Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 83 of 109
Found at i:26638794 original size:32 final size:32
Alignment explanation
Indices: 26638758--26638821 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
26638748 AGTGATGGAG
*
26638758 ACGGAGCTTTGGGGGATCTTGGATGGGTTGAA
1 ACGGAGCTTTGGGGGATCTTGGACGGGTTGAA
26638790 ACGGAGCTTTGGGGGATCTTGGACGGGTTGAA
1 ACGGAGCTTTGGGGGATCTTGGACGGGTTGAA
26638822 CCTTATTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.19, C:0.11, G:0.44, T:0.27
Consensus pattern (32 bp):
ACGGAGCTTTGGGGGATCTTGGACGGGTTGAA
Found at i:26644455 original size:43 final size:41
Alignment explanation
Indices: 26644398--26644483 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 41
26644388 CTTGATGTAT
*
26644398 AAATTTTACCCATGAAAATCCTTAATATTAATATTAAAATA
1 AAATTTTACCCATGAAAATACTTAATATTAATATTAAAATA
* *
26644439 AAATATTTACCCCATGAAAATACTTGATTTTAATATTAAAATA
1 AAAT-TTTA-CCCATGAAAATACTTAATATTAATATTAAAATA
26644482 AA
1 AA
26644484 TGACAGAGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 4 0.10
42 4 0.10
43 32 0.80
ACGTcount: A:0.49, C:0.12, G:0.03, T:0.36
Consensus pattern (41 bp):
AAATTTTACCCATGAAAATACTTAATATTAATATTAAAATA
Found at i:26645275 original size:20 final size:20
Alignment explanation
Indices: 26645213--26645281 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
26645203 ATAAAAATGG
*
26645213 TTAATTTTAAT-TTTAGTCCT
1 TTAATTTTAATCTTTA-TACT
* *
26645233 TTTATTTT-A-C-TTAAACT
1 TTAATTTTAATCTTTATACT
*
26645250 TGAATTTTAATCTTTATACT
1 TTAATTTTAATCTTTATACT
26645270 TTAATTTCTAAT
1 TTAATTT-TAAT
26645282 ATAATTTGGT
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
17 8 0.22
18 4 0.11
19 2 0.05
20 19 0.51
21 4 0.11
ACGTcount: A:0.29, C:0.10, G:0.03, T:0.58
Consensus pattern (20 bp):
TTAATTTTAATCTTTATACT
Found at i:26647187 original size:43 final size:42
Alignment explanation
Indices: 26647079--26647264 Score: 252
Period size: 42 Copynumber: 4.4 Consensus size: 42
26647069 ACGTCGCTAA
* *
26647079 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCAAAAGATCATGTT
*
26647123 CTTTAGCGGCGCTTAGGAAAAAACGCCGCAAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCAAAAGATCATGTT
*
26647165 CTTTAGCGGCGCTTAGAAAAAAACGCCACAAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCAAAAGATCATGTT
*
26647207 CTTTAGCGGCGCTTAGGAAAAAAACACCGCTAAAAG-T-AGTGTT
1 CTTTAGCGGCGCTTA-GAAAAAAACGCCGC-AAAAGATCA-TGTT
26647250 CTTTCA-CGGCGCTTA
1 CTTT-AGCGGCGCTTA
26647265 CTTCACAAAC
Statistics
Matches: 131, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
42 82 0.63
43 30 0.23
44 19 0.15
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCAAAAGATCATGTT
Found at i:26647722 original size:21 final size:21
Alignment explanation
Indices: 26647698--26647745 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
26647688 GCTTCTATCG
* *
26647698 CTGCTTCTCTCGCTGCGGCAT
1 CTGCTTCCCTCGCTGCCGCAT
*
26647719 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCCCTCGCTGCCGCAT
26647740 CTGCTT
1 CTGCTT
26647746 TAAGTTGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.02, C:0.44, G:0.21, T:0.33
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCCGCAT
Found at i:26659317 original size:74 final size:74
Alignment explanation
Indices: 26659211--26659371 Score: 200
Period size: 74 Copynumber: 2.2 Consensus size: 74
26659201 TTTTTTTAAT
** * * *
26659211 AACGCCACTAAAACTAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATA-TTTGCGGCG
1 AACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTCGTTAAGATATTTTGCGGCG
* *
26659275 TTTTATC-GTA
66 -CTTA-CAATA
* * *
26659285 AACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCTTTTTGGTTAAGGTATTTTGCGGCG
1 AACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTCGTTAAGATATTTTGCGGCG
26659350 CTTACAATA
66 CTTACAATA
26659359 AACGCCACTAATT
1 AACGCCACTAATT
26659372 ATGTTCTTTT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
73 1 0.01
74 65 0.87
75 9 0.12
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (74 bp):
AACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTCGTTAAGATATTTTGCGGCG
CTTACAATA
Found at i:26660899 original size:3 final size:3
Alignment explanation
Indices: 26660882--26660938 Score: 68
Period size: 3 Copynumber: 20.3 Consensus size: 3
26660872 TTTAGGGTTT
*
26660882 AAG AAG -AG AAA AAG AAG AA- AAG AAG AAG AAG AAG AAG AAG AAG -AG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
26660927 GAG AAG -AG AAG A
1 AAG AAG AAG AAG A
26660939 GAAAAAATGG
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
2 8 0.17
3 39 0.83
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:26660937 original size:31 final size:28
Alignment explanation
Indices: 26660882--26660938 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
26660872 TTTAGGGTTT
26660882 AAGAAGAGAAAAAGAAGAAAAGAAGAAG
1 AAGAAGAGAAAAAGAAGAAAAGAAGAAG
* * *
26660910 AAGAAGAAGAAGAAGAGGAGAAG-AGAAG
1 AAGAAG-AGAAAAAGAAGAAAAGAAGAAG
26660938 A
1 A
26660939 GAAAAAATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (28 bp):
AAGAAGAGAAAAAGAAGAAAAGAAGAAG
Found at i:26661656 original size:20 final size:20
Alignment explanation
Indices: 26661631--26661673 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
26661621 CAACGTGGCA
26661631 AGTTAACTGGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
* *
26661651 AGTTAACTTGCCACATTAGC
1 AGTTAACTGGCCACATCAGC
26661671 AGT
1 AGT
26661674 CTCGTTAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (20 bp):
AGTTAACTGGCCACATCAGC
Found at i:26663471 original size:12 final size:12
Alignment explanation
Indices: 26663417--26663471 Score: 60
Period size: 12 Copynumber: 4.7 Consensus size: 12
26663407 ATTGATCATT
26663417 TTACATATTATTA
1 TTAC-TATTATTA
*
26663430 ATACTATTA-TA
1 TTACTATTATTA
26663441 TTA-TATTATTA
1 TTACTATTATTA
* *
26663452 TAAATATTATTA
1 TTACTATTATTA
26663464 TTACTATT
1 TTACTATT
26663472 TACTCAACTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
10 5 0.14
11 8 0.23
12 19 0.54
13 3 0.09
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (12 bp):
TTACTATTATTA
Found at i:26663864 original size:25 final size:24
Alignment explanation
Indices: 26663813--26663862 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
26663803 CTTATTTTCA
*
26663813 TATCTATATACTTTATATCTTATT
1 TATCTATATACTTTATATCATATT
26663837 TATCTATATATCTTTATATACATATT
1 TATCTATATA-CTTTATAT-CATATT
26663863 ATATTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.43
25 8 0.35
26 5 0.22
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (24 bp):
TATCTATATACTTTATATCATATT
Found at i:26663933 original size:6 final size:6
Alignment explanation
Indices: 26663923--26663995 Score: 128
Period size: 6 Copynumber: 12.0 Consensus size: 6
26663913 CTTATGCTTT
*
26663923 ATATAT ATATAC ATATAC ATATAC ATATAC ATATTAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATA-TAC ATATAC ATATAC
26663972 ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC
26663996 TCTTTTGCAT
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
6 59 0.91
7 6 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAC
Found at i:26663970 original size:37 final size:37
Alignment explanation
Indices: 26663923--26663993 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
26663913 CTTATGCTTT
*
26663923 ATATATATATACATATACATATACATATACATATTAC
1 ATATACATATACATATACATATACATATACATATTAC
26663960 ATATACATATACATATACATATACATATACATAT
1 ATATACATATACATATACATATACATATACATAT
26663994 ACTCTTTTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (37 bp):
ATATACATATACATATACATATACATATACATATTAC
Found at i:26665689 original size:15 final size:15
Alignment explanation
Indices: 26665669--26665722 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
26665659 ATACTATAAA
26665669 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
26665684 ATATTTATAAATGTAAT
1 ATATTTAT-TAT-TAAT
*
26665701 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
26665718 ATATT
1 ATATT
26665723 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 13 0.41
16 2 0.06
17 7 0.22
18 2 0.06
19 8 0.25
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:26671336 original size:16 final size:16
Alignment explanation
Indices: 26671315--26671363 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
26671305 AATTACCTTA
26671315 ATTAATTAACTTAATC
1 ATTAATTAACTTAATC
*
26671331 ATTAATTAATTTAAT-
1 ATTAATTAACTTAATC
*
26671346 -TTAATTATCATTAATC
1 ATTAATTAAC-TTAATC
26671362 AT
1 AT
26671364 ATTAGTGGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 7 0.26
15 5 0.19
16 14 0.52
17 1 0.04
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTAATTAACTTAATC
Found at i:26671340 original size:24 final size:24
Alignment explanation
Indices: 26671312--26671360 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
26671302 TTTAATTACC
26671312 TTAA-TTAA-TTAACTTAATCATTAA
1 TTAATTTAATTTAA-TT-ATCATTAA
26671336 TTAATTTAATTTAATTATCATTAA
1 TTAATTTAATTTAATTATCATTAA
26671360 T
1 T
26671361 CATATTAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 13 0.57
25 6 0.26
26 4 0.17
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (24 bp):
TTAATTTAATTTAATTATCATTAA
Found at i:26681542 original size:19 final size:20
Alignment explanation
Indices: 26681500--26681542 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
26681490 TCATGCTTTC
*
26681500 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
26681520 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
26681538 TATTC
1 TATTC
26681543 TACAATCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:26681801 original size:45 final size:45
Alignment explanation
Indices: 26681732--26681968 Score: 366
Period size: 45 Copynumber: 5.3 Consensus size: 45
26681722 TAGCAGTATA
* * * ** *
26681732 AGTAACAGTAACAATATTCAACACACAAAGTGCTAAATTTGTAAC
1 AGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATTGGTAAC
26681777 AGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATTGGTAAC
1 AGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATTGGTAAC
*
26681822 AGTAACGGTAATAGTATTCGACACACAAAGTGCCGAATTGGTAAC
1 AGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATTGGTAAC
* *
26681867 AGTAACGGTAATAGTATTCGACACACAAAGTGCCGAATTGATAAC
1 AGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATTGGTAAC
* *
26681912 AGTAACGGTAACAGTATTCGACACACAAAGTGCCGAGTCGGTAAC
1 AGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATTGGTAAC
*
26681957 AGTAATGGTAAC
1 AGTAACGGTAAC
26681969 TGTAATAGTA
Statistics
Matches: 179, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 179 1.00
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATTGGTAAC
Found at i:26683147 original size:13 final size:13
Alignment explanation
Indices: 26683131--26683157 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26683121 ATTAAAATAC
26683131 ATAAGTAATTACA
1 ATAAGTAATTACA
26683144 ATAAGTAATTACA
1 ATAAGTAATTACA
26683157 A
1 A
26683158 CTTCAACTCG
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:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
ATAAGTAATTACA
Found at i:26684085 original size:26 final size:26
Alignment explanation
Indices: 26684056--26684124 Score: 102
Period size: 26 Copynumber: 2.6 Consensus size: 26
26684046 TTATTCTGCT
*
26684056 ACAAAGGCTTTCTTTCATATTACGTC
1 ACAAAGGCTTTCTTTCATATTACGCC
* *
26684082 ACAAAGGCTTTATTTCATGTTACGCC
1 ACAAAGGCTTTCTTTCATATTACGCC
26684108 ACAAAGGCTTTTCTTTC
1 ACAAAGGC-TTTCTTTC
26684125 CTAAAATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
26 31 0.82
27 7 0.18
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (26 bp):
ACAAAGGCTTTCTTTCATATTACGCC
Found at i:26688086 original size:28 final size:28
Alignment explanation
Indices: 26688038--26688094 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
26688028 CTCATATAAC
*
26688038 ATGAAGGGGCAACAACACTAGTAGAAAT
1 ATGAAAGGGCAACAACACTAGTAGAAAT
*
26688066 ATGAAAGGGCGAA-AACCCTAGTAGAAAT
1 ATGAAAGGGC-AACAACACTAGTAGAAAT
26688094 A
1 A
26688095 AAAGGGTGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 24 0.92
29 2 0.08
ACGTcount: A:0.47, C:0.14, G:0.25, T:0.14
Consensus pattern (28 bp):
ATGAAAGGGCAACAACACTAGTAGAAAT
Found at i:26691108 original size:86 final size:86
Alignment explanation
Indices: 26690963--26691133 Score: 279
Period size: 86 Copynumber: 2.0 Consensus size: 86
26690953 TTTTAAGATC
* * *
26690963 GATTAAATGATCTCTTACGAATCTTGTCGATATTTCCCAATAATCTTGATAAATCTTGAAAACAA
1 GATTAAACGACCTATTACGAATCTTGTCGATATTTCCCAATAATCTTGATAAATCTTGAAAACAA
*
26691028 TATCTAATTCTTGCGCAAATT
66 TATCTAATTCTTGCACAAATT
***
26691049 GATTAAACGACCTATTACGAATCTTGTCGATATTTCCTGGTAATCTTGATAAATCTTGAAAACAA
1 GATTAAACGACCTATTACGAATCTTGTCGATATTTCCCAATAATCTTGATAAATCTTGAAAACAA
26691114 TATCTAATTCTTGCACAAAT
66 TATCTAATTCTTGCACAAAT
26691134 CTTGTTTGAA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 78 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (86 bp):
GATTAAACGACCTATTACGAATCTTGTCGATATTTCCCAATAATCTTGATAAATCTTGAAAACAA
TATCTAATTCTTGCACAAATT
Found at i:26701604 original size:21 final size:22
Alignment explanation
Indices: 26701578--26701620 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
26701568 AGAACATTTT
26701578 AAAATTTGAAAAC-TAATTTAA
1 AAAATTTGAAAACATAATTTAA
* *
26701599 AAAATTTTAAATCATAATTTAA
1 AAAATTTGAAAACATAATTTAA
26701621 GAATGTCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (22 bp):
AAAATTTGAAAACATAATTTAA
Found at i:26710452 original size:21 final size:19
Alignment explanation
Indices: 26710427--26710466 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
26710417 ATGATTTTTA
26710427 AAAAATGAATTAATTTTCTGG
1 AAAAATGAA-T-ATTTTCTGG
*
26710448 AAAAATTAATATTTTCTGG
1 AAAAATGAATATTTTCTGG
26710467 TGTTTTGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 1 0.06
21 8 0.44
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.40
Consensus pattern (19 bp):
AAAAATGAATATTTTCTGG
Found at i:26716948 original size:93 final size:94
Alignment explanation
Indices: 26716845--26717031 Score: 367
Period size: 93 Copynumber: 2.0 Consensus size: 94
26716835 AAGTTTAAGT
26716845 AGTGTGTCATGTTTATCAAATCTAACATTTTAAATTAATATGATATTTATAATCTGAATAAATAT
1 AGTGTGTCATGTTTATCAAATCTAACATTTTAAATTAATATGATATTTATAATCTGAATAAATAT
26716910 TATTTTTGAGGATATC-TTCTATTTTATA
66 TATTTTTGAGGATATCTTTCTATTTTATA
26716938 AGTGTGTCATGTTTATCAAATCTAACATTTTAAATTAATATGATATTTATAATCTGAATAAATAT
1 AGTGTGTCATGTTTATCAAATCTAACATTTTAAATTAATATGATATTTATAATCTGAATAAATAT
26717003 TATTTTTGAGGATATCTTTCTATTTTATA
66 TATTTTTGAGGATATCTTTCTATTTTATA
26717032 TTTTTATATA
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 81 0.87
94 12 0.13
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (94 bp):
AGTGTGTCATGTTTATCAAATCTAACATTTTAAATTAATATGATATTTATAATCTGAATAAATAT
TATTTTTGAGGATATCTTTCTATTTTATA
Found at i:26722579 original size:29 final size:30
Alignment explanation
Indices: 26722546--26722611 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
26722536 TGGTTTATTG
* * *
26722546 TGCAATTGTGTATATG-AACTTTGATTTTA
1 TGCAATTGTATACATGAAACTTTGATTTGA
*
26722575 TGCAATTTTATACATGAAACTTTGATTTGA
1 TGCAATTGTATACATGAAACTTTGATTTGA
*
26722605 TCCAATT
1 TGCAATT
26722612 CTTGTAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 13 0.42
30 18 0.58
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (30 bp):
TGCAATTGTATACATGAAACTTTGATTTGA
Found at i:26728646 original size:7 final size:7
Alignment explanation
Indices: 26728636--26728661 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
26728626 TTTTATATAT
26728636 AAATTTA
1 AAATTTA
26728643 AAATTTA
1 AAATTTA
26728650 AAATTTA
1 AAATTTA
26728657 AAATT
1 AAATT
26728662 ACTAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTTA
Found at i:26738739 original size:3 final size:3
Alignment explanation
Indices: 26738731--26738767 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
26738721 AATGAAACCA
26738731 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
26738768 TAATTTTCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:26740048 original size:11 final size:11
Alignment explanation
Indices: 26740032--26740057 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
26740022 TTGCTGGATG
26740032 ATATTTTGGTT
1 ATATTTTGGTT
26740043 ATATTTTGGTT
1 ATATTTTGGTT
26740054 ATAT
1 ATAT
26740058 ACAGATGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (11 bp):
ATATTTTGGTT
Found at i:26742472 original size:22 final size:20
Alignment explanation
Indices: 26742429--26742467 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
26742419 TAATTTAAAA
26742429 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
26742449 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
26742468 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:26742612 original size:34 final size:34
Alignment explanation
Indices: 26742554--26742619 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
26742544 CAAACACCAA
26742554 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTAC-GAAAAGT
*
26742589 AAAATATTTTTCAG-AAATCATTTTACGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACGAAAA
26742620 ACATTTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.35
Consensus pattern (34 bp):
AAAATATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:26742886 original size:6 final size:6
Alignment explanation
Indices: 26742877--26742915 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
26742867 CCGCAAAAAG
* *
26742877 AAAACC AAAATC AAAACC AAAACC AAAACC AAAATC AAA
1 AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC AAA
26742916 CCTAATCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.69, C:0.26, G:0.00, T:0.05
Consensus pattern (6 bp):
AAAACC
Found at i:26742891 original size:18 final size:18
Alignment explanation
Indices: 26742870--26742915 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
26742860 CCCTAACCCG
* *
26742870 CAAAAAGAAAACCAAAAT
1 CAAAAACAAAACCAAAAC
*
26742888 CAAAACCAAAACCAAAAC
1 CAAAAACAAAACCAAAAC
*
26742906 CAAAATCAAA
1 CAAAAACAAA
26742916 CCTAATCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.70, C:0.24, G:0.02, T:0.04
Consensus pattern (18 bp):
CAAAAACAAAACCAAAAC
Found at i:26742892 original size:12 final size:12
Alignment explanation
Indices: 26742877--26742915 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
26742867 CCGCAAAAAG
26742877 AAAACCAAAATC
1 AAAACCAAAATC
*
26742889 AAAACCAAAACC
1 AAAACCAAAATC
26742901 AAAACCAAAATC
1 AAAACCAAAATC
26742913 AAA
1 AAA
26742916 CCTAATCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.69, C:0.26, G:0.00, T:0.05
Consensus pattern (12 bp):
AAAACCAAAATC
Found at i:26756316 original size:32 final size:32
Alignment explanation
Indices: 26756271--26756343 Score: 130
Period size: 32 Copynumber: 2.3 Consensus size: 32
26756261 TGTGAAATTT
*
26756271 ATAG-AATTTGTTGGAATCCCTATAATTAAGG
1 ATAGAAATCTGTTGGAATCCCTATAATTAAGG
26756302 ATAGAAATCTGTTGGAATCCCTATAATTAAGG
1 ATAGAAATCTGTTGGAATCCCTATAATTAAGG
26756334 ATAGAAATCT
1 ATAGAAATCT
26756344 TACCTTATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 4 0.10
32 36 0.90
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (32 bp):
ATAGAAATCTGTTGGAATCCCTATAATTAAGG
Found at i:26761313 original size:32 final size:32
Alignment explanation
Indices: 26761267--26761331 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
26761257 TGAGGGGGAG
* *
26761267 TGTTGGAAGCCCTATAATTAATGATAGAAATC
1 TGTTGGAAACCCTATAATTAAGGATAGAAATC
*
26761299 TGTTGGAAATCCTATAATTAAGGATAGAAATC
1 TGTTGGAAACCCTATAATTAAGGATAGAAATC
26761331 T
1 T
26761332 TACCTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.32
Consensus pattern (32 bp):
TGTTGGAAACCCTATAATTAAGGATAGAAATC
Found at i:26772036 original size:33 final size:33
Alignment explanation
Indices: 26771998--26772067 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
26771988 AGATTAATTT
* *
26771998 ATATTTTATGTATTATTACATTAAATTATTTAA
1 ATATTTCATGTATCATTACATTAAATTATTTAA
* *
26772031 ATATTTCATGTATCGTTATATTAAATTATTTAA
1 ATATTTCATGTATCATTACATTAAATTATTTAA
26772064 ATAT
1 ATAT
26772068 CATATAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (33 bp):
ATATTTCATGTATCATTACATTAAATTATTTAA
Found at i:26773266 original size:3 final size:3
Alignment explanation
Indices: 26773258--26773290 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
26773248 TCAAAAATTG
*
26773258 ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
26773291 TAAATTTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:26780700 original size:12 final size:11
Alignment explanation
Indices: 26780681--26780708 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
26780671 TAATCCCTGC
26780681 AGAAAAAAAAA
1 AGAAAAAAAAA
26780692 AGAAAAAAAAA
1 AGAAAAAAAAA
26780703 AGAAAA
1 AGAAAA
26780709 GAAGCAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:26786395 original size:23 final size:23
Alignment explanation
Indices: 26786369--26786423 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
26786359 ATTATTTTAA
26786369 TTTA-ATATTTAATATTTAATAAT
1 TTTATATATTT-ATATTTAATAAT
* *
26786392 TTTATATATTTTTATTTACTAAT
1 TTTATATATTTATATTTAATAAT
*
26786415 TTTTTATAT
1 TTTATATAT
26786424 GGCCATCTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTATATATTTATATTTAATAAT
Found at i:26787108 original size:18 final size:19
Alignment explanation
Indices: 26787085--26787121 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
26787075 TTTATAAAGT
*
26787085 TTTTTATACAA-ATTATAA
1 TTTTTATAAAACATTATAA
26787103 TTTTTATAAAACATTATAA
1 TTTTTATAAAACATTATAA
26787122 AAATTACTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTTTATAAAACATTATAA
Found at i:26790428 original size:18 final size:17
Alignment explanation
Indices: 26790377--26790448 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 17
26790367 TAAAAACATA
26790377 TATTTAAAAATATAAAAT
1 TATTTAAAAATA-AAAAT
**
26790395 TATGAAAAAACT-AAAAT
1 TATTTAAAAA-TAAAAAT
26790412 TATTTCAAAAATAAAAAAT
1 TATTT-AAAAAT-AAAAAT
*
26790431 CATTTAAATATATAAAAA
1 TATTTAAA-A-ATAAAAA
26790449 AATTAAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
17 9 0.21
18 16 0.37
19 16 0.37
20 2 0.05
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (17 bp):
TATTTAAAAATAAAAAT
Found at i:26790429 original size:19 final size:18
Alignment explanation
Indices: 26790360--26790449 Score: 67
Period size: 19 Copynumber: 4.7 Consensus size: 18
26790350 AATAATAACA
26790360 TAAAAATTAAAAACATATATT
1 TAAAAA-TAAAAA-AT-TATT
*
26790381 TAAAAATATAAAATTA-T
1 TAAAAATAAAAAATTATT
* *
26790398 GAAAAA-ACTAAAATTATT
1 TAAAAATA-AAAAATTATT
*
26790416 TCAAAAATAAAAAATCATT
1 T-AAAAATAAAAAATTATT
26790435 TAAATATATAAAAAA
1 TAAA-A-ATAAAAAA
26790450 ATTAAAATTC
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
16 1 0.02
17 14 0.24
18 6 0.10
19 17 0.29
20 14 0.24
21 6 0.10
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (18 bp):
TAAAAATAAAAAATTATT
Found at i:26793378 original size:50 final size:50
Alignment explanation
Indices: 26793249--26793403 Score: 127
Period size: 50 Copynumber: 3.1 Consensus size: 50
26793239 TGATAATACA
* * * * *
26793249 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTTC-TGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* * * * *
26793298 TGCCAATGTCATATCCCAAATAAGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* ** ** *
26793348 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
26793398 TGCCAA
1 TGCCAA
26793404 CNNNNNNNNN
Statistics
Matches: 81, Mismatches: 22, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
48 6 0.07
49 31 0.38
50 44 0.54
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:26797216 original size:74 final size:75
Alignment explanation
Indices: 26797095--26797314 Score: 354
Period size: 75 Copynumber: 2.9 Consensus size: 75
26797085 CAAAATTGGC
* * * * *
26797095 AAGTATATCATTTTTATTTGATAAATGGTAAGTACATTATCAGTTAACTATTTATGGTTATAATA
1 AAGTATATCATTTTTATTTGATAAATGGTAAGTATATCATTAGTTAACTATTTATAGTTTTAATA
26797160 TTAGGT-GGA
66 TTAGGTGGGA
*
26797169 AAGTATATCATTTTTATTTGATAAATGGTAAGTATATGATTAGTTAACTATTTATTA-TTTTAAT
1 AAGTATATCATTTTTATTTGATAAATGGTAAGTATATCATTAGTTAACTATTTA-TAGTTTTAAT
26797233 ATTAGGTGGGA
65 ATTAGGTGGGA
*
26797244 AAGTATATCATTTTTATTTGATAAATGGTAAGTGTATCATTAGTTAACTATTTATAGTTTTAATA
1 AAGTATATCATTTTTATTTGATAAATGGTAAGTATATCATTAGTTAACTATTTATAGTTTTAATA
26797309 TTAGGT
66 TTAGGT
26797315 TAGTAAAGCT
Statistics
Matches: 136, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
74 66 0.49
75 70 0.51
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (75 bp):
AAGTATATCATTTTTATTTGATAAATGGTAAGTATATCATTAGTTAACTATTTATAGTTTTAATA
TTAGGTGGGA
Found at i:26801634 original size:3 final size:3
Alignment explanation
Indices: 26801626--26801658 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
26801616 CACAATTAAT
26801626 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
26801659 GAGAAAATCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:26802377 original size:20 final size:20
Alignment explanation
Indices: 26802341--26802378 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26802331 AAAAGGCCCT
**
26802341 TTGACCATTAATTTTAACAG
1 TTGACCATTAAAGTTAACAG
26802361 TTGACCATTAAAGTTAAC
1 TTGACCATTAAAGTTAAC
26802379 TGTCTCTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (20 bp):
TTGACCATTAAAGTTAACAG
Found at i:26802561 original size:10 final size:10
Alignment explanation
Indices: 26802463--26802565 Score: 52
Period size: 10 Copynumber: 10.2 Consensus size: 10
26802453 AATAAAAAAT
*
26802463 AAAAGTTATA
1 AAAATTTATA
*
26802473 AAAA-TTATT
1 AAAATTTATA
*
26802482 AAATTTTAATA
1 AAAATTT-ATA
* *
26802493 AAAATATAAA
1 AAAATTTATA
26802503 AACAATATT-T-
1 AA-AAT-TTATA
*
26802513 AAATTTTATTA
1 AAAATTTA-TA
26802524 AAAA-TTATA
1 AAAATTTATA
* *
26802533 AAAATCGTAAA
1 AAAAT-TTATA
26802544 AAAATTTATA
1 AAAATTTATA
*
26802554 AAATTTTATA
1 AAAATTTATA
26802564 AA
1 AA
26802566 GTCGTAAGCA
Statistics
Matches: 69, Mismatches: 15, Indels: 18
0.68 0.15 0.18
Matches are distributed among these distances:
8 2 0.03
9 15 0.22
10 30 0.43
11 21 0.30
12 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (10 bp):
AAAATTTATA
Found at i:26802571 original size:30 final size:28
Alignment explanation
Indices: 26802520--26802585 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
26802510 TTTAAATTTT
26802520 ATTA-AAAATTATAAAAATCGTAAAAAA
1 ATTATAAAATTATAAAAATCGTAAAAAA
* * **
26802547 ATTTATAAAATTTTATAAAGTCGTAAGCAA
1 A-TTATAAAATTATA-AAAATCGTAAAAAA
26802577 ATTATAAAA
1 ATTATAAAA
26802586 AATGTAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 1 0.03
28 3 0.09
29 16 0.50
30 12 0.38
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.32
Consensus pattern (28 bp):
ATTATAAAATTATAAAAATCGTAAAAAA
Found at i:26802877 original size:21 final size:22
Alignment explanation
Indices: 26802844--26802908 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
26802834 TTTTATAAAA
26802844 TTTTACAATTTTTTATAATTTC
1 TTTTACAATTTTTTATAATTTC
* *
26802866 TTTTACGA-TTTTTATCATTT-
1 TTTTACAATTTTTTATAATTTC
* *
26802886 TTTTTCTAATTTTTAATATATTT
1 TTTTAC-AATTTTTTATA-ATTT
26802909 TTATTAACTT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
20 5 0.15
21 12 0.35
22 13 0.38
23 4 0.12
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTACAATTTTTTATAATTTC
Found at i:26802909 original size:21 final size:19
Alignment explanation
Indices: 26802814--26802930 Score: 67
Period size: 20 Copynumber: 5.7 Consensus size: 19
26802804 TTTTGATGCA
*
26802814 TTTTATATATTTTTTATGAT
1 TTTTATATATTTTTT-TAAT
* * **
26802834 TTTTATAAAATTTTACAAT
1 TTTTATATATTTTTTTAAT
26802853 TTTT-TATAATTTCTTTTACGAT
1 TTTTATAT-ATTT-TTTTA--AT
*
26802875 TTTTATCATTTTTTTTCTAAT
1 TTTTAT-ATATTTTTT-TAAT
*
26802896 TTTTAATATATTTTTATTAAC
1 TTTT-ATATATTTTT-TTAAT
26802917 TTTTA-ATAATTTTT
1 TTTTATAT-ATTTTT
26802931 ATAACTTTCT
Statistics
Matches: 75, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
18 2 0.03
19 11 0.15
20 22 0.29
21 20 0.27
22 12 0.16
23 6 0.08
24 2 0.03
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTATATATTTTTTTAAT
Found at i:26802911 original size:11 final size:10
Alignment explanation
Indices: 26802892--26802931 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
26802882 ATTTTTTTTC
26802892 TAATTTTTAA
1 TAATTTTTAA
*
26802902 TATATTTTTAT
1 TA-ATTTTTAA
*
26802913 TAACTTTTAA
1 TAATTTTTAA
26802923 TAATTTTTA
1 TAATTTTTA
26802932 TAACTTTCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:26802934 original size:9 final size:9
Alignment explanation
Indices: 26802813--26802934 Score: 55
Period size: 9 Copynumber: 12.1 Consensus size: 9
26802803 TTTTTGATGC
26802813 ATTTTATATA
1 ATTTT-TATA
* *
26802823 TTTTTTATG
1 ATTTTTATA
26802832 ATTTTTATAA
1 ATTTTTAT-A
* *
26802842 AATTTTACA
1 ATTTTTATA
26802851 ATTTTTTATA
1 A-TTTTTATA
*
26802861 ATTTCTTTTA
1 ATTT-TTATA
26802871 CGATTTTTATCA
1 --ATTTTTAT-A
* *
26802883 TTTTTTTTCTA
1 --ATTTTTATA
26802894 ATTTTTAATA
1 ATTTTT-ATA
26802904 TATTTTTATTA
1 -ATTTTTA-TA
*
26802915 ACTTTTAATA
1 A-TTTTTATA
26802925 ATTTTTATA
1 ATTTTTATA
26802934 A
1 A
26802935 CTTTCTATTT
Statistics
Matches: 84, Mismatches: 18, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
9 28 0.33
10 28 0.33
11 17 0.20
12 11 0.13
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (9 bp):
ATTTTTATA
Found at i:26808784 original size:78 final size:78
Alignment explanation
Indices: 26808639--26808784 Score: 181
Period size: 78 Copynumber: 1.9 Consensus size: 78
26808629 AATTGTATTC
**
26808639 TGTTTCAAACAGAAAATCAATTGAACAATCCCATTTCAGGATTTTATTCCTGTTGCTTAACAAGA
1 TGTTTCAAACAGAAAATCAATTGAACAATCCCATTTCAGGATTTTATTCCTGCCGCTTAACAAGA
26808704 TTTGTTTGATTTT
66 TTTGTTTGATTTT
* * * *
26808717 TGTTTTAAACAGAAAA-CTAATTTAACAATTCTA-TTCAGGATTTTTATTCCTGCCG-TTCAACA
1 TGTTTCAAACAGAAAATC-AATTGAACAATCCCATTTCAGGA-TTTTATTCCTGCCGCTT-AACA
*
26808779 GGATTT
63 AGATTT
26808785 ATTCCACAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
77 10 0.17
78 48 0.83
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (78 bp):
TGTTTCAAACAGAAAATCAATTGAACAATCCCATTTCAGGATTTTATTCCTGCCGCTTAACAAGA
TTTGTTTGATTTT
Found at i:26808796 original size:49 final size:49
Alignment explanation
Indices: 26808741--26808836 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 49
26808731 AACTAATTTA
* *
26808741 ACAATTCT-ATTCAGGATTTTTATTCCTGCCGTTCAACAGGATTTATTCC
1 ACAATTCTGATTCAGGA-TTCTATTCCTGCCGTTCAACAGAATTTATTCC
* *
26808790 ACAATTCTGTTTCATGATTCTATTCCTGCCGTTCAACAGAATTTATT
1 ACAATTCTGATTCAGGATTCTATTCCTGCCGTTCAACAGAATTTATT
26808837 TGATTTCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 36 0.86
50 6 0.14
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.42
Consensus pattern (49 bp):
ACAATTCTGATTCAGGATTCTATTCCTGCCGTTCAACAGAATTTATTCC
Found at i:26813913 original size:25 final size:25
Alignment explanation
Indices: 26813878--26813964 Score: 138
Period size: 25 Copynumber: 3.5 Consensus size: 25
26813868 AACCAAACCG
26813878 AAGCCTTTGTGGCAAGTTATTTGTA
1 AAGCCTTTGTGGCAAGTTATTTGTA
*
26813903 AAGTCTTTGTGGCAAGTTATTTGTA
1 AAGCCTTTGTGGCAAGTTATTTGTA
* * *
26813928 AAGCCTTTGTGACAAGTTATCTATA
1 AAGCCTTTGTGGCAAGTTATTTGTA
26813953 AAGCCTTTGTGG
1 AAGCCTTTGTGG
26813965 TGAATTATCT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.39
Consensus pattern (25 bp):
AAGCCTTTGTGGCAAGTTATTTGTA
Found at i:26813980 original size:25 final size:25
Alignment explanation
Indices: 26813878--26813983 Score: 117
Period size: 25 Copynumber: 4.2 Consensus size: 25
26813868 AACCAAACCG
* *
26813878 AAGCCTTTGTGGCAAGTTATTTGTA
1 AAGCCTTTGTGGCAAGTTATCTGAA
* * *
26813903 AAGTCTTTGTGGCAAGTTATTTGTA
1 AAGCCTTTGTGGCAAGTTATCTGAA
*
26813928 AAGCCTTTGTGACAAGTTATCT-ATA
1 AAGCCTTTGTGGCAAGTTATCTGA-A
*
26813953 AAGCCTTTGTGGTGAA-TTATCTGAA
1 AAGCCTTTGTGG-CAAGTTATCTGAA
26813978 AAGCCT
1 AAGCCT
26813984 ATGTAGCGTA
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
25 68 0.96
26 3 0.04
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (25 bp):
AAGCCTTTGTGGCAAGTTATCTGAA
Found at i:26813981 original size:50 final size:50
Alignment explanation
Indices: 26813878--26813983 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
26813868 AACCAAACCG
* * * * * *
26813878 AAGCCTTTGTGGCAAGTTATTTGTAAAGTCTTTGTGGCAAGTTATTTGTA
1 AAGCCTTTGTGACAAGTTATCTATAAAGCCTTTGTGGCAAGTTATCTGAA
*
26813928 AAGCCTTTGTGACAAGTTATCTATAAAGCCTTTGTGGTGAA-TTATCTGAA
1 AAGCCTTTGTGACAAGTTATCTATAAAGCCTTTGTGG-CAAGTTATCTGAA
26813978 AAGCCT
1 AAGCCT
26813984 ATGTAGCGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 46 0.96
51 2 0.04
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (50 bp):
AAGCCTTTGTGACAAGTTATCTATAAAGCCTTTGTGGCAAGTTATCTGAA
Found at i:26819871 original size:14 final size:14
Alignment explanation
Indices: 26819852--26819906 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
26819842 TAAAGCAGCG
*
26819852 TAAACCCCAAACCT
1 TAAACCCTAAACCT
* *
26819866 TAAACCTTAAACCC
1 TAAACCCTAAACCT
*
26819880 CAAACTCCTAAACCT
1 TAAAC-CCTAAACCT
*
26819895 TAAACCCAAAAC
1 TAAACCCTAAAC
26819907 ACCAAAACCT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.45, C:0.38, G:0.00, T:0.16
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:26819894 original size:22 final size:21
Alignment explanation
Indices: 26819852--26819916 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 21
26819842 TAAAGCAGCG
*
26819852 TAAACCCCAAACCTTAAACCT
1 TAAACCCCAAACCCTAAACCT
26819873 TAAACCCCAAACTCCTAAACCT
1 TAAACCCCAAAC-CCTAAACCT
* *
26819895 TAAACCCAAAACACCAAAACCT
1 TAAACCCCAAAC-CCTAAACCT
26819917 ACATCATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 12 0.31
22 27 0.69
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (21 bp):
TAAACCCCAAACCCTAAACCT
Found at i:26820775 original size:113 final size:114
Alignment explanation
Indices: 26820329--26820982 Score: 693
Period size: 114 Copynumber: 5.8 Consensus size: 114
26820319 TTTTGCTATG
* *
26820329 CTTTAACGGCG-TTTCCC-TAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACTATGCGTT
1 CTTTTACGGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTT
* * *
26820392 TTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCCGCTATTAATATT
66 TTGGTTAAGATATTTTGCGGCGCTTC-CACAAAGCGCCGCTATTACTGTC
** * * * * *
26820442 CTTTCGCGGCGGTTTACTGTAAGCGCCACTAATTTTA-TATACATCAAGACCAAAACGCTGCGTT
1 CTTTTACGGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTT
* * * * * * *
26820506 TTGGTTAAGATATTTTGCGGCGCTAGCCACGAATCGTCGCTAATACTATA
66 TTGGTTAAGATATTTTGCGGCGCT-TCCACAAAGCGCCGCTATTACTGTC
* *
26820556 C-TTTAGCGGCG-TTTCACCGTAGGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGTG
1 CTTTTA-CGGCGTTTTC-CCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCG
* * *
26820619 TTTTGGTTCAGATATTTTGCGGCGCTTCCATAAAGTGCCGCTATTACTGTC
64 TTTTGGTTAAGATATTTTGCGGCGCTTCCACAAAGCGCCGCTATTACTGTC
** * * **
26820670 CTTTTACGGCGTTTTCCTATAAACGCCACTAATTCTAAG-ATACCTCAAGACC-AAACTCTGCGT
1 CTTTTACGGCGTTTTCCCGTAAGCGCCACTAATTCT-AGTATACATCAAGACCAAAACGATGCGT
*
26820733 TTTGGTTAAGATATTTTGCGGCGCTTCCAAAAAGCGCCGCTATTACTGTC
65 TTTGGTTAAGATATTTTGCGGCGCTTCCACAAAGCGCCGCTATTACTGTC
* ** * * * *
26820783 CTTTAACGGCGTTTTCCCGTAAATGCCACTACTTTTAGGATACATCAAGACCGAAACGATGCGTT
1 CTTTTACGGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTT
***** * *
26820848 TTGGTTAAGATATTTTGCGGCGCTTTTTGGAAGCCGCCGGTAATAC-G--
66 TTGGTTAAGATATTTTGCGGCGCTTCCACAAAG-CGCCGCTATTACTGTC
* * * *
26820895 C-TGTAGCGGCGTTTTCCCATAATCGCCACTAATTCTAGTATACATCAAGACGAAAAC-ACTGCG
1 CTTTTA-CGGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGA-TGCG
* *
26820958 TTTTGGTTAAGAGATTTCGCGGCGC
64 TTTTGGTTAAGATATTTTGCGGCGC
26820983 ATTGTGGCAA
Statistics
Matches: 456, Mismatches: 71, Indels: 29
0.82 0.13 0.05
Matches are distributed among these distances:
111 3 0.01
112 73 0.16
113 111 0.24
114 183 0.40
115 86 0.19
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (114 bp):
CTTTTACGGCGTTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTT
TTGGTTAAGATATTTTGCGGCGCTTCCACAAAGCGCCGCTATTACTGTC
Found at i:26820861 original size:227 final size:225
Alignment explanation
Indices: 26820324--26820982 Score: 754
Period size: 227 Copynumber: 2.9 Consensus size: 225
26820314 AGATATTTTG
* *
26820324 CTATGCTTTAACGGCGTTTCCC-TAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACTATG
1 CTATACTTTAACGGCGTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATG
* * * **
26820388 CGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCCGCTATTAATATTCTTTCGCGGCG
66 CGTTTTGGTTAAGATATTTTGCGGCGCTTC-CATAAAGCGCCGCTATTACT-GTCTTTTACGGCG
* * * * * * *
26820453 GTTTACTGTAAGCGCCACTAATTTTATATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATA
129 TTTTCCTATAAACGCCACTAATTCTAGATACATCAAGACC-AAACACTGCGTTTTGGTTAAGATA
** * *
26820518 TTTTGCGGCGCTAGCCACGAATCGTCGCTAATA
193 TTTTGCGGCGCTAGCCAAAAAGCGCCGCTAATA
* *
26820551 CTATACTTTAGCGGCGTTTCACCGTAGGCGCCACTAATTCTAGTATACATCAAGACCAAAACGAT
1 CTATACTTTAACGGCGTTTC-CCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGAT
* * *
26820616 GTGTTTTGGTTCAGATATTTTGCGGCGCTTCCATAAAGTGCCGCTATTACTGTCCTTTTACGGCG
65 GCGTTTTGGTTAAGATATTTTGCGGCGCTTCCATAAAGCGCCGCTATTACTGT-CTTTTACGGCG
* *
26820681 TTTTCCTATAAACGCCACTAATTCTAAGATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATA
129 TTTTCCTATAAACGCCACTAATTCT-AGATACATCAAGACCAAACACTGCGTTTTGGTTAAGATA
* *
26820746 TTTTGCGGCGCT-TCCAAAAAGCGCCGCTATTA
193 TTTTGCGGCGCTAGCCAAAAAGCGCCGCTAATA
* * ** * * * *
26820778 CTGTCCTTTAACGGCGTTTTCCCGTAAATGCCACTACTTTTAGGATACATCAAGACCGAAACGAT
1 CTATACTTTAACGGCG-TTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGAT
** * * * *
26820843 GCGTTTTGGTTAAGATATTTTGCGGCGCTT-TTTGGAAGCCGCCGGTAATAC-G-C-TGTAGCGG
65 GCGTTTTGGTTAAGATATTTTGCGGCGCTTCCAT-AAAG-CGCCGCTATTACTGTCTTTTA-CGG
* * *
26820904 CGTTTTCCCATAATCGCCACTAATTCTAGTATACATCAAGACGAAAACACTGCGTTTTGGTTAAG
127 CGTTTTCCTATAAACGCCACTAATTCTAG-ATACATCAAGAC-CAAACACTGCGTTTTGGTTAAG
* *
26820969 AGATTTCGCGGCGC
190 ATATTTTGCGGCGC
26820983 ATTGTGGCAA
Statistics
Matches: 370, Mismatches: 52, Indels: 21
0.84 0.12 0.05
Matches are distributed among these distances:
224 5 0.01
225 40 0.11
226 33 0.09
227 115 0.31
228 96 0.26
229 81 0.22
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (225 bp):
CTATACTTTAACGGCGTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATG
CGTTTTGGTTAAGATATTTTGCGGCGCTTCCATAAAGCGCCGCTATTACTGTCTTTTACGGCGTT
TTCCTATAAACGCCACTAATTCTAGATACATCAAGACCAAACACTGCGTTTTGGTTAAGATATTT
TGCGGCGCTAGCCAAAAAGCGCCGCTAATA
Found at i:26821104 original size:40 final size:38
Alignment explanation
Indices: 26821057--26821148 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 38
26821047 CCAACTTTTG
*
26821057 GCGGCGTTTTTCATGGAACACCGCTAATGCTTGATATTTA
1 GCGGCGTTTTTCATGG--CACCGCTAATGCTCGATATTTA
* * * *
26821097 GCGGCGTTTAGTTAATTGCGCCGCTAATGCTCGATTTTTA
1 GCGGCGTTT--TTCATGGCACCGCTAATGCTCGATATTTA
26821137 GCGGCGTTTTTC
1 GCGGCGTTTTTC
26821149 GTCCAAACGC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
38 2 0.05
40 37 0.84
42 5 0.11
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (38 bp):
GCGGCGTTTTTCATGGCACCGCTAATGCTCGATATTTA
Found at i:26821880 original size:43 final size:43
Alignment explanation
Indices: 26821756--26821881 Score: 155
Period size: 44 Copynumber: 2.9 Consensus size: 43
26821746 GCCGCTAAAG
*
26821756 ACCATGACCTTTAGCGGCGCTTTTTCCACAAACGCCAGCTCAAA
1 ACCATGACCTTTAGCGGCGCTTTTACCACAAACGCCA-CTCAAA
** * *
26821800 ACCATGACCTTTAATGGCGCTTTTCCCACAAACGCCAC-GAAA
1 ACCATGACCTTTAGCGGCGCTTTTACCACAAACGCCACTCAAA
* * *
26821842 TACCATGACCTTTAGCGGCACTTCTACAACAAACGCCACT
1 -ACCATGACCTTTAGCGGCGCTTTTACCACAAACGCCACT
26821882 ATAGGTCATA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 3 0.04
43 33 0.47
44 34 0.49
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.22
Consensus pattern (43 bp):
ACCATGACCTTTAGCGGCGCTTTTACCACAAACGCCACTCAAA
Found at i:26844631 original size:18 final size:18
Alignment explanation
Indices: 26844608--26844650 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
26844598 GCCGTCCTTT
26844608 GGCCTCCAACGACGTCCC
1 GGCCTCCAACGACGTCCC
26844626 GGCCTCCAACGACGTCCC
1 GGCCTCCAACGACGTCCC
26844644 GGCCTCC
1 GGCCTCC
26844651 GATTGCGACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.14, C:0.51, G:0.23, T:0.12
Consensus pattern (18 bp):
GGCCTCCAACGACGTCCC
Found at i:26845516 original size:73 final size:72
Alignment explanation
Indices: 26845392--26845622 Score: 268
Period size: 72 Copynumber: 3.2 Consensus size: 72
26845382 AGTGTTTTTG
* * * *
26845392 GCCGCTAAATCTCTGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGATTTTTTTGCGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG-GTTTTTTGCGGCGCTTTC
26845457 TTAAAAAC
65 TTAAAAAC
* *
26845465 GCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGGCTCAGGTTTTTTGCGGCGCTTTCT
1 GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCT
*
26845530 CAAAAAC
66 TAAAAAC
* * * * * * *
26845537 GCCGCTAAATCCACAAAAGCTAAAAAAACGGCATCGTTGGGTTTAGGCTTTCTTGCGGCG-TTT-
1 GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG-TTTTTTGCGGCGCTTTC
* *
26845600 TTGAGGAAGC
65 TT-A-AAAAC
26845610 GCCGCTAAATCCC
1 GCCGCTAAATCCC
26845623 TGAGCATTAG
Statistics
Matches: 135, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
71 1 0.01
72 67 0.50
73 67 0.50
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (72 bp):
GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCT
TAAAAAC
Found at i:26845732 original size:114 final size:113
Alignment explanation
Indices: 26845518--26845850 Score: 398
Period size: 114 Copynumber: 2.9 Consensus size: 113
26845508 CAGGTTTTTT
* * ** * *
26845518 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCACAAAAGCTAAAAAAACGGCATCGTTGGGTTTAG
1 GCGGCGCTTTCT-AAAAACGCCGCTAAATCCCCAAAAGCTCAAAAAACGGTGTCGTTGGGCTTAA
* * * * *
26845583 GCTTTCTTGCGGCG-TTTTTGAGGAAGCGCCGCTAAATCCCTGAGCATTA
65 GTTTTTTTGCGGCGCTTTCTCA-GAAACGCCGCTAAATCCCTGAGCATTA
*
26845632 GCGGCGCTTTACTAAAAACACCGCTAAATCCCCAAAAGCTCAAAAAACGGTGTCGTTGGGCTTAA
1 GCGGCGCTTT-CTAAAAACGCCGCTAAATCCCCAAAAGCTCAAAAAACGGTGTCGTTGGGCTTAA
* * * *
26845697 GTTTTTTTACGGCGCTTTCTCAAAAACGCCACTAAAGCCCTGAGCATTA
65 GTTTTTTTGCGGCGCTTTCTCAGAAACGCCGCTAAATCCCTGAGCATTA
* * * * * * * *
26845746 GCAGCGCTTCCTTAAAAACGCCGCAAAACCCCCGAAAGCTCACAAAACGTTGTCGTTGGGCTTAT
1 GCGGCGCTTTC-TAAAAACGCCGCTAAATCCCCAAAAGCTCAAAAAACGGTGTCGTTGGGCTTAA
*
26845811 GTTTTTTTGCGGCGCTTTCTTAGAAACGCCGCTAAATCCC
65 GTTTTTTTGCGGCGCTTTCTCAGAAACGCCGCTAAATCCC
26845851 CGAAAGCTTG
Statistics
Matches: 186, Mismatches: 30, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
113 1 0.01
114 178 0.96
115 7 0.04
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (113 bp):
GCGGCGCTTTCTAAAAACGCCGCTAAATCCCCAAAAGCTCAAAAAACGGTGTCGTTGGGCTTAAG
TTTTTTTGCGGCGCTTTCTCAGAAACGCCGCTAAATCCCTGAGCATTA
Found at i:26845841 original size:73 final size:72
Alignment explanation
Indices: 26845749--26845914 Score: 224
Period size: 73 Copynumber: 2.3 Consensus size: 72
26845739 AGCATTAGCA
* * *
26845749 GCGCTTCCTTAAAAACGCCGCAAAACCCCCGAAAGCTCACAAAACGTTGTCGTTGGGCTTATGTT
1 GCGCTTTCTTAAAAACGCCGCAAAACCCCCGAAAGCTCACAAAACGGTGTCGTTGGGCTTAAG-T
26845814 TTTTTGCG
65 TTTTTGCG
* * * ****
26845822 GCGCTTTCTTAGAAACGCCGCTAAATCCCCGAAAGCTTGGGAAACGGTGTCGTTGGGCTTAAGTT
1 GCGCTTTCTTAAAAACGCCGCAAAACCCCCGAAAGCTCACAAAACGGTGTCGTTGGGCTTAAGTT
26845887 TTTTGCG
66 TTTTGCG
*
26845894 GCGCTTTCTCAAAAACGCCGC
1 GCGCTTTCTTAAAAACGCCGC
26845915 TAATGCTTAT
Statistics
Matches: 81, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
72 28 0.35
73 53 0.65
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (72 bp):
GCGCTTTCTTAAAAACGCCGCAAAACCCCCGAAAGCTCACAAAACGGTGTCGTTGGGCTTAAGTT
TTTTGCG
Found at i:26846003 original size:12 final size:12
Alignment explanation
Indices: 26845986--26846011 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26845976 TTTTTTATAC
26845986 AAACGCCGCTAA
1 AAACGCCGCTAA
26845998 AAACGCCGCTAA
1 AAACGCCGCTAA
26846010 AA
1 AA
26846012 GTCTATTTTG
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:26852985 original size:2 final size:2
Alignment explanation
Indices: 26852978--26853008 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
26852968 TGAAATATCA
26852978 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 A
26853009 AACTTACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26861205 original size:27 final size:25
Alignment explanation
Indices: 26861175--26861226 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
26861165 TCGAAATGGT
*
26861175 GATTTCTTATTTTTATTCAATTATTTA
1 GATTTCTTATTTTAATT-AATT-TTTA
*
26861202 GATTTTTTATTTTAATTAATTTTTA
1 GATTTCTTATTTTAATTAATTTTTA
26861227 AATATGCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 4 0.17
26 4 0.17
27 15 0.65
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (25 bp):
GATTTCTTATTTTAATTAATTTTTA
Found at i:26862851 original size:32 final size:32
Alignment explanation
Indices: 26862814--26862876 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
26862804 TTATAATCTT
* *
26862814 ATAAATTTATTACTTGAATTTAATAACTCATG
1 ATAAATTAATTAATTGAATTTAATAACTCATG
* *
26862846 ATAAATTAATTAATTTAATTTGATAACTCAT
1 ATAAATTAATTAATTGAATTTAATAACTCAT
26862877 ACCGATTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (32 bp):
ATAAATTAATTAATTGAATTTAATAACTCATG
Found at i:26866661 original size:18 final size:19
Alignment explanation
Indices: 26866638--26866673 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
26866628 AATTGCTGCT
26866638 ATTTTTT-ACTGTTTTGCC
1 ATTTTTTAACTGTTTTGCC
*
26866656 ATTTTTTAATTGTTTTGC
1 ATTTTTTAACTGTTTTGC
26866674 TATCATTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.14, C:0.11, G:0.11, T:0.64
Consensus pattern (19 bp):
ATTTTTTAACTGTTTTGCC
Found at i:26872809 original size:22 final size:22
Alignment explanation
Indices: 26872783--26872824 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
26872773 CCTCAGCTAC
26872783 CCAAACACAACCAAACCCAAAT
1 CCAAACACAACCAAACCCAAAT
* *
26872805 CCAAACAGAACCAGACCCAA
1 CCAAACACAACCAAACCCAA
26872825 CTAGCCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.40, G:0.05, T:0.02
Consensus pattern (22 bp):
CCAAACACAACCAAACCCAAAT
Found at i:26873936 original size:3 final size:3
Alignment explanation
Indices: 26873930--26873965 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
26873920 ATAATAATAA
* *
26873930 TAT TAT TGT TAT TAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
26873966 AATTGCCCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:26874037 original size:24 final size:22
Alignment explanation
Indices: 26873988--26874048 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 22
26873978 ATATATACGT
* * *
26873988 TTTTTTATATATATACATATAT
1 TTTTTTATATATACACACATAC
26874010 TTTTTTATATACTTACACACATAC
1 TTTTTTATATA--TACACACATAC
26874034 TTTTTGTAATATATA
1 TTTTT-T-ATATATA
26874049 TATACAATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
22 11 0.34
24 15 0.47
25 1 0.03
26 5 0.16
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (22 bp):
TTTTTTATATATACACACATAC
Found at i:26874168 original size:18 final size:17
Alignment explanation
Indices: 26874145--26874180 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
26874135 TTTAATTTTA
*
26874145 TATTTGTTTATTTACTTT
1 TATTTGTTGATTT-CTTT
26874163 TATTTGTTGATTTCTTT
1 TATTTGTTGATTTCTTT
26874180 T
1 T
26874181 CATTATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.72
Consensus pattern (17 bp):
TATTTGTTGATTTCTTT
Found at i:26874500 original size:110 final size:110
Alignment explanation
Indices: 26874288--26874615 Score: 566
Period size: 111 Copynumber: 3.0 Consensus size: 110
26874278 TATCGAAAAC
*
26874288 AAAATTTGTCAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCTCTAAGGTGCT
1 AAAATTT-TCAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
* * * *
26874353 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTA
65 GGGTGTCGATTTTTCTCATTTAACCGAATAGCCAAATATCCTTTTA
*
26874399 AAAATTTTCAAATAAGGCAATGTTTTGCATTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTG
1 AAAATTTTCAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTG
26874464 GGTGTCGATTTTTCTCATTTAACCGAATAGCCAAATATCCTTTTA
66 GGTGTCGATTTTTCTCATTTAACCGAATAGCCAAATATCCTTTTA
* *
26874509 AAATTTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
1 AAA-ATTTTCAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
26874574 GGGTGTCGATTTTTCTCATTTAACCGAATAGCCAAATATCCT
65 GGGTGTCGATTTTTCTCATTTAACCGAATAGCCAAATATCCT
26874616 CTTGAATTTC
Statistics
Matches: 207, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
110 100 0.48
111 107 0.52
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (110 bp):
AAAATTTTCAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCATTTAACCGAATAGCCAAATATCCTTTTA
Found at i:26874646 original size:111 final size:110
Alignment explanation
Indices: 26874296--26874628 Score: 498
Period size: 110 Copynumber: 3.0 Consensus size: 110
26874286 ACAAAATTTG
*
26874296 TCAA-ATA-AGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCTCTAAGGTGCTGGGTGT
1 TCAATATATAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGT
* * * *
26874359 CGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAATTT
66 CGATTTTTCTCATTTAACCGAATAGCCAAATATCCTTTT-AAAA-TT
*
26874406 TCAA-ATA-AGGCAATGTTTTGCATTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGT
1 TCAATATATAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGT
26874469 CGATTTTTCTCATTTAACCGAATAGCCAAATATCCTTTTAAAATTTT
66 CGATTTTTCTCATTTAACCGAATAGCCAAATATCCTTTTAAAA--TT
* *
26874516 TTAAAATA-AGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGT
1 TCAATATATAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGT
* *
26874580 CGATTTTTCTCATTTAACCGAATAGCCAAATATCCTCTT-GAATT
66 CGATTTTTCTCATTTAACCGAATAGCCAAATATCCTTTTAAAATT
26874624 TCAAT
1 TCAAT
26874629 CCATATCATC
Statistics
Matches: 209, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
108 5 0.02
109 4 0.02
110 104 0.50
111 96 0.46
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (110 bp):
TCAATATATAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGT
CGATTTTTCTCATTTAACCGAATAGCCAAATATCCTTTTAAAATT
Found at i:26877607 original size:22 final size:22
Alignment explanation
Indices: 26877577--26877628 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
26877567 AAATTGTGAG
*
26877577 CTTGGTGAAGACTAGAATTGAC
1 CTTGTTGAAGACTAGAATTGAC
26877599 CTTGTTGAAGACTAGAATTGAC
1 CTTGTTGAAGACTAGAATTGAC
26877621 CTTGTTGA
1 CTTGTTGA
26877629 GTTACCTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (22 bp):
CTTGTTGAAGACTAGAATTGAC
Found at i:26878884 original size:20 final size:20
Alignment explanation
Indices: 26878859--26878896 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
26878849 GAGTCAAACA
26878859 AAAAAAATAAAAAATGAATG
1 AAAAAAATAAAAAATGAATG
*
26878879 AAAAAAATGAAAAATGAA
1 AAAAAAATAAAAAATGAA
26878897 AAAATGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (20 bp):
AAAAAAATAAAAAATGAATG
Found at i:26878898 original size:15 final size:15
Alignment explanation
Indices: 26878875--26878916 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
26878865 ATAAAAAATG
26878875 AATGAAAAAAATGAAA
1 AATG-AAAAAATGAAA
26878891 AATGAAAAAATGAAA
1 AATGAAAAAATGAAA
*
26878906 AA-GTAAAAATG
1 AATGAAAAAATG
26878917 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 8 0.32
15 13 0.52
16 4 0.16
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (15 bp):
AATGAAAAAATGAAA
Found at i:26879988 original size:46 final size:46
Alignment explanation
Indices: 26879919--26881086 Score: 1647
Period size: 46 Copynumber: 25.2 Consensus size: 46
26879909 AACAAATCGA
*
26879919 CGAAGATAGCAGATCTTGTCTTCCTGTATTGGGCAGCGGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* * *
26879965 CAAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGAAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* * * *
26880011 CAAAGATAGTAGATCTTGTCTTTCTGTATTGGGCAGCGGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* * *
26880057 CGAATATAGCAGATCTTGTCTTTCTGTATTTGGCAGCAGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* * *
26880103 CGAAGATAGCAAATCTTGTCTTCCTGTATTTGGCAGAGGAGAAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* *
26880149 TGAAGATAGCAGATCTTGTCTTCCTGTATTGGGCAGCGGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* * *
26880195 CGAAGATAACATATCTTGTCTTCCTGTATTTGGCAACGGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* * *
26880241 CGAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGTGGAGAAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
** * *
26880287 ATAAGATAGCAGATCTTGTCTTCCTGTATTGGGCAGTGGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* *
26880333 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGACAGCAGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* * *
26880379 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGTGAAGAAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
*
26880425 CGAAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* * * *
26880471 CGAAGACAGCAGATCTTGTCTTTCTATATTTGGCAGCGAAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* *
26880517 CGAAGATAGCAGATCTCGTCTTCCTGTATTTAGCAGCGGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* *
26880563 CGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGAAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* * **
26880609 CGAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCAGAAAAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* *
26880655 CGAAGATAACAGATCTTGTCTTTCTGTATTTGGCAGCGGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* * *
26880701 CGAAGATAACAGATCTTGTCTTCCTGTATTTGGC-TCGGAGAAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
26880746 CGAAGATAGCAGATCTTGTCTTCCTGTATTTAGCAGCGTATTTGACAGCAGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTT-G--GC--A---G-C-G--GAGGAGAT
* *
26880804 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGACAGCGGAAGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
*
26880850 CGAAGATAGCAGATCTTGTCTTTCTGTATTTGGCAGCGGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
*
26880896 CGAAGATAGAAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* * *
26880942 CGAAGATGGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* *
26880988 CGAAGATAGCAGATCTTATCTTCCTGTATTTGGCAACGGAGGAGAT
1 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
* * * *
26881034 CGAAGATAACAGATCTT-ACTTTCCTGTATTTGGCAGTGGAGTAGAT
1 CGAAGATAGCAGATCTTGTC-TTCCTGTATTTGGCAGCGGAGGAGAT
26881080 CGAAGAT
1 CGAAGAT
26881087 GGTGAATCTT
Statistics
Matches: 1000, Mismatches: 108, Indels: 28
0.88 0.10 0.02
Matches are distributed among these distances:
45 40 0.04
46 912 0.91
48 3 0.00
49 1 0.00
50 1 0.00
53 1 0.00
55 2 0.00
56 1 0.00
57 1 0.00
58 38 0.04
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGAT
Found at i:26881579 original size:22 final size:22
Alignment explanation
Indices: 26881553--26881594 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
26881543 CCTTAGCTAC
26881553 CCAAACACAACCAAACCCAAAT
1 CCAAACACAACCAAACCCAAAT
* *
26881575 CCAAACAGAACCAGACCCAA
1 CCAAACACAACCAAACCCAA
26881595 CTAGCCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.40, G:0.05, T:0.02
Consensus pattern (22 bp):
CCAAACACAACCAAACCCAAAT
Found at i:26882672 original size:20 final size:20
Alignment explanation
Indices: 26882632--26882673 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
26882622 ATATTTGCCC
* *
26882632 TTATATATATACACGTTTTT
1 TTATATATATACACATATTT
*
26882652 TTATATATATACATATATTT
1 TTATATATATACACATATTT
26882672 TT
1 TT
26882674 TTCTATACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.57
Consensus pattern (20 bp):
TTATATATATACACATATTT
Found at i:26882672 original size:22 final size:23
Alignment explanation
Indices: 26882632--26882713 Score: 64
Period size: 24 Copynumber: 3.6 Consensus size: 23
26882622 ATATTTGCCC
*
26882632 TTATATATATACAC---GTTTTT
1 TTATATATATACACATACTTTTT
*
26882652 TTATATATATACATATA-TTTTT
1 TTATATATATACACATACTTTTT
* *
26882674 TTCTATACTTACACACATACTTTTT
1 TTATATA--TATACACATACTTTTT
*
26882699 GTAATATATATACAC
1 -TTATATATATACAC
26882714 TTACATATTC
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
20 13 0.27
22 11 0.23
24 14 0.29
25 5 0.10
26 5 0.10
ACGTcount: A:0.34, C:0.13, G:0.02, T:0.50
Consensus pattern (23 bp):
TTATATATATACACATACTTTTT
Found at i:26882674 original size:24 final size:24
Alignment explanation
Indices: 26882647--26882713 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
26882637 TATATACACG
*
26882647 TTTTTTTATATATATACATATA-T
1 TTTTTTTATATATATACACATACT
*
26882670 TTTTTTCTATACT-TACACACATACT
1 TTTTTT-TATA-TATATACACATACT
* *
26882695 TTTTGTAATATATATACAC
1 TTTTTTTATATATATACAC
26882714 TTACATATTC
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
23 7 0.20
24 21 0.60
25 7 0.20
ACGTcount: A:0.33, C:0.13, G:0.01, T:0.52
Consensus pattern (24 bp):
TTTTTTTATATATATACACATACT
Found at i:26883019 original size:18 final size:17
Alignment explanation
Indices: 26882996--26883031 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
26882986 TTTAATTTTA
*
26882996 TATTTGTTTATTTACTTT
1 TATTTGTTGATTT-CTTT
26883014 TATTTGTTGATTTCTTT
1 TATTTGTTGATTTCTTT
26883031 T
1 T
26883032 CATTATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.72
Consensus pattern (17 bp):
TATTTGTTGATTTCTTT
Found at i:26883336 original size:110 final size:110
Alignment explanation
Indices: 26883139--26883346 Score: 389
Period size: 110 Copynumber: 1.9 Consensus size: 110
26883129 TATCAAAAAC
*
26883139 AAAAATTTTCAAATAAGGCAATGTTTTGCGTTTGAGAAATTCGAGAGAACGTGCCCTAAGGTGCT
1 AAAAATTTTCAAATAAGGCAATGTTTTGCGTTTGAGAAATTCGAGAAAACGTGCCCTAAGGTGCT
26883204 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
*
26883249 AAAAATTTTCAAATAAGGCAATGTTTTGCGTTTGAGAAATTCGAGAAAACGTGCCCTAAGGTGTT
1 AAAAATTTTCAAATAAGGCAATGTTTTGCGTTTGAGAAATTCGAGAAAACGTGCCCTAAGGTGCT
*
26883314 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCT
26883347 CATATCATCC
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 95 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (110 bp):
AAAAATTTTCAAATAAGGCAATGTTTTGCGTTTGAGAAATTCGAGAAAACGTGCCCTAAGGTGCT
GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
Found at i:26890224 original size:17 final size:16
Alignment explanation
Indices: 26890198--26890231 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
26890188 AGGGTTAGAG
*
26890198 AAAAAAAAGAAGAAGA
1 AAAAAAAAGAAAAAGA
26890214 AAAATAAAAGAAAAAGA
1 AAAA-AAAAGAAAAAGA
26890231 A
1 A
26890232 GGAGGAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAAAAAGAAAAAGA
Found at i:26892097 original size:28 final size:28
Alignment explanation
Indices: 26892066--26892119 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
26892056 CACACACCTA
*
26892066 AAAAAATAGTCACTACATGCATATTATT
1 AAAAAATACTCACTACATGCATATTATT
* *
26892094 AAAAAATACTCATTGCATGCATATTA
1 AAAAAATACTCACTACATGCATATTA
26892120 AAAATAGTCA
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:0.46, C:0.15, G:0.07, T:0.31
Consensus pattern (28 bp):
AAAAAATACTCACTACATGCATATTATT
Found at i:26896804 original size:15 final size:15
Alignment explanation
Indices: 26896751--26896806 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
26896741 AACTCTTATC
*
26896751 CTATTAGACACATCA
1 CTATCAGACACATCA
* **
26896766 CTTTCAGATGCATCA
1 CTATCAGACACATCA
26896781 CTA-CTAGACACATCA
1 CTATC-AGACACATCA
26896796 CTATCAGACAC
1 CTATCAGACAC
26896807 GGTTGTCTGA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
14 1 0.03
15 30 0.94
16 1 0.03
ACGTcount: A:0.36, C:0.30, G:0.09, T:0.25
Consensus pattern (15 bp):
CTATCAGACACATCA
Found at i:26897739 original size:17 final size:18
Alignment explanation
Indices: 26897714--26897757 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
26897704 GCCAAGTTGT
*
26897714 GCGTTTGGG-CCACACAG
1 GCGTGTGGGCCCACACAG
26897731 GCGTGTGGGCCCACACAG
1 GCGTGTGGGCCCACACAG
*
26897749 GCCTGTGGG
1 GCGTGTGGG
26897758 TTTTGGGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.14, C:0.30, G:0.41, T:0.16
Consensus pattern (18 bp):
GCGTGTGGGCCCACACAG
Found at i:26898065 original size:13 final size:13
Alignment explanation
Indices: 26898047--26898071 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26898037 GTATTTGTTT
26898047 TTCTGTATCTGTA
1 TTCTGTATCTGTA
26898060 TTCTGTATCTGT
1 TTCTGTATCTGT
26898072 GATTGGGGTG
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:0.12, C:0.16, G:0.16, T:0.56
Consensus pattern (13 bp):
TTCTGTATCTGTA
Found at i:26902696 original size:70 final size:71
Alignment explanation
Indices: 26902564--26902713 Score: 196
Period size: 70 Copynumber: 2.1 Consensus size: 71
26902554 AGGCCAAGTT
* * * *
26902564 GGGCGTGTGGGTTTTGGGCCAGGCCGTGTGGGCCACACGGGCTAGGCCAAGTTGGGCATGTGGG-
1 GGGCGTGTGGCTTTTGGGCCAGGCCGTGTAGGCCACACGGGCAAGGCCAAGTTAGGCATGTGGGC
*
26902628 CTACAC
66 CCACAC
* * *
26902634 GGGCGTGTGTCTTTTTGGCCAGGCCGTGTAGGCCACACGGGCAAGGCCAA-TCTAGGCGTGTGGG
1 GGGCGTGTGGCTTTTGGGCCAGGCCGTGTAGGCCACACGGGCAAGGCCAAGT-TAGGCATGTGGG
26902698 CCCACAC
65 CCCACAC
*
26902705 GGGCATGTG
1 GGGCGTGTG
26902714 AGCTCATAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
69 1 0.01
70 55 0.80
71 13 0.19
ACGTcount: A:0.14, C:0.25, G:0.41, T:0.20
Consensus pattern (71 bp):
GGGCGTGTGGCTTTTGGGCCAGGCCGTGTAGGCCACACGGGCAAGGCCAAGTTAGGCATGTGGGC
CCACAC
Found at i:26915658 original size:28 final size:28
Alignment explanation
Indices: 26915627--26915682 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
26915617 AATTAGGGAT
26915627 TAAAT-TGAGAAA-TGTGAAAATTGTATGG
1 TAAATGTGAGAAATTGTG-AAA-TGTATGG
*
26915655 TAAATGTGTGAAATTGTGAAATGTATGG
1 TAAATGTGAGAAATTGTGAAATGTATGG
26915683 GCTGCTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 12 0.48
29 9 0.36
30 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.34
Consensus pattern (28 bp):
TAAATGTGAGAAATTGTGAAATGTATGG
Found at i:26916524 original size:17 final size:17
Alignment explanation
Indices: 26916502--26916565 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
26916492 AATCTTAGAG
26916502 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
* *
26916519 TTCTAATTGTGT-CTTAGAG
1 TTCTAATTGTATAC--AG-C
26916538 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAGC
*
26916555 TTTTAATTGTA
1 TTCTAATTGTA
26916566 GTCCTTGGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 1 0.03
17 21 0.55
18 4 0.11
19 11 0.29
20 1 0.03
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAGC
Found at i:26916541 original size:36 final size:36
Alignment explanation
Indices: 26916494--26916564 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
26916484 GATTATGTAA
26916494 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
*
26916530 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTGT
1 TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGT
26916565 AGTCCTTGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.46
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAGCTTCTAATTGTG
Found at i:26916543 original size:19 final size:19
Alignment explanation
Indices: 26916493--26916549 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
26916483 TGATTATGTA
26916493 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
*
26916512 ATAC--AG-CTTCTAATTGT
1 AT-CTTAGAGTTCTAATTGT
*
26916529 GTCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
26916548 AT
1 AT
26916550 ACAGCTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 1 0.03
17 11 0.37
18 4 0.13
19 13 0.43
20 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (19 bp):
ATCTTAGAGTTCTAATTGT
Found at i:26921643 original size:17 final size:17
Alignment explanation
Indices: 26921621--26921684 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
26921611 AATCTTAGAG
26921621 TTCTAATTGTATACAAC
1 TTCTAATTGTATACAAC
* *
26921638 TTCTAATTGTGT-CTTAGAG
1 TTCTAATTGTATAC--A-AC
*
26921657 TTCTAATTGTATACAGC
1 TTCTAATTGTATACAAC
*
26921674 TTTTAATTGTA
1 TTCTAATTGTA
26921685 GCCTTTGATG
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 1 0.03
17 21 0.57
18 2 0.05
19 12 0.32
20 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (17 bp):
TTCTAATTGTATACAAC
Found at i:26921660 original size:36 final size:36
Alignment explanation
Indices: 26921613--26921683 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
26921603 GATTATGTAA
26921613 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
* *
26921649 TCTTAGAGTTCTAATTGTATACAGCTTTTAATTGT
1 TCTTAGAGTTCTAATTGTATACAACTTCTAATTGT
26921684 AGCCTTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (36 bp):
TCTTAGAGTTCTAATTGTATACAACTTCTAATTGTG
Found at i:26921662 original size:19 final size:19
Alignment explanation
Indices: 26921612--26921668 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
26921602 TGATTATGTA
26921612 ATCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
*
26921631 ATAC--A-ACTTCTAATTGT
1 AT-CTTAGAGTTCTAATTGT
*
26921648 GTCTTAGAGTTCTAATTGT
1 ATCTTAGAGTTCTAATTGT
26921667 AT
1 AT
26921669 ACAGCTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 1 0.03
17 12 0.40
18 2 0.07
19 14 0.47
20 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (19 bp):
ATCTTAGAGTTCTAATTGT
Found at i:26921963 original size:48 final size:48
Alignment explanation
Indices: 26921888--26921982 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
26921878 TGAGGGAATT
* *
26921888 CTGTTGAATTATTTATCGTTGCAAGTTAGGCTGACTTAGGCATTTTTG
1 CTGTTGAATCATTTATCATTGCAAGTTAGGCTGACTTAGGCATTTTTG
* * *
26921936 CTGTTGAATCCTTTATCATTGCGAGTTAGGCTGACTTAGGCGTTTTT
1 CTGTTGAATCATTTATCATTGCAAGTTAGGCTGACTTAGGCATTTTT
26921983 AAGCAAAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.43
Consensus pattern (48 bp):
CTGTTGAATCATTTATCATTGCAAGTTAGGCTGACTTAGGCATTTTTG
Found at i:26936297 original size:36 final size:37
Alignment explanation
Indices: 26936238--26936311 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 37
26936228 TATAGTTTCT
*
26936238 GCATTGCATTTTACTCGCTTTTTAATACTTTTATCTA
1 GCATTGCATTTTACTCGCATTTTAATACTTTTATCTA
* **
26936275 GCATTGCA-TTTACTCGCATTTTAGTGGTTTTATCTA
1 GCATTGCATTTTACTCGCATTTTAATACTTTTATCTA
26936311 G
1 G
26936312 TCTGCAGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
36 25 0.76
37 8 0.24
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (37 bp):
GCATTGCATTTTACTCGCATTTTAATACTTTTATCTA
Found at i:26939733 original size:3 final size:3
Alignment explanation
Indices: 26939725--26939786 Score: 81
Period size: 3 Copynumber: 20.3 Consensus size: 3
26939715 AAGTGAGACC
* *
26939725 TCT TCT TCTT TCT TCT TTT TCT T-T TTT TCTT TCT TCT TCT TCT TCT
1 TCT TCT TC-T TCT TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT
26939771 TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT T
26939787 TTTTTGCCGT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TCT
Found at i:26945173 original size:15 final size:15
Alignment explanation
Indices: 26945155--26945185 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
26945145 GGGGTTTGGG
26945155 GATATATCGACGGCT
1 GATATATCGACGGCT
26945170 GATATATCGACGGCT
1 GATATATCGACGGCT
26945185 G
1 G
26945186 CCAAAAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (15 bp):
GATATATCGACGGCT
Found at i:26954594 original size:195 final size:195
Alignment explanation
Indices: 26954262--26954651 Score: 645
Period size: 195 Copynumber: 2.0 Consensus size: 195
26954252 CTATTCTGAA
* * *
26954262 TTTTTATACTAGCTTTAGTAGTTGACTCTATTGTAGATTCTAGATTAATCTGATGCTCCACCTGC
1 TTTTTATACTAGCTTGAGGAGTCGACTCTATTGTAGATTCTAGATTAATCTGATGCTCCACCTGC
* * * * *
26954327 TTTTGATTTTCTTTATTGGAATAGTCTTTAAGAGATAAGTTAGGTAGCATAGCAGTTTCATCAAA
66 TTTTAATTTTCTTTATTGAAAGAGCCTTTAAGAGATAAGTTAGGTAGCATAGCAGTTTCATAAAA
26954392 AACAACATCTCTGCTAATCACAACTTTTCTATTTTCAGGACACCATAACTTATACCCTTTTACAC
131 AACAACATCTCTGCTAATCACAACTTTTCTATTTTCAGGACACCATAACTTATACCCTTTTACAC
* * * *
26954457 TTTTTATACTAGCTTGAGGAGTCGACTCTGTTGTAGATTTTGGATTAATCTGATGTTCCACCTGC
1 TTTTTATACTAGCTTGAGGAGTCGACTCTATTGTAGATTCTAGATTAATCTGATGCTCCACCTGC
* *
26954522 TTTTAATTTTCTTTATTGAAAGAGCCTTTAAGAGATACGTTAGGTAGCATAGTAGTTTCATAAAA
66 TTTTAATTTTCTTTATTGAAAGAGCCTTTAAGAGATAAGTTAGGTAGCATAGCAGTTTCATAAAA
*
26954587 AACAACATCTCTGCTAATCACAACTTTTTTATTTTCAGGACACCATAACTTATACCCTTTTACAC
131 AACAACATCTCTGCTAATCACAACTTTTCTATTTTCAGGACACCATAACTTATACCCTTTTACAC
26954652 CATCTTTAGA
Statistics
Matches: 180, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
195 180 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (195 bp):
TTTTTATACTAGCTTGAGGAGTCGACTCTATTGTAGATTCTAGATTAATCTGATGCTCCACCTGC
TTTTAATTTTCTTTATTGAAAGAGCCTTTAAGAGATAAGTTAGGTAGCATAGCAGTTTCATAAAA
AACAACATCTCTGCTAATCACAACTTTTCTATTTTCAGGACACCATAACTTATACCCTTTTACAC
Found at i:26960399 original size:24 final size:23
Alignment explanation
Indices: 26960371--26960417 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
26960361 TAAACAAATG
26960371 AAGGAAATAAACAA-AAAAAATATA
1 AAGGAAA-AAA-AATAAAAAATATA
*
26960395 AAGGAAAAAAAATACAAAATATA
1 AAGGAAAAAAAATAAAAAATATA
26960418 TACATTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 2 0.10
23 12 0.57
24 7 0.33
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.13
Consensus pattern (23 bp):
AAGGAAAAAAAATAAAAAATATA
Found at i:26960673 original size:24 final size:24
Alignment explanation
Indices: 26960646--26960700 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
26960636 ATTAGAAAAA
* *
26960646 ATATATAAATAT-ATACATGTACAT
1 ATATATAAAAATAAT-CATATACAT
* *
26960670 ATATAAAAAAATAATTATATACAT
1 ATATATAAAAATAATCATATACAT
26960694 ATATATA
1 ATATATA
26960701 GATTATAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.36
Consensus pattern (24 bp):
ATATATAAAAATAATCATATACAT
Found at i:26960690 original size:30 final size:33
Alignment explanation
Indices: 26960650--26960730 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 33
26960640 GAAAAAATAT
* *
26960650 ATAAATATATACATGTACAT-A-TATAAAAAA-
1 ATAATTATATACATATACATAATTATAAAAAAG
*
26960680 ATAATTATATACATATATATAGATTATAAAAAAG
1 ATAATTATATACATATACATA-ATTATAAAAAAG
* *
26960714 ATAATTACATATATATA
1 ATAATTATATACATATA
26960731 TAAAAACAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 17 0.40
32 1 0.02
33 9 0.21
34 15 0.36
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.35
Consensus pattern (33 bp):
ATAATTATATACATATACATAATTATAAAAAAG
Found at i:26960743 original size:26 final size:26
Alignment explanation
Indices: 26960668--26960745 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 26
26960658 ATACATGTAC
*
26960668 ATATATA-AAAAAATAATTATATACAT
1 ATATATATAAAAAA-AATAATATACAT
26960694 ATATATAGATTATAAAAAAGATAAT-TACAT
1 ATATAT--A-TA-AAAAAA-ATAATATACAT
26960724 ATATATATAAAAACAAATAATA
1 ATATATATAAAAA-AAATAATA
26960746 ATAATTACAT
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
26 15 0.35
27 4 0.09
28 2 0.05
30 13 0.30
31 9 0.21
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.32
Consensus pattern (26 bp):
ATATATATAAAAAAAATAATATACAT
Found at i:26960788 original size:12 final size:12
Alignment explanation
Indices: 26960771--26960796 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26960761 GAAATTAATT
26960771 AATAAAAAAATA
1 AATAAAAAAATA
26960783 AATAAAAAAATA
1 AATAAAAAAATA
26960795 AA
1 AA
26960797 AAGGACTAAA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AATAAAAAAATA
Found at i:26967661 original size:22 final size:22
Alignment explanation
Indices: 26967633--26967675 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
26967623 GTTTCTTAGT
26967633 TTTTTTCGATTATATTGTATTC
1 TTTTTTCGATTATATTGTATTC
26967655 TTTTTTCGATTATATTGTATT
1 TTTTTTCGATTATATTGTATT
26967676 TTGGATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.07, G:0.09, T:0.65
Consensus pattern (22 bp):
TTTTTTCGATTATATTGTATTC
Found at i:26980083 original size:20 final size:20
Alignment explanation
Indices: 26980050--26980091 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
26980040 TTTATTTCTT
* * *
26980050 AACAATAATTTTAAAAACTA
1 AACAAAAATCTTAAAAAATA
26980070 AACAAAAATCTTAAAAAATA
1 AACAAAAATCTTAAAAAATA
26980090 AA
1 AA
26980092 TATAAACTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (20 bp):
AACAAAAATCTTAAAAAATA
Found at i:26982889 original size:22 final size:22
Alignment explanation
Indices: 26982837--26982903 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
26982827 TGCACTATTG
26982837 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* * * *
26982859 TACAAAGAGCACGAATGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* * *
26982881 AACGGAGAGTACTAAGGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
26982903 A
1 A
26982904 TAATAGGAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:26984271 original size:31 final size:31
Alignment explanation
Indices: 26984236--26984301 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
26984226 CTATTTATGT
* *
26984236 AGGTTGGCCGAAAGTTGG-GGTTCATTTAGCA
1 AGGTTAGCCGAAAG-TGGAGATTCATTTAGCA
*
26984267 AGGTTAGCCGAATGTGGAGATTCATTTAGCA
1 AGGTTAGCCGAAAGTGGAGATTCATTTAGCA
26984298 AGGT
1 AGGT
26984302 GCATGCATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 3 0.10
31 28 0.90
ACGTcount: A:0.26, C:0.12, G:0.33, T:0.29
Consensus pattern (31 bp):
AGGTTAGCCGAAAGTGGAGATTCATTTAGCA
Found at i:26985117 original size:23 final size:23
Alignment explanation
Indices: 26985087--26985153 Score: 116
Period size: 23 Copynumber: 2.9 Consensus size: 23
26985077 CCTTTTTGAA
26985087 CCATTTCCATTTCGTACCAAATT
1 CCATTTCCATTTCGTACCAAATT
26985110 CCATTTCCATTTCGTACCAAATT
1 CCATTTCCATTTCGTACCAAATT
* *
26985133 ACATTACCATTTCGTACCAAA
1 CCATTTCCATTTCGTACCAAA
26985154 CCTAAACCCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.30, C:0.30, G:0.04, T:0.36
Consensus pattern (23 bp):
CCATTTCCATTTCGTACCAAATT
Found at i:26985544 original size:24 final size:24
Alignment explanation
Indices: 26985517--26985578 Score: 56
Period size: 24 Copynumber: 2.6 Consensus size: 24
26985507 AAAAATACGA
26985517 AATTAAAAAAAAGGAAAAAAAGTG
1 AATTAAAAAAAAGGAAAAAAAGTG
* ***
26985541 AATTGAAATTAAAA--AAAATTCGTG
1 AATT-AAA-AAAAAGGAAAAAAAGTG
26985565 AATTAAAAAAAAGG
1 AATTAAAAAAAAGG
26985579 GGTGTTGTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
22 4 0.14
23 3 0.10
24 15 0.52
25 3 0.10
26 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.15, T:0.19
Consensus pattern (24 bp):
AATTAAAAAAAAGGAAAAAAAGTG
Found at i:26987677 original size:19 final size:21
Alignment explanation
Indices: 26987648--26987691 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
26987638 GAAATGAGAG
26987648 AAAAAGAAAAGAAAA-ATGAA
1 AAAAAGAAAAGAAAACATGAA
*
26987668 AAAAAG-AAAGAAAACTTGAA
1 AAAAAGAAAAGAAAACATGAA
26987688 AAAA
1 AAAA
26987692 GAGAGTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.77, C:0.02, G:0.14, T:0.07
Consensus pattern (21 bp):
AAAAAGAAAAGAAAACATGAA
Found at i:26991070 original size:31 final size:31
Alignment explanation
Indices: 26991035--26991100 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
26991025 CTATTTATGT
* * *
26991035 AGGTTGGCCGAATGTGGGGGTTCATTTAGCA
1 AGGTTAGCCGAATGTGGAGATTCATTTAGCA
26991066 AGGTTAGCCGAATGTGGAGATTCATTTAGCA
1 AGGTTAGCCGAATGTGGAGATTCATTTAGCA
26991097 AGGT
1 AGGT
26991101 GCATGCATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.24, C:0.12, G:0.35, T:0.29
Consensus pattern (31 bp):
AGGTTAGCCGAATGTGGAGATTCATTTAGCA
Done.