Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007096.1 Hibiscus syriacus cultivar Beakdansim tig00018544_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 246292
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
File 1 of 2
Found at i:2071 original size:24 final size:24
Alignment explanation
Indices: 2039--2096 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
2029 AATTAACCAC
2039 TGACGATTACTTTCCCATTTCTTT
1 TGACGATTACTTTCCCATTTCTTT
2063 TGACGATTACTTTCCCATTTCTTT
1 TGACGATTACTTTCCCATTTCTTT
2087 TGACGATTAC
1 TGACGATTAC
2097 AGTTTATCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.19, C:0.24, G:0.10, T:0.47
Consensus pattern (24 bp):
TGACGATTACTTTCCCATTTCTTT
Found at i:9222 original size:22 final size:22
Alignment explanation
Indices: 9194--9250 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
9184 TTTTTTGCAT
9194 TGATACGGAAGTGCCTCAACAA
1 TGATACGGAAGTGCCTCAACAA
9216 TGATACGGAAGTGCCTCAACAA
1 TGATACGGAAGTGCCTCAACAA
*
9238 TGATACGAAAGTG
1 TGATACGGAAGTG
9251 TGTTAGCACT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (22 bp):
TGATACGGAAGTGCCTCAACAA
Found at i:9821 original size:11 final size:11
Alignment explanation
Indices: 9801--9832 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
9791 TCATTTATTC
9801 TTTCCTTCTCAT
1 TTTCC-TCTCAT
9813 TTTCCTCTCAT
1 TTTCCTCTCAT
9824 TTTCCTCTC
1 TTTCCTCTC
9833 CAAGTTCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.06, C:0.38, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTCCTCTCAT
Found at i:14861 original size:28 final size:27
Alignment explanation
Indices: 14824--14913 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 27
14814 GTAAAAACTT
*
14824 AAATACTTTAGGTATATATTTTGACCAA
1 AAATATTTTAGGTAT-TATTTTGACCAA
*
14852 AAATATTTTAAGTACCTT-TTTTGACCAAA
1 AAATATTTTAGGTA--TTATTTTGACC-AA
* *
14881 AAGATAATTTTAGATACTTATTGTGACCAA
1 AA-AT-ATTTTAGGTA-TTATTTTGACCAA
14911 AAA
1 AAA
14914 AAAAATACTT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
28 20 0.39
29 6 0.12
30 10 0.20
31 15 0.29
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (27 bp):
AAATATTTTAGGTATTATTTTGACCAA
Found at i:16223 original size:103 final size:103
Alignment explanation
Indices: 16044--16252 Score: 409
Period size: 103 Copynumber: 2.0 Consensus size: 103
16034 ATTAGAATTC
*
16044 AAACCTCTGATATAATCTCACTATACAAACTAATTGTTGGTAATAATTAACAAAACGTTTTATAA
1 AAACCTCTGATATAATCTCACTATACAAACTAATTGTTAGTAATAATTAACAAAACGTTTTATAA
16109 GTGGTCTAAAATTTAAATCTAATTTTAAGAAATCATAT
66 GTGGTCTAAAATTTAAATCTAATTTTAAGAAATCATAT
16147 AAACCTCTGATATAATCTCACTATACAAACTAATTGTTAGTAATAATTAACAAAACGTTTTATAA
1 AAACCTCTGATATAATCTCACTATACAAACTAATTGTTAGTAATAATTAACAAAACGTTTTATAA
16212 GTGGTCTAAAATTTAAATCTAATTTTAAGAAATCATAT
66 GTGGTCTAAAATTTAAATCTAATTTTAAGAAATCATAT
16250 AAA
1 AAA
16253 AATAATAAAT
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.35
Consensus pattern (103 bp):
AAACCTCTGATATAATCTCACTATACAAACTAATTGTTAGTAATAATTAACAAAACGTTTTATAA
GTGGTCTAAAATTTAAATCTAATTTTAAGAAATCATAT
Found at i:19079 original size:2 final size:2
Alignment explanation
Indices: 19072--19100 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
19062 TTTGACATGC
19072 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19101 AAGCTGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19542 original size:2 final size:2
Alignment explanation
Indices: 19535--19605 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
19525 GTAATTCATT
19535 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19577 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19606 CACTAATTGC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21751 original size:7 final size:7
Alignment explanation
Indices: 21741--21765 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21731 AGAAATCAAA
21741 AATTGAG
1 AATTGAG
21748 AATTGAG
1 AATTGAG
21755 AATTGAG
1 AATTGAG
21762 AATT
1 AATT
21766 TAGAGACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (7 bp):
AATTGAG
Found at i:28568 original size:19 final size:19
Alignment explanation
Indices: 28522--28574 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
28512 CTAGCCTAAG
*
28522 AGTATCGATACTCCTACAAA
1 AGTATCGATACT-TTACAAA
* * *
28542 AGTTTCGATACTTTATATA
1 AGTATCGATACTTTACAAA
28561 AGTATCGATACTTT
1 AGTATCGATACTTT
28575 TAAATATTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (19 bp):
AGTATCGATACTTTACAAA
Found at i:28726 original size:20 final size:20
Alignment explanation
Indices: 28697--28746 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
28687 CATACCCTAG
*
28697 GTATCGATACCAACCTTACA
1 GTATCAATACCAACCTTACA
28717 GTATCAATACCAACCTTACA
1 GTATCAATACCAACCTTACA
28737 GTATCAATAC
1 GTATCAATAC
28747 TCTCTCTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.28, G:0.08, T:0.26
Consensus pattern (20 bp):
GTATCAATACCAACCTTACA
Found at i:36369 original size:21 final size:21
Alignment explanation
Indices: 36345--36384 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
36335 GACTATCACA
36345 TTGCGA-TTTCCTAAATTCGCG
1 TTGCGATTTTCCT-AATTCGCG
36366 TTGCGATTTTCCTAATTCG
1 TTGCGATTTTCCTAATTCG
36385 TAATGCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.42
Consensus pattern (21 bp):
TTGCGATTTTCCTAATTCGCG
Found at i:36411 original size:20 final size:20
Alignment explanation
Indices: 36386--36452 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
36376 CCTAATTCGT
36386 AATGCGAATACGTAAATCGC
1 AATGCGAATACGTAAATCGC
*
36406 AATGCGATTACGTAAATCGC
1 AATGCGAATACGTAAATCGC
36426 AATGCGAATACGTAAATCGC
1 AATGCGAATACGTAAATCGC
36446 AATGCGA
1 AATGCGA
36453 TTTACATAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (20 bp):
AATGCGAATACGTAAATCGC
Found at i:36655 original size:22 final size:22
Alignment explanation
Indices: 36630--36691 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
36620 GGCGACATCC
36630 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
36652 GTCCCCA----CGACGATAA-CA
1 GTCCCCATCTCCGACGA-AATCA
* *
36670 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
36692 TTCACGGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 14 0.44
19 2 0.06
21 2 0.06
22 14 0.44
ACGTcount: A:0.27, C:0.39, G:0.16, T:0.18
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:37049 original size:20 final size:20
Alignment explanation
Indices: 37024--37072 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
37014 CAACGAGTGA
37024 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
37044 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
37064 ATCGCAACG
1 ATCGCAACG
37073 AGAGAATCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:37139 original size:20 final size:20
Alignment explanation
Indices: 37114--37163 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
37104 TGCGATTCTT
37114 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
* **
37134 GCGTTGTGATAGTCATTTTC
1 GCGTTGCGATAGTCAAATTC
*
37154 GTGTTGCGAT
1 GCGTTGCGAT
37164 TTTCATTTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.38
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:37169 original size:20 final size:20
Alignment explanation
Indices: 37146--37185 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
37136 GTTGTGATAG
37146 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTGCGATTT
37166 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTGCGATTT
37186 AAAGTTTCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.15, G:0.20, T:0.55
Consensus pattern (20 bp):
TCATTTTCGTGTTGCGATTT
Found at i:37193 original size:20 final size:20
Alignment explanation
Indices: 37150--37193 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
37140 TGATAGTCAT
** *
37150 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
37170 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
37190 TTTC
1 TTTC
37194 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:39072 original size:20 final size:20
Alignment explanation
Indices: 39047--39190 Score: 210
Period size: 20 Copynumber: 7.5 Consensus size: 20
39037 AGAATAGTTT
39047 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
39067 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
39087 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
39103 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
39121 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
39141 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
39161 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
39181 ACTATCGCAA
1 ACTATCGCAA
39191 CGAAAGAATC
Statistics
Matches: 113, Mismatches: 5, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.06
16 4 0.04
17 4 0.04
18 4 0.04
20 94 0.83
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:39159 original size:40 final size:40
Alignment explanation
Indices: 39047--39228 Score: 210
Period size: 40 Copynumber: 4.9 Consensus size: 40
39037 AGAATAGTTT
*
39047 ACTATCGCAATGCGAAAATGACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
*
39087 ACTATCGCAA--CG-AGA-GA--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
39121 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
**
39161 ACTATCGCAATGCGAATTTGACTATCGCAA--CG-AAA-G
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
** *
39197 A--ATCGCAATGCG-AAATGAAAATCGCATTGCGA
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGA
39229 TTCTCTCGTT
Statistics
Matches: 123, Mismatches: 10, Indels: 22
0.79 0.06 0.14
Matches are distributed among these distances:
33 10 0.08
34 37 0.30
35 2 0.02
36 6 0.05
37 7 0.06
38 6 0.05
40 55 0.45
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (40 bp):
ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
Found at i:39208 original size:94 final size:93
Alignment explanation
Indices: 39047--39228 Score: 292
Period size: 94 Copynumber: 1.9 Consensus size: 93
39037 AGAATAGTTT
*
39047 ACTATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAGAGAATCGCAAT
1 ACTATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAAT
**
39112 GCGAAAATGACTATCGCAATGCGAAAATG
66 GCG-AAATGAAAATCGCAATGCGAAAATG
* **
39141 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCAACGAAAGAATCGCAAT
1 ACTATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAAT
*
39206 GCGAAATGAAAATCGCATTGCGA
66 GCGAAATGAAAATCGCAATGCGA
39229 TTCTCTCGTT
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
93 17 0.21
94 64 0.79
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (93 bp):
ACTATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAAT
GCGAAATGAAAATCGCAATGCGAAAATG
Found at i:39262 original size:20 final size:20
Alignment explanation
Indices: 39237--39283 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
39227 GATTCTCTCG
39237 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
39257 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
39277 TTGCGAT
1 TTGCGAT
39284 TTTGTTGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:39337 original size:33 final size:33
Alignment explanation
Indices: 39257--39338 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 33
39247 CAAATTCGCA
* * * *
39257 TTGCGATAGTCATTTTCGCGTTGCGATTTTGTTG
1 TTGCGATAGTCA-TTTCGCATTGCGATTCTCTCG
**
39291 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCATTGCGATTCTCTCG
39324 TTGCGATAGTCATTT
1 TTGCGATAGTCATTT
39339 GCAGATTCTA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
33 30 0.75
34 10 0.25
ACGTcount: A:0.13, C:0.18, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCATTGCGATTCTCTCG
Found at i:39905 original size:21 final size:21
Alignment explanation
Indices: 39814--39918 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
39804 GACTCACCTG
*
39814 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
39836 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
39856 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
39877 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
39898 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
39919 CCAACATTCT
Statistics
Matches: 63, Mismatches: 19, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 59 0.94
22 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:39911 original size:42 final size:42
Alignment explanation
Indices: 39811--39921 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
39801 CCCGACTCAC
* * * *
39811 CTGTCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGGCCA
* **
39853 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
*
39895 CTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCCTCCCA
39922 ACATTCTAGA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.04
42 52 0.93
43 2 0.04
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
Found at i:41299 original size:14 final size:14
Alignment explanation
Indices: 41280--41315 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
41270 ATTGTTTAAT
41280 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
41294 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
41308 TGATTTGT
1 TGATTTGT
41316 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:41454 original size:33 final size:34
Alignment explanation
Indices: 41417--41492 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 34
41407 AAAACAGACT
41417 ATCGCAACGAGAGAATCGCAATGCG-AAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
*
41450 ATCGCAACGAGTGAATCGCAATGCGAAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
41484 ATCGCAACG
1 ATCGCAACG
41493 CGAAATTAGT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
33 24 0.59
34 17 0.41
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (34 bp):
ATCGCAACGAGAGAATCGCAATGCGAAAATGAAA
Found at i:41488 original size:20 final size:19
Alignment explanation
Indices: 41430--41498 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
41420 GCAACGAGAG
41430 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
41449 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
41463 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
41483 AATCGCAACGCGAAAT
1 AATCGCAATGCGAAAT
41499 TAGTTTCGCG
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
14 8 0.20
16 5 0.12
17 2 0.05
18 3 0.07
19 12 0.29
20 11 0.27
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:41550 original size:34 final size:34
Alignment explanation
Indices: 41507--41602 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
41497 ATTAGTTTCG
41507 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
41541 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
41574 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
41603 AGTCAATTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.42
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:41599 original size:20 final size:20
Alignment explanation
Indices: 41574--41667 Score: 136
Period size: 20 Copynumber: 4.7 Consensus size: 20
41564 GCGATTCTCT
41574 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
41594 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
* *
41614 CATTGCGATAGTCATTTCTG
1 CGTTGCGATAGTCATTTCCG
*
41634 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
41654 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
41668 AATGAATGTC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
20 63 0.97
21 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:44110 original size:24 final size:24
Alignment explanation
Indices: 44083--44136 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
44073 TTGAAAAATC
44083 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
44107 ATCAAAGTCCGGGTATTGATCAAG
1 ATCAAAATCCGAGTATTGACCAAG
44131 ATCAAA
1 ATCAAA
44137 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:48783 original size:12 final size:11
Alignment explanation
Indices: 48753--48779 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
48743 AAATCTTATC
48753 TTAAATACAAT
1 TTAAATACAAT
48764 TTAAATACAAT
1 TTAAATACAAT
48775 TTAAA
1 TTAAA
48780 ATACTACGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (11 bp):
TTAAATACAAT
Found at i:50666 original size:2 final size:2
Alignment explanation
Indices: 50659--50686 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
50649 ACCTTTATTT
50659 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50687 GAGGGAGACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51370 original size:15 final size:15
Alignment explanation
Indices: 51346--51375 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51336 ATTAACATAT
*
51346 TAAAGTATTAAAAAA
1 TAAAGAATTAAAAAA
51361 TAAAGAATTAAAAAA
1 TAAAGAATTAAAAAA
51376 CCAGAAACCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (15 bp):
TAAAGAATTAAAAAA
Found at i:60807 original size:23 final size:22
Alignment explanation
Indices: 60777--60856 Score: 99
Period size: 22 Copynumber: 3.6 Consensus size: 22
60767 GCATGACCTT
60777 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
60799 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
60821 GTGTATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
*
60843 ATGCATCGATGCAC
1 GTGCATCGATGCAC
60857 GGTTAGGTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 15 0.32
22 16 0.34
23 16 0.34
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:60829 original size:44 final size:42
Alignment explanation
Indices: 60781--60872 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 42
60771 GACCTTGTGC
* *
60781 ATCGATGCACATTCAAGGCGTGCATCGGTGCAC-CTTCATGGTGT
1 ATCGATGCACATTCAAGG-ATGCATCGATGCACGCTT-A-GGTGT
*
60825 ATCGATGCACATTCAAGGATGCATCGATGCACGGTTAGGTGT
1 ATCGATGCACATTCAAGGATGCATCGATGCACGCTTAGGTGT
60867 ATCGAT
1 ATCGAT
60873 ACATTAAGCA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
42 11 0.25
43 13 0.30
44 20 0.45
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (42 bp):
ATCGATGCACATTCAAGGATGCATCGATGCACGCTTAGGTGT
Found at i:60833 original size:21 final size:20
Alignment explanation
Indices: 60777--60856 Score: 79
Period size: 21 Copynumber: 3.7 Consensus size: 20
60767 GCATGACCTT
60777 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTC-A-G
* *
60799 CGTGCATCGGTGCACCTTCATG
1 -GTGCATCGATGCACATTCA-G
*
60821 GTGTATCGATGCACATTCAAG
1 GTGCATCGATGCACATTC-AG
60842 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
60857 GGTTAGGTGT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
21 17 0.35
22 15 0.31
23 16 0.33
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (20 bp):
GTGCATCGATGCACATTCAG
Found at i:66685 original size:23 final size:23
Alignment explanation
Indices: 66655--66699 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
66645 CTTAGTTCAT
66655 CGGTGCACTAAGAGTGCATCGAG
1 CGGTGCACTAAGAGTGCATCGAG
66678 CGGTGCACTAAGAGTGCATCGA
1 CGGTGCACTAAGAGTGCATCGA
66700 TGCATAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.22, G:0.33, T:0.18
Consensus pattern (23 bp):
CGGTGCACTAAGAGTGCATCGAG
Found at i:66783 original size:45 final size:45
Alignment explanation
Indices: 66734--66821 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
66724 AAAATAGCTA
*
66734 GAGTGCATAGATGCATGGTTTGTGCATCGATGCATCAAATGCACT
1 GAGTGCATAGATGCATGGTATGTGCATCGATGCATCAAATGCACT
*
66779 GAGTGCATCGATGCATGGTATGTGCATCGATGCATCAAATGCA
1 GAGTGCATAGATGCATGGTATGTGCATCGATGCATCAAATGCA
66822 TTCGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (45 bp):
GAGTGCATAGATGCATGGTATGTGCATCGATGCATCAAATGCACT
Found at i:67533 original size:33 final size:34
Alignment explanation
Indices: 67457--67544 Score: 108
Period size: 33 Copynumber: 2.6 Consensus size: 34
67447 TAAATAAATT
* *
67457 AACAAAATTAACCAAAATACATTAACAAAAAGTCC
1 AACAAATTTAA-CAAAATAAATTAACAAAAAGTCC
67492 AACAAATTTAACAAAATAAATTAA-AATAAA-TCC
1 AACAAATTTAACAAAATAAATTAACAA-AAAGTCC
* *
67525 AACCAATTTAACGAAATAAA
1 AACAAATTTAACAAAATAAA
67545 GTAAGTATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
33 23 0.48
34 15 0.31
35 10 0.21
ACGTcount: A:0.61, C:0.16, G:0.02, T:0.20
Consensus pattern (34 bp):
AACAAATTTAACAAAATAAATTAACAAAAAGTCC
Found at i:75639 original size:20 final size:20
Alignment explanation
Indices: 75578--75639 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
75568 ATTTTACAAA
75578 TTATAAAATAACTATTAATT
1 TTATAAAATAACTATTAATT
** ** *
75598 TTATTGAAT-TGT-TTAATA
1 TTATAAAATAACTATTAATT
75616 TTATAAAATAACTATTAATT
1 TTATAAAATAACTATTAATT
75636 TTAT
1 TTAT
75640 TATTTTTTAG
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
18 12 0.40
19 2 0.07
20 16 0.53
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (20 bp):
TTATAAAATAACTATTAATT
Found at i:75661 original size:35 final size:37
Alignment explanation
Indices: 75577--75678 Score: 138
Period size: 38 Copynumber: 2.8 Consensus size: 37
75567 AATTTTACAA
*
75577 ATTATAAAATAACTATTAATTTTATTGAATTGTTTAAT
1 ATTATAAAATAACTATTAATTTTATT-AATTGTTTAAG
*
75615 ATTATAAAATAACTATTAATTTTATT-ATT-TTTTAG
1 ATTATAAAATAACTATTAATTTTATTAATTGTTTAAG
* *
75650 ATTATAAAATAA-TAATAATTTTCTTAATT
1 ATTATAAAATAACTATTAATTTTATTAATT
75679 TAAGGCTTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
34 11 0.19
35 19 0.32
36 3 0.05
38 26 0.44
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (37 bp):
ATTATAAAATAACTATTAATTTTATTAATTGTTTAAG
Found at i:75842 original size:23 final size:23
Alignment explanation
Indices: 75807--75869 Score: 117
Period size: 23 Copynumber: 2.7 Consensus size: 23
75797 AACATAATTT
75807 AATATTTTTTCTCATTATTCAACA
1 AATA-TTTTTCTCATTATTCAACA
75831 AATATTTTTCTCATTATTCAACA
1 AATATTTTTCTCATTATTCAACA
75854 AATATTTTTCTCATTA
1 AATATTTTTCTCATTA
75870 ATAGATAAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
23 35 0.90
24 4 0.10
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (23 bp):
AATATTTTTCTCATTATTCAACA
Found at i:75947 original size:43 final size:44
Alignment explanation
Indices: 75900--75986 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 44
75890 GCCGAGATAT
*
75900 GGTTTTCTTTTCTCCTATGTGATCTTTACC-TTCTATTTTCAAC
1 GGTTTTCTTTTCTCATATGTGATCTTTACCTTTCTATTTTCAAC
*
75943 GGTTTTCTTTTCTCATATGTGATCTTTACCTTTTTATTTTCAAC
1 GGTTTTCTTTTCTCATATGTGATCTTTACCTTTCTATTTTCAAC
75987 TGACAACCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 29 0.71
44 12 0.29
ACGTcount: A:0.15, C:0.21, G:0.09, T:0.55
Consensus pattern (44 bp):
GGTTTTCTTTTCTCATATGTGATCTTTACCTTTCTATTTTCAAC
Found at i:76287 original size:40 final size:40
Alignment explanation
Indices: 76243--76320 Score: 115
Period size: 40 Copynumber: 1.9 Consensus size: 40
76233 GCACGACATT
*
76243 TTCAGACTAATAAAAAA-TCTTACTT-TAGAAAATAATATGG
1 TTCAGACTAATAAAAAACTC-TACTTCAAG-AAATAATATGG
76283 TTCAGACTAATAAAAAACTCTACTTCAAGAAATAATAT
1 TTCAGACTAATAAAAAACTCTACTTCAAGAAATAATAT
76321 AGTGGGTGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
40 31 0.89
41 4 0.11
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.31
Consensus pattern (40 bp):
TTCAGACTAATAAAAAACTCTACTTCAAGAAATAATATGG
Found at i:76838 original size:16 final size:17
Alignment explanation
Indices: 76800--76845 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
76790 TATTTATGAG
76800 GGAATTAGAATCTGTGAA
1 GGAATTAGAATCTGT-AA
*
76818 GGAATTGGAATCTGT-A
1 GGAATTAGAATCTGTAA
76834 GGAATTAGAATC
1 GGAATTAGAATC
76846 CAATTCAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 12 0.46
18 14 0.54
ACGTcount: A:0.37, C:0.07, G:0.28, T:0.28
Consensus pattern (17 bp):
GGAATTAGAATCTGTAA
Found at i:81591 original size:42 final size:42
Alignment explanation
Indices: 81544--81650 Score: 178
Period size: 42 Copynumber: 2.5 Consensus size: 42
81534 TTTCTCGAAA
*
81544 TTTCGTATTTATTTCATGTAATTCGTTTTTTGAAAAATATTT
1 TTTCGTATTTATTTCATGTAATTCGTTTTTCGAAAAATATTT
*
81586 TTTCGTATTTATTTCATGTAATTCGTTTTTCGAAAAATGTTT
1 TTTCGTATTTATTTCATGTAATTCGTTTTTCGAAAAATATTT
* *
81628 TTTTGTGTTTATTTCATGTAATT
1 TTTCGTATTTATTTCATGTAATT
81651 TATTTTCCGG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.23, C:0.07, G:0.11, T:0.58
Consensus pattern (42 bp):
TTTCGTATTTATTTCATGTAATTCGTTTTTCGAAAAATATTT
Found at i:81991 original size:31 final size:31
Alignment explanation
Indices: 81922--82028 Score: 84
Period size: 30 Copynumber: 3.5 Consensus size: 31
81912 ATATAATCAA
* *
81922 TTATATTATAATAATATA-AGATATTATATTTT
1 TTATATTTTAATAATATATA-ATA-TAAATTTT
81954 TT-TATTTTAATAATATATAATA-AAA-TTT
1 TTATATTTTAATAATATATAATATAAATTTT
*
81982 TTATATATTTAATAATGA-ATAATATTAA--TT
1 TTATAT-TTTAATAAT-ATATAATATAAATTTT
* *
82012 ATATATTTAAATAATAT
1 TTATATTTTAATAATAT
82029 TTTAGTAAAG
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
28 6 0.09
29 13 0.20
30 22 0.34
31 20 0.31
32 3 0.05
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (31 bp):
TTATATTTTAATAATATATAATATAAATTTT
Found at i:82402 original size:15 final size:15
Alignment explanation
Indices: 82382--82432 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
82372 CATTTTTCAG
82382 AATTCAAATTCCAGT
1 AATTCAAATTCCAGT
**
82397 AATTCATTTTCCAGT
1 AATTCAAATTCCAGT
82412 AATTCAAATTCCAGT
1 AATTCAAATTCCAGT
82427 AATTCA
1 AATTCA
82433 TTTTTCGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (15 bp):
AATTCAAATTCCAGT
Found at i:82418 original size:30 final size:29
Alignment explanation
Indices: 82366--82436 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 29
82356 TTCCAGAAAT
*
82366 GTAATTCATTTTTCAGAATTCAAATTCCA
1 GTAATTCATTTTCCAGAATTCAAATTCCA
82395 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAG-AATTCAAATTCCA
82425 GTAATTCATTTT
1 GTAATTCATTTT
82437 TCGAAAAACT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 15 0.38
30 25 0.62
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (29 bp):
GTAATTCATTTTCCAGAATTCAAATTCCA
Found at i:84357 original size:29 final size:29
Alignment explanation
Indices: 84325--84384 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
84315 TCGGAACAGT
*
84325 CCAACCTTAGACTACATTGTCTAGTAAAA
1 CCAACCTTAGACTACATTGTCAAGTAAAA
84354 CCAACCTTAGACTACATTGTCAAGTAAAA
1 CCAACCTTAGACTACATTGTCAAGTAAAA
84383 CC
1 CC
84385 CTTGAAAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.38, C:0.27, G:0.10, T:0.25
Consensus pattern (29 bp):
CCAACCTTAGACTACATTGTCAAGTAAAA
Found at i:87315 original size:20 final size:20
Alignment explanation
Indices: 87290--87358 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
87280 GCGAAATAAA
87290 AATCGCAACGCGATCTCTAG
1 AATCGCAACGCGATCTCTAG
** * *
87310 AATCGCAAATCAGTTC-CCAG
1 AATCGCAACGC-GATCTCTAG
87330 AATCGCAACGCGAT-TCTGAAG
1 AATCGCAACGCGATCTCT--AG
87351 AATCGCAA
1 AATCGCAA
87359 TGTGATAGTA
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
19 3 0.08
20 21 0.57
21 13 0.35
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGATCTCTAG
Found at i:87416 original size:20 final size:20
Alignment explanation
Indices: 87391--87628 Score: 171
Period size: 20 Copynumber: 11.7 Consensus size: 20
87381 GCGATTTTCC
*
87391 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGAATACG
* *
87411 AAAATCGCAACGCGAACA-T
1 AAAATCGCAACGCGAATACG
*
87430 ATAAATCGCAACGCG-ATTCTG
1 A-AAATCGCAACGCGAATAC-G
** * * *
87451 ACTATCGCAACGAGTATCCG
1 AAAATCGCAACGCGAATACG
* *
87471 TAAAATCGCAACGCGTATCCG
1 -AAAATCGCAACGCGAATACG
*
87492 TAAATCGCAACGAC-AATACG
1 AAAATCGCAACG-CGAATACG
*
87512 TAAAATCGCAACGCGTAT-CTG
1 -AAAATCGCAACGCGAATAC-G
*
87533 TAAATCGCAACGAC-AATACG
1 AAAATCGCAACG-CGAATACG
* * *
87553 TAAAATCGTAACGCGTATCCG
1 -AAAATCGCAACGCGAATACG
* *
87574 TAAATCGCAACGAGAATACG
1 AAAATCGCAACGCGAATACG
* *
87594 TAAATCGCAACGAGAATACG
1 AAAATCGCAACGCGAATACG
87614 TAAAATCGCAACGCG
1 -AAAATCGCAACGCG
87629 TATCCGTTAA
Statistics
Matches: 174, Mismatches: 30, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
19 2 0.01
20 108 0.62
21 64 0.37
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGAATACG
Found at i:87485 original size:41 final size:41
Alignment explanation
Indices: 87454--87626 Score: 249
Period size: 41 Copynumber: 4.2 Consensus size: 41
87444 GATTCTGACT
** *
87454 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
*
87495 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCTGTAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
*
87536 ATCGCAACGACAATACGTAAAATCGTAACGCGTATCCGTAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
* * * *
87577 ATCGCAACGAGAATACGT-AAATCGCAACGAGAATACGTAAA
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGT-AA
87618 ATCGCAACG
1 ATCGCAACG
87627 CGTATCCGTT
Statistics
Matches: 120, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 16 0.13
41 104 0.87
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.18
Consensus pattern (41 bp):
ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:87555 original size:82 final size:82
Alignment explanation
Indices: 87391--87605 Score: 260
Period size: 82 Copynumber: 2.6 Consensus size: 82
87381 GCGATTTTCC
* ** * * * *
87391 AAAATCGCAACGCGAATATGAAAATCGCAACG-CGA-ACATATAAATCGCAACGCGATTCTGACT
1 AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTA-AAATCGCAACGCGATTCTGACA
** *
87454 ATCGCAACGAGTATCCGT
65 ATCGCAACGACAATACGT
87472 AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGCG-TATCTGTA-
1 AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGCGAT-TCTG-AC
87535 AATCGCAACGACAATACGT
64 AATCGCAACGACAATACGT
* *
87554 AAAATCGTAACGCGTATCCGTAAATCGCAACGAGAATACGT-AAATCGCAACG
1 AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACG
87606 AGAATACGTA
Statistics
Matches: 118, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
81 40 0.34
82 73 0.62
83 5 0.04
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (82 bp):
AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGCGATTCTGACAA
TCGCAACGACAATACGT
Found at i:87629 original size:61 final size:62
Alignment explanation
Indices: 87391--87635 Score: 218
Period size: 61 Copynumber: 4.0 Consensus size: 62
87381 GCGATTTTCC
* * * * * *
87391 AAAATCGCAACGCGAATATGAAAATCGCAACGCG-A-ACATATAAATCGCAACGCG-ATTC-T
1 AAAATCGCAACGAGAATACGTAAATCGCAACGAGAATACGTA-AAATCGCAACGCGTATCCGT
** * * * * * * *
87450 GACTATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGT-AAATCGCAACGAC-AATACGT
1 -AAAATCGCAACGAGAATACGT-AAATCGCAACGAGAATACGTAAAATCGCAACG-CGTATCCGT
* * * *
87513 AAAATCGCAACGCGTAT-CTGTAAATCGCAACGACAATACGTAAAATCGTAACGCGTATCCGT
1 AAAATCGCAACGAGAATAC-GTAAATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGT
87575 -AAATCGCAACGAGAATACGTAAATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGT
1 AAAATCGCAACGAGAATACGTAAATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGT
87636 TAACCGCAAC
Statistics
Matches: 151, Mismatches: 24, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
60 14 0.09
61 97 0.64
62 37 0.25
63 3 0.02
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.18
Consensus pattern (62 bp):
AAAATCGCAACGAGAATACGTAAATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGT
Found at i:87763 original size:21 final size:20
Alignment explanation
Indices: 87717--87764 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
87707 GATTCTGACT
87717 ATCGCATTGCGATTTCCCAA
1 ATCGCATTGCGATTTCCCAA
* *
87737 ATTCGCGTTGCGATTTTCCTAA
1 A-TCGCATTGCGA-TTTCCCAA
87759 ATCGCA
1 ATCGCA
87765 ACGCGAATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 14 0.61
22 8 0.35
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATTTCCCAA
Found at i:87781 original size:20 final size:20
Alignment explanation
Indices: 87756--87806 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
87746 GCGATTTTCC
87756 TAAATCGCAACGCGAATAC-G
1 TAAATCGCAACGCGAAT-CTG
*
87776 TAAATCGCAATGCGAATCTG
1 TAAATCGCAACGCGAATCTG
87796 TAAATCGCAAC
1 TAAATCGCAAC
87807 AAGATTCTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
TAAATCGCAACGCGAATCTG
Found at i:88718 original size:24 final size:24
Alignment explanation
Indices: 88667--88720 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
88657 GTATTCGAAA
*
88667 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
88691 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
88715 TTTGAT
1 TTTGAT
88721 GATTTTCCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:91159 original size:20 final size:21
Alignment explanation
Indices: 91134--91367 Score: 337
Period size: 20 Copynumber: 11.7 Consensus size: 21
91124 GACATTCATT
91134 TGACTATCGCAACGC-GAATA
1 TGACTATCGCAACGCGGAATA
*
91154 TGACTATCGCAACACGGAA-A
1 TGACTATCGCAACGCGGAATA
91174 TGACTATCGCAACGCGGAA-A
1 TGACTATCGCAACGCGGAATA
**
91194 TGACTATCGCAATACGGAAT-
1 TGACTATCGCAACGCGGAATA
91214 TGACTATCGCAACGCGGAA-A
1 TGACTATCGCAACGCGGAATA
*
91234 TGACTATCGCAACGCAGAA-A
1 TGACTATCGCAACGCGGAATA
91254 TGACTATCGCAACGCGGAAT-
1 TGACTATCGCAACGCGGAATA
*
91274 TGACTATCGCAACGCGAAAT-
1 TGACTATCGCAACGCGGAATA
*
91294 TGACTACCGCAACGCGGAAT-
1 TGACTATCGCAACGCGGAATA
91314 TGACTATCGCAACGCGGAAT-
1 TGACTATCGCAACGCGGAATA
91334 TGACTATCGCAACGCGGAAT-
1 TGACTATCGCAACGCGGAATA
91354 TGACTATCGCAACG
1 TGACTATCGCAACG
91368 AGAGAATCGG
Statistics
Matches: 198, Mismatches: 12, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
20 195 0.98
21 3 0.02
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (21 bp):
TGACTATCGCAACGCGGAATA
Found at i:91512 original size:14 final size:14
Alignment explanation
Indices: 91493--91529 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
91483 CATCAATTAA
91493 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
91507 ACAAATCATCTTTT
1 ACAAATCAACATTT
91521 ACAAATCAA
1 ACAAATCAA
91530 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:92967 original size:18 final size:20
Alignment explanation
Indices: 92944--92983 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
92934 CTCTTGAGGG
92944 ATGATA-GG-GGCCTCTTGA
1 ATGATAGGGAGGCCTCTTGA
92962 ATGATATGGGAGGCCTCTTGA
1 ATGATA-GGGAGGCCTCTTGA
92983 A
1 A
92984 CGATGACAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
20 2 0.11
21 11 0.58
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGATAGGGAGGCCTCTTGA
Found at i:92989 original size:42 final size:41
Alignment explanation
Indices: 92882--92993 Score: 109
Period size: 42 Copynumber: 2.7 Consensus size: 41
92872 TCTAGAATGT
* * *
92882 TGGGAGGGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGGG-CCTCTTGAACGATGACAGGGGCCTCTTGAACGA
* ** * *
92924 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAATGATA
1 TGGGA-GGGCCTCTTGAACGATGACAGGGGCCTCTTGAACG--A
92968 TGGGA-GGCCTCTTGAACGATGACAGG
1 TGGGAGGGCCTCTTGAACGATGACAGG
92994 TGAGTCGGGC
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
42 47 0.85
43 3 0.05
44 5 0.09
ACGTcount: A:0.22, C:0.18, G:0.38, T:0.22
Consensus pattern (41 bp):
TGGGAGGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
Found at i:93529 original size:22 final size:20
Alignment explanation
Indices: 93473--93561 Score: 115
Period size: 20 Copynumber: 4.3 Consensus size: 20
93463 GAAACTTAAA
*
93473 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
93493 ATCGCAATGCAAAAATGACT
1 ATCGCAATGCGAAAATGACT
93513 ATCGCATTATGCGAAAATGACT
1 ATCGCA--ATGCGAAAATGACT
**
93535 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
*
93555 ATTGCAA
1 ATCGCAA
93562 CGAGAGAATC
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
20 42 0.69
22 19 0.31
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:93620 original size:19 final size:19
Alignment explanation
Indices: 93598--93677 Score: 101
Period size: 19 Copynumber: 4.2 Consensus size: 19
93588 ATCGCAACGT
*
93598 GATTATAGTTTCGCGTTGC
1 GATTTTAGTTTCGCGTTGC
93617 GATTTT-GATTTCGCGTTGC
1 GATTTTAG-TTTCGCGTTGC
*
93636 GATTTTGGTTTCGCGTTGC
1 GATTTTAGTTTCGCGTTGC
*
93655 GATTTTCA-TTTCTCGTTGC
1 GATTTT-AGTTTCGCGTTGC
93674 GATT
1 GATT
93678 CTCTCGTTGC
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.02
19 53 0.96
20 1 0.02
ACGTcount: A:0.11, C:0.16, G:0.25, T:0.47
Consensus pattern (19 bp):
GATTTTAGTTTCGCGTTGC
Found at i:93647 original size:38 final size:38
Alignment explanation
Indices: 93605--93677 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
93595 CGTGATTATA
*
93605 GTTTCGCGTTGCGATTTTGATTTCGCGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTG
*
93643 GTTTCGCGTTGCGATTTTCATTTCTCGTTGCGATT
1 GTTTCGCGTTGCGATTTTCATTTCGCGTTGCGATT
93678 CTCTCGTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.08, C:0.18, G:0.26, T:0.48
Consensus pattern (38 bp):
GTTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTG
Found at i:93684 original size:14 final size:14
Alignment explanation
Indices: 93665--93692 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
93655 GATTTTCATT
93665 TCTCGTTGCGATTC
1 TCTCGTTGCGATTC
93679 TCTCGTTGCGATTC
1 TCTCGTTGCGATTC
93693 ATTTCGTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.21, T:0.43
Consensus pattern (14 bp):
TCTCGTTGCGATTC
Found at i:93941 original size:94 final size:94
Alignment explanation
Indices: 93795--94174 Score: 584
Period size: 94 Copynumber: 4.1 Consensus size: 94
93785 ATGGATTGCA
* *
93795 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
93859 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGACAGCAACCGAACAAAT
* * * * *
93888 TTACTTTCAACCAAAAGATAAAACAAATATAAATACTAACTTCACACTGTTAAATAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
93953 TTAGTAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGACAGCAACCGAACAAAT
*
93982 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAATGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
94047 TTAGCAGAATTGACAGCAACCGAATAAAT
66 TTAGCAGAATTGACAGCAACCGAACAAAT
* *
94076 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAATAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* * *
94140 TTTAGCAGTATTGACAGCAACCGAATATAT
65 TTTAGCAGAATTGACAGCAACCGAACAAAT
94170 TTACT
1 TTACT
94175 AAGCAATCTA
Statistics
Matches: 263, Mismatches: 21, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
93 23 0.09
94 240 0.91
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.23
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGACAGCAACCGAACAAAT
Found at i:95935 original size:14 final size:14
Alignment explanation
Indices: 95916--96004 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
95906 GGAAATGACT
95916 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
95930 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
95949 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
* *
95963 ATCGCAACGCGAAATTAAA
1 ATCGCAA--CG--A-GAGA
95982 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
95996 ATCGCAACG
1 ATCGCAACG
96005 CAAAATGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 28 0.47
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 19 0.32
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.10
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:95953 original size:19 final size:19
Alignment explanation
Indices: 95929--95990 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
95919 GCAACGAGAG
95929 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
95948 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
95962 AATCGCAACGCGAAATTAA
1 AATCGCAACGCGAAATGAA
95981 AATCGCAACG
1 AATCGCAACG
95991 AGAGAATCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 19 0.54
ACGTcount: A:0.45, C:0.23, G:0.21, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:95953 original size:33 final size:33
Alignment explanation
Indices: 95870--96016 Score: 213
Period size: 33 Copynumber: 4.3 Consensus size: 33
95860 TCTTTTGGTT
*
95870 GAAATGAAAATCGCAACGAGAGAATGATCGCAATGC
1 GAAATGAAAATCGCAACGAGAG-A--ATCGCAACGC
**
95906 GGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
95940 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
95973 GAAATTAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
96006 AAAATGAAAAT
1 GAAATGAAAAT
96017 TACAATGCGA
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
33 72 0.71
34 9 0.09
36 1 0.01
37 20 0.20
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:96046 original size:19 final size:19
Alignment explanation
Indices: 96022--96143 Score: 83
Period size: 20 Copynumber: 6.5 Consensus size: 19
96012 AAAATTACAA
**
96022 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
96041 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
96060 TGCGA--TTC---TCTCGT
1 TGCGATTTTCATTTCGCGT
* *
96074 TGCAATTTTCATTTCTCTCGT
1 TGCGATTTTCA-TT-TCGCGT
** *
96095 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCA-TTTCGCGT
**
96115 TGCGATTTTCATTTTCATGT
1 TGCGATTTTCA-TTTCGCGT
96135 TGCGATTTT
1 TGCGATTTT
96144 AAGTTTAGAA
Statistics
Matches: 84, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
14 9 0.11
16 3 0.04
17 3 0.04
19 22 0.26
20 30 0.36
21 17 0.20
ACGTcount: A:0.11, C:0.19, G:0.20, T:0.49
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:96091 original size:21 final size:21
Alignment explanation
Indices: 96065--96143 Score: 85
Period size: 20 Copynumber: 3.9 Consensus size: 21
96055 CGCGTTGCGA
*
96065 TTCTCTCGTTGCAATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
96086 TTCTCTCGTTGCGATAGTCAT
1 TTCTCTCGTTGCGATTTTCAT
96107 TT-TCGT-GTTGCGATTTTCAT
1 TTCTC-TCGTTGCGATTTTCAT
96127 TT-TCAT-GTTGCGATTTT
1 TTCTC-TCGTTGCGATTTT
96144 AAGTTTAGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
20 30 0.59
21 21 0.41
ACGTcount: A:0.13, C:0.19, G:0.16, T:0.52
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:96704 original size:20 final size:20
Alignment explanation
Indices: 96679--96892 Score: 189
Period size: 20 Copynumber: 10.6 Consensus size: 20
96669 CTTTAAAAAT
*
96679 CGCGTTACGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
96699 CGCGTTACGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
96719 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* * * *
96740 CGCATTGCAATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* *
96760 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
** *
96780 CGCGTTGCGATTTACATATT
1 CGCGTTGCGATTTACGGATA
* *
96800 CTCGTTGAGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
96820 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
* *
96840 TGTCGTTACGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
96861 CGCGTTACGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
96882 CTCGTTGCGAT
1 CGCGTTGCGAT
96893 AGTCAGAATC
Statistics
Matches: 155, Mismatches: 32, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
20 105 0.68
21 50 0.32
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:96765 original size:40 final size:41
Alignment explanation
Indices: 96681--96892 Score: 293
Period size: 41 Copynumber: 5.2 Consensus size: 41
96671 TTAAAAATCG
* * *
96681 CGTTACGATTTACGGATACGCGTTACGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
96722 CGTTGCGATTTACGGATACGCATTGC-AATTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
96762 CGTTGCGATTTACAGATACGCGTTGCGA-TTTACATATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
96802 CGTTGAGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* * * *
96843 CGTTACGATTTACGGATACGCGTTACGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
96884 CGTTGCGAT
1 CGTTGCGAT
96893 AGTCAGAATC
Statistics
Matches: 150, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 73 0.49
41 77 0.51
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
Found at i:96913 original size:121 final size:121
Alignment explanation
Indices: 96678--96933 Score: 340
Period size: 121 Copynumber: 2.1 Consensus size: 121
96668 GCTTTAAAAA
*
96678 TCGCGTT-ACGATTTACGGATACGCGTTACGATTTTACGTATTGTCGTTGCGATTTACGGATACG
1 TCGCGTTGA-GATTTACGGATACGCGTTACGATTTTACGTATTGTCGTTACGATTTACGGATACG
* * * *
96742 CATTGCAATTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGCGATTTACATAT
65 CATTACAATTTACGGATACTCGTTGCGATGTACAGATACGCGTTGCGATTTACATAT
* *
96799 TCTCGTTGAGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTACGATTTACGGATACGC
1 TCGCGTTGAGATTTACGGATACGCGTTACGATTTTACGTATTGTCGTTACGATTTACGGATACGC
* * * *
96864 GTTACGATTTTACGGATACTCGTTGCGATAGT-CAGA-ATCGCGTTG-GATTTATATGT
66 ATTAC-AATTTACGGATACTCGTTGCGAT-GTACAGATA-CGCGTTGCGATTTACATAT
*
96920 TCGCGTTGTGATTT
1 TCGCGTTGAGATTT
96934 TCATATTCGC
Statistics
Matches: 118, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
121 85 0.72
122 32 0.27
123 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (121 bp):
TCGCGTTGAGATTTACGGATACGCGTTACGATTTTACGTATTGTCGTTACGATTTACGGATACGC
ATTACAATTTACGGATACTCGTTGCGATGTACAGATACGCGTTGCGATTTACATAT
Found at i:96942 original size:20 final size:20
Alignment explanation
Indices: 96901--96952 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
96891 ATAGTCAGAA
*
96901 TCGCGTTG-GATTTATATGT
1 TCGCGTTGTGATTTATATAT
96920 TCGCGTTGTGATTT-TCATAT
1 TCGCGTTGTGATTTAT-ATAT
96940 TCGCGTTGTGATT
1 TCGCGTTGTGATT
96953 CTGGAAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 9 0.30
20 21 0.70
ACGTcount: A:0.13, C:0.13, G:0.25, T:0.48
Consensus pattern (20 bp):
TCGCGTTGTGATTTATATAT
Found at i:97051 original size:20 final size:19
Alignment explanation
Indices: 97002--97055 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
96992 ATTCTTCATA
97002 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
97021 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
97042 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
97056 TTTTATTTCG
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:100226 original size:64 final size:64
Alignment explanation
Indices: 100115--100279 Score: 174
Period size: 64 Copynumber: 2.6 Consensus size: 64
100105 GCATCCCTTG
* * *
100115 ACGGGTGCATCGATGCACTA-TCTATGCATCGGTACA-TAAATCCCATTCGATATTTGTACTTTT
1 ACGGGTGCATCGATGCACTACT-TGTGCATCGATACACTAAATCACATTCGATATTTGTA-TTTT
100178 A
64 A
* * * * *
100179 GCGGGTGCATCGATGCACTACTTGTGCATCGATACACT-GATGACATTCGATGTTTTTATTTTA
1 ACGGGTGCATCGATGCACTACTTGTGCATCGATACACTAAATCACATTCGATATTTGTATTTTA
* * * *
100242 AAGGAGTGCATCGATACACTTCATGTGCATCGATACAC
1 ACGG-GTGCATCGATGCACTACTTGTGCATCGATACAC
100280 CTTGAACAAT
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
63 7 0.08
64 76 0.89
65 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (64 bp):
ACGGGTGCATCGATGCACTACTTGTGCATCGATACACTAAATCACATTCGATATTTGTATTTTA
Found at i:103197 original size:214 final size:211
Alignment explanation
Indices: 102831--103258 Score: 811
Period size: 214 Copynumber: 2.0 Consensus size: 211
102821 TTCATGGTTA
*
102831 CTTCATGAAGAAATATTAGTGGAACCTTAACTCATTATGGAACCTGTATATTCCTGGATCAATAC
1 CTTCATGAAGAAATATTAGTGGAACCTTAACTCATTATGGAACCTGTATATTCCTGGATCAATAA
*
102896 GCAAGTTTTATGTTTTGCCATATCTGCTTGTCCTTTAGCATTCATTTGGTAGTTCTGTATTACTG
66 GCAAGTTTTATGGTTTGCCATATCTGCTTGTCCTTTAGCATTCATTTGGTAGTTCTGTATTACTG
102961 AGTTTTCCCAAAACTCACTCTGTTCTCACCATTTTAGGTTAAAGATCGATCAATGCAGTTATCAA
131 AGTTTTCCCAAAACTCACTCTGTTCTCACCATTTTAGGTTAAAGATCGATCAATGCAGTTATCAA
103026 CATCAGTATAGGAGTT
196 CATCAGTATAGGAGTT
103042 CTTCATGAAGAAATATTAGTGGAACCTTAACTCATTACTGGAACCTGTATATTCCTGGATCAATA
1 CTTCATGAAGAAATATTAGTGGAACCTTAACTCATTA-TGGAACCTGTATATTCCTGGATCAATA
103107 AGCAAGTTTTATGGTTTGCCATATATCTGCTTGTCCTTTAGCATTCATTTGGTAGTTCTGTATTA
65 AGCAAGTTTTATGGTTTGCC--ATATCTGCTTGTCCTTTAGCATTCATTTGGTAGTTCTGTATTA
103172 CTGAGTTTTCCCAAAACTCACTCTGTTCTCACCATTTTAGGTTAAAGATCGATCAATGCAGTTAT
128 CTGAGTTTTCCCAAAACTCACTCTGTTCTCACCATTTTAGGTTAAAGATCGATCAATGCAGTTAT
103237 CAACATCAGTATAGGAGTT
193 CAACATCAGTATAGGAGTT
103256 CTT
1 CTT
103259 TAACGCTGCT
Statistics
Matches: 212, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
211 37 0.17
212 45 0.21
214 130 0.61
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (211 bp):
CTTCATGAAGAAATATTAGTGGAACCTTAACTCATTATGGAACCTGTATATTCCTGGATCAATAA
GCAAGTTTTATGGTTTGCCATATCTGCTTGTCCTTTAGCATTCATTTGGTAGTTCTGTATTACTG
AGTTTTCCCAAAACTCACTCTGTTCTCACCATTTTAGGTTAAAGATCGATCAATGCAGTTATCAA
CATCAGTATAGGAGTT
Found at i:103997 original size:30 final size:31
Alignment explanation
Indices: 103953--104020 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
103943 CGAATTAGAC
103953 TTTAAATAATTTACAACTTAATAT-TTAAACT
1 TTTAAATAATTTAC-ACTTAATATCTTAAACT
* *
103984 TTTAGATAA-TTACACTTAATTTCTTAAACT
1 TTTAAATAATTTACACTTAATATCTTAAACT
*
104014 TTAAAAT
1 TTTAAAT
104021 GTTTCAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.25
30 16 0.50
31 8 0.25
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.46
Consensus pattern (31 bp):
TTTAAATAATTTACACTTAATATCTTAAACT
Found at i:104510 original size:19 final size:19
Alignment explanation
Indices: 104474--104533 Score: 86
Period size: 19 Copynumber: 3.1 Consensus size: 19
104464 TTTTATATTG
*
104474 ATATTATTGATTTTATAAAT
1 ATATTATT-ATATTATAAAT
104494 ATATTATTATATTATAAAT
1 ATATTATTATATTATAAAT
104513 ATATTATTTATATTA-AAAT
1 ATATTA-TTATATTATAAAT
104532 AT
1 AT
104534 TAATATTACT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
19 22 0.58
20 16 0.42
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
ATATTATTATATTATAAAT
Found at i:104540 original size:20 final size:19
Alignment explanation
Indices: 104490--104555 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
104480 TTGATTTTAT
*
104490 AAATATATTA-TTATATTA
1 AAATATAATATTTATATTA
*
104508 TAAATATATTATTTATATTA
1 -AAATATAATATTTATATTA
104528 AAATATTAATATTACTATATTTA
1 AAATA-TAATATT--TATA-TTA
104551 AAATA
1 AAATA
104556 ATAAATTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
19 15 0.37
20 14 0.34
22 4 0.10
23 8 0.20
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
AAATATAATATTTATATTA
Found at i:104563 original size:22 final size:23
Alignment explanation
Indices: 104521--104570 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
104511 ATATATTATT
*
104521 TATA-TTAAAATATTAATATTAC
1 TATATTTAAAATAATAATATTAC
*
104543 TATATTTAAAATAATAA-ATTAT
1 TATATTTAAAATAATAATATTAC
104565 TATATT
1 TATATT
104571 AATATTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TATATTTAAAATAATAATATTAC
Found at i:107598 original size:12 final size:12
Alignment explanation
Indices: 107563--107600 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
107553 CTAATAGGTT
107563 AAACACAATTCAA
1 AAAC-CAATTCAA
*
107576 AAA-CAACTCAA
1 AAACCAATTCAA
107587 AAACCAATTCAA
1 AAACCAATTCAA
107599 AA
1 AA
107601 GATTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 10 0.45
12 9 0.41
13 3 0.14
ACGTcount: A:0.63, C:0.24, G:0.00, T:0.13
Consensus pattern (12 bp):
AAACCAATTCAA
Found at i:108771 original size:2 final size:2
Alignment explanation
Indices: 108764--108798 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
108754 AATATTAAAT
108764 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108799 GTTTTAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:108975 original size:21 final size:21
Alignment explanation
Indices: 108933--108975 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
108923 TAATAAAATA
* *
108933 ATTTATTTAATATTTATTATT
1 ATTTAATTAATATTTATAATT
108954 ATTTAATTAATAATTT-TAATT
1 ATTTAATTAAT-ATTTATAATT
108975 A
1 A
108976 AGTAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTAATTAATATTTATAATT
Found at i:108976 original size:17 final size:18
Alignment explanation
Indices: 108956--108997 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
108946 TTATTATTAT
108956 TTAATTAATA-ATTTTAA
1 TTAATTAATATATTTTAA
* *
108973 TTAAGTAATATTTTTTAA
1 TTAATTAATATATTTTAA
*
108991 TTCATTA
1 TTAATTA
108998 TAACAACTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
TTAATTAATATATTTTAA
Found at i:109837 original size:21 final size:21
Alignment explanation
Indices: 109811--109856 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
109801 TGCAAGAGAA
109811 AAAAAAATGTGTCATA-AAGAT
1 AAAAAAATGTGTCATAGAA-AT
109832 AAAAAAATGTGTCATAGAAAT
1 AAAAAAATGTGTCATAGAAAT
109853 AAAA
1 AAAA
109857 TTATTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.61, C:0.04, G:0.13, T:0.22
Consensus pattern (21 bp):
AAAAAAATGTGTCATAGAAAT
Found at i:111586 original size:162 final size:163
Alignment explanation
Indices: 111296--111629 Score: 618
Period size: 162 Copynumber: 2.0 Consensus size: 163
111286 CGTGAAACAG
111296 TATTAAATAGATTTTTAACATCATTTAAGTTATAAATTCAACTAATTTAATTAATATACACCTTA
1 TATTAAATAGATTTTTAACATCATTTAAGTTATAAATTCAACTAA-TT-ATTAATATACACCTTA
111361 AAATGTTTTAAAGAAAAAAAACTATTTTCACAAAACAAAAGTACATGGTAATAGTAATTATAATA
64 AAATGTTTTAAAGAAAAAAAACTATTTTCACAAAACAAAAGTACATGGTAATAGTAATTATAATA
111426 ATGGAAATAATAATTTATATTTTTAATCATTTTAA
129 ATGGAAATAATAATTTATATTTTTAATCATTTTAA
*
111461 TATTAAATAGATTTTTAACATCATTTAAGTTATAAATTCAACTAA-T-TTAATATACACCTTGAA
1 TATTAAATAGATTTTTAACATCATTTAAGTTATAAATTCAACTAATTATTAATATACACCTTAAA
111524 ATGTTTTAAAGAAAAAAAAACTATTTTCACAAAACAAAAGTACATGGTAATAGTAATTATAATAA
66 ATGTTTTAAAG-AAAAAAAACTATTTTCACAAAACAAAAGTACATGGTAATAGTAATTATAATAA
111589 TGGAAATAATAATTTATATTTTTAATCATTTTAA
130 TGGAAATAATAATTTATATTTTTAATCATTTTAA
111623 TATTAAA
1 TATTAAA
111630 CTAAAAAATT
Statistics
Matches: 167, Mismatches: 1, Indels: 5
0.97 0.01 0.03
Matches are distributed among these distances:
161 27 0.16
162 94 0.56
163 1 0.01
165 45 0.27
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (163 bp):
TATTAAATAGATTTTTAACATCATTTAAGTTATAAATTCAACTAATTATTAATATACACCTTAAA
ATGTTTTAAAGAAAAAAAACTATTTTCACAAAACAAAAGTACATGGTAATAGTAATTATAATAAT
GGAAATAATAATTTATATTTTTAATCATTTTAA
Found at i:113236 original size:2 final size:2
Alignment explanation
Indices: 113229--113301 Score: 130
Period size: 2 Copynumber: 37.0 Consensus size: 2
113219 TATGGAAGGC
113229 AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
113270 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113302 TGCATCAAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.01
2 67 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:115237 original size:3 final size:3
Alignment explanation
Indices: 115229--115260 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
115219 AGCAGATTTC
115229 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
115261 ACTTCACCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:116413 original size:32 final size:32
Alignment explanation
Indices: 116374--116621 Score: 286
Period size: 32 Copynumber: 8.4 Consensus size: 32
116364 TTTTAAAATA
* *
116374 ATTTATTTTAATTAATTAATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
116406 ATTTATTTT-AA-AA--TA-T-G---G-ATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
116428 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
*
116460 ATTTATTTTAAA-ATATTTATTAGTATGTATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGAATTG
*
116492 ATTTATTTTAAATAATTTATTAGTATGAGTTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
*
116524 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
*
116556 ATTTATTTT-AA-AA--CA-T-G---G-ATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
116578 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
116610 ATTTATTTTAAA
1 ATTTATTTTAAA
116622 ATATAGATTG
Statistics
Matches: 185, Mismatches: 9, Indels: 44
0.78 0.04 0.18
Matches are distributed among these distances:
22 26 0.14
23 6 0.03
24 4 0.02
26 5 0.03
27 4 0.02
28 4 0.02
30 4 0.02
31 6 0.03
32 125 0.68
33 1 0.01
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGAATTG
Found at i:116422 original size:22 final size:22
Alignment explanation
Indices: 116397--116439 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
116387 AATTAATTAG
116397 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
116419 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
116440 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:116433 original size:54 final size:60
Alignment explanation
Indices: 116374--116733 Score: 252
Period size: 54 Copynumber: 6.4 Consensus size: 60
116364 TTTTAAAATA
* *
116374 ATTTATTTTAATTAATTAATTAGTATGAATTGATTTATTTTAAA-A-TA-T-G-G-ATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATATTATTAGTGTATTG
116428 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATTTATTAGTATGTATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT-AAATA-TTATTAG--TGTATTG
* *
116492 ATTTATTTTAAATAATTTATTAGTATGAGTTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAT-A-TTATTAG--TGTATTG
* *
116556 ATTTATTTT-AA-AA--CA-T-G---G-ATTGATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAT-A-TTATTAG--TGTATTG
* * *
116610 ATTTATTTT--A-AA---A-TA-TA-G-ATTGATTTATTATT--GTAGTT-GTA-TGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATT-TTAAATA-TTATTAGTGTATTG
*
116658 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA-A-TA-T-G-G-ATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATATTATTAGTGTATTG
116712 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
116734 TTGTAGTTGT
Statistics
Matches: 266, Mismatches: 11, Indels: 58
0.79 0.03 0.17
Matches are distributed among these distances:
48 16 0.06
50 1 0.00
51 4 0.02
52 5 0.02
53 4 0.02
54 121 0.45
55 9 0.03
56 5 0.02
57 3 0.01
58 15 0.06
59 2 0.01
60 2 0.01
62 2 0.01
63 7 0.03
64 70 0.26
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (60 bp):
ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATATTATTAGTGTATTG
Found at i:116573 original size:22 final size:22
Alignment explanation
Indices: 116548--116589 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
116538 ATTTATTAGT
116548 ATGGATTGATTTATTTTAAAAC
1 ATGGATTGATTTATTTTAAAAC
116570 ATGGATTGATTTATTTTAAA
1 ATGGATTGATTTATTTTAAA
116590 TAATTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (22 bp):
ATGGATTGATTTATTTTAAAAC
Found at i:116616 original size:18 final size:18
Alignment explanation
Indices: 116442--116562 Score: 77
Period size: 18 Copynumber: 7.4 Consensus size: 18
116432 ATTTTAAATA
116442 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
* *
116460 ATTTATT--T-TAAAAT-
1 ATTTATTAGTATGAATTG
*
116474 ATTTATTAGTATGTATTG
1 ATTTATTAGTATGAATTG
* *
116492 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
*
116506 ATTTATTAGTATGAGTTG
1 ATTTATTAGTATGAATTG
* *
116524 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
*
116538 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGAATTG
116556 ATTTATT
1 ATTTATT
116563 TTAAAACATG
Statistics
Matches: 74, Mismatches: 17, Indels: 24
0.64 0.15 0.21
Matches are distributed among these distances:
14 25 0.34
15 6 0.08
16 6 0.08
17 5 0.07
18 32 0.43
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.55
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:116706 original size:22 final size:22
Alignment explanation
Indices: 116681--116723 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
116671 AATTTATTAG
116681 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
116703 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
116724 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:116783 original size:31 final size:31
Alignment explanation
Indices: 116748--116806 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
116738 AGTTGTATGG
116748 ATTATTTAAAT-TTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTT-AGTATTGTAAAACTAAA
*
116779 ATTATTTAAATCTTAGTGTTGTAAAACT
1 ATTATTTAAATCTTAGTATTGTAAAACT
116807 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (31 bp):
ATTATTTAAATCTTAGTATTGTAAAACTAAA
Found at i:117274 original size:21 final size:21
Alignment explanation
Indices: 117248--117302 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
117238 AAAGTGCTAT
117248 CAGTTTTGTTATTTTTTCTAC
1 CAGTTTTGTTATTTTTTCTAC
*
117269 CAGTTTTGTTATTTTTTCTAT
1 CAGTTTTGTTATTTTTTCTAC
*
117290 CATTTTTGTTATT
1 CAGTTTTGTTATT
117303 ATTGGCCACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.15, C:0.11, G:0.09, T:0.65
Consensus pattern (21 bp):
CAGTTTTGTTATTTTTTCTAC
Found at i:122393 original size:17 final size:17
Alignment explanation
Indices: 122371--122431 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
122361 TAATAGTTTT
122371 ATAAATATATTCTTATA
1 ATAAATATATTCTTATA
* *
122388 ATAAAT-TATACTTATGTT
1 ATAAATATATTCTTA--TA
* *
122406 ATAAATATATTCATAAA
1 ATAAATATATTCTTATA
*
122423 ATAAGTATA
1 ATAAATATA
122432 ACTGATTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
16 7 0.21
17 14 0.41
18 7 0.21
19 6 0.18
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (17 bp):
ATAAATATATTCTTATA
Found at i:123022 original size:3 final size:3
Alignment explanation
Indices: 123014--123043 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
123004 ATTAAAAACA
123014 ATT ATT ATT ATT ATT ATT ATTT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT AT
123044 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:123102 original size:12 final size:12
Alignment explanation
Indices: 123082--123124 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
123072 TTAAATATAT
123082 ATACCCGGCCCG
1 ATACCCGGCCCG
*
123094 ATACTCGGCCCG
1 ATACCCGGCCCG
*
123106 ATACCCAGCCCG
1 ATACCCGGCCCG
123118 ATACCCG
1 ATACCCG
123125 TTTAAATAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.21, C:0.47, G:0.21, T:0.12
Consensus pattern (12 bp):
ATACCCGGCCCG
Found at i:124247 original size:2 final size:2
Alignment explanation
Indices: 124242--124271 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
124232 CTCCCCACTC
*
124242 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
124272 CCCAAAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125318 original size:65 final size:65
Alignment explanation
Indices: 125188--125502 Score: 427
Period size: 65 Copynumber: 4.8 Consensus size: 65
125178 TATCATATAG
* * *
125188 TCACTCCACATTATGCACCACAAAGGTACACT-AGTC-TCATTGAGTGATCTTTGCAGTATTCAA
1 TCACTCCACCTCATGCACCACAAAGGTACA-TGAGTCAT-A-TGAGTGATCTGTGCAGTATTCAA
125251 TTA
63 TTA
* * *
125254 TCACTCCACCTCATGTACCACGAAGGTACATGAGTCATATGAGTGATCTGTGTAGTATTCAATTA
1 TCACTCCACCTCATGCACCACAAAGGTACATGAGTCATATGAGTGATCTGTGCAGTATTCAATTA
* * *
125319 TCACTCCACCTCATGCACCACAAAGGTACATGAGTCATGTGAGTGATTTGTGTAGTATTCAATTA
1 TCACTCCACCTCATGCACCACAAAGGTACATGAGTCATATGAGTGATCTGTGCAGTATTCAATTA
* * * * *
125384 TAACTCCACCTCATGCACCATAAAGGTACATGAGTCATATGAGTGATATGTGCATTATTCCATTA
1 TCACTCCACCTCATGCACCACAAAGGTACATGAGTCATATGAGTGATCTGTGCAGTATTCAATTA
* * * *
125449 TTACTCCACCTCATGCACTACAAAAGTACATGAGTCATATGAGTGATCTATGCA
1 TCACTCCACCTCATGCACCACAAAGGTACATGAGTCATATGAGTGATCTGTGCA
125503 CCACAAAAGT
Statistics
Matches: 224, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
65 192 0.86
66 31 0.14
67 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (65 bp):
TCACTCCACCTCATGCACCACAAAGGTACATGAGTCATATGAGTGATCTGTGCAGTATTCAATTA
Found at i:125511 original size:37 final size:37
Alignment explanation
Indices: 125461--125536 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
125451 ACTCCACCTC
* *
125461 ATGCACTACAAAAGTACATGAGTCATATGAGTGATCT
1 ATGCACCACAAAAGTACACGAGTCATATGAGTGATCT
125498 ATGCACCACAAAAGTACACGAGTCATATGAGTGATCT
1 ATGCACCACAAAAGTACACGAGTCATATGAGTGATCT
125535 AT
1 AT
125537 ATTGGAGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (37 bp):
ATGCACCACAAAAGTACACGAGTCATATGAGTGATCT
Found at i:125851 original size:65 final size:65
Alignment explanation
Indices: 125742--126089 Score: 457
Period size: 65 Copynumber: 5.4 Consensus size: 65
125732 TTAACGTATA
* * * * *
125742 TTTGTGGTGCAT--GGTGGAGTGATAATTGAATACTATATAGATCACTCATATGACTCTTGTACC
1 TTTGTGGTGCATGAGGTGGAGTGATAATTGAATACTGTACAAATCACTCATGTGACTCATGTACC
*
125805 TTTGTGGTGCATGAGGTGGAGTGATAATTGAATATTGTACAAATCACTCATGTGACTCATGTACC
1 TTTGTGGTGCATGAGGTGGAGTGATAATTGAATACTGTACAAATCACTCATGTGACTCATGTACC
* * *
125870 TTTGTGGTGCATGAGATGGAATGATAATTGAATACTGTACAGATCACTCATGTGACTCATGTACC
1 TTTGTGGTGCATGAGGTGGAGTGATAATTGAATACTGTACAAATCACTCATGTGACTCATGTACC
* * * * *
125935 TTTTTGGTGCATGAGATGGAGTGATAATTGAATACCGTACATATCACTCATGTGATTCATGTACC
1 TTTGTGGTGCATGAGGTGGAGTGATAATTGAATACTGTACAAATCACTCATGTGACTCATGTACC
* * * * * * ** *
126000 TTTATGGTGTATGAGGTGGAGTGATAATTGAATAATGTACTACTCACTCAATGGGACTTGTGTAA
1 TTTGTGGTGCATGAGGTGGAGTGATAATTGAATACTGTACAAATCACTC-ATGTGACTCATGTAC
126065 C
65 C
*
126066 TTTGTGGTGCATAAGGTGGAGTGA
1 TTTGTGGTGCATGAGGTGGAGTGA
126090 CTATATGATG
Statistics
Matches: 251, Mismatches: 31, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
63 12 0.05
65 207 0.82
66 32 0.13
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (65 bp):
TTTGTGGTGCATGAGGTGGAGTGATAATTGAATACTGTACAAATCACTCATGTGACTCATGTACC
Found at i:129316 original size:2 final size:2
Alignment explanation
Indices: 129311--129345 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
129301 TTTTTTTATT
129311 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
129346 GTTTTGAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:129372 original size:29 final size:30
Alignment explanation
Indices: 129334--129390 Score: 91
Period size: 29 Copynumber: 1.9 Consensus size: 30
129324 ATATATATAT
129334 ATATATTATATAG-TTTTGAAATCATTTTGA
1 ATATATTATATAGTTTTTGAAA-CATTTTGA
129364 ATATA-TATATAGTTTTTGAAACATTTT
1 ATATATTATATAGTTTTTGAAACATTTT
129391 TTTTGAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.51
Consensus pattern (30 bp):
ATATATTATATAGTTTTTGAAACATTTTGA
Found at i:129518 original size:69 final size:67
Alignment explanation
Indices: 129390--129587 Score: 186
Period size: 69 Copynumber: 2.8 Consensus size: 67
129380 TGAAACATTT
* * *
129390 TTTTTGAAAACTTATATAATATATAGTTTTAAAAACATTGTTAAAAATTATATAATATATAATTT
1 TTTTTGAAAACTTATAT-ATAT-T--TTTT-AAATCATTTTTGAAAATTATATAATATATAATTT
129455 T-AAAAGC
61 TGAAAA-C
*
129462 ATTTTTGAAAACTTATATGATATTTTTTAAATCATTTTTGAAAATTATATAATATATAGTTTTGA
1 -TTTTTGAAAACTTATAT-ATATTTTTTAAATCATTTTTGAAAATTATATAATATATAATTTTGA
129527 AAAC
64 AAAC
* * * ** *
129531 TTTTTTAAAAATATAATATATAGTTTAAAAAT-ATTTTTG-AAATATATATATTATATA
1 TTTTTGAAAACT-T-ATATATATTTTTTAAATCATTTTTGAAAAT-TATATAATATATA
129588 GTTTATATTA
Statistics
Matches: 110, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
67 4 0.04
68 29 0.26
69 43 0.39
70 12 0.11
72 1 0.01
73 21 0.19
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (67 bp):
TTTTTGAAAACTTATATATATTTTTTAAATCATTTTTGAAAATTATATAATATATAATTTTGAAA
AC
Found at i:129574 original size:31 final size:33
Alignment explanation
Indices: 129363--129591 Score: 119
Period size: 36 Copynumber: 6.5 Consensus size: 33
129353 AATCATTTTG
*
129363 AATAT-ATATATAGTTTTTGAAACATTTTTTTTGAAA
1 AATATAATATATAG-TTTTGAAA-A-ATTTTTT-AAA
* * *
129399 ACTTATATAATATATAGTTTTAAAAACATTGTTAAAA
1 A---ATATAATATATAGTTTTGAAAA-ATTTTTTAAA
* *
129436 ATTATATAATATATAATTTT-AAAAGCATTTTTGAAA
1 A--ATATAATATATAGTTTTGAAAA--ATTTTTTAAA
* * * * *
129472 ACT-T-ATATGATATTTTTTAAATCATTTTTGAAA
1 AATATAATAT-ATAGTTTTGAAA-AATTTTTTAAA
*
129505 ATTATATAATATATAGTTTTGAAAACTTTTTTAAA
1 A--ATATAATATATAGTTTTGAAAAATTTTTTAAA
129540 AATATAATATATAG-TTT-AAAAATATTTTTGAAA
1 AATATAATATATAGTTTTGAAAAAT-TTTTT-AAA
*
129573 TATATATATTATATAGTTT
1 -A-ATATAATATATAGTTT
129592 ATATTATATT
Statistics
Matches: 157, Mismatches: 19, Indels: 34
0.75 0.09 0.16
Matches are distributed among these distances:
31 5 0.03
32 12 0.08
33 35 0.22
34 5 0.03
35 26 0.17
36 42 0.27
37 8 0.05
38 5 0.03
39 11 0.07
40 8 0.05
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (33 bp):
AATATAATATATAGTTTTGAAAAATTTTTTAAA
Found at i:129596 original size:14 final size:15
Alignment explanation
Indices: 129575--129619 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 15
129565 TTTTGAAATA
129575 TATATATTATA-TAG
1 TATATATTATATTAG
*
129589 TTTATATTATATTAG
1 TATATATTATATTAG
129604 TATATTATTATTATTA
1 TATA-TATTA-TATTA
129620 TTATTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 10 0.38
15 6 0.23
16 5 0.19
17 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (15 bp):
TATATATTATATTAG
Found at i:130762 original size:4 final size:4
Alignment explanation
Indices: 130742--130790 Score: 50
Period size: 4 Copynumber: 13.0 Consensus size: 4
130732 AATTTTATTA
* * *
130742 TTAT TTTT TTGT TTAT TTAT TTAT TTA- ATAT TTAT TTA- TTAT TT-T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
130787 TTAT
1 TTAT
130791 CTAACATTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
3 8 0.22
4 29 0.78
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:132460 original size:46 final size:46
Alignment explanation
Indices: 132393--132487 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
132383 GTTGTTCGGG
132393 GTCTATACCTTTAAAATGTTTTTGTCTCTTAAGACGTAACACTTTT
1 GTCTATACCTTTAAAATGTTTTTGTCTCTTAAGACGTAACACTTTT
132439 GTCTATACCTTTAAAATGTTTTTGTCTCTTAAGACGTAACACTTTT
1 GTCTATACCTTTAAAATGTTTTTGTCTCTTAAGACGTAACACTTTT
132485 GTC
1 GTC
132488 CCCATTAAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (46 bp):
GTCTATACCTTTAAAATGTTTTTGTCTCTTAAGACGTAACACTTTT
Found at i:135001 original size:80 final size:80
Alignment explanation
Indices: 134466--135681 Score: 1475
Period size: 80 Copynumber: 15.0 Consensus size: 80
134456 ACCTTCAATA
* * *
134466 AAAGACATTCGAGTTCGATTACACTCATCTCAAAGGCACATCATTTGTAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
134531 GAAGGGTTATTTGCCAAC
66 GAAGGGTTATCTG-C--C
* * *
134549 AAAAGACCTTCGAGTTCGATTACA--CAGCTCAAAGGCACATCTTTTGTAGCATAGCTTAAGGCA
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
*
134612 AGAAGGGCTATCTGCC
65 AGAAGGGTTATCTGCC
* * * * *
134628 AAAAAAAGACCTTCGAGTTCAATTACACTCAACTC--A--CA-AT-ATTTGCAGCCTAACTTAAG
1 ----AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAG
*
134687 GCAAGAAGGGCTCTATGT-CAAC
62 GCAAGAAGGG-T-TATCTGC--C
* * *
134709 AAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGG--CAT-ATTTAGTACAACATAACTCAAG
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTT-G--CAGCATAGCTCAAG
134771 GCAAGAAGGGTTATCTGCCAAC
62 GCAAGAAGGGTTATCTG-C--C
* * *
134793 AAAAGACCTTCAAGTTCGATTACACTCAACTCAAAGGCACATCATTTGCAGCATAGCTCAAGCCA
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
*
134858 AGAAGGGTTGTCTGCCAAC
65 AGAAGGGTTATCTG-C--C
* * * *
134877 AAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGACATATCATTTGCAGCATAGCTCAAGGAA
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
* *
134942 AGAAGGGCTATCTTCC
65 AGAAGGGTTATCTGCC
* * * * *
134958 AAAGCCCTTCGAGTTTGATTACACTCAGTTCAAAGACACATCATTTGCAGTATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* *
135023 GAATGGCTATCTGCC
66 GAAGGGTTATCTGCC
* * *
135038 AAAGACCTTCGAGTTCGATTACACTCACCTCAAAGACACATAATTTGCAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* * * *
135103 TAATGGCTATCTTCC
66 GAAGGGTTATCTGCC
* *
135118 AAAGACCTTCGAGTTCGATTACACTCATCTCAAAGGCACATCATTTGTAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
135183 GAAGGGCTATCTGCC
66 GAAGGGTTATCTGCC
* * *
135198 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGTACATCATTTGCAACATATCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
135263 GAAGGGTTATCTGCC
66 GAAGGGTTATCTGCC
* *
135278 AAAGACTTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
135343 GAAGGGTTATTTGCC
66 GAAGGGTTATCTGCC
*
135358 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
135423 GAAGGGTTATCTGCT
66 GAAGGGTTATCTGCC
* * *
135438 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCATCATTTGCATCATAGCTCAAGGTAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
135503 TAAGGGTTATCTGCC
66 GAAGGGTTATCTGCC
* * * *
135518 AAAGACCTTCGAGTTCGATTACACTTAGCTCAAAGGTACATCATTTGCAGTATAGCTCAAGGCGA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
135583 GAAGGGTTATCTGCCAAC
66 GAAGGGTTATCTG-C--C
* * * * *
135601 AAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTACAGCATAACTTAAGG
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTGCAGCATAGCTCAAGG
* *
135666 GAAGAAGGGATATCTG
63 CAAGAAGGGTTATCTG
135682 TCAACAAAAT
Statistics
Matches: 1003, Mismatches: 101, Indels: 54
0.87 0.09 0.05
Matches are distributed among these distances:
78 54 0.05
79 4 0.00
80 593 0.59
81 10 0.01
82 77 0.08
83 3 0.00
84 225 0.22
86 33 0.03
87 4 0.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.25
Consensus pattern (80 bp):
AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
GAAGGGTTATCTGCC
Found at i:136370 original size:25 final size:25
Alignment explanation
Indices: 136335--136398 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 25
136325 TGAAACATTT
136335 TTTTTGAAAAC-TTATATAATATATAG
1 TTTTT-AAAACATTATA-AATATATAG
*
136361 TTTTTAAAACATTTTAAATATATAG
1 TTTTTAAAACATTATAAATATATAG
*
136386 TTTTAAAAACATT
1 TTTTTAAAACATT
136399 GTTGAAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
25 26 0.74
26 9 0.26
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (25 bp):
TTTTTAAAACATTATAAATATATAG
Found at i:136482 original size:69 final size:68
Alignment explanation
Indices: 136377--136561 Score: 214
Period size: 69 Copynumber: 2.7 Consensus size: 68
136367 AAACATTTTA
* *
136377 AATATATAGTTTTAAAAACATTGTTGAAAATTATATAATATATAGTTTTAAAAACATTTTTGAAA
1 AATATATAGTTTTAAAATCATTTTTGAAAA-TATATAATATATAGTTTTAAAAAC-TTTTTGAAA
*
136442 ACT-T
64 AATAT
* * * *
136446 AA-ATGATATTTTTTAAATCATTTTTGAAAACTATATAATATATAGTTTTGAAAACTTTTTTAAA
1 AATAT-ATAGTTTTAAAATCATTTTTGAAAA-TATATAATATATAGTTTTAAAAACTTTTTGAAA
136510 AATAT
64 AATAT
* * *
136515 AATATATAGTTTAAAAAT-ATTTTTGAAATATACATATTATATAGTTT
1 AATATATAGTTTTAAAATCATTTTTGAAA-ATATATAATATATAGTTT
136562 ATATTATATT
Statistics
Matches: 99, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
68 37 0.37
69 60 0.61
70 2 0.02
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (68 bp):
AATATATAGTTTTAAAATCATTTTTGAAAATATATAATATATAGTTTTAAAAACTTTTTGAAAAA
TAT
Found at i:136515 original size:33 final size:35
Alignment explanation
Indices: 136377--136561 Score: 204
Period size: 33 Copynumber: 5.3 Consensus size: 35
136367 AAACATTTTA
*
136377 AATATATAGTTTTAAAAACATTGTTGAAAATTATAT
1 AATATATAGTTTTAAAAACATTTTTGAAAA-TATAT
136413 AATATATAGTTTTAAAAACATTTTTGAAAACT-TA-
1 AATATATAGTTTTAAAAACATTTTTGAAAA-TATAT
* *
136447 AATGATAT--TTTTTAAATCATTTTTGAAAACTATAT
1 AAT-ATATAGTTTTAAAAACATTTTTGAAAA-TATAT
* *
136482 AATATATAGTTTTGAAAAC-TTTTTTAAAA-ATAT
1 AATATATAGTTTTAAAAACATTTTTGAAAATATAT
* *
136515 AATATATAG-TTTAAAAATATTTTTGAAATATACAT
1 AATATATAGTTTTAAAAACATTTTTGAAA-ATATAT
*
136550 ATTATATAGTTT
1 AATATATAGTTT
136562 ATATTATATT
Statistics
Matches: 128, Mismatches: 12, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
32 7 0.05
33 42 0.33
34 10 0.08
35 29 0.23
36 40 0.31
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (35 bp):
AATATATAGTTTTAAAAACATTTTTGAAAATATAT
Found at i:136567 original size:14 final size:15
Alignment explanation
Indices: 136548--136589 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
136538 TGAAATATAC
*
136548 ATATTATA-TAGTTT
1 ATATTATATTAGTAT
136562 ATATTATATTAGTAT
1 ATATTATATTAGTAT
136577 ATTATTATTATTA
1 A-TATTA-TATTA
136590 TTTTATTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 8 0.33
15 6 0.25
16 5 0.21
17 5 0.21
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (15 bp):
ATATTATATTAGTAT
Found at i:137668 original size:2 final size:2
Alignment explanation
Indices: 137661--137693 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
137651 CACTTACTAT
*
137661 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
137694 TTTTTTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:137735 original size:19 final size:20
Alignment explanation
Indices: 137687--137735 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
137677 TGTATATATA
*
137687 TATATATTTTTTTTGTATTT
1 TATATATTTTTTTAGTATTT
*
137707 TGT-TATTTTTTTTAGT-TTT
1 TATATA-TTTTTTTAGTATTT
137726 TATATATTTT
1 TATATATTTT
137736 CCTAGCGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (20 bp):
TATATATTTTTTTAGTATTT
Done.