Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 85 of 150
Found at i:26637231 original size:25 final size:25
Alignment explanation
Indices: 26637203--26637260 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
26637193 TCATAGCTTA
*
26637203 TGTGAGCACACTTATTCACAGCTCG
1 TGTGAGCACACTTATTCACAACTCG
26637228 TGTGAGCACACTTATTCACAACTCG
1 TGTGAGCACACTTATTCACAACTCG
26637253 TGTGAGCA
1 TGTGAGCA
26637261 TATATGTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (25 bp):
TGTGAGCACACTTATTCACAACTCG
Found at i:26641261 original size:8 final size:8
Alignment explanation
Indices: 26641248--26641273 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
26641238 TGCTTAAAAT
26641248 ATTATAAA
1 ATTATAAA
26641256 ATTATAAA
1 ATTATAAA
26641264 ATTATAAA
1 ATTATAAA
26641272 AT
1 AT
26641274 AAAACCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATTATAAA
Found at i:26649139 original size:21 final size:21
Alignment explanation
Indices: 26649113--26649172 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
26649103 CTCATTTTAG
* *
26649113 CAACTTCTTCTTCTTCAGCAA
1 CAACTTCTTCTTCTGCAACAA
*
26649134 CAACTTCCTCTTCTGCAACAA
1 CAACTTCTTCTTCTGCAACAA
*
26649155 TAACTTC--CTTCT-CAACAA
1 CAACTTCTTCTTCTGCAACAA
26649173 TAGTGTCATC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 6 0.17
19 5 0.14
21 24 0.69
ACGTcount: A:0.28, C:0.35, G:0.03, T:0.33
Consensus pattern (21 bp):
CAACTTCTTCTTCTGCAACAA
Found at i:26649140 original size:18 final size:18
Alignment explanation
Indices: 26649119--26649154 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
26649109 TTAGCAACTT
*
26649119 CTTCTTCTTCAGCAACAA
1 CTTCCTCTTCAGCAACAA
*
26649137 CTTCCTCTTCTGCAACAA
1 CTTCCTCTTCAGCAACAA
26649155 TAACTTCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.36, G:0.06, T:0.33
Consensus pattern (18 bp):
CTTCCTCTTCAGCAACAA
Found at i:26659312 original size:20 final size:22
Alignment explanation
Indices: 26659287--26659326 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
26659277 TATGTCCCAA
*
26659287 AAAATTGAC-TTTAC-AAATCC
1 AAAATTAACATTTACTAAATCC
26659307 AAAATTAACATTTACTAAAT
1 AAAATTAACATTTACTAAAT
26659327 TTGGCAAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 5 0.29
22 4 0.24
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.33
Consensus pattern (22 bp):
AAAATTAACATTTACTAAATCC
Found at i:26667509 original size:26 final size:26
Alignment explanation
Indices: 26667458--26667509 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
26667448 CATCTCTAGT
*
26667458 CAAGGCATTCAAATAGAAAAATCTAA
1 CAAGGCATTCAAATAGAAAAAGCTAA
* *
26667484 CAAGGCATTCAAATAGACATAGCTAA
1 CAAGGCATTCAAATAGAAAAAGCTAA
26667510 GGTGGAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.19
Consensus pattern (26 bp):
CAAGGCATTCAAATAGAAAAAGCTAA
Found at i:26672315 original size:18 final size:18
Alignment explanation
Indices: 26672289--26672333 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
26672279 ACTGTTATTG
26672289 AGAAGGAAGTTGTTGCAGA
1 AGAA-GAAGTTGTTGCAGA
*
26672308 AGAAGAAGTTGTTGCTGA
1 AGAAGAAGTTGTTGCAGA
*
26672326 ATAAGAAG
1 AGAAGAAG
26672334 AGGTTGTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.04, G:0.33, T:0.22
Consensus pattern (18 bp):
AGAAGAAGTTGTTGCAGA
Found at i:26696313 original size:51 final size:51
Alignment explanation
Indices: 26696176--26696467 Score: 290
Period size: 51 Copynumber: 5.7 Consensus size: 51
26696166 AGTTTTATCA
* **
26696176 TTCGTTACACGTAGTAGCCTTCACATAGTACTACACACGTGA-TGAAG-TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* *
26696225 TTACGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
1 TT-CGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * ** *
26696277 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGTTC--ATCATT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGC-TT
* * *
26696327 CATCGGTACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTT
1 -TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* ** * * * *
26696379 CTATGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA--TT
1 TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTT
* *
26696429 TATCGATACACGTAGTAGCCTTCACACAGTACTACACAC
1 T-TCGGTACACGTAGTAGCCTTCACATAGTACTACACAC
26696468 ATGTTCATCG
Statistics
Matches: 198, Mismatches: 36, Indels: 16
0.79 0.14 0.06
Matches are distributed among these distances:
49 4 0.02
50 42 0.21
51 143 0.72
52 7 0.04
53 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (51 bp):
TTCGGTACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
Found at i:26696365 original size:102 final size:102
Alignment explanation
Indices: 26696181--26696467 Score: 387
Period size: 102 Copynumber: 2.8 Consensus size: 102
26696171 TATCATTCGT
* * * ** *** * *
26696181 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTA-CGATTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTCATCGATACACGTAGTAGCC
* * * *
26696245 TTCACATAGTACTACACACGTGACCAAAGCTTTTCGG
66 TTCACACAGTACTACACACGTGACCAAAACTTCTAGG
** *
26696282 TACACATAGTAGCCTTCACTTAGTACTACACATGTGTTCATCATTCATCGGTACACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTCATCGATACACGTAGTAGCC
*
26696347 TTCACACAGTACTACACACGTGACCAAAACTTCTATG
66 TTCACACAGTACTACACACGTGACCAAAACTTCTAGG
* *
26696384 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATACACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTCATCGATACACGTAGTAGCC
26696449 TTCACACAGTACTACACAC
66 TTCACACAGTACTACACAC
26696468 ATGTTCATCG
Statistics
Matches: 164, Mismatches: 21, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
101 38 0.23
102 126 0.77
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (102 bp):
TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTCATCGATACACGTAGTAGCC
TTCACACAGTACTACACACGTGACCAAAACTTCTAGG
Found at i:26696452 original size:153 final size:151
Alignment explanation
Indices: 26696181--26696476 Score: 380
Period size: 153 Copynumber: 1.9 Consensus size: 151
26696171 TATCATTCGT
* ** * * * *
26696181 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCACGTAGTAGCCT
1 TACACGTAGTAGCCTTCACACAGTACTACACACGTGAAAAACTTCTACGATACACATAGTAGCCT
* **
26696246 TCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCCTTCACTTAGTACTAC
66 TCACATAGTACTACACACGTGACCAAA-CTTTTCGATACACATAGTAGCCTTCACACAGTACTAC
**
26696311 ACATGTGTTCATCATTCATCGG
130 ACACATGTTCATCATTCATCGG
*
26696333 TACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTTCTATG-TACACATAGTAGC
1 TACACGTAGTAGCCTTCACACAGTACTACACACGTGA--AAAACTTCTACGATACACATAGTAGC
* * * *
26696397 CTTCACTTAGTACTACACATGTGACCATTA-TTTATCGATACACGTAGTAGCCTTCACACAGTAC
64 CTTCACATAGTACTACACACGTGACCA-AACTTT-TCGATACACATAGTAGCCTTCACACAGTAC
26696461 TACACACATGTTCATC
127 TACACACATGTTCATC
26696477 GATACCTTAT
Statistics
Matches: 123, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
152 39 0.32
153 76 0.62
154 8 0.07
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (151 bp):
TACACGTAGTAGCCTTCACACAGTACTACACACGTGAAAAACTTCTACGATACACATAGTAGCCT
TCACATAGTACTACACACGTGACCAAACTTTTCGATACACATAGTAGCCTTCACACAGTACTACA
CACATGTTCATCATTCATCGG
Found at i:26696977 original size:30 final size:30
Alignment explanation
Indices: 26696943--26697004 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
26696933 TCAACTCAAC
*
26696943 CTTTTATAAAATTACGA-TTTTGTCCCCAAA
1 CTTTTACAAAATTAC-ATTTTTGTCCCCAAA
** *
26696973 CTTTTACGTATTTACATTTTTGTCCCCAAA
1 CTTTTACAAAATTACATTTTTGTCCCCAAA
26697003 CT
1 CT
26697005 CGAAAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CTTTTACAAAATTACATTTTTGTCCCCAAA
Found at i:26698548 original size:20 final size:20
Alignment explanation
Indices: 26698520--26698576 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
26698510 AAGACGATGA
26698520 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
*
26698540 ACGATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* *
26698560 TCCATTCCAATTACTTA
1 ACCATTCCATTTACTTA
26698577 GCATAAGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.28, G:0.02, T:0.44
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:26700929 original size:16 final size:16
Alignment explanation
Indices: 26700908--26700940 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
26700898 GTGAGTTATG
26700908 GTAAAATGACTGAAAT
1 GTAAAATGACTGAAAT
26700924 GTAAAATGACTGAAAT
1 GTAAAATGACTGAAAT
26700940 G
1 G
26700941 CCCTCGAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.21, T:0.24
Consensus pattern (16 bp):
GTAAAATGACTGAAAT
Found at i:26700955 original size:27 final size:27
Alignment explanation
Indices: 26700924--26701204 Score: 275
Period size: 27 Copynumber: 10.4 Consensus size: 27
26700914 TGACTGAAAT
* *
26700924 GTAAAATGACTGAAATGCCCTCGAATG
1 GTAAAATGACTGAAATACCCTCGAAGG
* *
26700951 GTAAAATGACCGAACTACCCTCGAA-G
1 GTAAAATGACTGAAATACCCTCGAAGG
* **
26700977 GTAAAATCACCAAAATACCCTCGAAGG
1 GTAAAATGACTGAAATACCCTCGAAGG
** *
26701004 GTAAAATGACTGAAATACGGTCAAAGG
1 GTAAAATGACTGAAATACCCTCGAAGG
26701031 GTAAAATGA-TCGAAATACCCTCGAAGG
1 GTAAAATGACT-GAAATACCCTCGAAGG
* * *
26701058 GTAAAATGACTAAAATACCCTCAAAGC
1 GTAAAATGACTGAAATACCCTCGAAGG
* *
26701085 GTAAAATGACTAAAATACCC-CTGAACG
1 GTAAAATGACTGAAATACCCTC-GAAGG
** *
26701112 GTAAAATGACCAAAATACCC-CTAAAGG
1 GTAAAATGACTGAAATACCCTC-GAAGG
* *
26701139 GTAAAATAATTGAAATACCCTCGAAGG
1 GTAAAATGACTGAAATACCCTCGAAGG
* * *
26701166 ATAAAATGACCGAAATACCC-CCATAGG
1 GTAAAATGACTGAAATACCCTCGA-AGG
*
26701193 GTAAAATAACTG
1 GTAAAATGACTG
26701205 TTATACCCAA
Statistics
Matches: 211, Mismatches: 37, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
26 27 0.13
27 182 0.86
28 2 0.01
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (27 bp):
GTAAAATGACTGAAATACCCTCGAAGG
Found at i:26705865 original size:27 final size:27
Alignment explanation
Indices: 26705807--26706283 Score: 459
Period size: 27 Copynumber: 17.7 Consensus size: 27
26705797 GTTGAGGAAA
* * *
26705807 TCGAAGGCT-AAATGACCGAAATATCC
1 TCGAAGGGTAAAATGACTGAAATACCC
* * **
26705833 ACGAAGGATAAAAAAACTGAAATACCC
1 TCGAAGGGTAAAATGACTGAAATACCC
*
26705860 TTGAAGGGTAAAATGA-TCGAAATACCC
1 TCGAAGGGTAAAATGACT-GAAATACCC
*
26705887 CCGAAGGGTAAAATGA-TCGAAATACCC
1 TCGAAGGGTAAAATGACT-GAAATACCC
* **
26705914 TCGAAAGGTAAAATGACCAAAATACCC
1 TCGAAGGGTAAAATGACTGAAATACCC
** *
26705941 TCGAAGGGTAAAATGACCAAAATACCT
1 TCGAAGGGTAAAATGACTGAAATACCC
* * *
26705968 TTGATGGGTAAAATGACCGAAATACCC
1 TCGAAGGGTAAAATGACTGAAATACCC
*
26705995 TCGAAGGGTAAAATGACCGAAATACCC
1 TCGAAGGGTAAAATGACTGAAATACCC
* *
26706022 TCGAATGGTAAAATGATTGAAATACCC
1 TCGAAGGGTAAAATGACTGAAATACCC
* * *
26706049 CCGAAGGATAAAATGATTGAAATACCC
1 TCGAAGGGTAAAATGACTGAAATACCC
* *
26706076 CCGAAGGGTAAAATGAC-CACAATACCC
1 TCGAAGGGTAAAATGACTGA-AATACCC
*
26706103 CCGAAGGGTAAAATGACTGAAATACCC
1 TCGAAGGGTAAAATGACTGAAATACCC
* *
26706130 -CTGAAGGGTAAAATGATTAAAATACCC
1 TC-GAAGGGTAAAATGACTGAAATACCC
* *
26706157 CCGAAGGGTAAAATAACT-AGAATACCC
1 TCGAAGGGTAAAATGACTGA-AATACCC
* * * * * *
26706184 TCGAATGATATAATAACCGAAATACCT
1 TCGAAGGGTAAAATGACTGAAATACCC
26706211 TCGAAGGGTAAAATGA-TCGAAATA-CC
1 TCGAAGGGTAAAATGACT-GAAATACCC
* *
26706237 TCCAAAGGGTAAAATGACCGAAATACCC
1 T-CGAAGGGTAAAATGACTGAAATACCC
*
26706265 -CCATAGGGTAAAATGACTG
1 TCGA-AGGGTAAAATGACTG
26706284 TTATACCCCT
Statistics
Matches: 382, Mismatches: 55, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
26 15 0.04
27 362 0.95
28 5 0.01
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (27 bp):
TCGAAGGGTAAAATGACTGAAATACCC
Found at i:26705875 original size:54 final size:54
Alignment explanation
Indices: 26705807--26706283 Score: 520
Period size: 54 Copynumber: 8.9 Consensus size: 54
26705797 GTTGAGGAAA
* * * * **
26705807 TCGAAGGCT-AAATGACCGAAATATCCACGAAGGATAAAAAAACTGAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACTGAAATACCC
* *
26705860 TTGAAGGGTAAAATGATCGAAATACCCCCGAAGGGTAAAATGA-TCGAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACT-GAAATACCC
* * * ** *
26705914 TCGAAAGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCAAAATACCT
1 TCGAAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACTGAAATACCC
* * * *
26705968 TTGATGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACTGAAATACCC
* ** * *
26706022 TCGAATGGTAAAATGATTGAAATACCCCCGAAGGATAAAATGATTGAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACTGAAATACCC
*
26706076 CCGAAGGGTAAAATGACC-ACAATACCCCCGAAGGGTAAAATGACTGAAATACCC
1 TCGAAGGGTAAAATGACCGA-AATACCCCCGAAGGGTAAAATGACTGAAATACCC
*** *
26706130 -CTGAAGGGTAAAATGATTAAAATACCCCCGAAGGGTAAAATAACT-AGAATACCC
1 TC-GAAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACTGA-AATACCC
* * * * **
26706184 TCGAATGATATAATAACCGAAATACCTTCGAAGGGTAAAATGA-TCGAAATA-CC
1 TCGAAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACT-GAAATACCC
*
26706237 TCCAAAGGGTAAAATGACCGAAATACCCCC-ATAGGGTAAAATGACTG
1 T-CGAAGGGTAAAATGACCGAAATACCCCCGA-AGGGTAAAATGACTG
26706284 TTATACCCCT
Statistics
Matches: 354, Mismatches: 57, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
53 16 0.05
54 334 0.94
55 4 0.01
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (54 bp):
TCGAAGGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACTGAAATACCC
Found at i:26706304 original size:81 final size:81
Alignment explanation
Indices: 26705816--26706307 Score: 517
Period size: 81 Copynumber: 6.1 Consensus size: 81
26705806 ATCGAAGGCT
* * * * ** * *
26705816 AAATGACCGAAATATCCACGAAGGATAAAAAAACTGAAATACCCTTGAAGGGTAAAATGA-TCGA
1 AAATGATCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACT-GA
*
26705880 AATACCCCCGAAGGGTA
65 AATACCCCTGAAGGGTA
* * * **
26705897 AAATGATCGAAATACCCTCGAAAGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGACCAAA
1 AAATGATCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACTGAA
** *
26705962 ATACCTTTGATGGGTA
66 ATACCCCTGAAGGGTA
* * * *
26705978 AAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAATGGTAAAATGATTGAA
1 AAATGATCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACTGAA
* *
26706043 ATACCCCCGAAGGATA
66 ATACCCCTGAAGGGTA
* *
26706059 AAATGATTGAAATACCCCCGAAGGGTAAAATGACC-ACAATACCCCCGAAGGGTAAAATGACTGA
1 AAATGATCGAAATACCCCCGAAGGGTAAAATGACCGA-AATACCCTCGAAGGGTAAAATGACTGA
26706123 AATACCCCTGAAGGGTA
65 AATACCCCTGAAGGGTA
** * * * * * * *
26706140 AAATGATTAAAATACCCCCGAAGGGTAAAAT-AACTAGAATACCCTCGAATGATATAATAACCGA
1 AAATGATCGAAATACCCCCGAAGGGTAAAATGACCGA-AATACCCTCGAAGGGTAAAATGACTGA
*
26706204 AATA-CCTTCGAAGGGTA
65 AATACCCCT-GAAGGGTA
* * * *
26706221 AAATGATCGAAATACCTCCAAAGGGTAAAATGACCGAAATACCC-CCATAGGGTAAAATGACTGT
1 AAATGATCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCGA-AGGGTAAAATGACTGA
* * * *
26706285 TATACCCCTAAAAGTTA
65 AATACCCCTGAAGGGTA
26706302 AAATGA
1 AAATGA
26706308 GTGTATGACC
Statistics
Matches: 340, Mismatches: 64, Indels: 14
0.81 0.15 0.03
Matches are distributed among these distances:
80 8 0.02
81 326 0.96
82 6 0.02
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (81 bp):
AAATGATCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACTGAA
ATACCCCTGAAGGGTA
Found at i:26706499 original size:26 final size:26
Alignment explanation
Indices: 26706463--26706531 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
26706453 ACATATACTG
* *
26706463 TTACTGGCAGCTTTGCTATGTTATTA
1 TTACTGGCAGCTTTGCTACGTCATTA
* **
26706489 TTACTGCCAGCTTTGCCGCGTCATTA
1 TTACTGGCAGCTTTGCTACGTCATTA
*
26706515 TCACTGGCAGCTTTGCT
1 TTACTGGCAGCTTTGCT
26706532 GCGATATTGG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTACGTCATTA
Found at i:26706693 original size:33 final size:34
Alignment explanation
Indices: 26706638--26706707 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 34
26706628 ATTACTGAAT
*
26706638 TGTACTGATTACTGTAATGGGCTAAGGCCCACAC
1 TGTACTGACTACTGTAATGGGCTAAGGCCCACAC
* * *
26706672 TGTACTG-CTACTG-AATAGGGCTCAGGTCCAGAC
1 TGTACTGACTACTGTAAT-GGGCTAAGGCCCACAC
26706705 TGT
1 TGT
26706708 TACTACATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
32 3 0.10
33 21 0.68
34 7 0.23
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (34 bp):
TGTACTGACTACTGTAATGGGCTAAGGCCCACAC
Found at i:26707728 original size:18 final size:18
Alignment explanation
Indices: 26707702--26707748 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
26707692 ATTTTTGATT
26707702 TTTTTAAAAAAAATAGAA
1 TTTTTAAAAAAAATAGAA
* **
26707720 TTTTCAAAAATTATAGAA
1 TTTTTAAAAAAAATAGAA
26707738 TTTTTAAAAAA
1 TTTTTAAAAAA
26707749 CTTGCAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (18 bp):
TTTTTAAAAAAAATAGAA
Found at i:26709506 original size:27 final size:27
Alignment explanation
Indices: 26709476--26709534 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
26709466 TCCCCAAGCC
26709476 ATTTGGCAAGCTAGG-GTTCGCCAGTCT
1 ATTTGGCAAGCT-GGTGTTCGCCAGTCT
** * *
26709503 ATTTGGTGAGCTGGTGTTTGCTAGTCT
1 ATTTGGCAAGCTGGTGTTCGCCAGTCT
26709530 ATTTG
1 ATTTG
26709535 ATGAACTAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.15, C:0.15, G:0.31, T:0.39
Consensus pattern (27 bp):
ATTTGGCAAGCTGGTGTTCGCCAGTCT
Found at i:26710250 original size:42 final size:41
Alignment explanation
Indices: 26710181--26710302 Score: 147
Period size: 42 Copynumber: 3.0 Consensus size: 41
26710171 AAACGGTTTT
* *
26710181 ACAA-CTGTGTATCGGTAAGCTCCCCACGTGAGCTTAAGTG
1 ACAAGCTGTGTATCAGTAAACTCCCCACGTGAGCTTAAGTG
26710221 ACAAGCTGTGTATCAGTGAAACTCCCCACGTGAGCTTAAGTG
1 ACAAGCTGTGTATCAGT-AAACTCCCCACGTGAGCTTAAGTG
* * * * * *
26710263 ACAAGTTGTGTATTAGCAATGCTCCCCATGTGAGTTTAAG
1 ACAAGCTGTGTATCAGTAA-ACTCCCCACGTGAGCTTAAG
26710303 GGTCTGTTTG
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
40 4 0.06
41 13 0.18
42 54 0.76
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (41 bp):
ACAAGCTGTGTATCAGTAAACTCCCCACGTGAGCTTAAGTG
Found at i:26725731 original size:32 final size:32
Alignment explanation
Indices: 26725614--26725763 Score: 85
Period size: 32 Copynumber: 4.7 Consensus size: 32
26725604 TGGCACACAA
* * *
26725614 CCATCAGTAACAGTAACT-TGATCAACATAAAG
1 CCATCAGTAACGGTAA-TATGATCGACAGAAAG
* * * * * * *
26725646 GCATCAGTAGCAGTGATAAGATCGGCACACAA-
1 CCATCAGTAACGGTAATATGATCGACAGA-AAG
* * *
26725678 CCAACAGTAACAGTTAA-ATGATCGATAGACAA-
1 CCATCAGTAAC-GGTAATATGATCGACAGA-AAG
*
26725710 CCATC-GTTAACGGTAATATGATTGACAGAAAG
1 CCATCAG-TAACGGTAATATGATCGACAGAAAG
*
26725742 CCATCAGTAACGGTACTATGAT
1 CCATCAGTAACGGTAATATGAT
26725764 TTGTACAAAG
Statistics
Matches: 89, Mismatches: 22, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
31 8 0.09
32 76 0.85
33 5 0.06
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (32 bp):
CCATCAGTAACGGTAATATGATCGACAGAAAG
Found at i:26725764 original size:32 final size:32
Alignment explanation
Indices: 26725717--26725782 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
26725707 CAACCATCGT
26725717 TAACGGTAATATGA-TTG-ACAGAAAGCCATCAG
1 TAACGGTAATATGATTTGTAC--AAAGCCATCAG
*
26725749 TAACGGTACTATGATTTGTACAAAGCCATCAG
1 TAACGGTAATATGATTTGTACAAAGCCATCAG
26725781 TA
1 TA
26725783 GCATCATAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 26 0.84
33 3 0.10
34 2 0.06
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (32 bp):
TAACGGTAATATGATTTGTACAAAGCCATCAG
Found at i:26726150 original size:81 final size:80
Alignment explanation
Indices: 26726032--26726261 Score: 316
Period size: 81 Copynumber: 2.8 Consensus size: 80
26726022 CTAGGGCAAA
* *
26726032 ATGGTCATCTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAAGGGTATTACGGTCATTTT
1 ATGGTCATTTTACCCTACAAGGGTATTACGGTAATTTTACCCTAC-AGGGTATTACGGTCATTTT
*
26726097 ACCCTATAGGGGCATT
65 ACCCTACAGGGGCATT
* *
26726113 ATGGTCATTTTACCCTATAGGGGTATTACGGTAATTTTACCCTACAGGAGTATTACGGTCATTTT
1 ATGGTCATTTTACCCTACAAGGGTATTACGGTAATTTTACCCTACAGG-GTATTACGGTCATTTT
*
26726178 ACCCTACAGGGGTATT
65 ACCCTACAGGGGCATT
* * * ** * *
26726194 ACGATCATTTTACCCTACACGGGTATTACGGCGATTTTACCCTATAGTGGTATTACGTTCATTTT
1 ATGGTCATTTTACCCTACAAGGGTATTACGGTAATTTTACCCTACAG-GGTATTACGGTCATTTT
26726259 ACC
65 ACC
26726262 ATTTGAGGGT
Statistics
Matches: 133, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
80 3 0.02
81 129 0.97
82 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (80 bp):
ATGGTCATTTTACCCTACAAGGGTATTACGGTAATTTTACCCTACAGGGTATTACGGTCATTTTA
CCCTACAGGGGCATT
Found at i:26726274 original size:27 final size:26
Alignment explanation
Indices: 26726034--26726261 Score: 269
Period size: 27 Copynumber: 8.5 Consensus size: 26
26726024 AGGGCAAAAT
* *
26726034 GGTCATCTTACCCTACAAGGGTATTAC
1 GGTCATTTTACCCTA-TAGGGTATTAC
*
26726061 GGTCATTTTACCCTACAAGGGTATTAC
1 GGTCATTTTACCCTA-TAGGGTATTAC
* *
26726088 GGTCATTTTACCCTATAGGGGCATTAT
1 GGTCATTTTACCCTATA-GGGTATTAC
26726115 GGTCATTTTACCCTATAGGGGTATTAC
1 GGTCATTTTACCCTATA-GGGTATTAC
* *
26726142 GGTAATTTTACCCTACAGGAGTATTAC
1 GGTCATTTTACCCTATAGG-GTATTAC
*
26726169 GGTCATTTTACCCTACAGGGGTATTAC
1 GGTCATTTTACCCTATA-GGGTATTAC
* *
26726196 GATCATTTTACCCTACACGGGTATTAC
1 GGTCATTTTACCCTATA-GGGTATTAC
26726223 GG-CGATTTTACCCTATAGTGGTATTAC
1 GGTC-ATTTTACCCTATAG-GGTATTAC
*
26726250 GTTCATTTTACC
1 GGTCATTTTACC
26726262 ATTTGAGGGT
Statistics
Matches: 181, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
26 5 0.03
27 173 0.96
28 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (26 bp):
GGTCATTTTACCCTATAGGGTATTAC
Found at i:26726285 original size:81 final size:78
Alignment explanation
Indices: 26726032--26726287 Score: 271
Period size: 81 Copynumber: 3.2 Consensus size: 78
26726022 CTAGGGCAAA
*
26726032 ATGGTCATCTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAAGGGTATTACGGTCATTTT
1 ATGGTCATTTTACCCTACAAGGGTATTACGG-CATTTTACCCTA-AAGGGTATTACGGTCATTTT
* *
26726097 ACCCTATAGGGGCATT
64 A-CCTTTAGGGGTATT
* * * *
26726113 ATGGTCATTTTACCCTATAGGGGTATTACGGTAATTTTACCCTACAGGAGTATTACGGTCATTTT
1 ATGGTCATTTTACCCTACAAGGGTATTACGG-CATTTTACCCTAAAGG-GTATTACGGTCATTTT
**
26726178 ACCCTACAGGGGTATT
64 A-CCTTTAGGGGTATT
* * * * *
26726194 ACGATCATTTTACCCTACACGGGTATTACGGCGATTTTACCCTATAGTGGTATTACGTTCATTTT
1 ATGGTCATTTTACCCTACAAGGGTATTACGGC-ATTTTACCCTAAAG-GGTATTACGGTCATTTT
26726259 ACCATTT-GAGGGTATT
64 ACC-TTTAG-GGGTATT
* *
26726275 TTGGTAATTTTAC
1 ATGGTCATTTTAC
26726288 AACCTTTCCG
Statistics
Matches: 150, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
80 6 0.04
81 143 0.95
82 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (78 bp):
ATGGTCATTTTACCCTACAAGGGTATTACGGCATTTTACCCTAAAGGGTATTACGGTCATTTTAC
CTTTAGGGGTATT
Found at i:26726287 original size:54 final size:53
Alignment explanation
Indices: 26726034--26726261 Score: 305
Period size: 54 Copynumber: 4.2 Consensus size: 53
26726024 AGGGCAAAAT
* * *
26726034 GGTCATCTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAAGGGTATTAC
1 GGTCATTTTACCCTAC-AGGGTATTACGGTCATTTTACCCTATAGGGGTATTAC
* * *
26726088 GGTCATTTTACCCTATAGGGGCATTATGGTCATTTTACCCTATAGGGGTATTAC
1 GGTCATTTTACCCTACA-GGGTATTACGGTCATTTTACCCTATAGGGGTATTAC
* *
26726142 GGTAATTTTACCCTACAGGAGTATTACGGTCATTTTACCCTACAGGGGTATTAC
1 GGTCATTTTACCCTACAGG-GTATTACGGTCATTTTACCCTATAGGGGTATTAC
* *
26726196 GATCATTTTACCCTACACGGGTATTACGG-CGATTTTACCCTATAGTGGTATTAC
1 GGTCATTTTACCCTACA-GGGTATTACGGTC-ATTTTACCCTATAGGGGTATTAC
*
26726250 GTTCATTTTACC
1 GGTCATTTTACC
26726262 ATTTGAGGGT
Statistics
Matches: 154, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
53 4 0.03
54 148 0.96
55 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (53 bp):
GGTCATTTTACCCTACAGGGTATTACGGTCATTTTACCCTATAGGGGTATTAC
Found at i:26728408 original size:24 final size:24
Alignment explanation
Indices: 26728380--26728428 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
26728370 GTCATATTAA
26728380 ACTAAACAGAAACACCTAATATTT
1 ACTAAACAGAAACACCTAATATTT
*
26728404 ACTAAACATAAACACCTAATATTT
1 ACTAAACAGAAACACCTAATATTT
26728428 A
1 A
26728429 AACATAACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.27
Consensus pattern (24 bp):
ACTAAACAGAAACACCTAATATTT
Found at i:26728432 original size:21 final size:23
Alignment explanation
Indices: 26728382--26728435 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 23
26728372 CATATTAAAC
*
26728382 TAAACAGAAACACCTAATATTTA
1 TAAACATAAACACCTAATATTTA
26728405 CTAAACATAAACACCTAATA-TT-
1 -TAAACATAAACACCTAATATTTA
26728427 TAAACATAA
1 TAAACATAA
26728436 CATATATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 9 0.31
23 2 0.07
24 18 0.62
ACGTcount: A:0.54, C:0.19, G:0.02, T:0.26
Consensus pattern (23 bp):
TAAACATAAACACCTAATATTTA
Found at i:26731449 original size:21 final size:21
Alignment explanation
Indices: 26731425--26731466 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
26731415 CAATGCCTAG
26731425 AAGCATAAACCAATCTCTGAT
1 AAGCATAAACCAATCTCTGAT
*
26731446 AAGCATAAACCAATCTTTGAT
1 AAGCATAAACCAATCTCTGAT
26731467 TCTACTTCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (21 bp):
AAGCATAAACCAATCTCTGAT
Found at i:26736282 original size:20 final size:20
Alignment explanation
Indices: 26736249--26736293 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
26736239 TAAATTCACA
26736249 TAATTAAAACAAGACAC-AAT
1 TAATTAAAACAAGAC-CTAAT
**
26736269 TAATTAAATTAAGACCTAAT
1 TAATTAAAACAAGACCTAAT
26736289 TAATT
1 TAATT
26736294 TGGTTAGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.31
Consensus pattern (20 bp):
TAATTAAAACAAGACCTAAT
Found at i:26738522 original size:26 final size:27
Alignment explanation
Indices: 26738486--26738540 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
26738476 CACTCATTAA
26738486 TATTTAATATA-TTCTCAAATCCAATT
1 TATTTAATATATTTCTCAAATCCAATT
* *
26738512 TATTTAATATATTTCTCTAATTCAATT
1 TATTTAATATATTTCTCAAATCCAATT
26738539 TA
1 TA
26738541 ATTTTAGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (27 bp):
TATTTAATATATTTCTCAAATCCAATT
Found at i:26740060 original size:16 final size:17
Alignment explanation
Indices: 26740030--26740062 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
26740020 TCAAGTATAA
*
26740030 TTTAGATTTTTTTTATT
1 TTTAGATTTTCTTTATT
26740047 TTTAG-TTTTCTTTATT
1 TTTAGATTTTCTTTATT
26740063 GAAGTTGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTAGATTTTCTTTATT
Found at i:26740439 original size:25 final size:25
Alignment explanation
Indices: 26740405--26740456 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
26740395 GGTGCCATTG
26740405 GGGAGTACTTCAAACGGATGCATGA
1 GGGAGTACTTCAAACGGATGCATGA
26740430 GGGAGTACTTCAAACGGATGCATGA
1 GGGAGTACTTCAAACGGATGCATGA
26740455 GG
1 GG
26740457 TTGAACTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.15, G:0.35, T:0.19
Consensus pattern (25 bp):
GGGAGTACTTCAAACGGATGCATGA
Found at i:26741974 original size:19 final size:19
Alignment explanation
Indices: 26741947--26741983 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
26741937 ACCTAATTAC
*
26741947 AAAATTAATTAATGAAGAA
1 AAAAATAATTAATGAAGAA
*
26741966 AAAAATAATTAATTAAGA
1 AAAAATAATTAATGAAGA
26741984 TCAGTTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (19 bp):
AAAAATAATTAATGAAGAA
Found at i:26788756 original size:14 final size:14
Alignment explanation
Indices: 26788737--26788764 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
26788727 CCAATTTATT
26788737 AATGAATTATTAAA
1 AATGAATTATTAAA
26788751 AATGAATTATTAAA
1 AATGAATTATTAAA
26788765 TATAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:26789648 original size:3 final size:3
Alignment explanation
Indices: 26789640--26789665 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
26789630 TTTATCTTTT
26789640 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
26789666 TTTTAAGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:26796226 original size:19 final size:19
Alignment explanation
Indices: 26796202--26796240 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
26796192 AATAAATTAC
26796202 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
26796221 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
26796240 T
1 T
26796241 GTTGGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.51
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:26797211 original size:20 final size:21
Alignment explanation
Indices: 26797186--26797224 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
26797176 TGGGCAATCT
26797186 AAATGA-TTCGAATCATTTTA
1 AAATGAGTTCGAATCATTTTA
*
26797206 AAATGAGTTCGTATCATTT
1 AAATGAGTTCGAATCATTT
26797225 GGTATCAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (21 bp):
AAATGAGTTCGAATCATTTTA
Found at i:26799495 original size:19 final size:19
Alignment explanation
Indices: 26799461--26799497 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
26799451 GCAAAAAAGT
26799461 AATAAAAATTATTTAAAAC
1 AATAAAAATTATTTAAAAC
26799480 AATAACAAATTA-TTAAAA
1 AATAA-AAATTATTTAAAA
26799498 ATTTTAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
AATAAAAATTATTTAAAAC
Found at i:26799498 original size:20 final size:19
Alignment explanation
Indices: 26799461--26799498 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
26799451 GCAAAAAAGT
*
26799461 AATAAAAATTATTTAAAAC
1 AATAAAAATTATTAAAAAC
26799480 AATAACAAATTATTAAAAA
1 AATAA-AAATTATTAAAAA
26799499 TTTTAGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (19 bp):
AATAAAAATTATTAAAAAC
Found at i:26799927 original size:20 final size:20
Alignment explanation
Indices: 26799904--26799945 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
26799894 ATTTTAAAAA
26799904 TTAAAAATCATTAAAAT-TAT
1 TTAAAAATCA-TAAAATATAT
*
26799924 TTAAAAATTATAAAATATAT
1 TTAAAAATCATAAAATATAT
26799944 TT
1 TT
26799946 TTTAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAAAAATCATAAAATATAT
Found at i:26801255 original size:27 final size:27
Alignment explanation
Indices: 26801225--26801292 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
26801215 CCCCAGTCCA
* * *
26801225 TTTGGCGAGCTAGGGTTTGCCAGTCTG
1 TTTGGCGAACTAGGGTTCGCCAGTATG
* * *
26801252 TTTGGTGATCTAGTGTTCGCCAGTATG
1 TTTGGCGAACTAGGGTTCGCCAGTATG
*
26801279 TTTGACGAACTAGG
1 TTTGGCGAACTAGG
26801293 TTTCTCCAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.35
Consensus pattern (27 bp):
TTTGGCGAACTAGGGTTCGCCAGTATG
Found at i:26803862 original size:51 final size:50
Alignment explanation
Indices: 26803744--26803942 Score: 179
Period size: 51 Copynumber: 3.9 Consensus size: 50
26803734 AAATGATACC
* ** *
26803744 CGGTTCACATAGTAGCCTGCACATAGTACTACACATC-TGACCATTTTCA-TC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACA-CGTGACCA--AGCATTT
* * * * * *
26803795 CGATATACGTAATAGCCTACACATAGTACTACACACGTGATCGAAGC-TATT
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAAGCAT-TT
* * * * *
26803846 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTT
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGCATTT
* *
26803896 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTAGCA
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGCA
26803943 ACTTCACTCG
Statistics
Matches: 117, Mismatches: 26, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
50 49 0.42
51 66 0.56
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGCATTT
Found at i:26803932 original size:101 final size:101
Alignment explanation
Indices: 26803751--26803935 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 101
26803741 ACCCGGTTCA
* *
26803751 CATAGTAGCCTGCACATAGTACTACACATCTGACCATTTTCATCCGATATACGTAATAGCCTACA
1 CATAGTAGCCTGCACATAGTACTACACATCTGACCA-TATCATCCGATACACGTAATAGCCTACA
26803816 CATAGTACTACACACGTGATCGAAGCTATTCGGTACG
65 CATAGTACTACACACGTGATCGAAGCTATTCGGTACG
* * * *
26803853 CATAGTAGCCTGCACATAGTACTACACATGC-GACC-TATCATTTCGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACAT-CTGACCATATCA-TCCGATACACGTAATAGCCTAC
26803916 ACATAGTACTACACACGTGA
64 ACATAGTACTACACACGTGA
26803936 CCTAGCAACT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
100 4 0.05
101 37 0.49
102 33 0.44
103 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATCTGACCATATCATCCGATACACGTAATAGCCTACAC
ATAGTACTACACACGTGATCGAAGCTATTCGGTACG
Found at i:26804120 original size:16 final size:16
Alignment explanation
Indices: 26804095--26804126 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
26804085 ATCCAGTCAA
26804095 AAAATCACATTTTTGC
1 AAAATCACATTTTTGC
*
26804111 AAAATTACATTTTTGC
1 AAAATCACATTTTTGC
26804127 CCCTAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.41
Consensus pattern (16 bp):
AAAATCACATTTTTGC
Found at i:26805240 original size:42 final size:42
Alignment explanation
Indices: 26805194--26805302 Score: 146
Period size: 42 Copynumber: 2.6 Consensus size: 42
26805184 TGTATCGGCG
*
26805194 AAGCTCCCCATGTGAGCTTAAGTGAAAAGCTGTGTATCAATA
1 AAGCTCCCCATATGAGCTTAAGTGAAAAGCTGTGTATCAATA
* * * * *
26805236 AAGCTCTCAATATGAGCTTAAGTGACAAGCTGTGTATCAGTG
1 AAGCTCCCCATATGAGCTTAAGTGAAAAGCTGTGTATCAATA
* *
26805278 AAGCTCCCCATACGAGTTTAAGTGA
1 AAGCTCCCCATATGAGCTTAAGTGA
26805303 TTATGCTCCT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (42 bp):
AAGCTCCCCATATGAGCTTAAGTGAAAAGCTGTGTATCAATA
Found at i:26807115 original size:40 final size:40
Alignment explanation
Indices: 26807020--26807128 Score: 110
Period size: 40 Copynumber: 2.7 Consensus size: 40
26807010 TGAACAAGCA
* * *
26807020 ACCAATAATGCAGACAAGCTGCCAGTAATGCAGGTAAACT
1 ACCAGTAATGCAGACAAGCTACCAGTAATGCAGATAAACT
* ** * * * *
26807060 GCCAGTAGCGTAGACAAGGTACCAGTAATGTATATAAACT
1 ACCAGTAATGCAGACAAGCTACCAGTAATGCAGATAAACT
* *
26807100 ACTAGTAATGCAGACAAGCTACAAGTAAT
1 ACCAGTAATGCAGACAAGCTACCAGTAAT
26807129 ATAGAGAAGT
Statistics
Matches: 52, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (40 bp):
ACCAGTAATGCAGACAAGCTACCAGTAATGCAGATAAACT
Found at i:26807121 original size:20 final size:20
Alignment explanation
Indices: 26807013--26807128 Score: 79
Period size: 20 Copynumber: 5.8 Consensus size: 20
26807003 CAATTTGTGA
* *
26807013 ACAAGCAACCAATAATGCAG
1 ACAAGCTACCAGTAATGCAG
*
26807033 ACAAGCTGCCAGTAATGCAG
1 ACAAGCTACCAGTAATGCAG
** * * ** *
26807053 GTAAACTGCCAGTAGCGTAG
1 ACAAGCTACCAGTAATGCAG
* * *
26807073 ACAAGGTACCAGTAATGTAT
1 ACAAGCTACCAGTAATGCAG
* * *
26807093 ATAAACTACTAGTAATGCAG
1 ACAAGCTACCAGTAATGCAG
*
26807113 ACAAGCTACAAGTAAT
1 ACAAGCTACCAGTAAT
26807129 ATAGAGAAGT
Statistics
Matches: 70, Mismatches: 26, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (20 bp):
ACAAGCTACCAGTAATGCAG
Found at i:26809962 original size:41 final size:40
Alignment explanation
Indices: 26809916--26810045 Score: 147
Period size: 41 Copynumber: 3.2 Consensus size: 40
26809906 AAATCAATCA
* *
26809916 TTAGCGGTGCTTTTATAAAAGCGCCACAAATGCTCAGGGTT
1 TTAGCGGTG-TTTTATAAAAGCGCCGCTAATGCTCAGGGTT
* *
26809957 TTAGCGGTGTTTTCTAAGAAGCACCGCTAATGCTC-GGGTCT
1 TTAGCGGTGTTTTATAA-AAGCGCCGCTAATGCTCAGGGT-T
* *
26809998 TTAGCGGCGTTTT-TGAAAAAGCGCCGCTAATGCTCAGGGCT
1 TTAGCGGTGTTTTAT--AAAAGCGCCGCTAATGCTCAGGGTT
26810039 TTAGCGG
1 TTAGCGG
26810046 CGATTTTGAA
Statistics
Matches: 77, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
40 12 0.16
41 60 0.78
42 5 0.06
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (40 bp):
TTAGCGGTGTTTTATAAAAGCGCCGCTAATGCTCAGGGTT
Found at i:26810018 original size:82 final size:79
Alignment explanation
Indices: 26809932--26810106 Score: 201
Period size: 82 Copynumber: 2.2 Consensus size: 79
26809922 GTGCTTTTAT
* * * *
26809932 AAAAGCGCCACAAATGCTCAGGGTTTTAGCGGTG-TTTTCTAAGAAGCACCGCTAATGCTCGGGT
1 AAAAGCGCCACAAATGCTCAGGGCTTTAGCGGCGATTTT-GAAGAAACACCGCTAATGCTC---T
* *
26809996 CTTTAGCGGCG-TTTTTG
62 ATTTAACGGCGTTTTTTG
* * **
26810013 AAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGATTTTGAAGAAACGTCGCTAATGCTCTATT
1 -AAAAGCGCCACAAATGCTCAGGGCTTTAGCGGCGATTTTGAAGAAACACCGCTAATGCTCTATT
26810078 TAACGGCGTTTTTTG
65 TAACGGCGTTTTTTG
26810093 AAAAGCGCCACAAA
1 AAAAGCGCCACAAA
26810107 AAAAATATTT
Statistics
Matches: 79, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
79 22 0.28
80 6 0.08
82 47 0.59
83 4 0.05
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.27
Consensus pattern (79 bp):
AAAAGCGCCACAAATGCTCAGGGCTTTAGCGGCGATTTTGAAGAAACACCGCTAATGCTCTATTT
AACGGCGTTTTTTG
Found at i:26810046 original size:41 final size:41
Alignment explanation
Indices: 26809932--26810073 Score: 164
Period size: 41 Copynumber: 3.5 Consensus size: 41
26809922 GTGCTTTTAT
* * * *
26809932 AAAAGCGCCACAAATGCTCAGGGTTTTAGCGGTGTTTTCT-A
1 AAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTT-TGA
* *
26809973 AGAAGCACCGCTAATGCTC-GGGTCTTTAGCGGCGTTTTTGA
1 AAAAGCGCCGCTAATGCTCAGGG-CTTTAGCGGCGTTTTTGA
*
26810014 AAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGATTTTGA
1 AAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGA
*
26810055 AGAAA-CGTCGCTAATGCTC
1 A-AAAGCGCCGCTAATGCTC
26810074 TATTTAACGG
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
40 4 0.05
41 77 0.89
42 6 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (41 bp):
AAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGA
Found at i:26811502 original size:75 final size:75
Alignment explanation
Indices: 26811352--26811531 Score: 211
Period size: 75 Copynumber: 2.4 Consensus size: 75
26811342 GAGTACATTG
* * * ** **
26811352 AATAT-AAAGGGGTTACTAAGTGCTGATTCCCTGATTCATTGGTGGTTGCTAAGTTCTGATTCCA
1 AATATGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGATGAGCCCA
*
26811416 TAATATTTTA
66 TAATATCTTA
* *
26811426 AATATGAAGGGGGTTGCTAAGTGATGATTCCCCGAATCATTGGTGGTTGCTAAGTGATGAGCCCA
1 AATATGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGATGAGCCCA
*
26811491 CT-GTATCTTA
66 -TAATATCTTA
* * *
26811501 AATGTGAAAAGGATTGCTAAGTGCTGATTCC
1 AATATGAAAGGGGTTGCTAAGTGCTGATTCC
26811532 ACCATATTTT
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
74 5 0.06
75 82 0.93
76 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.34
Consensus pattern (75 bp):
AATATGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGATGAGCCCA
TAATATCTTA
Found at i:26811610 original size:118 final size:117
Alignment explanation
Indices: 26811397--26811611 Score: 288
Period size: 118 Copynumber: 1.8 Consensus size: 117
26811387 TCATTGGTGG
* * * * *
26811397 TTGCTAAGTTCTGATTCCATAATATTTTAAATATGAAGGGGGTTGCTAAGTGATGATTCCCCGAA
1 TTGCTAAGTGCTGATTCCACAATATTTTAAATATGAAAGGGGTTGCTAAGTGATAATTCCCCAAA
* *
26811462 TCATTGGTGGTTGCTAAGTGATGAGCCCACTGTATCTTAAATGTGAAAAGGA
66 TCACTGGTGGTTGCTAAGTGATGAACCCACTGTATCTTAAATGTGAAAAGGA
* * * *
26811514 TTGCTAAGTGCTGATTCCACCATATTTTTGAATGTGAAAGGGGTTTCTAAGT-ACTAATTCCCCA
1 TTGCTAAGTGCTGATTCCACAATA-TTTTAAATATGAAAGGGGTTGCTAAGTGA-TAATTCCCCA
* *
26811578 AATCACTGGTGGTTGCTAAGTGCTGAATCCACTG
64 AATCACTGGTGGTTGCTAAGTGATGAACCCACTG
26811612 ATAACGGATA
Statistics
Matches: 83, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
117 22 0.27
118 61 0.73
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (117 bp):
TTGCTAAGTGCTGATTCCACAATATTTTAAATATGAAAGGGGTTGCTAAGTGATAATTCCCCAAA
TCACTGGTGGTTGCTAAGTGATGAACCCACTGTATCTTAAATGTGAAAAGGA
Found at i:26818980 original size:102 final size:102
Alignment explanation
Indices: 26818804--26819005 Score: 332
Period size: 102 Copynumber: 2.0 Consensus size: 102
26818794 ATTGAATATA
* * * *
26818804 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGTTAAGTGCTGATTCCATAGTATT
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACAGTATC
*
26818869 TTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCC
* **
26818906 AAGGGGTTGCTAAGTGTTGATTCCTCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCTTATC
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACAGTATC
26818971 TTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCC
66 TTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCC
26819006 TGATTCATTG
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.35
Consensus pattern (102 bp):
AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACAGTATC
TTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:26819029 original size:75 final size:76
Alignment explanation
Indices: 26818906--26819117 Score: 320
Period size: 76 Copynumber: 2.8 Consensus size: 76
26818896 TGATTCCCCC
* *
26818906 AAGGGGTTGCTAAGTGTTGATTCCTCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCTTA-T
1 AAGGGGTTGCTAAGTGCTGATTCCTCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
26818970 CTTAAATGTGA
66 CTTAAATGTGA
*
26818981 AAGGGGTTGCTAAGTGCTGATTCC-CTGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 AAGGGGTTGCTAAGTGCTGATTCCTC-GAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
* *
26819045 TTTTGAATGTGA
65 TCTTAAATGTGA
* * * *
26819057 AAGGGGTTGCTAAGTGCTGATTCCTCGAATCACTAGTGGTTGCTAAGTGTTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCTCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCG
26819118 ATAACGGATA
Statistics
Matches: 124, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
74 1 0.01
75 58 0.47
76 64 0.52
77 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (76 bp):
AAGGGGTTGCTAAGTGCTGATTCCTCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
CTTAAATGTGA
Found at i:26820720 original size:7 final size:7
Alignment explanation
Indices: 26820619--26820730 Score: 59
Period size: 7 Copynumber: 15.7 Consensus size: 7
26820609 TTATCACATA
*
26820619 GTTTAAG
1 GTTTATG
*
26820626 GTTTTTG
1 GTTTATG
*
26820633 GTTTAGG
1 GTTTATG
*
26820640 GTATATG
1 GTTTATG
26820647 GTTTA-G
1 GTTTATG
*
26820653 AGTTTAAG
1 -GTTTATG
*
26820661 GTTTAGG
1 GTTTATG
26820668 AGTTACTAT-
1 -GTT--TATG
*
26820677 -TTTAAG
1 GTTTATG
26820683 GTTTATG
1 GTTTATG
*
26820690 GATTATGG
1 GTTTAT-G
*
26820698 GTTTAGG
1 GTTTATG
**
26820705 GGCTATG
1 GTTTATG
26820712 GTTTATG
1 GTTTATG
26820719 GTTTATG
1 GTTTATG
26820726 GTTTA
1 GTTTA
26820731 AAGGTTGGGG
Statistics
Matches: 78, Mismatches: 19, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
5 2 0.03
6 1 0.01
7 64 0.82
8 9 0.12
10 2 0.03
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (7 bp):
GTTTATG
Found at i:26821537 original size:13 final size:15
Alignment explanation
Indices: 26821509--26821540 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
26821499 CTCGTATTAT
26821509 TATTAATTTAATATA
1 TATTAATTTAATATA
26821524 TATTAA-TT-ATATA
1 TATTAATTTAATATA
26821537 TATT
1 TATT
26821541 TTTCATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 2 0.12
15 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTAATTTAATATA
Found at i:26826486 original size:21 final size:21
Alignment explanation
Indices: 26826462--26826523 Score: 69
Period size: 17 Copynumber: 3.1 Consensus size: 21
26826452 TATTGGAAGC
26826462 TTAAGTTTTTATTTTGTAGCA
1 TTAAGTTTTTATTTTGTAGCA
* *
26826483 TTAAG---TT-TTCTGTAGCG
1 TTAAGTTTTTATTTTGTAGCA
26826500 TTAAGTTTTTATTTTGTATGCA
1 TTAAGTTTTTATTTTGTA-GCA
26826522 TT
1 TT
26826524 GGTGTATGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
17 13 0.41
18 2 0.06
20 2 0.06
21 11 0.34
22 4 0.12
ACGTcount: A:0.21, C:0.06, G:0.16, T:0.56
Consensus pattern (21 bp):
TTAAGTTTTTATTTTGTAGCA
Found at i:26830689 original size:43 final size:43
Alignment explanation
Indices: 26830632--26830724 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
26830622 TCTTTATTGT
* * *
26830632 GGCGTTCGTTGTAGAAGCG-TCGCTAAAGGTCATGATCTTTAGC
1 GGCGTTTGTGGTAGAAGCGCT-GCTAAAGGTCATGATCATTAGC
*
26830675 GGCGTTTGTGGTAGAAGCGCTGCTAAAGGTCTTGATCATTAGC
1 GGCGTTTGTGGTAGAAGCGCTGCTAAAGGTCATGATCATTAGC
26830718 GGCGTTT
1 GGCGTTT
26830725 AGCGGCATTG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 44 0.98
44 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.31
Consensus pattern (43 bp):
GGCGTTTGTGGTAGAAGCGCTGCTAAAGGTCATGATCATTAGC
Found at i:26832911 original size:76 final size:76
Alignment explanation
Indices: 26832815--26832968 Score: 263
Period size: 76 Copynumber: 2.0 Consensus size: 76
26832805 TGTTGATTTC
* * * *
26832815 TTGCTTTGACATAGTCCACTTAGAACTTGGAACTGTGAGTTCCTCGAGAATTTCTTGCAAATTTT
1 TTGCTTTGACATAGTCCACTTAGAACCTAGAACTGTAAGTTCCTCGAGAATTTCTTACAAATTTT
26832880 CAGACTCTATA
66 CAGACTCTATA
26832891 TTGCTTTGACATAGTCCACTTAGAACCTAGAACTGTAAGTTCCTCGAGAATTTCTTACAAATTTT
1 TTGCTTTGACATAGTCCACTTAGAACCTAGAACTGTAAGTTCCTCGAGAATTTCTTACAAATTTT
*
26832956 TAGACTCTATA
66 CAGACTCTATA
26832967 TT
1 TT
26832969 TCTCAACAAG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (76 bp):
TTGCTTTGACATAGTCCACTTAGAACCTAGAACTGTAAGTTCCTCGAGAATTTCTTACAAATTTT
CAGACTCTATA
Found at i:26834046 original size:22 final size:20
Alignment explanation
Indices: 26834007--26834053 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 20
26833997 AATAAAGCAG
26834007 ATAATAATTAATATATATT-
1 ATAATAATTAATATATATTA
26834026 ATAATAGATATAATTATATATTA
1 ATAATA-AT-TAA-TATATATTA
26834049 ATAAT
1 ATAAT
26834054 TATCATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 3 0.12
22 8 0.33
23 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
ATAATAATTAATATATATTA
Found at i:26834168 original size:30 final size:30
Alignment explanation
Indices: 26834113--26834171 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
26834103 TTTTTTAAAA
* *
26834113 TATTTACAAAAAGAGGCATCTAATTTTTAC
1 TATTTACAAAAAGAGGCACCAAATTTTTAC
26834143 TATTTACAAAAAGA-GCAACCAAATTTTTA
1 TATTTACAAAAAGAGGC-ACCAAATTTTTA
26834172 AAAATAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCACCAAATTTTTAC
Found at i:26856312 original size:21 final size:21
Alignment explanation
Indices: 26856286--26856326 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
26856276 AATTCAATCA
* *
26856286 GTTTTTAGATCGATTTAACTG
1 GTTTTTAGACCGATTCAACTG
26856307 GTTTTTAGACCGATTCAACT
1 GTTTTTAGACCGATTCAACT
26856327 CGTTGTTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (21 bp):
GTTTTTAGACCGATTCAACTG
Found at i:26859263 original size:85 final size:85
Alignment explanation
Indices: 26859103--26859337 Score: 321
Period size: 85 Copynumber: 2.8 Consensus size: 85
26859093 TCTGTTACTT
* * * *
26859103 GGTGGATTCAACACTTAGCAACCACC-TTAAATTCAGTGATATGGGGAATCAACACACAGCAACC
1 GGTGGAATCAACACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACC
*
26859167 GCTTTCACAATCAAAGATAC
66 CCTTTCACAATCAAAGATAC
* * *
26859187 GGTGGAATCAACACTTAGCAACCACCTTTATATTTAGTGATACGGGGAATCAGCACATAGAAACC
1 GGTGGAATCAACACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACC
*
26859252 CCTTTCACAATCAAATATAC
66 CCTTTCACAATCAAAGATAC
* * * * *
26859272 GGTGGAATCAGCACTTAGCAACCACCTTTAGAA-TCAATAATTCGGGGAATCAGCACTTAGCAAC
1 GGTGGAATCAACACTTAGCAACCACCTTTA-AATTCAGTGATACGGGGAATCAGCACATAGCAAC
26859336 CC
65 CC
26859338 ATCGGGGAAT
Statistics
Matches: 132, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
84 25 0.19
85 106 0.80
86 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.23
Consensus pattern (85 bp):
GGTGGAATCAACACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACC
CCTTTCACAATCAAAGATAC
Found at i:26859272 original size:42 final size:42
Alignment explanation
Indices: 26859145--26859337 Score: 169
Period size: 43 Copynumber: 4.5 Consensus size: 42
26859135 TCAGTGATAT
* ** * *
26859145 GGGGAATCAACACACAGCAACCGCTTTCACAATCAAA-GATAC
1 GGGGAATCAGCACTTAGCAACCCCTTT-ACAATCAAATAATAC
* * ** * *
26859187 GGTGGAATCAACACTTAGCAACCACCTTTA-TATTTAGTGATAC
1 GG-GGAATCAGCACTTAGCAACC-CCTTTACAATCAAATAATAC
* *
26859230 GGGGAATCAGCACATAGAAACCCCTTTCACAATCAAAT-ATAC
1 GGGGAATCAGCACTTAGCAACCCCTTT-ACAATCAAATAATAC
* *
26859272 GGTGGAATCAGCACTTAGCAACCACCTTTAGAATC-AATAATTC
1 GG-GGAATCAGCACTTAGCAACC-CCTTTACAATCAAATAATAC
26859315 GGGGAATCAGCACTTAGCAACCC
1 GGGGAATCAGCACTTAGCAACCC
26859338 ATCGGGGAAT
Statistics
Matches: 125, Mismatches: 18, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
41 6 0.05
42 52 0.42
43 58 0.46
44 9 0.07
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.21
Consensus pattern (42 bp):
GGGGAATCAGCACTTAGCAACCCCTTTACAATCAAATAATAC
Found at i:26859342 original size:26 final size:26
Alignment explanation
Indices: 26859313--26859363 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
26859303 AATCAATAAT
26859313 TCGGGGAATCAGCACTTAGCAACCCA
1 TCGGGGAATCAGCACTTAGCAACCCA
* *
26859339 TCGGGGAATCTGCACTTAGCGACCC
1 TCGGGGAATCAGCACTTAGCAACCC
26859364 CTTTTTATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.18
Consensus pattern (26 bp):
TCGGGGAATCAGCACTTAGCAACCCA
Found at i:26861111 original size:18 final size:17
Alignment explanation
Indices: 26861084--26861156 Score: 74
Period size: 18 Copynumber: 4.0 Consensus size: 17
26861074 AGAAATTCTT
*
26861084 TTTCTCTTTTTTTCTCAC
1 TTTCT-TTTTTTTTTCAC
*
26861102 TTTCTTTTTTTCTTTCAA
1 TTTCTTTTTTT-TTTCAC
26861120 TTTCTTTTTCTTTTTCATC
1 TTTCTTTTT-TTTTTCA-C
*
26861139 TTTCTTTTCTTTTCTCAC
1 TTTCTTTT-TTTTTTCAC
26861157 ACACTCTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
17 6 0.13
18 24 0.51
19 16 0.34
20 1 0.02
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTCTTTTTTTTTTCAC
Found at i:26861116 original size:12 final size:12
Alignment explanation
Indices: 26861079--26861146 Score: 66
Period size: 12 Copynumber: 5.6 Consensus size: 12
26861069 CTTTTAGAAA
26861079 TTCTTTTTCTCT
1 TTCTTTTTCTCT
*
26861091 TT-TTTTCTCACT
1 TTCTTTT-TCTCT
*
26861103 TTCTTTTTTTCT
1 TTCTTTTTCTCT
** *
26861115 TTCAATTTCTTT
1 TTCTTTTTCTCT
26861127 TTCTTTTTCATCT
1 TTCTTTTTC-TCT
26861140 TTCTTTT
1 TTCTTTT
26861147 CTTTTCTCAC
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
11 4 0.09
12 26 0.60
13 13 0.30
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.74
Consensus pattern (12 bp):
TTCTTTTTCTCT
Found at i:26864136 original size:22 final size:21
Alignment explanation
Indices: 26864088--26864136 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
26864078 TCCATGTCAG
*
26864088 ATAAAACAATTAAATTCAATA
1 ATAAAACAATTAAATACAATA
* *
26864109 ACTAAAATAATTAAAATAGAATA
1 A-TAAAACAATT-AAATACAATA
26864132 ATAAA
1 ATAAA
26864137 TATACGATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 13 0.57
23 9 0.39
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (21 bp):
ATAAAACAATTAAATACAATA
Found at i:26868374 original size:28 final size:28
Alignment explanation
Indices: 26868334--26868453 Score: 165
Period size: 28 Copynumber: 4.3 Consensus size: 28
26868324 ACTGTACTGG
26868334 TTACTG-TATTGGGCTAAGGCCCACACTA
1 TTACTGTTA-TGGGCTAAGGCCCACACTA
26868362 TTACTGTTATGGGCTAAGGCCCACACTA
1 TTACTGTTATGGGCTAAGGCCCACACTA
*
26868390 TTACTGTTATGGGCTAAGGCCCACATTA
1 TTACTGTTATGGGCTAAGGCCCACACTA
* *
26868418 TTACTCTTTTAGGG-TAAGGCCCACACT-
1 TTACTGTTAT-GGGCTAAGGCCCACACTA
*
26868445 GTACTGTTA
1 TTACTGTTA
26868454 CTGTATAGGG
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
27 6 0.07
28 72 0.87
29 5 0.06
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (28 bp):
TTACTGTTATGGGCTAAGGCCCACACTA
Found at i:26873670 original size:50 final size:50
Alignment explanation
Indices: 26873553--26873787 Score: 229
Period size: 50 Copynumber: 4.6 Consensus size: 50
26873543 CCATGTCAAA
* ** * * * *
26873553 GCCATGTCCCAGACAAGGTCTTACATGGGATGTTTCTTGT-ACTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
* * * ** *
26873602 GCCATATCCCATATATGGTCTTACATGGGAGTTCTCATATCAGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
** * * * *
26873652 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGTCAAA
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
*
26873702 GCCATGCCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC-A-G-TGCCAAT
26873758 GCCATGTCCCAGACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
26873788 TCTTTTTACC
Statistics
Matches: 148, Mismatches: 31, Indels: 7
0.80 0.17 0.04
Matches are distributed among these distances:
49 31 0.21
50 80 0.54
53 2 0.01
55 1 0.01
56 34 0.23
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAAT
Found at i:26880942 original size:50 final size:50
Alignment explanation
Indices: 26880870--26881008 Score: 152
Period size: 50 Copynumber: 2.8 Consensus size: 50
26880860 CTTGTACTGA
* * * * *
26880870 CAATGCCATATCCCAGATATGGTCTTACATAGGAGTTCTCATATCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATAGGACTTCTCACACCGGTGC
* * ** * *
26880920 CCATGCCATGTCCTAGACATGGTCTTACGGAGGACCTCTCACCCCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATAGGACTTCTCACACCGGTGC
* * *
26880970 CAACGCCATGTCCCAGACATGGTCTTACATGGGATTTCT
1 CAATGCCATGTCCCAGACATGGTCTTACATAGGACTTCT
26881009 TTACCCAAAT
Statistics
Matches: 70, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
CAATGCCATGTCCCAGACATGGTCTTACATAGGACTTCTCACACCGGTGC
Found at i:26885036 original size:13 final size:13
Alignment explanation
Indices: 26885020--26885054 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
26885010 AGTACAGAAA
26885020 AAAAGAAATTATG
1 AAAAGAAATTATG
*
26885033 AAAAGAAAATATG
1 AAAAGAAATTATG
*
26885046 AAAAAAAAT
1 AAAAGAAAT
26885055 ATCCTATGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (13 bp):
AAAAGAAATTATG
Found at i:26887026 original size:21 final size:22
Alignment explanation
Indices: 26886990--26887037 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
26886980 GAGGAACTGT
26886990 AGTGCAAATATAGAGGCACCAA
1 AGTGCAAATATAGAGGCACCAA
* *
26887012 AGTGC-AATTTAGAGGCACCAG
1 AGTGCAAATATAGAGGCACCAA
26887033 AGTGC
1 AGTGC
26887038 GATCCTGAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.38, C:0.19, G:0.27, T:0.17
Consensus pattern (22 bp):
AGTGCAAATATAGAGGCACCAA
Found at i:26890975 original size:25 final size:25
Alignment explanation
Indices: 26890921--26890968 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
26890911 GCAGGCCCAT
* * *
26890921 ATTCACAGCTCGTGTGAGTATTCTG
1 ATTCACAGCTCCTGTGAGCATACTG
26890946 ATTCACAGCTCCTGTGAGCATAC
1 ATTCACAGCTCCTGTGAGCATAC
26890969 ATGTTCAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (25 bp):
ATTCACAGCTCCTGTGAGCATACTG
Found at i:26893741 original size:15 final size:16
Alignment explanation
Indices: 26893703--26893743 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
26893693 TGATTTTTGG
26893703 ATTAAA-TTGAATAGA
1 ATTAAATTTGAATAGA
26893718 ATTAAATTTGAAT-GA
1 ATTAAATTTGAATAGA
*
26893733 GTTAAATTTGA
1 ATTAAATTTGA
26893744 TTATATAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.39
Consensus pattern (16 bp):
ATTAAATTTGAATAGA
Found at i:26897830 original size:18 final size:18
Alignment explanation
Indices: 26897802--26897841 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
26897792 TAAAGGTTAT
*
26897802 TAAAGTAAATTAGT-AAA
1 TAAAGTAAATTAATAAAA
26897819 TAAAGATAAATTAATAAAA
1 TAAAG-TAAATTAATAAAA
26897838 TAAA
1 TAAA
26897842 ATATGGCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 8 0.40
19 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (18 bp):
TAAAGTAAATTAATAAAA
Found at i:26898922 original size:32 final size:32
Alignment explanation
Indices: 26898881--26898947 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
26898871 GTGTTAGCAC
26898881 ATAGTGTGTGAGACTCCCAAGTATCCGATATT
1 ATAGTGTGTGAGACTCCCAAGTATCCGATATT
* *
26898913 ATAGTGTGTGAGATTCCTAAGTATCCGATATT
1 ATAGTGTGTGAGACTCCCAAGTATCCGATATT
26898945 ATA
1 ATA
26898948 CTAATGGTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (32 bp):
ATAGTGTGTGAGACTCCCAAGTATCCGATATT
Found at i:26907869 original size:19 final size:19
Alignment explanation
Indices: 26907845--26907881 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
26907835 AGCTGTCTCC
26907845 AATTTCCACACGGCCTGGG
1 AATTTCCACACGGCCTGGG
*
26907864 AATTTCCACACGGGCTGG
1 AATTTCCACACGGCCTGG
26907882 CCTCAAGCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.30, G:0.27, T:0.22
Consensus pattern (19 bp):
AATTTCCACACGGCCTGGG
Found at i:26907922 original size:30 final size:30
Alignment explanation
Indices: 26907868--26907926 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
26907858 CCTGGGAATT
*
26907868 TCCACACGGGCTGGCCTCAAGCCCGTGTGA
1 TCCACACGGGCTGGCCACAAGCCCGTGTGA
* **
26907898 TCCACATGGGCTGGCCACTCGCCCGTGTG
1 TCCACACGGGCTGGCCACAAGCCCGTGTG
26907927 CCAGCTCATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.14, C:0.37, G:0.31, T:0.19
Consensus pattern (30 bp):
TCCACACGGGCTGGCCACAAGCCCGTGTGA
Found at i:26908942 original size:17 final size:17
Alignment explanation
Indices: 26908905--26908942 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
26908895 ATTTAGCCAT
*
26908905 TTTTATTTTTATTATAT
1 TTTTATTTTTATTATAG
26908922 TTTTATTTTTAGTT-TAG
1 TTTTATTTTTA-TTATAG
26908939 TTTT
1 TTTT
26908943 TGCATTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTATTATAG
Found at i:26914348 original size:6 final size:6
Alignment explanation
Indices: 26914339--26914372 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
26914329 CCCCTCGCCC
*
26914339 TTCCCT TTCCC- TTCCCT TTCCCT TTCTCT TTCCC
1 TTCCCT TTCCCT TTCCCT TTCCCT TTCCCT TTCCC
26914373 CCACAACCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
TTCCCT
Found at i:26914371 original size:12 final size:11
Alignment explanation
Indices: 26914336--26914372 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
26914326 TTCCCCCTCG
26914336 CCCTTCCCTTT
1 CCCTTCCCTTT
26914347 CCCTTCCCTTT
1 CCCTTCCCTTT
*
26914358 CCCTTTCTCTTT
1 CCC-TTCCCTTT
26914370 CCC
1 CCC
26914373 CCACAACCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CCCTTCCCTTT
Found at i:26920681 original size:27 final size:27
Alignment explanation
Indices: 26920643--26920730 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
26920633 ATTTGTGGGC
* *
26920643 AAATGACTGAAATACCCTGGATGGTTA
1 AAATGACCGAAATACCCTGGATGGGTA
26920670 AAATGACCGAAATACCCTGGATGGGTA
1 AAATGACCGAAATACCCTGGATGGGTA
**
26920697 AAATGACCGAAATACCC-CCATAGGGTA
1 AAATGACCGAAATACCCTGGAT-GGGTA
26920724 AAATGAC
1 AAATGAC
26920731 TATTACAACT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
26 2 0.04
27 54 0.96
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCTGGATGGGTA
Found at i:26920950 original size:26 final size:26
Alignment explanation
Indices: 26920907--26920958 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
26920897 TTGCCACATA
* *
26920907 TACTGTTACTAGCGGCTTTGCTGCGT
1 TACTGTTACTAGCAGCTTTGCCGCGT
* *
26920933 TACTGTTACTGGTAGCTTTGCCGCGT
1 TACTGTTACTAGCAGCTTTGCCGCGT
26920959 CATTATTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.12, C:0.23, G:0.27, T:0.38
Consensus pattern (26 bp):
TACTGTTACTAGCAGCTTTGCCGCGT
Found at i:26921129 original size:28 final size:28
Alignment explanation
Indices: 26921089--26921182 Score: 125
Period size: 28 Copynumber: 3.4 Consensus size: 28
26921079 ACTGCATTGT
*
26921089 ACTGTTACTGTATTGGGTTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
26921117 ACTGTTACTGTATTGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
* * * * *
26921145 ACTGTTGCTATATAGGGCTCAGGCCCAG
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
*
26921173 ACTGCTACTG
1 ACTGTTACTG
26921183 CATGTTGTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:26925837 original size:23 final size:23
Alignment explanation
Indices: 26925788--26925838 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
26925778 ACCTACTTTC
* * * * *
26925788 TTACTGTAGTAATTTTTGGGGTT
1 TTACAGTAGTAATTTTCGAGATA
26925811 TTACAGTAGTAATTTTCGAGATA
1 TTACAGTAGTAATTTTCGAGATA
26925834 TTACA
1 TTACA
26925839 TTTCTCTCCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGAGATA
Found at i:26927452 original size:50 final size:50
Alignment explanation
Indices: 26927325--26927657 Score: 357
Period size: 50 Copynumber: 6.7 Consensus size: 50
26927315 GATAATAACA
* * ** * * *
26927325 TGCCAAAGCCATGTCCGAGACATGGTCTTACATGAGATGTTTCCTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCT-CGG
* * * * * * ** *
26927374 TGCTAATGCCATATCCTAGATATGGTCTTACATGTGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
* * * * * *
26927424 TGCCCATGCCATGTCCCAGACACGGTCTTACGA-GGGACCTCTGATCCCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTAC-ATGAGACCTCTCATCTCGG
*
26927474 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
* * *
26927524 TGCCAACGCCATGTCGCAGACATGGTCTTACATGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
* * *
26927574 TGCCAACACCATGTCCTAGACATGGTCTTACATGAAACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
*
26927624 TGCCAACGACATGTCCCAGACATGGTCTTACATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
26927658 GAACATGGAA
Statistics
Matches: 239, Mismatches: 41, Indels: 7
0.83 0.14 0.02
Matches are distributed among these distances:
48 1 0.00
49 37 0.15
50 200 0.84
51 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
Found at i:26927843 original size:50 final size:50
Alignment explanation
Indices: 26927768--26928003 Score: 373
Period size: 50 Copynumber: 4.6 Consensus size: 50
26927758 NNNNNNNNNN
26927768 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
26927818 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* *
26927868 CCAACACCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* *
26927918 CCAACGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GGTG
*
26927974 CCAATGCCATGTCCCAGACATGGTCTTACA
1 CCAACGCCATGTCCCAGACATGGTCTTACA
26928004 CTGGCTCACA
Statistics
Matches: 172, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
50 136 0.79
53 5 0.03
56 31 0.18
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
Found at i:26930781 original size:12 final size:12
Alignment explanation
Indices: 26930764--26930791 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
26930754 TTTTCCAGAA
26930764 AACATTATATCG
1 AACATTATATCG
26930776 AACATTATATCG
1 AACATTATATCG
26930788 AACA
1 AACA
26930792 CACAAACGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (12 bp):
AACATTATATCG
Found at i:26931521 original size:18 final size:18
Alignment explanation
Indices: 26931500--26931568 Score: 102
Period size: 18 Copynumber: 3.8 Consensus size: 18
26931490 AGGAATGAAG
26931500 GAAGGGAGAAGAATGGAT
1 GAAGGGAGAAGAATGGAT
*** *
26931518 GAAGGGAGCTTACTGGAT
1 GAAGGGAGAAGAATGGAT
26931536 GAAGGGAGAAGAATGGAT
1 GAAGGGAGAAGAATGGAT
26931554 GAAGGGAGAAGAATG
1 GAAGGGAGAAGAATG
26931569 CCTGAGAGCT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.41, C:0.03, G:0.43, T:0.13
Consensus pattern (18 bp):
GAAGGGAGAAGAATGGAT
Found at i:26934684 original size:22 final size:23
Alignment explanation
Indices: 26934654--26934702 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
26934644 ACCTACTTTC
* *
26934654 TTACTGTAGTAA-TTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
26934676 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
26934699 TTAC
1 TTAC
26934703 GTGCCCCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:26939563 original size:26 final size:26
Alignment explanation
Indices: 26939531--26939607 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 26
26939521 TTGCCACATA
*
26939531 TACTGTTATTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* *
26939557 TACTGTTACTGGCAGTTTTGCTGCAT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* * * *
26939583 CATTATTACTGGCAGCTTTGTTGCG
1 TACTGTTACTGGCAGCTTTGCTGCG
26939608 ATATTGGTGT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.14, C:0.19, G:0.25, T:0.42
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCGT
Found at i:26939772 original size:28 final size:28
Alignment explanation
Indices: 26939713--26939777 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
26939703 ATTGCATTGT
* *
26939713 ACTGTTACTGTATTGGGCTAAGGCCTAC
1 ACTGTTACTGTATAGGGCTAAGGCCCAC
* * * *
26939741 ACTGTTGCTGTATAGTGCTCAGGCCCAG
1 ACTGTTACTGTATAGGGCTAAGGCCCAC
*
26939769 ACTGCTACT
1 ACTGTTACT
26939778 ACATGTTGTA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.31
Consensus pattern (28 bp):
ACTGTTACTGTATAGGGCTAAGGCCCAC
Found at i:26946767 original size:2 final size:2
Alignment explanation
Indices: 26946760--26946801 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
26946750 CTCTAAAACT
*
26946760 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TG TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
26946802 AAGTTGTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.48, G:0.02, T:0.50
Consensus pattern (2 bp):
TC
Found at i:26948390 original size:10 final size:10
Alignment explanation
Indices: 26948375--26948400 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
26948365 ATTTATTTCA
26948375 AATTTTGAAT
1 AATTTTGAAT
26948385 AATTTTGAAT
1 AATTTTGAAT
26948395 AATTTT
1 AATTTT
26948401 AAGTTATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (10 bp):
AATTTTGAAT
Found at i:26948612 original size:26 final size:26
Alignment explanation
Indices: 26948582--26948647 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
26948572 AAAATGATCT
26948582 TTGAGTTTTCTTTTTAAGAACTTATC
1 TTGAGTTTTCTTTTTAAGAACTTATC
* *
26948608 TTGAGTTTTCTTTTTAAGAATTTCTC
1 TTGAGTTTTCTTTTTAAGAACTTATC
26948634 TTGAGTTTTCTTTT
1 TTGAGTTTTCTTTT
26948648 AAAAGAGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.18, C:0.11, G:0.12, T:0.59
Consensus pattern (26 bp):
TTGAGTTTTCTTTTTAAGAACTTATC
Found at i:26949566 original size:18 final size:19
Alignment explanation
Indices: 26949528--26949566 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
26949518 CTTCTACCCA
26949528 AGATTGTTTGCATATCTAT
1 AGATTGTTTGCATATCTAT
26949547 AGATT-TTTGCTATATC-AT
1 AGATTGTTTGC-ATATCTAT
26949565 AG
1 AG
26949567 TTTCTTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.46
Consensus pattern (19 bp):
AGATTGTTTGCATATCTAT
Found at i:26954049 original size:25 final size:25
Alignment explanation
Indices: 26954000--26954066 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
26953990 AACTGTCTTT
* **
26954000 GATAGTATATCCTGAAACTGTTATA
1 GATAGTATATACTGAAACTACTATA
* *
26954025 GGTAGTATATACTGAGACTACTATA
1 GATAGTATATACTGAAACTACTATA
26954050 GATAG-ACTATACTGAAA
1 GATAGTA-TATACTGAAA
26954067 ACACTTAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
24 1 0.03
25 33 0.97
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (25 bp):
GATAGTATATACTGAAACTACTATA
Found at i:26968662 original size:42 final size:40
Alignment explanation
Indices: 26968596--26968677 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 40
26968586 TAACCTAATT
*
26968596 GGGAAAATAATTCTTATTCTAATAAACTACTAAAAGATAA
1 GGGAAAATAATTCTTATTCTAATAAACTACTAAAAAATAA
*
26968636 GGGAAAATAATTCCCTTATTCTAATAAATTACTAAAAAATAA
1 GGGAAAATAATT--CTTATTCTAATAAACTACTAAAAAATAA
26968678 AATAAAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 12 0.32
42 26 0.68
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (40 bp):
GGGAAAATAATTCTTATTCTAATAAACTACTAAAAAATAA
Found at i:26970095 original size:29 final size:29
Alignment explanation
Indices: 26970049--26970380 Score: 403
Period size: 29 Copynumber: 11.4 Consensus size: 29
26970039 AAAGGTCGAA
* * *
26970049 ACCATCCCTTTACGTATTCGATGGTTGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
26970078 ACCATCCCTTTTCATATTCGATGGTCATC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * *
26970107 ACCTTTCCTTTTCATATTTGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
26970136 ACCATCCCTTTTCATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* *
26970165 ACCATCCCTTTTCATATTCGATGGTTGTT
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * **
26970194 ACCATCCCTTTGCATATTCGATAGTCGAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* *
26970223 ACCATCCCTTTTCTTATTCGATGGTCATC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * **
26970252 ACCATCCCTTTCCATATTTGATGGTCGAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * *
26970281 ACCATCCCTTTTCTTATTCAATGGTTGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * *
26970310 ACTATCCCTTCTCATATTTGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* **
26970339 ACCATCCCTTTTCATATTCAATGGTCGAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
26970368 ACCATTCCTTTTC
1 ACCATCCCTTTTC
26970381 TTTAATCGAT
Statistics
Matches: 253, Mismatches: 50, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 253 1.00
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.40
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGTCGTC
Found at i:26980505 original size:30 final size:32
Alignment explanation
Indices: 26980471--26980530 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
26980461 TTCTAACACT
*
26980471 ACGTTTTCGTAACTCA-AT-TTTTAAATTAGC
1 ACGTTTTCGTAAATCATATGTTTTAAATTAGC
* *
26980501 ACGTTTTTGTAAATCATTTGTTTTAAATTA
1 ACGTTTTCGTAAATCATATGTTTTAAATTA
26980531 AGCTTCCACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 14 0.56
31 1 0.04
32 10 0.40
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (32 bp):
ACGTTTTCGTAAATCATATGTTTTAAATTAGC
Found at i:26988513 original size:21 final size:21
Alignment explanation
Indices: 26988487--26988573 Score: 61
Period size: 21 Copynumber: 4.1 Consensus size: 21
26988477 GAGGGGAGAG
26988487 CACAACGAGGTCGTTCACCTC
1 CACAACGAGGTCGTTCACCTC
* ***
26988508 CACAACGAGCTCGCTT-AGAAC
1 CACAACGAGGTCG-TTCACCTC
* * *
26988529 CACAACAAGGACGTTTACCTC
1 CACAACGAGGTCGTTCACCTC
* *
26988550 CACAATGAGG-CTATTCACCTC
1 CACAACGAGGTC-GTTCACCTC
26988571 CAC
1 CAC
26988574 CTCGAGACTG
Statistics
Matches: 49, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
20 3 0.06
21 44 0.90
22 2 0.04
ACGTcount: A:0.30, C:0.36, G:0.16, T:0.18
Consensus pattern (21 bp):
CACAACGAGGTCGTTCACCTC
Found at i:26993305 original size:19 final size:19
Alignment explanation
Indices: 26993281--26993317 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
26993271 GTTTTATTTG
26993281 TTAAATGCATCTTTGTTTT
1 TTAAATGCATCTTTGTTTT
26993300 TTAAATGCATCTTTGTTT
1 TTAAATGCATCTTTGTTT
26993318 AATGATCTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.57
Consensus pattern (19 bp):
TTAAATGCATCTTTGTTTT
Found at i:26994885 original size:21 final size:21
Alignment explanation
Indices: 26994861--26994903 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
26994851 TTTTTAATTC
**
26994861 CATGTGTGAACATGTTTATGG
1 CATGTGTGAACATCATTATGG
26994882 CATGTGTGAACATCATTATGG
1 CATGTGTGAACATCATTATGG
26994903 C
1 C
26994904 TTCATGTGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (21 bp):
CATGTGTGAACATCATTATGG
Found at i:26996223 original size:20 final size:21
Alignment explanation
Indices: 26996194--26996238 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
26996184 TTTTATTAAT
26996194 TAAAAAGTTAAT-AAATAAAA
1 TAAAAAGTTAATAAAATAAAA
*
26996214 TAAAAGGTTAATAAAATAAAA
1 TAAAAAGTTAATAAAATAAAA
26996235 -AAAA
1 TAAAA
26996239 CATAATGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (21 bp):
TAAAAAGTTAATAAAATAAAA
Found at i:26997011 original size:30 final size:30
Alignment explanation
Indices: 26996954--26997025 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 30
26996944 TCTAGCATCC
*
26996954 CCATTCAGCTCCCTAAATACATGCATGCCT
1 CCATTCAGCTCCCTAAACACATGCATGCCT
* * * * *
26996984 CCATTTAGCTCCTTAAACATATTCATGCAT
1 CCATTCAGCTCCCTAAACACATGCATGCCT
**
26997014 TAATTCAGCTCC
1 CCATTCAGCTCC
26997026 ATATGCCCAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (30 bp):
CCATTCAGCTCCCTAAACACATGCATGCCT
Found at i:27001983 original size:30 final size:30
Alignment explanation
Indices: 27001926--27001983 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
27001916 TCTAGCATCC
* *
27001926 CCATTTAGCTCCCTAAATACATGCATGCCT
1 CCATTCAGCTCCCTAAACACATGCATGCCT
* * *
27001956 CCATTCAGCTCCTTAAACATATTCATGC
1 CCATTCAGCTCCCTAAACACATGCATGC
27001984 ATTAATTCAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.33, G:0.09, T:0.31
Consensus pattern (30 bp):
CCATTCAGCTCCCTAAACACATGCATGCCT
Found at i:27005581 original size:39 final size:39
Alignment explanation
Indices: 27005509--27005616 Score: 120
Period size: 39 Copynumber: 2.8 Consensus size: 39
27005499 AGAGTTTGAA
*
27005509 AGAAGAAGA-AAAGAAATCGAAAAAG---AAGAGCGTGAT
1 AGAA-AAGAGAAAGAAATCGAAAAAGAAAAAGAGCGTGAG
* *
27005545 AGAAAA-A-AAATTGAACTTGAAAAAGAAAAAGAGCGTGAG
1 AGAAAAGAGAAA--GAAATCGAAAAAGAAAAAGAGCGTGAG
27005584 AGAAAAGAGAAAGAAATCGAAAAAGAAAAAGAG
1 AGAAAAGAGAAAGAAATCGAAAAAGAAAAAGAG
27005617 GTTGTGAGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
34 4 0.07
35 2 0.03
36 15 0.25
39 35 0.58
40 1 0.02
41 3 0.05
ACGTcount: A:0.62, C:0.05, G:0.25, T:0.08
Consensus pattern (39 bp):
AGAAAAGAGAAAGAAATCGAAAAAGAAAAAGAGCGTGAG
Found at i:27012582 original size:27 final size:27
Alignment explanation
Indices: 27012503--27012576 Score: 103
Period size: 28 Copynumber: 2.7 Consensus size: 27
27012493 AATAGTAATT
* * *
27012503 TACCCTTTGGGAGTATTTCGGTCATTT
1 TACCCTATGGGGGTATTTCGGTCATTC
*
27012530 TACCCTATAAGGGGTATTTCGGTCATTC
1 TACCCTAT-GGGGGTATTTCGGTCATTC
27012558 TACCCTATGGGGGTATTTC
1 TACCCTATGGGGGTATTTC
27012577 AATCATACCA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
27 17 0.41
28 24 0.59
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (27 bp):
TACCCTATGGGGGTATTTCGGTCATTC
Found at i:27015501 original size:24 final size:24
Alignment explanation
Indices: 27015474--27015520 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
27015464 GGGTATTTCA
*
27015474 GTCATTTTACCCTATGGGGGTATG
1 GTCATTTTAACCTATGGGGGTATG
27015498 GTCATTTTAACCTATGGGGGTAT
1 GTCATTTTAACCTATGGGGGTAT
27015521 TCGATTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.15, G:0.28, T:0.38
Consensus pattern (24 bp):
GTCATTTTAACCTATGGGGGTATG
Found at i:27015531 original size:23 final size:23
Alignment explanation
Indices: 27015474--27015531 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
27015464 GGGTATTTCA
* *
27015474 GTCATTTTACCCTATGGGGGTAT
1 GTCATTATAACCTATGGGGGTAT
*
27015497 GGTCATTTTAACCTATGGGGGTAT
1 -GTCATTATAACCTATGGGGGTAT
27015521 -TCGATTATAAC
1 GTC-ATTATAAC
27015532 AATGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 2 0.06
23 7 0.23
24 22 0.71
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (23 bp):
GTCATTATAACCTATGGGGGTAT
Found at i:27029919 original size:41 final size:41
Alignment explanation
Indices: 27029874--27029978 Score: 129
Period size: 41 Copynumber: 2.6 Consensus size: 41
27029864 GCTTATTAAA
* * *
27029874 ATACACTGGCATAAATCCTTCTAGGCACAAAGCCAGATATG
1 ATACACCGGCATAAAGCCTGCTAGGCACAAAGCCAGATATG
** * *
27029915 ATACACCGGCACGAAGCCTGCTAGGCATAAAGCCTGATATG
1 ATACACCGGCATAAAGCCTGCTAGGCACAAAGCCAGATATG
* *
27029956 GTACACCGGCATTAAGCCTGCTA
1 ATACACCGGCATAAAGCCTGCTA
27029979 TAATTCACCA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (41 bp):
ATACACCGGCATAAAGCCTGCTAGGCACAAAGCCAGATATG
Found at i:27032055 original size:101 final size:102
Alignment explanation
Indices: 27031939--27032123 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
27031929 AAAGTGATGG
* *
27031939 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
27032002 ACTATGTACAGGCTACTATGAGTACCAGATAGCTTTGA
65 ACTATGTACAGGCTACTATGAGTACCAGATAGCTTTGA
* *
27032040 TCACGTATGTAGTACTATGTGCAGGCTACTATGTGTATCAGATAGTGATGGTCACATGTGTAGTA
1 TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
*
27032105 CTATGTGCAGGCTACTATG
66 CTATGTACAGGCTACTATG
27032124 TGAACCGGTA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
101 39 0.51
102 34 0.44
103 4 0.05
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACGTATGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTACAGGCTACTATGAGTACCAGATAGCTTTGA
Found at i:27032065 original size:51 final size:50
Alignment explanation
Indices: 27031936--27032125 Score: 238
Period size: 51 Copynumber: 3.8 Consensus size: 50
27031926 TTGAAAGTGA
* * *
27031936 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATA-GTT
* * * *
27031986 AGGTCGCATGTGTAGTACTATGTACAGGCTACTATGAGTACCAGATAGCTT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAG-TT
* * * * *
27032037 TGATCACGTATGTAGTACTATGTGCAGGCTACTATGTGTATCAGATAGTGA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAGT-T
27032088 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
27032126 AACCGGTATC
Statistics
Matches: 118, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
50 41 0.35
51 77 0.65
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (50 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAGTT
Found at i:27032370 original size:16 final size:16
Alignment explanation
Indices: 27032349--27032380 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27032339 TGATTGAAAG
27032349 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
27032365 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
27032381 GCAACAAAAC
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:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:27033715 original size:19 final size:21
Alignment explanation
Indices: 27033680--27033740 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
27033670 TATTATATCA
*
27033680 TAATAATATAATATAAAT-TAT
1 TAATAATAT-TTATAAATATAT
27033701 T-ATAATATTTATAAATAATAT
1 TAATAATATTTATAAAT-ATAT
27033722 TAATAATA--TATAAATATAT
1 TAATAATATTTATAAATATAT
27033741 ATATGTTATC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 11 0.31
20 14 0.39
21 5 0.14
22 6 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAATAATATTTATAAATATAT
Found at i:27033742 original size:10 final size:10
Alignment explanation
Indices: 27033684--27033743 Score: 54
Period size: 10 Copynumber: 6.0 Consensus size: 10
27033674 ATATCATAAT
27033684 AATATAATATA
1 AATAT-ATATA
27033695 AAT-TAT-TA
1 AATATATATA
*
27033703 TAATATTTATA
1 -AATATATATA
*
27033714 AATA-ATATT
1 AATATATATA
27033723 AATAATATATA
1 AAT-ATATATA
27033734 AATATATATA
1 AATATATATA
27033744 TGTTATCACC
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
8 2 0.05
9 11 0.28
10 15 0.38
11 12 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
AATATATATA
Done.