Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 159 of 185
Found at i:47852103 original size:105 final size:105
Alignment explanation
Indices: 47851921--47852192 Score: 526
Period size: 105 Copynumber: 2.6 Consensus size: 105
47851911 TACAAAAATA
*
47851921 CAAACACAAACACTAGAACAACTCACGATCTCTTTAATTTGGGACATTTCAAACTTTAAAATGTT
1 CAAACACAAACACTAGAACAACTCACGATCTCTTTAATTTGGGACATTTCAAACTTTAAAATCTT
47851986 ATACCATATCATTAAATATGATGCTATTTAAGATTGGAGC
66 ATACCATATCATTAAATATGATGCTATTTAAGATTGGAGC
*
47852026 CAAACACAAACACTAGAACAACTCACGATCTCTTTAATTTGGAACATTTCAAACTTTAAAATCTT
1 CAAACACAAACACTAGAACAACTCACGATCTCTTTAATTTGGGACATTTCAAACTTTAAAATCTT
47852091 ATACCATATCATTAAATATGATGCTATTTAAGATTGGAGC
66 ATACCATATCATTAAATATGATGCTATTTAAGATTGGAGC
47852131 CAAACACAAACACTAGAACAACTCACGATCTCTTTAATTTGGGACATTTCAAACTTTAAAAT
1 CAAACACAAACACTAGAACAACTCACGATCTCTTTAATTTGGGACATTTCAAACTTTAAAAT
47852193 GTTGTTGAGA
Statistics
Matches: 164, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 164 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (105 bp):
CAAACACAAACACTAGAACAACTCACGATCTCTTTAATTTGGGACATTTCAAACTTTAAAATCTT
ATACCATATCATTAAATATGATGCTATTTAAGATTGGAGC
Found at i:47852499 original size:27 final size:27
Alignment explanation
Indices: 47852430--47852517 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
47852420 TATGGAAGAG
* *
47852430 GCGGCACTA-GTCAAGCCTTTCCCATAA
1 GCGGCAC-AGGTCACGCCTTCCCCATAA
*
47852457 GCGGCACCGGTCACGCCTTCCCCATAA
1 GCGGCACAGGTCACGCCTTCCCCATAA
* *
47852484 GCGGCACAGGTGACGCCATCCCCAT-A
1 GCGGCACAGGTCACGCCTTCCCCATAA
47852510 GACGGCAC
1 G-CGGCAC
47852518 CAACTCCCCC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 2 0.04
27 51 0.96
ACGTcount: A:0.23, C:0.39, G:0.24, T:0.15
Consensus pattern (27 bp):
GCGGCACAGGTCACGCCTTCCCCATAA
Found at i:47856887 original size:14 final size:14
Alignment explanation
Indices: 47856868--47856901 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
47856858 AAATTACATG
47856868 TTAGAATAATATCA
1 TTAGAATAATATCA
*
47856882 TTAGAATAGTATCA
1 TTAGAATAATATCA
47856896 TTAGAA
1 TTAGAA
47856902 AAAAAATGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (14 bp):
TTAGAATAATATCA
Found at i:47861812 original size:84 final size:87
Alignment explanation
Indices: 47861656--47861872 Score: 244
Period size: 84 Copynumber: 2.5 Consensus size: 87
47861646 GCGGCGCCTA
* * * * * *
47861656 CTAAAGAACATGTTCTTTAGCGGCGC-TTGGAAAAAAACGCCGCTGAAGAACATGATCTTTAGTG
1 CTAAAGAACATGTTCTTTAGCGGCGCTTTGTATAAAAACGCCACTAAAGAACATGATCTTCAGCG
* * *
47861720 GCG-TTTTTTAT-TAAGCGCTG
66 ACGCTTTTTTATATAAACGCCG
* * * * *
47861740 CTAAAGAACATGTT-TTTAACGGCGCTTTGTATAAAAATGCCACTAAATATCATGTTCTTCAGCG
1 CTAAAGAACATGTTCTTTAGCGGCGCTTTGTATAAAAACGCCACTAAAGAACATGATCTTCAGCG
*
47861804 ACGCTTTTTTTTATAAACGCCG
66 ACGCTTTTTTATATAAACGCCG
* *
47861826 CTAAAGACCATGTTCTTTAGCGGCGCTTTTGTATAAAAACGCTACTA
1 CTAAAGAACATGTTCTTTAGCGGCGC-TTTGTATAAAAACGCCACTA
47861873 TTTTTGGGTT
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
83 10 0.09
84 44 0.40
85 7 0.06
86 20 0.18
87 10 0.09
88 18 0.17
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (87 bp):
CTAAAGAACATGTTCTTTAGCGGCGCTTTGTATAAAAACGCCACTAAAGAACATGATCTTCAGCG
ACGCTTTTTTATATAAACGCCG
Found at i:47861866 original size:44 final size:44
Alignment explanation
Indices: 47861656--47861867 Score: 202
Period size: 42 Copynumber: 5.0 Consensus size: 44
47861646 GCGGCGCCTA
* *
47861656 CTAAAGAACATGTTCTTTAGCGGCGC--TTGGAAAAAAACGCCG
1 CTAAAGAACATGTTCTTTAGCGGCGCTTTTGTATAAAAACGCCG
* * * * * * *
47861698 CTGAAGAACATGATCTTTAGTGGCG-TTTTTTAT-TAAGCGCTG
1 CTAAAGAACATGTTCTTTAGCGGCGCTTTTGTATAAAAACGCCG
* * *
47861740 CTAAAGAACATGTT-TTTAACGGCGC-TTTGTATAAAAATGCCA
1 CTAAAGAACATGTTCTTTAGCGGCGCTTTTGTATAAAAACGCCG
* * * * * * *
47861782 CTAAATATCATGTTCTTCAGCGACGCTTTTTTTTATAAACGCCG
1 CTAAAGAACATGTTCTTTAGCGGCGCTTTTGTATAAAAACGCCG
*
47861826 CTAAAGACCATGTTCTTTAGCGGCGCTTTTGTATAAAAACGC
1 CTAAAGAACATGTTCTTTAGCGGCGCTTTTGTATAAAAACGC
47861868 TACTATTTTT
Statistics
Matches: 128, Mismatches: 36, Indels: 10
0.74 0.21 0.06
Matches are distributed among these distances:
41 14 0.11
42 56 0.44
43 11 0.09
44 47 0.37
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (44 bp):
CTAAAGAACATGTTCTTTAGCGGCGCTTTTGTATAAAAACGCCG
Found at i:47862259 original size:21 final size:21
Alignment explanation
Indices: 47862235--47862285 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
47862225 TTCTTTTGAA
*
47862235 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
* *
47862256 CCTCTGCTTCCCTCGTTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
47862277 CCTCTGCTT
1 CCTCTGCTT
47862286 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.02, C:0.45, G:0.18, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:47862338 original size:87 final size:87
Alignment explanation
Indices: 47862170--47862329 Score: 239
Period size: 87 Copynumber: 1.8 Consensus size: 87
47862160 TTTCTGCTTG
* *
47862170 CTCTGCTTCTCTCGATGCCGCATCAGCTTTAAGTCGTAGCTGGAGTTCTTCATATTTCTTTTGAA
1 CTCTGCTTCCCTCGATGCCGCATCAGCTTTAAGTCGTAGCTGGAGTTCTTCATATTTCCTTTGAA
** *
47862235 CCTCTGCTTCTCTCGCTGCAGC
66 CCTCAACTTCGCTCGCTGCAGC
* * * *
47862257 CTCTGCTTCCCTCGTTGCCGCCTCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
1 CTCTGCTTCCCTCGATGCCGCATCAGCTTTAAGTCGTAGCTGGAGTTCTTCATATTTCCTTTGAA
47862322 CCTCAACT
66 CCTCAACT
47862330 GTGGTCGCTT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 65 1.00
ACGTcount: A:0.14, C:0.30, G:0.17, T:0.39
Consensus pattern (87 bp):
CTCTGCTTCCCTCGATGCCGCATCAGCTTTAAGTCGTAGCTGGAGTTCTTCATATTTCCTTTGAA
CCTCAACTTCGCTCGCTGCAGC
Found at i:47869092 original size:46 final size:45
Alignment explanation
Indices: 47868986--47869259 Score: 240
Period size: 37 Copynumber: 6.6 Consensus size: 45
47868976 CATATGACCT
*
47868986 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
47869029 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
47869075 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
47869112 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
47869149 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
** *
47869186 CTTATCACTTTGTTTCTTGATCAGATGATAAGTGTAGCTAAAACTACCA
1 CTTATCACTTTGTCACTTGATC--A-GATAAGTGTAGCT-AAGCTACCA
47869235 CTTATCACTTTGTCACTTGATCAGA
1 CTTATCACTTTGTCACTTGATCAGA
47869260 AGTACTCAAA
Statistics
Matches: 206, Mismatches: 9, Indels: 29
0.84 0.04 0.12
Matches are distributed among these distances:
37 95 0.46
39 1 0.00
40 7 0.03
42 3 0.01
43 10 0.05
44 7 0.03
45 21 0.10
46 37 0.18
47 1 0.00
49 24 0.12
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:47870753 original size:30 final size:30
Alignment explanation
Indices: 47870684--47870755 Score: 117
Period size: 31 Copynumber: 2.4 Consensus size: 30
47870674 ACGTTTTTTG
* *
47870684 CAAAAACGCCACTAAAATTTAAAGTTAAAA
1 CAAAAACGTCGCTAAAATTTAAAGTTAAAA
47870714 CAAAAAACGTCGCTAAAATTTAAAGTTAAAA
1 C-AAAAACGTCGCTAAAATTTAAAGTTAAAA
47870745 CAAAAACGTCG
1 CAAAAACGTCG
47870756 TCGTTTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
30 11 0.28
31 28 0.72
ACGTcount: A:0.54, C:0.17, G:0.10, T:0.19
Consensus pattern (30 bp):
CAAAAACGTCGCTAAAATTTAAAGTTAAAA
Found at i:47871773 original size:14 final size:14
Alignment explanation
Indices: 47871748--47871782 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
47871738 TCTGACCCCA
*
47871748 AAATCTCTAAACCTT
1 AAATC-CTAAACCCT
47871763 AAATCCTAAACCCT
1 AAATCCTAAACCCT
47871777 AAATCC
1 AAATCC
47871783 ATACAAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATCCTAAACCCT
Found at i:47872576 original size:14 final size:14
Alignment explanation
Indices: 47872559--47872638 Score: 56
Period size: 14 Copynumber: 5.6 Consensus size: 14
47872549 ATCTAAATTG
47872559 TAAACCATAAACCC
1 TAAACCATAAACCC
*
47872573 TAAAATCATAAACCC
1 T-AAACCATAAACCC
* *
47872588 TTAACACAT-AACCT
1 TAAAC-CATAAACCC
*
47872602 TAAACCTTAAACCC
1 TAAACCATAAACCC
* * *
47872616 -CAACCTTTAAACCA
1 TAAACC-ATAAACCC
47872630 TAAACCATA
1 TAAACCATA
47872639 GACCAAATAC
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
13 6 0.12
14 24 0.48
15 20 0.40
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:47872625 original size:21 final size:20
Alignment explanation
Indices: 47872597--47872635 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
47872587 CTTAACACAT
*
47872597 AACCTTAAACCTTAAACCCC
1 AACCTTAAACCATAAACCCC
47872617 AACCTTTAAACCATAAACC
1 AACC-TTAAACCATAAACC
47872636 ATAGACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.21
Consensus pattern (20 bp):
AACCTTAAACCATAAACCCC
Found at i:47873190 original size:113 final size:111
Alignment explanation
Indices: 47872695--47873306 Score: 528
Period size: 114 Copynumber: 5.4 Consensus size: 111
47872685 ATGCATGGTT
* * * *
47872695 AAGACCAAAACTCTGCGTTTTGGTTAAGATATTTTCCGACGCTTCTCAAAAAGCGCCCCTAATAC
1 AAGA-CAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTC-CAAAGCGCCGCTAATAC
* * * * *
47872760 TATGCTTTAGCGGTGATTTCTCGTGGACGCCACTAATTCCAGTATACATC
64 TATGCTTTAGCGGCG-TTTCCCTTTG-CGCCACTAATTCTAGTATACATC
* * * * * *
47872810 AAGACTTAAACGCTGCGTTTTGGTTAATATATTTTGCAGCGCTTCTCAAAAAGCGCCGCTAATAG
1 AAGAC-AAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTC-CAAAGCGCCGCTAATAC
** * *
47872875 TATGCTTTAGCGGCGTTCTCCCATAAGCGCCACTAATTCTAATATACCTC
64 TATGCTTTAGCGGCGTT-TCCC-TTTGCGCCACTAATTCTAGTATACATC
* * * *
47872925 ATGAAAAAACTCTGCGTTTTGG-TGAGCATATTTTGCGGCGCTTTTTTCC-AAGCGCCGCTAATA
1 AAGACAAAACTCTGCGTTTTGGTTAAG-ATATTTTGCGGCGC--TTCTCCAAAGCGCCGCTAATA
** ** *
47872988 CTATGCTTTAGCGGCGTTT-TTTAATATGCGCCACTAATAATTGTATACATC
63 CTATGCTTTAGCGGCGTTTCCCT--T-TGCGCCACTAATTCTAGTATACATC
** * * * * *
47873039 AAGACAAAAAGCTGTGTTTTGGTTACGAAATTTTGCGGCGCTTCTCCGAAATCGCCGCTAATAGT
1 AAGACAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCC-AAAGCGCCGCTAATACT
* * *
47873104 ATGCCTTAGTGGCGTGTTCCCTTTGCGCCACTAATTCTAGTATACCTC
65 ATGCTTTAGCGGCGT-TTCCCTTTGCGCCACTAATTCTAGTATACATC
* * * * * *
47873152 AAGACCAAACTCTGCATTTTAGTTAAGATATTTTGCGGCGCTTCTCACAAAACGCCACTAATATT
1 AAGACAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTC-CAAAGCGCCGCTAATACT
** * * ** *
47873217 ATGCTTTAGCGGCGTTTTCCCTTAAACGCCACTAACTGTAACATACACC
65 ATGCTTTAGCGGCG-TTTCCCTT-TGCGCCACTAATTCTAGTATACATC
** * *
47873266 AAGACCAAAACGGTGCGCTTTGGTTAGGATATTTTGCGGCG
1 AAGA-CAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCG
47873307 TTTTCCCATA
Statistics
Matches: 397, Mismatches: 82, Indels: 36
0.77 0.16 0.07
Matches are distributed among these distances:
111 1 0.00
112 5 0.01
113 95 0.24
114 162 0.41
115 128 0.32
116 6 0.02
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (111 bp):
AAGACAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCCAAAGCGCCGCTAATACTA
TGCTTTAGCGGCGTTTCCCTTTGCGCCACTAATTCTAGTATACATC
Found at i:47873249 original size:227 final size:227
Alignment explanation
Indices: 47872695--47873251 Score: 613
Period size: 227 Copynumber: 2.4 Consensus size: 227
47872685 ATGCATGGTT
* * *
47872695 AAGACCAAAACTCTGCGTTTTGGTTAAGATATTTTCCGACGCTTCTCA-AAAAGCGCCCCTAATA
1 AAGACC-AAACTCTGCGTTTT-GTTAAGATATTTTGCGGCGCTTCTCACAAAA-CGCCACTAATA
* * * ** ** * *
47872759 CTATGCTTTAGCGGTGATTTCTCGTGGACGCCACTAATTCCAGTATACATCAAGACTTAAACGCT
63 CTATGCTTTAGCGGCGTTTTC-CTTAAACGCCACTAATAACAGTATACATCAAGACTAAAAAGCT
* * *
47872824 GCGTTTTGGTTAATATATTTTGCAGCGCTTCTCAAAAAGCGCCGCTAATAGTATGCTTTAGCGGC
127 GCGTTTTGGTTAAGAAATTTTGCAGCGCTTCTCAAAAAGCGCCGCTAATAGTATGCCTTAGCGGC
47872889 GTTCTCCCATAAGCGCCACTAATTCTAATATACCTC
192 GTTCTCCCATAAGCGCCACTAATTCTAATATACCTC
* ** * * * ** * * *
47872925 ATGAAAAAACTCTGCGTTTTGGTGAGCATATTTTGCGGCGCTTTTTTCCAAGCGCCGCTAATACT
1 AAGACCAAACTCTGCGTTTTGTTAAG-ATATTTTGCGGCGCTTCTCACAAAACGCCACTAATACT
**
47872990 ATGCTTTAGCGGCGTTTT--TTAATATGCGCCACTAATAATTGTATACATCAAGAC-AAAAAGCT
65 ATGCTTTAGCGGCGTTTTCCTTAA-A--CGCCACTAATAACAGTATACATCAAGACTAAAAAGCT
* * * ** * *
47873052 GTGTTTTGGTTACGAAATTTTGCGGCGCTTCTCCGAAATCGCCGCTAATAGTATGCCTTAGTGGC
127 GCGTTTTGGTTAAGAAATTTTGCAGCGCTTCTCAAAAAGCGCCGCTAATAGTATGCCTTAGCGGC
** *
47873117 GTGT-TCCC-TTTGCGCCACTAATTCTAGTATACCTC
192 GT-TCTCCCATAAGCGCCACTAATTCTAATATACCTC
* *
47873152 AAGACCAAACTCTGCATTTTAGTTAAGATATTTTGCGGCGCTTCTCACAAAACGCCACTAATATT
1 AAGACCAAACTCTGCGTTTT-GTTAAGATATTTTGCGGCGCTTCTCACAAAACGCCACTAATACT
47873217 ATGCTTTAGCGGCGTTTTCCCTTAAACGCCACTAA
65 ATGCTTTAGCGGCGTTTT-CCTTAAACGCCACTAA
47873252 CTGTAACATA
Statistics
Matches: 267, Mismatches: 50, Indels: 23
0.79 0.15 0.07
Matches are distributed among these distances:
226 1 0.00
227 99 0.37
228 75 0.28
229 83 0.31
230 9 0.03
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (227 bp):
AAGACCAAACTCTGCGTTTTGTTAAGATATTTTGCGGCGCTTCTCACAAAACGCCACTAATACTA
TGCTTTAGCGGCGTTTTCCTTAAACGCCACTAATAACAGTATACATCAAGACTAAAAAGCTGCGT
TTTGGTTAAGAAATTTTGCAGCGCTTCTCAAAAAGCGCCGCTAATAGTATGCCTTAGCGGCGTTC
TCCCATAAGCGCCACTAATTCTAATATACCTC
Found at i:47873948 original size:17 final size:17
Alignment explanation
Indices: 47873928--47873980 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
47873918 TCAATTTATA
47873928 AATATATTTTAAATTTT
1 AATATATTTTAAATTTT
*
47873945 AATA-ATTTTGAATTTT
1 AATATATTTTAAATTTT
* * *
47873961 TATGTATTTTTAATTTT
1 AATATATTTTAAATTTT
47873978 AAT
1 AAT
47873981 TAAAAAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 13 0.43
17 17 0.57
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
AATATATTTTAAATTTT
Found at i:47877986 original size:3 final size:3
Alignment explanation
Indices: 47877978--47878003 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47877968 AGAGGGTTGG
47877978 GGT GGT GGT GGT GGT GGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GG
47878004 GGGGGGTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (3 bp):
GGT
Found at i:47878275 original size:2 final size:2
Alignment explanation
Indices: 47878268--47878297 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
47878258 TAATTAGATG
47878268 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
47878298 AAAGGTTTAA
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:47883235 original size:12 final size:12
Alignment explanation
Indices: 47883220--47883252 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
47883210 AACGAAGCCG
47883220 TAAATATTTTTA
1 TAAATATTTTTA
47883232 TAAATATTTTTA
1 TAAATATTTTTA
47883244 TAAATATTT
1 TAAATATTT
47883253 ACAGAGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TAAATATTTTTA
Found at i:47884426 original size:42 final size:42
Alignment explanation
Indices: 47884377--47884625 Score: 363
Period size: 42 Copynumber: 5.9 Consensus size: 42
47884367 ACCATGGCAG
* ** * *
47884377 TATGTGATTATGTGTAAGATTAGAGCTAGGCTATGGCATCGA
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGA
* *
47884419 TATGTGATTACATGTAAGACCATAGTTGGGCTATGGCATCGA
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGA
* *
47884461 TATGTGATTACGTATAAGACCATAGCTGGGCTATGACATCGA
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGA
**
47884503 TATGTGATTACGTGTAAGACCATAGCTGCTCTATGGCATCGA
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGA
*
47884545 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATTGA
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGA
* * *
47884587 TATGTGATTATGTGTAAGACCATAGTTGGACTATGGCAT
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCAT
47884626 TGAGAAAACG
Statistics
Matches: 186, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 186 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (42 bp):
TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGA
Found at i:47885731 original size:25 final size:25
Alignment explanation
Indices: 47885638--47885729 Score: 157
Period size: 25 Copynumber: 3.7 Consensus size: 25
47885628 ACCTCTGACC
47885638 TCCTTACCACACCTGTGACTCCAAT
1 TCCTTACCACACCTGTGACTCCAAT
47885663 TCCTTACCACACCTGTGACTCCAAT
1 TCCTTACCACACCTGTGACTCCAAT
* * *
47885688 TCCTTGCCACACCTGTGTCTCCAGT
1 TCCTTACCACACCTGTGACTCCAAT
47885713 TCCTTACCACACCTGTG
1 TCCTTACCACACCTGTG
47885730 TCGCCACCTT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.20, C:0.40, G:0.11, T:0.29
Consensus pattern (25 bp):
TCCTTACCACACCTGTGACTCCAAT
Found at i:47887835 original size:25 final size:25
Alignment explanation
Indices: 47887801--47887852 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
47887791 GACCTAGAAG
47887801 TTAGACCCGAATCTGGCGTGTCACA
1 TTAGACCCGAATCTGGCGTGTCACA
47887826 TTAGACCCGAATCTGGCGTGTCACA
1 TTAGACCCGAATCTGGCGTGTCACA
47887851 TT
1 TT
47887853 GAAGTGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (25 bp):
TTAGACCCGAATCTGGCGTGTCACA
Found at i:47889109 original size:54 final size:53
Alignment explanation
Indices: 47888952--47889146 Score: 183
Period size: 54 Copynumber: 3.6 Consensus size: 53
47888942 TATGACGATC
* * ***
47888952 ATTTTACCCTATTAGGGTATTTCGATAATTTTACCAATTGAGGGTATTTCAGTC
1 ATTTTACCCT-TTAGGGTATTTCGATAATTTTACCCATTGAGGGTATTTTAAAA
* * * *
47889006 ATTTTATCTTTTAAGGGTATTTCGATAAATTTACCCATCGAGGGTATTTTAAAA
1 ATTTTACCCTTT-AGGGTATTTCGATAATTTTACCCATTGAGGGTATTTTAAAA
* ** ****
47889060 ATTTTACCCATTTGGGGTATTTTAATAATTTTACCCATTGAGGGTATTTTGGTT
1 ATTTTACCC-TTTAGGGTATTTCGATAATTTTACCCATTGAGGGTATTTTAAAA
** *
47889114 ATTTTACCCTAAAGAGGTATTTCGATCATTTTA
1 ATTTTACCCTTTAG-GGTATTTCGATAATTTTA
47889147 ACAACCTTTT
Statistics
Matches: 112, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
53 4 0.04
54 105 0.94
55 3 0.03
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (53 bp):
ATTTTACCCTTTAGGGTATTTCGATAATTTTACCCATTGAGGGTATTTTAAAA
Found at i:47889122 original size:27 final size:27
Alignment explanation
Indices: 47888952--47889108 Score: 156
Period size: 27 Copynumber: 5.8 Consensus size: 27
47888942 TATGACGATC
*
47888952 ATTTTACCCTATT-AGGGTATTTCGATA
1 ATTTTACCC-ATTGAGGGTATTTCAATA
* * *
47888979 ATTTTACCAATTGAGGGTATTTCAGTC
1 ATTTTACCCATTGAGGGTATTTCAATA
* ** * *
47889006 ATTTTATCTTTTAAGGGTATTTCGATA
1 ATTTTACCCATTGAGGGTATTTCAATA
* * * *
47889033 AATTTACCCATCGAGGGTATTTTAAAA
1 ATTTTACCCATTGAGGGTATTTCAATA
*
47889060 ATTTTACCCATTTG-GGGTATTTTAATA
1 ATTTTACCCA-TTGAGGGTATTTCAATA
47889087 ATTTTACCCATTGAGGGTATTT
1 ATTTTACCCATTGAGGGTATTT
47889109 TGGTTATTTT
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
26 6 0.06
27 96 0.92
28 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (27 bp):
ATTTTACCCATTGAGGGTATTTCAATA
Found at i:47890681 original size:25 final size:25
Alignment explanation
Indices: 47890647--47890700 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
47890637 TGAACTTCTG
47890647 ACCTCCTTGCCACACCTGTGACGCC
1 ACCTCCTTGCCACACCTGTGACGCC
*
47890672 ACCTCCTTGCCACACCTGTGTCGCC
1 ACCTCCTTGCCACACCTGTGACGCC
47890697 ACCT
1 ACCT
47890701 TGCCACTAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.15, C:0.48, G:0.15, T:0.22
Consensus pattern (25 bp):
ACCTCCTTGCCACACCTGTGACGCC
Found at i:47890704 original size:22 final size:23
Alignment explanation
Indices: 47890651--47890706 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 23
47890641 CTTCTGACCT
47890651 CCTTGCCACACCTGTGACGCCACC
1 CCTTGCCACACCTGTGACGCCA-C
*
47890675 TCCTTGCCACACCTGTGTCGCCA-
1 -CCTTGCCACACCTGTGACGCCAC
47890698 CCTTGCCAC
1 CCTTGCCAC
47890707 TAGACCACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 9 0.30
25 21 0.70
ACGTcount: A:0.14, C:0.48, G:0.16, T:0.21
Consensus pattern (23 bp):
CCTTGCCACACCTGTGACGCCAC
Found at i:47890764 original size:22 final size:22
Alignment explanation
Indices: 47890736--47890783 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
47890726 GTGTCATGAT
47890736 TTCACAAAATAATTATAAAGCC
1 TTCACAAAATAATTATAAAGCC
47890758 TTCACAAAATAATTATAAAGCC
1 TTCACAAAATAATTATAAAGCC
47890780 TTCA
1 TTCA
47890784 AGCTAAGGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.48, C:0.19, G:0.04, T:0.29
Consensus pattern (22 bp):
TTCACAAAATAATTATAAAGCC
Found at i:47896126 original size:49 final size:49
Alignment explanation
Indices: 47896068--47896195 Score: 197
Period size: 49 Copynumber: 2.6 Consensus size: 49
47896058 TGTGTGTATC
47896068 CGTGTAAGACCATAGCTGAGCTATGGCATCGGTAAGTGATATGCGATTT
1 CGTGTAAGACCATAGCTGAGCTATGGCATCGGTAAGTGATATGCGATTT
* *
47896117 CGTGTAAGACCATAGCT-AGGCTGTGGCATCGGTAAGTGATATGTGATTT
1 CGTGTAAGACCATAGCTGA-GCTATGGCATCGGTAAGTGATATGCGATTT
*
47896166 TGTGTAAGACCATAGCTTG-GCTATGGCATC
1 CGTGTAAGACCATAGC-TGAGCTATGGCATC
47896196 AATATGTAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
48 1 0.01
49 70 0.97
50 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (49 bp):
CGTGTAAGACCATAGCTGAGCTATGGCATCGGTAAGTGATATGCGATTT
Found at i:47898153 original size:104 final size:104
Alignment explanation
Indices: 47897906--47898262 Score: 558
Period size: 104 Copynumber: 3.4 Consensus size: 104
47897896 AACCGTTATT
* * * * *
47897906 GGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAACACTTAGCAACCCCTTGGGGGA
*
47897971 ATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
47898009 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAACACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAACACTTAGCAACCCCTTGGGGGA
47898074 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* * *
47898113 AGTGGATATCGCACTTAGCACCACCAATGAACCAGGGAATCAGCACTTAGCAA-CCCTTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAACACTTAGCAACCCCTT-GGGGG
* *
47898177 AATCAGCACATAGCAACCCCTTTTCACATTTCAAAGATAT
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* *
47898217 GGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAACAC
1 GGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAACAC
47898263 ACATCAACCC
Statistics
Matches: 235, Mismatches: 16, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
103 88 0.37
104 146 0.62
105 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAACACTTAGCAACCCCTTGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:47898640 original size:31 final size:30
Alignment explanation
Indices: 47898609--47898666 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
47898599 CCACTCAACT
47898609 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
47898639 TTTTGCATAATTACATTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
47898667 GCTCGAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:47901146 original size:43 final size:43
Alignment explanation
Indices: 47901085--47901170 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
47901075 CTTACGTACA
*
47901085 TGCCACTTTCATTTAAGGAAGAAAACATCACCGAAATCTCTAT
1 TGCCACTTTCATTTAAGGAAGAAAACATCACCAAAATCTCTAT
47901128 TGCCACTTTCATTTAAGGAAGAAAACATCACCAAAATCTCTAT
1 TGCCACTTTCATTTAAGGAAGAAAACATCACCAAAATCTCTAT
47901171 ACAGGAGTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.28
Consensus pattern (43 bp):
TGCCACTTTCATTTAAGGAAGAAAACATCACCAAAATCTCTAT
Found at i:47902721 original size:46 final size:46
Alignment explanation
Indices: 47902643--47902781 Score: 199
Period size: 46 Copynumber: 3.0 Consensus size: 46
47902633 CATGGCAAAA
* *
47902643 TGTGAAACGTAGGAATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* * * *
47902689 TGTGAAAAGTAGGTATGGTGTTTC-GATAAAGAAAACCTTATTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAG-TGAAGAAAACCATACTGAGT
*
47902735 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACTATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
47902781 T
1 T
47902782 ATAGCATTGT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
45 1 0.01
46 78 0.98
47 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:47905044 original size:3 final size:3
Alignment explanation
Indices: 47905036--47905068 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
47905026 ACATTAATTT
47905036 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
47905069 GAATTTCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:47905567 original size:19 final size:19
Alignment explanation
Indices: 47905529--47905570 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
47905519 TTCTTTTTCG
47905529 TCTGTTTTCTTTTTAGCTAT
1 TCTGTTTTCTTTTTA-CTAT
47905549 TCTGTTTCTCTTTTT-CTAT
1 TCTGTTT-TCTTTTTACTAT
47905568 TCT
1 TCT
47905571 TTTATTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 7 0.33
21 7 0.33
ACGTcount: A:0.07, C:0.19, G:0.07, T:0.67
Consensus pattern (19 bp):
TCTGTTTTCTTTTTACTAT
Found at i:47905789 original size:77 final size:77
Alignment explanation
Indices: 47905701--47905854 Score: 281
Period size: 77 Copynumber: 2.0 Consensus size: 77
47905691 TATATTTTAC
**
47905701 ACATGTATTATTTTATCACCACACAATTGTCTTTATCTTATTTGTTTCCTATAATATATTATCTT
1 ACATGTATTATTTTATCACCACACAATTGTCTTTATCTTATTTGTTTCCTATAATATATTAAATT
*
47905766 CATTTTAATTAA
66 AATTTTAATTAA
47905778 ACATGTATTATTTTATCACCACACAATTGTCTTTATCTTATTTGTTTCCTATAATATATTAAATT
1 ACATGTATTATTTTATCACCACACAATTGTCTTTATCTTATTTGTTTCCTATAATATATTAAATT
47905843 AATTTTAATTAA
66 AATTTTAATTAA
47905855 TATAATTTAT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.50
Consensus pattern (77 bp):
ACATGTATTATTTTATCACCACACAATTGTCTTTATCTTATTTGTTTCCTATAATATATTAAATT
AATTTTAATTAA
Found at i:47905875 original size:15 final size:16
Alignment explanation
Indices: 47905857--47905888 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
47905847 TTAATTAATA
47905857 TAATTT-ATAATATTT
1 TAATTTAATAATATTT
47905872 TAATTTAATAATATTT
1 TAATTTAATAATATTT
47905888 T
1 T
47905889 TATAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTAATAATATTT
Found at i:47905887 original size:25 final size:25
Alignment explanation
Indices: 47905844--47905896 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 25
47905834 TATTAAATTA
47905844 ATTTTAATTAATATAA-TTTATAAT
1 ATTTTAATTAATATAATTTTATAAT
*
47905868 ATTTTAATTTAATAATATTTTTATAAT
1 ATTTTAA-TTAAT-ATAATTTTATAAT
47905895 AT
1 AT
47905897 AAATCAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 5 0.20
26 3 0.12
27 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
ATTTTAATTAATATAATTTTATAAT
Found at i:47909069 original size:26 final size:26
Alignment explanation
Indices: 47909040--47909093 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
47909030 TTAGTTTCAA
** * *
47909040 ATTTTGTTGTATATTTACATACTTAC
1 ATTTTGTCATATATATACATACGTAC
47909066 ATTTTGTCATATATATACATACGTAC
1 ATTTTGTCATATATATACATACGTAC
47909092 AT
1 AT
47909094 ATTTTTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.48
Consensus pattern (26 bp):
ATTTTGTCATATATATACATACGTAC
Found at i:47909408 original size:12 final size:12
Alignment explanation
Indices: 47909391--47909418 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
47909381 TCACATTTTT
47909391 TATATACATATA
1 TATATACATATA
47909403 TATATACATATA
1 TATATACATATA
47909415 TATA
1 TATA
47909419 CATCATTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATACATATA
Found at i:47912715 original size:17 final size:18
Alignment explanation
Indices: 47912677--47912727 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
47912667 GTGGAGGAAA
**
47912677 AAAAAGCAAAAAAAGAGT
1 AAAAAGCAAAAAAAGAAC
47912695 AAAAA-CAAAAAAAGAAC
1 AAAAAGCAAAAAAAGAAC
47912712 AAAAGAGACAAAAAAA
1 AAAA-AG-CAAAAAAA
47912728 CCTCTACTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 14 0.50
18 6 0.21
20 8 0.29
ACGTcount: A:0.78, C:0.08, G:0.12, T:0.02
Consensus pattern (18 bp):
AAAAAGCAAAAAAAGAAC
Found at i:47913193 original size:18 final size:20
Alignment explanation
Indices: 47913162--47913198 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
47913152 CTTCACTTGA
*
47913162 AAAAGAAACGAAAC-GAAAC
1 AAAAGAAACAAAACAGAAAC
47913181 AAAA-AAACAAAACAGAAA
1 AAAAGAAACAAAACAGAAA
47913199 AGAAAAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.76, C:0.14, G:0.11, T:0.00
Consensus pattern (20 bp):
AAAAGAAACAAAACAGAAAC
Found at i:47914335 original size:44 final size:44
Alignment explanation
Indices: 47914237--47914834 Score: 356
Period size: 44 Copynumber: 13.6 Consensus size: 44
47914227 GTATTGGCGT
* *
47914237 GAAGTAGATCGAAGATAGCAGGTCCTT-TC-ACCCTATATTGGTGG-
1 GAAGTAGATCGAAGAT-GCAGAT-CTTGTCTTCCC-ATATTGGTGGC
* * * *
47914281 AAAGTGGATCGAAGATGCAGACCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGC
* * * *** ***
47914325 GAAGTAGATCGAAGAAAGCAGATATTGTTTTCATGTATTGG-CAT
1 GAAGTAGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGC
* * * * *
47914369 GAAGTAGATCGAAGATAGCAGGTCCTCTCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGC
* * * * *
47914413 GAAGTGGATCGAAGATGTAGATCTTGTTTTCTCATACTGGTGGC
1 GAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGC
* * *** ***
47914457 GAACTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CAT
1 GAAGTAGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGC
* * * * *
47914501 GAAATAGATTGAAGATAGCA-AGTCCTGTCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGAT-GCAGA-TCTTGTCTTCCCATATTGGTGGC
* * *
47914545 GAAGTGGATTGAAGATGCAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGC
* * * *** * *
47914589 GAAGTAGATTGAAAAAAGCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCG-AAGATGCAGATCTTGTCTTCCCATATTGGTGGC
* * * * * *
47914633 AAAGTAGATCGAAGATAGCAGGTCCTGTCTTTCTATATTGGTAG-
1 GAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGC
* * *
47914677 GAAGTTGATCGAAGATGCAGATCTTATCTTCCCATACTGGTGGC
1 GAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGC
* * *** * *
47914721 GAAGTAGATCGAAGAAAGAAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGC
* * * *
47914765 GAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGC
* *
47914809 GAAGTGGATCGAAGATTACAGATCTT
1 GAAGTAGATCGAAGA-TGCAGATCTT
47914835 ATCTCTCTAA
Statistics
Matches: 419, Mismatches: 114, Indels: 42
0.73 0.20 0.07
Matches are distributed among these distances:
42 3 0.01
43 81 0.19
44 253 0.60
45 82 0.20
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (44 bp):
GAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGC
Found at i:47914867 original size:132 final size:132
Alignment explanation
Indices: 47914207--47914834 Score: 997
Period size: 132 Copynumber: 4.8 Consensus size: 132
47914197 TGAAGACATT
* * **
47914207 AAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTTTCACCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
*
47914272 TATTGGT-GGAAAGTGGATCGAAGATGCAGACCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
66 TATTGGTAGG-AAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
47914336 AAG
130 AAG
* * * *
47914339 AAAGCAGATATTGTTTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGGTCCTCTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
* * * *
47914404 TATTGGTAGGAAGTGGATCGAAGATGTAGATCTTGTTTTCTCATACTGGTGGCGAACTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
47914469 AG
131 AG
* * * *
47914471 AAAGCAGATCTTGTCTTCATGTATTGGCATGAAATAGATTGAAGATAGCAAGTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
* *
47914536 TATTGGTAGGAAGTGGATTGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
*
47914601 AA
131 AG
* *
47914603 AAAGCAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCGAAGATAGCAGGTCCTGTCTTTCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
* *
47914668 TATTGGTAGGAAGTTGATCGAAGATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
47914733 AG
131 AG
*
47914735 AAAGAAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
*
47914800 TATTGGTAGGAAGTGGATCGAAGATTACAGATCTT
66 TATTGGTAGGAAGTGGATCGAAGA-TGCAGATCTT
47914835 ATCTCTCTAA
Statistics
Matches: 453, Mismatches: 41, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
132 442 0.98
133 11 0.02
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
AG
Found at i:47914953 original size:396 final size:397
Alignment explanation
Indices: 47914207--47914966 Score: 932
Period size: 396 Copynumber: 1.9 Consensus size: 397
47914197 TGAAGACATT
* * *
47914207 AAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTTTCACCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCGAAGATAGCAGGTCCTGTCACCCTA
*
47914272 TATTGGTGGAAAGTGGATCGAAGATGCAGACCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
66 TATTGGTGGAAAGTGGATCGAAGATGCAGACCTTATCTTCCCATACTGGTGGCGAAGTAGATCGA
* *
47914337 AGAAAGCAGATATTGTTTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGGTCCTCTCTTCC
131 AGAAAGAAGATATTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGGTCCTCTCTTCC
* * * * *
47914402 TATATTGGTAGGAAGTGGATCGAAGATGTAGATCTTGTTTTCTCATACTGGTGGCGAACTAGATC
196 TATATTGGTAGGAAGTGGATCGAAGATGTAGATCTTATTCTCTAACACTAGTGGCGAACTAGATC
* * * * * * * *
47914467 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAATAGATTGAAGATAGCAAGTCCTGTCTT
261 GAAGAAAGCAGATCTTGCCTCCATGGATTGACATGAAATACATTGAAGACAGCAAGTCCTATCTC
* *** ** *
47914532 CCTATATTGGTAGGAAGTGGATTGAAGA-TGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAG
326 CCTACAGCAGTAGGAAGAAGATTGAAGATTACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAG
47914596 ATTGAAA
391 ATTGAAA
***
47914603 AAAGCAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCGAAGATAGCAGGTCCTGTCTTTCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCGAAGATAGCAGGTCCTGTCACCCTA
* *
47914668 TATTGGTAGG-AAGTTGATCGAAGATGCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCG
66 TATTGGT-GGAAAGTGGATCGAAGATGCAGACCTTATCTTCCCATACTGGTGGCGAAGTAGATCG
* * *
47914732 AAGAAAGAAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
130 AAGAAAGAAGATATTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGGTCCTCTCTTC
* *
47914797 CTATATTGGTAGGAAGTGGATCGAAGAT-TACAGATCTTATCTCTCTAAGCAGTAGT-G-GAGC-
195 CTATATTGGTAGGAAGTGGATCGAAGATGT--AGATCTTAT-TCTCTAA-CACTAGTGGCGAACT
** * * * * * *
47914858 AGATCGAAGATGGCGGAT-TTGACCTCCCTGAGATT-ACAGTGGAGTACATTGAAGCCAG-TAG-
256 AGATCGAAGAAAGCAGATCTTG-CCTCCATG-GATTGACA-TGAAATACATTGAAGACAGCAAGT
*
47914919 CTCTATCTCCCTGGGCAGCAGT-GGAA-AAGATTGAAGATTACAGATCTT
318 C-CTATCTCCCT--ACAGCAGTAGGAAGAAGATTGAAGATTACAGATCTT
47914967 ATCTCCCTAA
Statistics
Matches: 307, Mismatches: 45, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
395 5 0.02
396 246 0.80
397 43 0.14
398 9 0.03
399 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (397 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCGAAGATAGCAGGTCCTGTCACCCTA
TATTGGTGGAAAGTGGATCGAAGATGCAGACCTTATCTTCCCATACTGGTGGCGAAGTAGATCGA
AGAAAGAAGATATTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGGTCCTCTCTTCC
TATATTGGTAGGAAGTGGATCGAAGATGTAGATCTTATTCTCTAACACTAGTGGCGAACTAGATC
GAAGAAAGCAGATCTTGCCTCCATGGATTGACATGAAATACATTGAAGACAGCAAGTCCTATCTC
CCTACAGCAGTAGGAAGAAGATTGAAGATTACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAG
ATTGAAA
Found at i:47914955 original size:132 final size:132
Alignment explanation
Indices: 47914819--47915635 Score: 1386
Period size: 132 Copynumber: 6.2 Consensus size: 132
47914809 GAAGTGGATC
* *
47914819 GAAGATTACAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTGACCTC
1 GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
* *
47914884 CCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGCTCTATCTCCCTGGGCAGCAGTGGAAAAGA
66 CCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAGCAGTGGAATAGA
47914949 TT
131 TT
* *
47914951 GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGGCAGATTTTACCTC
1 GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
**
47915016 CCTGAGATTACAGTGGAGTACATTGAAGCCAGTAACTCTATCTCCCTGGGCAGCAGTGGAATAGA
66 CCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAGCAGTGGAATAGA
47915081 TT
131 TT
* * *
47915083 GAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGAAGATGGCGGAGTTTACCTC
1 GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
* *
47915148 CCTGAGATTACAGTGGAGTACATTGAAGCCATTAGTTCTATCTCCCTGGGCGGCAGTGGAATAGA
66 CCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAGCAGTGGAATAGA
47915213 TT
131 TT
* * *
47915215 GAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGAAGATGGCGGAGTTTACCTC
1 GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
* *
47915280 CCTGAGATTACAGTGGAGTACATTGAAGCCATTAGTTCTATCTCCCTGGGCGGCAGTGGAATAGA
66 CCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAGCAGTGGAATAGA
47915345 TT
131 TT
* * *
47915347 GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATGGCTGATTTTACCTC
1 GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
*
47915412 CCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGA
66 CCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAGCAGTGGAATAGA
47915477 TT
131 TT
*
47915479 GAAGGTTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
1 GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
* *
47915544 CCTGAGATTACAATGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGA
66 CCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAGCAGTGGAATAGA
47915609 TT
131 TT
47915611 GAAGA-TACA-AGTCTTATCTCCCTAA
1 GAAGATTACAGA-TCTTATCTCCCTAA
47915636 AGTTACAGTG
Statistics
Matches: 656, Mismatches: 28, Indels: 3
0.95 0.04 0.00
Matches are distributed among these distances:
130 1 0.00
131 18 0.03
132 637 0.97
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (132 bp):
GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTC
CCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAGCAGTGGAATAGA
TT
Found at i:47915216 original size:43 final size:41
Alignment explanation
Indices: 47915025--47915616 Score: 143
Period size: 44 Copynumber: 13.5 Consensus size: 41
47915015 CCCTGAGATT
* * **
47915025 ACAGTGGAGTACATTGAAGCCAGTAACTCTATCTCCCTGGGC-
1 ACAGTGGAGTAGATTGAAG--ATTAGTTCTATCTCCCTGGGCG
* * ** *
47915067 AGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
1 A-CAGTGGAGTAGATTGAAGATT--AGTTC-TATCTCCCTGGGCG
* * * * ***
47915112 ATAGTGGAGTAGATCGAAGATGGCGGAGTT-TACCTCCCTGAGATT
1 ACAGTGGAGTAGATTGAAGAT----TAGTTCTATCTCCCTG-GGCG
*
47915157 ACAGTGGAGTACATTGAAGCCATTAGTTCTATCTCCCTGGGCG
1 ACAGTGGAGTAGATTGAAG--ATTAGTTCTATCTCCCTGGGCG
* * * ** *
47915200 GCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
1 ACAGTGGAGTAGATTGAAGATT--AGTTC-TATCTCCCTGGGCG
* * * * ***
47915244 ATAGTGGAGTAGATCGAAGATGGCGGAGTT-TACCTCCCTGAGATT
1 ACAGTGGAGTAGATTGAAGAT----TAGTTCTATCTCCCTG-GGCG
*
47915289 ACAGTGGAGTACATTGAAGCCATTAGTTCTATCTCCCTGGGCG
1 ACAGTGGAGTAGATTGAAG--ATTAGTTCTATCTCCCTGGGCG
* * * **
47915332 GCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGC-
1 ACAGTGGAGTAGATTGAAGATT--AGTTC-TATCTCCCTGGGCG
* * * * * ***
47915375 AGTAGTGGAGTAGGTCGAAGATGGCT-GATTTTACCTCCCTGAGATT
1 A-CAGTGGAGTAGATTGAAGAT---TAG-TTCTATCTCCCTG-GGCG
* * *
47915421 ACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCA
1 ACAGTGGAGTAGATTGAAG--ATTAGTTCTATCTCCCTGGGCG
* * * **
47915464 ACAGTGGAATAGATTGAAGGTTACAGATCTTATCTCCCTAAGC-
1 ACAGTGGAGTAGATTGAAGATT--AGTTC-TATCTCCCTGGGCG
* * * ** * * ***
47915507 AGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGATT
1 A-CAGTGGAGTAGATTGAAGAT--TAG-TTCTATCTCCCTG-GGCG
* * * *
47915553 ACAATGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCA
1 ACAGTGGAGTAGATTGAAG--ATTAGTTCTATCTCCCTGGGCG
*
47915596 ACAGTGGAATAGATTGAAGAT
1 ACAGTGGAGTAGATTGAAGAT
47915617 ACAAGTCTTA
Statistics
Matches: 383, Mismatches: 119, Indels: 97
0.64 0.20 0.16
Matches are distributed among these distances:
41 10 0.03
42 1 0.00
43 109 0.28
44 184 0.48
45 64 0.17
46 8 0.02
47 7 0.02
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (41 bp):
ACAGTGGAGTAGATTGAAGATTAGTTCTATCTCCCTGGGCG
Found at i:47915854 original size:40 final size:40
Alignment explanation
Indices: 47915669--47915999 Score: 184
Period size: 40 Copynumber: 7.8 Consensus size: 40
47915659 CCATAGATCG
* * * **
47915669 TATCTCCCTAAGCAATAATGGAGCAGATCGCATTCAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAACCAATCT
* * *
47915709 TATCTCCCTAAGCAGTAGTGGAGAAGATAGAAGAAACCAATCG
1 TATCTCCCTAAGCAGTAGTGGAGCAGAT---CGAAACCAATCT
** *
47915752 TATCTCCCTGAAGTTGTAGTGGAGCGGATCGAAAACCACAGATCT
1 TATCTCCCT-AAGCAGTAGTGGAGCAGATCG-AAA-C-CA-ATCT
* *
47915797 TATCTCCCTAAGCAGTAGTGGAGCAGATCG-CATCAAGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAACCAA-TCT
* * *
47915837 AATCTCCCTAAGTAGTAGTGGAGCAGA-CGAAAAAAAAAACCAATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCG-------AAACCAATCT
* * * * * *
47915883 TATCTTCCTATA-CTGGCAGTGAAGCGGATCAAAAACCACAAATCT
1 TATCTCCCTA-AGC-AGTAGTGGAGCAGATC-GAAA-C-C-AATCT
** * ** *
47915928 TATCTCCCTAAGCAGTAAAGGAGCAGATCGCATTCAGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAACCAATCT
47915968 TATCTCCCTAAGCAGTAGTGGAGCAGAT-GAAA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA
47916000 GAAACAACAA
Statistics
Matches: 217, Mismatches: 49, Indels: 51
0.68 0.15 0.16
Matches are distributed among these distances:
39 5 0.02
40 85 0.39
41 2 0.01
42 7 0.03
43 19 0.09
44 47 0.22
45 26 0.12
46 10 0.05
47 15 0.07
48 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (40 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAACCAATCT
Found at i:47915938 original size:131 final size:131
Alignment explanation
Indices: 47915641--47915999 Score: 471
Period size: 131 Copynumber: 2.8 Consensus size: 131
47915631 CCTAAAGTTA
* * * *
47915641 CAGTGGAGCGGAT-TAAAACCATAGATCGTATCTCCCTAAGCAATAATGGAGCAGATCGCATTCA
1 CAGTGGAGCGGATCAAAAACCACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCGCATTCA
* * * * * *
47915705 A-TCTTATCTCCCTAAGCAGTAGTGGAG-A-AGATAGAAGAAACCAATCGTATCTCCCTGAAGTT
66 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAGAAAAAAAAAACCAATCCTATCTCCCTGAACTG
47915767 G
131 G
* * *
47915768 TAGTGGAGCGGATCGAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCA-TCA
1 CAGTGGAGCGGATCAAAAACCACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCGCATTCA
* * *
47915832 AGTCTAATCTCCCTAAGTAGTAGTGGAGCAGACGAAAAAAAAAACCAATCCTATCTTCCT-ATAC
66 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA-GAAAAAAAAAACCAATCCTATCTCCCTGA-AC
47915896 TGG
129 TGG
* * *
47915899 CAGTGAAGCGGATCAAAAACCACAAATCTTATCTCCCTAAGCAGTAAAGGAGCAGATCGCATTC-
1 CAGTGGAGCGGATCAAAAACCACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCGCATTCA
47915963 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATGAAA
66 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA-GAAA
47916000 GAAACAACAA
Statistics
Matches: 201, Mismatches: 24, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
127 16 0.08
128 66 0.33
129 1 0.00
130 2 0.01
131 114 0.57
132 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (131 bp):
CAGTGGAGCGGATCAAAAACCACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCGCATTCA
AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAGAAAAAAAAAACCAATCCTATCTCCCTGAACTG
G
Found at i:47917481 original size:26 final size:26
Alignment explanation
Indices: 47917443--47917496 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
47917433 TTAGTTTCAA
** * *
47917443 ATTTTGTTGTATATGTACATACTTAC
1 ATTTTGTCATATATATACATACGTAC
47917469 ATTTTGTCATATATATACATACGTAC
1 ATTTTGTCATATATATACATACGTAC
47917495 AT
1 AT
47917497 ATTTTTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.46
Consensus pattern (26 bp):
ATTTTGTCATATATATACATACGTAC
Found at i:47922334 original size:9 final size:9
Alignment explanation
Indices: 47922322--47922401 Score: 51
Period size: 9 Copynumber: 9.0 Consensus size: 9
47922312 AATGATAATG
47922322 ATAATATAA
1 ATAATATAA
* *
47922331 ATAACATTA
1 ATAATATAA
*
47922340 ATAATAATGA
1 ATAAT-ATAA
47922350 ATAATATAA
1 ATAATATAA
* *
47922359 AT-TTTTGAA
1 ATAATAT-AA
47922368 AGT-ATATAA
1 A-TAATATAA
*
47922377 AAAATATAA
1 ATAATATAA
47922386 ATAA-ATAA
1 ATAATATAA
47922394 ATAA-ATAA
1 ATAATATAA
47922402 TGAAATAACA
Statistics
Matches: 56, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
8 14 0.25
9 31 0.55
10 11 0.20
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (9 bp):
ATAATATAA
Found at i:47922582 original size:3 final size:3
Alignment explanation
Indices: 47922574--47922600 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
47922564 AAACAGTTAA
47922574 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
47922601 TGAAGTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:47923633 original size:27 final size:26
Alignment explanation
Indices: 47923603--47923653 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
47923593 ATGAAATTCT
*
47923603 TACAAA-CAATATGATTGATTAACAATA
1 TACAAAGCAA-ATGA-TGAATAACAATA
47923630 TACAAAGCAAATGATGAATAACAA
1 TACAAAGCAAATGATGAATAACAA
47923654 ATTAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 10 0.45
28 3 0.14
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.24
Consensus pattern (26 bp):
TACAAAGCAAATGATGAATAACAATA
Found at i:47924146 original size:32 final size:31
Alignment explanation
Indices: 47924110--47924210 Score: 77
Period size: 32 Copynumber: 3.2 Consensus size: 31
47924100 AATAATGTTT
47924110 AAAAACATATGAATATAATAATAGATTTATCC
1 AAAAACATATGAATATAATAATAGATTTAT-C
* *
47924142 AAAAACTTCAATAGTAA-AAAATAATA-ATGTT-T-
1 AAAAACAT--AT-G-AATATAATAATAGAT-TTATC
*
47924174 -AAAACATATGAATGTAATAATAGATTTATTC
1 AAAAACATATGAATATAATAATAGATTTA-TC
47924205 AAAAAC
1 AAAAAC
47924211 TTTGAAGACA
Statistics
Matches: 53, Mismatches: 5, Indels: 22
0.66 0.06 0.28
Matches are distributed among these distances:
27 2 0.04
28 10 0.19
29 4 0.08
30 1 0.02
31 6 0.11
32 12 0.23
34 5 0.09
35 11 0.21
36 2 0.04
ACGTcount: A:0.54, C:0.08, G:0.07, T:0.31
Consensus pattern (31 bp):
AAAAACATATGAATATAATAATAGATTTATC
Found at i:47924193 original size:63 final size:65
Alignment explanation
Indices: 47924085--47924212 Score: 206
Period size: 63 Copynumber: 2.0 Consensus size: 65
47924075 AATATTAAGC
47924085 CAATAATAAAGAAAAAATAATGTTTAAAAACATATGAATATAATAATAGATTTATCCAAAAACTT
1 CAATAATAAAGAAAAAATAATGTTTAAAAACATATGAATATAATAATAGATTTATCCAAAAACTT
* * * *
47924150 CAATAGTAAA-AAATAATAATGTTT-AAAACATATGAATGTAATAATAGATTTATTCAAAAACTT
1 CAATAATAAAGAAAAAATAATGTTTAAAAACATATGAATATAATAATAGATTTATCCAAAAACTT
47924213 TGAAGACAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 37 0.63
64 13 0.22
65 9 0.15
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (65 bp):
CAATAATAAAGAAAAAATAATGTTTAAAAACATATGAATATAATAATAGATTTATCCAAAAACTT
Found at i:47924960 original size:12 final size:13
Alignment explanation
Indices: 47924937--47924964 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
47924927 GAAAAAAAGG
47924937 AAAAGATAAAAAA
1 AAAAGATAAAAAA
47924950 AAAAGATAAAAAA
1 AAAAGATAAAAAA
47924963 AA
1 AA
47924965 CCCTAAGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (13 bp):
AAAAGATAAAAAA
Found at i:47930935 original size:30 final size:29
Alignment explanation
Indices: 47930910--47930969 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
47930900 TTTGATTCTT
*
47930910 TTTAATAATATAAGAACTAATTTGATTGA
1 TTTAATAATAGAAGAACTAATTTGATTGA
* *
47930939 TTTAATAGTAGAGGAACTAATTTGATCTGA
1 TTTAATAATAGAAGAACTAATTTGAT-TGA
47930969 T
1 T
47930970 ATAAAGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (29 bp):
TTTAATAATAGAAGAACTAATTTGATTGA
Found at i:47941788 original size:55 final size:55
Alignment explanation
Indices: 47941700--47941809 Score: 184
Period size: 55 Copynumber: 2.0 Consensus size: 55
47941690 CTGAGTATGA
* *
47941700 AATACTCAGCGTACGGTTGTTTCCGTGCGCAGGTCAGTAGAAATTAAGGTCCCGG
1 AATACTCAGCGTACGGTTGTTTCCATGCACAGGTCAGTAGAAATTAAGGTCCCGG
* *
47941755 AATACTCAGCGTACGGTTGTTTCCATGCACAGGTTAGTAGAAATTAAGGTTCCGG
1 AATACTCAGCGTACGGTTGTTTCCATGCACAGGTCAGTAGAAATTAAGGTCCCGG
47941810 CTCAGCATCC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (55 bp):
AATACTCAGCGTACGGTTGTTTCCATGCACAGGTCAGTAGAAATTAAGGTCCCGG
Found at i:47947109 original size:12 final size:12
Alignment explanation
Indices: 47947092--47947152 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
47947082 TAAGTATAAG
47947092 AAAATAACAATA
1 AAAATAACAATA
47947104 AAAATAAC--TA
1 AAAATAACAATA
47947114 AAAATAACAATA
1 AAAATAACAATA
**
47947126 AGCATAA-ACAT-
1 AAAATAACA-ATA
*
47947137 AAAATAAAAATA
1 AAAATAACAATA
47947149 AAAA
1 AAAA
47947153 AATAAACTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
10 10 0.25
11 8 0.20
12 22 0.55
ACGTcount: A:0.74, C:0.08, G:0.02, T:0.16
Consensus pattern (12 bp):
AAAATAACAATA
Found at i:47947968 original size:14 final size:14
Alignment explanation
Indices: 47947949--47947975 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47947939 GGATGACATC
47947949 ACATGCTGTAGAGT
1 ACATGCTGTAGAGT
47947963 ACATGCTGTAGAG
1 ACATGCTGTAGAG
47947976 CAAATGCAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (14 bp):
ACATGCTGTAGAGT
Found at i:47948782 original size:15 final size:15
Alignment explanation
Indices: 47948745--47948782 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
47948735 AATAACAAAA
*
47948745 AAAAT-AAAGATACT
1 AAAATAAAAGAAACT
47948759 AAAATAAAAGAAACT
1 AAAATAAAAGAAACT
47948774 AAAATAAAA
1 AAAATAAAA
47948783 TAATAAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (15 bp):
AAAATAAAAGAAACT
Found at i:47948846 original size:8 final size:8
Alignment explanation
Indices: 47948820--47948857 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
47948810 GAAGTAACTA
47948820 AAATAAA-
1 AAATAAAC
* *
47948827 ATATAAAT
1 AAATAAAC
47948835 AAATAAAC
1 AAATAAAC
47948843 AAATAAAC
1 AAATAAAC
47948851 AAATAAA
1 AAATAAA
47948858 AGGGGAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (8 bp):
AAATAAAC
Found at i:47949010 original size:8 final size:8
Alignment explanation
Indices: 47948997--47949022 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
47948987 GTGTATGTGG
47948997 GGGAGAAA
1 GGGAGAAA
47949005 GGGAGAAA
1 GGGAGAAA
47949013 GGGAGAAA
1 GGGAGAAA
47949021 GG
1 GG
47949023 AGGAGAGGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (8 bp):
GGGAGAAA
Found at i:47955832 original size:58 final size:58
Alignment explanation
Indices: 47955742--47955853 Score: 224
Period size: 58 Copynumber: 1.9 Consensus size: 58
47955732 TATATATTAC
47955742 CTGTGAAACTCTTACATGGGATTTATGCGTGCACTTAGAAAGATTCCTTTAAATTTAA
1 CTGTGAAACTCTTACATGGGATTTATGCGTGCACTTAGAAAGATTCCTTTAAATTTAA
47955800 CTGTGAAACTCTTACATGGGATTTATGCGTGCACTTAGAAAGATTCCTTTAAAT
1 CTGTGAAACTCTTACATGGGATTTATGCGTGCACTTAGAAAGATTCCTTTAAAT
47955854 ACATTTGACA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (58 bp):
CTGTGAAACTCTTACATGGGATTTATGCGTGCACTTAGAAAGATTCCTTTAAATTTAA
Found at i:47956591 original size:30 final size:31
Alignment explanation
Indices: 47956557--47956630 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
47956547 CAGTGGGAGG
*
47956557 AAATTGTACTTAAATT-TTT-AAAAATGATAA
1 AAATT-TAATTAAATTCTTTAAAAAATGATAA
* *
47956587 AAATTTAATTTAATTCTTTAAAAAATTATAA
1 AAATTTAATTAAATTCTTTAAAAAATGATAA
47956618 AAATATTAATTAA
1 AAAT-TTAATTAA
47956631 TACATTAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 8 0.22
30 8 0.22
31 14 0.38
32 7 0.19
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (31 bp):
AAATTTAATTAAATTCTTTAAAAAATGATAA
Found at i:47956618 original size:31 final size:31
Alignment explanation
Indices: 47956569--47956647 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
47956559 ATTGTACTTA
*
47956569 AATT-TTT-AAAAATGATAAAAAT-TTAATTT
1 AATTCTTTAAAAAATTATAAAAATATTAA-TT
47956598 AATTCTTTAAAAAATTATAAAAATATTAATT
1 AATTCTTTAAAAAATTATAAAAATATTAATT
* * *
47956629 AATACATTAATAAATTATA
1 AATTCTTTAAAAAATTATA
47956648 TTTGAATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 4 0.09
30 3 0.07
31 32 0.74
32 4 0.09
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (31 bp):
AATTCTTTAAAAAATTATAAAAATATTAATT
Found at i:47962331 original size:26 final size:25
Alignment explanation
Indices: 47962270--47962331 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
47962260 TTTATATTTA
* *
47962270 TATTTA-TATTAAATTATATTTAAT
1 TATTTATTATTAAAATATATTAAAT
* *
47962294 AATTTTTGTATTAAAATATGATTAAAT
1 TATTTAT-TATTAAAATAT-ATTAAAT
47962321 TATTTATTATT
1 TATTTATTATT
47962332 TATTATTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
24 4 0.14
26 14 0.48
27 11 0.38
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (25 bp):
TATTTATTATTAAAATATATTAAAT
Found at i:47962866 original size:12 final size:12
Alignment explanation
Indices: 47962849--47962873 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47962839 TGTGTTCATT
47962849 CGGTTAACCGAC
1 CGGTTAACCGAC
47962861 CGGTTAACCGAC
1 CGGTTAACCGAC
47962873 C
1 C
47962874 CGAAATTACT
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:47968267 original size:22 final size:23
Alignment explanation
Indices: 47968231--47968282 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
47968221 TCTTTTATTA
* *
47968231 AAGGATATTAATTGAAAAGTTTG
1 AAGGATATAAATTGAAAAGTATG
47968254 AAGGAT-TAAATTGAAAAGTATG
1 AAGGATATAAATTGAAAAGTATG
47968276 AGAGGAT
1 A-AGGAT
47968283 CTTTTAGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (23 bp):
AAGGATATAAATTGAAAAGTATG
Found at i:47973209 original size:11 final size:11
Alignment explanation
Indices: 47973191--47973223 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
47973181 TACACCAATG
47973191 AATAACAAACA
1 AATAACAAACA
*
47973202 ATTAACAAACA
1 AATAACAAACA
47973213 AAT-ACAAACA
1 AATAACAAACA
47973223 A
1 A
47973224 GCATAACAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.70, C:0.18, G:0.00, T:0.12
Consensus pattern (11 bp):
AATAACAAACA
Found at i:47981705 original size:13 final size:13
Alignment explanation
Indices: 47981687--47981711 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47981677 ATCTCAATCG
47981687 ATATCACCAAATT
1 ATATCACCAAATT
47981700 ATATCACCAAAT
1 ATATCACCAAAT
47981712 GTTGCCTAGC
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:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (13 bp):
ATATCACCAAATT
Found at i:47982134 original size:29 final size:29
Alignment explanation
Indices: 47982093--47982173 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 29
47982083 ATTTTGAAAT
* *
47982093 AATATAATTAAATTAATTCTTATAAACAA
1 AATAGAATTAAATTAATGCTTATAAACAA
**
47982122 AATAGAATTAAATTAATGCTTATAAATGA
1 AATAGAATTAAATTAATGCTTATAAACAA
* *
47982151 AATGGAATTAAATTAATGATTAT
1 AATAGAATTAAATTAATGCTTAT
47982174 GTATTACTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (29 bp):
AATAGAATTAAATTAATGCTTATAAACAA
Found at i:47988740 original size:30 final size:29
Alignment explanation
Indices: 47988706--47988800 Score: 100
Period size: 30 Copynumber: 3.2 Consensus size: 29
47988696 TAGTATTAAG
47988706 TTTTAAAAGTTTAATCAAAATTTTTAAAAT
1 TTTTAAAAGTTTAATCAAAA-TTTTAAAAT
** * * *
47988736 TTTTAAAAAATTAATGATAAATTTTGAATT
1 TTTTAAAAGTTTAATCA-AAATTTTAAAAT
* *
47988766 TTTTACAAGATTTAATTAAAATTTTAAAAT
1 TTTTAAAAG-TTTAATCAAAATTTTAAAAT
47988796 TTTTA
1 TTTTA
47988801 GGGTTTAAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
30 43 0.83
31 9 0.17
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.48
Consensus pattern (29 bp):
TTTTAAAAGTTTAATCAAAATTTTAAAAT
Found at i:47988952 original size:16 final size:16
Alignment explanation
Indices: 47988927--47988957 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47988917 TTAATTTGAC
*
47988927 ATATATATATTTATGA
1 ATATAAATATTTATGA
47988943 ATATAAATATTTATG
1 ATATAAATATTTATG
47988958 TATGTAAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
ATATAAATATTTATGA
Found at i:48001526 original size:21 final size:22
Alignment explanation
Indices: 48001480--48001523 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
48001470 AATTTTACAG
*
48001480 TAAAAAAGCCATGAAGATGTAT
1 TAAAAAAGCCATGAAGATGCAT
48001502 TAAAAAAGCCATGAAGATGCAT
1 TAAAAAAGCCATGAAGATGCAT
48001524 AAATCGGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.11, G:0.18, T:0.20
Consensus pattern (22 bp):
TAAAAAAGCCATGAAGATGCAT
Found at i:48001933 original size:16 final size:16
Alignment explanation
Indices: 48001864--48001931 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
48001854 TTTGGTTCGC
48001864 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
48001880 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
48001896 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
48001912 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
48001928 TGTA
1 TGTA
48001932 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:48001966 original size:45 final size:44
Alignment explanation
Indices: 48001912--48002006 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
48001902 GGATTAGAGG
* *
48001912 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
48001957 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
48002001 TGTAAT
1 TGTAAT
48002007 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:48002189 original size:18 final size:17
Alignment explanation
Indices: 48002168--48002202 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48002158 TTATTATTTA
*
48002168 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
48002186 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
48002203 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:48002196 original size:28 final size:27
Alignment explanation
Indices: 48002126--48002198 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
48002116 TTTATTATCA
*
48002126 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
48002154 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
48002181 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
48002199 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:48002315 original size:144 final size:147
Alignment explanation
Indices: 48002087--48002358 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
48002077 ATGATTATTG
48002087 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
48002152 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
48002217 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
48002236 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
48002298 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
48002359 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:48002333 original size:18 final size:17
Alignment explanation
Indices: 48002312--48002346 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48002302 TTATTATTAA
*
48002312 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
48002330 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
48002347 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:48008416 original size:11 final size:11
Alignment explanation
Indices: 48008389--48008431 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
48008379 TGACCTTTCC
48008389 AAGGTATGGG-
1 AAGGTATGGGA
*
48008399 TAGGTATGGGA
1 AAGGTATGGGA
*
48008410 AAGGTATGGGC
1 AAGGTATGGGA
48008421 AAGGTATGGGA
1 AAGGTATGGGA
48008432 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:48008428 original size:22 final size:21
Alignment explanation
Indices: 48008389--48008431 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
48008379 TGACCTTTCC
*
48008389 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
48008410 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
48008432 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:48012505 original size:18 final size:18
Alignment explanation
Indices: 48012478--48012570 Score: 114
Period size: 18 Copynumber: 5.2 Consensus size: 18
48012468 CCCAACTACT
* *
48012478 GTATATGTGAACAGTACC
1 GTATACGTGAATAGTACC
* * *
48012496 ATATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
* *
48012514 GTATACGTAAATAGTACT
1 GTATACGTGAATAGTACC
*
48012532 GTATACGTGAATAGTTCC
1 GTATACGTGAATAGTACC
48012550 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
48012568 GTA
1 GTA
48012571 AATGGTCGTA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:48013130 original size:11 final size:11
Alignment explanation
Indices: 48013103--48013145 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
48013093 TGACCTTTCC
48013103 AAGGTATGGG-
1 AAGGTATGGGA
*
48013113 TAGGTATGGGA
1 AAGGTATGGGA
*
48013124 AAGGTATGGGC
1 AAGGTATGGGA
48013135 AAGGTATGGGA
1 AAGGTATGGGA
48013146 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:48013142 original size:22 final size:21
Alignment explanation
Indices: 48013103--48013145 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
48013093 TGACCTTTCC
*
48013103 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
48013124 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
48013146 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:48017893 original size:63 final size:64
Alignment explanation
Indices: 48017773--48017895 Score: 221
Period size: 63 Copynumber: 1.9 Consensus size: 64
48017763 TCCAAAATGC
*
48017773 GGGCCCAGCTAATTTGATTTTTGCTCTAGTTGTGATTAATTTCATTCTCAATTTTCCAAAACAT
1 GGGCCCAACTAATTTGATTTTTGCTCTAGTTGTGATTAATTTCATTCTCAATTTTCCAAAACAT
*
48017837 GGGCCCAACTAATTTGATTTTTGC-CTAGTTGTGGTTAATTTCATTCTCAATTTTCCAAA
1 GGGCCCAACTAATTTGATTTTTGCTCTAGTTGTGATTAATTTCATTCTCAATTTTCCAAA
48017896 CTAAGATTAA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
63 34 0.60
64 23 0.40
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.42
Consensus pattern (64 bp):
GGGCCCAACTAATTTGATTTTTGCTCTAGTTGTGATTAATTTCATTCTCAATTTTCCAAAACAT
Found at i:48018189 original size:17 final size:17
Alignment explanation
Indices: 48018167--48018199 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
48018157 TGACATTGAC
48018167 CCTTCATCCTGATGGAT
1 CCTTCATCCTGATGGAT
48018184 CCTTCATCCTGATGGA
1 CCTTCATCCTGATGGA
48018200 GTTGTGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.33
Consensus pattern (17 bp):
CCTTCATCCTGATGGAT
Found at i:48018939 original size:21 final size:21
Alignment explanation
Indices: 48018900--48018939 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
48018890 AAGCCTAAAT
* * *
48018900 AAGATTGAAGAGTTGAAGGGA
1 AAGATCGAAGAGCTCAAGGGA
48018921 AAGATCGAAGAGCTCAAGG
1 AAGATCGAAGAGCTCAAGG
48018940 CCGCACTGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.07, G:0.35, T:0.15
Consensus pattern (21 bp):
AAGATCGAAGAGCTCAAGGGA
Found at i:48020839 original size:180 final size:180
Alignment explanation
Indices: 48020537--48020897 Score: 686
Period size: 180 Copynumber: 2.0 Consensus size: 180
48020527 AATTCATTTG
48020537 TTTTTGCTTCGATTTCTTTTGAATTTTAAGTCACATGCATACTACATGTAGCGGTGATAGTAGGA
1 TTTTTGCTTCGATTTCTTTTGAATTTTAAGTCACATGCATACTACATGTAGCGGTGATAGTAGGA
48020602 GTGCCCATAAGCAAAATTATTGTCGACAACTATATTTTTTCAGTTCCATATTTTTCCTTAATTAA
66 GTGCCCATAAGCAAAATTATTGTCGACAACTATATTTTTTCAGTTCCATATTTTTCCTTAATTAA
* *
48020667 CATAACTTATTGAGATTTATTCGTTATCACCATTTGCAAGTACCTGAACC
131 CATAACTTATTGAGATTTATTCATTATCACCATTTGCAAGCACCTGAACC
48020717 TTTTTGCTTCGATTTCTTTTGAATTTTAAGTCACATGCATACTACATGTAGCGGTGATAGTAGGA
1 TTTTTGCTTCGATTTCTTTTGAATTTTAAGTCACATGCATACTACATGTAGCGGTGATAGTAGGA
48020782 GTGCCCATAAGCAAAATTATTGTCGACAACTATATTTTTTCAGTTCCATATTTTTCCTTAATTAA
66 GTGCCCATAAGCAAAATTATTGTCGACAACTATATTTTTTCAGTTCCATATTTTTCCTTAATTAA
* *
48020847 CATAACTTATTGAGATTTATTCATTATCACTATTTGCAGGCACCTGAACC
131 CATAACTTATTGAGATTTATTCATTATCACCATTTGCAAGCACCTGAACC
48020897 T
1 T
48020898 CTTCTAGGGT
Statistics
Matches: 177, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
180 177 1.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (180 bp):
TTTTTGCTTCGATTTCTTTTGAATTTTAAGTCACATGCATACTACATGTAGCGGTGATAGTAGGA
GTGCCCATAAGCAAAATTATTGTCGACAACTATATTTTTTCAGTTCCATATTTTTCCTTAATTAA
CATAACTTATTGAGATTTATTCATTATCACCATTTGCAAGCACCTGAACC
Found at i:48021935 original size:90 final size:89
Alignment explanation
Indices: 48021644--48022090 Score: 544
Period size: 90 Copynumber: 5.0 Consensus size: 89
48021634 GAAAGAACAA
* * * *
48021644 TGAAGATAGCAAATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACAAGCCTTGCCT
48021709 CCCTGTACTGACAGCGGAGCAGAC
66 CCCTGTACTGACAGCGGAGCAGAC
* * * * *
48021733 TGAAGATAGCAGATCTTGCCTTCTTGTACTGGCAGCGAAACAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACAAGCCTTGCCT
* * *
48021798 TCCTGTACTGATAGCGGAACAGAC
66 CCCTGTACTGACAGCGGAGCAGAC
* *
48021822 TGAAGATAGCAGATCATGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATAGCAAGCCTTACC
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATA-CAAGCCTTGCC
* * *
48021887 TCCCTGTACTGGCAGTGGAGCAGGC
65 TCCCTGTACTGACAGCGGAGCAGAC
* * *
48021912 TGAAGATAGCAGGTCTTGTCTTCCTGTACTGACAGCGAAACAGA-CTGAAGATAGCAAGCCTTGC
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGATA-CAAGCCTTGC
* *
48021976 CTCCCTGTACTGGCAGCGGAGCAGGC
64 CTCCCTGTACTGACAGCGGAGCAGAC
*
48022002 TGAAGATAGCA-AGTCTTGCCTTCCTGTACTGACAGC-AGAGCAGA-CTGAAGATA-ACAGATCT
1 TGAAGATAGCAGA-TCTTGCCTTCCTGTACTGACAGCGA-AGCAGATC-GAAGATACA-AG-CCT
* * * *
48022063 TGCCTTCCTCTACTGACAGTGAAGCAGA
61 TGCCTCCCTGTACTGACAGCGGAGCAGA
48022091 TCGGAGATAC
Statistics
Matches: 315, Mismatches: 37, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
88 1 0.00
89 133 0.42
90 181 0.57
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (89 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACAAGCCTTGCCT
CCCTGTACTGACAGCGGAGCAGAC
Found at i:48021993 original size:135 final size:134
Alignment explanation
Indices: 48021644--48022090 Score: 508
Period size: 135 Copynumber: 3.3 Consensus size: 134
48021634 GAAAGAACAA
* * * * *
48021644 TGAAGATAGCAAATCTTGCCTTCCTATACTGACAGCGAAGCAGA-TCGAAGACACCAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAACAGACT-GAAGATAGCAGCCTTGCC
* *
48021708 TCCCTGTACTGACAGCGGAGCAGACTGAAGATAGC-AGATCTTGCCTTCTTGTACTGGCAGCGAA
65 TCCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAAG-TCTTGCCTTCCTGTACTGGCAGCGGA
* *
48021772 ACA-GA
129 GCAGGC
* * * * * * *
48021777 TCGAAGACACCAG-CCTTGCCTTCCTGTACTGATAGCGGAACAGACTGAAGATAGCAGATCATGC
1 T-GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAACAGACTGAAGATAGCAG-CCTTGC
* * * * * *
48021841 CTTCCTGTACTGACAGCGAAGCAGA-TCGAAGATAGCAAGCCTTACCTCCCTGTACTGGCAGTGG
64 CTCCCTGTACTGACAGCGGAGCAGACT-GAAGATAGCAAGTCTTGCCTTCCTGTACTGGCAGCGG
48021905 AGCAGGC
128 AGCAGGC
* *
48021912 TGAAGATAGCAGGTCTTGTCTTCCTGTACTGACAGCGAAACAGACTGAAGATAGCAAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAACAGACTGAAGATAGC-AGCCTTGCC
* * * *
48021977 TCCCTGTACTGGCAGCGGAGCAGGCTGAAGATAGCAAGTCTTGCCTTCCTGTACTGACAGCAGAG
65 TCCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAAGTCTTGCCTTCCTGTACTGGCAGCGGAG
*
48022042 CAGAC
130 CAGGC
* * * *
48022047 TGAAGATAACAGATCTTGCCTTCCTCTACTGACAGTGAAGCAGA
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAACAGA
48022091 TCGGAGATAC
Statistics
Matches: 258, Mismatches: 47, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
133 37 0.14
134 76 0.29
135 142 0.55
136 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (134 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAACAGACTGAAGATAGCAGCCTTGCCT
CCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAAGTCTTGCCTTCCTGTACTGGCAGCGGAGC
AGGC
Found at i:48022099 original size:45 final size:45
Alignment explanation
Indices: 48021644--48022090 Score: 455
Period size: 45 Copynumber: 10.0 Consensus size: 45
48021634 GAAAGAACAA
* *
48021644 TGAAGATAGCAAATCTTGCCTTCCTATACTGACAGCGAAGCAGA-
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * *
48021688 TCGAAGACACCAG-CCTTGCCTCCCTGTACTGACAGCGGAGCAGAC
1 T-GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * *
48021733 TGAAGATAGCAGATCTTGCCTTCTTGTACTGGCAGCGAAACAGA-
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * *
48021777 TCGAAGACACCAG-CCTTGCCTTCCTGTACTGATAGCGGAA-CAGAC
1 T-GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGC-GAAGCAGAC
*
48021822 TGAAGATAGCAGATCATGCCTTCCTGTACTGACAGCGAAGCAGA-
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * * * *
48021866 TCGAAGATAGCA-AGCCTTACCTCCCTGTACTGGCAGTGGAGCAGGC
1 T-GAAGATAGCAGA-TCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * *
48021912 TGAAGATAGCAGGTCTTGTCTTCCTGTACTGACAGCGAAACAGAC
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * *
48021957 TGAAGATAGCA-AGCCTTGCCTCCCTGTACTGGCAGCGGAGCAGGC
1 TGAAGATAGCAGA-TCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
48022002 TGAAGATAGCA-AGTCTTGCCTTCCTGTACTGACAGC-AGAGCAGAC
1 TGAAGATAGCAGA-TCTTGCCTTCCTGTACTGACAGCGA-AGCAGAC
* * *
48022047 TGAAGATAACAGATCTTGCCTTCCTCTACTGACAGTGAAGCAGA
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGA
48022091 TCGGAGATAC
Statistics
Matches: 327, Mismatches: 60, Indels: 31
0.78 0.14 0.07
Matches are distributed among these distances:
44 75 0.23
45 249 0.76
46 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (45 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
Found at i:48022324 original size:100 final size:99
Alignment explanation
Indices: 48022180--48022472 Score: 324
Period size: 100 Copynumber: 2.9 Consensus size: 99
48022170 AAAAACAATG
* * *
48022180 GCGAATCTTATTTCCCTTGGC-GATGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTT
1 GCGAATCTTACTTCCC-TGGCAG-TGCAGTGGAATAGATTGAAGCTACAAAGGCGAATCTTGCTT
* * *
48022244 CCTCGACATTGCAATTTAAA-AGATTGAAG-TCATAACG
64 CC-CGACATTGC-AGTTAAATAGATTGAAGCT-ACAACA
* * * * *
48022281 GCGGATCTTACTTTCCTGGCAGTGCAGCGGAATAGATTAAAGCTACAAAGGTGAATCTTGCTTCC
1 GCGAATCTTACTTCCCTGGCAGTGCAGTGGAATAGATTGAAGCTACAAAGGCGAATCTTGCTT-C
*
48022346 CCGAAATTGCAGTTAAATAGATTGAAGCTACAACA
65 CCGACATTGCAGTTAAATAGATTGAAGCTACAACA
* * * * *
48022381 GTGAATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTACGATA-GCGAATCTTACTTT
1 GCGAATCTTACTTCCCTGGCAGTGCAGTGGAATAGATTGAAGCTAC-AAAGGCGAATCTTGC-TT
*
48022445 CCCGACGTTGCAGTTAAATAGATTGAAG
64 CCCGACATTGCAGTTAAATAGATTGAAG
48022473 ATGGCAGATC
Statistics
Matches: 162, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
99 6 0.04
100 135 0.83
101 21 0.13
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (99 bp):
GCGAATCTTACTTCCCTGGCAGTGCAGTGGAATAGATTGAAGCTACAAAGGCGAATCTTGCTTCC
CGACATTGCAGTTAAATAGATTGAAGCTACAACA
Found at i:48022339 original size:50 final size:49
Alignment explanation
Indices: 48022285--48022443 Score: 165
Period size: 50 Copynumber: 3.2 Consensus size: 49
48022275 ATAACGGCGG
* * *
48022285 ATCTTACTTTCCTGGCAGTGCAGCGGAATAGATTAAAGCTACAAAGGTGA
1 ATCTTACTTCCCTGGCAGTGCAGTGGAATAGATTGAAGCTACAAA-GTGA
* * ** * **
48022335 ATCTTGCTTCCCCGAAATTGCAGTTAAATAGATTGAAGCTACAACAGTGA
1 ATCTTACTTCCCTGGCAGTGCAGTGGAATAGATTGAAGCTACAA-AGTGA
* * * *
48022385 ATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTACGATAGCGA
1 ATCTTACTTCCCTGGCAGTGCAGTGGAATAGATTGAAGCTAC-AAAGTGA
48022435 ATCTTACTT
1 ATCTTACTT
48022444 TCCCGACGTT
Statistics
Matches: 86, Mismatches: 21, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
50 84 0.98
51 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (49 bp):
ATCTTACTTCCCTGGCAGTGCAGTGGAATAGATTGAAGCTACAAAGTGA
Found at i:48022465 original size:50 final size:49
Alignment explanation
Indices: 48022311--48022472 Score: 173
Period size: 50 Copynumber: 3.2 Consensus size: 49
48022301 AGTGCAGCGG
* * * **
48022311 AATAGATTAAAGCTACAAAGGTGAATCTTGCTTCCCCGAAATTGCAGTTA
1 AATAGATTGAAGCTACAAA-GTGAATCTTACTTTCCCGACGTTGCAGTTA
* * * **
48022361 AATAGATTGAAGCTACAACAGTGAATCTTAC-TTCCCTGGCGGTGTAGTGG
1 AATAGATTGAAGCTACAA-AGTGAATCTTACTTTCCC-GACGTTGCAGTTA
* *
48022411 AATAGATTGAAGCTACGATAGCGAATCTTACTTTCCCGACGTTGCAGTTA
1 AATAGATTGAAGCTAC-AAAGTGAATCTTACTTTCCCGACGTTGCAGTTA
48022461 AATAGATTGAAG
1 AATAGATTGAAG
48022473 ATGGCAGATC
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
49 4 0.04
50 80 0.88
51 7 0.08
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (49 bp):
AATAGATTGAAGCTACAAAGTGAATCTTACTTTCCCGACGTTGCAGTTA
Found at i:48022617 original size:44 final size:43
Alignment explanation
Indices: 48022563--48022766 Score: 151
Period size: 44 Copynumber: 4.7 Consensus size: 43
48022553 CAGAAGAAGC
* * *
48022563 CAATCCTATCTCCTTGAATTTATAGTGGAGCGGATTAAAACCA
1 CAATCTTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAACCA
* * * * * * * **
48022606 CATATTTTATCTCCCTAAAGCTACAGAGGAGCAGA-CAAAAGAA
1 CA-ATCTTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAACCA
* ** **
48022649 GCCAATCCTATCTTTTTGAAGTTGTAGTGGAGCGGATTAAAACCA
1 --CAATCTTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAACCA
* *
48022694 CAAATCTTATCT-CTCTAAAGTTGCAGTGGAGCGGATTAAAACCA
1 C-AATCTTATCTCCT-TGAAGTTACAGTGGAGCGGATTAAAACCA
* *
48022738 CAGATTTTATCTCCTTGAAGTTGCAGTGG
1 CA-ATCTTATCTCCTTGAAGTTACAGTGG
48022767 GGCAGGTTGA
Statistics
Matches: 121, Mismatches: 32, Indels: 15
0.72 0.19 0.09
Matches are distributed among these distances:
43 10 0.08
44 102 0.84
45 9 0.07
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (43 bp):
CAATCTTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAACCA
Found at i:48022725 original size:88 final size:88
Alignment explanation
Indices: 48022522--48022725 Score: 300
Period size: 88 Copynumber: 2.3 Consensus size: 88
48022512 TCGCATCCAG
* * *
48022522 TCTTATCTCTCTGAAGTTGCAGAGGAGCAGACAGAAGAAGCCAATCCTATCTCCTTGAATTTATA
1 TCTTATCTCTCTAAAGTTGCAGAGGAGCAGACAAAAGAAGCCAATCCTATCTCCTTGAAGTTATA
*
48022587 GTGGAGCGGATTAAAACCACATA
66 GTGGAGCGGATTAAAACCACAAA
* * * * ** *
48022610 TTTTATCTCCCTAAAGCTACAGAGGAGCAGACAAAAGAAGCCAATCCTATCTTTTTGAAGTTGTA
1 TCTTATCTCTCTAAAGTTGCAGAGGAGCAGACAAAAGAAGCCAATCCTATCTCCTTGAAGTTATA
48022675 GTGGAGCGGATTAAAACCACAAA
66 GTGGAGCGGATTAAAACCACAAA
*
48022698 TCTTATCTCTCTAAAGTTGCAGTGGAGC
1 TCTTATCTCTCTAAAGTTGCAGAGGAGC
48022726 GGATTAAAAC
Statistics
Matches: 100, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 100 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (88 bp):
TCTTATCTCTCTAAAGTTGCAGAGGAGCAGACAAAAGAAGCCAATCCTATCTCCTTGAAGTTATA
GTGGAGCGGATTAAAACCACAAA
Found at i:48022749 original size:88 final size:87
Alignment explanation
Indices: 48022522--48022766 Score: 240
Period size: 88 Copynumber: 2.8 Consensus size: 87
48022512 TCGCATCCAG
* * * * * * * *
48022522 TCTTATCTCTCTGAAGTTGCAGAGGAGCAGACAGAAGAAGCCAATCCTATCTCCTTGAATTTATA
1 TCTTATCTCCCTAAAGCTACAGAGGAGCAGACAAAACAA-CCAATCCTATCTCCTTGAAGTTGTA
*
48022587 GTGGAGCGGATTAAAACCACATA
65 GTGGAGCGGATTAAAACCACAAA
* * **
48022610 TTTTATCTCCCTAAAGCTACAGAGGAGCAGACAAAAGAAGCCAATCCTATCTTTTTGAAGTTGTA
1 TCTTATCTCCCTAAAGCTACAGAGGAGCAGACAAAACAA-CCAATCCTATCTCCTTGAAGTTGTA
48022675 GTGGAGCGGATTAAAACCACAAA
65 GTGGAGCGGATTAAAACCACAAA
* * * * * * * ** *
48022698 TCTTATCTCTCTAAAGTTGCAGTGGAGCGGATTAAAACCA-CAGATTTTATCTCCTTGAAGTTGC
1 TCTTATCTCCCTAAAGCTACAGAGGAGCAGA-CAAAACAACCA-ATCCTATCTCCTTGAAGTTGT
48022762 AGTGG
64 AGTGG
48022767 GGCAGGTTGA
Statistics
Matches: 130, Mismatches: 25, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
87 2 0.02
88 123 0.95
89 5 0.04
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (87 bp):
TCTTATCTCCCTAAAGCTACAGAGGAGCAGACAAAACAACCAATCCTATCTCCTTGAAGTTGTAG
TGGAGCGGATTAAAACCACAAA
Found at i:48023610 original size:21 final size:21
Alignment explanation
Indices: 48023559--48023610 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
48023549 TTTTTTTTGG
*
48023559 AGAAATAAAAGAAGAGATTCA
1 AGAAAAAAAAGAAGAGATTCA
*
48023580 AGCAAAAAAAGTAAGAGA-TC-
1 AGAAAAAAAAG-AAGAGATTCA
48023600 AGAAAAGAAAA
1 AGAAAA-AAAA
48023611 TCCCGAAAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 5 0.19
21 15 0.58
22 6 0.23
ACGTcount: A:0.65, C:0.06, G:0.19, T:0.10
Consensus pattern (21 bp):
AGAAAAAAAAGAAGAGATTCA
Found at i:48025478 original size:108 final size:108
Alignment explanation
Indices: 48025341--48025546 Score: 335
Period size: 108 Copynumber: 1.9 Consensus size: 108
48025331 AAAAATAATA
*
48025341 AAGGCAATATTTTGCATTTCAGAATTCGA-GAAAGCGTGCCCTAATGTGTTGGGTTTCGATTTTT
1 AAGGCAATATTTTGCATTTCAAAATTCGAGGAAA-CGTGCCCTAATGTGTTGGGTTTCGA-TTTT
48025405 TTTCGTTCAACCAAATAGCCAAATATCCT-TTAAAATTTCAGAGT
64 TTTCGTTCAACCAAATAGCCAAATATCCTCTTAAAATTTCAGAGT
*
48025449 AAGGCAATATTTTGCGTTTCAAAATTCGAGGAAACGTGCCCTAATGTGTTGGGTTTCGATTTTTT
1 AAGGCAATATTTTGCATTTCAAAATTCGAGGAAACGTGCCCTAATGTGTTGGGTTTCGATTTTTT
** *
48025514 TCGTTTGACCAAATAGCCAAATATTCTCTTAAA
66 TCGTTCAACCAAATAGCCAAATATCCTCTTAAA
48025547 TCTTAGTCCA
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
107 30 0.33
108 57 0.63
109 4 0.04
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (108 bp):
AAGGCAATATTTTGCATTTCAAAATTCGAGGAAACGTGCCCTAATGTGTTGGGTTTCGATTTTTT
TCGTTCAACCAAATAGCCAAATATCCTCTTAAAATTTCAGAGT
Found at i:48026887 original size:3 final size:3
Alignment explanation
Indices: 48026879--48026908 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
48026869 TACATTTCAA
*
48026879 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
48026909 CACTTGATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:48030672 original size:18 final size:18
Alignment explanation
Indices: 48030649--48030685 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
48030639 ATTTGGCCTT
48030649 TTCTTGGGGACTTGACTC
1 TTCTTGGGGACTTGACTC
*
48030667 TTCTTGGGGACTTGCCTC
1 TTCTTGGGGACTTGACTC
48030685 T
1 T
48030686 ACAATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.24, G:0.27, T:0.41
Consensus pattern (18 bp):
TTCTTGGGGACTTGACTC
Found at i:48033499 original size:20 final size:19
Alignment explanation
Indices: 48033453--48033490 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
48033443 TAATGCTGTA
*
48033453 TATGTAAA-ATATTTGTTT
1 TATGTAAAGAGATTTGTTT
48033471 TATGTAAAGAGATTTGTTT
1 TATGTAAAGAGATTTGTTT
48033490 T
1 T
48033491 CTGGTAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.53
Consensus pattern (19 bp):
TATGTAAAGAGATTTGTTT
Found at i:48033583 original size:19 final size:21
Alignment explanation
Indices: 48033540--48033584 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
48033530 ACCTCTTTTT
48033540 TGCATT-CATTTCATTCATCA
1 TGCATTACATTTCATTCATCA
*
48033560 -ACATTACATTTCA-TCAT-A
1 TGCATTACATTTCATTCATCA
48033578 TGCATTA
1 TGCATTA
48033585 AATTCCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 1 0.05
19 13 0.62
20 7 0.33
ACGTcount: A:0.31, C:0.22, G:0.04, T:0.42
Consensus pattern (21 bp):
TGCATTACATTTCATTCATCA
Found at i:48036734 original size:58 final size:58
Alignment explanation
Indices: 48036664--48036798 Score: 234
Period size: 58 Copynumber: 2.3 Consensus size: 58
48036654 ACTTCTGATC
*
48036664 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCCGTGACAAGTGACA
1 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACA
*
48036722 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATTTGATCAGTGACAAGTGACA
1 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACA
* *
48036780 AGTAAGAAGTGATAAGTGA
1 AGTGACAAGTGATAAGTGA
48036799 GAAGTGATAA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 73 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.26
Consensus pattern (58 bp):
AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGACA
Found at i:48036742 original size:7 final size:7
Alignment explanation
Indices: 48036709--48036740 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
48036699 TATCTGATCC
48036709 GTGACAA
1 GTGACAA
48036716 GTGACAA
1 GTGACAA
48036723 GTGACAA
1 GTGACAA
*
48036730 GTGATAA
1 GTGACAA
48036737 GTGA
1 GTGA
48036741 TAGCTTCAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (7 bp):
GTGACAA
Found at i:48036778 original size:7 final size:7
Alignment explanation
Indices: 48036761--48036818 Score: 62
Period size: 7 Copynumber: 8.3 Consensus size: 7
48036751 TACACTTATT
*
48036761 TGATCAG
1 TGATAAG
*
48036768 TGACAAG
1 TGATAAG
*
48036775 TGACAAG
1 TGATAAG
* *
48036782 TAAGAAG
1 TGATAAG
48036789 TGATAAG
1 TGATAAG
*
48036796 TGAGAAG
1 TGATAAG
48036803 TGATAAG
1 TGATAAG
48036810 TGATAAG
1 TGATAAG
48036817 TG
1 TG
48036819 GTAGCTTTAG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.41, C:0.05, G:0.31, T:0.22
Consensus pattern (7 bp):
TGATAAG
Found at i:48036796 original size:21 final size:21
Alignment explanation
Indices: 48036766--48036818 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
48036756 TTATTTGATC
*
48036766 AGTGACAAGTGACAAGTAAGA
1 AGTGATAAGTGACAAGTAAGA
* * *
48036787 AGTGATAAGTGAGAAGTGATA
1 AGTGATAAGTGACAAGTAAGA
48036808 AGTGATAAGTG
1 AGTGATAAGTG
48036819 GTAGCTTTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.32, T:0.21
Consensus pattern (21 bp):
AGTGATAAGTGACAAGTAAGA
Found at i:48036811 original size:14 final size:14
Alignment explanation
Indices: 48036761--48036818 Score: 71
Period size: 14 Copynumber: 4.1 Consensus size: 14
48036751 TACACTTATT
* *
48036761 TGATCAGTGACAAG
1 TGATAAGTGAGAAG
* *
48036775 TGACAAGTAAGAAG
1 TGATAAGTGAGAAG
48036789 TGATAAGTGAGAAG
1 TGATAAGTGAGAAG
*
48036803 TGATAAGTGATAAG
1 TGATAAGTGAGAAG
48036817 TG
1 TG
48036819 GTAGCTTTAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.41, C:0.05, G:0.31, T:0.22
Consensus pattern (14 bp):
TGATAAGTGAGAAG
Found at i:48036869 original size:79 final size:79
Alignment explanation
Indices: 48036709--48036861 Score: 234
Period size: 79 Copynumber: 1.9 Consensus size: 79
48036699 TATCTGATCC
*
48036709 GTGACAAGTGACAAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATTTGATCAGTGACAA
1 GTGACAAGTGACAAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAA
*
48036774 GTGACAAGTAAGAA
66 GTAACAAGTAAGAA
* * * * * *
48036788 GTGATAAGTGAGAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGATAA
1 GTGACAAGTGACAAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAA
48036853 GTAACAAGT
66 GTAACAAGT
48036862 GATAAGTGGT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 66 1.00
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.27
Consensus pattern (79 bp):
GTGACAAGTGACAAGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAA
GTAACAAGTAAGAA
Found at i:48036870 original size:51 final size:51
Alignment explanation
Indices: 48036789--48037016 Score: 343
Period size: 51 Copynumber: 4.5 Consensus size: 51
48036779 AAGTAAGAAG
* * *
48036789 TGATAAGTGAGAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
* * *
48036840 TGATCAGTGATAAGTAACAAGTGATAAGTGGTAGCTTCAGCTACACTTATC
1 TGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
*
48036891 TGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACTCTTATC
1 TGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
48036942 TGATCAGTGACAAGT-AGCAAGTGATAAGTGGTAGC-TTAGCTACACTTATC
1 TGATCAGTGACAAGTGA-CAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
* * *
48036992 TGATCAGGGATAAGTGATAAGTGAT
1 TGATCAGTGACAAGTGACAAGTGAT
48037017 CATACGTAAG
Statistics
Matches: 162, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
50 35 0.22
51 127 0.78
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (51 bp):
TGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
Found at i:48043136 original size:28 final size:27
Alignment explanation
Indices: 48043084--48043152 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 27
48043074 TTGAATATCT
* ** *
48043084 AATTTTTTA-AAAATATAATTTATTTC
1 AATTTTTTATAAAATAAAATCAATTTA
48043110 AATTTTTTAATAAAATAAAATCAATTTA
1 AATTTTTT-ATAAAATAAAATCAATTTA
48043138 ATATTTTTTGATAAA
1 A-ATTTTTT-ATAAA
48043153 TAGTTACCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 8 0.23
27 1 0.03
28 14 0.40
29 12 0.34
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (27 bp):
AATTTTTTATAAAATAAAATCAATTTA
Found at i:48049079 original size:14 final size:14
Alignment explanation
Indices: 48049056--48049086 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
48049046 GGATTAAATC
*
48049056 TAATATAAATTAAA
1 TAATAGAAATTAAA
48049070 TAATAGAAATTAAA
1 TAATAGAAATTAAA
48049084 TAA
1 TAA
48049087 AAATAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (14 bp):
TAATAGAAATTAAA
Found at i:48051059 original size:31 final size:32
Alignment explanation
Indices: 48050995--48051059 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
48050985 GGCAAATTAC
* *
48050995 AAGAGTAATTGAATCGTAATAAAAATTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
48051027 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
48051058 AA
1 AA
48051060 ATTATCTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 12 0.39
32 19 0.61
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.32
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:48054213 original size:12 final size:12
Alignment explanation
Indices: 48054196--48054224 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
48054186 GTAGGCAACT
48054196 TTTTTTTTGCGC
1 TTTTTTTTGCGC
48054208 TTTTTTTTGCGC
1 TTTTTTTTGCGC
48054220 TTTTT
1 TTTTT
48054225 ACTCTCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.14, G:0.14, T:0.72
Consensus pattern (12 bp):
TTTTTTTTGCGC
Found at i:48054252 original size:20 final size:19
Alignment explanation
Indices: 48054229--48054276 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
48054219 CTTTTTACTC
48054229 TCTTTTTTTAGAGTTTTTTT
1 TCTTTTTTT-GAGTTTTTTT
**
48054249 TCTTTTTTTTTGTTTTTTT
1 TCTTTTTTTGAGTTTTTTT
*
48054268 TGTTTTTTT
1 TCTTTTTTT
48054277 TTGCTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.04, C:0.04, G:0.08, T:0.83
Consensus pattern (19 bp):
TCTTTTTTTGAGTTTTTTT
Found at i:48054255 original size:10 final size:10
Alignment explanation
Indices: 48054242--48054284 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
48054232 TTTTTTAGAG
48054242 TTTTTTTTCT
1 TTTTTTTTCT
*
48054252 TTTTTTTTGT
1 TTTTTTTTCT
48054262 TTTTTTTGT-T
1 TTTTTTT-TCT
*
48054272 TTTTTTTGCT
1 TTTTTTTTCT
48054282 TTT
1 TTT
48054285 ATTTAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 28 0.97
11 1 0.03
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:48054276 original size:19 final size:19
Alignment explanation
Indices: 48054241--48054284 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
48054231 TTTTTTTAGA
48054241 GTTTTTTTTCTTTTTTTTT
1 GTTTTTTTTCTTTTTTTTT
*
48054260 GTTTTTTTTGTTTTTTTTT
1 GTTTTTTTTCTTTTTTTTT
48054279 GCTTTT
1 G-TTTT
48054285 ATTTAAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (19 bp):
GTTTTTTTTCTTTTTTTTT
Found at i:48054284 original size:9 final size:9
Alignment explanation
Indices: 48054241--48054277 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
48054231 TTTTTTTAGA
48054241 GTTTTTTTT
1 GTTTTTTTT
*
48054250 CTTTTTTTTT
1 -GTTTTTTTT
48054260 GTTTTTTTT
1 GTTTTTTTT
48054269 GTTTTTTTT
1 GTTTTTTTT
48054278 TGCTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.89
Consensus pattern (9 bp):
GTTTTTTTT
Found at i:48054895 original size:31 final size:32
Alignment explanation
Indices: 48054836--48054900 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
48054826 GGCAAATTAC
48054836 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
48054868 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
48054899 AA
1 AA
48054901 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:48058857 original size:33 final size:33
Alignment explanation
Indices: 48058820--48058882 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
48058810 TTCATTTATA
48058820 ATTATTTAATA-AT-ATTTTAGTAATTTTTTTCAT
1 ATTA-TTAATATATAATTTTAGT-ATTTTTTTCAT
48058853 ATTATTAATATATAATTTTAGTATTTTTTT
1 ATTATTAATATATAATTTTAGTATTTTTTT
48058883 AACTTAAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 6 0.21
33 14 0.50
34 8 0.29
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (33 bp):
ATTATTAATATATAATTTTAGTATTTTTTTCAT
Done.