Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_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: 7027529
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 26
Found at i:6133246 original size:131 final size:132
Alignment explanation
Indices: 6132911--6133248 Score: 385
Period size: 131 Copynumber: 2.5 Consensus size: 132
6132901 ATTTTGGTCG
* * * ** * * * *
6132911 TCTAAGGGTGACACAACTCATATATGAAGAGGATATCTGGTCGGTGGATGACACGGTCCCTATGC
1 TCTAAGGGTGACTCGACTCCTACGTGATGAGGAGATCTGGTCGG-GGATGACACGGTTCCTACGC
* *
6132976 GATGAGGATGGCTAGCCATCTTTAGGGATGATGATAACACTGTTCCTACATGATGAGGACGGCTG
65 GATGAGGATGGCTAGCCATCTTTAGGGA-GATGATAACACGGTTCATACATGATGAGGACGGCTG
*
6133041 GTTA
129 ATTA
* * * * * **
6133045 TCTAGGGGTGACTCGACTCCTACGTGATAAGGAGATATGGTCGAGGGATGACACGATTTCTACTT
1 TCTAAGGGTGACTCGACTCCTACGTGATGAGGAGATCTGGTCG-GGGATGACACGGTTCCTACGC
* * * * *
6133110 AATGAGGATGGTTGGCTATCTTTA-GG-GATGATAACACGGTTCATACGTGATGAGGACGGCTGA
65 GATGAGGATGGCTAGCCATCTTTAGGGAGATGATAACACGGTTCATACATGATGAGGACGGCTGA
6133173 TTA
130 TTA
*
6133176 TCTAAGGTTGA-TGCGACTCCTACGTGATGAGGAGATCTGGTCGGCGGATGACACGGTTCCTACG
1 TCTAAGGGTGACT-CGACTCCTACGTGATGAGGAGATCTGGTCGG-GGATGACACGGTTCCTACG
6133240 CGATGAGGA
64 CGATGAGGA
6133249 CAACTGGCAA
Statistics
Matches: 168, Mismatches: 33, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
130 2 0.01
131 96 0.57
133 2 0.01
134 67 0.40
135 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.26
Consensus pattern (132 bp):
TCTAAGGGTGACTCGACTCCTACGTGATGAGGAGATCTGGTCGGGGATGACACGGTTCCTACGCG
ATGAGGATGGCTAGCCATCTTTAGGGAGATGATAACACGGTTCATACATGATGAGGACGGCTGAT
TA
Found at i:6133378 original size:65 final size:64
Alignment explanation
Indices: 6133271--6133453 Score: 251
Period size: 65 Copynumber: 2.8 Consensus size: 64
6133261 TTTAGGGATT
* * *
6133271 TGTTTCAAGAGAAATTGTCTCAA-ATGAGGCAAAATTTGTTTCAAGGGAAACATACTCAAATATG
1 TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAATTTGTTTCAAGGGAAACAT-CTCAAAGATG
6133335 A
64 A
* **
6133336 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAAC-ATCTCAAAGATGA
* *
6133401 TGTTTCAAGAGAAACAGTCTCAAGAGAGACAAAACTTTGTTTCAAGTGAAACA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACA
6133454 AATTCAAAAA
Statistics
Matches: 104, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
65 88 0.85
66 16 0.15
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (64 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACATCTCAAAGATGA
Found at i:6133604 original size:34 final size:34
Alignment explanation
Indices: 6133478--6133605 Score: 125
Period size: 36 Copynumber: 3.7 Consensus size: 34
6133468 ATCACAAAGG
* * *
6133478 AAAAA-TGCCTCAAGTGAGACGAAATTTGTTTTGA
1 AAAAATTGTCTCAAGCGAGAC-AAATTTTTTTTGA
* * *
6133512 GAGAAATTGTCTCAAGCGAGACAAAACTTGTTTTTAA
1 -AAAAATTGTCTCAAGCGAGAC-AAA-TTTTTTTTGA
*
6133549 AAAAATTGTCTCAAGCAAGAC-AATTTTTTTTGA
1 AAAAATTGTCTCAAGCGAGACAAATTTTTTTTGA
*
6133582 AAAAACTTGTCTCAAGTGAGACAA
1 AAAAA-TTGTCTCAAGCGAGACAA
6133606 CCCTTTGTTT
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
33 13 0.17
34 16 0.21
35 5 0.07
36 35 0.46
37 7 0.09
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (34 bp):
AAAAATTGTCTCAAGCGAGACAAATTTTTTTTGA
Found at i:6134828 original size:13 final size:12
Alignment explanation
Indices: 6134788--6134881 Score: 61
Period size: 13 Copynumber: 7.5 Consensus size: 12
6134778 TCTTGTCTTC
6134788 TTCTTTT-TTTCT
1 TTCTTTTCTTT-T
*
6134800 TCTCTTTACTTTTT
1 T-TCTTTTC-TTTT
*
6134814 TTGTTTTGCTTTT
1 TTCTTTT-CTTTT
6134827 TTCTTTTCTTTGGT
1 TTCTTTTCTTT--T
*
6134841 TTTTTCTTCTTCTT
1 TTCTT-TTCTT-TT
6134855 TT-TTTTCTTTT
1 TTCTTTTCTTTT
6134866 TTC-TTT-TTTT
1 TTCTTTTCTTTT
6134876 TTCTTT
1 TTCTTT
6134882 GAACTCTGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 21
0.72 0.05 0.23
Matches are distributed among these distances:
10 7 0.10
11 9 0.13
12 10 0.15
13 21 0.31
14 11 0.16
15 8 0.12
16 1 0.01
ACGTcount: A:0.01, C:0.15, G:0.04, T:0.80
Consensus pattern (12 bp):
TTCTTTTCTTTT
Found at i:6134829 original size:31 final size:29
Alignment explanation
Indices: 6134785--6134876 Score: 87
Period size: 31 Copynumber: 3.1 Consensus size: 29
6134775 GCTTCTTGTC
6134785 TTCTTCTTTTTTTCTTCTCTTTACTTTTTT
1 TTCTTC-TTTTTTCTTCTCTTTACTTTTTT
* * **
6134815 TGTTTTGCTTTTTTCTTTTCTTTGGTTTTTT
1 T-TCTT-CTTTTTTCTTCTCTTTACTTTTTT
* *
6134846 CTTCTTCTTTTTT-TTCTTTTTTCTTTTTT
1 -TTCTTCTTTTTTCTTCTCTTTACTTTTTT
6134875 TT
1 TT
6134877 TCTTTGAACT
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
28 2 0.04
29 12 0.24
30 8 0.16
31 26 0.52
32 2 0.04
ACGTcount: A:0.01, C:0.15, G:0.04, T:0.79
Consensus pattern (29 bp):
TTCTTCTTTTTTCTTCTCTTTACTTTTTT
Found at i:6134832 original size:39 final size:37
Alignment explanation
Indices: 6134788--6134881 Score: 95
Period size: 39 Copynumber: 2.4 Consensus size: 37
6134778 TCTTGTCTTC
6134788 TTCTTTTTTTCTTCTCTTTACTT-TT-TTTGTTTTGCTTTT
1 TTCTTTTTTT-TTCT-TTT-CTTCTTCTTT-TTTTGCTTTT
*
6134827 TTCTTTTCTTTGGTT-TTTTCTTCTTCTTTTTTTTCTTTT
1 TTCTTTT-TTT--TTCTTTTCTTCTTCTTTTTTTGCTTTT
6134866 TTCTTTTTTTTTCTTT
1 TTCTTTTTTTTTCTTT
6134882 GAACTCTGCA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
36 2 0.04
37 3 0.06
38 6 0.12
39 28 0.58
40 7 0.15
41 2 0.04
ACGTcount: A:0.01, C:0.15, G:0.04, T:0.80
Consensus pattern (37 bp):
TTCTTTTTTTTTCTTTTCTTCTTCTTTTTTTGCTTTT
Found at i:6134849 original size:48 final size:44
Alignment explanation
Indices: 6134792--6134882 Score: 114
Period size: 48 Copynumber: 2.0 Consensus size: 44
6134782 GTCTTCTTCT
6134792 TTTTTTCTTC-TCTTTACTTTTT-TTGTTTTGCTTTTTTCTTTTCTTTGG
1 TTTTTTCTTCTTCTTT--TTTTTCTT-TTTT-C-TTTTT-TTTTCTTTGG
6134840 TTTTTTCTTCTTCTTTTTTTTCTTTTTTCTTTTTTTTTCTTTG
1 TTTTTTCTTCTTCTTTTTTTTCTTTTTTCTTTTTTTTTCTTTG
6134883 AACTCTGCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
44 9 0.22
45 5 0.12
46 1 0.02
47 9 0.22
48 12 0.29
49 5 0.12
ACGTcount: A:0.01, C:0.14, G:0.05, T:0.79
Consensus pattern (44 bp):
TTTTTTCTTCTTCTTTTTTTTCTTTTTTCTTTTTTTTTCTTTGG
Found at i:6134869 original size:16 final size:17
Alignment explanation
Indices: 6134777--6134881 Score: 64
Period size: 17 Copynumber: 6.4 Consensus size: 17
6134767 TTGCATGTGC
6134777 TTCTTGTCTTCTTCTTTTT
1 TTCTT-TCTTCTT-TTTTT
**
6134796 TTC-TTC-TCTTTACTT
1 TTCTTTCTTCTTTTTTT
* *
6134811 TT-TTTGTT-TTGCTTTT
1 TTCTTTCTTCTT-TTTTT
6134827 TTC-TT-TTCTTTGGTTTT
1 TTCTTTCTTCTTT--TTTT
6134844 TTC-TTCTTC-TTTTTT
1 TTCTTTCTTCTTTTTTT
*
6134859 TTCTTTTTTCTTTTTTT
1 TTCTTTCTTCTTTTTTT
6134876 TTCTTT
1 TTCTTT
6134882 GAACTCTGCA
Statistics
Matches: 68, Mismatches: 8, Indels: 22
0.69 0.08 0.22
Matches are distributed among these distances:
15 18 0.26
16 18 0.26
17 25 0.37
18 4 0.06
19 3 0.04
ACGTcount: A:0.01, C:0.16, G:0.05, T:0.78
Consensus pattern (17 bp):
TTCTTTCTTCTTTTTTT
Found at i:6137719 original size:26 final size:24
Alignment explanation
Indices: 6137655--6137719 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 24
6137645 TATCATAACC
6137655 ATTTT-TTTGAAAAAAAACAATTAA
1 ATTTTATTTG-AAAAAAACAATTAA
* **
6137679 ATATTATTTTTAAAAAACAATTATGA
1 ATTTTATTTGAAAAAAACAATTA--A
*
6137705 CTTTTATTTGAAAAA
1 ATTTTATTTGAAAAA
6137720 TTGGCGATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
24 16 0.52
25 3 0.10
26 12 0.39
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (24 bp):
ATTTTATTTGAAAAAAACAATTAA
Found at i:6140355 original size:3 final size:3
Alignment explanation
Indices: 6140349--6140381 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6140339 TATTATTAGA
6140349 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6140382 TTTTAAGATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6141032 original size:65 final size:65
Alignment explanation
Indices: 6140925--6141098 Score: 226
Period size: 65 Copynumber: 2.7 Consensus size: 65
6140915 TTTAGGGATT
* ** *
6140925 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAGA-CTCAAAGATG
1 TGTTTCAAGAGAAACTATATCAAGGGAGACAAAATTCATTTCAAGGGAAAC-GATCTCAAAGATA
6140989 A
65 A
* * *
6140990 TGTTTCAAGGGAAACTATATCATGGGATACAAAATTCATTTCAAGGGAAACGATCTCAAAGATAA
1 TGTTTCAAGAGAAACTATATCAAGGGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATAA
* *
6141055 TGTTTCAAGAGAAAC-AGTATCAAGTGAGACAAAACTTCGTTTCA
1 TGTTTCAAGAGAAACTA-TATCAAGGGAGACAAAA-TTCATTTCA
6141099 CTTGTTTCAA
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
64 3 0.03
65 83 0.88
66 8 0.09
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTATATCAAGGGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATAA
Found at i:6144165 original size:5 final size:5
Alignment explanation
Indices: 6144141--6144165 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6144131 GATAAGATAA
6144141 AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT
6144166 TTAAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:6144952 original size:20 final size:21
Alignment explanation
Indices: 6144918--6144977 Score: 102
Period size: 21 Copynumber: 2.8 Consensus size: 21
6144908 TAGGGTAGGA
*
6144918 AAAAGGCCAAAAAAAAGGTTT
1 AAAATGCCAAAAAAAAGGTTT
6144939 AAAATGCCAAAAAAAAGGTTT
1 AAAATGCCAAAAAAAAGGTTT
6144960 AAAATGCCAAAACAAAAG
1 AAAATGCCAAAA-AAAAG
6144978 ATCAAAACAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 32 0.86
22 5 0.14
ACGTcount: A:0.60, C:0.12, G:0.15, T:0.13
Consensus pattern (21 bp):
AAAATGCCAAAAAAAAGGTTT
Found at i:6144984 original size:21 final size:21
Alignment explanation
Indices: 6144918--6144984 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
6144908 TAGGGTAGGA
* * *
6144918 AAAAGGCCAAAAAAAAGGTTT
1 AAAATGCCAAAAAAAAGGATC
* *
6144939 AAAATGCCAAAAAAAAGGTTT
1 AAAATGCCAAAAAAAAGGATC
6144960 AAAATGCCAAAACAAAA-GATC
1 AAAATGCCAAAA-AAAAGGATC
6144981 AAAA
1 AAAA
6144985 CAATTAAGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
21 38 0.90
22 4 0.10
ACGTcount: A:0.61, C:0.12, G:0.13, T:0.13
Consensus pattern (21 bp):
AAAATGCCAAAAAAAAGGATC
Found at i:6152284 original size:21 final size:21
Alignment explanation
Indices: 6152237--6152285 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
6152227 ACTTTATAAT
* *
6152237 TTTTCCTGTGATGCAATCAGC
1 TTTTCTTGGGATGCAATCAGC
*
6152258 TTTTCTTGGGATGTAATCAGC
1 TTTTCTTGGGATGCAATCAGC
6152279 TTTTCTT
1 TTTTCTT
6152286 TTGAAATTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.47
Consensus pattern (21 bp):
TTTTCTTGGGATGCAATCAGC
Found at i:6165378 original size:15 final size:16
Alignment explanation
Indices: 6165343--6165379 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
6165333 ACTTTATTCA
6165343 AAATATTTAATTATTAT
1 AAATA-TTAATTATTAT
6165360 -AATATTAATT-TTAT
1 AAATATTAATTATTAT
6165374 AAATAT
1 AAATAT
6165380 AAATAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.21
15 11 0.58
16 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AAATATTAATTATTAT
Found at i:6165704 original size:7 final size:6
Alignment explanation
Indices: 6165663--6165703 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
6165653 TTAATATAAT
6165663 AAAAT- AAAATA AAAATCA AAAACTA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAAT-A AAAA-TA AAAATA AAAATA AAAA
6165704 AATATTGTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.15
6 17 0.52
7 10 0.30
8 1 0.03
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:6166276 original size:46 final size:46
Alignment explanation
Indices: 6166203--6166290 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
6166193 TTTTACAGTG
* *
6166203 TTATTGGAACTCGTCACAGTGATGTGATGACTTCCAATAAAAAAAT
1 TTATTCGAACTCGTCACAGTGAGGTGATGACTTCCAATAAAAAAAT
* *
6166249 TTATTCGAACTCGTCAC-GCTGAGGTGATGAGTTCGAATAAAA
1 TTATTCGAACTCGTCACAG-TGAGGTGATGACTTCCAATAAAA
6166291 TATATTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 1 0.03
46 36 0.97
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (46 bp):
TTATTCGAACTCGTCACAGTGAGGTGATGACTTCCAATAAAAAAAT
Found at i:6168939 original size:51 final size:51
Alignment explanation
Indices: 6168884--6168984 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
6168874 TATGTTAGCA
*
6168884 TATTGGTGTTTATTGAGGTTTAATGGTAGATTTGACTTGTCAACGTGGTAT
1 TATTGGTGTTTATTGAGGTTTAATGGTAGATTTGACTTGTCAAAGTGGTAT
6168935 TATTGGTGTTTATTGAGGTTTAATGGTAGATTTGACTTGTCAAAGTGGTA
1 TATTGGTGTTTATTGAGGTTTAATGGTAGATTTGACTTGTCAAAGTGGTA
6168985 AATGAAAGAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.23, C:0.05, G:0.28, T:0.45
Consensus pattern (51 bp):
TATTGGTGTTTATTGAGGTTTAATGGTAGATTTGACTTGTCAAAGTGGTAT
Found at i:6169896 original size:54 final size:54
Alignment explanation
Indices: 6169837--6170242 Score: 562
Period size: 54 Copynumber: 7.5 Consensus size: 54
6169827 ACCAAATCGA
* * *
6169837 CACTAAGTGTGCATTTCACGGAATTTATCCTATGTGGATGAATAACTGTTTTGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGG
** * *
6169891 CACTAAGTGCACATTTCACGGAATTCATCCTATGTGGATGAGTAACCATTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGG
*
6169945 CACTAA-TAGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
1 CACTAAGT-GTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGG
*
6169999 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGG
* *
6170053 CACTAAGTGTGCATTGCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGG
* * * **
6170107 CACTAAGTCTGCATTTCACAGAATTCATCCTTTGTGGATGAATAACCGTTTTAG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGG
** * * *
6170161 CACTAAGTGTGCATTTCACATAATTTATCTTATGTGGATGAATAACTGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGG
* * ***
6170215 CACCATGTGTGCAAAACACGGAATTCAT
1 CACTAAGTGTGCATTTCACGGAATTCAT
6170243 AATATATTTA
Statistics
Matches: 312, Mismatches: 38, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
53 1 0.00
54 310 0.99
55 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (54 bp):
CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGG
Found at i:6177220 original size:54 final size:54
Alignment explanation
Indices: 6176770--6177245 Score: 589
Period size: 54 Copynumber: 8.9 Consensus size: 54
6176760 ACCAAATTGG
* * *
6176770 CACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTTGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* * * * *
6176824 CACTAAGAGTGCATTTCACGAAATTCATCCTATGTGGATGAATACCCGTTTTGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* *
6176878 CACTAAGTGTGCATTGCACGGAATTCATCCTTTGTGGATGAATAACCGTTTC-A
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
*
6176931 GCACTAAGTGTGCATTTCACGGAATTCATCTTATGTGGATGAATAACCGTTTCGA
1 -CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* * *
6176986 CACTAAGTGTGCATTTCATGGAATTCATCTTATGTGGATGAATAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* * * * *
6177040 TACTAATTGTGCATTGCACAGAATTCATCCTATGTGGATGAATAACCATTTC-A
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* * * * *
6177093 -ACAAAGTGTGCATTTCACAGAATTCATCCTATATGGATGAATAACCATTTTGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* * * *
6177146 AACTAAGTTTGCATTTCACGGAATTCATCATATGCGGATGAATAACCGTTTCGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* * *** ** **
6177200 CACCATGTGTGCAAAACACGGAATTCATAATATGTTTATGAATAAC
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAAC
6177246 AATATGGGCA
Statistics
Matches: 372, Mismatches: 46, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
52 46 0.12
53 1 0.00
54 324 0.87
55 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (54 bp):
CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
Found at i:6185914 original size:20 final size:20
Alignment explanation
Indices: 6185889--6185934 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
6185879 TTGTGTCATC
6185889 TGCTAGTGTTATTTTCTTAT
1 TGCTAGTGTTATTTTCTTAT
6185909 TGCTAGTGTTATTTTCTTAT
1 TGCTAGTGTTATTTTCTTAT
6185929 TGCTAG
1 TGCTAG
6185935 GATAGGGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.11, G:0.17, T:0.57
Consensus pattern (20 bp):
TGCTAGTGTTATTTTCTTAT
Found at i:6189212 original size:29 final size:29
Alignment explanation
Indices: 6189162--6189219 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
6189152 TTATATTTAT
* * *
6189162 AAAAACTTCAATTTCTCTAAAATTATAAA
1 AAAAACTCCAATTTCTCAAAAATCATAAA
6189191 AAAAACTCCAAATTTCT-AAAAATCATAAA
1 AAAAACTCC-AATTTCTCAAAAATCATAAA
6189220 TATCTAATCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (29 bp):
AAAAACTCCAATTTCTCAAAAATCATAAA
Found at i:6189971 original size:17 final size:18
Alignment explanation
Indices: 6189949--6189992 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
6189939 ATAATTTAAT
6189949 TTTTAAAATTATAAAA-A
1 TTTTAAAATTATAAAATA
* *
6189966 TTTT-AAATCATAAAATC
1 TTTTAAAATTATAAAATA
6189983 TTTTAAAATT
1 TTTTAAAATT
6189993 TTATACCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 10 0.45
17 8 0.36
18 4 0.18
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
TTTTAAAATTATAAAATA
Found at i:6191238 original size:20 final size:20
Alignment explanation
Indices: 6191213--6191262 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
6191203 TTTTTAAGTT
6191213 TAATAGTACCGATACTACAA
1 TAATAGTACCGATACTACAA
6191233 TAATAGTACCGATACTACAA
1 TAATAGTACCGATACTACAA
6191253 TAATAGTACC
1 TAATAGTACC
6191263 AATATTATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (20 bp):
TAATAGTACCGATACTACAA
Found at i:6202332 original size:21 final size:21
Alignment explanation
Indices: 6202306--6202352 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
6202296 TTAGGTCATT
6202306 GGCTACTAGTTTTCTTTCTCG
1 GGCTACTAGTTTTCTTTCTCG
6202327 GGCTACTAGTTTTCTTTCTCG
1 GGCTACTAGTTTTCTTTCTCG
6202348 GGCTA
1 GGCTA
6202353 ACTCATAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.45
Consensus pattern (21 bp):
GGCTACTAGTTTTCTTTCTCG
Found at i:6206673 original size:55 final size:55
Alignment explanation
Indices: 6206521--6206673 Score: 243
Period size: 55 Copynumber: 2.8 Consensus size: 55
6206511 TCAAAGGATT
* *
6206521 CATGAAGAAAGACATTCGATGAATGAAGAAATTTGAAATTCATTGAAGACCGATC
1 CATGAAGAAAGACATCCGATGAATGAAGAAATTTGAAATTGATTGAAGACCGATC
* *
6206576 CATTAAGAATGACATCCGATGAATGAAGAAATTTGAAATTGATTGAAGACCGATC
1 CATGAAGAAAGACATCCGATGAATGAAGAAATTTGAAATTGATTGAAGACCGATC
* * *
6206631 CATGAAGAAAGACATCCGATGAAGGAAGAAGTTTGAAGTTGAT
1 CATGAAGAAAGACATCCGATGAATGAAGAAATTTGAAATTGAT
6206674 CGAATACTTC
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (55 bp):
CATGAAGAAAGACATCCGATGAATGAAGAAATTTGAAATTGATTGAAGACCGATC
Found at i:6211253 original size:8 final size:8
Alignment explanation
Indices: 6211240--6211348 Score: 64
Period size: 8 Copynumber: 13.2 Consensus size: 8
6211230 CTTGAAGAAT
6211240 AAAAGGAA
1 AAAAGGAA
6211248 AAAAGGGAA
1 AAAA-GGAA
6211257 AAAAGAGAA
1 AAAAG-GAA
*
6211266 AAAATG-A
1 AAAAGGAA
*
6211273 AAAATGAA
1 AAAAGGAA
*
6211281 AAAAAGACTA
1 AAAAGGA--A
*
6211291 AAAATGAAAAA
1 AAAA-G--GAA
6211302 AAAAGG-A
1 AAAAGGAA
6211309 AAAAGG-A
1 AAAAGGAA
6211316 AAAAGGAA
1 AAAAGGAA
*
6211324 AAATGG-A
1 AAAAGGAA
*
6211331 AAAATGAA
1 AAAAGGAA
*
6211339 AAAATGAA
1 AAAAGGAA
6211347 AA
1 AA
6211349 GAAAAGAGAA
Statistics
Matches: 83, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
7 26 0.31
8 30 0.36
9 15 0.18
10 6 0.07
11 5 0.06
13 1 0.01
ACGTcount: A:0.73, C:0.01, G:0.19, T:0.06
Consensus pattern (8 bp):
AAAAGGAA
Found at i:6211282 original size:6 final size:7
Alignment explanation
Indices: 6211265--6211348 Score: 63
Period size: 7 Copynumber: 12.6 Consensus size: 7
6211255 AAAAAAGAGA
6211265 AAAAATG
1 AAAAATG
6211272 AAAAATG
1 AAAAATG
6211279 AAAAA--
1 AAAAATG
* *
6211284 AAGACT-
1 AAAAATG
6211290 AAAAATG
1 AAAAATG
6211297 -AAAA--
1 AAAAATG
*
6211301 AAAAAGG
1 AAAAATG
*
6211308 AAAAAGG
1 AAAAATG
*
6211315 AAAAAGG
1 AAAAATG
6211322 AAAAATGG
1 AAAAAT-G
6211330 AAAAATG
1 AAAAATG
6211337 AAAAAATG
1 -AAAAATG
6211345 AAAA
1 AAAA
6211349 GAAAAGAGAA
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
5 7 0.11
6 8 0.12
7 36 0.55
8 14 0.22
ACGTcount: A:0.74, C:0.01, G:0.17, T:0.08
Consensus pattern (7 bp):
AAAAATG
Found at i:6211364 original size:11 final size:12
Alignment explanation
Indices: 6211344--6211376 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
6211334 ATGAAAAAAT
6211344 GAAAAGAAAAGA
1 GAAAAGAAAAGA
6211356 GAAAA-AAAAGA
1 GAAAAGAAAAGA
*
6211367 GAAAATAAAA
1 GAAAAGAAAA
6211377 ACCATGTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (12 bp):
GAAAAGAAAAGA
Found at i:6211377 original size:58 final size:59
Alignment explanation
Indices: 6211240--6211371 Score: 153
Period size: 58 Copynumber: 2.2 Consensus size: 59
6211230 CTTGAAGAAT
* *
6211240 AAAAGGAAAAAAGGGAAAAAAGAGAAAAAATGAAAAATGAAAAAAAGACTAAAAATGAAAAA
1 AAAAGG-AAAAA-GG-AAAAAGAGAAAAAATGAAAAATGAAAAAAAGACAAAAAAAGAAAAA
*
6211302 AAAAGGAAAAAGGAAAAAG-G-AAAAATGGAAAAATGAAAAAATGA-AAAGAAAAGAGAAAA
1 AAAAGGAAAAAGGAAAAAGAGAAAAAAT-GAAAAATGAAAAAAAGACAAA-AAAAGA-AAAA
6211361 AAAAGAGAAAA
1 AAAAG-GAAAA
6211372 TAAAAACCAT
Statistics
Matches: 63, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
57 8 0.13
58 22 0.35
59 15 0.24
60 7 0.11
61 5 0.08
62 6 0.10
ACGTcount: A:0.74, C:0.01, G:0.20, T:0.05
Consensus pattern (59 bp):
AAAAGGAAAAAGGAAAAAGAGAAAAAATGAAAAATGAAAAAAAGACAAAAAAAGAAAAA
Found at i:6212671 original size:37 final size:37
Alignment explanation
Indices: 6212615--6213017 Score: 348
Period size: 37 Copynumber: 10.8 Consensus size: 37
6212605 TAAAGAAGTG
* *
6212615 AATCAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCA
1 AATCCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCA
* *
6212652 AATCCCTCTTAAGCCTTCACAGAAGAGTAGTGAAGCA
1 AATCCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCA
* * * * * *** *
6212689 AATTCATCAGTAAGCCTTCCTAGCATGATGATTAAGT-CCTCGG
1 AATCCATC-TTAAGCCTT-C-A-C-CGAAGAGT-AGTGAAGC-A
* * * *
6212732 GA-CCATCTAAAGCCTTCACCGAATAATAGTGAAGCA
1 AATCCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCA
6212768 AATCCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCA
1 AATCCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCA
* * * *
6212805 AATCAATCTTAAGCATGCACCGAAGAGTAGTGAAGTA
1 AATCCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCA
* *
6212842 AATCCATCTTAAGTCTTCACCGAGGAGTAGTGAAGCA
1 AATCCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCA
*
6212879 AAT-CAGTCTTAAGCCTTCACCGAGGAGTAGTGAAGCA
1 AATCCA-TCTTAAGCCTTCACCGAAGAGTAGTGAAGCA
* ** *
6212916 AAT-CAGTCTTGAGCCTTCACTTAAGAGTAGTAAAG-A
1 AATCCA-TCTTAAGCCTTCACCGAAGAGTAGTGAAGCA
* * * *
6212952 AAACCTATCTTAAGCCTTCATCGAAAAGTAGTAAAGCA
1 AATCC-ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCA
* * * * *
6212990 AATTCATTTTAAACCTTCTCGGAAGAGT
1 AATCCATCTTAAGCCTTCACCGAAGAGT
6213018 GTTGGAGCAA
Statistics
Matches: 293, Mismatches: 60, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
36 9 0.03
37 244 0.83
38 14 0.05
39 2 0.01
40 2 0.01
41 8 0.03
42 10 0.03
43 4 0.01
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCCATCTTAAGCCTTCACCGAAGAGTAGTGAAGCA
Found at i:6213704 original size:55 final size:54
Alignment explanation
Indices: 6213378--6213983 Score: 808
Period size: 54 Copynumber: 11.2 Consensus size: 54
6213368 AAATTATTAT
* * *
6213378 AGAAGATTTTTCAAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGA
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
*
6213432 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGT
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* *
6213486 AGAAGATTGTTTGAGTTCCTACTCCCTAAAGAAATAGGGAGCGAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* *
6213540 AGAAGATTGTTCGAGTTCCTACTCCCTAACGAAAGAGGGAGCGAACCCGTATGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * *
6213594 AGAAGATTGTTTGAGTTCTTACTCCCTAAAGAAAGAGGGAGCGAACCCATTGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* ** * *
6213648 AGAATATTGTTTAAGTTCCTACTCCCTGAAAGAAAGAGGGAGCAAACCCATAGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCT-AAAGAAAGAGGGAGCGAACCCGTAGGC
* * *
6213703 AGAATATTGTTCGAGTTCCTACTCCTTGAAAGAAAGAAGGAGCGAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCT-AAAGAAAGAGGGAGCGAACCCGTAGGC
* * *
6213758 AGAAGATTGTTCGAGTTCTTACTTCCTGAAAGAAAGAGGGAGCGAACCCGTGGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCT-AAAGAAAGAGGGAGCGAACCCGTAGGC
* * * * *
6213813 AGAAGATTGTTCGAGTT-CTACTCCCTAAAGTAAGAGGGAGCGGACCCATATGT
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * * *
6213866 AGAAGATTGTTCGAGTT-ATACTCCCTGAAGCAATAGGGAGCGAACCCGTAGGA
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * *
6213919 AGTAGATTGTTCGAGTT-CTACTCCCTGAAGCAAGAGGGAGCGAACCCGCT-GGTC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCG-TAGG-C
6213973 -GAAGATTGTTC
1 AGAAGATTGTTC
6213984 AAAGAAGAGG
Statistics
Matches: 495, Mismatches: 54, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
53 123 0.25
54 232 0.47
55 140 0.28
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (54 bp):
AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
Found at i:6216157 original size:64 final size:65
Alignment explanation
Indices: 6216079--6216208 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 65
6216069 GTTGTTTAAG
6216079 TCATATTTGTTCATTAAATATTACTATGTATATAGTATATATTTTTTTAG-TATGAAAATATGTA
1 TCATATTTGTTCATTAAATATTACTATGTATATAGTATATATTTTTTTAGTTATGAAAATATGTA
6216143 TCATATTTGTTCATTAAATATTACTATGTATATAGTATATATTTTTTTAGTTATGAAAATATGTA
1 TCATATTTGTTCATTAAATATTACTATGTATATAGTATATATTTTTTTAGTTATGAAAATATGTA
6216208 T
1 T
6216209 AATTTTAATA
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
64 50 0.77
65 15 0.23
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (65 bp):
TCATATTTGTTCATTAAATATTACTATGTATATAGTATATATTTTTTTAGTTATGAAAATATGTA
Found at i:6221866 original size:20 final size:19
Alignment explanation
Indices: 6221837--6221878 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
6221827 AATGTGTTCC
*
6221837 ATTGAACAATGTTTTCAGTT
1 ATTGAACAATGGTTTCA-TT
*
6221857 ATTGACCAATGGTTTCATT
1 ATTGAACAATGGTTTCATT
6221876 ATT
1 ATT
6221879 TAATGTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (19 bp):
ATTGAACAATGGTTTCATT
Found at i:6224131 original size:28 final size:28
Alignment explanation
Indices: 6224086--6224153 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
6224076 ATTATTAGAT
*
6224086 TTTTAATTTTATCAATTATAGCATTGAA
1 TTTTAATTTTACCAATTATAGCATTGAA
* *
6224114 TTTTAATATTACCGATTATAGCATTGAA
1 TTTTAATTTTACCAATTATAGCATTGAA
6224142 TTTTAATTTTAC
1 TTTTAATTTTAC
6224154 ATTTAATTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (28 bp):
TTTTAATTTTACCAATTATAGCATTGAA
Found at i:6228220 original size:22 final size:21
Alignment explanation
Indices: 6228192--6228232 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
6228182 GGTTGTGGAA
6228192 TTGATGGTCTTGATGGATGATG
1 TTGATGGTCTTGAT-GATGATG
*
6228214 TTGATGGTGTTGATGATGA
1 TTGATGGTCTTGATGATGA
6228233 AATGGAGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.20, C:0.02, G:0.37, T:0.41
Consensus pattern (21 bp):
TTGATGGTCTTGATGATGATG
Found at i:6240113 original size:11 final size:11
Alignment explanation
Indices: 6240097--6240159 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
6240087 AAAATTATAT
6240097 TATTAAAAATA
1 TATTAAAAATA
6240108 TATTAAAAATA
1 TATTAAAAATA
* * ***
6240119 CACTATTGATA
1 TATTAAAAATA
6240130 -ATTATAAAAT-
1 TATTA-AAAATA
6240140 T-TTAAAAATA
1 TATTAAAAATA
6240150 TATTAAAAAT
1 TATTAAAAAT
6240160 TCTATAATAC
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 27 0.69
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:6247853 original size:14 final size:14
Alignment explanation
Indices: 6247834--6247906 Score: 64
Period size: 14 Copynumber: 5.4 Consensus size: 14
6247824 TAGTTTTAAG
*
6247834 GTTTAAGGGTTAGA
1 GTTTAAGGTTTAGA
* *
6247848 GTTTAAGATTTATGG
1 GTTTAAGGTTTA-GA
6247863 GTTTAA-G-TTAG-
1 GTTTAAGGTTTAGA
6247874 GTTTAAGGTTTAGA
1 GTTTAAGGTTTAGA
*
6247888 CTTT-AGGCTTTAGA
1 GTTTAAGG-TTTAGA
6247902 GTTTA
1 GTTTA
6247907 TGATGATGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
11 6 0.13
12 2 0.04
13 10 0.21
14 22 0.47
15 7 0.15
ACGTcount: A:0.26, C:0.03, G:0.27, T:0.44
Consensus pattern (14 bp):
GTTTAAGGTTTAGA
Found at i:6248272 original size:16 final size:16
Alignment explanation
Indices: 6248250--6248295 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
6248240 ATTAAATTAG
6248250 TTTTATTAATTGATTCA
1 TTTTATTAATT-ATTCA
*
6248267 -TTTATTGATTATTCA
1 TTTTATTAATTATTCA
6248282 TTTTATTAGATTAT
1 TTTTATTA-ATTAT
6248296 AAATTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 5 0.20
16 15 0.60
17 5 0.20
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (16 bp):
TTTTATTAATTATTCA
Found at i:6249191 original size:81 final size:81
Alignment explanation
Indices: 6248836--6249192 Score: 491
Period size: 81 Copynumber: 4.4 Consensus size: 81
6248826 ATGTAACCGA
* * * * * ** *
6248836 TTATGCCAAATTGAACTGTTAAGCATTTAGTCTTTCATCTAAAACCATTTAACCTTTCATATAAC
1 TTATGCCAAA-TGCACAGTTAGGCATTTAATCTTTCATCCAAAGGCATTTAACCTTTCATCTAAC
*
6248901 TTGCATTATTGACACCT
65 TTGCATTATTGGCACCT
*
6248918 TTCA-GCCAAATGCACAGTTAGGTATTTAATCTTTCATCACAAAGGCATTTAACCTTTCATCTAA
1 TT-ATGCCAAATGCACAGTTAGGCATTTAATCTTTCATC-CAAAGGCATTTAACCTTTCATCTAA
6248982 CTTGCATTATTGGCACCT
64 CTTGCATTATTGGCACCT
* * * *
6249000 TTCTTCCAAATGCACAGTTAGGCATTTAAGCTTTCATCCAAATGCATTTAACCTTTCATCTAACT
1 TTATGCCAAATGCACAGTTAGGCATTTAATCTTTCATCCAAAGGCATTTAACCTTTCATCTAACT
*
6249065 TGCATTATTCGCACCT
66 TGCATTATTGGCACCT
* *
6249081 TTCTACCAAATGCACAGTTAGGCATTTAATCTTTCATCCAAAGGCATTTAACCTTTCATCTAACT
1 TTATGCCAAATGCACAGTTAGGCATTTAATCTTTCATCCAAAGGCATTTAACCTTTCATCTAACT
*
6249146 TGCATTATTGGCACAT
66 TGCATTATTGGCACCT
** *
6249162 TTATGGAAAATGCACATTTAGGCATTTAATC
1 TTATGCCAAATGCACAGTTAGGCATTTAATC
6249193 AAACATATGA
Statistics
Matches: 246, Mismatches: 26, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
81 166 0.67
82 79 0.32
83 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (81 bp):
TTATGCCAAATGCACAGTTAGGCATTTAATCTTTCATCCAAAGGCATTTAACCTTTCATCTAACT
TGCATTATTGGCACCT
Found at i:6249632 original size:95 final size:95
Alignment explanation
Indices: 6249512--6249694 Score: 253
Period size: 96 Copynumber: 1.9 Consensus size: 95
6249502 TACCTTTACC
*
6249512 ATGGTATCAATACTCCTTTTCAGTATTGATACCATTTCTACATTCTAG-ATCCATGGTATCGATA
1 ATGGTATCAATACTCCTTTTCAGTATCGATACCATTTCTACATTCTAGAATCCATGGTATCGATA
* *
6249576 CCTTTATCTTCGTATTGATACTTCTATACT
66 CCTTTATCTTAGTATCGATACTTCTATACT
* * * * *
6249606 ATGGTA-CTAATACTTCTTTTTCAGTATCGATATCATTTCTACCTTCTGGAATCCTTGGTATCGA
1 ATGGTATC-AATAC-TCCTTTTCAGTATCGATACCATTTCTACATTCTAGAATCCATGGTATCGA
*
6249670 TACCTTTTTCTTAGTATCGATACTT
64 TACCTTTATCTTAGTATCGATACTT
6249695 ACATCAGTAT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
93 1 0.01
94 11 0.14
95 30 0.39
96 35 0.45
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.44
Consensus pattern (95 bp):
ATGGTATCAATACTCCTTTTCAGTATCGATACCATTTCTACATTCTAGAATCCATGGTATCGATA
CCTTTATCTTAGTATCGATACTTCTATACT
Found at i:6254689 original size:45 final size:44
Alignment explanation
Indices: 6254636--6254980 Score: 447
Period size: 45 Copynumber: 7.7 Consensus size: 44
6254626 TATTCATTAT
* * *
6254636 TTTCATTTATTGCATCATTTCATGCCTTTAATGCATAATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCAT-GTTATGCA
** *
6254681 TTTCATTTATGAAATCCTTTCATTCCTTTAATGCACTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCA-TGTTATGCA
* * *
6254726 TTTCATTTATGGCATCCTTTCATGACTTTAATGCACAGTTATACA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCA-TGTTATGCA
* *
6254771 TTTCATTTATGGCATTCTTTCATGCTTTTAATGCACTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCA-TGTTATGCA
* * *
6254816 TTTCGTTTATGGCATCCTTTTAATGCCTTTAATGCACTATTATGCA
1 TTTCATTTATGGCATCC-TTTCATGCCTTTAATGCA-TGTTATGCA
*
6254862 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCA-TGTTATGCA
* *
6254907 TTTCATTTATGGCATCCTTTCATGCTTTTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCA-TGTTATGCA
* *
6254952 TTTAATTTATGGCATCCGTTCATGCCTTT
1 TTTCATTTATGGCATCCTTTCATGCCTTT
6254981 GCTTACTATT
Statistics
Matches: 268, Mismatches: 30, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
45 226 0.84
46 42 0.16
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (44 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGCATGTTATGCA
Found at i:6254791 original size:90 final size:90
Alignment explanation
Indices: 6254636--6254980 Score: 503
Period size: 90 Copynumber: 3.8 Consensus size: 90
6254626 TATTCATTAT
* * * * **
6254636 TTTCATTTATTGCATCATTTCATGCCTTTAATGCATAATTATGCATTTCATTTATGAAATCCTTT
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACAGTTATGCATTTCATTTATGGCATCCTTT
*
6254701 CATTCCTTTAATGCACTGTTATGCA
66 CATGCCTTTAATGCACTGTTATGCA
* * *
6254726 TTTCATTTATGGCATCCTTTCATGACTTTAATGCACAGTTATACATTTCATTTATGGCATTCTTT
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACAGTTATGCATTTCATTTATGGCATCCTTT
*
6254791 CATGCTTTTAATGCACTGTTATGCA
66 CATGCCTTTAATGCACTGTTATGCA
* *
6254816 TTTCGTTTATGGCATCCTTTTAATGCCTTTAATGCACTA-TTATGCATTTCATTTATGGCATCCT
1 TTTCATTTATGGCATCC-TTTCATGCCTTTAATGCAC-AGTTATGCATTTCATTTATGGCATCCT
*
6254880 TTCATGCCTTTAATGCACCGTTATGCA
64 TTCATGCCTTTAATGCACTGTTATGCA
* * * *
6254907 TTTCATTTATGGCATCCTTTCATGCTTTTAATGCACCGTTATGCATTTAATTTATGGCATCCGTT
1 TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACAGTTATGCATTTCATTTATGGCATCCTTT
6254972 CATGCCTTT
66 CATGCCTTT
6254981 GCTTACTATT
Statistics
Matches: 228, Mismatches: 24, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
90 146 0.64
91 81 0.36
92 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (90 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTAATGCACAGTTATGCATTTCATTTATGGCATCCTTT
CATGCCTTTAATGCACTGTTATGCA
Found at i:6254893 original size:136 final size:135
Alignment explanation
Indices: 6254636--6254980 Score: 496
Period size: 136 Copynumber: 2.5 Consensus size: 135
6254626 TATTCATTAT
* * * **
6254636 TTTCATTTATTGCA-TCATTTCATGCCTTTAATGCA-TAATTATGCATTTCATTTATGAAATCCT
1 TTTCATTTATGGCATTC-TTTCATGCTTTTAATGCACT-GTTATGCATTTCATTTATGGCATCCT
* * *
6254699 TTCATTCCTTTAATGCACTGTTATGCATTTCATTTATGGCATCCTTTCATGACTTTAATGCACAG
64 TTAATGCCTTTAATGCACTATTATGCATTTCATTTATGGCATCCTTTCATGACTTTAATGCACAG
6254764 TTATACA
129 TTATACA
*
6254771 TTTCATTTATGGCATTCTTTCATGCTTTTAATGCACTGTTATGCATTTCGTTTATGGCATCCTTT
1 TTTCATTTATGGCATTCTTTCATGCTTTTAATGCACTGTTATGCATTTCATTTATGGCATCC-TT
* *
6254836 TAATGCCTTTAATGCACTATTATGCATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGT
65 TAATGCCTTTAATGCACTATTATGCATTTCATTTATGGCATCCTTTCATGACTTTAATGCACAGT
*
6254901 TATGCA
130 TATACA
* * * *
6254907 TTTCATTTATGGCATCCTTTCATGCTTTTAATGCACCGTTATGCATTTAATTTATGGCATCCGTT
1 TTTCATTTATGGCATTCTTTCATGCTTTTAATGCACTGTTATGCATTTCATTTATGGCATCCTTT
*
6254972 CATGCCTTT
66 AATGCCTTT
6254981 GCTTACTATT
Statistics
Matches: 189, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
135 61 0.32
136 128 0.68
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (135 bp):
TTTCATTTATGGCATTCTTTCATGCTTTTAATGCACTGTTATGCATTTCATTTATGGCATCCTTT
AATGCCTTTAATGCACTATTATGCATTTCATTTATGGCATCCTTTCATGACTTTAATGCACAGTT
ATACA
Found at i:6254955 original size:19 final size:19
Alignment explanation
Indices: 6254883--6254957 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 19
6254873 GCATCCTTTC
*
6254883 ATGCCTTTAATGCACCGTT
1 ATGCATTTAATGCACCGTT
*
6254902 ATGCATTTCATTTATGGCATCCTTT
1 ATGCATTT-A---AT-GCA-CCGTT
*
6254927 CATGCTTTTAATGCACCGTT
1 -ATGCATTTAATGCACCGTT
6254947 ATGCATTTAAT
1 ATGCATTTAAT
6254958 TTATGGCATC
Statistics
Matches: 44, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
19 17 0.39
20 5 0.11
21 3 0.07
22 2 0.05
23 2 0.05
24 3 0.07
25 5 0.11
26 7 0.16
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (19 bp):
ATGCATTTAATGCACCGTT
Found at i:6256116 original size:22 final size:22
Alignment explanation
Indices: 6256082--6256123 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6256072 GCACTGTTAA
**
6256082 GCATTTAGTCTTTCATCTAAAG
1 GCATTTAACCTTTCATCTAAAG
*
6256104 GCATTTAACCTTTTATCTAA
1 GCATTTAACCTTTCATCTAA
6256124 CTTGCATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (22 bp):
GCATTTAACCTTTCATCTAAAG
Found at i:6256191 original size:81 final size:81
Alignment explanation
Indices: 6256054--6256421 Score: 479
Period size: 81 Copynumber: 4.5 Consensus size: 81
6256044 CAATAAATGG
* * * * * *
6256054 CACCGTTTATGTCAAATTGCACTGTTAAGCATTTAGTCTTTCATCTAAAGGCATTTAACCTTTTA
1 CACC-TTTATGCCAAA-TGCACAGTTAGGCATTTAATCTTTCATCCAAAGGCATTTAACCTTTCA
6256119 TCTAACTTGCATTATTGA
64 TCTAACTTGCATTATTGA
* *
6256137 CACCTTTAT-CCAAATGCGCAGTTAGGCATTTAATCTTTCATCCCAAAGGCATTTAATCTTTCAT
1 CACCTTTATGCCAAATGCACAGTTAGGCATTTAATCTTTCAT-CCAAAGGCATTTAACCTTTCAT
*
6256201 CTAACTTGCATTATTGG
65 CTAACTTGCATTATTGA
* * * * * *
6256218 TACCTTTCTGCCAAATGCATAGTTAGACATTTACTCTTTCATCCAAAGGCATTTAACCATTCATC
1 CACCTTTATGCCAAATGCACAGTTAGGCATTTAATCTTTCATCCAAAGGCATTTAACCTTTCATC
6256283 TAACTTGCATTATTGGA
66 TAACTTGCATTATT-GA
* *
6256300 -ACCTTTATGCCAAATGCATAGTTAGGCATTTAATATTTCATCCAAAGGCATTTAACCTTTCATC
1 CACCTTTATGCCAAATGCACAGTTAGGCATTTAATCTTTCATCCAAAGGCATTTAACCTTTCATC
* *
6256364 TAACTTACATTATTGG
66 TAACTTGCATTATTGA
* * * *
6256380 CATCTTTCTTCCAAATGCTCAGTTAGGCATTTAATCTTTCAT
1 CACCTTTATGCCAAATGCACAGTTAGGCATTTAATCTTTCAT
6256422 TTTAGCACAG
Statistics
Matches: 250, Mismatches: 31, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
80 24 0.10
81 188 0.75
82 34 0.14
83 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (81 bp):
CACCTTTATGCCAAATGCACAGTTAGGCATTTAATCTTTCATCCAAAGGCATTTAACCTTTCATC
TAACTTGCATTATTGA
Found at i:6256860 original size:19 final size:19
Alignment explanation
Indices: 6256836--6256884 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
6256826 CCCTACCATG
* *
6256836 GTATCGATATCTCCTTTCA
1 GTATCGATACCCCCTTTCA
**
6256855 GTATCGATACCCCCTTTTT
1 GTATCGATACCCCCTTTCA
6256874 GTATCGATACC
1 GTATCGATACC
6256885 ATTTCTACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (19 bp):
GTATCGATACCCCCTTTCA
Found at i:6270358 original size:30 final size:31
Alignment explanation
Indices: 6270302--6270362 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
6270292 TAGTTAACAA
6270302 AAAAATATTATCAAAAGATCACATTGAATAAT
1 AAAAATATTATCAAAAGATCACATTG-ATAAT
6270334 AAAAATAATTA-CAAAA-AT-ACATTGATAAT
1 AAAAAT-ATTATCAAAAGATCACATTGATAAT
6270363 TTTAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
29 5 0.18
30 6 0.21
31 2 0.07
32 11 0.39
33 4 0.14
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (31 bp):
AAAAATATTATCAAAAGATCACATTGATAAT
Found at i:6273448 original size:35 final size:35
Alignment explanation
Indices: 6273409--6273491 Score: 112
Period size: 35 Copynumber: 2.4 Consensus size: 35
6273399 TGTTGCATTG
* *
6273409 AGATAATTCACAACAGTGTGTCATGTGTTGTAGTC
1 AGATAATGCACAACAGTATGTCATGTGTTGTAGTC
** * *
6273444 AGATAATGCACATTAGTATGTCATGTTTTGTATTC
1 AGATAATGCACAACAGTATGTCATGTGTTGTAGTC
6273479 AGATAATGCACAA
1 AGATAATGCACAA
6273492 AAATTCCAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (35 bp):
AGATAATGCACAACAGTATGTCATGTGTTGTAGTC
Found at i:6274680 original size:28 final size:28
Alignment explanation
Indices: 6274640--6274699 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
6274630 ACAAAAGTTT
*
6274640 ATAGGGTTTGGAGATTATAATATAATTA
1 ATAGAGTTTGGAGATTATAATATAATTA
* * *
6274668 ATAGAGTTTGGAGTTTATGATATAATTT
1 ATAGAGTTTGGAGATTATAATATAATTA
6274696 ATAG
1 ATAG
6274700 TTTTTAGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.42
Consensus pattern (28 bp):
ATAGAGTTTGGAGATTATAATATAATTA
Found at i:6294770 original size:447 final size:447
Alignment explanation
Indices: 6293936--6294818 Score: 1568
Period size: 447 Copynumber: 2.0 Consensus size: 447
6293926 AAGTTTTTGA
*
6293936 AATATTTACAGATGCAACATACACCCTATACATCAACAAGTCCATTGGACTTTCCTCTTGTTTCT
1 AATATTTACAGATGCAACATACACCCTATACATCAACAAGTCCATTGGACTTTCCTCTTGTTTAT
*
6294001 CATCACAAGTCTTTGCACACTTATGTACAGAAACACCTCTTTTGCATTTCATCTCTATCAACACT
66 CATCACAAGTCTTTGCACACTTATGTACAGAAACACCTCTTTTACATTTCATCTCTATCAACACT
* *
6294066 TTTCCACGAACTAGCTCAATCACCACCTCGACTATATTGAAAGAAAACACTTACCATTCTTGACT
131 TTTCCACAAACTAGCTCAATCACCACCTCGACTATATTGAAAGAAAACACTTACCATTATTGACT
*
6294131 GTAAATGCAAGATGACTTAATGGTAAGCCCACCTAACTTACCATGTTTACCATTTTCTACAAATT
196 GCAAATGCAAGATGACTTAATGGTAAGCCCACCTAACTTACCATGTTTACCATTTTCTACAAATT
6294196 CACCTAGAACACTCGTTGCACCAACAATGAGTCGATCTGATACTACTTTTCATGGGCTAGAGTTT
261 CACCTAGAACACTCGTTGCACCAACAATGAGTCGATCTGATACTACTTTTCATGGGCTAGAGTTT
*
6294261 CAACTATCCAATCATAATGCCTTAGACGCTTTCTAGAATGAATTAACGCCTAAGTCAGCCTTAAC
326 CAACTATCCAATCATAATGCCTTAGACACTTTCTAGAATGAATTAACGCCTAAGTCAGCCTTAAC
* *
6294326 TATGTCCTTGTGAGAAATTCAACTCTCTAAGCGACGATTACACCAACAAAGATGAGG
391 TATGTCCTTGTCAGAAATTCAACTCTCTAAGCAACGATTACACCAACAAAGATGAGG
*
6294383 AATATTTACAGATGCAACATACACCCTCTACATCAACAAGTCCATTGGACTTTCCTCTTGTTTAT
1 AATATTTACAGATGCAACATACACCCTATACATCAACAAGTCCATTGGACTTTCCTCTTGTTTAT
* *
6294448 CATCACAAGTCTTTGCACAGTTATGTACAGAAACACCTCTTTTACGTTTCATCTCTATCAACACT
66 CATCACAAGTCTTTGCACACTTATGTACAGAAACACCTCTTTTACATTTCATCTCTATCAACACT
* *
6294513 TTTCCACAAACTAGCTCGATCACCACCTCGACTATATTGAAAGAAAACACTTATCATTATTGACT
131 TTTCCACAAACTAGCTCAATCACCACCTCGACTATATTGAAAGAAAACACTTACCATTATTGACT
* * *
6294578 GCAAATGCAAGATGGCTTAATGGTAAGCCCACCTAACTTACCCTTTTTACCATTTTCTACAAATT
196 GCAAATGCAAGATGACTTAATGGTAAGCCCACCTAACTTACCATGTTTACCATTTTCTACAAATT
* *
6294643 CACCTGGAACACTCGTTGCACCAACAATGAGTCGATCTGATACTACTTTTCATGGGCTAGATTTT
261 CACCTAGAACACTCGTTGCACCAACAATGAGTCGATCTGATACTACTTTTCATGGGCTAGAGTTT
* * *
6294708 CAACTATCCAATCATATTGCCTTAGACACTTTCTAGAATGAATTGACGTCTAAGTCAGCCTTAAC
326 CAACTATCCAATCATAATGCCTTAGACACTTTCTAGAATGAATTAACGCCTAAGTCAGCCTTAAC
*
6294773 TATGTCCTTGTCAGAAATTCAACTCTCTAAGCAATGATTACACCAA
391 TATGTCCTTGTCAGAAATTCAACTCTCTAAGCAACGATTACACCAA
6294819 TTATGATTAA
Statistics
Matches: 414, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
447 414 1.00
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (447 bp):
AATATTTACAGATGCAACATACACCCTATACATCAACAAGTCCATTGGACTTTCCTCTTGTTTAT
CATCACAAGTCTTTGCACACTTATGTACAGAAACACCTCTTTTACATTTCATCTCTATCAACACT
TTTCCACAAACTAGCTCAATCACCACCTCGACTATATTGAAAGAAAACACTTACCATTATTGACT
GCAAATGCAAGATGACTTAATGGTAAGCCCACCTAACTTACCATGTTTACCATTTTCTACAAATT
CACCTAGAACACTCGTTGCACCAACAATGAGTCGATCTGATACTACTTTTCATGGGCTAGAGTTT
CAACTATCCAATCATAATGCCTTAGACACTTTCTAGAATGAATTAACGCCTAAGTCAGCCTTAAC
TATGTCCTTGTCAGAAATTCAACTCTCTAAGCAACGATTACACCAACAAAGATGAGG
Found at i:6295955 original size:40 final size:41
Alignment explanation
Indices: 6295878--6296319 Score: 213
Period size: 42 Copynumber: 10.8 Consensus size: 41
6295868 TTGAACAAAT
* * * *
6295878 GCCGATAAATACTCTTACTTTAGTGGTGTTTTAATATAAAC
1 GCCGCTAAATACTCGTACTTTAGTGGCGTTTTAATATAAAA
* * *
6295919 GCCGCTAAATACT-GTAGTTTATTGGCGTTTTCATATAAAA
1 GCCGCTAAATACTCGTACTTTAGTGGCGTTTTAATATAAAA
* * * * * * *
6295959 TCCGCTAATTACT-ATACTTTAGCGGCATTTTTACA-AAAA
1 GCCGCTAAATACTCGTACTTTAGTGGCGTTTTAATATAAAA
* * * * * * *
6295998 CGCCACTAAAGACTGGTACTTTAGCGGC-ATTTAAGCACAAATA
1 -GCCGCTAAATACTCGTACTTTAGTGGCGTTTTAA-TATAAA-A
* ** * * *
6296041 -CAGCTAAAGGCCCGTACATTAGTGG-TTCTTTAAT-TACAAA
1 GCCGCTAAATACTCGTACTTTAGTGGCGT-TTTAATATA-AAA
* * * * * * *
6296081 CACCGCTAAAGACTCGAACTTTAGTGGAGTTTT-GTACAAAT
1 -GCCGCTAAATACTCGTACTTTAGTGGCGTTTTAATATAAAA
* * * *
6296122 GCTGCTAAAAACTCGTACTTTAGTGGCGTTTTTATACAAACA
1 GCCGCTAAATACTCGTACTTTAGTGGCGTTTTAATATAAA-A
* * * * *
6296164 -CCGCTAAATGCTTGTACTTTAGTTGCGTTTTAAGCATAAAC
1 GCCGCTAAATACTCGTACTTTAGTGGCGTTTTAA-TATAAAA
* * ** * *
6296205 GCCGCTAAATGCTTGTACTTTAGTGGTTTTTTAAGCATAAAT
1 GCCGCTAAATACTCGTACTTTAGTGGCGTTTTAA-TATAAAA
* * * * *
6296247 GTCGCTAAATGCTTGTACTTTAGTGGCATTTTAAGCATAAATA
1 GCCGCTAAATACTCGTACTTTAGTGGCGTTTTAA-TATAAA-A
6296290 -CCGCTAAATACAT-GTACTTTAGTGGCGTTT
1 GCCGCTAAATAC-TCGTACTTTAGTGGCGTTT
6296320 GTGTACAAAC
Statistics
Matches: 314, Mismatches: 69, Indels: 35
0.75 0.17 0.08
Matches are distributed among these distances:
39 4 0.01
40 89 0.28
41 82 0.26
42 136 0.43
43 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (41 bp):
GCCGCTAAATACTCGTACTTTAGTGGCGTTTTAATATAAAA
Found at i:6296222 original size:42 final size:42
Alignment explanation
Indices: 6296136--6296319 Score: 235
Period size: 42 Copynumber: 4.4 Consensus size: 42
6296126 CTAAAAACTC
* * *
6296136 GTACTTTAGTGGCGTTTTTA-TACAAACACCGCTAAATGCTT
1 GTACTTTAGTGGCGTTTTAAGCATAAACACCGCTAAATGCTT
* *
6296177 GTACTTTAGTTGCGTTTTAAGCATAAACGCCGCTAAATGCTT
1 GTACTTTAGTGGCGTTTTAAGCATAAACACCGCTAAATGCTT
** ***
6296219 GTACTTTAGTGGTTTTTTAAGCATAAATGTCGCTAAATGCTT
1 GTACTTTAGTGGCGTTTTAAGCATAAACACCGCTAAATGCTT
* * * *
6296261 GTACTTTAGTGGCATTTTAAGCATAAATACCGCTAAATACAT
1 GTACTTTAGTGGCGTTTTAAGCATAAACACCGCTAAATGCTT
6296303 GTACTTTAGTGGCGTTT
1 GTACTTTAGTGGCGTTT
6296320 GTGTACAAAC
Statistics
Matches: 125, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 18 0.14
42 107 0.86
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (42 bp):
GTACTTTAGTGGCGTTTTAAGCATAAACACCGCTAAATGCTT
Found at i:6299849 original size:43 final size:43
Alignment explanation
Indices: 6299828--6300122 Score: 393
Period size: 43 Copynumber: 7.0 Consensus size: 43
6299818 CAAATGACAT
* * *
6299828 TAAATACACAATCAATAGCGGC-GTTGGAAAGA-ACAACGCCGC
1 TAAATACACAGTCAATAGCGGCATTTGTAAAGACA-AACGCCGC
* *
6299870 TAAATACACAGTCAATAACGGTATTTGTAAAGA-AAACGCCGC
1 TAAATACACAGTCAATAGCGGCATTTGTAAAGACAAACGCCGC
*
6299912 TAAATACACAGTCAATAGCGGCGTTTGTAAA-A-AAACGCCGC
1 TAAATACACAGTCAATAGCGGCATTTGTAAAGACAAACGCCGC
* * * *
6299953 TAAATACACAGTCAATAGCGGCGTTTATAAACACAAACGCCGT
1 TAAATACACAGTCAATAGCGGCATTTGTAAAGACAAACGCCGC
*
6299996 TAAATACACAGTCAATAGCGGCATTTATAAAGACAAACGCCGC
1 TAAATACACAGTCAATAGCGGCATTTGTAAAGACAAACGCCGC
* *
6300039 TAAATACACAGTCAATAGCGGCATTTATAAAGACAAACACCGC
1 TAAATACACAGTCAATAGCGGCATTTGTAAAGACAAACGCCGC
* * * *
6300082 TAAATACACATTCAATAGCGGCGTTTGTACAGACACACGCC
1 TAAATACACAGTCAATAGCGGCATTTGTAAAGACAAACGCC
6300123 ACTATATGTC
Statistics
Matches: 230, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
41 40 0.17
42 56 0.24
43 134 0.58
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.19
Consensus pattern (43 bp):
TAAATACACAGTCAATAGCGGCATTTGTAAAGACAAACGCCGC
Found at i:6303927 original size:43 final size:43
Alignment explanation
Indices: 6303754--6304047 Score: 413
Period size: 43 Copynumber: 7.0 Consensus size: 43
6303744 ACAAATGACA
* *
6303754 TTAAATACACAATCAATAGCGGCG-TTGGAAAGA-ACAACGCCG
1 TTAAATACACAGTCAATAGCGGCGTTTGTAAAGACA-AACGCCG
*
6303796 TTAAATACACAGTCAATAGAGGCGTTTGTAAAGA-AAACGCCG
1 TTAAATACACAGTCAATAGCGGCGTTTGTAAAGACAAACGCCG
*
6303838 CTAAATACACAG-CAATAGCGGCGTTTGT-AA-A-AAACGCCG
1 TTAAATACACAGTCAATAGCGGCGTTTGTAAAGACAAACGCCG
* *
6303877 CTAAATACACAGTCAATAGCGGCGTTTATAAAGACAAACGCCG
1 TTAAATACACAGTCAATAGCGGCGTTTGTAAAGACAAACGCCG
* *
6303920 TTAAATACACAGTCAATAGCGGCATTTATAAAGACAAACGCCG
1 TTAAATACACAGTCAATAGCGGCGTTTGTAAAGACAAACGCCG
* * * *
6303963 TTAAATACACAGTCAATACCAGCATTTATAAAGACAAACGCCG
1 TTAAATACACAGTCAATAGCGGCGTTTGTAAAGACAAACGCCG
*
6304006 CTAAATACACAGTCAATAGCGGCGTTTGTAAAGACAAACGCC
1 TTAAATACACAGTCAATAGCGGCGTTTGTAAAGACAAACGCC
6304048 ACTATATGTC
Statistics
Matches: 232, Mismatches: 15, Indels: 9
0.91 0.06 0.04
Matches are distributed among these distances:
39 21 0.09
40 17 0.07
41 17 0.07
42 41 0.18
43 136 0.59
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.19
Consensus pattern (43 bp):
TTAAATACACAGTCAATAGCGGCGTTTGTAAAGACAAACGCCG
Found at i:6307444 original size:23 final size:24
Alignment explanation
Indices: 6307409--6307453 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
6307399 AAGTAAACGT
6307409 GAAACAAATAAATAAAAAAATTCA
1 GAAACAAATAAATAAAAAAATTCA
*
6307433 GAAA-AAATAAATTAAAAAATT
1 GAAACAAATAAATAAAAAAATT
6307454 TAAACGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (24 bp):
GAAACAAATAAATAAAAAAATTCA
Found at i:6314168 original size:82 final size:82
Alignment explanation
Indices: 6314040--6314838 Score: 1177
Period size: 82 Copynumber: 9.8 Consensus size: 82
6314030 TGGTTCTAAA
* * * **
6314040 ATAAAAGATTAAATGCCTAGATGTGCATTTGGCATAAAGGTATCAATAATGCCAGTTAGATGAAA
1 ATAAAAGACTAAATGCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAA
6314105 GGTTAAATGCCTTTGAG
66 GGTTAAATGCCTTTGAG
* * *
6314122 ATAAAAGACTAAATCCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATAATGCCAGTTCGATGAAA
1 ATAAAAGACTAAATGCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAA
* *
6314187 GGTTATATGCCTTTGGG
66 GGTTAAATGCCTTTGAG
* * * **
6314204 ATAAAAGACTAAATGCCTAGCTGTGCATTTGGTAGAAACGTGCCAATAATTCCAGCAAGATGAAA
1 ATAAAAGACTAAATGCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAA
6314269 GGTTAAATGCCTTTGAG
66 GGTTAAATGCCTTTGAG
* *
6314286 ATAAAAGACTAAATGCCTAGATGTGCATTTGGCAGAAAGGTGCCAATAATGCTAGTTAGATGAAA
1 ATAAAAGACTAAATGCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAA
6314351 GGTTAAATGCCTTTGAG
66 GGTTAAATGCCTTTGAG
* * * * * *
6314368 ATAAACGACTAAATGCCAAGCCGTGCATTTGGCATAAATGTGTCAATAATGCCAGTTAGATGAAA
1 ATAAAAGACTAAATGCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAA
*
6314433 GGTTAAATGCCTTTAAG
66 GGTTAAATGCCTTTGAG
* * **
6314450 ATAAAACACTAAATGCCTAGCTATGCATTTGGCAGAAAGGTATCAATAATGCCAGTTAGATGAAA
1 ATAAAAGACTAAATGCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAA
*
6314515 GGTTAAATGCCTTTGGG
66 GGTTAAATGCCTTTGAG
* **
6314532 ATAAAAGACTAAATGCCTAGCTGTGCATTTGGCAGAAAGATGCCAATAATATCAGTTAGATGAAA
1 ATAAAAGACTAAATGCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAA
6314597 GGTTAAATGCCTTTGAG
66 GGTTAAATGCCTTTGAG
* * * *
6314614 ATAAAAGACTAAATGCCTAGTTGTGTATTTGGCATAAAGGTGCCAATAATGGCAGTTAGATGAAA
1 ATAAAAGACTAAATGCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAA
6314679 GGTTAAATGCCTTTGAG
66 GGTTAAATGCCTTTGAG
* ** *
6314696 ATAAAAGACTAAATG-CTAGTTGTGCATTTGGCAGAAAGGTTTCAATAATGTCAGTTAGATGAAA
1 ATAAAAGACTAAATGCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAA
*
6314760 GGTTAAATGCCTTTGGG
66 GGTTAAATGCCTTTGAG
* * * * *
6314777 ATGAAAGAATAAATGCCTAGTTGTGCATTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATG
1 ATAAAAGACTAAATGCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATG
6314839 CCTAACAATG
Statistics
Matches: 645, Mismatches: 71, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
81 73 0.11
82 572 0.89
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (82 bp):
ATAAAAGACTAAATGCCTAGCTGTGCATTTGGCAGAAAGGTGCCAATAATGCCAGTTAGATGAAA
GGTTAAATGCCTTTGAG
Found at i:6314894 original size:49 final size:49
Alignment explanation
Indices: 6314804--6314900 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
6314794 TAGTTGTGCA
* * * **
6314804 TTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGCCTAACAATGCATT
1 TTTGGCAGAAAGGTGCAACTAATACAAGTTAGATGAATAACAATGCATT
* * *
6314853 TTTGGCAGAAAGGTGCAACTAATATAGGTTAGATGAATAACAGTGCAT
1 TTTGGCAGAAAGGTGCAACTAATACAAGTTAGATGAATAACAATGCAT
6314901 AGATGGAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (49 bp):
TTTGGCAGAAAGGTGCAACTAATACAAGTTAGATGAATAACAATGCATT
Found at i:6314946 original size:46 final size:46
Alignment explanation
Indices: 6314889--6314978 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
6314879 GGTTAGATGA
* *
6314889 ATAACAGTGCATAGA-TGGAATAAAAGGATGCCATAAATGAAAATGT
1 ATAACAATGCATA-ATTGGAATAAAAGGATGCCACAAATGAAAATGT
* *
6314935 ATAACAATGCATAATTGGCATGAAAGGATGCCACAAATGAAAAT
1 ATAACAATGCATAATTGGAATAAAAGGATGCCACAAATGAAAAT
6314979 ACATAACGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 1 0.03
46 38 0.97
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.21
Consensus pattern (46 bp):
ATAACAATGCATAATTGGAATAAAAGGATGCCACAAATGAAAATGT
Found at i:6315661 original size:14 final size:16
Alignment explanation
Indices: 6315642--6315679 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
6315632 TGTGATCGGC
6315642 TAAAATAA-C-AAAAA
1 TAAAATAAGCTAAAAA
6315656 TAAAATAATGCTAAAAA
1 TAAAATAA-GCTAAAAA
6315673 TAAAATA
1 TAAAATA
6315680 TAAATAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
16 1 0.05
17 12 0.57
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (16 bp):
TAAAATAAGCTAAAAA
Found at i:6318409 original size:19 final size:19
Alignment explanation
Indices: 6318385--6318422 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
6318375 AAAATGTGCA
6318385 AAATCT-AAATCTAAAGTAT
1 AAATCTAAAATCT-AAGTAT
6318404 AAATCTAAAATCTAAGTAT
1 AAATCTAAAATCTAAGTAT
6318423 CTAATTACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (19 bp):
AAATCTAAAATCTAAGTAT
Found at i:6319493 original size:29 final size:29
Alignment explanation
Indices: 6319457--6319513 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
6319447 TTGGTGACTA
*
6319457 AAAGGTAAA-TTTTAAAAGTTTGGGGACC
1 AAAGGTAAATTTTTAAAAGTTTAGGGACC
6319485 AAAGTGTAAATTTTTAAAAGTTTAGGGAC
1 AAAG-GTAAATTTTTAAAAGTTTAGGGAC
6319514 TAATAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 4 0.15
29 5 0.19
30 17 0.65
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (29 bp):
AAAGGTAAATTTTTAAAAGTTTAGGGACC
Found at i:6335147 original size:20 final size:19
Alignment explanation
Indices: 6335122--6335161 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
6335112 TGCATCAAGG
*
6335122 TCTTTGTTGAAGCCATGAAA
1 TCTTTGTCGAAGCCAT-AAA
6335142 TCTTTGTCGAAGCCATAAA
1 TCTTTGTCGAAGCCATAAA
6335161 T
1 T
6335162 TTCTGTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (19 bp):
TCTTTGTCGAAGCCATAAA
Found at i:6340937 original size:125 final size:125
Alignment explanation
Indices: 6340715--6340964 Score: 500
Period size: 125 Copynumber: 2.0 Consensus size: 125
6340705 AAGACCAATC
6340715 ATATAATGATTGTATTGACATATTTTATGTACCGTATTTATCAAATAAAGGCATTACCGTTATTT
1 ATATAATGATTGTATTGACATATTTTATGTACCGTATTTATCAAATAAAGGCATTACCGTTATTT
6340780 TCTTTTATTGTTTTTTGTGAATCGAATATTCTAAAAGATAATAATGTCCGTATAATAATA
66 TCTTTTATTGTTTTTTGTGAATCGAATATTCTAAAAGATAATAATGTCCGTATAATAATA
6340840 ATATAATGATTGTATTGACATATTTTATGTACCGTATTTATCAAATAAAGGCATTACCGTTATTT
1 ATATAATGATTGTATTGACATATTTTATGTACCGTATTTATCAAATAAAGGCATTACCGTTATTT
6340905 TCTTTTATTGTTTTTTGTGAATCGAATATTCTAAAAGATAATAATGTCCGTATAATAATA
66 TCTTTTATTGTTTTTTGTGAATCGAATATTCTAAAAGATAATAATGTCCGTATAATAATA
6340965 TGATTATCAT
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 125 1.00
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (125 bp):
ATATAATGATTGTATTGACATATTTTATGTACCGTATTTATCAAATAAAGGCATTACCGTTATTT
TCTTTTATTGTTTTTTGTGAATCGAATATTCTAAAAGATAATAATGTCCGTATAATAATA
Found at i:6347782 original size:310 final size:307
Alignment explanation
Indices: 6347209--6347825 Score: 1207
Period size: 310 Copynumber: 2.0 Consensus size: 307
6347199 AATGTCAAAG
6347209 GAATAACTTGAAAATTTTTGAAAATGTTGGGATGATTTTAAAGAAAGGTTGAATGGTGGCTAAAT
1 GAATAACTTGAAAATTTTTGAAAATGTTGGGATGATTTTAAAGAAAGGTTGAATGGTGGCTAAAT
6347274 GTGAATTGTTGAAAAGTTTGGTGATTTATTGTGAGAAATGATAATTTAAGGGATTTGAAAGGTTT
66 GTGAATTGTTGAAAAGTTTGGTGATTTATTGTGAGAAATGATAATTTAAGGGATTTGAAAGGTTT
6347339 TGATTGAGTTAAAATTTGTTTCAATTGATGAAGGAAAATTAGTATCGAATATGTGTTGATGGCAA
131 TGATTGAGTTAAAATTTGTTTCAATTGATGAAGGAAAATTAGTATCGAATATGTGTTGATGGCAA
6347404 TTTTTAGAATTTTATTCAAATTCTAGTTTATTATAATATTAGTTAAAGTATTAATTCATGTTTGA
196 TTTTTAGAATTTTATTCAAATTCTAGTTTATTATAATATTAGTTAAAGTATTAATTCATGTTTGA
6347469 AATTGGATATGTCGGGAAAATGACTACCGTGTAGATCACGATCGAAT
261 AATTGGATATGTCGGGAAAATGACTACCGTGTAGATCACGATCGAAT
6347516 GAATAACTTGAAAATTTTTGAAAATGTTGGGATGATTTTAAAGAAAGGTTGAATGGTGGCTAAAT
1 GAATAACTTGAAAATTTTTGAAAATGTTGGGATGATTTTAAAGAAAGGTTGAATGGTGGCTAAAT
6347581 GTGAATTGTTGAAAAGTTTGGTGATTTATTGTGAGAAATGATAATTTAAGGGATTTGAAAGGTTA
66 GTGAATTGTTGAAAAGTTTGGTGATTTATTGTGAGAAATGATAATTTAAGGGATTTGAAAGG-T-
6347646 TTTGATTGGAGTTAAAATTTGTTTCAATTGATGAAGGAAAATTAGTATCGAATATGTGTTGATGG
129 TTTGATT-GAGTTAAAATTTGTTTCAATTGATGAAGGAAAATTAGTATCGAATATGTGTTGATGG
6347711 CAATTTTTAGAATTTTATTCAAATTCTAGTTTATTATAATATTAGTTAAAGTATTAATTCATGTT
193 CAATTTTTAGAATTTTATTCAAATTCTAGTTTATTATAATATTAGTTAAAGTATTAATTCATGTT
6347776 TGAAATTGGATATGTCGGGAAAATGACTACCGTGTAGATCACGATCGAAT
258 TGAAATTGGATATGTCGGGAAAATGACTACCGTGTAGATCACGATCGAAT
6347826 TCAAGCTCTG
Statistics
Matches: 307, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
307 127 0.41
308 1 0.00
309 7 0.02
310 172 0.56
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (307 bp):
GAATAACTTGAAAATTTTTGAAAATGTTGGGATGATTTTAAAGAAAGGTTGAATGGTGGCTAAAT
GTGAATTGTTGAAAAGTTTGGTGATTTATTGTGAGAAATGATAATTTAAGGGATTTGAAAGGTTT
TGATTGAGTTAAAATTTGTTTCAATTGATGAAGGAAAATTAGTATCGAATATGTGTTGATGGCAA
TTTTTAGAATTTTATTCAAATTCTAGTTTATTATAATATTAGTTAAAGTATTAATTCATGTTTGA
AATTGGATATGTCGGGAAAATGACTACCGTGTAGATCACGATCGAAT
Found at i:6350690 original size:17 final size:17
Alignment explanation
Indices: 6350668--6350703 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6350658 AATTCAGAGT
*
6350668 TAGTTTGATGAATGAAC
1 TAGTTTAATGAATGAAC
*
6350685 TAGTTTAATTAATGAAC
1 TAGTTTAATGAATGAAC
6350702 TA
1 TA
6350704 ACTTTATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.39
Consensus pattern (17 bp):
TAGTTTAATGAATGAAC
Found at i:6350712 original size:17 final size:19
Alignment explanation
Indices: 6350678--6350721 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
6350668 TAGTTTGATG
*
6350678 AATGAACT-AGTTTAATT-
1 AATGAACTAACTTTAATTA
6350695 AATGAACTAACTTT-ATTA
1 AATGAACTAACTTTAATTA
6350713 AATGAACTA
1 AATGAACTA
6350722 TATTTAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (19 bp):
AATGAACTAACTTTAATTA
Found at i:6350727 original size:18 final size:17
Alignment explanation
Indices: 6350678--6350727 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
6350668 TAGTTTGATG
*
6350678 AATGAACTAGT-TTAATT
1 AATGAACTA-TATTTATT
6350695 AATGAACTA-ACTTTATT
1 AATGAACTATA-TTTATT
6350712 AAATGAACTATATTTA
1 -AATGAACTATATTTA
6350728 AATGCAATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 14 0.50
18 13 0.46
19 1 0.04
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (17 bp):
AATGAACTATATTTATT
Found at i:6354520 original size:14 final size:14
Alignment explanation
Indices: 6354488--6354530 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 14
6354478 CCTAAAATCT
6354488 AATAAATTAAAGGAAGA
1 AATAAATTAAA-G-A-A
6354505 AATAAACTTAAAGAA
1 AATAAA-TTAAAGAA
6354520 AATAAATTAAA
1 AATAAATTAAA
6354531 AGTATCAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.20
15 7 0.28
16 1 0.04
17 7 0.28
18 5 0.20
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.21
Consensus pattern (14 bp):
AATAAATTAAAGAA
Found at i:6357659 original size:15 final size:15
Alignment explanation
Indices: 6357639--6357668 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6357629 GAGCCCAGGA
*
6357639 AATCTCTCGAAGCTC
1 AATCTCTCAAAGCTC
6357654 AATCTCTCAAAGCTC
1 AATCTCTCAAAGCTC
6357669 TTTTAGTGTC
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:0.30, C:0.33, G:0.10, T:0.27
Consensus pattern (15 bp):
AATCTCTCAAAGCTC
Found at i:6364673 original size:32 final size:32
Alignment explanation
Indices: 6364610--6364720 Score: 141
Period size: 32 Copynumber: 3.4 Consensus size: 32
6364600 ATATTAATTT
* * *
6364610 TTTTAAAGTTTGTTGTATATTAAAATTATTATG
1 TTTT-AAGTTTGTTGGATATTGAAATAATTATG
* *
6364643 TTTTATGTTTATTGGATATTGAAATAATTATG
1 TTTTAAGTTTGTTGGATATTGAAATAATTATG
** *
6364675 TTTTAAGTTTGTTGGATATTGAAATTGTTATA
1 TTTTAAGTTTGTTGGATATTGAAATAATTATG
6364707 TTTTAAGTTTGTTG
1 TTTTAAGTTTGTTG
6364721 AAGTTTTGGA
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
32 64 0.94
33 4 0.06
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (32 bp):
TTTTAAGTTTGTTGGATATTGAAATAATTATG
Found at i:6364747 original size:33 final size:32
Alignment explanation
Indices: 6364610--6364749 Score: 120
Period size: 32 Copynumber: 4.3 Consensus size: 32
6364600 ATATTAATTT
* * * *
6364610 TTTTAAAGTTTGTTGTATATTAAAATTATTATG
1 TTTT-AAGTTTGTTGAATATTGAAAGTGTTATG
* * * *
6364643 TTTTATGTTTATTGGATATTGAAA-TAATTATG
1 TTTTAAGTTTGTTGAATATTGAAAGT-GTTATG
* * *
6364675 TTTTAAGTTTGTTGGATATTGAAATTGTTATA
1 TTTTAAGTTTGTTGAATATTGAAAGTGTTATG
* *
6364707 TTTTAAGTTTGTTGAAGTTTTGGAAGTGTTATG
1 TTTTAAGTTTGTTGAA-TATTGAAAGTGTTATG
*
6364740 TTCTAAGTTT
1 TTTTAAGTTT
6364750 AATGGTTATA
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
31 1 0.01
32 63 0.70
33 26 0.29
ACGTcount: A:0.28, C:0.01, G:0.18, T:0.54
Consensus pattern (32 bp):
TTTTAAGTTTGTTGAATATTGAAAGTGTTATG
Found at i:6366706 original size:28 final size:29
Alignment explanation
Indices: 6366664--6366719 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
6366654 GCACGAGCAA
6366664 TCTTCGAATTAACTTTTAAAT-ATTTTTC
1 TCTTCGAATTAACTTTTAAATAATTTTTC
*
6366692 TCTTCGAATTCACTTTTAAATAATTTTT
1 TCTTCGAATTAACTTTTAAATAATTTTT
6366720 ATTCGATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.29, C:0.14, G:0.04, T:0.54
Consensus pattern (29 bp):
TCTTCGAATTAACTTTTAAATAATTTTTC
Found at i:6376548 original size:19 final size:20
Alignment explanation
Indices: 6376524--6376571 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
6376514 AATGATTTTC
* * *
6376524 TTTTGAAAGCTAAAATG-GA
1 TTTTGAAAACCAAAATGAAA
6376543 TTTTGAAAACCAAAATGAAA
1 TTTTGAAAACCAAAATGAAA
6376563 TTTTGAAAA
1 TTTTGAAAA
6376572 AGGATTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (20 bp):
TTTTGAAAACCAAAATGAAA
Found at i:6377952 original size:20 final size:20
Alignment explanation
Indices: 6377929--6377980 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
6377919 TTGTTCTTAC
*
6377929 AGTATCGATACTCACTAGGT
1 AGTATCGATACTCACTAGAT
*
6377949 AGTATTGATACTCACTAGAT
1 AGTATCGATACTCACTAGAT
6377969 AGTATCGATACT
1 AGTATCGATACT
6377981 ACCAACAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (20 bp):
AGTATCGATACTCACTAGAT
Found at i:6380976 original size:19 final size:20
Alignment explanation
Indices: 6380952--6380999 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
6380942 AATGATTTTC
* * *
6380952 TTTTGAAAGCTAAAATG-GA
1 TTTTGAAAACCAAAATGAAA
6380971 TTTTGAAAACCAAAATGAAA
1 TTTTGAAAACCAAAATGAAA
6380991 TTTTGAAAA
1 TTTTGAAAA
6381000 AGGATTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (20 bp):
TTTTGAAAACCAAAATGAAA
Found at i:6382205 original size:20 final size:20
Alignment explanation
Indices: 6382182--6382233 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
6382172 TTGTTCTTTC
*
6382182 AGTATCGATACTCACTAGGT
1 AGTATCGATACTCACTAGAT
*
6382202 AGTATTGATACTCACTAGAT
1 AGTATCGATACTCACTAGAT
6382222 AGTATCGATACT
1 AGTATCGATACT
6382234 ACCAACAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (20 bp):
AGTATCGATACTCACTAGAT
Found at i:6390765 original size:3 final size:3
Alignment explanation
Indices: 6390759--6390825 Score: 57
Period size: 3 Copynumber: 22.7 Consensus size: 3
6390749 GGGTAATAAT
* * *
6390759 TTA TTA TTA TTA -TA TTA TCA TTA TTA TTA CTA TTA CTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * *
6390804 ATA CTA TTA ATA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
6390826 TTAAAGTTAC
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
2 4 0.08
3 44 0.88
4 2 0.04
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:6393039 original size:16 final size:17
Alignment explanation
Indices: 6393007--6393048 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
6392997 AAACGCATAT
6393007 AATT-TTTTTTCTTTTAA
1 AATTATTTTTTC-TTTAA
6393024 AATTATTTTTTC-TTAA
1 AATTATTTTTTCTTTAA
6393040 AATTATTTT
1 AATTATTTT
6393049 AAAGGATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.54
17 4 0.17
18 7 0.29
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (17 bp):
AATTATTTTTTCTTTAA
Found at i:6403946 original size:6 final size:6
Alignment explanation
Indices: 6403929--6404030 Score: 100
Period size: 6 Copynumber: 16.8 Consensus size: 6
6403919 AGAAAATAAT
* * * * *
6403929 AAAAAG AAAAAAG GAAAAG GAAAAG AAAATG AAAATG AAAATG AAAGAA-
1 AAAAAG -AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA-AAG
* *
6403978 AATAAG AAAAAG AAAAAG AAAAAG AAAAAAG AAAAA- AGAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG AAAAAG
6404026 AAAAA
1 AAAAA
6404031 AGATAATAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
5 6 0.07
6 64 0.77
7 13 0.16
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:6403991 original size:36 final size:36
Alignment explanation
Indices: 6403929--6404030 Score: 118
Period size: 36 Copynumber: 2.8 Consensus size: 36
6403919 AGAAAATAAT
* * *
6403929 AAAAAGAAAAAAGGAAAAGGAAAAGAAAATGAAAATG-
1 AAAAAGAAAAAA-G-AAAGAAAAAGAAAAAGAAAAAGA
*
6403966 AAAATGAAAGAAA-ATAAGAAAAAGAAAAAGAAAAAGA
1 AAAAAGAAA-AAAGA-AAGAAAAAGAAAAAGAAAAAGA
6404003 AAAAAGAAAAAAGAAAGAAAAAGAAAAA
1 AAAAAGAAAAAAGAAAGAAAAAGAAAAA
6404031 AGATAATAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
35 1 0.02
36 35 0.62
37 17 0.30
38 3 0.05
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (36 bp):
AAAAAGAAAAAAGAAAGAAAAAGAAAAAGAAAAAGA
Found at i:6405616 original size:134 final size:131
Alignment explanation
Indices: 6405273--6405651 Score: 408
Period size: 132 Copynumber: 2.8 Consensus size: 131
6405263 TTCGGATCTG
* ** * * *
6405273 ATTTTCCTTCAAGAAGAAGTTGAAT-AGATCCCTCTCTTTCAAGATTTGATATTTCGTTAGTAAC
1 ATTTTCCCTCAAGAAGAAGAAGAATCA-AT--CTCTCTTTCAAGATTTGATATTCCCTGAGTAAC
* * * * * * *
6405337 AGTGGAATAAGTATTCCTCGATTCAATCTTCCATGAAGAACAGTGGAATGAATCAACATCCCCAT
63 AGTGGAATAAGTCTACCTCGATTAAATCTTCCCTGAAGAACAATGGAATAAATCAACATCCCCAA
**
6405402 ATTT
128 ATAA
* * * *
6405406 ATTTTCCCTCAATAAGAAGTAGAATCGATCTCTCTTTTCAAGATTTGATATTCCCTGGGTAACAG
1 ATTTTCCCTCAAGAAGAAGAAGAATCAATCTCTC-TTTCAAGATTTGATATTCCCTGAGTAACAG
*
6405471 TGGAACAAGTCTACCTCGATTAAATCTTCCCTGAAGAACAAT-GAAGTAAATCAA-AGTCCCCAA
65 TGGAATAAGTCTACCTCGATTAAATCTTCCCTGAAGAACAATGGAA-TAAATCAACA-TCCCCAA
6405534 ATAAA
128 AT-AA
* *
6405539 ATTTTCCCTGAAGAATG-AGAAGAA-CAAATCAATCTCTTTCAAGATTTGATATTCCCTGAGTGA
1 ATTTTCCCTCAAGAA-GAAGAAGAATC-AATC--TCTCTTTCAAGATTTGATATTCCCTGAGTAA
* *
6405602 CAGTGGAATAAGTCTACCTCGATTTAATCTTCCCTGAAGAACAGTGGAAT
62 CAGTGGAATAAGTCTACCTCGATTAAATCTTCCCTGAAGAACAATGGAAT
6405652 GAGTCAATGT
Statistics
Matches: 209, Mismatches: 27, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
131 9 0.04
132 78 0.37
133 46 0.22
134 69 0.33
135 7 0.03
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (131 bp):
ATTTTCCCTCAAGAAGAAGAAGAATCAATCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGT
GGAATAAGTCTACCTCGATTAAATCTTCCCTGAAGAACAATGGAATAAATCAACATCCCCAAATA
A
Found at i:6417423 original size:21 final size:21
Alignment explanation
Indices: 6417384--6417423 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6417374 GAACTATGGT
*
6417384 TTTGTAACAATGTTGCTTGGC
1 TTTGTAACAATGTTCCTTGGC
6417405 TTTGTAACAAAT-TTCCTTG
1 TTTGTAAC-AATGTTCCTTG
6417424 ATTTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (21 bp):
TTTGTAACAATGTTCCTTGGC
Found at i:6421396 original size:21 final size:21
Alignment explanation
Indices: 6421350--6421389 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6421340 ATGACAAGAG
*
6421350 TCGAGGGTTTTACATGGTCAC
1 TCGAGGGTTCTACATGGTCAC
6421371 TCGAGGGTTCTACATGGTC
1 TCGAGGGTTCTACATGGTC
6421390 CTTCGAGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.20, G:0.30, T:0.33
Consensus pattern (21 bp):
TCGAGGGTTCTACATGGTCAC
Found at i:6425980 original size:3 final size:3
Alignment explanation
Indices: 6425972--6426002 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
6425962 TGGAGTTTAG
6425972 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
6426003 CACCGTGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:6427330 original size:14 final size:14
Alignment explanation
Indices: 6427313--6427360 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
6427303 GAATACAAGA
6427313 ATATGTGATATGAT
1 ATATGTGATATGAT
6427327 ATATGTGATATGAT
1 ATATGTGATATGAT
*
6427341 ATATGTGATAATGAG
1 ATATGTGAT-ATGAT
6427356 ATATG
1 ATATG
6427361 AGACTCTACG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 23 0.72
15 9 0.28
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.40
Consensus pattern (14 bp):
ATATGTGATATGAT
Found at i:6428623 original size:11 final size:11
Alignment explanation
Indices: 6428602--6428636 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
6428592 TTGCAAGCAT
6428602 TAAAGAAGAAAA
1 TAAA-AAGAAAA
6428614 TAAAAAGAAAA
1 TAAAAAGAAAA
*
6428625 GAAAAAGAAAA
1 TAAAAAGAAAA
6428636 T
1 T
6428637 TTCAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (11 bp):
TAAAAAGAAAA
Found at i:6435126 original size:40 final size:40
Alignment explanation
Indices: 6435071--6435151 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
6435061 ATTCATTCCT
6435071 CAAGGTTATTATTGGTGAATAAGGGTAGCTCCACAAACAC
1 CAAGGTTATTATTGGTGAATAAGGGTAGCTCCACAAACAC
6435111 CAAGGTTATTATTGGTGAATAAGGGTAGCTCCACAAACAC
1 CAAGGTTATTATTGGTGAATAAGGGTAGCTCCACAAACAC
6435151 C
1 C
6435152 GACTTAGGGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAGGTTATTATTGGTGAATAAGGGTAGCTCCACAAACAC
Found at i:6435222 original size:69 final size:69
Alignment explanation
Indices: 6435111--6435251 Score: 264
Period size: 69 Copynumber: 2.0 Consensus size: 69
6435101 CCACAAACAC
6435111 CAAGGTTATTATTGGTGAATAAGGGTAGCTCCACAAACACCGACTTAGGGGGAGATGAAAAAGTA
1 CAAGGTTATTATTGGTGAATAAGGGTAGCTCCACAAACACCGACTTAGGGGGAGATGAAAAAGTA
6435176 TCCT
66 TCCT
* *
6435180 CAAGGTTATTATTGGTGAATAAGGGTAGCTCCACAAATACCGACTTAGGGGGAGATGGAAAAGTA
1 CAAGGTTATTATTGGTGAATAAGGGTAGCTCCACAAACACCGACTTAGGGGGAGATGAAAAAGTA
6435245 TCCT
66 TCCT
6435249 CAA
1 CAA
6435252 TCTCAAGGTT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (69 bp):
CAAGGTTATTATTGGTGAATAAGGGTAGCTCCACAAACACCGACTTAGGGGGAGATGAAAAAGTA
TCCT
Found at i:6439483 original size:15 final size:15
Alignment explanation
Indices: 6439463--6439492 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6439453 TTTTACTCTT
6439463 GAGTGAAATTAAACC
1 GAGTGAAATTAAACC
6439478 GAGTGAAATTAAACC
1 GAGTGAAATTAAACC
6439493 TGGGACCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (15 bp):
GAGTGAAATTAAACC
Found at i:6440358 original size:17 final size:18
Alignment explanation
Indices: 6440320--6440358 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6440310 GCTAGTGGTC
6440320 AGATTGAACAAATTAAAT
1 AGATTGAACAAATTAAAT
6440338 AGATTG-ACAAAATTAAA-
1 AGATTGAAC-AAATTAAAT
6440355 AGAT
1 AGAT
6440359 CGATGACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.56, C:0.05, G:0.13, T:0.26
Consensus pattern (18 bp):
AGATTGAACAAATTAAAT
Found at i:6440735 original size:21 final size:19
Alignment explanation
Indices: 6440690--6440736 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
6440680 TTGGTGAAAT
6440690 TATATTTTTATTTTAATTA
1 TATATTTTTATTTTAATTA
*
6440709 TTTATTTTTAATTTATAA-TA
1 TATATTTTT-ATTT-TAATTA
6440729 TGATATTT
1 T-ATATTT
6440737 ACAATAGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 8 0.35
20 7 0.30
21 8 0.35
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TATATTTTTATTTTAATTA
Found at i:6444870 original size:22 final size:23
Alignment explanation
Indices: 6444831--6444882 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
6444821 TTTCGATACT
*
6444831 GTAAGGG--GTATCGGTACCATA
1 GTAAGGGTAGTATCGATACCATA
*
6444852 GT-AGGGTAGTATCGATACCATG
1 GTAAGGGTAGTATCGATACCATA
6444874 GTAAGGGTA
1 GTAAGGGTA
6444883 TCGATGCCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 4 0.15
21 2 0.08
22 14 0.54
23 6 0.23
ACGTcount: A:0.29, C:0.12, G:0.35, T:0.25
Consensus pattern (23 bp):
GTAAGGGTAGTATCGATACCATA
Found at i:6445410 original size:26 final size:26
Alignment explanation
Indices: 6445380--6445537 Score: 162
Period size: 26 Copynumber: 6.5 Consensus size: 26
6445370 ATGCATTAAG
6445380 GCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATGCCATAATTAAAAT
*
6445406 GCATGAAATGATGCCATAATTAAAAT
1 GCATGAAAGGATGCCATAATTAAAAT
*
6445432 GCATG-AA--ATG--ATACATT--AAG
1 GCATGAAAGGATGCCATA-ATTAAAAT
6445452 GCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATGCCATAATTAAAAT
** *
6445478 GCATGAAAATATG-C---ATT--AAG
1 GCATGAAAGGATGCCATAATTAAAAT
6445498 GCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATGCCATAATTAAAAT
*
6445524 GCATGAAATGATGC
1 GCATGAAAGGATGC
6445538 ATTAAGGCAT
Statistics
Matches: 108, Mismatches: 10, Indels: 28
0.74 0.07 0.19
Matches are distributed among these distances:
20 20 0.19
21 6 0.06
22 6 0.06
23 6 0.06
24 6 0.06
25 6 0.06
26 58 0.54
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.24
Consensus pattern (26 bp):
GCATGAAAGGATGCCATAATTAAAAT
Found at i:6445456 original size:46 final size:46
Alignment explanation
Indices: 6445406--6445557 Score: 261
Period size: 46 Copynumber: 3.3 Consensus size: 46
6445396 TAATTAAAAT
* *
6445406 GCATGAAATGATGCCATAATTAAAATGCATGAAATGATACATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAAG
6445452 GCATGAAAGGATGCCATAATTAAAATGCATGAAAAT-ATGCATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATG-AAATGATGCATTAAG
6445498 GCATGAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAAG
*
6445544 GCATGATAGGATGC
1 GCATGAAAGGATGC
6445558 ATTAAGGCAT
Statistics
Matches: 101, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
45 4 0.04
46 93 0.92
47 4 0.04
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.24
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAAG
Found at i:6445548 original size:66 final size:66
Alignment explanation
Indices: 6445478--6445761 Score: 283
Period size: 66 Copynumber: 4.2 Consensus size: 66
6445468 TAATTAAAAT
** *
6445478 GCATGAAAATATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAA
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAA
6445543 G
66 G
* * * *
6445544 GCATGATAGGATGCATTAAGGCATAAAAGGATGTCATAATTAAAATGAATGAAAGGATGCATTAA
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAA
6445609 G
66 G
* * * *
6445610 GCATGAAAGGATGCCATAATTAAAATGCATGAAATGATG-C---ATTAAGA--CGTGAAAGGATG
1 GCATGAAAGGATG-C---ATT--AAGGCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATG
*
6445669 CCATAATTAAAAT
60 -C---ATT--AAG
* * *
6445682 GCATGAATGGTTGCATTAAGGCATGAAAGGATACCATAATTAAAATGCATGAAAGGATGCATTAA
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAA
6445747 G
66 G
6445748 GCATGAAAGGATGC
1 GCATGAAAGGATGC
6445762 CATAATTAAA
Statistics
Matches: 175, Mismatches: 25, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
66 108 0.62
67 3 0.02
68 12 0.07
70 12 0.07
71 3 0.02
72 37 0.21
ACGTcount: A:0.43, C:0.10, G:0.23, T:0.24
Consensus pattern (66 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAA
G
Found at i:6445596 original size:92 final size:91
Alignment explanation
Indices: 6445360--6445787 Score: 309
Period size: 92 Copynumber: 4.6 Consensus size: 91
6445350 TATGTAAAAT
* * *
6445360 GCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAATGATGCCATAA
1 GCATGAAAGGATGCATTAAGGCATAAAAGGATG-CATAATTAAAATGCATGAAAGGATGCCATAA
6445425 TTAAAATGCATGAAATGATACATTAAG
65 TTAAAATGCATGAAATGATACATTAAG
* * *
6445452 GCATGAAAGGATGCCATAATTAAAATGCATGAAAA-TATGC---ATT--AAGGCATGAAAGGATG
1 GCATGAAAGGATG-C---ATT--AAGGCAT-AAAAGGATGCATAATTAAAATGCATGAAAGGATG
*
6445511 CCATAATTAAAATGCATGAAATGATGCATTAAG
59 CCATAATTAAAATGCATGAAATGATACATTAAG
* *
6445544 GCATGATAGGATGCATTAAGGCATAAAAGGATGTCATAATTAAAATGAATGAAAGGATG-C---A
1 GCATGAAAGGATGCATTAAGGCATAAAAGGATG-CATAATTAAAATGCATGAAAGGATGCCATAA
* *
6445605 TT--AAGGCATGAAAGGATGCCATA-ATTAAAAT
65 TTAAAATGCATG-AA--ATG--ATACATT--AAG
* * * * * *
6445636 GCATGAAATGATGCATTAAGACGTGAAAGGATGCCATAATTAAAATGCATGAATGGTTG-C---A
1 GCATGAAAGGATGCATTAAGGCATAAAAGGATG-CATAATTAAAATGCATGAAAGGATGCCATAA
* * *
6445697 TT--AAGGCATGAAAGGATACCATAATTAAAAT
65 TTAAAATGCATGAAATGATA-C---ATT--AAG
* *
6445728 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAATGATGC
1 GCATGAAAGGATGCATTAAGGCATAAAAGGATG-CATAATTAAAATGCATGAAAGGATGC
6445788 ATTAAGGCAT
Statistics
Matches: 278, Mismatches: 31, Indels: 53
0.77 0.09 0.15
Matches are distributed among these distances:
85 4 0.01
86 16 0.06
87 6 0.02
88 6 0.02
89 5 0.02
90 6 0.02
91 6 0.02
92 209 0.75
93 1 0.00
94 3 0.01
96 3 0.01
97 1 0.00
98 9 0.03
99 3 0.01
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.24
Consensus pattern (91 bp):
GCATGAAAGGATGCATTAAGGCATAAAAGGATGCATAATTAAAATGCATGAAAGGATGCCATAAT
TAAAATGCATGAAATGATACATTAAG
Found at i:6445601 original size:46 final size:46
Alignment explanation
Indices: 6445544--6445820 Score: 446
Period size: 46 Copynumber: 6.0 Consensus size: 46
6445534 ATGCATTAAG
* * *
6445544 GCATGATAGGATGCATTAAGGCATAAAAGGATGTCATAATTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
*
6445590 GAATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
* * *
6445636 GCATGAAATGATGCATTAAGACGTGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
* * *
6445682 GCATGAATGGTTGCATTAAGGCATGAAAGGATACCATAATTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
6445728 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
* *
6445774 GCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAATTTAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
6445820 G
1 G
6445821 TATAAATGGA
Statistics
Matches: 212, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 212 1.00
ACGTcount: A:0.43, C:0.10, G:0.23, T:0.24
Consensus pattern (46 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAT
Found at i:6445605 original size:112 final size:112
Alignment explanation
Indices: 6445354--6445669 Score: 470
Period size: 112 Copynumber: 2.8 Consensus size: 112
6445344 TTAGAGTATG
*
6445354 TAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAATGATG
1 TAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAATGATG
* * * *
6445419 CCATAATTAAAATGCATGAAATGATACATTAAGGCATGAAAGGATGCCATAAT
66 -C---ATT--AAGGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCATAAT
*
6445472 TAAAATGCATGAAAATATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAATGATG
1 TAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAATGATG
* *
6445537 CATTAAGGCATGATAGGATGCATTAAGGCATAAAAGGATGTCATAAT
66 CATTAAGGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCATAAT
* *
6445584 TAAAATGAATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAATGATG
1 TAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAATGATG
* *
6445649 CATTAAGACGTGAAAGGATGC
66 CATTAAGGCATGAAAGGATGC
6445670 CATAATTAAA
Statistics
Matches: 184, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
112 117 0.64
114 3 0.02
117 1 0.01
118 63 0.34
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (112 bp):
TAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAATGATG
CATTAAGGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCATAAT
Found at i:6445617 original size:158 final size:161
Alignment explanation
Indices: 6445354--6445741 Score: 543
Period size: 158 Copynumber: 2.4 Consensus size: 161
6445344 TTAGAGTATG
* * *
6445354 TAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAATGATG
1 TAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCC--AATT-AAAGGCATAAAAGGATG
* *
6445419 CCATAATTAAAATGCATGAAATGATACATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGA
63 CCATAATTAAAATGAATGAAAGGATACATTAAGGCATGAAAGGATGCCATAATTAAAATGCATG-
*
6445484 AAAT-ATGCATTAAGGCATGAAAGGATGCCATAAT
127 AAATGATGCATTAAGACATGAAAGGATGCCATAAT
* *
6445518 TAAAATGCATGAAATGATGCATTAAGGCATGATAGGATG-C-ATT-AAGGCATAAAAGGATGTCA
1 TAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCAATTAAAGGCATAAAAGGATGCCA
*
6445580 TAATTAAAATGAATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAAT
66 TAATTAAAATGAATGAAAGGATACATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAAT
*
6445645 GATGCATTAAGACGTGAAAGGATGCCATAAT
131 GATGCATTAAGACATGAAAGGATGCCATAAT
* * * *
6445676 TAAAATGCATG-AATGGTTGCATTAAGGCATGAAAGGATACCATAATTAAAATGCATGAAAGGAT
1 TAAAATGCATGAAAT-GATGCATTAAGGCATGAAAGGATGCC--AATT-AAAGGCATAAAAGGAT
6445740 GC
62 GC
6445742 ATTAAGGCAT
Statistics
Matches: 200, Mismatches: 16, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
157 7 0.04
158 133 0.67
159 1 0.00
160 3 0.01
162 3 0.01
163 1 0.00
164 52 0.26
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.24
Consensus pattern (161 bp):
TAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCAATTAAAGGCATAAAAGGATGCCA
TAATTAAAATGAATGAAAGGATACATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAAAT
GATGCATTAAGACATGAAAGGATGCCATAAT
Found at i:6445640 original size:138 final size:136
Alignment explanation
Indices: 6445498--6445809 Score: 393
Period size: 138 Copynumber: 2.3 Consensus size: 136
6445488 ATGCATTAAG
* *
6445498 GCATGAAAGGATGCCATAATTAAAATGCATGAAATGATG-C-ATT-AAGGCATG-ATAGGATGCA
1 GCATGAAATGATGCC---ATTAAAA--CATGAAAGGATGCCAATTAAAGGCATGAAT-GGATGCA
**
6445559 TTAAGGCATAAAAGGATGTCATAATTAAAATGAATGAAAGGATGCATTAAGGCATGAAAGGATGC
60 TTAAGGCATAAAAGGATACCATAATTAAAATGAATGAAAGGATGCATTAAGGCATGAAAGGATGC
6445624 CATAATTAAAAT
125 CATAATTAAAAT
* * * *
6445636 GCATGAAATGATG-CATTAAGACGTGAAAGGATGCCATAATTAAAATGCATGAATGGTTGCATTA
1 GCATGAAATGATGCCATTAAAACATGAAAGGATGCC--AATT-AAAGGCATGAATGGATGCATTA
* *
6445700 AGGCATGAAAGGATACCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCAT
63 AGGCATAAAAGGATACCATAATTAAAATGAATGAAAGGATGCATTAAGGCATGAAAGGATGCCAT
6445765 AATTAAAAT
128 AATTAAAAT
**
6445774 GCATGAAATGATG-CATTAAGGCATGAAAGGATGCCA
1 GCATGAAATGATGCCATTAAAACATGAAAGGATGCCA
6445810 TAATTTAAAT
Statistics
Matches: 155, Mismatches: 12, Indels: 16
0.85 0.07 0.09
Matches are distributed among these distances:
132 10 0.06
133 1 0.01
134 6 0.04
136 4 0.03
137 1 0.01
138 131 0.85
139 2 0.01
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (136 bp):
GCATGAAATGATGCCATTAAAACATGAAAGGATGCCAATTAAAGGCATGAATGGATGCATTAAGG
CATAAAAGGATACCATAATTAAAATGAATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAT
TAAAAT
Found at i:6445872 original size:138 final size:138
Alignment explanation
Indices: 6445552--6445857 Score: 420
Period size: 138 Copynumber: 2.2 Consensus size: 138
6445542 AGGCATGATA
* * * *
6445552 GGATGCATTAAGGCATAAAAGGATG-TCATAATTAAAATGAATGAAAGGATGCATTAAGGCATGA
1 GGATGCATTAAGACATAAAAAGA-GACCAAAATTAAAATGAATGAAAGGATGCATTAAGGCATGA
*
6445616 AAGGATGCCATAATTAAAATGCATGAAATGATGCATTAAGACGTGAAAGGATGCCATAATTAAAA
65 AAGGATGCCATAATTAAAATGCATGAAATGATGCATTAAGACATGAAAGGATGCCATAATTAAAA
*
6445681 TGCATGAAT
130 TGCATAAAT
* * * * * * *
6445690 GGTTGCATTAAGGCATGAAAGGATACCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAA
1 GGATGCATTAAGACATAAAAAGAGACCAAAATTAAAATGAATGAAAGGATGCATTAAGGCATGAA
* *
6445755 AGGATGCCATAATTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAATTTAAAT
66 AGGATGCCATAATTAAAATGCATGAAATGATGCATTAAGACATGAAAGGATGCCATAATTAAAAT
*
6445820 GTATAAAT
131 GCATAAAT
*
6445828 GGATG-AGTTAATACATAAAAAGAGA-CAAAA
1 GGATGCA-TTAAGACATAAAAAGAGACCAAAA
6445858 CTTGAAGTTA
Statistics
Matches: 149, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
137 5 0.03
138 144 0.97
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.24
Consensus pattern (138 bp):
GGATGCATTAAGACATAAAAAGAGACCAAAATTAAAATGAATGAAAGGATGCATTAAGGCATGAA
AGGATGCCATAATTAAAATGCATGAAATGATGCATTAAGACATGAAAGGATGCCATAATTAAAAT
GCATAAAT
Found at i:6450365 original size:2 final size:2
Alignment explanation
Indices: 6450358--6450386 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6450348 TTATTATAAC
6450358 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
6450387 CATCTATAGT
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:6468309 original size:4 final size:4
Alignment explanation
Indices: 6468300--6468326 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6468290 CCTAATTCTC
6468300 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
6468327 GTAGTGTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:6472145 original size:45 final size:42
Alignment explanation
Indices: 6472086--6472193 Score: 162
Period size: 45 Copynumber: 2.5 Consensus size: 42
6472076 ATAAGAAGCG
*
6472086 AGAAGAGGATCCGGAGGAAGAAGAAGAGGACCCGGAGGAAGAAGA
1 AGAAGAGGACCCGGAGGAAGAAGAAGAGGACCCGGAGG-AG--GA
*
6472131 AGAAGAGGACCCGGAGGAGGAAGAAGAGGACCCGGAGGAGGA
1 AGAAGAGGACCCGGAGGAAGAAGAAGAGGACCCGGAGGAGGA
*
6472173 AGAAGAAGACCCGGAGGAAGA
1 AGAAGAGGACCCGGAGGAAGA
6472194 GGAAATTGTG
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
42 21 0.36
44 2 0.03
45 36 0.61
ACGTcount: A:0.43, C:0.13, G:0.44, T:0.01
Consensus pattern (42 bp):
AGAAGAGGACCCGGAGGAAGAAGAAGAGGACCCGGAGGAGGA
Found at i:6472197 original size:24 final size:21
Alignment explanation
Indices: 6472086--6472190 Score: 156
Period size: 21 Copynumber: 4.9 Consensus size: 21
6472076 ATAAGAAGCG
* *
6472086 AGAAGAGGATCCGGAGGAAGA
1 AGAAGAGGACCCGGAGGAGGA
6472107 AGAAGAGGACCCGGAGGAAGAAGA
1 AGAAGAGGACCCGGAGG-AG--GA
6472131 AGAAGAGGACCCGGAGGAGGA
1 AGAAGAGGACCCGGAGGAGGA
6472152 AGAAGAGGACCCGGAGGAGGA
1 AGAAGAGGACCCGGAGGAGGA
*
6472173 AGAAGAAGACCCGGAGGA
1 AGAAGAGGACCCGGAGGA
6472191 AGAGGAAATT
Statistics
Matches: 78, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
21 56 0.72
22 1 0.01
23 2 0.03
24 19 0.24
ACGTcount: A:0.42, C:0.13, G:0.44, T:0.01
Consensus pattern (21 bp):
AGAAGAGGACCCGGAGGAGGA
Found at i:6472568 original size:39 final size:39
Alignment explanation
Indices: 6472524--6472640 Score: 234
Period size: 39 Copynumber: 3.0 Consensus size: 39
6472514 TATGATAGAC
6472524 AAGGAGGTTGTAGTATCTTTAATCATAGTATTAAATTGT
1 AAGGAGGTTGTAGTATCTTTAATCATAGTATTAAATTGT
6472563 AAGGAGGTTGTAGTATCTTTAATCATAGTATTAAATTGT
1 AAGGAGGTTGTAGTATCTTTAATCATAGTATTAAATTGT
6472602 AAGGAGGTTGTAGTATCTTTAATCATAGTATTAAATTGT
1 AAGGAGGTTGTAGTATCTTTAATCATAGTATTAAATTGT
6472641 GGCGGCAATG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (39 bp):
AAGGAGGTTGTAGTATCTTTAATCATAGTATTAAATTGT
Found at i:6476331 original size:25 final size:26
Alignment explanation
Indices: 6476281--6476333 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
6476271 TCTTAATTTA
*
6476281 TTATGAGAAAACAAATCATCTCTAAC
1 TTATGAGAAAACAAATAATCTCTAAC
*
6476307 TTATGAGAAAA-AAATAATCTTTAAC
1 TTATGAGAAAACAAATAATCTCTAAC
6476332 TT
1 TT
6476334 GGAAAAACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (26 bp):
TTATGAGAAAACAAATAATCTCTAAC
Found at i:6478077 original size:3 final size:3
Alignment explanation
Indices: 6478069--6478105 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
6478059 GCATATCTAT
6478069 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6478106 CCATACATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6498930 original size:22 final size:22
Alignment explanation
Indices: 6498905--6498948 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6498895 AGAGTGGCCT
6498905 TGAGACAAACCAAGAGAGCCAC
1 TGAGACAAACCAAGAGAGCCAC
*
6498927 TGAGATAAACCAAGAGAGCCAC
1 TGAGACAAACCAAGAGAGCCAC
6498949 CGAGCCAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.25, G:0.23, T:0.07
Consensus pattern (22 bp):
TGAGACAAACCAAGAGAGCCAC
Found at i:6504420 original size:20 final size:20
Alignment explanation
Indices: 6504375--6504420 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
6504365 ATTAATACAC
6504375 AATTTATTTTTAAGATTATA
1 AATTTATTTTTAAGATTATA
6504395 AA-TTATTTTTACA-ATTATA
1 AATTTATTTTTA-AGATTATA
6504414 AATTTAT
1 AATTTAT
6504421 GATTTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTTATTTTTAAGATTATA
Found at i:6516952 original size:23 final size:23
Alignment explanation
Indices: 6516925--6516987 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
6516915 GCTATGTATT
* *
6516925 TGTCCCGAAGAACCACTATGAAA
1 TGTCCCAAAGGACCACTATGAAA
6516948 TGTCCCAAAGGACCACTATGAAA
1 TGTCCCAAAGGACCACTATGAAA
6516971 TGTCCCAAAGGACCACT
1 TGTCCCAAAGGACCACT
6516988 GTAAATCCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.37, C:0.29, G:0.17, T:0.17
Consensus pattern (23 bp):
TGTCCCAAAGGACCACTATGAAA
Found at i:6519393 original size:18 final size:18
Alignment explanation
Indices: 6519370--6519420 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
6519360 GCGTAGAATT
6519370 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
6519388 TGTCCCAAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
6519406 TGTCCTGAAGGACCA
1 TGTCCCGAAGGACCA
6519421 AATAGAACAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.29, C:0.31, G:0.22, T:0.18
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:6520267 original size:35 final size:35
Alignment explanation
Indices: 6520227--6520308 Score: 155
Period size: 35 Copynumber: 2.3 Consensus size: 35
6520217 ACCCTTCTTA
*
6520227 GGTATCGATACCAAAATTAGGTTCGATGTACCCTG
1 GGTATCGATACCAAAATTAGGCTCGATGTACCCTG
6520262 GGTATCGATACCAAAATTAGGCTCGATGTACCCTG
1 GGTATCGATACCAAAATTAGGCTCGATGTACCCTG
6520297 GGTATCGATACC
1 GGTATCGATACC
6520309 CTCCACGTAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (35 bp):
GGTATCGATACCAAAATTAGGCTCGATGTACCCTG
Found at i:6520349 original size:22 final size:20
Alignment explanation
Indices: 6520297--6520349 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
6520287 ATGTACCCTG
6520297 GGTATCGATACCCTCCACGTA
1 GGTATCGATACCCTCCAC-TA
*
6520318 GGTATTGATACCTCTTCCA-TA
1 GGTATCGATACC-C-TCCACTA
6520339 TGGTATCGATA
1 -GGTATCGATA
6520350 TTGTTCATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 13 0.48
22 10 0.37
23 4 0.15
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (20 bp):
GGTATCGATACCCTCCACTA
Found at i:6523956 original size:16 final size:16
Alignment explanation
Indices: 6523932--6523978 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
6523922 ATTTTCACCA
*
6523932 CATGAAACTATATGAG
1 CATGCAACTATATGAG
6523948 CATGCAACTATATGAG
1 CATGCAACTATATGAG
*
6523964 CATGCAACTAAATGA
1 CATGCAACTATATGA
6523979 TATGATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (16 bp):
CATGCAACTATATGAG
Found at i:6524260 original size:32 final size:32
Alignment explanation
Indices: 6524224--6524287 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
6524214 TATGTCTCAC
6524224 AGATCTATCTTCTAAGAGTACTTGTGATTTTG
1 AGATCTATCTTCTAAGAGTACTTGTGATTTTG
6524256 AGATCTATCTTCTAAGAGTACTTGTGATTTTG
1 AGATCTATCTTCTAAGAGTACTTGTGATTTTG
6524288 GGATTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (32 bp):
AGATCTATCTTCTAAGAGTACTTGTGATTTTG
Found at i:6524621 original size:22 final size:20
Alignment explanation
Indices: 6524586--6524639 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 20
6524576 TCTGTAACAC
6524586 TTTTAATAAA-TAAATAATATAA
1 TTTTAA-AAATTAAATAA-AT-A
6524608 TTTTAAAAATTAAATAAATA
1 TTTTAAAAATTAAATAAATA
6524628 TTTTAAATAATT
1 TTTTAAA-AATT
6524640 TCTATAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.27
21 9 0.30
22 13 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTTAAAAATTAAATAAATA
Done.