Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 111 of 131
Found at i:36998137 original size:11 final size:11
Alignment explanation
Indices: 36998130--36998155 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
36998120 TAAAATTTTT
36998130 AAAAAATTATA
1 AAAAAATTATA
36998141 AAAAAATTATA
1 AAAAAATTATA
36998152 AAAA
1 AAAA
36998156 CTATTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:36998223 original size:19 final size:19
Alignment explanation
Indices: 36998168--36998208 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
36998158 ATTTTTCAAA
* *
36998168 ATTAAAGATCATTAAAAAT
1 ATTAAACATTATTAAAAAT
*
36998187 ATTAAACATTATGAAAAAT
1 ATTAAACATTATTAAAAAT
36998206 ATT
1 ATT
36998209 TTAAAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (19 bp):
ATTAAACATTATTAAAAAT
Found at i:37001331 original size:12 final size:12
Alignment explanation
Indices: 37001314--37001339 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37001304 CAAAACGGGC
37001314 TTTTAGCGGCGT
1 TTTTAGCGGCGT
37001326 TTTTAGCGGCGT
1 TTTTAGCGGCGT
37001338 TT
1 TT
37001340 GAATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:37002281 original size:17 final size:17
Alignment explanation
Indices: 37002247--37002295 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
37002237 TAGGGAGTAT
*
37002247 TTATGGATT--TAGGGA
1 TTATGGATTAATAAGGA
37002262 TTATGGATTAATAAGGA
1 TTATGGATTAATAAGGA
*
37002279 TTATGGTTTAATTAAGG
1 TTATGGATTAA-TAAGG
37002296 GTTGGGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 9 0.31
17 15 0.52
18 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.41
Consensus pattern (17 bp):
TTATGGATTAATAAGGA
Found at i:37002595 original size:14 final size:15
Alignment explanation
Indices: 37002569--37002606 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
37002559 GTACTATATA
37002569 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
37002584 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
37002598 TATGG-TTTA
1 TATGGATTTA
37002607 AGGGTTGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:37002646 original size:21 final size:21
Alignment explanation
Indices: 37002576--37002672 Score: 70
Period size: 21 Copynumber: 4.6 Consensus size: 21
37002566 ATATATGGAT
* * * *
37002576 TTAGGGATTATGGATTAGGGA
1 TTAGGGTTTAGGGGTTAGGAA
* * * *
37002597 TTATGGTTTAAGGGTTGGGAT
1 TTAGGGTTTAGGGGTTAGGAA
*
37002618 TTAAGGTTTAGGGGTTAGGAA
1 TTAGGGTTTAGGGGTTAGGAA
* *
37002639 TTAGGG-TTAGGGGTTAAGAG
1 TTAGGGTTTAGGGGTTAGGAA
*
37002659 TCAGGGATTTAGGG
1 TTAGGG-TTTAGGG
37002673 TTTCAAGGGT
Statistics
Matches: 59, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 17 0.29
21 36 0.61
22 6 0.10
ACGTcount: A:0.25, C:0.01, G:0.40, T:0.34
Consensus pattern (21 bp):
TTAGGGTTTAGGGGTTAGGAA
Found at i:37002664 original size:20 final size:20
Alignment explanation
Indices: 37002625--37002664 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
37002615 GATTTAAGGT
* *
37002625 TTAGGGGTTAGGAATTAGGG
1 TTAGGGGTTAAGAATCAGGG
*
37002645 TTAGGGGTTAAGAGTCAGGG
1 TTAGGGGTTAAGAATCAGGG
37002665 ATTTAGGGTT
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:0.25, C:0.03, G:0.45, T:0.28
Consensus pattern (20 bp):
TTAGGGGTTAAGAATCAGGG
Found at i:37008031 original size:15 final size:15
Alignment explanation
Indices: 37008011--37008040 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37008001 GAGTTGAAAG
37008011 TGAAGAAGAAGATGA
1 TGAAGAAGAAGATGA
*
37008026 TGAAGATGAAGATGA
1 TGAAGAAGAAGATGA
37008041 AGATGATCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (15 bp):
TGAAGAAGAAGATGA
Found at i:37008313 original size:23 final size:24
Alignment explanation
Indices: 37008260--37008315 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
37008250 CTAAAAGTAT
* *
37008260 ATATTTAATACTAATTAATTTTTG
1 ATATTTAATAATAATTAATTTTTA
**
37008284 ATA-TTAATAATGTTTAA-TTTTA
1 ATATTTAATAATAATTAATTTTTA
37008306 ATATTTAATA
1 ATATTTAATA
37008316 TTTCTAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 7 0.26
23 17 0.63
24 3 0.11
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (24 bp):
ATATTTAATAATAATTAATTTTTA
Found at i:37008530 original size:43 final size:43
Alignment explanation
Indices: 37008380--37008533 Score: 193
Period size: 43 Copynumber: 3.6 Consensus size: 43
37008370 ATGGTGTTTT
** * *
37008380 TAGCGGCGTTTGTAATCAAAGCGTCGCTAAAGGTCTTTGATCTA
1 TAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTC-TTGATCTA
* *
37008424 TAGTGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCTTGATCTA
* * *
37008467 TAGCGGCGTTTGTTAG-AAAAGCGCCGCTAAAGATCCTGATCTA
1 TAGCGGCGTTTG-TGGTAAAAGCGCCGCTAAAGGTCTTGATCTA
*
37008510 TAGCGGCATTTGTGGTAAAAGCGC
1 TAGCGGCGTTTGTGGTAAAAGCGC
37008534 TGCAAAAGTT
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
42 2 0.02
43 61 0.64
44 32 0.34
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCTTGATCTA
Found at i:37008732 original size:35 final size:36
Alignment explanation
Indices: 37008665--37008760 Score: 115
Period size: 35 Copynumber: 2.7 Consensus size: 36
37008655 GGTTTGTCCG
*
37008665 ACTAGTGCTAGGTGCAAATCTTTGTCGATTTATTCA
1 ACTAGTGCTAGGTGCAAATCTTTGTCGATTTATCCA
* * *
37008701 ACTAGTGC-AGG-GCACATCTATTGTCGGTTTATCCG
1 ACTAGTGCTAGGTGCAAATCT-TTGTCGATTTATCCA
* *
37008736 ACTAGTGCTGGGTGCAAAACTTTGT
1 ACTAGTGCTAGGTGCAAATCTTTGT
37008761 TACGGTTTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
34 7 0.14
35 23 0.46
36 14 0.28
37 6 0.12
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (36 bp):
ACTAGTGCTAGGTGCAAATCTTTGTCGATTTATCCA
Found at i:37011561 original size:27 final size:27
Alignment explanation
Indices: 37011523--37011578 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
37011513 TACATTCACC
37011523 TTTGTTTATAGATAAAACTATATTTAT
1 TTTGTTTATAGATAAAACTATATTTAT
37011550 TTTGTTTATAGATAAAACTATATTTAT
1 TTTGTTTATAGATAAAACTATATTTAT
37011577 TT
1 TT
37011579 AATTATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.54
Consensus pattern (27 bp):
TTTGTTTATAGATAAAACTATATTTAT
Found at i:37021078 original size:23 final size:24
Alignment explanation
Indices: 37021035--37021096 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
37021025 TTAAGCTCAC
*
37021035 ATGAGCTTTCTGTTTTAAACTCTT
1 ATGAGCTTTCTGTTATAAACTCTT
**
37021059 ATGAG-TTTCCTGTTAT-AACTCGG
1 ATGAGCTTT-CTGTTATAAACTCTT
*
37021082 ATAAGCTTTCTGTTA
1 ATGAGCTTTCTGTTA
37021097 CATAGCTCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
23 18 0.56
24 14 0.44
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.45
Consensus pattern (24 bp):
ATGAGCTTTCTGTTATAAACTCTT
Found at i:37035665 original size:7 final size:7
Alignment explanation
Indices: 37035650--37035679 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
37035640 CTTGACTGAT
37035650 TTCTCCG
1 TTCTCCG
*
37035657 TTCTTCG
1 TTCTCCG
37035664 TTCTCCG
1 TTCTCCG
37035671 TTCTCCG
1 TTCTCCG
37035678 TT
1 TT
37035680 GCCCTTGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.37, G:0.13, T:0.50
Consensus pattern (7 bp):
TTCTCCG
Found at i:37046709 original size:15 final size:17
Alignment explanation
Indices: 37046673--37046709 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
37046663 CCAGAAGCAC
*
37046673 CAAAATCATCTTCATCA
1 CAAAATCATCCTCATCA
37046690 CAAAATCATCCT-AT-A
1 CAAAATCATCCTCATCA
37046705 CAAAA
1 CAAAA
37046710 AACTCTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 6 0.32
16 2 0.11
17 11 0.58
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (17 bp):
CAAAATCATCCTCATCA
Found at i:37067931 original size:71 final size:72
Alignment explanation
Indices: 37067840--37067982 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 72
37067830 AAAATTAACC
37067840 TAAAATATTTATTTATTTTTAATATTTTATAATATCCAATAAGACACTTGTTAATCCCTAATCGT
1 TAAAATATTTATTTATTTTTAATATTTTATAATATCCAATAAGACACTTGTTAATCCCTAATCGT
37067905 GTTTATA
66 GTTTATA
37067912 TAAAATATTT-TTTATTTTTAATATTTTATAATATCCAATAAGACACTTGTTAATCCCTAATCGT
1 TAAAATATTTATTTATTTTTAATATTTTATAATATCCAATAAGACACTTGTTAATCCCTAATCGT
37067976 GTTTATA
66 GTTTATA
37067983 GAGTGTAAAA
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 61 0.86
72 10 0.14
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.48
Consensus pattern (72 bp):
TAAAATATTTATTTATTTTTAATATTTTATAATATCCAATAAGACACTTGTTAATCCCTAATCGT
GTTTATA
Found at i:37069523 original size:109 final size:109
Alignment explanation
Indices: 37069329--37069754 Score: 644
Period size: 109 Copynumber: 3.9 Consensus size: 109
37069319 TGGATTAAGA
* * * * * * *
37069329 TTTAAGAGGATATTCGGCTATTTGGTCCAACGAG--AAATCGAAACCCAGCCCATTAGAGCAAG-
1 TTTAAAAGGATATTTGGTTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* * * *
37069391 TTTCTCGAGTTTCCAAACACAAAACACTGTCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
* * *
37069435 TTTGAAAGGATATTTAGTTATTTGGTC-AAGCAAGAAAAATCGAAACCCAGCACATTAGGGCACG
1 TTTAAAAGGATATTTGGTTATTTGGTCGAA-CGAGAAAAATCGAAACCCAGCACATTAGGGCACG
*
37069499 TTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAGTT
65 TTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
*
37069544 TTTAAAAGGATATTTGGTTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTATGGCACGT
1 TTTAAAAGGATATTTGGTTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* *
37069609 TTTCTCGAATTTCTAAACGCAAAACGTTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
*
37069653 TTTAAAAGGATATTTGGTTATTTGGTCGAACGAGAAAAATCGAAATCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGTTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
37069718 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTT
37069755 AAAAAAAATA
Statistics
Matches: 290, Mismatches: 25, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
105 2 0.01
106 25 0.09
108 25 0.09
109 236 0.81
110 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (109 bp):
TTTAAAAGGATATTTGGTTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
Found at i:37071981 original size:50 final size:49
Alignment explanation
Indices: 37071902--37072368 Score: 272
Period size: 50 Copynumber: 9.4 Consensus size: 49
37071892 TTGATCTGTT
**
37071902 TGTCAGGGAAGTAAGATTCGTTGTTGTAGCTTCAATCTATTTAACTGCAA
1 TGTC-GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTTAACTGCAA
* * ** *
37071952 TGTCGGGAAAGAAAGATTCGCCATTGTAGCTTCAATCTATTCCACTGCAC
1 TGTCGGG-AAGTAAGATTCGCCGTTGTAGCTTCAATCTATTTAACTGCAA
* * * ** * * *
37072002 CGCCAGGGAACTAAGATTTACCGTTGTGGCCTCAATCT-TTTAATTGCAA
1 TGTC-GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTTAACTGCAA
* ** * ** *
37072051 TATCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCAC
1 TGTC-GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTTAACTGCAA
* * * * * * * *
37072101 CGCCTGGGATGTAAGATTCGCCGTTGTGGCCTCAATAT-TTTAATTGTAA
1 TGTC-GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTTAACTGCAA
* ** ** * ** * *
37072150 TATCGGGGAAGCGAGATTCGCCGTTACAGCTTCAATCTGTTCCACTACAC
1 TGTC-GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTTAACTGCAA
* * * * * *
37072200 CGCTAGGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTTAATTGCAA
1 TG-TCGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTTAACTGCAA
* * * * ** * *
37072250 TGTCAGGGAAGCAAGATTCACCGTTGTAGTTTCAATCTGTTCCACTACAC
1 TGTC-GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTTAACTGCAA
* * * * * * *
37072300 CGCCAGGGAAGTAAGATTCGTCGTTGTGGCTTCAATATTTTTAATTGCAA
1 TGTC-GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTTAACTGCAA
*
37072350 TGTCGGGAAAGTGAGATTC
1 TGTCGGG-AAGTAAGATTC
37072369 ATTGCTTATT
Statistics
Matches: 297, Mismatches: 113, Indels: 14
0.70 0.27 0.03
Matches are distributed among these distances:
49 74 0.25
50 219 0.74
51 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (49 bp):
TGTCGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTATTTAACTGCAA
Found at i:37072082 original size:99 final size:99
Alignment explanation
Indices: 37071905--37072369 Score: 588
Period size: 99 Copynumber: 4.7 Consensus size: 99
37071895 ATCTGTTTGT
** * * * * **
37071905 CAGGGAAGTAAGATTCGTTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGGGAAAGAAAGATT
1 CAGGGAAGTAAGATTCGCCGTTGTGGCCTCAATCT-TTTAATTGCAATGTCGGGGAAGCGAGATT
* * *
37071970 CGCCATTGTAGCTTCAATCTATTCCACTGCACCGC
65 CACCGTTGTAGCTTCAATCTATTCCACTACACCGC
* ** *
37072005 CAGGGAACTAAGATTTACCGTTGTGGCCTCAATCTTTTAATTGCAATATCGGGGAAGCGAGATTC
1 CAGGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTC
*
37072070 ACCGTTGTAGCTTCAATCTATTCCACTGCACCGC
66 ACCGTTGTAGCTTCAATCTATTCCACTACACCGC
* * * * *
37072104 CTGGGATGTAAGATTCGCCGTTGTGGCCTCAATATTTTAATTGTAATATCGGGGAAGCGAGATTC
1 CAGGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTC
* ** *
37072169 GCCGTTACAGCTTCAATCTGTTCCACTACACCGC
66 ACCGTTGTAGCTTCAATCTATTCCACTACACCGC
* * *
37072203 TAGGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATT
1 CAGGGAAGTAAGATTCGCCGTTGTGGCCTCAATC-TTTTAATTGCAATGTCGGGGAAGCGAGATT
* *
37072268 CACCGTTGTAGTTTCAATCTGTTCCACTACACCGC
65 CACCGTTGTAGCTTCAATCTATTCCACTACACCGC
* * * * *
37072303 CAGGGAAGTAAGATTCGTCGTTGTGGCTTCAATATTTTTAATTGCAATGTCGGGAAAGTGAGATT
1 CAGGGAAGTAAGATTCGCCGTTGTGGCCTCAAT-CTTTTAATTGCAATGTCGGGGAAGCGAGATT
37072368 CA
65 CA
37072370 TTGCTTATTT
Statistics
Matches: 317, Mismatches: 46, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
99 174 0.55
100 143 0.45
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (99 bp):
CAGGGAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTC
ACCGTTGTAGCTTCAATCTATTCCACTACACCGC
Found at i:37073139 original size:24 final size:22
Alignment explanation
Indices: 37073094--37073153 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 22
37073084 TCCTTTTTTC
37073094 TTTTCTTTTTATTTTCTTCTTCT
1 TTTTCTTTTT-TTTTCTTCTTCT
37073117 TCTTTCTTTTTTCTTT-TTCCTTCT
1 T-TTTCTTTTTT-TTTCTT-CTTCT
*
37073141 TTCTCTTTTTTTT
1 TTTTCTTTTTTTT
37073154 AAACAATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
22 2 0.06
23 13 0.39
24 18 0.55
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTCTTTTTTTTTCTTCTTCT
Found at i:37073140 original size:17 final size:17
Alignment explanation
Indices: 37073086--37073142 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
37073076 TTGGCCTCTC
*
37073086 CTTTTTTCTTTTCTTTTT
1 CTTTTTTCTTTT-TCTTT
* *
37073104 ATTTTCTTCTTCTTCTTT
1 CTTTT-TTCTTTTTCTTT
*
37073122 CTTTTTTCTTTTTCCTT
1 CTTTTTTCTTTTTCTTT
37073139 CTTT
1 CTTT
37073143 CTCTTTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 14 0.44
18 12 0.38
19 6 0.19
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (17 bp):
CTTTTTTCTTTTTCTTT
Found at i:37077039 original size:109 final size:107
Alignment explanation
Indices: 37076844--37077271 Score: 567
Period size: 109 Copynumber: 3.9 Consensus size: 107
37076834 TAGATTAAGA
* * * * * * *
37076844 TTTAAGAGGATATTCGGCTATTTGGTCCAACGAG--AAATCGAAGCCCAA-AGCATTAGAGCAAG
1 TTTAAAAGGATATT-TGTTATTTGGTCGAACGAGAAAAATCGAAACCCAACA-CATTAGGGCACG
*
37076906 TTTTCTCAAGTTTCCAAACACAAAACATTGCCTTATTTTGAAATT
64 TTTTCTCAA-TTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
* *
37076951 TTTGAAAGGATATTTAGTTATTTGGT-TAAGCGAGAAAAATCGAAACCCAACACATTAGGGCACG
1 TTTAAAAGGATATTT-GTTATTTGGTCGAA-CGAGAAAAATCGAAACCCAACACATTAGGGCACG
* * *
37077015 TTTTCTCGAATTTTCAAACGCAAAATATTGTCTTATTTTGAAATT
64 TTTTCTC-AATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
* *
37077060 TTTAAAAGGATATTTGATTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTATGGCACGT
1 TTTAAAAGGATATTTG-TTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
* *
37077125 TTTCTCAAATTTCTAAACGCAAAACGTTGCCTTATTTTGAAATT
65 TTTCTC-AATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
* *
37077169 TTTAAAAGGATATTTGGTTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCATGT
1 TTTAAAAGGATATTT-GTTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
37077234 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTT
65 TTTCTC-AATTTCCAAACGCAAAACATTGCCTTATTTT
37077272 TTTAAAAAAA
Statistics
Matches: 285, Mismatches: 27, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
106 2 0.01
107 25 0.09
108 1 0.00
109 251 0.88
110 6 0.02
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (107 bp):
TTTAAAAGGATATTTGTTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTT
TTCTCAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
Found at i:37077444 original size:4 final size:4
Alignment explanation
Indices: 37077435--37077467 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
37077425 AAAAATGGGC
37077435 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
37077468 ACACCGCACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:37080272 original size:42 final size:42
Alignment explanation
Indices: 37080211--37080296 Score: 138
Period size: 42 Copynumber: 2.0 Consensus size: 42
37080201 GTTTTTTGGT
*
37080211 TTAGGATTTTTAGGGTTAGGGTTTTGTTAAAATAATTTAAGG
1 TTAGGATTTGTAGGGTTAGGGTTTTGTTAAAATAATTTAAGG
*
37080253 TTAGG-TTTGTAGGGTTTAGGGTTTTGTTAAAATAATTTAGGG
1 TTAGGATTTGTAGGG-TTAGGGTTTTGTTAAAATAATTTAAGG
37080295 TT
1 TT
37080297 CTAAGTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
41 8 0.20
42 33 0.80
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (42 bp):
TTAGGATTTGTAGGGTTAGGGTTTTGTTAAAATAATTTAAGG
Found at i:37080291 original size:21 final size:21
Alignment explanation
Indices: 37080226--37080296 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
37080216 ATTTTTAGGG
37080226 TTAGGGTTTTGTTAAAATAAT
1 TTAGGGTTTTGTTAAAATAAT
* ** *** ***
37080247 TTAAGGTTAGGTTTGTAGGGT
1 TTAGGGTTTTGTTAAAATAAT
37080268 TTAGGGTTTTGTTAAAATAAT
1 TTAGGGTTTTGTTAAAATAAT
37080289 TTAGGGTT
1 TTAGGGTT
37080297 CTAAGTTTTA
Statistics
Matches: 32, Mismatches: 18, Indels: 0
0.64 0.36 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (21 bp):
TTAGGGTTTTGTTAAAATAAT
Found at i:37080445 original size:33 final size:33
Alignment explanation
Indices: 37080341--37080448 Score: 135
Period size: 33 Copynumber: 3.2 Consensus size: 33
37080331 TTTAGTGTTC
* *
37080341 TTTTTTAAAAATTAATTAAATTAGGGTTTAGGG
1 TTTTTAAAAAATTAATTAAATTAGGGTTTAGTG
* *
37080374 TTTTTAAATAAATTAAATAAATTAAGGTTTAGTG
1 TTTTTAAA-AAATTAATTAAATTAGGGTTTAGTG
** * *
37080408 TTTTTAAAAAATTAATTACTTTAGGGTATAGTT
1 TTTTTAAAAAATTAATTAAATTAGGGTTTAGTG
37080441 TTTTTAAA
1 TTTTTAAA
37080449 TAATATTGTG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 34 0.53
34 30 0.47
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (33 bp):
TTTTTAAAAAATTAATTAAATTAGGGTTTAGTG
Found at i:37080685 original size:126 final size:123
Alignment explanation
Indices: 37080508--37080776 Score: 305
Period size: 126 Copynumber: 2.2 Consensus size: 123
37080498 GAATTTTGTT
* ** * * * *
37080508 TTTTTCTACAGTAATTCCTAAAAAAAATAATTTTGTGAATACAGTTTTGAACAAATAGTGTGAAA
1 TTTTTCTACAGTAGTT-CTTGAAAAAATAATTTTGAGAAGACAGTTTTGAACAAATAGTATCAAA
* *
37080573 AACACTTCAAGC-AGGATGCACTGTTC-GCAAAATT-ACTAAAAAAAACTCC-CATGTGGACGCT
65 AACACTTCAAGCGA-GATGCAC--TTCAGCAAAATTGA-TAAAAAAAAC-CCACGT-TGG-CACT
37080634 C
123 C
* *
37080635 TTTTTCTATAGTAGTTCTTGAAAAAATAATTTTGAGAAGA-TGTTTCTGAACAAATAGTATCAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTT-TGAACAAATAGTATCAAA
* *
37080699 AACCCTTCAAGCGAGATGCACTTCAGCAAAATTGATGAAAAAAACCCACGTTGGCACTC
65 AACACTTCAAGCGAGATGCACTTCAGCAAAATTGATAAAAAAAACCCACGTTGGCACTC
37080758 TTTTTCTACAGTAGTTCTT
1 TTTTTCTACAGTAGTTCTT
37080777 CTATTAAATA
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
123 22 0.18
124 8 0.07
125 23 0.19
126 55 0.45
127 15 0.12
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (123 bp):
TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTTTGAACAAATAGTATCAAAA
ACACTTCAAGCGAGATGCACTTCAGCAAAATTGATAAAAAAAACCCACGTTGGCACTC
Found at i:37083613 original size:24 final size:24
Alignment explanation
Indices: 37083559--37083614 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
37083549 AGAACTTCTA
* *
37083559 TTTTATTAAAAATATAAAAATAAT
1 TTTTATTAAAAATATAAAAACAAC
37083583 TTATTATT-AAAATATTAAAAACAAC
1 TT-TTATTAAAAATA-TAAAAACAAC
37083608 TTTTATT
1 TTTTATT
37083615 TTATTAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 13 0.46
25 15 0.54
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTTATTAAAAATATAAAAACAAC
Found at i:37085727 original size:30 final size:30
Alignment explanation
Indices: 37085693--37085761 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
37085683 ATTAATTAAA
*
37085693 GAGAGTTTTGAGAAATTTAAGGAGAAATTT
1 GAGAGTTTTGAAAAATTTAAGGAGAAATTT
*
37085723 GAGAGTTTTGAAAAATTTAGGGAGAAATTT
1 GAGAGTTTTGAAAAATTTAAGGAGAAATTT
37085753 GAGAGTTTT
1 GAGAGTTTT
37085762 TTGCCAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.35
Consensus pattern (30 bp):
GAGAGTTTTGAAAAATTTAAGGAGAAATTT
Found at i:37100983 original size:45 final size:44
Alignment explanation
Indices: 37100749--37101161 Score: 170
Period size: 44 Copynumber: 9.5 Consensus size: 44
37100739 NNNNNNNNAA
* * *
37100749 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAA-TAA-
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AAG-TAAGCAAG
* * * *
37100793 TCCTTATCTCCCTG-AGTCGCAGTGGAGCGGATTAA--AAGCACAG
1 T-CTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA-AG
* * * * * * *
37100836 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CG-CATCTAG
1 -TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAG
*
37100877 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAG
* *
37100921 CCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTAAAG-ATGGCGAA-
1 TCTTATCTC-CCTGAAGTTGTAGTGGA-GCAGACT-AAGTA-AGC-AAG
* * *
37100966 TCTTATCTCCCTGAAGTTGTAGTGGAGTAGA-TAAAGCCAA-TAA-
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AAG-TAAGCAAG
* * ** * *
37101009 TCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAA--AATCACAG
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA-AG
* * * * * * *
37101052 ATCTTATCTCTCTAAAGTTGTAG-AGAGCAGA-T-CGCATTG--GG
1 -TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTA-AGCAAG
* * * * *
37101093 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACCCAAGAAAGCGAG
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-CTAAGTAAGCAAG
*
37101138 TCTTATCTCCCTGAAGTTGCAGTG
1 TCTTATCTCCCTGAAGTTGTAGTG
37101162 ATAATTCCCT
Statistics
Matches: 285, Mismatches: 50, Indels: 67
0.71 0.12 0.17
Matches are distributed among these distances:
40 44 0.15
41 18 0.06
42 7 0.02
43 62 0.22
44 82 0.29
45 66 0.23
46 6 0.02
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAG
Found at i:37110211 original size:23 final size:23
Alignment explanation
Indices: 37110183--37110228 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
37110173 TGTTAGTTAA
37110183 AATAATAAAAGTTCTGTTCATGT
1 AATAATAAAAGTTCTGTTCATGT
37110206 AATAATAAAAGTTCTGTTCATGT
1 AATAATAAAAGTTCTGTTCATGT
37110229 TTTAAGTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (23 bp):
AATAATAAAAGTTCTGTTCATGT
Found at i:37115753 original size:22 final size:23
Alignment explanation
Indices: 37115725--37115769 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
37115715 ATGTAATATT
37115725 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
37115747 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
37115770 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:37115997 original size:23 final size:23
Alignment explanation
Indices: 37115953--37115997 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
37115943 TCTTATTTTG
* *
37115953 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
37115976 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
37115998 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:37121285 original size:14 final size:15
Alignment explanation
Indices: 37121261--37121293 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
37121251 TCCCAAGCTG
37121261 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
37121276 GGAA-GACCTTATTT
1 GGAAGGACCTTATGT
37121290 GGAA
1 GGAA
37121294 AAGCGTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:37130213 original size:5 final size:5
Alignment explanation
Indices: 37130203--37130229 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
37130193 GTGACAATTC
37130203 AACAA AACAA AACAA AACAA AACAA AA
1 AACAA AACAA AACAA AACAA AACAA AA
37130230 AGCCAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
AACAA
Found at i:37138354 original size:21 final size:21
Alignment explanation
Indices: 37138272--37138408 Score: 96
Period size: 21 Copynumber: 6.5 Consensus size: 21
37138262 TAGCTCTCAC
*
37138272 GAGCTTCTGTTTAACTCATAT
1 GAGCTTCTGTTTAACTCTTAT
* * *
37138293 GAGTTTCTGTTCAGCTC-TATT
1 GAGCTTCTGTTTAACTCTTA-T
*
37138314 GAGCTTCTGTTTAACCCTTAT
1 GAGCTTCTGTTTAACTCTTAT
* * * *
37138335 GGGTTTCTGTTTAGCTCTTAC
1 GAGCTTCTGTTTAACTCTTAT
* * * *
37138356 AAGCTTCCGTTCAACCCTTAT
1 GAGCTTCTGTTTAACTCTTAT
* * * * *
37138377 GGGTTTCTATTTAGCTCTCAT
1 GAGCTTCTGTTTAACTCTTAT
37138398 GAGCTTCTGTT
1 GAGCTTCTGTT
37138409 CAGCCTTCGG
Statistics
Matches: 82, Mismatches: 32, Indels: 4
0.69 0.27 0.03
Matches are distributed among these distances:
20 2 0.02
21 78 0.95
22 2 0.02
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.44
Consensus pattern (21 bp):
GAGCTTCTGTTTAACTCTTAT
Found at i:37138410 original size:42 final size:42
Alignment explanation
Indices: 37138254--37138410 Score: 172
Period size: 42 Copynumber: 3.7 Consensus size: 42
37138244 TCGTGTTTAC
* * * * *
37138254 TTTCCATTTAGCTCTCACGAGCTTCTGTTTAACTCATATGAG
1 TTTCTATTTAGCTCTCACGAGCTTCTGTTCAACCCTTATGGG
* * * *
37138296 TTTCTGTTCAGCTCT-ATTGAGCTTCTGTTTAACCCTTATGGG
1 TTTCTATTTAGCTCTCA-CGAGCTTCTGTTCAACCCTTATGGG
* * * *
37138338 TTTCTGTTTAGCTCTTACAAGCTTCCGTTCAACCCTTATGGG
1 TTTCTATTTAGCTCTCACGAGCTTCTGTTCAACCCTTATGGG
*
37138380 TTTCTATTTAGCTCTCATGAGCTTCTGTTCA
1 TTTCTATTTAGCTCTCACGAGCTTCTGTTCA
37138411 GCCTTCGGGC
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.01
42 94 0.98
43 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.43
Consensus pattern (42 bp):
TTTCTATTTAGCTCTCACGAGCTTCTGTTCAACCCTTATGGG
Found at i:37139797 original size:17 final size:17
Alignment explanation
Indices: 37139775--37139808 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
37139765 GTTCAGACAT
37139775 CTCATTGTATTGGGCCC
1 CTCATTGTATTGGGCCC
37139792 CTCATTGTATTGGGCCC
1 CTCATTGTATTGGGCCC
37139809 AATTATATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.29, G:0.24, T:0.35
Consensus pattern (17 bp):
CTCATTGTATTGGGCCC
Found at i:37151886 original size:14 final size:14
Alignment explanation
Indices: 37151867--37151906 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
37151857 TTGATTGCCA
37151867 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
37151881 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
37151895 GGAAAATGTTTT
1 GTAAAATGTTTT
37151907 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:37151915 original size:20 final size:20
Alignment explanation
Indices: 37151890--37151929 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
37151880 CGTAAAATGA
*
37151890 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
37151910 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
37151930 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:37151919 original size:34 final size:35
Alignment explanation
Indices: 37151875--37151941 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
37151865 CAGTAAAATG
*
37151875 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
37151909 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
37151942 CTGGTGTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:37151945 original size:14 final size:15
Alignment explanation
Indices: 37151869--37151945 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
37151859 GATTGCCAGT
* *
37151869 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
37151883 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
37151897 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
37151917 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
37151932 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
37151946 TGTTTAATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:37155066 original size:21 final size:22
Alignment explanation
Indices: 37155036--37155076 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
37155026 ACAGAAATTG
*
37155036 AAATGGTAAGACATTTTCCCTA
1 AAATGGTAAGACAATTTCCCTA
*
37155058 AAAT-GTAAGCCAATTTCCC
1 AAATGGTAAGACAATTTCCC
37155077 GTGCTTTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (22 bp):
AAATGGTAAGACAATTTCCCTA
Found at i:37156636 original size:71 final size:70
Alignment explanation
Indices: 37156492--37156644 Score: 193
Period size: 71 Copynumber: 2.2 Consensus size: 70
37156482 ACGAACTATT
* **
37156492 ATGGCTAAGATCCAACATAAGTTGGGGATTCTCGACAGCTTGAGTGAGCAGCATCGGATCATTAT
1 ATGGCTGAGATCCAACATAAGTTGCAGATTCTCGACAGCTTGAGTGAGCAGCATC-GATCATTAT
37156557 ATAGCG
65 ATAGCG
* **
37156563 ATGGTTGAGATCCAACATGTGTTGCAGATTCTCGACAGCTTGAGTGAGCAGCATC-A-CATTATA
1 ATGGCTGAGATCCAACATAAGTTGCAGATTCTCGACAGCTTGAGTGAGCAGCATCGATCATTATA
*
37156626 CTTTATCG
66 ---TAGCG
37156634 ATGGCTGAGAT
1 ATGGCTGAGAT
37156645 ATATCATGTG
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
68 7 0.10
69 1 0.01
71 63 0.89
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (70 bp):
ATGGCTGAGATCCAACATAAGTTGCAGATTCTCGACAGCTTGAGTGAGCAGCATCGATCATTATA
TAGCG
Found at i:37158004 original size:39 final size:39
Alignment explanation
Indices: 37157956--37158057 Score: 143
Period size: 39 Copynumber: 2.6 Consensus size: 39
37157946 CGATAAACAC
*
37157956 CGACACGAAGCCTGTTAGGCTCAAAGCCTGATAAGTCAT
1 CGACACGAAGCCTGCTAGGCTCAAAGCCTGATAAGTCAT
*
37157995 CGACACGAAGCCTGCTAGGCTCAAAGCCTGATCAGTCA-
1 CGACACGAAGCCTGCTAGGCTCAAAGCCTGATAAGTCAT
* * *
37158033 CCAGCATGAGGCCTGCTAGGCTCAA
1 CGA-CACGAAGCCTGCTAGGCTCAA
37158058 GGCTCGATAC
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 2 0.04
39 55 0.96
ACGTcount: A:0.28, C:0.29, G:0.25, T:0.18
Consensus pattern (39 bp):
CGACACGAAGCCTGCTAGGCTCAAAGCCTGATAAGTCAT
Found at i:37160742 original size:98 final size:98
Alignment explanation
Indices: 37160573--37160762 Score: 319
Period size: 98 Copynumber: 1.9 Consensus size: 98
37160563 ATATAAAAAT
* *
37160573 TTTAAAAGAACATCCACTCTTCCAAGATTTAAGAAACCACATCCAATACGTTAGGGCACGATCCC
1 TTTAAAAGAACATCCACTCTTCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATCCC
37160638 TTTAGAATCCCAAACTCGGAATATTTCTTTTAA
66 TTTAGAATCCCAAACTCGGAATATTTCTTTTAA
* *
37160671 TTTAAAAGAACATCCACT-TATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
1 TTTAAAAGAACATCCACTCT-TCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATCC
*
37160735 CTTTAGAATCTCAAACTCGGAATATTTC
65 CTTTAGAATCCCAAACTCGGAATATTTC
37160763 CTTCATGATT
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
97 1 0.01
98 85 0.99
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTCTTCCAAGATTTAAGAAACCACACCCAATACGTTAGGGCACAATCCC
TTTAGAATCCCAAACTCGGAATATTTCTTTTAA
Found at i:37161425 original size:12 final size:12
Alignment explanation
Indices: 37161408--37161432 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37161398 AAAACAAATT
37161408 AATATATAAAAA
1 AATATATAAAAA
37161420 AATATATAAAAA
1 AATATATAAAAA
37161432 A
1 A
37161433 CTAAAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AATATATAAAAA
Found at i:37162245 original size:14 final size:14
Alignment explanation
Indices: 37162226--37162258 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
37162216 GCCATGTTTG
37162226 TTTGGGCCACTGAA
1 TTTGGGCCACTGAA
37162240 TTTGGGCCACTGAA
1 TTTGGGCCACTGAA
37162254 TTTGG
1 TTTGG
37162259 TTTTGGGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.33
Consensus pattern (14 bp):
TTTGGGCCACTGAA
Found at i:37166344 original size:101 final size:101
Alignment explanation
Indices: 37166221--37166405 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 101
37166211 AAAGTGATGG
* * *
37166221 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAA-GTCGCATGTGA-AGT
1 TCACGTGTGTAGTACTACGTGCAGGATACTACGTGTACCGG-ATGATAAGGTCACATGT-ATAGT
37166284 ACTATGTGCAGACTACTATGCATACCAGATAGTTTCGA
64 ACTATGTGCAGACTACTATGCATACCAGATAGTTTCGA
* *
37166322 TCACGTGTGTAGTACTACGTGCAGGATACTACGTGTATCGGATGGTAATGGTCACATGTATAGTA
1 TCACGTGTGTAGTACTACGTGCAGGATACTACGTGTACCGGATGATAA-GGTCACATGTATAGTA
*
37166387 CTATGTGCAGGCTACTATG
65 CTATGTGCAGACTACTATG
37166406 TGAACNNNNN
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
100 6 0.08
101 39 0.52
102 30 0.40
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTACGTGCAGGATACTACGTGTACCGGATGATAAGGTCACATGTATAGTAC
TATGTGCAGACTACTATGCATACCAGATAGTTTCGA
Found at i:37177579 original size:17 final size:18
Alignment explanation
Indices: 37177548--37177581 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37177538 AATTTAACTT
37177548 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
37177566 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
37177582 TTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:37177778 original size:28 final size:28
Alignment explanation
Indices: 37177746--37177803 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
37177736 ATTTTTAGTA
* *
37177746 TTTGAGTTTAGGGTTTGAGG-TTTTAAAT
1 TTTGAATTCAGGGTTTG-GGATTTTAAAT
37177774 TTTGAATTCAGGGTTTGGGATTTTAAAT
1 TTTGAATTCAGGGTTTGGGATTTTAAAT
37177802 TT
1 TT
37177804 AGGGTTTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.22, C:0.02, G:0.26, T:0.50
Consensus pattern (28 bp):
TTTGAATTCAGGGTTTGGGATTTTAAAT
Found at i:37180418 original size:41 final size:41
Alignment explanation
Indices: 37180361--37180527 Score: 334
Period size: 41 Copynumber: 4.1 Consensus size: 41
37180351 CACATCCCCT
37180361 GAACACCTTTATTTTAAACCTATTTGGTCATCTTCAAACAA
1 GAACACCTTTATTTTAAACCTATTTGGTCATCTTCAAACAA
37180402 GAACACCTTTATTTTAAACCTATTTGGTCATCTTCAAACAA
1 GAACACCTTTATTTTAAACCTATTTGGTCATCTTCAAACAA
37180443 GAACACCTTTATTTTAAACCTATTTGGTCATCTTCAAACAA
1 GAACACCTTTATTTTAAACCTATTTGGTCATCTTCAAACAA
37180484 GAACACCTTTATTTTAAACCTATTTGGTCATCTTCAAACAA
1 GAACACCTTTATTTTAAACCTATTTGGTCATCTTCAAACAA
37180525 GAA
1 GAA
37180528 GAGGCAAATC
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 126 1.00
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.36
Consensus pattern (41 bp):
GAACACCTTTATTTTAAACCTATTTGGTCATCTTCAAACAA
Found at i:37183966 original size:15 final size:14
Alignment explanation
Indices: 37183939--37183965 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37183929 GAGTATAGTA
37183939 AAATATTAAAAAAT
1 AAATATTAAAAAAT
37183953 AAATATTAAAAAA
1 AAATATTAAAAAA
37183966 AAACACATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATATTAAAAAAT
Found at i:37184238 original size:100 final size:100
Alignment explanation
Indices: 37184126--37184322 Score: 340
Period size: 100 Copynumber: 2.0 Consensus size: 100
37184116 TACTTTACCG
*
37184126 TTTTTTTCAATTTAATATTATAATCTACTTTCTTAAAATTAATATTTTATCTAATTTTTTACTAA
1 TTTTTTTCAATTTAATATTATAATCTACTTTCTTAAAATTAATATTTTATCTAATTATTTACTAA
* *
37184191 TTTTCTATTGGTTGTTTTCCAAATATTTTTTTTGC
66 TTTACTATTGGTTGTTTCCCAAATATTTTTTTTGC
* * *
37184226 TTTTTTTCAATTTAATATTATAATTTATTTTCTTAAAATTCATATTTTATCTAATTATTTACTAA
1 TTTTTTTCAATTTAATATTATAATCTACTTTCTTAAAATTAATATTTTATCTAATTATTTACTAA
37184291 TTTACTATTGGTTGTTTCCCAAATATTTTTTT
66 TTTACTATTGGTTGTTTCCCAAATATTTTTTT
37184323 GATTTTCTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 91 1.00
ACGTcount: A:0.28, C:0.10, G:0.04, T:0.59
Consensus pattern (100 bp):
TTTTTTTCAATTTAATATTATAATCTACTTTCTTAAAATTAATATTTTATCTAATTATTTACTAA
TTTACTATTGGTTGTTTCCCAAATATTTTTTTTGC
Found at i:37184342 original size:71 final size:72
Alignment explanation
Indices: 37184252--37184414 Score: 285
Period size: 71 Copynumber: 2.3 Consensus size: 72
37184242 ATTATAATTT
37184252 ATTTTCTTAAAATTCATATTTTATCTAATTATTTACTAATTTACTATTGGTTGTTTCCCAAATAT
1 ATTTTCTTAAAATTCATATTTTATCTAATTATTTACTAATTTACTATTGGTTGTTTCCCAAATAT
37184317 TTTTTTG
66 TTTTTTG
37184324 ATTTTCTT-AAATTCATATTTTATCTAATTATTTACTAATTTACTATTGGTTGTTTCCCAAATAT
1 ATTTTCTTAAAATTCATATTTTATCTAATTATTTACTAATTTACTATTGGTTGTTTCCCAAATAT
37184388 TTTTTTG
66 TTTTTTG
* *
37184395 AGTTTCTAAAAAATTC-TATT
1 ATTTTCT-TAAAATTCATATT
37184415 ATTTAATGAA
Statistics
Matches: 87, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
71 69 0.79
72 12 0.14
73 6 0.07
ACGTcount: A:0.29, C:0.11, G:0.06, T:0.55
Consensus pattern (72 bp):
ATTTTCTTAAAATTCATATTTTATCTAATTATTTACTAATTTACTATTGGTTGTTTCCCAAATAT
TTTTTTG
Found at i:37187421 original size:43 final size:43
Alignment explanation
Indices: 37187366--37187530 Score: 190
Period size: 43 Copynumber: 3.9 Consensus size: 43
37187356 ATCATATACA
* * *
37187366 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * * * * *
37187408 ATGCTACTGTCCCAAACAGGGTCTTATATGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* *
37187450 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* *
37187493 ATGCCAATGTCCTAGACATGGTCTTACATGAAATCACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
37187531 CATCAGGACT
Statistics
Matches: 98, Mismatches: 23, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
42 37 0.38
43 61 0.62
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:37187504 original size:85 final size:84
Alignment explanation
Indices: 37187356--37187528 Score: 229
Period size: 85 Copynumber: 2.0 Consensus size: 84
37187346 AAACACATAT
* * * * *
37187356 ATCATATACAATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCGATGCTACTGTCCC
1 ATCATATACAATGCCATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCC
*
37187421 AAACAGGGTCTTATATGAA
66 AAACAGGGTCTTACATGAA
* * *
37187440 ATCATATACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATGTCC
1 ATCATATACAATGCC-ATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATGTCC
* * *
37187505 TAGACATGGTCTTACATGAA
65 CAAACAGGGTCTTACATGAA
37187525 ATCA
1 ATCA
37187529 CACATCAGGA
Statistics
Matches: 76, Mismatches: 12, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
84 14 0.18
85 62 0.82
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (84 bp):
ATCATATACAATGCCATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCC
AAACAGGGTCTTACATGAA
Found at i:37188857 original size:20 final size:19
Alignment explanation
Indices: 37188834--37188887 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
37188824 AAAATCAAAG
37188834 TAATTTTCAAAATTTGAAAA
1 TAATTTT-AAAATTTGAAAA
*
37188854 TAATTTTTAAAA-TTCAAAA
1 TAA-TTTTAAAATTTGAAAA
37188873 T-ATTTATAAAATTTG
1 TAATTT-TAAAATTTG
37188888 TATTTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 3 0.10
18 6 0.21
19 9 0.31
20 7 0.24
21 4 0.14
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (19 bp):
TAATTTTAAAATTTGAAAA
Found at i:37188874 original size:19 final size:19
Alignment explanation
Indices: 37188823--37188885 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 19
37188813 AATTACAAAA
* * *
37188823 AAAAATCAAAGTAATTTTC
1 AAAATTCAAAATAATTTTT
*
37188842 AAAATTTGAAAATAATTTTT
1 AAAA-TTCAAAATAATTTTT
*
37188862 AAAATTCAAAAT-ATTTAT
1 AAAATTCAAAATAATTTTT
37188880 AAAATT
1 AAAATT
37188886 TGTATTTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 11 0.30
19 11 0.30
20 15 0.41
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:37197390 original size:3 final size:3
Alignment explanation
Indices: 37197376--37197408 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
37197366 TTTTAAAGGG
37197376 TTC TTCC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TT
37197409 TAAGTGGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:37198185 original size:27 final size:27
Alignment explanation
Indices: 37198143--37198233 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
37198133 CATCTTGTCT
37198143 ACCTTTGTGGCGTACTCTGTAT-GAATC
1 ACCTTTGTGGCGTACTCTGTATAG-ATC
* * *
37198170 ACCTTTGTGGCATACTCTGTATATATA
1 ACCTTTGTGGCGTACTCTGTATAGATC
*
37198197 ACCTTTGTGCCGTACTCTGTATAGATC
1 ACCTTTGTGGCGTACTCTGTATAGATC
*
37198224 GCCTTTGTGG
1 ACCTTTGTGG
37198234 TGCATTCTGT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (27 bp):
ACCTTTGTGGCGTACTCTGTATAGATC
Found at i:37199697 original size:27 final size:27
Alignment explanation
Indices: 37199632--37199698 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
37199622 TTGCCAAGCT
* * * *
37199632 TGCTGGCATACATCGTCTCGCTGGACC
1 TGCTGGCATATACCATCTCGCTAGACC
* * *
37199659 TACTAGCGTATACCATCTCGCTAGACC
1 TGCTGGCATATACCATCTCGCTAGACC
37199686 TGCTGGCATATAC
1 TGCTGGCATATAC
37199699 TAGCTCGCCA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (27 bp):
TGCTGGCATATACCATCTCGCTAGACC
Found at i:37199705 original size:27 final size:27
Alignment explanation
Indices: 37199648--37199706 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
37199638 CATACATCGT
* * *
37199648 CTCGCTGGACCTACTAGCGTATACCAT
1 CTCGCTAGACCTACTAGCATATACCAG
* * *
37199675 CTCGCTAGACCTGCTGGCATATACTAG
1 CTCGCTAGACCTACTAGCATATACCAG
37199702 CTCGC
1 CTCGC
37199707 CAAGCCTTCT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.34, G:0.20, T:0.25
Consensus pattern (27 bp):
CTCGCTAGACCTACTAGCATATACCAG
Found at i:37201059 original size:41 final size:41
Alignment explanation
Indices: 37201002--37201082 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
37200992 TCCTGCATTT
37201002 GTTGTGGATTCTCCACAGCTCGTATGAGCAGCATCGTGTAA
1 GTTGTGGATTCTCCACAGCTCGTATGAGCAGCATCGTGTAA
37201043 GTTGTGGATTCTCCACAGCTCGTATGAGCAGCATCGTGTA
1 GTTGTGGATTCTCCACAGCTCGTATGAGCAGCATCGTGTA
37201083 GCTTACATTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (41 bp):
GTTGTGGATTCTCCACAGCTCGTATGAGCAGCATCGTGTAA
Found at i:37217714 original size:6 final size:6
Alignment explanation
Indices: 37217705--37217743 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
37217695 TAAGCATTGA
* *
37217705 ACTTGC ACTTGC ACATGC ACTTGC ACTTGC ACATGC ACT
1 ACTTGC ACTTGC ACTTGC ACTTGC ACTTGC ACTTGC ACT
37217744 CTGCCCCCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.28
Consensus pattern (6 bp):
ACTTGC
Found at i:37217728 original size:18 final size:18
Alignment explanation
Indices: 37217705--37217743 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
37217695 TAAGCATTGA
37217705 ACTTGCACTTGCACATGC
1 ACTTGCACTTGCACATGC
37217723 ACTTGCACTTGCACATGC
1 ACTTGCACTTGCACATGC
37217741 ACT
1 ACT
37217744 CTGCCCCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.28
Consensus pattern (18 bp):
ACTTGCACTTGCACATGC
Found at i:37217828 original size:5 final size:5
Alignment explanation
Indices: 37217814--37217867 Score: 81
Period size: 5 Copynumber: 10.2 Consensus size: 5
37217804 CTAATCATCT
37217814 TTTTC TTTTTC TTTTTC TTTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC -TTTTC -TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
37217862 TTTTC T
1 TTTTC T
37217868 AGCTAAGCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 31 0.65
6 17 0.35
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:37221011 original size:7 final size:7
Alignment explanation
Indices: 37220999--37221029 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
37220989 CTTATCAATA
37220999 AATCTAT
1 AATCTAT
37221006 AATCTAT
1 AATCTAT
37221013 AATCTAT
1 AATCTAT
37221020 AATCTAT
1 AATCTAT
37221027 AAT
1 AAT
37221030 TCTGAGTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (7 bp):
AATCTAT
Found at i:37223704 original size:13 final size:13
Alignment explanation
Indices: 37223686--37223741 Score: 62
Period size: 13 Copynumber: 4.3 Consensus size: 13
37223676 AATATTATTT
37223686 ATTTAATCAATTA
1 ATTTAATCAATTA
*
37223699 ATTTAATTAATTA
1 ATTTAATCAATTA
*
37223712 ATTTAACTAAATTA
1 ATTTAA-TCAATTA
37223726 ATTT--TCTAATTA
1 ATTTAATC-AATTA
37223738 ATTT
1 ATTT
37223742 CTCAACCCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
11 1 0.03
12 9 0.24
13 18 0.47
14 10 0.26
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTAATCAATTA
Found at i:37225144 original size:41 final size:41
Alignment explanation
Indices: 37225099--37225439 Score: 562
Period size: 41 Copynumber: 8.3 Consensus size: 41
37225089 AGTCTACTAA
* *
37225099 GCTTAAAGTCTGATTCAGATCACCGGCACCTAGCCTGCTAG
1 GCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAG
* *
37225140 GCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAG
1 GCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAG
37225181 GCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAG
1 GCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAG
*
37225222 GCTTATAA-CCTGATTCAGTTCACCGGCACTTAGCCTGCTAG
1 GCTTA-AAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAG
37225263 GCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAG
1 GCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAG
*
37225304 GCTTATAA-CCTGATTCAGTTCACCGGCACTTAGCCTGCTAG
1 GCTTA-AAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAG
37225345 GCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAG
1 GCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAG
*
37225386 GCTTATAA-CCTGATTCAGTTCACCGGCACTTAGCCTGCTAG
1 GCTTA-AAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAG
*
37225427 GCTTTAAGCCTGA
1 GCTTAAAGCCTGA
37225440 ATTGATTCAT
Statistics
Matches: 282, Mismatches: 12, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
40 6 0.02
41 270 0.96
42 6 0.02
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (41 bp):
GCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAG
Found at i:37225215 original size:82 final size:82
Alignment explanation
Indices: 37225099--37225439 Score: 646
Period size: 82 Copynumber: 4.2 Consensus size: 82
37225089 AGTCTACTAA
* * *
37225099 GCTTAAAGTCTGATTCAGATCACCGGCACCTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACC
1 GCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACC
37225164 GGCACTTAGCCTGCTAG
66 GGCACTTAGCCTGCTAG
37225181 GCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACC
1 GCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACC
37225246 GGCACTTAGCCTGCTAG
66 GGCACTTAGCCTGCTAG
37225263 GCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACC
1 GCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACC
37225328 GGCACTTAGCCTGCTAG
66 GGCACTTAGCCTGCTAG
37225345 GCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACC
1 GCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACC
37225410 GGCACTTAGCCTGCTAG
66 GGCACTTAGCCTGCTAG
*
37225427 GCTTTAAGCCTGA
1 GCTTAAAGCCTGA
37225440 ATTGATTCAT
Statistics
Matches: 255, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 255 1.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (82 bp):
GCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTCACC
GGCACTTAGCCTGCTAG
Found at i:37248128 original size:7 final size:7
Alignment explanation
Indices: 37248116--37248156 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
37248106 ATCTAGAGAT
37248116 TTAATTA
1 TTAATTA
37248123 TTAATTTA
1 TTAA-TTA
37248131 TT-ATTA
1 TTAATTA
37248137 -TAATTA
1 TTAATTA
37248143 TTAATTA
1 TTAATTA
37248150 TT-ATTA
1 TTAATTA
37248156 T
1 T
37248157 GGTTTTCTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
5 1 0.03
6 12 0.39
7 13 0.42
8 5 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTAATTA
Found at i:37248142 original size:20 final size:19
Alignment explanation
Indices: 37248117--37248156 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
37248107 TCTAGAGATT
37248117 TAATTATTAATTTATTATTA
1 TAATTATTAA-TTATTATTA
37248137 TAATTATTAATTATTATTA
1 TAATTATTAATTATTATTA
37248156 T
1 T
37248157 GGTTTTCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TAATTATTAATTATTATTA
Found at i:37248787 original size:17 final size:18
Alignment explanation
Indices: 37248765--37248798 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37248755 TAAATGAGTT
37248765 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
37248782 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
37248799 AAAAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:37249302 original size:21 final size:21
Alignment explanation
Indices: 37249257--37249302 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
37249247 TGCCGATCAG
* *
37249257 GCACTACATGTGTCGTATTAG
1 GCACCACATGTGTCGTATTAA
37249278 GCACCACATGTGTCGT-TTCAA
1 GCACCACATGTGTCGTATT-AA
37249299 GCAC
1 GCAC
37249303 TTTATGTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (21 bp):
GCACCACATGTGTCGTATTAA
Found at i:37251048 original size:20 final size:21
Alignment explanation
Indices: 37251002--37251048 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
37250992 TTTATTTTCT
* *
37251002 AATTCATTTGTAATCAAACTA
1 AATTCATTTGTAATAAAACCA
*
37251023 ACTTCATTT-TAATAAAACCA
1 AATTCATTTGTAATAAAACCA
37251043 AATTCA
1 AATTCA
37251049 ACATGCTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (21 bp):
AATTCATTTGTAATAAAACCA
Found at i:37251559 original size:41 final size:43
Alignment explanation
Indices: 37251483--37251580 Score: 155
Period size: 41 Copynumber: 2.3 Consensus size: 43
37251473 TAAAATATAC
*
37251483 TTAAGCCATTATCCAACAAAGAACACCAAACATAGACAAGAACA
1 TTAAGCCATT-TTCAACAAAGAACACCAAACATAGACAAGAACA
*
37251527 TTAAGCCATTTTCAAC-AA-AACATCAAACATAGACAAGAACA
1 TTAAGCCATTTTCAACAAAGAACACCAAACATAGACAAGAACA
37251568 TTAAGCCATTTTC
1 TTAAGCCATTTTC
37251581 GTATGGCTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
41 35 0.67
42 2 0.04
43 5 0.10
44 10 0.19
ACGTcount: A:0.48, C:0.23, G:0.08, T:0.20
Consensus pattern (43 bp):
TTAAGCCATTTTCAACAAAGAACACCAAACATAGACAAGAACA
Found at i:37254757 original size:43 final size:43
Alignment explanation
Indices: 37254633--37254754 Score: 133
Period size: 43 Copynumber: 2.8 Consensus size: 43
37254623 GAAACTCGTA
* * *
37254633 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACTGAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACAGAT
* *
37254676 CAATGCC-ACTGTCCCAAACAG-GGTCTTACACGAAAACACA-AGT
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAAACACAGA-T
*
37254719 CTATGCCAACGTCCCAGACGTGGTCTTACATAGAAA
1 CAATGCCAACGTCCCAGACGTGGTCTTACAT-GAAA
37254755 CACTTTTTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
42 4 0.06
43 54 0.83
44 7 0.11
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACATGAAAACACAGAT
Found at i:37259872 original size:71 final size:72
Alignment explanation
Indices: 37259755--37259898 Score: 263
Period size: 71 Copynumber: 2.0 Consensus size: 72
37259745 TTATATCAAA
*
37259755 CTAAATAAATAAAAACCCCAATTTAAATTTTATAACTTTAAAGAGGCCTTTTTACATAAAAATAT
1 CTAAATAAATAAAAACCCCAATTTAAATTTTATAACTTTAAAGAGGCCTTTTTACATAAAAATAC
37259820 CCAAATT
66 CCAAATT
*
37259827 CTAAATAAAT-AAAACCCCAATTTAAATTTTATAACTTTAAAGAGGCCTTTTTATATAAAAATAC
1 CTAAATAAATAAAAACCCCAATTTAAATTTTATAACTTTAAAGAGGCCTTTTTACATAAAAATAC
37259891 CCAAATT
66 CCAAATT
37259898 C
1 C
37259899 AGTTACTTAT
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
71 60 0.86
72 10 0.14
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (72 bp):
CTAAATAAATAAAAACCCCAATTTAAATTTTATAACTTTAAAGAGGCCTTTTTACATAAAAATAC
CCAAATT
Found at i:37260452 original size:32 final size:32
Alignment explanation
Indices: 37260395--37260618 Score: 227
Period size: 32 Copynumber: 7.0 Consensus size: 32
37260385 AGTCATAAGT
* * *
37260395 ACAGTAATGTGATTGGCACAAAGCCATCAGTA
1 ACAGTGATATGATCGGCACAAAGCCATCAGTA
* * *
37260427 GCAGTGATATGATCGGCACATAGCCATCAATA
1 ACAGTGATATGATCGGCACAAAGCCATCAGTA
* * *
37260459 ACAGTAACATGATCGACACAAAGCCATCAGTA
1 ACAGTGATATGATCGGCACAAAGCCATCAGTA
*
37260491 ACAGTGATATGATCGGGACATAA-CCATCAGTA
1 ACAGTGATATGATCGGCACA-AAGCCATCAGTA
* * * *
37260523 ACAATGAAATGATCAGCACATAGCCATCAGTA
1 ACAGTGATATGATCGGCACAAAGCCATCAGTA
* * * *
37260555 ACGGTAATATGATTGGCATAAAGCCATCAGTA
1 ACAGTGATATGATCGGCACAAAGCCATCAGTA
* * *
37260587 TCGGT-ACTATGATCGACACAAAGCCATCAGTA
1 ACAGTGA-TATGATCGGCACAAAGCCATCAGTA
37260619 GCATCGTAGT
Statistics
Matches: 156, Mismatches: 33, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
31 2 0.01
32 152 0.97
33 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (32 bp):
ACAGTGATATGATCGGCACAAAGCCATCAGTA
Found at i:37260496 original size:64 final size:64
Alignment explanation
Indices: 37260411--37260618 Score: 251
Period size: 64 Copynumber: 3.2 Consensus size: 64
37260401 ATGTGATTGG
* *
37260411 CACAAAGCCATCAGTAGCAGTGATATGATCGGCACATAGCCATCAATAACAGTAACATGATCGA
1 CACAAAGCCATCAGTAACAGTGATATGATCGGCACATAGCCATCAGTAACAGTAACATGATCGA
* * *
37260475 CACAAAGCCATCAGTAACAGTGATATGATCGGGACATAACCATCAGTAACAATGAA-ATGATC-A
1 CACAAAGCCATCAGTAACAGTGATATGATCGGCACATAGCCATCAGTAACAGT-AACATGATCGA
* * * * * * * *
37260538 GCACATAGCCATCAGTAACGGTAATATGATTGGCATAAAGCCATCAGTATCGGT-ACTATGATCG
1 -CACAAAGCCATCAGTAACAGTGATATGATCGGCACATAGCCATCAGTAACAGTAAC-ATGATCG
37260602 A
64 A
37260603 CACAAAGCCATCAGTA
1 CACAAAGCCATCAGTA
37260619 GCATCGTAGT
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 117 0.96
65 3 0.02
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (64 bp):
CACAAAGCCATCAGTAACAGTGATATGATCGGCACATAGCCATCAGTAACAGTAACATGATCGA
Found at i:37260598 original size:96 final size:96
Alignment explanation
Indices: 37260411--37260618 Score: 258
Period size: 96 Copynumber: 2.2 Consensus size: 96
37260401 ATGTGATTGG
* * * *
37260411 CACAAAGCCATCAGTAGCAGTGATATGATCGGCACATAGCCATCAATAACAGTAACATGATCGAC
1 CACAAAGCCATCAGTAACAATGAAATGATCAGCACATAGCCATCAATAACAGTAACATGATCGAC
*
37260476 ACAAAGCCATCAGTAACAGTGATATGATCGG
66 ACAAAGCCATCAGTAACAGTGATATGATCGA
* * * * * *
37260507 GACATAA-CCATCAGTAACAATGAAATGATCAGCACATAGCCATCAGTAACGGTAATATGATTGG
1 CACA-AAGCCATCAGTAACAATGAAATGATCAGCACATAGCCATCAATAACAGTAACATGATCGA
* * *
37260571 CATAAAGCCATCAGTATCGGT-ACTATGATCGA
65 CACAAAGCCATCAGTAACAGTGA-TATGATCGA
37260603 CACAAAGCCATCAGTA
1 CACAAAGCCATCAGTA
37260619 GCATCGTAGT
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
95 3 0.03
96 89 0.95
97 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (96 bp):
CACAAAGCCATCAGTAACAATGAAATGATCAGCACATAGCCATCAATAACAGTAACATGATCGAC
ACAAAGCCATCAGTAACAGTGATATGATCGA
Found at i:37265065 original size:14 final size:15
Alignment explanation
Indices: 37265043--37265119 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
37265033 CAATCAAACA
37265043 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
37265057 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
37265072 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
37265092 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
37265106 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
37265120 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:37265084 original size:20 final size:20
Alignment explanation
Indices: 37265059--37265098 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
37265049 AATATTTTCC
*
37265059 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
37265079 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
37265099 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:37265104 original size:34 final size:35
Alignment explanation
Indices: 37265047--37265113 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
37265037 CAAACACCAG
*
37265047 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
37265082 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
37265114 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:37269272 original size:20 final size:20
Alignment explanation
Indices: 37269247--37269287 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
37269237 TAGCTATTTA
37269247 TCAGGGTTTTAAGAATGAAC
1 TCAGGGTTTTAAGAATGAAC
37269267 TCAGGGTTTTAAGAATGAAC
1 TCAGGGTTTTAAGAATGAAC
37269287 T
1 T
37269288 AAGGAAGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (20 bp):
TCAGGGTTTTAAGAATGAAC
Found at i:37271989 original size:72 final size:72
Alignment explanation
Indices: 37271902--37272045 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
37271892 ATCAGGCAAG
37271902 TTCCACTTGGTTTTGTGGTCAAGCATGAGTCATCTTCTATTCTACCATAGTTAAACCACTGAATT
1 TTCCACTTGGTTTTGTGGTCAAGCATGAGTCATCTTCTATTCTACCATAGTTAAACCACTGAATT
37271967 TCACTTT
66 TCACTTT
* *
37271974 TTCCACTTGTTTTTGTGGTCAAGCATGAGTCATCTTCTATTCTGCCATAGTTAAACCACTGAATT
1 TTCCACTTGGTTTTGTGGTCAAGCATGAGTCATCTTCTATTCTACCATAGTTAAACCACTGAATT
37272039 TCACTTT
66 TCACTTT
37272046 CTCCTGGCTT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (72 bp):
TTCCACTTGGTTTTGTGGTCAAGCATGAGTCATCTTCTATTCTACCATAGTTAAACCACTGAATT
TCACTTT
Found at i:37277153 original size:11 final size:11
Alignment explanation
Indices: 37277139--37277170 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
37277129 ACTGCTAAAA
37277139 GTAAATTTTAT
1 GTAAATTTTAT
37277150 GTAAATTTTAT
1 GTAAATTTTAT
*
37277161 GTACATTTTA
1 GTAAATTTTA
37277171 AAATAGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.53
Consensus pattern (11 bp):
GTAAATTTTAT
Found at i:37302076 original size:61 final size:61
Alignment explanation
Indices: 37301971--37302093 Score: 210
Period size: 61 Copynumber: 2.0 Consensus size: 61
37301961 CAATGAAGTC
* * *
37301971 GACATGAGATGATGGTGTGGCATCTCGATATTCAGCCCGACATCCAGGCCGGGTATGGGGT
1 GACATGAGACGATGGTGCGGCATCTCGATATTCACCCCGACATCCAGGCCGGGTATGGGGT
*
37302032 GACATGAGACGATGGTGCGGCATCTCGATATTCACCCCGGCATCCAGGCCGGGTATGGGGT
1 GACATGAGACGATGGTGCGGCATCTCGATATTCACCCCGACATCCAGGCCGGGTATGGGGT
37302093 G
1 G
37302094 TTACAATGCA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.20, C:0.24, G:0.35, T:0.21
Consensus pattern (61 bp):
GACATGAGACGATGGTGCGGCATCTCGATATTCACCCCGACATCCAGGCCGGGTATGGGGT
Found at i:37307198 original size:61 final size:61
Alignment explanation
Indices: 37307116--37307258 Score: 241
Period size: 61 Copynumber: 2.3 Consensus size: 61
37307106 ACGAGCAAGG
* * *
37307116 GACACGGACGTGTGTCCAGGCTGTGTGTGGCCATGTTAGTACAGGGTTCACACAGGAAACA
1 GACACGGGCATGTGTCCAGGCTGTGTGTGGCCATGTTAGTACAAGGTTCACACAGGAAACA
*
37307177 GACTCGGGCATGTGTCCAGGCTGTGTGTGGCCATGTTAGTACAAGGTTCACACAGGAAACA
1 GACACGGGCATGTGTCCAGGCTGTGTGTGGCCATGTTAGTACAAGGTTCACACAGGAAACA
*
37307238 GACACGGGCATGTGTCTAGGC
1 GACACGGGCATGTGTCCAGGC
37307259 CTTGTAACTT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 76 1.00
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.22
Consensus pattern (61 bp):
GACACGGGCATGTGTCCAGGCTGTGTGTGGCCATGTTAGTACAAGGTTCACACAGGAAACA
Found at i:37307352 original size:42 final size:41
Alignment explanation
Indices: 37307286--37307425 Score: 124
Period size: 42 Copynumber: 3.4 Consensus size: 41
37307276 ATGATTTAGG
*
37307286 ACCACAC-GGC-AGGGACATGGGCGTGTGCCTAGGCTGTGTGA
1 ACCACACGGGCAAGGG-TATGGGCGTGTG-CTAGGCTGTGTGA
*
37307327 ACCACACGGGCAAGGGTATGGGCGTGTGTTCAGGCTGTGTGA
1 ACCACACGGGCAAGGGTATGGGCGTGTGCT-AGGCTGTGTGA
* * * * * * *
37307369 GCCATACGGGCAAGGATATGAGTGTATGTCTAGGCCGTGT-A
1 ACCACACGGGCAAGGGTATGGGCGTGTG-CTAGGCTGTGTGA
*
37307410 AGCCACACGGACAAGG
1 A-CCACACGGGCAAGG
37307426 ACATGGGCAT
Statistics
Matches: 81, Mismatches: 13, Indels: 9
0.79 0.13 0.09
Matches are distributed among these distances:
41 9 0.11
42 67 0.83
43 5 0.06
ACGTcount: A:0.23, C:0.21, G:0.37, T:0.19
Consensus pattern (41 bp):
ACCACACGGGCAAGGGTATGGGCGTGTGCTAGGCTGTGTGA
Found at i:37316358 original size:27 final size:27
Alignment explanation
Indices: 37316254--37316578 Score: 381
Period size: 27 Copynumber: 12.2 Consensus size: 27
37316244 GGGTATAACA
* *
37316254 GTCATTTTACCCTATGG-GATATTTCA
1 GTCATTTTACCCTATGGAGGTATTTCG
* *
37316280 GTCATTTTACCCTATGG-GGTATCTCA
1 GTCATTTTACCCTATGGAGGTATTTCG
* * *
37316306 TTCATTTTCCCCTA-GGGGGTATTTCG
1 GTCATTTTACCCTATGGAGGTATTTCG
* *
37316332 GTCATTCTAGCCTATGGAGGTATTTCG
1 GTCATTTTACCCTATGGAGGTATTTCG
* *
37316359 GTCA-TTTACCTTATAGAGGTATTTCG
1 GTCATTTTACCCTATGGAGGTATTTCG
* * *
37316385 ATTATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGAGGTATTTCG
*
37316412 GTCATTTTACCCTAT-GAGGGTATTTCA
1 GTCATTTTACCCTATGGA-GGTATTTCG
37316439 GTCATTTTACCCTATGGAGGTATTTCG
1 GTCATTTTACCCTATGGAGGTATTTCG
* * * * *
37316466 ATAATTCTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGAGGTATTTCG
37316493 GTCATTTTACCCTATGGAGGTATTTCG
1 GTCATTTTACCCTATGGAGGTATTTCG
* * *
37316520 GTCATTCTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGAGGTATTTCG
* *
37316547 GTCATTTTACCCTATGGAAGTATTTTG
1 GTCATTTTACCCTATGGAGGTATTTCG
37316574 GTCAT
1 GTCAT
37316579 AACAGTGTGA
Statistics
Matches: 253, Mismatches: 41, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
25 2 0.01
26 74 0.29
27 175 0.69
28 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGGAGGTATTTCG
Found at i:37317705 original size:27 final size:27
Alignment explanation
Indices: 37317675--37317894 Score: 196
Period size: 27 Copynumber: 8.1 Consensus size: 27
37317665 GATATGACAG
*
37317675 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGAGGGTATTTCGA
* * * * *
37317702 TCATTCTATCTTGTGAGGGTATTTCGG
1 TCATTTTACCCTATGAGGGTATTTCGA
* *
37317729 TCATTTTACCTTATGGGGGTATTTC-A
1 TCATTTTACCCTATGAGGGTATTTCGA
* * *
37317755 GTCATTCTACCCTGTGAGGGTATTT-TA
1 -TCATTTTACCCTATGAGGGTATTTCGA
* * *
37317782 GTTATTTTATCCTATGAGGGTATTTCGG
1 -TCATTTTACCCTATGAGGGTATTTCGA
* * * *
37317810 TCATTTTATCTTATGGGGGTATTTCGG
1 TCATTTTACCCTATGAGGGTATTTCGA
37317837 TCATTTTACCCTATGAGGGTATTTC-A
1 TCATTTTACCCTATGAGGGTATTTCGA
* *
37317863 GTCATTCTACCCTATG-GGGCTATTTCGG
1 -TCATTTTACCCTATGAGGG-TATTTCGA
37317891 TCAT
1 TCAT
37317895 AACAGTGTAA
Statistics
Matches: 157, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.02
27 154 0.98
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTTCGA
Found at i:37317738 original size:54 final size:54
Alignment explanation
Indices: 37317674--37317894 Score: 266
Period size: 54 Copynumber: 4.1 Consensus size: 54
37317664 GGATATGACA
* * * *
37317674 GTCATTTTACCCTATGGGGGTATTTC-GATCATTCTATCTTGTGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCAG-TCATTCTACCCTATGAGGGTATTTCG
* * * **
37317728 GTCATTTTACCTTATGGGGGTATTTCAGTCATTCTACCCTGTGAGGGTATTTTA
1 GTCATTTTACCCTATGAGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCG
* * * * * * *
37317782 GTTATTTTATCCTATGAGGGTATTTCGGTCATTTTATCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCG
37317836 GTCATTTTACCCTATGAGGGTATTTCAGTCATTCTACCCTATG-GGGCTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCAGTCATTCTACCCTATGAGGG-TATTTCG
37317890 GTCAT
1 GTCAT
37317895 AACAGTGTAA
Statistics
Matches: 142, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
53 3 0.02
54 138 0.97
55 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.43
Consensus pattern (54 bp):
GTCATTTTACCCTATGAGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCG
Found at i:37317800 original size:81 final size:81
Alignment explanation
Indices: 37317672--37317894 Score: 297
Period size: 81 Copynumber: 2.8 Consensus size: 81
37317662 AGGGATATGA
* * * * *
37317672 CAGTCATTTTACCCTATGGGGGTATTTC-GATCATTCTATCTTGTGAGGGTATTTCGGTCATTTT
1 CAGTCATTCTACCCTATGAGGGTATTTCAG-TCATTCTACCCTATGAGGGTATTTCGGTCATTTT
37317736 ACCTTATGGGGGTATTT
65 ACCTTATGGGGGTATTT
* * * * *
37317753 CAGTCATTCTACCCTGTGAGGGTATTTTAGTTATTTTATCCTATGAGGGTATTTCGGTCATTTTA
1 CAGTCATTCTACCCTATGAGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCGGTCATTTTA
*
37317818 TCTTATGGGGGTATTT
66 CCTTATGGGGGTATTT
* *
37317834 CGGTCATTTTACCCTATGAGGGTATTTCAGTCATTCTACCCTATG-GGGCTATTTCGGTCAT
1 CAGTCATTCTACCCTATGAGGGTATTTCAGTCATTCTACCCTATGAGGG-TATTTCGGTCAT
37317895 AACAGTGTAA
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
80 3 0.02
81 120 0.97
82 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (81 bp):
CAGTCATTCTACCCTATGAGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCGGTCATTTTA
CCTTATGGGGGTATTT
Found at i:37321968 original size:66 final size:66
Alignment explanation
Indices: 37321854--37321984 Score: 165
Period size: 66 Copynumber: 2.0 Consensus size: 66
37321844 TAAATTGCTC
* * * *
37321854 AACTTAAAGCGGAGGCAGCATCGAAAGAAGTAAAGGCTCAAAGAAAATATGATGAACTCCAGCTA
1 AACTTAAAGCGGAGGCAGCAGCGAAAGAAGCAAAGGCACAAAGAAAATATGACGAACTCCAGCTA
37321919 A
66 A
* ** * *
37321920 AACTTAAAGCGGAGGTAGCAGCGAGGGAAGCAGAGGCA-ACAAGCAAATATGACGAACTCCAGCT
1 AACTTAAAGCGGAGGCAGCAGCGAAAGAAGCAAAGGCACA-AAGAAAATATGACGAACTCCAGCT
37321984 A
65 A
37321985 CAGATTCAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
65 1 0.02
66 54 0.98
ACGTcount: A:0.43, C:0.18, G:0.26, T:0.13
Consensus pattern (66 bp):
AACTTAAAGCGGAGGCAGCAGCGAAAGAAGCAAAGGCACAAAGAAAATATGACGAACTCCAGCTA
A
Found at i:37322340 original size:43 final size:43
Alignment explanation
Indices: 37322276--37322524 Score: 195
Period size: 43 Copynumber: 5.8 Consensus size: 43
37322266 GCATTTTCCC
* * *
37322276 ACAAACGCCGCTATAGAACATGGTCTTTAGCGGCGCTTTTACA
1 ACAAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTTACA
* * **
37322319 ACAAACGCCGTTAAACG-ACATGATCTTTAGCGGTACTTTTATT
1 ACAAACGCCGCTAAA-GAACATGATCTTTAGCGGCACTTTTACA
* * *
37322362 ACAAACGCCACTATAGAACATGATCTTTAGCTGCACTTTTACTA
1 ACAAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTTAC-A
* * * *
37322406 A-AAACGCCACTAAAGAACATGATCTTTTGCGGC-GTTTGTAAA
1 ACAAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTT-TACA
* * * * *
37322448 AAAAACGCCGCTAAA-AATCATGTTCTATAGCGGC-GTTTGTAGGA
1 ACAAACGCCGCTAAAGAA-CATGATCTTTAGCGGCACTTT-TA-CA
* * * *
37322492 A-AAGCGCCACTAAAGATCATGTTCTTTAGCGGC
1 ACAAACGCCGCTAAAGAACATGATCTTTAGCGGC
37322525 GTTTTTATGA
Statistics
Matches: 170, Mismatches: 28, Indels: 16
0.79 0.13 0.07
Matches are distributed among these distances:
42 8 0.05
43 157 0.92
44 5 0.03
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.27
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTTACA
Found at i:37322454 original size:86 final size:83
Alignment explanation
Indices: 37322278--37322529 Score: 231
Period size: 86 Copynumber: 2.9 Consensus size: 83
37322268 ATTTTCCCAC
* **
37322278 AAACGCCGCTATAGAACATGGTCTTTAGCGGCGCTTTTACAACAAACGCCGTTAAACG-ACATGA
1 AAACGCCGCTATAGAACATGATCTTTAGCGGC-CTTTTACAA-AAACGCCACTAAA-GAACATGA
** *
37322342 TCTTTAGCGGTAC-TTTTATTAC
63 TCTTTAGCGG--CGTTTTAAAAA
* *
37322364 AAACGCCACTATAGAACATGATCTTTAGCTGCACTTTTACTAAAAACGCCACTAAAGAACATGAT
1 AAACGCCGCTATAGAACATGATCTTTAGCGGC-CTTTTAC-AAAAACGCCACTAAAGAACATGAT
*
37322429 CTTTTGCGGCGTTTGTAAAAA
64 CTTTAGCGGCGTTT-TAAAAA
* * * * * * * *
37322450 AAACGCCGCTA-AAAATCATGTTCTATAGCGGCGTTTGTAGGAAAAGCGCCACTAAAGATCATGT
1 AAACGCCGCTATAGAA-CATGATCTTTAGCGGCCTTT-TA-CAAAAACGCCACTAAAGAACATGA
37322514 TCTTTAGCGGCGTTTT
63 TCTTTAGCGGCGTTTT
37322530 TATGAGAAGT
Statistics
Matches: 138, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
84 1 0.01
85 11 0.08
86 124 0.90
87 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (83 bp):
AAACGCCGCTATAGAACATGATCTTTAGCGGCCTTTTACAAAAACGCCACTAAAGAACATGATCT
TTAGCGGCGTTTTAAAAA
Found at i:37322525 original size:43 final size:43
Alignment explanation
Indices: 37322405--37322567 Score: 166
Period size: 43 Copynumber: 3.8 Consensus size: 43
37322395 CACTTTTACT
* * * *
37322405 AAAAACGCCACTAAAGAA-CATGATCTTTTGCGGCGTTTGTAAA
1 AAAAACGCCACTAAA-AATCATGTTCTATAGCGGCGTTTGTAAG
* *
37322448 AAAAACGCCGCTAAAAATCATGTTCTATAGCGGCGTTTGTAGG
1 AAAAACGCCACTAAAAATCATGTTCTATAGCGGCGTTTGTAAG
* * * * *
37322491 AAAAGCGCCACTAAAGATCATGTTCTTTAGCGGCGTTTTTATG
1 AAAAACGCCACTAAAAATCATGTTCTATAGCGGCGTTTGTAAG
* ** * *
37322534 AGAAGTGTCGCTAAAAATCATGTTCTATAGCGGC
1 AAAAACGCCACTAAAAATCATGTTCTATAGCGGC
37322568 ATTTTTCCAC
Statistics
Matches: 101, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 2 0.02
43 99 0.98
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (43 bp):
AAAAACGCCACTAAAAATCATGTTCTATAGCGGCGTTTGTAAG
Found at i:37322555 original size:86 final size:86
Alignment explanation
Indices: 37322405--37322567 Score: 227
Period size: 86 Copynumber: 1.9 Consensus size: 86
37322395 CACTTTTACT
*
37322405 AAAAACGCCACTAAAGAACATGATCTTTTGCGGCGTTTGTAAAAAAAACGCCGCTAAAAATCATG
1 AAAAACGCCACTAAAGAACATGATCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAAATCATG
37322470 TTCTATAGCGGCGTTTGTAGG
66 TTCTATAGCGGCGTTTGTAGG
* * * * ** * ** *
37322491 AAAAGCGCCACTAAAGATCATGTTCTTTAGCGGCGTTTTTATGAGAAGTGTCGCTAAAAATCATG
1 AAAAACGCCACTAAAGAACATGATCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAAATCATG
37322556 TTCTATAGCGGC
66 TTCTATAGCGGC
37322568 ATTTTTCCAC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
86 66 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (86 bp):
AAAAACGCCACTAAAGAACATGATCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAAATCATG
TTCTATAGCGGCGTTTGTAGG
Found at i:37328287 original size:17 final size:17
Alignment explanation
Indices: 37328267--37328306 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
37328257 GCTTTCATCT
*
37328267 TTTCTATTTTTTCCCTC
1 TTTCTATTTTTTCCCCC
37328284 TTTC--TTTTTTCCCCC
1 TTTCTATTTTTTCCCCC
37328299 TTT-TATTT
1 TTTCTATTT
37328307 CATCATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
15 13 0.65
16 3 0.15
17 4 0.20
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTCTATTTTTTCCCCC
Found at i:37332675 original size:45 final size:44
Alignment explanation
Indices: 37332626--37332768 Score: 144
Period size: 45 Copynumber: 3.2 Consensus size: 44
37332616 CCAAAGGTTG
*
37332626 ATTCCATCTACGAGTTATTTGTTGTGTATCCACGGCCAGAGGCGA
1 ATTCCATCTACGAGTTATTTGTTGTGTATCCACAGCCAGAGGC-A
* * * * *
37332671 ATTCCATCTGCGGGTTATTTGCTGTGAAATCCACAGCCAGAAGCA
1 ATTCCATCTACGAGTTATTTGTTGTG-TATCCACAGCCAGAGGCA
* * * *
37332716 TATTTCATCTACAAGATT-TTTGTTGTGTACCCACAGCCAGAGGCCC
1 -ATTCCATCTACGAG-TTATTTGTTGTGTATCCACAGCCAGAGG-CA
37332762 ATTCCAT
1 ATTCCAT
37332769 TTGTTGGATT
Statistics
Matches: 78, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
45 43 0.55
46 33 0.42
47 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (44 bp):
ATTCCATCTACGAGTTATTTGTTGTGTATCCACAGCCAGAGGCA
Found at i:37337653 original size:17 final size:18
Alignment explanation
Indices: 37337633--37337669 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
37337623 TAATAAAAAT
37337633 ATAATTTCA-ATATTT-TA
1 ATAATTT-ATATATTTATA
37337650 ATAATTTATATATTTATA
1 ATAATTTATATATTTATA
37337668 AT
1 AT
37337670 TTTTAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.06
17 13 0.72
18 4 0.22
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATAATTTATATATTTATA
Found at i:37338261 original size:27 final size:24
Alignment explanation
Indices: 37338206--37338254 Score: 62
Period size: 27 Copynumber: 1.9 Consensus size: 24
37338196 TACAATGATT
*
37338206 AATTTATATTTTAACCCTTTAAAA
1 AATTTATATTTTAACCCTTGAAAA
37338230 AATTTACTCATTTCTAACCCTTGAA
1 AATTTA-T-ATTT-TAACCCTTGAA
37338255 GCAATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 1 0.05
26 4 0.19
27 10 0.48
ACGTcount: A:0.37, C:0.18, G:0.02, T:0.43
Consensus pattern (24 bp):
AATTTATATTTTAACCCTTGAAAA
Found at i:37340114 original size:16 final size:16
Alignment explanation
Indices: 37340093--37340127 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
37340083 GGTTTATTGG
*
37340093 AATGGAATAGGGCTGT
1 AATGGAATAGAGCTGT
37340109 AATGGAATAGAGCTGT
1 AATGGAATAGAGCTGT
37340125 AAT
1 AAT
37340128 CAGTAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.37, C:0.06, G:0.31, T:0.26
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:37347985 original size:39 final size:35
Alignment explanation
Indices: 37347931--37348062 Score: 120
Period size: 37 Copynumber: 3.5 Consensus size: 35
37347921 TTCCAATCGA
*
37347931 AACACGCCAAATGCTCATAAGAGCTAATCTACCCCTGAT
1 AACACGCC-AATGCTC-TAAGAGCTAATC--CACCTGAT
*
37347970 AACACGCCAGATGCTCGTAAGAGCCAATCCACCTGAT
1 AACACGCCA-ATGCTC-TAAGAGCTAATCCACCTGAT
* * **
37348007 AACACACCAATGGCTCTGAAGAGCTAGTCCACCAAAT
1 AACACGCCAAT-GCTCT-AAGAGCTAATCCACCTGAT
*
37348044 AACACACCAATGGCTCTAA
1 AACACGCCAAT-GCTCTAA
37348063 AAAGCTAGTC
Statistics
Matches: 82, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
36 5 0.06
37 51 0.62
38 1 0.01
39 25 0.30
ACGTcount: A:0.36, C:0.31, G:0.15, T:0.17
Consensus pattern (35 bp):
AACACGCCAATGCTCTAAGAGCTAATCCACCTGAT
Found at i:37348085 original size:37 final size:37
Alignment explanation
Indices: 37348005--37348090 Score: 111
Period size: 37 Copynumber: 2.3 Consensus size: 37
37347995 AATCCACCTG
* * *
37348005 ATAACACACCAATGGCTCTGAAGAGCTAGTCCACCAA
1 ATAACACACCAATGGCTCTAAAAAGCTAGTCCAACAA
*
37348042 ATAACACACCAATGGCTCTAAAAAGCTAGTCTAACAGA
1 ATAACACACCAATGGCTCTAAAAAGCTAGTCCAACA-A
*
37348080 A-AACACGCCAA
1 ATAACACACCAA
37348091 AATAGGGAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
37 41 0.95
38 2 0.05
ACGTcount: A:0.43, C:0.28, G:0.14, T:0.15
Consensus pattern (37 bp):
ATAACACACCAATGGCTCTAAAAAGCTAGTCCAACAA
Found at i:37357635 original size:23 final size:25
Alignment explanation
Indices: 37357608--37357658 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
37357598 CTCGGAGACG
*
37357608 TAATT-TTTTTATTTAA-ATTGATA
1 TAATTATTTTTATTTAATATTAATA
37357631 TAATTATTTTTATTTAATATTAATA
1 TAATTATTTTTATTTAATATTAATA
37357656 TAA
1 TAA
37357659 AATGTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 5 0.20
24 11 0.44
25 9 0.36
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (25 bp):
TAATTATTTTTATTTAATATTAATA
Found at i:37357666 original size:25 final size:24
Alignment explanation
Indices: 37357613--37357666 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
37357603 AGACGTAATT
* *
37357613 TTTTTATTTAAATTGATATAATTA
1 TTTTTATTTAAATTAATATAATAA
37357637 TTTTTATTTAATATTAATATAA-AA
1 TTTTTATTTAA-ATTAATATAATAA
37357661 TGTTTT
1 T-TTTT
37357667 TAATTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
TTTTTATTTAAATTAATATAATAA
Found at i:37360912 original size:195 final size:196
Alignment explanation
Indices: 37360656--37361033 Score: 564
Period size: 195 Copynumber: 1.9 Consensus size: 196
37360646 GAACCAAGAA
*
37360656 CAATTACTTTAGTAAAACATTTAATTTAACACTCAAATAAAACTTTATTTTAATATTTTTGTACA
1 CAATTACATTAGTAAAACATTTAATTTAACACTCAAATAAAACTTTATTTTAATATTTTTGTACA
* * *
37360721 TTTCAATTTTTATTATGCACCCTTTATTAC-CTCAATCAATTGTATA-TATCTATATTAATGTAT
66 TATCAATTTTCATTATGCACACTTTATTACACTC-ATCAATTGTATATTATCTATATTAATGTAT
* * * *
37360784 TTGATTGAGTCGGTGTCACAAGTTAACTTGACACCGACTAAAGATTGATAACAACACCAACCCGG
130 TTGATTGAGTCGATGCCACAAGTTAACTCGACACCAACTAAAGATTGATAACAACACCAACCCGG
37360849 AC
195 AC
* * * * *
37360851 CAATTACATTAGTAAAATC-TTTAATTTACCACTCAACTAAAACTTTGTTTTGATCTTTTTGTAC
1 CAATTACATTAGTAAAA-CATTTAATTTAACACTCAAATAAAACTTTATTTTAATATTTTTGTAC
*
37360915 ATATCAATTTTCATTATGCACACTTTATTACATTCATCAATTGTATATTATCTATATTAATGTAT
65 ATATCAATTTTCATTATGCACACTTTATTACACTCATCAATTGTATATTATCTATATTAATGTAT
* * *
37360980 TTGATTGAGTTGATGCCACAAGTTAACTCGACACTAATTAAAGATTGATAACAA
130 TTGATTGAGTCGATGCCACAAGTTAACTCGACACCAACTAAAGATTGATAACAA
37361034 TACCGTGATA
Statistics
Matches: 163, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
195 96 0.59
196 67 0.41
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.39
Consensus pattern (196 bp):
CAATTACATTAGTAAAACATTTAATTTAACACTCAAATAAAACTTTATTTTAATATTTTTGTACA
TATCAATTTTCATTATGCACACTTTATTACACTCATCAATTGTATATTATCTATATTAATGTATT
TGATTGAGTCGATGCCACAAGTTAACTCGACACCAACTAAAGATTGATAACAACACCAACCCGGA
C
Found at i:37361703 original size:61 final size:62
Alignment explanation
Indices: 37361633--37361763 Score: 221
Period size: 63 Copynumber: 2.1 Consensus size: 62
37361623 AATTTAATTA
* *
37361633 ATCATAAGACCCAAAATAAAGAC-TAAAAAAAGTTAGCATTGTTACTCTTAAGTACCAAAAT
1 ATCATAAGACCCAAAATAAAGACAAAAAAAAAGTTAACATTGTTACTCTTAAGTACCAAAAT
37361694 ATCATAAGACCCAAAATAAAGACAAAAAAAAAAGTTAACATTGTTACTCTTAAGTACCAAAAT
1 ATCATAAGACCCAAAATAAAGAC-AAAAAAAAAGTTAACATTGTTACTCTTAAGTACCAAAAT
37361757 AT-ATAAG
1 ATCATAAG
37361764 TTTTGTCAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
61 23 0.35
62 5 0.08
63 38 0.58
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (62 bp):
ATCATAAGACCCAAAATAAAGACAAAAAAAAAGTTAACATTGTTACTCTTAAGTACCAAAAT
Found at i:37368920 original size:31 final size:31
Alignment explanation
Indices: 37368826--37368922 Score: 91
Period size: 31 Copynumber: 3.3 Consensus size: 31
37368816 TTACCATAAC
* * * *
37368826 ATTTCGTACTTGAGTCTGGCTTCAATGTTCA
1 ATTTGGTACTTGAGTTTGGCTTTAATGTTTA
37368857 ATTTGGTA-TCTGAGTTT---TTT--T-TTTCA
1 ATTTGGTACT-TGAGTTTGGCTTTAATGTTT-A
37368883 ATTTGGTACTTGAGTTTGGCTTTAATGTTTA
1 ATTTGGTACTTGAGTTTGGCTTTAATGTTTA
37368914 ATTTGGTAC
1 ATTTGGTAC
37368923 CCAGACCAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
25 2 0.04
26 17 0.32
27 1 0.02
28 2 0.04
29 3 0.06
30 1 0.02
31 24 0.45
32 3 0.06
ACGTcount: A:0.19, C:0.11, G:0.20, T:0.51
Consensus pattern (31 bp):
ATTTGGTACTTGAGTTTGGCTTTAATGTTTA
Found at i:37372660 original size:44 final size:44
Alignment explanation
Indices: 37372598--37372690 Score: 170
Period size: 44 Copynumber: 2.1 Consensus size: 44
37372588 TCTCTTCCTT
*
37372598 CATTT-GTAATTACTTTATTCTTTCTGAGTTAATATATTGAGAG
1 CATTTAGTAATTACTTTATTCTTTCTGAGTTAATATATTGAAAG
37372641 CATTTAGTAATTACTTTATTCTTTCTGAGTTAATATATTGAAAG
1 CATTTAGTAATTACTTTATTCTTTCTGAGTTAATATATTGAAAG
37372685 CATTTA
1 CATTTA
37372691 CTCAAACACT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 5 0.10
44 43 0.90
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (44 bp):
CATTTAGTAATTACTTTATTCTTTCTGAGTTAATATATTGAAAG
Found at i:37386222 original size:69 final size:69
Alignment explanation
Indices: 37386028--37386596 Score: 370
Period size: 69 Copynumber: 8.2 Consensus size: 69
37386018 ACAAAATTCG
* ** * * * *
37386028 TGTCATATTAAGGCTCACAAGG-GAAGAGCCGTAGCCTCTAACACAGTTAGTGAGAGCAAAGCTT
1 TGTCATATTAAGGCTCAC-AGGCGAAGAGTCACAGCCTCCAATACAGTTAGCGAGAGCAAAGCTC
*
37386092 CCAGC
65 CCAAC
* * * * * * * ** * * * *
37386097 TATCGTATTAAGGCT-AGCAGACGAAAAGCCACAACCTCTAGCAGAGTCAGTGAGAGTAAAGCTC
1 TGTCATATTAAGGCTCA-CAGGCGAAGAGTCACAGCCTCCAATACAGTTAGCGAGAGCAAAGCTC
37386161 CCAAC
65 CCAAC
* * * * * * * * *
37386166 TATCATATTAAAGCTCGCAGGCGAAGAGCCACAACCTCCAATGCAGTTAGCAAGAGTAAAGCTCG
1 TGTCATATTAAGGCTCACAGGCGAAGAGTCACAGCCTCCAATACAGTTAGCGAGAGCAAAGCTCC
37386231 CAAC
66 CAAC
* ** * * * ** ** * ** * **
37386235 TGTCAAATTAAGGCTCGTATGCAAAGAATCGTAATCTCTAACGCAGTTATCGAGAATAAAGCTCC
1 TGTCATATTAAGGCTCACAGGCGAAGAGTCACAGCCTCCAATACAGTTAGCGAGAGCAAAGCTCC
*
37386300 CAGC
66 CAAC
* * * * * *
37386304 TATTATATTAAGGCTCACTGGCGAAGAGCCGCAGCCTCCAATACAGTTAGCAAGAGCAAAGCTCC
1 TGTCATATTAAGGCTCACAGGCGAAGAGTCACAGCCTCCAATACAGTTAGCGAGAGCAAAGCTCC
* **
37386369 TAGT
66 CAAC
* * * *
37386373 TGTCATACTAAGGCTCACAGGCGAAGAGTCACAGCTTCCGACACAGTTAGCGAGAGCAAAGCTCC
1 TGTCATATTAAGGCTCACAGGCGAAGAGTCACAGCCTCCAATACAGTTAGCGAGAGCAAAGCTCC
37386438 CAAC
66 CAAC
* * * * * *
37386442 TGTTATATTAAGGCTTACAGGCGAAGAGTTACAGCTTCAAATACAGTTAGCGAGACCAAAGCTCC
1 TGTCATATTAAGGCTCACAGGCGAAGAGTCACAGCCTCCAATACAGTTAGCGAGAGCAAAGCTCC
*
37386507 TAAC
66 CAAC
* * * * ** * * *
37386511 TGCCATATTAAGGCTCGCAAGC-ATAGACTCACAGCCTATAACACAGTTAACGAGAGCAAAAACT
1 TGTCATATTAAGGCTCACAGGCGA-AGAGTCACAGCCTCCAATACAGTTAGCGAGAGC-AAAGCT
*
37386575 CCCATC
64 CCCAAC
* *
37386581 TATCATATTACGGCTC
1 TGTCATATTAAGGCTC
37386597 GCAGATTCAG
Statistics
Matches: 387, Mismatches: 108, Indels: 9
0.77 0.21 0.02
Matches are distributed among these distances:
68 4 0.01
69 361 0.93
70 22 0.06
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.21
Consensus pattern (69 bp):
TGTCATATTAAGGCTCACAGGCGAAGAGTCACAGCCTCCAATACAGTTAGCGAGAGCAAAGCTCC
CAAC
Found at i:37386377 original size:138 final size:138
Alignment explanation
Indices: 37386032--37386596 Score: 431
Period size: 138 Copynumber: 4.1 Consensus size: 138
37386022 AATTCGTGTC
** * * **
37386032 ATATTAAGGCTCACAAGG-GAAGAGCCGTAGCCTCTAACACAGTTAGTGAGAGCAAAGCTTCC-A
1 ATATTAAGGCTCAC-AGGCGAAGAGCCACAGCCTCCAATACAGTTAGCAAGAGCAAAGC-TCCTA
* * * * * ** * * * * * * *
37386095 GCTATCGTATTAAGGCTAGCAGACGAAA-AGCCACAACCTCTAGCAGAGTCAGTGAGAGTAAAGC
64 ACTGTCATATTAAGGCTCGCAGGC-AAAGAATCACAGCTTCCAACACAGTTAGCGAGAGTAAAGC
*
37386159 TCCCAACTATC
128 TCCCAACTATT
* * * * *
37386170 ATATTAAAGCTCGCAGGCGAAGAGCCACAACCTCCAATGCAGTTAGCAAGAGTAAAGCTCGC-AA
1 ATATTAAGGCTCACAGGCGAAGAGCCACAGCCTCCAATACAGTTAGCAAGAGCAAAGCTC-CTAA
* * * * * * * *
37386234 CTGTCAAATTAAGGCTCGTATGCAAAGAATCGTA-ATC-TCTAACGCAGTTATCGAGAATAAAGC
65 CTGTCATATTAAGGCTCGCAGGCAAAGAATC--ACAGCTTCCAACACAGTTAGCGAGAGTAAAGC
*
37386297 TCCCAGCTATT
128 TCCCAACTATT
* * **
37386308 ATATTAAGGCTCACTGGCGAAGAGCCGCAGCCTCCAATACAGTTAGCAAGAGCAAAGCTCCTAGT
1 ATATTAAGGCTCACAGGCGAAGAGCCACAGCCTCCAATACAGTTAGCAAGAGCAAAGCTCCTAAC
* * * * * *
37386373 TGTCATACTAAGGCTCACAGGCGAAGAGTCACAGCTTCCGACACAGTTAGCGAGAGCAAAGCTCC
66 TGTCATATTAAGGCTCGCAGGCAAAGAATCACAGCTTCCAACACAGTTAGCGAGAGTAAAGCTCC
*
37386438 CAACTGTT
131 CAACTATT
* ** * * * *
37386446 ATATTAAGGCTTACAGGCGAAGAGTTACAGCTTCAAATACAGTTAGCGAGACCAAAGCTCCTAAC
1 ATATTAAGGCTCACAGGCGAAGAGCCACAGCCTCCAATACAGTTAGCAAGAGCAAAGCTCCTAAC
* * * * * ** * * *
37386511 TGCCATATTAAGGCTCGCAAGCATAGACTCACAGCCTATAACACAGTTAACGAGAGCAAAAACTC
66 TGTCATATTAAGGCTCGCAGGCAAAGAATCACAGCTTCCAACACAGTTAGCGAGAG-TAAAGCTC
* *
37386576 CCATCTATC
130 CCAACTATT
*
37386585 ATATTACGGCTC
1 ATATTAAGGCTC
37386597 GCAGATTCAG
Statistics
Matches: 332, Mismatches: 86, Indels: 17
0.76 0.20 0.04
Matches are distributed among these distances:
136 1 0.00
137 11 0.03
138 295 0.89
139 24 0.07
140 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (138 bp):
ATATTAAGGCTCACAGGCGAAGAGCCACAGCCTCCAATACAGTTAGCAAGAGCAAAGCTCCTAAC
TGTCATATTAAGGCTCGCAGGCAAAGAATCACAGCTTCCAACACAGTTAGCGAGAGTAAAGCTCC
CAACTATT
Found at i:37394499 original size:3 final size:3
Alignment explanation
Indices: 37394491--37394517 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
37394481 CTGCATGCTT
37394491 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
37394518 ATCTATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:37395088 original size:3 final size:3
Alignment explanation
Indices: 37395080--37395105 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37395070 CATTACTTCT
37395080 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
37395106 TTCTATGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:37395648 original size:2 final size:2
Alignment explanation
Indices: 37395641--37395670 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
37395631 CTTGTCCCTT
37395641 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
37395671 GTATAAGCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:37396681 original size:36 final size:36
Alignment explanation
Indices: 37396641--37396712 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
37396631 TAACTAAAAG
37396641 TTTTTATTTATTTGGTGGTGATGGAAATGGAAATGA
1 TTTTTATTTATTTGGTGGTGATGGAAATGGAAATGA
37396677 TTTTTATTTATTTGGTGGTGATGGAAATGGAAATGA
1 TTTTTATTTATTTGGTGGTGATGGAAATGGAAATGA
37396713 AGGCACAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (36 bp):
TTTTTATTTATTTGGTGGTGATGGAAATGGAAATGA
Found at i:37403724 original size:25 final size:25
Alignment explanation
Indices: 37403686--37403746 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
37403676 GGGTAGGTTA
* * * *
37403686 TGATATGTTATGCTGTGATTTGAT-
1 TGATATGATGTGCTATGATCTGATC
*
37403710 TCGATATGATGTGCTATGGTCTGATC
1 T-GATATGATGTGCTATGATCTGATC
37403736 TGATATGATGT
1 TGATATGATGT
37403747 AATACAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 1 0.03
25 28 0.93
26 1 0.03
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.44
Consensus pattern (25 bp):
TGATATGATGTGCTATGATCTGATC
Done.