Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold301
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1229110
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.30
Warning! 128216 characters in sequence are not A, C, G, or T
File 2 of 4
Found at i:1110 original size:428 final size:427
Alignment explanation
Indices: 313--1167 Score: 1674
Period size: 428 Copynumber: 2.0 Consensus size: 427
303 TTCGTAAAAC
313 GATTTTTGGATATTCATTATGTTTTCAATGTTCGTGAATTCTTGACCATGATCTATTAATTTAGT
1 GATTTTTGGATATTCATTATGTTTTCAATGTTCGTGAATTCTTGACCATGATCTATTAATTTAGT
*
378 TATCATTTTTTCTATATAGTTTCTTTTTTCTAAATTACAAAAGAAATTCGTTGATCGCTCCCCTT
66 TATCATTTTTTCTATATAGTTTCTTTTTTCTAAATGACAAAAGAAATTCGTTGATCGCTCCCCTT
443 CCACATTCCACCTGGCTTTTGCCCTTATAATCATTCCCTGTATTTTTTTATTTCGTATATTTTTC
131 CCACATTCCACCTGGCTTTTGCCCTTATAATCATTCCCTGTATTTTTTTATTTCGTATATTTTTC
508 AGTTCATTTTCAACTTTGTCTATGTTTTCTTTATCTACCGTTCCCGCGTTTTCATCCCTATACAA
196 AGTTCATTTTCAACTTTGTCTATGTTTTCTTTATCTACCGTTCCCGCGTTTTCATCCCTATACAA
573 TGCAATTAATTGAGTTTCCAAAACTTTTTCCTGTTTTTCACTTTCCCTTTTTCGATAGGATGCAT
261 TGCAATTAATTGAGTTTCCAAAACTTTTTCCTGTTTTTCACTTTCCCTTTTTCGATAGGATGCAT
638 ACGATATAGTTTGGCCCCTTATAGCAAGTTTTAATGTTTCCCAGAGTAGTTGGTCGTTAACAGAG
326 ACGATATAGTTTGGCCCCTTATAGCAAGTTTTAATGTTTCCCAGAGTAGTTGGTCGTTAACAGAG
703 TATTGTATCGTTTCACTGTTTGAGAAAATTTCATAGA
391 TATTGTATCGTTTCACTGTTTGAGAAAATTTCATAGA
*
740 NGATTTTTGGATATTCATTATGTTTTCAATGTTCGTGAATTCTTGACCATGATTTATTAATTTAG
1 -GATTTTTGGATATTCATTATGTTTTCAATGTTCGTGAATTCTTGACCATGATCTATTAATTTAG
805 TTATCATTTTTTCTATATAGTTTCTTTTTTCTAAATGACAAAAGAAATTCGTTGATCGCTCCCCT
65 TTATCATTTTTTCTATATAGTTTCTTTTTTCTAAATGACAAAAGAAATTCGTTGATCGCTCCCCT
870 TCCACATTCCACCTGGCTTTTGCCCTTATAATCATTCCCTGTATTTTTTTATTTCGTATATTTTT
130 TCCACATTCCACCTGGCTTTTGCCCTTATAATCATTCCCTGTATTTTTTTATTTCGTATATTTTT
*
935 CAGTTCATTTTCAACTTTGTCTATGTTTTTTTTATCTACCGTTCCCGCGTTTTCATCCCTATACA
195 CAGTTCATTTTCAACTTTGTCTATGTTTTCTTTATCTACCGTTCCCGCGTTTTCATCCCTATACA
1000 ATGCAATTAATTGAGTTTCCAAAACTTTTTCCTGTTTTTCACTTTCCCTTTTTCGATAGGATGCA
260 ATGCAATTAATTGAGTTTCCAAAACTTTTTCCTGTTTTTCACTTTCCCTTTTTCGATAGGATGCA
1065 TACGATATAGTTTGGCCCCTTATAGCAAGTTTTAATGTTTCCCAGAGTAGTTGGTCGTTAACAGA
325 TACGATATAGTTTGGCCCCTTATAGCAAGTTTTAATGTTTCCCAGAGTAGTTGGTCGTTAACAGA
1130 GTATTGTATCGTTTCACTGTTTGAGAAAATTTCATAGA
390 GTATTGTATCGTTTCACTGTTTGAGAAAATTTCATAGA
1168 TAGATAGAGT
Statistics
Matches: 424, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
428 424 1.00
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (427 bp):
GATTTTTGGATATTCATTATGTTTTCAATGTTCGTGAATTCTTGACCATGATCTATTAATTTAGT
TATCATTTTTTCTATATAGTTTCTTTTTTCTAAATGACAAAAGAAATTCGTTGATCGCTCCCCTT
CCACATTCCACCTGGCTTTTGCCCTTATAATCATTCCCTGTATTTTTTTATTTCGTATATTTTTC
AGTTCATTTTCAACTTTGTCTATGTTTTCTTTATCTACCGTTCCCGCGTTTTCATCCCTATACAA
TGCAATTAATTGAGTTTCCAAAACTTTTTCCTGTTTTTCACTTTCCCTTTTTCGATAGGATGCAT
ACGATATAGTTTGGCCCCTTATAGCAAGTTTTAATGTTTCCCAGAGTAGTTGGTCGTTAACAGAG
TATTGTATCGTTTCACTGTTTGAGAAAATTTCATAGA
Found at i:7235 original size:483 final size:485
Alignment explanation
Indices: 6083--7329 Score: 2240
Period size: 483 Copynumber: 2.6 Consensus size: 485
6073 TCAGCAAATT
6083 AATGTAAATGACAATCTGAAATTCGAAAAAAAAAATTCCTGATGTTCCATCCTTTTCTTCTTCAT
1 AATGTAAATGACAATCTGAAATTCG-AAAAAAAAATTCCTGATGTTCCATCCTTTTCTTCTTCAT
6148 CG----T--TTCAGTGATTTAGCAATGTTTACTTCCAAATTTTATCATAACTGTCATGTGATCAC
65 CGTTTCTAATTCAGTGATTTAGCAATGTTTACTTCCAAATTTTATCATAACTGTCATGTGATCAC
*
6207 TGAGTGTCATGAGATCAGATTCCTTTCTATCCTTGTGGCGGTTAAACAAATCATTTTCCGGATGT
130 TGAGTGTCATGAGATCAGATTCCTTTCTATCCTTGTGGCGGTTAAACAAATCACTTTCCGGATGT
6272 TATTGTACACCAGTCGGATATTCTGATTACTGAATGTCCAACTTATTAGACAACATTTACACTTA
195 TATTGTACACCAGTCGGATATTCTGATTACTGAATGTCCAACTTATTAGACAACATTTACACTTA
* *
6337 GTGAAATCTAAAAGATTTTTTTTTTCTTGTGGGTGATATGTGAGACTGGTTTGCAACAAATACTA
260 TTGAAATCTAAAAGA---TTTTTTTATTGTGGGTGATATGTGAGACTGGTTTGCAACAAATACTA
*
6402 ATTTTCATCACACATAACCATCACTTTAAAAATCAAAAGACAGTTAATTTAAAGAAAGATAAATA
322 ATTTTCATCACACATAACCATCACTTTAAAAATCAAAAGACACTTAATTTAAAGAAAGATAAATA
******
6467 AATATAAAATTTAAACACTTTTTTATAATAATTTTTTTTTATCAAATATTAAATTGTTTTTTCTA
387 AATATAAAATTTAAACACTTTTTTATAATAAAAAAAATTTATCAAATATTAAATTGTTTTTTCTA
*
6532 AATAAATCTGTATATGATTTTTTATTAATCAGCA
452 AATAAATCTGTATATGATTTTTAATTAATCAGCA
6566 AATGTAAATGACAATCTGAAATTCGAAAAAAAAATTCCTGATGTTCCATCCTTTTCTTCTTCATC
1 AATGTAAATGACAATCTGAAATTCGAAAAAAAAATTCCTGATGTTCCATCCTTTTCTTCTTCATC
*
6631 GTTTCTAATTCAGTGATTTAGCAATGTTTACATCCAAATTTTATCATAACTGTCATGTGATCACT
66 GTTTCTAATTCAGTGATTTAGCAATGTTTACTTCCAAATTTTATCATAACTGTCATGTGATCACT
6696 GAGTGTCATGAGATCAGATTCCTTTCTATCCTTGTGGCGGTTAAACAAATCACTTTCCGGATGTT
131 GAGTGTCATGAGATCAGATTCCTTTCTATCCTTGTGGCGGTTAAACAAATCACTTTCCGGATGTT
*
6761 ATTGTACACCAGTCGGATATTCTGATTACTAAATGTCCAACTTATTAGACAACATTTACACTTAT
196 ATTGTACACCAGTCGGATATTCTGATTACTGAATGTCCAACTTATTAGACAACATTTACACTTAT
*
6826 TGAAATCTAAAAGATTTTTTTATTGTGGGTGATATGTGAGACTGGTTTGCATCAAATACTAATTT
261 TGAAATCTAAAAGATTTTTTTATTGTGGGTGATATGTGAGACTGGTTTGCAACAAATACTAATTT
6891 TCATCACACATAACCATCACTTTAAAAATCAAAAGACACTTAATTTAAAGAAAGATAAATAAATA
326 TCATCACACATAACCATCACTTTAAAAATCAAAAGACACTTAATTTAAAGAAAGATAAATAAATA
6956 TAAAATTTAAACACTTTTTTATAA-AAAAAAAATTTATCAAATATTAAATTGTTTTTTCTAAATA
391 TAAAATTTAAACACTTTTTTATAATAAAAAAAATTTATCAAATATTAAATTGTTTTTTCTAAATA
*
7020 AATTTGTATATGATTTTTAATTAATCAGCA
456 AATCTGTATATGATTTTTAATTAATCAGCA
* *
7050 AATGTAAATGACAATCTGAAATTCG-AAAAAAAATTCCTGATATTCCATCCTTTTTTTCTTCATC
1 AATGTAAATGACAATCTGAAATTCGAAAAAAAAATTCCTGATGTTCCATCCTTTTCTTCTTCATC
7114 GTTTCTAATTCAGTGATTTAGCAATGTTTACTTCCAAATTTTATCATAACTGTCATGTGATCACT
66 GTTTCTAATTCAGTGATTTAGCAATGTTTACTTCCAAATTTTATCATAACTGTCATGTGATCACT
7179 GAGTGTCATGAGATCAGATTCCTTTCTATCCTTGTGGCGGTTAAACAAATCACTTTCCGGATGTT
131 GAGTGTCATGAGATCAGATTCCTTTCTATCCTTGTGGCGGTTAAACAAATCACTTTCCGGATGTT
*
7244 ATTGAACACCAGTCGGATATTCTGATTACTGAATGTCCAACTTATTAGACAACATTTACACTTAT
196 ATTGTACACCAGTCGGATATTCTGATTACTGAATGTCCAACTTATTAGACAACATTTACACTTAT
7309 TGAAATCTAAAAGATTTTTTT
261 TGAAATCTAAAAGATTTTTTT
7330 TTTCTTGTGG
Statistics
Matches: 738, Mismatches: 20, Indels: 12
0.96 0.03 0.02
Matches are distributed among these distances:
482 41 0.06
483 275 0.37
484 87 0.12
485 137 0.19
486 1 0.00
488 197 0.27
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (485 bp):
AATGTAAATGACAATCTGAAATTCGAAAAAAAAATTCCTGATGTTCCATCCTTTTCTTCTTCATC
GTTTCTAATTCAGTGATTTAGCAATGTTTACTTCCAAATTTTATCATAACTGTCATGTGATCACT
GAGTGTCATGAGATCAGATTCCTTTCTATCCTTGTGGCGGTTAAACAAATCACTTTCCGGATGTT
ATTGTACACCAGTCGGATATTCTGATTACTGAATGTCCAACTTATTAGACAACATTTACACTTAT
TGAAATCTAAAAGATTTTTTTATTGTGGGTGATATGTGAGACTGGTTTGCAACAAATACTAATTT
TCATCACACATAACCATCACTTTAAAAATCAAAAGACACTTAATTTAAAGAAAGATAAATAAATA
TAAAATTTAAACACTTTTTTATAATAAAAAAAATTTATCAAATATTAAATTGTTTTTTCTAAATA
AATCTGTATATGATTTTTAATTAATCAGCA
Found at i:15169 original size:11 final size:10
Alignment explanation
Indices: 15142--15171 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
15132 TCTAATGCAT
15142 ATTTATAATA
1 ATTTATAATA
15152 ATTTATAATA
1 ATTTATAATA
15162 ATTTTATAAT
1 A-TTTATAAT
15172 TCTTTATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
ATTTATAATA
Found at i:15188 original size:21 final size:22
Alignment explanation
Indices: 15140--15188 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
15130 TTTCTAATGC
15140 ATATTTATAATAATTTATAATA
1 ATATTTATAATAATTTATAATA
** *
15162 AT-TTTATAATTCTTTATCA-A
1 ATATTTATAATAATTTATAATA
15182 ATATTTA
1 ATATTTA
15189 ATTACACGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 3 0.13
21 18 0.78
22 2 0.09
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATTTATAATAATTTATAATA
Found at i:22835 original size:17 final size:17
Alignment explanation
Indices: 22813--22866 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
22803 AGCACGTTCG
22813 TTATTAATAGATATTGA
1 TTATTAATAGATATTGA
*
22830 TTATTAAAATG-TATTGA
1 TTATTAATA-GATATTGA
*
22847 TGTATTATATGGATATTGA
1 T-TATTA-ATAGATATTGA
22866 T
1 T
22867 ATATGTAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 15 0.50
18 7 0.23
19 8 0.27
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (17 bp):
TTATTAATAGATATTGA
Found at i:29742 original size:2 final size:2
Alignment explanation
Indices: 29735--29784 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
29725 AAGCAAATTT
* *
29735 TC TC TC TC TC TC TT TC TC TT TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
29777 TC TC TC TC
1 TC TC TC TC
29785 ATTATTTACA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:29932 original size:2 final size:2
Alignment explanation
Indices: 29925--29974 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
29915 AAGCAAATTT
* *
29925 TC TC TC TC TC TC TT TC TC TT TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
29967 TC TC TC TC
1 TC TC TC TC
29975 ATTATTTACA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:29991 original size:190 final size:189
Alignment explanation
Indices: 29661--30036 Score: 718
Period size: 190 Copynumber: 2.0 Consensus size: 189
29651 CACAATATCG
*
29661 AAATATGACATCGTAAAGCCCTTTTCCCGCCATTTTTGCATTTTTATCATAAAACTGTGTTTTCA
1 AAATATAACATCGTAAAGCCCTTTTCCCGCCATTTTTGCATTTTTATCATAAAACTGTGTTTTCA
29726 AGCAAATTTTCTCTCTCTCTCTTTCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCATTATT
66 AGCAAATTTTCTCTCTCTCTCTTTCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCATTATT
29791 TACATGTAAATCCGTTATTTTACTTTTGTAAGATTAAGAAATACACAGATACATTTNTAA
131 TACATGTAAATCCGTTATTTTACTTTTGTAAGATTAAGAAATACACAGATACATTT-TAA
29851 AAATATAACATCGTAAA-CCCTTTTCCCCGCCATTTTTGCATTTTTATCATAAAACTGTGTTTTC
1 AAATATAACATCGTAAAGCCCTTTT-CCCGCCATTTTTGCATTTTTATCATAAAACTGTGTTTTC
29915 AAGCAAATTTTCTCTCTCTCTCTTTCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCATTAT
65 AAGCAAATTTTCTCTCTCTCTCTTTCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCATTAT
29980 TTACATGTAAATCCGTTATTTTACTTTTGTAAGATTAAGAAATACACAGATACATTT
130 TTACATGTAAATCCGTTATTTTACTTTTGTAAGATTAAGAAATACACAGATACATTT
30037 GAGTTCAATC
Statistics
Matches: 184, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
189 7 0.04
190 177 0.96
ACGTcount: A:0.25, C:0.24, G:0.07, T:0.44
Consensus pattern (189 bp):
AAATATAACATCGTAAAGCCCTTTTCCCGCCATTTTTGCATTTTTATCATAAAACTGTGTTTTCA
AGCAAATTTTCTCTCTCTCTCTTTCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCATTATT
TACATGTAAATCCGTTATTTTACTTTTGTAAGATTAAGAAATACACAGATACATTTTAA
Found at i:31913 original size:17 final size:17
Alignment explanation
Indices: 31891--31927 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
31881 CTATCATGGG
31891 TTTTTTG-TTTGTTTGTT
1 TTTTTTGTTTTGTTT-TT
31908 TTTTTTGTTTTGTTTTT
1 TTTTTTGTTTTGTTTTT
31925 TTT
1 TTT
31928 AATTTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (17 bp):
TTTTTTGTTTTGTTTTT
Found at i:31919 original size:14 final size:13
Alignment explanation
Indices: 31892--31941 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
31882 TATCATGGGT
31892 TTTTTGTTTGTTTG
1 TTTTT-TTTGTTTG
31906 TTTTTTTTGTTTTG
1 TTTTTTTTG-TTTG
* *
31920 TTTTTTTTAATTTC
1 TTTTTTTT-GTTTG
31934 TTTTTTTT
1 TTTTTTTT
31942 AATTTATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 4 0.12
14 28 0.88
ACGTcount: A:0.04, C:0.02, G:0.10, T:0.84
Consensus pattern (13 bp):
TTTTTTTTGTTTG
Found at i:31942 original size:14 final size:14
Alignment explanation
Indices: 31906--31946 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
31896 TGTTTGTTTG
** *
31906 TTTTTTTTGTTTTG
1 TTTTTTTTAATTTC
31920 TTTTTTTTAATTTC
1 TTTTTTTTAATTTC
31934 TTTTTTTTAATTT
1 TTTTTTTTAATTT
31947 ATTTATTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.10, C:0.02, G:0.05, T:0.83
Consensus pattern (14 bp):
TTTTTTTTAATTTC
Found at i:38875 original size:339 final size:337
Alignment explanation
Indices: 38454--39103 Score: 932
Period size: 339 Copynumber: 1.9 Consensus size: 337
38444 CCCATCATGT
* * *
38454 CCTGAACCCCTGACCCAGGGGCCATGAATTTCACAATTTAAGTAGAGGAGTTAGTGGACATCATA
1 CCTGAACCCCTGACCCAGGGACCATGAATTTCACAATTTAAGAAGAGGAGTTAGTGAACATCATA
* * * ** * *
38519 ACCATGTATTCAGTTTTT-TGCCAACATGTGTGGGAGTAGAGAAGAAGATTTTCTAAGATTTAAT
66 ACCATGCATTCAGTTTTTAAG-AAACAAATATGGGAGTAGAGAAGAAGATTTTCTAAGATTCAAT
38583 ACATTTTAACTATATGGCCATACTGGCCCCACCCTAGAGCCTGAACCCCTGACCC-AGGGGCCAT
130 ACATTTTAACTATATGGCCATACTGGCCCCACCCTAGAGCCTGAACCCCTGACCCTA-GGGCCAT
* * *
38647 AAATAATTTCACAATTTTGGTAGAGGGCCTCATGGACATCATCATCATGCATTTAGTTTTTAACA
194 ---GAATTTCACAATTTAGGTAGAGGGCCTCATGGACATCATAATCATGCATTTAGTTTTTAACA
*
38712 AATAA-ATATGGGAGTAGAGAAGAAGATTTTTTAAGATTTAATACATGTTTACTATATGGCCATA
256 AATAATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATGTTTACTATATGGCCATA
38776 TTGGCCCCACCCTAGAG
321 TTGGCCCCACCCTAGAG
* **
38793 CCTGAACCCCTGACCCAGGGATCATGAATTTCACAATTTTGGAAGAGG-GTCTCA-TGAACATCA
1 CCTGAACCCCTGACCCAGGGACCATGAATTTCACAATTTAAGAAGAGGAGT-T-AGTGAACATCA
* * * * *
38856 TCATCATGCATTTAGTTTTTAAGAAATAAATATGGGAGTAGATAAGAAGATTTTCTAAGATTCAA
64 TAACCATGCATTCAGTTTTTAAGAAACAAATATGGGAGTAGAGAAGAAGATTTTCTAAGATTCAA
* * *
38921 TACATTTTTACTATATGGCCATATTGGCCCCACCCTAGAGCCTGAACCCCTGACCCTAGGGTCAT
129 TACATTTTAACTATATGGCCATACTGGCCCCACCCTAGAGCCTGAACCCCTGACCCTAGGGCCAT
* * *
38986 GAATTTCATAATTTAGGTAGAGGGCTTCATGGACATCATAATCATGCATTTAGTTTTTAATAAAT
194 GAATTTCACAATTTAGGTAGAGGGCCTCATGGACATCATAATCATGCATTTAGTTTTTAACAAAT
* *
39051 AATATATGGTAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTAT
259 AATATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATGTTTACTAT
39104 TTATTTTGCA
Statistics
Matches: 276, Mismatches: 30, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
336 61 0.22
337 47 0.17
338 2 0.01
339 163 0.59
340 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (337 bp):
CCTGAACCCCTGACCCAGGGACCATGAATTTCACAATTTAAGAAGAGGAGTTAGTGAACATCATA
ACCATGCATTCAGTTTTTAAGAAACAAATATGGGAGTAGAGAAGAAGATTTTCTAAGATTCAATA
CATTTTAACTATATGGCCATACTGGCCCCACCCTAGAGCCTGAACCCCTGACCCTAGGGCCATGA
ATTTCACAATTTAGGTAGAGGGCCTCATGGACATCATAATCATGCATTTAGTTTTTAACAAATAA
TATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATGTTTACTATATGGCCATATTGGC
CCCACCCTAGAG
Found at i:38917 original size:168 final size:167
Alignment explanation
Indices: 38454--39103 Score: 901
Period size: 168 Copynumber: 3.8 Consensus size: 167
38444 CCCATCATGT
** ** *
38454 CCTGAACCCCTGACCCAGGGGCCATGAATTTCACAATTTAAGTAGAGGAG-TTAGTGGACATCAT
1 CCTGAACCCCTGACCCAGGGATCATGAATTTCACAATTTTGGTAGAGG-GCTCA-TGGACATCAT
* * * * ** * * ** *
38518 AACCATGTATTCAGTTTTTTGCCAACATGTGTGGGAGTAGAGAAGAAGATTTTCTAAGATTTAAT
64 CATCATGCATTTAGTTTTTAACAAATAAATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAAT
* *
38583 ACATTTTAACTATATGGCCATACTGGCCCCACCCTAGAG
129 ACATTTTTACTATATGGCCATATTGGCCCCACCCTAGAG
*
38622 CCTGAACCCCTGACCCAGGGGCCATAAAT-AATTTCACAATTTTGGTAGAGGGCCTCATGGACAT
1 CCTGAACCCCTGACCCA-GGG--AT-CATGAATTTCACAATTTTGGTAGAGGG-CTCATGGACAT
*
38686 CATCATCATGCATTTAGTTTTTAACAAATAAATATGGGAGTAGAGAAGAAGATTTTTTAAGATTT
61 CATCATCATGCATTTAGTTTTTAACAAATAAATATGGGAGTAGAGAAGAAGATTTTCTAAGATTT
*
38751 AATACATGTTTACTATATGGCCATATTGGCCCCACCCTAGAG
126 AATACATTTTTACTATATGGCCATATTGGCCCCACCCTAGAG
* *
38793 CCTGAACCCCTGACCCAGGGATCATGAATTTCACAATTTTGGAAGAGGGTCTCATGAACATCATC
1 CCTGAACCCCTGACCCAGGGATCATGAATTTCACAATTTTGGTAGAGGG-CTCATGGACATCATC
* * *
38858 ATCATGCATTTAGTTTTTAAGAAATAAATATGGGAGTAGATAAGAAGATTTTCTAAGATTCAATA
65 ATCATGCATTTAGTTTTTAACAAATAAATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATA
38923 CATTTTTACTATATGGCCATATTGGCCCCACCCTAGAG
130 CATTTTTACTATATGGCCATATTGGCCCCACCCTAGAG
* *
38961 CCTGAACCCCTGACCCTAGGG-TCATGAATTTCATAATTTAGGTAGAGGGCTTCATGGACATCAT
1 CCTGAACCCCTGACCC-AGGGATCATGAATTTCACAATTTTGGTAGAGGGC-TCATGGACATCAT
* * *
39025 AATCATGCATTTAGTTTTTAATAAATAATATATGGTAGTAGAGAAGAAGATTTTCTAAGATTTAA
64 CATCATGCATTTAGTTTTTAACAAATAA-ATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAA
39090 TACATTTTTACTAT
128 TACATTTTTACTAT
39104 TTATTTTGCA
Statistics
Matches: 433, Mismatches: 39, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
167 3 0.01
168 232 0.54
169 54 0.12
170 4 0.01
171 136 0.31
172 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (167 bp):
CCTGAACCCCTGACCCAGGGATCATGAATTTCACAATTTTGGTAGAGGGCTCATGGACATCATCA
TCATGCATTTAGTTTTTAACAAATAAATATGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATAC
ATTTTTACTATATGGCCATATTGGCCCCACCCTAGAG
Found at i:46485 original size:21 final size:21
Alignment explanation
Indices: 46407--46488 Score: 112
Period size: 21 Copynumber: 3.9 Consensus size: 21
46397 ATCTGCCACC
* *
46407 ACTTATCAGATAATTATGTCG
1 ACTTGTCAGATATTTATGTCG
46428 ACTTGTCAGATGA-TTATGTCG
1 ACTTGTCAGAT-ATTTATGTCG
*
46449 ACTTGTCAGATATTTATGTCA
1 ACTTGTCAGATATTTATGTCG
*
46470 ACTTGTCAGATCTTTATGT
1 ACTTGTCAGATATTTATGT
46489 TGAAATGTCA
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
20 1 0.02
21 54 0.96
22 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (21 bp):
ACTTGTCAGATATTTATGTCG
Found at i:46498 original size:42 final size:42
Alignment explanation
Indices: 46412--46500 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
46402 CCACCACTTA
* * **
46412 TCAGATAATTATGTCGACTTGTCAGATGATTATGTCGACTTG
1 TCAGATAATTATGTCAACTTGTCAGATCATTATGTCGAAATG
* * *
46454 TCAGATATTTATGTCAACTTGTCAGATCTTTATGTTGAAATG
1 TCAGATAATTATGTCAACTTGTCAGATCATTATGTCGAAATG
46496 TCAGA
1 TCAGA
46501 AAATAACCAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.39
Consensus pattern (42 bp):
TCAGATAATTATGTCAACTTGTCAGATCATTATGTCGAAATG
Found at i:46597 original size:21 final size:21
Alignment explanation
Indices: 46573--46666 Score: 89
Period size: 21 Copynumber: 4.5 Consensus size: 21
46563 ATCTGCCACC
*
46573 ACTTGTCAGATAATTATGTTA
1 ACTTGTCAGATAATTATGTCA
* * * * *
46594 ACTTCTCATATGATAATGTCG
1 ACTTGTCAGATAATTATGTCA
*
46615 ACTTGTCAGATATTTATGTCA
1 ACTTGTCAGATAATTATGTCA
** **
46636 ACTTGTCAGATTTTTATGTTG
1 ACTTGTCAGATAATTATGTCA
46657 ACTTGTCAGA
1 ACTTGTCAGA
46667 AAATAAACAT
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.43
Consensus pattern (21 bp):
ACTTGTCAGATAATTATGTCA
Found at i:46632 original size:42 final size:42
Alignment explanation
Indices: 46573--46666 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
46563 ATCTGCCACC
* *
46573 ACTTGTCAGATAATTATGTTAACTTCTCATATGATAATGTCG
1 ACTTGTCAGATAATTATGTCAACTTCTCAGATGATAATGTCG
* * ** * *
46615 ACTTGTCAGATATTTATGTCAACTTGTCAGATTTTTATGTTG
1 ACTTGTCAGATAATTATGTCAACTTCTCAGATGATAATGTCG
46657 ACTTGTCAGA
1 ACTTGTCAGA
46667 AAATAAACAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.43
Consensus pattern (42 bp):
ACTTGTCAGATAATTATGTCAACTTCTCAGATGATAATGTCG
Found at i:46666 original size:166 final size:166
Alignment explanation
Indices: 46391--46712 Score: 536
Period size: 166 Copynumber: 1.9 Consensus size: 166
46381 TTTGTATGTT
* * *
46391 GCATAGATCTGCCACCACTTATCAGATAATTATGTCGACTTGTCAGATGATTATGTCGACTTGTC
1 GCATAGATCTGCCACCACTTATCAGATAATTATGTCAACTTCTCAGATGATAATGTCGACTTGTC
* *
46456 AGATATTTATGTCAACTTGTCAGATCTTTATGTTGAAATGTCAGAAAATAACCATATTGACTAGA
66 AGATATTTATGTCAACTTGTCAGATCTTTATGTTGAAATGTCAGAAAATAAACATAGTGACTAGA
*
46521 AACTCAATATTTTGTTGTTAAAGCGTATTTATGGTG
131 AACTCAATATTTTGTTGTCAAAGCGTATTTATGGTG
* * *
46557 GCATAGATCTGCCACCACTTGTCAGATAATTATGTTAACTTCTCATATGATAATGTCGACTTGTC
1 GCATAGATCTGCCACCACTTATCAGATAATTATGTCAACTTCTCAGATGATAATGTCGACTTGTC
* **
46622 AGATATTTATGTCAACTTGTCAGATTTTTATGTTGACTTGTCAGAAAATAAACATAGTGACTAGA
66 AGATATTTATGTCAACTTGTCAGATCTTTATGTTGAAATGTCAGAAAATAAACATAGTGACTAGA
46687 AACTCAATATTTTGTTGTCAAAGCGT
131 AACTCAATATTTTGTTGTCAAAGCGT
46713 GTTAGTGCCA
Statistics
Matches: 144, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
166 144 1.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.37
Consensus pattern (166 bp):
GCATAGATCTGCCACCACTTATCAGATAATTATGTCAACTTCTCAGATGATAATGTCGACTTGTC
AGATATTTATGTCAACTTGTCAGATCTTTATGTTGAAATGTCAGAAAATAAACATAGTGACTAGA
AACTCAATATTTTGTTGTCAAAGCGTATTTATGGTG
Found at i:46786 original size:22 final size:21
Alignment explanation
Indices: 46758--46822 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
46748 GATATCATAT
46758 AAGTCGACATAAATATCTGAC
1 AAGTCGACATAAATATCTGAC
* *
46779 AAGGTCGACATCAAGATCTGAC
1 AA-GTCGACATAAATATCTGAC
** *
46801 AAGTTAACATAATTATCTGAC
1 AAGTCGACATAAATATCTGAC
46822 A
1 A
46823 GGAAAAATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 17 0.47
22 19 0.53
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (21 bp):
AAGTCGACATAAATATCTGAC
Found at i:46905 original size:21 final size:21
Alignment explanation
Indices: 46874--47012 Score: 136
Period size: 21 Copynumber: 6.7 Consensus size: 21
46864 CATATTGGAA
* *
46874 GTCGTCTTGTCAGATAATGAT
1 GTCGACTTGTCAGATAATTAT
* *
46895 GTTGACTTGTCAGAT-GTTAT
1 GTCGACTTGTCAGATAATTAT
* * *
46915 GTCGTCTTATCAAATAATTAT
1 GTCGACTTGTCAGATAATTAT
*
46936 GTCGACTTGTCAAATAATTAT
1 GTCGACTTGTCAGATAATTAT
* *** *
46957 ATCGACTTAAAAGATGATTAT
1 GTCGACTTGTCAGATAATTAT
**
46978 GTCGACTTGTCAGATCCTTAT
1 GTCGACTTGTCAGATAATTAT
46999 GTCGACTTGTCAGA
1 GTCGACTTGTCAGA
47013 AAATATTATT
Statistics
Matches: 94, Mismatches: 23, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
20 14 0.15
21 80 0.85
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (21 bp):
GTCGACTTGTCAGATAATTAT
Found at i:47115 original size:21 final size:21
Alignment explanation
Indices: 47089--47180 Score: 103
Period size: 21 Copynumber: 4.4 Consensus size: 21
47079 CGTGTATAAG
* *
47089 TGACAAGTCGACTTAAAGAAC
1 TGACAAGTCGACATAAAGATC
** **
47110 TGACAAGTAAACATAATTATC
1 TGACAAGTCGACATAAAGATC
*
47131 TGACAAGTCGACATCAAGATC
1 TGACAAGTCGACATAAAGATC
**
47152 TGACAAGTCGACATAATTATC
1 TGACAAGTCGACATAAAGATC
47173 TGACAAGT
1 TGACAAGT
47181 GGTGGCAGAT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.24
Consensus pattern (21 bp):
TGACAAGTCGACATAAAGATC
Found at i:47136 original size:42 final size:42
Alignment explanation
Indices: 47089--47180 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
47079 CGTGTATAAG
*
47089 TGACAAGTCGACTTAAAGAACTGACAAGTAAACATAATTATC
1 TGACAAGTCGACATAAAGAACTGACAAGTAAACATAATTATC
* * **
47131 TGACAAGTCGACATCAAGATCTGACAAGTCGACATAATTATC
1 TGACAAGTCGACATAAAGAACTGACAAGTAAACATAATTATC
47173 TGACAAGT
1 TGACAAGT
47181 GGTGGCAGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.24
Consensus pattern (42 bp):
TGACAAGTCGACATAAAGAACTGACAAGTAAACATAATTATC
Found at i:47284 original size:21 final size:21
Alignment explanation
Indices: 47258--47326 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
47248 TGACAGGTCG
* *
47258 ACATAAAAATCAGAAAAGTTA
1 ACATAAAAATCTGACAAGTTA
** * **
47279 ACATAATTATTTGACAAGTCG
1 ACATAAAAATCTGACAAGTTA
47300 ACATAAAAATCTGACAAGTTA
1 ACATAAAAATCTGACAAGTTA
47321 ACATAA
1 ACATAA
47327 TTATCTAACA
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.25
Consensus pattern (21 bp):
ACATAAAAATCTGACAAGTTA
Found at i:47300 original size:42 final size:42
Alignment explanation
Indices: 47239--47332 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 42
47229 TACTCGGCAT
*
47239 CATAA-TATCTGACAGGTCGACATAAAAATCAGAAAAGTTAA
1 CATAATTATCTGACAAGTCGACATAAAAATCAGAAAAGTTAA
* * *
47280 CATAATTATTTGACAAGTCGACATAAAAATCTGACAAGTTAA
1 CATAATTATCTGACAAGTCGACATAAAAATCAGAAAAGTTAA
47322 CATAATTATCT
1 CATAATTATCT
47333 AACAGAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 5 0.11
42 42 0.89
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.28
Consensus pattern (42 bp):
CATAATTATCTGACAAGTCGACATAAAAATCAGAAAAGTTAA
Found at i:47421 original size:21 final size:21
Alignment explanation
Indices: 47395--47495 Score: 112
Period size: 21 Copynumber: 4.8 Consensus size: 21
47385 ATCTGCCACC
* *
47395 ACTTGTCAGATAATTATATTG
1 ACTTGTCAGATAATTATGTCG
*
47416 ACTTGTCAGATGATTATGTCG
1 ACTTGTCAGATAATTATGTCG
* *
47437 ACTTGTCAGATATTTATGTCA
1 ACTTGTCAGATAATTATGTCG
** * *
47458 ACTTGTCAGATCTTTTTGTTG
1 ACTTGTCAGATAATTATGTCG
*
47479 ACTTGTCAGAAAATTAT
1 ACTTGTCAGATAATTAT
47496 CGTATTGCGT
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 66 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.43
Consensus pattern (21 bp):
ACTTGTCAGATAATTATGTCG
Found at i:47619 original size:21 final size:21
Alignment explanation
Indices: 47567--47665 Score: 99
Period size: 21 Copynumber: 4.7 Consensus size: 21
47557 AACTTGTCAT
* *
47567 CATAATTATCTAACAAGTCAA
1 CATAATTATCTGACAAGTTAA
* * ** *
47588 TAAAAAGATCTGATAAGTTAA
1 CATAATTATCTGACAAGTTAA
**
47609 CATAATTATCTGACAAGTCGA
1 CATAATTATCTGACAAGTTAA
*
47630 CATAATGATCTGACAAGTTAA
1 CATAATTATCTGACAAGTTAA
*
47651 CATAATTATTTGACA
1 CATAATTATCTGACA
47666 GAAAAAATAA
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.30
Consensus pattern (21 bp):
CATAATTATCTGACAAGTTAA
Found at i:47626 original size:42 final size:42
Alignment explanation
Indices: 47567--47665 Score: 135
Period size: 42 Copynumber: 2.4 Consensus size: 42
47557 AACTTGTCAT
* * *
47567 CATAATTATCTAACAAGTCAATAAAAAGATCTGATAAGTTAA
1 CATAATTATCTGACAAGTCAACAAAAAGATCTGACAAGTTAA
* * *
47609 CATAATTATCTGACAAGTCGACATAATGATCTGACAAGTTAA
1 CATAATTATCTGACAAGTCAACAAAAAGATCTGACAAGTTAA
*
47651 CATAATTATTTGACA
1 CATAATTATCTGACA
47666 GAAAAAATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.30
Consensus pattern (42 bp):
CATAATTATCTGACAAGTCAACAAAAAGATCTGACAAGTTAA
Found at i:47728 original size:21 final size:21
Alignment explanation
Indices: 47703--47876 Score: 215
Period size: 21 Copynumber: 8.3 Consensus size: 21
47693 ATATATATTA
*
47703 TATGTTGACTTGTCAGATAAT
1 TATGTCGACTTGTCAGATAAT
*
47724 TATGTTGACTTGTCAGAT-AT
1 TATGTCGACTTGTCAGATAAT
*
47744 TATGTCGACTTGTCAAATAAT
1 TATGTCGACTTGTCAGATAAT
* * *
47765 AATTTCGACTTGTCATATAAT
1 TATGTCGACTTGTCAGATAAT
*
47786 TATGTCGACTTGTCAAATAAT
1 TATGTCGACTTGTCAGATAAT
* *
47807 GATGTCGACTTGTCAGATGAT
1 TATGTCGACTTGTCAGATAAT
* **
47828 TATGTCGACTTGTCGGATCCT
1 TATGTCGACTTGTCAGATAAT
*
47849 TATGTCGACTTGTCAGAAAAT
1 TATGTCGACTTGTCAGATAAT
47870 GTATGTC
1 -TATGTC
47877 AACTGGATGG
Statistics
Matches: 132, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
20 18 0.14
21 108 0.82
22 6 0.05
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (21 bp):
TATGTCGACTTGTCAGATAAT
Found at i:47968 original size:21 final size:21
Alignment explanation
Indices: 47942--48033 Score: 121
Period size: 21 Copynumber: 4.4 Consensus size: 21
47932 CGTGAATAAG
47942 TGACAAGTCGACATAAAGATC
1 TGACAAGTCGACATAAAGATC
* **
47963 TGACAAGTCAACATAATTATC
1 TGACAAGTCGACATAAAGATC
*
47984 TGACAAGTCGACATCAAGATC
1 TGACAAGTCGACATAAAGATC
** *
48005 TGACAAGTCGACATGGATATC
1 TGACAAGTCGACATAAAGATC
48026 TGACAAGT
1 TGACAAGT
48034 GGTGGCAGAA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (21 bp):
TGACAAGTCGACATAAAGATC
Found at i:47989 original size:42 final size:42
Alignment explanation
Indices: 47942--48033 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
47932 CGTGAATAAG
47942 TGACAAGTCGACATAAAGATCTGACAAGTCAACAT-AATTATC
1 TGACAAGTCGACATAAAGATCTGACAAGTCAACATGAA-TATC
* * *
47984 TGACAAGTCGACATCAAGATCTGACAAGTCGACATGGATATC
1 TGACAAGTCGACATAAAGATCTGACAAGTCAACATGAATATC
48026 TGACAAGT
1 TGACAAGT
48034 GGTGGCAGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (42 bp):
TGACAAGTCGACATAAAGATCTGACAAGTCAACATGAATATC
Found at i:48113 original size:21 final size:21
Alignment explanation
Indices: 48084--48222 Score: 163
Period size: 21 Copynumber: 6.7 Consensus size: 21
48074 CATATTATAA
* *
48084 GTCGACTTGTCCGATAATGAT
1 GTCGACTTGTCAGATAATTAT
* *
48105 GTTGACTTGTCAGAT-GTTAT
1 GTCGACTTGTCAGATAATTAT
* *
48125 GTCGTCTTGTCAAATAATTAT
1 GTCGACTTGTCAGATAATTAT
48146 GTCGACTTGTCAGATAATTAT
1 GTCGACTTGTCAGATAATTAT
*
48167 GTCGACTTGTCAAATAATTAT
1 GTCGACTTGTCAGATAATTAT
*** **
48188 GTCGACTTAAAAGATCCTTAT
1 GTCGACTTGTCAGATAATTAT
48209 GTCGACTTGTCAGA
1 GTCGACTTGTCAGA
48223 AAATATTATT
Statistics
Matches: 97, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
20 15 0.15
21 82 0.85
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (21 bp):
GTCGACTTGTCAGATAATTAT
Found at i:48357 original size:21 final size:21
Alignment explanation
Indices: 48299--48369 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
48289 CGTGAATAAG
* ** *
48299 TGACAAGTCAACTTAAAGAAC
1 TGACAAGTCAACATAATTATC
48320 TGACAAGTCAACATAATTATC
1 TGACAAGTCAACATAATTATC
*
48341 TGACAAGTCGACATAATTATC
1 TGACAAGTCAACATAATTATC
48362 TGACAAGT
1 TGACAAGT
48370 GGTGGCATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.25
Consensus pattern (21 bp):
TGACAAGTCAACATAATTATC
Found at i:50980 original size:21 final size:21
Alignment explanation
Indices: 50928--51026 Score: 99
Period size: 21 Copynumber: 4.7 Consensus size: 21
50918 AACTTGTCAT
* *
50928 CATAATTATCTAACAAGTCAA
1 CATAATTATCTGACAAGTTAA
* * ** *
50949 TAAAAAGATCTGATAAGTTAA
1 CATAATTATCTGACAAGTTAA
**
50970 CATAATTATCTGACAAGTCGA
1 CATAATTATCTGACAAGTTAA
*
50991 CATAATGATCTGACAAGTTAA
1 CATAATTATCTGACAAGTTAA
*
51012 CATAATTATTTGACA
1 CATAATTATCTGACA
51027 GAAAAAATAA
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.30
Consensus pattern (21 bp):
CATAATTATCTGACAAGTTAA
Found at i:50987 original size:42 final size:42
Alignment explanation
Indices: 50928--51026 Score: 135
Period size: 42 Copynumber: 2.4 Consensus size: 42
50918 AACTTGTCAT
* * *
50928 CATAATTATCTAACAAGTCAATAAAAAGATCTGATAAGTTAA
1 CATAATTATCTGACAAGTCAACAAAAAGATCTGACAAGTTAA
* * *
50970 CATAATTATCTGACAAGTCGACATAATGATCTGACAAGTTAA
1 CATAATTATCTGACAAGTCAACAAAAAGATCTGACAAGTTAA
*
51012 CATAATTATTTGACA
1 CATAATTATCTGACA
51027 GAAAAAATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.30
Consensus pattern (42 bp):
CATAATTATCTGACAAGTCAACAAAAAGATCTGACAAGTTAA
Found at i:51089 original size:21 final size:21
Alignment explanation
Indices: 51064--51237 Score: 215
Period size: 21 Copynumber: 8.3 Consensus size: 21
51054 ATATATATTA
*
51064 TATGTTGACTTGTCAGATAAT
1 TATGTCGACTTGTCAGATAAT
*
51085 TATGTTGACTTGTCAGAT-AT
1 TATGTCGACTTGTCAGATAAT
*
51105 TATGTCGACTTGTCAAATAAT
1 TATGTCGACTTGTCAGATAAT
* * *
51126 AATTTCGACTTGTCATATAAT
1 TATGTCGACTTGTCAGATAAT
*
51147 TATGTCGACTTGTCAAATAAT
1 TATGTCGACTTGTCAGATAAT
* *
51168 GATGTCGACTTGTCAGATGAT
1 TATGTCGACTTGTCAGATAAT
* **
51189 TATGTCGACTTGTCGGATCCT
1 TATGTCGACTTGTCAGATAAT
*
51210 TATGTCGACTTGTCAGAAAAT
1 TATGTCGACTTGTCAGATAAT
51231 GTATGTC
1 -TATGTC
51238 AACTGGATGG
Statistics
Matches: 132, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
20 18 0.14
21 108 0.82
22 6 0.05
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (21 bp):
TATGTCGACTTGTCAGATAAT
Found at i:51329 original size:21 final size:21
Alignment explanation
Indices: 51303--51394 Score: 121
Period size: 21 Copynumber: 4.4 Consensus size: 21
51293 CGTGAATAAG
51303 TGACAAGTCGACATAAAGATC
1 TGACAAGTCGACATAAAGATC
* **
51324 TGACAAGTCAACATAATTATC
1 TGACAAGTCGACATAAAGATC
*
51345 TGACAAGTCGACATCAAGATC
1 TGACAAGTCGACATAAAGATC
** *
51366 TGACAAGTCGACATGGATATC
1 TGACAAGTCGACATAAAGATC
51387 TGACAAGT
1 TGACAAGT
51395 GGTGGCAGAA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (21 bp):
TGACAAGTCGACATAAAGATC
Found at i:51350 original size:42 final size:42
Alignment explanation
Indices: 51303--51394 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
51293 CGTGAATAAG
51303 TGACAAGTCGACATAAAGATCTGACAAGTCAACAT-AATTATC
1 TGACAAGTCGACATAAAGATCTGACAAGTCAACATGAA-TATC
* * *
51345 TGACAAGTCGACATCAAGATCTGACAAGTCGACATGGATATC
1 TGACAAGTCGACATAAAGATCTGACAAGTCAACATGAATATC
51387 TGACAAGT
1 TGACAAGT
51395 GGTGGCAGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (42 bp):
TGACAAGTCGACATAAAGATCTGACAAGTCAACATGAATATC
Found at i:51474 original size:21 final size:21
Alignment explanation
Indices: 51445--51583 Score: 163
Period size: 21 Copynumber: 6.7 Consensus size: 21
51435 CATATTATAA
* *
51445 GTCGACTTGTCCGATAATGAT
1 GTCGACTTGTCAGATAATTAT
* *
51466 GTTGACTTGTCAGAT-GTTAT
1 GTCGACTTGTCAGATAATTAT
* *
51486 GTCGTCTTGTCAAATAATTAT
1 GTCGACTTGTCAGATAATTAT
51507 GTCGACTTGTCAGATAATTAT
1 GTCGACTTGTCAGATAATTAT
*
51528 GTCGACTTGTCAAATAATTAT
1 GTCGACTTGTCAGATAATTAT
*** **
51549 GTCGACTTAAAAGATCCTTAT
1 GTCGACTTGTCAGATAATTAT
51570 GTCGACTTGTCAGA
1 GTCGACTTGTCAGA
51584 AAATATTATT
Statistics
Matches: 97, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
20 15 0.15
21 82 0.85
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (21 bp):
GTCGACTTGTCAGATAATTAT
Found at i:51718 original size:21 final size:21
Alignment explanation
Indices: 51660--51730 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
51650 CGTGAATAAG
* ** *
51660 TGACAAGTCAACTTAAAGAAC
1 TGACAAGTCAACATAATTATC
51681 TGACAAGTCAACATAATTATC
1 TGACAAGTCAACATAATTATC
*
51702 TGACAAGTCGACATAATTATC
1 TGACAAGTCAACATAATTATC
51723 TGACAAGT
1 TGACAAGT
51731 GGTGGCATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.25
Consensus pattern (21 bp):
TGACAAGTCAACATAATTATC
Found at i:57249 original size:2 final size:2
Alignment explanation
Indices: 57244--57272 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
57234 AGTGTGTGTG
57244 TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57273 AAATCCTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:58155 original size:161 final size:161
Alignment explanation
Indices: 57883--58182 Score: 474
Period size: 161 Copynumber: 1.9 Consensus size: 161
57873 GAAATATCCA
* *
57883 CGAAGAAAATGAACGGAAACTGCAAATAATTGGAATTTTTCTAAGCCCAAGGGGCATAACTCTAT
1 CGAAGAAAATGAACGGAAACTGCAAATAATTGGAATTTTTCAAAGCCCAAGGGGCATAACTCGAT
* * * * * *
57948 CAAAAGTTGCTTGATCATACCCAAAATCAACCTTGACCTGGATATTATTATGATAAATCAGTATA
66 CAAAAATTGCTTCATCATACCCAAAATCAAACTTGACCTAGATATTATGATGACAAATCAGTATA
58013 CTAAATTTCTTTCAAATATCTGAAACTTCTG
131 CTAAATTTCTTTCAAATATCTGAAACTTCTG
* * *
58044 CGAAGAAAATGAACGGAAACTGCAAATAATTGGAATTTTTCAAAGTCCAAGGGGTATAACTCGGT
1 CGAAGAAAATGAACGGAAACTGCAAATAATTGGAATTTTTCAAAGCCCAAGGGGCATAACTCGAT
*
58109 CAAAAATTGCTTCATCATACCCAAAATCAAACTTGACCTAGATATTATGATGACAAATCTGTATA
66 CAAAAATTGCTTCATCATACCCAAAATCAAACTTGACCTAGATATTATGATGACAAATCAGTATA
* *
58174 TTTAATTTC
131 CTAAATTTC
58183 ATTACAATAC
Statistics
Matches: 125, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
161 125 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (161 bp):
CGAAGAAAATGAACGGAAACTGCAAATAATTGGAATTTTTCAAAGCCCAAGGGGCATAACTCGAT
CAAAAATTGCTTCATCATACCCAAAATCAAACTTGACCTAGATATTATGATGACAAATCAGTATA
CTAAATTTCTTTCAAATATCTGAAACTTCTG
Found at i:61527 original size:2 final size:2
Alignment explanation
Indices: 61520--61550 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
61510 TTACATGGAG
61520 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
61551 GTGTGTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62834 original size:17 final size:17
Alignment explanation
Indices: 62812--62848 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
62802 AAGACATGGT
62812 GAAACATGTGATAAAAA
1 GAAACATGTGATAAAAA
62829 GAAACATGTGATAAAAA
1 GAAACATGTGATAAAAA
62846 GAA
1 GAA
62849 TCTCTCATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.59, C:0.05, G:0.19, T:0.16
Consensus pattern (17 bp):
GAAACATGTGATAAAAA
Found at i:68570 original size:2 final size:2
Alignment explanation
Indices: 68563--68589 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
68553 TTAATAAATA
68563 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
68590 ATGGGCTAAT
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:69518 original size:2 final size:2
Alignment explanation
Indices: 69511--69574 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
69501 TGAAATATTG
69511 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
69553 CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT
69575 GGTTATACCT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:83066 original size:21 final size:21
Alignment explanation
Indices: 83041--83081 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
83031 ACGGCATGAA
83041 ATGAATTTAATTAT-AATTAAT
1 ATGAA-TTAATTATGAATTAAT
83062 ATGAATTAATTATGAATTAA
1 ATGAATTAATTATGAATTAA
83082 ATTGTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (21 bp):
ATGAATTAATTATGAATTAAT
Found at i:83075 original size:11 final size:11
Alignment explanation
Indices: 83041--83081 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
83031 ACGGCATGAA
83041 ATGAATTTAATT
1 ATGAA-TTAATT
83053 AT-AATTAA-T
1 ATGAATTAATT
83062 ATGAATTAATT
1 ATGAATTAATT
83073 ATGAATTAA
1 ATGAATTAA
83082 ATTGTTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 3 0.11
10 10 0.37
11 12 0.44
12 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (11 bp):
ATGAATTAATT
Found at i:97393 original size:2 final size:2
Alignment explanation
Indices: 97386--97443 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
97376 TGGGAGACAT
97386 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
97428 TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC
97444 ATTTTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:98586 original size:24 final size:24
Alignment explanation
Indices: 98553--98604 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
98543 ATTAAAAAAT
* *
98553 TATGGGGAATTATACGTACATGTA
1 TATGGAGAATTATACATACATGTA
98577 TATGGAGAATTATACATACATGTA
1 TATGGAGAATTATACATACATGTA
98601 TATG
1 TATG
98605 AATGATTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.35
Consensus pattern (24 bp):
TATGGAGAATTATACATACATGTA
Found at i:98843 original size:19 final size:20
Alignment explanation
Indices: 98816--98858 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
98806 AGACATAACT
* *
98816 ATGTGAATGACT-ATGTTTA
1 ATGTGAATGAATCATATTTA
*
98835 ATGTTAATGAATCATATTTA
1 ATGTGAATGAATCATATTTA
98855 ATGT
1 ATGT
98859 AGATAATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (20 bp):
ATGTGAATGAATCATATTTA
Found at i:101735 original size:2 final size:2
Alignment explanation
Indices: 101728--101765 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
101718 AGAGTGGGGA
101728 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
101766 GACTAAAACG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:102034 original size:24 final size:23
Alignment explanation
Indices: 102002--102046 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
101992 TTCACAAAGC
102002 TGTCATAAGATTTATCATAAGACA
1 TGTCATAAGA-TTATCATAAGACA
* *
102026 TGTCTTAAGATTGTCATAAGA
1 TGTCATAAGATTATCATAAGA
102047 TTTGATTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (23 bp):
TGTCATAAGATTATCATAAGACA
Found at i:104592 original size:10 final size:10
Alignment explanation
Indices: 104577--104652 Score: 116
Period size: 10 Copynumber: 7.4 Consensus size: 10
104567 CGCGTCTTTT
104577 AACCACAATG
1 AACCACAATG
104587 AACCACAATG
1 AACCACAATG
*
104597 AACCGCAATG
1 AACCACAATG
104607 AACCACAATG
1 AACCACAATG
*
104617 AAACCACACTG
1 -AACCACAATG
104628 AACCACAATG
1 AACCACAATG
104638 AAACCACAATG
1 -AACCACAATG
104649 AACC
1 AACC
104653 TAAATTAACT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
10 41 0.68
11 19 0.32
ACGTcount: A:0.49, C:0.32, G:0.11, T:0.09
Consensus pattern (10 bp):
AACCACAATG
Found at i:104629 original size:21 final size:21
Alignment explanation
Indices: 104577--104652 Score: 127
Period size: 21 Copynumber: 3.7 Consensus size: 21
104567 CGCGTCTTTT
104577 AACCACAATGAACCACAATG-
1 AACCACAATGAACCACAATGA
*
104597 AACCGCAATGAACCACAATGA
1 AACCACAATGAACCACAATGA
*
104618 AACCACACTGAACCACAATGA
1 AACCACAATGAACCACAATGA
104639 AACCACAATGAACC
1 AACCACAATGAACC
104653 TAAATTAACT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 19 0.37
21 32 0.63
ACGTcount: A:0.49, C:0.32, G:0.11, T:0.09
Consensus pattern (21 bp):
AACCACAATGAACCACAATGA
Found at i:108061 original size:10 final size:10
Alignment explanation
Indices: 108033--108117 Score: 125
Period size: 10 Copynumber: 8.3 Consensus size: 10
108023 CCTTAATAAA
*
108033 GTTCATTGTA
1 GTTCATTGTG
108043 GTATCATTGTG
1 GT-TCATTGTG
108054 GTTCATTGTG
1 GTTCATTGTG
108064 GTTTCATTGTG
1 G-TTCATTGTG
*
108075 GTTCATTGCG
1 GTTCATTGTG
108085 GTTCATTGTG
1 GTTCATTGTG
*
108095 GTTCATTGCG
1 GTTCATTGTG
108105 GTTCATTGTG
1 GTTCATTGTG
108115 GTT
1 GTT
108118 AAAAGACGCG
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
10 49 0.72
11 19 0.28
ACGTcount: A:0.12, C:0.12, G:0.28, T:0.48
Consensus pattern (10 bp):
GTTCATTGTG
Found at i:125078 original size:2 final size:2
Alignment explanation
Indices: 125071--125156 Score: 109
Period size: 2 Copynumber: 43.0 Consensus size: 2
125061 ATATCGTATT
*
125071 GA GA GA GA GA GA GA TA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * *
125113 GA GA GA GA GA GA AA TA GA GA CA GA GA AA TA GA GA GA GA CA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
125155 GA
1 GA
125157 TGTTACAAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.52, C:0.02, G:0.42, T:0.03
Consensus pattern (2 bp):
GA
Found at i:129106 original size:12 final size:12
Alignment explanation
Indices: 129089--129113 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
129079 AAATACTAGA
129089 CTTTGACCCGTG
1 CTTTGACCCGTG
129101 CTTTGACCCGTG
1 CTTTGACCCGTG
129113 C
1 C
129114 ATGCACGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.36, G:0.24, T:0.32
Consensus pattern (12 bp):
CTTTGACCCGTG
Found at i:130166 original size:227 final size:228
Alignment explanation
Indices: 129733--130190 Score: 873
Period size: 227 Copynumber: 2.0 Consensus size: 228
129723 TATAATGCGC
129733 ATGCGCAAGATTGTAAAATCCAAAAAATCCAGATGATTTCGGGATTTTCGAAAGGAATTTTCGTT
1 ATGCGCAAGATTGTAAAATCCAAAAAATCCAGATGATTTCGGGATTTTCGAAAGGAATTTTCGTT
*
129798 GATTATTAATTAGCAAAGCTTGATTGAGAAAAAATAAAAACCAATTGCTAATCTTCAAGAACCAA
66 GATTATTAATTAGCAAAGCTTGATTGAGAAAAAATAAAAACAAATTGCTAATCTTCAAGAACCAA
*
129863 TGATGTTTAAAATAAATAAAACAAAAGACAGTACTCTTCCGATTTCTCGGTATTAAAGCCCCAAA
131 TGATGTTTAAAATAAATAAAACAAAAGACAGTACTCTTCCGATTTCTCGGTATGAAAGCCCCAAA
129928 ATTCAAGTCTATTATTTTAATATAGTAGTATAG
196 ATTCAAGTCTATTATTTTAATATAGTAGTATAG
129961 ATGCGCAAGATTGTAAAATCCAAAAAATCCAGATGATTTCGGGATTTTCGAAAGGAATTTTCGTT
1 ATGCGCAAGATTGTAAAATCCAAAAAATCCAGATGATTTCGGGATTTTCGAAAGGAATTTTCGTT
*
130026 GATTATTAATTAGCAAAGCTTGATTGAG-AAAAATAAAAACAAATTGGTAATCTTCAAGAACCAA
66 GATTATTAATTAGCAAAGCTTGATTGAGAAAAAATAAAAACAAATTGCTAATCTTCAAGAACCAA
130090 TGATGTTTAAAATAAATAAAACAAAAGACAGTACTCTTCCGATTTCTCGGTATGAAAGCCCCAAA
131 TGATGTTTAAAATAAATAAAACAAAAGACAGTACTCTTCCGATTTCTCGGTATGAAAGCCCCAAA
*
130155 ATTCGAGTCTATTATTTTAATATAGTAGTATAG
196 ATTCAAGTCTATTATTTTAATATAGTAGTATAG
130188 ATG
1 ATG
130191 GTTAATTAAC
Statistics
Matches: 226, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
227 133 0.59
228 93 0.41
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (228 bp):
ATGCGCAAGATTGTAAAATCCAAAAAATCCAGATGATTTCGGGATTTTCGAAAGGAATTTTCGTT
GATTATTAATTAGCAAAGCTTGATTGAGAAAAAATAAAAACAAATTGCTAATCTTCAAGAACCAA
TGATGTTTAAAATAAATAAAACAAAAGACAGTACTCTTCCGATTTCTCGGTATGAAAGCCCCAAA
ATTCAAGTCTATTATTTTAATATAGTAGTATAG
Found at i:133917 original size:1 final size:1
Alignment explanation
Indices: 133913--133946 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
133903 CCCCCCCCCC
**
133913 AAAAAAAAAAAAAAAAAAACCAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
133947 CCAAACAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:133937 original size:15 final size:15
Alignment explanation
Indices: 133919--133951 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
133909 CCCCAAAAAA
133919 AAAAAAAAAAAAACC
1 AAAAAAAAAAAAACC
133934 AAAAAAAAAAAAACC
1 AAAAAAAAAAAAACC
133949 AAA
1 AAA
133952 CAACAACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAACC
Found at i:133956 original size:3 final size:3
Alignment explanation
Indices: 133950--133984 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
133940 AAAAAAACCA
133950 AAC AAC AAC AAC AAC AAC AAC AAC AAAC AA- AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC -AAC AAC AAC AA
133985 AAAACAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.71, C:0.29, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:133989 original size:12 final size:12
Alignment explanation
Indices: 133912--133992 Score: 57
Period size: 12 Copynumber: 6.9 Consensus size: 12
133902 CCCCCCCCCC
133912 CAAAAAA-AAAA
1 CAAAAAACAAAA
*
133923 -AAAAAA-AAAC
1 CAAAAAACAAAA
133933 CAAAAAA-AAAA
1 CAAAAAACAAAA
133944 -AAACCAAACAACAA
1 CAAA--AAACAA-AA
*
133958 C-AACAACAACAA
1 CAAAAAACAA-AA
*
133970 CAACAAACAAAA
1 CAAAAAACAAAA
133982 CAAAAAACAAA
1 CAAAAAACAAA
133993 CAGACATAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
10 12 0.21
11 9 0.16
12 24 0.42
13 8 0.14
14 4 0.07
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (12 bp):
CAAAAAACAAAA
Found at i:135638 original size:2 final size:2
Alignment explanation
Indices: 135631--135669 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
135621 ACTGAGTCTC
135631 AG AG 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 AG AG A
135670 AATTGCTCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:136417 original size:2 final size:2
Alignment explanation
Indices: 136410--136457 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
136400 ATGACCCTCA
136410 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
136452 TC TC TC
1 TC TC TC
136458 CCAAAATAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:166386 original size:4 final size:4
Alignment explanation
Indices: 166377--166456 Score: 160
Period size: 4 Copynumber: 20.0 Consensus size: 4
166367 AGAATTAAAC
166377 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
166425 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
166457 TGTTCAATTA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AGAT
Found at i:167219 original size:2 final size:2
Alignment explanation
Indices: 167212--167263 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
167202 TAAACAACAC
167212 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
167254 GA GA GA GA GA
1 GA GA GA GA GA
167264 TTTAAAAAGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:171648 original size:165 final size:165
Alignment explanation
Indices: 171391--171738 Score: 678
Period size: 165 Copynumber: 2.1 Consensus size: 165
171381 ACCGTTTAGT
*
171391 CAGAAAAGCTGAAACTTGTGCGAAAGCATTTGCAGGTGGTTTGGATTCAAGTGTGTTCATATCAT
1 CAGAAAAGCTGTAACTTGTGCGAAAGCATTTGCAGGTGGTTTGGATTCAAGTGTGTTCATATCAT
*
171456 TATCCCCGGGGAAAGGGTGGTGCCACAATAGAGGTTGCATTTTCCCAAGGGAATATACATGAGGA
66 TATCCCCGGGGAAAGAGTGGTGCCACAATAGAGGTTGCATTTTCCCAAGGGAATATACATGAGGA
171521 ACAATTTTTAAGAATCTTCTTAAAAACCATTTGAC
131 ACAATTTTTAAGAATCTTCTTAAAAACCATTTGAC
171556 CAGAAAAGCTGTAACTTGTGCGAAAGCATTTGCAGGTGGTTTGGATTCAAGTGTGTTCATATCAT
1 CAGAAAAGCTGTAACTTGTGCGAAAGCATTTGCAGGTGGTTTGGATTCAAGTGTGTTCATATCAT
171621 TATCCCCGGGGAAAGAGTGGTGCCACAATAGAGGTTGCATTTTCCCAAGGGAATATACATGAGGA
66 TATCCCCGGGGAAAGAGTGGTGCCACAATAGAGGTTGCATTTTCCCAAGGGAATATACATGAGGA
171686 ACAATTTTTAAGAATCTTCTTAAAAACCATTTGAC
131 ACAATTTTTAAGAATCTTCTTAAAAACCATTTGAC
171721 CAGAAAAGCTGTAACTTG
1 CAGAAAAGCTGTAACTTG
171739 CGTACAAGTA
Statistics
Matches: 181, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
165 181 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (165 bp):
CAGAAAAGCTGTAACTTGTGCGAAAGCATTTGCAGGTGGTTTGGATTCAAGTGTGTTCATATCAT
TATCCCCGGGGAAAGAGTGGTGCCACAATAGAGGTTGCATTTTCCCAAGGGAATATACATGAGGA
ACAATTTTTAAGAATCTTCTTAAAAACCATTTGAC
Found at i:172198 original size:2 final size:2
Alignment explanation
Indices: 172191--172313 Score: 183
Period size: 2 Copynumber: 61.0 Consensus size: 2
172181 GTCGCTTTTC
* * **
172191 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT CT AT NNN
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT -CT
*
172234 NT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
172276 CT CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
172314 AAAATAAAAT
Statistics
Matches: 111, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
2 111 1.00
ACGTcount: A:0.01, C:0.47, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:176419 original size:9 final size:9
Alignment explanation
Indices: 176405--176436 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
176395 TGGGTGTAAA
176405 TACAAAATT
1 TACAAAATT
176414 TACAAAATT
1 TACAAAATT
176423 TACAAAATT
1 TACAAAATT
*
176432 CACAA
1 TACAA
176437 CATAACACAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (9 bp):
TACAAAATT
Found at i:184042 original size:8 final size:8
Alignment explanation
Indices: 184029--184065 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
184019 GTTTGGAGTT
184029 CACGATAC
1 CACGATAC
184037 CACGATA-
1 CACGATAC
*
184044 C-CGATAT
1 CACGATAC
184051 CACGATAC
1 CACGATAC
184059 CACGATA
1 CACGATA
184066 TCTCGTATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
6 5 0.19
7 2 0.08
8 19 0.73
ACGTcount: A:0.38, C:0.32, G:0.14, T:0.16
Consensus pattern (8 bp):
CACGATAC
Found at i:184077 original size:17 final size:16
Alignment explanation
Indices: 184029--184077 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 16
184019 GTTTGGAGTT
*
184029 CACGATACCACGATA-
1 CACGATATCACGATAC
184044 C-CGATATCACGATAC
1 CACGATATCACGATAC
*
184059 CACGATATCTCGTATAC
1 CACGATATCACG-ATAC
184076 CA
1 CA
184078 TATACTGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 12 0.41
15 2 0.07
16 9 0.31
17 6 0.21
ACGTcount: A:0.35, C:0.33, G:0.12, T:0.20
Consensus pattern (16 bp):
CACGATATCACGATAC
Found at i:184126 original size:70 final size:70
Alignment explanation
Indices: 184008--184175 Score: 275
Period size: 70 Copynumber: 2.4 Consensus size: 70
183998 ATATAAACCT
* *
184008 TATACTGTCGGGTTTGGAGTTCACGATACCACGATACCGATATCACGATACCACGATATCTC-GT
1 TATACTGTCGTGTTTGGAGTTCACGATACCACGATACCGATATCACGATACCACGATATCACTG-
184072 ATACCA
65 ATACCA
* *
184078 TATACTGTCGTGTTTGGAGTTCACGATACCACGATACCGATATTACGATTCCACGATATCACTGA
1 TATACTGTCGTGTTTGGAGTTCACGATACCACGATACCGATATCACGATACCACGATATCACTGA
184143 TACCA
66 TACCA
*
184148 TATACTGTCGTGTTTGGAGTTCAAGATA
1 TATACTGTCGTGTTTGGAGTTCACGATA
184176 TACCCACCCT
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
70 91 0.99
71 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (70 bp):
TATACTGTCGTGTTTGGAGTTCACGATACCACGATACCGATATCACGATACCACGATATCACTGA
TACCA
Found at i:185204 original size:2 final size:2
Alignment explanation
Indices: 185131--185184 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
185121 CACCAGCCGA
185131 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
185173 CT CT CT CT CT CT
1 CT CT CT CT CT CT
185185 ATATATATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:185833 original size:9 final size:9
Alignment explanation
Indices: 185819--185847 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
185809 TGGGCTAACT
185819 GTCCGTGCA
1 GTCCGTGCA
185828 GTCCGTGCA
1 GTCCGTGCA
185837 GTCCGTGCA
1 GTCCGTGCA
185846 GT
1 GT
185848 AGCTGCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.31, G:0.34, T:0.24
Consensus pattern (9 bp):
GTCCGTGCA
Found at i:188221 original size:2 final size:2
Alignment explanation
Indices: 188214--188263 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
188204 TTAGATCAAA
188214 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
188256 TC TC TC TC
1 TC TC TC TC
188264 AGATCTAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:207704 original size:18 final size:17
Alignment explanation
Indices: 207677--207720 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
207667 TGGCAAAAAA
207677 AAAAAAAAAAAAAAGAAG
1 AAAAAAAAAAAAAAG-AG
* *
207695 AAAAAGAAAACAAAGAG
1 AAAAAAAAAAAAAAGAG
207712 AAAACAAAA
1 AAAA-AAAA
207721 CATGACCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAGAG
Found at i:207709 original size:9 final size:9
Alignment explanation
Indices: 207671--207720 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 9
207661 AAGAATTGGC
207671 AAAA-AAAA
1 AAAAGAAAA
207679 AAAA-AAAA
1 AAAAGAAAA
*
207687 AAAAGAAGA
1 AAAAGAAAA
207696 AAAAGAAAA
1 AAAAGAAAA
207705 CAAAGAGAAAA
1 -AAA-AGAAAA
207716 CAAAA
1 -AAAA
207721 CATGACCTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
8 12 0.32
9 11 0.30
10 4 0.11
11 10 0.27
ACGTcount: A:0.86, C:0.04, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:230525 original size:3 final size:3
Alignment explanation
Indices: 230517--230552 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
230507 ATATATTTAT
* *
230517 TAA TAA TAA TAA TAA TAC TAA TGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
230553 GGGAAAAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:235589 original size:4 final size:4
Alignment explanation
Indices: 235580--235662 Score: 71
Period size: 4 Copynumber: 20.8 Consensus size: 4
235570 CACCAACATC
* * * * *
235580 AATA AATA AAT- AATA TGATA AAT- TACA AATA AGTA AATAA AAGA AATA
1 AATA AATA AATA AATA -AATA AATA AATA AATA AATA AAT-A AATA AATA
* *
235628 AATG AATA AATA TATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AATA AATA AAT
235663 TACTATATTA
Statistics
Matches: 61, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
3 4 0.07
4 51 0.84
5 6 0.10
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (4 bp):
AATA
Found at i:241265 original size:7 final size:7
Alignment explanation
Indices: 241253--241283 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
241243 GCATTTGTTA
241253 ACGCACG
1 ACGCACG
241260 ACGCACG
1 ACGCACG
*
241267 GCGCACG
1 ACGCACG
241274 ACGCACG
1 ACGCACG
241281 ACG
1 ACG
241284 ACGGACGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.26, C:0.42, G:0.32, T:0.00
Consensus pattern (7 bp):
ACGCACG
Found at i:252446 original size:156 final size:155
Alignment explanation
Indices: 252162--252460 Score: 589
Period size: 156 Copynumber: 1.9 Consensus size: 155
252152 NNNNNNNNNN
252162 CCTACACTACGTGAAGTTTGTTACATGCAGCGACAGAGAGTAACATGTCTCTAATAAAATATTCC
1 CCTACACTACGTGAAGTTTGTTACATGCAGCGACAGAGAGTAACATGTCTCTAATAAAATATTCC
252227 ATTGTGCAATGTTAAGCATCATTAGTGAACTAATGATAATGATAGACCATTCCTTGTATGATTAT
66 ATTGTGCAATGTTAAGCATCATTAGTGAACTAATGATAATGATAGACCATTCCTTGTATGATTAT
252292 GGGGGGGGGGGGGGGGTNTATAATTC
131 GGGGGGGGGGGGGGGGT-TATAATTC
252318 CCTACACTACGTGAAGTTTGTTACATGCAGCGACAGAGAGTAACATGTCTCTAATAAAATATTCC
1 CCTACACTACGTGAAGTTTGTTACATGCAGCGACAGAGAGTAACATGTCTCTAATAAAATATTCC
252383 ATTGTGCAATGTTAAGCATCATTAGTGAACTAATGATAATGATAGACCATTCCTTGTATGATTAT
66 ATTGTGCAATGTTAAGCATCATTAGTGAACTAATGATAATGATAGACCATTCCTTGTATGATTAT
252448 GGGGGGGGGGGGG
131 GGGGGGGGGGGGG
252461 TTGTCAGCAT
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
156 143 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (155 bp):
CCTACACTACGTGAAGTTTGTTACATGCAGCGACAGAGAGTAACATGTCTCTAATAAAATATTCC
ATTGTGCAATGTTAAGCATCATTAGTGAACTAATGATAATGATAGACCATTCCTTGTATGATTAT
GGGGGGGGGGGGGGGGTTATAATTC
Found at i:254954 original size:2 final size:2
Alignment explanation
Indices: 254947--254995 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
254937 CACCTACACG
254947 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
254989 GA GA GA G
1 GA GA GA G
254996 TTTGTTTTAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:255863 original size:2 final size:2
Alignment explanation
Indices: 255856--255967 Score: 162
Period size: 2 Copynumber: 58.5 Consensus size: 2
255846 AGGGTAAAAC
255856 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* *
255898 AG AG AG AG AG AG AG AG AG AG -G GG A- AG -G AG A- AG GG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
255936 A- AA 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 A
255968 TATTCTGTAA
Statistics
Matches: 101, Mismatches: 4, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
1 5 0.05
2 96 0.95
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:259551 original size:2 final size:2
Alignment explanation
Indices: 259544--259575 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
259534 ATCTTATGTG
259544 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
259576 GTACGTGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:260546 original size:2 final size:2
Alignment explanation
Indices: 260539--260582 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
260529 AAACACATAC
260539 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
260581 AG
1 AG
260583 GGCATCATGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:297518 original size:2 final size:2
Alignment explanation
Indices: 297511--297554 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
297501 CTTGACTTTT
297511 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
297553 AG
1 AG
297555 TTTTATTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:299883 original size:2 final size:2
Alignment explanation
Indices: 299876--299950 Score: 141
Period size: 2 Copynumber: 37.5 Consensus size: 2
299866 TATAGCAAGC
299876 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
299918 CT CT CT CT CT CT CT CT CT AT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
299951 CTTGTACATT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.01, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:300287 original size:26 final size:26
Alignment explanation
Indices: 300258--300309 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
300248 ATTCAGTACT
* *
300258 GTATGCAAGGATTTCACATTCGACGA
1 GTATGCAAGGACTTCACAATCGACGA
300284 GTATGCAAGGACTTCACAATCGACGA
1 GTATGCAAGGACTTCACAATCGACGA
300310 AACCATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (26 bp):
GTATGCAAGGACTTCACAATCGACGA
Found at i:302332 original size:25 final size:25
Alignment explanation
Indices: 302304--302355 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
302294 TTGAATGCTT
302304 CAGATCGAAATTCAATACATTTACA
1 CAGATCGAAATTCAATACATTTACA
302329 CAGATCGAAATTCAATACATTTACA
1 CAGATCGAAATTCAATACATTTACA
302354 CA
1 CA
302356 CATAAGGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (25 bp):
CAGATCGAAATTCAATACATTTACA
Found at i:310580 original size:6 final size:6
Alignment explanation
Indices: 310569--310687 Score: 52
Period size: 6 Copynumber: 19.5 Consensus size: 6
310559 TTATATGACA
* ** * *
310569 TTTGTT TTTGTT TATT-TT ACTTGTT GATGTTT TTTGTT TCTGTT GTTGTTAT
1 TTTGTT TTTGTT T-TTGTT -TTTGTT TTTGT-T TTTGTT TTTGTT TTTG-T-T
* * *
310621 TTTGTT TATAGTT TTT-TG TTTG-T TTTGTT GTTGTT GTTT-TGT TTTG-T
1 TTTGTT T-TTGTT TTTGTT TTTGTT TTTGTT TTTGTT -TTTGT-T TTTGTT
310668 TTTGTT TTTGTT TTT-TT TTT
1 TTTGTT TTTGTT TTTGTT TTT
310688 TTTGGGGGGG
Statistics
Matches: 85, Mismatches: 15, Indels: 27
0.67 0.12 0.21
Matches are distributed among these distances:
5 18 0.21
6 45 0.53
7 18 0.21
8 4 0.05
ACGTcount: A:0.05, C:0.02, G:0.18, T:0.76
Consensus pattern (6 bp):
TTTGTT
Found at i:310612 original size:19 final size:18
Alignment explanation
Indices: 310589--310681 Score: 95
Period size: 19 Copynumber: 5.1 Consensus size: 18
310579 TTTATTTTAC
*
310589 TTGTTGATGTTTTTTGTT
1 TTGTTGTTGTTTTTTGTT
310607 TCTGTTGTTGTTATTTTGTT
1 T-TGTTGTTGTT-TTTTGTT
*
310627 TATAGTT-TT-TTGTTTGTT
1 T-T-GTTGTTGTTTTTTGTT
310645 TTGTTGTTGTTGTTTTGTT
1 TTGTTGTTGTT-TTTTGTT
310664 TTGTT-TTG-TTTTTGTT
1 TTGTTGTTGTTTTTTGTT
310680 TT
1 TT
310682 TTTTTTTTTG
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
16 12 0.18
17 4 0.06
18 13 0.20
19 22 0.34
20 11 0.17
21 3 0.05
ACGTcount: A:0.04, C:0.01, G:0.20, T:0.74
Consensus pattern (18 bp):
TTGTTGTTGTTTTTTGTT
Found at i:310649 original size:5 final size:5
Alignment explanation
Indices: 310634--310691 Score: 61
Period size: 5 Copynumber: 12.0 Consensus size: 5
310624 GTTTATAGTT
310634 TTTTG -TTTG TTTTG --TTG TTGTTG TTTTG TTTTG TTTTG TTTTTG TTTT-
1 TTTTG TTTTG TTTTG TTTTG TT-TTG TTTTG TTTTG TTTTG -TTTTG TTTTG
*
310682 TTTTT TTTTG
1 TTTTG TTTTG
310692 GGGGGGGGGG
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
3 3 0.07
4 8 0.17
5 25 0.54
6 10 0.22
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTTG
Found at i:310650 original size:37 final size:35
Alignment explanation
Indices: 310599--310681 Score: 114
Period size: 37 Copynumber: 2.3 Consensus size: 35
310589 TTGTTGATGT
310599 TTTTTGTTTCTGTTGTTGTTATTTTGTTTATAGTTTT-
1 TTTTTGTTT-TGTTGTTGTTATTTTGTTT-T-GTTTTG
*
310636 TTGTTTGTTTTGTTGTTGTTGTTTTGTTTTGTTTTG
1 TT-TTTGTTTTGTTGTTGTTATTTTGTTTTGTTTTG
310672 TTTTTGTTTT
1 TTTTTGTTTT
310682 TTTTTTTTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
35 13 0.30
36 3 0.07
37 20 0.47
38 7 0.16
ACGTcount: A:0.04, C:0.01, G:0.19, T:0.76
Consensus pattern (35 bp):
TTTTTGTTTTGTTGTTGTTATTTTGTTTTGTTTTG
Found at i:310666 original size:24 final size:24
Alignment explanation
Indices: 310634--310689 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
310624 GTTTATAGTT
310634 TTTTG-TTTGTTTTGTTGTTGTTG
1 TTTTGTTTTGTTTTGTTGTTGTTG
* *
310657 TTTTGTTTTGTTTTGTTTTTGTTT
1 TTTTGTTTTGTTTTGTTGTTGTTG
*
310681 TTTTTTTTT
1 TTTTGTTTT
310690 TGGGGGGGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 5 0.17
24 24 0.83
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (24 bp):
TTTTGTTTTGTTTTGTTGTTGTTG
Found at i:310686 original size:11 final size:11
Alignment explanation
Indices: 310598--310687 Score: 63
Period size: 11 Copynumber: 7.5 Consensus size: 11
310588 CTTGTTGATG
310598 TTTTTTGTTTCT
1 TTTTTTGTTT-T
* *
310610 GTTGTTGTTATT
1 TTTTTTGTT-TT
310622 TTGTTTATAGTTTT
1 TT-TTT-T-GTTTT
*
310636 TTGTTTGTTTT
1 TTTTTTGTTTT
* *
310647 GTTGTTGTTGTT
1 TTTTTTGTT-TT
310659 TTGTTTTGTTTT
1 TT-TTTTGTTTT
*
310671 GTTTTTGTTTT
1 TTTTTTGTTTT
310682 TTTTTT
1 TTTTTT
310688 TTTGGGGGGG
Statistics
Matches: 60, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
11 25 0.42
12 16 0.27
13 11 0.18
14 5 0.08
15 3 0.05
ACGTcount: A:0.03, C:0.01, G:0.18, T:0.78
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:310689 original size:19 final size:19
Alignment explanation
Indices: 310569--310689 Score: 75
Period size: 19 Copynumber: 6.2 Consensus size: 19
310559 TTATATGACA
* * *
310569 TTTGTTTTTGTTTATTTTA
1 TTTGTTGTTGTTTTTTTTT
* * *
310588 CTTGTTGATGTTTTTTGTT
1 TTTGTTGTTGTTTTTTTTT
*
310607 TCTGTTGTTGTTATTTTGTTT
1 TTTGTTGTTGTT-TTTT-TTT
* *
310628 ATAGTT-TT-TTGTTTGTTTT
1 TTTGTTGTTGTT-TTT-TTTT
*
310647 GTTGTTGTTGTTTTGTTTTGT
1 TTTGTTGTTGTTTT-TTTT-T
*
310668 TTTGTTTTTGTTTTTTTTT
1 TTTGTTGTTGTTTTTTTTT
310687 TTT
1 TTT
310690 TGGGGGGGGG
Statistics
Matches: 77, Mismatches: 18, Indels: 14
0.71 0.17 0.13
Matches are distributed among these distances:
19 38 0.49
20 18 0.23
21 21 0.27
ACGTcount: A:0.05, C:0.02, G:0.17, T:0.76
Consensus pattern (19 bp):
TTTGTTGTTGTTTTTTTTT
Found at i:315855 original size:24 final size:23
Alignment explanation
Indices: 315828--315882 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
315818 CCTAAAGTTG
315828 TTGTTTTTGTTGATGTGGGTTT-TT
1 TTGTTTTTGTTG-T-TGGGTTTGTT
* *
315852 TTGTTCTTTTTTGTTGGTTTTGTT
1 TTGTT-TTTGTTGTTGGGTTTGTT
315876 TTGTTTT
1 TTGTTTT
315883 GTTTGTTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 8 0.30
24 13 0.48
25 6 0.22
ACGTcount: A:0.02, C:0.02, G:0.24, T:0.73
Consensus pattern (23 bp):
TTGTTTTTGTTGTTGGGTTTGTT
Found at i:315872 original size:19 final size:19
Alignment explanation
Indices: 315850--315890 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
315840 ATGTGGGTTT
315850 TTTTGTTCTT-TTTTGTTGG
1 TTTTGTT-TTGTTTTGTTGG
*
315869 TTTTGTTTTGTTTTGTTTG
1 TTTTGTTTTGTTTTGTTGG
315888 TTT
1 TTT
315891 GCTTTTATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.00, C:0.02, G:0.20, T:0.78
Consensus pattern (19 bp):
TTTTGTTTTGTTTTGTTGG
Found at i:315916 original size:1 final size:1
Alignment explanation
Indices: 315912--315940 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
315902 TTTTTTTTGA
315912 GGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGG
315941 TTTTAGGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:325097 original size:2 final size:2
Alignment explanation
Indices: 325090--325114 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
325080 TATAACATAC
325090 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 A
325115 NNNNNNNNNN
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:333615 original size:21 final size:20
Alignment explanation
Indices: 333590--333646 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 20
333580 ATTTCTTCAA
333590 TATACAGTACCTTTATCCAT
1 TATACAGTACCTTTATCCAT
* * *
333610 TCATAC--TA--TTTCTTCAA
1 T-ATACAGTACCTTTATCCAT
333627 TATACAGTACCTTTATCCAT
1 TATACAGTACCTTTATCCAT
333647 GCACACTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 10
0.62 0.14 0.24
Matches are distributed among these distances:
16 4 0.15
17 7 0.27
18 2 0.08
19 2 0.08
20 7 0.27
21 4 0.15
ACGTcount: A:0.30, C:0.25, G:0.04, T:0.42
Consensus pattern (20 bp):
TATACAGTACCTTTATCCAT
Found at i:333660 original size:110 final size:111
Alignment explanation
Indices: 333520--333720 Score: 323
Period size: 110 Copynumber: 1.8 Consensus size: 111
333510 ATTTCTGTTG
*
333520 ACAGTACCTTTATCCATGCATACTATTTCTTCAATATACAGTACC-TTATCCATGCATACTATTT
1 ACAGTACCTTTATCCATGCACACTATTTCTTCAATATACAGTACCTTTATCCATGCATACTATTT
**
333584 CTTCAATATACAGTACCTTTATCCATTCATACTATTTCTTCAATAT
66 CTTCAATATACAAAACCTTTATCCATTCATACTATTTCTTCAATAT
* **
333630 ACAGTACCTTTATCCATGCACACTATTTCTTCAATATACAGTACCTTTATCCGTGTTTACTATTT
1 ACAGTACCTTTATCCATGCACACTATTTCTTCAATATACAGTACCTTTATCCATGCATACTATTT
* *
333695 CTTCTATATACAAAACTTTTATCCAT
66 CTTCAATATACAAAACCTTTATCCAT
333721 GTTTACTTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
110 44 0.54
111 38 0.46
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.41
Consensus pattern (111 bp):
ACAGTACCTTTATCCATGCACACTATTTCTTCAATATACAGTACCTTTATCCATGCATACTATTT
CTTCAATATACAAAACCTTTATCCATTCATACTATTTCTTCAATAT
Found at i:333727 original size:37 final size:37
Alignment explanation
Indices: 333520--333721 Score: 316
Period size: 37 Copynumber: 5.5 Consensus size: 37
333510 ATTTCTGTTG
333520 ACAGTACCTTTATCCATGCATACTATTTCTTCAATAT
1 ACAGTACCTTTATCCATGCATACTATTTCTTCAATAT
333557 ACAGTACC-TTATCCATGCATACTATTTCTTCAATAT
1 ACAGTACCTTTATCCATGCATACTATTTCTTCAATAT
*
333593 ACAGTACCTTTATCCATTCATACTATTTCTTCAATAT
1 ACAGTACCTTTATCCATGCATACTATTTCTTCAATAT
*
333630 ACAGTACCTTTATCCATGCACACTATTTCTTCAATAT
1 ACAGTACCTTTATCCATGCATACTATTTCTTCAATAT
* ** *
333667 ACAGTACCTTTATCCGTGTTTACTATTTCTTCTATAT
1 ACAGTACCTTTATCCATGCATACTATTTCTTCAATAT
** *
333704 ACAAAACTTTTATCCATG
1 ACAGTACCTTTATCCATG
333722 TTTACTTTTA
Statistics
Matches: 152, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
36 36 0.24
37 116 0.76
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.41
Consensus pattern (37 bp):
ACAGTACCTTTATCCATGCATACTATTTCTTCAATAT
Found at i:335331 original size:2 final size:2
Alignment explanation
Indices: 335324--335350 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
335314 CTTTTTATTA
335324 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
335351 TGCCCGCGCG
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:342338 original size:2 final size:2
Alignment explanation
Indices: 342331--342356 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
342321 NNNNNNNNNN
342331 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
342357 ATGCAAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:344816 original size:2 final size:2
Alignment explanation
Indices: 344809--344850 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
344799 TGCTATACTC
344809 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
344851 TATAACTAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:351931 original size:32 final size:33
Alignment explanation
Indices: 351859--351942 Score: 107
Period size: 35 Copynumber: 2.5 Consensus size: 33
351849 ACCCTACTAT
* *
351859 GGGGAAAAAGCTACTATATAGTAGTTTTCCCTCCG
1 GGGGGAAAAGCTACTATATAGTAGGTTT--CTCCG
*
351894 GGGGGAAAGGCTACTATATAGTAGGTTT-TCCG
1 GGGGGAAAAGCTACTATATAGTAGGTTTCTCCG
*
351926 GGGGGAAAAGCTTCTAT
1 GGGGGAAAAGCTACTAT
351943 GGGGGAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
32 19 0.43
35 25 0.57
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (33 bp):
GGGGGAAAAGCTACTATATAGTAGGTTTCTCCG
Found at i:351959 original size:17 final size:17
Alignment explanation
Indices: 351926--351959 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
351916 AGGTTTTCCG
* *
351926 GGGGGAAAAGCTTCTAT
1 GGGGGAAAAACTGCTAT
351943 GGGGGAAAAACTGCTAT
1 GGGGGAAAAACTGCTAT
351960 ACAACACCGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.21
Consensus pattern (17 bp):
GGGGGAAAAACTGCTAT
Found at i:357616 original size:235 final size:231
Alignment explanation
Indices: 357195--357657 Score: 649
Period size: 235 Copynumber: 2.0 Consensus size: 231
357185 CATGTACAAA
*
357195 ACATTTATGGAATAGTAAATGATCAAAGTATGGTTAAAAAATATCAACAATACATAGATAATCAA
1 ACATTTATGGAATAGTAAATGATCAAAGTATGGTTAAAAAATATCAACAATACATAAATAATCAA
* * *
357260 TAGTGCGAATCTAATACCGATTGATACTCATGAATTCATATCTTACATTTTCGCCTACTTAAACC
66 TAGCGCGAATCTAATACCGATTGATACTCATGAATTCATATATTACATTTTAGCCTACTTAAACC
* * * * * * * *
357325 AGATTTAAGTAAGCTTTTTAAATCATCTGATATTTGTCTGTCCGTTCGTTTGTCTGTCTGTCTGT
131 AGATCTAAGTAAGATTTCTAAACCAGCTGATA--T-AC-GTCCGTCCGTCTGTCTGTCTGTCTGT
*
357390 AAACTTTTCATATTTTGACACTAGAACCACTGGACCATTT
192 AAACTTTTCACATTTTGACACTAGAACCACTGGACCATTT
* * * * *
357430 ACATTTATGTAATAGTAAATTATCAAAGTATGTTTAAACAATATCAACAATATATAAATAATCAA
1 ACATTTATGGAATAGTAAATGATCAAAGTATGGTTAAAAAATATCAACAATACATAAATAATCAA
* * *
357495 TAGCGCGAATCTAATATCGATTGATACTCATGAATTCATATATTATATTTTAGCTTACTTAAACC
66 TAGCGCGAATCTAATACCGATTGATACTCATGAATTCATATATTACATTTTAGCCTACTTAAACC
* **
357560 AGATCTAAGTGAGATTTCCT-AACCAGCTTTTATACGTCCGTCCGTCTGTCTGTCTGTCTGTAAA
131 AGATCTAAGTAAGATTT-CTAAACCAGCTGATATACGTCCGTCCGTCTGTCTGTCTGTCTGTAAA
*
357624 CTTTTCACATTTTGACACTAGAGCCACTGGACCA
195 CTTTTCACATTTTGACACTAGAACCACTGGACCA
357658 AATTTAAACA
Statistics
Matches: 202, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
231 59 0.29
232 1 0.00
233 1 0.00
235 140 0.69
236 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.36
Consensus pattern (231 bp):
ACATTTATGGAATAGTAAATGATCAAAGTATGGTTAAAAAATATCAACAATACATAAATAATCAA
TAGCGCGAATCTAATACCGATTGATACTCATGAATTCATATATTACATTTTAGCCTACTTAAACC
AGATCTAAGTAAGATTTCTAAACCAGCTGATATACGTCCGTCCGTCTGTCTGTCTGTCTGTAAAC
TTTTCACATTTTGACACTAGAACCACTGGACCATTT
Found at i:359082 original size:18 final size:16
Alignment explanation
Indices: 359059--359103 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
359049 CACAATTGGC
359059 ATGTCATAATCGAGGTAA
1 ATGTCATAATCG-GG-AA
*
359077 ATGTCAAAATCGGGAA
1 ATGTCATAATCGGGAA
359093 AGTGTCATAAT
1 A-TGTCATAAT
359104 AGGAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 3 0.12
17 10 0.42
18 11 0.46
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (16 bp):
ATGTCATAATCGGGAA
Found at i:360874 original size:7 final size:7
Alignment explanation
Indices: 360862--360928 Score: 89
Period size: 7 Copynumber: 9.6 Consensus size: 7
360852 GAGAAGGATC
360862 ATTCGAG
1 ATTCGAG
360869 ATTCGAG
1 ATTCGAG
*
360876 ATTCGAA
1 ATTCGAG
*
360883 ATACGAG
1 ATTCGAG
*
360890 ATTCGAA
1 ATTCGAG
*
360897 ATACGAG
1 ATTCGAG
360904 ATTCGAG
1 ATTCGAG
*
360911 ATTCGAA
1 ATTCGAG
360918 ATTCGAG
1 ATTCGAG
360925 ATTC
1 ATTC
360929 AATATCTAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (7 bp):
ATTCGAG
Found at i:363282 original size:7 final size:7
Alignment explanation
Indices: 363267--363333 Score: 89
Period size: 7 Copynumber: 9.6 Consensus size: 7
363257 TTTAGATATT
363267 GAATCTC
1 GAATCTC
*
363274 GAATTTC
1 GAATCTC
363281 GAATCTC
1 GAATCTC
363288 GAATCTC
1 GAATCTC
* *
363295 GTATTTC
1 GAATCTC
363302 GAATCTC
1 GAATCTC
* *
363309 GTATTTC
1 GAATCTC
363316 GAATCTC
1 GAATCTC
363323 GAATCTC
1 GAATCTC
363330 GAAT
1 GAAT
363334 GATCCTTCTC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (7 bp):
GAATCTC
Found at i:363292 original size:21 final size:21
Alignment explanation
Indices: 363267--363333 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
363257 TTTAGATATT
363267 GAATCTCGAATTTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
*
363288 GAATCTCGTATTTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
* * *
363309 GTATTTCGAATCTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
363330 GAAT
1 GAAT
363334 GATCCTTCTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (21 bp):
GAATCTCGAATTTCGAATCTC
Found at i:366627 original size:2 final size:2
Alignment explanation
Indices: 366620--366660 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
366610 ATATGGAGTG
366620 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
366661 GTGGAGATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:368597 original size:7 final size:7
Alignment explanation
Indices: 368585--368651 Score: 89
Period size: 7 Copynumber: 9.6 Consensus size: 7
368575 GAGAAGGATC
368585 ATTCGAG
1 ATTCGAG
368592 ATTCGAG
1 ATTCGAG
*
368599 ATTCGAA
1 ATTCGAG
*
368606 ATACGAG
1 ATTCGAG
*
368613 ATTCGAA
1 ATTCGAG
*
368620 ATACGAG
1 ATTCGAG
368627 ATTCGAG
1 ATTCGAG
*
368634 ATTCGAA
1 ATTCGAG
368641 ATTCGAG
1 ATTCGAG
368648 ATTC
1 ATTC
368652 AATATCTAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (7 bp):
ATTCGAG
Found at i:371037 original size:2 final size:2
Alignment explanation
Indices: 371030--371080 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
371020 GCTAGGTGAT
371030 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
371072 GA GA GA GA G
1 GA GA GA GA G
371081 TCGATGTAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:371275 original size:4 final size:4
Alignment explanation
Indices: 371268--371300 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
371258 ACTCTCTCTG
371268 TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC T
1 TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC T
371301 CTCTCTCTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.24, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTC
Found at i:371305 original size:2 final size:2
Alignment explanation
Indices: 371298--371331 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
371288 TGTCTGTCTG
371298 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
371332 ATATCGACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:371841 original size:7 final size:7
Alignment explanation
Indices: 371826--371892 Score: 89
Period size: 7 Copynumber: 9.6 Consensus size: 7
371816 TTTAGATATT
371826 GAATCTC
1 GAATCTC
*
371833 GAATTTC
1 GAATCTC
371840 GAATCTC
1 GAATCTC
371847 GAATCTC
1 GAATCTC
* *
371854 GTATTTC
1 GAATCTC
371861 GAATCTC
1 GAATCTC
* *
371868 GTATTTC
1 GAATCTC
371875 GAATCTC
1 GAATCTC
371882 GAATCTC
1 GAATCTC
371889 GAAT
1 GAAT
371893 GATCCTTCTC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (7 bp):
GAATCTC
Found at i:371851 original size:21 final size:21
Alignment explanation
Indices: 371826--371892 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
371816 TTTAGATATT
371826 GAATCTCGAATTTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
*
371847 GAATCTCGTATTTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
* * *
371868 GTATTTCGAATCTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
371889 GAAT
1 GAAT
371893 GATCCTTCTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (21 bp):
GAATCTCGAATTTCGAATCTC
Done.