Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 98 of 333
Found at i:31280298 original size:28 final size:27
Alignment explanation
Indices: 31280235--31280302 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
31280225 ATATTAAGTC
*
31280235 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
31280262 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
31280290 CGCACACTTAGTG
1 CGCACACTTAGTG
31280303 ATGTACAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:31295035 original size:56 final size:57
Alignment explanation
Indices: 31294916--31295037 Score: 151
Period size: 56 Copynumber: 2.2 Consensus size: 57
31294906 AATCCCTCTC
* ** * * *
31294916 GAGCATATGTTACAGTTAGGATTTAACCTGGACTGGTAATCCTAGTTGAGCTCTTCT
1 GAGCATATGCTACAGAAAGGATTTAACCTAGACTAGTAATCCTAGTTGAGCTCTTAT
31294973 GAGCATATGCTACAGAAAGGATTT-ACCTAGACTAGTAATCCT-GATT-ATGCTCTTAT
1 GAGCATATGCTACAGAAAGGATTTAACCTAGACTAGTAATCCTAG-TTGA-GCTCTTAT
31295029 GAGCATATG
1 GAGCATATG
31295038 TTGGAAACAA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
55 2 0.04
56 34 0.60
57 21 0.37
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (57 bp):
GAGCATATGCTACAGAAAGGATTTAACCTAGACTAGTAATCCTAGTTGAGCTCTTAT
Found at i:31298327 original size:38 final size:38
Alignment explanation
Indices: 31298276--31298352 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
31298266 AGAAAGGGTG
*
31298276 TATACCTTCCTACATACAACTATGGAAGATTCTTATGA
1 TATACCTCCCTACATACAACTATGGAAGATTCTTATGA
31298314 TATACCTCCCTACATACAACTATGGAAGATTCTTATGA
1 TATACCTCCCTACATACAACTATGGAAGATTCTTATGA
31298352 T
1 T
31298353 TGGCGGATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (38 bp):
TATACCTCCCTACATACAACTATGGAAGATTCTTATGA
Found at i:31299770 original size:8 final size:8
Alignment explanation
Indices: 31299759--31299792 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
31299749 TAAAATTCTA
31299759 AAAATATT
1 AAAATATT
31299767 AAAATATT
1 AAAATATT
31299775 AAAATATAT
1 AAAATAT-T
*
31299784 CAAATATT
1 AAAATATT
31299792 A
1 A
31299793 TTATGTCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (8 bp):
AAAATATT
Found at i:31303337 original size:46 final size:46
Alignment explanation
Indices: 31303275--31303378 Score: 174
Period size: 46 Copynumber: 2.3 Consensus size: 46
31303265 TTATATGACC
* *
31303275 TAATAT-ATATATACACTCATATGCATAAACTCGTGAATCAAACTT
1 TAATATCATATACACACTCATATGCATAAACTCGTGAATCAAACAT
31303320 TAATATCATATACACACTCATATGCATAAACTCGTGAATCAAACAT
1 TAATATCATATACACACTCATATGCATAAACTCGTGAATCAAACAT
*
31303366 TAATATCACATAC
1 TAATATCATATAC
31303379 TTATACATAA
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 6 0.11
46 49 0.89
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (46 bp):
TAATATCATATACACACTCATATGCATAAACTCGTGAATCAAACAT
Found at i:31303672 original size:43 final size:43
Alignment explanation
Indices: 31303622--31303728 Score: 160
Period size: 43 Copynumber: 2.5 Consensus size: 43
31303612 AATGTCAACA
* *
31303622 TCCCAGACGTGGTCTTACATGTAATCACATATCGATGCTACTG
1 TCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCAATG
** * *
31303665 TCCCAGACAAGGTCTTACACGTAATCACTTATCGATGCCAATG
1 TCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCAATG
31303708 TCCCAGACGTGGTCTTACATG
1 TCCCAGACGTGGTCTTACATG
31303729 AGAACACATA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCAATG
Found at i:31305303 original size:6 final size:6
Alignment explanation
Indices: 31305277--31305336 Score: 54
Period size: 6 Copynumber: 9.8 Consensus size: 6
31305267 TTACTGTTAG
*
31305277 TTCTTCT TTCGTT TT-TTT TTCTTT TTCCTTT TTCTTT TTC--T TTCTTT
1 TTCTT-T TTCTTT TTCTTT TTCTTT TT-CTTT TTCTTT TTCTTT TTCTTT
31305324 TCTACTTT TTCTT
1 T-T-CTTT TTCTT
31305337 CTTTTTTGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 20 0.44
7 12 0.27
8 5 0.11
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.77
Consensus pattern (6 bp):
TTCTTT
Found at i:31305310 original size:13 final size:12
Alignment explanation
Indices: 31305277--31305336 Score: 54
Period size: 13 Copynumber: 4.9 Consensus size: 12
31305267 TTACTGTTAG
*
31305277 TTCTTCTTTCGTT
1 TTCTT-TTTCTTT
31305290 TT-TTTTTCTTT
1 TTCTTTTTCTTT
31305301 TTCCTTTTTCTTT
1 TT-CTTTTTCTTT
31305314 TTC--TTTCTTT
1 TTCTTTTTCTTT
31305324 TCTACTTTTTCTT
1 T-T-CTTTTTCTT
31305337 CTTTTTTGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
10 8 0.20
11 9 0.22
12 4 0.10
13 13 0.32
14 6 0.15
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.77
Consensus pattern (12 bp):
TTCTTTTTCTTT
Found at i:31305315 original size:24 final size:24
Alignment explanation
Indices: 31305283--31305343 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
31305273 TTAGTTCTTC
*
31305283 TTTCGTTTTTTTTTCTTTT-TCCTT
1 TTTC-TTTTTTTTTCTTTTCTACTT
*
31305307 TTTCTTTTTCTTTCTTTTCTACTT
1 TTTCTTTTTTTTTCTTTTCTACTT
*
31305331 TTTCTTCTTTTTT
1 TTTCTTTTTTTTT
31305344 GATTTTCCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 13 0.41
24 19 0.59
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (24 bp):
TTTCTTTTTTTTTCTTTTCTACTT
Found at i:31305355 original size:24 final size:23
Alignment explanation
Indices: 31305283--31305356 Score: 60
Period size: 24 Copynumber: 3.1 Consensus size: 23
31305273 TTAGTTCTTC
* * *
31305283 TTTCGTTTTTTTTTCTTTTTCCTT
1 TTTC-TTTTTCTTTATTTTCCCTT
* *
31305307 TTTCTTTTTCTTTCTTTTCTACTT
1 TTTCTTTTTCTTTATTTTC-CCTT
31305331 TTTCTTCTTT-TTTGATTTTCCCTT
1 TTTCTT-TTTCTTT-ATTTTCCCTT
31305355 TT
1 TT
31305357 CCTCTTTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
23 13 0.31
24 21 0.50
25 8 0.19
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.76
Consensus pattern (23 bp):
TTTCTTTTTCTTTATTTTCCCTT
Found at i:31305898 original size:62 final size:62
Alignment explanation
Indices: 31305751--31305912 Score: 184
Period size: 62 Copynumber: 2.6 Consensus size: 62
31305741 GTGTAGGGTT
* * * * *
31305751 CACATGGTCAAGGACACGGGCGTGTGCCCAAGCCATGTAACTCACTGTTTGCAGTATAAAAC
1 CACATGGCCAAGGACACGGGCATGTGCCCAGGCCGTGTAACTCACTGTTTACAGTATAAAAC
* * * *
31305813 CACATTGCCAGGGACACGAGCATGTGCCCGGGCCGTGTAACTCACTGTTTAC-GCT-TAAAAC
1 CACATGGCCAAGGACACGGGCATGTGCCCAGGCCGTGTAACTCACTGTTTACAG-TATAAAAC
* * *
31305874 CACATGGCCAAGGCAGAGGGGCATGTTCCCAGGCCGTGT
1 CACATGGCCAAGG-ACACGGGCATGTGCCCAGGCCGTGT
31305913 GGCAAGATGT
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
61 18 0.22
62 64 0.78
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.20
Consensus pattern (62 bp):
CACATGGCCAAGGACACGGGCATGTGCCCAGGCCGTGTAACTCACTGTTTACAGTATAAAAC
Found at i:31307729 original size:16 final size:16
Alignment explanation
Indices: 31307710--31307740 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31307700 CTTCTTCACT
31307710 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
31307726 TACTTACTTACTTAA
1 TACTCACTTACTTAA
31307741 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:31307746 original size:20 final size:20
Alignment explanation
Indices: 31307707--31307746 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
31307697 AAACTTCTTC
* *
31307707 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
31307727 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
31307747 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:31308114 original size:55 final size:53
Alignment explanation
Indices: 31307932--31308186 Score: 225
Period size: 55 Copynumber: 4.8 Consensus size: 53
31307922 ACATGGGTAC
* * * * *
31307932 CTTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTT---TTGA-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAAGAA
* * * *
31307981 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTACGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAAGAA
* * * * **
31308034 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CATTTTTCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATC-CTTGCCTTA-AG-AA
* *
31308089 CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTT-AGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAAG-AA
* * * *
31308142 CCTTACCAATTCCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
31308187 AAACCCTAAT
Statistics
Matches: 168, Mismatches: 28, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
49 40 0.24
52 3 0.02
53 44 0.26
54 8 0.05
55 72 0.43
56 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAAGAA
Found at i:31308123 original size:108 final size:110
Alignment explanation
Indices: 31307979--31308179 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
31307969 ATCCTTTTGA
*
31307979 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTACG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTCACCAA
*
31308042 -TGCCATGCCTTGGCATGGTCTTACATGGGACATTTTTCTTATAGT
65 TTCCCATGCCTTGGCATGGTCTTACATGGGACATTTTTCTTATAGT
* * *
31308087 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
31308152 TCCCATGCCTTGGCATGGTCTTACATGG
66 TCCCATGCCTTGGCATGGTCTTACATGG
31308180 TATCCTTAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 50 0.59
109 7 0.08
110 27 0.32
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
TCCCATGCCTTGGCATGGTCTTACATGGGACATTTTTCTTATAGT
Found at i:31310409 original size:30 final size:29
Alignment explanation
Indices: 31310373--31310433 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
31310363 AAACGGAAGT
31310373 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
31310403 TTTGGCACTAAGTGTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
31310432 TT
1 TT
31310434 CGGCTACTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:31313978 original size:182 final size:182
Alignment explanation
Indices: 31313665--31314038 Score: 703
Period size: 182 Copynumber: 2.1 Consensus size: 182
31313655 GATTAATTCG
* *
31313665 AAAGTGTCAGAAAAGAAAGTTAAATCTATGCCTGTTGTTTGTGAGTTCCCTGATGTGTTTCTTGA
1 AAAGTCTCAGAAAAGAAAGTTAAATCTATGCCTGTTGTTTGTAAGTTCCCTGATGTGTTTCTTGA
*
31313730 AGAACTTCCGGGATTACCTCCAGTTAGAGAGGTAGAATTTGGCATAGAATTGGTACCTGGTACTA
66 AGAACTCCCGGGATTACCTCCAGTTAGAGAGGTAGAATTTGGCATAGAATTGGTACCTGGTACTA
* *
31313795 CTCCAATTTCGATAGCTCTGTATAGAATGGCTTCAATCGAGTTAAAAGAATT
131 CTCCAATTTCGATAACTCCGTATAGAATGGCTTCAATCGAGTTAAAAGAATT
31313847 AAAGTCTCAGAAAAGAAAGTTAAATCTATGCCTGTTGTTTGTAAGTTCCCTGATGTGTTTCTTGA
1 AAAGTCTCAGAAAAGAAAGTTAAATCTATGCCTGTTGTTTGTAAGTTCCCTGATGTGTTTCTTGA
31313912 AGAACTCCCGGGATTACCTCCAGTTAGAGAGGTAGAATTTGGCATAGAATTGGTACCTGGTACTA
66 AGAACTCCCGGGATTACCTCCAGTTAGAGAGGTAGAATTTGGCATAGAATTGGTACCTGGTACTA
31313977 CTCCAATTTCGATAACTCCGTATAGAATGGCTTCAATCGAGTTAAAAGAATT
131 CTCCAATTTCGATAACTCCGTATAGAATGGCTTCAATCGAGTTAAAAGAATT
31314029 AAAGTCTCAG
1 AAAGTCTCAG
31314039 TTGCAAGAAT
Statistics
Matches: 187, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
182 187 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (182 bp):
AAAGTCTCAGAAAAGAAAGTTAAATCTATGCCTGTTGTTTGTAAGTTCCCTGATGTGTTTCTTGA
AGAACTCCCGGGATTACCTCCAGTTAGAGAGGTAGAATTTGGCATAGAATTGGTACCTGGTACTA
CTCCAATTTCGATAACTCCGTATAGAATGGCTTCAATCGAGTTAAAAGAATT
Found at i:31317449 original size:30 final size:29
Alignment explanation
Indices: 31317413--31317473 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
31317403 AAACGGAAGT
31317413 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
*
31317443 TTTGGCACTAAGTGTGGGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
31317472 TT
1 TT
31317474 CGGCTACTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:31326046 original size:54 final size:54
Alignment explanation
Indices: 31325981--31326093 Score: 190
Period size: 54 Copynumber: 2.1 Consensus size: 54
31325971 ATCTTTTGTA
*
31325981 CTCTTCATTCTTTTGTCATTATAGTAAAATTATCTTTGCCTGTAATTTTTTATC
1 CTCTTCATTCTTTTGCCATTATAGTAAAATTATCTTTGCCTGTAATTTTTTATC
* * *
31326035 CTCTTCGTTCTTTTGCCATTATAGTAAAATTATCTTTGTCTGTGATTTTTTATC
1 CTCTTCATTCTTTTGCCATTATAGTAAAATTATCTTTGCCTGTAATTTTTTATC
31326089 CTCTT
1 CTCTT
31326094 TGGAGGGGTT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.19, C:0.18, G:0.09, T:0.54
Consensus pattern (54 bp):
CTCTTCATTCTTTTGCCATTATAGTAAAATTATCTTTGCCTGTAATTTTTTATC
Found at i:31331179 original size:23 final size:23
Alignment explanation
Indices: 31331153--31331258 Score: 115
Period size: 23 Copynumber: 4.6 Consensus size: 23
31331143 ATAGCTCATA
*
31331153 AGAGCTTACTGTTTCAACTCACT
1 AGAGCTTACTGTTTCAACTCAAT
*** * *
31331176 AGAGCTTACCAATTCAGCTCAAA
1 AGAGCTTACTGTTTCAACTCAAT
*
31331199 AGAACTTACTG-TTCAACTCAAT
1 AGAGCTTACTGTTTCAACTCAAT
* *
31331221 AGAGCTTACCGTTTTCAACTTAAT
1 AGAGCTTACTG-TTTCAACTCAAT
31331245 AGAGCTTACTGTTT
1 AGAGCTTACTGTTT
31331259 ATCAGCTCAT
Statistics
Matches: 66, Mismatches: 15, Indels: 4
0.78 0.18 0.05
Matches are distributed among these distances:
22 18 0.27
23 28 0.42
24 20 0.30
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAACTCAAT
Found at i:31331245 original size:24 final size:24
Alignment explanation
Indices: 31331153--31331281 Score: 97
Period size: 24 Copynumber: 5.5 Consensus size: 24
31331143 ATAGCTCATA
* *
31331153 AGAGCTTACTG-TTTCAACTCACT
1 AGAGCTTACCGTTTTCAACTCAAT
** * *
31331176 AGAGCTTACC-AATTCAGCTCAAA
1 AGAGCTTACCGTTTTCAACTCAAT
* *
31331199 AGAACTTA-C-TGTTCAACTCAAT
1 AGAGCTTACCGTTTTCAACTCAAT
*
31331221 AGAGCTTACCGTTTTCAACTTAAT
1 AGAGCTTACCGTTTTCAACTCAAT
* *
31331245 AGAGCTTACTGTTTATCAGCTC-AT
1 AGAGCTTACCGTTT-TCAACTCAAT
31331269 GAAGAGCTTACCG
1 --AGAGCTTACCG
31331282 ACCATGTCTC
Statistics
Matches: 83, Mismatches: 17, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
22 17 0.20
23 25 0.30
24 26 0.31
25 5 0.06
26 10 0.12
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (24 bp):
AGAGCTTACCGTTTTCAACTCAAT
Found at i:31331253 original size:46 final size:45
Alignment explanation
Indices: 31331147--31331257 Score: 132
Period size: 46 Copynumber: 2.4 Consensus size: 45
31331137 CTCACCATAG
* * *
31331147 CTCATAAGAGCTTACTGTTTCAACTCACTAGAGCTTACCAATTCAG
1 CTCAAAAGAGCTTACTG-TTCAACTCAATAGAGCTTACCAATTCAA
* **
31331193 CTCAAAAGAACTTACTGTTCAACTCAATAGAGCTTACCGTTTTCAA
1 CTCAAAAGAGCTTACTGTTCAACTCAATAGAGCTTACC-AATTCAA
* *
31331239 CTTAATAGAGCTTACTGTT
1 CTCAAAAGAGCTTACTGTT
31331258 TATCAGCTCA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 20 0.36
46 35 0.64
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (45 bp):
CTCAAAAGAGCTTACTGTTCAACTCAATAGAGCTTACCAATTCAA
Found at i:31341654 original size:40 final size:40
Alignment explanation
Indices: 31341599--31341820 Score: 313
Period size: 40 Copynumber: 5.6 Consensus size: 40
31341589 TATTCGAATG
*
31341599 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTAACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAACT
* * *
31341639 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAACT
*
31341679 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAACT
* *
31341719 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGAA-T
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-AACT
* * **
31341759 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAACT
*
31341799 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
31341821 TACTTGGGTT
Statistics
Matches: 163, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 14 0.09
40 148 0.91
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAACT
Found at i:31341732 original size:80 final size:80
Alignment explanation
Indices: 31341589--31341820 Score: 351
Period size: 80 Copynumber: 2.9 Consensus size: 80
31341579 TGTGCATGAT
* * *
31341589 TATTCGAATGATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTAACTATATCTGGGCTAAGT
1 TATT-GAAT-ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGT
31341654 CCCGAAGGCATTTGTGC
64 CCCGAAGGCATTTGTGC
*
31341671 TATTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCC
1 TATTGAATATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCC
*
31341736 CGAAGGCTTTTGTGC
66 CGAAGGCATTTGTGC
* * *
31341751 TATTGAATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 TATTGAATATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
31341814 CCGAAGG
65 CCGAAGG
31341821 TACTTGGGTT
Statistics
Matches: 140, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
79 15 0.11
80 116 0.83
81 5 0.04
82 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.29
Consensus pattern (80 bp):
TATTGAATATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCC
CGAAGGCATTTGTGC
Found at i:31347515 original size:40 final size:40
Alignment explanation
Indices: 31347460--31347681 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
31347450 TATTCGAATG
* *
31347460 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
31347500 ATATCAGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
31347540 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
31347580 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
31347620 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
31347660 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
31347682 TACTTGGGTT
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 14 0.08
40 151 0.90
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:31351448 original size:184 final size:183
Alignment explanation
Indices: 31351214--31351581 Score: 691
Period size: 184 Copynumber: 2.0 Consensus size: 183
31351204 TATAGTGATG
*
31351214 TTGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAA
1 TTGTGACAGCCCTAAAATGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAA
31351279 ATTATTTGAATATGATATTTATTGTCTAAAATATGTGAATATGAATGTGTGAAAGTTTTAAGCTT
66 ATTATTTGAATATGATATTTATTGTCTAAAATATGTGAATATGAATGTGTGAAAGTTTTAAGCTT
31351344 CGATTTAGTAAATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACACTTT
131 CGATTTAGTAAATTGCATGTGAATTTAGT-AATAGGACTTATGTGTGACACTTT
*
31351398 TTGTGACAGCCGTAAAATGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAA
1 TTGTGACAGCCCTAAAATGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAA
31351463 ATTATTTGAATATGATATTTATTGTCTAAAATATGTGAATATGAATGTGTGAAAGTTTTAAGCTT
66 ATTATTTGAATATGATATTTATTGTCTAAAATATGTGAATATGAATGTGTGAAAGTTTTAAGCTT
**
31351528 CGATTTAGTCGATTGCATGTGAATTTAGTAATAGGACTTATGTGTGACACTTT
131 CGATTTAGTAAATTGCATGTGAATTTAGTAATAGGACTTATGTGTGACACTTT
31351581 T
1 T
31351582 GAAATGTGAT
Statistics
Matches: 180, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
183 25 0.14
184 155 0.86
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (183 bp):
TTGTGACAGCCCTAAAATGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAA
ATTATTTGAATATGATATTTATTGTCTAAAATATGTGAATATGAATGTGTGAAAGTTTTAAGCTT
CGATTTAGTAAATTGCATGTGAATTTAGTAATAGGACTTATGTGTGACACTTT
Found at i:31354067 original size:47 final size:47
Alignment explanation
Indices: 31354013--31354323 Score: 505
Period size: 47 Copynumber: 6.6 Consensus size: 47
31354003 TATTTGAATA
* *
31354013 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
31354060 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31354107 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31354156 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
31354203 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
31354250 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31354297 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
31354324 TCCCGAAGGG
Statistics
Matches: 250, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
47 205 0.82
49 45 0.18
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:31354172 original size:143 final size:141
Alignment explanation
Indices: 31354013--31354323 Score: 541
Period size: 143 Copynumber: 2.2 Consensus size: 141
31354003 TATTTGAATA
31354013 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
31354078 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAAT
* *
31354143 GGCCGATGTGATG
129 GGCCAACGTGATG
31354156 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
31354221 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGG
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
31354286 CCAACGTGATG
131 CCAACGTGATG
* *
31354297 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
31354324 TCCCGAAGGG
Statistics
Matches: 161, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
141 55 0.34
143 106 0.66
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
CCAACGTGATG
Found at i:31358113 original size:28 final size:27
Alignment explanation
Indices: 31358021--31358145 Score: 205
Period size: 27 Copynumber: 4.6 Consensus size: 27
31358011 ATATTAAGTC
* *
31358021 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
31358048 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
31358075 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAA-CT
31358103 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
31358131 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31358146 GTACAATTTA
Statistics
Matches: 94, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
27 50 0.53
28 42 0.45
29 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:31358124 original size:55 final size:55
Alignment explanation
Indices: 31358021--31358145 Score: 207
Period size: 55 Copynumber: 2.3 Consensus size: 55
31358011 ATATTAAGTC
* * *
31358021 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
31358075 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAA-CTCGCACACTTAGTGCTACATAATCAAACT
31358131 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31358146 GTACAATTTA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
54 23 0.35
55 24 0.36
56 19 0.29
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:31371141 original size:43 final size:43
Alignment explanation
Indices: 31371059--31371142 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
31371049 NNNNNACATA
*
31371059 TCGATGCCACTGTCCCAGATAGGGTCTTACACTTAAACACAAG
1 TCGATGCCACTGTCCCAGATAGGGTCTTACACATAAACACAAG
*
31371102 TCGATGCCAAC-GTCCCAGA-CGTGGTCTTACACGAT-AACACA
1 TCGATGCC-ACTGTCCCAGATAG-GGTCTTACAC-ATAAACACA
31371143 TATCAGAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
42 1 0.03
43 32 0.89
44 3 0.08
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (43 bp):
TCGATGCCACTGTCCCAGATAGGGTCTTACACATAAACACAAG
Found at i:31373000 original size:47 final size:47
Alignment explanation
Indices: 31372944--31373038 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
31372934 TGGTAATTTG
* * *
31372944 AGCCCATCACGTTCTTGAGCTTGAGTTGGGCCTTTGTGACTTGTATC
1 AGCCCATCACGTTCTTGAGCTTAAGTTGGGCCTTTGTAACTCGTATC
31372991 AGCCCATCACGTTCTTGAGCTTAAGTTGGGCCTTTGTAACTCGTATC
1 AGCCCATCACGTTCTTGAGCTTAAGTTGGGCCTTTGTAACTCGTATC
31373038 A
1 A
31373039 ATATCTTTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (47 bp):
AGCCCATCACGTTCTTGAGCTTAAGTTGGGCCTTTGTAACTCGTATC
Found at i:31374824 original size:40 final size:40
Alignment explanation
Indices: 31374726--31374895 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
31374716 TCCTCGTTCA
* * * *
31374726 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
31374765 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
31374805 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * * *
31374845 AATGCCTTTGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
31374885 AAGGCCTTCGG
1 AATGCCTTCGG
31374896 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 34 0.29
40 83 0.71
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:31374908 original size:80 final size:79
Alignment explanation
Indices: 31374724--31374948 Score: 218
Period size: 80 Copynumber: 2.8 Consensus size: 79
31374714 GCTCCTCGTT
* * * * *
31374724 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGA
31374789 TTTAACAACTCGCA
66 TTTAACAACTCGCA
* * * * *
31374803 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTTGGGACTTAACCCGG
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCACAC-AATGCCTTCGGGACATAACCCGG
** *
31374868 ATTTAGTATCTCGCA
65 ATTTAACAACTCGCA
** * * * * * * *
31374883 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAAGGCCTTCGGGA-CTTAACCCGGATTTAATAACTCA-CACAATGCCTTCGGGACATAACCCG
31374947 GA
64 GA
31374949 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
79 38 0.32
80 79 0.66
81 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGA
TTTAACAACTCGCA
Found at i:31374957 original size:41 final size:41
Alignment explanation
Indices: 31374880--31374957 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
31374870 TTAGTATCTC
* * *
31374880 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
31374921 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
31374958 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:31382824 original size:40 final size:40
Alignment explanation
Indices: 31382642--31382864 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
31382632 TCCTCGTTCA
* * * * *
31382642 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
31382681 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
31382721 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
31382761 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
31382801 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
31382841 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
31382865 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:31382873 original size:41 final size:41
Alignment explanation
Indices: 31382796--31382873 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
31382786 TTAGTATCTC
* * *
31382796 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
31382837 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
31382874 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:31384422 original size:46 final size:46
Alignment explanation
Indices: 31384348--31384637 Score: 390
Period size: 46 Copynumber: 6.3 Consensus size: 46
31384338 TTGGGCTGTC
*
31384348 ACACTGGCTCTCATAATGTGGCCAATGCATGTCCCAGACATGTCTT
1 ACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTT
* * * ** *
31384394 ACACTGGCTTTCATAATGTGGTCGATGCATATCTTAGACATAT-TT
1 ACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTT
* *
31384439 ACACTAGCTCTCGTCTCAA--T-GCCGATGCATGTCCCAGACATGTCTT
1 ACACTGGCTCTC--AT-AATGTGGCCGATGCATGTCCCAGACATGTCTT
* *
31384485 ACACTGGCTCTCATAATGTGGCCAATGCATGTCCCAGACATGTCAT
1 ACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTT
*
31384531 ACACTGGCTTTCATAATGTGGCCGATGCATGTCCCAGACATGTCTT
1 ACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTT
* *
31384577 ACACTGGCTCTCATAATGTGGTCGATGCTTGTCCCAGACATGTCTT
1 ACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTT
*
31384623 ACACTGGCTCACATA
1 ACACTGGCTCTCATA
31384638 CCACTTAATG
Statistics
Matches: 211, Mismatches: 26, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
43 2 0.01
44 1 0.00
45 31 0.15
46 174 0.82
47 1 0.00
48 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (46 bp):
ACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTT
Found at i:31385716 original size:21 final size:21
Alignment explanation
Indices: 31385678--31385717 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
31385668 AGTCCTTTTT
*
31385678 TAAAATTAAGCTCACAAATGC
1 TAAAATTAACCTCACAAATGC
31385699 TAAAATT-ACCTCACCAAAT
1 TAAAATTAACCTCA-CAAAT
31385718 TTTTCATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.25
Consensus pattern (21 bp):
TAAAATTAACCTCACAAATGC
Found at i:31392882 original size:85 final size:87
Alignment explanation
Indices: 31392738--31392929 Score: 202
Period size: 85 Copynumber: 2.2 Consensus size: 87
31392728 TAGACCACGC
* * *
31392738 CTGGGACATTGGCATCG-ATTTGAGATTTACGTGAAAGACCATGTCTGGGACATTGGCATC-G-A
1 CTGGGACATTGGCATCGTATAT-AGATTTACGTGAAAGACCATGTCTAGGACAGTGGCATCGGTA
*
31392800 TTTGAGATTTACGTGTAAGACC-ATGT
65 TTT--GA-TTACATGTAAGACCTA-GT
* *
31392826 TTGGGAC-TTGGCATCGTATAT-GATTT-CGTGTAAA-ACCCTGTCTAGGACAGTGGCATCGGTA
1 CTGGGACATTGGCATCGTATATAGATTTACGTG-AAAGACCATGTCTAGGACAGTGGCATCGGTA
31392887 TTTGATTACATGTAAGACCTAGT
65 TTTGATTACATGTAAGACCTAGT
* *
31392910 CTGGGACGTTGGCATTGTAT
1 CTGGGACATTGGCATCGTAT
31392930 GAGTTTACGA
Statistics
Matches: 90, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
84 21 0.23
85 38 0.42
86 9 0.10
87 13 0.14
88 9 0.10
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (87 bp):
CTGGGACATTGGCATCGTATATAGATTTACGTGAAAGACCATGTCTAGGACAGTGGCATCGGTAT
TTGATTACATGTAAGACCTAGT
Found at i:31392923 original size:43 final size:43
Alignment explanation
Indices: 31392718--31392924 Score: 203
Period size: 44 Copynumber: 4.8 Consensus size: 43
31392708 TCCGATATGT
* * *
31392718 GATTT-CGTGTTAGACCACGCCTGGGACATTGGCATCGATTTGA
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGATTT-A
*
31392761 GATTTACGTGAAAGACCATGTCTGGGACATTGGCATCGATTTGA
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGATTT-A
* *
31392805 GATTTACGTGTAAGACCATGTTTGGGAC-TTGGCATCG-TATA
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGATTTA
* * * *
31392846 TGATTT-CGTGTAAAACCCTGTCTAGGACAGTGGCATCGGTATTT-
1 -GATTTACGTGTAAGACCATGTCTGGGACATTGGCATC-G-ATTTA
* *
31392890 GA-TTACATGTAAGACC-TAGTCTGGGACGTTGGCAT
1 GATTTACGTGTAAGACCAT-GTCTGGGACATTGGCAT
31392925 TGTATGAGTT
Statistics
Matches: 138, Mismatches: 18, Indels: 16
0.80 0.10 0.09
Matches are distributed among these distances:
41 19 0.14
42 17 0.12
43 40 0.29
44 60 0.43
45 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGATTTA
Found at i:31398815 original size:27 final size:27
Alignment explanation
Indices: 31398785--31398848 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
31398775 GTCCAAGATT
*
31398785 TATTGGGCCGTATGAGATTATTGAGCG
1 TATTGGGCCGTATGAGATTATTGAGCA
* *
31398812 TATTGGGTCGTGTGAGATTATTGAGCA
1 TATTGGGCCGTATGAGATTATTGAGCA
31398839 TATTGGGCCG
1 TATTGGGCCG
31398849 GTTGCTTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.20, C:0.11, G:0.34, T:0.34
Consensus pattern (27 bp):
TATTGGGCCGTATGAGATTATTGAGCA
Found at i:31401968 original size:22 final size:22
Alignment explanation
Indices: 31401906--31401973 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
31401896 TAAGGGACAT
31401906 TGTGA-ATGTTT-TGAATATG-A
1 TGTGATATGTTTAT-AATATGTA
* *
31401926 TTTGATAATGTGTTAT-CTATGTA
1 TGTGAT-ATGT-TTATAATATGTA
31401949 TGTGATATGTTTATAATATGCTA
1 TGTGATATGTTTATAATATG-TA
31401972 TG
1 TG
31401974 AATAGTTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
20 4 0.11
21 4 0.11
22 16 0.43
23 12 0.32
24 1 0.03
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.49
Consensus pattern (22 bp):
TGTGATATGTTTATAATATGTA
Found at i:31405094 original size:20 final size:19
Alignment explanation
Indices: 31405058--31405108 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
31405048 AAGGGCTATT
*
31405058 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
31405077 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
31405097 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
31405109 GTTTCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:31410646 original size:47 final size:47
Alignment explanation
Indices: 31410313--31410636 Score: 458
Period size: 47 Copynumber: 6.9 Consensus size: 47
31410303 TGTACAAGTA
* * *
31410313 TATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAA-AGTA
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
*
31410360 TATATATGCGTGATAAGGCCGAATGGCCAATGTTATTG-ATGTGAACATG
1 TATATAT--GTGATAAGGCCGAATGGCCAATGTGA-TGAATGTGAACATG
* *
31410409 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
31410456 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
31410503 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
31410550 CATATATGAGATAAGGCCGAATGG-CAATGTGATGAATGTGAA-AGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
*
31410596 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
31410637 GAAGTGTATA
Statistics
Matches: 256, Mismatches: 14, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
45 1 0.00
46 44 0.17
47 172 0.67
49 36 0.14
50 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
Found at i:31413275 original size:40 final size:40
Alignment explanation
Indices: 31413216--31413576 Score: 544
Period size: 40 Copynumber: 9.1 Consensus size: 40
31413206 AGGTCTCGAC
31413216 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
31413255 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
31413295 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
31413335 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
31413375 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
31413415 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
31413455 GATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
31413495 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * * *
31413535 GTTATATCCGGGCTAGGTCCTGAAGAGCAATCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
31413575 GA
1 GA
31413577 CGTGTATTCG
Statistics
Matches: 296, Mismatches: 25, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
39 4 0.01
40 292 0.99
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:31416971 original size:47 final size:47
Alignment explanation
Indices: 31416914--31417216 Score: 400
Period size: 47 Copynumber: 6.4 Consensus size: 47
31416904 ATTGATGTAC
* * *
31416914 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
31416961 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATTG-ATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGA-TGAATGTGA
* *
31417010 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
31417057 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
31417104 ACA-TGCATATATGAGATAAGGCCGAATGG-CAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
31417150 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
31417197 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
31417217 TCCCGGAGGG
Statistics
Matches: 235, Mismatches: 14, Indels: 14
0.89 0.05 0.05
Matches are distributed among these distances:
45 1 0.00
46 44 0.19
47 150 0.64
49 37 0.16
50 3 0.01
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:31417186 original size:140 final size:142
Alignment explanation
Indices: 31416925--31417195 Score: 399
Period size: 140 Copynumber: 1.9 Consensus size: 142
31416915 AGTATATATA
* * * *
31416925 TGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAAAGTATATATATGCGTGATAAGGCCGAAT
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTACATATAT-CGAGATAAGGCCGAAT
* *
31416990 GGCCAATGTGATTGATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
65 GGCCAATGTGATTGATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
31417055 GAACATGTGTATG
130 GAACATGTGTATG
*
31417068 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATATAT-GAGATAAGGCCGAAT
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTACATATATCGAGATAAGGCCGAAT
*
31417131 GG-CAATGTGA-TGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGAT
65 GGCCAATGTGATTG-ATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
31417193 GTG
128 GTG
31417196 GAAGTGTATA
Statistics
Matches: 117, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
139 3 0.03
140 55 0.47
141 16 0.14
143 42 0.36
144 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.32, T:0.27
Consensus pattern (142 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTACATATATCGAGATAAGGCCGAATG
GCCAATGTGATTGATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
AACATGTGTATG
Found at i:31417212 original size:140 final size:141
Alignment explanation
Indices: 31416914--31417216 Score: 393
Period size: 140 Copynumber: 2.1 Consensus size: 141
31416904 ATTGATGTAC
* * * * *
31416914 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAAAGTATATATATGCGTGA
1 AAGTGTATA-ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTACATATAT-CGAGA
* *
31416979 TAAGGCCGAATGGCCAATGTGATTGATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAAT
64 TAAGGCCGAATGGCCAATGTGATTGATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAAT
31417044 GTGATGAATGTGA
129 GTGATGAATGTGA
* *
31417057 ACATGTGTAT-GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATATAT-GAG
1 A-A-GTGTATAATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTACATATATCGAG
31417119 ATAAGGCCGAATGG-CAATGTGA-TGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCC
63 ATAAGGCCGAATGGCCAATGTGATTG-ATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCC
* *
31417181 AATGTGATGGATGTGG
126 AATGTGATGAATGTGA
31417197 AAGTGTATAAATGTGATAAG
1 AAGTGTAT-AATGTGATAAG
31417217 TCCCGGAGGG
Statistics
Matches: 141, Mismatches: 12, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
138 6 0.04
139 4 0.03
140 65 0.46
141 16 0.11
143 43 0.30
144 2 0.01
145 5 0.04
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (141 bp):
AAGTGTATAATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTACATATATCGAGATA
AGGCCGAATGGCCAATGTGATTGATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGT
GATGAATGTGA
Found at i:31419995 original size:30 final size:31
Alignment explanation
Indices: 31419928--31419996 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
31419918 TTAAATTAGT
* *
31419928 AATAAT-ATAATTATACTTTGATATCTTAAA
1 AATAATAATAATTATAATTTAATATCTTAAA
31419958 AATAATAATAATT-TAATTTAAT-TCTTTAAA
1 AATAATAATAATTATAATTTAATATC-TTAAA
31419988 AATAATAAT
1 AATAATAAT
31419997 GATATAAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 2 0.06
30 27 0.77
31 6 0.17
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (31 bp):
AATAATAATAATTATAATTTAATATCTTAAA
Found at i:31422524 original size:24 final size:24
Alignment explanation
Indices: 31422496--31422547 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
31422486 TTTGTAAATC
* * *
31422496 AAATAAATTACGCTAATAAATGCT
1 AAATAAACTACACTAATAAATACT
* *
31422520 AAATATACTATACTAATAAATACT
1 AAATAAACTACACTAATAAATACT
31422544 AAAT
1 AAAT
31422548 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.31
Consensus pattern (24 bp):
AAATAAACTACACTAATAAATACT
Found at i:31426597 original size:22 final size:21
Alignment explanation
Indices: 31426572--31426649 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 21
31426562 CCTAAGCTGA
*
31426572 TGAACAGTAAGCTCTAATGAAT
1 TGAACAGTAAGCTCT-ATGAAC
* *
31426594 TGAAACGGTAAGCTCTATCGAGC
1 TG-AACAGTAAGCTCTAT-GAAC
*
31426617 TGAACAGTAAGCTCTATTAAGC
1 TGAACAGTAAGCTCTATGAA-C
31426639 TGAACAGTAAG
1 TGAACAGTAAG
31426650 TTCATACGAG
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.02
22 30 0.64
23 16 0.34
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (21 bp):
TGAACAGTAAGCTCTATGAAC
Found at i:31426626 original size:45 final size:46
Alignment explanation
Indices: 31426572--31426710 Score: 162
Period size: 45 Copynumber: 3.1 Consensus size: 46
31426562 CCTAAGCTGA
*
31426572 TGAACAGTAAGCTCTAATGAA-TTGAAACGGTAAGCTCTAT-CGAGC
1 TGAACAGTAAGCTCTAAT-AAGTTGAAACAGTAAGCTCTATACGAGC
* * *
31426617 TGAACAGTAAGCTCTATTAAGCTG-AACAGTAAGTTC-ATACGAGC
1 TGAACAGTAAGCTCTAATAAGTTGAAACAGTAAGCTCTATACGAGC
* *
31426661 TGAAACGGTAAGCTCCAATAAGTTGAAAACAGTAAGCTCT-TACGAGC
1 TG-AACAGTAAGCTCTAATAAGTTG-AAACAGTAAGCTCTATACGAGC
31426708 TGA
1 TGA
31426711 TATATCGGTA
Statistics
Matches: 79, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
43 2 0.03
44 19 0.24
45 37 0.47
46 1 0.01
47 20 0.25
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (46 bp):
TGAACAGTAAGCTCTAATAAGTTGAAACAGTAAGCTCTATACGAGC
Found at i:31426661 original size:22 final size:24
Alignment explanation
Indices: 31426601--31426675 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 24
31426591 AATTGAAACG
31426601 GTAAGCTCTA-T-CGAGCTGAACA
1 GTAAGCTCTATTACGAGCTGAACA
31426623 GTAAGCTCTATTA--AGCTGAACA
1 GTAAGCTCTATTACGAGCTGAACA
* *
31426645 GTAAGTTC-A-TACGAGCTGAAACG
1 GTAAGCTCTATTACGAGCTG-AACA
31426668 GTAAGCTC
1 GTAAGCTC
31426676 CAATAAGTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
20 2 0.04
21 1 0.02
22 31 0.69
23 11 0.24
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (24 bp):
GTAAGCTCTATTACGAGCTGAACA
Found at i:31428671 original size:26 final size:26
Alignment explanation
Indices: 31428634--31428689 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
31428624 CCTACAGCTA
* *
31428634 GTGTGAATAGGCCTATTTCACAACTC
1 GTGTGAACAGGCCCATTTCACAACTC
31428660 GTGTGAACAGGCCCATTTCACAACTC
1 GTGTGAACAGGCCCATTTCACAACTC
31428686 GTGT
1 GTGT
31428690 AAGCACTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (26 bp):
GTGTGAACAGGCCCATTTCACAACTC
Found at i:31430745 original size:50 final size:50
Alignment explanation
Indices: 31430672--31431019 Score: 417
Period size: 50 Copynumber: 6.9 Consensus size: 50
31430662 AAAACGGTTC
*
31430672 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGT
* * * * *
31430722 TAGGTCGCATGTGTAGTATTAAGTGCAGGCTACTATGCGTACCTGATTGCT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-T
* * * * *
31430773 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGT
* *
31430823 TAGGTCACATGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGAATGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGT
* * * * *
31430873 TAGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTGTACCCGATAGCT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-T
* * * * * * *
31430924 TCGATCACGTGTGTAATACTAAGTGCAGGCTACTACGTGTATCAGATGGC
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGT
* * * *
31430974 TAGGTCGCATGTGTATTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
31431020 GAGCTTCGGT
Statistics
Matches: 247, Mismatches: 49, Indels: 4
0.82 0.16 0.01
Matches are distributed among these distances:
50 167 0.68
51 80 0.32
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGT
Found at i:31430803 original size:101 final size:101
Alignment explanation
Indices: 31430672--31431019 Score: 421
Period size: 101 Copynumber: 3.5 Consensus size: 101
31430662 AAAACGGTTC
* * *
31430672 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTA
* * * *
31430737 GTATTAAGTGCAGGCTACTATGCGTACCTGATTGCT
66 GTACTAAGTGCAGGCTACTACGTGTACCAGATTGCT
* * * * *
31430773 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTA
* *
31430838 GTACTAAATGCAGGCTACTACGTGTACCAGAATG-T
66 GTACTAAGTGCAGGCTACTACGTGTACCAGATTGCT
* * * * * * *
31430873 TAGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTGTACCCGATAGCTTCGATCACGTGTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG-TTAGGTCACATGTGT
* * *
31430938 AATACTAAGTGCAGGCTACTACGTGTATCAGATGGC-
65 AGTACTAAGTGCAGGCTACTACGTGTACCAGATTGCT
* * * *
31430974 TAGGTCGCATGTGTATTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
31431020 GAGCTTCGGT
Statistics
Matches: 211, Mismatches: 34, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
100 41 0.19
101 170 0.81
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (101 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTA
GTACTAAGTGCAGGCTACTACGTGTACCAGATTGCT
Found at i:31430896 original size:12 final size:14
Alignment explanation
Indices: 31430881--31430913 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
31430871 GTTAGGTCAC
31430881 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
31430893 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
31430907 ATGTGTA
1 ATGTGTA
31430914 CCCGATAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 1 0.05
14 11 0.58
ACGTcount: A:0.24, C:0.09, G:0.27, T:0.39
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:31430905 original size:151 final size:151
Alignment explanation
Indices: 31430629--31431019 Score: 557
Period size: 151 Copynumber: 2.6 Consensus size: 151
31430619 TGAGAACACA
** * * * * * *
31430629 TGTGTAGTACTCTGTGCAGGCTACTATGTGTTTAAAACGGTTCTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG-T-TAGGTCACATGTGTAGTACTAA
* * *
31430694 GTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTATTAAGTGCAGGCTACTATG
64 GTGCAGGCTACTACGTGTACCAGAATGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
* *
31430759 CGTACCTGATTGCTTCGATCACG
129 CGTACCCGATAGCTTCGATCACG
*
31430782 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGT
* * *
31430847 GCAGGCTACTACGTGTACCAGAATGTTAGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTG
66 GCAGGCTACTACGTGTACCAGAATGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCG
31430912 TACCCGATAGCTTCGATCACG
131 TACCCGATAGCTTCGATCACG
* * * *
31430933 TGTGTAATACTAAGTGCAGGCTACTACGTGTATCAGATGGCTAGGTCGCATGTGTATTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGT
* *
31430998 GCAGGCTACTATGCGTACCAGA
66 GCAGGCTACTACGTGTACCAGA
31431020 GAGCTTCGGT
Statistics
Matches: 214, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
151 180 0.84
152 1 0.00
153 33 0.15
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGT
GCAGGCTACTACGTGTACCAGAATGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCG
TACCCGATAGCTTCGATCACG
Found at i:31431027 original size:101 final size:99
Alignment explanation
Indices: 31430625--31431022 Score: 393
Period size: 101 Copynumber: 3.9 Consensus size: 99
31430615 ATTATGAGAA
** * ** * * *
31430625 CACATGTGTAGTACTCTGTGCAGGCTACTATGTGTTTAAAACGGTTCTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTG--TACCA-GATGCTAGGTCACATGTGTAGTA
**
31430690 CTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
63 CTAAGTGCAGGCTACTACGTGTACCAGAGAGTTAGGT
* * * * * * * *
31430727 CGCATGTGTAGTATTAAGTGCAGGCTACTATGCGTACCTGATTGCTTCGATCACGTGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGC-TAGGTCACATGTGTAGTAC
*
31430792 TAAGTGCAGGCTACTACGTGTATCAGATG-GTTAGGT
64 TAAGTGCAGGCTACTACGTGTACCAGA-GAGTTAGGT
* *
31430828 CACATGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGAATGTTAGGTCACATGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATGCTAGGTCACATGTGTAGTACT
* * * * * * *
31430893 ATGTGTAGGCTACTATGTGTACCCGATAGCTTCGAT
65 AAGTGCAGGCTACTACGTGTACCAGAGAG-TTAGGT
* * * * *
31430929 CACGTGTGTAATACTAAGTGCAGGCTACTACGTGTATCAGATGGCTAGGTCGCATGTGTATTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GCTAGGTCACATGTGTAGTACT
* *
31430994 AAGTGCAGGCTACTATGCGTACCAGAGAG
65 AAGTGCAGGCTACTACGTGTACCAGAGAG
31431023 CTTCGGTTAC
Statistics
Matches: 245, Mismatches: 44, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
99 1 0.00
100 45 0.18
101 169 0.69
102 30 0.12
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (99 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGCTAGGTCACATGTGTAGTACTA
AGTGCAGGCTACTACGTGTACCAGAGAGTTAGGT
Found at i:31435109 original size:37 final size:37
Alignment explanation
Indices: 31435059--31435137 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31435049 TTATTACGAA
* * *
31435059 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
31435096 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
31435133 GTCTT
1 GTCTT
31435138 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:31435327 original size:47 final size:47
Alignment explanation
Indices: 31435256--31435701 Score: 703
Period size: 47 Copynumber: 9.4 Consensus size: 47
31435246 CCCTTCGGGA
* * * * * * *
31435256 CTTATCACATTTATACACTTTCACATCCATCACGTTGACCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31435303 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31435350 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31435397 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31435446 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31435493 CTTATCACATATATACACTTTTACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31435540 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31435589 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31435636 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31435683 CTTATCACATATATACACT
1 CTTATCACATATATACACT
31435702 CACATCACAA
Statistics
Matches: 372, Mismatches: 23, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 283 0.76
49 89 0.24
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31435334 original size:25 final size:25
Alignment explanation
Indices: 31435306--31435384 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
31435296 ACTCGGCCCT
31435306 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
31435331 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
31435353 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
*
31435378 ACCACAT
1 ATCACAT
31435385 CGGCCATTAG
Statistics
Matches: 38, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 11 0.29
23 5 0.13
24 5 0.13
25 17 0.45
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:31435445 original size:96 final size:94
Alignment explanation
Indices: 31435256--31435701 Score: 703
Period size: 96 Copynumber: 4.7 Consensus size: 94
31435246 CCCTTCGGGA
* * * * * * * *
31435256 CTTATCACATTTATACACTTTCACATCCATCACGTTGACCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
31435321 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
31435350 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
31435415 ACTTTCACATTCATCACATCGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
31435446 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
31435511 TTTTACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
31435540 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
31435605 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
31435636 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
31435701 T
66 T
31435702 CACATCACAA
Statistics
Matches: 327, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
94 147 0.45
96 180 0.55
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:31435527 original size:143 final size:143
Alignment explanation
Indices: 31435256--31435697 Score: 771
Period size: 143 Copynumber: 3.1 Consensus size: 143
31435246 CCCTTCGGGA
* * * * *
31435256 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGACCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* * * *
31435319 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCACCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
31435384 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
31435397 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
31435462 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTTACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
31435527 TCGGCCATTAGGC
131 TCGGCCATTAGGC
31435540 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
31435605 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
31435670 TCGGCCATTAGGC
131 TCGGCCATTAGGC
31435683 CTTATCACATATATA
1 CTTATCACATATATA
31435698 CACTCACATC
Statistics
Matches: 286, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
141 10 0.03
142 1 0.00
143 275 0.96
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:31439523 original size:40 final size:40
Alignment explanation
Indices: 31439491--31439761 Score: 409
Period size: 40 Copynumber: 6.8 Consensus size: 40
31439481 CCAGCATGAT
* * * *
31439491 TGCTCTTCGAGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
31439531 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
31439571 TGCTCCTCGGGACTTAGCTCGGATATATCACTAGCAC-AA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
31439610 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
31439650 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
**
31439690 TGCTCTTCAAGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
31439730 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
31439762 CTCAATTCTC
Statistics
Matches: 209, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 38 0.18
40 171 0.82
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:31439704 original size:119 final size:120
Alignment explanation
Indices: 31439491--31439761 Score: 409
Period size: 119 Copynumber: 2.3 Consensus size: 120
31439481 CCAGCATGAT
* * * * ***
31439491 TGCTCTTCGAGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCACGGATA
* ** *
31439556 TATCACTAGCACGAATGCTCCTCGGGACTTAGCTCGGATATATCACTAGCAC-AA
66 CATCACTAGCACGAATGCTCCTCAAGACTTAGCCCGGATATATCACTAGCACGAA
* *
31439610 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCACGGATA
*
31439675 CATCACTAGCACGAATGCTCTTCAAGACTTAGCCCGGATATATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCCTCAAGACTTAGCCCGGATATATCACTAGCACGAA
31439730 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
31439762 CTCAATTCTC
Statistics
Matches: 136, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
119 103 0.76
120 33 0.24
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCACGGATA
CATCACTAGCACGAATGCTCCTCAAGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:31441027 original size:37 final size:37
Alignment explanation
Indices: 31440977--31441055 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31440967 TTATTACGAA
* * *
31440977 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
31441014 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
31441051 GTCTT
1 GTCTT
31441056 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:31441245 original size:47 final size:47
Alignment explanation
Indices: 31441174--31441619 Score: 703
Period size: 47 Copynumber: 9.4 Consensus size: 47
31441164 CCCTTCAGGA
* * * * * * *
31441174 CTTATCACATTTATACACTTTCACATCCATCACGTTGACCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31441221 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31441268 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31441315 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31441364 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31441411 CTTATCACATATATACACTTTTACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31441458 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31441507 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31441554 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31441601 CTTATCACATATATACACT
1 CTTATCACATATATACACT
31441620 CACATCACAA
Statistics
Matches: 372, Mismatches: 23, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 283 0.76
49 89 0.24
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31441252 original size:25 final size:25
Alignment explanation
Indices: 31441224--31441302 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
31441214 ACTCGGCCCT
31441224 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
31441249 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
31441271 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
*
31441296 ACCACAT
1 ATCACAT
31441303 CGGCCATTAG
Statistics
Matches: 38, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 11 0.29
23 5 0.13
24 5 0.13
25 17 0.45
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:31441363 original size:96 final size:94
Alignment explanation
Indices: 31441174--31441619 Score: 703
Period size: 96 Copynumber: 4.7 Consensus size: 94
31441164 CCCTTCAGGA
* * * * * * * *
31441174 CTTATCACATTTATACACTTTCACATCCATCACGTTGACCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
31441239 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
31441268 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
31441333 ACTTTCACATTCATCACATCGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
31441364 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
31441429 TTTTACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
31441458 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
31441523 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
31441554 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
31441619 T
66 T
31441620 CACATCACAA
Statistics
Matches: 327, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
94 147 0.45
96 180 0.55
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:31441445 original size:143 final size:143
Alignment explanation
Indices: 31441174--31441615 Score: 771
Period size: 143 Copynumber: 3.1 Consensus size: 143
31441164 CCCTTCAGGA
* * * * *
31441174 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGACCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* * * *
31441237 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCACCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
31441302 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
31441315 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
31441380 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTTACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
31441445 TCGGCCATTAGGC
131 TCGGCCATTAGGC
31441458 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
31441523 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
31441588 TCGGCCATTAGGC
131 TCGGCCATTAGGC
31441601 CTTATCACATATATA
1 CTTATCACATATATA
31441616 CACTCACATC
Statistics
Matches: 286, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
141 10 0.03
142 1 0.00
143 275 0.96
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:31444223 original size:24 final size:24
Alignment explanation
Indices: 31444169--31444295 Score: 120
Period size: 23 Copynumber: 5.4 Consensus size: 24
31444159 GACATGGTCG
*
31444169 GTAAGCTCTTTATGAGCTGATAAACA
1 GTAAGCTCTAT-TGAGCTGA-AAACA
* *
31444195 ATAAGCTCTATTGAGCTGAAAACG
1 GTAAGCTCTATTGAGCTGAAAACA
31444219 GTAAGCTCTATTGAGCT--AAACA
1 GTAAGCTCTATTGAGCTGAAAACA
*
31444241 GTAAGCTCT-TTCGAGCTG-AATCA
1 GTAAGCTCTATT-GAGCTGAAAACA
* * *
31444264 GTAAGCTCCAGTGAGCT-AAAATA
1 GTAAGCTCTATTGAGCTGAAAACA
*
31444287 ATAAGCTCT
1 GTAAGCTCT
31444296 TACGAGCTAT
Statistics
Matches: 85, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
21 2 0.02
22 18 0.21
23 27 0.32
24 21 0.25
25 8 0.09
26 9 0.11
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (24 bp):
GTAAGCTCTATTGAGCTGAAAACA
Found at i:31444257 original size:46 final size:45
Alignment explanation
Indices: 31444189--31444303 Score: 133
Period size: 46 Copynumber: 2.5 Consensus size: 45
31444179 TATGAGCTGA
* * *
31444189 TAAACAATAAGCTCTATT-GAGCTGAAAACGGTAAGCTCTATTGAGC
1 TAAACAATAAGCTCT-TTCGAGCTG-AAACAGTAAGCTCCAGTGAGC
* *
31444235 TAAACAGTAAGCTCTTTCGAGCTGAATCAGTAAGCTCCAGTGAGC
1 TAAACAATAAGCTCTTTCGAGCTGAAACAGTAAGCTCCAGTGAGC
* *
31444280 TAAAATAATAAGCTCTTACGAGCT
1 T-AAACAATAAGCTCTTTCGAGCT
31444304 ATGGTGAGTG
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
45 20 0.34
46 39 0.66
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (45 bp):
TAAACAATAAGCTCTTTCGAGCTGAAACAGTAAGCTCCAGTGAGC
Found at i:31448865 original size:40 final size:40
Alignment explanation
Indices: 31448812--31448996 Score: 309
Period size: 40 Copynumber: 4.6 Consensus size: 40
31448802 ACTACTTGCT
*
31448812 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
31448852 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
31448892 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
31448932 CAAATGCCTTCGGAACTTAGCCC-GAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
31448972 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
31448997 TTATCATCCG
Statistics
Matches: 137, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 3 0.02
40 133 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:31462890 original size:40 final size:40
Alignment explanation
Indices: 31462860--31463029 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
31462850 GGACTAAGAT
* *
31462860 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
31462900 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** * *
31462940 CCGAAGGCATTCGTGCGAGTTGTTAAATCTGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
31462980 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
31463019 CCGAAGGCATT
1 CCGAAGGCATT
31463030 TGAACGAGGA
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 33 0.28
40 84 0.72
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:31462944 original size:80 final size:79
Alignment explanation
Indices: 31462807--31463031 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 79
31462797 TTGAATGCTG
* * * * * * *
31462807 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
31462871 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* * *
31462887 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTT
* **
31462952 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * * * *
31462967 TCTGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
31463032 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 36 0.30
80 82 0.67
81 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:31470900 original size:39 final size:40
Alignment explanation
Indices: 31470696--31470918 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
31470686 TTGAATGCTG
* * * * * *
31470696 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
31470736 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
31470776 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
31470816 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
31470856 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
31470895 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
31470919 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:31470938 original size:79 final size:80
Alignment explanation
Indices: 31470771--31470953 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
31470761 GTGCGAGATA
* * *
31470771 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
31470836 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
31470851 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
31470915 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
31470930 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
31470954 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:31472503 original size:49 final size:49
Alignment explanation
Indices: 31472446--31472618 Score: 165
Period size: 49 Copynumber: 3.6 Consensus size: 49
31472436 TGTTGTGTGT
* * *
31472446 CAGTGTAAGACTTGTTTGGGACATGGCATCGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGC
* * *
31472495 CAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGC
* * * * * * *
31472544 CAGTGTAGGACCTGTGTGGGACACGACATCGACTTCAAT-G-T-ATTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA-AAGC
*
31472591 CAGTGTAAGACCATGTCTAGGACATGGC
1 CAGTGTAAGACC-TGTCTGGGACATGGC
31472619 GTCGGCATCT
Statistics
Matches: 100, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
46 1 0.01
47 14 0.14
48 12 0.12
49 73 0.73
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGC
Found at i:31473198 original size:20 final size:21
Alignment explanation
Indices: 31473173--31473212 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
31473163 CACTTGAAAC
31473173 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
31473193 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
31473213 TCCTATTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.30, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:31477963 original size:24 final size:24
Alignment explanation
Indices: 31477935--31477984 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
31477925 TGAAGGCATG
31477935 TAAAAATATGTTTATCTTTTTGTA
1 TAAAAATATGTTTATCTTTTTGTA
31477959 TAAAAATATGTTTATCTTTTTGTA
1 TAAAAATATGTTTATCTTTTTGTA
31477983 TA
1 TA
31477985 TGGCCATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
TAAAAATATGTTTATCTTTTTGTA
Found at i:31482605 original size:46 final size:46
Alignment explanation
Indices: 31482532--31482707 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
31482522 CATTGGGTGG
*
31482532 TATGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAT
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAT
* * *
31482578 TATGAGAGCCAGTGTAAGACATATCTGGGAAATGCATTGGCCACAT
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAT
* ** *
31482624 TATGAGAGCCAGTGTAACACATGTCTAAGACATGCAT---CCGCAT
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAT
* *
31482667 TGA-GACAAGAGCTAGTGTAAGACATGTCTGCGACATGCATC
1 T-ATG---AGAGCCAGTGTAAGACATGTCTGGGACATGCATC
31482708 AGCCTCGAGA
Statistics
Matches: 111, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
43 7 0.06
44 1 0.01
46 103 0.93
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (46 bp):
TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAT
Found at i:31482859 original size:49 final size:49
Alignment explanation
Indices: 31482771--31482891 Score: 145
Period size: 49 Copynumber: 2.5 Consensus size: 49
31482761 TGTTGTGTGT
*
31482771 CAGTGTAAGACCTGTCTGGGACATGGCATCAACACCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCAACACCGATAGATGAAAGC
* * ** * *
31482820 CAGTGTCAGACCTGTCTGGGACATTGCATTGAC-CTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCAACAC-CGATAGATGAAAGC
* *
31482869 TAGTGTAAGACCTGTGTGGGACA
1 CAGTGTAAGACCTGTCTGGGACA
31482892 CGACATCGAC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 1 0.02
49 60 0.98
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCAACACCGATAGATGAAAGC
Found at i:31488092 original size:49 final size:47
Alignment explanation
Indices: 31487987--31488182 Score: 329
Period size: 47 Copynumber: 4.1 Consensus size: 47
31487977 ATTCAGCCAA
*
31487987 GAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
31488034 GAAAGTATATATATGTGAGAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
31488081 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
31488130 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
31488177 GAAAGT
1 GAAAGT
31488183 AGCCGATGTG
Statistics
Matches: 140, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
47 94 0.67
49 46 0.33
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:31488185 original size:24 final size:24
Alignment explanation
Indices: 31488158--31488206 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
31488148 TAAGGCCTAA
31488158 TAGCCGATGTGATGAATGTGAAAG
1 TAGCCGATGTGATGAATGTGAAAG
31488182 TAGCCGATGTGATGAATGTGAAAG
1 TAGCCGATGTGATGAATGTGAAAG
31488206 T
1 T
31488207 GTATATGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.33, T:0.27
Consensus pattern (24 bp):
TAGCCGATGTGATGAATGTGAAAG
Found at i:31488188 original size:71 final size:71
Alignment explanation
Indices: 31488113--31488253 Score: 273
Period size: 71 Copynumber: 2.0 Consensus size: 71
31488103 AGGCCTAATG
*
31488113 GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
1 GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAGGTGATGAATGTG
31488178 AAAGTA
66 AAAGTA
31488184 GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAGGTGATGAATGTG
1 GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAGGTGATGAATGTG
31488249 AAAGT
66 AAAGT
31488254 GTATATGTGT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.28
Consensus pattern (71 bp):
GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAGGTGATGAATGTG
AAAGTA
Found at i:31488215 original size:47 final size:46
Alignment explanation
Indices: 31488182--31488504 Score: 448
Period size: 47 Copynumber: 6.9 Consensus size: 46
31488172 AATGTGAAAG
*
31488182 TAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTG-ATATATGTGATAAGGCCTAA
* *
31488229 TAGCCGAGGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTG-ATATATGTGATAAGGCCTAA
31488276 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTG-ATATATGTGATAAGGCCTAA
*
31488323 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTG-ATATATGTGATAAGGCCTAA
*
31488370 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTG-ATATATGTGATAAGGCCTAA
* * * * *
31488417 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAG
1 TAGCCGATGTGATGAATGTGAAAGTG-ATATATGTGATAAGGCCTAA
* * * * *
31488464 TGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAGCCGATGTGATGAATGTGAAAGTG-ATATATGTGATAAG
31488505 TCCCGAAGGG
Statistics
Matches: 259, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 259 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (46 bp):
TAGCCGATGTGATGAATGTGAAAGTGATATATGTGATAAGGCCTAA
Found at i:31488235 original size:118 final size:119
Alignment explanation
Indices: 31488064--31488300 Score: 431
Period size: 118 Copynumber: 2.0 Consensus size: 119
31488054 AGGCCTAATG
* *
31488064 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 GCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATAGCCGAGGTGATGAATG
31488129 TGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTA
65 TGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTA
*
31488184 GCCGATGTGATGAATGTGAAAGTG-TATATGTGTGATAAGGCCTAATAGCCGAGGTGATGAATGT
1 GCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATAGCCGAGGTGATGAATGT
31488248 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
66 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
31488301 GTATATATGT
Statistics
Matches: 114, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
118 90 0.79
120 24 0.21
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (119 bp):
GCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATAGCCGAGGTGATGAATGT
GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTA
Found at i:31488280 original size:94 final size:94
Alignment explanation
Indices: 31488182--31488504 Score: 502
Period size: 94 Copynumber: 3.4 Consensus size: 94
31488172 AATGTGAAAG
* *
31488182 TAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAGGTGATGAATG
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
*
31488247 TGAAAGTGTATATGTGTGATAAGGCCTAA
66 TGAAAGTGTATATATGTGATAAGGCCTAA
31488276 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
*
31488341 TGAAAGTGTATATATGTAATAAGGCCTAA
66 TGAAAGTGTATATATGTGATAAGGCCTAA
* *
31488370 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
* * * *
31488435 TGAAAGTGTATATATGTGACAGGGCCGAG
66 TGAAAGTGTATATATGTGATAAGGCCTAA
* * * * * *
31488464 TGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
31488505 TCCCGAAGGG
Statistics
Matches: 213, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 213 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (94 bp):
TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATG
TGAAAGTGTATATATGTGATAAGGCCTAA
Found at i:31488315 original size:165 final size:166
Alignment explanation
Indices: 31488017--31488347 Score: 574
Period size: 165 Copynumber: 2.0 Consensus size: 166
31488007 AGGCCTAATG
* *
31488017 GCCGATGTGATGAATGTGAAAGTATATATATGTGAGAAGGCCTAATGGCCGATGTGATGAATGTG
1 GCCGATGTGATGAATGTGAAAGTATATATATGTGAGAAGGCCTAATAGCCGAGGTGATGAATGTG
* *
31488082 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTG
66 AAAGTG-ATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTG
31488147 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTA
130 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTA
* * *
31488184 GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAGGTGATGAATGTG
1 GCCGATGTGATGAATGTGAAAGTATATATATGTGAGAAGGCCTAATAGCCGAGGTGATGAATGTG
*
31488249 AAAGTG-TATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
66 AAAGTGATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31488313 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
131 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
31488348 GTATATATGT
Statistics
Matches: 156, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
165 90 0.58
167 66 0.42
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (166 bp):
GCCGATGTGATGAATGTGAAAGTATATATATGTGAGAAGGCCTAATAGCCGAGGTGATGAATGTG
AAAGTGATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTA
Found at i:31488336 original size:141 final size:141
Alignment explanation
Indices: 31488182--31488504 Score: 502
Period size: 141 Copynumber: 2.3 Consensus size: 141
31488172 AATGTGAAAG
*
31488182 TAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAGGTGATGAATG
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAGGTGATGAATG
*
31488247 TGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTG
66 TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTG
* *
31488312 ATAAGGCCTAA
131 ACAAGGCCGAA
* * *
31488323 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATG
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAGGTGATGAATG
*
31488388 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
66 TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTG
* *
31488453 ACAGGGCCGAG
131 ACAAGGCCGAA
* * * * * *
31488464 TGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
31488505 TCCCGAAGGG
Statistics
Matches: 165, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
141 165 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (141 bp):
TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAGGTGATGAATG
TGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTG
ACAAGGCCGAA
Found at i:31488357 original size:214 final size:211
Alignment explanation
Indices: 31487987--31488394 Score: 683
Period size: 214 Copynumber: 1.9 Consensus size: 211
31487977 ATTCAGCCAA
* *
31487987 GAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAGGTGATGAATGTGAAAGTATATATATGTGA
* *
31488052 GAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
66 GAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATAGCCG
*
31488117 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
130 ATGTGATGAATGTGAAAGTGTATA--TGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
31488182 TAGCCGATGTGATGAATGT
193 TAGCCGATGTGATGAATGT
* *
31488201 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAGGTGATGAATGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAGGTGATGAATGTGAAAGTATATATATGTGA
*
31488266 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATAGCCGA
66 GAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATAGCCGA
*
31488330 TGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
131 TGTGATGAATGTGAAAGTG--TATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
31488395 GTATATATGT
Statistics
Matches: 183, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
212 84 0.46
214 99 0.54
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (211 bp):
GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAGGTGATGAATGTGAAAGTATATATATGTGA
GAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATAGCCGA
TGTGATGAATGTGAAAGTGTATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTAG
CCGATGTGATGAATGT
Found at i:31488679 original size:37 final size:37
Alignment explanation
Indices: 31488623--31488701 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
31488613 CCGAGCTCTA
* * **
31488623 AAGACTCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTACGTCCGGGT
*
31488660 AAGACCCGATAACTTCGTGTGGAGATTACGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTACGTCCGGGT
31488697 AAGAC
1 AAGAC
31488702 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 35 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTACGTCCGGGT
Found at i:31493047 original size:27 final size:27
Alignment explanation
Indices: 31492974--31493064 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
31492964 TGGATAAGTT
* *
31492974 GTAGAATTACCGAAATACCCCTATAAG
1 GTAGAATTACTGAAATACCCCTATAGG
*
31493001 GTAGAAATACTGAAATACCCCTATAGG
1 GTAGAATTACTGAAATACCCCTATAGG
* *
31493028 GTAGAATTACTGAGAA-ACCCTTGTAGG
1 GTAGAATTACTGA-AATACCCCTATAGG
*
31493055 GTAAAATTAC
1 GTAGAATTAC
31493065 CATTTTGCCC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 54 0.96
28 2 0.04
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.24
Consensus pattern (27 bp):
GTAGAATTACTGAAATACCCCTATAGG
Found at i:31500528 original size:27 final size:27
Alignment explanation
Indices: 31500489--31500576 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
31500479 TGGATAAGTT
* * *
31500489 GTAGAATTTTCGAAATACCCCTGTAAG
1 GTAGAAATATCGAAATACCCCTGTAGG
*
31500516 GTAGAAATATCGAAATACCCCTATAGG
1 GTAGAAATATCGAAATACCCCTGTAGG
* * * *
31500543 GTAGAATTACCGAGATACCCTTGTAGG
1 GTAGAAATATCGAAATACCCCTGTAGG
31500570 GTA-AAAT
1 GTAGAAAT
31500577 TACCATTTTG
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 3 0.06
27 48 0.94
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.26
Consensus pattern (27 bp):
GTAGAAATATCGAAATACCCCTGTAGG
Found at i:31501274 original size:27 final size:26
Alignment explanation
Indices: 31501230--31501280 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
31501220 CTCGCTGCAA
*
31501230 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
31501257 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
31501281 GGTAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:31511656 original size:40 final size:40
Alignment explanation
Indices: 31511595--31511824 Score: 300
Period size: 40 Copynumber: 5.8 Consensus size: 40
31511585 ATTTGAATAC
* ** * * *
31511595 ATCCGGGCTAAGTCCTAAAGGCATTTATGCTAG-TGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGA-TAT
31511635 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
31511675 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
31511715 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * * * *
31511755 ATCCGGGCTAAGACTCGAAGGCATTCGTGCGAGATGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
31511795 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
31511825 TTGTGGTTAT
Statistics
Matches: 173, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 170 0.98
41 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:31518891 original size:40 final size:40
Alignment explanation
Indices: 31518834--31519063 Score: 336
Period size: 40 Copynumber: 5.8 Consensus size: 40
31518824 ATTTGAATAC
* * * *
31518834 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGA-TAT
31518874 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
31518914 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* *
31518954 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
31518994 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
31519034 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
31519064 TTGTGGTTAT
Statistics
Matches: 176, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 173 0.98
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:31525762 original size:61 final size:60
Alignment explanation
Indices: 31525696--31525870 Score: 179
Period size: 61 Copynumber: 2.9 Consensus size: 60
31525686 AATGCAGTCA
** * * *
31525696 TTTACATTCAATACCCATCAGAAAGGCTTTCCTATCTAAAGTTTTGCCACAAAGGTGCTCC
1 TTTACATTCAATACCCGCCAAAAAGGCTTTCCTGTCTAGAGTTTT-CCACAAAGGTGCTCC
* ** * * * * *
31525757 TTTACATTCAGTACTTGCCAAAAAGGCTTTTCTGTCCAGATTTTTTCCAAAAAGGTGTTCC
1 TTTACATTCAATACCCGCCAAAAAGGCTTTCCTGTCTAGA-GTTTTCCACAAAGGTGCTCC
* * * *
31525818 TTTACATTTAATACGCGCCACAAAGGCTTTCTTGTCTAGAGTTTTCCACAAAG
1 TTTACATTCAATACCCGCCAAAAAGGCTTTCCTGTCTAGAGTTTTCCACAAAG
31525871 ACATTCCTTT
Statistics
Matches: 90, Mismatches: 23, Indels: 3
0.78 0.20 0.03
Matches are distributed among these distances:
60 11 0.12
61 75 0.83
62 4 0.04
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.34
Consensus pattern (60 bp):
TTTACATTCAATACCCGCCAAAAAGGCTTTCCTGTCTAGAGTTTTCCACAAAGGTGCTCC
Found at i:31526606 original size:28 final size:28
Alignment explanation
Indices: 31526568--31526695 Score: 116
Period size: 28 Copynumber: 4.6 Consensus size: 28
31526558 ATTCTTGGAA
*
31526568 AATACCTTTACTGATCATACTTTTGGCG
1 AATACCCTTACTGATCATACTTTTGGCG
*
31526596 AATACCCTTACT-AGTCATACTTTTGACG
1 AATACCCTTACTGA-TCATACTTTTGGCG
* * *
31526624 GATACCCTTACTGATCTTGCTTTTGGCTG
1 AATACCCTTACTGATCATACTTTTGGC-G
* * * *
31526653 -ATACCTTTATTGATCTTTCTTTTGGCG
1 AATACCCTTACTGATCATACTTTTGGCG
* * *
31526680 GATGCCCTTAATGATC
1 AATACCCTTACTGATC
31526696 TTGATAAATC
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
27 2 0.02
28 80 0.95
29 2 0.02
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.41
Consensus pattern (28 bp):
AATACCCTTACTGATCATACTTTTGGCG
Found at i:31526657 original size:56 final size:56
Alignment explanation
Indices: 31526569--31526698 Score: 138
Period size: 56 Copynumber: 2.3 Consensus size: 56
31526559 TTCTTGGAAA
* * *
31526569 ATACCTTTACTGATCATACTTTTGGCGAATACCCTTACTAG-TCATACTTTTGACGG
1 ATACCCTTACTGATCTTGCTTTTGGCGAATACCCTTA-TAGATCATACTTTTGACGG
* * * * *
31526625 ATACCCTTACTGATCTTGCTTTTGGCTG-ATACCTTTATTGATCTTTCTTTTGGCGG
1 ATACCCTTACTGATCTTGCTTTTGGC-GAATACCCTTATAGATCATACTTTTGACGG
* *
31526681 ATGCCCTTAATGATCTTG
1 ATACCCTTACTGATCTTG
31526699 ATAAATCGAA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
55 2 0.03
56 59 0.95
57 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (56 bp):
ATACCCTTACTGATCTTGCTTTTGGCGAATACCCTTATAGATCATACTTTTGACGG
Found at i:31527256 original size:22 final size:20
Alignment explanation
Indices: 31527192--31527258 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 20
31527182 GCCATATCAG
*
31527192 AATACCATAGAGGCTAACAA
1 AATACCATAAAGGCTAACAA
* *
31527212 AATGCCATAAAGGCCATATCAA
1 AATACCATAAAGG-C-TAACAA
*
31527234 AATACACCATAAAGGCTACCAA
1 AAT--ACCATAAAGGCTAACAA
31527256 AAT
1 AAT
31527259 GCCACCCAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 11 0.29
21 1 0.03
22 16 0.42
23 1 0.03
24 9 0.24
ACGTcount: A:0.49, C:0.22, G:0.12, T:0.16
Consensus pattern (20 bp):
AATACCATAAAGGCTAACAA
Found at i:31527258 original size:44 final size:42
Alignment explanation
Indices: 31527170--31527263 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
31527160 AGGCTAGCTG
* *
31527170 AATGCCACAAAAGCCATATCAGAATACCATAGAGGCTAACAA
1 AATGCCACAAAAGCCATATCAAAATACCATAAAGGCTAACAA
* * *
31527212 AATGCCATAAAGGCCATATCAAAATACACCATAAAGGCTACCAA
1 AATGCCACAAAAGCCATATCAAAAT--ACCATAAAGGCTAACAA
31527256 AATGCCAC
1 AATGCCAC
31527264 CCAGGAACCC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
42 22 0.50
44 22 0.50
ACGTcount: A:0.47, C:0.26, G:0.13, T:0.15
Consensus pattern (42 bp):
AATGCCACAAAAGCCATATCAAAATACCATAAAGGCTAACAA
Found at i:31531380 original size:34 final size:34
Alignment explanation
Indices: 31531334--31531423 Score: 112
Period size: 34 Copynumber: 2.6 Consensus size: 34
31531324 TTGCATACTG
* *
31531334 TACTGAACTGGGCTAAGGCCCAGACTGCCT-CTGT
1 TACTGAAATGGGCTAAGGCCCAGACTG-ATGCTGT
31531368 TACTGAAATGGGCTCAA-GCCCAGACTGATGCTGT
1 TACTGAAATGGGCT-AAGGCCCAGACTGATGCTGT
*
31531402 TACTGAAAAAGGGCTAAGGCCC
1 TACTG-AAATGGGCTAAGGCCC
31531424 TAATCGGAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
33 1 0.02
34 34 0.69
35 14 0.29
ACGTcount: A:0.27, C:0.26, G:0.27, T:0.21
Consensus pattern (34 bp):
TACTGAAATGGGCTAAGGCCCAGACTGATGCTGT
Found at i:31533376 original size:32 final size:32
Alignment explanation
Indices: 31533340--31533405 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
31533330 GTATAATGAG
31533340 TAAGACCATTAACAAAAGACTCCATGACATCA
1 TAAGACCATTAACAAAAGACTCCATGACATCA
** *
31533372 TAAGACCATTAATGAAAGACTCTATGACATCA
1 TAAGACCATTAACAAAAGACTCCATGACATCA
31533404 TA
1 TA
31533406 CGATAGAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.45, C:0.21, G:0.11, T:0.23
Consensus pattern (32 bp):
TAAGACCATTAACAAAAGACTCCATGACATCA
Found at i:31534296 original size:18 final size:18
Alignment explanation
Indices: 31534251--31534306 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
31534241 CTTTTAAAAA
31534251 TATATCGATACC-TATTGAAT
1 TATATCGATACCATATT---T
*
31534271 TTTATCGATACCATATTT
1 TATATCGATACCATATTT
31534289 TATATCGATACCA-ATTT
1 TATATCGATACCATATTT
31534306 T
1 T
31534307 GTATTTTGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 5 0.15
18 13 0.39
20 11 0.33
21 4 0.12
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.45
Consensus pattern (18 bp):
TATATCGATACCATATTT
Found at i:31546935 original size:17 final size:18
Alignment explanation
Indices: 31546913--31546949 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
31546903 ATGTTTTGAC
31546913 TTTATTTTT-AGTCACTT
1 TTTATTTTTGAGTCACTT
31546930 TTTATTTTTGAGTCACTT
1 TTTATTTTTGAGTCACTT
31546948 TT
1 TT
31546950 GACTTTGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.16, C:0.11, G:0.08, T:0.65
Consensus pattern (18 bp):
TTTATTTTTGAGTCACTT
Found at i:31553988 original size:47 final size:46
Alignment explanation
Indices: 31553919--31554045 Score: 143
Period size: 47 Copynumber: 2.7 Consensus size: 46
31553909 AGATGTAAGC
*
31553919 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACAAAATGAT-AG
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCT-CAAAAT-ATGAG
* * * * *
31553964 TCAGTGTAAGACCATGTCTTGGACATGGAATCGACTTAAGATATGAG
1 -CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTCAAAATATGAG
31554011 CTAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 C-AGTGTAAGACCATGTCTAGGACATGGCATCGGC
31554046 ACCTTACCCA
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
46 13 0.19
47 49 0.71
48 7 0.10
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTCAAAATATGAG
Found at i:31554293 original size:27 final size:27
Alignment explanation
Indices: 31554261--31554426 Score: 197
Period size: 27 Copynumber: 6.1 Consensus size: 27
31554251 ACCCCAAACT
*
31554261 AGGGTAAAACGGTAATTTTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
31554288 ATGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* *
31554315 AGGGTAAAATGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * *
31554342 AGGGTAAAACAGTAATTTTGTAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * * * *
31554369 AGGGTGAAACGCTAATCCTATAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* **
31554396 AGGGTAAAATGGTAATTCTACAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
31554423 AGGG
1 AGGG
31554427 CATTTCAGTA
Statistics
Matches: 117, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTGTAAATCG
Found at i:31554360 original size:81 final size:81
Alignment explanation
Indices: 31554261--31554426 Score: 251
Period size: 81 Copynumber: 2.0 Consensus size: 81
31554251 ACCCCAAACT
* * * * *
31554261 AGGGTAAAACGGTAATTTTGTAAATCGATGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATG
1 AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGCTAATCCTATAAATCGAGGGTAAAATG
*
31554326 GTAATTCTATAAATCG
66 GTAATTCTACAAATCG
* * *
31554342 AGGGTAAAACAGTAATTTTGTAAATTGAGGGTGAAACGCTAATCCTATAAATTGAGGGTAAAATG
1 AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGCTAATCCTATAAATCGAGGGTAAAATG
31554407 GTAATTCTACAAATCG
66 GTAATTCTACAAATCG
31554423 AGGG
1 AGGG
31554427 CATTTCAGTA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (81 bp):
AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGCTAATCCTATAAATCGAGGGTAAAATG
GTAATTCTACAAATCG
Found at i:31555540 original size:24 final size:24
Alignment explanation
Indices: 31555499--31555570 Score: 58
Period size: 25 Copynumber: 3.0 Consensus size: 24
31555489 GCTTTATCAT
**
31555499 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGGAGGCAAAGCC-CTTTTA
*
31555524 ATAACT-GAGGCAAAGCCCTTTCTG
1 ATAACTGGAGGCAAAGCCCTTT-TA
* *
31555548 ATAAACTAG-GGCAAATCCCTTTT
1 AT-AACTGGAGGCAAAGCCCTTTT
31555571 TGGTAAACTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 4 0.10
24 13 0.32
25 22 0.55
26 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (24 bp):
ATAACTGGAGGCAAAGCCCTTTTA
Found at i:31555595 original size:25 final size:25
Alignment explanation
Indices: 31555532--31555595 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
31555522 TAATAACTGA
*
31555532 GGCAAAGCCCTTTCTGATAAACTAG
1 GGCAAAGCCCTTTTTGATAAACTAG
* *
31555557 GGCAAATCCCTTTTTGGTAAACTAG
1 GGCAAAGCCCTTTTTGATAAACTAG
*
31555582 GGCAGAGCCCTTTT
1 GGCAAAGCCCTTTT
31555596 AGCACTTCCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (25 bp):
GGCAAAGCCCTTTTTGATAAACTAG
Found at i:31556558 original size:27 final size:27
Alignment explanation
Indices: 31556527--31556718 Score: 156
Period size: 27 Copynumber: 7.1 Consensus size: 27
31556517 TTGGTAAATC
*
31556527 ACAAACCAAGGGTATTTCAGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
* * **
31556554 GCAAACCAATGGTATTTCTATAATTTTT
1 ACAAACCAAGGGTATTTCGGTAA-TTTT
* **
31556582 AAAAACTCAAGGGTATTTCTATAATTTT
1 ACAAAC-CAAGGGTATTTCGGTAATTTT
** * * *
31556610 GTAAATCAGGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
* ***
31556637 ATAAATTGAGGGTATTTCGGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
* * *
31556664 ACAAACTAGGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
*
31556691 ACAAA-CTAGGGTATTT-GGTAA-TTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
31556715 ACAA
1 ACAA
31556719 CTAGGGTAAA
Statistics
Matches: 136, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
24 7 0.05
25 5 0.04
26 8 0.06
27 85 0.62
28 15 0.11
29 16 0.12
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (27 bp):
ACAAACCAAGGGTATTTCGGTAATTTT
Found at i:31556600 original size:29 final size:28
Alignment explanation
Indices: 31556529--31556614 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 28
31556519 GGTAAATCAC
**
31556529 AAACCAAGGGTATTTC-AGTAA-TTTTGC
1 AAACCAAGGGTATTTCTA-TAATTTTTAA
*
31556556 AAACCAATGGTATTTCTATAATTTTTAA
1 AAACCAAGGGTATTTCTATAATTTTTAA
31556584 AAACTCAAGGGTATTTCTATAATTTTGTAA
1 AAAC-CAAGGGTATTTCTATAATTTT-TAA
31556614 A
1 A
31556615 TCAGGGGTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
27 18 0.35
28 9 0.18
29 20 0.39
30 4 0.08
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (28 bp):
AAACCAAGGGTATTTCTATAATTTTTAA
Found at i:31556675 original size:54 final size:53
Alignment explanation
Indices: 31556535--31556724 Score: 174
Period size: 54 Copynumber: 3.6 Consensus size: 53
31556525 TCACAAACCA
* * * ** * *
31556535 AGGGTATTTCAGTAATTTTGCAAACCAATGGTATTTCT-ATAATTTTTAAAAACT
1 AGGGTATTTCGGTAATTTTACAAACTAGGGGTATTT-TGGTAA-TTTTACAAACT
** ** * *
31556589 CAAGGGTATTTCTATAATTTTGTAAA-TCAGGGGTATTTTGGTAATTTTATAAATT
1 --AGGGTATTTCGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACT
31556644 GAGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACT
1 -AGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACT
31556698 AGGGTATTT-GGTAA-TTTAC-AACTAGGG
1 AGGGTATTTCGGTAATTTTACAAACTAGGG
31556725 TAAAACGGTA
Statistics
Matches: 115, Mismatches: 16, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
50 8 0.07
51 5 0.04
52 5 0.04
53 9 0.08
54 45 0.39
55 11 0.10
56 32 0.28
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACT
Found at i:31556928 original size:27 final size:27
Alignment explanation
Indices: 31556721--31556927 Score: 251
Period size: 27 Copynumber: 7.7 Consensus size: 27
31556711 ATTTACAACT
*
31556721 AGGGTAAAACGGTAATTTTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
* *
31556748 AAGGT-AAACTGGTAATTTTGTAAATCG
1 AGGGTAAAAC-GGTAATTCTGTAAATCG
*
31556775 AAGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
31556802 AAGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * *
31556829 AGGAT-AAATGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
31556855 AGGGTAAAACGGTAATT-TTTCAAATCG
1 AGGGTAAAACGGTAATTCTGT-AAATCG
* *
31556882 AGGGTGAAACGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
31556909 AGGGTAAAATGGTAATTCT
1 AGGGTAAAACGGTAATTCT
31556928 ACAAATTGAG
Statistics
Matches: 161, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
26 29 0.18
27 125 0.78
28 7 0.04
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTGTAAATCG
Found at i:31559315 original size:25 final size:25
Alignment explanation
Indices: 31559287--31559381 Score: 147
Period size: 25 Copynumber: 3.8 Consensus size: 25
31559277 CTCTTTTAAT
31559287 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
31559312 AACTAGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
31559337 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
31559362 AATTGGGGCATAA-CCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
31559382 AGCACTTCCT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
25 62 0.97
26 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:31559613 original size:27 final size:27
Alignment explanation
Indices: 31559584--31559832 Score: 302
Period size: 27 Copynumber: 9.3 Consensus size: 27
31559574 GGGGCAAAAT
* * * *
31559584 GGTAATTTTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
31559611 GGTAATTCTACCCTACAAGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
31559638 GGTAATTCTACCCTCCAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
31559665 GATAATTCTACCCTCCGGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
31559692 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
31559719 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
31559746 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
31559773 AGT-ATTCTACCCTACAGGGGTGTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
31559799 AGTAATTCTACTCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
31559826 GGTAATT
1 GGTAATT
31559833 TTACAAACCA
Statistics
Matches: 196, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 23 0.12
27 173 0.88
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:31559847 original size:27 final size:26
Alignment explanation
Indices: 31559817--31559880 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 26
31559807 TACTCTATAG
31559817 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
*
31559844 GGGTATTTTGGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAAACAA
31559870 GAGGTATTTTG
1 G-GGTATTTTG
31559881 ATAACTTTGG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 3 0.09
27 32 0.91
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAA
Done.