Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008512.1 Hibiscus syriacus cultivar Beakdansim tig00111372_pilon, whole genome shotgun sequence
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: 1759229
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 9
Found at i:880104 original size:24 final size:24
Alignment explanation
Indices: 880036--880146 Score: 100
Period size: 24 Copynumber: 4.6 Consensus size: 24
880026 AAATATTTTA
*
880036 TCTGATTTCTGACT-TGAATTCTAT
1 TCTGATTTCTGA-TATGAATTCTGT
* **
880060 TCTGA-TACATGACCTGAATTCTGT
1 TCTGATTTC-TGATATGAATTCTGT
*
880084 TCTGATTTCTGATATGGATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
* * *
880108 TCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
* *
880132 TTTGATTTATGATAT
1 TCTGATTTCTGATAT
880147 CTCTGTGTAC
Statistics
Matches: 68, Mismatches: 16, Indels: 6
0.76 0.18 0.07
Matches are distributed among these distances:
23 2 0.03
24 64 0.94
25 2 0.03
ACGTcount: A:0.21, C:0.14, G:0.16, T:0.49
Consensus pattern (24 bp):
TCTGATTTCTGATATGAATTCTGT
Found at i:880122 original size:17 final size:18
Alignment explanation
Indices: 880079--880130 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 18
880069 TGACCTGAAT
880079 TCTGTTCTGATTTCTGATA
1 TCTGTTCTGA-TTCTGATA
*
880098 T-GGATTCTG-TTCTGATA
1 TCTG-TTCTGATTCTGATA
880115 TCTGTTCTGAATTCTG
1 TCTGTTCTG-ATTCTG
880131 TTTTGATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
17 14 0.52
18 2 0.07
19 11 0.41
ACGTcount: A:0.15, C:0.15, G:0.19, T:0.50
Consensus pattern (18 bp):
TCTGTTCTGATTCTGATA
Found at i:880319 original size:2 final size:2
Alignment explanation
Indices: 880312--880340 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
880302 AGAATGGGGG
880312 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 T
880341 GTTTTAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:881131 original size:73 final size:74
Alignment explanation
Indices: 880924--881251 Score: 478
Period size: 74 Copynumber: 4.4 Consensus size: 74
880914 ATCTTTAAAC
* * * *
880924 AAACTGGTATGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACCATTTACATTATTAGCA
1 AAACCGGTAGGTAGTTTAATGTAATAGGTAGCACCTA-TTTTTTTTACCATTTACATTATTAGCA
880989 ACCTTCAAAA
65 ACCTTCAAAA
** * * *
880999 AATTCGGTAGATAGTTTAATGTAATAGGTAGCACCTATTTTTTTTATCTTTTACATTATTAGCAA
1 AAACCGGTAGGTAGTTTAATGTAATAGGTAGCACCTATTTTTTTTACCATTTACATTATTAGCAA
*
881064 CCTTAAAAA
66 CCTTCAAAA
* *
881073 AAACCGGTAGGTATTTTAATGTAATAGGTAGCGCCTA-TTTTTTTACCATTTACATTATTAGCAA
1 AAACCGGTAGGTAGTTTAATGTAATAGGTAGCACCTATTTTTTTTACCATTTACATTATTAGCAA
881137 CCTTCAAAA
66 CCTTCAAAA
* * * *
881146 AAACCGGTAGGTAGTTTAATGTAATAGGTATCACCTATTTTTTTTACCGTTTATATTATTATCAA
1 AAACCGGTAGGTAGTTTAATGTAATAGGTAGCACCTATTTTTTTTACCATTTACATTATTAGCAA
881211 CCTTCAAAA
66 CCTTCAAAA
* *
881220 AAACTGGTAGGTAGTTTAATATAATAGGTAGC
1 AAACCGGTAGGTAGTTTAATGTAATAGGTAGC
881252 TGTAACATCC
Statistics
Matches: 225, Mismatches: 27, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
73 67 0.30
74 128 0.57
75 30 0.13
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (74 bp):
AAACCGGTAGGTAGTTTAATGTAATAGGTAGCACCTATTTTTTTTACCATTTACATTATTAGCAA
CCTTCAAAA
Found at i:881189 original size:147 final size:148
Alignment explanation
Indices: 880924--881251 Score: 523
Period size: 147 Copynumber: 2.2 Consensus size: 148
880914 ATCTTTAAAC
*
880924 AAACTGGTATGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTTACCATTTACATTATTAGCA
1 AAACTGGTAGGTATTTTAATGTAATAGGTAGCGCCTA-TTTTTTTTACCATTTACATTATTAGCA
** * *
880989 ACCTTCAAAAAATTCGGTAGATAGTTTAATGTAATAGGTAGCACCTATTTTTTTTATCTTTTACA
65 ACCTTCAAAAAAACCGGTAGATAGTTTAATGTAATAGGTAGCACCTATTTTTTTTACCGTTTACA
881054 TTATTAGCAACCTTAAAAA
130 TTATTAGCAACCTTAAAAA
*
881073 AAACCGGTAGGTATTTTAATGTAATAGGTAGCGCCTA-TTTTTTTACCATTTACATTATTAGCAA
1 AAACTGGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCATTTACATTATTAGCAA
* * *
881137 CCTTCAAAAAAACCGGTAGGTAGTTTAATGTAATAGGTATCACCTATTTTTTTTACCGTTTATAT
66 CCTTCAAAAAAACCGGTAGATAGTTTAATGTAATAGGTAGCACCTATTTTTTTTACCGTTTACAT
* *
881202 TATTATCAACCTTCAAAA
131 TATTAGCAACCTTAAAAA
* *
881220 AAACTGGTAGGTAGTTTAATATAATAGGTAGC
1 AAACTGGTAGGTATTTTAATGTAATAGGTAGC
881252 TGTAACATCC
Statistics
Matches: 165, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
147 130 0.79
149 35 0.21
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (148 bp):
AAACTGGTAGGTATTTTAATGTAATAGGTAGCGCCTATTTTTTTTACCATTTACATTATTAGCAA
CCTTCAAAAAAACCGGTAGATAGTTTAATGTAATAGGTAGCACCTATTTTTTTTACCGTTTACAT
TATTAGCAACCTTAAAAA
Found at i:882002 original size:21 final size:21
Alignment explanation
Indices: 881960--882002 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
881950 TTTCTGGGTT
* * *
881960 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
881981 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
882002 A
1 A
882003 TGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:882068 original size:68 final size:69
Alignment explanation
Indices: 881982--882135 Score: 224
Period size: 69 Copynumber: 2.2 Consensus size: 69
881972 ACCCATTCAA
* *
881982 GGGGAACCGATACCCCCTCAAT-G-AAATGAATTTCCAGAATT-CTAGAGGGGAATCGGTACCCC
1 GGGGAACCGATACCCCCTC-ATCGTAAATGAAATTCCAG-ATTGCTAGAGGGGAATCGATACCCC
882044 CAGGGG
64 CAGGGG
* *
882050 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCATCGTAAATGAAATTCCAGATTGCTAGAGGGGAATCGATACCCCCA
882115 GGGG
66 GGGG
*
882119 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
882136 ATGAGAAAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
67 2 0.03
68 23 0.29
69 53 0.68
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.18
Consensus pattern (69 bp):
GGGGAACCGATACCCCCTCATCGTAAATGAAATTCCAGATTGCTAGAGGGGAATCGATACCCCCA
GGGG
Found at i:882512 original size:30 final size:31
Alignment explanation
Indices: 882470--882529 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
882460 AGGAAAAGTT
*
882470 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGGAAATG
*
882501 ATATGC-CTATGTGTTAAAGGTATGGAAAT
1 ATATGCACTATGTGATAAAGGTATGGAAAT
882530 ACTATGTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGGAAATG
Found at i:882823 original size:22 final size:22
Alignment explanation
Indices: 882749--882815 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
882739 TTATGGACAT
882749 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
882771 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
882793 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
882815 A
1 A
882816 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:888901 original size:21 final size:21
Alignment explanation
Indices: 888859--888901 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
888849 TTTCTGGGTT
* * *
888859 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
888880 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
888901 A
1 A
888902 TGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:888967 original size:67 final size:69
Alignment explanation
Indices: 888881--889033 Score: 215
Period size: 68 Copynumber: 2.2 Consensus size: 69
888871 ACCCATTCAA
* *
888881 GGGGAACCGATACCCCCTCAAT-G-AAATGAATTTCCAGAATT-CTAGAGGGGAATCGGTACCCC
1 GGGGAACCGATACCCCCTC-ATCGTAAATGAAATTCCAG-ATTGCTAGAGGGGAATCGATACCCC
888943 CA-GGG
64 CAGGGG
* *
888948 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCATCGTAAATGAAATTCCAGATTGCTAGAGGGGAATCGATACCCCCA
889013 GGGG
66 GGGG
*
889017 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
889034 ATGAGAAAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
66 2 0.03
67 23 0.30
68 33 0.43
69 19 0.25
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.18
Consensus pattern (69 bp):
GGGGAACCGATACCCCCTCATCGTAAATGAAATTCCAGATTGCTAGAGGGGAATCGATACCCCCA
GGGG
Found at i:889410 original size:30 final size:31
Alignment explanation
Indices: 889368--889427 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
889358 AGAAAAAGTT
*
889368 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGGAAATG
*
889399 ATATGC-CTATGTGTTAAAGGTATGGAAAT
1 ATATGCACTATGTGATAAAGGTATGGAAAT
889428 ATTATGTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGGAAATG
Found at i:889721 original size:22 final size:22
Alignment explanation
Indices: 889647--889713 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
889637 TTATGGACAT
889647 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
889669 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
889691 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
889713 A
1 A
889714 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:890419 original size:62 final size:62
Alignment explanation
Indices: 890317--890434 Score: 227
Period size: 62 Copynumber: 1.9 Consensus size: 62
890307 TTTTTTTACC
890317 ATTTACATTATTAGCAACCTTCAAAAAAATCGGTAAGTATTTTAATGTAATAGGTAGCGCTT
1 ATTTACATTATTAGCAACCTTCAAAAAAATCGGTAAGTATTTTAATGTAATAGGTAGCGCTT
*
890379 ATTTACATTATTAGCAACCTTCAAAAAAATCGGTAGGTATTTTAATGTAATAGGTA
1 ATTTACATTATTAGCAACCTTCAAAAAAATCGGTAAGTATTTTAATGTAATAGGTA
890435 ACACCTATTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (62 bp):
ATTTACATTATTAGCAACCTTCAAAAAAATCGGTAAGTATTTTAATGTAATAGGTAGCGCTT
Found at i:890500 original size:72 final size:74
Alignment explanation
Indices: 890380--890523 Score: 220
Period size: 72 Copynumber: 2.0 Consensus size: 74
890370 GTAGCGCTTA
* * **
890380 TTTACATTATTAGCAACCTTCAAAAAAATCGGTAGGTATTTTAATGTAATAGGTAACACCTATTT
1 TTTACATTATTAGCAACCTT-AAAAAAACCGGTAGGTAGTTTAATGTAATAAATAACACCTATTT
890445 T-TTTTACAG
65 TATTTTACAG
*
890454 TTTACATTATTAGCAACCTT-AAAAAACCGGTAGGTAGTTTAATGTAATAAATAACGCCTATTTT
1 TTTACATTATTAGCAACCTTAAAAAAACCGGTAGGTAGTTTAATGTAATAAATAACACCTATTTT
890518 ATTTTA
66 ATTTTA
890524 GCCGGTTAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
72 39 0.61
73 5 0.08
74 20 0.31
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (74 bp):
TTTACATTATTAGCAACCTTAAAAAAACCGGTAGGTAGTTTAATGTAATAAATAACACCTATTTT
ATTTTACAG
Found at i:893910 original size:24 final size:24
Alignment explanation
Indices: 893883--893931 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
893873 TATATCAAAA
*
893883 ATCAAAAAATAAATCAGGTCAAGT
1 ATCAAAAAAGAAATCAGGTCAAGT
* **
893907 ATCATATCAGAAATCAGGTCAAGT
1 ATCAAAAAAGAAATCAGGTCAAGT
893931 A
1 A
893932 AAAGATCAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.22
Consensus pattern (24 bp):
ATCAAAAAAGAAATCAGGTCAAGT
Found at i:894016 original size:24 final size:24
Alignment explanation
Indices: 893900--894016 Score: 139
Period size: 24 Copynumber: 4.8 Consensus size: 24
893890 AATAAATCAG
* *
893900 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCAGATCAG-AATCCAT
** *
893924 GTCAAGTAAAAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
893948 GTCAAGTATCAGATCAGGAATCCAT
1 GTCAAGTATCAGATCA-GAATCCAT
*
893973 GTC-AGATATCATATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
893997 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
894017 TCAAATCGAA
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
23 3 0.04
24 56 0.70
25 21 0.26
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:897481 original size:2 final size:2
Alignment explanation
Indices: 897426--897465 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
897416 ATATTTATTC
897426 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
897466 TTAAAAGAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:904084 original size:21 final size:21
Alignment explanation
Indices: 904058--904097 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
904048 GAGAAATTGT
904058 TTTTAAAATAT-AAAAATGATG
1 TTTTAAAAT-TGAAAAATGATG
904079 TTTTAAAATTGAAAAATGA
1 TTTTAAAATTGAAAAATGA
904098 AAATAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (21 bp):
TTTTAAAATTGAAAAATGATG
Found at i:909841 original size:19 final size:19
Alignment explanation
Indices: 909817--909855 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
909807 GAAAATATTC
909817 AGAGTGCATCAATGCATGG
1 AGAGTGCATCAATGCATGG
**
909836 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCAATGCATGG
909855 A
1 A
909856 ATGCATTCGA
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:0.28, C:0.15, G:0.36, T:0.21
Consensus pattern (19 bp):
AGAGTGCATCAATGCATGG
Found at i:909909 original size:65 final size:65
Alignment explanation
Indices: 909755--909918 Score: 171
Period size: 65 Copynumber: 2.5 Consensus size: 65
909745 TGCACCAAGT
* * *
909755 GTGCATCGATGCATGG-CTTG-TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA
1 GTGCATCGATGCATGGAC-TGATGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCA
909818 GA
64 GA
* * *
909820 GTGCATCAATGCATGGA--GAGTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCA
1 GTGCATCGATGCATGGACTGA-TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA
909881 TCGA
64 --GA
909885 -TGCATCGATGCATGGACTGATGCATCGGTGCATG
1 GTGCATCGATGCATGGACTGATGCATCGGTGCATG
909919 CCTTTGAATA
Statistics
Matches: 84, Mismatches: 7, Indels: 16
0.79 0.07 0.15
Matches are distributed among these distances:
62 3 0.04
63 8 0.10
64 15 0.18
65 56 0.67
66 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATGGACTGATGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGA
Found at i:912045 original size:97 final size:98
Alignment explanation
Indices: 911935--912133 Score: 391
Period size: 97 Copynumber: 2.0 Consensus size: 98
911925 ATGGGCAAAG
911935 TTTTGAAAACTATTTAAAATTAATATCATAATACGCATAGTTTTCATGAAAACAACACAATTGAA
1 TTTTGAAAACTATTTAAAATTAATATCATAATACGCATAGTTTTCATGAAAACAACACAATTGAA
912000 TCAATAATTTTCG-AATAATAATAATAATTTTT
66 TCAATAATTTTCGAAATAATAATAATAATTTTT
912032 TTTTGAAAACTATTTAAAATTAATATCATAATACGCATAGTTTTCATGAAAACAACACAATTGAA
1 TTTTGAAAACTATTTAAAATTAATATCATAATACGCATAGTTTTCATGAAAACAACACAATTGAA
912097 TCAATAATTTTCGAAATAATAATAATAATTTTT
66 TCAATAATTTTCGAAATAATAATAATAATTTTT
912130 TTTT
1 TTTT
912134 TGAATTCGAA
Statistics
Matches: 101, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
97 78 0.77
98 23 0.23
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (98 bp):
TTTTGAAAACTATTTAAAATTAATATCATAATACGCATAGTTTTCATGAAAACAACACAATTGAA
TCAATAATTTTCGAAATAATAATAATAATTTTT
Found at i:912593 original size:15 final size:15
Alignment explanation
Indices: 912573--912605 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
912563 TTAAGAATCA
912573 TAAACTCCCCCTAAC
1 TAAACTCCCCCTAAC
912588 TAAACTCCCCCTAAC
1 TAAACTCCCCCTAAC
912603 TAA
1 TAA
912606 TAGAATACAA
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:0.36, C:0.42, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAACTCCCCCTAAC
Found at i:916256 original size:22 final size:21
Alignment explanation
Indices: 916214--916253 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
916204 GAGTTTGTTT
*
916214 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
916235 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
916254 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:918252 original size:19 final size:19
Alignment explanation
Indices: 918228--918278 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
918218 GAAAATATTC
918228 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
918247 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
918266 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
918279 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:918271 original size:65 final size:64
Alignment explanation
Indices: 918185--918329 Score: 163
Period size: 65 Copynumber: 2.2 Consensus size: 64
918175 TGCACCAAGT
* *
918185 GTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAT-ATTCA-GAGTGCATCGATGCATGGA
1 GTGCATCGGTGCATGAAATGCATTCGATG--TT-AAAATAATTCACGA-TGCATCGATGCATGGA
918248 -GA
62 CGA
* * *
918250 GTGCATCGGTGCATGGAATGCATTCGATGTTCAATTAATTCATCGATGCATCGATGCATGGACTG
1 GTGCATCGGTGCATGAAATGCATTCGATGTTAAAATAATTCA-CGATGCATCGATGCATGGAC-G
918315 A
64 A
918316 -TGCATCGGTGCATG
1 GTGCATCGGTGCATG
918330 CCTTTGAATA
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
62 3 0.04
63 7 0.10
64 16 0.23
65 42 0.60
66 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (64 bp):
GTGCATCGGTGCATGAAATGCATTCGATGTTAAAATAATTCACGATGCATCGATGCATGGACGA
Found at i:918613 original size:15 final size:15
Alignment explanation
Indices: 918593--918623 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
918583 CCAAAGCATT
*
918593 AGGATTAGATAATGA
1 AGGATTAGACAATGA
918608 AGGATTAGACAATGA
1 AGGATTAGACAATGA
918623 A
1 A
918624 AAACTTACGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.03, G:0.26, T:0.23
Consensus pattern (15 bp):
AGGATTAGACAATGA
Found at i:919123 original size:18 final size:18
Alignment explanation
Indices: 919078--919113 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
919068 GAACCAGAAT
*
919078 AGCACGAGGAACAAGCACG
1 AGCA-GAGGAACAAACACG
919097 AGCAGAGGAACAAACAC
1 AGCAGAGGAACAAACAC
919114 AGCCTGAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.47, C:0.25, G:0.28, T:0.00
Consensus pattern (18 bp):
AGCAGAGGAACAAACACG
Found at i:920943 original size:2 final size:2
Alignment explanation
Indices: 920936--920966 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
920926 CATTTTTATT
920936 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
920967 TATTTCTGTT
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:921150 original size:5 final size:5
Alignment explanation
Indices: 921142--921188 Score: 58
Period size: 5 Copynumber: 8.8 Consensus size: 5
921132 TTTCATTTCA
*
921142 TTTTG TTTTG TTTTG TTTTG TTTTG TTTATT TTATTG TTTTG CTTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTT-TG TT-TTG TTTTG -TTTT
921189 TGGAGATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
5 26 0.70
6 10 0.27
7 1 0.03
ACGTcount: A:0.04, C:0.02, G:0.15, T:0.79
Consensus pattern (5 bp):
TTTTG
Found at i:927401 original size:32 final size:33
Alignment explanation
Indices: 927326--927401 Score: 79
Period size: 32 Copynumber: 2.4 Consensus size: 33
927316 TACATAACAT
927326 ATCATCAC-TTATGTACATATGACATGTGACAC
1 ATCATCACTTTATGTACATATGACATGTGACAC
* * *
927358 ATCATTA-TTTATGTA-ATATGATATGT-ATCAT
1 ATCATCACTTTATGTACATATGACATGTGA-CAC
*
927389 GTCATCACTTTAT
1 ATCATCACTTTAT
927402 ACATACGTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
30 1 0.03
31 17 0.47
32 18 0.50
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.41
Consensus pattern (33 bp):
ATCATCACTTTATGTACATATGACATGTGACAC
Found at i:928934 original size:27 final size:27
Alignment explanation
Indices: 928896--928959 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
928886 TTAACCAAAT
* *
928896 CTTAGCTTCTCCAAACTATTACTAAGC
1 CTTAGCCTCTCCAAACTATCACTAAGC
928923 CTTAGCCTCTCCAAACTATCACTAAGC
1 CTTAGCCTCTCCAAACTATCACTAAGC
928950 CTTAGCCTCT
1 CTTAGCCTCT
928960 AATCACCATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.27, C:0.34, G:0.08, T:0.31
Consensus pattern (27 bp):
CTTAGCCTCTCCAAACTATCACTAAGC
Found at i:929772 original size:60 final size:60
Alignment explanation
Indices: 929646--929759 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
929636 TAGTTGGATA
* * *
929646 ACCATTTTATAACTTTTAATAATCGATGGACTCAACAAAGCAACATCCTATAGTCAGAGG
1 ACCATTTTATAACTTTCAATAACCGATAGACTCAACAAAGCAACATCCTATAGTCAGAGG
* * **
929706 ACCATTTTATAACTTTCAATAGCCAGA-AGACTCAACAAAGTAGTATCCTATAGT
1 ACCATTTTATAACTTTCAATAACC-GATAGACTCAACAAAGCAACATCCTATAGT
929760 TGCGGGATCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
60 44 0.96
61 2 0.04
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (60 bp):
ACCATTTTATAACTTTCAATAACCGATAGACTCAACAAAGCAACATCCTATAGTCAGAGG
Found at i:930225 original size:2 final size:2
Alignment explanation
Indices: 930184--930212 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
930174 ATATTTATTC
930184 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
930213 AAAGAACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:930342 original size:22 final size:23
Alignment explanation
Indices: 930317--930363 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
930307 TAAAACGTTA
*
930317 AATTATAAAATA-TTAAACATAT
1 AATTATAAAATAGTTAAAAATAT
*
930339 AATTATAAATTAGTTAAAAATAT
1 AATTATAAAATAGTTAAAAATAT
930362 AA
1 AA
930364 ATGTAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
AATTATAAAATAGTTAAAAATAT
Found at i:930355 original size:23 final size:21
Alignment explanation
Indices: 930317--930386 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 21
930307 TAAAACGTTA
*
930317 AATTATAAAATATTAAACATAT
1 AATTATAAATTATTAAA-ATAT
930339 AATTATAAATTAGTTAAAAATAT
1 AATTATAAATTA-TT-AAAATAT
* * *
930362 AAATGTAATTTAATTAAAATAT
1 AATTATAAATT-ATTAAAATAT
930384 AAT
1 AAT
930387 ATTTATAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
22 20 0.50
23 16 0.40
24 4 0.10
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (21 bp):
AATTATAAATTATTAAAATAT
Found at i:930380 original size:22 final size:22
Alignment explanation
Indices: 930315--930385 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 22
930305 TATAAAACGT
*
930315 TAAATTATAAAAT-ATTAAACATA
1 TAAA-TATAAATTAATTAAA-ATA
* *
930338 TAATTATAAATTAGTTAAAAATA
1 TAAATATAAATTAATT-AAAATA
* *
930361 TAAATGTAATTTAATTAAAATA
1 TAAATATAAATTAATTAAAATA
930383 TAA
1 TAA
930386 TATTTATAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
22 16 0.41
23 20 0.51
24 3 0.08
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (22 bp):
TAAATATAAATTAATTAAAATA
Found at i:935936 original size:138 final size:137
Alignment explanation
Indices: 935773--936496 Score: 884
Period size: 138 Copynumber: 5.3 Consensus size: 137
935763 ATGCCTTCCC
*
935773 TTTTTTGTCAGAGAATATGTTATAATTGCCCTATTATGTGTGATGTCCCCC-GGGGCACTATTTA
1 TTTTTTGTCAGAGAATATGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGGGGCACTATTCA
*
935837 TGTCAGTACCTATCATGTTTAAGGGGATGCAACAAAGTGGTGAAAACGTATTCCAGGGGGCGCAC
66 TGTCAGTACCTATCATGTTTGAGGGGATGCAACAAAGTGGTGAAAACGT-TT-CAGGGGGCGCAC
*
935902 CTTCCTTTT
129 CTTCCTTCT
* *
935911 TTTTTTATCAGAGAATATGTTATAATTGCCCTATTATGTGTGATATCCCCCGGTGGGCACTATTC
1 TTTTTTGTCAGAGAATATGTTATAATTGCCCTATTATGTGTGATGTCCCCCGG-GGGCACTATTC
** ** *
935976 ATGTCAGTACCTATCATGTTTGAGGGGACACAACAAAGTGGTGGAAGTGCGTTTCAGGGGGCGCG
65 ATGTCAGTACCTATCATGTTTGAGGGGATGCAACAAAGTGGT-GAA-AACGTTTCAGGGGGCGCA
936041 CCTTCC--C-
128 CCTTCCTTCT
* *
936048 TTTTTTGTCAGAGAATATGTTATAATTGCCCTATTATGTGTGATGTCCCCAGGGAGGTACTATTC
1 TTTTTTGTCAGAGAATATGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGG-GGCACTATTC
* * * * *
936113 ATGTCAGTACCTATCATGTTTGAGGGGATGTAACAAAGTGGTGAAAGCGCGTTTCAAGGGGCACG
65 ATGTCAGTACCTATCATGTTTGAGGGGATGCAACAAAGTGGTGAAA--ACGTTTCAGGGGGCGCA
936178 CCTTCC-T-T
128 CCTTCCTTCT
* * *
936186 TTTTTTGTTAGAGAATATGTTATAATTTCCCTATTATGTGTGATGTCCCCCAGGGGGAACTATTC
1 TTTTTTGTCAGAGAATATGTTATAATTGCCCTATTATGTGTGATGTCCCCC-GGGGGCACTATTC
* *
936251 ATGTCAGTACCTATCATGTTTAAGGGGACGCAACAAAGTGGTGAAAGCACGTTTCAGGAGGTGCG
65 ATGTCAGTACCTATCATGTTTGAGGGGATGCAACAAAGTGGTGAAA--ACGTTTCAGG-GG-GCG
936316 -A-CTTCC--CT
126 CACCTTCCTTCT
* *
936324 TTTTTTGTCAGACAATATGTTATAATTACCCTATTATGTGTGATGTCCCCCGGGTGGCACTATTC
1 TTTTTTGTCAGAGAATATGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGG-GGCACTATTC
* * * ** * * *
936389 ATTTCAGTACATATCATGTTTGAGTGGATGCAGGAATGTAGTGAAAACGCGTTTAAGGGGGCG--
65 ATGTCAGTACCTATCATGTTTGAGGGGATGCAACAAAGTGGTGAAAA--CGTTTCAGGGGGCGCA
936452 CC-T--TTCT
128 CCTTCCTTCT
* * *
936459 TTTTTTGTCAGATAATAGGTTATAATTTCCCTATTATG
1 TTTTTTGTCAGAGAATATGTTATAATTGCCCTATTATG
936497 CTTGAAATTT
Statistics
Matches: 519, Mismatches: 48, Indels: 41
0.85 0.08 0.07
Matches are distributed among these distances:
135 38 0.07
136 9 0.02
137 124 0.24
138 267 0.51
139 6 0.01
140 67 0.13
141 5 0.01
142 3 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (137 bp):
TTTTTTGTCAGAGAATATGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGGGGCACTATTCA
TGTCAGTACCTATCATGTTTGAGGGGATGCAACAAAGTGGTGAAAACGTTTCAGGGGGCGCACCT
TCCTTCT
Found at i:936250 original size:275 final size:273
Alignment explanation
Indices: 935741--936496 Score: 1061
Period size: 275 Copynumber: 2.8 Consensus size: 273
935731 TACCATTCAC
**
935741 GTGAAAGCACGTTTCAGGGGGTATGCCTTCCCTTTTTTGTCAGAGAATATGTTATAATTGCCCTA
1 GTGAAAGCACGTTTCAGGGGGTGCGCCTTCCCTTTTTTGTCAGAGAATATGTTATAATTGCCCTA
* * *
935806 TTATGTGTGATGTCCCCCGGGGCACTATTTATGTCAGTACCTATCATGTTTAAGGGGATGCAACA
66 TTATGTGTGATGTCCCCGGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGATGCAACA
** * * * *
935871 AAGTGGTGAAAACGTATTCCAGGGGGCGCACCTTCCTTTTTTTTTTATCAGAGAATATGTTATAA
131 AAGTGGTGAAAACGCGTTTCAAGGGGCGCGCCTTCCTTTTTTTTGT-T-AGAGAATATGTTATAA
* * *
935936 TTGCCCTATTATGTGTGATATCCCCCGGTGGGCACTATTCATGTCAGTACCTATCATGTTTGAGG
194 TTTCCCTATTATGTGTGATATCCCCCGGTGGGAACTATTCATGTCAGTACCTATCATGTTTAAGG
936001 GGACACAACAAAGTG
259 GGACACAACAAAGTG
* ** *
936016 GTGGAAGTGCGTTTCAGGGGGCGCGCCTTCCCTTTTTTGTCAGAGAATATGTTATAATTGCCCTA
1 GTGAAAGCACGTTTCAGGGGGTGCGCCTTCCCTTTTTTGTCAGAGAATATGTTATAATTGCCCTA
* *
936081 TTATGTGTGATGTCCCCAGGGAGGTACTATTCATGTCAGTACCTATCATGTTTGAGGGGATGTAA
66 TTATGTGTGATGTCCCC-GGG-GGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGATGCAA
* *
936146 CAAAGTGGTGAAAGCGCGTTTCAAGGGGCACGCCTTCCTTTTTTTTGTTAGAGAATATGTTATAA
129 CAAAGTGGTGAAAACGCGTTTCAAGGGGCGCGCCTTCCTTTTTTTTGTTAGAGAATATGTTATAA
*
936211 TTTCCCTATTATGTGTGATGTCCCCCAGG-GGGAACTATTCATGTCAGTACCTATCATGTTTAAG
194 TTTCCCTATTATGTGTGATATCCCCC-GGTGGGAACTATTCATGTCAGTACCTATCATGTTTAAG
*
936275 GGGACGCAACAAAGTG
258 GGGACACAACAAAGTG
* * * *
936291 GTGAAAGCACGTTTCAGGAGGTGCGACTTCCCTTTTTTTGTCAGACAATATGTTATAATTACCCT
1 GTGAAAGCACGTTTCAGGGGGTGCGCCTTCCC-TTTTTTGTCAGAGAATATGTTATAATTGCCCT
* * *
936356 ATTATGTGTGATGTCCCCCGGGTGGCACTATTCATTTCAGTACATATCATGTTTGAGTGGATGCA
65 ATTATGTGTGATGT-CCCCGGG-GGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGATGCA
** * * * * * *
936421 GGAATGTAGTGAAAACGCGTTT-AAGGGG-GCGCCTTTC-TTTTTTTGTCAGATAATAGGTTATA
128 ACAAAGTGGTGAAAACGCGTTTCAAGGGGCGCGCCTTCCTTTTTTTTGTTAGAGAATATGTTATA
936483 ATTTCCCTATTATG
193 ATTTCCCTATTATG
936497 CTTGAAATTT
Statistics
Matches: 428, Mismatches: 48, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
273 36 0.08
274 7 0.02
275 196 0.46
276 106 0.25
277 83 0.19
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (273 bp):
GTGAAAGCACGTTTCAGGGGGTGCGCCTTCCCTTTTTTGTCAGAGAATATGTTATAATTGCCCTA
TTATGTGTGATGTCCCCGGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGATGCAACA
AAGTGGTGAAAACGCGTTTCAAGGGGCGCGCCTTCCTTTTTTTTGTTAGAGAATATGTTATAATT
TCCCTATTATGTGTGATATCCCCCGGTGGGAACTATTCATGTCAGTACCTATCATGTTTAAGGGG
ACACAACAAAGTG
Found at i:936343 original size:413 final size:409
Alignment explanation
Indices: 935741--936496 Score: 1074
Period size: 413 Copynumber: 1.8 Consensus size: 409
935731 TACCATTCAC
* * *
935741 GTGAAAGCACGTTTCAGGGGGTATGCCTTCCCTTTTTTGTCAGAGAATATGTTATAATTGCCCTA
1 GTGAAAGCACGTTTCAAGGGGCACGCCTTCCCTTTTTTGTCAGAGAATATGTTATAATTGCCCTA
* * *
935806 TTATGTGTGATGTCCCCCGGGGCACTATTTATGTCAGTACCTATCATGTTTAAGGGGATGCAACA
66 TTATGTGTGATGTCCCCCGGGGAACTATTCATGTCAGTACCTATCATGTTTAAGGGGACGCAACA
* *
935871 AAGTGGTGAAAACGTATTCCAGGGGGCGCACCTTCCTTTTTTTTTTATCAGAGAATATGTTATAA
131 AAGTGGTGAAAACGTATTCCAGGGGGCGCACCTTCC-TCTTTTTTTATCAGACAATATGTTATAA
* *
935936 TTGCCCTATTATGTGTGATATCCCCC-GGTGGGCACTATTCATGTCAGTACCTATCATGTTTGAG
195 TTACCCTATTATGTGTGATATCCCCCGGGT-GGCACTATTCATGTCAGTACATATCATGTTTGAG
* * ** *
936000 GGGACACAACAAAGTGGTGGAAGTGCGTTTCAGGGGGCGCGCCTTCCCTTTTTTGTCAGAGAATA
259 GGGACACAACAAAGTAGTGAAAACGCGTTT-AAGGGG-GCGCCTTCCCTTTTTTGTCAGAGAATA
*
936065 TGTTATAATTGCCCTATTATGTGTGATGTCCCCAGGGAGGTACTATTCATGTCAGTACCTATCAT
322 GGTTATAATTGCCCTATTATGTGTGATGTCCCCAGGGAGGTACTATTCATGTCAGTACCTATCAT
936130 GTTTGAGGGGATGTAACAAAGTG
387 GTTTGAGGGGATGTAACAAAGTG
* * * *
936153 GTGAAAGCGCGTTTCAAGGGGCACGCCTTCCTTTTTTTTGTTAGAGAATATGTTATAATTTCCCT
1 GTGAAAGCACGTTTCAAGGGGCACGCCTTCC-CTTTTTTGTCAGAGAATATGTTATAATTGCCCT
936218 ATTATGTGTGATGTCCCCCAGGGGGAACTATTCATGTCAGTACCTATCATGTTTAAGGGGACGCA
65 ATTATGTGTGATGTCCCCC--GGGGAACTATTCATGTCAGTACCTATCATGTTTAAGGGGACGCA
*
936283 ACAAAGTGGTGAAAGCACGT-TT-CAGGAGGTGCG-A-CTTCC-CTTTTTTTGTCAGACAATATG
128 ACAAAGTGGTGAAA--ACGTATTCCAGG-GG-GCGCACCTTCCTCTTTTTTTATCAGACAATATG
* *
936343 TTATAATTACCCTATTATGTGTGATGTCCCCCGGGTGGCACTATTCATTTCAGTACATATCATGT
189 TTATAATTACCCTATTATGTGTGATATCCCCCGGGTGGCACTATTCATGTCAGTACATATCATGT
* ** ** * * * *
936408 TTGAGTGGATGCAGGAATGTAGTGAAAACGCGTTTAAGGGGGCGCCTTTCTTTTTTTGTCAGATA
254 TTGAGGGGACACAACAAAGTAGTGAAAACGCGTTTAAGGGGGCGCCTTCCCTTTTTTGTCAGAGA
*
936473 ATAGGTTATAATTTCCCTATTATG
319 ATAGGTTATAATTGCCCTATTATG
936497 CTTGAAATTT
Statistics
Matches: 303, Mismatches: 33, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
411 43 0.14
412 32 0.11
413 149 0.49
414 3 0.01
415 64 0.21
416 5 0.02
417 7 0.02
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (409 bp):
GTGAAAGCACGTTTCAAGGGGCACGCCTTCCCTTTTTTGTCAGAGAATATGTTATAATTGCCCTA
TTATGTGTGATGTCCCCCGGGGAACTATTCATGTCAGTACCTATCATGTTTAAGGGGACGCAACA
AAGTGGTGAAAACGTATTCCAGGGGGCGCACCTTCCTCTTTTTTTATCAGACAATATGTTATAAT
TACCCTATTATGTGTGATATCCCCCGGGTGGCACTATTCATGTCAGTACATATCATGTTTGAGGG
GACACAACAAAGTAGTGAAAACGCGTTTAAGGGGGCGCCTTCCCTTTTTTGTCAGAGAATAGGTT
ATAATTGCCCTATTATGTGTGATGTCCCCAGGGAGGTACTATTCATGTCAGTACCTATCATGTTT
GAGGGGATGTAACAAAGTG
Found at i:936521 original size:20 final size:21
Alignment explanation
Indices: 936498--936544 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
936488 CCTATTATGC
*
936498 TTGAAATTT-ATGTTAGAGTG
1 TTGAAATTTGATGTTAGAATG
936518 TTG-AATTTGATGTTAGAATG
1 TTGAAATTTGATGTTAGAATG
936538 -TGAAATT
1 TTGAAATT
936545 GTTTTGGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (21 bp):
TTGAAATTTGATGTTAGAATG
Found at i:937352 original size:21 final size:21
Alignment explanation
Indices: 937328--937398 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
937318 GGTGTCATAA
* * *
937328 AACCCTGCGGGGTGGGCATGT
1 AACCCTGCGGGCTAGGAATGT
* * *
937349 AACCTTGTGGGCTAGGTATGT
1 AACCCTGCGGGCTAGGAATGT
* *
937370 ACCCCTGTGGGCTAGGAATGT
1 AACCCTGCGGGCTAGGAATGT
937391 AACCCTGC
1 AACCCTGC
937399 AGAGATGCCA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.18, C:0.24, G:0.34, T:0.24
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:938063 original size:17 final size:17
Alignment explanation
Indices: 938041--938076 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
938031 AAACTGAAAC
938041 ATAAATAT-ATAATTCTA
1 ATAAATATAAT-ATTCTA
938058 ATAAATATAATATTCTA
1 ATAAATATAATATTCTA
938075 AT
1 AT
938077 TATATCAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAAATATAATATTCTA
Found at i:939248 original size:25 final size:24
Alignment explanation
Indices: 939204--939250 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
939194 TAATTAGCAC
939204 AAATAATAATTAATTAATAAATTT
1 AAATAATAATTAATTAATAAATTT
939228 AAATAAATAA-TAATTATATAAAT
1 AAAT-AATAATTAATTA-ATAAAT
939251 ATTATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAATAATAATTAATTAATAAATTT
Found at i:939263 original size:23 final size:25
Alignment explanation
Indices: 939235--939292 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
939225 TTTAAATAAA
939235 TAATAATTATAT-AAATATTA-TTT
1 TAATAATTATATAAAATATTATTTT
** *
939258 TAATAAAAAAATAAAATATTATTTT
1 TAATAATTATATAAAATATTATTTT
*
939283 TAAAAATTAT
1 TAATAATTAT
939293 TTATAAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
23 9 0.35
24 8 0.31
25 9 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TAATAATTATATAAAATATTATTTT
Found at i:939291 original size:13 final size:13
Alignment explanation
Indices: 939268--939301 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
939258 TAATAAAAAA
939268 ATAAAATATTATTT
1 ATAAAA-ATTATTT
*
939282 TTAAAAATTATTT
1 ATAAAAATTATTT
939295 ATAAAAA
1 ATAAAAA
939302 ATATAACAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAAATTATTT
Found at i:939299 original size:35 final size:37
Alignment explanation
Indices: 939246--939324 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 37
939236 AATAATTATA
* *
939246 TAAATATTATTTTAATAAAAAA-ATAAAATATTATTTT
1 TAAAAATTATTTTAATAAAAAATATAAAA-ACTATTTT
*
939283 TAAAAATTA-TTT-ATAAAAAATATAACAACTATTTT
1 TAAAAATTATTTTAATAAAAAATATAAAAACTATTTT
*
939318 AAAAAAT
1 TAAAAAT
939325 ACTAATTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 21 0.57
36 8 0.22
37 8 0.22
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (37 bp):
TAAAAATTATTTTAATAAAAAATATAAAAACTATTTT
Found at i:942285 original size:22 final size:22
Alignment explanation
Indices: 942257--942329 Score: 146
Period size: 22 Copynumber: 3.3 Consensus size: 22
942247 TGTTCAGTTT
942257 GTTTATGTTCACGAACAAGCTC
1 GTTTATGTTCACGAACAAGCTC
942279 GTTTATGTTCACGAACAAGCTC
1 GTTTATGTTCACGAACAAGCTC
942301 GTTTATGTTCACGAACAAGCTC
1 GTTTATGTTCACGAACAAGCTC
942323 GTTTATG
1 GTTTATG
942330 AGCTCATTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (22 bp):
GTTTATGTTCACGAACAAGCTC
Found at i:942597 original size:24 final size:24
Alignment explanation
Indices: 942568--942630 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
942558 ACAAAAATGC
*
942568 TAAATGAACACGTTCGTGAACATA
1 TAAATGAACACGTTCGTAAACATA
* ** *
942592 TAAATGAATAAATTTGTAAACATA
1 TAAATGAACACGTTCGTAAACATA
*
942616 TAAACGAACACGTTC
1 TAAATGAACACGTTC
942631 ACGAACATTA
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (24 bp):
TAAATGAACACGTTCGTAAACATA
Found at i:944898 original size:23 final size:22
Alignment explanation
Indices: 944850--944920 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 22
944840 TTTTTCTTCC
* *
944850 TTTTGTTTAT-TTTTTTCTATCAT
1 TTTTATTTATATTTTTTATAT--T
944873 TTTTATTTATATATTTATT-TATT
1 TTTTATTTATAT-TTT-TTATATT
*
944896 TTTTATTTCTATTTTTTATATT
1 TTTTATTTATATTTTTTATATT
944918 TTT
1 TTT
944921 CTTGACATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 2 0.05
22 10 0.24
23 21 0.50
24 1 0.02
25 6 0.14
26 2 0.05
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (22 bp):
TTTTATTTATATTTTTTATATT
Found at i:944910 original size:12 final size:12
Alignment explanation
Indices: 944857--944911 Score: 60
Period size: 12 Copynumber: 4.6 Consensus size: 12
944847 TCCTTTTGTT
944857 TATTTTT-TTCTA
1 TATTTTTATT-TA
944869 TCATTTTTATTTA
1 T-ATTTTTATTTA
*
944882 TATATTTATTTA
1 TATTTTTATTTA
*
944894 T-TTTTTATTTC
1 TATTTTTATTTA
944905 TATTTTT
1 TATTTTT
944912 TATATTTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.24
12 17 0.46
13 9 0.24
14 2 0.05
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (12 bp):
TATTTTTATTTA
Found at i:945018 original size:16 final size:16
Alignment explanation
Indices: 944992--945027 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
944982 ATATTGTAGT
944992 TTTATTTTTTATTT-A
1 TTTATTTTTTATTTGA
945007 TTTATGTTTTTATTTGA
1 TTTAT-TTTTTATTTGA
945024 TTTA
1 TTTA
945028 ATCTTCTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 9 0.47
17 5 0.26
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (16 bp):
TTTATTTTTTATTTGA
Found at i:945093 original size:5 final size:5
Alignment explanation
Indices: 945054--945140 Score: 63
Period size: 5 Copynumber: 17.8 Consensus size: 5
945044 ATTTCTTTTC
* * * * * *
945054 TATTT TGTTT TGTTT TGTTT TGTTT T-GTT TA-TT TATTT TATTT TACTT
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT
* * *
945102 TATTTT TATTT TACTT TATTT TAATT T-GTT TATTT TATT
1 TA-TTT TATTT TATTT TATTT TATTT TATTT TATTT TATT
945141 GTTTTACTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
4 10 0.14
5 55 0.80
6 4 0.06
ACGTcount: A:0.15, C:0.02, G:0.07, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:945110 original size:16 final size:16
Alignment explanation
Indices: 945081--945128 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
945071 TTTTGTTTTG
945081 TTTA-TTTA-TTTTAT
1 TTTACTTTATTTTTAT
945095 TTTACTTTATTTTTAT
1 TTTACTTTATTTTTAT
*
945111 TTTACTTTATTTTAAT
1 TTTACTTTATTTTTAT
945127 TT
1 TT
945129 GTTTATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 4 0.13
15 4 0.13
16 23 0.74
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTACTTTATTTTTAT
Found at i:945174 original size:23 final size:24
Alignment explanation
Indices: 945142--945202 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
945132 TATTTTATTG
*
945142 TTTTACTTTTT-GGAGATTA-TTTT
1 TTTTATTTTTTAGG-GATTAGTTTT
*
945165 TTTTATTTTTTAGGGTTTATGTTTT
1 TTTTATTTTTTAGGGATTA-GTTTT
945190 TTTTATATTTTTA
1 TTTTAT-TTTTTA
945203 ATAGACTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.44
24 2 0.06
25 10 0.31
26 6 0.19
ACGTcount: A:0.16, C:0.02, G:0.11, T:0.70
Consensus pattern (24 bp):
TTTTATTTTTTAGGGATTAGTTTT
Found at i:948023 original size:23 final size:23
Alignment explanation
Indices: 947992--948042 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
947982 TATAAAGCAC
* *
947992 TAAACATAT-AATTATAAATTAGT
1 TAAAAATATAAATT-TAAATTAAT
*
948015 TAAAAATATAAATTTAATTTAAT
1 TAAAAATATAAATTTAAATTAAT
948038 TAAAA
1 TAAAA
948043 TACAATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
TAAAAATATAAATTTAAATTAAT
Found at i:949593 original size:31 final size:32
Alignment explanation
Indices: 949555--949741 Score: 179
Period size: 32 Copynumber: 5.9 Consensus size: 32
949545 ACCTCGGCAA
* * *
949555 CTGTCCATATATCCCGAAGAACCTAGGTAA-T
1 CTGTCCATATGTTCCGAAGAACATAGGTAATT
** *
949586 CTGTCCATATGTTCCTTAGAACATAGGT-ATA
1 CTGTCCATATGTTCCGAAGAACATAGGTAATT
* * ** *
949617 CTGTCTATAT-ATCTAAAAAACATAGGTAATT
1 CTGTCCATATGTTCCGAAGAACATAGGTAATT
*
949648 TTGTCCATATG-TCTCGAA-AGACATAGGTAATT
1 CTGTCCATATGTTC-CGAAGA-ACATAGGTAATT
949680 CTGTCCATATGTTCCGAA-AGACATAGGTAATT
1 CTGTCCATATGTTCCGAAGA-ACATAGGTAATT
* *
949712 CTGTCCACATGTTCCGTAGAACATAGGTAA
1 CTGTCCATATGTTCCGAAGAACATAGGTAA
949742 ACCCTCGAAT
Statistics
Matches: 129, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
30 13 0.10
31 45 0.35
32 68 0.53
33 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (32 bp):
CTGTCCATATGTTCCGAAGAACATAGGTAATT
Found at i:950072 original size:8 final size:8
Alignment explanation
Indices: 950060--950140 Score: 85
Period size: 8 Copynumber: 10.4 Consensus size: 8
950050 TATAACCATT
*
950060 ACATACAT
1 ACATACAC
950068 ACATACAC
1 ACATACAC
*
950076 ACACACAC
1 ACATACAC
950084 ACATACA-
1 ACATACAC
*
950091 A-ACACAC
1 ACATACAC
*
950098 ACACACAC
1 ACATACAC
950106 ACATACAC
1 ACATACAC
*
950114 ACACACAC
1 ACATACAC
*
950122 ACACACAC
1 ACATACAC
*
950130 ACACACAC
1 ACATACAC
950138 ACA
1 ACA
950141 CAAACATGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
6 4 0.06
7 2 0.03
8 59 0.91
ACGTcount: A:0.52, C:0.42, G:0.00, T:0.06
Consensus pattern (8 bp):
ACATACAC
Found at i:950079 original size:2 final size:2
Alignment explanation
Indices: 950072--950142 Score: 115
Period size: 2 Copynumber: 35.5 Consensus size: 2
950062 ATACATACAT
* * *
950072 AC AC AC AC AC AC AC AT AC AA AC AC AC AC AC AC AC AC AT AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
950114 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
950143 AACATGTCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.52, C:0.45, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:950363 original size:16 final size:16
Alignment explanation
Indices: 950338--950374 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
950328 ATCTTACTCT
*
950338 TATATCTTCTCATATA
1 TATATATTCTCATATA
950354 TATATATTCTCATATA
1 TATATATTCTCATATA
*
950370 CATAT
1 TATAT
950375 CATTTCATTA
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:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (16 bp):
TATATATTCTCATATA
Found at i:950459 original size:330 final size:330
Alignment explanation
Indices: 950116--950780 Score: 1231
Period size: 330 Copynumber: 2.0 Consensus size: 330
950106 ACATACACAC
*
950116 ACACACACACACACACACACACACACAAACATGTCATCATTTATGTTTTTATCATACTCTTATAA
1 ACACACACACACACACACACACACACAAACATGTCATCATTTATGTTTTTATCATACTCCTATAA
*
950181 TATTATCCTTTATCTCTCTTATCTTTTGTTCATATGATCTCTTACATTCATACAAAAACACATAA
66 TATTATCCTTTATCTCTCTTATCTCTTGTTCATATGATCTCTTACATTCATACAAAAACACATAA
950246 ATACATCTAGTCACGTAAATCACTTTTGCATAACTTATATCAACTTTTCATGTCATTTCACACTT
131 ATACATCTAGTCACGTAAATCACTTTTGCATAACTTATATCAACTTTTCATGTCATTTCACACTT
*
950311 CTTGTTACATTGCTTATATCTTACTCTTATATCTTCTCATATATATATATTCTCATATACATATC
196 CTTGTTACATTGCTTATATCTTACTCTTATATCTTCTCATATACATATATTCTCATATACATATC
950376 ATTTCATTATCCTTATTATTATTCTTATCATCACTATTAATCTCTTTTACTTACCATATTCATAT
261 ATTTCATTATCCTTATTATTATTCTTATCATCACTATTAATCTCTTTTACTTACCATATTCATAT
950441 CAATA
326 CAATA
* * * *
950446 ACACACACACACACACACACACATACATATATGTCATCATTTATGTTTTTATCATACTCCTATAG
1 ACACACACACACACACACACACACACAAACATGTCATCATTTATGTTTTTATCATACTCCTATAA
* *
950511 TATTATCCTTTATCTCTCTTATCTCTTGTTCATATGATGTCTTACATTCATACAAAAACACATCA
66 TATTATCCTTTATCTCTCTTATCTCTTGTTCATATGATCTCTTACATTCATACAAAAACACATAA
950576 ATACATCTAGTCACGTAAATCACTTTTGCATAACTTATATCAACTTTTCATGTCATTTCACACTT
131 ATACATCTAGTCACGTAAATCACTTTTGCATAACTTATATCAACTTTTCATGTCATTTCACACTT
*
950641 CTTGTTACATTGCTTATATCTTACTCTTATGTCTTCTCATATACATATATTCTCATATACATATC
196 CTTGTTACATTGCTTATATCTTACTCTTATATCTTCTCATATACATATATTCTCATATACATATC
*
950706 ATTTCATTATCCTTATTATTATTCTTATTATCACTATTAATCTCTTTTACTTACCATATTCATAT
261 ATTTCATTATCCTTATTATTATTCTTATCATCACTATTAATCTCTTTTACTTACCATATTCATAT
950771 CAATA
326 CAATA
950776 ACACA
1 ACACA
950781 TATACTAATG
Statistics
Matches: 324, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
330 324 1.00
ACGTcount: A:0.31, C:0.23, G:0.03, T:0.42
Consensus pattern (330 bp):
ACACACACACACACACACACACACACAAACATGTCATCATTTATGTTTTTATCATACTCCTATAA
TATTATCCTTTATCTCTCTTATCTCTTGTTCATATGATCTCTTACATTCATACAAAAACACATAA
ATACATCTAGTCACGTAAATCACTTTTGCATAACTTATATCAACTTTTCATGTCATTTCACACTT
CTTGTTACATTGCTTATATCTTACTCTTATATCTTCTCATATACATATATTCTCATATACATATC
ATTTCATTATCCTTATTATTATTCTTATCATCACTATTAATCTCTTTTACTTACCATATTCATAT
CAATA
Found at i:950712 original size:16 final size:16
Alignment explanation
Indices: 950674--950704 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
950664 CTCTTATGTC
950674 TTCTCATATACATATA
1 TTCTCATATACATATA
950690 TTCTCATATACATAT
1 TTCTCATATACATAT
950705 CATTTCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (16 bp):
TTCTCATATACATATA
Found at i:957070 original size:137 final size:137
Alignment explanation
Indices: 956714--957460 Score: 920
Period size: 137 Copynumber: 5.4 Consensus size: 137
956704 TGAAAGCATA
*
956714 TTTCAGGGGTTGCG-TCTTCCCTTTTTTTGTCAGAGAATATGTTATAATTTCCCTATTATGTGTG
1 TTTCAGGGGGTGCGCT-TTCCC-TTTTTTGTCAGAGAATATGTTATAATTTCCCTATTATGTGTG
* * * * *
956778 ATGTCCCCC--GGGGCACTATTTATGTCAGTACCTATCATGTTTGAAGAGACGTAACAAAATGGT
64 ATGTCCCCCGGGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGGT
956841 GAAAGCGCG
129 GAAAGCGCG
* * * * *
956850 TTTCAGGGGGCGCACCTTCTCTTTTTTTGTCAGAGAATATGTTATAATTGCCCTATTATGTGTGA
1 TTTCAGGGGGTGCGCTTTC-CCTTTTTTGTCAGAGAATATGTTATAATTTCCCTATTATGTGTGA
* * *
956915 TGTCCCCCGGTGGACACTATTCATGTAAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGGTG
65 TGTCCCCCGGGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGGTG
*
956980 AAAACGCG
130 AAAGCGCG
*
956988 TTTCAGAGGGTGCGCTTTCCCTTTTTTGTCAGAGAATATGTTATAATTGT-CCTATTATGTGTGA
1 TTTCAGGGGGTGCGCTTTCCCTTTTTTGTCAGAGAATATGTTATAATT-TCCCTATTATGTGTGA
* * *
957052 TGTCCCCCGGGGGGCACTATTTATGTCAGTACCTATCATGTTTGAGGGGATGTAGA-AAAGTGGT
65 TGTCCCCCGGGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCA-ACAAAGTGGT
*
957116 GAAAGCGTG
129 GAAAGCGCG
** * * *
957125 TTTCAGGGGGCACGCCTTCCTTTATTTTTATCAGAGAATATGTTATAATTTCCCTATTATGTGTG
1 TTTCAGGGGGTGCGCTTTCC-CT-TTTTTGTCAGAGAATATGTTATAATTTCCCTATTATGTGTG
* * **
957190 ATGTCCCCCCGGGAGGAACTATTCATGTCAGTACCTATCATGTTTGAGGGGATACAACAAAGTGG
64 ATGT-CCCCCGGGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGG
*
957255 TGAAAGTGCG
128 TGAAAGCGCG
* * * *
957265 TTTCAGGGGGGTGC-C-TTCCAATTTGTT-ACAGAGAATATGTTATAATTGCCCTATTATGTGTG
1 TTTCA-GGGGGTGCGCTTTCC-CTTTTTTGTCAGAGAATATGTTATAATTTCCCTATTATGTGTG
* * * ** *
957327 ATGTCCTCCGGGTGGCACTATTCATGTCAGCACCTATCATGTTTGAGGGGACGCATGAATGTGGT
64 ATGTCCCCCGGGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGGT
957392 GAAAGCGCG
129 GAAAGCGCG
* * *
957401 TTTAAGGGGG-G-GCATCTTCCCTTTTTTTGTCAGATAATAGGTTATAATTTCCCTATTATG
1 TTTCAGGGGGTGCGC-T-TTCCC-TTTTTTGTCAGAGAATATGTTATAATTTCCCTATTATG
957461 CTTGAAATTT
Statistics
Matches: 527, Mismatches: 66, Indels: 34
0.84 0.11 0.05
Matches are distributed among these distances:
134 2 0.00
135 5 0.01
136 128 0.24
137 168 0.32
138 103 0.20
139 48 0.09
140 67 0.13
141 6 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (137 bp):
TTTCAGGGGGTGCGCTTTCCCTTTTTTGTCAGAGAATATGTTATAATTTCCCTATTATGTGTGAT
GTCCCCCGGGGGGCACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGGTGA
AAGCGCG
Found at i:957320 original size:276 final size:275
Alignment explanation
Indices: 956744--957460 Score: 1002
Period size: 276 Copynumber: 2.6 Consensus size: 275
956734 CTTTTTTTGT
*
956744 CAGAGAATATGTTATAATTTCCCTATTATGTGTGATGTCCCCC--GGGGCACTATTTATGTCAGT
1 CAGAGAATATGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGGGGGCACTATTTATGTCAGT
* * *
956807 ACCTATCATGTTTGAAGAGACGTA-ACAAAATGGTGAAAGCGCGTTTCAGGGGGCGCACCTT-CT
66 ACCTATCATGTTTGAGGGGACGTAGA-AAAGTGGTGAAAGCGCGTTTCAGGGGGCGCACCTTCCT
* *
956870 CTTTTTTTGTCAGAGAATATGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGTGGACACTAT
130 -TTTTTTTGTCAGAGAATATGTTATAATTTCCCTATTATGTGTGATGTCCCCCGGAGGACACTAT
*
956935 TCATGTAAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGGTGAAAACGCGTTTCAGAGGGTG
194 TCATGTAAGTACCTATCATGTTTGAGGGGACACAACAAAGTGGTGAAAACGCGTTTCAGAGGGTG
* * *
957000 CGCTTTCCCTTTTTTGT
259 CGCTTTCCATTTGTTGA
*
957017 CAGAGAATATGTTATAATTGTCCTATTATGTGTGATGTCCCCCGGGGGGCACTATTTATGTCAGT
1 CAGAGAATATGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGGGGGCACTATTTATGTCAGT
* * * *
957082 ACCTATCATGTTTGAGGGGATGTAGAAAAGTGGTGAAAGCGTGTTTCAGGGGGCACGCCTTCCTT
66 ACCTATCATGTTTGAGGGGACGTAGAAAAGTGGTGAAAGCGCGTTTCAGGGGGCGCACCTTCCTT
*
957147 TATTTTTATCAGAGAATATGTTATAATTTCCCTATTATGTGTGATGTCCCCCCGGGAGGA-ACTA
131 T-TTTTTGTCAGAGAATATGTTATAATTTCCCTATTATGTGTGATGT-CCCCC-GGAGGACACTA
* * ** *
957211 TTCATGTCAGTACCTATCATGTTTGAGGGGATACAACAAAGTGGTGAAAGTGCGTTTCAGGGGGG
193 TTCATGTAAGTACCTATCATGTTTGAGGGGACACAACAAAGTGGTGAAAACGCGTTTCA-GAGGG
957276 TGC-C-TTCCAATTTGTT-A
257 TGCGCTTTCC-ATTTGTTGA
* * * *
957293 CAGAGAATATGTTATAATTGCCCTATTATGTGTGATGTCCTCCGGGTGGCACTATTCATGTCAGC
1 CAGAGAATATGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGGGGGCACTATTTATGTCAGT
* * * * * *
957358 ACCTATCATGTTTGAGGGGACGCATG-AATGTGGTGAAAGCGCGTTTAAGGGGGGGCATCTTCCC
66 ACCTATCATGTTTGAGGGGACGTA-GAAAAGTGGTGAAAGCGCGTTTCAGGGGGCGCACCTTCCT
* *
957422 TTTTTTTGTCAGATAATAGGTTATAATTTCCCTATTATG
130 TTTTTTTGTCAGAGAATATGTTATAATTTCCCTATTATG
957461 CTTGAAATTT
Statistics
Matches: 395, Mismatches: 39, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
273 41 0.10
275 108 0.27
276 164 0.42
277 70 0.18
278 12 0.03
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (275 bp):
CAGAGAATATGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGGGGGCACTATTTATGTCAGT
ACCTATCATGTTTGAGGGGACGTAGAAAAGTGGTGAAAGCGCGTTTCAGGGGGCGCACCTTCCTT
TTTTTTGTCAGAGAATATGTTATAATTTCCCTATTATGTGTGATGTCCCCCGGAGGACACTATTC
ATGTAAGTACCTATCATGTTTGAGGGGACACAACAAAGTGGTGAAAACGCGTTTCAGAGGGTGCG
CTTTCCATTTGTTGA
Found at i:957510 original size:20 final size:20
Alignment explanation
Indices: 957466--957508 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
957456 TTATGCTTGA
*
957466 AATTT-ATGTTAGAGTGTTG
1 AATTTGATGTTAGAATGTTG
957485 AATTTGATGTTAGAATG-TG
1 AATTTGATGTTAGAATGTTG
957504 AATTT
1 AATTT
957509 TGGTTCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (20 bp):
AATTTGATGTTAGAATGTTG
Found at i:958372 original size:21 final size:21
Alignment explanation
Indices: 958338--958388 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
958328 AGCTGGGCAC
* * * *
958338 GTAACCTTGCGGGCTGGGTAT
1 GTAACCCTGTGGGCTAGGAAT
*
958359 GTACCCCTGTGGGCTAGGAAT
1 GTAACCCTGTGGGCTAGGAAT
958380 GTAACCCTG
1 GTAACCCTG
958389 CAGAGTTGAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.24, G:0.33, T:0.25
Consensus pattern (21 bp):
GTAACCCTGTGGGCTAGGAAT
Found at i:958413 original size:42 final size:42
Alignment explanation
Indices: 958367--958469 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
958357 ATGTACCCCT
* *
958367 GTGGGCTAGGAATGTAACCC-TGCAGAGTTGACATATGAACTA
1 GTGGGCTAGGAATAT-ACCCTTGCAGAGATGACATATGAACTA
* * * *
958409 GTGGGCTTGGCATATACCCTTGCAGAGATGACATCTGAACTG
1 GTGGGCTAGGAATATACCCTTGCAGAGATGACATATGAACTA
* *
958451 GTGGGCTGGGCATATACCC
1 GTGGGCTAGGAATATACCC
958470 CTGTGGCATT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
41 4 0.08
42 49 0.92
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (42 bp):
GTGGGCTAGGAATATACCCTTGCAGAGATGACATATGAACTA
Found at i:960214 original size:25 final size:24
Alignment explanation
Indices: 960170--960216 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
960160 TAATTAGCAC
960170 AAATAATAATTAATTAATAAATTT
1 AAATAATAATTAATTAATAAATTT
960194 AAATAAATAA-TAATTATATAAAT
1 AAAT-AATAATTAATTA-ATAAAT
960217 ATTATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAATAATAATTAATTAATAAATTT
Found at i:960712 original size:29 final size:30
Alignment explanation
Indices: 960687--960751 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
960677 AATGGTGTTA
960687 TTTAGGGTATATTA-GTTCATAGGGTGATT
1 TTTAGGGTATATTAGGTTCATAGGGTGATT
960716 TTTAGGGTATATTAGGTTCATAGGGTGATT
1 TTTAGGGTATATTAGGTTCATAGGGTGATT
960746 TTTAGG
1 TTTAGG
960752 TCAAAAAGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 14 0.40
30 21 0.60
ACGTcount: A:0.23, C:0.03, G:0.29, T:0.45
Consensus pattern (30 bp):
TTTAGGGTATATTAGGTTCATAGGGTGATT
Found at i:963252 original size:22 final size:22
Alignment explanation
Indices: 963224--963274 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
963214 TGTTCAGTTT
963224 GTTTATGTTCACGAACAAGCTC
1 GTTTATGTTCACGAACAAGCTC
963246 GTTTATGTTCACGAACAAGCTC
1 GTTTATGTTCACGAACAAGCTC
963268 GTTTATG
1 GTTTATG
963275 AGCTCATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (22 bp):
GTTTATGTTCACGAACAAGCTC
Found at i:963543 original size:24 final size:24
Alignment explanation
Indices: 963512--963574 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
963502 ACTCAAATGC
*
963512 TAAATGAACACGTTCGTGAACATA
1 TAAATGAACACGTTCGTAAACATA
* ** *
963536 TAAATGAATAAATTTGTAAACATA
1 TAAATGAACACGTTCGTAAACATA
*
963560 TAAACGAACACGTTC
1 TAAATGAACACGTTC
963575 ACGAATATTA
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (24 bp):
TAAATGAACACGTTCGTAAACATA
Found at i:967733 original size:13 final size:13
Alignment explanation
Indices: 967712--967773 Score: 76
Period size: 13 Copynumber: 4.8 Consensus size: 13
967702 ATTTTGTTAG
967712 TATTTTATTTAAT
1 TATTTTATTTAAT
967725 TATTGTATTATTTAAT
1 TA-T-T-TTATTTAAT
967741 T-TTTTA-TT-AT
1 TATTTTATTTAAT
967751 TATTTTATTTAAT
1 TATTTTATTTAAT
967764 TATTTTATTT
1 TATTTTATTT
967774 TTTTGCAGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
10 3 0.07
11 7 0.16
12 5 0.12
13 15 0.35
14 2 0.05
15 1 0.02
16 10 0.23
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (13 bp):
TATTTTATTTAAT
Found at i:967735 original size:16 final size:15
Alignment explanation
Indices: 967716--967751 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
967706 TGTTAGTATT
967716 TTATTTAATTATTGTA
1 TTATTTAATT-TTGTA
*
967732 TTATTTAATTTTTTA
1 TTATTTAATTTTGTA
967747 TTATT
1 TTATT
967752 ATTTTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTATTTAATTTTGTA
Found at i:967751 original size:18 final size:19
Alignment explanation
Indices: 967712--967773 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 19
967702 ATTTTGTTAG
*
967712 TATTTTATTTAATTATTGTAT
1 TATTTAATTTAATTA-T-TAT
*
967733 TATTTAATTT-TTTATTAT
1 TATTTAATTTAATTATTAT
*
967751 TATTTTATTTAATTATT-T
1 TATTTAATTTAATTATTAT
967769 TATTT
1 TATTT
967774 TTTTGCAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 18 0.50
19 6 0.17
20 3 0.08
21 9 0.25
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
TATTTAATTTAATTATTAT
Found at i:967758 original size:23 final size:24
Alignment explanation
Indices: 967716--967772 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 24
967706 TGTTAGTATT
* *
967716 TTATTTAATTATTGTATTATTTAA
1 TTATTTTATTATTATATTATTTAA
*
967740 TT-TTTTATTATTATTTTATTTAA
1 TTATTTTATTATTATATTATTTAA
967763 TTATTTTATT
1 TTATTTTATT
967773 TTTTTGCAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (24 bp):
TTATTTTATTATTATATTATTTAA
Found at i:968048 original size:13 final size:13
Alignment explanation
Indices: 968029--968075 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
968019 TAACTGTAAA
968029 AAAATAAAATAAT
1 AAAATAAAATAAT
*
968042 TAAATAAAATAAT
1 AAAATAAAATAAT
*
968055 AAAAATTAAATAAT
1 -AAAATAAAATAAT
968069 AAAATAA
1 AAAATAA
968076 TTAATACAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 18 0.62
14 11 0.38
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:968050 original size:19 final size:18
Alignment explanation
Indices: 968025--968079 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 18
968015 TTTATAACTG
968025 TAAA-AAAATAAAATAAT
1 TAAATAAAATAAAATAAT
*
968042 TAAATAAAATAATAAAAAT
1 TAAATAAAATAA-AATAAT
968061 TAAAT--AATAAAATAAT
1 TAAATAAAATAAAATAAT
968077 TAA
1 TAA
968080 TACAAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 8 0.24
17 9 0.26
18 7 0.21
19 10 0.29
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAATAAAATAAAATAAT
Found at i:968058 original size:27 final size:26
Alignment explanation
Indices: 968028--968088 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
968018 ATAACTGTAA
*
968028 AAAAATAAAATAATTAAATAAAATAAT
1 AAAAATAAAATAATAAAAT-AAATAAT
* *
968055 AAAAATTAAATAATAAAATAATTAAT
1 AAAAATAAAATAATAAAATAAATAAT
968081 ACAAAATA
1 A-AAAATA
968089 TGATTAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (26 bp):
AAAAATAAAATAATAAAATAAATAAT
Found at i:968065 original size:14 final size:14
Alignment explanation
Indices: 968028--968072 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
968018 ATAACTGTAA
968028 AAAAATAAAATAAT
1 AAAAATAAAATAAT
*
968042 -TAAATAAAATAAT
1 AAAAATAAAATAAT
*
968055 AAAAATTAAATAAT
1 AAAAATAAAATAAT
968069 AAAA
1 AAAA
968073 TAATTAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 12 0.44
14 15 0.56
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAAATAAAATAAT
Found at i:968087 original size:22 final size:22
Alignment explanation
Indices: 968044--968088 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
968034 AAAATAATTA
**
968044 AATAAAATAATAAAAATTAAAT
1 AATAAAATAATAAAAACAAAAT
* *
968066 AATAAAATAATTAATACAAAAT
1 AATAAAATAATAAAAACAAAAT
968088 A
1 A
968089 TGATTAAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (22 bp):
AATAAAATAATAAAAACAAAAT
Found at i:982148 original size:21 final size:23
Alignment explanation
Indices: 982123--982173 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
982113 AATTCCTTTG
982123 TTGCATTTACA-TTTTGTAT-TT
1 TTGCATTTACATTTTTGTATCTT
**
982144 TTGCATTCCCATTTTTGTATCTT
1 TTGCATTTACATTTTTGTATCTT
982167 TT-CATTT
1 TTGCATTT
982174 GCATGTACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 9 0.36
22 12 0.48
23 4 0.16
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.61
Consensus pattern (23 bp):
TTGCATTTACATTTTTGTATCTT
Found at i:983576 original size:14 final size:14
Alignment explanation
Indices: 983557--983587 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
983547 AAACACAAAC
983557 AAAGAAAGAGAAAA
1 AAAGAAAGAGAAAA
983571 AAAGAAAGAGAAAA
1 AAAGAAAGAGAAAA
983585 AAA
1 AAA
983588 AATAGAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAGAAAA
Found at i:983588 original size:18 final size:18
Alignment explanation
Indices: 983567--983656 Score: 62
Period size: 18 Copynumber: 5.2 Consensus size: 18
983557 AAAGAAAGAG
983567 AAAAAAAGAAAGAGAAAA
1 AAAAAAAGAAAGAGAAAA
* * * *
983585 AAAAATAGAAACA-CATA
1 AAAAAAAGAAAGAGAAAA
* *
983602 AAAAATAG-AA-A-AATA
1 AAAAAAAGAAAGAGAAAA
*
983617 GAAAAAAGAAAGAGAAAA
1 AAAAAAAGAAAGAGAAAA
* * *
983635 AATAGAAGAAAAAGAAAA
1 AAAAAAAGAAAGAGAAAA
983653 AAAA
1 AAAA
983657 TATTAAAAAA
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
15 10 0.18
16 4 0.07
17 11 0.20
18 31 0.55
ACGTcount: A:0.79, C:0.02, G:0.13, T:0.06
Consensus pattern (18 bp):
AAAAAAAGAAAGAGAAAA
Found at i:983654 original size:20 final size:20
Alignment explanation
Indices: 983582--983672 Score: 74
Period size: 21 Copynumber: 4.2 Consensus size: 20
983572 AAGAAAGAGA
*
983582 AAAAAAAATAGAAACACATAAAA
1 AAAAAAAATAGAAA-A-A-AAAG
983605 AATAGAAAAATAGAAAAAAGAAAG
1 AA-A-AAAAATAG-AAAAA-AAAG
* *
983629 AGAAAAAATAGAAGAAAAAG
1 AAAAAAAATAGAAAAAAAAG
*
983649 AAAAAAAATATTAAAAAAAAG
1 AAAAAAAATA-GAAAAAAAAG
983670 AAA
1 AAA
983673 TAGACAGATC
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
20 13 0.23
21 15 0.26
22 8 0.14
23 3 0.05
24 6 0.11
25 9 0.16
26 3 0.05
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (20 bp):
AAAAAAAATAGAAAAAAAAG
Found at i:985675 original size:54 final size:53
Alignment explanation
Indices: 985591--985761 Score: 184
Period size: 54 Copynumber: 3.2 Consensus size: 53
985581 ATTTTCGGAA
* **
985591 GTTTATTGATTTTTCTTAAATGAACATTCAAAGAAATTAAGCCTAATTTTTAGGG
1 GTTTCTTGATTTTTC--AAATGAATTTTCAAAGAAATTAAGCCTAATTTTTAGGG
** *
985646 GTTTCTTGATGTTTTCAAATGAATTTTCAAAGAAATTAAGCCTGGTTTTCAGGG
1 GTTTCTTGAT-TTTTCAAATGAATTTTCAAAGAAATTAAGCCTAATTTTTAGGG
*** * **
985700 GTTTCTTGATTTTT-TTTTGAATTTTTGAAAGAAGCTAAGCCTAA-TTTTAGGG
1 GTTTCTTGATTTTTCAAATGAA-TTTTCAAAGAAATTAAGCCTAATTTTTAGGG
985752 GTTTCTTGAT
1 GTTTCTTGAT
985762 AACTGTAAAT
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
52 21 0.21
53 21 0.21
54 43 0.43
55 9 0.09
56 5 0.05
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.44
Consensus pattern (53 bp):
GTTTCTTGATTTTTCAAATGAATTTTCAAAGAAATTAAGCCTAATTTTTAGGG
Found at i:986746 original size:139 final size:139
Alignment explanation
Indices: 986494--987126 Score: 884
Period size: 139 Copynumber: 4.6 Consensus size: 139
986484 GGGAAAACCA
* * *
986494 ATCAACACTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAGAAGAAGTTCAT
* *
986559 AATGAGAATAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATCAGCAACACCTC
66 AATGAGAAGAACTTGTTCAACCTTAACTCGATTCATCACATATGGAGTTGAATCAGCAACACCTC
986624 ACTCGAGGG
131 ACTCGAGGG
* * *
986633 AACAACATTTCCAATGGAGAGTTCACAATGAGAAGAACTCATCCGATGAAGGG-GAAGAAGTTCA
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGAT-AAGGGAGAAGAAGTTCA
* * * *
986697 TAATAAGAAGAACTTGTTCAACCTTAACTCAATTCGTCACATATGGAGTTGAATCAGTAACACCT
65 TAATGAGAAGAACTTGTTCAACCTTAACTCGATTCATCACATATGGAGTTGAATCAGCAACACCT
986762 CACTCGAGGG
130 CACTCGAGGG
986772 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCA
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATA-AGGGAGAAGAAGTTCA
* * * * *****
986837 TAATGAGAAGAGCTTGTTCGA-CTTATCACTCGATTCATGACAT-T----TCGAATCAGTGGTGC
65 TAATGAGAAGAACTTGTTCAACCTTA--ACTCGATTCATCACATATGGAGTTGAATCAGCAACAC
*
986896 TTCACTCGAGGG
128 CTCACTCGAGGG
* * *
986908 ATCAACATTTCTAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAACAAGTTAA
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATA-AGGGAGAAGAAGTTCA
* * *
986973 TAATGAGAAGATCTTGTTCAACCTTAGCTCGATTCGTCACATATGGAGTTGAATCAGCAACACCT
65 TAATGAGAAGAACTTGTTCAACCTTAACTCGATTCATCACATATGGAGTTGAATCAGCAACACCT
987038 CACTCGAGGG
130 CACTCGAGGG
* * * *
987048 ATCAACCTTTCCAGTGGAGATTTCATAATGAGAATAACTCATCCGATAAGGGAAAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAGAAGAAGTTCAT
987113 AATGAGAAGAACTT
66 AATGAGAAGAACTT
987127 TAGCTTGCTT
Statistics
Matches: 435, Mismatches: 48, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
135 13 0.03
136 103 0.24
137 4 0.01
138 1 0.00
139 203 0.47
140 98 0.23
141 13 0.03
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (139 bp):
ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTAACTCGATTCATCACATATGGAGTTGAATCAGCAACACCTC
ACTCGAGGG
Found at i:987050 original size:276 final size:276
Alignment explanation
Indices: 986494--987126 Score: 900
Period size: 276 Copynumber: 2.3 Consensus size: 276
986484 GGGAAAACCA
* *
986494 ATCAACACTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAT-GAGGGAGAAGAAGTTCA
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCA
* * *
986558 TAATGAGAATAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATCAGCAACACCT
66 TAATGAGAAGAACTTGTTCAACCTTAACTCGATTCATCACATAT---GTCGAATCAGCAACACCT
986623 CACTCGAGGGAACAACATTTCCAATGGAGAGTTCACAATGAGAAGAACTCATCCGATGAAGGGGA
128 CACTCGAGGGAACAACATTTCCAATGGAGAGTTCACAATGAGAAGAACTCATCCGATGAAGGGGA
* *
986688 AGAAGTTCATAATAAGAAGAACTTGTTCAACCTTAACTCAATTCGTCACATATGGAGTTGAATCA
193 ACAAGTTAATAATAAGAAGAACTTGTTCAACCTTAACTCAATTCGTCACATATGGAGTTGAATCA
*
986753 GTAACACCTCACTCGAGGG
258 GCAACACCTCACTCGAGGG
986772 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCA
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCA
* * * ***** *
986837 TAATGAGAAGAGCTTGTTCGA-CTTATCACTCGATTCATGACAT-T-TCGAATCAGTGGTGCTTC
66 TAATGAGAAGAACTTGTTCAACCTTA--ACTCGATTCATCACATATGTCGAATCAGCAACACCTC
* * * *
986899 ACTCGAGGGATCAACATTTCTAGTGGAGAGTTCATAATGAGAAGAACTCATCCGAT-AGAGGGAG
129 ACTCGAGGGAACAACATTTCCAATGGAGAGTTCACAATGAGAAGAACTCATCCGATGA-AGGG-G
* * * *
986963 AACAAGTTAATAATGAGAAGATCTTGTTCAACCTTAGCTCGATTCGTCACATATGGAGTTGAATC
192 AACAAGTTAATAATAAGAAGAACTTGTTCAACCTTAACTCAATTCGTCACATATGGAGTTGAATC
987028 AGCAACACCTCACTCGAGGG
257 AGCAACACCTCACTCGAGGG
* * * *
987048 ATCAACCTTTCCAGTGGAGATTTCATAATGAGAATAACTCATCCGATA-AGGGAAAAGAAGTTCA
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCA
987112 TAATGAGAAGAACTT
66 TAATGAGAAGAACTT
987127 TAGCTTGCTT
Statistics
Matches: 320, Mismatches: 30, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
274 1 0.00
275 96 0.30
276 124 0.39
278 49 0.15
279 36 0.11
280 14 0.04
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (276 bp):
ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACCTTAACTCGATTCATCACATATGTCGAATCAGCAACACCTCAC
TCGAGGGAACAACATTTCCAATGGAGAGTTCACAATGAGAAGAACTCATCCGATGAAGGGGAACA
AGTTAATAATAAGAAGAACTTGTTCAACCTTAACTCAATTCGTCACATATGGAGTTGAATCAGCA
ACACCTCACTCGAGGG
Found at i:987463 original size:240 final size:239
Alignment explanation
Indices: 987045--987604 Score: 809
Period size: 240 Copynumber: 2.4 Consensus size: 239
987035 CCTCACTCGA
* * * * *
987045 GGGATCAACCTTTCCAGTGGAGATTTCATAATGAGAATAACTCATCCGA-TAAGGGAAAAGAAGT
1 GGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGAGGAA-GGAGAAGAAGT
* *
987109 TCATAAT--G-AGAA--G---AACTTTAGCTTGCTTTCATCGTATAAGGAGTTGGAACAACACCG
65 TCATAATGAGAAGAATTGTTCAACTTTAGCTTGCTTTCATCGCATAAGGAATTGGAACAACACCG
* *
987166 ACTTTTGCTCGTCCATCACATAAGGAGTTGGATCAACATAATCATTTAGCTAGTCCCTCACATAA
130 AATTTTGCTCGTCCATCACATAAGGAGTTGGATCAACATAATCATTTAGCCAGTCCCTCACATAA
*
987231 GGAGATGGATCAACATTACCTTAGATCAATCATCACAGAAGGAGG
195 GGAGATGGATCAACATCACCTTAGATCAATCATCACAGAAGGAGG
987276 GGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGAGGAAGGAGAAGAAGTT
1 GGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGAGGAAGGAGAAGAAGTT
*
987341 CATAATGAGAAGAATTTGTTCAACTTTAGCTTG-TTTCCATCGCATAAGGAATTGGAACATCACC
66 CATAATGAGAAGAA-TTGTTCAACTTTAGCTTGCTTT-CATCGCATAAGGAATTGGAACAACACC
* *
987405 GAATTTTGCTCGTCCATCACATAAGGAGTTGGATCAGCATAATCATTTCGCCAGTCCCTCACATA
129 GAATTTTGCTCGTCCATCACATAAGGAGTTGGATCAACATAATCATTTAGCCAGTCCCTCACATA
* * * * *
987470 AGGAGTTGGATTAGCATCACCTTGGCTCAATCATCACAGAAGGAGG
194 AGGAGATGGATCAACATCACCTTAGATCAATCATCACAGAAGGAGG
* * *
987516 TGGATCAACATTTCCAGTTGAGAGTTCATAATGAGAAGAACTCATCCG-GCGAGGGAGAAGAAGT
1 GGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGAG-GAAGGAGAAGAAGT
987580 TCATAATGAGAAGAACTTGTTCAAC
65 TCATAATGAGAAGAA-TTGTTCAAC
987605 CTTGGTGATT
Statistics
Matches: 295, Mismatches: 22, Indels: 15
0.89 0.07 0.05
Matches are distributed among these distances:
231 63 0.21
232 2 0.01
233 1 0.00
234 4 0.01
237 1 0.00
239 4 0.01
240 220 0.75
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (239 bp):
GGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGAGGAAGGAGAAGAAGTT
CATAATGAGAAGAATTGTTCAACTTTAGCTTGCTTTCATCGCATAAGGAATTGGAACAACACCGA
ATTTTGCTCGTCCATCACATAAGGAGTTGGATCAACATAATCATTTAGCCAGTCCCTCACATAAG
GAGATGGATCAACATCACCTTAGATCAATCATCACAGAAGGAGG
Found at i:988406 original size:3 final size:3
Alignment explanation
Indices: 988398--988457 Score: 59
Period size: 3 Copynumber: 19.0 Consensus size: 3
988388 TTTTACTTAA
* *
988398 ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT ATT ATT -TAT ATAT ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T AT-T AT-T
988445 ATAT ATT ATT ATT
1 AT-T ATT ATT ATT
988458 TAATAAATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 1 0.02
3 37 0.73
4 13 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:988423 original size:18 final size:19
Alignment explanation
Indices: 988395--988432 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
988385 TTATTTTACT
988395 TAAATTATTATTATTATTA
1 TAAATTATTATTATTATTA
988414 TAAA-TATTATTATTATTA
1 TAAATTATTATTATTATTA
988432 T
1 T
988433 TTATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TAAATTATTATTATTATTA
Found at i:988430 original size:24 final size:23
Alignment explanation
Indices: 988398--988469 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 23
988388 TTTTACTTAA
988398 ATTATTATTATTATTATAAATATT
1 ATTATTATTATT-TTATAAATATT
*
988422 ATTATTATTA-TTTATATATATAT
1 ATTATTATTATTTTATAAATAT-T
*
988445 ATATATTATTATTTAATAAATATT
1 AT-TATTATTATTTTATAAATATT
988469 A
1 A
988470 CAAACCCAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 9 0.21
23 4 0.10
24 20 0.48
25 9 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTATTATTATTTTATAAATATT
Found at i:988438 original size:18 final size:18
Alignment explanation
Indices: 988400--988455 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
988390 TTACTTAAAT
*
988400 TATTATTATTATTATAAA
1 TATTATTATTATTATTAA
*
988418 TATTATTATTATTATTTA
1 TATTATTATTATTATTAA
988436 TATATATATATATATTATTA
1 TAT-TAT-TAT-TATTATTA
988456 TTTAATAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 19 0.59
19 3 0.09
20 3 0.09
21 7 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTATTATTATTATTAA
Found at i:989829 original size:3 final size:3
Alignment explanation
Indices: 989821--989850 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
989811 TTTACTCTTA
989821 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
989851 TAGTCATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:990610 original size:20 final size:21
Alignment explanation
Indices: 990587--990627 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
990577 AGAAATTAAA
990587 AATTCATTTATTT-AATTTTT
1 AATTCATTTATTTCAATTTTT
* *
990607 AATTCTTTTCTTTCAATTTTT
1 AATTCATTTATTTCAATTTTT
990628 TTATTACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (21 bp):
AATTCATTTATTTCAATTTTT
Found at i:997760 original size:114 final size:114
Alignment explanation
Indices: 997555--997780 Score: 362
Period size: 114 Copynumber: 2.0 Consensus size: 114
997545 AAGTGTCATG
* * *
997555 TGCTTATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATC
*
997620 TAGTTCGATATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATT
66 TAGTTCGATATGAACCCCAAAACCAATCATTGGAATTGAAAGATGAATT
*
997669 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATC
* * * * *
997734 TGGTTTGGTATGAACCCCAGAACCAATCATTGGAATTGAAAGGTGAA
66 TAGTTCGATATGAACCCCAAAACCAATCATTGGAATTGAAAGATGAA
997781 CTGCATGATC
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 102 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATC
TAGTTCGATATGAACCCCAAAACCAATCATTGGAATTGAAAGATGAATT
Found at i:999735 original size:54 final size:52
Alignment explanation
Indices: 999574--999735 Score: 270
Period size: 52 Copynumber: 3.1 Consensus size: 52
999564 CAATGATTGA
999574 GAACATCTGAGCAGAAGCCACAAAAAAATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAGCCACAAAAAAATGAATGTGTTGTCAAATGTTTTAC
999626 GAACATCTGAGCAGAAGCCACAAAAAAATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAGCCACAAAAAAATGAATGTGTTGTCAAATGTTTTAC
* ***
999678 GAACATCTGAGCAGAAGCCACAGGAAAAGATGAATGCACTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAGCCACA--AAAAAATGAATGTGTTGTCAAATGTTTTAC
999732 GAAC
1 GAAC
999736 CTGTTATTCT
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
52 74 0.71
54 30 0.29
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (52 bp):
GAACATCTGAGCAGAAGCCACAAAAAAATGAATGTGTTGTCAAATGTTTTAC
Found at i:1000132 original size:22 final size:22
Alignment explanation
Indices: 1000103--1000157 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
1000093 ATCTACACTC
*
1000103 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
1000125 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
1000147 TTCAAAGATGA
1 TTCAAAGATGA
1000158 AAACTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:1000918 original size:76 final size:76
Alignment explanation
Indices: 1000836--1001595 Score: 1351
Period size: 76 Copynumber: 10.0 Consensus size: 76
1000826 CTATTTTCTA
*
1000836 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1000901 AGCCTTCGGGT
66 AGCCTTCGGGT
* * *
1000912 CATCTGTAAGCCCTTTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
*
1000977 AACCTTCGGGT
66 AGCCTTCGGGT
1000988 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1001053 AGCCTTCGGGT
66 AGCCTTCGGGT
1001064 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1001129 AGCC-TCAGGGT
66 AGCCTTC-GGGT
* * * * *
1001140 CGTCTGTAAGTCCTACAGTGTATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTCTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
*
1001205 AACCTTCGGGT
66 AGCCTTCGGGT
1001216 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1001281 AGCCTTCGGGT
66 AGCCTTCGGGT
1001292 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1001357 AGCCTTCGGGT
66 AGCCTTCGGGT
1001368 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
*
1001433 AACCTTCGGGT
66 AGCCTTCGGGT
*
1001444 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
*
1001509 AACCTTCGGGT
66 AGCCTTCGGGT
*
1001520 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCAGGAGCTTTTTGATGTTTTCA
*
1001585 AGGCCTTCGGG
65 AAGCCTTCGGG
1001596 AGCTTTTTGA
Statistics
Matches: 658, Mismatches: 23, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
75 2 0.00
76 613 0.93
77 43 0.07
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:1001594 original size:29 final size:29
Alignment explanation
Indices: 1001555--1001624 Score: 131
Period size: 29 Copynumber: 2.4 Consensus size: 29
1001545 TGTTTCCAAA
1001555 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
*
1001584 AAGGCCTTCGGGAGCTTTTTGATGTTTTC
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
1001613 AAAGCCTTCGGG
1 AAAGCCTTCGGG
1001625 TCATCTGTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.37
Consensus pattern (29 bp):
AAAGCCTTCGGGAGCTTTTTGATGTTTTC
Found at i:1001599 original size:106 final size:105
Alignment explanation
Indices: 1001478--1001700 Score: 383
Period size: 106 Copynumber: 2.1 Consensus size: 105
1001468 ATGTTTCCAA
*
1001478 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
**
1001543 GATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
66 GATGTTTCC-AAAAAGCCTTCAAGAGCTTTTTGATGTTTTC
* *
1001584 AAGGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1001649 GATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTC
66 GATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTC
*
1001689 AAAACCTTCGGG
1 AAAGCCTTCGGG
1001701 TCATCTGTAA
Statistics
Matches: 110, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
105 39 0.35
106 71 0.65
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (105 bp):
AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
GATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTC
Found at i:1001643 original size:334 final size:333
Alignment explanation
Indices: 1001250--1001927 Score: 1180
Period size: 334 Copynumber: 2.0 Consensus size: 333
1001240 ATGTTTCCAA
*
1001250 AAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
1 AAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
* * *
1001315 GATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTC
66 GATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCC
**
1001380 CTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTC
131 CTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAACCTAAGGGTC
*
1001445 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
196 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
*
1001510 ACCTTC-GGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTT
261 ACC-TCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTT
*
1001574 TGATGTTTTC
324 TGATGTTCTC
* *
1001584 AAGGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1 AAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1001649 GATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCC
66 GATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCC
* *
1001714 CTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTAAGGGTC
131 CTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAACCTAAGGGTC
*
1001779 GTCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
196 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
* *
1001844 GCCTCAGGGTCGTCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
261 ACCTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
1001909 ATGTTCTC
326 ATGTTCTC
1001917 AAAGCC-TCAGG
1 AAAGCCTTCAGG
1001928 GTCGTCTGTA
Statistics
Matches: 325, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
332 4 0.01
333 37 0.11
334 284 0.87
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (333 bp):
AAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
GATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCC
CTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAACCTAAGGGTC
ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
ACCTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
ATGTTCTC
Found at i:1001656 original size:410 final size:409
Alignment explanation
Indices: 1001174--1001999 Score: 1431
Period size: 410 Copynumber: 2.0 Consensus size: 409
1001164 ATGTTTCCAA
*
1001174 AAAGCCTTCGGGAGCTTTTTGATGTTCTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTCTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
* * *
1001239 GATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTC
66 GATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCC
**
1001304 CTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTC
131 CTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTAAGGGTC
*
1001369 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAA
196 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAA
*
1001434 ACCTTC-GGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
261 ACC-TCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
1001498 GATGTTTTCAAAACCTTC-GGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCT
325 GATGTTCTCAAAACC-TCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCT
1001562 TCGGGAGCTTTTTGATGTTTTC
388 TCGGGAGCTTTTTGATGTTTTC
* * *
1001584 AAGGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTCTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1001649 GATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCC
66 GATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCC
*
1001714 CTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTAAGGGTC
131 CTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTAAGGGTC
* *
1001779 GTCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
196 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAA
* *
1001844 GCCTCAGGGTCGTCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
261 ACCTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
* *
1001909 ATGTTCTCAAAGCCTCAGGGTCGTCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCG
326 ATGTTCTCAAAACCTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCG
1001974 GGAGCTTTTTGATGTTTTC
391 GGAGCTTTTTGATGTTTTC
1001993 AAAGCCT
1 AAAGCCT
1002000 CAGGGTCATC
Statistics
Matches: 393, Mismatches: 21, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
409 41 0.10
410 352 0.90
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (409 bp):
AAAGCCTTCGGGAGCTTTTTGATGTTCTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
GATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCC
CTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTAAGGGTC
ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAA
ACCTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
ATGTTCTCAAAACCTCAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCG
GGAGCTTTTTGATGTTTTC
Found at i:1001713 original size:76 final size:77
Alignment explanation
Indices: 1001587--1002160 Score: 957
Period size: 76 Copynumber: 7.6 Consensus size: 77
1001577 TGTTTTCAAG
* *
1001587 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTC-GGGTCATCTGTAAGCCCTTCAGTGCATGA
1 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCAGGGTCATCTGTAAGTCCTACAGTGCATGA
1001651 TGTTTCCAAAAA
66 TGTTTCCAAAAA
** * * *
1001663 GCCTTCAAGAGCTTTTTGATGTTTTCAAAACCTTC-GGGTCATCTGTAAGCCCTTCAGTGCATGA
1 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCAGGGTCATCTGTAAGTCCTACAGTGCATGA
1001727 TGTTTCCAAAAA
66 TGTTTCCAAAAA
* *
1001739 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC-TAAGGGTCGTCTGTAAGTCCTACAGTGCATGA
1 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCAGGGTCATCTGTAAGTCCTACAGTGCATGA
1001803 TGTTTCCAAAAA
66 TGTTTCCAAAAA
*
1001815 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC-TCAGGGTCGTCTGTAAGTCCTACAGTGCATGA
1 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCAGGGTCATCTGTAAGTCCTACAGTGCATGA
1001879 TGTTTCCAAAAA
66 TGTTTCCAAAAA
* *
1001891 GCCTTCGGGAGCTTTTTGATGTTCTCAAAGCC-TCAGGGTCGTCTGTAAGTCCTACAGTGCATGA
1 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCAGGGTCATCTGTAAGTCCTACAGTGCATGA
1001955 TGTTTCCAAAAA
66 TGTTTCCAAAAA
1001967 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC-TCAGGGTCATCTGTAAGTCCTACAGTGCATGA
1 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCAGGGTCATCTGTAAGTCCTACAGTGCATGA
1002031 TGTTTCCAAAAA
66 TGTTTCCAAAAA
* *
1002043 GCCTTTGGGAGCTTTTTGATGTTTTTAAAGCCTT-AGGGTCATCTGTAAGTCCTACAGTGCATGA
1 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCAGGGTCATCTGTAAGTCCTACAGTGCATGA
1002107 TGTTTCCAAAAA
66 TGTTTCCAAAAA
*
1002119 GCCTTCGGGAGCTTTTTGATGTTTTCAAA-CCCTCAGGGTCAT
1 GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCAGGGTCAT
1002161 TCATAAGACC
Statistics
Matches: 476, Mismatches: 19, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
75 4 0.01
76 471 0.99
77 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (77 bp):
GCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCAGGGTCATCTGTAAGTCCTACAGTGCATGA
TGTTTCCAAAAA
Found at i:1001719 original size:182 final size:181
Alignment explanation
Indices: 1001402--1001771 Score: 668
Period size: 182 Copynumber: 2.0 Consensus size: 181
1001392 ATGTTTCCAA
*
1001402 AAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
1 AAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
** *
1001467 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTC
66 GATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCC
1001532 CTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
131 CTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
* * *
1001584 AAGGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1 AAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1001649 GATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCC
66 GATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCC
1001714 CTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
131 CTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
1001765 AAAGCCT
1 AAAGCCT
1001772 AAGGGTCGTC
Statistics
Matches: 180, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
181 37 0.21
182 143 0.79
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (181 bp):
AAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
GATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCC
CTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
Found at i:1001799 original size:258 final size:257
Alignment explanation
Indices: 1001326--1001851 Score: 946
Period size: 258 Copynumber: 2.0 Consensus size: 257
1001316 ATGTTTCCAA
*
1001326 AAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
1 AAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
* *
1001391 GATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTC
66 GATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCC
**
1001456 CTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTC
131 CTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTAAGGGTC
*
1001521 ATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
196 ATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
* *
1001584 AAGGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1 AAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
1001649 GATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCC
66 GATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCC
*
1001714 CTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTAAGGGTC
131 CTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTAAGGGTC
*
1001779 GTCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
196 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
1001841 AAAGCC-TCAGG
1 AAAGCCTTCAGG
1001852 GTCGTCTGTA
Statistics
Matches: 256, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
256 4 0.02
257 36 0.14
258 216 0.84
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (257 bp):
AAAGCCTTCAGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCAT
GATGTTTCCAAAAAGCCTTCAAGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCC
CTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTAAGGGTC
ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
Found at i:1002326 original size:3 final size:3
Alignment explanation
Indices: 1002318--1002359 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
1002308 TTTTACTTAA
* *
1002318 ATT ATT ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1002360 TATATATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:1002347 original size:18 final size:18
Alignment explanation
Indices: 1002326--1002404 Score: 72
Period size: 18 Copynumber: 4.3 Consensus size: 18
1002316 AAATTATTAT
1002326 TATTATTATTATTATAAA
1 TATTATTATTATTATAAA
**
1002344 TATTATTATTATTATTTA
1 TATTATTATTATTATAAA
*
1002362 TA-TATATATATATATATATA
1 TATTAT-TAT-TAT-TATAAA
*
1002382 TATATATTATT-TAATAAA
1 TAT-TATTATTATTATAAA
1002400 TATTA
1 TATTA
1002405 CAAACCCAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
17 5 0.10
18 28 0.55
19 4 0.08
20 8 0.16
21 3 0.06
22 3 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTATTATTATTATAAA
Found at i:1002367 original size:2 final size:2
Alignment explanation
Indices: 1002360--1002388 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1002350 TATTATTATT
1002360 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 T
1002389 TATTTAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1002402 original size:14 final size:15
Alignment explanation
Indices: 1002353--1002404 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 15
1002343 ATATTATTAT
1002353 TATTATTTATATATATA
1 TATTATTTATATA-A-A
* *
1002370 TATATATATATATATA
1 TAT-TATTTATATAAA
1002386 TATTATTTA-ATAAA
1 TATTATTTATATAAA
1002400 TATTA
1 TATTA
1002405 CAAACCCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 9 0.30
15 5 0.17
16 4 0.13
17 3 0.10
18 9 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTATTTATATAAA
Found at i:1003744 original size:3 final size:3
Alignment explanation
Indices: 1003736--1003765 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
1003726 TTTACTCTTA
*
1003736 ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1003766 TAGTCATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:1007495 original size:33 final size:34
Alignment explanation
Indices: 1007454--1007555 Score: 140
Period size: 33 Copynumber: 3.1 Consensus size: 34
1007444 CTGGCAAAGA
* * *
1007454 AAAC-GTTGAAGAA-ACTGCGAAACCTGCCGCAG
1 AAACTGTTGAAGAAGACGGCTAAACCTGCAGCAG
1007486 AAACTGTTGAA-AAGACGGCTAAACCTGCAGCAG
1 AAACTGTTGAAGAAGACGGCTAAACCTGCAGCAG
*
1007519 AAACTG-TGGAGAAGACGGCTAAACCTGCAGCAG
1 AAACTGTTGAAGAAGACGGCTAAACCTGCAGCAG
1007552 AAAC
1 AAAC
1007556 CGTGCAAAAG
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
32 9 0.14
33 54 0.86
ACGTcount: A:0.39, C:0.23, G:0.25, T:0.13
Consensus pattern (34 bp):
AAACTGTTGAAGAAGACGGCTAAACCTGCAGCAG
Found at i:1008791 original size:5 final size:5
Alignment explanation
Indices: 1008781--1008806 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1008771 GGAGCTATTA
1008781 AATTT AATTT AATTT AATTT AATTT A
1 AATTT AATTT AATTT AATTT AATTT A
1008807 GACTCAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:1009739 original size:21 final size:20
Alignment explanation
Indices: 1009713--1009751 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
1009703 ACAATCCATA
1009713 TCATATTCATATAGTATGCTT
1 TCATATTCATAT-GTATGCTT
1009734 TCATATTCATATGTATGC
1 TCATATTCATATGTATGC
1009752 ACTAAAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.46
Consensus pattern (20 bp):
TCATATTCATATGTATGCTT
Found at i:1010400 original size:13 final size:14
Alignment explanation
Indices: 1010373--1010414 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
1010363 GGTCGAATAC
1010373 TTAAAAAAATC--T
1 TTAAAAAAATCATT
1010385 TT-AAAAAATCATT
1 TTAAAAAAATCATT
1010398 TTAAGAAAAATCATT
1 TTAA-AAAAATCATT
1010413 TT
1 TT
1010415 TTAAGACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 8 0.31
12 2 0.08
13 3 0.12
14 1 0.04
15 12 0.46
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.38
Consensus pattern (14 bp):
TTAAAAAAATCATT
Found at i:1011638 original size:18 final size:17
Alignment explanation
Indices: 1011607--1011642 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
1011597 ACTAAAATCA
1011607 AATATTCATATAATAAT
1 AATATTCATATAATAAT
*
1011624 AATATATCATGTAATAAT
1 AATAT-TCATATAATAAT
1011642 A
1 A
1011643 GGACTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.39
Consensus pattern (17 bp):
AATATTCATATAATAAT
Found at i:1013075 original size:3 final size:3
Alignment explanation
Indices: 1013067--1013130 Score: 112
Period size: 3 Copynumber: 21.7 Consensus size: 3
1013057 TAAACACACT
1013067 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1013115 TAA TAA T-T TAA TAA TA
1 TAA TAA TAA TAA TAA TA
1013131 TTTTTTAACT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 1 0.02
3 57 0.98
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1013497 original size:91 final size:91
Alignment explanation
Indices: 1013389--1013560 Score: 274
Period size: 91 Copynumber: 1.9 Consensus size: 91
1013379 GATAGGTCGA
* *
1013389 ACAAGCTCTTCTCATTATGAACTTCTTCT-TCCTCATTAGATGAGTTCTTCTCATTATGAGCTCT
1 ACAAGCTCTTCTCATTATGAACTTATTCTCT-CTCATTAGATGAGTTCTTCTCATTATGAACTCT
1013453 CCATTGAAAATGTTGATGCGAAGTTGG
65 CCATTGAAAATGTTGATGCGAAGTTGG
* * *
1013480 ACAAGTTCTTCTCATTATGAACTTATTCTCTCTCATTGGATGAGTTCTTCTTATTATGAACTCTC
1 ACAAGCTCTTCTCATTATGAACTTATTCTCTCTCATTAGATGAGTTCTTCTCATTATGAACTCTC
*
1013545 CATTGCAAATGTTGAT
66 CATTGAAAATGTTGAT
1013561 CCATCTCTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
91 73 0.99
92 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (91 bp):
ACAAGCTCTTCTCATTATGAACTTATTCTCTCTCATTAGATGAGTTCTTCTCATTATGAACTCTC
CATTGAAAATGTTGATGCGAAGTTGG
Found at i:1014717 original size:22 final size:22
Alignment explanation
Indices: 1014676--1014720 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
1014666 CATTTTTCTA
*
1014676 TTTTCATTTTTTTATTTCTTTT
1 TTTTCATTTTTTTATATCTTTT
1014698 TTTTCATTTTTTT-TCATCTTTT
1 TTTTCATTTTTTTAT-ATCTTTT
1014720 T
1 T
1014721 ATTTGTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTCATTTTTTTATATCTTTT
Found at i:1027042 original size:18 final size:17
Alignment explanation
Indices: 1027011--1027046 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
1027001 ACTAAAATCA
1027011 AATATTCATATAATAAT
1 AATATTCATATAATAAT
*
1027028 AATATATCATGTAATAAT
1 AATAT-TCATATAATAAT
1027046 A
1 A
1027047 GGACTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.39
Consensus pattern (17 bp):
AATATTCATATAATAAT
Found at i:1029165 original size:17 final size:18
Alignment explanation
Indices: 1029132--1029165 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1029122 CATCATTAAA
*
1029132 TATTTTTTCAATTATCAC
1 TATTTTTTCAATAATCAC
1029150 TATTTTTTCAA-AATCA
1 TATTTTTTCAATAATCA
1029166 TACATAACGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTTTTTCAATAATCAC
Done.