCAACCTTTT
326 TTGTTCAACCTTTT
209520 GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
1 GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
209585 GAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCACTT
66 GAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCACTT
* * * *
209650 GATGGATTATCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGGAAGAAG
131 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAA
209715 TTCATAATGAGAAGAA
196 TTCATAATGAGAAGAA
209731 CTCATCAAAA
Statistics
Matches: 879, Mismatches: 8, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
338 3 0.00
339 875 1.00
340 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (339 bp):
GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
GAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCACTT
GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAA
TTCATAATGAGAAGAATTTGTTCAACCTTTTGTTCAAATCCATCATCTAATGGATTATCATTGCC
AGAGAAGGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
TTGTTCAACCTTTT
Found at i:209162 original size:24 final size:23
Alignment explanation
Indices: 209119--209163 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
209109 GTTCATAATG
*
209119 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
209142 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
209164 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:209388 original size:24 final size:23
Alignment explanation
Indices: 209345--209389 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
209335 GTTCATAATG
*
209345 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
209368 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
209390 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:209501 original size:24 final size:23
Alignment explanation
Indices: 209458--209502 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
209448 GTTCATAATG
*
209458 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
209481 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
209503 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:209732 original size:113 final size:113
Alignment explanation
Indices: 208503--209730 Score: 1964
Period size: 113 Copynumber: 10.9 Consensus size: 113
208493 TTTTAGCAAA
* * * * *
208503 GTTCAAATCCATCAT-TCGATGGATCAGCATTTCCAGAGGAA-GTTCATAATGAGAAGAACTCAT
1 GTTCAAATCCATCATCT-AATGGATTATCATTGCCAGA-GAAGGTTCATAATGAGAAGAATTCAT
* * * *
208566 CTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTT
64 CTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
** * *
208616 GTTTGAATTCATCA-CTTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATC
1 GTTCAAATCCATCATC-TAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATC
208680 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
65 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
208729 GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATCT
1 GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATCT
208794 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
66 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
*
208842 GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
1 GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATCT
* * * *
208907 GAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTT
66 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
** * *
208955 GTTTGAATTCATCA-CTTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATC
1 GTTCAAATCCATCATC-TAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATC
209019 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
65 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
209068 GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATCT
1 GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATCT
209133 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
66 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
*
209181 GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
1 GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATCT
* * * *
209246 GAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTT
66 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
** * *
209294 GTTTGAATTCATCA-CTTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATC
1 GTTCAAATCCATCATC-TAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATC
209358 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
65 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
209407 GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATCT
1 GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATCT
209472 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
66 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
*
209520 GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
1 GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATCT
* * * *
209585 GAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTT
66 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
** * * * *
209633 GTTTGAATTCATCA-CTTGATGGATTATCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATC
1 GTTCAAATCCATCATC-TAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATC
* *
209697 TGAAGAAGGAGGAAGAAGTTCATAATGAGAAGAA
65 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
209731 CTCATCAAAA
Statistics
Matches: 1043, Mismatches: 63, Indels: 18
0.93 0.06 0.02
Matches are distributed among these distances:
112 6 0.01
113 1033 0.99
114 4 0.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (113 bp):
GTTCAAATCCATCATCTAATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAATTCATCT
GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
Done.