Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 93 of 325
Found at i:27248022 original size:20 final size:19
Alignment explanation
Indices: 27247977--27248031 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
27247967 GTTGAATAGA
*
27247977 GGCACAAAAGTGCATA-CAAG
1 GGCACAAGAGTGCA-AGC-AG
27247997 GGCACATA-AGTGCAAGCAG
1 GGCACA-AGAGTGCAAGCAG
27248016 GGCCACAAGAGTGCAA
1 GG-CACAAGAGTGCAA
27248032 ATTAGTACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 6 0.19
20 24 0.77
21 1 0.03
ACGTcount: A:0.40, C:0.22, G:0.29, T:0.09
Consensus pattern (19 bp):
GGCACAAGAGTGCAAGCAG
Found at i:27249150 original size:35 final size:35
Alignment explanation
Indices: 27249108--27249179 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
27249098 TACAGCCGAA
27249108 TACATAACATCATCACAAATATCATGTATTTTGGT
1 TACATAACATCATCACAAATATCATGTATTTTGGT
27249143 TACATAACATCATCACAAATATCATGTATTTTGGT
1 TACATAACATCATCACAAATATCATGTATTTTGGT
27249178 TA
1 TA
27249180 TACTCTCGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (35 bp):
TACATAACATCATCACAAATATCATGTATTTTGGT
Found at i:27249262 original size:2 final size:2
Alignment explanation
Indices: 27249211--27249247 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
27249201 ACAAGACCAA
27249211 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27249248 ACCTAAACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27253031 original size:24 final size:24
Alignment explanation
Indices: 27253002--27253048 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
27252992 TAAATATCTC
27253002 TTTAGGTTAAATTTGTTTACCTCT
1 TTTAGGTTAAATTTGTTTACCTCT
27253026 TTTAGGTTAAATTTGTTTACCTC
1 TTTAGGTTAAATTTGTTTACCTC
27253049 ATATAGTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.53
Consensus pattern (24 bp):
TTTAGGTTAAATTTGTTTACCTCT
Found at i:27257029 original size:30 final size:28
Alignment explanation
Indices: 27256993--27257085 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 28
27256983 TAAGGTTTAA
27256993 GGGTTCTGAAAAAGATAA-TTTGTACAT-GAT
1 GGGTTCT-AAAAA-ATAATTTTG-AC-TGGAT
*
27257023 GGGTTCTAAAAAAATAGTTTTGACTGGAT
1 GGGTTCT-AAAAAATAATTTTGACTGGAT
27257052 GGGTTCTAAAGAAATAATTTTGA-TGAGAT
1 GGGTTCTAAA-AAATAATTTTGACTG-GAT
27257081 GGGTT
1 GGGTT
27257086 GAGTTTTGTA
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
28 6 0.11
29 34 0.61
30 16 0.29
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.34
Consensus pattern (28 bp):
GGGTTCTAAAAAATAATTTTGACTGGAT
Found at i:27257052 original size:29 final size:29
Alignment explanation
Indices: 27257020--27257085 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
27257010 ATTTGTACAT
*
27257020 GATGGGTTCTAAAAAAATAGTTTTGACTG-
1 GATGGGTTCTAAAAAAATAATTTTGA-TGA
*
27257049 GATGGGTTCTAAAGAAATAATTTTGATGA
1 GATGGGTTCTAAAAAAATAATTTTGATGA
27257078 GATGGGTT
1 GATGGGTT
27257086 GAGTTTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 2 0.06
29 32 0.94
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (29 bp):
GATGGGTTCTAAAAAAATAATTTTGATGA
Found at i:27260793 original size:75 final size:75
Alignment explanation
Indices: 27260674--27260844 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
27260664 CATGGCAAAG
** *
27260674 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
27260733 CCATACTGAGC
65 CCATACCGAGC
27260744 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
27260809 CATACCGAGT
66 CATACCGAGC
***
27260819 TAAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
27260845 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:27260812 original size:35 final size:35
Alignment explanation
Indices: 27260677--27260842 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
27260667 GGCAAAGTGT
* **
27260677 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
27260712 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
27260747 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
27260787 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
*
27260822 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
27260843 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
35 85 0.73
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:27268289 original size:75 final size:74
Alignment explanation
Indices: 27268168--27268339 Score: 216
Period size: 75 Copynumber: 2.4 Consensus size: 74
27268158 TCCATGGCAA
** *
27268168 AGTGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTA
1 AGTGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-
*
27268228 T-CCATACTG
65 TCCCATACCG
27268237 AGCTGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT
1 AG-TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT
27268302 TCCCATACCG
65 TCCCATACCG
*
27268312 AGT-TAAAAATGTAGGTATGGTATT-TCAA
1 AGTGT-GAAATGTAGGTATGGTATTATCAA
27268340 TGAGGAAAAC
Statistics
Matches: 90, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
69 2 0.02
70 18 0.20
73 9 0.10
74 20 0.22
75 41 0.46
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (74 bp):
AGTGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTT
CCCATACCG
Found at i:27268308 original size:35 final size:35
Alignment explanation
Indices: 27268173--27268337 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
27268163 GGCAAAGTGT
* **
27268173 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
27268208 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
27268243 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
27268283 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
27268318 -AAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
27268338 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
34 19 0.16
35 66 0.57
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:27269558 original size:15 final size:16
Alignment explanation
Indices: 27269514--27269559 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
27269504 TGCTATGCAT
*
27269514 AGTAAATGGAATGGAA
1 AGTAAATGAAATGGAA
27269530 AGTAAATGAAATGGAA
1 AGTAAATGAAATGGAA
*
27269546 AGTAAGT-AAATGGA
1 AGTAAATGAAATGGA
27269560 GTGGTTCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
15 7 0.25
16 21 0.75
ACGTcount: A:0.52, C:0.00, G:0.28, T:0.20
Consensus pattern (16 bp):
AGTAAATGAAATGGAA
Found at i:27273418 original size:80 final size:80
Alignment explanation
Indices: 27273334--27273482 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
27273324 TATGGTAACC
* * * *
27273334 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
27273398 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
27273414 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
27273479 CCGG
66 CCGG
27273483 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:27273424 original size:40 final size:38
Alignment explanation
Indices: 27273375--27273482 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
27273365 ATCACGATTT
*
27273375 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
27273415 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
27273455 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
27273483 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:27283048 original size:29 final size:29
Alignment explanation
Indices: 27282958--27283117 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
27282948 ACTCGATTTC
* * **
27282958 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
27282987 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
27283015 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
27283045 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
27283074 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
27283103 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
27283118 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:27286595 original size:93 final size:93
Alignment explanation
Indices: 27286483--27286654 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
27286473 CGCCCATAAG
* *
27286483 CGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
27286547 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
27286576 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
27286641 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
27286655 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:27286651 original size:46 final size:46
Alignment explanation
Indices: 27286476--27286651 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
27286466 TGTAACCCGC
* *
27286476 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
* *
27286522 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
27286572 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
27286615 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
27286652 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:27292360 original size:143 final size:141
Alignment explanation
Indices: 27292151--27292446 Score: 565
Period size: 143 Copynumber: 2.1 Consensus size: 141
27292141 GTGAGTTAAA
27292151 ATTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGA
1 ATTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGA
*
27292216 TGAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTG
66 TGAGTAAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTA--TGTG
27292281 TGTGTGCATGAGT
129 TGTGTGCATGAGT
27292294 ATTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGA
1 ATTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGA
27292359 TGAGTAAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTG
66 TGAGTAAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTG
27292424 TGTGCATGAGT
131 TGTGCATGAGT
27292435 ATTCGGCCATGC
1 ATTCGGCCATGC
27292447 TATAGAATTT
Statistics
Matches: 152, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 29 0.19
143 123 0.81
ACGTcount: A:0.22, C:0.10, G:0.29, T:0.39
Consensus pattern (141 bp):
ATTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGA
TGAGTAAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTG
TGTGCATGAGT
Found at i:27293124 original size:29 final size:29
Alignment explanation
Indices: 27293091--27293199 Score: 155
Period size: 29 Copynumber: 3.8 Consensus size: 29
27293081 ACGAGATCGG
*
27293091 CACTAAGTGTGCGTGCTGGAAATATATGA
1 CACTAAGTGTGCATGCTGGAAATATATGA
* * *
27293120 CACTAAGTGTGCGTGCTGGAAATATAAGG
1 CACTAAGTGTGCATGCTGGAAATATATGA
*
27293149 CACTAAGTGTGCATGCTGGAAAAATATGA
1 CACTAAGTGTGCATGCTGGAAATATATGA
* *
27293178 CACTATGTGTGCAAGCTGGAAA
1 CACTAAGTGTGCATGCTGGAAA
27293200 AATACGGCAC
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.25
Consensus pattern (29 bp):
CACTAAGTGTGCATGCTGGAAATATATGA
Found at i:27293159 original size:58 final size:58
Alignment explanation
Indices: 27293089--27293219 Score: 181
Period size: 58 Copynumber: 2.3 Consensus size: 58
27293079 TGACGAGATC
* ** *
27293089 GGCACTAAGTGTGCGTGCTGGAAATATATGACACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATATGACACTAAGTGTGCAAGCTGGAAAAATAA
* * *
27293147 GGCACTAAGTGTGCATGCTGGAAAAATATGACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATATGACACTAAGTGTGCAAGCTGGAAAAATAA
**
27293205 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
27293220 AGCTCGGAGG
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.24
Consensus pattern (58 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATATGACACTAAGTGTGCAAGCTGGAAAAATAA
Found at i:27296541 original size:22 final size:22
Alignment explanation
Indices: 27296507--27296559 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
27296497 CTCACAGACG
*
27296507 TACAGCAAGGAAGCAATCTACTT
1 TACA-CAACGAAGCAATCTACTT
*
27296530 TACACAACGAAGCAATCTGCTT
1 TACACAACGAAGCAATCTACTT
27296552 TACACAAC
1 TACACAAC
27296560 TGATACGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.40, C:0.26, G:0.13, T:0.21
Consensus pattern (22 bp):
TACACAACGAAGCAATCTACTT
Found at i:27300647 original size:13 final size:13
Alignment explanation
Indices: 27300631--27300664 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
27300621 GGCACACAGG
*
27300631 CGTGTGACACGGT
1 CGTGTGACACGAT
27300644 CGTGTGACACGAT
1 CGTGTGACACGAT
27300657 CGTGTGAC
1 CGTGTGAC
27300665 CCTACTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.18, C:0.24, G:0.35, T:0.24
Consensus pattern (13 bp):
CGTGTGACACGAT
Found at i:27305700 original size:23 final size:23
Alignment explanation
Indices: 27305670--27305716 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
27305660 TTCATACTTA
* *
27305670 GTCTCATCGTTTTCATACCCAAT
1 GTCTCATCGTTGTCATACCAAAT
27305693 GTCTCATCGTTGTCATACCAAAT
1 GTCTCATCGTTGTCATACCAAAT
27305716 G
1 G
27305717 AACCACTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (23 bp):
GTCTCATCGTTGTCATACCAAAT
Found at i:27308296 original size:28 final size:28
Alignment explanation
Indices: 27308232--27308285 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
27308222 TGGTCTTAAA
*
27308232 AAAGACATTCAGAAATAGTGATTTCCAT
1 AAAGACATTCAGAAATAGTGATCTCCAT
* *
27308260 AAAGACATTCAGTAATAGTGGTCTCC
1 AAAGACATTCAGAAATAGTGATCTCC
27308286 TTAGAGGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (28 bp):
AAAGACATTCAGAAATAGTGATCTCCAT
Found at i:27308569 original size:16 final size:15
Alignment explanation
Indices: 27308548--27308617 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 15
27308538 TCATTTGTAC
27308548 CAAATCACAAACAATT
1 CAAAT-ACAAACAATT
* *
27308564 CAAATCACAACCAA-A
1 CAAAT-ACAAACAATT
*
27308579 CAAATACATATATAATT
1 CAAATACA-A-ACAATT
27308596 CAAATACAAAACAATT
1 CAAATAC-AAACAATT
*
27308612 TAAATA
1 CAAATA
27308618 AAATCATACC
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
14 3 0.07
15 6 0.14
16 25 0.58
17 8 0.19
18 1 0.02
ACGTcount: A:0.59, C:0.20, G:0.00, T:0.21
Consensus pattern (15 bp):
CAAATACAAACAATT
Found at i:27311016 original size:42 final size:42
Alignment explanation
Indices: 27310927--27311031 Score: 106
Period size: 42 Copynumber: 2.5 Consensus size: 42
27310917 GGACTACTGA
* *
27310927 GATTTCGTATAAGACCATATCTAGGATATGGAATCGGTATAT
1 GATTTCGTATAAGACCATATCTAGGACATGGAATCGATATAT
* **
27310969 GATTTCGTATAAGACCATGTC-AGGGACATGGCGTCGATATGAT
1 GATTTCGTATAAGACCATATCTA-GGACATGGAATCGATAT-AT
* * *
27311012 -ATTTCATGTAAGACTATATC
1 GATTTCGTATAAGACCATATC
27311032 CGGGATATGA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.02
42 49 0.94
43 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.32
Consensus pattern (42 bp):
GATTTCGTATAAGACCATATCTAGGACATGGAATCGATATAT
Found at i:27313404 original size:13 final size:15
Alignment explanation
Indices: 27313388--27313419 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
27313378 TTTACATATT
27313388 TTTTC-TTTTAA-TC
1 TTTTCTTTTTAACTC
27313401 TTTTCTTTTTAACTC
1 TTTTCTTTTTAACTC
27313416 TTTT
1 TTTT
27313420 TTAAGAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 6 0.35
15 6 0.35
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTCTTTTTAACTC
Found at i:27314054 original size:12 final size:11
Alignment explanation
Indices: 27314032--27314065 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
27314022 GTGAATCGAC
27314032 TGAATGAATTTT
1 TGAAT-AATTTT
27314044 TGAATATATTTT
1 TGAATA-ATTTT
27314056 TGAATAATTT
1 TGAATAATTT
27314066 ATTTCATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (11 bp):
TGAATAATTTT
Found at i:27325732 original size:80 final size:80
Alignment explanation
Indices: 27325648--27325796 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
27325638 TATGGTAACC
* * * *
27325648 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
27325712 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
27325728 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
27325793 CCGG
66 CCGG
27325797 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:27325738 original size:40 final size:38
Alignment explanation
Indices: 27325689--27325796 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
27325679 ATCACGATTT
*
27325689 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
27325729 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
27325769 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
27325797 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:27329966 original size:80 final size:80
Alignment explanation
Indices: 27329882--27330030 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
27329872 TATGGTAACC
* * * *
27329882 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
27329946 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
27329962 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
27330027 CCGG
66 CCGG
27330031 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:27329972 original size:40 final size:38
Alignment explanation
Indices: 27329923--27330030 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
27329913 ATCACGATTT
*
27329923 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
27329963 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
27330003 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
27330031 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:27338075 original size:80 final size:80
Alignment explanation
Indices: 27337991--27338139 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
27337981 TATGGTAACC
* * * *
27337991 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
27338055 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
27338071 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
27338136 CCGG
66 CCGG
27338140 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:27338081 original size:40 final size:38
Alignment explanation
Indices: 27338032--27338139 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
27338022 ATCACGATTT
*
27338032 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
27338072 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
27338112 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
27338140 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:27343562 original size:24 final size:24
Alignment explanation
Indices: 27343530--27343592 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
27343520 AATCTCAAAT
27343530 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
27343554 GCACTATGTGTGCAATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
27343578 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
27343593 ACATAATAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:27353780 original size:46 final size:47
Alignment explanation
Indices: 27353581--27353895 Score: 193
Period size: 49 Copynumber: 6.7 Consensus size: 47
27353571 AGGGTATAAT
* * * * *
27353581 GCTGATGCCATGTCCCAGAAATGGTCTTACACTGACTAT-CAAAATCGAG
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTAC-ATATCAAG
* * * *
27353630 GCCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATC-AG
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT-ACATATCAAG
** * *
27353679 TGCTGAACCATGTCCCAGACATGGTCTTACACT-G-AC-ACATCTCATA-
1 -GCTGATGCATGTCCCAGACAT-GTCTTACACTGGCTCTACATATCA-AG
*
27353725 G-TAGATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCAAG
1 GCT-GATGCATGTCCCAGACATGTCTTACACTGGCTCTACATATCAAG
* * * * * * * * *
27353771 GCCGATGCATGTCTCAAATATGTCTTACACTAGCTCT-CGTCTTAAT
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATATCAAG
* * *
27353817 GCTGATACCATGTCCCAGACATGTTCTTACACTGGCTCT-TATAAT-ATG
1 GCTGAT-GCATGTCCCAGACATG-TCTTACACTGGCTCTACAT-ATCAAG
*
27353865 GTTGATGCATGTCCCAGACATGTCTTACACT
1 GCTGATGCATGTCCCAGACATGTCTTACACT
27353896 AGCACAAAAA
Statistics
Matches: 213, Mismatches: 38, Indels: 33
0.75 0.13 0.12
Matches are distributed among these distances:
44 11 0.05
45 25 0.12
46 57 0.27
47 30 0.14
48 22 0.10
49 59 0.28
50 8 0.04
51 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (47 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATATCAAG
Found at i:27355525 original size:27 final size:27
Alignment explanation
Indices: 27355471--27355527 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
27355461 CATCTCATAA
*
27355471 GGGCATATCAATCATTTTACCATGTAG
1 GGGCATATCAATCATTTTACAATGTAG
* *
27355498 GGGCATTTCAGTCATTTTATCAAT-TAG
1 GGGCATATCAATCATTTTA-CAATGTAG
27355525 GGG
1 GGG
27355528 GTCTAGGTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 23 0.88
28 3 0.12
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (27 bp):
GGGCATATCAATCATTTTACAATGTAG
Found at i:27355777 original size:10 final size:10
Alignment explanation
Indices: 27355762--27355792 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
27355752 GGGCCCACAC
27355762 GGCCCAATTT
1 GGCCCAATTT
*
27355772 GGCCCAATAT
1 GGCCCAATTT
27355782 GGCCCAATTT
1 GGCCCAATTT
27355792 G
1 G
27355793 ACCTCGGCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (10 bp):
GGCCCAATTT
Found at i:27355777 original size:19 final size:20
Alignment explanation
Indices: 27355753--27355792 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
27355743 ATGCTCGTGG
27355753 GGCCC-ACACGGCCCAATTT
1 GGCCCAACACGGCCCAATTT
* *
27355772 GGCCCAATATGGCCCAATTT
1 GGCCCAACACGGCCCAATTT
27355792 G
1 G
27355793 ACCTCGGCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.23, C:0.35, G:0.23, T:0.20
Consensus pattern (20 bp):
GGCCCAACACGGCCCAATTT
Found at i:27359531 original size:10 final size:10
Alignment explanation
Indices: 27359499--27359532 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
27359489 TGTTTTGTCC
27359499 CTTTTTGGCT
1 CTTTTTGGCT
27359509 CGTTTTTGGCT
1 C-TTTTTGGCT
*
27359520 CTTTTTGACT
1 CTTTTTGGCT
27359530 CTT
1 CTT
27359533 GGTGCTCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.03, C:0.21, G:0.18, T:0.59
Consensus pattern (10 bp):
CTTTTTGGCT
Found at i:27364797 original size:27 final size:28
Alignment explanation
Indices: 27364741--27364810 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
27364731 AAACTTGTAC
27364741 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
27364769 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
27364796 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
27364811 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:27364821 original size:27 final size:27
Alignment explanation
Indices: 27364741--27364822 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
27364731 AAACTTGTAC
* *
27364741 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
27364769 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
27364796 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
27364823 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:27367821 original size:29 final size:29
Alignment explanation
Indices: 27367789--27367923 Score: 146
Period size: 29 Copynumber: 4.7 Consensus size: 29
27367779 ATACCCTCCG
** * *
27367789 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
27367818 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
27367847 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
* *
27367876 AGCACGCACACTTAGTGCCATATATTTGC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
27367905 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
27367924 GATCTCGTCA
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
29 91 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:27367856 original size:58 final size:58
Alignment explanation
Indices: 27367735--27367924 Score: 170
Period size: 58 Copynumber: 3.3 Consensus size: 58
27367725 TACTCGATTT
* * * *** *
27367735 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
27367793 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * * *
27367851 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTGCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
27367909 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
27367925 ATCTCGTCAC
Statistics
Matches: 104, Mismatches: 25, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 93 0.89
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:27368756 original size:143 final size:141
Alignment explanation
Indices: 27368566--27368861 Score: 565
Period size: 143 Copynumber: 2.1 Consensus size: 141
27368556 AAATTCTATA
27368566 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
*
27368631 TGTTAAACATTCGAACTTACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
27368696 GAAAACAACAT
131 GAAAACAACAT
27368707 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATG--CACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
27368772 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
64 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
27368837 AGGAAAACAACAT
129 AGGAAAACAACAT
27368850 GCATGGCCGAAT
1 GCATGGCCGAAT
27368862 TTTAACTCAC
Statistics
Matches: 152, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 19 0.12
143 133 0.88
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.22
Consensus pattern (141 bp):
GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
GAAAACAACAT
Found at i:27375967 original size:27 final size:28
Alignment explanation
Indices: 27375911--27375980 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
27375901 AAACTTGTAC
27375911 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
27375939 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
27375966 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
27375981 GACTCACTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:27381723 original size:41 final size:40
Alignment explanation
Indices: 27381665--27381812 Score: 149
Period size: 41 Copynumber: 3.6 Consensus size: 40
27381655 AAGCTTGGTC
*
27381665 TCGAAGGGCCTTTGAGCCAGTGCTAATAACTGAACTTAGTT
1 TCGAAGGG-CTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* *
27381706 TCGAAGGGCTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGCTTT-GAGCCAGTGCTAATAACCGAACTTAGTT
* * * * *
27381746 CCGAAGGGCCTTCGAGCCAGTGGTCTAAT--CCGAGCTTGGTC
1 TCGAAGGG-CTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
27381787 TCGAAGGGCTTTTGAGCCAGTGCTAA
1 TCGAAGGGC-TTTGAGCCAGTGCTAA
27381813 GAATCGGGCT
Statistics
Matches: 89, Mismatches: 12, Indels: 14
0.77 0.10 0.12
Matches are distributed among these distances:
39 4 0.04
40 36 0.40
41 46 0.52
43 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCGAAGGGCTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:27381824 original size:41 final size:41
Alignment explanation
Indices: 27381656--27381834 Score: 145
Period size: 41 Copynumber: 4.4 Consensus size: 41
27381646 TTTAAATCCA
27381656 AGCTTGGTCTCGAAGGGCCTTTGAGCCAGTGCTAATAA-CTG
1 AGCTTGGTCTCGAAGGGCCTTTGAGCCAGTGCTAATAATC-G
* * * * *
27381697 AACTTAGTTTCGAAGGG-CTTTAGAGCCAGTG-TCATAACCG
1 AGCTTGGTCTCGAAGGGCCTTT-GAGCCAGTGCTAATAATCG
* * * *
27381737 -GACTTAGT-TCCGAAGGGCCTTCGAGCCAGTGGT-CTAATCCG
1 AG-CTTGGTCT-CGAAGGGCCTTTGAGCCAGTGCTAATAAT-CG
* *
27381778 AGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAAGAATCG
1 AGCTTGGTCTCGAAGGGCCTTTGAGCCAGTGCTAATAATCG
* * *
27381819 GGCTTGATTTCGAAGG
1 AGCTTGGTCTCGAAGG
27381835 ATGTTTGTGC
Statistics
Matches: 111, Mismatches: 17, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
39 1 0.01
40 35 0.32
41 70 0.63
42 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (41 bp):
AGCTTGGTCTCGAAGGGCCTTTGAGCCAGTGCTAATAATCG
Found at i:27386226 original size:14 final size:14
Alignment explanation
Indices: 27386207--27386253 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
27386197 CTTATTTGAG
27386207 TTTGATAACTCCTT
1 TTTGATAACTCCTT
*
27386221 TTTGATGAA--CCAT
1 TTTGAT-AACTCCTT
27386234 TTTGATAACTCCTT
1 TTTGATAACTCCTT
27386248 TTTGAT
1 TTTGAT
27386254 GAACCAACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 2 0.07
13 9 0.32
14 15 0.54
15 2 0.07
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.49
Consensus pattern (14 bp):
TTTGATAACTCCTT
Found at i:27386245 original size:27 final size:27
Alignment explanation
Indices: 27386207--27386259 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
27386197 CTTATTTGAG
27386207 TTTGATAACTCCTTTTTGATGAACCAT
1 TTTGATAACTCCTTTTTGATGAACCAT
27386234 TTTGATAACTCCTTTTTGATGAACCA
1 TTTGATAACTCCTTTTTGATGAACCA
27386260 ACCAAATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.43
Consensus pattern (27 bp):
TTTGATAACTCCTTTTTGATGAACCAT
Found at i:27387204 original size:29 final size:30
Alignment explanation
Indices: 27387144--27387204 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
27387134 AGACTTAGTT
***
27387144 TGCTTGAGGACAACCAAAAAAGTTTTCTTG
1 TGCTTGAGGACAACCAAAAAAGTTTAAGTG
*
27387174 TGCTTGAGGACAAGCAAAAAAG-TTAAGTG
1 TGCTTGAGGACAACCAAAAAAGTTTAAGTG
27387203 TG
1 TG
27387205 GGATAGTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (30 bp):
TGCTTGAGGACAACCAAAAAAGTTTAAGTG
Found at i:27401878 original size:2 final size:2
Alignment explanation
Indices: 27401866--27401905 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
27401856 ACCATCAATC
*
27401866 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27401906 TCTTCTTTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:27402181 original size:39 final size:40
Alignment explanation
Indices: 27402119--27402273 Score: 158
Period size: 39 Copynumber: 4.0 Consensus size: 40
27402109 TAAACCCGGT
* * * * *
27402119 ATAATACCAGCTCGAAGCTTGCGGGA-CTTTAG-CCTGGAC
1 ATAATTCCAGCACGTAGCCTGCGGGACCTTAAGTCC-GGAC
* * *
27402158 ATATTTCCAGTACGTAGCCTGC-GGACCTTAAGTCCGGAT
1 ATAATTCCAGCACGTAGCCTGCGGGACCTTAAGTCCGGAC
* *
27402197 ATAATTCCAGCACGTAGCCTGC-GGACCCTAAGTCCGGAT
1 ATAATTCCAGCACGTAGCCTGCGGGACCTTAAGTCCGGAC
* *
27402236 ATAATTCCAGCACATAGCCTGC-GGACCCTAAGTCCGGA
1 ATAATTCCAGCACGTAGCCTGCGGGACCTTAAGTCCGGA
27402274 TATACATCAC
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
38 3 0.03
39 97 0.95
40 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
ATAATTCCAGCACGTAGCCTGCGGGACCTTAAGTCCGGAC
Found at i:27402274 original size:39 final size:39
Alignment explanation
Indices: 27402162--27402277 Score: 205
Period size: 39 Copynumber: 3.0 Consensus size: 39
27402152 CTGGACATAT
* *
27402162 TTCCAGTACGTAGCCTGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACGTAGCCTGCGGACCCTAAGTCCGGATATAA
27402201 TTCCAGCACGTAGCCTGCGGACCCTAAGTCCGGATATAA
1 TTCCAGCACGTAGCCTGCGGACCCTAAGTCCGGATATAA
*
27402240 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 TTCCAGCACGTAGCCTGCGGACCCTAAGTCCGGATATA
27402278 CATCACTGAA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.22
Consensus pattern (39 bp):
TTCCAGCACGTAGCCTGCGGACCCTAAGTCCGGATATAA
Found at i:27410083 original size:27 final size:26
Alignment explanation
Indices: 27410039--27410090 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
27410029 CTCACTGCAA
*
27410039 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
27410066 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
27410091 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:27410130 original size:2 final size:2
Alignment explanation
Indices: 27410123--27410156 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
27410113 GCTTCGCCAC
27410123 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27410157 TTGTTCTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27416123 original size:43 final size:42
Alignment explanation
Indices: 27416060--27416172 Score: 147
Period size: 43 Copynumber: 2.7 Consensus size: 42
27416050 GTACAATAAA
*
27416060 AATGTCCCAGATGTGGTCTTACATGTAATCAAATATCGATGCC
1 AATGTCCCAGATGTGGTCTTACATGAAATCAAATA-CGATGCC
* **
27416103 ATTGTCCCAGATAG-GGTCTTACACAAAATCAAATACGATGCC
1 AATGTCCCAGAT-GTGGTCTTACATGAAATCAAATACGATGCC
* *
27416145 AATGTCCTAGACGTGGTCTTACATGAAA
1 AATGTCCCAGATGTGGTCTTACATGAAA
27416173 ACACATATTA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 28 0.47
43 29 0.49
44 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (42 bp):
AATGTCCCAGATGTGGTCTTACATGAAATCAAATACGATGCC
Found at i:27418595 original size:29 final size:29
Alignment explanation
Indices: 27418559--27418615 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
27418549 GATTTCTCAG
27418559 AACATAGATCCGATCTTGGAATCTCAGAA
1 AACATAGATCCGATCTTGGAATCTCAGAA
27418588 AACATAGATCCGATCTTGGAATCTCAGA
1 AACATAGATCCGATCTTGGAATCTCAGA
27418616 CAATCATCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (29 bp):
AACATAGATCCGATCTTGGAATCTCAGAA
Found at i:27421935 original size:79 final size:79
Alignment explanation
Indices: 27421803--27422062 Score: 352
Period size: 79 Copynumber: 3.3 Consensus size: 79
27421793 TCGAATGATG
* * * *
27421803 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGC--AGTCACTAAATCCGGACTAAGATCCGAAGGCATT
27421867 TGTGCGAGTTACTAAT
64 TGTGCGAGTTACTAAT
27421883 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGC-AGTCACTAAATCCGGACTAAGATCCGAAGGCATTT
27421947 GTGCGAGTTACTAAT
65 GTGCGAGTTACTAAT
* **
27421962 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCAGTCACTAAATCCGGACTAAGAT-CCGAAGGCATTT
*
27422024 GTGCGAGTTACTATAA
65 GTGCGAGTTACTA-AT
*
27422040 T-CGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
27422063 TGAACGAGTA
Statistics
Matches: 166, Mismatches: 10, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
76 1 0.01
77 50 0.30
78 14 0.08
79 84 0.51
80 17 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCAGTCACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTAAT
Found at i:27422071 original size:40 final size:40
Alignment explanation
Indices: 27421803--27422064 Score: 315
Period size: 40 Copynumber: 6.7 Consensus size: 40
27421793 TCGAATGATG
* * * *
27421803 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
27421843 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
27421883 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
27421922 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27421962 TCCGGGCTAAG-CCCGAAGGCATTGGTGC--GTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27421999 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
27422040 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27422065 AACGAGTAGC
Statistics
Matches: 191, Mismatches: 21, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
37 18 0.09
38 16 0.08
39 49 0.26
40 97 0.51
41 11 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27422083 original size:117 final size:118
Alignment explanation
Indices: 27421837--27422083 Score: 299
Period size: 117 Copynumber: 2.1 Consensus size: 118
27421827 GTGCTAAGTG
* * *
27421837 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGGACTAAGACCCGAAGGCATTGGTGC-AGTTACTAAATCCGGGCTAAGCCCGAAGG
**
27421902 CATTGGTGCGAGTCACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTT
65 CATTGGTGCGAGTCACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTT
* *
27421956 ACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GTTACTAAATCCGGGTTAAGTCCCGAAG
1 ACTATA-TCCGGACTAAGACCCGAAGGCATTGGTGCAGTTACTAAATCCGGGCTAAG-CCCGAAG
* * * *
27422018 GCATTTGTGCGAGTTACTATAAT-CGGGCTATG-TCCCGAAGGCATTTGAACGAG-T
64 GCATTGGTGCGAGTCACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTT
27422072 AGCTATATCCGG
1 A-CTATATCCGG
27422084 TTAAATTCCG
Statistics
Matches: 111, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
116 21 0.19
117 56 0.50
118 20 0.18
119 14 0.13
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (118 bp):
ACTATATCCGGACTAAGACCCGAAGGCATTGGTGCAGTTACTAAATCCGGGCTAAGCCCGAAGGC
ATTGGTGCGAGTCACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTT
Found at i:27430054 original size:79 final size:80
Alignment explanation
Indices: 27429915--27430172 Score: 364
Period size: 79 Copynumber: 3.2 Consensus size: 80
27429905 ATGATGTCCA
* * * *
27429915 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
*
27429979 TGAGTTACTAATTCCG
65 CGAGTTACTAATTCCG
27429995 GGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAATCCGGACTAAGATCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTGGTGCGAGTCACTAAATCCGGACTAAGATCCGAAGGCATTTGTGC
27430059 GAGTTACTAATTCCG
66 GAGTTACTAATTCCG
* **
27430074 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTGGTGCGAGTCACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTG
*
27430137 CGAGTTACT-ATAACCG
65 CGAGTTACTAAT-TCCG
*
27430153 GGCTATGTCCCGAAGGCATT
1 GGCTAAGTCCCGAAGGCATT
27430173 TGAACGAGTA
Statistics
Matches: 164, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
78 3 0.02
79 136 0.83
80 25 0.15
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTGGTGCGAGTCACTAAATCCGGACTAAGATCCGAAGGCATTTGTGC
GAGTTACTAATTCCG
Found at i:27430128 original size:119 final size:120
Alignment explanation
Indices: 27429917--27430174 Score: 330
Period size: 119 Copynumber: 2.2 Consensus size: 120
27429907 GATGTCCAGG
* * *
27429917 CTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTGTG
1 CTAAGTCCCGAAGGCATTTGTGCTAAGTGACTATATCCGGACTAAGACCCGAAGGCATTGGTGCG
*
27429981 AGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTA-AATCCGGA
66 AGTTACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTATAA-CCGGA
* * *
27430036 CTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTG
1 CTAAG-TCCCGAAGGCATTTGTGCTAAGTGACTATA-TCCGGACTAAGACCCGAAGGCATTGGTG
* * * *
27430097 CGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGG
64 CGAGTTACTAAATCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTATAACCGGA
*
27430155 CTATGTCCCGAAGGCATTTG
1 CTAAGTCCCGAAGGCATTTG
27430175 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
118 36 0.30
119 75 0.62
120 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (120 bp):
CTAAGTCCCGAAGGCATTTGTGCTAAGTGACTATATCCGGACTAAGACCCGAAGGCATTGGTGCG
AGTTACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTATAACCGGA
Found at i:27430188 original size:40 final size:41
Alignment explanation
Indices: 27429915--27430174 Score: 308
Period size: 40 Copynumber: 6.5 Consensus size: 41
27429905 ATGATGTCCA
* *
27429915 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAT-ATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAATCCG
* * *
27429955 GACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTA-ATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAATCCG
* *
27429995 GGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTA-AATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCCG
* *
27430034 GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAATCCG
*
27430074 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCCG
*
27430113 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCCG
*
27430153 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
27430175 AACGAGTAGC
Statistics
Matches: 190, Mismatches: 21, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
39 68 0.36
40 113 0.59
41 9 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (41 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCCG
Found at i:27430205 original size:79 final size:77
Alignment explanation
Indices: 27429915--27430207 Score: 306
Period size: 79 Copynumber: 3.7 Consensus size: 77
27429905 ATGATGTCCA
* * * *
27429915 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGA-TCCGAAGGCATTTGT
1 GGCTAAG-CCCGAAGGCATTGGTGC-GAGT-ACTAAATCCGG-TTAA-ATTCCGAAGGCATTTGT
*
27429978 GTGAGTTACTAATTCCG
61 GCGAGTTACTAATTCCG
*
27429995 GGCTAAGCCCGAAGGCATTGGTGCGAGTCACTAAATCCGGACTAAGA-TCCGAAGGCATTTGTGC
1 GGCTAAGCCCGAAGGCATTGGTGCGAGT-ACTAAATCCGG-TTAA-ATTCCGAAGGCATTTGTGC
27430059 GAGTTACTAATTCCG
63 GAGTTACTAATTCCG
* *
27430074 GGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GGCTAAGCCCGAAGGCATTGGTGCGAG-TACTAAATCC-GGTTAAATTCCGAAGGCATTTGTGCG
*
27430139 AGTTACT-ATAACCG
64 AGTTACTAAT-TCCG
* * ** * *
27430153 GGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCAGTTAAATTCCGAAGG
1 GGCTAAG-CCCGAAGGCATTGGTGCGAGTA-CTAAATCCGGTTAAATTCCGAAGG
27430208 TAAGTGATTC
Statistics
Matches: 189, Mismatches: 17, Indels: 15
0.86 0.08 0.07
Matches are distributed among these distances:
78 2 0.01
79 147 0.78
80 40 0.21
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (77 bp):
GGCTAAGCCCGAAGGCATTGGTGCGAGTACTAAATCCGGTTAAATTCCGAAGGCATTTGTGCGAG
TTACTAATTCCG
Found at i:27434610 original size:42 final size:42
Alignment explanation
Indices: 27434551--27434654 Score: 111
Period size: 42 Copynumber: 2.5 Consensus size: 42
27434541 AATGCGAACG
** * *
27434551 TCCTAGACGTGGTCTTACATGTAATCAAATATC-ATGCCACTA
1 TCCTAGACAAGGTCTTACACGAAATCAAATA-CAATGCCACTA
* *
27434593 TCCTAGACAAGGTCTTACACGAAATCAAATACAATGCCAATG
1 TCCTAGACAAGGTCTTACACGAAATCAAATACAATGCCACTA
* **
27434635 TCCCAGACGTGGTCTTACAC
1 TCCTAGACAAGGTCTTACAC
27434655 AAAAACACAT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.02
42 51 0.98
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (42 bp):
TCCTAGACAAGGTCTTACACGAAATCAAATACAATGCCACTA
Found at i:27441838 original size:43 final size:42
Alignment explanation
Indices: 27441747--27441862 Score: 171
Period size: 43 Copynumber: 2.7 Consensus size: 42
27441737 TATCGAGATT
27441747 TACATGTAAGACCATATCTGGGATATGGCATCAATATGAGAC
1 TACATGTAAGACCATATCTGGGATATGGCATCAATATGAGAC
* * * *
27441789 TTCATGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGA-
1 TACATGTAAGACCATATCTGGGATA-TGGCATCAATATGAGAC
27441831 TCACATGTAAGACCATATCTGGGATATGGCAT
1 T-ACATGTAAGACCATATCTGGGATATGGCAT
27441863 TGGTACTGTA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 29 0.45
43 36 0.55
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (42 bp):
TACATGTAAGACCATATCTGGGATATGGCATCAATATGAGAC
Found at i:27441881 original size:42 final size:40
Alignment explanation
Indices: 27441750--27441881 Score: 122
Period size: 42 Copynumber: 3.1 Consensus size: 40
27441740 CGAGATTTAC
*
27441750 ATGTAAGACCATATCTGGGATATGGCATCAATATGAGACT-T
1 ATGTAAGACCATATCTGGGATATGGCATCGATAT--GACTAT
* * * *
27441791 CATGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCAC
1 -ATGTAAGACCATATCTGGGATA-TGGCATCGATATGA-CT-AT
* *
27441835 ATGTAAGACCATATCTGGGATATGGCATTGGTACTGTACTAT
1 ATGTAAGACCATATCTGGGATATGGCATCGATA-TG-ACTAT
27441877 ATGTA
1 ATGTA
27441882 CAAGATTCCT
Statistics
Matches: 73, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
41 2 0.03
42 36 0.49
43 34 0.47
44 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (40 bp):
ATGTAAGACCATATCTGGGATATGGCATCGATATGACTAT
Found at i:27443637 original size:20 final size:20
Alignment explanation
Indices: 27443594--27443640 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
27443584 CCTGATAAGT
*
27443594 ATCGATACTTTTAATTAAAC
1 ATCGATACTTTTAATTAAAA
*
27443614 ATCGATACTTTTTA-TAAAGA
1 ATCGATACTTTTAATTAAA-A
27443634 ATCGATA
1 ATCGATA
27443641 AATTTGTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (20 bp):
ATCGATACTTTTAATTAAAA
Found at i:27443803 original size:16 final size:16
Alignment explanation
Indices: 27443782--27443813 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27443772 TCATATGCTT
27443782 AGATATTCCAAATTTA
1 AGATATTCCAAATTTA
27443798 AGATATTCCAAATTTA
1 AGATATTCCAAATTTA
27443814 TGTATGATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (16 bp):
AGATATTCCAAATTTA
Found at i:27449149 original size:13 final size:13
Alignment explanation
Indices: 27449133--27449157 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27449123 AGTTACACAG
27449133 GCTGAGGACACGA
1 GCTGAGGACACGA
27449146 GCTGAGGACACG
1 GCTGAGGACACG
27449158 GGTGTGTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.24, G:0.40, T:0.08
Consensus pattern (13 bp):
GCTGAGGACACGA
Found at i:27450880 original size:25 final size:25
Alignment explanation
Indices: 27450827--27450881 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
27450817 CCTTCATATT
*
27450827 TTTCTTATGAGCGTTGTTCTGGGAC
1 TTTCTTATGAGCATTGTTCTGGGAC
*
27450852 TTTCATTATGA-CATTGTATCTTGGA-
1 TTTC-TTATGAGCATTGT-TCTGGGAC
27450877 TTTCT
1 TTTCT
27450882 GTATCTTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 13 0.50
26 12 0.46
ACGTcount: A:0.16, C:0.15, G:0.20, T:0.49
Consensus pattern (25 bp):
TTTCTTATGAGCATTGTTCTGGGAC
Found at i:27450886 original size:15 final size:15
Alignment explanation
Indices: 27450866--27450909 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
27450856 ATTATGACAT
27450866 TGTATCTTGGATTTC
1 TGTATCTTGGATTTC
27450881 TGTATCTTGGATTTC
1 TGTATCTTGGATTTC
*
27450896 TTTATCTTGGATTT
1 TGTATCTTGGATTT
27450910 TTTTTGTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.14, C:0.11, G:0.18, T:0.57
Consensus pattern (15 bp):
TGTATCTTGGATTTC
Found at i:27452820 original size:40 final size:40
Alignment explanation
Indices: 27452746--27452891 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
27452736 CCGCACCAAG
* * * * * *
27452746 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
27452786 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
27452826 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
27452866 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
27452892 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:27452906 original size:40 final size:40
Alignment explanation
Indices: 27452778--27452929 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
27452768 ATCACGATTT
* * * * *
27452778 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
27452818 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
27452858 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
27452898 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
27452930 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:27461039 original size:39 final size:40
Alignment explanation
Indices: 27460861--27461043 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
27460851 CCGCACCAAG
* * * * * * * *
27460861 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
27460901 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
27460941 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
27460981 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
27461020 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
27461044 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:27462280 original size:35 final size:37
Alignment explanation
Indices: 27462223--27462294 Score: 130
Period size: 35 Copynumber: 2.0 Consensus size: 37
27462213 CAAAGAAAGG
27462223 ATGAACAAAATTTTTTTCTTTCCTTCTCT-CAACTCA
1 ATGAACAAAATTTTTTTCTTTCCTTCTCTACAACTCA
27462259 ATGAACAAAA-TTTTTTCTTTCCTTCTCTACAACTCA
1 ATGAACAAAATTTTTTTCTTTCCTTCTCTACAACTCA
27462295 CGGCAATGGG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 18 0.51
36 17 0.49
ACGTcount: A:0.29, C:0.25, G:0.03, T:0.43
Consensus pattern (37 bp):
ATGAACAAAATTTTTTTCTTTCCTTCTCTACAACTCA
Found at i:27464179 original size:40 final size:40
Alignment explanation
Indices: 27464105--27464250 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
27464095 CCGCACCAAG
* * * * * *
27464105 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
27464145 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
27464185 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
27464225 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
27464251 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:27464265 original size:40 final size:40
Alignment explanation
Indices: 27464137--27464288 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
27464127 ATCACGATTT
* * * * *
27464137 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
27464177 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
27464217 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
27464257 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
27464289 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:27472390 original size:39 final size:40
Alignment explanation
Indices: 27472212--27472394 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
27472202 CCGCACCAAG
* * * * * * * *
27472212 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
27472252 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
27472292 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
27472332 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
27472371 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
27472395 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:27475485 original size:164 final size:164
Alignment explanation
Indices: 27475214--27475544 Score: 626
Period size: 164 Copynumber: 2.0 Consensus size: 164
27475204 TGGAAATCAA
27475214 GATTCGGTTGATGTGTCGTAAAACAAAGAATTGCTCATAACTTTAGTATGAGAAATTAAAGAGCT
1 GATTCGGTTGATGTGTCGTAAAACAAAGAATTGCTCATAACTTTAGTATGAGAAATTAAAGAGCT
27475279 AAGTATTAAGCATAGCCTGAGTAAAAGTTCCTTAGCAATGATTATGAGATAGTGGAGTTTATGTG
66 AAGTATTAAGCATAGCCTGAGTAAAAGTTCCTTAGCAATGATTATGAGATAGTGGAGTTTATGTG
27475344 AAAAACGAACCACTCTTTTGGTAAGATTTTCGGG
131 AAAAACGAACCACTCTTTTGGTAAGATTTTCGGG
*
27475378 GATTCGGTTGATGTGTCGTAAAACAAAGAATTGCTCGTAACTTTAGTATGAGAAATTAAAGAGCT
1 GATTCGGTTGATGTGTCGTAAAACAAAGAATTGCTCATAACTTTAGTATGAGAAATTAAAGAGCT
*
27475443 AAGTATTAAGCATAGCCTGAGTAAAAGTTCTTTAGCAATGATTATGAGATAGTGGAGTTTATGTG
66 AAGTATTAAGCATAGCCTGAGTAAAAGTTCCTTAGCAATGATTATGAGATAGTGGAGTTTATGTG
* *
27475508 AAAACCGAACCACTCTTTTGGTAAGGTTTTCGGG
131 AAAAACGAACCACTCTTTTGGTAAGATTTTCGGG
27475542 GAT
1 GAT
27475545 GAAAATCCCT
Statistics
Matches: 163, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
164 163 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.31
Consensus pattern (164 bp):
GATTCGGTTGATGTGTCGTAAAACAAAGAATTGCTCATAACTTTAGTATGAGAAATTAAAGAGCT
AAGTATTAAGCATAGCCTGAGTAAAAGTTCCTTAGCAATGATTATGAGATAGTGGAGTTTATGTG
AAAAACGAACCACTCTTTTGGTAAGATTTTCGGG
Found at i:27478110 original size:20 final size:20
Alignment explanation
Indices: 27478063--27478110 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
27478053 GATTTAAAAT
* *
27478063 TATAAAAGAATATAAATGAG
1 TATAAAATAAAATAAATGAG
*
27478083 TA-ACAAATAAAATAAATGTG
1 TATA-AAATAAAATAAATGAG
27478103 TATAAAAT
1 TATAAAAT
27478111 TTAGGTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.27
Consensus pattern (20 bp):
TATAAAATAAAATAAATGAG
Found at i:27478236 original size:3 final size:3
Alignment explanation
Indices: 27478228--27478341 Score: 86
Period size: 3 Copynumber: 38.3 Consensus size: 3
27478218 ATAAAATAGC
* * * * **
27478228 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAA AAT -AC AAT AGT AGC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
27478275 AAT AAT AGT AGT AAT AAT AAT AGT AAT AGT AAT AGT AAT GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
27478323 AAT AGT AAA AAT AAA AAT A
1 AAT AAT AAT AAT AAT AAT A
27478342 TTTTAAAATT
Statistics
Matches: 84, Mismatches: 26, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
2 1 0.01
3 83 0.99
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:27479163 original size:21 final size:21
Alignment explanation
Indices: 27479138--27479177 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27479128 TTTTCTTTTC
* *
27479138 AAAAATAAAATAAACAAAATA
1 AAAAACAAAATAAAAAAAATA
*
27479159 AAAAACGAAATAAAAAAAA
1 AAAAACAAAATAAAAAAAA
27479178 AACTACCTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.10
Consensus pattern (21 bp):
AAAAACAAAATAAAAAAAATA
Found at i:27485057 original size:22 final size:20
Alignment explanation
Indices: 27485027--27485066 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
27485017 AGGTAAGTTC
27485027 GTATGTTAAATAAGCTTTAAAT
1 GTATGTTAAAT--GCTTTAAAT
*
27485049 GTATTTTAAATGCTTTAA
1 GTATGTTAAATGCTTTAA
27485067 TTTATGCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
22 10 0.59
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
GTATGTTAAATGCTTTAAAT
Found at i:27487243 original size:43 final size:43
Alignment explanation
Indices: 27487196--27487318 Score: 158
Period size: 43 Copynumber: 2.9 Consensus size: 43
27487186 TATCACCTAT
* * * * *
27487196 CGATGCCACTGTCCCAGACAGGGTCTTACATGAAATC-GATTAA
1 CGATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAAT-A
* *
27487239 CGATGCCAATGCCCCAGACATGGTCTTACACGTAATCTCAATA
1 CGATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAATA
*
27487282 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 CGATGCCAATGTCCCAGACATGGTCTTACATGTAATC
27487319 ACATCTCAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
43 67 0.97
44 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAATA
Found at i:27491724 original size:44 final size:43
Alignment explanation
Indices: 27491585--27491749 Score: 154
Period size: 43 Copynumber: 3.8 Consensus size: 43
27491575 CTCATACAAC
* * * * * * *
27491585 GCCAACGTCCCAGACGTGGTCTTACATGTAATTACATATGGAT
1 GCCAACGTCCCGGACATGGTCTTACACGAAATCACAAATCGAT
** * * * *
27491628 GCCAGTGTCCCAGACA-GTGTCTTACACGAACTCATATA-CGAT
1 GCCAACGTCCCGGACATG-GTCTTACACGAAATCACAAATCGAT
* * *
27491670 GCCAATGTCCCTGACATGGTCTTACACATAAATCACAAATCGAT
1 GCCAACGTCCCGGACATGGTCTTACAC-GAAATCACAAATCGAT
27491714 GCCAACGTCCCGGACATGGTCTTACACGAAATCACA
1 GCCAACGTCCCGGACATGGTCTTACACGAAATCACA
27491750 TATCCGAATC
Statistics
Matches: 100, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
42 27 0.27
43 44 0.44
44 29 0.29
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
GCCAACGTCCCGGACATGGTCTTACACGAAATCACAAATCGAT
Found at i:27491739 original size:86 final size:85
Alignment explanation
Indices: 27491585--27491743 Score: 194
Period size: 86 Copynumber: 1.9 Consensus size: 85
27491575 CTCATACAAC
* ** * * * **
27491585 GCCAACGTCCCAGACGTGGTCTTACATGTAATTACATATGGATGCCAGTGTCCCAGACAGTGTCT
1 GCCAACGTCCCAGACATGGTCTTACACATAATCACAAATCGATGCCAACGTCCCAGACAGTGTCT
27491650 TACACGAACTCATATACGAT
66 TACACGAACTCATATACGAT
* * *
27491670 GCCAATGTCCCTGACATGGTCTTACACATAAATCACAAATCGATGCCAACGTCCCGGACA-TGGT
1 GCCAACGTCCCAGACATGGTCTTACACAT-AATCACAAATCGATGCCAACGTCCCAGACAGT-GT
27491734 CTTACACGAA
64 CTTACACGAA
27491744 ATCACATATC
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
85 25 0.41
86 36 0.59
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (85 bp):
GCCAACGTCCCAGACATGGTCTTACACATAATCACAAATCGATGCCAACGTCCCAGACAGTGTCT
TACACGAACTCATATACGAT
Found at i:27492873 original size:13 final size:13
Alignment explanation
Indices: 27492855--27492881 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27492845 TACAAACGAT
27492855 AAAATTTTCACAC
1 AAAATTTTCACAC
27492868 AAAATTTTCACAC
1 AAAATTTTCACAC
27492881 A
1 A
27492882 TATTAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:27493417 original size:26 final size:26
Alignment explanation
Indices: 27493388--27493443 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
27493378 TGATAAAAAT
27493388 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27493414 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27493440 TGAT
1 TGAT
27493444 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:27494960 original size:26 final size:26
Alignment explanation
Indices: 27494931--27494980 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
27494921 ACAGTTTTAT
27494931 CCCTAAGAGATAAATT-ACCGAAATAC
1 CCCTAAG-GATAAATTGACCGAAATAC
* *
27494957 CCCTAAGGTTAAATTGACCTAAAT
1 CCCTAAGGATAAATTGACCGAAAT
27494981 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (26 bp):
CCCTAAGGATAAATTGACCGAAATAC
Found at i:27499680 original size:46 final size:44
Alignment explanation
Indices: 27499629--27499805 Score: 185
Period size: 46 Copynumber: 3.9 Consensus size: 44
27499619 ATGTTTGGGC
27499629 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
*** * *
27499673 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA
*
27499722 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A
* * * *
27499767 CACCCGATCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27499806 GCGGATTACG
Statistics
Matches: 109, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.61
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:27499785 original size:93 final size:93
Alignment explanation
Indices: 27499626--27499798 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
27499616 AGGATGTTTG
***
27499626 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
27499691 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
27499719 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGATCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
*
27499784 TTGAGTCTGAGTTCG
66 TTGAGTCCGAGTTCG
27499799 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:27504643 original size:26 final size:26
Alignment explanation
Indices: 27504614--27504666 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
27504604 TTTACAGTTT
27504614 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
27504640 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
27504666 T
1 T
27504667 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:27512332 original size:18 final size:17
Alignment explanation
Indices: 27512297--27512329 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27512287 AAGGGTATTT
*
27512297 TTTTCTTTTCTTTTTTA
1 TTTTATTTTCTTTTTTA
27512314 TTTTATTTTCTTTTTT
1 TTTTATTTTCTTTTTT
27512330 TATCTACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTATTTTCTTTTTTA
Found at i:27513002 original size:3 final size:3
Alignment explanation
Indices: 27512994--27513033 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
27512984 ATTAATTAAT
27512994 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
27513034 CATCATCATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:27513118 original size:8 final size:8
Alignment explanation
Indices: 27513100--27513141 Score: 75
Period size: 8 Copynumber: 5.1 Consensus size: 8
27513090 ATTACCACTA
27513100 TTTTTATTT
1 TTTTTA-TT
27513109 TTTTTATT
1 TTTTTATT
27513117 TTTTTATT
1 TTTTTATT
27513125 TTTTTATT
1 TTTTTATT
27513133 TTTTTATT
1 TTTTTATT
27513141 T
1 T
27513142 GCCTACTATG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 27 0.82
9 6 0.18
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTATT
Found at i:27513214 original size:3 final size:3
Alignment explanation
Indices: 27513206--27513367 Score: 161
Period size: 3 Copynumber: 54.3 Consensus size: 3
27513196 TTTTTACTAC
27513206 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
27513254 ATT ATTT AGTT A-T ATT ACT ATT ATT ATT GTT ATC ATT ATT ACT ATT
1 ATT A-TT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
27513300 ATT -TT ATT TTT ATT TTT ATT TTT ATT ACT ATT ATCT -TT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT
* * * *
27513343 ATT ACT ACT ACT ATT ATT CTT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
27513368 ACACATTATC
Statistics
Matches: 133, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
2 7 0.05
3 119 0.89
4 7 0.05
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:27521365 original size:5 final size:5
Alignment explanation
Indices: 27521355--27521385 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
27521345 TTATTATTGG
27521355 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A
27521386 ATACTATTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:27523401 original size:36 final size:35
Alignment explanation
Indices: 27523328--27523405 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 35
27523318 ACCTGCAGAA
* *
27523328 AAATACAATATTAGACAATACAACTTGTAGACGGC
1 AAATACAATATTAGACAATACAACTTGTACACAGC
* * *
27523363 AAATACAATATTAGGATAATACACCTTGTACATAGC
1 AAATACAATATTA-GACAATACAACTTGTACACAGC
27523399 AAA-ACAA
1 AAATACAA
27523406 CTCATAGAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 17 0.46
36 20 0.54
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.23
Consensus pattern (35 bp):
AAATACAATATTAGACAATACAACTTGTACACAGC
Found at i:27528534 original size:3 final size:3
Alignment explanation
Indices: 27528526--27528697 Score: 196
Period size: 3 Copynumber: 58.3 Consensus size: 3
27528516 TATCATTTCC
*
27528526 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA -TA CTTA -TA CTTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA
* * ** * *
27528570 TTTA TT- TTA TT- TTA ATG CCA TT- TTA TTA CTA TT- TCCA TTA TTA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
27528613 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27528661 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
27528698 ACATACACAT
Statistics
Matches: 145, Mismatches: 13, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
2 13 0.09
3 125 0.86
4 7 0.05
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:27528890 original size:12 final size:12
Alignment explanation
Indices: 27528863--27528951 Score: 53
Period size: 12 Copynumber: 7.7 Consensus size: 12
27528853 CATACACATA
27528863 TATTATTATT--
1 TATTATTATTCC
27528873 TA-TATTATTCC
1 TATTATTATTCC
*
27528884 TATTATTA-ACGC
1 TATTATTATTC-C
** * *
27528896 CCTTATTACTGC
1 TATTATTATTCC
27528908 TATTATTATTCC
1 TATTATTATTCC
* *
27528920 TTTTACTA-TCAC
1 TATTATTATTC-C
*
27528932 TATTATTATTAC
1 TATTATTATTCC
27528944 TATTATTA
1 TATTATTA
27528952 CTATCTTTTT
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
9 7 0.12
10 2 0.03
11 5 0.09
12 43 0.74
13 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.02, T:0.54
Consensus pattern (12 bp):
TATTATTATTCC
Found at i:27529066 original size:3 final size:3
Alignment explanation
Indices: 27529058--27529145 Score: 51
Period size: 3 Copynumber: 31.0 Consensus size: 3
27529048 CATTTAATAC
* * * * * *
27529058 ATT ATT ATT AAT ATT -TC GTT ATT ATT ATT -TC GTT ATT ATT ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
27529104 ACT GTT -GT ATT ATT ACT ATT ATT ATT ATT ATT -TT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
27529146 TTTTTGTATT
Statistics
Matches: 63, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
2 7 0.11
3 56 0.89
ACGTcount: A:0.27, C:0.06, G:0.05, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:27529079 original size:14 final size:14
Alignment explanation
Indices: 27529062--27529100 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
27529052 TAATACATTA
*
27529062 TTATTAATATTTCG
1 TTATTATTATTTCG
27529076 TTATTATTATTTCG
1 TTATTATTATTTCG
27529090 TTATTATTATT
1 TTATTATTATT
27529101 ATCACTGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (14 bp):
TTATTATTATTTCG
Found at i:27529369 original size:34 final size:32
Alignment explanation
Indices: 27529330--27529417 Score: 79
Period size: 34 Copynumber: 2.6 Consensus size: 32
27529320 TATTATCGTA
27529330 TTATTACCATTATTATTACCATCACTTTTTACTT
1 TTATTACCATTATTATTA-CATCA-TTTTTACTT
** *
27529364 TTATTACTATCATTA-TATTATTTTATTTTTACTT
1 TTATTAC---CATTATTATTACATCATTTTTACTT
27529398 TCTATTTACCATTATTATTA
1 T-TA-TTACCATTATTATTA
27529418 TTATTATTAC
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
33 5 0.11
34 22 0.49
35 4 0.09
36 9 0.20
37 5 0.11
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.58
Consensus pattern (32 bp):
TTATTACCATTATTATTACATCATTTTTACTT
Found at i:27529416 original size:3 final size:3
Alignment explanation
Indices: 27529408--27529507 Score: 80
Period size: 3 Copynumber: 34.0 Consensus size: 3
27529398 TCTATTTACC
* * * * * *
27529408 ATT ATT ATT ATT ATT ATT ACT ATC ATT AAT ATT CTT ATT ATG ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
27529456 ATT ATT ATC ATT AGT ATT -TT -TT ACT ACT ATT ATT ATT -TAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
27529499 ATT ATT ATT
1 ATT ATT ATT
27529508 CTTGTTATCA
Statistics
Matches: 76, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
2 5 0.07
3 70 0.92
4 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:27532584 original size:2 final size:2
Alignment explanation
Indices: 27532577--27532611 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
27532567 AACATTTAGA
27532577 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27532612 ACACCTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27534358 original size:26 final size:26
Alignment explanation
Indices: 27534299--27534358 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
27534289 CGACGGCTAT
* *
27534299 CCCATTTTATTGTTCCTGCAAATTAC
1 CCCATGTTATTGTTCCTGCAAACTAC
*
27534325 TCCATGTTATTG-TCCTAGCAAACTAC
1 CCCATGTTATTGTTCCT-GCAAACTAC
*
27534351 CCCGTGTT
1 CCCATGTT
27534359 TAATGTCCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.38
Consensus pattern (26 bp):
CCCATGTTATTGTTCCTGCAAACTAC
Found at i:27534937 original size:10 final size:10
Alignment explanation
Indices: 27534922--27534968 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
27534912 TAACATGTTG
27534922 AATTTTAATT
1 AATTTTAATT
27534932 AATTTTATAATT
1 AA-TTT-TAATT
*
27534944 AATTTTGATT
1 AATTTTAATT
*
27534954 AATTTTGATT
1 AATTTTAATT
27534964 -ATTTT
1 AATTTT
27534969 CGACAGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.15
10 16 0.47
11 6 0.18
12 7 0.21
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (10 bp):
AATTTTAATT
Found at i:27539185 original size:11 final size:11
Alignment explanation
Indices: 27539169--27539206 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
27539159 AATAAATCAT
27539169 TTGATTTTAAG
1 TTGATTTTAAG
27539180 TTGATTTTAAG
1 TTGATTTTAAG
27539191 TTGATTTTAAG
1 TTGATTTTAAG
27539202 CTTGA
1 -TTGA
27539207 AAGTGGTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 22 0.85
12 4 0.15
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.53
Consensus pattern (11 bp):
TTGATTTTAAG
Found at i:27541417 original size:42 final size:43
Alignment explanation
Indices: 27541309--27541479 Score: 188
Period size: 43 Copynumber: 4.0 Consensus size: 43
27541299 AGCTTGTACA
* *
27541309 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * *
27541352 ATGCC-ACTGTCCCAGATAGGGTCTTACACG-AA-CTCATATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCACATAT-CG
* *
27541394 ATACCAATGTCCCAGACATGGTCTTACACGTAAATCACA-AGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AATCACATA-TCG
* * *
27541438 ATGCCAACGTCTCAGACGTGGTCTTACACGAAATCACATATC
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATC
27541480 AAAATCCTAT
Statistics
Matches: 105, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
41 6 0.06
42 30 0.29
43 33 0.31
44 32 0.30
45 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:27541461 original size:86 final size:85
Alignment explanation
Indices: 27541312--27541469 Score: 214
Period size: 86 Copynumber: 1.8 Consensus size: 85
27541302 TTGTACAATG
* *
27541312 CCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGATAGGGTCTT
1 CCAACGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGATAGGGTCTT
27541377 ACACGAACTCATATACGATA
66 ACACGAACTCATATACGATA
* * *
27541397 CCAATGTCCCAGACATGGTCTTACACGTAAATCACA-AGTCGATGCCAAC-GTCTCAGA-CGTGG
1 CCAACGTCCCAGACATGGTCTTACACGT-AATCACATA-TCGATGCC-ACTGTCCCAGATAG-GG
27541459 TCTTACACGAA
62 TCTTACACGAA
27541470 ATCACATATC
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
85 27 0.42
86 35 0.55
87 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (85 bp):
CCAACGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGATAGGGTCTT
ACACGAACTCATATACGATA
Found at i:27541815 original size:12 final size:12
Alignment explanation
Indices: 27541798--27541823 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27541788 AAATTAAACT
27541798 TATTTAATCAAA
1 TATTTAATCAAA
27541810 TATTTAATCAAA
1 TATTTAATCAAA
27541822 TA
1 TA
27541824 CATCCAAAAA
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:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATTTAATCAAA
Found at i:27542606 original size:13 final size:13
Alignment explanation
Indices: 27542588--27542612 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27542578 ACAAACAATA
27542588 AAATTTTCACACG
1 AAATTTTCACACG
27542601 AAATTTTCACAC
1 AAATTTTCACAC
27542613 ATATCAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:27546239 original size:28 final size:27
Alignment explanation
Indices: 27546176--27546245 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
27546166 ATAGTGAGTC
27546176 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
27546203 CACACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
27546231 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27546246 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:27552503 original size:42 final size:41
Alignment explanation
Indices: 27552441--27552519 Score: 122
Period size: 42 Copynumber: 1.9 Consensus size: 41
27552431 CATGTAACCA
*
27552441 CATATCGATGCCACTATCCCAGACAGGGTCTTACACGAACT
1 CATATCGATGCCAATATCCCAGACAGGGTCTTACACGAACT
* *
27552482 CATATACGATGCCAATGTCCCAGACATGGTCTTACACG
1 CATAT-CGATGCCAATATCCCAGACAGGGTCTTACACG
27552520 TAAATAAGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 5 0.15
42 29 0.85
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (41 bp):
CATATCGATGCCAATATCCCAGACAGGGTCTTACACGAACT
Found at i:27553225 original size:16 final size:16
Alignment explanation
Indices: 27553204--27553234 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27553194 AATTGTGTGA
27553204 GGTGTGTTTGGTGGTT
1 GGTGTGTTTGGTGGTT
*
27553220 GGTGTGTTTTGTGGT
1 GGTGTGTTTGGTGGT
27553235 GGTTTTAATG
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (16 bp):
GGTGTGTTTGGTGGTT
Found at i:27554258 original size:24 final size:24
Alignment explanation
Indices: 27554230--27554281 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
27554220 TTTCTAGAAG
* * *
27554230 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATAAGCATAATAT
*
27554254 ATTTAGCATTTATAAGCATAATTT
1 ATTTAGCATTTATAAGCATAATAT
27554278 ATTT
1 ATTT
27554282 GACCTACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATAAGCATAATAT
Found at i:27556172 original size:89 final size:89
Alignment explanation
Indices: 27556026--27556195 Score: 227
Period size: 89 Copynumber: 1.9 Consensus size: 89
27556016 CACAGATTTA
* * *
27556026 ACTCAGTTAATTCCTTGCACAATTCAAGATAGTCCCGTGGCTAGCTTTGGCAAAGATGGCGTTGT
1 ACTCAGTTAATTCCTTGCACAATTCAAGATAGTCCAGTGGCGAGCTTTGGCAAAGATGACGTTGT
27556091 GAGAATTCATGTCAAGCAGATTCG
66 GAGAATTCATGTCAAGCAGATTCG
* * * * *
27556115 ACTCTGTTAATTCGC-TGTACAGTTCAAGATAAG-CCAGTGGCGAGTTTTGGCACAGATGACGTT
1 ACTCAGTTAATTC-CTTGCACAATTCAAGAT-AGTCCAGTGGCGAGCTTTGGCAAAGATGACGTT
*
27556178 GTGAGAATTCGTGTCAAG
64 GTGAGAATTCATGTCAAG
27556196 GTAGAGATTG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
89 67 0.96
90 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (89 bp):
ACTCAGTTAATTCCTTGCACAATTCAAGATAGTCCAGTGGCGAGCTTTGGCAAAGATGACGTTGT
GAGAATTCATGTCAAGCAGATTCG
Found at i:27559177 original size:50 final size:50
Alignment explanation
Indices: 27559062--27559197 Score: 163
Period size: 49 Copynumber: 2.7 Consensus size: 50
27559052 TAGGGTATAA
*
27559062 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCTAAATTGAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCTAAATAGAG
* * * *
27559112 -GCCGACGCCATGTCCCAAACATAGTCTTACACT-AGCTCTC-ACATATAG-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCTA-A-ATAGAG
*
27559161 TGCCGATGCCATGTCCCAGACATGGTCTTTCACTGAC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAC
27559198 ACATCTCGTA
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
48 2 0.03
49 36 0.50
50 33 0.46
51 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (50 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCTAAATAGAG
Found at i:27559251 original size:99 final size:98
Alignment explanation
Indices: 27559062--27559282 Score: 255
Period size: 99 Copynumber: 2.3 Consensus size: 98
27559052 TAGGGTATAA
* *
27559062 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCTAAATTGAGGCCGACGCCATGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACCATCT-AAGTGAGGCCGACGCCATGTCC
27559127 CAAACATAGTCTTACACTAGCTCTCACATATAGG
65 CAAACATAGTCTTACACTAGCTCTCACATATAGG
* * * *
27559161 TGCCGATGCCATGTCCCAGACATGGTCTTTCACTGACACATCT-CGT-A-GCTGATG-CATGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-CATCTAAGTGAGGCCGACGCCATGTCC
* * * *
27559222 CAGACAT-GTCTTACACTGGCT-T-ACATCTCAAG
65 CAAACATAGTCTTACACTAGCTCTCACATAT-AGG
27559254 -GCCGATG-CATGTCCCAGACAT-GTCTTACA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACA
27559283 TTGGCACACA
Statistics
Matches: 109, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
90 7 0.06
91 14 0.13
92 12 0.11
93 3 0.03
94 13 0.12
95 13 0.12
96 5 0.05
97 1 0.01
98 1 0.01
99 36 0.33
100 4 0.04
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (98 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACCATCTAAGTGAGGCCGACGCCATGTCCC
AAACATAGTCTTACACTAGCTCTCACATATAGG
Done.