Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 86 of 132
Found at i:26107146 original size:52 final size:52
Alignment explanation
Indices: 26106491--26107147 Score: 852
Period size: 52 Copynumber: 12.7 Consensus size: 52
26106481 GGAATTTAAC
* ** * *
26106491 CATATACTCACGATG--ACATAGTCAT-GGACCTCTTGTTCTGTAAAGGAAT
1 CATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATT
* * * *** * *
26106540 CATACACTCATGATGACTCATAGTCATTAAACCTTATAATCCATAAAGGATT
1 CATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATT
* * *
26106592 CATATACTCACGACGACACATAGTCATCGGACATTATAATCCGTAAAGGATT
1 CATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATT
** *
26106644 CATATACTCACGACAACACATAGTCATCGGACCTCATAATCCGTAAAGGGTT
1 CATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATT
* * * *
26106696 CATATACTCAGGATGACACATAGTCATCAGACCTTATAATCTGTAAAGGATT
1 CATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATT
*
26106748 CATATACTCACGATGACACATAGTCATCGGACCTTATAATCCGTAAAGGATT
1 CATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATT
** ** *
26106800 CATATACTCACGATGACACATAGTCATCGGACCTGTTGTTCCGTAAAGGAAT
1 CATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATT
* * *
26106852 CATACACTCACGATGACACATAGTCATCAGACCTTATAATCCGTAAAGGATT
1 CATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATT
* *
26106904 CATATACTCATGACGACACATAGTCATCGGACCTCATAATCCGTAAAGGATT
1 CATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATT
* * * ** * * *
26106956 CATATGCTCATGACGACATGTAGTTATCAGACCTCATAATCCATAAAGGATT
1 CATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATT
* * *
26107008 CATATACTCACGATGGCACATAGTCATTGGACCTCATAATCTGTAAAGGATT
1 CATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATT
* * * *
26107060 CATATTCTCATGATGACACATAGTCATCGAACCTCATAATCCATAAAGGATT
1 CATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATT
26107112 CATATACTCACGATGACACATAGTCATCGGACCTCA
1 CATATACTCACGATGACACATAGTCATCGGACCTCA
26107148 GTCATTTATG
Statistics
Matches: 526, Mismatches: 79, Indels: 3
0.87 0.13 0.00
Matches are distributed among these distances:
49 13 0.02
51 9 0.02
52 504 0.96
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (52 bp):
CATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATT
Found at i:26114353 original size:21 final size:20
Alignment explanation
Indices: 26114329--26114368 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
26114319 TAAACTTAGC
*
26114329 ATTACTGAGTTAGAAAATGCA
1 ATTACTAAGTT-GAAAATGCA
*
26114350 ATTACTAAGTTTAAAATGC
1 ATTACTAAGTTGAAAATGC
26114369 TAAAAATGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (20 bp):
ATTACTAAGTTGAAAATGCA
Found at i:26119022 original size:42 final size:41
Alignment explanation
Indices: 26118882--26119754 Score: 685
Period size: 39 Copynumber: 21.5 Consensus size: 41
26118872 AGAGCAAAGA
* *
26118882 AAGACATCATCCAATCTTTTACCTCGATCATGAGGCAGATTG
1 AAGACATCATCCAATCTCTTACC-CGATCATGGGGCAGATTG
* *
26118924 AAGACATCAT-AAATCTCTTACCCCGACCATGGGGCAGATTG
1 AAGACATCATCCAATCTCTTA-CCCGATCATGGGGCAGATTG
* * * *
26118965 AAG---TCATCCAATCTCTTACATCGATCTTGGGGCAAAATG
1 AAGACATCATCCAATCTCTTAC-CCGATCATGGGGCAGATTG
* *
26119004 AAGACATCATCCAATCTCTTACGCTGACCATGGGGCAGATTG
1 AAGACATCATCCAATCTCTTAC-CCGATCATGGGGCAGATTG
* * *
26119046 AA-AC--CATCCAATTTCCTACCCTGATCATGAGGCAGATTG
1 AAGACATCATCCAATCTCTTACCC-GATCATGGGGCAGATTG
* *
26119085 AAGACATCATCCAATCTCTTATCCCGACCATGGGGCAAATTG
1 AAGACATCATCCAATCTCTTA-CCCGATCATGGGGCAGATTG
* * * *
26119127 AAG---TCATCCAATCTCTTACCCCAATCGTAGGGTAGATTG
1 AAGACATCATCCAATCTCTTA-CCCGATCATGGGGCAGATTG
* * * ** *
26119166 AAGACATCATCCAATCTCTCACCCTGACCATGAGGTTGACTG
1 AAGACATCATCCAATCTCTTACCC-GATCATGGGGCAGATTG
* *
26119208 AAG-C--CATCCAATCTCTTACCCCGATCATGAGGCAGATTA
1 AAGACATCATCCAATCTCTTA-CCCGATCATGGGGCAGATTG
* * * * * *
26119247 AAGACATAATCCAATTTTTTACCCTAACCATGGTGCAGATTG
1 AAGACATCATCCAATCTCTTACCC-GATCATGGGGCAGATTG
* * * * * *
26119289 AAG-C--CGTCCAATCTCCTACCCCAAGCATGGGGTAGATTA
1 AAGACATCATCCAATCTCTTA-CCCGATCATGGGGCAGATTG
* * *
26119328 AAGACATCATCCAATCTTTTACCTCGACCATGGGCCAGATTG
1 AAGACATCATCCAATCTCTTACC-CGATCATGGGGCAGATTG
*
26119370 AAG-CGATCAT---ATCTCTTACCCTGATCATGGGGCAAATTG
1 AAGAC-ATCATCCAATCTCTTACCC-GATCATGGGGCAGATTG
* * *
26119409 AAGACATCATCCAATCTCTTACCCCGACCATGAGGAAGATTG
1 AAGACATCATCCAATCTCTTA-CCCGATCATGGGGCAGATTG
* * * * *
26119451 AAG-C--CATCCAATCTCCTACGTCGATCATGAGGTAAATTG
1 AAGACATCATCCAATCTCTTAC-CCGATCATGGGGCAGATTG
* * * *
26119490 AAGACATCATCTAATCTCTTACCTCAACCATGGGACAGATTG
1 AAGACATCATCCAATCTCTTACC-CGATCATGGGGCAGATTG
* * * * *
26119532 AAG-C-T-ATCTAATTTTTTACATCGATCATGAGGCAGATTG
1 AAGACATCATCCAATCTCTTAC-CCGATCATGGGGCAGATTG
* * * * *
26119571 AAGACATCATCCAATCTCTTACCCTAACCATAGGGCTGATTC
1 AAGACATCATCCAATCTCTTACCC-GATCATGGGGCAGATTG
26119613 AAG-C--CATCCAATCTCTTACCCCGATCATGGGGCAGATTG
1 AAGACATCATCCAATCTCTTA-CCCGATCATGGGGCAGATTG
* *
26119652 AAGACATCATCCAATCTTTTACCCCGACCATGGGGCAGATTG
1 AAGACATCATCCAATCTCTTA-CCCGATCATGGGGCAGATTG
* *
26119694 AAG-CA--ATCCAATCTCTTACCCCAATCATGGGGTAGATTG
1 AAGACATCATCCAATCTCTTA-CCCGATCATGGGGCAGATTG
* *
26119733 CAGACATCATCCAATCTTTTAC
1 AAGACATCATCCAATCTCTTAC
26119755 TGTAACAGCC
Statistics
Matches: 657, Mismatches: 125, Indels: 99
0.75 0.14 0.11
Matches are distributed among these distances:
38 8 0.01
39 293 0.45
40 20 0.03
41 48 0.07
42 282 0.43
43 6 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (41 bp):
AAGACATCATCCAATCTCTTACCCGATCATGGGGCAGATTG
Found at i:26119047 original size:81 final size:81
Alignment explanation
Indices: 26118889--26119754 Score: 977
Period size: 81 Copynumber: 10.7 Consensus size: 81
26118879 AGAAAGACAT
* * * * *
26118889 CATCCAATCTTTTACCTCGATCATGAGGCAGATTGAAGACATCAT-AAATCTCTTACCCCGACCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCTGACCA
*
26118953 TGGGGCAGATTGAAGT
66 TGGGGCAGATTGAAGC
** * * * *
26118969 CATCCAATCTCTTACATCGATCTTGGGGCAAAATGAAGACATCATCCAATCTCTTACGCTGACCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCTGACCA
*
26119034 TGGGGCAGATTGAAAC
66 TGGGGCAGATTGAAGC
* * * *
26119050 CATCCAATTTCCTACCCTGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTATCCC-GACC
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTA-CCCTGACC
* *
26119114 ATGGGGCAAATTGAAGT
65 ATGGGGCAGATTGAAGC
* * * * *
26119131 CATCCAATCTCTTACCCCAATCGTAGGGTAGATTGAAGACATCATCCAATCTCTCACCCTGACCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCTGACCA
* ** *
26119196 TGAGGTTGACTGAAGC
66 TGGGGCAGATTGAAGC
* * * * * *
26119212 CATCCAATCTCTTACCCCGATCATGAGGCAGATTAAAGACATAATCCAATTTTTTACCCTAACCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCTGACCA
*
26119277 TGGTGCAGATTGAAGC
66 TGGGGCAGATTGAAGC
* * * * * * *
26119293 CGTCCAATCTCCTACCCCAAGCATGGGGTAGATTAAAGACATCATCCAATCTTTTA-CCTCGACC
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCT-GACC
*
26119357 ATGGGCCAGATTGAAGC
65 ATGGGGCAGATTGAAGC
* * * *
26119374 GAT-CATATCTCTTACCCTGATCATGGGGCAAATTGAAGACATCATCCAATCTCTTACCCCGACC
1 CATCCA-ATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCTGACC
* *
26119438 ATGAGGAAGATTGAAGC
65 ATGGGGCAGATTGAAGC
* ** * * * * *
26119455 CATCCAATCTCCTACGTCGATCATGAGGTAAATTGAAGACATCATCTAATCTCTTA-CCTCAACC
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCT-GACC
*
26119519 ATGGGACAGATTGAAGC
65 ATGGGGCAGATTGAAGC
* * * * ** * *
26119536 TATCTAATTTTTTACATCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACCCTAACCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCTGACCA
* * *
26119601 TAGGGCTGATTCAAGC
66 TGGGGCAGATTGAAGC
* *
26119617 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTTTTACCCCGACCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCTGACCA
26119682 TGGGGCAGATTGAAGC
66 TGGGGCAGATTGAAGC
* * * * *
26119698 AATCCAATCTCTTACCCCAATCATGGGGTAGATTGCAGACATCATCCAATCTTTTAC
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTAC
26119755 TGTAACAGCC
Statistics
Matches: 654, Mismatches: 123, Indels: 17
0.82 0.15 0.02
Matches are distributed among these distances:
80 49 0.07
81 596 0.91
82 9 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (81 bp):
CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCTGACCA
TGGGGCAGATTGAAGC
Found at i:26126241 original size:18 final size:19
Alignment explanation
Indices: 26126194--26126241 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
26126184 TATTGCTCTT
* *
26126194 ACGAGCCAGTATCGTTCTA
1 ACGAGCCAGTATCGCTCAA
**
26126213 ACGAGATAGTAT-GCTCAA
1 ACGAGCCAGTATCGCTCAA
26126231 ACGAGCCAGTA
1 ACGAGCCAGTA
26126242 GGCTATTCCT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (19 bp):
ACGAGCCAGTATCGCTCAA
Found at i:26133640 original size:21 final size:22
Alignment explanation
Indices: 26133616--26133658 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
26133606 ACTTTCATCA
26133616 TTAAGCTTAATT-AACCCATTT
1 TTAAGCTTAATTAAACCCATTT
* *
26133637 TTAATCTTGATTAAACCCATTT
1 TTAAGCTTAATTAAACCCATTT
26133659 ATACTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (22 bp):
TTAAGCTTAATTAAACCCATTT
Found at i:26134620 original size:19 final size:19
Alignment explanation
Indices: 26134596--26134674 Score: 81
Period size: 18 Copynumber: 4.3 Consensus size: 19
26134586 CTATTGAATA
* *
26134596 AGTATTTCTCTTTCGAGCC
1 AGTATTGCTCTTACGAGCC
*
26134615 AGTATTGCTCTTACGAGTC
1 AGTATTGCTCTTACGAGCC
* *
26134634 AGTA-TGCTCTAATGAGCC
1 AGTATTGCTCTTACGAGCC
* *
26134652 AGTA-TGCGCTAACGAGCC
1 AGTATTGCTCTTACGAGCC
26134670 AGTAT
1 AGTAT
26134675 GCTATTCCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
18 31 0.61
19 20 0.39
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.32
Consensus pattern (19 bp):
AGTATTGCTCTTACGAGCC
Found at i:26134643 original size:18 final size:18
Alignment explanation
Indices: 26134609--26134677 Score: 93
Period size: 18 Copynumber: 3.8 Consensus size: 18
26134599 ATTTCTCTTT
*
26134609 CGAGCCAGTATTGCTCTTA
1 CGAGCCAGTA-TGCTCTAA
*
26134628 CGAGTCAGTATGCTCTAA
1 CGAGCCAGTATGCTCTAA
* *
26134646 TGAGCCAGTATGCGCTAA
1 CGAGCCAGTATGCTCTAA
26134664 CGAGCCAGTATGCT
1 CGAGCCAGTATGCT
26134678 ATTCCTTCAG
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
18 34 0.79
19 9 0.21
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (18 bp):
CGAGCCAGTATGCTCTAA
Found at i:26136169 original size:39 final size:39
Alignment explanation
Indices: 26135810--26136176 Score: 410
Period size: 39 Copynumber: 9.1 Consensus size: 39
26135800 ACTTTTCCCG
*
26135810 ACCATGGGGCAGATTGAAGCCATCCAATCTCATACCCCA
1 ACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCA
* * *
26135849 ATCATGGGGCAGGTTGAAGACATCATCCAATCTCTTACCCTA
1 ACCATGGGGCAGATTGAAG-C--CATCCAATCTCTTACCCCA
* *
26135891 ACCATGGGGCAGATTGAAGCCATCCAATCTTTTACCCCG
1 ACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCA
* * *
26135930 ACCATTGGGTAGATTGAAGACATCCTTCAATCTCTTACCCCA
1 ACCATGGGGCAGATTGAAGCCAT-C--CAATCTCTTACCCCA
* * * *
26135972 ACCATGGGGCTGATTGAAGCCATCTAATCTCGTACCCCC
1 ACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCA
* * * *
26136011 ATCATGGGGAATATTAAAGACATCATCCAATCTCTTACCCCA
1 ACCATGGGGCAGATTGAAG-C--CATCCAATCTCTTACCCCA
* *
26136053 ACCATGGGGTAGGTTGAAGCCATCCAATCTCTTACCCCA
1 ACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCA
* *
26136092 ATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCG
1 ACCATGGGGCAGATTGAAG-C--CATCCAATCTCTTACCCCA
* * *
26136134 ACCATGAGGCAGATTGAAGCCATCCAATCTTTTACCCTA
1 ACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCA
26136173 ACCA
1 ACCA
26136177 AAGGGCAAAT
Statistics
Matches: 273, Mismatches: 43, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
39 134 0.49
40 4 0.01
41 4 0.01
42 131 0.48
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (39 bp):
ACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCA
Found at i:26136194 original size:81 final size:81
Alignment explanation
Indices: 26135810--26136170 Score: 524
Period size: 81 Copynumber: 4.5 Consensus size: 81
26135800 ACTTTTCCCG
* *
26135810 ACCATGGGGCAGATTGAAGCCATCCAATCTCATACCCCAATCATGGGGCAGGTTGAAGACATCAT
1 ACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACATCAT
*
26135875 CCAATCTCTTACCCTA
66 CCAATCTCTTACCCCA
* * * * * *
26135891 ACCATGGGGCAGATTGAAGCCATCCAATCTTTTACCCCGACCATTGGGTAGATTGAAGACATCCT
1 ACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACATCAT
*
26135956 TCAATCTCTTACCCCA
66 CCAATCTCTTACCCCA
* * * * * * *
26135972 ACCATGGGGCTGATTGAAGCCATCTAATCTCGTACCCCCATCATGGGGAATATTAAAGACATCAT
1 ACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACATCAT
26136037 CCAATCTCTTACCCCA
66 CCAATCTCTTACCCCA
* *
26136053 ACCATGGGGTAGGTTGAAGCCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACATCAT
1 ACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACATCAT
*
26136118 CCAATCTCTTACCCCG
66 CCAATCTCTTACCCCA
* *
26136134 ACCATGAGGCAGATTGAAGCCATCCAATCTTTTACCC
1 ACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCC
26136171 TAACCAAAGG
Statistics
Matches: 244, Mismatches: 36, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 244 1.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.24
Consensus pattern (81 bp):
ACCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACATCAT
CCAATCTCTTACCCCA
Found at i:26141359 original size:15 final size:14
Alignment explanation
Indices: 26141334--26141385 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
26141324 AATTTTAAAC
26141334 AGAAAAAATAAAAG
1 AGAAAAAATAAAAG
26141348 AGAAACAAATAAAAG
1 AGAAA-AAATAAAAG
* *
26141363 TA-AATAAATAAAAA
1 -AGAAAAAATAAAAG
*
26141377 ATAAAAAAT
1 AGAAAAAAT
26141386 GCATCGACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
13 1 0.03
14 19 0.59
15 11 0.34
16 1 0.03
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.13
Consensus pattern (14 bp):
AGAAAAAATAAAAG
Found at i:26147955 original size:7 final size:7
Alignment explanation
Indices: 26147943--26147969 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
26147933 TCTTGATGAT
26147943 TTCTTCA
1 TTCTTCA
26147950 TTCTTCA
1 TTCTTCA
26147957 TTCTTCA
1 TTCTTCA
26147964 TTCTTC
1 TTCTTC
26147970 TATTTATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.30, G:0.00, T:0.59
Consensus pattern (7 bp):
TTCTTCA
Found at i:26150438 original size:220 final size:216
Alignment explanation
Indices: 26149960--26150443 Score: 525
Period size: 218 Copynumber: 2.2 Consensus size: 216
26149950 TTAAAAAGAC
* * *
26149960 TTTTCTTCGAACTTAAATAATCGAATATTCTATTTAAAATCGATAATCGCTATTTTTACTTGTAA
1 TTTTCTTTGAACCTAAATAATCGAATATCCTATTTAAAATCGATAATCGCTATTTTTACTTGTAA
* * ** * *
26150025 ATGACATGGGTTTATCCATCTTTTTGCAAAGCATTTTTAATGAAATAAAATGTATATCATTTTTT
66 ATGACATGAGTTTATCCATCTTTTTGCAAAACATTTTTAACAAAATAAAATGCATATCAGTTTTT
* * *
26150090 TAAATGCATAAATTATTTTAAAAAATAAAAGTAATTCTCTTTTATTTTAGAGAATTCGAAAAGTG
131 AAAATACATAAATTATTTTAAAAAAT-AAAGCAATTCTCTTTTATTTTAGAGAATTCGAAAAGTG
* * *
26150155 GTGCCTTAATGTGTTGGGTACA
195 ATGCCCTAACGTGTTGGGTACA
* * *
26150177 TTTTTTTTCGAATCTAAATAATCGAATATCCTATTTAAAATCGCTAATCGCTATTTTTACTTGTA
1 TTTTCTTT-GAACCTAAATAATCGAATATCCTATTTAAAATCGATAATCGCTATTTTTACTTGTA
* **
26150242 AATTACAT-AGTTACCTATCCATC-TTTTGCAAAACA-TTTTAACAAAATAAGTTGCATATC-GT
65 AATGACATGAGTT---TATCCATCTTTTTGCAAAACATTTTTAACAAAATAAAATGCATATCAGT
* * * *
26150303 TTTTAAAATATATAAATTGTTTTTTTTTAAAAAT-AGGCAATGT-TCTTTTATTTTA-AGGAATT
127 TTTTAAAATACATAAA----TTATTTTAAAAAATAAAGCAAT-TCTCTTTTATTTTAGA-GAATT
* *
26150365 CGAGAAA-TTATGCCCTAACGTGTTGGGTATGA
186 CGA-AAAGTGATGCCCTAACGTGTTGGGTA-CA
* *
26150397 TCTTTCTTTGAACCTAAATAATCGAGTATCCTACTTAAAATCGATAA
1 T-TTTCTTTGAACCTAAATAATCGAATATCCTATTTAAAATCGATAA
26150444 GTGCTCAATG
Statistics
Matches: 222, Mismatches: 32, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
217 23 0.10
218 79 0.36
219 54 0.24
220 48 0.22
221 18 0.08
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (216 bp):
TTTTCTTTGAACCTAAATAATCGAATATCCTATTTAAAATCGATAATCGCTATTTTTACTTGTAA
ATGACATGAGTTTATCCATCTTTTTGCAAAACATTTTTAACAAAATAAAATGCATATCAGTTTTT
AAAATACATAAATTATTTTAAAAAATAAAGCAATTCTCTTTTATTTTAGAGAATTCGAAAAGTGA
TGCCCTAACGTGTTGGGTACA
Found at i:26150542 original size:114 final size:109
Alignment explanation
Indices: 26150340--26150548 Score: 256
Period size: 114 Copynumber: 1.9 Consensus size: 109
26150330 TAAAAATAGG
* * * *
26150340 CAATGTTCTTTTATTTTAAGGAATTCGAGAAATTATGCCCTAACGTGTTGGGTATGATCTTTCTT
1 CAATGTTCTGTTATTTTAAGGAACTCGAAAAATCATGCCCTAACGTGTTGGGTATGATCTTTCTT
**
26150405 TGAACCTAAATAATCGAGTATCCTACTTAAAATCGATAAGTGCT
66 TGAACCTAAATAATCGAACATCCTACTTAAAATCGATAAGTGCT
* * * * *
26150449 CAATGTTCTGTTATTTTAGGGGACTCGAAAAAATCGTGCCCTAACGTGTTGGGTATGGTTTTTTT
1 CAATGTTCTGTTATTTTAAGGAACTCG-AAAAATCATGCCCTAACGTGTTGGGTAT-G--ATCTT
* *
26150514 TCCTTTGAACCTAAATAATTGAACATCCTATTTAA
62 T-CTTTGAACCTAAATAATCGAACATCCTACTTAA
26150549 TCATCACTCA
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
109 23 0.28
110 25 0.30
111 1 0.01
113 4 0.05
114 29 0.35
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (109 bp):
CAATGTTCTGTTATTTTAAGGAACTCGAAAAATCATGCCCTAACGTGTTGGGTATGATCTTTCTT
TGAACCTAAATAATCGAACATCCTACTTAAAATCGATAAGTGCT
Found at i:26151607 original size:13 final size:13
Alignment explanation
Indices: 26151552--26151609 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
26151542 ATACATATAT
*
26151552 TTTCACATAACCA
1 TTTCATATAACCA
* *
26151565 TTTCATGTAATCA
1 TTTCATATAACCA
* *
26151578 TTTCCTATAACAA
1 TTTCATATAACCA
*
26151591 TTTCATATAACCG
1 TTTCATATAACCA
26151604 TTTCAT
1 TTTCAT
26151610 TTACAAATAT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.41
Consensus pattern (13 bp):
TTTCATATAACCA
Found at i:26158777 original size:36 final size:36
Alignment explanation
Indices: 26158728--26158858 Score: 167
Period size: 36 Copynumber: 3.7 Consensus size: 36
26158718 CTGTTGTGAA
*
26158728 AGTAAATATGTGGATATGTTATTCATGCCATGAGAC
1 AGTAAATATGTGGATATGTTATTCATGCCATGAGAT
* * ** *
26158764 AGTAAATACGTGGATATGTTGTTCATGTAATGTGAT
1 AGTAAATATGTGGATATGTTATTCATGCCATGAGAT
*
26158800 AGTAAATATGTGGGTATGATT-TTCATGCCATGAGAT
1 AGTAAATATGTGGATATG-TTATTCATGCCATGAGAT
*
26158836 AGTAAATATATGG-TATGTTATTC
1 AGTAAATATGTGGATATGTTATTC
26158859 TTGTCATGTG
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
34 2 0.02
35 7 0.09
36 70 0.86
37 2 0.02
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.37
Consensus pattern (36 bp):
AGTAAATATGTGGATATGTTATTCATGCCATGAGAT
Found at i:26158840 original size:72 final size:71
Alignment explanation
Indices: 26158722--26158871 Score: 203
Period size: 72 Copynumber: 2.1 Consensus size: 71
26158712 TGATGACTGT
* * *
26158722 TGTGAAAGTAAATATGTGGATATGTTATTCATGCCATGAGACAGTAAATACGTGGATATGTTGTT
1 TGTGATAGTAAATATGTGGATATGTTATTCATGCCATGAGACAGTAAATACATGG-TATGTTATT
26158787 CATGTAA
65 CATGTAA
* * *
26158794 TGTGATAGTAAATATGTGGGTATGATT-TTCATGCCATGAGATAGTAAATATATGGTATGTTATT
1 TGTGATAGTAAATATGTGGATATG-TTATTCATGCCATGAGACAGTAAATACATGGTATGTTATT
* *
26158858 CTTGTCA
65 CATGTAA
26158865 TGTGATA
1 TGTGATA
26158872 ATGAATATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
71 20 0.29
72 47 0.68
73 2 0.03
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.38
Consensus pattern (71 bp):
TGTGATAGTAAATATGTGGATATGTTATTCATGCCATGAGACAGTAAATACATGGTATGTTATTC
ATGTAA
Found at i:26158879 original size:35 final size:35
Alignment explanation
Indices: 26158722--26158881 Score: 133
Period size: 36 Copynumber: 4.5 Consensus size: 35
26158712 TGATGACTGT
* * * *
26158722 TGTGAAAGTAAATATGTGGATATGTTATTCATGCCA
1 TGTGATAGTAAATATATGGGTATGTT-TTCATGTCA
* * ** * *
26158758 TGAGACAGTAAATACGTGGATATGTTGTTCATGTAA
1 TGTGATAGTAAATATATGGGTATGTT-TTCATGTCA
* *
26158794 TGTGATAGTAAATATGTGGGTATGATTTTCATGCCA
1 TGTGATAGTAAATATATGGGTATG-TTTTCATGTCA
* *
26158830 TGAGATAGTAAATATAT-GGTATGTTATTCTTGTCA
1 TGTGATAGTAAATATATGGGTATGTT-TTCATGTCA
* *
26158865 TGTGATAATGAATATAT
1 TGTGATAGTAAATATAT
26158882 TCTGCTAATG
Statistics
Matches: 103, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
34 2 0.02
35 27 0.26
36 72 0.70
37 2 0.02
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.38
Consensus pattern (35 bp):
TGTGATAGTAAATATATGGGTATGTTTTCATGTCA
Found at i:26161812 original size:36 final size:36
Alignment explanation
Indices: 26161582--26161804 Score: 302
Period size: 36 Copynumber: 6.2 Consensus size: 36
26161572 TGATGACTGT
* *
26161582 TGTGAAAGTAAATATGTGGGTATGTTATTCACGCCA
1 TGTGACAGTAAATATGTGGGTATGTTATTCATGCCA
* * * *
26161618 TGAGATAGTAAATCTATGGGTATGTTATTCATGCCA
1 TGTGACAGTAAATATGTGGGTATGTTATTCATGCCA
*
26161654 TGTGACAGTAAATATATGGGTATGTTATTCATGCCA
1 TGTGACAGTAAATATGTGGGTATGTTATTCATGCCA
* * * *
26161690 CGGGACAATAAATATGTGGGTATGTTATTCATGTCA
1 TGTGACAGTAAATATGTGGGTATGTTATTCATGCCA
* *
26161726 TATGACAGTAAATATGTGGGTATGATATTCATGCCA
1 TGTGACAGTAAATATGTGGGTATGTTATTCATGCCA
* * *
26161762 TGAGACAGTAAATATGTTGGTATGTTATTCATGTCA
1 TGTGACAGTAAATATGTGGGTATGTTATTCATGCCA
26161798 TGTGACA
1 TGTGACA
26161805 ATGAATATAT
Statistics
Matches: 162, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 162 1.00
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (36 bp):
TGTGACAGTAAATATGTGGGTATGTTATTCATGCCA
Found at i:26162257 original size:23 final size:23
Alignment explanation
Indices: 26162202--26162258 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 23
26162192 TTATCATTAA
26162202 ATGTGTTAAATATTAATGTGATTT
1 ATGTG-TAAATATTAATGTGATTT
*
26162226 TTGCT-TAAATATTAATGTGATTT
1 ATG-TGTAAATATTAATGTGATTT
26162249 ATGTGTAAAT
1 ATGTGTAAAT
26162259 GGACCCATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 1 0.03
23 25 0.86
24 2 0.07
25 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (23 bp):
ATGTGTAAATATTAATGTGATTT
Found at i:26164998 original size:21 final size:21
Alignment explanation
Indices: 26164972--26165022 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
26164962 AGAAAATTTG
*
26164972 AAAAAAAAAGAA-AATCAAGAA
1 AAAAAAAAAGAAGAA-AAAGAA
* *
26164993 AAAAAAAGAGAAGAAAAAGAC
1 AAAAAAAAAGAAGAAAAAGAA
26165014 AAAAAAAAA
1 AAAAAAAAA
26165023 TATGTCTGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.82, C:0.04, G:0.12, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAGAAGAAAAAGAA
Found at i:26165020 original size:11 final size:10
Alignment explanation
Indices: 26164938--26165021 Score: 53
Period size: 10 Copynumber: 7.7 Consensus size: 10
26164928 TATTATTTAG
26164938 AAAAAAAGAA
1 AAAAAAAGAA
26164948 AAAAAAAGTCGAA
1 AAAAAAA---GAA
*
26164961 AAGAAAATTTGAA
1 AA-AAAA--AGAA
26164974 AAAAAAAG-A
1 AAAAAAAGAA
**
26164983 AAATCAAGAA
1 AAAAAAAGAA
26164993 AAAAAAAGAGA
1 AAAAAAAGA-A
*
26165004 AGAAAAAGACA
1 AAAAAAAGA-A
26165015 AAAAAAA
1 AAAAAAA
26165022 ATATGTCTGA
Statistics
Matches: 57, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
9 7 0.12
10 16 0.28
11 16 0.28
12 4 0.07
13 10 0.18
14 4 0.07
ACGTcount: A:0.77, C:0.04, G:0.13, T:0.06
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:26169758 original size:48 final size:44
Alignment explanation
Indices: 26169700--26169829 Score: 181
Period size: 43 Copynumber: 2.9 Consensus size: 44
26169690 CAAATTTTTA
* *
26169700 GACAAGCTGCCATATAGGTTGTGGATGAAGCCACCAATATTGGTAGTT
1 GACAAGCTGCCATGTAGGTTGTGGATGAAGCCACCAAT-TT--TA-CT
*
26169748 GACAAGCTGCCATGTAGGTTGTGGAT-AAACCACCAATTTTACT
1 GACAAGCTGCCATGTAGGTTGTGGATGAAGCCACCAATTTTACT
*
26169791 GACAAGCTGCCATGTAGGTTGTGGACGAAGCCACCAATT
1 GACAAGCTGCCATGTAGGTTGTGGATGAAGCCACCAATT
26169830 CTTCTTCCTT
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
43 26 0.34
44 13 0.17
46 2 0.03
47 10 0.13
48 25 0.33
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (44 bp):
GACAAGCTGCCATGTAGGTTGTGGATGAAGCCACCAATTTTACT
Found at i:26170742 original size:21 final size:22
Alignment explanation
Indices: 26170705--26170747 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
26170695 GTCCCTTCAC
26170705 ATAAGATCAATAGAAAA-GATG
1 ATAAGATCAATAGAAAACGATG
*
26170726 ATAATATCAA-AGAAAAACGATG
1 ATAAGATCAATAG-AAAACGATG
26170748 TCTAACACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.11
21 13 0.68
22 4 0.21
ACGTcount: A:0.58, C:0.07, G:0.16, T:0.19
Consensus pattern (22 bp):
ATAAGATCAATAGAAAACGATG
Found at i:26172352 original size:79 final size:78
Alignment explanation
Indices: 26172216--26172370 Score: 206
Period size: 79 Copynumber: 2.0 Consensus size: 78
26172206 ATGAGTCATG
* * * *
26172216 TCTCTTCATTAGGATATGATGTAGTTGAAAAGGCATGACATTTCTCTATAATTAAGACTTATTGT
1 TCTCCTCATTAGGATATGATGTAGCTGAAAAGACATGACATTTCTCTATAATGAAGACTTA-TGT
*
26172281 ATCCTTAATGTGCA
65 AACCTTAATGTGCA
*
26172295 TCTCCTCATTAGGATCTGATGTAGCTGAAAAGACATGGA-ATTTCTCCT-TAATGAAGACTTATG
1 TCTCCTCATTAGGATATGATGTAGCTGAAAAGACAT-GACATTTCT-CTATAATGAAGACTTATG
*
26172358 TAACCTTCATGTG
64 TAACCTTAATGTG
26172371 TTTATTGGTT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
78 13 0.19
79 50 0.75
80 4 0.06
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (78 bp):
TCTCCTCATTAGGATATGATGTAGCTGAAAAGACATGACATTTCTCTATAATGAAGACTTATGTA
ACCTTAATGTGCA
Found at i:26184442 original size:14 final size:14
Alignment explanation
Indices: 26184423--26184468 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
26184413 CAAACAAAAG
26184423 AAAAATTAAAACAT
1 AAAAATTAAAACAT
* *
26184437 AAAAATAAAAATAT
1 AAAAATTAAAACAT
*
26184451 TAAAATT--AACAT
1 AAAAATTAAAACAT
26184463 AAAAAT
1 AAAAAT
26184469 GGATAAATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
12 9 0.35
14 17 0.65
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAAATTAAAACAT
Found at i:26190667 original size:18 final size:18
Alignment explanation
Indices: 26190627--26190667 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
26190617 TAACAAAATG
26190627 ATGCAGTGATAAAATAAA
1 ATGCAGTGATAAAATAAA
*
26190645 TTGCAGTGATAATAA-AAA
1 ATGCAGTGATAA-AATAAA
26190663 ATGCA
1 ATGCA
26190668 TTAAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.51, C:0.07, G:0.17, T:0.24
Consensus pattern (18 bp):
ATGCAGTGATAAAATAAA
Found at i:26200422 original size:18 final size:18
Alignment explanation
Indices: 26200399--26200446 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
26200389 TGCACAACCT
26200399 AATCAGATGC-GATCATAA
1 AATCAGATGCAG-TCATAA
*
26200417 AATCAGATGCAGTCATAT
1 AATCAGATGCAGTCATAA
*
26200435 AACCAGATGCAG
1 AATCAGATGCAG
26200447 GCACAAGCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 26 0.96
19 1 0.04
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (18 bp):
AATCAGATGCAGTCATAA
Found at i:26201776 original size:17 final size:17
Alignment explanation
Indices: 26201754--26201788 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
26201744 CCTGAATGTG
*
26201754 ACCACAAAGCTGAAGCT
1 ACCACAAAGCTAAAGCT
26201771 ACCACAAAGCTAAAGCT
1 ACCACAAAGCTAAAGCT
26201788 A
1 A
26201789 ACATCTGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.29, G:0.14, T:0.11
Consensus pattern (17 bp):
ACCACAAAGCTAAAGCT
Found at i:26213189 original size:24 final size:26
Alignment explanation
Indices: 26213142--26213189 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
26213132 ACAAGCCTAA
*
26213142 AATCATGCAATTCACCAACCAAGTGC
1 AATCATGCAATTCACCAACAAAGTGC
*
26213168 AATCAT-CAA-TCATCAACAAAGT
1 AATCATGCAATTCACCAACAAAGT
26213190 TCCATTGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 3 0.15
26 6 0.30
ACGTcount: A:0.44, C:0.27, G:0.08, T:0.21
Consensus pattern (26 bp):
AATCATGCAATTCACCAACAAAGTGC
Found at i:26215661 original size:10 final size:10
Alignment explanation
Indices: 26215628--26215662 Score: 56
Period size: 9 Copynumber: 3.7 Consensus size: 10
26215618 AGCAAACATT
26215628 TTTTTC-TTC
1 TTTTTCTTTC
26215637 TTTTT-TTTC
1 TTTTTCTTTC
26215646 TTTTTCTTTC
1 TTTTTCTTTC
26215656 TTTTTCT
1 TTTTTCT
26215663 CATTTTCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 13 0.54
10 11 0.46
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:26215668 original size:19 final size:19
Alignment explanation
Indices: 26215628--26215669 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
26215618 AGCAAACATT
*
26215628 TTTTTC-TTCTTTTTTTTC
1 TTTTTCTTTCTTTTTTCTC
26215646 TTTTTCTTTC-TTTTTCTC
1 TTTTTCTTTCTTTTTTCTC
*
26215664 ATTTTC
1 TTTTTC
26215670 CTTTTTCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTCTTTCTTTTTTCTC
Found at i:26230308 original size:15 final size:15
Alignment explanation
Indices: 26230279--26230321 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
26230269 GGAGGTGATC
*
26230279 AAAAGAAGGATGAAGA
1 AAAAGAA-GAAGAAGA
*
26230295 AAAAGAAGAAGAAGG
1 AAAAGAAGAAGAAGA
*
26230310 AAAGGAAGAAGA
1 AAAAGAAGAAGA
26230322 GAAGGAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 17 0.71
16 7 0.29
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (15 bp):
AAAAGAAGAAGAAGA
Found at i:26231404 original size:17 final size:16
Alignment explanation
Indices: 26231382--26231415 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
26231372 TACAACAATG
26231382 AGAAAAAGAAGAAAGAA
1 AGAAAAAGAAG-AAGAA
*
26231399 AGAAAAATAAGAAGAA
1 AGAAAAAGAAGAAGAA
26231415 A
1 A
26231416 TTACCGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (16 bp):
AGAAAAAGAAGAAGAA
Found at i:26241447 original size:35 final size:35
Alignment explanation
Indices: 26241408--26241561 Score: 175
Period size: 35 Copynumber: 4.4 Consensus size: 35
26241398 TTTTCAGTAG
* * *
26241408 GCATGCTTTACATGCAAATCAGAATCAATCTAGTA
1 GCATGCTTAACATGCAAATCAGAATCAATATAATA
* ** * *
26241443 GCATGTTTAACATGTGAATCAGAATCAGTATAATG
1 GCATGCTTAACATGCAAATCAGAATCAATATAATA
* * *
26241478 GCATGCTTAACATGCGAATCAGAATAAAAATAATA
1 GCATGCTTAACATGCAAATCAGAATCAATATAATA
* *
26241513 GTATGCTTAACATGCAAATCAGAATCACA-ATAATG
1 GCATGCTTAACATGCAAATCAGAATCA-ATATAATA
26241548 GCATGCTTAACATG
1 GCATGCTTAACATG
26241562 AGAATCAAAA
Statistics
Matches: 99, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
35 98 0.99
36 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (35 bp):
GCATGCTTAACATGCAAATCAGAATCAATATAATA
Found at i:26241491 original size:70 final size:70
Alignment explanation
Indices: 26241407--26241561 Score: 202
Period size: 70 Copynumber: 2.2 Consensus size: 70
26241397 ATTTTCAGTA
* * ** * * ** **
26241407 GGCATGCTTTACATGCAAATCAGAATCAATCTAGTAGCATGTTTAACATGTGAATCAGAATCAGT
1 GGCATGCTTAACATGCAAATCAGAATAAAAATAATAGCATGCTTAACATGCAAATCAGAATCACA
26241472 ATAAT
66 ATAAT
* *
26241477 GGCATGCTTAACATGCGAATCAGAATAAAAATAATAGTATGCTTAACATGCAAATCAGAATCACA
1 GGCATGCTTAACATGCAAATCAGAATAAAAATAATAGCATGCTTAACATGCAAATCAGAATCACA
26241542 ATAAT
66 ATAAT
26241547 GGCATGCTTAACATG
1 GGCATGCTTAACATG
26241562 AGAATCAAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (70 bp):
GGCATGCTTAACATGCAAATCAGAATAAAAATAATAGCATGCTTAACATGCAAATCAGAATCACA
ATAAT
Found at i:26246558 original size:17 final size:17
Alignment explanation
Indices: 26246536--26246594 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
26246526 GTTTAAATTG
*
26246536 ATTTAAATTTATTTTAA
1 ATTTAAATTTAATTTAA
**
26246553 ATTT-AATTTGCTTTAA
1 ATTTAAATTTAATTTAA
* *
26246569 GTTTAAATTTAATTAAA
1 ATTTAAATTTAATTTAA
26246586 ATTTAAATT
1 ATTTAAATT
26246595 GATATTAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 13 0.38
17 21 0.62
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTTAAATTTAATTTAA
Found at i:26248295 original size:30 final size:30
Alignment explanation
Indices: 26248221--26248651 Score: 419
Period size: 29 Copynumber: 14.7 Consensus size: 30
26248211 GGAGGTCCTT
*
26248221 AAACTGTCCAAAAATTACATTTTTACCCCT-
1 AAACT-TCCAAAAATTACATTTTTAACCCTA
26248251 AAA-TTACCAAAAATTACATTTTTAACCCTA
1 AAACTT-CCAAAAATTACATTTTTAACCCTA
* *
26248281 AAACTTCAAAAAATTACATTTTT-ACCCTT
1 AAACTTCCAAAAATTACATTTTTAACCCTA
* * *
26248310 GAACTTCCAAAAATTAAATTTTTAACCTTA
1 AAACTTCCAAAAATTACATTTTTAACCCTA
* **
26248340 AAACTTCTAAAAATTACATTTTT-ACCCCC
1 AAACTTCCAAAAATTACATTTTTAACCCTA
26248369 AAACTTCCAAAAATTACATTTTTAACCCTA
1 AAACTTCCAAAAATTACATTTTTAACCCTA
* *
26248399 AAACTTCCAAAAATTACTTTTTTAA-CCTT
1 AAACTTCCAAAAATTACATTTTTAACCCTA
* *
26248428 AAACTTCCAAAAATTACTTTTTTAACCAT-
1 AAACTTCCAAAAATTACATTTTTAACCCTA
*
26248457 AAACTTCC-AAAATTACATTTTTGACCCTA
1 AAACTTCCAAAAATTACATTTTTAACCCTA
** *
26248486 AAAC-TAAAAAAATTACATTTTT-ACCCTT
1 AAACTTCCAAAAATTACATTTTTAACCCTA
* * *
26248514 AAACTTCTAAAAATTGCATTTTT-ACCCTC
1 AAACTTCCAAAAATTACATTTTTAACCCTA
* * * * *
26248543 GAACTTCTAAAAATTCCATTTTTGACCCCA
1 AAACTTCCAAAAATTACATTTTTAACCCTA
* *
26248573 AAACTTTCAAAAAATTACCA-TTTT-ACCC-C
1 AAAC-TTCCAAAAATTA-CATTTTTAACCCTA
* * *
26248602 AAA-TATCCAAAAACTCCA-TTTTGACCCT-
1 AAACT-TCCAAAAATTACATTTTTAACCCTA
26248630 AAACTTCC-AAAATTATCATTTT
1 AAACTTCCAAAAATTA-CATTTT
26248652 GCCCTCGGGT
Statistics
Matches: 340, Mismatches: 43, Indels: 37
0.81 0.10 0.09
Matches are distributed among these distances:
27 12 0.04
28 48 0.14
29 175 0.51
30 87 0.26
31 16 0.05
32 2 0.01
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (30 bp):
AAACTTCCAAAAATTACATTTTTAACCCTA
Found at i:26248320 original size:59 final size:59
Alignment explanation
Indices: 26248221--26248651 Score: 443
Period size: 59 Copynumber: 7.4 Consensus size: 59
26248211 GGAGGTCCTT
* *
26248221 AAACTGTCCAAAAATTACATTTTTACCCCTAAA-TTACCAAAAATTACATTTTTAACCCTA
1 AAACT-TCAAAAAATTACATTTTTACCCTTAAACTT-CCAAAAATTACATTTTTAACCCTA
* * *
26248281 AAACTTCAAAAAATTACATTTTTACCCTTGAACTTCCAAAAATTAAATTTTTAACCTTA
1 AAACTTCAAAAAATTACATTTTTACCCTTAAACTTCCAAAAATTACATTTTTAACCCTA
* **
26248340 AAACTTCTAAAAATTACATTTTTACCCCCAAACTTCCAAAAATTACATTTTTAACCCTA
1 AAACTTCAAAAAATTACATTTTTACCCTTAAACTTCCAAAAATTACATTTTTAACCCTA
* * * * *
26248399 AAACTTCCAAAAATTACTTTTTTAACCTTAAACTTCCAAAAATTACTTTTTTAACCAT-
1 AAACTTCAAAAAATTACATTTTTACCCTTAAACTTCCAAAAATTACATTTTTAACCCTA
* * ** *
26248457 AAACTTC-CAAAATTACATTTTTGACCCTAAAAC-TAAAAAAATTACATTTTT-ACCCTT
1 AAACTTCAAAAAATTACATTTTT-ACCCTTAAACTTCCAAAAATTACATTTTTAACCCTA
* * ** * * * *
26248514 AAACTTCTAAAAATTGCATTTTTACCCTCGAACTTCTAAAAATTCCATTTTTGACCCCA
1 AAACTTCAAAAAATTACATTTTTACCCTTAAACTTCCAAAAATTACATTTTTAACCCTA
* * * *
26248573 AAACTTTCAAAAAATTACCA-TTTTACCC-CAAA-TATCCAAAAACTCCA-TTTTGACCCT-
1 AAAC-TTCAAAAAATTA-CATTTTTACCCTTAAACT-TCCAAAAATTACATTTTTAACCCTA
*
26248630 AAACTTC-CAAAATTATCATTTT
1 AAACTTCAAAAAATTA-CATTTT
26248652 GCCCTCGGGT
Statistics
Matches: 318, Mismatches: 43, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
55 9 0.03
56 10 0.03
57 47 0.15
58 53 0.17
59 172 0.54
60 25 0.08
61 2 0.01
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (59 bp):
AAACTTCAAAAAATTACATTTTTACCCTTAAACTTCCAAAAATTACATTTTTAACCCTA
Found at i:26248635 original size:87 final size:86
Alignment explanation
Indices: 26248221--26248651 Score: 358
Period size: 88 Copynumber: 4.9 Consensus size: 86
26248211 GGAGGTCCTT
* *
26248221 AAACTGTCCAAAAATTA-CATTTTTACCCCTAAA-TTACCAAAAATTACATTTTTAACCCTAAAA
1 AAACT-TCAAAAAATTACCA-TTTTA-CCCTAAACTT-CCAAAAATTCCA-TTTTAACCCT-AAA
* *
26248284 CTTCAAAAAATTACATTTTT-ACCCTT
60 CTTCCAAAAATTACATTTTTGACCCTA
* * * * * * * *
26248310 GAACTTCCAAAAATTA-AATTTTTAACCTTAAAACTTCTAAAAATTACATTTTTACCCCCAAACT
1 AAACTTCAAAAAATTACCA-TTTT-ACCCT-AAACTTCCAAAAATTCCA-TTTTAACCCTAAACT
*
26248374 TCCAAAAATTACATTTTTAACCCTA
62 TCCAAAAATTACATTTTTGACCCTA
* ** * ** *
26248399 AAACTTCCAAAAATTACTTTTTTAACCTTAAACTTCCAAAAATTACTTTTTTAACCATAAACTTC
1 AAACTTCAAAAAATTACCATTTT-ACCCTAAACTTCCAAAAATT-CCATTTTAACCCTAAACTTC
26248464 C-AAAATTACATTTTTGACCCTA
64 CAAAAATTACATTTTTGACCCTA
* * * * *
26248486 AAAC-TAAAAAAATTA-CATTTTTACCCTTAAACTTCTAAAAATTGCATTTTTACCCTCGAACTT
1 AAACTTCAAAAAATTACCA-TTTTACCC-TAAACTTCCAAAAATTCCATTTTAACCCT-AAACTT
* * *
26248549 CTAAAAATTCCATTTTTGACCCCA
63 CCAAAAATTACATTTTTGACCCTA
* * *
26248573 AAACTTTCAAAAAATTACCATTTTACCCCAAA-TATCCAAAAACTCCATTTTGACCCTAAACTTC
1 AAAC-TTCAAAAAATTACCATTTTACCCTAAACT-TCCAAAAATTCCATTTTAACCCTAAACTTC
26248637 C-AAAATTATCATTTT
64 CAAAAATTA-CATTTT
26248652 GCCCTCGGGT
Statistics
Matches: 284, Mismatches: 43, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
85 11 0.04
86 40 0.14
87 60 0.21
88 93 0.33
89 76 0.27
90 4 0.01
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (86 bp):
AAACTTCAAAAAATTACCATTTTACCCTAAACTTCCAAAAATTCCATTTTAACCCTAAACTTCCA
AAAATTACATTTTTGACCCTA
Found at i:26254672 original size:20 final size:20
Alignment explanation
Indices: 26254647--26254710 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
26254637 GGTTTGACCA
26254647 GACCTGTTGACTGACTCGTT
1 GACCTGTTGACTGACTCGTT
* *
26254667 GACCTGTTGACCGACCCGTT
1 GACCTGTTGACTGACTCGTT
26254687 GA-CT-TTGACTTTGACT-GTT
1 GACCTGTTGAC--TGACTCGTT
26254706 GACCT
1 GACCT
26254711 TTTTTACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
18 5 0.14
19 7 0.19
20 25 0.68
ACGTcount: A:0.16, C:0.27, G:0.23, T:0.34
Consensus pattern (20 bp):
GACCTGTTGACTGACTCGTT
Found at i:26254701 original size:32 final size:31
Alignment explanation
Indices: 26254640--26254709 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 31
26254630 CCAATTCGGT
*
26254640 TTGACCAGACCTGTTGACTGACTCGTTGACCTG
1 TTGACCAGACCCGTTGACTGACTC-TTGA-CTG
26254673 TTGACC-GACCCGTTGACTTTGACT-TTGACTG
1 TTGACCAGACCCGTTGAC--TGACTCTTGACTG
26254704 TTGACC
1 TTGACC
26254710 TTTTTTACCA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
31 9 0.26
32 14 0.41
33 6 0.18
34 5 0.15
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.33
Consensus pattern (31 bp):
TTGACCAGACCCGTTGACTGACTCTTGACTG
Found at i:26261097 original size:21 final size:21
Alignment explanation
Indices: 26261057--26261105 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
26261047 AGGTTCTTCT
26261057 GATACAAGTATGACTACTACCA
1 GATACAAGTATGACTACTA-CA
* * *
26261079 -ATACAATTATTACTTCTACA
1 GATACAAGTATGACTACTACA
26261099 GATACAA
1 GATACAA
26261106 CAAACTCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (21 bp):
GATACAAGTATGACTACTACA
Found at i:26262034 original size:94 final size:93
Alignment explanation
Indices: 26261873--26262270 Score: 419
Period size: 94 Copynumber: 4.3 Consensus size: 93
26261863 CTCTGTTGCA
* * * * *
26261873 AGTATAAGATGCTGGTCACACTAAGCTGATGAGGACTCACAACATATGCGGTACCT-TAGCCATC
1 AGTATACGATGCTGTTCACACTAAGCTGACGAGGACTCGCAACATATGCGATACCTCT-GCCATC
* *
26261937 GATACGGTATCTGCACATATAATTGTTAC
65 GATACGGTATCTGTACATATAACTGTTAC
* * * * * *
26261966 TAGTATACGATGTTGTTCACACTAAGTTGATGAGGACTCGCAACATATACGATGCCTCTGTCATC
1 -AGTATACGATGCTGTTCACACTAAGCTGACGAGGACTCGCAACATATGCGATACCTCTGCCATC
* *
26262031 GATACAGTATATGTACATATAACTGTTAC
65 GATACGGTATCTGTACATATAACTGTTAC
* * * * **
26262060 ATGTATACGATGCTATTCATAATAAGCTGACGAGGACTTGCAACATATGC-AGTACCTCAACCAT
1 A-GTATACGATGCTGTTCACACTAAGCTGACGAGGACTCGCAACATATGCGA-TACCTCTGCCAT
26262124 CGATACGGTATCTGTACATATAACTGTTACC
64 CGATACGGTATCTGTACATATAACTGTTA-C
* * * * *
26262155 AGTATACGATGTTGCTCACACTAAGCTGACGAGGACTCGCAACATATG-TAGTACCTCAGCTATC
1 AGTATACGATGCTGTTCACACTAAGCTGACGAGGACTCGCAACATATGCGA-TACCTCTGCCATC
* *
26262219 GATATGGTATCTATACATATAACTGTT-C
65 GATACGGTATCTGTACATATAACTGTTAC
** * *
26262247 CTTA-ACGAAGCTGCTCACACTAAG
1 AGTATACGATGCTGTTCACACTAAG
26262271 ATGATTAGAA
Statistics
Matches: 258, Mismatches: 41, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
91 18 0.07
92 3 0.01
93 2 0.01
94 232 0.90
95 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (93 bp):
AGTATACGATGCTGTTCACACTAAGCTGACGAGGACTCGCAACATATGCGATACCTCTGCCATCG
ATACGGTATCTGTACATATAACTGTTAC
Found at i:26262222 original size:188 final size:188
Alignment explanation
Indices: 26261894--26262245 Score: 494
Period size: 188 Copynumber: 1.9 Consensus size: 188
26261884 CTGGTCACAC
* * * *
26261894 TAAGCTGATGAGGACTCACAACATATGCGGTACCTTAGCCATCGATACGGTATCTGCACATATAA
1 TAAGCTGACGAGGACTCACAACATATGCAGTACCTCAACCATCGATACGGTATCTGCACATATAA
* * * * * *
26261959 TTGTTACTAGTATACGATGTTGTTCACACTAAGTTGATGAGGACTCGCAACATATACGATGCCTC
66 CTGTTACCAGTATACGATGTTGCTCACACTAAGCTGACGAGGACTCGCAACATATACGATACCTC
* *
26262024 TGTCATCGATACAGTATATGTACATATAACTGTTACATGTATACGATGCTATTCATAA
131 AGTCATCGATACAGTATATATACATATAACTGTTACATGTATACGATGCTATTCATAA
** *
26262082 TAAGCTGACGAGGACTTGCAACATATGCAGTACCTCAACCATCGATACGGTATCTGTACATATAA
1 TAAGCTGACGAGGACTCACAACATATGCAGTACCTCAACCATCGATACGGTATCTGCACATATAA
26262147 CTGTTACCAGTATACGATGTTGCTCACACTAAGCTGACGAGGACTCGCAACATAT--GTAGTACC
66 CTGTTACCAGTATACGATGTTGCTCACACTAAGCTGACGAGGACTCGCAACATATACG-A-TACC
** *
26262210 TCAG-CTATCGATATGGTATCTATACATATAACTGTT
129 TCAGTC-ATCGATACAGTATATATACATATAACTGTT
26262246 CCTTAACGAA
Statistics
Matches: 143, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
186 1 0.01
187 2 0.01
188 140 0.98
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (188 bp):
TAAGCTGACGAGGACTCACAACATATGCAGTACCTCAACCATCGATACGGTATCTGCACATATAA
CTGTTACCAGTATACGATGTTGCTCACACTAAGCTGACGAGGACTCGCAACATATACGATACCTC
AGTCATCGATACAGTATATATACATATAACTGTTACATGTATACGATGCTATTCATAA
Found at i:26264353 original size:39 final size:39
Alignment explanation
Indices: 26264310--26264414 Score: 97
Period size: 37 Copynumber: 2.7 Consensus size: 39
26264300 GGAACATTCG
* * * *
26264310 AAGTAATTAGTTTGCGCCCAACGCTCATTGGTATAACCT
1 AAGTAATTAGTTTGCGCCCAACGCTCATCGGAACAACCA
* * * * **
26264349 AAGTAAAT-G-TTGTGTCCAACACTCATCGGAACGTCCA
1 AAGTAATTAGTTTGCGCCCAACGCTCATCGGAACAACCA
*
26264386 AAGTAATTAGTTTGCGCCCAGCGCTCATC
1 AAGTAATTAGTTTGCGCCCAACGCTCATC
26264415 CGTATAATCA
Statistics
Matches: 49, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
37 26 0.53
38 2 0.04
39 21 0.43
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (39 bp):
AAGTAATTAGTTTGCGCCCAACGCTCATCGGAACAACCA
Found at i:26264390 original size:76 final size:76
Alignment explanation
Indices: 26264310--26264467 Score: 226
Period size: 76 Copynumber: 2.1 Consensus size: 76
26264300 GGAACATTCG
** * * *
26264310 AAGTAATTAGTTTGCGCCCAACGCTCATTGGTATAACCTAAGTAAATGTTGTGTCCAACACTCAT
1 AAGTAATTAGTTTGCGCCCAACGCTCATCCGTATAACCAAAGTAAATGTTATGCCCAACACTCAT
26264375 CGGAACGTCCA
66 CGGAACGTCCA
* * *
26264386 AAGTAATTAGTTTGCGCCCAGCGCTCATCCGTATAATCAAAGTAAATGTTATGCCCAGCACTCAT
1 AAGTAATTAGTTTGCGCCCAACGCTCATCCGTATAACCAAAGTAAATGTTATGCCCAACACTCAT
* *
26264451 TGGAACGTCCG
66 CGGAACGTCCA
26264462 AAGTAA
1 AAGTAA
26264468 AATGCACCCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (76 bp):
AAGTAATTAGTTTGCGCCCAACGCTCATCCGTATAACCAAAGTAAATGTTATGCCCAACACTCAT
CGGAACGTCCA
Found at i:26272679 original size:17 final size:16
Alignment explanation
Indices: 26272656--26272694 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
26272646 AAAATACGCT
26272656 CTCTCTTTGCTCTCTTA
1 CTCTCTTTGCTCT-TTA
* *
26272673 TTCTCTTTGTTCTTTA
1 CTCTCTTTGCTCTTTA
26272689 CTCTCT
1 CTCTCT
26272695 ATCCTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.05, C:0.31, G:0.05, T:0.59
Consensus pattern (16 bp):
CTCTCTTTGCTCTTTA
Found at i:26273593 original size:17 final size:18
Alignment explanation
Indices: 26273571--26273604 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
26273561 ATAACAATTA
*
26273571 TGAAGATTTTGG-ATATG
1 TGAAGATCTTGGCATATG
26273588 TGAAGATCTTGGCATAT
1 TGAAGATCTTGGCATAT
26273605 TCCCTGAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.38
Consensus pattern (18 bp):
TGAAGATCTTGGCATATG
Found at i:26279748 original size:35 final size:35
Alignment explanation
Indices: 26279707--26279838 Score: 129
Period size: 35 Copynumber: 3.8 Consensus size: 35
26279697 TTTCAATAGG
* * *
26279707 CATGCTTTACATGCGAATAAGAATCAATCTAGCGA
1 CATGCTTAACATGCGAATAAGAATCAATATAACGA
* * * *
26279742 CATGCTTAACATGTGAATTAGAATCAGTATAATGA
1 CATGCTTAACATGCGAATAAGAATCAATATAACGA
* ** * *
26279777 CATGCTTAACATGCAAAGCATAATCAATATAATGA
1 CATGCTTAACATGCGAATAAGAATCAATATAACGA
* * *
26279812 AATGCTTAACATGGGAATCAGAATCAA
1 CATGCTTAACATGCGAATAAGAATCAA
26279839 AATCAAAATA
Statistics
Matches: 79, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 79 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (35 bp):
CATGCTTAACATGCGAATAAGAATCAATATAACGA
Found at i:26279820 original size:70 final size:67
Alignment explanation
Indices: 26279743--26279933 Score: 176
Period size: 70 Copynumber: 2.8 Consensus size: 67
26279733 ATCTAGCGAC
*
26279743 ATGCTTAACATGTGAATTAGAATCAGTATAATGACATGCTTAACATGCAAAGCATAATCA-ATAT
1 ATGCTTAACATGTGAATCAGAATCAGTATAATGACATGCTTAACATGCAAAG---AATCATA-AT
26279807 AATGAA
62 AATGAA
* * * *
26279813 ATGCTTAACATGGGAATCAGAATCAAAATCAAAATAATCACATGCTTAACATG---TGAATCATA
1 ATGCTTAACATGTGAATCAGAATC--AGT----ATAATGACATGCTTAACATGCAAAGAATCATA
**
26279875 ATAATGGC
60 ATAATGAA
*
26279883 ATGCTTAACATGCT-AATCAGAATCAGAATAATGACATGCTTAACATGCAAA
1 ATGCTTAACATG-TGAATCAGAATCAGTATAATGACATGCTTAACATGCAAA
26279934 TCAAAATATC
Statistics
Matches: 98, Mismatches: 12, Indels: 25
0.73 0.09 0.19
Matches are distributed among these distances:
64 19 0.19
68 1 0.01
70 55 0.56
71 1 0.01
72 2 0.02
73 1 0.01
76 19 0.19
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (67 bp):
ATGCTTAACATGTGAATCAGAATCAGTATAATGACATGCTTAACATGCAAAGAATCATAATAATG
AA
Found at i:26279871 original size:35 final size:35
Alignment explanation
Indices: 26279740--26279940 Score: 146
Period size: 35 Copynumber: 5.7 Consensus size: 35
26279730 TCAATCTAGC
* * **
26279740 GACATGCTTAACATGTGAATTAGAATCAGTATAAT
1 GACATGCTTAACATGTGAATCAAAATCAAAATAAT
** * * *
26279775 GACATGCTTAACATGCAAAGCATAATCAATATAAT
1 GACATGCTTAACATGTGAATCAAAATCAAAATAAT
*
26279810 GAAATGCTTAACATGGGAATCAGAATCAAAATCAAAATAAT
1 GACATGCTTAACAT--G--T--GAATCAAAATCAAAATAAT
*
26279851 CACATGCTTAACATGTGAATC---AT---AATAAT
1 GACATGCTTAACATGTGAATCAAAATCAAAATAAT
* * *
26279880 GGCATGCTTAACATGCT-AATCAGAATCAGAATAAT
1 GACATGCTTAACATG-TGAATCAAAATCAAAATAAT
**
26279915 GACATGCTTAACATGCAAATCAAAAT
1 GACATGCTTAACATGTGAATCAAAAT
26279941 ATCAACAAAT
Statistics
Matches: 133, Mismatches: 19, Indels: 28
0.74 0.11 0.16
Matches are distributed among these distances:
29 23 0.17
30 1 0.01
32 4 0.03
35 75 0.56
37 2 0.02
39 1 0.01
41 27 0.20
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.26
Consensus pattern (35 bp):
GACATGCTTAACATGTGAATCAAAATCAAAATAAT
Found at i:26279872 original size:29 final size:29
Alignment explanation
Indices: 26279839--26279941 Score: 98
Period size: 29 Copynumber: 3.3 Consensus size: 29
26279829 TCAGAATCAA
*
26279839 AATCAAAATAATCACATGCTTAACATGTG
1 AATCAAAATAATGACATGCTTAACATGTG
* *
26279868 AATCATAATAATGGCATGCTTAACATGCTAATCAG
1 AATCAAAATAATGACATGCTTAACATG----T--G
* **
26279903 AATCAGAATAATGACATGCTTAACATGCA
1 AATCAAAATAATGACATGCTTAACATGTG
26279932 AATCAAAATA
1 AATCAAAATA
26279942 TCAACAAATC
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
29 33 0.55
33 1 0.02
35 26 0.43
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.26
Consensus pattern (29 bp):
AATCAAAATAATGACATGCTTAACATGTG
Found at i:26281541 original size:29 final size:28
Alignment explanation
Indices: 26281509--26281882 Score: 150
Period size: 29 Copynumber: 12.8 Consensus size: 28
26281499 GGATACCCGA
*
26281509 GGGCAAAATGGTAATTTTGGACATTTGGG
1 GGGCAAAATGGTAATTTTGGAAATTT-GG
26281538 GGGCAAAATGGTAATTTTGGAAAAGTTTGG
1 GGGCAAAATGGTAATTTTGG-AAA-TTTGG
* * * * *
26281568 GGCCAAAAATGG-AATTTTAGATATTCGA
1 GGGC-AAAATGGTAATTTTGGAAATTTGG
* * *
26281596 GGGTAAAATGGTAATTTTTGAAAGTTTCGA
1 GGGCAAAATGGTAATTTTGGAAA-TTT-GG
** **
26281626 GCTCAAAAATGG-AATTTTTGGCCATTTGG
1 GGGC-AAAATGGTAA-TTTTGGAAATTTGG
**
26281655 GGG-AAAATGGTAATTTTTAAAAGTTTCGG
1 GGGCAAAATGGTAATTTTGGAAA-TTT-GG
** *
26281684 GGTTAAAAATGG-AATTTTTGGATATTT-G
1 GG-GCAAAATGGTAA-TTTTGGAAATTTGG
* *
26281712 GGGCTAAAATGGTAATTTTGGATAGTTTCAG
1 GGGC-AAAATGGTAATTTTGGA-AATTT-GG
* * * * * *
26281743 AGTCAAAATTGTAATTTTTAGACATTTGA
1 GGGCAAAATGGTAA-TTTTGGAAATTTGG
* * *
26281772 GGGTAAAATTGTAATTTTTGAAAGTTTTGG
1 GGGCAAAATGGTAATTTTGGAAA--TTTGG
** * * *
26281802 GGATAAAAATAG-AATTTTTGGAAGTTCGG
1 GG-GCAAAATGGTAA-TTTTGGAAATTTGG
* * *
26281831 GGGTAAAATGGTAATTTTTGGAAGTTTCG
1 GGGCAAAATGGTAA-TTTTGGAAATTTGG
* *
26281860 GGTCAAAAAT-GAAATTTTGGAAA
1 GGGC-AAAATGGTAATTTTGGAAA
26281883 GTTCGAGGGT
Statistics
Matches: 258, Mismatches: 61, Indels: 53
0.69 0.16 0.14
Matches are distributed among these distances:
27 19 0.07
28 57 0.22
29 72 0.28
30 52 0.20
31 58 0.22
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
GGGCAAAATGGTAATTTTGGAAATTTGG
Found at i:26281633 original size:58 final size:59
Alignment explanation
Indices: 26281542--26281993 Score: 394
Period size: 59 Copynumber: 7.7 Consensus size: 59
26281532 TTTGGGGGGC
* * * * *
26281542 AAAATGGTAATTTTGGAAAAGTTT-GGGGCCAAAAATGGAA-TTTTAGATATTCGAGGGT
1 AAAATGGTAATTTTTG-AAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAATTCGAGGGT
* ** * *
26281600 AAAATGGTAATTTTTGAAAGTTTCGAGCTCAAAAATGGAATTTTTGGCCATTTG-GGGG
1 AAAATGGTAATTTTTGAAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAATTCGAGGGT
* * * * *
26281658 AAAATGGTAATTTTTAAAAGTTTCGGGGTTAAAAATGGAATTTTTGGATATTTG-GGGCT
1 AAAATGGTAATTTTTGAAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAATTCGAGGG-T
* * * * * * *
26281717 AAAATGGTAATTTTGGATAGTTTC-AGAGTCAAAATTGTAATTTTTAGACATTTGAGGGT
1 AAAATGGTAATTTTTGAAAGTTTCGAG-GTCAAAAATGGAATTTTTGGAAATTCGAGGGT
* * * * * *
26281776 AAAATTGTAATTTTTGAAAGTTTTGGGGAT-AAAAATAGAATTTTTGGAAGTTCGGGGGT
1 AAAATGGTAATTTTTGAAAGTTTCGAGG-TCAAAAATGGAATTTTTGGAAATTCGAGGGT
* *
26281835 AAAATGGTAATTTTTGGAAGTTTCG-GGTCAAAAAT-GAAATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTTGAAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAA-TTCGAGGGT
** *
26281893 AAAAAT-GTAATTTTTGGAAA-AATCGAGGTCAAAAATGGAA-TTTTGAAAAGTTC-AGGGT
1 -AAAATGGTAATTTTT-GAAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAA-TTCGAGGGT
* *
26281951 AAAAAT-GTAATTTTTGGAAA--ATCGAGGGCAAAAATGGAATTTT
1 -AAAATGGTAATTTTT-GAAAGTTTCGAGGTCAAAAATGGAATTTT
26281994 AGAAAAGATC
Statistics
Matches: 331, Mismatches: 49, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
57 37 0.11
58 139 0.42
59 147 0.44
60 8 0.02
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (59 bp):
AAAATGGTAATTTTTGAAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAATTCGAGGGT
Found at i:26281934 original size:117 final size:114
Alignment explanation
Indices: 26281523--26281969 Score: 399
Period size: 117 Copynumber: 3.8 Consensus size: 114
26281513 AAAATGGTAA
* ** * * * *
26281523 TTTTGGACATTTGGGGGGCAAAATGGTAATTTTGGAAAAGTTTGGGGCCAAAAATGGAATTTTAG
1 TTTTGGACATTTGAGGGTAAAAAT-GTAATTTTTGAAAA-TTCGGGGTCAAAAATGGAATTTTGG
* *
26281588 ATATTCGAGGGTAAAATGGTAATTTTTGAAAGTTTCGAGCTCAAAAATGGAAT
64 ATATTCGAGGGTAAAATGGTAATTTTTGGAAGTTTCG-GGTCAAAAAT-GAAT
* * *
26281641 TTTTGGCCATTTG-GGG-GAAAATGGTAATTTTT-AAAAGTTTCGGGGTTAAAAATGGAATTTTT
1 TTTTGGACATTTGAGGGTAAAAAT-GTAATTTTTGAAAA--TTCGGGGTCAAAAATGGAA-TTTT
* * *
26281703 GGATATTTG-GGGCTAAAATGGTAA-TTTTGGATAGTTTCAGAGTCAAAATTGTAAT
62 GGATATTCGAGGG-TAAAATGGTAATTTTTGGA-AGTTTC-GGGTCAAAAATG-AAT
* * * * *
26281758 TTTTAGACATTTGAGGGTAAAATTGTAATTTTTGAAAGTTTTGGGGAT-AAAAATAGAATTTTTG
1 TTTTGGACATTTGAGGGTAAAAATGTAATTTTTGAAA-ATTCGGGG-TCAAAAATGGAA-TTTTG
* *
26281822 GA-AGTTCGGGGGTAAAATGGTAATTTTTGGAAGTTTCGGGTCAAAAATGAAA
63 GATA-TTCGAGGGTAAAATGGTAATTTTTGGAAGTTTCGGGTCAAAAATGAAT
* * * * *
26281874 TTTTGGAAAGTTCGAGGGTAAAAATGTAATTTTTGGAAAAATCGAGGTCAAAAATGGAATTTTGA
1 TTTTGGACA-TTTGAGGGTAAAAATGTAATTTTT-GAAAATTCGGGGTCAAAAATGGAATTTTGG
*
26281939 AAAGTTC-AGGGTAAAAAT-GTAATTTTTGGAA
64 ATA-TTCGAGGGT-AAAATGGTAATTTTTGGAA
26281970 AATCGAGGGC
Statistics
Matches: 275, Mismatches: 35, Indels: 40
0.79 0.10 0.11
Matches are distributed among these distances:
115 4 0.01
116 73 0.27
117 108 0.39
118 72 0.26
119 18 0.07
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (114 bp):
TTTTGGACATTTGAGGGTAAAAATGTAATTTTTGAAAATTCGGGGTCAAAAATGGAATTTTGGAT
ATTCGAGGGTAAAATGGTAATTTTTGGAAGTTTCGGGTCAAAAATGAAT
Found at i:26281978 original size:29 final size:29
Alignment explanation
Indices: 26281572--26281993 Score: 195
Period size: 29 Copynumber: 14.5 Consensus size: 29
26281562 GTTTGGGGCC
* * *
26281572 AAAAATGGAA-TTTTAGATATTCGAGGGT
1 AAAAATGTAATTTTTGGAAATTCGAGGGT
*
26281600 -AAAATGGTAATTTTT-GAAAGTTTCGA-GCT
1 AAAAAT-GTAATTTTTGGAAA--TTCGAGGGT
* ** *
26281629 CAAAAATGGAATTTTTGGCCATTTG-GGG-
1 -AAAAATGTAATTTTTGGAAATTCGAGGGT
* *
26281657 GAAAATGGTAATTTTT-AAAAGTTTCG-GGGTT
1 AAAAAT-GTAATTTTTGGAAA--TTCGAGGG-T
* * *
26281688 AAAAATGGAATTTTTGGATATTTG-GGGCT
1 AAAAATGTAATTTTTGGAAATTCGAGGG-T
* *
26281717 -AAAATGGTAA-TTTTGGATAGTTTC-AGAGT
1 AAAAAT-GTAATTTTTGGA-A-ATTCGAGGGT
* * * *
26281746 CAAAATTGTAATTTTTAGACATTTGAGGGT
1 -AAAAATGTAATTTTTGGAAATTCGAGGGT
* *
26281776 AAAATTGTAATTTTT-GAAAGTTTTG-GGGAT
1 AAAAATGTAATTTTTGGAAA--TTCGAGGG-T
* *
26281806 AAAAATAG-AATTTTTGGAAGTTCGGGGGT
1 AAAAAT-GTAATTTTTGGAAATTCGAGGGT
*
26281835 -AAAATGGTAATTTTTGGAAGTTTC--GGGT
1 AAAAAT-GTAATTTTTGGAA-ATTCGAGGGT
*
26281863 CAAAAATG-AAATTTTGGAAAGTTCGAGGGT
1 -AAAAATGTAATTTTTGGAAA-TTCGAGGGT
*
26281893 AAAAATGTAATTTTTGGAAAAATCGA-GGT
1 AAAAATGTAATTTTTGG-AAATTCGAGGGT
* *
26281922 CAAAAATGGAA-TTTTGAAAAGTTC-AGGGT
1 -AAAAATGTAATTTTTGGAAA-TTCGAGGGT
* *
26281951 AAAAATGTAATTTTTGGAAAATCGAGGGC
1 AAAAATGTAATTTTTGGAAATTCGAGGGT
*
26281980 AAAAATGGAATTTT
1 AAAAATGTAATTTT
26281994 AGAAAAGATC
Statistics
Matches: 303, Mismatches: 49, Indels: 83
0.70 0.11 0.19
Matches are distributed among these distances:
27 11 0.04
28 67 0.22
29 108 0.36
30 86 0.28
31 31 0.10
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.35
Consensus pattern (29 bp):
AAAAATGTAATTTTTGGAAATTCGAGGGT
Found at i:26281999 original size:58 final size:57
Alignment explanation
Indices: 26281831--26282025 Score: 241
Period size: 58 Copynumber: 3.4 Consensus size: 57
26281821 GGAAGTTCGG
** * *
26281831 GGGT-AAAATGGTAATTTTTGGAAGTTTCG-GGTCAAAAATGAAATTTTGGAAAGTTCGA
1 GGGTAAAAAT-GTAATTTTTGGAA-AATCGAGGTCAAAAATGGAATTTTGAAAAGTTC-A
26281889 GGGTAAAAATGTAATTTTTGGAAAAATCGAGGTCAAAAATGGAATTTTGAAAAGTTCA
1 GGGTAAAAATGTAATTTTTGG-AAAATCGAGGTCAAAAATGGAATTTTGAAAAGTTCA
* *
26281947 GGGTAAAAATGTAATTTTTGGAAAATCGAGGGCAAAAATGGAATTTTAGAAAAGATCA
1 GGGTAAAAATGTAATTTTTGGAAAATCGAGGTCAAAAATGGAATTTT-GAAAAGTTCA
* * *
26282005 GGGGTCAAAATATGATTTTTG
1 -GGGTAAAAATGTAATTTTTG
26282026 TACAGTTTAG
Statistics
Matches: 123, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
57 25 0.20
58 49 0.40
59 49 0.40
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.30
Consensus pattern (57 bp):
GGGTAAAAATGTAATTTTTGGAAAATCGAGGTCAAAAATGGAATTTTGAAAAGTTCA
Found at i:26283883 original size:11 final size:11
Alignment explanation
Indices: 26283869--26283941 Score: 56
Period size: 11 Copynumber: 5.9 Consensus size: 11
26283859 TTTTAATTTT
26283869 AATTTAAAATA
1 AATTTAAAATA
*
26283880 AATTTAAACTCAA
1 AATTTAAAAT--A
26283893 AATAAGTTTAAAATA
1 AAT---T-TAAAATA
*
26283908 AATTTTAAATA
1 AATTTAAAATA
26283919 AATTTAAAATTCA
1 AATTTAAAA-T-A
26283932 AATTTAAAAT
1 AATTTAAAAT
26283942 TGGGCTTCCT
Statistics
Matches: 50, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
11 23 0.46
12 3 0.06
13 14 0.28
15 4 0.08
16 1 0.02
17 5 0.10
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (11 bp):
AATTTAAAATA
Found at i:26283942 original size:13 final size:11
Alignment explanation
Indices: 26283891--26283941 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
26283881 ATTTAAACTC
*
26283891 AAAATAAGTTT
1 AAAATAAATTT
26283902 AAAATAAATTT
1 AAAATAAATTT
*
26283913 TAAATAAATTT
1 AAAATAAATTT
26283924 AAAATTCAAATTT
1 AAAA-T-AAATTT
26283937 AAAAT
1 AAAAT
26283942 TGGGCTTCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
11 23 0.66
12 2 0.06
13 10 0.29
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (11 bp):
AAAATAAATTT
Found at i:26284553 original size:39 final size:38
Alignment explanation
Indices: 26284499--26284636 Score: 111
Period size: 39 Copynumber: 3.6 Consensus size: 38
26284489 GATAACTGCA
*
26284499 ATCTGCCCCAGGCTCGGGGTAGGAGATTAGTTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTA-GAGATTAGTTGATGGTG
* *
26284538 ATCTGCCCCAAGCTCGGGGTA-A-A-AAGTCGGATGGTTG
1 ATCTGCCCCAAGCTCGGGGTAGAGATTAGT-TGATGG-TG
* * * * *
26284575 TAATTTGCCTCAAGCTCGGGGAAAGAGATTGGTTGATGATG
1 --ATCTGCCCCAAGCTCGGGG-TAGAGATTAGTTGATGGTG
* *
26284616 ATCTGCCCTAAACTCGGGGTA
1 ATCTGCCCCAAGCTCGGGGTA
26284637 AAAGATCAAA
Statistics
Matches: 76, Mismatches: 15, Indels: 17
0.70 0.14 0.16
Matches are distributed among these distances:
35 3 0.04
36 6 0.08
37 3 0.04
38 1 0.01
39 52 0.68
40 1 0.01
41 3 0.04
42 5 0.07
43 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (38 bp):
ATCTGCCCCAAGCTCGGGGTAGAGATTAGTTGATGGTG
Found at i:26284667 original size:78 final size:78
Alignment explanation
Indices: 26284495--26284689 Score: 225
Period size: 78 Copynumber: 2.5 Consensus size: 78
26284485 TTTGGATAAC
* * * * *
26284495 TGCAATCTGCCCCAGGCTCGGGGTAGGAGATTAGTTGATGGTGATCTGCCCCAAGCTCGGGGTAA
1 TGCAATCTGCCCCAAGCTCGGGGAAAGAGATTAGTTGATGATGATCTGCCCCAAACTCGGGGTAA
**
26284560 AAAGTCGGATGGT
66 AAAGTCAAATGGT
* * * * *
26284573 TGTAATTTGCCTCAAGCTCGGGGAAAGAGATTGGTTGATGATGATCTGCCCTAAACTCGGGGT-A
1 TGCAATCTGCCCCAAGCTCGGGGAAAGAGATTAGTTGATGATGATCTGCCCCAAACTCGGGGTAA
26284637 AAAGATCAAATGGCT
66 AAAG-TCAAATGG-T
*
26284652 T-CAATCTGCCCCAAGCACGGGGTAAA-AGATTAGTTGAT
1 TGCAATCTGCCCCAAGCTCGGGG-AAAGAGATTAGTTGAT
26284690 TATGTAACTT
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
77 5 0.05
78 87 0.90
79 5 0.05
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (78 bp):
TGCAATCTGCCCCAAGCTCGGGGAAAGAGATTAGTTGATGATGATCTGCCCCAAACTCGGGGTAA
AAAGTCAAATGGT
Found at i:26284927 original size:102 final size:102
Alignment explanation
Indices: 26284748--26285236 Score: 795
Period size: 102 Copynumber: 4.8 Consensus size: 102
26284738 GCTGCTGTAG
* ** * * * **
26284748 TTTTAATTCAACTTCGCTGTAACTTCAGGAAGATAGGAATTGA-CGTTGAAGCTTCATCTTGCTC
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATATTTGAAGCTTCATCTTGCTC
*
26284812 TTACTACAACTTCAGAGAGATAAAGACTTGCTATTGT
66 TTACTACAACTTCAGAGAGATAAAGACTTGCCATTGT
*
26284849 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATATTTGAAGCTTCATCTTACTC
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATATTTGAAGCTTCATCTTGCTC
*
26284914 TTACTACAACTTCAGAGAGATAAAGACTTGCCATTAT
66 TTACTACAACTTCAGAGAGATAAAGACTTGCCATTGT
** * *
26284951 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGA-CGTTAAAGCTTCATATTGCTC
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATATTTGAAGCTTCATCTTGCTC
* *
26285015 TTACTATAACTTCAGAGAGATAAAGACTTGCTATTGT
66 TTACTACAACTTCAGAGAGATAAAGACTTGCCATTGT
26285052 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATATTTGAAGCTTCATCTTGCTC
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATATTTGAAGCTTCATCTTGCTC
26285117 TTACTACAACTTCAGAGAGATAAAGACTTGCCATTGT
66 TTACTACAACTTCAGAGAGATAAAGACTTGCCATTGT
*
26285154 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATATTTGAAGCTTCATCTTGCTC
26285219 TTACTACAACTTCA-AGAG
66 TTACTACAACTTCAGAGAG
26285237 GATAGGAATT
Statistics
Matches: 360, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
101 134 0.37
102 226 0.63
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (102 bp):
TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATATTTGAAGCTTCATCTTGCTC
TTACTACAACTTCAGAGAGATAAAGACTTGCCATTGT
Found at i:26285097 original size:203 final size:203
Alignment explanation
Indices: 26284748--26285236 Score: 854
Period size: 203 Copynumber: 2.4 Consensus size: 203
26284738 GCTGCTGTAG
* ** * * *
26284748 TTTTAATTCAACTTCGCTGTAACTTCAGGAAGATAGGAATTGACGTTGAAGCTTCATCTTGCTCT
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGACGTTGAAGCTTCATCTTGCTCT
26284813 TACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAG
66 TACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAG
26284878 AGGATAGGAATTGATATTTGAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTT
131 AGGATAGGAATTGATATTTGAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTT
26284943 GCCATTAT
196 GCCATTAT
* *
26284951 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGACGTTAAAGCTTCATATTGCTCT
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGACGTTGAAGCTTCATCTTGCTCT
*
26285016 TACTATAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAG
66 TACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAG
*
26285081 AGGATAGGAATTGATATTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTT
131 AGGATAGGAATTGATATTTGAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTT
*
26285146 GCCATTGT
196 GCCATTAT
*
26285154 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTC
1 TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGACG-TTGAAGCTTCATCTTGCTC
26285219 TTACTACAACTTCA-AGAG
65 TTACTACAACTTCAGAGAG
26285237 GATAGGAATT
Statistics
Matches: 270, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
203 240 0.89
204 30 0.11
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (203 bp):
TTTTAATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGACGTTGAAGCTTCATCTTGCTCT
TACTACAACTTCAGAGAGATAAAGACTTGCTATTGTTTTTAATCCAACTTTACTGCAACTTCAAG
AGGATAGGAATTGATATTTGAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTT
GCCATTAT
Found at i:26285331 original size:102 final size:102
Alignment explanation
Indices: 26285219--26286122 Score: 1621
Period size: 102 Copynumber: 8.9 Consensus size: 102
26285209 CATCTTGCTC
* *
26285219 TTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTT
1 TTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTC
*
26285284 AGAGAGATAAAGACTTGCCATTATTTTTAATCCAACT
66 AGAGAGATAAAGACTTGCCATTGTTTTTAATCCAACT
* * *
26285321 TTATTGCAACTTCAAGAGGATAGAAATTGATGTTTGAAGCTTCATCTTACTCTTACTACAACTTC
1 TTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTC
* *
26285386 AGAGAGATAAAGACTTGCTATTGATTTTAATCCAACT
66 AGAGAGATAAAGACTTGCCATTGTTTTTAATCCAACT
*
26285423 TTACTGCAACTTCAAGATGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTC
1 TTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTC
26285488 AGAGAGATAAAGACTTGCCATTGTTTTTAATCCAACT
66 AGAGAGATAAAGACTTGCCATTGTTTTTAATCCAACT
*
26285525 TTACTGTAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTC
1 TTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTC
26285590 AGAGAGATAAAGACTTGCCATTGTTTTTAATCCAACT
66 AGAGAGATAAAGACTTGCCATTGTTTTTAATCCAACT
*
26285627 TTGCTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTC
1 TTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTC
26285692 AGAGAGATAAAGACTTGCCATTGTTTTTAATCCAACT
66 AGAGAGATAAAGACTTGCCATTGTTTTTAATCCAACT
*
26285729 TTGCTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTC
1 TTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTC
26285794 AGAGAGATAAAGACTTGCCATTGTTTTTAATCCAACT
66 AGAGAGATAAAGACTTGCCATTGTTTTTAATCCAACT
26285831 TTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTC
1 TTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTC
26285896 AGAGAGATAAAGACTTGCCATTGTTTTTAATCCAACT
66 AGAGAGATAAAGACTTGCCATTGTTTTTAATCCAACT
*
26285933 TTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTC
1 TTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTC
* *
26285998 AGAGAGATAAAGACTTGCTATTATTTTTAATCCAACT
66 AGAGAGATAAAGACTTGCCATTGTTTTTAATCCAACT
* * * *
26286035 TTACTGCAACTTCAAGAGGATATGAATTGACG-TTGAAGCTTCATCTTGCTCTTATTGCAACTTC
1 TTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTC
*
26286099 AGAGAGATGAAGACTTGCCATTGT
66 AGAGAGATAAAGACTTGCCATTGT
26286123 AATTTTGATC
Statistics
Matches: 772, Mismatches: 30, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
101 51 0.07
102 721 0.93
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (102 bp):
TTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTC
AGAGAGATAAAGACTTGCCATTGTTTTTAATCCAACT
Found at i:26286318 original size:48 final size:48
Alignment explanation
Indices: 26286243--26286480 Score: 212
Period size: 48 Copynumber: 4.9 Consensus size: 48
26286233 TCCCTTCAAA
*
26286243 TCTTCGTGGTACTGGATCCGCCATTACGACTTAGATCTTTCCCTTGTG
1 TCTTCGTGGTACTGGATCCGCCATTACGGCTTAGATCTTTCCCTTGTG
* **
26286291 TCTTCATGGTACTGGATCCGCTGTTACGGCTTAGATCTTTCCCTTGTG
1 TCTTCGTGGTACTGGATCCGCCATTACGGCTTAGATCTTTCCCTTGTG
* * * *
26286339 TCTTTGCGGTACTGGAT-CGCCATTGCGGCTTAGATCTTTCCCTTCATG
1 TCTTCGTGGTACTGGATCCGCCATTACGGCTTAGATCTTTCCCTT-GTG
* * * * * * * *
26286387 TC-TCTGAGGTACT-AAGTTCGCCATTGCGACTTAAACCTTTCCCTTTTGTA
1 TCTTC-GTGGTACTGGA-TCCGCCATTACGGCTTAGATCTTTCCC--TTGTG
* * * * *
26286437 TCTTTGCGGTACTCGATCCACCATTTCGGTCTTAGATCTTTCCC
1 TCTTCGTGGTACTGGATCCGCCATTACGG-CTTAGATCTTTCCC
26286481 GTCATGTCTC
Statistics
Matches: 153, Mismatches: 28, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
47 26 0.17
48 70 0.46
49 22 0.14
50 19 0.12
51 16 0.10
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.38
Consensus pattern (48 bp):
TCTTCGTGGTACTGGATCCGCCATTACGGCTTAGATCTTTCCCTTGTG
Found at i:26286588 original size:99 final size:100
Alignment explanation
Indices: 26286209--26286677 Score: 530
Period size: 99 Copynumber: 4.8 Consensus size: 100
26286199 AAGGTACCGT
*** * * * *
26286209 GTTCGCCATTGCGACTTAAACCTTTCCCTTCAAATCTTCGTGGTACTGGATCCGCCATTAC-GAC
1 GTTCGCCATTGCGACTTAAACCTTTCCCTTTGCATCTTTGCGGTACTGGATCCGCCATTGCGGTC
** *
26286273 TTAGATCTTTCCC-TTGTGTCT-TCATGGTACT--G
66 TTAGATCTTTCCCGTCATGTCTCTGA-GGTACTAAG
* ** * * * *
26286305 GATCCGCTGTTACGGCTTAGATCTTTCCCTTGTG--TCTTTGCGGTACTGGAT-CGCCATTGCGG
1 G-TTCGCCATTGCGACTTAAACCTTTCCCTT-TGCATCTTTGCGGTACTGGATCCGCCATTGCGG
*
26286367 -CTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAA-
64 TCTTAGATCTTTCCCGTCATGTCTCTGAGGTACTAAG
* * * *
26286402 GTTCGCCATTGCGACTTAAACCTTTCCCTTTTGTATCTTTGCGGTACTCGATCCACCATTTCGGT
1 GTTCGCCATTGCGACTTAAACCTTTCCC-TTTGCATCTTTGCGGTACTGGATCCGCCATTGCGGT
26286467 CTTAGATCTTTCCCGTCATGTCTCTGAGGTA-TAAG
65 CTTAGATCTTTCCCGTCATGTCTCTGAGGTACTAAG
* * * *
26286502 GTTCGCCGTTGCGACTTAAACCCTTCCCTTTGCATCTTTGTGGTACTGGATCCGCCGTTGCGGTC
1 GTTCGCCATTGCGACTTAAACCTTTCCCTTTGCATCTTTGCGGTACTGGATCCGCCATTGCGGTC
*
26286567 TTAGATCTTTCCCGTCATGTCTCTAAGGTA-TAAG
66 TTAGATCTTTCCCGTCATGTCTCTGAGGTACTAAG
* * * * *
26286601 GTTCGCCATTGCGACTTAAACGTTTCCCTTTGCATCTTTACGGTACTGGATCTGCCGTTGTGGTC
1 GTTCGCCATTGCGACTTAAACCTTTCCCTTTGCATCTTTGCGGTACTGGATCCGCCATTGCGGTC
26286666 TTAGATCTTTCC
66 TTAGATCTTTCC
26286678 TGTCGTGTTT
Statistics
Matches: 318, Mismatches: 42, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
95 22 0.07
96 51 0.16
97 27 0.08
98 16 0.05
99 146 0.46
100 56 0.18
ACGTcount: A:0.16, C:0.27, G:0.20, T:0.37
Consensus pattern (100 bp):
GTTCGCCATTGCGACTTAAACCTTTCCCTTTGCATCTTTGCGGTACTGGATCCGCCATTGCGGTC
TTAGATCTTTCCCGTCATGTCTCTGAGGTACTAAG
Found at i:26288009 original size:47 final size:47
Alignment explanation
Indices: 26287935--26288027 Score: 109
Period size: 47 Copynumber: 2.0 Consensus size: 47
26287925 CGACCTCTCC
* * * * *
26287935 TTTTCTTTTTTTTCCTTTTTTTGTTTTT-GTTTTTGTTTTTTTATTCT
1 TTTTCTTTTTCTTCCTTTTCTTCTTTTTCCTTTTT-TTTCTTTATTCT
26287982 TTTTCTTTTTCTT-CTTCTTCTTCTTTTTCCTTTTTTTTCTTTATTC
1 TTTTCTTTTTCTTCCTT-TTCTTCTTTTTCCTTTTTTTTCTTTATTC
26288028 ATTGAATCCG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
46 3 0.08
47 31 0.79
48 5 0.13
ACGTcount: A:0.02, C:0.15, G:0.03, T:0.80
Consensus pattern (47 bp):
TTTTCTTTTTCTTCCTTTTCTTCTTTTTCCTTTTTTTTCTTTATTCT
Found at i:26288023 original size:9 final size:9
Alignment explanation
Indices: 26287935--26288023 Score: 65
Period size: 9 Copynumber: 9.9 Consensus size: 9
26287925 CGACCTCTCC
26287935 TTTTCTTTT
1 TTTTCTTTT
*
26287944 TTTTCCTTT
1 TTTTCTTTT
*
26287953 TTTTGTTTT
1 TTTTCTTTT
*
26287962 TGTTTTTGTTT
1 T-TTTCT-TTT
* *
26287973 TTTTATTCT
1 TTTTCTTTT
26287982 TTTTCTTTT
1 TTTTCTTTT
* *
26287991 TCTTCTTCT
1 TTTTCTTTT
*
26288000 TCTTC--TT
1 TTTTCTTTT
*
26288007 TTTCCTTTT
1 TTTTCTTTT
26288016 TTTTCTTT
1 TTTTCTTT
26288024 ATTCATTGAA
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
7 4 0.06
9 46 0.74
10 8 0.13
11 4 0.06
ACGTcount: A:0.01, C:0.15, G:0.03, T:0.81
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:26288767 original size:21 final size:21
Alignment explanation
Indices: 26288742--26288781 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
26288732 TTTATCTTGA
26288742 CTTTTTCTTCCTTTTTTCTCT
1 CTTTTTCTTCCTTTTTTCTCT
* *
26288763 CTTTTTTTTTCTTTTTTCT
1 CTTTTTCTTCCTTTTTTCT
26288782 TTTTTTATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (21 bp):
CTTTTTCTTCCTTTTTTCTCT
Found at i:26288784 original size:12 final size:11
Alignment explanation
Indices: 26288743--26288787 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
26288733 TTATCTTGAC
*
26288743 TTTTTCTTCCT
1 TTTTTCTTTCT
*
26288754 TTTTTCTCTCT
1 TTTTTCTTTCT
26288765 TTTTT-TTTCT
1 TTTTTCTTTCT
26288775 TTTTTCTTT-T
1 TTTTTCTTTCT
26288785 TTT
1 TTT
26288788 ATTGGGTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
10 13 0.43
11 17 0.57
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTCTTTCT
Found at i:26293597 original size:59 final size:59
Alignment explanation
Indices: 26293525--26293951 Score: 259
Period size: 59 Copynumber: 7.2 Consensus size: 59
26293515 ACCCGGGTGT
* * *
26293525 AAAATGGTAA-TTTTGAACACTCGGGGGGTAAAATGGTAATTTTGGGAAAGTTAAAGGTCA
1 AAAATGG-AATTTTTGGACATTC-GGGGGTAAAATGGTAATTTTGGAAAAGTTAAAGGTCA
* * * * * * * *
26293585 AAAATTGAATTTTTGGCCATTCGAGGGTAAAATAGTAATTTTTGAAAATTTCAAGGTGA
1 AAAATGGAATTTTTGGACATTCGGGGGTAAAATGGTAATTTTGGAAAAGTTAAAGGTCA
* * ** ***
26293644 AAAATGGAATTTTTGGATATTCGGGGGTAAAATGGTAATTTTTGAAATTTTTGGGGTCA
1 AAAATGGAATTTTTGGACATTCGGGGGTAAAATGGTAATTTTGGAAAAGTTAAAGGTCA
* ** *** *
26293703 AAAATGAAATTTTTGGACATTTAGGGGTAAAATGGTAATTTTTGG--AAGTTTCGGGATTA
1 AAAATGGAATTTTTGGACATTCGGGGGTAAAATGGTAA-TTTTGGAAAAGTTAAAGG-TCA
* ** ** **
26293762 AAAATGAAATTTTTGGATGTTTAGGGGTAAAAAT-GTAATTTTTGGAAAA--T-CGGGATCA
1 AAAATGGAATTTTTGGACATTCGGGGGT-AAAATGGTAA-TTTTGGAAAAGTTAAAGG-TCA
* * *
26293820 AAAATGGAA-TTTTAGAAAGTTCGGGGGTAAAAAT-GTAATTTTTGGAAAAATT-AAGGTCA
1 AAAATGGAATTTTTGGACA-TTCGGGGGT-AAAATGGTAA-TTTTGGAAAAGTTAAAGGTCA
* * * * **
26293879 AAAATGGAA-TTTTAGAAAGTTTAGGGGGTAAAAAT-GTAATTTTTGGAAAA-ATCGAGGTCA
1 AAAATGGAATTTTTGGACA--TTCGGGGGT-AAAATGGTAA-TTTTGGAAAAGTTAAAGGTCA
*
26293939 AAAATGAAATTTT
1 AAAATGGAATTTT
26293952 GGAAAAGTTC
Statistics
Matches: 309, Mismatches: 46, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
57 6 0.02
58 50 0.16
59 177 0.57
60 71 0.23
61 5 0.02
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.34
Consensus pattern (59 bp):
AAAATGGAATTTTTGGACATTCGGGGGTAAAATGGTAATTTTGGAAAAGTTAAAGGTCA
Found at i:26293624 original size:29 final size:28
Alignment explanation
Indices: 26293592--26293867 Score: 125
Period size: 29 Copynumber: 9.4 Consensus size: 28
26293582 TCAAAAATTG
**
26293592 AATTTTTGGCCATTCGAGGGTAAAATAGT
1 AATTTTTGGAAATTCGAGGGTAAAAT-GT
* * * *
26293621 AATTTTTGAAAATTTCAAGGTGAAAAATGG
1 AATTTTTGGAAA-TTCGAGG-GTAAAATGT
* *
26293651 AATTTTTGGATATTCGGGGGTAAAATGGT
1 AATTTTTGGAAATTCGAGGGTAAAAT-GT
* *
26293680 AATTTTT-GAAATTTTTG-GGGTCAAAAATGA
1 AATTTTTGGAAA--TTCGAGGGT--AAAATGT
* *
26293710 AATTTTTGGACATT-TAGGGGTAAAATGGT
1 AATTTTTGGAAATTCGA-GGGTAAAAT-GT
* * *
26293739 AATTTTTGGAAGTTTCG-GGATTAAAAATGA
1 AATTTTTGGAA-ATTCGAGG-GT-AAAATGT
** *
26293769 AATTTTTGGATGTT-TAGGGGTAAAAATGT
1 AATTTTTGGAAATTCGA-GGGT-AAAATGT
* * *
26293798 AATTTTTGGAAAATCG-GGATCAAAAATGG
1 AATTTTTGGAAATTCGAGGGT--AAAATGT
* *
26293827 AA-TTTTAGAAAGTTCGGGGGTAAAAATGT
1 AATTTTTGGAAA-TTCGAGGGT-AAAATGT
26293856 AATTTTTGGAAA
1 AATTTTTGGAAA
26293868 AATTAAGGTC
Statistics
Matches: 186, Mismatches: 39, Indels: 43
0.69 0.15 0.16
Matches are distributed among these distances:
28 25 0.13
29 83 0.45
30 59 0.32
31 19 0.10
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.36
Consensus pattern (28 bp):
AATTTTTGGAAATTCGAGGGTAAAATGT
Found at i:26293657 original size:30 final size:29
Alignment explanation
Indices: 26293621--26293957 Score: 148
Period size: 29 Copynumber: 11.4 Consensus size: 29
26293611 GTAAAATAGT
*
26293621 AATTTTTGAAAATTTCAAGGTGAAAAATGG
1 AATTTTTGAAAATTTC-GGGTGAAAAATGG
* * * *
26293651 AATTTTTGGATA-TTCGGGGGTAAAATGG
1 AATTTTTGAAAATTTCGGGTGAAAAATGG
* * * *
26293679 TAATTTTTGAAATTTTTGGGGTCAAAAATGA
1 -AATTTTTGAAA-ATTTCGGGTGAAAAATGG
* * * *
26293710 AATTTTTGGACATTTAGGG-GTAAAATGG
1 AATTTTTGAAAATTTCGGGTGAAAAATGG
* * * *
26293738 TAATTTTTGGAAGTTTCGGGATTAAAAATGA
1 -AATTTTTGAAAATTTCGGG-TGAAAAATGG
* ** * *
26293769 AATTTTTGGATGTTTAGGG-GTAAAAATGT
1 AATTTTTGAAAATTTCGGGTG-AAAAATGG
*
26293798 AATTTTTGGAAAA--TCGGGATCAAAAATGG
1 AATTTTT-GAAAATTTCGGG-TGAAAAATGG
* * * *
26293827 AATTTTAG-AAAGTTCGGGGGTAAAAATGT
1 AATTTTTGAAAATTTCGGGTG-AAAAATGG
* ** *
26293856 AATTTTTGGAAAAATTAAGGTCAAAAATGG
1 AATTTTT-GAAAATTTCGGGTGAAAAATGG
* * * * *
26293886 AATTTTAGAAAGTTTAGGGGGTAAAAATGT
1 AATTTTTGAAAATTTCGGGTG-AAAAATGG
* * *
26293916 AATTTTTGGAAAA-ATCGAGGTCAAAAATGA
1 AATTTTT-GAAAATTTCG-GGTGAAAAATGG
*
26293946 AATTTTGGAAAA
1 AATTTTTGAAAA
26293958 GTTCAGGGGT
Statistics
Matches: 227, Mismatches: 62, Indels: 37
0.70 0.19 0.11
Matches are distributed among these distances:
27 3 0.01
28 21 0.09
29 93 0.41
30 80 0.35
31 30 0.13
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (29 bp):
AATTTTTGAAAATTTCGGGTGAAAAATGG
Found at i:26293981 original size:30 final size:30
Alignment explanation
Indices: 26293784--26293983 Score: 127
Period size: 29 Copynumber: 6.7 Consensus size: 30
26293774 TTGGATGTTT
26293784 AGGGGT-AAAAATGTAATTTTTGGAAAA--TC
1 AGGGGTCAAAAATG-AA-TTTTGGAAAAGTTC
* *
26293813 -GGGATCAAAAATGGAATTTTAG-AAAGTTC
1 AGGGGTCAAAAAT-GAATTTTGGAAAAGTTC
* *
26293842 GGGGGT-AAAAATGTAATTTTTGGAAAAATT-
1 AGGGGTCAAAAATG-AA-TTTTGGAAAAGTTC
* * *
26293872 A-AGGTCAAAAATGGAATTTTAG-AAAGTTT
1 AGGGGTCAAAAAT-GAATTTTGGAAAAGTTC
*
26293901 AGGGGGT-AAAAATGTAATTTTTGGAAAA-ATC
1 A-GGGGTCAAAAATG-AA-TTTTGGAAAAGTTC
*
26293932 -GAGGTCAAAAATGAAATTTTGGAAAAGTTC
1 AGGGGTCAAAAATG-AATTTTGGAAAAGTTC
*
26293962 AGGGGTCAAAATATGATTTTTG
1 AGGGGTCAAAA-ATGAATTTTG
26293984 AATAGTTTAG
Statistics
Matches: 133, Mismatches: 18, Indels: 38
0.70 0.10 0.20
Matches are distributed among these distances:
27 3 0.02
28 15 0.11
29 42 0.32
30 37 0.28
31 30 0.23
32 6 0.05
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.30
Consensus pattern (30 bp):
AGGGGTCAAAAATGAATTTTGGAAAAGTTC
Found at i:26295036 original size:16 final size:15
Alignment explanation
Indices: 26295015--26295053 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
26295005 CAGCTTCATT
*
26295015 TTTATTTTATTTATTA
1 TTTATTTTA-ATATTA
26295031 TTTATTATTAATATTA
1 TTTATT-TTAATATTA
26295047 TTTATTT
1 TTTATTT
26295054 ATTATGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 17 0.81
17 3 0.14
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTATTTTAATATTA
Found at i:26295817 original size:17 final size:16
Alignment explanation
Indices: 26295796--26295857 Score: 70
Period size: 17 Copynumber: 3.7 Consensus size: 16
26295786 AATTTTTATT
26295796 TAAAATAAATTTAAAC
1 TAAAATAAATTTAAAC
* *
26295812 TCAAAATAAGTTTAAATT
1 T-AAAATAAATTTAAA-C
26295830 TAAAATAAAATTTAAAC
1 TAAAAT-AAATTTAAAC
*
26295847 TTAAATAAATT
1 TAAAATAAATT
26295858 AAAAATTCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 6 0.16
17 23 0.61
18 9 0.24
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (16 bp):
TAAAATAAATTTAAAC
Found at i:26295864 original size:35 final size:34
Alignment explanation
Indices: 26295793--26295861 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
26295783 TTTAATTTTT
* *
26295793 ATTTAAAATAAATTTAAACTCAAAATAAGTTTAA
1 ATTTAAAATAAATTTAAACTCAAAATAAATTAAA
*
26295827 ATTTAAAATAAAATTTAAACT-TAAATAAATTAAA
1 ATTTAAAAT-AAATTTAAACTCAAAATAAATTAAA
26295861 A
1 A
26295862 ATTCAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 20 0.65
35 11 0.35
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (34 bp):
ATTTAAAATAAATTTAAACTCAAAATAAATTAAA
Found at i:26297156 original size:24 final size:24
Alignment explanation
Indices: 26297129--26297199 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
26297119 AGAAATAATC
26297129 TTTCAATTAAACTCTGTTTATTTA
1 TTTCAATTAAACTCTGTTTATTTA
* * *
26297153 TTTCAATTAAATTTTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTA
* *
26297177 TTTC-AGTAAGGCTCTGTTTATTT
1 TTTCAATTAA-ACTCTGTTTATTT
26297200 GCTTGAGTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
23 4 0.10
24 35 0.90
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.56
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTA
Found at i:26299102 original size:24 final size:24
Alignment explanation
Indices: 26299075--26299143 Score: 120
Period size: 24 Copynumber: 2.9 Consensus size: 24
26299065 AATCTTTTAG
26299075 TTAAACTCTGTTTATTTGTTTAAA
1 TTAAACTCTGTTTATTTGTTTAAA
*
26299099 TTAAACTCTGTTTATTTGTTTCAA
1 TTAAACTCTGTTTATTTGTTTAAA
*
26299123 TTAAACTTTGTTTATTTGTTT
1 TTAAACTCTGTTTATTTGTTT
26299144 GAGACAAACT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.58
Consensus pattern (24 bp):
TTAAACTCTGTTTATTTGTTTAAA
Found at i:26305235 original size:34 final size:34
Alignment explanation
Indices: 26305189--26305260 Score: 126
Period size: 34 Copynumber: 2.1 Consensus size: 34
26305179 CAAGCCCCGC
*
26305189 ATCATTTCTGTCGCCACTTCCATCTCACTTATTA
1 ATCATTTCTGTCGCCACTTCCATCTCACTTATGA
*
26305223 ATCATTTTTGTCGCCACTTCCATCTCACTTATGA
1 ATCATTTCTGTCGCCACTTCCATCTCACTTATGA
26305257 ATCA
1 ATCA
26305261 CTAGGGATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.22, C:0.31, G:0.07, T:0.40
Consensus pattern (34 bp):
ATCATTTCTGTCGCCACTTCCATCTCACTTATGA
Found at i:26305570 original size:23 final size:23
Alignment explanation
Indices: 26305543--26305629 Score: 68
Period size: 23 Copynumber: 3.8 Consensus size: 23
26305533 TCATTAACAT
* *
26305543 TGTTCGTGAACATGTTCAATTAA
1 TGTTCATGAACATGTTCGATTAA
* * *
26305566 TGTTCATAAACATGATCGTTTAA
1 TGTTCATGAACATGTTCGATTAA
* * * *
26305589 TGCTCGTGGACATATTCGATTAA
1 TGTTCATGAACATGTTCGATTAA
*
26305612 -GTTAAATGAACATGTTCG
1 TGTT-CATGAACATGTTCG
26305630 TGAAAATTAA
Statistics
Matches: 46, Mismatches: 17, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
22 2 0.04
23 44 0.96
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (23 bp):
TGTTCATGAACATGTTCGATTAA
Found at i:26306108 original size:16 final size:16
Alignment explanation
Indices: 26306089--26306125 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
26306079 AGTTTTCGAG
*
26306089 AAATTGACTTTTTAAA
1 AAATTAACTTTTTAAA
*
26306105 AAATTAACTTTTTAGA
1 AAATTAACTTTTTAAA
26306121 AAATT
1 AAATT
26306126 TAATTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (16 bp):
AAATTAACTTTTTAAA
Found at i:26308983 original size:50 final size:52
Alignment explanation
Indices: 26308849--26309023 Score: 273
Period size: 52 Copynumber: 3.4 Consensus size: 52
26308839 AATGACTCTT
26308849 TGTCATCGTGAGTATATGAATCCCTTACGGATTATGAGGTTCGATGGCTATG
1 TGTCATCGTGAGTATATGAATCCCTTACGGATTATGAGGTTCGATGGCTATG
* * * *
26308901 TGTCATCGTGAGTATATGAATCCTTTACGGATTAAGAGGTCCGATGACT-T-
1 TGTCATCGTGAGTATATGAATCCCTTACGGATTATGAGGTTCGATGGCTATG
* * *
26308951 TGTTATCGTGAGTATATGAATCCCTTATGGATTATGAGGTTTGATGGCTATG
1 TGTCATCGTGAGTATATGAATCCCTTACGGATTATGAGGTTCGATGGCTATG
26309003 TGTCATCGTGAGTATATGAAT
1 TGTCATCGTGAGTATATGAAT
26309024 AAAGTGAAAA
Statistics
Matches: 109, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
50 42 0.39
51 2 0.02
52 65 0.60
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.37
Consensus pattern (52 bp):
TGTCATCGTGAGTATATGAATCCCTTACGGATTATGAGGTTCGATGGCTATG
Found at i:26320597 original size:18 final size:18
Alignment explanation
Indices: 26320576--26320621 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
26320566 AGTTGTCAAT
26320576 GCAATGAAAAATGTCAGA
1 GCAATGAAAAATGTCAGA
*
26320594 GCAA--AATAAATGTTAGA
1 GCAATGAA-AAATGTCAGA
26320611 GCAACTGAAAA
1 GCAA-TGAAAA
26320622 TAAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
16 2 0.09
17 13 0.57
18 4 0.17
19 2 0.09
20 2 0.09
ACGTcount: A:0.52, C:0.11, G:0.20, T:0.17
Consensus pattern (18 bp):
GCAATGAAAAATGTCAGA
Found at i:26322134 original size:8 final size:8
Alignment explanation
Indices: 26322121--26322171 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
26322111 ATTACAACAA
26322121 TTTTCTAT
1 TTTTCTAT
26322129 TTTTCTAT
1 TTTTCTAT
26322137 TTTTCT-T
1 TTTTCTAT
*
26322144 TGTTT-TCT
1 T-TTTCTAT
26322152 TTTTCT-T
1 TTTTCTAT
26322159 CTTTTCTAT
1 -TTTTCTAT
26322168 TTTT
1 TTTT
26322172 GTGTGTGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
7 7 0.18
8 30 0.79
9 1 0.03
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.78
Consensus pattern (8 bp):
TTTTCTAT
Found at i:26322170 original size:15 final size:14
Alignment explanation
Indices: 26322120--26322170 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
26322110 TATTACAACA
26322120 ATTTTCTATTTTTCT
1 ATTTTCT-TTTTTCT
26322135 ATTTTTCTTTGTTTTCT
1 A-TTTTC-TT-TTTTCT
26322152 -TTTTCTTCTTTTCT
1 ATTTTCTT-TTTTCT
26322166 ATTTT
1 ATTTT
26322171 TGTGTGTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
14 8 0.26
15 10 0.32
16 6 0.19
17 7 0.23
ACGTcount: A:0.08, C:0.14, G:0.02, T:0.76
Consensus pattern (14 bp):
ATTTTCTTTTTTCT
Found at i:26322785 original size:18 final size:18
Alignment explanation
Indices: 26322753--26322796 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
26322743 AAATATACTA
*
26322753 ACAAAT-AAAATGCAATG
1 ACAAATAAAAACGCAATG
26322770 ACAAATAAAAACGCAATG
1 ACAAATAAAAACGCAATG
*
26322788 ACAACTAAA
1 ACAAATAAA
26322797 TGCTATGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.61, C:0.16, G:0.09, T:0.14
Consensus pattern (18 bp):
ACAAATAAAAACGCAATG
Found at i:26323232 original size:9 final size:10
Alignment explanation
Indices: 26323213--26323249 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
26323203 TTTATCCTTC
26323213 CCTTCTTCTT
1 CCTTCTTCTT
26323223 CCTT-TTCTT
1 CCTTCTTCTT
*
26323232 CCTTATT-TT
1 CCTTCTTCTT
26323241 CCTTCTTCT
1 CCTTCTTCT
26323250 CCTCAGGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
9 17 0.71
10 7 0.29
ACGTcount: A:0.03, C:0.35, G:0.00, T:0.62
Consensus pattern (10 bp):
CCTTCTTCTT
Found at i:26323797 original size:16 final size:16
Alignment explanation
Indices: 26323776--26323819 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
26323766 TGGGCGTATC
26323776 TTCTTTCTTCTCCTTT
1 TTCTTTCTTCTCCTTT
*
26323792 TTCTTTCCTTCCCCTTT
1 TTCTTT-CTTCTCCTTT
* *
26323809 CTCCTTCTTCT
1 TTCTTTCTTCT
26323820 TAGGCACCTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (16 bp):
TTCTTTCTTCTCCTTT
Found at i:26340562 original size:6 final size:6
Alignment explanation
Indices: 26340539--26340583 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
26340529 TGTTTTTCTC
* * *
26340539 AAAATG GAAATA AAAATG AAAATG GAAATG AAAATG AGAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG AA
26340584 TTCATTTAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:26340562 original size:18 final size:18
Alignment explanation
Indices: 26340539--26340581 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
26340529 TGTTTTTCTC
26340539 AAAATGGAAATAAAAATG
1 AAAATGGAAATAAAAATG
*
26340557 AAAATGGAAATGAAAATG
1 AAAATGGAAATAAAAATG
26340575 AGAAATG
1 A-AAATG
26340582 AATTCATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.16
Consensus pattern (18 bp):
AAAATGGAAATAAAAATG
Found at i:26359526 original size:13 final size:13
Alignment explanation
Indices: 26359508--26359532 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26359498 AAGATGGCCA
26359508 GAAGAAGAAGAAT
1 GAAGAAGAAGAAT
26359521 GAAGAAGAAGAA
1 GAAGAAGAAGAA
26359533 GAGAATGAAA
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:0.64, C:0.00, G:0.32, T:0.04
Consensus pattern (13 bp):
GAAGAAGAAGAAT
Found at i:26360018 original size:18 final size:17
Alignment explanation
Indices: 26359991--26360028 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
26359981 GCATTTTTAC
26359991 TGTCACTGCATTTCATTT
1 TGTCACTGCATTTC-TTT
*
26360009 TGTCATTGCATTTCTTT
1 TGTCACTGCATTTCTTT
26360026 TGT
1 TGT
26360029 TAATTTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.55
Consensus pattern (17 bp):
TGTCACTGCATTTCTTT
Found at i:26360637 original size:12 final size:13
Alignment explanation
Indices: 26360622--26360650 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
26360612 AAAATGAAAA
26360622 AAAAGAAAAG-AG
1 AAAAGAAAAGAAG
26360634 AAAAGAAAAGAAG
1 AAAAGAAAAGAAG
26360647 AAAA
1 AAAA
26360651 AAATATGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAGAAG
Found at i:26363817 original size:20 final size:22
Alignment explanation
Indices: 26363789--26363836 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
26363779 ACAATCAACT
*
26363789 GACCC-ATGACCC-AATTGTGA
1 GACCCAATGACCCAAATCGTGA
26363809 -ACCCAATGACCCAAATCGTGA
1 GACCCAATGACCCAAATCGTGA
26363830 GACCCAA
1 GACCCAA
26363837 ATTTCGACCC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.17
20 7 0.29
21 7 0.29
22 6 0.25
ACGTcount: A:0.35, C:0.33, G:0.17, T:0.15
Consensus pattern (22 bp):
GACCCAATGACCCAAATCGTGA
Found at i:26363895 original size:19 final size:19
Alignment explanation
Indices: 26363873--26363911 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
26363863 CCCGAACATG
*
26363873 TTGACTCGTTGACTTTGAC
1 TTGACTCATTGACTTTGAC
*
26363892 TTGACTTATTGACTTTGAC
1 TTGACTCATTGACTTTGAC
26363911 T
1 T
26363912 CGACCTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGACTCATTGACTTTGAC
Found at i:26363920 original size:19 final size:19
Alignment explanation
Indices: 26363881--26363923 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
26363871 TGTTGACTCG
* *
26363881 TTGACTTTGACTTGACTTA
1 TTGACTTTGACTCGACCTA
26363900 TTGACTTTGACTCGACCTA
1 TTGACTTTGACTCGACCTA
26363919 TTGAC
1 TTGAC
26363924 CGTTGACCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (19 bp):
TTGACTTTGACTCGACCTA
Found at i:26378093 original size:12 final size:12
Alignment explanation
Indices: 26378057--26378103 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
26378047 TTTGCCTCGA
26378057 CTTCTTTTCCTT
1 CTTCTTTTCCTT
*
26378069 CCTCTCTTT-CTT
1 CTTCT-TTTCCTT
26378081 CTTCTTTTCCTT
1 CTTCTTTTCCTT
26378093 CTTCTTCTTCC
1 CTTCTT-TTCC
26378104 ACTTCTTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 3 0.10
12 20 0.67
13 7 0.23
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (12 bp):
CTTCTTTTCCTT
Found at i:26378108 original size:24 final size:24
Alignment explanation
Indices: 26378056--26378110 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
26378046 ATTTGCCTCG
*
26378056 ACTTCTTTTCCTTCCTCTCTTTCT
1 ACTTCTTTTCCTTCCTCTCTTTCC
* *
26378080 TCTTCTTTTCCTTCTTCT-TCTTCC
1 ACTTCTTTTCCTTCCTCTCT-TTCC
26378104 ACTTCTT
1 ACTTCTT
26378111 CCACTTGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.04, C:0.36, G:0.00, T:0.60
Consensus pattern (24 bp):
ACTTCTTTTCCTTCCTCTCTTTCC
Found at i:26391734 original size:18 final size:17
Alignment explanation
Indices: 26391701--26391737 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
26391691 TAAGATTAGG
*
26391701 TTTTATTTGTTATTTTA
1 TTTTATTTATTATTTTA
26391718 TTTTATTTATCTATTTTA
1 TTTTATTTAT-TATTTTA
26391736 TT
1 TT
26391738 CACTTTATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTATTTATTATTTTA
Found at i:26399444 original size:13 final size:14
Alignment explanation
Indices: 26399421--26399452 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
26399411 CCCTTACCAT
26399421 CTTCCCTCTTCCCC
1 CTTCCCTCTTCCCC
26399435 CTTCCC-CTTCCCC
1 CTTCCCTCTTCCCC
26399448 CTTCC
1 CTTCC
26399453 TTACCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (14 bp):
CTTCCCTCTTCCCC
Found at i:26406933 original size:38 final size:38
Alignment explanation
Indices: 26406880--26406979 Score: 123
Period size: 38 Copynumber: 2.6 Consensus size: 38
26406870 TGATTGTATG
26406880 GTGTTTATCGAGCTTTATGCCTAGCAAGTTTTATGTCA
1 GTGTTTATCGAGCTTTATGCCTAGCAAGTTTTATGTCA
* * * *
26406918 GTGTTTATCGGGCTTTGTGCCTAGCAGGTTTTATG-CTG
1 GTGTTTATCGAGCTTTATGCCTAGCAAGTTTTATGTC-A
*
26406956 GTGTTTATTGAGC-TTAGTGCCTAG
1 GTGTTTATCGAGCTTTA-TGCCTAG
26406980 TAAGCTTCGT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
37 3 0.06
38 50 0.94
ACGTcount: A:0.16, C:0.15, G:0.27, T:0.42
Consensus pattern (38 bp):
GTGTTTATCGAGCTTTATGCCTAGCAAGTTTTATGTCA
Found at i:26406993 original size:38 final size:38
Alignment explanation
Indices: 26406951--26407025 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
26406941 GCAGGTTTTA
* * * **
26406951 TGCTGGTGTTTATTGAGCTTAGTGCCTAGTAAGCTTCG
1 TGCTGGTGGTTATCGAGCTTAATGCCTAACAAGCTTCG
26406989 TGCTGGTGGTTATCGAGCTTAATGCCTAACAAGCTTC
1 TGCTGGTGGTTATCGAGCTTAATGCCTAACAAGCTTC
26407026 TTGCAGGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.36
Consensus pattern (38 bp):
TGCTGGTGGTTATCGAGCTTAATGCCTAACAAGCTTCG
Found at i:26409814 original size:2 final size:2
Alignment explanation
Indices: 26409807--26409833 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
26409797 TGATTTTGCC
26409807 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 A
26409834 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26409838 original size:2 final size:2
Alignment explanation
Indices: 26409833--26409867 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
26409823 ATATATATAT
26409833 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
26409868 ATTTAATACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:26411225 original size:27 final size:26
Alignment explanation
Indices: 26411195--26411249 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
26411185 TGAGAGGGGG
* *
26411195 GTAAAACTTGTAGGGGAAAAGTCAAAA
1 GTAAAAATTGTAGGGGAAAA-TAAAAA
* *
26411222 GTAAAAATTTTAGGGTAAAATAAAAA
1 GTAAAAATTGTAGGGGAAAATAAAAA
26411248 GT
1 GT
26411250 TTTTGGGGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.51, C:0.04, G:0.22, T:0.24
Consensus pattern (26 bp):
GTAAAAATTGTAGGGGAAAATAAAAA
Found at i:26411247 original size:20 final size:19
Alignment explanation
Indices: 26411224--26411271 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
26411214 AGTCAAAAGT
26411224 AAAAATTTTAGGGTAAAATA
1 AAAAATTTTAGGG-AAAATA
* * **
26411244 AAAAGTTTTTGGGGGAATA
1 AAAAATTTTAGGGAAAATA
26411263 AAAAATTTT
1 AAAAATTTT
26411272 GAGAGTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (19 bp):
AAAAATTTTAGGGAAAATA
Found at i:26412081 original size:19 final size:19
Alignment explanation
Indices: 26412050--26412086 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
26412040 CTTATTTTTC
26412050 TTTAAAATATTA-TAATTT
1 TTTAAAATATTATTAATTT
26412068 TTTAAAATTATTATTAATT
1 TTTAAAA-TATTATTAATT
26412087 AATTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 5 0.29
20 5 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTAAAATATTATTAATTT
Found at i:26412558 original size:3 final size:3
Alignment explanation
Indices: 26412552--26412576 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
26412542 TTTTATCATC
26412552 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
26412577 TCCCATCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:26418916 original size:20 final size:20
Alignment explanation
Indices: 26418832--26418916 Score: 50
Period size: 20 Copynumber: 4.2 Consensus size: 20
26418822 GTTTGGAGCT
* *
26418832 ATTTTGACTTGTTTGAAAAAC
1 ATTTTGACATGTTT-AAAATC
* *
26418853 GTTTTGA-A-GTGTTAAAATG
1 ATTTTGACATGT-TTAAAATC
* * *
26418872 ATTTTGACTTAG-TTCAAATT
1 ATTTTGACAT-GTTTAAAATC
*
26418892 TTTTTGACATGTTTAAAATC
1 ATTTTGACATGTTTAAAATC
26418912 ATTTT
1 ATTTT
26418917 AACTCGATTT
Statistics
Matches: 46, Mismatches: 13, Indels: 11
0.66 0.19 0.16
Matches are distributed among these distances:
19 13 0.28
20 26 0.57
21 6 0.13
22 1 0.02
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (20 bp):
ATTTTGACATGTTTAAAATC
Found at i:26421678 original size:20 final size:22
Alignment explanation
Indices: 26421641--26421681 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
26421631 TTTGGTGTCA
*
26421641 TTTTTTAGCAAATGTATCGATG
1 TTTTTTAGCAAATCTATCGATG
26421663 TTTTTTAG-AAA-CTATCGAT
1 TTTTTTAGCAAATCTATCGAT
26421682 ACCTATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (22 bp):
TTTTTTAGCAAATCTATCGATG
Found at i:26427295 original size:21 final size:21
Alignment explanation
Indices: 26427271--26427324 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
26427261 GAAATTTAAA
*
26427271 ACAAACATAATGATGAGAGTT
1 ACAAACATAATGAGGAGAGTT
*
26427292 ACAAA-ACTTATGAGGAGAGTT
1 ACAAACA-TAATGAGGAGAGTT
26427313 ACAAACATAATG
1 ACAAACATAATG
26427325 TTTTGTAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.22
Consensus pattern (21 bp):
ACAAACATAATGAGGAGAGTT
Found at i:26430339 original size:12 final size:12
Alignment explanation
Indices: 26430307--26430350 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
26430297 AAAGCAGTAT
*
26430307 ATAAAAAATTTA
1 ATAATAAATTTA
*
26430319 AT-TTAAATTTA
1 ATAATAAATTTA
26430330 ATAATAAATTTA
1 ATAATAAATTTA
*
26430342 AAAATAAAT
1 ATAATAAAT
26430351 AACAAGTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAATAAATTTA
Found at i:26430746 original size:21 final size:20
Alignment explanation
Indices: 26430714--26430782 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 20
26430704 TAAAAAAAAC
*
26430714 ATAATGATGAGAGTTACAAA
1 ATAATGAGGAGAGTTACAAA
* * *
26430734 ATTTATGAGGAGAGTTATAAGC
1 A-TAATGAGGAGAGTTACAA-A
26430756 ATAATGAGGAGAGTTACAAA
1 ATAATGAGGAGAGTTACAAA
26430776 CATAATG
1 -ATAATG
26430783 TTTTGTAGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.03
21 37 0.95
22 1 0.03
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (20 bp):
ATAATGAGGAGAGTTACAAA
Found at i:26437379 original size:42 final size:42
Alignment explanation
Indices: 26437318--26437415 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
26437308 GAAGTGGGCT
* *
26437318 TGCTCACATGAGCTGTGGGTCAAGAAGGTAGCTACACGATGC
1 TGCTCACACGAGCTATGGGTCAAGAAGGTAGCTACACGATGC
* *
26437360 TGCTCACACGAGCTATGGGTCGAGACGGTAGCTACACGATGC
1 TGCTCACACGAGCTATGGGTCAAGAAGGTAGCTACACGATGC
*
26437402 TGCTCAAACGAGCT
1 TGCTCACACGAGCT
26437416 GTGGAGAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (42 bp):
TGCTCACACGAGCTATGGGTCAAGAAGGTAGCTACACGATGC
Found at i:26440849 original size:170 final size:170
Alignment explanation
Indices: 26440567--26440909 Score: 659
Period size: 170 Copynumber: 2.0 Consensus size: 170
26440557 TGATTATTAG
* *
26440567 GAACAACAAACATGATTAGCGTGACTCAAGTCTAGACCACACTTGAGATAGTGAACATCGTGATT
1 GAACAACAAACATGATTAGCGTGACTCAAATCTAGACCACACTTGAGACAGTGAACATCGTGATT
26440632 ATTAGGCCATCATATAAGATTCTTTTTCTCTTTCATTTTATAAGTAACATTTGTAATTTTTTTAA
66 ATTAGGCCATCATATAAGATTCTTTTTCTCTTTCATTTTATAAGTAACATTTGTAATTTTTTTAA
26440697 TTTTATTATCGCTTATAACTTCCATCTATTTATTTTTTTA
131 TTTTATTATCGCTTATAACTTCCATCTATTTATTTTTTTA
26440737 GAACAACAAACATGATTAGCGTGACTCAAATCTAGACCACACTTGAGACAGTGAACATCGTGATT
1 GAACAACAAACATGATTAGCGTGACTCAAATCTAGACCACACTTGAGACAGTGAACATCGTGATT
*
26440802 ATTAGGCTATCATATAAGATTCTTTTTCTCTTTCATTTTATAAGTAACATTTGTAATTTTTTTAA
66 ATTAGGCCATCATATAAGATTCTTTTTCTCTTTCATTTTATAAGTAACATTTGTAATTTTTTTAA
26440867 TTTTATTATCGCTTATAACTTCCATCTATTTATTTTTTTA
131 TTTTATTATCGCTTATAACTTCCATCTATTTATTTTTTTA
26440907 GAA
1 GAA
26440910 AAAAAATAAA
Statistics
Matches: 170, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
170 170 1.00
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (170 bp):
GAACAACAAACATGATTAGCGTGACTCAAATCTAGACCACACTTGAGACAGTGAACATCGTGATT
ATTAGGCCATCATATAAGATTCTTTTTCTCTTTCATTTTATAAGTAACATTTGTAATTTTTTTAA
TTTTATTATCGCTTATAACTTCCATCTATTTATTTTTTTA
Found at i:26442872 original size:94 final size:93
Alignment explanation
Indices: 26442693--26443006 Score: 387
Period size: 94 Copynumber: 3.3 Consensus size: 93
26442683 AATGCCATTT
* * * * * *
26442693 CTGTTA-CAGGTATGCGATGCTGCTCACACTAAGTTGACAAGGACTCGCCAATATATGCAATACC
1 CTGTTACCA-GTATACGATGCTG-TCACACTAAGCTGACGAGGACTC-ACAACATATGCAGTACC
*
26442757 TCAGCCATCGATATGGTATCTGTACATATAA
63 TCAGCCATCGATACGGTATCTGTACATATAA
** *
26442788 CTGTTAGTAGTATACGATGCTGTGCACACTAAGCTGACGAGGACTCACAACATATGCGGTACCTC
1 CTGTTACCAGTATACGATGCTGT-CACACTAAGCTGACGAGGACTCACAACATATGCAGTACCTC
* *
26442853 AGCCATCGATACAGTATCTGTTCATATAA
65 AGCCATCGATACGGTATCTGTACATATAA
* * *
26442882 CTGTTACCAATATACGATGCTACTCACACAAAGCTGACGAGGACTCACAACATATGCAGTACCTC
1 CTGTTACCAGTATACGATGCT-GTCACACTAAGCTGACGAGGACTCACAACATATGCAGTACCTC
* *
26442947 AGCCACCGATACGGTGTCTGTACATATAA
65 AGCCATCGATACGGTATCTGTACATATAA
* * *
26442976 CTGTTACCAATATACAATGCTACTCACACTA
1 CTGTTACCAGTATACGATGCT-GTCACACTA
26443007 CGGTGACAAG
Statistics
Matches: 193, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
94 153 0.79
95 39 0.20
96 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (93 bp):
CTGTTACCAGTATACGATGCTGTCACACTAAGCTGACGAGGACTCACAACATATGCAGTACCTCA
GCCATCGATACGGTATCTGTACATATAA
Found at i:26443608 original size:16 final size:16
Alignment explanation
Indices: 26443584--26443614 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26443574 TCCTAACAAA
*
26443584 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
26443600 TTTAGTCCTTTAACA
1 TTTAGTCCTTTAACA
26443615 AAAAAATTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.19, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:26444823 original size:17 final size:17
Alignment explanation
Indices: 26444803--26444835 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
26444793 TTTAAGGACT
26444803 TTTTAATTTTA-TTTAAG
1 TTTT-ATTTTAGTTTAAG
26444820 TTTTATTTTAGTTTAA
1 TTTTATTTTAGTTTAA
26444836 TAAGTGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTTATTTTAGTTTAAG
Done.