Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 16 of 84
Found at i:2945250 original size:41 final size:41
Alignment explanation
Indices: 2945197--2945292 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
2945187 TTAAAGTTTT
* ** * *
2945197 AAAGTCTCTGTTTAAAAAGAACCGTTTTTAATCAAGATTTG
1 AAAGCCTCTGTTTAAAAAGAACCAATTTCAATCAAGATTTC
* * * *
2945238 AAAGCCTTTGTTTAAGAGGAATCAATTTCAATCAAGATTTC
1 AAAGCCTCTGTTTAAAAAGAACCAATTTCAATCAAGATTTC
2945279 AAAGCCTCTGTTTA
1 AAAGCCTCTGTTTA
2945293 GAGGGAACCT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (41 bp):
AAAGCCTCTGTTTAAAAAGAACCAATTTCAATCAAGATTTC
Found at i:2945785 original size:110 final size:109
Alignment explanation
Indices: 2945547--2945803 Score: 293
Period size: 109 Copynumber: 2.3 Consensus size: 109
2945537 AAGATTTTGA
* * * * * * *
2945547 GATT-TGTAAGACTTCCAGGCATAATCTCTAATACCTCAGGGCATAATTTCGATTCGCAGTATTG
1 GATTCTGTAAGACTTCCGGGCATGATTTCTAAGACCTCAGGACATAAATTCGATTCGCAGTATTA
*
2945611 TCCCAATCGATTTTTTCTTTTTGACTTGCGGTGTTATCTCAGTC
66 TCCCAATCGATTTTTTCTTTTTGACTTGCGGTGTTATCCCAGTC
* * * * ** *
2945655 AATTCTATAAGACCTCCGGGCATGATTTCTAAGACCTCTGGACATAAATTCGATTCGTGGTGTTA
1 GATTCTGTAAGACTTCCGGGCATGATTTCTAAGACCTCAGGACATAAATTCGATTCGCAGTATTA
* **
2945720 TCCCGATCGATTCTTTATC-TTTTGACTTTTGGTGTTATCCCAGTC
66 TCCCAATCGATT-TTT-TCTTTTTGACTTGCGGTGTTATCCCAGTC
* *
2945765 GATTCTGTAAGACTTTCGGGCATGATTCTGTAAGACCTC
1 GATTCTGTAAGACTTCCGGGCATGATT-TCTAAGACCTC
2945804 CATGCATGAT
Statistics
Matches: 122, Mismatches: 23, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
108 3 0.02
109 58 0.48
110 49 0.40
111 12 0.10
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (109 bp):
GATTCTGTAAGACTTCCGGGCATGATTTCTAAGACCTCAGGACATAAATTCGATTCGCAGTATTA
TCCCAATCGATTTTTTCTTTTTGACTTGCGGTGTTATCCCAGTC
Found at i:2945810 original size:23 final size:23
Alignment explanation
Indices: 2945765--2945826 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
2945755 TATCCCAGTC
* * *
2945765 GATTCTGTAAGACTTTCGGGCAT
1 GATTCTGTAAGACCTCCAGGCAT
*
2945788 GATTCTGTAAGACCTCCATGCAT
1 GATTCTGTAAGACCTCCAGGCAT
2945811 GATT-TCG-AAGACCTCC
1 GATTCT-GTAAGACCTCC
2945827 GAGCATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 10 0.29
23 24 0.71
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (23 bp):
GATTCTGTAAGACCTCCAGGCAT
Found at i:2945839 original size:22 final size:22
Alignment explanation
Indices: 2945796--2945840 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
2945786 ATGATTCTGT
* *
2945796 AAGACCTCCATGCATGATTTCG
1 AAGACCTCCATGCATAAATTCG
2945818 AAGACCTCCGA-GCATAAATTCG
1 AAGACCTCC-ATGCATAAATTCG
2945840 A
1 A
2945841 TTCGCGGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (22 bp):
AAGACCTCCATGCATAAATTCG
Found at i:2945894 original size:133 final size:133
Alignment explanation
Indices: 2945656--2946195 Score: 650
Period size: 131 Copynumber: 4.1 Consensus size: 133
2945646 ATCTCAGTCA
* * * * *
2945656 ATTCTATAAGACCTCCGGGCATGATTTCTAAGACCTCTGGACATAAATTCGATTCGTGGTGTTAT
1 ATTCTGTAAGACCTCCGGGCATGATTTCGAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTAT
** *
2945721 CCCGATCGATTCTTTATCTTTTGACTTTTGGTGTTATCCCAGTCGATTCTGTAAGACTTTCGGGC
66 CCCGATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAGTCGATTCTGTAAGACCTTCGGGC
2945786 ATG
131 ATG
** *
2945789 ATTCTGTAAGACCTCCATGCATGATTTCGAAGACCTCCGAGCATAAATTCGATTCGCGGTGTTAT
1 ATTCTGTAAGACCTCCGGGCATGATTTCGAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTAT
* * * *
2945854 CTCGATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAATCGATTC--TAAAACTTTCGGGC
66 CCCGATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAGTCGATTCTGTAAGACCTTCGGGC
2945917 ATG
131 ATG
* * * * * ** * * *
2945920 ATTCTGTAAGACCTCCGGGCATGATTTCTAAAACCTTCGGGTATAATTTCGATTTACGATGCTGT
1 ATTCTGTAAGACCTCCGGGCATGATTTCGAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTAT
* * *
2945985 CCCGATCGATTTTTTAT-TTTTGACTTACGGTGTTATCCCAGTC-ATTTCTGTAAGACCTTCGGA
66 CCCGATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAGTCGA-TTCTGTAAGACCTTCGGG
2946048 CATG
130 CATG
* * *
2946052 ATT-TCTAAGACCTCCGGGCA--A-TTCTGTAAGACCTCCGGGCATAATTTTGATTCGCGGTGTT
1 ATTCTGTAAGACCTCCGGGCATGATTTC-G-AAGACCTCCGGGCATAAATTCGATTCGCGGTGTT
* * * *
2946113 ATCCCGATCAATT-TCTTATCTTTTGACTTGTGATGTTATCCCAGTCGATTCTGTAAGACCTCCG
64 ATCCCGATCGATTCT-TTATCTTTTGACTTGCGGTGTTATCCCAGTCGATTCTGTAAGACCTTCG
2946177 GGCATG
128 GGCATG
*
2946183 ATT-TTTAAGACCT
1 ATTCTGTAAGACCT
2946196 TTAGGCATAA
Statistics
Matches: 348, Mismatches: 51, Indels: 18
0.83 0.12 0.04
Matches are distributed among these distances:
128 3 0.01
129 3 0.01
130 68 0.20
131 154 0.44
132 18 0.05
133 102 0.29
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (133 bp):
ATTCTGTAAGACCTCCGGGCATGATTTCGAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTAT
CCCGATCGATTCTTTATCTTTTGACTTGCGGTGTTATCCCAGTCGATTCTGTAAGACCTTCGGGC
ATG
Found at i:2945960 original size:22 final size:22
Alignment explanation
Indices: 2945900--2945969 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
2945890 TCCCAATCGA
*
2945900 TTCTAAAACTTTCGGGCATGAT
1 TTCTAAAACCTTCGGGCATGAT
* * *
2945922 TCTGTAAGACCTCCGGGCATGAT
1 T-TCTAAAACCTTCGGGCATGAT
* *
2945945 TTCTAAAACCTTCGGGTATAAT
1 TTCTAAAACCTTCGGGCATGAT
2945967 TTC
1 TTC
2945970 GATTTACGAT
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
22 20 0.53
23 18 0.47
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (22 bp):
TTCTAAAACCTTCGGGCATGAT
Found at i:2946083 original size:21 final size:22
Alignment explanation
Indices: 2946030--2946092 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
2946020 TCCCAGTCAT
* *
2946030 TTCTGTAAGACCTTCGGACATGA
1 TTCTGTAAGACCTCCGGGCA-GA
*
2946053 TT-TCTAAGACCTCCGGGCA-A
1 TTCTGTAAGACCTCCGGGCAGA
2946073 TTCTGTAAGACCTCCGGGCA
1 TTCTGTAAGACCTCCGGGCA
2946093 TAATTTTGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 3 0.09
21 16 0.46
22 14 0.40
23 2 0.06
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (22 bp):
TTCTGTAAGACCTCCGGGCAGA
Found at i:2947871 original size:16 final size:16
Alignment explanation
Indices: 2947852--2947966 Score: 99
Period size: 16 Copynumber: 7.2 Consensus size: 16
2947842 CTAGGTTTCT
2947852 AAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
*
2947868 AAAACCTACTAAAATCC
1 AAAACC-CCTAAAATCC
*
2947885 -AAACCCCTAAAAATCT
1 AAAACCCCT-AAAATCC
* * *
2947901 AAAATCTCTTAAATCC
1 AAAACCCCTAAAATCC
* *
2947917 -GAACCCCTAAAATTC
1 AAAACCCCTAAAATCC
* *
2947932 GAAACACCTAAAATCC
1 AAAACCCCTAAAATCC
**
2947948 AAAGTCCCTAAAATCC
1 AAAACCCCTAAAATCC
2947964 AAA
1 AAA
2947967 CCCTTAAATC
Statistics
Matches: 76, Mismatches: 19, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
15 12 0.16
16 49 0.64
17 15 0.20
ACGTcount: A:0.49, C:0.30, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:2947889 original size:32 final size:32
Alignment explanation
Indices: 2947853--2948006 Score: 118
Period size: 32 Copynumber: 4.7 Consensus size: 32
2947843 TAGGTTTCTA
2947853 AAACCCCTAAAATCCAAAACCTACTAAAATCC
1 AAACCCCTAAAATCCAAAACCTACTAAAATCC
* * *
2947885 AAACCCCTAAAAATCTAAAATCT-CTTAAATCC
1 AAACCCCT-AAAATCCAAAACCTACTAAAATCC
* * *
2947917 GAACCCCTAAAATTCGAAA-C-ACCTAAAATCC
1 AAACCCCTAAAATCCAAAACCTA-CTAAAATCC
* * *
2947948 AAAGTCCCTAAAATCCAAACCCTTAAATCAAAACTCC
1 AAA-CCCCTAAAATCCAAAACC-T-ACT-AAAA-TCC
* *
2947985 AAA-CCCTAAAACCCAAATCCTA
1 AAACCCCTAAAATCCAAAACCTA
2948007 AAATCTCCAA
Statistics
Matches: 96, Mismatches: 16, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
30 1 0.01
31 18 0.19
32 35 0.36
33 14 0.15
34 1 0.01
35 16 0.17
36 5 0.05
37 6 0.06
ACGTcount: A:0.47, C:0.32, G:0.02, T:0.18
Consensus pattern (32 bp):
AAACCCCTAAAATCCAAAACCTACTAAAATCC
Found at i:2947946 original size:47 final size:47
Alignment explanation
Indices: 2947852--2947974 Score: 122
Period size: 47 Copynumber: 2.6 Consensus size: 47
2947842 CTAGGTTTCT
* * * *
2947852 AAAACCCCTAAAATCCAAAACCTACTAAAATCCAAACCCCTAAAAATCT
1 AAAATCCCTAAAATCC-AAACC-CCTAAAATCCAAACACCTAAAAATCC
* * * *
2947901 AAAATCTCTTAAATCCGAACCCCTAAAATTCGAAACACCT-AAAATCC
1 AAAATCCCTAAAATCCAAACCCCTAAAA-TCCAAACACCTAAAAATCC
* *
2947948 AAAGTCCCTAAAATCCAAACCCTTAAA
1 AAAATCCCTAAAATCCAAACCCCTAAA
2947975 TCAAAACTCC
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
47 34 0.57
48 13 0.22
49 13 0.22
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (47 bp):
AAAATCCCTAAAATCCAAACCCCTAAAATCCAAACACCTAAAAATCC
Found at i:2948000 original size:14 final size:15
Alignment explanation
Indices: 2947977--2948038 Score: 74
Period size: 14 Copynumber: 4.2 Consensus size: 15
2947967 CCCTTAAATC
2947977 AAAACTCCAAACCCT
1 AAAACTCCAAACCCT
*
2947992 AAAAC-CCAAATCCT
1 AAAACTCCAAACCCT
*
2948006 AAAATCTCCAAACTCT
1 AAAA-CTCCAAACCCT
*
2948022 AAAA-TCAAAACCCT
1 AAAACTCCAAACCCT
2948036 AAA
1 AAA
2948039 CCTTCCATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 23 0.57
15 6 0.15
16 11 0.28
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAACTCCAAACCCT
Found at i:2948001 original size:51 final size:50
Alignment explanation
Indices: 2947933--2948040 Score: 130
Period size: 51 Copynumber: 2.1 Consensus size: 50
2947923 CTAAAATTCG
* *
2947933 AAACACCTAAAATCCAAAGTCCCTAAAA-TCCAAACCCTTAAATCAAAACTCC-
1 AAAC-CCTAAAACCCAAA-T-CCTAAAACTCCAAACCCTAAAATCAAAAC-CCT
*
2947985 AAACCCTAAAACCCAAATCCTAAAATCTCCAAACTCTAAAATCAAAACCCT
1 AAACCCTAAAACCCAAATCCTAAAA-CTCCAAACCCTAAAATCAAAACCCT
2948036 AAACC
1 AAACC
2948041 TTCCATATCC
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
49 7 0.14
50 3 0.06
51 36 0.72
52 4 0.08
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.17
Consensus pattern (50 bp):
AAACCCTAAAACCCAAATCCTAAAACTCCAAACCCTAAAATCAAAACCCT
Found at i:2948037 original size:30 final size:29
Alignment explanation
Indices: 2947977--2948038 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
2947967 CCCTTAAATC
* *
2947977 AAAACTCCAAACCCTAAAACCCAAATCCT
1 AAAACTCCAAACCCTAAAACCAAAACCCT
* *
2948006 AAAATCTCCAAACTCTAAAATCAAAACCCT
1 AAAA-CTCCAAACCCTAAAACCAAAACCCT
2948036 AAA
1 AAA
2948039 CCTTCCATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (29 bp):
AAAACTCCAAACCCTAAAACCAAAACCCT
Found at i:2948471 original size:24 final size:23
Alignment explanation
Indices: 2948444--2948519 Score: 66
Period size: 24 Copynumber: 3.3 Consensus size: 23
2948434 TTGATGATAA
2948444 AATATTTTATAATAAAAAAAGAAT
1 AATATTTTATAATAAAAAAA-AAT
* **
2948468 AATACTTT-TAA-AAAAAATTAT
1 AATATTTTATAATAAAAAAAAAT
* * *
2948489 GATATTATAAAATAAAATAAAAAT
1 AATATTTTATAATAAAA-AAAAAT
2948513 AATATTT
1 AATATTT
2948520 CAAAAGAAAT
Statistics
Matches: 38, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
21 7 0.18
22 8 0.21
23 7 0.18
24 16 0.42
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (23 bp):
AATATTTTATAATAAAAAAAAAT
Found at i:2948514 original size:45 final size:44
Alignment explanation
Indices: 2948445--2948529 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 44
2948435 TGATGATAAA
* * *
2948445 ATATTTTATAATAAAAAAAGAATAATACTTTTAAAAAAAATTATG
1 ATATTATAAAATAAAAAAAGAATAATA-TTTCAAAAAAAATTATG
*
2948490 ATATTATAAAATAAAATAAA-AATAATATTTCAAAAGAAAT
1 ATATTATAAAATAAAA-AAAGAATAATATTTCAAAAAAAAT
2948530 AATTCTTGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
44 11 0.31
45 21 0.60
46 3 0.09
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (44 bp):
ATATTATAAAATAAAAAAAGAATAATATTTCAAAAAAAATTATG
Found at i:2953361 original size:4 final size:4
Alignment explanation
Indices: 2953354--2953379 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2953344 GAATATATAT
2953354 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
2953380 GTTCTCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:2957926 original size:14 final size:14
Alignment explanation
Indices: 2957907--2957933 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2957897 TTAGAATGGG
2957907 AGAACATAATTGGA
1 AGAACATAATTGGA
2957921 AGAACATAATTGG
1 AGAACATAATTGG
2957934 TCATATCCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.22, T:0.22
Consensus pattern (14 bp):
AGAACATAATTGGA
Found at i:2965301 original size:9 final size:9
Alignment explanation
Indices: 2965289--2965338 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
2965279 ACAAAAGTAC
2965289 AAAAAAATG
1 AAAAAAATG
2965298 AAAAAAAT-
1 AAAAAAATG
2965306 --AAAAATG
1 AAAAAAATG
2965313 AAAAAAAT-
1 AAAAAAATG
*
2965321 -AAAAAATA
1 AAAAAAATG
2965329 AAAAAAATG
1 AAAAAAATG
2965338 A
1 A
2965339 GAAAGGAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
6 6 0.17
7 7 0.20
9 22 0.63
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (9 bp):
AAAAAAATG
Found at i:2965311 original size:15 final size:16
Alignment explanation
Indices: 2965290--2965336 Score: 78
Period size: 15 Copynumber: 3.0 Consensus size: 16
2965280 CAAAAGTACA
2965290 AAAAAATGAAAAAAAT
1 AAAAAATGAAAAAAAT
2965306 -AAAAATGAAAAAAAT
1 AAAAAATGAAAAAAAT
*
2965321 AAAAAATAAAAAAAAT
1 AAAAAATGAAAAAAAT
2965337 GAGAAAGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 15 0.52
16 14 0.48
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (16 bp):
AAAAAATGAAAAAAAT
Found at i:2966495 original size:35 final size:35
Alignment explanation
Indices: 2966398--2966704 Score: 127
Period size: 35 Copynumber: 8.5 Consensus size: 35
2966388 GGTTCAATCT
* * * * *
2966398 CAGTCGTCTTTAATCTTTGACTCGTGGTTTAATCC
1 CAGTCATCTTTATTCTTTGGCTCGCGGTTTAGTCC
* * * * ** *
2966433 CGGTCAT-TTCATTCTCTGACTTACGGTTCAGTCC
1 CAGTCATCTTTATTCTTTGGCTCGCGGTTTAGTCC
* *
2966467 CAATCATCTTTATTCTTTGGCTCGCGGTTTAATCC
1 CAGTCATCTTTATTCTTTGGCTCGCGGTTTAGTCC
* * * * *
2966502 C-GATCATTTCATTAATT-TTCTGACTTGTGGTTTAGTCT
1 CAG-TCA--TC-TTTATTCTT-TGGCTCGCGGTTTAGTCC
* * * *
2966540 TAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCC
1 CAGTCATCTTTATTCTTTGGCTCGCGGTTTAGTCC
* * * * * *
2966575 CGGTCATTTCATTAATTTTTTGACTTGCGGTTCAGTCC
1 CAGTCA--TC-TTTATTCTTTGGCTCGCGGTTTAGTCC
* * * *
2966613 CAGTCATCTTTAATCTTTGGCTCGCGATTTAATCT
1 CAGTCATCTTTATTCTTTGGCTCGCGGTTTAGTCC
* * * * *
2966648 C-GATCATTTCATTAATTTTTTGACTTGCGGTTTAGTTC
1 CAG-TCA--TC-TTTATTCTTTGGCTCGCGGTTTAGTCC
*
2966686 CAGTCATCTTTAATCTTTG
1 CAGTCATCTTTATTCTTTG
2966705 ACTCATGATT
Statistics
Matches: 191, Mismatches: 65, Indels: 32
0.66 0.23 0.11
Matches are distributed among these distances:
34 25 0.13
35 81 0.42
36 8 0.04
37 8 0.04
38 67 0.35
39 2 0.01
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (35 bp):
CAGTCATCTTTATTCTTTGGCTCGCGGTTTAGTCC
Found at i:2966557 original size:73 final size:73
Alignment explanation
Indices: 2966379--2967215 Score: 987
Period size: 73 Copynumber: 11.6 Consensus size: 73
2966369 GTATAATTGG
* * * * *
2966379 CTGACTTGTGGTTCAATCTCAGTCGTCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCATTTC-
1 CTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
2966443 ---ATTCT
66 TTAATTCT
* * * * *
2966448 CTGACTTACGGTTCAGTCCCAATCATCTTTATTCTTTGGCTCGCGGTTTAATCCCGATCATTTCA
1 CTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
*
2966513 TTAATTTT
66 TTAATTCT
* * ** * *
2966521 CTGACTTGTGGTTTAGTCTTAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCCGGTCATTTCA
1 CTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
*
2966586 TTAATTTT
66 TTAATTCT
* * * * *
2966594 TTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGCGATTTAATCTCGATCATTTCA
1 CTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
*
2966659 TTAATTTT
66 TTAATTCT
* * * * *
2966667 TTGACTTGCGGTTTAGTTCCAGTCATCTTTAATCTTTGACTCATGATTTAATCCCGATCATTTC-
1 CTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
2966731 ---ATTCT
66 TTAATTCT
* * * * **
2966736 CTAACTTGTGGTTCAGTCCTAGTCATCTTTAATCTTTAACTTATGGTTTAATCCCGATCATTTCA
1 CTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
*
2966801 TTAATTTT
66 TTAATTCT
* * * * * *
2966809 TTGACTTGTGATTTAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCTGATCATTTCA
1 CTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
2966874 TTAATTCT
66 TTAATTCT
* * ** * * *
2966882 CTGACTTACGATTCAGTTTCAGTCGTCTTTCATCTTTGACTCATGGTTTAATCCCGATCATTTC-
1 CTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
2966946 ---ATTCT
66 TTAATTCT
* *
2966951 CTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCA
1 CTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
2967016 TTAATTCT
66 TTAATTCT
* * * * * *
2967024 CTCGACTTGCGATTCAGTCCTAATCATCTTTAATCTTTGACTCGCGATTTAATCCTGATCATTTC
1 CT-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTC
*
2967089 ATTAATTCC
65 ATTAATTCT
* * *
2967098 CTCGACTTGCGGTTCAATCCCAGTCATCTTTAATTTTTGACTCATGGTTTAATCCCGATCATTTC
1 CT-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTC
*
2967163 ATTAATTCC
65 ATTAATTCT
* *
2967172 CTCGACTTGCAGTTCAGTCTCAGTCATCTTTAATCTTTGACTCG
1 CT-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCG
2967216 CGGTGTCGTC
Statistics
Matches: 655, Mismatches: 100, Indels: 21
0.84 0.13 0.03
Matches are distributed among these distances:
69 173 0.26
73 316 0.48
74 166 0.25
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (73 bp):
CTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
TTAATTCT
Found at i:2966761 original size:215 final size:215
Alignment explanation
Indices: 2966380--2967215 Score: 1009
Period size: 215 Copynumber: 3.9 Consensus size: 215
2966370 TATAATTGGC
* * * * * * * * *
2966380 TGACTTGTGGTTCAATCTCAGTCGTCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCATTTC--
1 TGACTTGCGATTCAGTCCCAGTCATCTTTAATCTTTGACTCGCGATTTAATCCTGATCATTTCAT
* * * **
2966443 --ATTCTCTGACTTACGGTTCAGTCCCAATCATCTTTATTCTTTGGCTCGCGGTTTAATCCCGAT
66 TAATTCTCTGACTTACGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGAT
* * *
2966506 CATTTCATTAATTTTCTGACTTGTGGTTTAGTCTTAGTCATCTTTAATCTTTGGCTCGTGGTTTA
131 CATTTC----ATTCTCTGACTTGTGGTTCAGTCCTAGTCATCTTTAATCTTTGGCTCGTGGTTTA
*
2966571 ATCCCGGTCATTTCATTAATTTTT
192 ATCCCGATCATTTCATTAATTTTT
* *
2966595 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGCGATTTAAT-CTCGATCATTTCA
1 TGACTTGCGATTCAGTCCCAGTCATCTTTAATCTTTGACTCGCGATTTAATCCT-GATCATTTCA
* * * * * *
2966659 TTAATTTTTTGACTTGCGGTTTAGTTCCAGTCATCTTTAATCTTTGACTCATGATTTAATCCCGA
65 TTAATTCTCTGACTTACGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGA
* ** **
2966724 TCATTTCATTCTCTAACTTGTGGTTCAGTCCTAGTCATCTTTAATCTTTAACTTATGGTTTAATC
130 TCATTTCATTCTCTGACTTGTGGTTCAGTCCTAGTCATCTTTAATCTTTGGCTCGTGGTTTAATC
2966789 CCGATCATTTCATTAATTTTT
195 CCGATCATTTCATTAATTTTT
* * * * *
2966810 TGACTTGTGATTTAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCTGATCATTTCAT
1 TGACTTGCGATTCAGTCCCAGTCATCTTTAATCTTTGACTCGCGATTTAATCCTGATCATTTCAT
* ** * *
2966875 TAATTCTCTGACTTACGATTCAGTTTCAGTCGTCTTTCATCTTTGACTCATGGTTTAATCCCGAT
66 TAATTCTCTGACTTACGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGAT
* * *
2966940 CATTTCATTCTCTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCT
131 CATTTCATTCTCTGACTTGTGGTTCAGTCCTAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCC
*
2967005 CGATCATTTCATTAATTCTCT
196 CGATCATTTCATTAATT-TTT
* * *
2967026 CGACTTGCGATTCAGTCCTAATCATCTTTAATCTTTGACTCGCGATTTAATCCTGATCATTTCAT
1 TGACTTGCGATTCAGTCCCAGTCATCTTTAATCTTTGACTCGCGATTTAATCCTGATCATTTCAT
* * * *
2967091 TAATTCCCTCGACTTGCGGTTCAATCCCAGTCATCTTTAATTTTTGACTCATGGTTTAATCCCGA
66 TAATTCTCT-GACTTACGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGA
* ** *
2967156 TCATTTCATTAATTCCCTCGACTTGCAGTTCAGT-CTCAGTCATCTTTAATCTTTGACTCG
130 TCATTTC----ATTCTCT-GACTTGTGGTTCAGTCCT-AGTCATCTTTAATCTTTGGCTCG
2967216 CGGTGTCGTC
Statistics
Matches: 534, Mismatches: 73, Indels: 21
0.85 0.12 0.03
Matches are distributed among these distances:
214 1 0.00
215 309 0.58
216 69 0.13
217 54 0.10
219 58 0.11
221 7 0.01
222 36 0.07
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (215 bp):
TGACTTGCGATTCAGTCCCAGTCATCTTTAATCTTTGACTCGCGATTTAATCCTGATCATTTCAT
TAATTCTCTGACTTACGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGAT
CATTTCATTCTCTGACTTGTGGTTCAGTCCTAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCC
CGATCATTTCATTAATTTTT
Found at i:2966812 original size:142 final size:143
Alignment explanation
Indices: 2966380--2967237 Score: 922
Period size: 142 Copynumber: 5.9 Consensus size: 143
2966370 TATAATTGGC
* * * * * *
2966380 TGACTTGTGGTTCAATCTCAGTCGTCTTTAATCTTTGACTCGTGGTTTAATCCCGGTCATTTC-A
1 TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAA
* * * * *
2966444 TTCTCTGACTTACGGTTCAGTCCCAATCATCTTTATTCTTTGGCTCGCGGTTTAATCCCGATCAT
66 TTCTCTGACTTGCGGTTCAGTCCTAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCAT
*
2966509 TTCATTAATTTTC
131 TTCATTAATTTTT
* ** * *
2966522 TGACTTGTGGTTTAGTCTTAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCCGGTCATTTCAT
1 TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTC--
* * * * * *
2966587 TAATTTTTTGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGCGATTTAATCTCGAT
64 -AATTCTCTGACTTGCGGTTCAGTCCTAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGAT
2966652 CATTTCATTAATTTTT
128 CATTTCATTAATTTTT
* * *
2966668 TGACTTGCGGTTTAGTTCCAGTCATCTTTAATCTTTGACTCATGATTTAATCCCGATCATTTC-A
1 TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAA
* * * ***
2966732 TTCTCTAACTTGTGGTTCAGTCCTAGTCATCTTTAATCTTTAACTTATGGTTTAATCCCGATCAT
66 TTCTCTGACTTGCGGTTCAGTCCTAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCAT
2966797 TTCATTAATTTTT
131 TTCATTAATTTTT
* * * *
2966810 TGACTTGTGATTTAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCTGATCATTTCAT
1 TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTC--
* * * * * **
2966875 TAATTCTCTGACTTACGATTCAGT-TTCAGTCGTCTTTCATCTTTGACTCATGGTTTAATCCCGA
64 -AATTCTCTGACTTGCGGTTCAGTCCT-AGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGA
* *
2966939 TCATTTC----ATTCTC
127 TCATTTCATTAATTTTT
* * *
2966952 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCAT
1 TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTC--
* * * *
2967017 TAATTCTCTCGACTTGCGATTCAGTCCTAATCATCTTTAATCTTTGACTCGCGATTTAATCCTGA
64 -AATTCTCT-GACTTGCGGTTCAGTCCTAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGA
**
2967082 TCATTTCATTAATTCCCT
127 TCATTTCATTAATT-TTT
* * * * *
2967100 CGACTTGCGGTTCAATCCCAGTCATCTTTAATTTTTGACTCATGGTTTAATCCCGATCATTTCAT
1 TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTC--
* * * **
2967165 TAATTCCCTCGACTTGCAGTTCAGT-CTCAGTCATCTTTAATCTTTGACTCGCGGTGTCGTCCCG
64 -AATTCTCT-GACTTGCGGTTCAGTCCT-AGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCG
2967229 ATCACTTTC
126 ATCA-TTTC
2967238 TTTTATTCGA
Statistics
Matches: 616, Mismatches: 82, Indels: 29
0.85 0.11 0.04
Matches are distributed among these distances:
142 254 0.41
143 51 0.08
144 1 0.00
145 1 0.00
146 184 0.30
147 5 0.01
148 116 0.19
149 4 0.01
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.43
Consensus pattern (143 bp):
TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAA
TTCTCTGACTTGCGGTTCAGTCCTAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGATCAT
TTCATTAATTTTT
Found at i:2967050 original size:39 final size:39
Alignment explanation
Indices: 2967007--2967117 Score: 122
Period size: 35 Copynumber: 2.9 Consensus size: 39
2966997 TTTAATCTCG
*
2967007 ATCATTTCATTAATTCTCTCGACTTGCGATTCAGTCCTA
1 ATCATTTCATTAATTCTCTCGACTTGCGATTCAATCCTA
* * * * *
2967046 ATCA--TCTTTAA-TCT-TTGACTCGCGATTTAATCCTG
1 ATCATTTCATTAATTCTCTCGACTTGCGATTCAATCCTA
* *
2967081 ATCATTTCATTAATTCCCTCGACTTGCGGTTCAATCC
1 ATCATTTCATTAATTCTCTCGACTTGCGATTCAATCC
2967118 CAGTCATCTT
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
35 20 0.36
36 3 0.05
37 12 0.21
38 2 0.04
39 19 0.34
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.41
Consensus pattern (39 bp):
ATCATTTCATTAATTCTCTCGACTTGCGATTCAATCCTA
Found at i:2967131 original size:37 final size:37
Alignment explanation
Indices: 2967090--2967205 Score: 94
Period size: 37 Copynumber: 3.1 Consensus size: 37
2967080 GATCATTTCA
2967090 TTAATTCCCTCGACTTGCGGTTCAATCCCAGTCATCT
1 TTAATTCCCTCGACTTGCGGTTCAATCCCAGTCATCT
* * *** * *
2967127 TTAATT--TTTGACTCATGGTTTAATCCC-GATCATTTCA
1 TTAATTCCCTCGACTTGCGGTTCAATCCCAG-TCA--TCT
* * *
2967164 TTAATTCCCTCGACTTGCAGTTCAGTCTCAGTCATCT
1 TTAATTCCCTCGACTTGCGGTTCAATCCCAGTCATCT
2967201 TTAAT
1 TTAAT
2967206 CTTTGACTCG
Statistics
Matches: 56, Mismatches: 17, Indels: 12
0.66 0.20 0.14
Matches are distributed among these distances:
34 1 0.02
35 18 0.32
37 21 0.38
39 15 0.27
40 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.41
Consensus pattern (37 bp):
TTAATTCCCTCGACTTGCGGTTCAATCCCAGTCATCT
Found at i:2967481 original size:3 final size:3
Alignment explanation
Indices: 2967467--2967502 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
2967457 TTAAGTATAT
*
2967467 TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2967503 ATATTTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2967520 original size:18 final size:16
Alignment explanation
Indices: 2967467--2967530 Score: 60
Period size: 15 Copynumber: 4.0 Consensus size: 16
2967457 TTAAGTATAT
* *
2967467 TAATACTAA-TAATAA
1 TAATAATAATTAAAAA
*
2967482 TAATAATAA-TAATAA
1 TAATAATAATTAAAAA
*
2967497 TAATAAATATTTAAAAA
1 TAAT-AATAATTAAAAA
2967514 TATATAATAATTAAAAA
1 TA-ATAATAATTAAAAA
2967531 ATTAAAAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
15 18 0.43
16 4 0.10
17 18 0.43
18 2 0.05
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
TAATAATAATTAAAAA
Found at i:2967612 original size:22 final size:22
Alignment explanation
Indices: 2967584--2967631 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
2967574 ACTGCTGTCC
*
2967584 CCCCTGTCAGCCTCCCGACCAG
1 CCCCTGTCAGCCTCCCAACCAG
* *
2967606 CCCCTGTTAGCCTCCTAACCAG
1 CCCCTGTCAGCCTCCCAACCAG
2967628 CCCC
1 CCCC
2967632 CTGACCAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.54, G:0.15, T:0.17
Consensus pattern (22 bp):
CCCCTGTCAGCCTCCCAACCAG
Found at i:2969089 original size:34 final size:32
Alignment explanation
Indices: 2969035--2969104 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
2969025 TTTTAATTTT
* *
2969035 CAAAATTTTAAGTTTTAAAACCCCTAAAAATC
1 CAAAATTTTAAGATTCAAAACCCCTAAAAATC
* *
2969067 CAAAATTCCTTAAGATTCAAAACCTCTTAAAATC
1 CAAAATT--TTAAGATTCAAAACCCCTAAAAATC
2969101 CAAA
1 CAAA
2969105 GTCCTAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
34 25 0.78
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (32 bp):
CAAAATTTTAAGATTCAAAACCCCTAAAAATC
Found at i:2970987 original size:22 final size:23
Alignment explanation
Indices: 2970959--2971002 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
2970949 ATTTTTCATC
2970959 ATTTTTATTATT-TTTAA-AATTA
1 ATTTTTATT-TTATTTAATAATTA
2970981 ATTTTTATTTTATTTAATAATT
1 ATTTTTATTTTATTTAATAATT
2971003 GTTTAGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 2 0.10
22 14 0.70
23 4 0.20
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
ATTTTTATTTTATTTAATAATTA
Found at i:2971042 original size:20 final size:21
Alignment explanation
Indices: 2971017--2971058 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2971007 AGTTAATTTT
*
2971017 TATTTTTGTT-TAATAAAAAA
1 TATTTTTATTATAATAAAAAA
*
2971037 TATTTTTATTATATTAAAAAA
1 TATTTTTATTATAATAAAAAA
2971058 T
1 T
2971059 TTTATAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TATTTTTATTATAATAAAAAA
Found at i:2971474 original size:18 final size:17
Alignment explanation
Indices: 2971453--2971520 Score: 50
Period size: 18 Copynumber: 3.8 Consensus size: 17
2971443 TTAACAAATT
2971453 TAAAAATTTAAAAATACA
1 TAAAAATTTAAAAATA-A
* *
2971471 TAAATAA--TAATAATAT
1 TAAA-AATTTAAAAATAA
2971487 TAAAAATATTAAAAATAA
1 TAAAAAT-TTAAAAATAA
*
2971505 TATTAAAAATTAAAAA
1 TA--AAAATTTAAAAA
2971521 AAAATTTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
15 2 0.05
16 4 0.10
17 7 0.18
18 13 0.33
19 9 0.23
20 4 0.10
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAAAATTTAAAAATAA
Found at i:2971505 original size:21 final size:20
Alignment explanation
Indices: 2971479--2971530 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
2971469 CATAAATAAT
*
2971479 AATAATATTAAAAATATTAAA
1 AATAATATTAAAAAT-TAAAA
2971500 AATAATATTAAAAATTAAAA
1 AATAATATTAAAAATTAAAA
*
2971520 AAAAAT-TTAAA
1 AATAATATTAAA
2971531 CTTAATCAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 5 0.17
20 9 0.31
21 15 0.52
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AATAATATTAAAAATTAAAA
Found at i:2971506 original size:12 final size:12
Alignment explanation
Indices: 2971460--2971514 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
2971450 ATTTAAAAAT
2971460 TTAAAAATACATAA
1 TTAAAAATA-AT-A
* *
2971474 ATAATAATAATA
1 TTAAAAATAATA
2971486 TT--AAA-AATA
1 TTAAAAATAATA
2971495 TTAAAAATAATA
1 TTAAAAATAATA
2971507 TTAAAAAT
1 TTAAAAAT
2971515 TAAAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 6 0.18
10 2 0.06
11 3 0.09
12 14 0.41
13 2 0.06
14 7 0.21
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (12 bp):
TTAAAAATAATA
Found at i:2972547 original size:3 final size:3
Alignment explanation
Indices: 2972541--2972574 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
2972531 TAATTAATTA
2972541 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2972575 GTCAAAGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2972739 original size:2 final size:2
Alignment explanation
Indices: 2972720--2972763 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
2972710 TGTCTACAAC
* * * *
2972720 AT AT AT AC AT AT AC AT AT AT AT AT AT AT AT GT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2972762 AT
1 AT
2972764 GTATGTATTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2974334 original size:4 final size:4
Alignment explanation
Indices: 2974325--2974354 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
2974315 AATAGAGAAC
2974325 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
2974355 ATATATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:2979673 original size:16 final size:14
Alignment explanation
Indices: 2979620--2979701 Score: 51
Period size: 14 Copynumber: 5.5 Consensus size: 14
2979610 TTTAAGGCTT
*
2979620 GAATTTTAGGATATG
1 GAATTTTAGG-TTTG
* *
2979635 GAAGGTTTAGGGTTTT
1 GAA-TTTTA-GGTTTG
2979651 G-ATTTTAGAGTTTG
1 GAATTTTAG-GTTTG
2979665 GAAATTTTAGGATTTG
1 G-AATTTTAGG-TTTG
2979681 G-ATTTTAGGGTTTG
1 GAATTTTA-GGTTTG
*
2979695 GAGTTTT
1 GAATTTT
2979702 GATTTAAGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
13 1 0.02
14 20 0.38
15 11 0.21
16 19 0.36
17 2 0.04
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.46
Consensus pattern (14 bp):
GAATTTTAGGTTTG
Found at i:2979687 original size:14 final size:14
Alignment explanation
Indices: 2979640--2979701 Score: 54
Period size: 14 Copynumber: 4.2 Consensus size: 14
2979630 ATATGGAAGG
* *
2979640 TTTAGGGTTTTGAT
1 TTTAGGATTTGGAT
2979654 TTTA-GAGTTTGGAAAT
1 TTTAGGA-TTTGG--AT
2979670 TTTAGGATTTGGAT
1 TTTAGGATTTGGAT
*
2979684 TTTAGGGTTTGGAGT
1 TTTAGGATTTGGA-T
2979699 TTT
1 TTT
2979702 GATTTAAGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
13 1 0.03
14 22 0.55
15 4 0.10
16 11 0.28
17 2 0.05
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (14 bp):
TTTAGGATTTGGAT
Found at i:2979694 original size:30 final size:30
Alignment explanation
Indices: 2979622--2979696 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
2979612 TAAGGCTTGA
* * * * *
2979622 ATTTTAGGATATGGAAGGTTTAGGGTTTTG
1 ATTTTAGGGTTTGGAAAGTTTAGGATTTGG
* *
2979652 ATTTTAGAGTTTGGAAATTTTAGGATTTGG
1 ATTTTAGGGTTTGGAAAGTTTAGGATTTGG
2979682 ATTTTAGGGTTTGGA
1 ATTTTAGGGTTTGGA
2979697 GTTTTGATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (30 bp):
ATTTTAGGGTTTGGAAAGTTTAGGATTTGG
Found at i:2979702 original size:51 final size:51
Alignment explanation
Indices: 2979638--2979737 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 51
2979628 GGATATGGAA
*
2979638 GGTTTAGGGTTTTGATTTTAGAGTTTGGAAATTTTA-GGA-TTTGGATTTTAG
1 GGTTTAGGGTTTTGATTTAAGAGTTTGG--ATTTTAGGGATTTTGGATTTTAG
*
2979689 GGTTT-GGAGTTTTGATTTAAGGGTTTGGATTTTAGGGATTTTGGATTTT
1 GGTTTAGG-GTTTTGATTTAAGAGTTTGGATTTTAGGGATTTTGGATTTT
2979738 GGTTTTTGGA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
49 6 0.14
50 5 0.11
51 33 0.75
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (51 bp):
GGTTTAGGGTTTTGATTTAAGAGTTTGGATTTTAGGGATTTTGGATTTTAG
Found at i:2979705 original size:21 final size:20
Alignment explanation
Indices: 2979674--2979721 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
2979664 GGAAATTTTA
* *
2979674 GGATTTGGATTTTAGGGTTT
1 GGATTTTGATTTAAGGGTTT
2979694 GGAGTTTTGATTTAAGGGTTT
1 GGA-TTTTGATTTAAGGGTTT
2979715 GGATTTT
1 GGATTTT
2979722 AGGGATTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (20 bp):
GGATTTTGATTTAAGGGTTT
Found at i:2979717 original size:35 final size:35
Alignment explanation
Indices: 2979668--2979738 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
2979658 GAGTTTGGAA
*
2979668 ATTTTAGGATTTGGATTTTAGGG-TTTGGAGTTTTG
1 ATTTAAGGATTTGGATTTTAGGGATTTGGA-TTTTG
*
2979703 ATTTAAGGGTTTGGATTTTAGGGATTTTGGATTTTG
1 ATTTAAGGATTTGGATTTTAGGGA-TTTGGATTTTG
2979739 GTTTTTGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
35 21 0.66
36 5 0.16
37 6 0.19
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (35 bp):
ATTTAAGGATTTGGATTTTAGGGATTTGGATTTTG
Found at i:2979733 original size:16 final size:15
Alignment explanation
Indices: 2979697--2979840 Score: 105
Period size: 16 Copynumber: 9.3 Consensus size: 15
2979687 AGGGTTTGGA
*
2979697 GTTTT-GATTTAAGG
1 GTTTTGGATTTTAGG
2979711 G-TTTGGATTTTAGG
1 GTTTTGGATTTTAGG
2979725 GATTTTGGATTTT-GG
1 G-TTTTGGATTTTAGG
* *
2979740 TTTTTGGATTTTAGAC
1 GTTTTGGATTTTAG-G
* *
2979756 GTTTCGAATTTTAGG
1 GTTTTGGATTTTAGG
* * *
2979771 GGTTCGGATTTAAGAG
1 GTTTTGGATTTTAG-G
* *
2979787 ATTTTAGATTTTTAGG
1 GTTTTGGA-TTTTAGG
*
2979803 GGTTTGGATTTTAGTAG
1 GTTTTGGATTTTAG--G
2979820 GTTTTGGATTTTAGGG
1 GTTTTGGATTTTA-GG
2979836 GTTTT
1 GTTTT
2979841 AGAAACCTAG
Statistics
Matches: 101, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
13 3 0.03
14 21 0.21
15 20 0.20
16 38 0.38
17 18 0.18
18 1 0.01
ACGTcount: A:0.18, C:0.02, G:0.30, T:0.50
Consensus pattern (15 bp):
GTTTTGGATTTTAGG
Found at i:2979736 original size:7 final size:7
Alignment explanation
Indices: 2979712--2979751 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
2979702 GATTTAAGGG
2979712 TTTGGAT
1 TTTGGAT
2979719 TTTAGGGAT
1 TTT--GGAT
2979728 TTTGGAT
1 TTTGGAT
*
2979735 TTTGGTT
1 TTTGGAT
2979742 TTTGGAT
1 TTTGGAT
2979749 TTT
1 TTT
2979752 AGACGTTTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 22 0.76
9 7 0.24
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TTTGGAT
Found at i:2979839 original size:32 final size:31
Alignment explanation
Indices: 2979697--2979839 Score: 141
Period size: 32 Copynumber: 4.6 Consensus size: 31
2979687 AGGGTTTGGA
*
2979697 GTTTT-GA-TTTAAGGGTTTGGATTTTAG-G
1 GTTTTGGATTTTAGGGGTTTGGATTTTAGAG
** *
2979725 GATTTTGGATTTT-GGTTTTTGGATTTTAGAC
1 G-TTTTGGATTTTAGGGGTTTGGATTTTAGAG
* * * *
2979756 GTTTCGAATTTTAGGGGTTCGGATTTAAGAG
1 GTTTTGGATTTTAGGGGTTTGGATTTTAGAG
* *
2979787 ATTTTAGATTTTTAGGGGTTTGGATTTTAGTAG
1 GTTTTGGA-TTTTAGGGGTTTGGATTTTAG-AG
2979820 GTTTTGGATTTTAGGGGTTT
1 GTTTTGGATTTTAGGGGTTT
2979840 TAGAAACCTA
Statistics
Matches: 89, Mismatches: 19, Indels: 10
0.75 0.16 0.08
Matches are distributed among these distances:
28 1 0.01
29 4 0.04
30 24 0.27
31 21 0.24
32 31 0.35
33 8 0.09
ACGTcount: A:0.18, C:0.02, G:0.30, T:0.50
Consensus pattern (31 bp):
GTTTTGGATTTTAGGGGTTTGGATTTTAGAG
Found at i:2981613 original size:21 final size:22
Alignment explanation
Indices: 2981587--2981651 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
2981577 GAATCAAAAT
2981587 TATGCCCGGAGGTCTTACAGAA
1 TATGCCCGGAGGTCTTACAGAA
*
2981609 T-TGCCCGGAGGTCTTAGA-AA
1 TATGCCCGGAGGTCTTACAGAA
* *
2981629 TCATGTCCGAAGGTCTTACAGAA
1 T-ATGCCCGGAGGTCTTACAGAA
2981652 ATGACTGGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.08
21 16 0.44
22 15 0.42
23 2 0.06
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (22 bp):
TATGCCCGGAGGTCTTACAGAA
Found at i:2981744 original size:22 final size:22
Alignment explanation
Indices: 2981710--2981779 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
2981700 ATCGTAAATC
* *
2981710 GAAATTATACCCGAAGGTTTTA
1 GAAATCATGCCCGAAGGTTTTA
* *
2981732 GAAATCATGCCCGGAGGTCTTA
1 GAAATCATGCCCGAAGGTTTTA
* *
2981754 CAGAATCATGCCCGAAAGTTTTA
1 GA-AATCATGCCCGAAGGTTTTA
2981777 GAA
1 GAA
2981780 TCGATTGGGA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
22 20 0.53
23 18 0.47
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (22 bp):
GAAATCATGCCCGAAGGTTTTA
Found at i:2981792 original size:129 final size:132
Alignment explanation
Indices: 2981484--2982027 Score: 536
Period size: 132 Copynumber: 4.1 Consensus size: 132
2981474 TTTATGCTAA
* * * *
2981484 AGGTCTTAAAAAATCATGGCCCG-GAGTCTTACAGAATCGACTGGGATAAACATCACAAGTCAAA
1 AGGTCTTACAGAATCAT-GCCCGAAAGTCTTACAGAATCGACTGGGAT-AACACCACAAGTCAAA
* * * *
2981548 AGATAAGGAAATTGATCGGATAACATCGCGAATCAAAATTATGCCCGGAGGTCTTACAGAAT--T
64 AGATAA-AAAATCGATCGGATAACATCGCGAATCGAAATTATGCCCGGAGGTCTTAGA-AATCAT
2981611 GCCCGG
127 GCCCGG
* * * **
2981617 AGGTCTTAGA-AATCATGTCCGAAGGTCTTACAGAAAT-GACT-GGATAACACCGTAAGTCAAAA
1 AGGTCTTACAGAATCATGCCCGAAAGTCTTACAG-AATCGACTGGGATAACACCACAAGTCAAAA
* * ** * * *
2981679 -ATAAAAAATCGATCGGACAGCATCGTAAATCGAAATTATACCCGAAGGTTTTAGAAATCATGCC
65 GATAAAAAATCGATCGGATAACATCGCGAATCGAAATTATGCCCGGAGGTCTTAGAAATCATGCC
2981743 CGG
130 CGG
* * *
2981746 AGGTCTTACAGAATCATGCCCGAAAGT-TT-TAGAATCGATTGGGATAACACCGCAAGTCAAAAG
1 AGGTCTTACAGAATCATGCCCGAAAGTCTTACAGAATCGACTGGGATAACACCACAAGTCAAAAG
* * * *
2981809 ATAAAGAATCGATCGAATAACAATCGCCGAATCGAATTTATGCCCGGAGGTCTTCGAAATCAATG
66 ATAAAAAATCGATCGGATAAC-ATCG-CGAATCGAAATTATGCCCGGAGGTCTTAGAAATC-ATG
**
2981874 CATGGG
128 C-CCGG
*
2981880 AAGGTCTTACAGAATCATGCCCGAAAGTCTTACAGAATCGACTGGGATAACACCAAAAAGTCAAA
1 -AGGTCTTACAGAATCATGCCCGAAAGTCTTACAGAATCGACTGGGATAACACC-ACAAGTCAAA
* * * * * *
2981945 AGATAAAGAATCGATCGGTGATAAC--CACGAATCGAATTTATG-TCAGAAGTCTTAGAAATCAT
64 AGATAAAAAATCGATC-G-GATAACATCGCGAATCGAAATTATGCCCGGAGGTCTTAGAAATCAT
2982007 GGCCCGG
127 -GCCCGG
* *
2982014 TGGTCTTATAGAAT
1 AGGTCTTACAGAAT
2982028 TGACTGAGAT
Statistics
Matches: 341, Mismatches: 51, Indels: 38
0.79 0.12 0.09
Matches are distributed among these distances:
127 6 0.02
128 45 0.13
129 42 0.12
130 45 0.13
131 12 0.04
132 46 0.13
133 28 0.08
134 6 0.02
135 43 0.13
136 17 0.05
137 21 0.06
138 24 0.07
139 1 0.00
140 5 0.01
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (132 bp):
AGGTCTTACAGAATCATGCCCGAAAGTCTTACAGAATCGACTGGGATAACACCACAAGTCAAAAG
ATAAAAAATCGATCGGATAACATCGCGAATCGAAATTATGCCCGGAGGTCTTAGAAATCATGCCC
GG
Found at i:2981997 original size:135 final size:135
Alignment explanation
Indices: 2981483--2982005 Score: 388
Period size: 130 Copynumber: 3.9 Consensus size: 135
2981473 ATTTATGCTA
* * * * *
2981483 AAGGTCTTAAAAAATCATGGCCCG-GAGTCTTACAGAATCGACTGGGATAAACATCACAAGTCAA
1 AAGGTCTTACAGAATCAT-GCCCGAAAGT-TT-CAGAATCGACTGGGAT-AACACCAAAAGTCAA
* * * * * * * *
2981547 AAGATAAGGAAATTGATCGGATAAC-ATCG-CGAATCAAAATTATGCCCGGAGGTCTTACAGAAT
62 AAGATAAAG-AATCGATCGAATAACAATCGCCGAATCGAATTTATGCCCAGAAGTCTTAGA-AAT
**
2981610 ---TGC-CCGG
125 CAATGCATGGG
* * * **
2981617 -AGGTCTTAGA-AATCATGTCCGAAGGTCTTACAGAAAT-GACT-GGATAACACCGTAAGTCAAA
1 AAGGTCTTACAGAATCATGCCCGAAAGT-TT-CAG-AATCGACTGGGATAACACCAAAAGTCAAA
* * * * ** * * *
2981678 A-ATAAAAAATCGATCGGACAGC-ATCG-TAAATCGAAATTATACCC-GAAGGTTTTAGAAATC-
63 AGATAAAGAATCGATCGAATAACAATCGCCGAATCGAATTTATGCCCAGAA-GTCTTAGAAATCA
**
2981738 ATGC-CCGG
127 ATGCATGGG
* * **
2981746 -AGGTCTTACAGAATCATGCCCGAAAGTTTTAGAATCGATTGGGATAACACCGCAAGTCAAAAGA
1 AAGGTCTTACAGAATCATGCCCGAAAGTTTCAGAATCGACTGGGATAACACCAAAAGTCAAAAGA
* * *
2981810 TAAAGAATCGATCGAATAACAATCGCCGAATCGAATTTATGCCCGGAGGTCTTCGAAATCAATGC
66 TAAAGAATCGATCGAATAACAATCGCCGAATCGAATTTATGCCCAGAAGTCTTAGAAATCAATGC
2981875 ATGGG
131 ATGGG
2981880 AAGGTCTTACAGAATCATGCCCGAAAGTCTTACAGAATCGACTGGGATAACACCAAAAAGTCAAA
1 AAGGTCTTACAGAATCATGCCCGAAAGT-TT-CAGAATCGACTGGGATAACACC-AAAAGTCAAA
* * * *
2981945 AGATAAAGAATCGATCG-GTGATAA-C-CACGAATCGAATTTATG-TCAGAAGTCTTAGAAATCA
63 AGATAAAGAATCGATCGAATAACAATCGC-CGAATCGAATTTATGCCCAGAAGTCTTAGAAATCA
2982006 TGGCCCGGTG
Statistics
Matches: 321, Mismatches: 49, Indels: 37
0.79 0.12 0.09
Matches are distributed among these distances:
127 8 0.02
128 41 0.13
129 42 0.13
130 45 0.14
131 12 0.04
132 43 0.13
133 18 0.06
134 2 0.01
135 43 0.13
136 18 0.06
137 24 0.07
138 25 0.08
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (135 bp):
AAGGTCTTACAGAATCATGCCCGAAAGTTTCAGAATCGACTGGGATAACACCAAAAGTCAAAAGA
TAAAGAATCGATCGAATAACAATCGCCGAATCGAATTTATGCCCAGAAGTCTTAGAAATCAATGC
ATGGG
Found at i:2982477 original size:41 final size:41
Alignment explanation
Indices: 2982388--2982479 Score: 105
Period size: 41 Copynumber: 2.3 Consensus size: 41
2982378 AGGAAGGTTC
* * **
2982388 CCTC-TAAACAGAGGCTTTGAAATCTTGATTGAAATTGATT
1 CCTCTTAAACAAAGGCTTTGAAATCTTGATTAAAAACGATT
* *
2982428 CCTCTTAAACAAAGGCTTTTAAATCTTGATTAAAAACGGTT
1 CCTCTTAAACAAAGGCTTTGAAATCTTGATTAAAAACGATT
* *
2982469 CTTTTTAAACA
1 CCTCTTAAACA
2982480 GAGACTTTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 4 0.09
41 39 0.91
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (41 bp):
CCTCTTAAACAAAGGCTTTGAAATCTTGATTAAAAACGATT
Found at i:2984982 original size:74 final size:74
Alignment explanation
Indices: 2984830--2985141 Score: 411
Period size: 74 Copynumber: 4.3 Consensus size: 74
2984820 GATTCAGTTT
* *
2984830 CAGTCGTCTTTCATCTTTGACTCATGGTTTAATCCCGATCATTTC----ATTCTCT-GACTTGCG
1 CAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATTCTCTCGACTTGCG
2984890 GTTCAGTCC
66 GTTCAGTCC
* * *
2984899 CAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATTAATTCTCTCGACTTGCG
1 CAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATTCTCTCGACTTGCG
*
2984964 ATTCAGTCC
66 GTTCAGTCC
* ** * *
2984973 CAATCATCTTTAATCTTTGACTCGCGATTTAATCCTGATCATTTCATTAATTC-CTCGACTTGCG
1 CAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATTCTCTCGACTTGCG
*
2985037 GTTCAGTCT
66 GTTCAGTCC
* * * * *
2985046 CAGTAATCTTTAATTTTTGACTCATGGTTTAATCCCGATCATTTCATTAATACCCTCAACTTGCG
1 CAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATTCTCTCGACTTGCG
*
2985111 GTTTAGTCC
66 GTTCAGTCC
*
2985120 CAGTCATCTTTAATCCTTGACT
1 CAGTCATCTTTAATCTTTGACT
2985142 TGTGATGTTG
Statistics
Matches: 209, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
69 40 0.19
73 70 0.33
74 99 0.47
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (74 bp):
CAGTCATCTTTAATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATTCTCTCGACTTGCG
GTTCAGTCC
Found at i:2985000 original size:35 final size:35
Alignment explanation
Indices: 2984881--2985001 Score: 89
Period size: 35 Copynumber: 3.3 Consensus size: 35
2984871 TTTCATTCTC
* * *
2984881 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTT
1 TGACTCGCGATTCAGTCCCAATCATCTTTAATCTT
* * * * * * * *
2984916 TGGCTCGTGGTTTAATCTCGATCATTTCATTAATTCTCT
1 TGACTCGCGATTCAGTCCCAATCA--TCTTTAA-TCT-T
* *
2984955 CGACTTGCGATTCAGTCCCAATCATCTTTAATCTT
1 TGACTCGCGATTCAGTCCCAATCATCTTTAATCTT
2984990 TGACTCGCGATT
1 TGACTCGCGATT
2985002 TAATCCTGAT
Statistics
Matches: 61, Mismatches: 21, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
35 27 0.44
36 3 0.05
37 12 0.20
38 3 0.05
39 16 0.26
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.40
Consensus pattern (35 bp):
TGACTCGCGATTCAGTCCCAATCATCTTTAATCTT
Found at i:2985014 original size:35 final size:35
Alignment explanation
Indices: 2984902--2985014 Score: 84
Period size: 35 Copynumber: 3.1 Consensus size: 35
2984892 TCAGTCCCAG
* * *
2984902 TCATCTTTAATCTTTGGCTCGTGGTTTAAT-CTCGA
1 TCATCTTTAATCTTTGACTCGCGATTTAATCCT-GA
* * * * * **
2984937 TCATTTCATTAATTCTCTCGACTTGCGATTCAGTCCCAA
1 TCA--TCTTTAA-TCT-TTGACTCGCGATTTAATCCTGA
2984976 TCATCTTTAATCTTTGACTCGCGATTTAATCCTGA
1 TCATCTTTAATCTTTGACTCGCGATTTAATCCTGA
2985011 TCAT
1 TCAT
2985015 TTCATTAATT
Statistics
Matches: 56, Mismatches: 17, Indels: 10
0.67 0.20 0.12
Matches are distributed among these distances:
35 23 0.41
36 3 0.05
37 12 0.21
38 3 0.05
39 14 0.25
40 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.42
Consensus pattern (35 bp):
TCATCTTTAATCTTTGACTCGCGATTTAATCCTGA
Found at i:2985090 original size:147 final size:143
Alignment explanation
Indices: 2984836--2985141 Score: 405
Period size: 147 Copynumber: 2.1 Consensus size: 143
2984826 GTTTCAGTCG
* * *
2984836 TCTTTCATCTTTGACTCATGGTTTAATCCCGATCATTTCATTCTCTGACTTGCGGTTCAGTCCCA
1 TCTTTAATCTTTGACTCACGATTTAATCCCGATCATTTCATTCTCTGACTTGCGGTTCAGTCCCA
* * * * * * *
2984901 GTCATCTTTAATCTTTGGCTCGTGGTTTAATCTCGATCATTTCATTAATTCTCTCGACTTGCGAT
66 GTAATCTTTAATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATACCCTCAACTTGCGAT
2984966 TCAGTCCCAATCA
131 TCAGTCCCAATCA
* * *
2984979 TCTTTAATCTTTGACTCGCGATTTAATCCTGATCATTTCATTAATTCCTCGACTTGCGGTTCAGT
1 TCTTTAATCTTTGACTCACGATTTAATCCCGATCATTTCATT--CT-CT-GACTTGCGGTTCAGT
* *
2985044 CTCAGTAATCTTTAATTTTTGACTCATGGTTTAATCCCGATCATTTCATTAATACCCTCAACTTG
62 CCCAGTAATCTTTAATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATACCCTCAACTTG
* * *
2985109 CGGTTTAGTCCCAGTCA
127 CGATTCAGTCCCAATCA
*
2985126 TCTTTAATCCTTGACT
1 TCTTTAATCTTTGACT
2985142 TGTGATGTTG
Statistics
Matches: 140, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
143 37 0.26
145 1 0.01
146 2 0.01
147 100 0.71
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.42
Consensus pattern (143 bp):
TCTTTAATCTTTGACTCACGATTTAATCCCGATCATTTCATTCTCTGACTTGCGGTTCAGTCCCA
GTAATCTTTAATCTTTGACTCATGGTTTAATCCCGATCATTTCATTAATACCCTCAACTTGCGAT
TCAGTCCCAATCA
Found at i:2985411 original size:3 final size:3
Alignment explanation
Indices: 2985397--2985457 Score: 59
Period size: 3 Copynumber: 19.0 Consensus size: 3
2985387 TTAAGTATAT
* * *
2985397 TAA TAC TAA TAA TAA TAA TATA TAA TAA TAA TAA TAAA TATT TAA AAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA T-AA TA-A TAA TAA
2985445 TATA TAA TAA TAA
1 TA-A TAA TAA TAA
2985458 AAAATTTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
3 37 0.77
4 11 0.23
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2985423 original size:10 final size:10
Alignment explanation
Indices: 2985403--2985456 Score: 67
Period size: 10 Copynumber: 5.5 Consensus size: 10
2985393 ATATTAATAC
2985403 TAATA-ATAA
1 TAATATATAA
2985412 TAATATATAA
1 TAATATATAA
2985422 TAATA-ATAA
1 TAATATATAA
*
2985431 TAAATATTTAA
1 T-AATATATAA
*
2985442 AAATATATAA
1 TAATATATAA
2985452 TAATA
1 TAATA
2985457 AAAAATTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
9 10 0.26
10 25 0.66
11 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
TAATATATAA
Found at i:2985424 original size:16 final size:16
Alignment explanation
Indices: 2985403--2985457 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
2985393 ATATTAATAC
2985403 TAATAATAATAATATA
1 TAATAATAATAATATA
*
2985419 TAATAATAATAATAAA
1 TAATAATAATAATATA
* *
2985435 T-AT-TTAAAAATATA
1 TAATAATAATAATATA
2985449 TAATAATAA
1 TAATAATAA
2985458 AAAATTTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 9 0.28
15 4 0.12
16 19 0.59
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TAATAATAATAATATA
Found at i:2985462 original size:27 final size:26
Alignment explanation
Indices: 2985416--2985469 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 26
2985406 TAATAATAAT
2985416 ATATAATAATAATAATAAATATTTAAAA
1 ATATAATAATAATAA-AAA-ATTTAAAA
2985444 ATAT-ATAATAATAAAAAATTTAAAA
1 ATATAATAATAATAAAAAATTTAAAA
2985469 A
1 A
2985470 GAATTAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 9 0.35
26 3 0.12
27 10 0.38
28 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (26 bp):
ATATAATAATAATAAAAAATTTAAAA
Found at i:2987023 original size:34 final size:32
Alignment explanation
Indices: 2986969--2987038 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
2986959 TTTTAATTTT
* *
2986969 CAAAATTTTAAGTTTTAAAACCCCTAAAAATC
1 CAAAATTTTAAGATTCAAAACCCCTAAAAATC
* *
2987001 CAAAATTCCTTAAGATTCAAAACCTCTTAAAATC
1 CAAAATT--TTAAGATTCAAAACCCCTAAAAATC
2987035 CAAA
1 CAAA
2987039 GTCCTAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
34 25 0.78
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (32 bp):
CAAAATTTTAAGATTCAAAACCCCTAAAAATC
Found at i:2988981 original size:19 final size:20
Alignment explanation
Indices: 2988957--2989002 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
2988947 AGTTAATTTT
*
2988957 TATTTTGTT-TAATAAAAAA
1 TATTTTATTATAATAAAAAA
*
2988976 TATTTTATTATATTAAAAAA
1 TATTTTATTATAATAAAAAA
2988996 -ATTTTAT
1 TATTTTAT
2989003 AAATATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TATTTTATTATAATAAAAAA
Found at i:2989008 original size:20 final size:20
Alignment explanation
Indices: 2988969--2989009 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
2988959 TTTTGTTTAA
*
2988969 TAAAAAATATTTTATTATAT
1 TAAAAAATATTTTATAATAT
2988989 TAAAAAA-ATTTTATAAATAT
1 TAAAAAATATTTTAT-AATAT
2989009 T
1 T
2989010 TTAATACGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAAAAATATTTTATAATAT
Found at i:2989442 original size:12 final size:12
Alignment explanation
Indices: 2989396--2989450 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
2989386 ATTTAAAATT
2989396 TTAAAAATACATAA
1 TTAAAAATA-AT-A
* *
2989410 ATAATAATAATA
1 TTAAAAATAATA
2989422 TT--AAA-AATA
1 TTAAAAATAATA
2989431 TTAAAAATAATA
1 TTAAAAATAATA
2989443 TTAAAAAT
1 TTAAAAAT
2989451 TAAAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 6 0.18
10 2 0.06
11 3 0.09
12 14 0.41
13 2 0.06
14 7 0.21
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (12 bp):
TTAAAAATAATA
Found at i:2989458 original size:21 final size:21
Alignment explanation
Indices: 2989415--2989457 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2989405 CATAAATAAT
*
2989415 AATAATATTAAAAATATTAAA
1 AATAATATTAAAAATATAAAA
2989436 AATAATATTAAAAAT-TAAAA
1 AATAATATTAAAAATATAAAA
2989456 AA
1 AA
2989458 AAAATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AATAATATTAAAAATATAAAA
Found at i:2990494 original size:3 final size:3
Alignment explanation
Indices: 2990486--2990513 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2990476 TAATTAATTA
2990486 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2990514 GTCAAAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:2990678 original size:2 final size:2
Alignment explanation
Indices: 2990659--2990702 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
2990649 TGTCTACAAC
* * * *
2990659 AT AT AT AC AT AT AC AT AT AT AT AT AT AT AT GT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2990701 AT
1 AT
2990703 GTATGTATTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2991070 original size:24 final size:23
Alignment explanation
Indices: 2991026--2991070 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
2991016 ATTTGACATT
**
2991026 TTAATTTTCAAAAAATGTATAAA
1 TTAATTTTCAAAAAAAATATAAA
2991049 TTAATATTTCAAAAAAAATATA
1 TTAAT-TTTCAAAAAAAATATA
2991071 TGTACAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (23 bp):
TTAATTTTCAAAAAAAATATAAA
Found at i:2992276 original size:4 final size:4
Alignment explanation
Indices: 2992267--2992292 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2992257 AATAGAGAAC
2992267 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
2992293 ATATATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:2997624 original size:30 final size:30
Alignment explanation
Indices: 2997590--2997785 Score: 132
Period size: 30 Copynumber: 6.2 Consensus size: 30
2997580 ATATGGAAGG
* *
2997590 TTTAGGGTTTTGATTTTAGAGTTTGGAGAT
1 TTTAGGGTTTGGATTTTAGAGTTTTGAGAT
* * * *
2997620 TTTAGGATTTGGGTTTTAGGGTTTGGAGTTTTGAT
1 TTTAGGGTTTGGATTTTAGAGTTTTGA-----GAT
* *
2997655 TTAAGGGTTTGGATTTTAGGGATTTTG-GAT
1 TTTAGGGTTTGGATTTTAGAG-TTTTGAGAT
*
2997685 TTT-GGGTTTTGGATTTTAGGCGTTTTGA-AT
1 TTTAGGG-TTTGGATTTTA-GAGTTTTGAGAT
* *
2997715 TTTAGGGGTTCGGATTTAAGAGATTTT-AGATT
1 TTTA-GGGTTTGGATTTTAGAG-TTTTGAGA-T
2997747 TTTAGGGGTTTGGATTTTAGTAGGTTTTG-GAT
1 TTTA-GGGTTTGGATTTTAG-A-GTTTTGAGAT
2997779 TTTAGGG
1 TTTAGGG
2997786 GTTTTAGAAA
Statistics
Matches: 134, Mismatches: 15, Indels: 33
0.74 0.08 0.18
Matches are distributed among these distances:
29 3 0.02
30 52 0.39
31 19 0.14
32 27 0.20
33 7 0.05
34 1 0.01
35 21 0.16
36 4 0.03
ACGTcount: A:0.18, C:0.01, G:0.32, T:0.49
Consensus pattern (30 bp):
TTTAGGGTTTGGATTTTAGAGTTTTGAGAT
Found at i:2997638 original size:14 final size:13
Alignment explanation
Indices: 2997619--2997700 Score: 60
Period size: 14 Copynumber: 5.8 Consensus size: 13
2997609 AGTTTGGAGA
2997619 TTTTAGGATTTGGG
1 TTTT-GGATTTGGG
*
2997633 TTTTAGGGTTTGGAG
1 TTTT-GGATTTGG-G
2997648 TTTT-GATTTAAGGG
1 TTTTGGATTT--GGG
2997662 -TTTGGATTTTAGGG
1 TTTTGGA-TTT-GGG
2997676 ATTTTGGATTTTGGG
1 -TTTTGGA-TTTGGG
2997691 TTTTGGATTT
1 TTTTGGATTT
2997701 TAGGCGTTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 15
0.78 0.03 0.20
Matches are distributed among these distances:
13 10 0.17
14 26 0.44
15 13 0.22
16 10 0.17
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (13 bp):
TTTTGGATTTGGG
Found at i:2997666 original size:35 final size:35
Alignment explanation
Indices: 2997617--2997688 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 35
2997607 AGAGTTTGGA
* *
2997617 GATTTTAGGATTTGGGTTTTAGGG-TTTGGAGTTTT
1 GATTTAAGGATTTGGATTTTAGGGATTTGGA-TTTT
*
2997652 GATTTAAGGGTTTGGATTTTAGGGATTTTGGATTTT
1 GATTTAAGGATTTGGATTTTAGGGA-TTTGGATTTT
2997688 G
1 G
2997689 GGTTTTGGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 21 0.66
36 5 0.16
37 6 0.19
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (35 bp):
GATTTAAGGATTTGGATTTTAGGGATTTGGATTTT
Found at i:2997683 original size:16 final size:15
Alignment explanation
Indices: 2997647--2997790 Score: 132
Period size: 16 Copynumber: 9.3 Consensus size: 15
2997637 AGGGTTTGGA
*
2997647 GTTTT-GATTTAAGG
1 GTTTTGGATTTTAGG
2997661 G-TTTGGATTTTAGG
1 GTTTTGGATTTTAGG
2997675 GATTTTGGATTTT-GG
1 G-TTTTGGATTTTAGG
2997690 GTTTTGGATTTTAGG
1 GTTTTGGATTTTAGG
*
2997705 CGTTTTGAATTTTAGG
1 -GTTTTGGATTTTAGG
* * *
2997721 GGTTCGGATTTAAGAG
1 GTTTTGGATTTTAG-G
* *
2997737 ATTTTAGATTTTTAGG
1 GTTTTGGA-TTTTAGG
*
2997753 GGTTTGGATTTTAGTAG
1 GTTTTGGATTTTAG--G
2997770 GTTTTGGATTTTAGGG
1 GTTTTGGATTTTA-GG
2997786 GTTTT
1 GTTTT
2997791 AGAAACCTAG
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
13 3 0.03
14 21 0.20
15 21 0.20
16 41 0.39
17 18 0.17
18 1 0.01
ACGTcount: A:0.17, C:0.01, G:0.31, T:0.50
Consensus pattern (15 bp):
GTTTTGGATTTTAGG
Found at i:2997686 original size:7 final size:7
Alignment explanation
Indices: 2997662--2997701 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
2997652 GATTTAAGGG
2997662 TTTGGAT
1 TTTGGAT
2997669 TTTAGGGAT
1 TTT--GGAT
2997678 TTTGGAT
1 TTTGGAT
*
2997685 TTTGGGT
1 TTTGGAT
2997692 TTTGGAT
1 TTTGGAT
2997699 TTT
1 TTT
2997702 AGGCGTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 22 0.76
9 7 0.24
ACGTcount: A:0.12, C:0.00, G:0.30, T:0.57
Consensus pattern (7 bp):
TTTGGAT
Found at i:2997789 original size:32 final size:30
Alignment explanation
Indices: 2997647--2997789 Score: 148
Period size: 32 Copynumber: 4.7 Consensus size: 30
2997637 AGGGTTTGGA
*
2997647 GTTTT-GA-TTTAAGGGTTTGGATTTTAGG
1 GTTTTGGATTTTAGGGGTTTGGATTTTAGG
*
2997675 GATTTTGGATTTT-GGGTTTTGGATTTTAGG
1 G-TTTTGGATTTTAGGGGTTTGGATTTTAGG
* * *
2997705 CGTTTTGAATTTTAGGGGTTCGGATTTAAGAG
1 -GTTTTGGATTTTAGGGGTTTGGATTTTAG-G
* *
2997737 ATTTTAGATTTTTAGGGGTTTGGATTTTAGTAG
1 GTTTTGGA-TTTTAGGGGTTTGGATTTTAG--G
2997770 GTTTTGGATTTTAGGGGTTT
1 GTTTTGGATTTTAGGGGTTT
2997790 TAGAAACCTA
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
28 1 0.01
29 4 0.04
30 27 0.29
31 22 0.23
32 32 0.34
33 8 0.09
ACGTcount: A:0.17, C:0.01, G:0.31, T:0.50
Consensus pattern (30 bp):
GTTTTGGATTTTAGGGGTTTGGATTTTAGG
Found at i:2999231 original size:6 final size:6
Alignment explanation
Indices: 2999222--2999268 Score: 69
Period size: 6 Copynumber: 7.8 Consensus size: 6
2999212 GTTCTTCTTC
*
2999222 TTTTTA TTTTATA TTTTT- TTTGTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
2999269 TTGGGACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 4 0.11
6 27 0.73
7 6 0.16
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:2999232 original size:30 final size:29
Alignment explanation
Indices: 2999192--2999269 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 29
2999182 GTCATCCTTG
2999192 ATTTTT-TTTTATTTTTTACTGT-TCTTCTT
1 ATTTTTATTTTATTTTTTACTGTAT-TT-TT
* **
2999221 CTTTTTATTTTATATTTTTTTTGTATTTTT
1 ATTTTTATTTTAT-TTTTTACTGTATTTTT
2999251 ATTTTTATTTTTATTTTTT
1 ATTTTTA-TTTTATTTTTT
2999270 TGGGACAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
29 5 0.12
30 19 0.46
31 16 0.39
32 1 0.02
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (29 bp):
ATTTTTATTTTATTTTTTACTGTATTTTT
Found at i:2999484 original size:22 final size:22
Alignment explanation
Indices: 2999456--2999522 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
2999446 AATCGAATTT
2999456 ATGCCCAAAGGTCTT-AGAAATC
1 ATGCCCAAAGGTCTTAAG-AATC
*
2999478 ATGCCCATAGGTCTTAAGAATC
1 ATGCCCAAAGGTCTTAAGAATC
* **
2999500 GTGCCCGGAGGTCTTACAGAATC
1 ATGCCCAAAGGTCTTA-AGAATC
2999523 GACTGGGATA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
22 31 0.79
23 8 0.21
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (22 bp):
ATGCCCAAAGGTCTTAAGAATC
Found at i:2999613 original size:21 final size:20
Alignment explanation
Indices: 2999589--2999650 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 20
2999579 ATCGAAATTA
2999589 TGCCCGGAGGTCTTACAGAAT
1 TGCCCGGAGGTCTTACA-AAT
* *
2999610 TGCCCAGAGGTCTTAGAAAT
1 TGCCCGGAGGTCTTACAAAT
*
2999630 CATGCTCGGAGGTCTTACAAA
1 --TGCCCGGAGGTCTTACAAA
2999651 ATTGACTAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 3 0.09
21 15 0.44
22 16 0.47
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (20 bp):
TGCCCGGAGGTCTTACAAAT
Found at i:2999644 original size:22 final size:21
Alignment explanation
Indices: 2999582--2999646 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
2999572 ACCGCGAATC
2999582 GAAATTATGCCCGGAGGTCTTA
1 GAAA-TATGCCCGGAGGTCTTA
* *
2999604 CAGAAT-TGCCCAGAGGTCTTA
1 GA-AATATGCCCGGAGGTCTTA
*
2999625 GAAATCATGCTCGGAGGTCTTA
1 GAAAT-ATGCCCGGAGGTCTTA
2999647 CAAAATTGAC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 3 0.09
21 15 0.43
22 15 0.43
23 2 0.06
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (21 bp):
GAAATATGCCCGGAGGTCTTA
Found at i:2999678 original size:131 final size:133
Alignment explanation
Indices: 2999394--3000003 Score: 591
Period size: 131 Copynumber: 4.6 Consensus size: 133
2999384 ATAAAACGAT
* * * * * * **
2999394 TGGGATGACACTGCAAGTTAAAAAATAATGAATCGATC-GAGATAATAGTGCGAATCGAATTTAT
1 TGGGATAACACTACAAGTCAAAAGATAAAGAATCGATCAG-GATAACACCGCGAATCGAATTTAT
** * * *
2999458 GCCCAAAGGTCTTAGA-AATCATGCCCATAGGTCTTA-AGAATCGTGCCCGGAGGTCTTACAGAA
65 GCCCGGAGGTCTTACAGAAT-ATGCCCAGAGGTCTTACAGAATCATGCCCGGAGGTCTTACAGAA
2999521 TCGAC
129 TCGAC
* * *
2999526 TGGGATAACA-TCACAAATCAAAAGAT-AAGAAATTGATCAGGATAACACCGCGAATCGAAATTA
1 TGGGATAACACT-ACAAGTCAAAAGATAAAG-AATCGATCAGGATAACACCGCGAATCGAATTTA
* * *
2999589 TGCCCGGAGGTCTTACAGAAT-TGCCCAGAGGTCTTAGA-AATCATGCTCGGAGGTCTTACAAAA
64 TGCCCGGAGGTCTTACAGAATATGCCCAGAGGTCTTACAGAATCATGCCCGGAGGTCTTACAGAA
*
2999652 TTGAC
129 TCGAC
* * * * * * * * *
2999657 TAGGATAACACTGCAAGTCAAAA-ATAAAAAATCGATCAGGACAACATCACAAATCGAAATTATA
1 TGGGATAACACTACAAGTCAAAAGATAAAGAATCGATCAGGATAACACCGCGAATCGAATTTATG
** * * * * * *
2999721 CCCAAAGGTCTTAGA-AATCATGCTC-GAAAGTCTTACAGAATCATGCCCAGAAGT-TT-TAGAA
66 CCCGGAGGTCTTACAGAAT-ATGCCCAG-AGGTCTTACAGAATCATGCCCGGAGGTCTTACAGAA
2999782 TCGAC
129 TCGAC
* * *
2999787 TGGGATAACACTGCAAGTCAAAAGATAAAGAATCGATCGGGATAACACCGCGAATTGAATTTATG
1 TGGGATAACACTACAAGTCAAAAGATAAAGAATCGATCAGGATAACACCGCGAATCGAATTTATG
* * ***
2999852 TCCGGAGGT-TTTC-GAAATCATGCATGGAGGTCTTACAGAATCATGCCCGGAGGTCTTACAGAA
66 CCCGGAGGTCTTACAG-AAT-ATGCCCAGAGGTCTTACAGAATCATGCCCGGAGGTCTTACAGAA
2999915 TCGAC
129 TCGAC
* * * *
2999920 TGGGATAACACCAAAAGTCAAAAGATAAAGAATCGATCGGGATAACACCACGAATCGAATTTATG
1 TGGGATAACACTACAAGTCAAAAGATAAAGAATCGATCAGGATAACACCGCGAATCGAATTTATG
* *
2999985 TCCGGAGGTCTTATAGAAT
66 CCCGGAGGTCTTACAGAAT
3000004 TGACTGAGAT
Statistics
Matches: 390, Mismatches: 69, Indels: 36
0.79 0.14 0.07
Matches are distributed among these distances:
129 3 0.01
130 75 0.19
131 147 0.38
132 77 0.20
133 82 0.21
134 5 0.01
135 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.23
Consensus pattern (133 bp):
TGGGATAACACTACAAGTCAAAAGATAAAGAATCGATCAGGATAACACCGCGAATCGAATTTATG
CCCGGAGGTCTTACAGAATATGCCCAGAGGTCTTACAGAATCATGCCCGGAGGTCTTACAGAATC
GAC
Found at i:2999895 original size:23 final size:23
Alignment explanation
Indices: 2999867--2999916 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
2999857 AGGTTTTCGA
*
2999867 AATCATGCATGGAGGTCTTACAG
1 AATCATGCACGGAGGTCTTACAG
*
2999890 AATCATGCCCGGAGGTCTTACAG
1 AATCATGCACGGAGGTCTTACAG
2999913 AATC
1 AATC
2999917 GACTGGGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (23 bp):
AATCATGCACGGAGGTCTTACAG
Found at i:3000412 original size:41 final size:41
Alignment explanation
Indices: 3000367--3000462 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 41
3000357 AGGTTCCCTC
* * * *
3000367 TAAACAGAGGCTTTGAAATCTTGATTGAAATTGATT-TCTCT
1 TAAACAGAGGCTTTCAAATCTTGATTAAAAATGGTTCT-TCT
*
3000408 TAAACAAAGGCTTTCAAATCTTGATTAAAAATGGTTCTTCT
1 TAAACAGAGGCTTTCAAATCTTGATTAAAAATGGTTCTTCT
*
3000449 TAAACAGAGACTTT
1 TAAACAGAGGCTTT
3000463 AAAACTTTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 46 0.98
42 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (41 bp):
TAAACAGAGGCTTTCAAATCTTGATTAAAAATGGTTCTTCT
Found at i:3000725 original size:24 final size:25
Alignment explanation
Indices: 3000698--3000744 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
3000688 ATACAAATGC
3000698 TATGATGCAAATGCAAAT-TCTTCT
1 TATGATGCAAATGCAAATGTCTTCT
**
3000722 TATGATGTGAATGCAAATGTCTT
1 TATGATGCAAATGCAAATGTCTT
3000745 ATACAAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (25 bp):
TATGATGCAAATGCAAATGTCTTCT
Found at i:3002191 original size:20 final size:20
Alignment explanation
Indices: 3002147--3002192 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
3002137 AATATGTTCC
* *
3002147 TTTTTTATTTTTTTTCTCTT
1 TTTTTTACTTTTTTTATCTT
3002167 TTTTTTACTTTTTTTAT-TT
1 TTTTTTACTTTTTTTATCTT
3002186 TATTTTT
1 T-TTTTT
3002193 GATGCCCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTTTACTTTTTTTATCTT
Found at i:3008126 original size:21 final size:20
Alignment explanation
Indices: 3008077--3008126 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
3008067 ATATTATTTT
* *
3008077 TATTTTATTTTATAATATCA
1 TATTTTTTTTTAAAATATCA
* *
3008097 TAATTTTTTTTAAAAGTATTA
1 TATTTTTTTTTAAAA-TATCA
3008118 TATTTTTTT
1 TATTTTTTT
3008127 ATTATAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTTTTTTTTAAAATATCA
Found at i:3008582 original size:30 final size:29
Alignment explanation
Indices: 3008548--3008609 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
3008538 ATATGAAAAG
* *
3008548 TTTAGGGTTTTGATTTTAGAGTTTGGAGAT
1 TTTAGGATTTGGATTTTAGAGTTTGGAG-T
* * *
3008578 TTTAGGATTTGGGTTTTGGGGTTTGGAGT
1 TTTAGGATTTGGATTTTAGAGTTTGGAGT
3008607 TTT
1 TTT
3008610 GATTTAAGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.52
Consensus pattern (29 bp):
TTTAGGATTTGGATTTTAGAGTTTGGAGT
Found at i:3008614 original size:51 final size:51
Alignment explanation
Indices: 3008554--3008659 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 51
3008544 AAAGTTTAGG
* **
3008554 GTTTTGATTTTAGAGTTTGGAGATTTTA-GGA-TTTGGGTTTTGGGGTTTGGA
1 GTTTTGATTTAAGAGTTT--AGATTTTAGGGATTTTGAATTTTGGGGTTTGGA
*
3008605 GTTTTGATTTAAGGGTTTAGATTTTAGGGATTTTGAATTTTGGGGTTTGGA
1 GTTTTGATTTAAGAGTTTAGATTTTAGGGATTTTGAATTTTGGGGTTTGGA
3008656 -TTTT
1 GTTTT
3008660 AGGCTTTTAG
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
49 8 0.16
50 7 0.14
51 34 0.69
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (51 bp):
GTTTTGATTTAAGAGTTTAGATTTTAGGGATTTTGAATTTTGGGGTTTGGA
Found at i:3008708 original size:32 final size:31
Alignment explanation
Indices: 3008612--3008747 Score: 132
Period size: 32 Copynumber: 4.4 Consensus size: 31
3008602 GGAGTTTTGA
* * *
3008612 TTTAAGGGTTTAGATTTTAGGGATTTTGAAT
1 TTTAGGGGTTTAGATTTAAGAGATTTTGAAT
* * *
3008643 TTT-GGGGTTTGGATTTTAG-GCTTTTAGAAT
1 TTTAGGGGTTTAGATTTAAGAGATTTT-GAAT
* *
3008673 TTTAGGGGTTCAGATTTAAGAGATTTTAGATT
1 TTTAGGGGTTTAGATTTAAGAGATTTT-GAAT
* * *
3008705 TTTAGGGGTTTGGATTTTAACAGGTTTTGAAT
1 TTTAGGGGTTTAGA-TTTAAGAGATTTTGAAT
3008737 TTTAGGGGTTT
1 TTTAGGGGTTT
3008748 TAGAAACCTA
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
29 5 0.06
30 21 0.24
31 16 0.18
32 35 0.40
33 11 0.12
ACGTcount: A:0.22, C:0.02, G:0.28, T:0.48
Consensus pattern (31 bp):
TTTAGGGGTTTAGATTTAAGAGATTTTGAAT
Found at i:3008720 original size:16 final size:15
Alignment explanation
Indices: 3008612--3008747 Score: 85
Period size: 16 Copynumber: 8.7 Consensus size: 15
3008602 GGAGTTTTGA
*
3008612 TTTAAGGGTTTAGAT
1 TTTAGGGGTTTAGAT
* *
3008627 TTTAGGGATTTTGAAT
1 TTTAGGGGTTTAG-AT
*
3008643 TTT-GGGGTTTGGAT
1 TTTAGGGGTTTAGAT
**
3008657 TTTAGGCTTTTAGAAT
1 TTTAGGGGTTTAG-AT
*
3008673 TTTAGGGGTTCAGAT
1 TTTAGGGGTTTAGAT
* **
3008688 TTAAGAGATTTTAGATT
1 TTTAG-GGGTTTAGA-T
*
3008705 TTTAGGGGTTTGGAT
1 TTTAGGGGTTTAGAT
** *
3008720 TTTAACAGGTTTTGAAT
1 TTT-AGGGGTTTAG-AT
3008737 TTTAGGGGTTT
1 TTTAGGGGTTT
3008748 TAGAAACCTA
Statistics
Matches: 90, Mismatches: 24, Indels: 13
0.71 0.19 0.10
Matches are distributed among these distances:
14 5 0.06
15 33 0.37
16 42 0.47
17 10 0.11
ACGTcount: A:0.22, C:0.02, G:0.28, T:0.48
Consensus pattern (15 bp):
TTTAGGGGTTTAGAT
Found at i:3008748 original size:16 final size:16
Alignment explanation
Indices: 3008612--3008748 Score: 79
Period size: 15 Copynumber: 8.8 Consensus size: 16
3008602 GGAGTTTTGA
* *
3008612 TTTAAGGGTTTAG-AT
1 TTTAGGGGTTTTGAAT
*
3008627 TTTAGGGATTTTGAAT
1 TTTAGGGGTTTTGAAT
*
3008643 TTT-GGGG-TTTGGAT
1 TTTAGGGGTTTTGAAT
*
3008657 TTTA-GGCTTTTAGAAT
1 TTTAGGGGTTTT-GAAT
**
3008673 TTTAGGGGTTCAG-AT
1 TTTAGGGGTTTTGAAT
* * * *
3008688 TTAAGAGATTTTAGATT
1 TTTAGGGGTTTT-GAAT
*
3008705 TTTAGGGG-TTTGGAT
1 TTTAGGGGTTTTGAAT
**
3008720 TTTAACAGGTTTTGAAT
1 TTT-AGGGGTTTTGAAT
3008737 TTTAGGGGTTTT
1 TTTAGGGGTTTT
3008749 AGAAACCTAG
Statistics
Matches: 87, Mismatches: 26, Indels: 17
0.67 0.20 0.13
Matches are distributed among these distances:
14 11 0.13
15 30 0.34
16 27 0.31
17 19 0.22
ACGTcount: A:0.22, C:0.02, G:0.28, T:0.48
Consensus pattern (16 bp):
TTTAGGGGTTTTGAAT
Found at i:3013701 original size:33 final size:34
Alignment explanation
Indices: 3013656--3013726 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
3013646 AAACCCCCAC
*
3013656 CCCACCCCCAACCCACGATAAAAGCTCACTTAAA
1 CCCACCCCCAACCCACGATAAAAGCCCACTTAAA
* *
3013690 CCCA-CCCCAACCCATGATATAAGCCCACTTAAA
1 CCCACCCCCAACCCACGATAAAAGCCCACTTAAA
3013723 CCCA
1 CCCA
3013727 TTACTTCCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.88
34 4 0.12
ACGTcount: A:0.37, C:0.45, G:0.06, T:0.13
Consensus pattern (34 bp):
CCCACCCCCAACCCACGATAAAAGCCCACTTAAA
Found at i:3015368 original size:22 final size:23
Alignment explanation
Indices: 3015340--3015383 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
3015330 TTTTATGCAC
*
3015340 GATAAATGTTTAAAT-TTATTAT
1 GATAAATATTTAAATGTTATTAT
*
3015362 GATAAATATTTAATTGTTATTA
1 GATAAATATTTAAATGTTATTA
3015384 ATAATAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
GATAAATATTTAAATGTTATTAT
Found at i:3028268 original size:34 final size:34
Alignment explanation
Indices: 3028230--3028329 Score: 78
Period size: 34 Copynumber: 2.9 Consensus size: 34
3028220 CTTTAATCTT
3028230 TGACTCGTGATTTAATCCTGGTCATTTCATTCTC
1 TGACTCGTGATTTAATCCTGGTCATTTCATTCTC
* * ** * *
3028264 TGACT--TGCAGTTCAGTCCCAGTCATCTTTATTCTT
1 TGACTCGTG-A-TTTAATCCTGGTCAT-TTCATTCTC
* * *
3028299 TGGCTCGTGGTTTAATCCTGATCATTTCATT
1 TGACTCGTGATTTAATCCTGGTCATTTCATT
3028330 AATTTTTTGA
Statistics
Matches: 47, Mismatches: 14, Indels: 10
0.66 0.20 0.14
Matches are distributed among these distances:
32 2 0.04
33 1 0.02
34 21 0.45
35 21 0.45
37 2 0.04
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.44
Consensus pattern (34 bp):
TGACTCGTGATTTAATCCTGGTCATTTCATTCTC
Found at i:3028372 original size:73 final size:73
Alignment explanation
Indices: 3028196--3028904 Score: 717
Period size: 73 Copynumber: 9.8 Consensus size: 73
3028186 ATAATTGCCC
* * * * * *
3028196 GACTTGCAGTTCAATCCCAGTCGTCTTTAATCTTTGACTCGTGATTTAATCCTGGTCATTTC---
1 GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
*
3028258 -ATTCTCT
66 AATTCTTT
* * * *
3028265 GACTTGCAGTTCAGTCCCAGTCATCTTTATTCTTTGGCTCGTGGTTTAATCCTGATCATTTCATT
1 GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
*
3028330 AATTTTTT
66 AATTCTTT
* *
3028338 GACTTAG-GGTTTAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCCGATCATTTCAT
1 GACTT-GCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
* *
3028402 TAATTATTC
65 TAATTCTTT
* ** * *
3028411 GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCACGATTTAATCTCGATCATTTCATT
1 GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
*
3028476 AATTCTCT
66 AATTCTTT
* ** * * * *
3028484 GACTTGTGGTTCAGTTTCAGTCGTCTTTAATCTTTGACTTGTGGTTTAATTCCGGTCATTTC---
1 GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
*
3028546 -ATTCTCT
66 AATTCTTT
* * * **
3028553 GACTTGCAGTTCAGTTCCAGTCATTTTTAATCTTTGACTTATGGTTTAATCCCGATCATTTCATT
1 GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
3028618 AATT-TCTT
66 AATTCT-TT
* * * * *
3028626 AACTTGTGATTTAGTCCCAGTCATCTTTAATCTTTGACT-GATGGTTTAATCTCGATCATTTCAT
1 GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCG-TGGTTTAATCCCGATCATTTCAT
3028690 TAA-T-TTT
65 TAATTCTTT
* * * * * ** *
3028697 GACTTACGATTTAGT-CTAATCATCTTTAATCTTTGACTCACGATTTAATCCCGATCATTTCATT
1 GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
*
3028761 AATTCTCTC
66 AATTCT-TT
* * *
3028770 GACTTGCGGTTCAGTCCCAGTCATTTTTAATTTTTGACTCGCGGTTTAATCCCGATCATTTCATT
1 GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
* *
3028835 AATTCCCTC
66 AATT-CTTT
* * * * ** * *
3028844 GACTTGCAGTTTAGTCCCAGTCATCTTTAATCCTTAACTCACGGTGTCATCCCGATCATTT
1 GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTT
3028905 TCTTTTATTC
Statistics
Matches: 541, Mismatches: 81, Indels: 31
0.83 0.12 0.05
Matches are distributed among these distances:
69 117 0.22
70 44 0.08
71 15 0.03
72 5 0.01
73 257 0.48
74 102 0.19
75 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.43
Consensus pattern (73 bp):
GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
AATTCTTT
Found at i:3028522 original size:35 final size:34
Alignment explanation
Indices: 3028474--3028598 Score: 115
Period size: 35 Copynumber: 3.6 Consensus size: 34
3028464 GATCATTTCA
* *
3028474 TTAATTCTCTGACTTGTGGTTCAGTTTCAGTCGTCT
1 TTAA-TCTCTGACTTGTGGTTCAGTTCCAGTCAT-T
* * * *
3028510 TTAATCTTTGACTTGTGGTTTAATTCCGGTCATT
1 TTAATCTCTGACTTGTGGTTCAGTTCCAGTCATT
* * **
3028544 TCATTCTCTGACTTGCAGTTCAGTTCCAGTCATTT
1 TTAATCTCTGACTTGTGGTTCAGTTCCAGTCA-TT
* *
3028579 TTAATCTTTGACTTATGGTT
1 TTAATCTCTGACTTGTGGTT
3028599 TAATCCCGAT
Statistics
Matches: 68, Mismatches: 20, Indels: 3
0.75 0.22 0.03
Matches are distributed among these distances:
34 25 0.37
35 39 0.57
36 4 0.06
ACGTcount: A:0.17, C:0.18, G:0.17, T:0.48
Consensus pattern (34 bp):
TTAATCTCTGACTTGTGGTTCAGTTCCAGTCATT
Found at i:3028576 original size:34 final size:34
Alignment explanation
Indices: 3028477--3028578 Score: 105
Period size: 34 Copynumber: 3.0 Consensus size: 34
3028467 CATTTCATTA
* * *
3028477 ATTCTCTGACTTGTGGTTCAGTTTCAGTCGTCTTT
1 ATTCTCTGACTTGTGGTTCAGTTCCAGTCAT-TTC
* * * * *
3028512 AATCTTTGACTTGTGGTTTAATTCCGGTCATTTC
1 ATTCTCTGACTTGTGGTTCAGTTCCAGTCATTTC
**
3028546 ATTCTCTGACTTGCAGTTCAGTTCCAGTCATTT
1 ATTCTCTGACTTGTGGTTCAGTTCCAGTCATTT
3028579 TTAATCTTTG
Statistics
Matches: 52, Mismatches: 15, Indels: 1
0.76 0.22 0.01
Matches are distributed among these distances:
34 28 0.54
35 24 0.46
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.46
Consensus pattern (34 bp):
ATTCTCTGACTTGTGGTTCAGTTCCAGTCATTTC
Found at i:3028631 original size:142 final size:142
Alignment explanation
Indices: 3028204--3028904 Score: 741
Period size: 142 Copynumber: 4.9 Consensus size: 142
3028194 CCGACTTGCA
* * * *
3028204 GTTCAATCCCAGTCGTCTTTAATCTTTGACTCGTGATTTAA-TCCTGGTCATTTCATTCTCTGAC
1 GTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATTCC-GATCATTTCATTCTCTGAC
* * ** *
3028268 TTGCAGTTCAGTCCCAGTCATCTTTATTCTTTGGCTCGTGGTTTAATCCTGATCATTTCATTAAT
65 TTGCAGTTCAGTCCCAGTCATCTTTAATCTTTGACTCACGGTTTAATCCCGATCATTTCATTAAT
*
3028333 TTTTTGACTTAG-G
130 TTCTTGACTT-GTG
* * * * *
3028346 GTTTAGTCCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCCGATCATTTCATTAATTATTC
1 GTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATTCCGATCATTTCATT--CT-CT-
* * * *
3028411 GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCACGATTTAATCTCGATCATTTCATT
62 GACTTGCAGTTCAGTCCCAGTCATCTTTAATCTTTGACTCACGGTTTAATCCCGATCATTTCATT
3028476 AA-TTCTCTGACTTGTG
127 AATTTCT-TGACTTGTG
** * * *
3028492 GTTCAGTTTCAGTCGTCTTTAATCTTTGACTTGTGGTTTAATTCCGGTCATTTCATTCTCTGACT
1 GTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATTCCGATCATTTCATTCTCTGACT
* * * *
3028557 TGCAGTTCAGTTCCAGTCATTTTTAATCTTTGACTTATGGTTTAATCCCGATCATTTCATTAATT
66 TGCAGTTCAGTCCCAGTCATCTTTAATCTTTGACTCACGGTTTAATCCCGATCATTTCATTAATT
*
3028622 TCTTAACTTGTG
131 TCTTGACTTGTG
* * * *
3028634 ATTTAGTCCCAGTCATCTTTAATCTTTGACT-GATGGTTTAA-TCTCGATCATTTCATTAATTTT
1 GTTCAGTCCCAGTCATCTTTAATCTTTGACTCG-TGGTTTAATTC-CGATCATTTCATT--CTCT
* * * * *
3028697 GACTTAC-GATTTAGT-CTAATCATCTTTAATCTTTGACTCACGATTTAATCCCGATCATTTCAT
62 GACTTGCAG-TTCAGTCCCAGTCATCTTTAATCTTTGACTCACGGTTTAATCCCGATCATTTCAT
* *
3028760 TAATTCTCTCGACTTGCG
126 TAATT-TCTTGACTTGTG
* * * * *
3028778 GTTCAGTCCCAGTCATTTTTAATTTTTGACTCGCGGTTTAATCCCGATCATTTCATTAATTCCCT
1 GTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATTCCGATCATTTC----ATTCTCT
* * * * *
3028843 CGACTTGCAGTTTAGTCCCAGTCATCTTTAATCCTTAACTCACGGTGTCATCCCGATCATTT
62 -GACTTGCAGTTCAGTCCCAGTCATCTTTAATCTTTGACTCACGGTTTAATCCCGATCATTT
3028905 TCTTTTATTC
Statistics
Matches: 464, Mismatches: 72, Indels: 40
0.81 0.12 0.07
Matches are distributed among these distances:
141 3 0.01
142 160 0.34
143 55 0.12
144 68 0.15
145 7 0.02
146 117 0.25
147 12 0.03
148 42 0.09
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (142 bp):
GTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATTCCGATCATTTCATTCTCTGACT
TGCAGTTCAGTCCCAGTCATCTTTAATCTTTGACTCACGGTTTAATCCCGATCATTTCATTAATT
TCTTGACTTGTG
Found at i:3028734 original size:34 final size:35
Alignment explanation
Indices: 3028646--3028746 Score: 107
Period size: 34 Copynumber: 2.9 Consensus size: 35
3028636 TTAGTCCCAG
* * * *
3028646 TCATCTTTAATCTTTGACTGATGGTTTAATCTCGA
1 TCATCTTTAATCTTTGACTCACGATTTAATCTCAA
* * *
3028681 TCATTTCATTAAT-TTTGACTTACGATTTAGTCT-AA
1 TCA--TCTTTAATCTTTGACTCACGATTTAATCTCAA
3028716 TCATCTTTAATCTTTGACTCACGATTTAATC
1 TCATCTTTAATCTTTGACTCACGATTTAATC
3028747 CCGATCATTT
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
33 7 0.13
34 17 0.31
35 7 0.13
36 16 0.30
37 7 0.13
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.47
Consensus pattern (35 bp):
TCATCTTTAATCTTTGACTCACGATTTAATCTCAA
Found at i:3028794 original size:39 final size:39
Alignment explanation
Indices: 3028751--3028867 Score: 136
Period size: 39 Copynumber: 3.1 Consensus size: 39
3028741 TTAATCCCGA
*
3028751 TCATTTCATTAATTCTCTCGACTTGCGGTTCAGTCCCAG
1 TCATTTCATTAATTCTCTCGACTTGCGGTTTAGTCCCAG
* * *
3028790 TCATTT--TTAATT-T-TTGACTCGCGGTTTAATCCC-G
1 TCATTTCATTAATTCTCTCGACTTGCGGTTTAGTCCCAG
* *
3028824 ATCATTTCATTAATTCCCTCGACTTGCAGTTTAGTCCCAG
1 -TCATTTCATTAATTCTCTCGACTTGCGGTTTAGTCCCAG
3028864 TCAT
1 TCAT
3028868 CTTTAATCCT
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
34 1 0.02
35 22 0.35
36 1 0.02
37 12 0.19
39 26 0.41
40 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.41
Consensus pattern (39 bp):
TCATTTCATTAATTCTCTCGACTTGCGGTTTAGTCCCAG
Found at i:3029162 original size:3 final size:3
Alignment explanation
Indices: 3029135--3029179 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
3029125 TTAAGTATAT
* * *
3029135 TAA TAC TAA TAA TAC TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3029180 ATATTTTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:3030708 original size:17 final size:17
Alignment explanation
Indices: 3030683--3030749 Score: 57
Period size: 17 Copynumber: 4.0 Consensus size: 17
3030673 CTTAAGTTTT
*
3030683 AAAACCCCTAAAAATCC
1 AAAATCCCTAAAAATCC
* * *
3030700 AAAATCCCTTAAGATTC
1 AAAATCCCTAAAAATCC
*
3030717 AAAA-CCTCTTAAAATCC
1 AAAATCC-CTAAAAATCC
*
3030734 AAAGT-CCTAAAAATCC
1 AAAATCCCTAAAAATCC
3030750 TAAAGACATG
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
16 11 0.28
17 29 0.73
ACGTcount: A:0.48, C:0.28, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAATCCCTAAAAATCC
Found at i:3032725 original size:20 final size:21
Alignment explanation
Indices: 3032702--3032747 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
3032692 AGTTAAATTT
*
3032702 TATTTTTGTT-TAATAAAAAA
1 TATTTTTATTATAATAAAAAA
*
3032722 TATTTTTATTATATTAAAAAA
1 TATTTTTATTATAATAAAAAA
3032743 -ATTTT
1 TATTTT
3032748 ATAAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TATTTTTATTATAATAAAAAA
Found at i:3032815 original size:25 final size:25
Alignment explanation
Indices: 3032785--3032837 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
3032775 TTTAAAAAAT
* *
3032785 AATATT-TTCACTTAAAAAATTTTAA
1 AATATTATT-ACTCAAAAAACTTTAA
*
3032810 AATATTATTACTCAAAATACTTTAA
1 AATATTATTACTCAAAAAACTTTAA
3032835 AAT
1 AAT
3032838 CTCATCCTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (25 bp):
AATATTATTACTCAAAAAACTTTAA
Found at i:3032895 original size:20 final size:19
Alignment explanation
Indices: 3032872--3032917 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
3032862 TTTTTACATT
*
3032872 TTTTTCATTATTTTTATTTA
1 TTTTTCATTACTTTT-TTTA
**
3032892 TTTTTGGTTACTTTTTTTA
1 TTTTTCATTACTTTTTTTA
3032911 TTTTTCA
1 TTTTTCA
3032918 AATTTAAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTTTCATTACTTTTTTTA
Found at i:3033196 original size:21 final size:21
Alignment explanation
Indices: 3033158--3033207 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
3033148 TAAAAATACG
**
3033158 TAAATAATAATAGTAATAAAAT
1 TAAA-AATAATAAAAATAAAAT
* *
3033180 TTAAAATAATAAAAATAATAT
1 TAAAAATAATAAAAATAAAAT
3033201 TAAAAAT
1 TAAAAAT
3033208 TTAAAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
TAAAAATAATAAAAATAAAAT
Found at i:3033196 original size:27 final size:28
Alignment explanation
Indices: 3033160--3033213 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
3033150 AAAATACGTA
* *
3033160 AATAATAATAGTAAT-AAAATTTAAAAT
1 AATAAAAATAATAATAAAAATTTAAAAT
*
3033187 AATAAAAATAATATTAAAAATTTAAAA
1 AATAAAAATAATAATAAAAATTTAAAA
3033214 AAATTTAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (28 bp):
AATAAAAATAATAATAAAAATTTAAAAT
Found at i:3033760 original size:17 final size:18
Alignment explanation
Indices: 3033738--3033782 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
3033728 GACCACATCC
*
3033738 TTTTTTTCTTTGGTTT-T
1 TTTTTTTCTTTGATTTGT
*
3033755 TTTTTTTTTTTGATTTGT
1 TTTTTTTCTTTGATTTGT
3033773 TTCTTTTTCT
1 TT-TTTTTCT
3033783 GGGGTTGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 14 0.61
18 3 0.13
19 6 0.26
ACGTcount: A:0.02, C:0.07, G:0.09, T:0.82
Consensus pattern (18 bp):
TTTTTTTCTTTGATTTGT
Found at i:3034266 original size:3 final size:3
Alignment explanation
Indices: 3034260--3034287 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
3034250 TAATTAATTA
3034260 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
3034288 AAAGTTTGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:3034437 original size:2 final size:2
Alignment explanation
Indices: 3034430--3034459 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
3034420 TGTTTACGAC
*
3034430 AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3034460 GTATGTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3035925 original size:4 final size:4
Alignment explanation
Indices: 3035916--3035949 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
3035906 AATAGAGAAC
3035916 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
3035950 ATATATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:3038034 original size:12 final size:13
Alignment explanation
Indices: 3038010--3038034 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3038000 TAAAAAGTGA
3038010 TTACAAAATTTTT
1 TTACAAAATTTTT
3038023 TTACAAAATTTT
1 TTACAAAATTTT
3038035 CGTGAGAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
TTACAAAATTTTT
Found at i:3040697 original size:2 final size:2
Alignment explanation
Indices: 3040690--3040725 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3040680 TCAATCCTTA
3040690 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3040726 TGCCAAATCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3041934 original size:3 final size:3
Alignment explanation
Indices: 3041926--3041960 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
3041916 CACATTTAAG
3041926 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
3041961 TATTATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:3042021 original size:3 final size:3
Alignment explanation
Indices: 3041959--3042010 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
3041949 AATAATAATA
3041959 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3042007 ATT A
1 ATT A
3042011 AAAAATTATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:3043488 original size:10 final size:10
Alignment explanation
Indices: 3043473--3043521 Score: 57
Period size: 10 Copynumber: 5.1 Consensus size: 10
3043463 TATATATATA
3043473 TGTGTGTATG
1 TGTGTGTATG
3043483 TGTGTGTA--
1 TGTGTGTATG
* * *
3043491 TATATGTATA
1 TGTGTGTATG
3043501 TGTGTGTATG
1 TGTGTGTATG
3043511 TGTGTGTATG
1 TGTGTGTATG
3043521 T
1 T
3043522 ATGTATGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
8 6 0.19
10 26 0.81
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (10 bp):
TGTGTGTATG
Found at i:3043502 original size:20 final size:20
Alignment explanation
Indices: 3043469--3043507 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3043459 AGCATATATA
* *
3043469 TATATGTGTGTATGTGTGTG
1 TATATATGTATATGTGTGTG
3043489 TATATATGTATATGTGTGT
1 TATATATGTATATGTGTGT
3043508 ATGTGTGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (20 bp):
TATATATGTATATGTGTGTG
Found at i:3043524 original size:28 final size:28
Alignment explanation
Indices: 3043462--3043527 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
3043452 AATCATTAGC
*
3043462 ATATATATATATGTGTGTATGTGTGTGT
1 ATATATGTATATGTGTGTATGTGTGTGT
3043490 ATATATGTATATGTGTGTATGTGTGTGT
1 ATATATGTATATGTGTGTATGTGTGTGT
*
3043518 ATGTATGTAT
1 ATATATGTAT
3043528 GCAATTGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (28 bp):
ATATATGTATATGTGTGTATGTGTGTGT
Found at i:3051039 original size:19 final size:20
Alignment explanation
Indices: 3051003--3051043 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
3050993 TACAACTAAT
*
3051003 AATTTTTATATAAGAATAAA
1 AATTTTGATATAAGAATAAA
*
3051023 AATTTTGATGTAA-AATAAA
1 AATTTTGATATAAGAATAAA
3051042 AA
1 AA
3051044 AATAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (20 bp):
AATTTTGATATAAGAATAAA
Found at i:3052180 original size:13 final size:13
Alignment explanation
Indices: 3052162--3052188 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3052152 TTGTATGGAC
3052162 AAAAATTAATATA
1 AAAAATTAATATA
3052175 AAAAATTAATATA
1 AAAAATTAATATA
3052188 A
1 A
3052189 TTGTATTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAAATTAATATA
Found at i:3052181 original size:37 final size:38
Alignment explanation
Indices: 3052134--3052205 Score: 128
Period size: 37 Copynumber: 1.9 Consensus size: 38
3052124 ATTCATTGTC
3052134 ATAATAAAATTAATATAATTGTATGGACAAAAATTAAT
1 ATAATAAAATTAATATAATTGTATGGACAAAAATTAAT
*
3052172 ATAA-AAAATTAATATAATTGTATTGACAAAAATT
1 ATAATAAAATTAATATAATTGTATGGACAAAAATT
3052206 TACCTAATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 29 0.88
38 4 0.12
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.35
Consensus pattern (38 bp):
ATAATAAAATTAATATAATTGTATGGACAAAAATTAAT
Done.