Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1019
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: 178109
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Found at i:3725 original size:15 final size:15
Alignment explanation
Indices: 3705--3735 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3695 TAAAAATGTC
3705 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
3720 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
3735 C
1 C
3736 CAAACGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.16, G:0.19, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:5828 original size:20 final size:20
Alignment explanation
Indices: 5749--5828 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
5739 AATGTCCAAA
*
5749 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
5769 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
5794 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
5814 TTGTATCGATACATT
1 ATGTATCGATACATT
5829 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:5832 original size:13 final size:13
Alignment explanation
Indices: 5814--5852 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
5804 ACATTTTTCT
5814 TTGTATCGATACA
1 TTGTATCGATACA
5827 TTGTATCGATACA
1 TTGTATCGATACA
*
5840 CTGTATCGATACA
1 TTGTATCGATACA
5853 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:5979 original size:21 final size:21
Alignment explanation
Indices: 5955--6001 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
5945 AAATCTTTTG
5955 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
5976 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
5996 CAAAAT
1 CAAAAT
6002 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:5998 original size:20 final size:19
Alignment explanation
Indices: 5957--5999 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
5947 ATCTTTTGCA
5957 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
5977 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
5997 AAA
1 AAA
6000 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:8394 original size:13 final size:13
Alignment explanation
Indices: 8376--8401 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8366 TACAGCAAGT
8376 ATGTATCGATACA
1 ATGTATCGATACA
8389 ATGTATCGATACA
1 ATGTATCGATACA
8402 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:9408 original size:26 final size:27
Alignment explanation
Indices: 9379--9439 Score: 101
Period size: 26 Copynumber: 2.4 Consensus size: 27
9369 TCAAAAAGTC
9379 AAGTTC-ATCGTGGACGAAAGATTGGT
1 AAGTTCTATCGTGGACGAAAGATTGGT
9405 AAG-TCTATCGTGGACGAAAGATTGGT
1 AAGTTCTATCGTGGACGAAAGATTGGT
9431 AAG-TCTATC
1 AAGTTCTATC
9440 CTTACATCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 2 0.06
26 32 0.94
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (27 bp):
AAGTTCTATCGTGGACGAAAGATTGGT
Found at i:12349 original size:18 final size:19
Alignment explanation
Indices: 12322--12362 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
12312 TTAGTGAAAG
12322 CCTC-AAATCCATGTTAA-
1 CCTCAAAATCCATGTTAAT
12339 CCTCAAAATCCATGTTAAT
1 CCTCAAAATCCATGTTAAT
12358 CCTCA
1 CCTCA
12363 TTGATTGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 4 0.18
18 13 0.59
19 5 0.23
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.29
Consensus pattern (19 bp):
CCTCAAAATCCATGTTAAT
Found at i:13734 original size:20 final size:21
Alignment explanation
Indices: 13709--13761 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
13699 CACATGGTCC
13709 TGTATCGATACA-TTCACTTA-
1 TGTATCGATACATTTC-CTTAT
13729 TGTATCGATACATTTCCTTAT
1 TGTATCGATACATTTCCTTAT
*
13750 TGTACCGATACA
1 TGTATCGATACA
13762 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTTCCTTAT
Found at i:17173 original size:20 final size:21
Alignment explanation
Indices: 17134--17175 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
17124 TAGCCCTTAA
17134 TCATGCATATTTTACTATGTT
1 TCATGCATATTTTACTATGTT
17155 TCATGCAT-TTTTAGC-ATGTT
1 TCATGCATATTTTA-CTATGTT
17175 T
1 T
17176 AACTCCTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.52
Consensus pattern (21 bp):
TCATGCATATTTTACTATGTT
Found at i:18898 original size:19 final size:19
Alignment explanation
Indices: 18874--18938 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
18864 TAGCCAAACT
18874 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
18893 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
18906 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
18927 TGTATCGATACA
1 TGTATCGATACA
18939 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:18910 original size:13 final size:13
Alignment explanation
Indices: 18892--18917 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18882 TACACAAAAT
18892 ATGTATCGATACA
1 ATGTATCGATACA
18905 ATGTATCGATACA
1 ATGTATCGATACA
18918 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:18915 original size:32 final size:33
Alignment explanation
Indices: 18874--18938 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
18864 TAGCCAAACT
18874 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
18906 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
18939 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:21170 original size:21 final size:21
Alignment explanation
Indices: 21137--21186 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
21127 TTGCAAGTTG
*
21137 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
21159 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
21180 AAATAAA
1 AAATAAA
21187 ACTTGCATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:23002 original size:15 final size:15
Alignment explanation
Indices: 22982--23012 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22972 TAAAAATGTC
*
22982 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
22997 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
23012 C
1 C
23013 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:25111 original size:13 final size:13
Alignment explanation
Indices: 25093--25130 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
25083 CATTTTTCTT
25093 TGTATCGATACAA
1 TGTATCGATACAA
*
25106 TGTATCGATACAC
1 TGTATCGATACAA
25119 TGTATCGATACA
1 TGTATCGATACA
25131 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:25285 original size:20 final size:20
Alignment explanation
Indices: 25242--25287 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
25232 AAATCTTTTG
25242 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
25263 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
25283 CAAAA
1 CAAAA
25288 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:27650 original size:19 final size:19
Alignment explanation
Indices: 27626--27690 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
27616 TAGCCAAACT
27626 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
27645 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
27658 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
27679 TGTATCGATACA
1 TGTATCGATACA
27691 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:27662 original size:13 final size:13
Alignment explanation
Indices: 27644--27669 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27634 TACACAAAAT
27644 ATGTATCGATACA
1 ATGTATCGATACA
27657 ATGTATCGATACA
1 ATGTATCGATACA
27670 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:27667 original size:32 final size:33
Alignment explanation
Indices: 27626--27690 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
27616 TAGCCAAACT
27626 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
27658 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
27691 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:30379 original size:33 final size:33
Alignment explanation
Indices: 30338--30491 Score: 197
Period size: 33 Copynumber: 4.8 Consensus size: 33
30328 AGGAGATGTG
*
30338 ACCGACTTGTGTGGGCTTTTGAAGGGGGTTGCC
1 ACCGACTTGTGTGGGCTTTAGAAGGGGGTTGCC
*
30371 ATCGACTTGTGTGGGCTTTAGAA-GGGG-TGCC
1 ACCGACTTGTGTGGGCTTTAGAAGGGGGTTGCC
* * *
30402 ACTGACTTTTGTGGGCTTTAAAAGGGGGTTGCC
1 ACCGACTTGTGTGGGCTTTAGAAGGGGGTTGCC
***
30435 ACCGACTTGTGTGGGCTTTAG-AGAAAGTTGCC
1 ACCGACTTGTGTGGGCTTTAGAAGGGGGTTGCC
* *
30467 ACCAACTTGTGTGGGCTTTTGAAGG
1 ACCGACTTGTGTGGGCTTTAGAAGG
30492 TTATGGTGCC
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
31 23 0.22
32 35 0.34
33 45 0.44
ACGTcount: A:0.18, C:0.17, G:0.35, T:0.31
Consensus pattern (33 bp):
ACCGACTTGTGTGGGCTTTAGAAGGGGGTTGCC
Found at i:30419 original size:64 final size:65
Alignment explanation
Indices: 30338--30491 Score: 220
Period size: 64 Copynumber: 2.4 Consensus size: 65
30328 AGGAGATGTG
* **
30338 ACCGACTTGTGTGGGCTTTTGAAGGGGGTTGCCATCGACTTGTGTGGGCTTTAGA-AGGGGTGCC
1 ACCGACTTGTGTGGGCTTTTGAAGGGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAAGGTGCC
* * ** *
30402 ACTGACTTTTGTGGGCTTTAAAAGGGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAAGTTGCC
1 ACCGACTTGTGTGGGCTTTTGAAGGGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAAGGTGCC
*
30467 ACCAACTTGTGTGGGCTTTTGAAGG
1 ACCGACTTGTGTGGGCTTTTGAAGG
30492 TTATGGTGCC
Statistics
Matches: 76, Mismatches: 13, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
64 50 0.66
65 26 0.34
ACGTcount: A:0.18, C:0.17, G:0.35, T:0.31
Consensus pattern (65 bp):
ACCGACTTGTGTGGGCTTTTGAAGGGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAAGGTGCC
Found at i:30536 original size:27 final size:28
Alignment explanation
Indices: 30496--30549 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
30486 TGAAGGTTAT
* *
30496 GGTGCCATAAAGTTATGGAC-TTAAAAG
1 GGTGCCACAAAGTTATAGACTTTAAAAG
*
30523 GGTGCCACAGAGTTATAGACTTTAAAA
1 GGTGCCACAAAGTTATAGACTTTAAAA
30550 AGTTACTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (28 bp):
GGTGCCACAAAGTTATAGACTTTAAAAG
Found at i:30822 original size:52 final size:52
Alignment explanation
Indices: 30766--30871 Score: 124
Period size: 52 Copynumber: 2.0 Consensus size: 52
30756 AACGATGATG
* * ** *
30766 AAGGTACCAACATGCTGAT-TCAAGGCTAGCAACATTAGTCTTAAAGATGACA
1 AAGGTACCAACATGCTGATCTAAAGGC-AACAACATTAGAATGAAAGATGACA
* * *
30818 AAGGTGCCAACGTGCTGATCTAAAGTCAACAACATTAGAATGAAAGATGACA
1 AAGGTACCAACATGCTGATCTAAAGGCAACAACATTAGAATGAAAGATGACA
30870 AA
1 AA
30872 TTTTGGTAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
52 40 0.89
53 5 0.11
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.21
Consensus pattern (52 bp):
AAGGTACCAACATGCTGATCTAAAGGCAACAACATTAGAATGAAAGATGACA
Found at i:32089 original size:13 final size:11
Alignment explanation
Indices: 32071--32133 Score: 56
Period size: 12 Copynumber: 5.5 Consensus size: 11
32061 ATCTGAACCC
32071 TTTTTTTGTCATT
1 TTTTTTTGT--TT
32084 TTTTTTTGTTT
1 TTTTTTTGTTT
32095 TTGTTTTTGTTT
1 TT-TTTTTGTTT
*
32107 TGTTTTTT-TTC
1 T-TTTTTTGTTT
* *
32118 GTTTGTTGTTT
1 TTTTTTTGTTT
32129 TTTTT
1 TTTTT
32134 ATACAAAGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
10 5 0.12
11 11 0.27
12 15 0.37
13 10 0.24
ACGTcount: A:0.02, C:0.03, G:0.13, T:0.83
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:32097 original size:6 final size:6
Alignment explanation
Indices: 32082--32130 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
32072 TTTTTTGTCA
*
32082 TTTT-T TTTTGT TTTTGT TTTTG- TTTTG- TTTT-T TTTCGT TTGTTGT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TT-TTGT
32127 TTTT
1 TTTT
32131 TTTATACAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
5 16 0.42
6 17 0.45
7 5 0.13
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (6 bp):
TTTTGT
Found at i:32107 original size:17 final size:16
Alignment explanation
Indices: 32082--32113 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
32072 TTTTTTGTCA
32082 TTTTTTTTTGTTTTTG
1 TTTTTTTTTGTTTTTG
32098 TTTTTGTTTTGTTTTT
1 TTTTT-TTTTGTTTTT
32114 TTTCGTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (16 bp):
TTTTTTTTTGTTTTTG
Found at i:32114 original size:19 final size:18
Alignment explanation
Indices: 32071--32133 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 18
32061 ATCTGAACCC
32071 TTTTTTTGTCATTTT-TTTT
1 TTTTTTTGT--TTTTGTTTT
*
32090 TGTTTTTGTTTTTGTTTTGT
1 TTTTTTTGTTTTTG-TTT-T
32110 TTTTTTTCGTTTGTTGTTTT
1 TTTTTTT-GTTT-TTGTTTT
32130 TTTT
1 TTTT
32134 ATACAAAGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 4 0.11
19 11 0.30
20 12 0.32
21 7 0.19
22 3 0.08
ACGTcount: A:0.02, C:0.03, G:0.13, T:0.83
Consensus pattern (18 bp):
TTTTTTTGTTTTTGTTTT
Found at i:36638 original size:16 final size:15
Alignment explanation
Indices: 36617--36646 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
36607 GAATTTTGCA
36617 TTTTTGTTTGTTTTTG
1 TTTTTGTTT-TTTTTG
36633 TTTTTGTTTTTTTT
1 TTTTTGTTTTTTTT
36647 CTTTAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (15 bp):
TTTTTGTTTTTTTTG
Found at i:37416 original size:22 final size:23
Alignment explanation
Indices: 37379--37421 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
37369 CTGGTCCCGT
37379 TGCTTTCTCTTTTACGTTGCTCA
1 TGCTTTCTCTTTTACGTTGCTCA
37402 TGCTTTCT-TTTTACGTTGCT
1 TGCTTTCTCTTTTACGTTGCT
37422 GCTATTTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.07, C:0.23, G:0.14, T:0.56
Consensus pattern (23 bp):
TGCTTTCTCTTTTACGTTGCTCA
Found at i:38286 original size:43 final size:41
Alignment explanation
Indices: 38223--38305 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 41
38213 CTAATTTCAT
* * * *
38223 GCATGAATGCATGCATTGCCACCTAATTGATTTAGGTGGCA
1 GCATGAATGCATGCAATGCCACCTAAGTCAATTAGGTGGCA
38264 GCATGCAATGCAATGCAATGCCACCTAAGTCAATTAGGTGGC
1 GCATG-AATGC-ATGCAATGCCACCTAAGTCAATTAGGTGGC
38306 TACAAATCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
41 5 0.14
42 5 0.14
43 26 0.72
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (41 bp):
GCATGAATGCATGCAATGCCACCTAAGTCAATTAGGTGGCA
Found at i:38364 original size:10 final size:10
Alignment explanation
Indices: 38349--38407 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
38339 TTAATTTGAT
38349 TTTTTTATTA
1 TTTTTTATTA
38359 TTTTTTATATA
1 TTTTTTAT-TA
*
38370 TTTTTTATTT
1 TTTTTTATTA
*
38380 TTTTATTTTTA
1 TTTT-TTATTA
* *
38391 CTTATTATTA
1 TTTTTTATTA
*
38401 TATTTTA
1 TTTTTTA
38408 CATTGGACAA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
10 22 0.58
11 16 0.42
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:38395 original size:18 final size:17
Alignment explanation
Indices: 38350--38406 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
38340 TAATTTGATT
38350 TTTTTATTATTTTTTATA
1 TTTTTATTATTTTTT-TA
38368 TATTTT-TTATTTTTTTA
1 T-TTTTATTATTTTTTTA
* *
38385 TTTTTACTTATTATTATA
1 TTTTTA-TTATTTTTTTA
38403 TTTT
1 TTTT
38407 ACATTGGACA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 4 0.12
17 3 0.09
18 23 0.68
19 4 0.12
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTATTATTTTTTTA
Found at i:38404 original size:26 final size:27
Alignment explanation
Indices: 38350--38406 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 27
38340 TAATTTGATT
*
38350 TTTTTATTATTTTTTATATATTTTTTA
1 TTTTTATTATTTTTTATATATTTTATA
38377 TTTTT-TTA-TTTTTACT-TATTATTATA
1 TTTTTATTATTTTTTA-TATATT-TTATA
38403 TTTT
1 TTTT
38407 ACATTGGACA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 10 0.37
26 12 0.44
27 5 0.19
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (27 bp):
TTTTTATTATTTTTTATATATTTTATA
Found at i:38964 original size:42 final size:42
Alignment explanation
Indices: 38909--39645 Score: 360
Period size: 42 Copynumber: 17.4 Consensus size: 42
38899 AAGGTGGAAG
* **
38909 AGTCTCCAGGGTCAAAGTTGACAGGCAGACTGAGGGTAGAAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAA
* *** * **
38951 AGTCTCCAAGGTCAAAACCGACAGGCAGACTTTCGATAAGGCA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGT-AGAAA
* * * *
38994 A-TCTCCAAGGTTAAAGCAGACAGGCAGACTAAGGGTAGGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAA
* *
39035 AGTCTCCAGGGTCAAAGCCGATAGGCAGACTTTAGATGAGGCTA-AAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGAC--T-GA-G-GG-TAGAAA
* *
39082 AGTCTCCAAGGTCAAAGCCGATAGGCAGACTGAGGGTGAGAAG
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGT-AGAAA
* * * * * *** **
39125 AGTCTCTAGGGTCAAAGCCGACGGGCATACTTAAAAT-GAGGC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGA-AA
* * * * * *
39167 AGTCTCTAAGGACAAAGCTGATAGGCAGACTAAGGGTAGGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAA
* * * *** **
39209 AGTCTCCAAGGTCAAAGCCAACAGGGAGACTTAAAAT-GAGGC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGA-AA
* * * *
39251 AGTCTCTAAGGTCAAAGTCGATAGGCAGACTGAGGATAGAAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAA
* * * * * * *
39293 AATCTCCAGGGTCAAAGCTGACATGCAAACTAAAGGTGAGAAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGT-AGAAA
* * * * *** **
39336 AGTCTCCAGGGTCAAAGTCGACAAGCAGACTTAAAAT-GAGGC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGA-AA
* * * *
39378 AGTCTCTAGGGTTAAAGCCGATAGGCAGACTGAGGGT-GAAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAA
* * * * * *** **
39419 AGTCTCTAGGGTCAAAGCCAACAGGTAGACTTAAAATA-AGGC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGA-AA
* **
39461 AGTTTCCAAGGTCAAAGCTAACAGGCAGACTGAGGGT-GAAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAA
* * * * *** **
39502 AGTCTCCAAGGTTAAAGCCGAGAGGCAAACTTAAAAT-GAGGC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGA-AA
* * * * * *** **
39544 AGTCTCTAGGGTCAAAGCTGACAGACAGACTTAAAAT-GAGGC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGA-AA
* *
39586 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAA
*
39628 AGTCTTCAAGGTCAAAGC
1 AGTCTCCAAGGTCAAAGC
39646 TGAAAGACAG
Statistics
Matches: 518, Mismatches: 156, Indels: 42
0.72 0.22 0.06
Matches are distributed among these distances:
41 70 0.14
42 333 0.64
43 74 0.14
44 3 0.01
45 2 0.00
46 1 0.00
47 33 0.06
48 2 0.00
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (42 bp):
AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAA
Found at i:39449 original size:83 final size:83
Alignment explanation
Indices: 39295--39616 Score: 347
Period size: 83 Copynumber: 3.8 Consensus size: 83
39285 GATAGAAAAA
* * * * * * *
39295 TCTCCAGGGTCAAAGCTGACATGCAAACTAAAGGTGAGAAAAGTCTCCAGGGTCAAAGTCGACAA
1 TCTCTAGGGTCAAAGCTGACAGGCAGACT-GAGG-GTGAAAAGTCTCCAGGGTCAAAGCCGACAG
39360 GCAGACTTAAAATGAGGCAG
64 GCAGACTTAAAATGAGGCAG
* * * * * *
39380 TCTCTAGGGTTAAAGCCGATAGGCAGACTGAGGGTGAAAAGTCTCTAGGGTCAAAGCCAACAGGT
1 TCTCTAGGGTCAAAGCTGACAGGCAGACTGAGGGTGAAAAGTCTCCAGGGTCAAAGCCGACAGGC
*
39445 AGACTTAAAATAAGGCAG
66 AGACTTAAAATGAGGCAG
* * * * * * *
39463 TTTCCAAGGTCAAAGCTAACAGGCAGACTGAGGGTGAAAAGTCTCCAAGGTTAAAGCCGAGAGGC
1 TCTCTAGGGTCAAAGCTGACAGGCAGACTGAGGGTGAAAAGTCTCCAGGGTCAAAGCCGACAGGC
*
39528 AAACTTAAAATGAGGCAG
66 AGACTTAAAATGAGGCAG
* * *** ** *
39546 TCTCTAGGGTCAAAGCTGACAGACAGACTTAAAATGAGGCAGTCTCTAGGGTCAAAGCCGACAGG
1 TCTCTAGGGTCAAAGCTGACAGGCAGACTGAGGGTGA-AAAGTCTCCAGGGTCAAAGCCGACAGG
39611 CAGACT
65 CAGACT
39617 GAGGGTAGAA
Statistics
Matches: 191, Mismatches: 45, Indels: 3
0.80 0.19 0.01
Matches are distributed among these distances:
83 139 0.73
84 29 0.15
85 23 0.12
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.18
Consensus pattern (83 bp):
TCTCTAGGGTCAAAGCTGACAGGCAGACTGAGGGTGAAAAGTCTCCAGGGTCAAAGCCGACAGGC
AGACTTAAAATGAGGCAG
Found at i:39551 original size:125 final size:126
Alignment explanation
Indices: 39419--39698 Score: 373
Period size: 125 Copynumber: 2.2 Consensus size: 126
39409 GAGGGTGAAA
* * *
39419 AGTCTCTAGGGTCAAAGCCAACAGGTAGACTTAAAATAAGGCAGTTTCCAAGGTCAAAGCTAACA
1 AGTCTCTAGGGTCAAAGCCAACAGGCAGACTTAAAATAAGGCAGTCTCCAAGGTCAAAGCCAACA
* * *
39484 GGCAGACTGAGGGT-GAAAAGTCTCCAAGGTTAAAGCCGAGAGGCAAACTTAAAATGAGGC
66 GGCAGACTGAGGGTAGAAAAGTCTCCAAGGTCAAAGCCGAAAGACAAACTTAAAATGAGGC
** * * * * *
39544 AGTCTCTAGGGTCAAAGCTGACAGACAGACTTAAAATGAGGCAGTCTCTAGGGTCAAAGCCGACA
1 AGTCTCTAGGGTCAAAGCCAACAGGCAGACTTAAAATAAGGCAGTCTCCAAGGTCAAAGCCAACA
* * * * *
39609 GGCAGACTGAGGGTAGAAAAGTCTTCAAGGTCAAAGCTGAAAGACAGACTTTAGATGAGGC
66 GGCAGACTGAGGGTAGAAAAGTCTCCAAGGTCAAAGCCGAAAGACAAACTTAAAATGAGGC
* *
39670 AATCTCCAGGGTCAAAGCCAACAGGCAGA
1 AGTCTCTAGGGTCAAAGCCAACAGGCAGA
39699 GAAGATTTGG
Statistics
Matches: 131, Mismatches: 23, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
125 69 0.53
126 62 0.47
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.17
Consensus pattern (126 bp):
AGTCTCTAGGGTCAAAGCCAACAGGCAGACTTAAAATAAGGCAGTCTCCAAGGTCAAAGCCAACA
GGCAGACTGAGGGTAGAAAAGTCTCCAAGGTCAAAGCCGAAAGACAAACTTAAAATGAGGC
Found at i:39632 original size:84 final size:84
Alignment explanation
Indices: 38909--39698 Score: 528
Period size: 84 Copynumber: 9.3 Consensus size: 84
38899 AAGGTGGAAG
* ** * *
38909 AGTCTCCAGGGTCAAAGTTGACAGGCAGACTGAGGGTAGAAAAGTCTCCAAGGTCAAAACCGACA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAAAGCCGACA
** *
38974 GGCAGACTTTCGATAAGGC
66 GGCAGACTTAAGATGAGGC
* * * * * *
38993 AATCTCCAAGGTTAAAGCAGACAGGCAGACTAAGGGTAGGAAAGTCTCCAGGGTCAAAGCCGATA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAAAGCCGACA
*
39058 GGCAGACTTTAGATGAGGC
66 GGCAGACTTAAGATGAGGC
* * *
39077 TAAAAAGTCTCCAAGGTCAAAGCCGATAGGCAGACTGAGGGTGAGAAGAGTCTCTAGGGTCAAAG
1 -----AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGT-AGAAAAGTCTCCAGGGTCAAAG
* * *
39142 CCGACGGGCATACTTAAAATGAGGC
60 CCGACAGGCAGACTTAAGATGAGGC
* * * * * * * *
39167 AGTCTCTAAGGACAAAGCTGATAGGCAGACTAAGGGTAGGAAAGTCTCCAAGGTCAAAGCCAACA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAAAGCCGACA
* *
39232 GGGAGACTTAAAATGAGGC
66 GGCAGACTTAAGATGAGGC
* * * * * *
39251 AGTCTCTAAGGTCAAAGTCGATAGGCAGACTGAGGATAGAAAAATCTCCAGGGTCAAAGCTGACA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAAAGCCGACA
* * * * **
39316 TGCAAACTAAAGGTGAGAAA
66 GGCAGACTTAAGATGAG-GC
* * * * *** ** * * *
39336 AGTCTCCAGGGTCAAAGTCGACAAGCAGACTTAAAAT-GAGGCAGTCTCTAGGGTTAAAGCCGAT
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGA-AAAGTCTCCAGGGTCAAAGCCGAC
* * * **
39400 AGGCAGACTGAGGGTGA-AA
65 AGGCAGACTTAAGATGAGGC
* * * * * *** ** * * **
39419 AGTCTCTAGGGTCAAAGCCAACAGGTAGACTTAAAATA-AGGCAGTTTCCAAGGTCAAAGCTAAC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGA-AAAGTCTCCAGGGTCAAAGCCGAC
* * * **
39483 AGGCAGACTGAGGGTGA-AA
65 AGGCAGACTTAAGATGAGGC
* * * * *** ** * *
39502 AGTCTCCAAGGTTAAAGCCGAGAGGCAAACTTAAAAT-GAGGCAGTCTCTAGGGTCAAAGCTGAC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGA-AAAGTCTCCAGGGTCAAAGCCGAC
* *
39566 AGACAGACTTAAAATGAGGC
65 AGGCAGACTTAAGATGAGGC
* * * * * *
39586 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTTCAAGGTCAAAGCTGAAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAAAGCCGACA
* *
39651 GACAGACTTTAGATGAGGC
66 GGCAGACTTAAGATGAGGC
* * *
39670 AATCTCCAGGGTCAAAGCCAACAGGCAGA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGA
39699 GAAGATTTGG
Statistics
Matches: 571, Mismatches: 123, Indels: 24
0.80 0.17 0.03
Matches are distributed among these distances:
83 136 0.24
84 269 0.47
85 95 0.17
89 32 0.06
90 39 0.07
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (84 bp):
AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAGGGTAGAAAAGTCTCCAGGGTCAAAGCCGACA
GGCAGACTTAAGATGAGGC
Found at i:42170 original size:13 final size:13
Alignment explanation
Indices: 42152--42177 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42142 CAATTTTTTG
42152 TGTATCGATACAT
1 TGTATCGATACAT
42165 TGTATCGATACAT
1 TGTATCGATACAT
42178 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:42916 original size:21 final size:21
Alignment explanation
Indices: 42875--42918 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
42865 CTCTCCTTTA
* *
42875 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
42896 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
42917 TC
1 TC
42919 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:43218 original size:19 final size:19
Alignment explanation
Indices: 43194--43261 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
43184 AATTCAACGA
43194 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
43213 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
43228 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
43245 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
43262 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:43232 original size:32 final size:32
Alignment explanation
Indices: 43196--43258 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
43186 TTCAACGATT
*
43196 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
43228 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
43259 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:43233 original size:13 final size:13
Alignment explanation
Indices: 43215--43239 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43205 ACATAAGTTT
43215 TGTATCGATACAA
1 TGTATCGATACAA
43228 TGTATCGATACA
1 TGTATCGATACA
43240 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:43325 original size:33 final size:33
Alignment explanation
Indices: 43283--43347 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
43273 CAAGGAAATG
***
43283 TATCGATACATTTTTCTGTGTATCGATACATTA
1 TATCGATACATGGATCTGTGTATCGATACATTA
*
43316 TATCGATACATGGATCTTTGTATCGATACATT
1 TATCGATACATGGATCTGTGTATCGATACATT
43348 TGGAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (33 bp):
TATCGATACATGGATCTGTGTATCGATACATTA
Found at i:45755 original size:51 final size:53
Alignment explanation
Indices: 45686--46027 Score: 194
Period size: 52 Copynumber: 6.5 Consensus size: 53
45676 AGTTTATCAA
* * * * *
45686 TTCTCCACAATCGAGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
45737 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * *** * *
45791 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAA-----T
* * * *
45849 TAT-TTC-CGA--GGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAAT
1 T-TCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAAT
* * * *
45898 TTTTTCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACGCCAATT
1 TTCTTCACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAA-T
* * *
45951 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACAAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
46003 TT-TTCACAATTGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
46028 CTCATTATTT
Statistics
Matches: 223, Mismatches: 40, Indels: 55
0.70 0.13 0.17
Matches are distributed among these distances:
48 1 0.00
49 5 0.02
50 6 0.03
51 35 0.16
52 78 0.35
53 32 0.14
54 35 0.16
55 20 0.09
57 5 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:45870 original size:28 final size:27
Alignment explanation
Indices: 45803--45871 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
45793 CTTCACAATC
**
45803 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
45830 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
45858 GGGGATACTCCAAC
1 GGGGATACTCCAAC
45872 TCCGGTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:45911 original size:107 final size:106
Alignment explanation
Indices: 45749--46141 Score: 318
Period size: 107 Copynumber: 3.7 Consensus size: 106
45739 TTCTATAATC
* * *
45749 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACTCCGATTTTA-TTCC-AAAAACACTAATTTTTTCACAATCGGGGATACTCC
45814 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGA
64 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTA-TTCCGA
* *
45858 GGGGATACTCCAACTCCGGTTTTA-TCGCTAAAACACTAATTTTTTCACAATCGGGGATACTCCA
1 GGGGATACTCCAACTCCGATTTTATTC-CAAAAACACTAATTTTTTCACAATCGGGGATACTCCA
** * ** * * * ** * *
45922 ATCCTGGTTTTATTTTC---AAAACGCCAATTTTCCTTTAAT-C--
65 A-CCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTCCGA
* * * *
45962 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATAC-AAATTTTTCACAATTGAGGATACTCCA
1 GGGGATACTCCAACTCCGATTTTA-TTCCAAAAACACTAATTTTTTCACAATCGGGGATACTCCA
* * *
46026 ACCTCATTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
65 ACCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTA-TTCCGA
* ** * * * * * * *
46070 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGA-TTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACTCCGATTTTATTCCAAAAACACTAATTTTTTCACAATCGGGGATACTCCAA
46134 CCCCGTTA
66 CCCCGTTA
46142 TTTTCGAAGG
Statistics
Matches: 221, Mismatches: 47, Indels: 34
0.73 0.16 0.11
Matches are distributed among these distances:
102 2 0.01
103 6 0.03
104 53 0.24
105 8 0.04
106 18 0.08
107 75 0.34
108 31 0.14
109 28 0.13
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (106 bp):
GGGGATACTCCAACTCCGATTTTATTCCAAAAACACTAATTTTTTCACAATCGGGGATACTCCAA
CCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTCCGA
Found at i:46006 original size:104 final size:102
Alignment explanation
Indices: 45691--46026 Score: 275
Period size: 104 Copynumber: 3.2 Consensus size: 102
45681 ATCAATTCTC
* * * *
45691 CACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGAGGATACTCCAA-TCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
45755 ACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCCAAAAAACA--AATTT-TT
* * * * ** * * * ** * *
45796 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTTCCGA
1 CACAATCGAGGATACTCCAATCCGGTTTTATTTTC---AAAACACCAATTTTCCTTTA-AT-C--
* ** * * *
45858 GGGGATACTCCAACTCCGGTTTTATCGCTAAAACACTAATTTTTT
59 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAAC-AAATTTTT
* *
45903 CACAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGAT
1 CACAATCGAGGATACTCCAATCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
45968 ACTCCAACTCCGATTTTATTTCCAAAAATACAAATTTTT
65 ACTCCAACTCCGATTTTATTTCCAAAAA-ACAAATTTTT
*
46007 CACAATTGAGGATACTCCAA
1 CACAATCGAGGATACTCCAA
46027 CCTCATTATT
Statistics
Matches: 173, Mismatches: 44, Indels: 29
0.70 0.18 0.12
Matches are distributed among these distances:
103 6 0.03
104 56 0.32
105 23 0.13
106 15 0.09
107 26 0.15
108 10 0.06
109 36 0.21
110 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (102 bp):
CACAATCGAGGATACTCCAATCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAAACAAATTTTT
Found at i:46048 original size:28 final size:28
Alignment explanation
Indices: 46016--46086 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
46006 TCACAATTGA
* * **
46016 GGATACTCCAACCTCATTATTTCATCGG
1 GGATACTCCAACCCCATTACTTCAGAGG
* *
46044 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCATTACTTCAGAGG
46072 GGATACTCCAACCCC
1 GGATACTCCAACCCC
46087 GGCTTTATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCATTACTTCAGAGG
Found at i:46058 original size:212 final size:211
Alignment explanation
Indices: 45691--46094 Score: 607
Period size: 212 Copynumber: 1.9 Consensus size: 211
45681 ATCAATTCTC
* *
45691 CACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATA
1 CACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATA
* * *
45756 CTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCG
66 CTCCAACTCCGATTTTATTTCCAAAAAACA-CAATTTCTTCACAATCGAGGATACTCCAACCCCA
* * *
45821 TTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTTTATCGC
130 TTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATCGC
45886 TAAAACACTAATTTTTT
195 TAAAACACTAATTTTTT
* * * *
45903 CACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 CACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGA
* *
45967 TACTCCAACTCCGATTTTATTTCCAAAAATACA-AATTT-TTCACAATTGAGGATACTCCAACCT
64 TACTCCAACTCCGATTTTATTTCCAAAAA-ACACAATTTCTTCACAATCGAGGATACTCCAACCC
*
46030 CATTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTAT
128 CATTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTAT
46095 TCCCAAAATA
Statistics
Matches: 173, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
211 29 0.17
212 101 0.58
213 40 0.23
214 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.31
Consensus pattern (211 bp):
CACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAAACACAATTTCTTCACAATCGAGGATACTCCAACCCCAT
TAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATCGCT
AAAACACTAATTTTTT
Found at i:46220 original size:80 final size:79
Alignment explanation
Indices: 46041--46244 Score: 223
Period size: 80 Copynumber: 2.6 Consensus size: 79
46031 ATTATTTCAT
* * *
46041 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
* * *
46106 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * ** * ** *
46120 TGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTTTTTTTTTC-TAATC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCG-GCTTTATTCCCAAAAT-
46184 ATCGATTTCTCACAAC
64 ATCGATTTCTCACAAC
* *
46200 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCC
46245 TGTTATTATC
Statistics
Matches: 104, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 50 0.48
80 54 0.52
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:46272 original size:80 final size:76
Alignment explanation
Indices: 46041--46275 Score: 209
Period size: 80 Copynumber: 2.9 Consensus size: 76
46031 ATTATTTCAT
* * * * *
46041 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTC-AAGGGATACTCCAACCCC-GTTTTATT-CCAAAACAT
* *
46106 TGATTTCTCATAAT
63 TGATTTCTCACAAC
* * * * * *
46120 TGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTTTTTTTTTCTAATCA
1 CGGGGATACTCCAACCCCGTTATTTTC-AAGGGATACTCCAACCCCG---TTTTATTCCAAAACA
*
46185 TCGATTTCTCACAAC
62 TTGATTTCTCACAAC
* * *
46200 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCTGTTATTATCTCCAAAACAT
1 CGGGGATACTCCAACCCCGTTATTTTCAAGGG-ATACTCCAACCCCGTT-TTAT-TCCAAAACAT
*
46265 TAAATTTCTCA
63 T-GATTTCTCA
46276 TCGGGAAATA
Statistics
Matches: 124, Mismatches: 25, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
77 2 0.02
78 4 0.03
79 53 0.43
80 60 0.48
81 5 0.04
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (76 bp):
CGGGGATACTCCAACCCCGTTATTTTCAAGGGATACTCCAACCCCGTTTTATTCCAAAACATTGA
TTTCTCACAAC
Found at i:48104 original size:27 final size:27
Alignment explanation
Indices: 48066--48126 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
48056 CTCAAGCGTT
48066 GGATAATAGATGAAGTCGAAAGACCTG
1 GGATAATAGATGAAGTCGAAAGACCTG
48093 GGATAATAGATGAAGTCGAAAGACCTG
1 GGATAATAGATGAAGTCGAAAGACCTG
*
48120 AGATAAT
1 GGATAAT
48127 TCATGTCGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.43, C:0.10, G:0.28, T:0.20
Consensus pattern (27 bp):
GGATAATAGATGAAGTCGAAAGACCTG
Found at i:48865 original size:13 final size:13
Alignment explanation
Indices: 48847--48872 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48837 ATAATCACCC
48847 TGTATCGATACAA
1 TGTATCGATACAA
48860 TGTATCGATACAA
1 TGTATCGATACAA
48873 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:50971 original size:15 final size:15
Alignment explanation
Indices: 50951--50981 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
50941 ATTTCGTTTG
*
50951 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
50966 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
50981 G
1 G
50982 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:52813 original size:21 final size:21
Alignment explanation
Indices: 52784--52828 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
52774 AAGTTTTCAT
*
52784 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
52804 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
52826 TTT
1 TTT
52829 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:55061 original size:13 final size:13
Alignment explanation
Indices: 55043--55068 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55033 CAATTTTTTG
55043 TGTATCGATACAT
1 TGTATCGATACAT
55056 TGTATCGATACAT
1 TGTATCGATACAT
55069 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:68385 original size:25 final size:25
Alignment explanation
Indices: 68357--68408 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
68347 TCATCATCAG
68357 TAAAGGAGATGTGATTATCGACAGT
1 TAAAGGAGATGTGATTATCGACAGT
68382 TAAAGGAGATGTGATTATCGACAGT
1 TAAAGGAGATGTGATTATCGACAGT
68407 TA
1 TA
68409 TGTTGTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.29
Consensus pattern (25 bp):
TAAAGGAGATGTGATTATCGACAGT
Found at i:68947 original size:13 final size:13
Alignment explanation
Indices: 68929--68954 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68919 ATATAAGTAT
68929 TGTATCGATACAA
1 TGTATCGATACAA
68942 TGTATCGATACAA
1 TGTATCGATACAA
68955 AGTTGCCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:75210 original size:13 final size:13
Alignment explanation
Indices: 75192--75216 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75182 ATTACTCAAA
75192 TGTATCGATACAT
1 TGTATCGATACAT
75205 TGTATCGATACA
1 TGTATCGATACA
75217 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:75318 original size:52 final size:52
Alignment explanation
Indices: 75225--75354 Score: 201
Period size: 52 Copynumber: 2.5 Consensus size: 52
75215 CACTGATCTT
* *
75225 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATT-AAA
75276 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
* *
75328 TGTATCGATACATGCAAGCAACTTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
75355 ATATTTCGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 19 0.26
52 51 0.70
53 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
Found at i:82650 original size:96 final size:97
Alignment explanation
Indices: 82424--82650 Score: 244
Period size: 96 Copynumber: 2.4 Consensus size: 97
82414 TTGGTTAAAA
* * * *
82424 AATAGGGTTGGAGTGTCCCCGATGATGAGAATTTAGGCAAAAATAAGATTTAAAACATGAGGAGT
1 AATAGGGTTGGAGTGTCCCCGATAATGAAAATTTAAGCAAAAATAAGATTTAAAACATGAGAAGT
*
82489 TAAAAAGTGGGGTTGGAGTATTCCCTCAGAAG
66 TAAAAAGCGGGGTTGGAGTATTCCCTCAGAAG
* * * ** * * * * *
82521 AATAGGGTTGGAGTATCCTCGACAATGCTAATTTAAGCAAAAA-AATATTTGAATCTTGATAAGT
1 AATAGGGTTGGAGTGTCCCCGATAATGAAAATTTAAGCAAAAATAAGATTTAAAACATGAGAAGT
* * *
82585 TTAAAAGCGGGGTTGGAGTA-TCCCTTCGGAGG
66 TAAAAAGCGGGGTTGGAGTATTCCC-TCAGAAG
*
82617 AATAGGGTTGAAGTGTCCCCGATAAAT-AAAATTT
1 AATAGGGTTGGAGTGTCCCCGAT-AATGAAAATTT
82651 TGGTATTTTA
Statistics
Matches: 105, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
95 4 0.04
96 62 0.59
97 39 0.37
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.27
Consensus pattern (97 bp):
AATAGGGTTGGAGTGTCCCCGATAATGAAAATTTAAGCAAAAATAAGATTTAAAACATGAGAAGT
TAAAAAGCGGGGTTGGAGTATTCCCTCAGAAG
Found at i:85647 original size:53 final size:52
Alignment explanation
Indices: 85530--86472 Score: 479
Period size: 53 Copynumber: 17.9 Consensus size: 52
85520 AGATTTGAAA
* * *
85530 ATGATAA-AAGTGCCAATGTGCT-AGTTCAAGGCCAAAGACATCGGACTCAAAG
1 ATGATAAGAA-TGCCAATGTGCTGA-TTCAAGGCCAACGACATTGGACTTAAAG
* * * * * *
85582 AT-AGTAAAAATGCTAGATATTCTGATTCAAGGCCAGCGCCATTGGACTTAAAG
1 ATGA-TAAGAATGCCA-ATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
* * **
85635 ATGATAAGAATGCCAA----AT-ATTCAAAGCCAGTGACATTGGACTTAAAG
1 ATGATAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
* * * * * * * * *
85682 ATGATAAAAAAATGTCAATATGCTGGTTCACGGCTAGCGATATTGGTCTTAAAG
1 ATGAT--AAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
* * * * * * *
85736 ATGGTGATG-GTTCCAATGTGTTGATTCAAGGCCAATGACATTAGACTTAAAG
1 ATGAT-AAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
* * *** * * *
85788 AT-AAAAAAATTGATGGATGTGCTAATTCAAGGCCAACGCCATTGGACTTAGAG
1 ATGATAAGAA-TG-CCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
* * * * *
85841 ATGAGAAAAATGCCAAATGTGTTGATTCAAGGCTAAAGACATTGGACTTAAAG
1 ATGATAAGAATGCC-AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
* * * * * * * *
85894 ATGATAAAAAAATGCCAA-ATGCTGATTCACGACCAACGATATTAGTCTCAAAG
1 ATGAT--AAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
* * ** * *
85947 ATGATGAAG-GTGCCAATGTGCTGATTCAAGGCTAGTGACATTAGACTTAAGG
1 ATGAT-AAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
** * ** * *
85999 ATGA-AGAGAATGTAGAATGTGTTGATTCAAGGCCAGTGCCATTAGACTTAAAG
1 ATGATA-AGAATG-CCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
* * * * *
86052 ATGATAAGAATGCCAAATGTACTGATTTAAGGCCAGCGCCATTGGACTTAGAG
1 ATGATAAGAATGCC-AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
* * *
86105 ATGATAAGAATGCTAAATGTGCTAATTCAAGGCCAACAACATTGGACTTAAAG
1 ATGATAAGAATGC-CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
* * * * *
86158 ATGATAAAAAAAATGCCAATATGCTGATTCACGGCCAACGATATTGGTCTT-AAG
1 ATGAT---AAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
* * * * * *
86212 AATGGTGAAG-GTACCAATGTGCTGATTCAAGGCTAGCAACATTGGACTTAAAG
1 -ATGAT-AAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
* * * * * * **
86265 ATG--AAGAAAGTGCTAATATCCTGATTCAGGGCCAGCAACATTAAACTTTGAAA-
1 ATGATAAG-AA-TGCCAATGTGCTGATTCAAGGCCAACGACATTGGAC-TT-AAAG
* * * * * * *
86318 ATGATAAAAAAAATGCCAATATGCTAATTCATGGCCAATGATATTGGTCTTAAAG
1 ATGAT---AAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
* * * * *
86373 ATGATGAA-AGTACCAATGTACTGATTTAAGGCCAACGACATTAGACTTAAAG
1 ATGAT-AAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
* * * * * *
86425 ATG--AAGAAAGTGCTAATATACTGATTCAGGGCTAACGACATTAGACTT
1 ATGATAAG-AA-TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTT
86473 TGAAAAGAAA
Statistics
Matches: 673, Mismatches: 173, Indels: 90
0.72 0.18 0.10
Matches are distributed among these distances:
47 31 0.05
48 1 0.00
49 14 0.02
50 2 0.00
51 10 0.01
52 205 0.30
53 280 0.42
54 46 0.07
55 48 0.07
56 32 0.05
57 2 0.00
58 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.26
Consensus pattern (52 bp):
ATGATAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
Found at i:85990 original size:211 final size:210
Alignment explanation
Indices: 85530--86429 Score: 670
Period size: 211 Copynumber: 4.3 Consensus size: 210
85520 AGATTTGAAA
* * * ** * *
85530 ATGATAAAAGTGCCAATGTGCT-AGTTCAAGGCCAAAGACATCGGACTCAAAGAT-AGTAAAAAT
1 ATGATGAAGGTGCCAATGTGCTGA-TTCAAGGCCAATGACATTAGACTTAAAGATGA-AAAAAAT
*
85593 GCTAGATAT-T-CTGATTCAAGGCCAGCGCCATTGGACTTAAAGATGATAAGAATGCCAAA---T
64 G-TAGA-ATGTGCTAATTCAAGGCCAGCGCCATTGGACTTAAAGATGATAAGAATGCCAAATGTT
* * * * * *
85653 -ATTCAAAGCCAGTGACATTGGACTTAAAGATGATAAAAAAATGTCAATATGCTGGTTCACGGCT
127 GATTCAAGGCCAGAGACATTGGACTTAAAGATGATAAAAAAATGCCAATATGCTGATTCACGACC
* * *
85717 AGCGATATTGGTCTTAAAG
192 AACGATATTAGTCTCAAAG
* * * *
85736 ATGGTGATGGTTCCAATGTGTTGATTCAAGGCCAATGACATTAGACTTAAAGAT-AAAAAAAT-T
1 ATGATGAAGGTGCCAATGTGCTGATTCAAGGCCAATGACATTAGACTTAAAGATGAAAAAAATGT
* * * * *
85799 GATGGATGTGCTAATTCAAGGCCAACGCCATTGGACTTAGAGATGAGAAAAATGCCAAATGTGTT
66 -A-GAATGTGCTAATTCAAGGCCAGCGCCATTGGACTTAAAGATGATAAGAATGCCAAA--TGTT
* *
85864 GATTCAAGGCTAAAGACATTGGACTTAAAGATGATAAAAAAATGCCAA-ATGCTGATTCACGACC
127 GATTCAAGGCCAGAGACATTGGACTTAAAGATGATAAAAAAATGCCAATATGCTGATTCACGACC
85928 AACGATATTAGTCTCAAAG
192 AACGATATTAGTCTCAAAG
* * * * *
85947 ATGATGAAGGTGCCAATGTGCTGATTCAAGGCTAGTGACATTAGACTTAAGGATGAAGAGAATGT
1 ATGATGAAGGTGCCAATGTGCTGATTCAAGGCCAATGACATTAGACTTAAAGATGAAAAAAATGT
* * * *
86012 AGAATGTGTTGATTCAAGGCCAGTGCCATTAGACTTAAAGATGATAAGAATGCCAAATGTACTGA
66 AGAATGTGCTAATTCAAGGCCAGCGCCATTGGACTTAAAGATGATAAGAATGCCAAATGT--TGA
* * * * * * * * * *
86077 TTTAAGGCCAGCGCCATTGGACTTAGAGATGAT--AAGAATGCTAAATGTGCTAATTCAAGGCCA
129 TTCAAGGCCAGAGACATTGGACTTAAAGATGATAAAAAAATGC-CAATATGCTGATTCACGACCA
* * * * *
86140 ACAACATTGGACTTAAAG
193 ACGATATTAGTCTCAAAG
* ** * * * * * * ***
86158 ATGATAAAAAAAATGCCAATATGCTGATTCACGGCCAACGATATTGGTCTT-AAGAATG--GTGA
1 ATGAT---GAAGGTGCCAATGTGCTGATTCAAGGCCAATGACATTAGACTTAAAG-ATGAAAAAA
* * * * ** *
86220 AGGTACCAATGTGCTGATTCAAGGCTAGCAACATTGGACTTAAAGATG--AAGAAAGTGCTAATA
62 ATGTA-GAATGTGCTAATTCAAGGCCAGCGCCATTGGACTTAAAGATGATAAG-AA-TGCCAA-A
** * ** *
86283 TCCTGATTCAGGGCCAGCA-ACATTAAACTTTGAAA-ATGATAAAAAAAATGCCAATATGCTAAT
123 TGTTGATTCAAGGCCAG-AGACATTGGAC-TT-AAAGATGAT-AAAAAAATGCCAATATGCTGAT
* * * * *
86346 TCATGGCCAATGATATTGGTCTTAAAG
184 TCACGACCAACGATATTAGTCTCAAAG
* * * * *
86373 ATGATGAAAGTACCAATGTACTGATTTAAGGCCAACGACATTAGACTTAAAGATGAA
1 ATGATGAAGGTGCCAATGTGCTGATTCAAGGCCAATGACATTAGACTTAAAGATGAA
86430 GAAAGTGCTA
Statistics
Matches: 548, Mismatches: 112, Indels: 60
0.76 0.16 0.08
Matches are distributed among these distances:
203 1 0.00
204 3 0.01
205 8 0.01
206 87 0.16
207 1 0.00
209 10 0.02
210 2 0.00
211 188 0.34
212 112 0.20
213 53 0.10
214 39 0.07
215 37 0.07
216 7 0.01
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (210 bp):
ATGATGAAGGTGCCAATGTGCTGATTCAAGGCCAATGACATTAGACTTAAAGATGAAAAAAATGT
AGAATGTGCTAATTCAAGGCCAGCGCCATTGGACTTAAAGATGATAAGAATGCCAAATGTTGATT
CAAGGCCAGAGACATTGGACTTAAAGATGATAAAAAAATGCCAATATGCTGATTCACGACCAACG
ATATTAGTCTCAAAG
Found at i:86086 original size:264 final size:266
Alignment explanation
Indices: 85750--86271 Score: 739
Period size: 264 Copynumber: 2.0 Consensus size: 266
85740 TGATGGTTCC
*** *
85750 AATGTGTTGATTCAAGGCCAATGACATTAGACTTAAAGATAAAAAAATTGATGGATGTGCTAATT
1 AATGTGTTGATTCAAGGCCAATGACATTAGACTTAAAGATAAAAAAATTGACAAATGTACTAATT
* * *
85815 CAAGGCCAACGCCATTGGACTTAGAGATGAGAAAAATGCCAAATGTGTTGATTCAAGGCTAA-AG
66 CAAGGCCAACGCCATTGGACTTAGAGATGAGAAAAATGCCAAATGTGCTAATTCAAGGCCAACA-
85879 ACATTGGACTTAAAGATGAT-AAAAAAATGCCAA-ATGCTGATTCACGACCAACGATATTAGTCT
130 ACATTGGACTTAAAGATGATAAAAAAAATGCCAATATGCTGATTCACGACCAACGATATTAGTCT
* ** *
85942 CAAAG-ATGATGAAGGTGCCAATGTGCTGATTCAAGGCTAGTGACATTAGACTTAAGGATGAAGA
195 -AAAGAATGATGAAGGTACCAATGTGCTGATTCAAGGCTAGCAACATTAGACTTAAAGATGAAGA
86006 GAATGTAG
259 GAATGTAG
* * * * * *
86014 AATGTGTTGATTCAAGGCCAGTGCCATTAGACTTAAAGATGATAAGAA-TGCCAAATGTACTGAT
1 AATGTGTTGATTCAAGGCCAATGACATTAGACTTAAAGAT-AAAAAAATTGACAAATGTACTAAT
* * * * *
86078 TTAAGGCCAGCGCCATTGGACTTAGAGATGATAAGAATGCTAAATGTGCTAATTCAAGGCCAACA
65 TCAAGGCCAACGCCATTGGACTTAGAGATGAGAAAAATGCCAAATGTGCTAATTCAAGGCCAACA
* *
86143 ACATTGGACTTAAAGATGATAAAAAAAATGCCAATATGCTGATTCACGGCCAACGATATTGGTCT
130 ACATTGGACTTAAAGATGATAAAAAAAATGCCAATATGCTGATTCACGACCAACGATATTAGTCT
* * *
86208 TAAGAATGGTGAAGGTACCAATGTGCTGATTCAAGGCTAGCAACATTGGACTTAAAGATGAAGA
195 AAAGAATGATGAAGGTACCAATGTGCTGATTCAAGGCTAGCAACATTAGACTTAAAGATGAAGA
86272 AAGTGCTAAT
Statistics
Matches: 226, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
264 123 0.54
265 22 0.10
266 81 0.36
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (266 bp):
AATGTGTTGATTCAAGGCCAATGACATTAGACTTAAAGATAAAAAAATTGACAAATGTACTAATT
CAAGGCCAACGCCATTGGACTTAGAGATGAGAAAAATGCCAAATGTGCTAATTCAAGGCCAACAA
CATTGGACTTAAAGATGATAAAAAAAATGCCAATATGCTGATTCACGACCAACGATATTAGTCTA
AAGAATGATGAAGGTACCAATGTGCTGATTCAAGGCTAGCAACATTAGACTTAAAGATGAAGAGA
ATGTAG
Found at i:86324 original size:160 final size:160
Alignment explanation
Indices: 86045--86478 Score: 538
Period size: 160 Copynumber: 2.7 Consensus size: 160
86035 TGCCATTAGA
* * * *
86045 CTTAAAGATGAT-AAGAATGCCAAATGTACTGATTTAAGGCCAGCGCCATTGGACTTAGAGATGA
1 CTTAAAGATGATGAA-AGTACC-AATGTACTGATTTAAGGCCAGCGACATTGGACTTAAAGATGA
* * * * *
86109 TA-AGAA-TGCTAAATGTGCTAATTCAAGGCCAACAACATTGGAC-TT-AAAGATGATAAAAAAA
64 -AGA-AAGTGCT-AATATACTGATTCAGGGCCAACAACATTAGACTTTGAAA-ATGATAAAAAAA
*
86170 ATGCCAATATGCTGATTCACGGCCAACGATATTGGT
125 ATGCCAATATGCTAATTCACGGCCAACGATATTGGT
* * * * * *
86206 CTT-AAGAATGGTGAAGGTACCAATGTGCTGATTCAAGGCTAGCAACATTGGACTTAAAGATGAA
1 CTTAAAG-ATGATGAAAGTACCAATGTACTGATTTAAGGCCAGCGACATTGGACTTAAAGATGAA
* * *
86270 GAAAGTGCTAATATCCTGATTCAGGGCCAGCAACATTAAACTTTGAAAATGATAAAAAAAATGCC
65 GAAAGTGCTAATATACTGATTCAGGGCCAACAACATTAGACTTTGAAAATGATAAAAAAAATGCC
* *
86335 AATATGCTAATTCATGGCCAATGATATTGGT
130 AATATGCTAATTCACGGCCAACGATATTGGT
* *
86366 CTTAAAGATGATGAAAGTACCAATGTACTGATTTAAGGCCAACGACATTAGACTTAAAGATGAAG
1 CTTAAAGATGATGAAAGTACCAATGTACTGATTTAAGGCCAGCGACATTGGACTTAAAGATGAAG
* *
86431 AAAGTGCTAATATACTGATTCAGGGCTAACGACATTAGACTTTGAAAA
66 AAAGTGCTAATATACTGATTCAGGGCCAACAACATTAGACTTTGAAAA
86479 GAAAGATTGT
Statistics
Matches: 233, Mismatches: 33, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
159 28 0.12
160 187 0.80
161 16 0.07
162 2 0.01
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (160 bp):
CTTAAAGATGATGAAAGTACCAATGTACTGATTTAAGGCCAGCGACATTGGACTTAAAGATGAAG
AAAGTGCTAATATACTGATTCAGGGCCAACAACATTAGACTTTGAAAATGATAAAAAAAATGCCA
ATATGCTAATTCACGGCCAACGATATTGGT
Found at i:91564 original size:20 final size:20
Alignment explanation
Indices: 91539--91579 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
91529 AAGAAGATGT
91539 GACCACGACAATTTTGCTCG
1 GACCACGACAATTTTGCTCG
91559 GACCACGACAATTTTGCTCG
1 GACCACGACAATTTTGCTCG
91579 G
1 G
91580 GCAAACTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (20 bp):
GACCACGACAATTTTGCTCG
Found at i:91815 original size:10 final size:10
Alignment explanation
Indices: 91800--91852 Score: 79
Period size: 10 Copynumber: 5.2 Consensus size: 10
91790 CCTTCATACC
91800 CAAAAAAAAA
1 CAAAAAAAAA
*
91810 CAAAAAAAAC
1 CAAAAAAAAA
91820 CAAAAAAAAA
1 CAAAAAAAAA
91830 CAACAAAAAAA
1 CAA-AAAAAAA
*
91841 CAACAAAAAA
1 CAAAAAAAAA
91851 CA
1 CA
91853 GAAAGGGGTC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
10 29 0.74
11 10 0.26
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:91817 original size:11 final size:11
Alignment explanation
Indices: 91801--91850 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
91791 CTTCATACCC
91801 AAAAAAAAAC-
1 AAAAAAAAACA
*
91811 -AAAAAAAACC
1 AAAAAAAAACA
91821 AAAAAAAAACA
1 AAAAAAAAACA
*
91832 ACAAAAAAACA
1 AAAAAAAAACA
91843 ACAAAAAA
1 A-AAAAAA
91851 CAGAAAGGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 9 0.26
11 20 0.59
12 5 0.15
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:91824 original size:20 final size:21
Alignment explanation
Indices: 91799--91852 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
91789 TCCTTCATAC
91799 CCAAAAAAAAACAA-AAAAAA
1 CCAAAAAAAAACAACAAAAAA
91819 CCAAAAAAAAACAACAAAAAA
1 CCAAAAAAAAACAACAAAAAA
* *
91840 ACAACAAAAAACA
1 CCAAAAAAAAACA
91853 GAAAGGGGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (21 bp):
CCAAAAAAAAACAACAAAAAA
Found at i:91827 original size:23 final size:24
Alignment explanation
Indices: 91801--91850 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
91791 CTTCATACCC
*
91801 AAAAAAAAACAAAAAAA-ACCAAA
1 AAAAAAAAACAAAAAAACAACAAA
*
91824 AAAAAACAACAAAAAAACAACAAA
1 AAAAAAAAACAAAAAAACAACAAA
91848 AAA
1 AAA
91851 CAGAAAGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (24 bp):
AAAAAAAAACAAAAAAACAACAAA
Found at i:93088 original size:28 final size:28
Alignment explanation
Indices: 93057--93916 Score: 958
Period size: 28 Copynumber: 30.1 Consensus size: 28
93047 ACTTCATCTC
* *
93057 TTCAAAGCCCGCAACTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
93085 TTCAAAGCCCATAAGTCAGTGGCA-CTCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
*
93113 TTCAAAGCCCACAAGTAAGTGGCA-CTCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
* * *
93141 TTCAAAACCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
*
93170 TTCAAAGCCCACAAGTAAGTGGCA-CTCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
* * *
93198 TTCAAAACCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* *
93227 TTCAAAGCCCACAAGTTAGTAGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
93255 TTCAAGGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
93283 TTCAAAGCCAACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
*
93312 TTCAAAGTCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
93340 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
93368 TTCAAAGCCTACGAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
93396 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
93424 TTCAAAGCCTACGAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-A-TCCT
* **
93454 TTCAAAGCCCACGAGTCAGTGGCAACTATT
1 TTCAAAGCCCACAAGTCAGTGGC-A-TCCT
*
93484 TTCAAAGCCCACGAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
93512 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
93540 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
93568 TTCAAAGCCCACCAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
93596 TTCAAAGCCCACCAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
93624 TTCAAAACCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
**
93653 TTCAAAGCCCACAAGTCAGTGGCACTATT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* *
93682 TTCAAAGCCCACAAGTCAGTGACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
93710 TTTAAAGCCCACAAGTCGGTGGCA-CTGT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
* * *
93738 TTCAAAGCTCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* **
93766 TTCAAAGCCCACAAGTCAATGGCACTATT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
**
93795 TTCAAAGCCCACAAGTCAGTGGCACTATT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* *
93824 TTCAAAGCCCACAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGG-CA-TCCT
* * *
93854 TTCAAAGCCTATACGAGTCAGTGGCAACTCTT
1 TTCAAAGCC--CACAAGTCAGTGGC-A-TCCT
*
93886 TTCAAAGCCCACACAAGTTAGTGGCA-CCT
1 TTCAAAG-CC-CACAAGTCAGTGGCATCCT
93915 TT
1 TT
93917 TTTAAAAAAA
Statistics
Matches: 732, Mismatches: 80, Indels: 39
0.86 0.09 0.05
Matches are distributed among these distances:
27 3 0.00
28 443 0.61
29 178 0.24
30 70 0.10
31 1 0.00
32 34 0.05
33 3 0.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:93342 original size:142 final size:141
Alignment explanation
Indices: 93057--93916 Score: 1052
Period size: 142 Copynumber: 6.0 Consensus size: 141
93047 ACTTCATCTC
* * *
93057 TTCAAAGCCCGCAACTCAGTGGCA-TCCTTTCAAAGCCCATAAGTCAGTGGCA-CTCTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAG
* * *
93120 CCCACAAGTAAGTGGCA-CTCTTTCAAAACCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAA
65 CCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAA
*
93184 GTAAGTGGCACTCT
129 GTCAGTGGCAC-CT
* * * * * *
93198 TTCAAAACCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTAGCATCCTTTCAAGGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
93263 CCACAAGTCAGTGGCATCCTTTCAAAGCCAACAAGTTAGTGGCACTCTTTTCAAAGTCCACAAGT
66 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGT
93328 CAGTGGCATCCT
131 CAGTGGCA-CCT
* * *
93340 TTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCTACGAGTCAGTGGCATCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
93404 CCACAAGTCAGTGGCATCCTTTCAAAGCCTACGAGTCAGTGGCAACTCTTTTCAAAGCCCACGAG
66 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACAAG
*
93469 TCAGTGGCAACTATT
130 TCAGTGGC-AC--CT
*
93484 TTCAAAGCCCACGAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
93548 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACCAGTCAGTGGCAC-CCTTTCAAAGCCCACCAGT
66 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGT
93612 CAGTGGCACCCT
131 CAGTGGCA-CCT
* * **
93624 TTCAAAACCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTATTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAG
* * * * * *
93689 CCCACAAGTCAGTGACACCCTTTTAAAGCCCACAAGTCGGTGGCACT-GTTTCAAAGCTCACAAG
65 CCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAG
*
93753 TCAATGGCACCCT
130 TCAGTGGCA-CCT
* ** **
93766 TTCAAAGCCCACAAGTCAATGGCACTATTTTCAAAGCCCACAAGTCAGTGGCACTATTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAG
* * * *
93831 CCCACAAG-CTAGTGGTAACTCTTTTCAAAGCCTATACGAGTCAGTGGCAACTCTTTTCAAAGCC
65 CCCACAAGTC-AGTGG-CA-TCCTTTCAAAGCC--CACAAGTCAGTGGC-ACTCTTTTCAAAG-C
*
93895 CACACAAGTTAGTGGCACCT
123 C-CACAAGTCAGTGGCACCT
93915 TT
1 TT
93917 TTTAAAAAAA
Statistics
Matches: 632, Mismatches: 65, Indels: 36
0.86 0.09 0.05
Matches are distributed among these distances:
140 23 0.04
141 122 0.19
142 328 0.52
143 7 0.01
144 111 0.18
146 11 0.02
147 3 0.00
148 8 0.01
149 6 0.01
150 13 0.02
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (141 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGT
CAGTGGCACCT
Found at i:95530 original size:24 final size:24
Alignment explanation
Indices: 95472--95530 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
95462 ACCTAAAATG
*
95472 AAATGATATAAAAATTATTATTAA
1 AAATGATATAAAAATTAGTATTAA
*
95496 AAATGGT-TAAAAATATAGTA-TAA
1 AAATGATATAAAAAT-TAGTATTAA
*
95519 AAATAATATAAA
1 AAATGATATAAA
95531 TACGATACAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 15 0.52
24 14 0.48
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (24 bp):
AAATGATATAAAAATTAGTATTAA
Found at i:95585 original size:32 final size:33
Alignment explanation
Indices: 95540--95601 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
95530 ATACGATACA
95540 AAATATATGAATATGT-TAAAATTTATATAATAT
1 AAATATATGAATATGTCT-AAATTTATATAATAT
*
95573 AAAT-TATTAATATGTCTAAATTTATATAA
1 AAATATATGAATATGTCTAAATTTATATAA
95602 AACCTTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 22 0.81
33 5 0.19
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.44
Consensus pattern (33 bp):
AAATATATGAATATGTCTAAATTTATATAATAT
Found at i:96757 original size:352 final size:349
Alignment explanation
Indices: 96199--96840 Score: 853
Period size: 352 Copynumber: 1.8 Consensus size: 349
96189 CACATTTTAT
* *
96199 CATTTCAAAAGATACTAAAATATTAACCAAATTTTACATTAATATTTATACACTTTTATAATTAA
1 CATTTCAAAAGATACTAAAAAATTAAACAAATTTTACATTAATATTTATACACTTTTATAATTAA
* * ** * *
96264 TTTTAAATGAAAAATATTTTGTTAATAAATAGTATAATTTATAAAACTTTATCCAAAGCTTAGTC
66 ATTTAAATAAAAAATATTTTACTAATAAATAGGAGAATTTATAAAACTTTATCCAAAGCTTAGTC
* * * * *
96329 TCATTACACAGATAACTTGACCATGAAAATTTATACCTTGGGCAAAGGAAATTTGTGTATTGTGT
131 TCACTACACAGATAACTTGACCATGAAAATTTATACCCTAGGCAAAGGAAATTTGTGAATTATGT
* * *
96394 CATATTTATATACTTTGCTATGTCATAATCGTGTTTAAGATAATTTATATTTATATAGATTTTGA
196 AATATTTATATACTTTGCTATGTCATAATAGTGGTTAAGATAATTTATATTTATATAGATTTTGA
* *
96459 TATGTTAATAATTCGTATTATATAAATTTTAAACTCTTTACCCAAATCGAGTTTTAGCTAGGTCG
261 TACGTTAATAATTCATATTATATAAATTTTAAACTCTTTACCCAAATCGAGTTTTAGCTAGGTCG
96524 AAACTTGTCCGATAGCTACTTCAC
326 AAACTTGTCCGATAGCTACTTCAC
* * * *
96548 CATTTTAAAAGATATTAAAAAATTAAACAAATTTTATATTAATATTTATACAC-TTTATATTTAA
1 CATTTCAAAAGATACTAAAAAATTAAACAAATTTTACATTAATATTTATACACTTTTATAATTAA
* **
96612 ATTTAAATTAAAAAAGATATTATTACTAA-AGAATAGGAGAATTTATAAAATTTTATTTAAAGCT
66 ATTTAAA-T-AAAAA-ATATT-TTACTAATA-AATAGGAGAATTTATAAAACTTTATCCAAAGCT
* * * *
96676 TGGTTTGACTA-AGCAGATAA-TTCGA-CATGAAAATTTATACCCTAGGCAAAGGTAATTTGTGA
126 TAGTCTCACTACA-CAGATAACTT-GACCATGAAAATTTATACCCTAGGCAAAGGAAATTTGTGA
* * * *
96738 ATTCATGTAATATTTATATATTTTGTTGTGTCATAATAGTGGTTAAGATATTTTATATTTATATA
189 ATT-ATGTAATATTTATATACTTTGCTATGTCATAATAGTGGTTAAGATAATTTATATTTATATA
* * *
96803 GGTTTTGATACGTTAATAGTTTATATTATATAAATTTT
253 GATTTTGATACGTTAATAATTCATATTATATAAATTTT
96841 GAGATATGTA
Statistics
Matches: 249, Mismatches: 36, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
348 16 0.06
349 49 0.20
350 4 0.02
351 45 0.18
352 135 0.54
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.41
Consensus pattern (349 bp):
CATTTCAAAAGATACTAAAAAATTAAACAAATTTTACATTAATATTTATACACTTTTATAATTAA
ATTTAAATAAAAAATATTTTACTAATAAATAGGAGAATTTATAAAACTTTATCCAAAGCTTAGTC
TCACTACACAGATAACTTGACCATGAAAATTTATACCCTAGGCAAAGGAAATTTGTGAATTATGT
AATATTTATATACTTTGCTATGTCATAATAGTGGTTAAGATAATTTATATTTATATAGATTTTGA
TACGTTAATAATTCATATTATATAAATTTTAAACTCTTTACCCAAATCGAGTTTTAGCTAGGTCG
AAACTTGTCCGATAGCTACTTCAC
Found at i:97370 original size:18 final size:18
Alignment explanation
Indices: 97321--97370 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
97311 TTAATTTTAT
97321 ATTTTTATATAT-TAAGTA
1 ATTTTTATATATATAAG-A
97339 ATTTTT-TATCATATACA-A
1 ATTTTTATAT-ATATA-AGA
97357 ATTTTTATATATAT
1 ATTTTTATATATAT
97371 TATAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 3 0.11
18 19 0.68
19 5 0.18
20 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTTTTATATATATAAGA
Found at i:97432 original size:19 final size:19
Alignment explanation
Indices: 97408--97450 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
97398 TAAGTTATTT
97408 AAATTT-TAAAATATAATAA
1 AAATTTATAAAAT-TAATAA
* *
97427 AAATTTATTAAATTATTAA
1 AAATTTATAAAATTAATAA
97446 AAATT
1 AAATT
97451 AAATTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATTTATAAAATTAATAA
Found at i:97453 original size:15 final size:15
Alignment explanation
Indices: 97433--97464 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
97423 ATAAAAATTT
97433 ATTAAATTATTAAAA
1 ATTAAATTATTAAAA
*
97448 ATTAAATTTTTAAAA
1 ATTAAATTATTAAAA
97463 AT
1 AT
97465 AATGTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTAAATTATTAAAA
Found at i:100853 original size:2 final size:2
Alignment explanation
Indices: 100846--100935 Score: 68
Period size: 2 Copynumber: 47.5 Consensus size: 2
100836 TGATAATGCT
* *
100846 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A CA T- TA TA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
100886 AA T- TGA TA -A TGC T- TA T- TA -A TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
100925 TA TA TT TA TA T
1 TA TA TA TA TA T
100936 GCTCACACAG
Statistics
Matches: 72, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
1 7 0.10
2 63 0.88
3 2 0.03
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:100908 original size:53 final size:54
Alignment explanation
Indices: 100821--100929 Score: 184
Period size: 55 Copynumber: 2.0 Consensus size: 54
100811 TAGCTATGGG
*
100821 AACATTTTAGAAATTTGATAATGCTTATATATATATATATATATATATATATAT
1 AACATTATAGAAATTTGATAATGCTTATATATATATATATATATATATATATAT
100875 AACATTATAGAAA-TTGATAATGCTTATTAATATATATATATATATATATATATAT
1 AACATTATAGAAATTTGATAATGCTTA-T-ATATATATATATATATATATATATAT
100930 TTATATGCTC
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
53 13 0.25
54 13 0.25
55 26 0.50
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (54 bp):
AACATTATAGAAATTTGATAATGCTTATATATATATATATATATATATATATAT
Found at i:100949 original size:2 final size:2
Alignment explanation
Indices: 100944--100983 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
100934 ATGCTCACAC
100944 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
100984 GGTTCAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:106451 original size:2 final size:2
Alignment explanation
Indices: 106438--106469 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
106428 TAATTGTAGC
*
106438 AT AT AG 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
106470 TTGTTGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:109589 original size:31 final size:30
Alignment explanation
Indices: 109554--109618 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
109544 TTAACGTTCG
*
109554 GGTTAATCGGCTTTGAGTCATTTTAGATTTA
1 GGTTAATCGGCTTT-AATCATTTTAGATTTA
* * * *
109585 GGTTAATTGGGTTTAATCTTTTTAGGTTTA
1 GGTTAATCGGCTTTAATCATTTTAGATTTA
109615 GGTT
1 GGTT
109619 TAAGTCAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 17 0.59
31 12 0.41
ACGTcount: A:0.20, C:0.06, G:0.25, T:0.49
Consensus pattern (30 bp):
GGTTAATCGGCTTTAATCATTTTAGATTTA
Found at i:110901 original size:2 final size:2
Alignment explanation
Indices: 110894--110926 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
110884 TATTGGACTT
*
110894 TA TA TA TA TA TA TA TA TA TG TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
110927 AAACATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:114080 original size:13 final size:13
Alignment explanation
Indices: 114062--114087 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
114052 CAATTTTTTG
114062 TGTATCGATACAT
1 TGTATCGATACAT
114075 TGTATCGATACAT
1 TGTATCGATACAT
114088 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:114773 original size:20 final size:19
Alignment explanation
Indices: 114740--114777 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
114730 ATAATTTAAA
*
114740 ATGAATGTATTGATACATT
1 ATGAATGTACTGATACATT
114759 ATGAATTGTACTGATACAT
1 ATGAA-TGTACTGATACAT
114778 AGCAACGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (19 bp):
ATGAATGTACTGATACATT
Found at i:116324 original size:3 final size:3
Alignment explanation
Indices: 116295--116349 Score: 65
Period size: 3 Copynumber: 18.3 Consensus size: 3
116285 AACCATCAAA
* * * * *
116295 GAT GAT GAA GAT GGT GGT GGT GGT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
116343 GAT GAT G
1 GAT GAT G
116350 TTGACTTGGA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.27, C:0.00, G:0.42, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:123261 original size:19 final size:20
Alignment explanation
Indices: 123232--123287 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
123222 GTATCGATAC
**
123232 ATTGT-TCGATACATG-TTA
1 ATTGTATCGATACATGAACA
123250 ATTGTATCGATACATGAACA
1 ATTGTATCGATACATGAACA
*
123270 AATGTATCGATACATGAA
1 ATTGTATCGATACATGAA
123288 ACTGGCAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
18 5 0.15
19 10 0.30
20 18 0.55
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (20 bp):
ATTGTATCGATACATGAACA
Found at i:126075 original size:16 final size:16
Alignment explanation
Indices: 126033--126083 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
126023 CGGATTAATT
126033 GTTTGGGTCATTTTAG
1 GTTTGGGTCATTTTAG
* **
126049 GTTCGATTCATTTTAG
1 GTTTGGGTCATTTTAG
*
126065 GTTTGGGTCATTTTGG
1 GTTTGGGTCATTTTAG
126081 GTT
1 GTT
126084 CAGATCTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.12, C:0.08, G:0.29, T:0.51
Consensus pattern (16 bp):
GTTTGGGTCATTTTAG
Found at i:126094 original size:16 final size:15
Alignment explanation
Indices: 126075--126132 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 15
126065 GTTTGGGTCA
126075 TTTTGGGTTCAGATCT
1 TTTTGGGTTCAGAT-T
* *
126091 TTTTGGGTTTAGGTT
1 TTTTGGGTTCAGATT
*
126106 ATTTCGGGTTCAGATTAT
1 -TTTTGGGTTCAGA-T-T
126124 TTTTGGGTT
1 TTTTGGGTT
126133 TGAATTGGTC
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
15 1 0.03
16 22 0.67
17 9 0.27
18 1 0.03
ACGTcount: A:0.12, C:0.07, G:0.28, T:0.53
Consensus pattern (15 bp):
TTTTGGGTTCAGATT
Found at i:126100 original size:32 final size:33
Alignment explanation
Indices: 126033--126134 Score: 127
Period size: 32 Copynumber: 3.2 Consensus size: 33
126023 CGGATTAATT
* * *
126033 GTTTGGGTCATTTTAGGTTC-GATTCATTTTAG
1 GTTTGGGTCATTTTGGGTTCAGATTCTTTTTGG
126065 GTTTGGGTCATTTTGGGTTCAGA-TCTTTTTGG
1 GTTTGGGTCATTTTGGGTTCAGATTCTTTTTGG
* * * *
126097 GTTTAGGTTATTTCGGGTTCAGATTATTTTTGG
1 GTTTGGGTCATTTTGGGTTCAGATTCTTTTTGG
126130 GTTTG
1 GTTTG
126135 AATTGGTCGG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
32 46 0.77
33 14 0.23
ACGTcount: A:0.13, C:0.08, G:0.28, T:0.51
Consensus pattern (33 bp):
GTTTGGGTCATTTTGGGTTCAGATTCTTTTTGG
Found at i:130550 original size:84 final size:84
Alignment explanation
Indices: 130388--130550 Score: 186
Period size: 84 Copynumber: 1.9 Consensus size: 84
130378 TCTTGAGACG
* *** *
130388 TGTCTATTTTAGACATTGTCTAGTTAAGATAACCTTATTTGTATTATCTTTTTAAGACAAGCTTA
1 TGTCTATTTTAGACATTATCTAGTTAAGATAACCTTATCACTATTATCTTATTAAGACAAGCTTA
** *
130453 TCCATTTTGTCTTAACACA
66 TCCACATTCTCTTAACACA
* * * *
130472 TGTCTACTTTT-GACATTATCTTGTTAAGATAACCTTATCCACT-TTGTCTTATTAAGACGAGTT
1 TGTCTA-TTTTAGACATTATCTAGTTAAGATAACCTTAT-CACTATTATCTTATTAAGACAAGCT
130535 TATCCACATTCTCTTA
64 TATCCACATTCTCTTA
130551 TTAAAACATC
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
84 60 0.92
85 5 0.08
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45
Consensus pattern (84 bp):
TGTCTATTTTAGACATTATCTAGTTAAGATAACCTTATCACTATTATCTTATTAAGACAAGCTTA
TCCACATTCTCTTAACACA
Found at i:130565 original size:28 final size:30
Alignment explanation
Indices: 130504--130565 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 30
130494 GTTAAGATAA
* * *
130504 CCTTATCCACTTTGTCTTATTAAGACGAGT
1 CCTTATCCACATTCTCTTATTAAAACGAGT
130534 --TTATCCACATTCTCTTATTAAAAC-A-T
1 CCTTATCCACATTCTCTTATTAAAACGAGT
130560 CCTTAT
1 CCTTAT
130566 TCGGATTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.04
27 1 0.04
28 25 0.93
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.42
Consensus pattern (30 bp):
CCTTATCCACATTCTCTTATTAAAACGAGT
Found at i:136292 original size:19 final size:19
Alignment explanation
Indices: 136268--136328 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
136258 CGATACATTA
136268 TATCGATACAACACTTATG
1 TATCGATACAACACTTATG
136287 TATCGAT---ACA--T-TG
1 TATCGATACAACACTTATG
*
136300 TATCGATACATCACTTATG
1 TATCGATACAACACTTATG
136319 TATCGATACA
1 TATCGATACA
136329 GTTATTGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
13 9 0.26
14 1 0.03
16 5 0.14
18 1 0.03
19 19 0.54
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (19 bp):
TATCGATACAACACTTATG
Found at i:136304 original size:32 final size:32
Alignment explanation
Indices: 136253--136333 Score: 126
Period size: 32 Copynumber: 2.5 Consensus size: 32
136243 GCAGTAGCTT
*
136253 TGTAGCGATACATTATATCGATACAACACTTA
1 TGTATCGATACATTATATCGATACAACACTTA
* *
136285 TGTATCGATACATTGTATCGATACATCACTTA
1 TGTATCGATACATTATATCGATACAACACTTA
136317 TGTATCGATACAGTTAT
1 TGTATCGATACA-TTAT
136334 TGTTTGTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
32 41 0.93
33 3 0.07
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATTATATCGATACAACACTTA
Found at i:136356 original size:19 final size:20
Alignment explanation
Indices: 136317--136356 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
136307 ACATCACTTA
*
136317 TGTATCGATACAGTTATTGTT
1 TGTATCGATACAG-AATTGTT
136338 TGTATCGATACA-AATTGTT
1 TGTATCGATACAGAATTGTT
136357 GAAATTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (20 bp):
TGTATCGATACAGAATTGTT
Found at i:138781 original size:24 final size:24
Alignment explanation
Indices: 138744--138789 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
138734 CTTAGCAAGT
138744 GAAAAAAAAGAGAG-AAAGAAAAA
1 GAAAAAAAAGAGAGAAAAGAAAAA
*
138767 GAAAGAAAAATAGAGAAAAGAAA
1 GAAA-AAAAAGAGAGAAAAGAAA
138790 GGAAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 9 0.45
25 7 0.35
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (24 bp):
GAAAAAAAAGAGAGAAAAGAAAAA
Found at i:139654 original size:20 final size:21
Alignment explanation
Indices: 139610--139656 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
139600 TTCTACAATT
*
139610 TGTATCGATACAATTAGTGAA
1 TGTATCGATACAATAAGTGAA
*
139631 TGTATCGATAC-ATAAGTGAG
1 TGTATCGATACAATAAGTGAA
139651 TGTATC
1 TGTATC
139657 AATAAATGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (21 bp):
TGTATCGATACAATAAGTGAA
Found at i:148200 original size:13 final size:13
Alignment explanation
Indices: 148182--148241 Score: 51
Period size: 13 Copynumber: 5.0 Consensus size: 13
148172 CAAAGATCAG
148182 TGTATCGATACAA
1 TGTATCGATACAA
*
148195 TGTATCGATGC-A
1 TGTATCGATACAA
148207 T-T-T-GAGT--AA
1 TGTATCGA-TACAA
*
148216 TGTATCGATATAA
1 TGTATCGATACAA
148229 TGTATCGATACAA
1 TGTATCGATACAA
148242 CATTTATGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
9 4 0.11
10 3 0.08
11 3 0.08
12 4 0.11
13 24 0.63
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:149009 original size:53 final size:50
Alignment explanation
Indices: 148965--149207 Score: 264
Period size: 49 Copynumber: 4.9 Consensus size: 50
148955 ATGAGAAGAA
* *
148965 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATT-GGTCTTAAAGAT-A-GAAGG
* * * * *
149018 CGCCAATATGCTGATTCAAGGCCAGCGATACTGATCTTTAAAGAT-GAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGTC-TTAAAGATAGAAGG
* * *
149068 TGCCAATGTGCTGATTCCAA-GCCAACGACATTGGACTTAAAGAT-GAAGA
1 TGCCAATATGCTGATT-CAAGGCCAACGACATTGGTCTTAAAGATAGAAGG
*
149117 TGCC-A-ATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATA-AAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAGAAGG
* * *
149164 TGCCAATATGCTAATTCAAGGCCAACGATATTGGACTTAGAAGA
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTA-AAGA
149208 AGATGCCACC
Statistics
Matches: 160, Mismatches: 23, Indels: 17
0.80 0.12 0.09
Matches are distributed among these distances:
46 3 0.02
47 37 0.23
48 2 0.01
49 44 0.28
50 34 0.21
51 3 0.02
52 2 0.01
53 35 0.22
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (50 bp):
TGCCAATATGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAGAAGG
Found at i:149145 original size:47 final size:47
Alignment explanation
Indices: 148959--149215 Score: 207
Period size: 47 Copynumber: 5.2 Consensus size: 47
148949 TCGAAGATGA
**
148959 GAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGAT
1 GAAG-ATGCCAA--TGCTGATTCAAGGCCAACGACATT-GGACTTAAAGAT
** * * *
149010 GACGAAGGCGCCAATATGCTGATTCAAGGCCAGCGATACT-GATCTTTAAAGAT
1 ---GAAGATGCC-A-ATGCTGATTCAAGGCCAACGACATTGGA-C-TTAAAGAT
*
149063 GAAGGTGCCAATGTGCTGATTCCAA-GCCAACGACATTGGACTTAAAGAT
1 GAAGATGCCAA--TGCTGATT-CAAGGCCAACGACATTGGACTTAAAGAT
* *
149112 GAAGATGCCAATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT
1 GAAGATGCCAATGCTGATTCAAGGCCAACGACATTGGACTTAAAGAT
* * * * *
149159 AAAGGTGCCAATATGCTAATTCAAGGCCAACGATATTGGACTT--AGAA
1 GAAGATGCC-A-ATGCTGATTCAAGGCCAACGACATTGGACTTAAAGAT
149206 GAAGATGCCA
1 GAAGATGCCA
149216 CCAACTTGTG
Statistics
Matches: 169, Mismatches: 23, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
46 4 0.02
47 47 0.28
48 2 0.01
49 46 0.27
50 26 0.15
51 6 0.04
53 32 0.19
54 5 0.03
55 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (47 bp):
GAAGATGCCAATGCTGATTCAAGGCCAACGACATTGGACTTAAAGAT
Found at i:149305 original size:34 final size:34
Alignment explanation
Indices: 149238--149374 Score: 124
Period size: 34 Copynumber: 4.1 Consensus size: 34
149228 GATTGAAGGT
** *
149238 TGCCACTGACTTGTGGGCTT---TTG-AAAAGGG
1 TGCCACTGACTTGTGGGCTTAAAAAGAAAAAGAG
*
149268 TGCCACTGACTTGTGGGCTTAAAAGGAAAAAGAG
1 TGCCACTGACTTGTGGGCTTAAAAAGAAAAAGAG
* * *
149302 TGCCACAGAGTTGTGGGCTTACAAAAGAAAAGGAG
1 TGCCACTGACTTGTGGGCTTA-AAAAGAAAAAGAG
* * *
149337 TGCCACGGAATTGTGGACTTAAAAA-AGAAAAG-G
1 TGCCACTGACTTGTGGGCTTAAAAAGA-AAAAGAG
149370 TGCCA
1 TGCCA
149375 ATATGCTGAC
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
30 20 0.22
33 8 0.09
34 33 0.37
35 29 0.32
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (34 bp):
TGCCACTGACTTGTGGGCTTAAAAAGAAAAAGAG
Found at i:149339 original size:35 final size:34
Alignment explanation
Indices: 149260--149369 Score: 132
Period size: 35 Copynumber: 3.2 Consensus size: 34
149250 GTGGGCTTTT
* * *
149260 GAAAAGG-GTGCCACTGACTTGTGGGCTTAAAAG
1 GAAAAGGAGTGCCACAGAATTGTGGGCTTAAAAA
* *
149293 GAAAAAGAGTGCCACAGAGTTGTGGGCTTACAAAA
1 GAAAAGGAGTGCCACAGAATTGTGGGCTTA-AAAA
* *
149328 GAAAAGGAGTGCCACGGAATTGTGGACTTAAAAAA
1 GAAAAGGAGTGCCACAGAATTGTGGGCTT-AAAAA
149363 GAAAAGG
1 GAAAAGG
149370 TGCCAATATG
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
33 6 0.09
34 20 0.30
35 39 0.59
36 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.31, T:0.17
Consensus pattern (34 bp):
GAAAAGGAGTGCCACAGAATTGTGGGCTTAAAAA
Found at i:149492 original size:33 final size:33
Alignment explanation
Indices: 149408--149497 Score: 103
Period size: 32 Copynumber: 2.8 Consensus size: 33
149398 TATTGGGCTT
* *
149408 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
1 AAAGATGCCACGGAGTTGTGGGCTTAAAAAGAA
* * *
149441 AAGGCA--CCACAGAGTTGTGGGCTTAAAAGGAA
1 AAAG-ATGCCACGGAGTTGTGGGCTTAAAAAGAA
*
149473 AAAGATGCCACGGACTTGTGGGCTT
1 AAAGATGCCACGGAGTTGTGGGCTT
149498 TTGAAGGTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
31 1 0.02
32 26 0.57
33 19 0.41
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.19
Consensus pattern (33 bp):
AAAGATGCCACGGAGTTGTGGGCTTAAAAAGAA
Found at i:149532 original size:57 final size:57
Alignment explanation
Indices: 149469--149679 Score: 316
Period size: 57 Copynumber: 3.7 Consensus size: 57
149459 GGGCTTAAAA
* * *
149469 GGAAAAAGATGCCACGGACTTGTGGGCTTTTGAAGGTTGCCACTGATTTGTGGACTTT
1 GGAAAAAGGTGCCACTGACTTGTGGGC-TTTGAAGGTTGCCACTGATTTGTGGGCTTT
149527 -GAAAAATGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGATTTGTGGGCTTT
1 GGAAAAA-GGTGCCACTGACTTGTGGGC-TTTGAAGGTTGCCACTGATTTGTGGGCTTT
* * *
149585 GGAAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCACTGATTTATGGGCTTT
1 GGAAAAAGGTGCCACTGACTTGTGGGCTTTGAAGGTTGCCACTGATTTGTGGGCTTT
* *
149642 GGAAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTG
1 GGAAAAAGGTGCCACTGACTTGTGGGCTTTGAAGGTTG
149680 AGGAATGTCT
Statistics
Matches: 145, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
57 73 0.50
58 67 0.46
59 5 0.03
ACGTcount: A:0.20, C:0.14, G:0.33, T:0.32
Consensus pattern (57 bp):
GGAAAAAGGTGCCACTGACTTGTGGGCTTTGAAGGTTGCCACTGATTTGTGGGCTTT
Found at i:149542 original size:30 final size:28
Alignment explanation
Indices: 149472--149674 Score: 211
Period size: 30 Copynumber: 7.1 Consensus size: 28
149462 CTTAAAAGGA
* * *
149472 AAAAGATGCCACGGACTTGTGGGCTTTTG
1 AAAAGGTGCCACTGATTTGTGGGC-TTTG
*
149501 --AAGGTTGCCACTGATTTGTGGACTTTG
1 AAAAGG-TGCCACTGATTTGTGGGCTTTG
*
149528 AAAAATGGTGCCACTGACTTGTGGGCTTTTG
1 -AAAA-GGTGCCACTGATTTGTGGGC-TTTG
149559 --AAGGTTGCCACTGATTTGTGGGCTTTGG
1 AAAAGG-TGCCACTGATTTGTGGGCTTT-G
149587 AAAAGGGTGCCACTGATTTGTGGGCTTTG
1 AAAA-GGTGCCACTGATTTGTGGGCTTTG
*
149616 --AAGGTTGCCACTGATTTATGGGCTTTGG
1 AAAAGG-TGCCACTGATTTGTGGGCTTT-G
149644 AAAAGGGTGCCACTGATTTGTGGGCTTTG
1 AAAA-GGTGCCACTGATTTGTGGGCTTTG
149673 AA
1 AA
149675 GGTTGAGGAA
Statistics
Matches: 149, Mismatches: 9, Indels: 32
0.78 0.05 0.17
Matches are distributed among these distances:
26 2 0.01
27 34 0.23
28 36 0.24
29 4 0.03
30 63 0.42
31 10 0.07
ACGTcount: A:0.21, C:0.15, G:0.32, T:0.33
Consensus pattern (28 bp):
AAAAGGTGCCACTGATTTGTGGGCTTTG
Found at i:150753 original size:1 final size:1
Alignment explanation
Indices: 150749--150862 Score: 57
Period size: 1 Copynumber: 114.0 Consensus size: 1
150739 TTTGTTGTTG
* * * * * * * * * *
150749 TTTTTTTGTTTGTTTGTTTGTTTTTTTCTTCTTTTTTTTGTTTGTTTGTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * ** * *
150814 TGTTTTGTTTTTTTTTCTTCTTCTTCGTTTTTTTTTGTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
150863 GTTGAGGATG
Statistics
Matches: 76, Mismatches: 37, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.00, C:0.05, G:0.11, T:0.83
Consensus pattern (1 bp):
T
Found at i:150762 original size:4 final size:4
Alignment explanation
Indices: 150746--150823 Score: 70
Period size: 4 Copynumber: 19.5 Consensus size: 4
150736 CTTTTTGTTG
* * * *
150746 TTGT TTTT TTGT TTGT TTGT TTGT TTTT TTCT TCT-T TTTT TTGT TTGT
1 TTGT TTGT TTGT TTGT TTGT TTGT TTGT TTGT T-TGT TTGT TTGT TTGT
* *
150794 TTGT TT-T TTGT TTTT TTTT TTGTT TTGT TT
1 TTGT TTGT TTGT TTGT TTGT TTG-T TTGT TT
150824 TTTTTTCTTC
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
3 4 0.06
4 54 0.86
5 5 0.08
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.83
Consensus pattern (4 bp):
TTGT
Found at i:150788 original size:28 final size:28
Alignment explanation
Indices: 150751--150861 Score: 138
Period size: 28 Copynumber: 3.9 Consensus size: 28
150741 TGTTGTTGTT
150751 TTTTTGTTTGTTTGTTTGTTTTTTTCTTC
1 TTTTT-TTTGTTTGTTTGTTTTTTTCTTC
150780 TTTTTTTTGTTTGTTTGTTTTTTGT-TT-
1 TTTTTTTTGTTTGTTTGTTTTTT-TCTTC
*
150807 TTTTTTTTGTTTTGTTTTTTTTTCTTCTTC
1 TTTTTTTTG-TTTGTTTGTTTTT-TTCTTC
150837 TTCGTTTTTT-TTTGTTTGTTTTTTT
1 TT--TTTTTTGTTTGTTTGTTTTTTT
150862 TGTTGAGGAT
Statistics
Matches: 73, Mismatches: 2, Indels: 14
0.82 0.02 0.16
Matches are distributed among these distances:
27 9 0.12
28 33 0.45
29 11 0.15
30 14 0.19
32 6 0.08
ACGTcount: A:0.00, C:0.05, G:0.12, T:0.83
Consensus pattern (28 bp):
TTTTTTTTGTTTGTTTGTTTTTTTCTTC
Found at i:150801 original size:47 final size:46
Alignment explanation
Indices: 150737--150857 Score: 133
Period size: 47 Copynumber: 2.6 Consensus size: 46
150727 ATCCGGACCC
150737 TTTTTG-TTG-TTGTTTTTTTGTTTGTTTGTTTGTTTT-TTTCTTCTTT
1 TTTTTGTTTGTTTG-TTTTTTGTTTGTTTGTTTGTTTTGTTT-TT-TTT
* *
150783 TTTTTGTTTGTTTGTTTTTTGTTTTTTTTTTTGTTTTGTTTTTTTT
1 TTTTTGTTTGTTTGTTTTTTGTTTGTTTGTTTGTTTTGTTTTTTTT
* *
150829 TCTTCTTCTTCGTTT-TTTTTTGTTTGTTT
1 T-TT-TTGTTTGTTTGTTTTTTGTTTGTTT
150858 TTTTTGTTGA
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
46 10 0.15
47 41 0.63
48 14 0.22
ACGTcount: A:0.00, C:0.05, G:0.13, T:0.82
Consensus pattern (46 bp):
TTTTTGTTTGTTTGTTTTTTGTTTGTTTGTTTGTTTTGTTTTTTTT
Found at i:169300 original size:52 final size:52
Alignment explanation
Indices: 169159--169283 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
169149 ATATGAAAAA
169159 TTGCCTGCATGTATTGATACATTTCATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATTGATACATTTCATAGTGTATCGATACATCTGGGCAAAT
* *
169211 TTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATTGATACATTTCATAGTGTATCGATACATCTGGGCAAAT
*
169263 TTGCCTACATGTATTGATACA
1 TTGCCTGCATGTATTGATACA
169284 AAGATCAGTG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (52 bp):
TTGCCTGCATGTATTGATACATTTCATAGTGTATCGATACATCTGGGCAAAT
Found at i:170622 original size:55 final size:51
Alignment explanation
Indices: 170541--170660 Score: 127
Period size: 51 Copynumber: 2.3 Consensus size: 51
170531 AAATAACGAG
* * * *
170541 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTG----TCTTGAAAATAAAATCGGA
*
170596 GTTGGAGTATCTCCGATTAT-AGAAAATTAGTGTCTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGA-AAAATTAGTGTCTTGAAAATAAAATCGGA
170647 GTTGG-GATATCCCC
1 GTTGGAG-TATCCCC
170661 AATTGCGGAG
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
50 1 0.02
51 28 0.49
54 1 0.02
55 27 0.47
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTCTTGAAAATAAAATCGGA
Found at i:173129 original size:32 final size:32
Alignment explanation
Indices: 173083--173190 Score: 153
Period size: 32 Copynumber: 3.4 Consensus size: 32
173073 GCAGTAGCTT
* * * *
173083 TGTAGCGATACATTGTATTGATACATCACTTG
1 TGTATCGATACATTGTATCGATACAACACTTA
*
173115 TGTATCGATACATTGTATCAATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
* *
173147 TGTATCGATACATTATATCGATACAACCCTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
173179 TGTATCGATACA
1 TGTATCGATACA
173191 AATCACTGAA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 68 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:173186 original size:19 final size:18
Alignment explanation
Indices: 173128--173191 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 18
173118 ATCGATACAT
*
173128 TGTATCAATACAACACTTA
1 TGTATCGATACAAC-CTTA
173147 TGTATCGATAC-A--TTA
1 TGTATCGATACAACCTTA
173162 --TATCGATACAACCCTTA
1 TGTATCGATACAA-CCTTA
173179 TGTATCGATACAA
1 TGTATCGATACAA
173192 ATCACTGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
15 3 0.08
17 3 0.08
18 1 0.03
19 21 0.55
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAACCTTA
Found at i:173254 original size:21 final size:21
Alignment explanation
Indices: 173228--173304 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
173218 GTTGGGACCT
* *
173228 TGTATCAATACATTTGTAC-AA
1 TGTATCGATACA-TTCTACAAA
*
173249 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
173270 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
173291 TGTATCGATACATT
1 TGTATCGATACATT
173305 TGGATAAAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 4 0.08
21 47 0.92
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:174503 original size:59 final size:57
Alignment explanation
Indices: 174035--174740 Score: 775
Period size: 55 Copynumber: 12.3 Consensus size: 57
174025 AAAAAGTGTA
* ** *
174035 TCCTGCTCTTTAAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT--GAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGCG
*
174090 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAG--AGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAAAGGCG
* *
174145 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--GAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGCG
* * * * *
174200 TCCTGCTCTTTGGGGACT-AAAAGGGGCCACCAACTTGTATGGGCTTTAAG--AGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAGAAAGGCG
* * *
174255 TCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--GAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGCG
* *
174310 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--GAAAGGGG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGCG
* * * *
174365 TCCTG-TCCTTTGGGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCT-CTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT---AAG-AAAGGCG
* * *
174426 TCCTGCTCTTTGAAGACT-GAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT--AAG-AAAGGCG
* * *
174485 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGACG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT--AAG-AAAGGCG
*
174544 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT--AAG-AAAGGCG
* *
174603 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT--AAG-AAAGGCG
* * *
174662 TCCTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTAAAAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT--AAG--AAAGGCG
174723 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
174741 AAAAAGCGAA
Statistics
Matches: 584, Mismatches: 45, Indels: 38
0.88 0.07 0.06
Matches are distributed among these distances:
53 2 0.00
54 7 0.01
55 270 0.46
56 7 0.01
57 2 0.00
59 197 0.34
60 56 0.10
61 42 0.07
62 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (57 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAAAGGCG
Found at i:175742 original size:24 final size:24
Alignment explanation
Indices: 175710--175768 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
175700 AGCAGGTTCT
* *
175710 TTTTCTTTTCTCTCTTTTTCTTTG-
1 TTTTGTTTTCTCTCTTTTT-TTCGC
* * *
175734 TTTTGTTTTTTTTGTTTTTTTCGC
1 TTTTGTTTTCTCTCTTTTTTTCGC
175758 TTTTGTTTTCT
1 TTTTGTTTTCT
175769 TTTTGAAGAG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
23 3 0.11
24 25 0.89
ACGTcount: A:0.00, C:0.14, G:0.08, T:0.78
Consensus pattern (24 bp):
TTTTGTTTTCTCTCTTTTTTTCGC
Done.