Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 82 of 222
Found at i:25572414 original size:15 final size:17
Alignment explanation
Indices: 25572384--25572415 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
25572374 AAATATTTAT
25572384 ACAATTATTATATAATA
1 ACAATTATTATATAATA
25572401 ACAA-TATT-TATAATA
1 ACAATTATTATATAATA
25572416 TATTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
ACAATTATTATATAATA
Found at i:25578121 original size:20 final size:20
Alignment explanation
Indices: 25578093--25578144 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
25578083 AGATGTTAAT
*
25578093 ATTTCTAATGCAAAACCAAA
1 ATTTCTAATGCAAAACAAAA
* *
25578113 ATTTTTAAT-CAATACAAAA
1 ATTTCTAATGCAAAACAAAA
25578132 ATTTCTAATGCAA
1 ATTTCTAATGCAA
25578145 TATCAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (20 bp):
ATTTCTAATGCAAAACAAAA
Found at i:25578152 original size:20 final size:20
Alignment explanation
Indices: 25578093--25578214 Score: 115
Period size: 20 Copynumber: 6.2 Consensus size: 20
25578083 AGATGTTAAT
* *
25578093 ATTTCTAATGCAAAACCAAA
1 ATTTCTAATGCAATATCAAA
*
25578113 ATTTTTAAT-CAATA-CAAAA
1 ATTTCTAATGCAATATC-AAA
25578132 ATTTCTAATGCAATATCAAA
1 ATTTCTAATGCAATATCAAA
* *
25578152 ATATC-AATGCTATATCAAA
1 ATTTCTAATGCAATATCAAA
*** *
25578171 ATTTCTAATATGATATAAAA
1 ATTTCTAATGCAATATCAAA
* *
25578191 ATCTCTAATGCAATACCAAA
1 ATTTCTAATGCAATATCAAA
25578211 ATTT
1 ATTT
25578215 TTAAGAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
18 1 0.01
19 32 0.40
20 47 0.58
21 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.34
Consensus pattern (20 bp):
ATTTCTAATGCAATATCAAA
Found at i:25578192 original size:39 final size:40
Alignment explanation
Indices: 25578118--25578214 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 40
25578108 CCAAAATTTT
* * *
25578118 TAAT-CAATACAAAAATTTCTAATGCAATATCAAAATATC
1 TAATGCAATACCAAAATTTCTAATACAATATAAAAATATC
* * ** *
25578157 -AATGCTATATCAAAATTTCTAATATGATATAAAAATCTC
1 TAATGCAATACCAAAATTTCTAATACAATATAAAAATATC
25578196 TAATGCAATACCAAAATTT
1 TAATGCAATACCAAAATTT
25578215 TTAAGAATAT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
38 3 0.07
39 27 0.59
40 16 0.35
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.33
Consensus pattern (40 bp):
TAATGCAATACCAAAATTTCTAATACAATATAAAAATATC
Found at i:25579452 original size:27 final size:27
Alignment explanation
Indices: 25579414--25579473 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
25579404 GAATCTACGT
*
25579414 CACATGAACTGGCTCACATGTGCTTGG
1 CACATTAACTGGCTCACATGTGCTTGG
25579441 CACATTAACTGGCTCACATGTGCTTGG
1 CACATTAACTGGCTCACATGTGCTTGG
25579468 CACATT
1 CACATT
25579474 CTCTTTAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (27 bp):
CACATTAACTGGCTCACATGTGCTTGG
Found at i:25580448 original size:19 final size:18
Alignment explanation
Indices: 25580422--25580457 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
25580412 GAAAAATCAT
*
25580422 TTTAAAAAATTCAAAATA
1 TTTAAAAAATCCAAAATA
25580440 TTTATAAAAATCCAAAAT
1 TTTA-AAAAATCCAAAAT
25580458 TTATATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (18 bp):
TTTAAAAAATCCAAAATA
Found at i:25584074 original size:25 final size:25
Alignment explanation
Indices: 25584014--25584076 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
25584004 TCCCGATCAC
25584014 AGCTCTTATGAGCTTCCCGTTATAT
1 AGCTCTTATGAGCTTCCCGTTATAT
**
25584039 AGCTCGAATGAGCTTCCCGTT-TAT
1 AGCTCTTATGAGCTTCCCGTTATAT
*
25584063 GTGCTCTTATGAGC
1 -AGCTCTTATGAGC
25584077 ATTCTCGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 3 0.09
25 29 0.91
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.37
Consensus pattern (25 bp):
AGCTCTTATGAGCTTCCCGTTATAT
Found at i:25591838 original size:25 final size:24
Alignment explanation
Indices: 25591810--25591874 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 24
25591800 CCAATATATA
25591810 GCTCTTCGAAGCTTCCCGA-TAACTG
1 GCTCTTCG-AGCTTCCCGATTAA-TG
* *
25591835 GCTCTTATGGGCTTCCCGATTAATG
1 GCTCTT-CGAGCTTCCCGATTAATG
*
25591860 GCTCTCCGGAGCTTC
1 GCTCTTC-GAGCTTC
25591875 TAGATATTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
25 28 0.88
26 4 0.12
ACGTcount: A:0.15, C:0.31, G:0.23, T:0.31
Consensus pattern (24 bp):
GCTCTTCGAGCTTCCCGATTAATG
Found at i:25595264 original size:60 final size:60
Alignment explanation
Indices: 25595171--25595292 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
25595161 GGGATCAAAA
25595171 TCACATACCATGCATCAAGAATCAACTTGGTCTAATGCTTTCTACTCAAAAATGAAGTTT
1 TCACATACCATGCATCAAGAATCAACTTGGTCTAATGCTTTCTACTCAAAAATGAAGTTT
25595231 TCACATACCATGCATCAAGAATCAACTTGGTCTAATGCTTTCTACTCAAAAATGAAGTTT
1 TCACATACCATGCATCAAGAATCAACTTGGTCTAATGCTTTCTACTCAAAAATGAAGTTT
25595291 TC
1 TC
25595293 TTCCTAGTTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.32
Consensus pattern (60 bp):
TCACATACCATGCATCAAGAATCAACTTGGTCTAATGCTTTCTACTCAAAAATGAAGTTT
Found at i:25596098 original size:14 final size:15
Alignment explanation
Indices: 25596081--25596113 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
25596071 TCTTTCCATT
25596081 TCTTTCT-TCTTCCC
1 TCTTTCTCTCTTCCC
25596095 TCTTTCTCTCTTCCC
1 TCTTTCTCTCTTCCC
25596110 -CTTT
1 TCTTT
25596114 ATTATATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (15 bp):
TCTTTCTCTCTTCCC
Found at i:25611570 original size:22 final size:22
Alignment explanation
Indices: 25611544--25611595 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
25611534 TTTAAAATAC
25611544 TTTAAAAATATATTTTTT-TATT
1 TTTAAAAATA-ATTTTTTGTATT
*
25611566 TTT-AAAATAATTTTTTGTGTT
1 TTTAAAAATAATTTTTTGTATT
25611587 TATTAAAAA
1 T-TTAAAAA
25611596 CCGGGCCGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 7 0.27
21 10 0.38
22 5 0.19
23 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (22 bp):
TTTAAAAATAATTTTTTGTATT
Found at i:25616504 original size:21 final size:21
Alignment explanation
Indices: 25616478--25616519 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
25616468 GATGCCAAGC
*
25616478 CCATCTACTTAGATTTTCCCT
1 CCATCTACTTAGAATTTCCCT
25616499 CCATCTACTTAGAATTTCCCT
1 CCATCTACTTAGAATTTCCCT
25616520 TACTACACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.33, G:0.05, T:0.40
Consensus pattern (21 bp):
CCATCTACTTAGAATTTCCCT
Found at i:25619037 original size:18 final size:19
Alignment explanation
Indices: 25619014--25619061 Score: 66
Period size: 17 Copynumber: 2.7 Consensus size: 19
25619004 GGAAAGTCGA
25619014 AAAATTTT-AAAACACGAG
1 AAAATTTTGAAAACACGAG
25619032 AAAATTTTGAAAACAC--G
1 AAAATTTTGAAAACACGAG
*
25619049 AAATTTTTGAAAA
1 AAAATTTTGAAAA
25619062 AGTGAAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 13 0.46
18 8 0.29
19 7 0.25
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.27
Consensus pattern (19 bp):
AAAATTTTGAAAACACGAG
Found at i:25619074 original size:61 final size:60
Alignment explanation
Indices: 25618974--25619120 Score: 172
Period size: 61 Copynumber: 2.4 Consensus size: 60
25618964 AAATAATCTT
* * *
25618974 TTTTGAGAACACAAAAATTTTTGAAAACGCGGAAAGTCGAAAAATTTTAAAACACGAGAAAA
1 TTTTGAAAACAC-GAAATTTTTGAAAAAGCGGAAAGTCGAAAAATTTTAAAACACGAG-AAA
* ***
25619036 TTTTGAAAACACGAAATTTTTGAAAAAG-TGAAAGGTCGAATTTTTTTAAAACACGAGAAA
1 TTTTGAAAACACGAAATTTTTGAAAAAGCGGAAA-GTCGAAAAATTTTAAAACACGAGAAA
*
25619096 TTGTTGAAAACACGAAA-ATTTGAAA
1 TT-TTGAAAACACGAAATTTTTGAAA
25619121 TACGAAAATT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
60 16 0.21
61 48 0.64
62 11 0.15
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.27
Consensus pattern (60 bp):
TTTTGAAAACACGAAATTTTTGAAAAAGCGGAAAGTCGAAAAATTTTAAAACACGAGAAA
Found at i:25619207 original size:18 final size:19
Alignment explanation
Indices: 25619180--25619219 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
25619170 ACAATTCTTG
25619180 AAACACGAA-TTTTTTTTA
1 AAACACGAATTTTTTTTTA
*
25619198 AAACATGAATTTTTTTTTA
1 AAACACGAATTTTTTTTTA
25619217 AAA
1 AAA
25619220 AACATGAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (19 bp):
AAACACGAATTTTTTTTTA
Found at i:25619689 original size:21 final size:21
Alignment explanation
Indices: 25619660--25619704 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
25619650 TTAATCGGAA
25619660 TTTTATTAAAATACGAGAATT
1 TTTTATTAAAATACGAGAATT
* *
25619681 TTTTTTTAAAATACGAGGATT
1 TTTTATTAAAATACGAGAATT
25619702 TTT
1 TTT
25619705 GAATATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (21 bp):
TTTTATTAAAATACGAGAATT
Found at i:25619950 original size:19 final size:19
Alignment explanation
Indices: 25619922--25619958 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25619912 AACACCATTT
*
25619922 AAATACATTAAATAAAATA
1 AAATACATTAAAAAAAATA
*
25619941 AAATAGATTAAAAAAAAT
1 AAATACATTAAAAAAAAT
25619959 TTACCAAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (19 bp):
AAATACATTAAAAAAAATA
Found at i:25620168 original size:12 final size:12
Alignment explanation
Indices: 25620148--25620190 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
25620138 ATTGCTTTTA
25620148 TTCTTTTTTATT
1 TTCTTTTTTATT
25620160 GTT-TTTTTTATT
1 -TTCTTTTTTATT
*
25620172 TTCTTTTTT-CT
1 TTCTTTTTTATT
25620183 TTCTTTTT
1 TTCTTTTT
25620191 CTCTCTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 11 0.39
12 15 0.54
13 2 0.07
ACGTcount: A:0.05, C:0.09, G:0.02, T:0.84
Consensus pattern (12 bp):
TTCTTTTTTATT
Found at i:25620211 original size:27 final size:26
Alignment explanation
Indices: 25620170--25620223 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
25620160 GTTTTTTTTA
* * *
25620170 TTTTCTTTTTTCTTTCTTTTTCTCTCT
1 TTTTCTTTCTCCTTTCTTCTTCT-TCT
25620197 TTTTCTTTCTCCTTTCTTCTTCTTCT
1 TTTTCTTTCTCCTTTCTTCTTCTTCT
25620223 T
1 T
25620224 CCCTTTACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTTCTTTCTCCTTTCTTCTTCTTCT
Found at i:25620217 original size:20 final size:20
Alignment explanation
Indices: 25620176--25620242 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
25620166 TTTATTTTCT
*
25620176 TTTTTCTTTCT-TTTTCTCTC
1 TTTTTCTTTCTCCTTTCT-TC
25620196 TTTTTCTTTCTCCTTTCTTC
1 TTTTTCTTTCTCCTTTCTTC
* *
25620216 TTCTTC-TTC-CC-TT-TAC
1 TTTTTCTTTCTCCTTTCTTC
25620232 TTTTTCTTTCT
1 TTTTTCTTTCT
25620243 TTTGAGTTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
16 7 0.17
17 5 0.12
18 2 0.05
19 3 0.08
20 18 0.45
21 5 0.12
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTTCTTTCTCCTTTCTTC
Found at i:25620437 original size:22 final size:21
Alignment explanation
Indices: 25620396--25620449 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
25620386 GCCCTGTCGC
* **
25620396 TGCTGTTTTCTTGATTTTTTGT
1 TGCTGTTTTCTTAAAATTTT-T
25620418 TGCTGTTTTCTTAAAATTTTT
1 TGCTGTTTTCTTAAAATTTTT
*
25620439 TTCT-TTTTCTT
1 TGCTGTTTTCTT
25620450 TTTCTTTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 7 0.25
21 4 0.14
22 17 0.61
ACGTcount: A:0.09, C:0.11, G:0.11, T:0.69
Consensus pattern (21 bp):
TGCTGTTTTCTTAAAATTTTT
Found at i:25620740 original size:30 final size:30
Alignment explanation
Indices: 25620706--25620775 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
25620696 AACATGGGGC
* *
25620706 CAAAATGTAATTTTTAGAAAGTTAAATGGT
1 CAAAATGTAATTTTGAGAAAGTTAAAGGGT
* * *
25620736 CAAAATGAAATTTTGAGAAATTTAAGGGGT
1 CAAAATGTAATTTTGAGAAAGTTAAAGGGT
*
25620766 TAAAATGTAA
1 CAAAATGTAA
25620776 ATATAGGAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.19, T:0.33
Consensus pattern (30 bp):
CAAAATGTAATTTTGAGAAAGTTAAAGGGT
Found at i:25620826 original size:31 final size:31
Alignment explanation
Indices: 25620735--25620826 Score: 84
Period size: 30 Copynumber: 3.0 Consensus size: 31
25620725 AGTTAAATGG
**
25620735 TCAAAATGAAATTTTGAG-AAATTTAAGGGGT
1 TCAAAATGAAATTTAAAGAAAATTT-AGGGGT
* * *
25620766 T-AAAATGTAAATAT-AGGAAATTTTA-GGGT
1 TCAAAATG-AAATTTAAAGAAAATTTAGGGGT
*
25620795 TCAAAATGCAATTTAAAGAAAATTTAGGGGT
1 TCAAAATGAAATTTAAAGAAAATTTAGGGGT
25620826 T
1 T
25620827 TGAATGTAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
29 9 0.19
30 23 0.48
31 16 0.33
ACGTcount: A:0.43, C:0.03, G:0.21, T:0.33
Consensus pattern (31 bp):
TCAAAATGAAATTTAAAGAAAATTTAGGGGT
Found at i:25627382 original size:30 final size:28
Alignment explanation
Indices: 25627346--25627415 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 28
25627336 TATTTCTATT
25627346 AAGAAGAGAGAATTTTCATTTTCACCCTAC
1 AAGAAGAGAGAATTTTCATTTTCACCC--C
**
25627376 AAGAAGAGAGAATTTTTGTTTTCACCCC
1 AAGAAGAGAGAATTTTCATTTTCACCCC
*
25627404 AAAAAGAGAGAA
1 AAGAAGAGAGAA
25627416 AACTTTTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 12 0.32
30 25 0.68
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (28 bp):
AAGAAGAGAGAATTTTCATTTTCACCCC
Found at i:25631742 original size:26 final size:25
Alignment explanation
Indices: 25631709--25631761 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
25631699 GAATTTGAGT
* *
25631709 ATTTAGGG-TTAAATTGTGAAAATAA
1 ATTTAGGGACTAAAGTGTG-AAATAA
25631734 ATTTGAGGGACTAAAGTGTGAAATAA
1 ATTT-AGGGACTAAAGTGTGAAATAA
25631760 AT
1 AT
25631762 GCAATGTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.17
26 12 0.50
27 8 0.33
ACGTcount: A:0.43, C:0.02, G:0.23, T:0.32
Consensus pattern (25 bp):
ATTTAGGGACTAAAGTGTGAAATAA
Found at i:25632819 original size:41 final size:41
Alignment explanation
Indices: 25632774--25632935 Score: 236
Period size: 41 Copynumber: 4.0 Consensus size: 41
25632764 AAATTATTCA
*
25632774 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCG
* *
25632815 GACTATACGTCTAGCAGGCTAAATGCCGGTGAATTGAATCG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCG
* *
25632856 GACTATACGTCTAGCAGGCTAAGTGTCGGTGAACTAAATCAG
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATC-G
* * *
25632898 G-CTACAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAAT
1 GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAAT
25632936 TAAACTATAA
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 108 0.98
42 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
GACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCG
Found at i:25632948 original size:41 final size:41
Alignment explanation
Indices: 25632771--25632970 Score: 231
Period size: 41 Copynumber: 4.9 Consensus size: 41
25632761 GTGAAATTAT
*
25632771 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAA
1 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * *
25632812 TCGGACTATACGTCTAGCAGGCTAAATGCCGGTGAATTGAA
1 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * *
25632853 TCGGACTATACGTCTAGCAGGCTAAGTGTCGGTGAACTAAA
1 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * * *
25632894 TCAGGCTACAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * * * * *
25632935 TTAAACTATAAGCCTATCAGG-TGAAGTGCCAGTGAA
1 TCAGACTATACGTCTAGCAGGCT-AAGTGCCGGTGAA
25632971 TCTATTTAAA
Statistics
Matches: 139, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 1 0.01
41 138 0.99
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (41 bp):
TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
Found at i:25639881 original size:13 final size:13
Alignment explanation
Indices: 25639863--25639887 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25639853 CATTTCCAGG
25639863 TCATTTTCATTTT
1 TCATTTTCATTTT
25639876 TCATTTTCATTT
1 TCATTTTCATTT
25639888 GGAAAAAATC
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:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:25650875 original size:29 final size:30
Alignment explanation
Indices: 25650825--25650885 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 30
25650815 AAGTTTTCGT
* *
25650825 TTTGGTCACTTAACTAAACAAA-TTTACAA
1 TTTGGTCACTAAAATAAACAAAGTTTACAA
** *
25650854 TTTGGTCACTAAAATATTCAAAGTTTTCAA
1 TTTGGTCACTAAAATAAACAAAGTTTACAA
25650884 TT
1 TT
25650886 AAGCCGTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (30 bp):
TTTGGTCACTAAAATAAACAAAGTTTACAA
Found at i:25651357 original size:14 final size:14
Alignment explanation
Indices: 25651334--25651365 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
25651324 GACGATTTTC
*
25651334 AAAAGTAAAAGAAA
1 AAAAGAAAAAGAAA
25651348 AAAAGAAAAAGAAA
1 AAAAGAAAAAGAAA
25651362 AAAA
1 AAAA
25651366 AACTTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.03
Consensus pattern (14 bp):
AAAAGAAAAAGAAA
Found at i:25668986 original size:12 final size:12
Alignment explanation
Indices: 25668966--25668998 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
25668956 AAACCTAATG
25668966 ATTGTAAAGCTA
1 ATTGTAAAGCTA
*
25668978 ATTGAAAAGCTA
1 ATTGTAAAGCTA
25668990 ATTGTAAAG
1 ATTGTAAAG
25668999 GTTAGTCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (12 bp):
ATTGTAAAGCTA
Found at i:25671254 original size:19 final size:19
Alignment explanation
Indices: 25671211--25671247 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
25671201 AATTGAGGAT
25671211 TAGAAATGAGATTAGAATG
1 TAGAAATGAGATTAGAATG
25671230 TAGAAATGAGATTAGAAT
1 TAGAAATGAGATTAGAAT
25671248 TTTGAAACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (19 bp):
TAGAAATGAGATTAGAATG
Found at i:25673509 original size:6 final size:6
Alignment explanation
Indices: 25673500--25673529 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
25673490 GTGTGAATAT
*
25673500 GAATGC GAATGA GAATGC GAATGC GAATGC
1 GAATGC GAATGC GAATGC GAATGC GAATGC
25673530 TCAAGGGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.33, T:0.17
Consensus pattern (6 bp):
GAATGC
Found at i:25683908 original size:20 final size:20
Alignment explanation
Indices: 25683883--25683922 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
25683873 CGTAAATTGA
*
25683883 TTTCTGTAAAATGTTTTACT
1 TTTCTGTAAAATGATTTACT
25683903 TTTCTGTAAAATGATTTACT
1 TTTCTGTAAAATGATTTACT
25683923 AGAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.53
Consensus pattern (20 bp):
TTTCTGTAAAATGATTTACT
Found at i:25702947 original size:28 final size:30
Alignment explanation
Indices: 25702893--25702948 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
25702883 ATTTTTCCAT
* *
25702893 TGATGAATCTATGTGATTTTAGATGTTAAA
1 TGATGAATCTATGAGATATTAGATGTTAAA
*
25702923 TGATGAAT-T-TGAGATATTAGTTGTTA
1 TGATGAATCTATGAGATATTAGATGTTA
25702949 TTTAAAAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 14 0.61
29 1 0.04
30 8 0.35
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (30 bp):
TGATGAATCTATGAGATATTAGATGTTAAA
Found at i:25703540 original size:38 final size:37
Alignment explanation
Indices: 25703448--25703546 Score: 117
Period size: 37 Copynumber: 2.6 Consensus size: 37
25703438 AGAAATGCAG
* * *
25703448 TGATTTTGGGCTATGTGCCTTGCAGGCTTTGTATCGA
1 TGATTTTGGGCTATGTGCATAGCAGGCTTTGTACCGA
* * *
25703485 TGATTTTGGGATATGTGCATAGCAGGTTTTGTGCCGA
1 TGATTTTGGGCTATGTGCATAGCAGGCTTTGTACCGA
* *
25703522 TGTTATTTGGGCTATGTGCTTAGCA
1 TGAT-TTTGGGCTATGTGCATAGCA
25703547 AAATTTGTGC
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
37 34 0.65
38 18 0.35
ACGTcount: A:0.16, C:0.13, G:0.30, T:0.40
Consensus pattern (37 bp):
TGATTTTGGGCTATGTGCATAGCAGGCTTTGTACCGA
Found at i:25703604 original size:75 final size:76
Alignment explanation
Indices: 25703498--25703679 Score: 181
Period size: 75 Copynumber: 2.4 Consensus size: 76
25703488 TTTTGGGATA
* * * * ** * * *
25703498 TGTGCATAGCAGGTTTTGTGCCGATGTTATTTGGGCTAT-GTGCTTAGCAAAATTTGTGCTGGTG
1 TGTGCCTAGCAGGCTTTGTGCTGGTCATATTTGGGCT-TCGTGCCTAGCAAAATTTATGCCGGTG
*
25703562 AT-TTCG-GCCTG
65 ATATTCGAG-CTC
* * **
25703573 TGTGCCTAGCAGGGTTTGTGTTGGTCATATTTGGGCTTCGTGCCTAGCAAGCTTTATGCCGGTGA
1 TGTGCCTAGCAGGCTTTGTGCTGGTCATATTTGGGCTTCGTGCCTAGCAAAATTTATGCCGGTGA
25703638 TATTCGAGCTC
66 TATTCGAGCTC
* *
25703649 TGTGCCTAGTAGGCTTTGTGCTGGTGATATT
1 TGTGCCTAGCAGGCTTTGTGCTGGTCATATT
25703680 CGAGCTCTAT
Statistics
Matches: 87, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
74 1 0.01
75 52 0.60
76 33 0.38
77 1 0.01
ACGTcount: A:0.15, C:0.16, G:0.31, T:0.38
Consensus pattern (76 bp):
TGTGCCTAGCAGGCTTTGTGCTGGTCATATTTGGGCTTCGTGCCTAGCAAAATTTATGCCGGTGA
TATTCGAGCTC
Found at i:25703641 original size:38 final size:38
Alignment explanation
Indices: 25703612--25703698 Score: 120
Period size: 38 Copynumber: 2.3 Consensus size: 38
25703602 TTTGGGCTTC
25703612 GTGCCTAGCAAGCTTTATGCCGGTGATATTCGAGCTCT
1 GTGCCTAGCAAGCTTTATGCCGGTGATATTCGAGCTCT
* * * *
25703650 GTGCCTAGTAGGCTTTGTGCTGGTGATATTCGAGCTCT
1 GTGCCTAGCAAGCTTTATGCCGGTGATATTCGAGCTCT
* *
25703688 ATGGCTAGCAA
1 GTGCCTAGCAA
25703699 CCTTCGTGCA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (38 bp):
GTGCCTAGCAAGCTTTATGCCGGTGATATTCGAGCTCT
Found at i:25703790 original size:41 final size:41
Alignment explanation
Indices: 25703700--25703806 Score: 106
Period size: 41 Copynumber: 2.6 Consensus size: 41
25703690 GGCTAGCAAC
* * * * *
25703700 CTTCGTGCAAGTGTATTATATCAGGCTTTGTGCTTAGTTGG
1 CTTCGTGCCAGTGTATTATATCAGGCTTCGAGCCTAGTAGG
* * * * *
25703741 CTTTGTGCCGGTGTGTTATATCAGGCTTCGAGCCTGGTAGT
1 CTTCGTGCCAGTGTATTATATCAGGCTTCGAGCCTAGTAGG
* *
25703782 CTTCGTGCCAATGTATTGTATCAGG
1 CTTCGTGCCAGTGTATTATATCAGG
25703807 TAAGTTGTAC
Statistics
Matches: 51, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.16, C:0.18, G:0.28, T:0.38
Consensus pattern (41 bp):
CTTCGTGCCAGTGTATTATATCAGGCTTCGAGCCTAGTAGG
Found at i:25710943 original size:41 final size:41
Alignment explanation
Indices: 25710898--25710981 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
25710888 GATATTAAAC
** *
25710898 CAAGCTCTATGCCTAGCAGGCTTTGTGCCTGTGACTTATAT
1 CAAGCTCTATGCCTAGCAGGCTTCATGCCGGTGACTTATAT
* *
25710939 CAAGCTCTGTGCCTAGCAGGCTTCATGCCGGTGATTTATAT
1 CAAGCTCTATGCCTAGCAGGCTTCATGCCGGTGACTTATAT
25710980 CA
1 CA
25710982 GGTTCAGTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (41 bp):
CAAGCTCTATGCCTAGCAGGCTTCATGCCGGTGACTTATAT
Found at i:25711000 original size:41 final size:41
Alignment explanation
Indices: 25710909--25711020 Score: 125
Period size: 41 Copynumber: 2.7 Consensus size: 41
25710899 AAGCTCTATG
* * * * *
25710909 CCTAGCAGGCTTTGTGCCTGTGACTTATATCAAGCTCTGTG
1 CCTAGCAGGCTTCGTGCCAGTGATTTATATCAAGCTCAGTA
* * * *
25710950 CCTAGCAGGCTTCATGCCGGTGATTTATATCAGGTTCAGTA
1 CCTAGCAGGCTTCGTGCCAGTGATTTATATCAAGCTCAGTA
* *
25710991 CCTAACAGGCTTCGTTCCAGTGATTTATAT
1 CCTAGCAGGCTTCGTGCCAGTGATTTATAT
25711021 TAGAATCTGT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (41 bp):
CCTAGCAGGCTTCGTGCCAGTGATTTATATCAAGCTCAGTA
Found at i:25716876 original size:41 final size:41
Alignment explanation
Indices: 25716810--25716904 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 41
25716800 GAGATAATAA
* * * **
25716810 ATCAGGCTCTGTACCTAGTAGGCTTCATGCCGGTGATTTAT
1 ATCAAGCTCTGTACCTAGCAAGCTTCATGCCAATGATTTAT
* *
25716851 ATCAAGCTCTGTGCCTAGCAAGCTTCGTGCCAATGATTTAT
1 ATCAAGCTCTGTACCTAGCAAGCTTCATGCCAATGATTTAT
* *
25716892 ATCAGGCTTTGTA
1 ATCAAGCTCTGTA
25716905 GAAAGCTTGG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (41 bp):
ATCAAGCTCTGTACCTAGCAAGCTTCATGCCAATGATTTAT
Found at i:25716925 original size:37 final size:40
Alignment explanation
Indices: 25716831--25716930 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 40
25716821 TACCTAGTAG
* * *
25716831 GCTTCATGCCGGTGATTTATATCAAGCTCTGTGCCTAGCAA
1 GCTTCGTGCCAGTGATTTATATCAAGCTCTGTG-CTAGAAA
* *
25716872 GCTTCGTGCCAATGATTTATATCAGGCT-T-TG-TAGAAA
1 GCTTCGTGCCAGTGATTTATATCAAGCTCTGTGCTAGAAA
* *
25716909 GCTTGGTGTCAGTGATTTATAT
1 GCTTCGTGCCAGTGATTTATAT
25716931 TAGCAAGCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
37 24 0.47
39 2 0.04
40 1 0.02
41 24 0.47
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (40 bp):
GCTTCGTGCCAGTGATTTATATCAAGCTCTGTGCTAGAAA
Found at i:25721785 original size:21 final size:21
Alignment explanation
Indices: 25721729--25721785 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
25721719 TGTGGGGGTA
* *
25721729 CACACGCCCATGTGAAGGAGG
1 CACATGCCCGTGTGAAGGAGG
*
25721750 CACATGCCCGGGTGAAGGGAGG
1 CACATGCCCGTGTGAA-GGAGG
*
25721772 CA-ATGGCCGTGTGA
1 CACATGCCCGTGTGA
25721786 CTATGACACA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.25, C:0.25, G:0.39, T:0.12
Consensus pattern (21 bp):
CACATGCCCGTGTGAAGGAGG
Found at i:25725636 original size:24 final size:24
Alignment explanation
Indices: 25725583--25725636 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
25725573 ATAATTCTTT
25725583 TTTTTCTTTTACATTATTTCTCTA
1 TTTTTCTTTTACATTATTTCTCTA
* * *
25725607 TCTTTCTTTTA-TTTATTTTTTCTA
1 TTTTTCTTTTACATTA-TTTCTCTA
25725631 TTTTTC
1 TTTTTC
25725637 CCTTTCTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTTCTTTTACATTATTTCTCTA
Found at i:25725946 original size:20 final size:21
Alignment explanation
Indices: 25725921--25725966 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
25725911 ATTGAATTTA
25725921 TTTTATCTTTT-TTTATAT-AT
1 TTTTAT-TTTTATTTATATGAT
*
25725941 TTTTATTTTTATTTGTATGAT
1 TTTTATTTTTATTTATATGAT
25725962 TTTTA
1 TTTTA
25725967 ATAAATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 12 0.52
21 7 0.30
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (21 bp):
TTTTATTTTTATTTATATGAT
Found at i:25726284 original size:29 final size:29
Alignment explanation
Indices: 25726251--25726341 Score: 77
Period size: 29 Copynumber: 3.3 Consensus size: 29
25726241 GAAACTATTG
*
25726251 AATTATCTTTTCTTTATCAATGTTGTTAA
1 AATTATCTTCTCTTTATCAATGTTGTTAA
* * * *
25726280 AATTATCATGTGTTTGA--AACTATTG----
1 AATTATCTTCTCTTT-ATCAA-TGTTGTTAA
25726305 AATTATCTTCTCTTTATCAATGTTGTTAA
1 AATTATCTTCTCTTTATCAATGTTGTTAA
25726334 AATTATCT
1 AATTATCT
25726342 CTTTATGTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
24 1 0.02
25 16 0.35
26 2 0.04
28 2 0.04
29 24 0.52
30 1 0.02
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.51
Consensus pattern (29 bp):
AATTATCTTCTCTTTATCAATGTTGTTAA
Found at i:25726295 original size:54 final size:54
Alignment explanation
Indices: 25726231--25726340 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
25726221 CAACACTTTC
*
25726231 TCATGTGTTTGAAACTATTGAATTATCTTTTCTTTATCAATGTTGTTAAAATTA
1 TCATGTGTTTGAAACTATTGAATTATCTTCTCTTTATCAATGTTGTTAAAATTA
25726285 TCATGTGTTTGAAACTATTGAATTATCTTCTCTTTATCAATGTTGTTAAAATTA
1 TCATGTGTTTGAAACTATTGAATTATCTTCTCTTTATCAATGTTGTTAAAATTA
25726339 TC
1 TC
25726341 TCTTTATGTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (54 bp):
TCATGTGTTTGAAACTATTGAATTATCTTCTCTTTATCAATGTTGTTAAAATTA
Found at i:25740697 original size:43 final size:42
Alignment explanation
Indices: 25740617--25740742 Score: 110
Period size: 43 Copynumber: 3.0 Consensus size: 42
25740607 AAAACACATA
* * * * *
25740617 TATCACATA-CAATGCCATATCCTAGATATGGTTTTACAGGT
1 TATCACATATCGATGCCATATCCTAGACAGGGTCTTACACGT
*
25740658 TATCACATATCGATGCCACTATCCTGGACAGGGTCTTACACGT
1 TATCACATATCGATGCCA-TATCCTAGACAGGGTCTTACACGT
* * * * * * *
25740701 AATCTCATATCGGTCCCAATGTCCCAGACATGGTCTTACACG
1 TATCACATATCGATGCC-ATATCCTAGACAGGGTCTTACACG
25740743 AAATCACACC
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
41 9 0.13
42 7 0.10
43 51 0.75
44 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (42 bp):
TATCACATATCGATGCCATATCCTAGACAGGGTCTTACACGT
Found at i:25753766 original size:24 final size:24
Alignment explanation
Indices: 25753722--25753774 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
25753712 TTTTCGATTT
*
25753722 ATTTCAAACTTTCATATATATATC
1 ATTTCAAACTTTCATATATATATA
**
25753746 ATTTCAAACTTATTTTA-ATATATA
1 ATTTCAAACTT-TCATATATATATA
25753770 ATTTC
1 ATTTC
25753775 CCTTCTTCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTCAAACTTTCATATATATATA
Found at i:25758559 original size:40 final size:41
Alignment explanation
Indices: 25758503--25758608 Score: 137
Period size: 40 Copynumber: 2.6 Consensus size: 41
25758493 AGATCCGATC
* * *
25758503 TCAAAA-AAAAAAGAAGAAGAAGCAAAAGCAAAATC-AAGA
1 TCAAAATAAAAAAGAAGAAAAAGAAAAAGCAAAATCAAAAA
*
25758542 TCAAAATAAAAAAGAAGAAAAAGAAAAATCAAAATCAAAAA
1 TCAAAATAAAAAAGAAGAAAAAGAAAAAGCAAAATCAAAAA
*
25758583 TCAAAAT-AAAATGAAAGAAAAAGAAA
1 TCAAAATAAAAAAG-AAGAAAAAGAAA
25758609 GACGAAAAGA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
39 6 0.10
40 31 0.53
41 22 0.37
ACGTcount: A:0.73, C:0.08, G:0.11, T:0.08
Consensus pattern (41 bp):
TCAAAATAAAAAAGAAGAAAAAGAAAAAGCAAAATCAAAAA
Found at i:25758581 original size:13 final size:12
Alignment explanation
Indices: 25758560--25758593 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
25758550 AAAAAGAAGA
*
25758560 AAAAGAAAAATC
1 AAAATAAAAATC
25758572 AAAATCAAAAATC
1 AAAAT-AAAAATC
25758585 AAAATAAAA
1 AAAATAAAA
25758594 TGAAAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (12 bp):
AAAATAAAAATC
Found at i:25760886 original size:44 final size:44
Alignment explanation
Indices: 25760809--25761091 Score: 205
Period size: 44 Copynumber: 6.2 Consensus size: 44
25760799 TCTCTAAGCA
* * *
25760809 ACAGTGGAGCAGATCGAAGCCAG-AATTCTTATCTCCTTGAGATT
1 ACAGCGGAGCAGATTGAAGCTAGTAA-TCTTATCTCCTTGAGATT
* * * *
25760853 ACAGCGGAGCAAATTGAAGCTAGTAATCCTATCTCCCTAAGATT
1 ACAGCGGAGCAGATTGAAGCTAGTAATCTTATCTCCTTGAGATT
* * ** * **
25760897 ACAGTGGAGCGGATT-AAAATAAATGAA-CTTATCTCTCTAAAG-TT
1 ACAGCGGAGCAGATTGAAGCT-AGT-AATCTTATCTC-CTTGAGATT
* * *
25760941 ACAGTAGAGTAGATTGCATCAGATTGAAACTAGAAATCTTATCTCCTTGAGATT
1 AC---AGCG--GA--G---CAGATTGAAGCTAGTAATCTTATCTCCTTGAGATT
* *
25760995 ACAGCGAAGCAGATTGAAGCTAGAAATCTTATCTCCTTGAGATT
1 ACAGCGGAGCAGATTGAAGCTAGTAATCTTATCTCCTTGAGATT
* * *
25761039 ATAGCGGAGCAGATTGAAGCTAGTAATCATATCTCCCTGAGATT
1 ACAGCGGAGCAGATTGAAGCTAGTAATCTTATCTCCTTGAGATT
*
25761083 ACAGTGGAG
1 ACAGCGGAG
25761092 TGGATTAAAA
Statistics
Matches: 189, Mismatches: 33, Indels: 34
0.74 0.13 0.13
Matches are distributed among these distances:
43 3 0.02
44 139 0.74
45 8 0.04
47 4 0.02
49 3 0.02
51 4 0.02
53 6 0.03
54 18 0.10
55 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
ACAGCGGAGCAGATTGAAGCTAGTAATCTTATCTCCTTGAGATT
Found at i:25761371 original size:100 final size:100
Alignment explanation
Indices: 25761216--25761941 Score: 766
Period size: 100 Copynumber: 7.2 Consensus size: 100
25761206 CAAACGATGT
* * * * * *
25761216 AGTGGAACAGATTAAATCCACATCGGTGAATCTTGCTTCCCCAACATTGCGGTTAAAAAGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAA
* * *
25761281 AGCTACAACAACGAATCTTACCTCTCAAGCAGTGC
66 AGCTACAACAGCGAATCTTACCTCCCAGGCAGTGC
* * *
25761316 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTAC-CTCCCTGACATTGCAGTTAAAAAGATTA
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTTAAAAGGATTA
*
25761380 AAGCTACAACAGCGAATCTTACCTCCCAGGCGGTGC
65 AAGCTACAACAGCGAATCTTACCTCCCAGGCAGTGC
* * * * * *
25761416 TGTGGAACAAATTAAACCCATAACGGTGAATCTTG-TCTCCCTGACATTGCAGTTGAAAA-GACT
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTT-AAAAGGATT
* * * * * * * *
25761479 AAAGCCACACCGGCGAGTGTTACTTCCCTGGCAATGC
64 AAAGCTACAACAGCGAATCTTACCTCCCAGGCAGTGC
* * *
25761516 AGT-GAAGCAGATTAAAGCCATAACGGTAAATCTTGCTTTCCCAACATTGCAGTTAAAAGGATTA
1 AGTGGAA-CAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTA
* * * ** * *
25761580 AAG-TCATAAC-GACGAAACTCACTCTCTTAGCCAGTGT
65 AAGCT-ACAACAG-CGAATCTTAC-CTCCCAGGCAGTGC
* * * * *
25761617 AGTAGAGCAGATTAAAGCCACATCGGTGAATCTTACTTTCCCGACATTGCAGCTAAAAGGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAA
*
25761682 AGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
66 AGCTACAACAGCGAATCTTACCTCCCAGGCAGTGC
* * *
25761717 AGTGGAAAAGATTAAAGCCACAACAGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAA
* * * *
25761782 AG-TCACAAC-GATGAATCTCACTCTCTCAGCCAGTGC
66 AGCT-ACAACAG-CGAATCTTAC-CTCCCAGGCAGTGC
* * * * *
25761818 AGTAGAGCAGATTAAAGCCACATCAGTGAATCTTGCTTTCCCGACATTGCAGCTAAAAGGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAA
* * *
25761883 AGCTACAACAGTGAATCTTACTTCCTAGGCAGTGC
66 AGCTACAACAGCGAATCTTACCTCCCAGGCAGTGC
* *
25761918 AGTGGAACAGATTGAAGCTACAAC
1 AGTGGAACAGATTAAAGCCACAAC
25761942 AGCAAATCTC
Statistics
Matches: 518, Mismatches: 91, Indels: 34
0.81 0.14 0.05
Matches are distributed among these distances:
99 13 0.03
100 328 0.63
101 171 0.33
102 6 0.01
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (100 bp):
AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAA
AGCTACAACAGCGAATCTTACCTCCCAGGCAGTGC
Found at i:25761720 original size:201 final size:201
Alignment explanation
Indices: 25761213--25761973 Score: 881
Period size: 201 Copynumber: 3.8 Consensus size: 201
25761203 TGCCAAACGA
* * * * * * *
25761213 TGTAGTGGAACAGATTAAATCCACATCGGTGAATCTTGCTTCCCCAACATTGCGGTTAAAAAGAT
1 TGTAGTAGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACATTGCAGCTAAAAGGAT
* * * *
25761278 TAAAGCTACAACAACGAATCTTACCTCTCAAGCAGTGCAGTGGAACAGATTAAAGCCACAACGGT
66 TAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGT
* * * * *
25761343 GAATCTTAC-CTCCCTGACATTGCAGTTAAAAAGATTAAAG-CTACAAC-AGCGAATCTTAC-CT
131 AAATCTTGCTTTCCC-GACATTGCAGTTAAAAGGATTAAAGTC-ACAACGA-CGAATCTCACTCT
* * *
25761404 CCCAGGCGG
193 CTCAGCCAG
* * * * * * *
25761413 TGCT-GTGGAACAAATTAAACCCATAACGGTGAATCTTG-TCTCCCTGACATTGCAGTTGAAAA-
1 TG-TAGTAGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCC-GACATTGCAGCT-AAAAG
* * * * * * * * *
25761475 GACTAAAGCCACACCGGCGAGTGTTACTTCCCTGGCAATGCAGT-GAAGCAGATTAAAGCCATAA
63 GATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCAGTGGAA-CAGATTAAAGCCACAA
* * *
25761539 CGGTAAATCTTGCTTTCCCAACATTGCAGTTAAAAGGATTAAAGTCATAACGACGAAACTCACTC
127 CGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACAACGACGAATCTCACTC
*
25761604 TCTTAGCCAG
192 TCTCAGCCAG
* *
25761614 TGTAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTACTTTCCCGACATTGCAGCTAAAAGGAT
1 TGTAGTAGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACATTGCAGCTAAAAGGAT
* *
25761679 TAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCAGTGGAAAAGATTAAAGCCACAACAGT
66 TAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGT
*
25761744 AAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACAACGATGAATCTCACTCTCTC
131 AAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACAACGACGAATCTCACTCTCTC
25761809 AGCCAG
196 AGCCAG
* * *
25761815 TGCAGTAGAGCAGATTAAAGCCACATCAGTGAATCTTGCTTTCCCGACATTGCAGCTAAAAGGAT
1 TGTAGTAGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACATTGCAGCTAAAAGGAT
* * * * * *
25761880 TAAAGCTACAACAGTGAATCTTACTTCCTAGGCAGTGCAGTGGAACAGATTGAAGCTACAACAGC
66 TAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGT
** * **
25761945 AAATCTCACTTCCCCGACATCACAGTTAA
131 AAATCTTGCTTTCCCGACATTGCAGTTAA
25761974 GCAGATTAAG
Statistics
Matches: 477, Mismatches: 72, Indels: 23
0.83 0.13 0.04
Matches are distributed among these distances:
199 7 0.01
200 140 0.29
201 322 0.68
202 8 0.02
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (201 bp):
TGTAGTAGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACATTGCAGCTAAAAGGAT
TAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGT
AAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACAACGACGAATCTCACTCTCTC
AGCCAG
Found at i:25761936 original size:50 final size:48
Alignment explanation
Indices: 25761271--25761957 Score: 276
Period size: 50 Copynumber: 13.7 Consensus size: 48
25761261 ATTGCGGTTA
** *
25761271 AAAAGATTAAAGCTACAACAACGAATCTTACCTCTCA-AGCAGTGCAGTGG
1 AAAAGATTAAAGCTACAACAGTGAATCTTACTTC-CAGA-CAGTGCAGT-G
* * * * * * *
25761321 AACAGATTAAAGCCACAACGGTGAATCTTACCTCCCTGACATTGCAGTTA
1 AAAAGATTAAAGCTACAACAGTGAATCTTA-CTTCCAGACAGTGCAG-TG
* * * * *
25761371 AAAAGATTAAAGCTACAACAGCGAATCTTACCTCCCAGGCGGTGCTGTGG
1 AAAAGATTAAAGCTACAACAGTGAATCTTA-CTTCCAGACAGTGCAGT-G
* * * * * * * *
25761421 AACAA-ATTAAACCCATAACGGTGAATCTTGTCTCCCTGACATTGCAGTTG
1 AA-AAGATTAAAGCTACAACAGTGAATCTT-ACTTCCAGACAGTGCAG-TG
* * * * * * * * * *
25761471 AAAAGACTAAAGCCACACCGGCGAGTGTTACTTCCCTGGCAATGCAGTG
1 AAAAGATTAAAGCTACAACAGTGAATCTTACTT-CCAGACAGTGCAGTG
* * * * * * * *
25761520 AAGCAGATTAAAGCCATAACGGTAAATCTTGCTTTCCCA-ACATTGCAGTT
1 AA-AAGATTAAAGCTACAACAGTGAATCTTAC-TT-CCAGACAGTGCAGTG
* * * * * * *
25761570 AAAAGGATTAAAG-TCATAAC-GACGAAACTCACTCTCTTAGCCAGTGTAGTAG
1 AAAA-GATTAAAGCT-ACAACAG-TGAATCTTACT-TC-CAGACAGTGCAGT-G
** * * * * *
25761622 AGCAGATTAAAGCCACATCGGTGAATCTTACTTTCCCGACATTGCAGCT-
1 AAAAGATTAAAGCTACAACAGTGAATCTTAC-TTCCAGACAGTGCAG-TG
* *
25761671 AAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCAGTGG
1 AAAA-GATTAAAGCTACAACAGTGAATCTTACTT-CCAGACAGTGCAGT-G
* * * * * *
25761722 AAAAGATTAAAGCCACAACAGTAAATCTTGCTTTCCCGACATTGCAGTT
1 AAAAGATTAAAGCTACAACAGTGAATCTTAC-TTCCAGACAGTGCAGTG
* *
25761771 AAAAGGATTAAAG-TCACAAC-GATGAATCTCACTCTCTCAGCCAGTGCAGTAG
1 AAAA-GATTAAAGCT-ACAACAG-TGAATCTTACT-TC-CAGACAGTGCAGT-G
** * * * * *
25761823 AGCAGATTAAAGCCACATCAGTGAATCTTGCTTTCCCGACATTGCAGCT-
1 AAAAGATTAAAGCTACAACAGTGAATCTTAC-TTCCAGACAGTGCAG-TG
*
25761872 AAAAGGATTAAAGCTACAACAGTGAATCTTACTTCCTAGGCAGTGCAGTGG
1 AAAA-GATTAAAGCTACAACAGTGAATCTTACTTCC-AGACAGTGCAGT-G
* * ** *
25761923 AACAGATTGAAGCTACAACAGCAAATCTCACTTCC
1 AAAAGATTAAAGCTACAACAGTGAATCTTACTTCC
25761958 CCGACATCAC
Statistics
Matches: 469, Mismatches: 127, Indels: 82
0.69 0.19 0.12
Matches are distributed among these distances:
49 31 0.07
50 348 0.74
51 82 0.17
52 8 0.02
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (48 bp):
AAAAGATTAAAGCTACAACAGTGAATCTTACTTCCAGACAGTGCAGTG
Found at i:25765852 original size:43 final size:43
Alignment explanation
Indices: 25765762--25765880 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 43
25765752 CTTACAGAAA
** ** *** *
25765762 AAAACGCCGCTAAAGATCATGTTCTTTTCCGGTGCTTTTTCAT
1 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTTGGAAG
25765805 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTTGGAAG
1 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTTGGAAG
*
25765848 AAAACGCCTCTAAA-AGT-AGTGTTCTTTAGCGGC
1 AAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGC
25765881 GCTTGTTTCA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 2 0.03
43 63 0.97
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (43 bp):
AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTTGGAAG
Found at i:25766343 original size:21 final size:21
Alignment explanation
Indices: 25766319--25766387 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
25766309 GCTTCTATCG
*
25766319 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
25766340 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
25766361 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
25766382 GTGCTT
1 CTGCTT
25766388 TAAGTTGTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.01, C:0.42, G:0.22, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:25768753 original size:9 final size:9
Alignment explanation
Indices: 25768739--25768989 Score: 158
Period size: 9 Copynumber: 29.8 Consensus size: 9
25768729 AAGTTATTTA
25768739 TTATGTAAG
1 TTATGTAAG
25768748 TTATGTAAG
1 TTATGTAAG
*
25768757 TTGTGTAAG
1 TTATGTAAG
25768766 TTATGTAAG
1 TTATGTAAG
* *
25768775 CTGTGTAAG
1 TTATGTAAG
**
25768784 TTGCGT-A-
1 TTATGTAAG
* *
25768791 TTATGAAAC
1 TTATGTAAG
25768800 TTATGTAAG
1 TTATGTAAG
*
25768809 TTGTGT-A-
1 TTATGTAAG
**
25768816 TTAAATAAG
1 TTATGTAAG
*
25768825 TTATGTCAG
1 TTATGTAAG
*
25768834 TTCTGT-A-
1 TTATGTAAG
* *
25768841 TTATGAAAC
1 TTATGTAAG
25768850 TTATGTAAG
1 TTATGTAAG
*
25768859 TTATGT--C
1 TTATGTAAG
25768866 TTATGTAAG
1 TTATGTAAG
*
25768875 TTATGTAAA
1 TTATGTAAG
*
25768884 ATATGT-A-
1 TTATGTAAG
25768891 TTATGTAAG
1 TTATGTAAG
*
25768900 TTATGTCAG
1 TTATGTAAG
*
25768909 TTGTGT-A-
1 TTATGTAAG
*
25768916 TTATGTAAA
1 TTATGTAAG
25768925 TTATGT-A-
1 TTATGTAAG
25768932 TTATGTAAG
1 TTATGTAAG
*
25768941 TTATGTAAT
1 TTATGTAAG
*
25768950 TTGTGT-A-
1 TTATGTAAG
*
25768957 TTATGTAAC
1 TTATGTAAG
* *
25768966 TTATTTAAT
1 TTATGTAAG
25768975 TTATGTAAG
1 TTATGTAAG
25768984 -TATGTA
1 TTATGTA
25768990 TTATTATGTA
Statistics
Matches: 188, Mismatches: 38, Indels: 33
0.73 0.15 0.13
Matches are distributed among these distances:
7 37 0.20
8 20 0.11
9 131 0.70
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:25768757 original size:25 final size:25
Alignment explanation
Indices: 25768728--25769036 Score: 216
Period size: 25 Copynumber: 12.2 Consensus size: 25
25768718 GATTTAGGAA
* *
25768728 TAAGTTATTTATTATGTAAGTTATG
1 TAAGTTGTGTATTATGTAAGTTATG
* *
25768753 TAAGTTGTGTAAGTTATGTAAGCTGTG
1 TAAGTTGTGT-A-TTATGTAAGTTATG
* * *
25768780 TAAGTTGCGTATTATGAAACTTATG
1 TAAGTTGTGTATTATGTAAGTTATG
**
25768805 TAAGTTGTGTATTAAATAAGTTATG
1 TAAGTTGTGTATTATGTAAGTTATG
* * * *
25768830 TCAGTTCTGTATTATGAAACTTATG
1 TAAGTTGTGTATTATGTAAGTTATG
* *
25768855 TAAGTTATGTCTTATGTAAGTTATG
1 TAAGTTGTGTATTATGTAAGTTATG
** *
25768880 TAAAATATGTATTATGTAAGTTATG
1 TAAGTTGTGTATTATGTAAGTTATG
* *
25768905 TCAGTTGTGTATTATGTAAATTATG
1 TAAGTTGTGTATTATGTAAGTTATG
* * *
25768930 T-A-TTATGTAAGTTATGTAATTTGTG
1 TAAGTTGTGT-A-TTATGTAAGTTATG
* * *
25768955 T-A-TTATGTAACTTATTTAATTTATG
1 TAAGTTGTGT-A-TTATGTAAGTTATG
* *
25768980 TAAGTATGTATTATTATGTAATTTAT-
1 TAAGT-TGT-GTATTATGTAAGTTATG
* * *
25769006 TATGTAG-GATATTATCTAAGTTATG
1 TAAGTTGTG-TATTATGTAAGTTATG
25769031 TAAGTT
1 TAAGTT
25769037 TTTTTTTGGT
Statistics
Matches: 225, Mismatches: 49, Indels: 20
0.77 0.17 0.07
Matches are distributed among these distances:
23 5 0.02
24 15 0.07
25 160 0.71
26 7 0.03
27 34 0.15
28 3 0.01
29 1 0.00
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.47
Consensus pattern (25 bp):
TAAGTTGTGTATTATGTAAGTTATG
Found at i:25768868 original size:16 final size:16
Alignment explanation
Indices: 25768850--25768947 Score: 101
Period size: 16 Copynumber: 6.0 Consensus size: 16
25768840 ATTATGAAAC
*
25768850 TTATGTAAGTTATGTC
1 TTATGTAAGTTATGTA
25768866 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGT--A
*
25768884 ATATGT-A-TTATGTAA
1 TTATGTAAGTTATGT-A
* *
25768899 GTTATGTCAGTTGTGTA
1 -TTATGTAAGTTATGTA
*
25768916 TTATGTAAATTATGTA
1 TTATGTAAGTTATGTA
25768932 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
25768948 ATTTGTGTAT
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
15 2 0.03
16 54 0.78
17 3 0.04
18 10 0.14
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:25768920 original size:41 final size:40
Alignment explanation
Indices: 25768850--25768964 Score: 160
Period size: 41 Copynumber: 2.8 Consensus size: 40
25768840 ATTATGAAAC
*
25768850 TTATGTAAGTTATGTC-TTATGTAAGTTATGTAAAATATGTA
1 TTATGTAAGTTATGTCATTGTGT-A-TTATGTAAAATATGTA
*
25768891 TTATGTAAGTTATGTCAGTTGTGTATTATGTAAATTATGTA
1 TTATGTAAGTTATGTCA-TTGTGTATTATGTAAAATATGTA
*
25768932 TTATGTAAGTTATGTAATTTGTGTATTATGTAA
1 TTATGTAAGTTATGTCA-TTGTGTATTATGTAA
25768965 CTTATTTAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
41 62 0.91
42 1 0.01
43 5 0.07
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.49
Consensus pattern (40 bp):
TTATGTAAGTTATGTCATTGTGTATTATGTAAAATATGTA
Found at i:25769121 original size:24 final size:26
Alignment explanation
Indices: 25769078--25769132 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
25769068 TTATGTTCGG
* *
25769078 TATGTGTTATTATGTAAGTTCTTTAT
1 TATGTGTTATTATGTAAGTTATGTAT
*
25769104 TATGT-TTGTTATGT-AGTTATGTAT
1 TATGTGTTATTATGTAAGTTATGTAT
25769128 TATGT
1 TATGT
25769133 AAGATATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 13 0.50
25 8 0.31
26 5 0.19
ACGTcount: A:0.22, C:0.02, G:0.18, T:0.58
Consensus pattern (26 bp):
TATGTGTTATTATGTAAGTTATGTAT
Found at i:25769126 original size:94 final size:93
Alignment explanation
Indices: 25768924--25769094 Score: 231
Period size: 93 Copynumber: 1.8 Consensus size: 93
25768914 TATTATGTAA
*
25768924 ATTATGTA-TTATGTAAGTTATGTAATTTGTGTATTATGTAACTTATTTAATTTATGTAAGTATG
1 ATTATGTAGTTATGTAAGTTATGTAATTTGTGTATCATGTAACTTATTTAATTTATGTAAGTATG
25768988 TATTATTATGTAATTTATTATGTAGGAT
66 TATTATTATGTAATTTATTATGTAGGAT
* ** **
25769016 ATTATCTAAGTTATGTAAGTT-T-TTTTTTGGTGTATCATGTAACTTATTTAATTTATGTTCGGT
1 ATTATGT-AGTTATGTAAGTTATGTAATTT-GTGTATCATGTAACTTATTTAATTTATG-TAAGT
*
25769079 ATGTGTTATTATGTAA
63 ATGTATTATTATGTAA
25769095 GTTCTTTATT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 10 0.15
93 29 0.43
94 29 0.43
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.53
Consensus pattern (93 bp):
ATTATGTAGTTATGTAAGTTATGTAATTTGTGTATCATGTAACTTATTTAATTTATGTAAGTATG
TATTATTATGTAATTTATTATGTAGGAT
Found at i:25769326 original size:15 final size:15
Alignment explanation
Indices: 25769306--25769338 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
25769296 ATAATTATTT
*
25769306 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
25769321 ATAAATTTAATACTA
1 ATAAATTTAATACTA
25769336 ATA
1 ATA
25769339 TAGAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:25770581 original size:40 final size:40
Alignment explanation
Indices: 25770515--25770594 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
25770505 TGGGGATTTA
* * *
25770515 GGGAAATTAAATCGGGGAAACTGGGGGAATAGGAATTGGG
1 GGGAAATGAAATCGGGGAAACTGGGGGAATACGAAATGGG
*
25770555 GGGAAATGAAATCGGGG-AATTGGGGGGAATACGAAATGGG
1 GGGAAATGAAATCGGGGAAACT-GGGGGAATACGAAATGGG
25770595 AAATTAGGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.09
40 32 0.91
ACGTcount: A:0.35, C:0.05, G:0.44, T:0.16
Consensus pattern (40 bp):
GGGAAATGAAATCGGGGAAACTGGGGGAATACGAAATGGG
Found at i:25770599 original size:24 final size:24
Alignment explanation
Indices: 25770548--25770599 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
25770538 GGGGAATAGG
* *
25770548 AATTGGGGGGAAATGAAATCGGGG
1 AATTGGGGGGAAACGAAATCGGGA
25770572 AATTGGGGGGAATACGAAAT-GGGA
1 AATTGGGGGGAA-ACGAAATCGGGA
25770596 AATT
1 AATT
25770600 AGGGAATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.37, C:0.04, G:0.40, T:0.19
Consensus pattern (24 bp):
AATTGGGGGGAAACGAAATCGGGA
Found at i:25772244 original size:266 final size:266
Alignment explanation
Indices: 25771758--25772558 Score: 1339
Period size: 259 Copynumber: 3.0 Consensus size: 266
25771748 GTATTTTGCT
*
25771758 TTTTTGTGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
1 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
*
25771823 TTGGGTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
66 TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
* * *
25771888 ACACTGCGTTTTGTTAAGATACGTTGCGACGCTTTGGATCAAGCGCCGCTAAAGCTATTCTGTAA
131 ACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTTGGCTCAAGCGCCGCTAAAGCTATTCTTTAA
*
25771953 CGGCGTTTTCTAGTAAGCTCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
196 CGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
25772018 AAGATA
261 AAGATA
* *
25772024 TTTTTGCGGTGTTTTAACGTCAGCGTCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
1 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
* * * * *
25772089 TTGGTTTAGATATTTTGCAGCGTTTTCCTATAGGCGCCACTGAATGTAACATAGCTTAAGACCAA
66 TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
* *
25772154 ACACTGAGTTTTGTTAAGATACGTTGCGGCACTTTGGCTCAAGCGCCGCTAAAGCTATTCTTTAA
131 ACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTTGGCTCAAGCGCCGCTAAAGCTATTCTTTAA
*
25772219 CGGCGTTTTCTAGTAAGCGCCAC-----TAA-TATA-ATCAAAATTAAAACTATGCGTTTTAGTT
196 CGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
25772277 AAGATA
261 AAGATA
*
25772283 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGATGCGTT
1 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
* *
25772348 TTGGTTCAGATTTTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACTAA
66 TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
*
25772413 ACACTGCGTTTTGTTAAGATACGTTGCAGCGCTTTGGCTCAAGCGCCGCTAAAGCTATTCTTTAA
131 ACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTTGGCTCAAGCGCCGCTAAAGCTATTCTTTAA
* * *
25772478 TGGTGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTA
196 CGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
25772543 AAGATA
261 AAGATA
25772549 -TTTTGCGGCG
1 TTTTTGCGGCG
25772559 CTTTCTACGA
Statistics
Matches: 496, Mismatches: 32, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
259 237 0.48
260 4 0.01
261 3 0.01
264 3 0.01
265 14 0.03
266 235 0.47
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (266 bp):
TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
ACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTTGGCTCAAGCGCCGCTAAAGCTATTCTTTAA
CGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
AAGATA
Found at i:25772688 original size:116 final size:113
Alignment explanation
Indices: 25772532--25772772 Score: 270
Period size: 113 Copynumber: 2.1 Consensus size: 113
25772522 TTAAAACTAC
* * * * *
25772532 GCGTTTTAGTAAAGATATTTTGCGGCGCTTTCTACGAAACGCCGCTAATACGGTGCTTTAGCGGC
1 GCGTTTTGGTTAAGATATTTTGCGGCGCTATCTACAAAACGCCGCT-A-A-GATGCTTTAGCGGC
*
25772597 G-CATATCACAAAGCGCCACTAAATCTAGGATACAACAACACCAAAAACGAT
63 GTCATATCA-AAAGCGCCACTAAATCTAGGATACAACAAAACCAAAAACGAT
* *
25772648 GCGTTTTGGTTAAGATATTTTGCGGCGCATATC-GCAAAACGCCGCTAAGATGCTTTCGCGGCGT
1 GCGTTTTGGTTAAGATATTTTGCGGCGC-TATCTACAAAACGCCGCTAAGATGCTTTAGCGGCGT
** * * * * * *
25772712 TTTTTTAGAAGCGCCACTAATTCTAGGATACATCAAAACTAAAAACGAT
65 CATATCAAAAGCGCCACTAAATCTAGGATACAACAAAACCAAAAACGAT
*
25772761 GTGTTTTGGTTA
1 GCGTTTTGGTTA
25772773 GGAGAAATTA
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
113 61 0.58
114 4 0.04
115 1 0.01
116 37 0.35
117 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (113 bp):
GCGTTTTGGTTAAGATATTTTGCGGCGCTATCTACAAAACGCCGCTAAGATGCTTTAGCGGCGTC
ATATCAAAAGCGCCACTAAATCTAGGATACAACAAAACCAAAAACGAT
Found at i:25772757 original size:113 final size:113
Alignment explanation
Indices: 25772607--25772902 Score: 319
Period size: 113 Copynumber: 2.6 Consensus size: 113
25772597 GCATATCACA
* * * * *
25772607 AAGCGCCACTAAATCTAGGATACAACAACACCAAAAACGATGCGTTTTGGTTAAGATATTTTGCG
1 AAGCGCCACTAATTCTAGGATACATCAA-AACAAAAACGATGTGTTTTGGTTAAGAGATTTTGCG
** * *
25772672 GCGC-ATATCGCAAAACGCCGCTAAGATGCTTTCGCGGCGT-TTTTTTAG
65 GCGCGATATCGCAAAACGCCGCTAAGACACTTTAGCGGCATGTTTTTT-G
* ** *
25772720 AAGCGCCACTAATTCTAGGATACATCAAAACTAAAAACGATGTGTTTTGGTTAGGAGAAATTACG
1 AAGCGCCACTAATTCTAGGATACATCAAAAC-AAAAACGATGTGTTTTGGTTAAGAGATTTTGCG
* * * * * *
25772785 GAGCGTTGTTGTAAAATGCCGCTAAGACACTTTAGCGGCATGTTTTTTG
65 GCGCGATATCGCAAAACGCCGCTAAGACACTTTAGCGGCATGTTTTTTG
* * * * *
25772834 AAGCGCCACTAATTCTTGCATACAT-AAAGACGAAAACGTTGTGTTTTGGATAAGAGATTTTGCG
1 AAGCGCCACTAATTCTAGGATACATCAAA-ACAAAAACGATGTGTTTTGGTTAAGAGATTTTGCG
25772898 GCGCG
65 GCGCG
25772903 GTTGTAAACG
Statistics
Matches: 150, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
112 2 0.01
113 89 0.59
114 53 0.35
115 6 0.04
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (113 bp):
AAGCGCCACTAATTCTAGGATACATCAAAACAAAAACGATGTGTTTTGGTTAAGAGATTTTGCGG
CGCGATATCGCAAAACGCCGCTAAGACACTTTAGCGGCATGTTTTTTG
Found at i:25779736 original size:38 final size:38
Alignment explanation
Indices: 25779671--25779750 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
25779661 TCAAGGCGGT
25779671 GACAATTCTAGACTCAATATGGAATTAACTCATGCAAC
1 GACAATTCTAGACTCAATATGGAATTAACTCATGCAAC
* * * *
25779709 GACAATTCTGGA-TGCAATCTGGGATTAACTCATGTAAC
1 GACAATTCTAGACT-CAATATGGAATTAACTCATGCAAC
25779747 GACA
1 GACA
25779751 TTAATGTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 1 0.03
38 36 0.97
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.26
Consensus pattern (38 bp):
GACAATTCTAGACTCAATATGGAATTAACTCATGCAAC
Found at i:25785419 original size:27 final size:27
Alignment explanation
Indices: 25785389--25785566 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
25785379 ATATTGAGTC
* *
25785389 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
25785416 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
25785443 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
25785471 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
25785498 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
25785525 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
25785552 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
25785567 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:25786063 original size:12 final size:12
Alignment explanation
Indices: 25786046--25786071 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25786036 ATGGCATACT
25786046 TATGTATATATA
1 TATGTATATATA
25786058 TATGTATATATA
1 TATGTATATATA
25786070 TA
1 TA
25786072 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:25793028 original size:66 final size:66
Alignment explanation
Indices: 25792920--25793043 Score: 187
Period size: 66 Copynumber: 1.9 Consensus size: 66
25792910 ATCTGGATAG
* * *
25792920 CTGTCAAGTGCGGTGAAAATTCTAGATGGAATCTGGAGTTAACTCATGCTGCGACATTGCAGGCA
1 CTGTCAAGTGCGGTGAAAATTCTAGACGCAATCTGGAGTTAACTCATGCAGCGACATTGCAGGCA
25792985 A
66 A
* *
25792986 CTGTCAAGTGCGGTGACAATTCTGGACGCAATCTAGGA-TTAACTCATGCAGCGACATT
1 CTGTCAAGTGCGGTGAAAATTCTAGACGCAATCT-GGAGTTAACTCATGCAGCGACATT
25793044 AATGCAATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
66 49 0.94
67 3 0.06
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (66 bp):
CTGTCAAGTGCGGTGAAAATTCTAGACGCAATCTGGAGTTAACTCATGCAGCGACATTGCAGGCA
A
Found at i:25793227 original size:36 final size:36
Alignment explanation
Indices: 25793180--25793251 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
25793170 ATAAGTAAGG
25793180 GGGAAAGCCTATATTCTTTTTAGTGCTATCAACGAC
1 GGGAAAGCCTATATTCTTTTTAGTGCTATCAACGAC
*
25793216 GGGAAAGCCTATATTCTTTTTAGTGCTATCAGCGAC
1 GGGAAAGCCTATATTCTTTTTAGTGCTATCAACGAC
25793252 AATAAAGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (36 bp):
GGGAAAGCCTATATTCTTTTTAGTGCTATCAACGAC
Found at i:25795891 original size:16 final size:15
Alignment explanation
Indices: 25795858--25795895 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
25795848 GGATTTTAAA
25795858 TTTTTAAAAATAGTT
1 TTTTTAAAAATAGTT
25795873 TTTTTAAAATATA-TAT
1 TTTTTAAAA-ATAGT-T
25795889 TTTTTAA
1 TTTTTAA
25795896 TTTTTAGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
TTTTTAAAAATAGTT
Found at i:25796009 original size:60 final size:61
Alignment explanation
Indices: 25795906--25796022 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 61
25795896 TTTTTAGTGA
* * ** *
25795906 TAGAACTAAATTGATAAATTTTGTAAATGTTGAGGGCCAAATTTATTAATTTTTTTATAAT
1 TAGAAATAAAGTGATAAATTTTGTAAACATTGAGGGCCAAATTTATTAAATTTTTTATAAT
* *
25795967 TAGAAATAAAGTGATAAATTTT-TAAACATTGAGGGCGAAATTTGTTAAATTTTTTA
1 TAGAAATAAAGTGATAAATTTTGTAAACATTGAGGGCCAAATTTATTAAATTTTTTA
25796023 GATTTAGGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
60 29 0.59
61 20 0.41
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.42
Consensus pattern (61 bp):
TAGAAATAAAGTGATAAATTTTGTAAACATTGAGGGCCAAATTTATTAAATTTTTTATAAT
Found at i:25797271 original size:17 final size:18
Alignment explanation
Indices: 25797251--25797289 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
25797241 TATATTACTA
25797251 ATTTTT-TTATTT-TATAT
1 ATTTTTATTATTTATA-AT
25797268 ATTTTTATTATTTATAAT
1 ATTTTTATTATTTATAAT
25797286 ATTT
1 ATTT
25797290 ATCACGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 12 0.60
19 2 0.10
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTTTATTATTTATAAT
Found at i:25797510 original size:21 final size:20
Alignment explanation
Indices: 25797480--25797525 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
25797470 AAGAAAAGGA
25797480 AAATTAATTACATTA-TTTT
1 AAATTAATTACATTAGTTTT
*
25797499 GAAATTATATTACTTTAGTTTT
1 -AAATTA-ATTACATTAGTTTT
25797521 AAATT
1 AAATT
25797526 GGAAAAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (20 bp):
AAATTAATTACATTAGTTTT
Found at i:25797905 original size:6 final size:6
Alignment explanation
Indices: 25797896--25797923 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
25797886 GGAAAAAGAA
25797896 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
25797924 TTGGAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:25820495 original size:21 final size:21
Alignment explanation
Indices: 25820447--25820496 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
25820437 TGTGTTCTAC
*
25820447 CGATAGAAGTCCAGGTTGTAT
1 CGATAGAAGCCCAGGTTGTAT
*
25820468 CGGTAGAA-CCCAGAGTTGTAT
1 CGATAGAAGCCCAG-GTTGTAT
*
25820489 TGATAGAA
1 CGATAGAA
25820497 TTCCCAGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (21 bp):
CGATAGAAGCCCAGGTTGTAT
Found at i:25823717 original size:15 final size:13
Alignment explanation
Indices: 25823686--25823711 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25823676 CTACAGGGGA
25823686 CACATGGCCGTGT
1 CACATGGCCGTGT
25823699 CACATGGCCGTGT
1 CACATGGCCGTGT
25823712 GTCACACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
CACATGGCCGTGT
Found at i:25824588 original size:21 final size:21
Alignment explanation
Indices: 25824525--25824588 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
25824515 CATAAGTGTT
25824525 ATTCAGGGGTACCAAAGTACA
1 ATTCAGGGGTACCAAAGTACA
* * * * *
25824546 AAT-AGGGGCACGTATA-TGCA
1 ATTCAGGGGTAC-CAAAGTACA
25824566 ATTCAGGGGTACCAAAGTACA
1 ATTCAGGGGTACCAAAGTACA
25824587 AT
1 AT
25824589 AGGGGCACGT
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (21 bp):
ATTCAGGGGTACCAAAGTACA
Found at i:25824609 original size:40 final size:40
Alignment explanation
Indices: 25824525--25824682 Score: 244
Period size: 40 Copynumber: 3.9 Consensus size: 40
25824515 CATAAGTGTT
*
25824525 ATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATATGCA
1 ATTCAGGGGTACCAAAGTAC-AATAGGGGCACGTATGTGCA
*
25824566 ATTCAGGGGTACCAAAGTACAATAGGGGCACGTATGTGTA
1 ATTCAGGGGTACCAAAGTACAATAGGGGCACGTATGTGCA
* * *
25824606 ATTCAGGGGTACCGAAGTATAACAGGGGCACGTATGTGCA
1 ATTCAGGGGTACCAAAGTACAATAGGGGCACGTATGTGCA
* *
25824646 ATTCAGGGGTATCGAAGTACAATAGGGGCACGTATGT
1 ATTCAGGGGTACCAAAGTACAATAGGGGCACGTATGT
25824683 ATGTGCAATT
Statistics
Matches: 108, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
40 88 0.81
41 20 0.19
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (40 bp):
ATTCAGGGGTACCAAAGTACAATAGGGGCACGTATGTGCA
Found at i:25824654 original size:21 final size:21
Alignment explanation
Indices: 25824549--25824654 Score: 69
Period size: 21 Copynumber: 5.2 Consensus size: 21
25824539 AAGTACAAAT
*
25824549 AGGGGCACGTATATGCAATTC
1 AGGGGCACGTATGTGCAATTC
* ** * *
25824570 AGGGGTACCAAAGTACAA-T-
1 AGGGGCACGTATGTGCAATTC
*
25824589 AGGGGCACGTATGTGTAATTC
1 AGGGGCACGTATGTGCAATTC
* * **
25824610 AGGGGTACCG-AAGTATAA--C
1 AGGGGCA-CGTATGTGCAATTC
25824629 AGGGGCACGTATGTGCAATTC
1 AGGGGCACGTATGTGCAATTC
25824650 AGGGG
1 AGGGG
25824655 TATCGAAGTA
Statistics
Matches: 60, Mismatches: 19, Indels: 12
0.66 0.21 0.13
Matches are distributed among these distances:
18 2 0.03
19 24 0.40
20 2 0.03
21 30 0.50
22 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.33, T:0.21
Consensus pattern (21 bp):
AGGGGCACGTATGTGCAATTC
Found at i:25824668 original size:21 final size:20
Alignment explanation
Indices: 25824525--25824668 Score: 57
Period size: 21 Copynumber: 7.1 Consensus size: 20
25824515 CATAAGTGTT
*
25824525 ATTCAGGGGTACCAAAGTACA
1 ATTCAGGGGTA-CGAAGTACA
* * *
25824546 AAT-AGGGGCACGTATA-TGCA
1 ATTCAGGGGTACG-A-AGTACA
*
25824566 ATTCAGGGGTACCAAAGTACA
1 ATTCAGGGGTA-CGAAGTACA
* * **
25824587 A-T-AGGGGCACGTATGTGTA
1 ATTCAGGGGTACG-AAGTACA
*
25824606 ATTCAGGGGTACCGAAGTATA
1 ATTCAGGGGTA-CGAAGTACA
* * *
25824627 A--CAGGGGCACGTATGTGCA
1 ATTCAGGGGTACG-AAGTACA
25824646 ATTCAGGGGTATCGAAGTACA
1 ATTCAGGGGTA-CGAAGTACA
25824667 AT
1 AT
25824669 AGGGGCACGT
Statistics
Matches: 87, Mismatches: 23, Indels: 26
0.64 0.17 0.19
Matches are distributed among these distances:
18 3 0.03
19 24 0.28
20 15 0.17
21 40 0.46
22 5 0.06
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (20 bp):
ATTCAGGGGTACGAAGTACA
Found at i:25832987 original size:26 final size:26
Alignment explanation
Indices: 25832951--25833005 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
25832941 GTCCTATATT
*
25832951 TCTTTTGCATTATCACACAAGGAGAC
1 TCTTTTGCATTATCACACAAGGAAAC
25832977 TCTTTTGCATTATCACACAAGGAAAC
1 TCTTTTGCATTATCACACAAGGAAAC
25833003 TCT
1 TCT
25833006 ACTATACTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.33
Consensus pattern (26 bp):
TCTTTTGCATTATCACACAAGGAAAC
Found at i:25837480 original size:22 final size:22
Alignment explanation
Indices: 25837452--25837506 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
25837442 TGTTATCAAA
25837452 ATCGCGATACCAAGTCTTGGAT
1 ATCGCGATACCAAGTCTTGGAT
25837474 ATCGCGATACCAAGTCTTGGAT
1 ATCGCGATACCAAGTCTTGGAT
25837496 ATCGCGATACC
1 ATCGCGATACC
25837507 CACCTGACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (22 bp):
ATCGCGATACCAAGTCTTGGAT
Found at i:25847246 original size:38 final size:38
Alignment explanation
Indices: 25847204--25847340 Score: 123
Period size: 38 Copynumber: 3.6 Consensus size: 38
25847194 ACAATAAGCT
* * *
25847204 TGCTAAGCACTAAGCTTGAATAACACCGACACTAAGAC
1 TGCTAAGCACAAAGCCTAAATAACACCGACACTAAGAC
* * * *
25847242 TGCTAAGCGCAAAGCCTAAATAACACTGGCACTAAGCC
1 TGCTAAGCACAAAGCCTAAATAACACCGACACTAAGAC
* * * ** *
25847280 TACTAGGCACAAAGCCTAGATAACATGGGCACTAAG-C
1 TGCTAAGCACAAAGCCTAAATAACACCGACACTAAGAC
* *
25847317 TTACTAGGCACAAAGCCTAAATAA
1 -TGCTAAGCACAAAGCCTAAATAA
25847341 TGGTATAACT
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
37 1 0.01
38 83 0.99
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.18
Consensus pattern (38 bp):
TGCTAAGCACAAAGCCTAAATAACACCGACACTAAGAC
Found at i:25867408 original size:30 final size:31
Alignment explanation
Indices: 25867372--25867439 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
25867362 TTGCCCAAGA
** * **
25867372 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATACGAAAAATTTGAAGGACCAATAGT
25867402 GTAAATACGAAAAATTTGAAGGACCAATAGT
1 GTAAATACGAAAAATTTGAAGGACCAATAGT
25867433 GTAAATA
1 GTAAATA
25867440 TTTTAAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAAATACGAAAAATTTGAAGGACCAATAGT
Found at i:25869575 original size:13 final size:13
Alignment explanation
Indices: 25869557--25869581 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25869547 GCGATTTAAA
25869557 CTATAAGGATTAC
1 CTATAAGGATTAC
25869570 CTATAAGGATTA
1 CTATAAGGATTA
25869582 AACTATGGGG
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:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
CTATAAGGATTAC
Found at i:25869915 original size:22 final size:22
Alignment explanation
Indices: 25869869--25869915 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
25869859 AGTTGAACTG
* *
25869869 CCAGTAAATTACAAACAAGCTA
1 CCAGTAAATTACAAACAAACCA
*
25869891 CCAGTAAATTGCAAACAAACCA
1 CCAGTAAATTACAAACAAACCA
25869913 CCA
1 CCA
25869916 ATACTCCACG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.28, G:0.09, T:0.15
Consensus pattern (22 bp):
CCAGTAAATTACAAACAAACCA
Found at i:25870124 original size:37 final size:38
Alignment explanation
Indices: 25870083--25870156 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
25870073 GATTTCAATA
*
25870083 TAGTGGCATGCTTA-GCATGCATTAAGT-AAAATAGTAT
1 TAGTGACATG-TTATGCATGCATTAAGTGAAAATAGTAT
* *
25870120 TAGTGACATGTTATGCATGCATTCAGTGAGAATAGTA
1 TAGTGACATGTTATGCATGCATTAAGTGAAAATAGTA
25870157 ACATTTAGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 3 0.09
37 21 0.66
38 8 0.25
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (38 bp):
TAGTGACATGTTATGCATGCATTAAGTGAAAATAGTAT
Found at i:25873097 original size:25 final size:25
Alignment explanation
Indices: 25873069--25873116 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
25873059 TACCAATTCT
*
25873069 CAGCTCAT-ATGAGCTTACTGATTTC
1 CAGCTCATGA-GAGCATACTGATTTC
*
25873094 CAGCTCGTGAGAGCATACTGATT
1 CAGCTCATGAGAGCATACTGATT
25873117 CATAGCTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (25 bp):
CAGCTCATGAGAGCATACTGATTTC
Found at i:25873130 original size:50 final size:49
Alignment explanation
Indices: 25873022--25873131 Score: 132
Period size: 50 Copynumber: 2.2 Consensus size: 49
25873012 ACACACCACT
* * *
25873022 GCTCGTATGAGCTTACCGATTTTAGCTTGTGAGAGCTTACCAATTCTCA
1 GCTCGTATGAGCTTACCGATTTCAGCTCGTGAGAGCATACCAATTCTCA
* * **
25873071 GCTCATATGAGCTTACTGATTTCCAGCTCGTGAGAGCATACTGATTCAT-A
1 GCTCGTATGAGCTTACCGATTT-CAGCTCGTGAGAGCATACCAATTC-TCA
25873121 GCTCGTATGAG
1 GCTCGTATGAG
25873132 TATACATGTA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
49 20 0.39
50 30 0.59
51 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (49 bp):
GCTCGTATGAGCTTACCGATTTCAGCTCGTGAGAGCATACCAATTCTCA
Found at i:25873136 original size:25 final size:25
Alignment explanation
Indices: 25873069--25873136 Score: 61
Period size: 25 Copynumber: 2.7 Consensus size: 25
25873059 TACCAATTCT
*
25873069 CAGCTCATATGAGCT-TACTGATTTC
1 CAGCTCGTATGAG-TATACTGATTTC
*
25873094 CAGCTCGTGA-GAGCATACTGA-TTC
1 CAGCTCGT-ATGAGTATACTGATTTC
*
25873118 ATAGCTCGTATGAGTATAC
1 -CAGCTCGTATGAGTATAC
25873137 ATGTACAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
24 4 0.11
25 30 0.86
26 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (25 bp):
CAGCTCGTATGAGTATACTGATTTC
Found at i:25886332 original size:34 final size:32
Alignment explanation
Indices: 25886256--25886333 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 32
25886246 GTAATTAATT
25886256 AATTTTTT-AAAATTAAAAAAATTAAAAAATA
1 AATTTTTTAAAAATTAAAAAAATTAAAAAATA
25886287 AATTTTATTTAAAAATATATAAAAATATTAAAAAA-A
1 AA-TTT-TTTAAAAAT-TA-AAAAA-ATTAAAAAATA
*
25886323 TATTTTTTAAA
1 AATTTTTTAAA
25886334 TTTTTTAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
31 2 0.05
32 3 0.08
33 3 0.08
34 11 0.28
35 5 0.12
36 7 0.17
37 9 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (32 bp):
AATTTTTTAAAAATTAAAAAAATTAAAAAATA
Found at i:25886337 original size:8 final size:9
Alignment explanation
Indices: 25886324--25886351 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
25886314 TTAAAAAAAT
25886324 ATTTTTTAA
1 ATTTTTTAA
25886333 ATTTTTTAA
1 ATTTTTTAA
25886342 ATTTTTTAA
1 ATTTTTTAA
25886351 A
1 A
25886352 AAATTCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:25887094 original size:25 final size:25
Alignment explanation
Indices: 25887066--25887115 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
25887056 CAGGTAAGGC
25887066 TCCTTCTCCTTCTTCCGTGCTTCAT
1 TCCTTCTCCTTCTTCCGTGCTTCAT
* * *
25887091 TCCTTTTTCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTGCTTCAT
25887116 CTTCTCTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.04, C:0.36, G:0.06, T:0.54
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCGTGCTTCAT
Found at i:25887123 original size:22 final size:24
Alignment explanation
Indices: 25887066--25887125 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
25887056 CAGGTAAGGC
25887066 TCCTTCTCCTTCTTCCGTGCTTCAT
1 TCCTTCT-CTTCTTCCGTGCTTCAT
* *
25887091 TCCTTTTTCTTCTTCCGTTCTTCA-
1 TCC-TTCTCTTCTTCCGTGCTTCAT
25887115 T-CTTCTCTTCT
1 TCCTTCTCTTCT
25887126 CAGCATATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 8 0.26
23 1 0.03
24 1 0.03
25 18 0.58
26 3 0.10
ACGTcount: A:0.03, C:0.37, G:0.05, T:0.55
Consensus pattern (24 bp):
TCCTTCTCTTCTTCCGTGCTTCAT
Found at i:25887348 original size:8 final size:8
Alignment explanation
Indices: 25887335--25887362 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
25887325 GTCATTAACT
25887335 TGGAATTG
1 TGGAATTG
25887343 TGGAATTG
1 TGGAATTG
25887351 TGGAATTG
1 TGGAATTG
25887359 TGGA
1 TGGA
25887363 TTATGCTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.39, T:0.36
Consensus pattern (8 bp):
TGGAATTG
Found at i:25890067 original size:30 final size:30
Alignment explanation
Indices: 25890031--25890087 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
25890021 TTATATTCGA
* *
25890031 TATTTTTGTAAGTGCAATACACATAAAGGG
1 TATTTTTGTAAGAGCAATACAAATAAAGGG
25890061 TATTTTTGTAAGAGCAATACAAATAAA
1 TATTTTTGTAAGAGCAATACAAATAAA
25890088 TATAATTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (30 bp):
TATTTTTGTAAGAGCAATACAAATAAAGGG
Found at i:25891538 original size:29 final size:30
Alignment explanation
Indices: 25891482--25891539 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
25891472 TTGGTAAATG
* *
25891482 TACTTTCATAAAATGTCTATGTGGTACTTA
1 TACTTTCATAAAATGTCAATGTGATACTTA
25891512 TACTTT-A-AAAATGTTCAATGTGATACTT
1 TACTTTCATAAAATG-TCAATGTGATACTT
25891540 GAACTATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 13 0.52
30 6 0.24
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (30 bp):
TACTTTCATAAAATGTCAATGTGATACTTA
Found at i:25900969 original size:14 final size:15
Alignment explanation
Indices: 25900946--25900978 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
25900936 CACTTTGTGG
*
25900946 TAATTTTATTT-TTT
1 TAATTATATTTATTT
25900960 TAATTATATTTATTT
1 TAATTATATTTATTT
25900975 TAAT
1 TAAT
25900979 AAATGTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TAATTATATTTATTT
Found at i:25901958 original size:22 final size:22
Alignment explanation
Indices: 25901930--25901975 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
25901920 TGTTGAATTC
25901930 TTTAGCTACATTTCTTTGGTGT
1 TTTAGCTACATTTCTTTGGTGT
25901952 TTTAGCTACATTTCTTTGGTGT
1 TTTAGCTACATTTCTTTGGTGT
25901974 TT
1 TT
25901976 CGTAATGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.13, C:0.13, G:0.17, T:0.57
Consensus pattern (22 bp):
TTTAGCTACATTTCTTTGGTGT
Found at i:25902030 original size:26 final size:26
Alignment explanation
Indices: 25901999--25902054 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
25901989 TACTAGTGAT
* *
25901999 TTATTTTGTATTCTAATGTTAATTTC
1 TTATTTTATATTCCAATGTTAATTTC
*
25902025 TTATTTTATATTCCGATGTTAATTTC
1 TTATTTTATATTCCAATGTTAATTTC
25902051 TTAT
1 TTAT
25902055 GTCCCATGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.09, G:0.07, T:0.61
Consensus pattern (26 bp):
TTATTTTATATTCCAATGTTAATTTC
Found at i:25904137 original size:34 final size:34
Alignment explanation
Indices: 25904096--25904166 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
25904086 AAGTAATAAA
25904096 GAATATCACTGATTTCACATGTCAATTAAAGAAT
1 GAATATCACTGATTTCACATGTCAATTAAAGAAT
25904130 GAATATCACTGATTTCACATGTCAATTAAAGAAT
1 GAATATCACTGATTTCACATGTCAATTAAAGAAT
25904164 GAA
1 GAA
25904167 ACACACTTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (34 bp):
GAATATCACTGATTTCACATGTCAATTAAAGAAT
Found at i:25905431 original size:14 final size:15
Alignment explanation
Indices: 25905412--25905440 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
25905402 TTATGTTACT
25905412 AAAAATA-TAAAATA
1 AAAAATATTAAAATA
25905426 AAAAATATTAAAATA
1 AAAAATATTAAAATA
25905441 TAATTTTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAAATATTAAAATA
Found at i:25906529 original size:376 final size:379
Alignment explanation
Indices: 25905812--25906545 Score: 898
Period size: 376 Copynumber: 1.9 Consensus size: 379
25905802 GCAAAAATAT
* * * * * * *
25905812 TTCAATTGATTACCAATAAAATATTTTTTAAAACCTATATAACAGAATTTTTTTTGTTATTATGG
1 TTCAATTAATTACCAATAAAATATTTGTAAAAACATATATAAAAGAATTTTTCTTGTTATCA--G
* ** **
25905877 TCAAAAAAATTAAATATCTTTAATTAAAAATGCCATTTTCCATATATTTTATTATTTATTTAAAT
64 TCAAAAAAATTAAATATCGTTAACGAAAAATGCCATGGTCCATATATTTTATTATTTATTTAAAT
* ** **
25905942 TTATTTTTTTAATGTTTTCAATTTAACCTAGCCTTTTATTGTTGGTTAATAAGAAATTTCTTTTT
129 TTATTATTTTAACATTTTCAATTTAACC-AGCCTTTTATTGTTGGTTAATAAGAAATTTCTGGTT
* * * * *
25906007 TCTAGAACAATTTATATGCATTTATTAACTAAAAGTAAGTTAAATGTTTCTATAGATTTGATTTG
193 TCTACAACAAATTATATGCATTTATTAACTAAAAGTAAGCTAAATATTTCTATAGATTTGATTCG
* *
25906072 ATTTATTTGTATTTCTATAAGTACATATAAATAAAAAAAATTTGGTTAAAAATGTCATTGTATTC
258 ATTTATTTATATTTCTATAAGTACATATAAATAAAAAAAATTTGGCTAAAAATGTCATTGTATTC
25906137 TTGAACTTAAATCACTAATTCACTATATATATAAAATTTACAAATATGAAAAAACAC
323 TTGAACTTAAATCACTAATTCACTATATATATAAAATTTACAAATATGAAAAAACAC
*
25906194 TTCAATTAATTATCAATAAAATATTTGTAAAAACATATATAAAAGAA-TTTTCTT-TTATCA-TC
1 TTCAATTAATTACCAATAAAATATTTGTAAAAACATATATAAAAGAATTTTTCTTGTTATCAGTC
* * * *
25906256 AAACAAATTAAATATCGTTAACCGAAAAATGTCATGGT-CATGTATTTCATTATTATTTTTTTAA
66 AAAAAAATTAAATATCGTTAA-CGAAAAATGCCATGGTCCATATA-TT--TTATTATTTATTTAA
* * * * *
25906320 TTTTATTATTTTAACATTTTCAATTTAA-C-G-TTTTTTTTTTTGGTTAATAAGAGATTT-TGGT
127 ATTTATTATTTTAACATTTTCAATTTAACCAGCCTTTTATTGTTGGTTAATAAGAAATTTCTGGT
* * *
25906381 TTC-ACAACAAATTATATGCATTTGTTATCTAACTTAAATTAAGCTAAATATTTCTATAGATTTT
192 TTCTACAACAAATTATATGCA--T-TTAT-TAACTAAAAGTAAGCTAAATATTTCTATAGATTTG
* ** *
25906445 ATTCGATTTATTTATCTTTCTATAAGTACATA-AAA-ATCAAAACTTTGGCTAAAAATGTCATTG
253 ATTCGATTTATTTATATTTCTATAAGTACATATAAATAAAAAAAATTTGGCTAAAAATGTCATTG
*
25906508 TATTCTCT-AGCTTAAATCACTAATTCACTATATATATA
318 TATTCT-TGAACTTAAATCACTAATTCACTATATATATA
25906546 CCTAAAATAT
Statistics
Matches: 301, Mismatches: 42, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
374 15 0.05
375 5 0.02
376 83 0.28
377 35 0.12
378 72 0.24
379 1 0.00
380 43 0.14
381 6 0.02
382 41 0.14
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (379 bp):
TTCAATTAATTACCAATAAAATATTTGTAAAAACATATATAAAAGAATTTTTCTTGTTATCAGTC
AAAAAAATTAAATATCGTTAACGAAAAATGCCATGGTCCATATATTTTATTATTTATTTAAATTT
ATTATTTTAACATTTTCAATTTAACCAGCCTTTTATTGTTGGTTAATAAGAAATTTCTGGTTTCT
ACAACAAATTATATGCATTTATTAACTAAAAGTAAGCTAAATATTTCTATAGATTTGATTCGATT
TATTTATATTTCTATAAGTACATATAAATAAAAAAAATTTGGCTAAAAATGTCATTGTATTCTTG
AACTTAAATCACTAATTCACTATATATATAAAATTTACAAATATGAAAAAACAC
Found at i:25908529 original size:19 final size:20
Alignment explanation
Indices: 25908507--25908545 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
25908497 TAATTTGTTC
25908507 ATTTC-CTTTTAATCCCAAA
1 ATTTCTCTTTTAATCCCAAA
*
25908526 ATTTCTGTTTTAATCCCAAA
1 ATTTCTCTTTTAATCCCAAA
25908546 TTAGCCCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.31, C:0.23, G:0.03, T:0.44
Consensus pattern (20 bp):
ATTTCTCTTTTAATCCCAAA
Found at i:25913559 original size:14 final size:13
Alignment explanation
Indices: 25913542--25913615 Score: 73
Period size: 13 Copynumber: 5.8 Consensus size: 13
25913532 AAAAAATAAA
25913542 AAAATCAAAAAATC
1 AAAAT-AAAAAATC
**
25913556 AAAATAAAAAAGA
1 AAAATAAAAAATC
*
25913569 AAAAGAAAAAATC
1 AAAATAAAAAATC
25913582 AAAATAAAAAAATC
1 AAAAT-AAAAAATC
*
25913596 --AAT-CAAAATC
1 AAAATAAAAAATC
25913606 AAAATAAAAA
1 AAAATAAAAA
25913616 CATGAGAATG
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
10 6 0.12
12 6 0.12
13 23 0.48
14 13 0.27
ACGTcount: A:0.77, C:0.08, G:0.03, T:0.12
Consensus pattern (13 bp):
AAAATAAAAAATC
Found at i:25913571 original size:26 final size:25
Alignment explanation
Indices: 25913530--25913615 Score: 95
Period size: 26 Copynumber: 3.4 Consensus size: 25
25913520 CAGATTCAAT
*
25913530 AAAAAAAATAAAAAAATCAAAAAATC
1 AAAATAAA-AAAAAAATCAAAAAATC
**
25913556 AAAATAAAAAAGAAAAAGAAAAAATC
1 AAAATAAAAAA-AAAATCAAAAAATC
*
25913582 AAAATAAAAAAATCAATC--AAAATC
1 AAAATAAAAAAA-AAATCAAAAAATC
25913606 AAAATAAAAA
1 AAAATAAAAA
25913616 CATGAGAATG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
24 16 0.31
25 4 0.08
26 32 0.62
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (25 bp):
AAAATAAAAAAAAAATCAAAAAATC
Found at i:25913643 original size:12 final size:13
Alignment explanation
Indices: 25913628--25913670 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
25913618 TGAGAATGAT
25913628 GAAAAGAAAAA-A
1 GAAAAGAAAAAGA
*
25913640 GAAAAGGAAAAATA
1 GAAAA-GAAAAAGA
25913654 -AAAAGAAAAAGA
1 GAAAAGAAAAAGA
25913666 GAAAA
1 GAAAA
25913671 AAGGAGAGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 12 0.44
13 14 0.52
14 1 0.04
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (13 bp):
GAAAAGAAAAAGA
Found at i:25913818 original size:16 final size:16
Alignment explanation
Indices: 25913797--25913832 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
25913787 ATCATCGAAG
25913797 GCTTCTAATGGGTATT
1 GCTTCTAATGGGTATT
25913813 GCTTCTAATGGGTATT
1 GCTTCTAATGGGTATT
25913829 GCTT
1 GCTT
25913833 ACTTTTCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.25, T:0.44
Consensus pattern (16 bp):
GCTTCTAATGGGTATT
Found at i:25916334 original size:44 final size:44
Alignment explanation
Indices: 25915917--25916321 Score: 641
Period size: 44 Copynumber: 9.2 Consensus size: 44
25915907 CACAAAGCCT
* *
25915917 TATCTCCCTGGCCAGTAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* * *
25915961 TATCTCCCTGACCAGCAGTGAAATAGGTTGAAGACTGTAAGCCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
25916005 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* *
25916049 TATCTCCCTGACCAGCTGTGGAATAGGTTGAAGATTGCAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
*
25916093 TATCTCCTTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
25916137 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* *
25916181 TATCTCCTTGACCAGCAATGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* * * *
25916225 TATCTCCCCGACCAACAGTGGAATAGGTGGAGGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* *
25916269 TATCTCCCTGAACAACAGTGGAATAGGTTGAAGATTGT-AGATCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCC
*
25916313 TTTCTCCCT
1 TATCTCCCT
25916322 AAGCAGTAGT
Statistics
Matches: 333, Mismatches: 27, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
43 2 0.01
44 331 0.99
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
Found at i:25916809 original size:17 final size:17
Alignment explanation
Indices: 25916770--25916811 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
25916760 GTCCAGACTA
25916770 CAGACCC-AATTAAACC
1 CAGACCCAAATTAAACC
* * *
25916786 TAAACCCAAATTTAACC
1 CAGACCCAAATTAAACC
25916803 CAGACCCAA
1 CAGACCCAA
25916812 CCTAAATTCC
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.45, C:0.36, G:0.05, T:0.14
Consensus pattern (17 bp):
CAGACCCAAATTAAACC
Found at i:25917855 original size:16 final size:16
Alignment explanation
Indices: 25917834--25917869 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
25917824 ATTAGCTTAA
*
25917834 TATTATTTGTTATTAT
1 TATTATTTCTTATTAT
*
25917850 TATTATTTCTTATTGT
1 TATTATTTCTTATTAT
25917866 TATT
1 TATT
25917870 GACATTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.69
Consensus pattern (16 bp):
TATTATTTCTTATTAT
Found at i:25917974 original size:3 final size:3
Alignment explanation
Indices: 25917966--25918013 Score: 53
Period size: 3 Copynumber: 15.3 Consensus size: 3
25917956 TTTATATATA
*
25917966 TAT TAT TAT GTAT ATAT TAT CAT CT-T TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT -TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
25918013 T
1 T
25918014 TCTCATGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
2 1 0.03
3 32 0.82
4 6 0.15
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:25926060 original size:19 final size:21
Alignment explanation
Indices: 25926031--25926072 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
25926021 AATAGTTTGA
25926031 TTTGTTAAAAAAC-TTTTAAC
1 TTTGTTAAAAAACATTTTAAC
*
25926051 TTTGTT-AAAATCATTTTAAC
1 TTTGTTAAAAAACATTTTAAC
25926071 TT
1 TT
25926073 GATTTTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.50
Consensus pattern (21 bp):
TTTGTTAAAAAACATTTTAAC
Found at i:25937188 original size:40 final size:40
Alignment explanation
Indices: 25937135--25937526 Score: 694
Period size: 40 Copynumber: 9.8 Consensus size: 40
25937125 CAGCCGCAAA
* * * *
25937135 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
25937175 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCCCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
25937215 CATAATTGCCTTCGGGTCATAGCCCGGATATATCAATTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
25937255 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
25937295 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
25937335 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
25937375 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
25937415 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
25937455 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
25937495 CATAATTGCCTTCGGGTCTTAGCCCGGATATA
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATA
25937527 ATCCAATGTT
Statistics
Matches: 336, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 336 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (40 bp):
CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
Done.