Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006212.1 Hibiscus syriacus cultivar Beakdansim tig00014800_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105454
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Found at i:1016 original size:19 final size:19
Alignment explanation
Indices: 981--1023 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
971 TTTTCATCAC
*
981 AAAAAGAAAATCGAGAGA-
1 AAAAAGAAAACCGAGAGAT
*
999 AAAAGAGAAAACCTAGAGAT
1 AAAA-AGAAAACCGAGAGAT
1019 AAAAA
1 AAAAA
1024 CTTACCTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 4 0.19
19 13 0.62
20 4 0.19
ACGTcount: A:0.67, C:0.07, G:0.19, T:0.07
Consensus pattern (19 bp):
AAAAAGAAAACCGAGAGAT
Found at i:1638 original size:17 final size:18
Alignment explanation
Indices: 1607--1641 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
1597 GTGTGGATTC
1607 ATGATGGTGTATGGAAGA
1 ATGATGGTGTATGGAAGA
1625 ATGATGGT-TATGGAAGA
1 ATGATGGTGTATGGAAGA
1642 TATAATGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.34, C:0.00, G:0.37, T:0.29
Consensus pattern (18 bp):
ATGATGGTGTATGGAAGA
Found at i:4837 original size:32 final size:32
Alignment explanation
Indices: 4789--4851 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
4779 AGAGTCAATA
*
4789 TTGCATTCAGATAATGCATAATAGAATTAGTC
1 TTGCATTCAGACAATGCATAATAGAATTAGTC
* * *
4821 TTGCATTTAGACAATGCATAGTAGATTTAGT
1 TTGCATTCAGACAATGCATAATAGAATTAGT
4852 AGCACACTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (32 bp):
TTGCATTCAGACAATGCATAATAGAATTAGTC
Found at i:5830 original size:2 final size:2
Alignment explanation
Indices: 5823--5881 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
5813 ATGATTTGTT
5823 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5865 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
5882 TATCTCATAG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14184 original size:67 final size:67
Alignment explanation
Indices: 14103--14246 Score: 234
Period size: 67 Copynumber: 2.1 Consensus size: 67
14093 CTGTTGCAAT
*
14103 AAAATATACTGAAACAAATCAAATATGATACATCAAGGACAATACACCAAAATTATGCTCTGCAA
1 AAAATATACCGAAACAAATCAAATATGATACATCAAGGACAATACACCAAAATTATGCTCTGCAA
14168 CC
66 CC
* * **
14170 AAAATATACCGAAACAAATCAAATATGATATATCAAGGACCATACACCAGGATTATGCTCTGCAA
1 AAAATATACCGAAACAAATCAAATATGATACATCAAGGACAATACACCAAAATTATGCTCTGCAA
14235 CC
66 CC
*
14237 AAAATTTACC
1 AAAATATACC
14247 ATCAAAACTC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 71 1.00
ACGTcount: A:0.47, C:0.22, G:0.10, T:0.22
Consensus pattern (67 bp):
AAAATATACCGAAACAAATCAAATATGATACATCAAGGACAATACACCAAAATTATGCTCTGCAA
CC
Found at i:33009 original size:24 final size:24
Alignment explanation
Indices: 32982--33075 Score: 116
Period size: 24 Copynumber: 3.9 Consensus size: 24
32972 TTCAATTTGT
*
32982 ATTTTTATATGATACCTGACCTAG
1 ATTTTTATATGATACTTGACCTAG
* *
33006 ATTTTGATATGATACTTGACCTGG
1 ATTTTTATATGATACTTGACCTAG
* *
33030 ATTTTTATATGATACTTGACATGG
1 ATTTTTATATGATACTTGACCTAG
* * *
33054 ATTCTGATATGCTACTTGACCT
1 ATTTTTATATGATACTTGACCT
33076 GAATTATACT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.43
Consensus pattern (24 bp):
ATTTTTATATGATACTTGACCTAG
Found at i:33062 original size:48 final size:48
Alignment explanation
Indices: 32982--33076 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
32972 TTCAATTTGT
* *
32982 ATTTTTATATGATACCTGACCTAGATTTTGATATGATACTTGACCTGG
1 ATTTTTATATGATACCTGACATAGATTCTGATATGATACTTGACCTGG
* * *
33030 ATTTTTATATGATACTTGACATGGATTCTGATATGCTACTTGACCTG
1 ATTTTTATATGATACCTGACATAGATTCTGATATGATACTTGACCTG
33077 AATTATACTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (48 bp):
ATTTTTATATGATACCTGACATAGATTCTGATATGATACTTGACCTGG
Found at i:33594 original size:20 final size:21
Alignment explanation
Indices: 33552--33595 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
33542 CATTTTTTAA
* * *
33552 TAAAACAATTATTTATTATTT
1 TAAAAAAATTATTTATGACTT
33573 TAAAAAAATTA-TTATGACTT
1 TAAAAAAATTATTTATGACTT
33593 TAA
1 TAA
33596 TTTGAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (21 bp):
TAAAAAAATTATTTATGACTT
Found at i:35281 original size:2 final size:2
Alignment explanation
Indices: 35274--35303 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
35264 CGTTTCGTGT
35274 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35304 ACAAACAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35518 original size:14 final size:14
Alignment explanation
Indices: 35499--35536 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
35489 AATTTGTAAT
*
35499 AATAATATTAATAA
1 AATAATAATAATAA
35513 AATAATAATAATAA
1 AATAATAATAATAA
*
35527 ATTAA-AATAA
1 AATAATAATAA
35537 AATTAAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AATAATAATAATAA
Found at i:36131 original size:28 final size:28
Alignment explanation
Indices: 36091--36170 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 28
36081 AGTGATTATG
** *
36091 GTTTCAAGGGAAACTGACTCAAAGATTT
1 GTTTCAAAAGAAACAGACTCAAAGATTT
36119 GTTTCAAAAGAAACAGACTCAAAGATTT
1 GTTTCAAAAGAAACAGACTCAAAGATTT
* *
36147 GTTTCAAGAA-AAATAAACTCAAAG
1 GTTTCAA-AAGAAACAGACTCAAAG
36171 GTGATGTGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 44 0.96
29 2 0.04
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (28 bp):
GTTTCAAAAGAAACAGACTCAAAGATTT
Found at i:36353 original size:32 final size:33
Alignment explanation
Indices: 36306--36375 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 33
36296 CAAAGATCAG
* *
36306 TGTTTCGAGAGAAACA-AACTCAAAGATGTT-TT
1 TGTTTCAAGAAAAACATAA-TCAAAGATGTTGTT
* *
36338 TGTTTCAAGAAAAACATAATTAAAGATTTTGTT
1 TGTTTCAAGAAAAACATAATCAAAGATGTTGTT
36371 TGTTT
1 TGTTT
36376 TGTTTCAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 23 0.72
33 9 0.28
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (33 bp):
TGTTTCAAGAAAAACATAATCAAAGATGTTGTT
Found at i:36526 original size:63 final size:60
Alignment explanation
Indices: 36406--36539 Score: 171
Period size: 63 Copynumber: 2.2 Consensus size: 60
36396 CAAAGATGGT
* *
36406 AAATTTTGTTTCCAAAGAGACTCAAAGATTTTCTTAAAAGAAACTGTCTCAAAAGAGACA
1 AAATTTTGTTTCCAAAGAAACTCAAAGATTTTCTCAAAAGAAACTGTCTCAAAAGAGACA
* * *
36466 AAATTTTGTTTCCAAAGAAACATATTCAATGATTTT-TCAAAAGAAATTGTCTCAAGAGAGACA
1 AAATTTTGTTTCCAAAGAAAC----TCAAAGATTTTCTCAAAAGAAACTGTCTCAAAAGAGACA
*
36529 AAACTTTGTTT
1 AAATTTTGTTT
36540 TTCAGAAAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
60 20 0.31
63 34 0.53
64 10 0.16
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (60 bp):
AAATTTTGTTTCCAAAGAAACTCAAAGATTTTCTCAAAAGAAACTGTCTCAAAAGAGACA
Found at i:36812 original size:30 final size:30
Alignment explanation
Indices: 36769--36836 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
36759 GAAAAAAATT
* * * *
36769 TGTTTTAATAGAAACGATCTCAAAGGT-GTG
1 TGTTTCAAGAGAAACGAACTCAAAGATAG-G
*
36799 TGTTTCAAGAGAAACTAACTCAAAGATAGG
1 TGTTTCAAGAGAAACGAACTCAAAGATAGG
36829 TGTTTCAA
1 TGTTTCAA
36837 AATAAAGTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (30 bp):
TGTTTCAAGAGAAACGAACTCAAAGATAGG
Found at i:37114 original size:30 final size:31
Alignment explanation
Indices: 37060--37118 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
37050 ATTTTTTCAT
*
37060 TTTGTTTCAAATGAAACAGACTCAAAGATCC
1 TTTGTTTCAAAAGAAACAGACTCAAAGATCC
*
37091 TTTGTTTCAAAAGAAA-TGACTCAAAGAT
1 TTTGTTTCAAAAGAAACAGACTCAAAGAT
37119 GATGTTTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.31
Consensus pattern (31 bp):
TTTGTTTCAAAAGAAACAGACTCAAAGATCC
Found at i:37196 original size:36 final size:35
Alignment explanation
Indices: 37156--37291 Score: 132
Period size: 36 Copynumber: 3.8 Consensus size: 35
37146 ATAATTTGGA
* *
37156 AAATTGCCTCAAGTGAGACAACATTTGTTTTTAGAG
1 AAATTGTCTCAAGCGAGACAA-ATTTGTTTTTAGAG
* * **
37192 AAATTGTGTCAAACGAGACAAAAAT-TTTTTAGAG
1 AAATTGTCTCAAGCGAGACAAATTTGTTTTTAGAG
37226 AAATTGTCTCAAGCGAGACAAAGTTTGTTTTT-GAG
1 AAATTGTCTCAAGCGAGACAAA-TTTGTTTTTAGAG
** * *
37261 AAAACGATCTCAAGTGAGATCAACTTTGTTT
1 AAATTG-TCTCAAGCGAGA-CAAATTTGTTT
37292 AATGTGAAAC
Statistics
Matches: 82, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
34 29 0.35
35 10 0.12
36 40 0.49
37 3 0.04
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (35 bp):
AAATTGTCTCAAGCGAGACAAATTTGTTTTTAGAG
Found at i:37226 original size:34 final size:34
Alignment explanation
Indices: 37183--37247 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
37173 ACAACATTTG
*
37183 TTTTTAGAGAAATTGTGTCAAACGAGACAAAAAT
1 TTTTTAGAGAAATTGTCTCAAACGAGACAAAAAT
*
37217 TTTTTAGAGAAATTGTCTCAAGCGAGACAAA
1 TTTTTAGAGAAATTGTCTCAAACGAGACAAA
37248 GTTTGTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (34 bp):
TTTTTAGAGAAATTGTCTCAAACGAGACAAAAAT
Found at i:37386 original size:27 final size:28
Alignment explanation
Indices: 37344--37399 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
37334 GTCTCAAACG
37344 AGACGAAATTCGTTTTGAAAGAAATAAC
1 AGACGAAATTCGTTTTGAAAGAAATAAC
*
37372 AGACG-AATTCTTTTTGAAAGAAATAAC
1 AGACGAAATTCGTTTTGAAAGAAATAAC
37399 A
1 A
37400 ATATCAAGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (28 bp):
AGACGAAATTCGTTTTGAAAGAAATAAC
Found at i:37515 original size:106 final size:107
Alignment explanation
Indices: 37383--37608 Score: 384
Period size: 106 Copynumber: 2.1 Consensus size: 107
37373 GACGAATTCT
37383 TTTTGAAAGAAATAACAATATCAAGTGAGATTAATTTTTGTTTCAAGTGAATCAAATTCGAAATT
1 TTTTGAAAGAAATAACAATATCAAGTGAGATTAATTTTTGTTTCAAGTGAATCAAATTCGAAATT
* *
37448 TGTATATCAAAGGAAAAAATGTCTCAAACGAGACGAAATTTG
66 TGTATATCAAAGGAAAAAATATCTCAAACAAGACGAAATTTG
*
37490 TTTTGAAA-AAATAACAATCTCAAGTGAGATTAATTTTTGTTTCAAGTGAATCAAATTCGAAATT
1 TTTTGAAAGAAATAACAATATCAAGTGAGATTAATTTTTGTTTCAAGTGAATCAAATTCGAAATT
* *
37554 TGTATATCAAAGGAAAAAATATCTCAAGCAAGACGAAGTTTG
66 TGTATATCAAAGGAAAAAATATCTCAAACAAGACGAAATTTG
37596 TTTT-AAGAGAAAT
1 TTTTGAA-AGAAAT
37609 TGTCTTAAAT
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
105 2 0.02
106 98 0.88
107 12 0.11
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.32
Consensus pattern (107 bp):
TTTTGAAAGAAATAACAATATCAAGTGAGATTAATTTTTGTTTCAAGTGAATCAAATTCGAAATT
TGTATATCAAAGGAAAAAATATCTCAAACAAGACGAAATTTG
Found at i:37723 original size:36 final size:36
Alignment explanation
Indices: 37649--37731 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 36
37639 ATTCTCAAAA
* * *
37649 TTTATGAGAAATGTCTCAAGTGAGAAAGAATTTGTT
1 TTTATGAGAAATGTCTAAAGCGAGAAAGAATTTATT
*
37685 TTTA-GAGAAATTGTCTAAAGCGAGACAA-AGTTTATT
1 TTTATGAGAAA-TGTCTAAAGCGAGA-AAGAATTTATT
*
37721 TTTTTGAGAAA
1 TTTATGAGAAA
37732 ACGATCTCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
35 6 0.15
36 25 0.64
37 8 0.21
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.36
Consensus pattern (36 bp):
TTTATGAGAAATGTCTAAAGCGAGAAAGAATTTATT
Found at i:37850 original size:36 final size:37
Alignment explanation
Indices: 37800--37899 Score: 141
Period size: 36 Copynumber: 2.7 Consensus size: 37
37790 AAAGGAAAAG
*
37800 TGTCTCAAGCGAGACGAAATTTGTTTTTCA-AGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTCAGAGAAAT
* * *
37836 TGTCTTAAGTGAGACAAAATTTG-TTTTGAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTCAGAGAAAT
37872 TGTCTCAAGCGAGACAAAAATTTGTTTT
1 TGTCTCAAGCGAGAC-AAAATTTGTTTT
37900 AAAATTCTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
35 5 0.09
36 39 0.71
37 8 0.15
38 3 0.05
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (37 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTCAGAGAAAT
Found at i:38248 original size:4 final size:4
Alignment explanation
Indices: 38239--38291 Score: 67
Period size: 4 Copynumber: 13.8 Consensus size: 4
38229 TTTACGTATC
*
38239 ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT AAGT AT-T
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
38284 GATGT ATG
1 -ATGT ATG
38292 CTTTTCTCGA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 2 0.05
3 1 0.02
4 39 0.91
5 1 0.02
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:39482 original size:11 final size:11
Alignment explanation
Indices: 39466--39561 Score: 68
Period size: 11 Copynumber: 8.2 Consensus size: 11
39456 TTTGTCATCT
39466 TTTTTCTTTGC
1 TTTTTCTTTGC
*
39477 TTTTTCTTTGTT
1 TTTTTCTTTG-C
39489 TTTTTCTTTGTTTC
1 TTTTTCTTTG---C
* *
39503 TTTCTCTTTTC
1 TTTTTCTTTGC
* *
39514 TTTTTTTGTTGTT
1 TTTTTCT-TTG-C
39527 TTTTTCCTTTG-
1 TTTTT-CTTTGC
*
39538 TTTTCCTTTGC
1 TTTTTCTTTGC
39549 TTTTTCTTTGC
1 TTTTTCTTTGC
39560 TT
1 TT
39562 CTTTTTTCTT
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
10 5 0.07
11 32 0.48
12 12 0.18
13 8 0.12
14 10 0.15
ACGTcount: A:0.00, C:0.16, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTTCTTTGC
Found at i:39497 original size:39 final size:38
Alignment explanation
Indices: 39454--39592 Score: 114
Period size: 37 Copynumber: 3.7 Consensus size: 38
39444 TTGTCTGTGC
*
39454 TCTTTGTCATCTTTTTTCTTTGCTTTTTCT-TTGTTTTTT
1 TCTTTGT-ATC-TTTCTCTTTGCTTTTTCTGTTGTTTTTT
* * *
39493 TCTTTGTTTCTTTCTCTTTTCTTTTTTTGTTGTTTTTT
1 TCTTTGTATCTTTCTCTTTGCTTTTTCTGTTGTTTTTT
39531 TCCTTTG--T-TTTC-CTTTGCTTTTTCT-TTGCTTCTTTTT
1 T-CTTTGTATCTTTCTCTTTGCTTTTTCTGTTG--T-TTTTT
39568 TCTTTGCTTAT-TTTCTCTTTG-TTTT
1 TCTTTG--TATCTTTCTCTTTGCTTTT
39593 GATTGGATCT
Statistics
Matches: 84, Mismatches: 6, Indels: 19
0.77 0.06 0.17
Matches are distributed among these distances:
34 3 0.04
35 11 0.13
36 10 0.12
37 22 0.26
38 12 0.14
39 12 0.14
40 9 0.11
41 5 0.06
ACGTcount: A:0.01, C:0.17, G:0.08, T:0.74
Consensus pattern (38 bp):
TCTTTGTATCTTTCTCTTTGCTTTTTCTGTTGTTTTTT
Found at i:39517 original size:26 final size:25
Alignment explanation
Indices: 39463--39587 Score: 100
Period size: 23 Copynumber: 5.0 Consensus size: 25
39453 CTCTTTGTCA
* *
39463 TCTTTTTTCTTTGCTTTTTCT-TTG
1 TCTTTTTTCTTTGTTTTTTCTCTTT
39487 T-TTTTTTCTTTGTTTCTTTCTCTTT
1 TCTTTTTTCTTTGTTT-TTTCTCTTT
*
39512 TCTTTTTT-TGTTGTTTTTT-TCCTT
1 TCTTTTTTCT-TTGTTTTTTCTCTTT
* * *
39536 T-GTTTTCCTTTGCTTTTTCT-TTGCT
1 TCTTTTTTCTTTGTTTTTTCTCTT--T
39561 TCTTTTTTCTTTGCTTATTTTCTCTTT
1 TCTTTTTTCTTTG-TT-TTTTCTCTTT
39588 GTTTTGATTG
Statistics
Matches: 79, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
23 26 0.33
24 13 0.16
25 9 0.11
26 21 0.27
27 2 0.03
28 6 0.08
29 2 0.03
ACGTcount: A:0.01, C:0.17, G:0.07, T:0.75
Consensus pattern (25 bp):
TCTTTTTTCTTTGTTTTTTCTCTTT
Found at i:39567 original size:15 final size:15
Alignment explanation
Indices: 39549--39588 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
39539 TTTCCTTTGC
*
39549 TTTTTCTTTGCTTCT
1 TTTTTCTTTGCTTAT
39564 TTTTTCTTTGCTTAT
1 TTTTTCTTTGCTTAT
*
39579 TTTCTCTTTG
1 TTTTTCTTTG
39589 TTTTGATTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.03, C:0.17, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTTTCTTTGCTTAT
Found at i:39592 original size:26 final size:25
Alignment explanation
Indices: 39465--39592 Score: 92
Period size: 26 Copynumber: 5.2 Consensus size: 25
39455 CTTTGTCATC
39465 TTTTTTCTTTGC--TTTT-TCTTTG
1 TTTTTTCTTTGCTTTTTTCTCTTTG
39487 TTTTTTTCTTTG-TTTCTTTCTCTTT-
1 -TTTTTTCTTTGCTTT-TTTCTCTTTG
* *
39512 TCTTTTTTTGTTGTTTTTTTC-CTTTG
1 T-TTTTTCT-TTGCTTTTTTCTCTTTG
* * *
39538 -TTTTCCTTTGC-TTTTTCTTTGCTTC
1 TTTTTTCTTTGCTTTTTTCTCT--TTG
39563 TTTTTTCTTTGCTTATTTTCTCTTTG
1 TTTTTTCTTTGCTT-TTTTCTCTTTG
39589 TTTT
1 TTTT
39593 GATTGGATCT
Statistics
Matches: 82, Mismatches: 9, Indels: 25
0.71 0.08 0.22
Matches are distributed among these distances:
22 6 0.07
23 15 0.18
24 7 0.09
25 15 0.18
26 28 0.34
27 4 0.05
28 7 0.09
ACGTcount: A:0.01, C:0.16, G:0.08, T:0.76
Consensus pattern (25 bp):
TTTTTTCTTTGCTTTTTTCTCTTTG
Found at i:40939 original size:16 final size:17
Alignment explanation
Indices: 40907--40939 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
40897 AATAAAAGCC
40907 TTCACATTACAAGACAT
1 TTCACATTACAAGACAT
*
40924 TTCACTTTAC-AGACAT
1 TTCACATTACAAGACAT
40940 GCCTTCGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (17 bp):
TTCACATTACAAGACAT
Found at i:41435 original size:30 final size:33
Alignment explanation
Indices: 41368--41435 Score: 88
Period size: 32 Copynumber: 2.1 Consensus size: 33
41358 ATGAAAAATG
41368 ACACAAACAAATGAGAAGAAAAAATGAGTTAGTAT
1 ACACAAACAAA-GAGAAGAAAAAATGAGTTAG-AT
*
41403 ACACAAACAAA-AGAA-AAAAAATTAGTTA-AT
1 ACACAAACAAAGAGAAGAAAAAATGAGTTAGAT
41433 ACA
1 ACA
41436 TGTCAGACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
30 5 0.16
32 12 0.38
33 4 0.12
35 11 0.34
ACGTcount: A:0.62, C:0.10, G:0.12, T:0.16
Consensus pattern (33 bp):
ACACAAACAAAGAGAAGAAAAAATGAGTTAGAT
Found at i:44064 original size:2 final size:2
Alignment explanation
Indices: 44057--44096 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
44047 CGTTTCGTGT
44057 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44097 ACAACAAAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45042 original size:3 final size:3
Alignment explanation
Indices: 45034--45074 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
45024 ACAAAATTTG
*
45034 TAA TAA TAA TAT TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
45075 ATTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:45858 original size:15 final size:14
Alignment explanation
Indices: 45835--45868 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
45825 CTGGAAGAAG
45835 TGGAAAAGGGGAAA
1 TGGAAAAGGGGAAA
*
45849 CTGGAGAAGGGGAAA
1 -TGGAAAAGGGGAAA
45864 TGGAA
1 TGGAA
45869 TTAGATAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.44, C:0.03, G:0.44, T:0.09
Consensus pattern (14 bp):
TGGAAAAGGGGAAA
Found at i:47174 original size:39 final size:37
Alignment explanation
Indices: 47083--47325 Score: 153
Period size: 38 Copynumber: 6.5 Consensus size: 37
47073 ATATATACAT
* * *
47083 ATTTTGAAACTACGTATATAATATATAGTTTT-TAATA-
1 ATTTTGAAAATA--TATATAATATATAGTTTTAAAAAAC
* *
47120 GTTTTTAAAATTATAT--AATATATAGTTTTAAAAAAAC
1 ATTTTGAAAA-TATATATAATATATAGTTTT-AAAAAAC
* * *
47157 ATTTTAGAAAATATATATAATATATAATTTTTAAAATC
1 ATTTT-GAAAATATATATAATATATAGTTTTAAAAAAC
* **
47195 ATTTGGAAAACT-TATATATATATATAGTTTTTGAAAAC
1 ATTTTGAAAA-TATATATA-ATATATAGTTTTAAAAAAC
* * *
47233 ATTTTTGAAAACATATAT-AT-TATAGTTTT-GAAAGC
1 A-TTTTGAAAATATATATAATATATAGTTTTAAAAAAC
* * * *
47268 ATTTTGAAAACATTTATATTATATAGTTTT-TAAAAC
1 ATTTTGAAAATATATATAATATATAGTTTTAAAAAAC
* *
47304 GTTTTGGGAAAATTTATATAAT
1 ATTTT--GAAAATATATATAAT
47326 CTTTTTTGAA
Statistics
Matches: 165, Mismatches: 26, Indels: 29
0.75 0.12 0.13
Matches are distributed among these distances:
34 28 0.17
35 7 0.04
36 32 0.19
37 29 0.18
38 44 0.27
39 25 0.15
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.44
Consensus pattern (37 bp):
ATTTTGAAAATATATATAATATATAGTTTTAAAAAAC
Found at i:47198 original size:38 final size:37
Alignment explanation
Indices: 47097--47349 Score: 168
Period size: 34 Copynumber: 6.9 Consensus size: 37
47087 TGAAACTACG
* * * *
47097 TATATAATATATAGTTTTTAATA-GTTTT-TAAAAT-
1 TATATAATATATAATTTTTAAAACATTTTGGAAAATA
* * *
47131 TATATAATATATAGTTTTAAAAAAACATTTTAGAAAATA
1 TATATAATATATAATTTT--TAAAACATTTTGGAAAATA
47170 TATATAATATATAATTTTTAAAATCA-TTTGGAAAACT-
1 TATATAATATATAATTTTTAAAA-CATTTTGGAAAA-TA
* * *
47207 TATATATATATATAGTTTTTGAAAACATTTTTGAAAACA
1 TATATA-ATATATAATTTTT-AAAACATTTTGGAAAATA
* * * *
47246 TATAT-AT-TATAGTTTTGAAAGCATTTT-GAAAACA
1 TATATAATATATAATTTTTAAAACATTTTGGAAAATA
* * * * *
47280 TTTATATTATATAGTTTTTAAAACGTTTTGGGAAAATT
1 TATATAATATATAATTTTTAAAACATTTT-GGAAAATA
* * *
47318 TATATAATCT-T--TTTTGAAAACATGTTGGAAAA
1 TATATAATATATAATTTTTAAAACATTTTGGAAAA
47350 CATTCGTATA
Statistics
Matches: 179, Mismatches: 25, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
34 35 0.20
35 22 0.12
36 29 0.16
37 25 0.14
38 34 0.19
39 34 0.19
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (37 bp):
TATATAATATATAATTTTTAAAACATTTTGGAAAATA
Found at i:47239 original size:12 final size:12
Alignment explanation
Indices: 47222--47246 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47212 ATATATATAG
47222 TTTTTGAAAACA
1 TTTTTGAAAACA
47234 TTTTTGAAAACA
1 TTTTTGAAAACA
47246 T
1 T
47247 ATATATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:47286 original size:36 final size:36
Alignment explanation
Indices: 47152--47364 Score: 152
Period size: 36 Copynumber: 5.8 Consensus size: 36
47142 TAGTTTTAAA
* * * *
47152 AAAACATTTTAGAAAATATATATA-ATATATAATTTTT
1 AAAACATTTT-GAAAACATTTATATAT-TATAGTTTTG
*
47189 AAAATCATTTGGAAAAC-TTATATATATATATAGTTTTTG
1 AAAA-CATTTTGAAAACATT-TATATAT-TATAG-TTTTG
47228 AAAACATTTTTGAAAACA--TATATATTATAGTTTTG
1 AAAACA-TTTTGAAAACATTTATATATTATAGTTTTG
* *
47263 AAAGCATTTTGAAAACATTTATAT-TATATAGTTTTT
1 AAAACATTTTGAAAACATTTATATAT-TATAGTTTTG
* * * * *
47299 AAAACGTTTTGGGAAA-ATTTATATAATCT-TTTTTG
1 AAAACATTTT-GAAAACATTTATATATTATAGTTTTG
* **
47334 AAAACATGTTGGAAAACATTCGTATATTATA
1 AAAACAT-TTTGAAAACATTTATATATTATA
47365 TAGTTTTAAA
Statistics
Matches: 140, Mismatches: 22, Indels: 28
0.74 0.12 0.15
Matches are distributed among these distances:
34 11 0.08
35 25 0.18
36 49 0.35
37 24 0.17
38 14 0.10
39 17 0.12
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (36 bp):
AAAACATTTTGAAAACATTTATATATTATAGTTTTG
Found at i:47322 original size:72 final size:71
Alignment explanation
Indices: 47129--47376 Score: 221
Period size: 72 Copynumber: 3.4 Consensus size: 71
47119 AGTTTTTAAA
* * * * * *
47129 ATTATATAATATATAGTTTTAAAAAAACATTTTAGAAAATATATATAATATATAATTTTTAAAAT
1 ATTATATATTATATAGTTTT--TAAAACATTTTGGAAAACATATAT-A-ATAT-GTTTTGAAAA-
47194 CATTTGGAAAAC
60 CATTTGGAAAAC
* * *
47206 -TTATATATATATATAGTTTTTGAAAACATTTTTGAAAACATATATATTATAGTTTTGAAAGCAT
1 ATTATATAT-TATATAGTTTTT-AAAACATTTTGGAAAACATATATAATAT-GTTTTGAAAACAT
*
47270 TTTGAAAAC
63 TTGGAAAAC
* ** * *
47279 ATT-TATATTATATAGTTTTTAAAACGTTTTGGGAAAATTTATATAATCTTTTTTGAAAACATGT
1 ATTATATATTATATAGTTTTTAAAACATTTT-GGAAAACATATATAATATGTTTTGAAAACAT-T
47343 TGGAAAAC
64 TGGAAAAC
* *
47351 ATTCGTATATTATATAGTTTTAAAAA
1 ATT-ATATATTATATAGTTTTTAAAA
47377 AAAAAAACAT
Statistics
Matches: 145, Mismatches: 19, Indels: 17
0.80 0.10 0.09
Matches are distributed among these distances:
71 20 0.14
72 36 0.25
73 16 0.11
74 33 0.23
75 1 0.01
76 28 0.19
77 11 0.08
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (71 bp):
ATTATATATTATATAGTTTTTAAAACATTTTGGAAAACATATATAATATGTTTTGAAAACATTTG
GAAAAC
Found at i:47440 original size:3 final size:3
Alignment explanation
Indices: 47432--47468 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
47422 TATGTATATA
47432 TAT TAT TAT TAT TATT TAT TAT TAT TA- TAT TAT TAT T
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
47469 TTTCATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:53822 original size:84 final size:82
Alignment explanation
Indices: 53733--54665 Score: 1032
Period size: 84 Copynumber: 11.2 Consensus size: 82
53723 GCTCAAGGCC
* * * * *
53733 AGAAGGGCTATCTGTCCACCAAGACCTTCGAGTTCGACTACGTTCAGCTTTGAAGGCACATCATT
1 AGAAGGGTTATCTG-CCACAAAGACCTTTGAGTTCGACTACGCTCAGC-TTCAAGGCACATCATT
53798 TGCAGCATAACTTAAGTCA
64 TGCAGCATAACTTAAGTCA
* *
53817 AGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGC-CAC-AAAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCATT
53882 TGCAGCATAACTTAAGTCA
64 TGCAGCATAACTTAAGTCA
* * *
53901 AGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCCCATCATT
1 AGAAGGGTTATCTGC-CAC-AAAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCATT
*
53966 TGCAGCATAACTTAAGTCG
64 TGCAGCATAACTTAAGTCA
* * * * *
53985 AGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCAT
1 AGAAGGGTTATCTGCC-AC-AAAGACCTTTGAGTTCGACTACGCTCAGCTTCAA-GGCACATCAT
* * * *
54050 TTACAGCATAACTCAAGGCT
63 TTGCAGCATAACTTAAGTCA
* *
54070 AGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
1 AGAAGGGTTATCTGCCA-CAAAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTT
* * *
54135 GCAGAATAGCTTAAGTCG
65 GCAGCATAACTTAAGTCA
* *
54153 AGAAGGGCTATCTG-C-CAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
1 AGAAGGGTTATCTGCCACAAAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTG
*
54216 CAGTATAACTTAAGTCA
66 CAGCATAACTTAAGTCA
* * * * *
54233 AGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCAT
1 AGAAGGGTTATCTGCC-AC-AAAGACCTTTGAGTTCGACTACGCTCAGCTTCAA-GGCACATCAT
* * * *
54298 TTACAGCATAACTCAAGGCT
63 TTGCAGCATAACTTAAGTCA
** * *
54318 AGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTGGACTACGCTCAGCTCCAAGGCACATCATTT
1 AGAAGGGTTATCTGCCA-CAAAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTT
* *
54383 GCAGAATAGCTTAAGTCA
65 GCAGCATAACTTAAGTCA
* * * * * *
54401 AGAAGGGTTATCTG-C-CAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTT
1 AGAAGGGTTATCTGCCACAAAGACCTTTGAGTTCGACTACGCTCAGCTTCAA-GGCACATCATTT
* * * *
54464 ACAGCATAACTCAAGGCT
65 GCAGCATAACTTAAGTCA
** * *
54482 AGAAGGGTTATCTGTTAACAAAAGACCTTTGAGTTTGACTACGCTCAGC-TCAACGGCATATCAT
1 AGAAGGGTTATCTG-CCAC-AAAGACCTTTGAGTTCGACTACGCTCAGCTTCAA-GGCACATCAT
* * * *
54546 TTACAGCATAACTCAAGGCT
63 TTGCAGCATAACTTAAGTCA
* * *
54566 AGAAGGGTTATCTGTCATCAAAGACCTTCGAGTGCGACTACGCTCAGC-TCTAAGGCACATCATT
1 AGAAGGGTTATCTGCCA-CAAAGACCTTTGAGTTCGACTACGCTCAGCTTC-AAGGCACATCATT
* *
54630 TGCAGCATAGCTTAAGTCG
64 TGCAGCATAACTTAAGTCA
* *
54649 AGAGGGGCTATCTGCCA
1 AGAAGGGTTATCTGCCA
54666 AAGACCCCTG
Statistics
Matches: 729, Mismatches: 102, Indels: 37
0.84 0.12 0.04
Matches are distributed among these distances:
80 104 0.14
81 37 0.05
82 1 0.00
83 143 0.20
84 315 0.43
85 129 0.18
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (82 bp):
AGAAGGGTTATCTGCCACAAAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTG
CAGCATAACTTAAGTCA
Found at i:54243 original size:248 final size:248
Alignment explanation
Indices: 53787--54671 Score: 1313
Period size: 248 Copynumber: 3.5 Consensus size: 248
53777 CAGCTTTGAA
* * * * * *
53787 GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTT
1 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TAACCAAAGACCTTTGAGTT
* * *
53852 CGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCT
65 CGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGC-
*
53917 AACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCCCATCATTTGCAGCATAACTTAAG
129 --C-AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAG
*
53982 TCGAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAG
191 TCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAG
*
54040 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTC
1 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTC
*
54105 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCA
66 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCA
*
54170 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCAAG
131 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAG
54235 AAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAG
196 AAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAG
*
54288 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTG
1 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTC
*
54353 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGTTATCTGCCA
66 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCA
* * * * * * * * * * *
54418 AAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTA
131 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCAA
** * * * * * * *
54483 GAAGGGTTATCTGTTAACAAAAGACCTTTGAGTTTGACTACGCTCAGC-TCAAC
195 GAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAG
* * * *
54536 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCATCAAAGACCTTCGAGTGC
1 GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTC
* * * *
54601 GACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAGGGGCTATCTGCCA
66 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCA
54666 AAGACC
131 AAGACC
54672 CCTGGGTTCG
Statistics
Matches: 582, Mismatches: 49, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
248 400 0.69
249 65 0.11
252 78 0.13
253 39 0.07
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (248 bp):
GGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTC
GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCA
AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAG
AAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAG
Found at i:54672 original size:248 final size:249
Alignment explanation
Indices: 53724--54736 Score: 1277
Period size: 248 Copynumber: 4.1 Consensus size: 249
53714 TGCAGCTTAG
* * * * ** *
53724 CTCAAGGCCAGAAGGGCTATCTGTCC-AC-CAAGA-CCTTCGAGTTCGACTACGTTCAGCTTTGA
1 CTCAAGGCAAGAAGGGTTATCTG-CCAACTAAAGACCCTT-AAGTTCGACTACACTCAGC-TTCA
* * * * * * *
53786 A-GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAG
63 AGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TCACCAAAGACCTTTGAG
* * * *
53850 TTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTG
127 TGCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTG
* * ** *
53915 CTAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCCCATCATTTGCAGCATAA
192 C---C-AAAGACCCTTGAGTTCGACTACACTCAGCTCCAAGGGCATATCATTTACAGCATAA
* * * *
53976 CTTAAGTCGAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGG
1 CTCAAGGCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGACTACACTCAGCTTCAAGG
*
54041 GCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCG
66 GCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTGCG
*
54106 ACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
131 ACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCAA
* * * * *
54171 AGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGTATAA
196 AGACCCTTGAGTTCGACTACACTCAGCTCCAAGGGCATATCATTTACAGCATAA
* * *
54224 CTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGG
1 CTCAAGGCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGACTACACTCAGCTTCAAGG
*
54289 GCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAGACCTTTGAGTTG-
66 GCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAG-TGC
*
54353 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGTTATCTGCCA
130 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCA
* * * *
54418 AAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAA
195 AAGACCCTTGAGTTCGACTACACTCAGCTCCAAGGGCATATCATTTACAGCATAA
* ** * * * * * *
54473 CTCAAGGCTAGAAGGGTTATCTGTTAACAAAAGACCTTTGAGTTTGACTACGCTCAGC-TCAACG
1 CTCAAGGCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGACTACACTCAGCTTCAAGG
* *
54537 GCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCATCAAAGACCTTCGAGTGCG
66 GCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTGCG
* * * *
54602 ACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAGGGGCTATCTGCCAA
131 ACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCAA
* * * * * * * * * *
54667 AGACCCCTGGGTTCGATTACACTCAACTTCGAGGTCATATCAGTTACAACATAG
196 AGACCCTTGAGTTCGACTACACTCAGCTCCAAGGGCATATCATTTACAGCATAA
54721 CTCAAGGCAAGAAGGG
1 CTCAAGGCAAGAAGGG
54737 CTATTTGTCA
Statistics
Matches: 686, Mismatches: 68, Indels: 18
0.89 0.09 0.02
Matches are distributed among these distances:
247 2 0.00
248 451 0.66
249 66 0.10
251 2 0.00
252 103 0.15
253 58 0.08
254 4 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (249 bp):
CTCAAGGCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGACTACACTCAGCTTCAAGG
GCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTGCG
ACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCAA
AGACCCTTGAGTTCGACTACACTCAGCTCCAAGGGCATATCATTTACAGCATAA
Found at i:55411 original size:39 final size:37
Alignment explanation
Indices: 55320--55562 Score: 153
Period size: 38 Copynumber: 6.5 Consensus size: 37
55310 ATATATACAT
* * *
55320 ATTTTGAAACTACGTATATAATATATAGTTTT-TAATA-
1 ATTTTGAAAATA--TATATAATATATAGTTTTAAAAAAC
* *
55357 GTTTTTAAAATTATAT--AATATATAGTTTTAAAAAAAC
1 ATTTTGAAAA-TATATATAATATATAGTTTT-AAAAAAC
* * *
55394 ATTTTAGAAAATATATATAATATATAATTTTTAAAATC
1 ATTTT-GAAAATATATATAATATATAGTTTTAAAAAAC
* **
55432 ATTTGGAAAACT-TATATATATATATAGTTTTTGAAAAC
1 ATTTTGAAAA-TATATATA-ATATATAGTTTTAAAAAAC
* * *
55470 ATTTTTGAAAACATATAT-AT-TATAGTTTT-GAAAGC
1 A-TTTTGAAAATATATATAATATATAGTTTTAAAAAAC
* * * *
55505 ATTTTGAAAACATTTATATTATATAGTTTT-TAAAAC
1 ATTTTGAAAATATATATAATATATAGTTTTAAAAAAC
* *
55541 GTTTTGGGAAAATTTATATAAT
1 ATTTT--GAAAATATATATAAT
55563 CTTTTTTGAA
Statistics
Matches: 165, Mismatches: 26, Indels: 29
0.75 0.12 0.13
Matches are distributed among these distances:
34 28 0.17
35 7 0.04
36 32 0.19
37 29 0.18
38 44 0.27
39 25 0.15
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.44
Consensus pattern (37 bp):
ATTTTGAAAATATATATAATATATAGTTTTAAAAAAC
Found at i:55435 original size:38 final size:37
Alignment explanation
Indices: 55334--55586 Score: 168
Period size: 34 Copynumber: 6.9 Consensus size: 37
55324 TGAAACTACG
* * * *
55334 TATATAATATATAGTTTTTAATA-GTTTT-TAAAAT-
1 TATATAATATATAATTTTTAAAACATTTTGGAAAATA
* * *
55368 TATATAATATATAGTTTTAAAAAAACATTTTAGAAAATA
1 TATATAATATATAATTTT--TAAAACATTTTGGAAAATA
55407 TATATAATATATAATTTTTAAAATCA-TTTGGAAAACT-
1 TATATAATATATAATTTTTAAAA-CATTTTGGAAAA-TA
* * *
55444 TATATATATATATAGTTTTTGAAAACATTTTTGAAAACA
1 TATATA-ATATATAATTTTT-AAAACATTTTGGAAAATA
* * * *
55483 TATAT-AT-TATAGTTTTGAAAGCATTTT-GAAAACA
1 TATATAATATATAATTTTTAAAACATTTTGGAAAATA
* * * * *
55517 TTTATATTATATAGTTTTTAAAACGTTTTGGGAAAATT
1 TATATAATATATAATTTTTAAAACATTTT-GGAAAATA
* * *
55555 TATATAATCT-T--TTTTGAAAACATGTTGGAAAA
1 TATATAATATATAATTTTTAAAACATTTTGGAAAA
55587 CATTCGTATA
Statistics
Matches: 179, Mismatches: 25, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
34 35 0.20
35 22 0.12
36 29 0.16
37 25 0.14
38 34 0.19
39 34 0.19
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (37 bp):
TATATAATATATAATTTTTAAAACATTTTGGAAAATA
Found at i:55476 original size:12 final size:12
Alignment explanation
Indices: 55459--55483 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55449 ATATATATAG
55459 TTTTTGAAAACA
1 TTTTTGAAAACA
55471 TTTTTGAAAACA
1 TTTTTGAAAACA
55483 T
1 T
55484 ATATATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:55523 original size:36 final size:36
Alignment explanation
Indices: 55389--55601 Score: 152
Period size: 36 Copynumber: 5.8 Consensus size: 36
55379 TAGTTTTAAA
* * * *
55389 AAAACATTTTAGAAAATATATATA-ATATATAATTTTT
1 AAAACATTTT-GAAAACATTTATATAT-TATAGTTTTG
*
55426 AAAATCATTTGGAAAAC-TTATATATATATATAGTTTTTG
1 AAAA-CATTTTGAAAACATT-TATATAT-TATAG-TTTTG
55465 AAAACATTTTTGAAAACA--TATATATTATAGTTTTG
1 AAAACA-TTTTGAAAACATTTATATATTATAGTTTTG
* *
55500 AAAGCATTTTGAAAACATTTATAT-TATATAGTTTTT
1 AAAACATTTTGAAAACATTTATATAT-TATAGTTTTG
* * * * *
55536 AAAACGTTTTGGGAAA-ATTTATATAATCT-TTTTTG
1 AAAACATTTT-GAAAACATTTATATATTATAGTTTTG
* **
55571 AAAACATGTTGGAAAACATTCGTATATTATA
1 AAAACAT-TTTGAAAACATTTATATATTATA
55602 TAGTTTTAAA
Statistics
Matches: 140, Mismatches: 22, Indels: 28
0.74 0.12 0.15
Matches are distributed among these distances:
34 11 0.08
35 25 0.18
36 49 0.35
37 24 0.17
38 14 0.10
39 17 0.12
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (36 bp):
AAAACATTTTGAAAACATTTATATATTATAGTTTTG
Found at i:55559 original size:72 final size:71
Alignment explanation
Indices: 55366--55613 Score: 221
Period size: 72 Copynumber: 3.4 Consensus size: 71
55356 AGTTTTTAAA
* * * * * *
55366 ATTATATAATATATAGTTTTAAAAAAACATTTTAGAAAATATATATAATATATAATTTTTAAAAT
1 ATTATATATTATATAGTTTT--TAAAACATTTTGGAAAACATATAT-A-ATAT-GTTTTGAAAA-
55431 CATTTGGAAAAC
60 CATTTGGAAAAC
* * *
55443 -TTATATATATATATAGTTTTTGAAAACATTTTTGAAAACATATATATTATAGTTTTGAAAGCAT
1 ATTATATAT-TATATAGTTTTT-AAAACATTTTGGAAAACATATATAATAT-GTTTTGAAAACAT
*
55507 TTTGAAAAC
63 TTGGAAAAC
* ** * *
55516 ATT-TATATTATATAGTTTTTAAAACGTTTTGGGAAAATTTATATAATCTTTTTTGAAAACATGT
1 ATTATATATTATATAGTTTTTAAAACATTTT-GGAAAACATATATAATATGTTTTGAAAACAT-T
55580 TGGAAAAC
64 TGGAAAAC
* *
55588 ATTCGTATATTATATAGTTTTAAAAA
1 ATT-ATATATTATATAGTTTTTAAAA
55614 AAAAAACATT
Statistics
Matches: 145, Mismatches: 19, Indels: 17
0.80 0.10 0.09
Matches are distributed among these distances:
71 20 0.14
72 36 0.25
73 16 0.11
74 33 0.23
75 1 0.01
76 28 0.19
77 11 0.08
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (71 bp):
ATTATATATTATATAGTTTTTAAAACATTTTGGAAAACATATATAATATGTTTTGAAAACATTTG
GAAAAC
Found at i:55678 original size:3 final size:3
Alignment explanation
Indices: 55670--55707 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
55660 TGTATATATA
55670 TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
55708 TTTCATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:59731 original size:10 final size:10
Alignment explanation
Indices: 59716--59743 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
59706 CAAATCGAAG
59716 CCCAAAACTA
1 CCCAAAACTA
59726 CCCAAAACTA
1 CCCAAAACTA
59736 CCCAAAAC
1 CCCAAAAC
59744 CCAGTGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.43, G:0.00, T:0.07
Consensus pattern (10 bp):
CCCAAAACTA
Found at i:60769 original size:2 final size:2
Alignment explanation
Indices: 60764--60802 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
60754 TCCAAAAATA
60764 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
60803 ACGTAAAACG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:61710 original size:17 final size:18
Alignment explanation
Indices: 61685--61719 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
61675 TTTCAATGGA
61685 AAATAAAATAATA-TATT
1 AAATAAAATAATAGTATT
*
61702 AAATTAAATAATAGTATT
1 AAATAAAATAATAGTATT
61720 TTAAAACTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
AAATAAAATAATAGTATT
Found at i:62215 original size:22 final size:24
Alignment explanation
Indices: 62176--62228 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 24
62166 TGTACTAGAG
62176 ACGATGGACGGAGAGCTTTGCGCAT
1 ACGA-GGACGGAGAGCTTTGCGCAT
62201 ACGAGGA-GGAG-GCTTTGCGCAT
1 ACGAGGACGGAGAGCTTTGCGCAT
*
62223 GCGAGG
1 ACGAGG
62229 GGCAAATTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 16 0.59
23 4 0.15
24 3 0.11
25 4 0.15
ACGTcount: A:0.23, C:0.19, G:0.42, T:0.17
Consensus pattern (24 bp):
ACGAGGACGGAGAGCTTTGCGCAT
Found at i:62823 original size:14 final size:14
Alignment explanation
Indices: 62804--62834 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
62794 CATTCTCAAT
62804 CAATTTTATCACAC
1 CAATTTTATCACAC
62818 CAATTTTATCACAC
1 CAATTTTATCACAC
62832 CAA
1 CAA
62835 ATTCTCTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (14 bp):
CAATTTTATCACAC
Found at i:62873 original size:12 final size:10
Alignment explanation
Indices: 62832--62872 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
62822 TTTATCACAC
62832 CAAATTCTCT
1 CAAATTCTCT
62842 CAAATTCTCT
1 CAAATTCTCT
62852 -AAATTTCTCT
1 CAAA-TTCTCT
*
62862 CAAATACTCT
1 CAAATTCTCT
62872 C
1 C
62873 TTTTTAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:62921 original size:13 final size:14
Alignment explanation
Indices: 62893--62921 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
62883 ATATTTTATA
62893 ATATTTTTACTATT
1 ATATTTTTACTATT
62907 ATATTTTTACT-TT
1 ATATTTTTACTATT
62920 AT
1 AT
62922 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTTTTACTATT
Found at i:63135 original size:110 final size:111
Alignment explanation
Indices: 62996--63216 Score: 381
Period size: 110 Copynumber: 2.0 Consensus size: 111
62986 TGGAAATCAT
*
62996 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* * * *
63061 TATTTAGTT-ATTTATTTAATGCATGATTATTATATTAATAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
*
63106 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTATTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
63171 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
63217 TTTTTGTAAT
Statistics
Matches: 104, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
110 71 0.68
111 33 0.32
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.46
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:65099 original size:15 final size:15
Alignment explanation
Indices: 65079--65113 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
65069 TGCGCAAGAT
65079 GACGATGACAACAAC
1 GACGATGACAACAAC
* *
65094 GACGATGACGACGAC
1 GACGATGACAACAAC
65109 GACGA
1 GACGA
65114 CGGTGATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.26, G:0.29, T:0.06
Consensus pattern (15 bp):
GACGATGACAACAAC
Found at i:67235 original size:21 final size:21
Alignment explanation
Indices: 67209--67253 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
67199 GATTTCTGGG
* *
67209 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
67230 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
67251 CAA
1 CAA
67254 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:68669 original size:31 final size:31
Alignment explanation
Indices: 68582--68682 Score: 123
Period size: 31 Copynumber: 3.2 Consensus size: 31
68572 AGAGTCGAGG
*
68582 GTTTACCTATGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTAAGGAACATATGGACA
* ***
68613 GTTTTACCTAT-ATCTTTCGAGACATATGGACA
1 G-TTTACCTATGTTCTAAGGA-ACATATGGACA
*
68645 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTAAGGAACATATGGACA
68676 GTTTACC
1 GTTTACC
68683 GAGGATCTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
31 31 0.54
32 26 0.46
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTAAGGAACATATGGACA
Found at i:68796 original size:29 final size:30
Alignment explanation
Indices: 68670--68793 Score: 196
Period size: 30 Copynumber: 4.1 Consensus size: 30
68660 AAGGAACATA
68670 TGGACAGTTTACCGAGGATCTTTATGACCTC
1 TGGACAG-TTACCGAGGATCTTTATGACCTC
68701 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
68731 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * * *
68761 TGGATAGTTACCG-GGGTCTGTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
68790 TGGA
1 TGGA
68794 TAGGTCCTTC
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
29 17 0.19
30 65 0.73
31 7 0.08
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:71734 original size:21 final size:21
Alignment explanation
Indices: 71708--71752 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
71698 GATTTCTGGG
* *
71708 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
71729 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
71750 CAA
1 CAA
71753 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:72233 original size:2 final size:2
Alignment explanation
Indices: 72226--72277 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
72216 CATGAGTTAG
72226 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72268 -T AT AT AT AT A
1 AT AT AT AT AT A
72278 GGAATTGTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73125 original size:32 final size:32
Alignment explanation
Indices: 73084--73179 Score: 108
Period size: 32 Copynumber: 3.0 Consensus size: 32
73074 GAGTCGAGGG
73084 TTACCTATGTTCTACGGAACATATGGACAGTT
1 TTACCTATGTTCTACGGAACATATGGACAGTT
* *
73116 TTACCTATG-TCTTTC-GAGACATATGGACA-AT
1 TTACCTATGTTC-TACGGA-ACATATGGACAGTT
* * *
73147 ATACCTATGTTCTAAGGAATATATGGACAGTT
1 TTACCTATGTTCTACGGAACATATGGACAGTT
73179 T
1 T
73180 ACCGAGGATC
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
31 24 0.47
32 27 0.53
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (32 bp):
TTACCTATGTTCTACGGAACATATGGACAGTT
Found at i:73171 original size:31 final size:32
Alignment explanation
Indices: 73085--73176 Score: 98
Period size: 31 Copynumber: 2.9 Consensus size: 32
73075 AGTCGAGGGT
* * *
73085 TACCTATGTTCTACGGAACATATGGACAGTTT
1 TACCTATGTTCTAAGGAACATATGGACAGATA
***
73117 TACCTATG-TCTTTCGAGACATATGGACA-ATA
1 TACCTATGTTCTAAGGA-ACATATGGACAGATA
*
73148 TACCTATGTTCTAAGGAATATATGGACAG
1 TACCTATGTTCTAAGGAACATATGGACAG
73177 TTTACCGAGG
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
31 24 0.50
32 24 0.50
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (32 bp):
TACCTATGTTCTAAGGAACATATGGACAGATA
Found at i:73296 original size:29 final size:30
Alignment explanation
Indices: 73170--73293 Score: 196
Period size: 30 Copynumber: 4.1 Consensus size: 30
73160 AAGGAATATA
73170 TGGACAGTTTACCGAGGATCTTTATGACCTC
1 TGGACAG-TTACCGAGGATCTTTATGACCTC
73201 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
73231 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * * *
73261 TGGATAGTTACCG-GGGTCTGTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
73290 TGGA
1 TGGA
73294 TAGGTCCTTC
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
29 17 0.19
30 65 0.73
31 7 0.08
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:76465 original size:49 final size:51
Alignment explanation
Indices: 76363--76467 Score: 162
Period size: 51 Copynumber: 2.1 Consensus size: 51
76353 CAAAACGCGG
* *
76363 TACCTGCCCCGTGCTATATAAAATTATTTCAGGAGTAAAGGTATGTCGCGA
1 TACCTGCCCCGCGCTATATAAAATTATTTCAGGAGTAAAGGTATGTCACGA
76414 TACCTGCCCCGCGCTATATAAAATTA-TT-AGGAGTAAAGGTATAG-CACGA
1 TACCTGCCCCGCGCTATATAAAATTATTTCAGGAGTAAAGGTAT-GTCACGA
76463 TACCT
1 TACCT
76468 AATCCGCGCT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
49 23 0.45
50 3 0.06
51 25 0.49
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (51 bp):
TACCTGCCCCGCGCTATATAAAATTATTTCAGGAGTAAAGGTATGTCACGA
Found at i:76475 original size:49 final size:51
Alignment explanation
Indices: 76370--76480 Score: 147
Period size: 49 Copynumber: 2.2 Consensus size: 51
76360 CGGTACCTGC
* * **
76370 CCCGTGCTATATAAAATTATTTCAGGAGTAAAGGTATGTCGCGATACCTGC
1 CCCGCGCTATATAAAATTATTTCAGGAGTAAAGGTATGTCACGATACCTAA
76421 CCCGCGCTATATAAAATTA-TT-AGGAGTAAAGGTATAG-CACGATACCTAA
1 CCCGCGCTATATAAAATTATTTCAGGAGTAAAGGTAT-GTCACGATACCTAA
*
76470 TCCGCGCTATA
1 CCCGCGCTATA
76481 CCCCTATGTG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
49 33 0.61
50 3 0.06
51 18 0.33
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (51 bp):
CCCGCGCTATATAAAATTATTTCAGGAGTAAAGGTATGTCACGATACCTAA
Found at i:76571 original size:50 final size:51
Alignment explanation
Indices: 76492--76619 Score: 150
Period size: 51 Copynumber: 2.5 Consensus size: 51
76482 CCCTATGTGG
* * * * **
76492 CGTATAGCGCGCTGCAGGGGCCGCACTATA-CCCACGTGTCGCCAGCTCAC
1 CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGACGCCAAATCAC
*
76542 CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGACGCCAAATCAT
1 CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGACGCCAAATCAC
* * * *
76593 CGTATAACCCCGTACAGGGGGCGCGCT
1 CGTATAGCGCGGTGCAGGGGGCGCGCT
76620 TTACTGCTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 27 0.41
51 39 0.59
ACGTcount: A:0.20, C:0.34, G:0.30, T:0.16
Consensus pattern (51 bp):
CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGACGCCAAATCAC
Found at i:87985 original size:24 final size:24
Alignment explanation
Indices: 87957--88004 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
87947 TATTCGAACG
87957 ATTGAATC-AAATATAATCTCAAAA
1 ATTGAATCGAAA-ATAATCTCAAAA
*
87981 ATTGAATCGAAAATAATCTTAAAA
1 ATTGAATCGAAAATAATCTCAAAA
88005 TTTATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.29
Consensus pattern (24 bp):
ATTGAATCGAAAATAATCTCAAAA
Found at i:97262 original size:25 final size:27
Alignment explanation
Indices: 97224--97281 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
97214 TAATCCTTAT
*
97224 ATAACTAGTAAT-AAT-ATATATATAA
1 ATAACTAATAATAAATAATATATATAA
*
97249 ATAACTAATTATAACAATAATATATATAA
1 ATAACTAATAAT-A-AATAATATATATAA
97278 ATAA
1 ATAA
97282 ACCCAAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 10 0.37
28 3 0.11
29 14 0.52
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (27 bp):
ATAACTAATAATAAATAATATATATAA
Found at i:97262 original size:35 final size:34
Alignment explanation
Indices: 97187--97282 Score: 92
Period size: 35 Copynumber: 2.8 Consensus size: 34
97177 ATATATAGAC
* *
97187 ATATAACTAGTAATAATA-ACTAATAATTAATCCTT
1 ATATAACTAGTAATAATATA-TAATAAATAA-CCTA
97222 ATATAACTAGTAATAATATATATATAAATAA-CTA
1 ATATAACTAGTAATAATATATA-ATAAATAACCTA
*
97256 ATTATAAC-AATAAT-ATATATAAATAAA
1 A-TATAACTAGTAATAATATAT-AATAAA
97283 CCCAAACAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
33 11 0.20
34 9 0.17
35 26 0.48
36 8 0.15
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.35
Consensus pattern (34 bp):
ATATAACTAGTAATAATATATAATAAATAACCTA
Found at i:97824 original size:130 final size:131
Alignment explanation
Indices: 97473--97844 Score: 376
Period size: 133 Copynumber: 2.8 Consensus size: 131
97463 ATGCTCTGCT
* ** * ** *
97473 ATTTTTTGGGTAATCATATCTGAAAAATTTTGATTCACTTTTGTGCTCTTCAAAGAAGGTTGAAT
1 ATTTTTCGGGTAATCA-ATCTGAAAAATTTTGATTCACTTTACTTCTCTTCAGGGAAGATTGAAT
* * * * * * *
97538 TGAAGTCGATTTGCTTCAGTGCTCTTCAGGAAGACCAAATCTGAAAGAAGGAGGATATGCTCCAC
65 CGAACTTGATTTGCTTGAATGCTCTTCAGGAAGACCAAATCTGAAAGAAGGAAGATATGCTACAC
97603 TA
130 TA
* ** * * * * * *
97605 CTCTTTAGGGGAAATCAAACTCAAAAAGTTTTGATCCACTTTGCTGT-TATTCAGGGAAGATTGA
1 AT-TTTTCGGGTAATCAATCTGAAAAA-TTTTGATTCACTTTACT-TCTCTTCAGGGAAGATTGA
* *
97669 ATCAAACTTGATTTGCTTCG-CTGCTCTTCAGGAAGACCAAATCTGAAAGAA-GAAGA-AT-CTA
63 ATCGAACTTGATTTGCTT-GAATGCTCTTCAGGAAGACCAAATCTGAAAGAAGGAAGATATGCTA
*
97730 CTCTA
127 CACTA
* *
97735 ATTTTTCGGGTAATCAGATCTTGAAAAATTTTGATTCACTTTACTTCTCTTTAGGGAAGATTAAA
1 ATTTTTCGGGTAATCA-ATC-TGAAAAATTTTGATTCACTTTACTTCTCTTCAGGGAAGATTGAA
**
97800 TCGAACTTGATTTGCTTGAATGCTCTTCAAAAAGACCAAATCTGA
64 TCGAACTTGATTTGCTTGAATGCTCTTCAGGAAGACCAAATCTGA
97845 GAAAAATGAG
Statistics
Matches: 194, Mismatches: 38, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
129 13 0.07
130 78 0.40
131 8 0.04
132 13 0.07
133 82 0.42
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (131 bp):
ATTTTTCGGGTAATCAATCTGAAAAATTTTGATTCACTTTACTTCTCTTCAGGGAAGATTGAATC
GAACTTGATTTGCTTGAATGCTCTTCAGGAAGACCAAATCTGAAAGAAGGAAGATATGCTACACT
A
Found at i:103281 original size:45 final size:45
Alignment explanation
Indices: 103193--103417 Score: 290
Period size: 45 Copynumber: 5.0 Consensus size: 45
103183 CTTCATACTT
* ** *
103193 ATAATGCA-CCATTATGCATTTTCATTTATGGCATTTTTTCATGCCA
1 ATAATGCACCCA-TATGCA-TTTCAATTATGGCATCCTTTCATGCCG
* * *
103239 ATAGTGCACCCATATGCATTTTAATTATGGCACCCTTTCATGCCG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
* * * *
103284 ATAATACACCCATATGCATTTCAATTATGGTATCTTTTCATGACG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
*
103329 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCT
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
* * *
103374 ATAATGCACCCATATGCATTTCATTTAAGGCATTCTTTCATGCC
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCC
103418 TTTTATACGC
Statistics
Matches: 156, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
45 140 0.90
46 13 0.08
47 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
Found at i:103439 original size:135 final size:136
Alignment explanation
Indices: 103193--103460 Score: 326
Period size: 135 Copynumber: 2.0 Consensus size: 136
103183 CTTCATACTT
* ** *
103193 ATAATGCACCATTATGCATTTTCATTTATGGCATTTTTTCATGCCAATAGTGCACCCATATGCAT
1 ATAATGCACCATTATGCATTTTCAATTATGGCATCCTTTCATGCCAATAATGCACCCATATGCAT
* * * *
103258 TTTAATTATGGCACCCTTTCATGCCGATAATACACCCATATGCATTTCAATTATGGTATCTTTTC
66 TTCAATTAAGGCACCCTTTCATGCCGATAATACACCCATATACATTTCAATTATGGTATCCTTTC
103323 ATGACG
131 ATGACG
*
103329 ATAATGCACCCA-TATGCA-TTTCAATTATGGCATCCTTTCATGCCTATAATGCACCCATATGCA
1 ATAATGCA-CCATTATGCATTTTCAATTATGGCATCCTTTCATGCCAATAATGCACCCATATGCA
* ** ** * * * * *
103392 TTTCATTTAAGGCATTCTTTCATGCCTTTTATAC-GCTATTATACATTTCATTTATGTTATCCTT
65 TTTCAATTAAGGCACCCTTTCATGCCGATAATACACCCA-TATACATTTCAATTATGGTATCCTT
103456 TCATG
129 TCATG
103461 CCTTTTATAC
Statistics
Matches: 111, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
134 2 0.02
135 92 0.83
136 14 0.13
137 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.40
Consensus pattern (136 bp):
ATAATGCACCATTATGCATTTTCAATTATGGCATCCTTTCATGCCAATAATGCACCCATATGCAT
TTCAATTAAGGCACCCTTTCATGCCGATAATACACCCATATACATTTCAATTATGGTATCCTTTC
ATGACG
Found at i:103627 original size:79 final size:80
Alignment explanation
Indices: 103497--103648 Score: 218
Period size: 79 Copynumber: 1.9 Consensus size: 80
103487 ATACATCTAG
* * *
103497 TCTTTTACTCAAAGGCATTTAACCTTTAATCTACTGGCATGATTGCCACCTTT-TGTCAAATGCA
1 TCTTTTACTCAAAGGCATTTAACCTTTAATCTACTGACATAATTGACACCTTTATGTCAAATGCA
*
103561 CAGCTAGGCCATTAA
66 CAACTAGGCCATTAA
* * *
103576 TCTTTTACTCAAAGGTATTT-ACCTTTCATCTAACTGACATAATTGATACCTTTATGTCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTAATCT-ACTGACATAATTGACACCTTTATGTCAAATGC
103640 ACAACTAGG
65 ACAACTAGG
103649 TCTCAAAGGC
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
78 10 0.16
79 36 0.56
80 18 0.28
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (80 bp):
TCTTTTACTCAAAGGCATTTAACCTTTAATCTACTGACATAATTGACACCTTTATGTCAAATGCA
CAACTAGGCCATTAA
Found at i:103866 original size:68 final size:68
Alignment explanation
Indices: 103583--104117 Score: 705
Period size: 67 Copynumber: 8.0 Consensus size: 68
103573 TAATCTTTTA
* * * * *
103583 CTCAAAGGTATTTA-CCTTTCATCTAACTGACATAATTGATACCTTTATGTCAAATGCACAACTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTA
*
103647 GGT
66 GGC
*
103650 CTCAAAGGCAC-TAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTC-AATGCACAACTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTA
*
103713 GTC
66 GGC
* * * * *
103716 CTCAAAGACACTTAACCTTTCATGT-A-TGGCATAATTGATACATTTCTGTC-AATGCACAACTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTA
103778 GGC
66 GGC
* * *
103781 CTCAAAGGCAGC-TATCCTTTCATCTAATTGGCATAATTGACACCTTTCTGTCAAATGCACAATT
1 CTCAAAGGCA-CTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACT
103845 AGGC
65 AGGC
* * * * *
103849 CTTAAAGACACTTATCCTTTCATCTAACTAGCATAA-TGACACCTTTCTGTCAGATGCACAACTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTA
103913 -GC
66 GGC
* * *
103915 CTC-AAGGCAATTAGCCTTTCATCTAACTGGCATAATTGACACCTTTGT-TCAAATTCACAACTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTA
103978 GGC
66 GGC
* * * **
103981 CTCAAATGCACTTAGCATTTCATCTAACTGACATAATTGACATATTTCTGTCAAATGCACAACTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTA
104046 GGC
66 GGC
* *
104049 CTCAAAGGCACTTAGCCTTTCATTTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTA
104114 GGC
66 GGC
104117 C
1 C
104118 ATTAATCTTT
Statistics
Matches: 407, Mismatches: 50, Indels: 21
0.85 0.10 0.04
Matches are distributed among these distances:
65 96 0.24
66 48 0.12
67 140 0.34
68 123 0.30
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (68 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTA
GGC
Found at i:103976 original size:200 final size:200
Alignment explanation
Indices: 103583--104114 Score: 718
Period size: 200 Copynumber: 2.7 Consensus size: 200
103573 TAATCTTTTA
* * * *
103583 CTCAAAGGTATTTA-CCTTTCATCTAACTGACATAATTGATACCTTTATGTCAAATGCACAACTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGACATAATTGACACCTTTCTGTCAAATGCACAACTA
*
103647 GGTCTCAAAGGCAC-TAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAATGCACAAC
66 GGCCTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAATGCACAAC
* * *
103711 TAGTCCTCAAAGACACTTAACCTTTCATGTATGGCATAATTGATACATTTCTGTCAATGCACAAC
131 TAGTCCTCAAAGACAATTAACCTTTCATCTATGGCATAATTGACACATTTCTGTCAATGCACAAC
103776 TAGGC
196 TAGGC
* * * *
103781 CTCAAAGGCAGC-TATCCTTTCATCTAATTGGCATAATTGACACCTTTCTGTCAAATGCACAATT
1 CTCAAAGGCA-CTTAGCCTTTCATCTAACTGACATAATTGACACCTTTCTGTCAAATGCACAACT
* * *
103845 AGGCCTTAAAGACACTTATCCTTTCATCTAACTAGCATAA-TGACACCTTTCTGTCAGATGCACA
65 AGGCCTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCA-ATGCACA
* * * * *
103909 ACTAG-CCTC-AAGGCAATTAGCCTTTCATCTAACTGGCATAATTGACACCTTTGT-TCAAATTC
129 ACTAGTCCTCAAAGACAATTAACCTTTCATCT-A-TGGCATAATTGACACATTTCTGTC-AATGC
103971 ACAACTAGGC
191 ACAACTAGGC
* * **
103981 CTCAAATGCACTTAGCATTTCATCTAACTGACATAATTGACATATTTCTGTCAAATGCACAACTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGACATAATTGACACCTTTCTGTCAAATGCACAACTA
* * *
104046 GGCCTCAAAGGCACTTAGCCTTTCATTTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAG
66 GGCCTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTC-AATGCACAA
104111 CTAG
130 CTAG
104115 GCCATTAATC
Statistics
Matches: 291, Mismatches: 33, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
198 28 0.10
199 80 0.27
200 156 0.54
201 26 0.09
202 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (200 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGACATAATTGACACCTTTCTGTCAAATGCACAACTA
GGCCTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAATGCACAAC
TAGTCCTCAAAGACAATTAACCTTTCATCTATGGCATAATTGACACATTTCTGTCAATGCACAAC
TAGGC
Found at i:104472 original size:54 final size:55
Alignment explanation
Indices: 104329--104528 Score: 248
Period size: 54 Copynumber: 3.6 Consensus size: 55
104319 CTTAAACGGA
* *
104329 AATTTATAAGCAATTATGAATTTCTTAAC-TTTTGCACCA-AAAGTGCCCATA-CG
1 AATTCATAAACAATTATGAATTTCTTAACTTTTTGC-CCACAAAGTGCCCATATCG
* *
104382 AAAATTCATAAAACAATTACGAATTTCTTAACTTTTTTCCCACAAAGTGCCCATATCG
1 --AATTCAT-AAACAATTATGAATTTCTTAACTTTTTGCCCACAAAGTGCCCATATCG
* *
104440 AATTCAT-AACAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCATATGG
1 AATTCATAAACAATTATGAATTTCTTAACTTTTTGCCCACAAAGTGCCCATATCG
* *
104494 AATTC-TAAACAAATTATGAATTTCCTAACATTTTG
1 AATTCATAAAC-AATTATGAATTTCTTAACTTTTTG
104529 TACACTTAGT
Statistics
Matches: 129, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
53 1 0.01
54 51 0.40
55 28 0.22
56 30 0.23
57 17 0.13
58 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (55 bp):
AATTCATAAACAATTATGAATTTCTTAACTTTTTGCCCACAAAGTGCCCATATCG
Found at i:104498 original size:110 final size:110
Alignment explanation
Indices: 104329--104527 Score: 280
Period size: 111 Copynumber: 1.8 Consensus size: 110
104319 CTTAAACGGA
*
104329 AATTTATAAGCAATTATGAATTTCTTAACTTTTGCACCAAAAGTGCCCATACGAAAATTCATAAA
1 AATTCATAAGCAATTATGAATTTCTTAACTTTTGCACCAAAAGTGCCCATACGAAAATTC-TAAA
* *
104394 -ACAATTACGAATTTCTTAACTTTTTTCCCACAAAGTGCCCATATCG
65 CA-AATTACGAATTTCCTAACATTTTTCCCACAAAGTGCCCATATCG
* *
104440 AATTCATAA-CAATTATGAATTTCTTAACTTTTTGCA-CACAAAGTGCCCATATG-GAATTCTAA
1 AATTCATAAGCAATTATGAATTTCTTAAC-TTTTGCACCA-AAAGTGCCCATACGAAAATTCTAA
*
104502 ACAAATTATGAATTTCCTAACATTTT
64 ACAAATTACGAATTTCCTAACATTTT
104528 GTACACTTAG
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
109 24 0.30
110 27 0.34
111 28 0.35
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (110 bp):
AATTCATAAGCAATTATGAATTTCTTAACTTTTGCACCAAAAGTGCCCATACGAAAATTCTAAAC
AAATTACGAATTTCCTAACATTTTTCCCACAAAGTGCCCATATCG
Done.