Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007744.1 Hibiscus syriacus cultivar Beakdansim tig00110007_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: 4276731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 16
Found at i:887982 original size:95 final size:95
Alignment explanation
Indices: 887876--888066 Score: 373
Period size: 95 Copynumber: 2.0 Consensus size: 95
887866 TATTCAGAGA
887876 AAAATCATAATTTAATATTTTTGGTTACCAATTCAAAATCAGCTTCAAGCAGTGACATACAGTTA
1 AAAATCATAATTTAATATTTTTGGTTACCAATTCAAAATCAGCTTCAAGCAGTGACATACAGTTA
*
887941 TGTTTCATAAAATAAATTAGATTTTCTAAC
66 TGTTTCATAAAATAAATAAGATTTTCTAAC
887971 AAAATCATAATTTAATATTTTTGGTTACCAATTCAAAATCAGCTTCAAGCAGTGACATACAGTTA
1 AAAATCATAATTTAATATTTTTGGTTACCAATTCAAAATCAGCTTCAAGCAGTGACATACAGTTA
888036 TGTTTCATAAAATAAATAAGATTTTCTAAC
66 TGTTTCATAAAATAAATAAGATTTTCTAAC
888066 A
1 A
888067 CGTTTGATTT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (95 bp):
AAAATCATAATTTAATATTTTTGGTTACCAATTCAAAATCAGCTTCAAGCAGTGACATACAGTTA
TGTTTCATAAAATAAATAAGATTTTCTAAC
Found at i:912556 original size:54 final size:54
Alignment explanation
Indices: 912492--913044 Score: 721
Period size: 54 Copynumber: 10.2 Consensus size: 54
912482 TGTGTACTAA
*
912492 AGGCACTATGTGTGTAATCCACGGAATTCATCATGAGTTGATGAACAACCGTAC
1 AGGCACTATGTGTGCAATCCACGGAATTCATCATGAGTTGATGAACAACCGTAC
* * * *
912546 AGGCACTATGTGTGTAATTCACGGAATTCATCATGAGTTGATAAATAACCGTAC
1 AGGCACTATGTGTGCAATCCACGGAATTCATCATGAGTTGATGAACAACCGTAC
** *
912600 AGGCACTATGTGTGCAATCCACATAATTCATCATGAGTTGATGAACAACTGTAC
1 AGGCACTATGTGTGCAATCCACGGAATTCATCATGAGTTGATGAACAACCGTAC
* * **
912654 AGGCACTATGTGTGCAATCCACGAAATTCATCATGAGTTGATAAATGACCGTAC
1 AGGCACTATGTGTGCAATCCACGGAATTCATCATGAGTTGATGAACAACCGTAC
* *
912708 ATGCACTATGTGTGCAATTCACGGAATTCATCATGAGTTGATGAACAACCGTAC
1 AGGCACTATGTGTGCAATCCACGGAATTCATCATGAGTTGATGAACAACCGTAC
* * * * *
912762 ATGCACTATGTGTGCAATCCACGAAATGCATCATGAGTTGATGAATAACCATAC
1 AGGCACTATGTGTGCAATCCACGGAATTCATCATGAGTTGATGAACAACCGTAC
* * ** * *
912816 ATGCACTATGTGTGCAATTCACAAAATTCATCATGACTTGATGAACAACCATAC
1 AGGCACTATGTGTGCAATCCACGGAATTCATCATGAGTTGATGAACAACCGTAC
*
912870 AGGCACTATGTGTGCAATTCACGGAATTCATCATGAGTTGATGAACAACCGTAC
1 AGGCACTATGTGTGCAATCCACGGAATTCATCATGAGTTGATGAACAACCGTAC
* * * * * * *
912924 ATGCACTATGTGTGGAATCCATGGAATTCATCATGTGTTGAAGAATAACCATAC
1 AGGCACTATGTGTGCAATCCACGGAATTCATCATGAGTTGATGAACAACCGTAC
* * * * * *
912978 AGACACTATTTGTGCAA-CTCACGGGATTCATCATGTGTTGATGAACGACCGTAT
1 AGGCACTATGTGTGCAATC-CACGGAATTCATCATGAGTTGATGAACAACCGTAC
* *
913032 AGGCTCTACGTGT
1 AGGCACTATGTGT
913045 ACATCTTAAT
Statistics
Matches: 438, Mismatches: 60, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
53 1 0.00
54 437 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (54 bp):
AGGCACTATGTGTGCAATCCACGGAATTCATCATGAGTTGATGAACAACCGTAC
Found at i:913405 original size:26 final size:26
Alignment explanation
Indices: 913366--913477 Score: 130
Period size: 26 Copynumber: 4.5 Consensus size: 26
913356 ATGCATTAAG
*
913366 GCATGAAAGAATGCCATAAATGAAAT
1 GCATGAAAGGATGCCATAAATGAAAT
* *
913392 GCATAAAAGGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAAATGAAAT
*
913412 GCATGAAA-GATTGCCATAAATTAAAT
1 GCATGAAAGGA-TGCCATAAATGAAAT
913438 GCATGAAAGGATGCCATAAATGAAAT
1 GCATGAAAGGATGCCATAAATGAAAT
913464 GCATGAAAGGATGC
1 GCATGAAAGGATGC
913478 ATTAAGGCAT
Statistics
Matches: 72, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
19 2 0.03
20 11 0.15
21 3 0.04
22 1 0.01
24 1 0.01
25 3 0.04
26 49 0.68
27 2 0.03
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.21
Consensus pattern (26 bp):
GCATGAAAGGATGCCATAAATGAAAT
Found at i:913418 original size:46 final size:46
Alignment explanation
Indices: 913346--913451 Score: 185
Period size: 46 Copynumber: 2.3 Consensus size: 46
913336 TGTATAATTG
913346 GCATGAAAGGATGCATTAAGGCATGAAAGAATGCCATAAATGAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGAATGCCATAAATGAAAT
* * *
913392 GCATAAAAGGATGCATTAAGGCATGAAAGATTGCCATAAATTAAAT
1 GCATGAAAGGATGCATTAAGGCATGAAAGAATGCCATAAATGAAAT
913438 GCATGAAAGGATGC
1 GCATGAAAGGATGC
913452 CATAAATGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.44, C:0.11, G:0.24, T:0.21
Consensus pattern (46 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGAATGCCATAAATGAAAT
Found at i:913456 original size:72 final size:72
Alignment explanation
Indices: 913366--913513 Score: 253
Period size: 72 Copynumber: 2.1 Consensus size: 72
913356 ATGCATTAAG
913366 GCATGAAAGAATGCCATAAATGAAATGCATAAAAGGATGCATTAAGGCATGAAA-GATTGCCATA
1 GCATGAAAGAATGCCATAAATGAAATGCATAAAAGGATGCATTAAGGCATGAAATGA-TGCCATA
*
913430 AATTAAAT
65 AATGAAAT
* *
913438 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAATGATGCCATAA
1 GCATGAAAGAATGCCATAAATGAAATGCATAAAAGGATGCATTAAGGCATGAAATGATGCCATAA
913503 ATGAAAT
66 ATGAAAT
913510 GCAT
1 GCAT
913514 AATGGTGCAT
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
72 70 0.97
73 2 0.03
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.22
Consensus pattern (72 bp):
GCATGAAAGAATGCCATAAATGAAATGCATAAAAGGATGCATTAAGGCATGAAATGATGCCATAA
ATGAAAT
Found at i:913545 original size:44 final size:46
Alignment explanation
Indices: 913438--913553 Score: 182
Period size: 44 Copynumber: 2.6 Consensus size: 46
913428 TAAATTAAAT
913438 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
* *
913484 GCATGAAATGATGCCATAAATGAAATGCAT-AATGG-TGCATTAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
* *
913528 GCATAAAAGGATACCATAAATGAAAT
1 GCATGAAAGGATGCCATAAATGAAAT
913554 TAATGAATAT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 32 0.49
45 4 0.06
46 29 0.45
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.22
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
Found at i:914184 original size:26 final size:26
Alignment explanation
Indices: 914148--914232 Score: 118
Period size: 26 Copynumber: 3.3 Consensus size: 26
914138 AGGGCACTAA
* *
914148 GTGTA-TATGGTGGGGATGACCTTAT
1 GTGTATTATGGTGGGAATGACATTAT
*
914173 GTGTATTATGGTGGGCATGACATTAT
1 GTGTATTATGGTGGGAATGACATTAT
* *
914199 GTGTATTATGGTGGGAACGATATTAT
1 GTGTATTATGGTGGGAATGACATTAT
914225 GTGTATTA
1 GTGTATTA
914233 GCACGATGGT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 5 0.09
26 49 0.91
ACGTcount: A:0.24, C:0.06, G:0.32, T:0.39
Consensus pattern (26 bp):
GTGTATTATGGTGGGAATGACATTAT
Found at i:922370 original size:163 final size:164
Alignment explanation
Indices: 922082--922412 Score: 639
Period size: 163 Copynumber: 2.0 Consensus size: 164
922072 ACAATTTGCC
922082 AAAGTATTTTTGGGCGGAAGCCACAAATACCGCTTGTTATGTTATTAATCGAGTAATGATTAGGC
1 AAAGTATTTTTGGGCGGAAGCCACAAATACCGCTTGTTATGTTATTAATCGAGTAATGATTAGGC
922147 CTATTTTAAAGAAAACTCCATATGAACTTTTCAAAAATAAAAAGCCTAGCATTAGTTATTTTCAT
66 CTATTTTAAAGAAAACTCCATATGAACTTTTCAAAAATAAAAAGCCTAGCATTAGTTATTTTCAT
922212 CCTTTTGGATGTAAGTGTTTTGTTTAAACAACGGG
131 CCTTTTGGATGTAAGTGTTTT-TTTAAACAACGGG
922247 AAAGTATTTTTGGGCGGAAGCCACAAATA-CGCTTGTTATGTTATTAATCGAGTAATGATTAGGC
1 AAAGTATTTTTGGGCGGAAGCCACAAATACCGCTTGTTATGTTATTAATCGAGTAATGATTAGGC
922311 CTATTTTAAAG-AAACTCCATATGAACTTTTCAAAAATAAAAAGCCTAGCATTAGTTATTTTCAT
66 CTATTTTAAAGAAAACTCCATATGAACTTTTCAAAAATAAAAAGCCTAGCATTAGTTATTTTCAT
922375 CCTTTTGGATGTAAGTGTTTTTTTAAACAACGGG
131 CCTTTTGGATGTAAGTGTTTTTTTAAACAACGGG
922409 AAAG
1 AAAG
922413 ACAATCTTGG
Statistics
Matches: 166, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
162 17 0.10
163 74 0.45
164 46 0.28
165 29 0.17
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.35
Consensus pattern (164 bp):
AAAGTATTTTTGGGCGGAAGCCACAAATACCGCTTGTTATGTTATTAATCGAGTAATGATTAGGC
CTATTTTAAAGAAAACTCCATATGAACTTTTCAAAAATAAAAAGCCTAGCATTAGTTATTTTCAT
CCTTTTGGATGTAAGTGTTTTTTTAAACAACGGG
Found at i:934545 original size:11 final size:11
Alignment explanation
Indices: 934525--934556 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
934515 AAAGTTGGCA
934525 GCAAGTTGGTT
1 GCAAGTTGGTT
934536 GCAAGTTGGTT
1 GCAAGTTGGTT
*
934547 GAAAGTTGGT
1 GCAAGTTGGT
934557 AGTTGAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.22, C:0.06, G:0.38, T:0.34
Consensus pattern (11 bp):
GCAAGTTGGTT
Found at i:935937 original size:17 final size:17
Alignment explanation
Indices: 935915--935949 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
935905 ATTCGACATC
935915 AATATTCCTCCAACAAT
1 AATATTCCTCCAACAAT
935932 AATATTCCTCCAACAAT
1 AATATTCCTCCAACAAT
935949 A
1 A
935950 GGAAACCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (17 bp):
AATATTCCTCCAACAAT
Found at i:935969 original size:66 final size:66
Alignment explanation
Indices: 935887--936018 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
935877 ATTGCATGTG
935887 AACCATATTAATAAATTTATTCGACATCAATATTCCTCCAACAATAATATTCCTCCAACAATAGG
1 AACCATATTAATAAATTTATTCGACATCAATATTCCTCCAACAATAATATTCCTCCAACAATAGG
935952 A
66 A
935953 AACCATATTAATAAATTTATTCGACATCAATATTCCTCCAACAATAATATTCCTCCAACAATAGG
1 AACCATATTAATAAATTTATTCGACATCAATATTCCTCCAACAATAATATTCCTCCAACAATAGG
936018 A
66 A
936019 GAAGAATATA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.30
Consensus pattern (66 bp):
AACCATATTAATAAATTTATTCGACATCAATATTCCTCCAACAATAATATTCCTCCAACAATAGG
A
Found at i:936003 original size:17 final size:17
Alignment explanation
Indices: 935981--936015 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
935971 ATTCGACATC
935981 AATATTCCTCCAACAAT
1 AATATTCCTCCAACAAT
935998 AATATTCCTCCAACAAT
1 AATATTCCTCCAACAAT
936015 A
1 A
936016 GGAGAAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (17 bp):
AATATTCCTCCAACAAT
Found at i:936363 original size:201 final size:201
Alignment explanation
Indices: 936018--936419 Score: 777
Period size: 201 Copynumber: 2.0 Consensus size: 201
936008 CAACAATAGG
936018 AGAAGAATATATATATGATCGGATTGCATATATGATATCTTCATTGGTTGATTTTTGATTGACTT
1 AGAAGAATATATATATGATCGGATTGCATATATGATATCTTCATTGGTTGATTTTTGATTGACTT
936083 TAAATGGCCCTTTCAACCATGTGACTCTGATCCGTAACTCATCTATTTCTTCTTTTAAAGGCACC
66 TAAATGGCCCTTTCAACCATGTGACTCTGATCCGTAACTCATCTATTTCTTCTTTTAAAGGCACC
*
936148 TTCCCCAAATACGCTTGGTAAATTTGTTTTACATCATGATTGTTATGCCCCACCTCTGTTGTACC
131 TTCCCCAAATACGCTTGGTAAATTTGTTCTACATCATGATTGTTATGCCCCACCTCTGTTGTACC
936213 ACTTAT
196 ACTTAT
936219 AGAAGAATATATATATGATCGGATTGCATATATGATATCTTCATTGGTTGATTTTTGATTGACTT
1 AGAAGAATATATATATGATCGGATTGCATATATGATATCTTCATTGGTTGATTTTTGATTGACTT
*
936284 TAAATGGCCCTTTCAACCATGTGACTCTGATCCGTAACTCATCTATTTCTTCTTTTGAAGGCACC
66 TAAATGGCCCTTTCAACCATGTGACTCTGATCCGTAACTCATCTATTTCTTCTTTTAAAGGCACC
*
936349 TTCCCCAAATACGCTTGGTAAATTTGTTCTACATCATGATTGTTATGTCCCACCTCTGTTGTACC
131 TTCCCCAAATACGCTTGGTAAATTTGTTCTACATCATGATTGTTATGCCCCACCTCTGTTGTACC
936414 ACTTAT
196 ACTTAT
936420 TGGGACACCA
Statistics
Matches: 198, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
201 198 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (201 bp):
AGAAGAATATATATATGATCGGATTGCATATATGATATCTTCATTGGTTGATTTTTGATTGACTT
TAAATGGCCCTTTCAACCATGTGACTCTGATCCGTAACTCATCTATTTCTTCTTTTAAAGGCACC
TTCCCCAAATACGCTTGGTAAATTTGTTCTACATCATGATTGTTATGCCCCACCTCTGTTGTACC
ACTTAT
Found at i:944289 original size:22 final size:19
Alignment explanation
Indices: 944245--944295 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 19
944235 AAAATATATA
*
944245 ATATATATAGTTTTTAAAG
1 ATATATATAGTTTTTAAAC
944264 ATATAGTATAGTTTTTGAAAAC
1 ATATA-TATAGTTTTT--AAAC
944286 ATATAATATA
1 ATAT-ATATA
944296 TAGTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 5 0.19
20 10 0.37
22 11 0.41
23 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (19 bp):
ATATATATAGTTTTTAAAC
Found at i:944373 original size:36 final size:38
Alignment explanation
Indices: 944314--944429 Score: 125
Period size: 36 Copynumber: 3.1 Consensus size: 38
944304 TTAAAATGGA
* *
944314 TTTTGAAAACATA--TTTTTAAAAACATATAATATATAG
1 TTTTGAAAACATACGGTTTTGAAAACATAT-ATATATAG
944351 TTTT-AAAA-A-ACGGTTTTGAAAACATATATAATATAG
1 TTTTGAAAACATACGGTTTTGAAAACATATAT-ATATAG
** *
944387 TTTTTGAAAACATATTGTTTTGAAAACATATATGTATAG
1 -TTTTGAAAACATACGGTTTTGAAAACATATATATATAG
944426 TTTT
1 TTTT
944430 TTTTAAATGG
Statistics
Matches: 67, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
34 1 0.01
35 3 0.04
36 23 0.34
37 8 0.12
38 8 0.12
39 6 0.09
40 18 0.27
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.42
Consensus pattern (38 bp):
TTTTGAAAACATACGGTTTTGAAAACATATATATATAG
Found at i:944373 original size:50 final size:52
Alignment explanation
Indices: 944275--944377 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
944265 TATAGTATAG
* ** *
944275 TTTTTGAAAACATATAATATATAGTTTTTTTAAAATGGATTTTGAAAACATA
1 TTTTTAAAAACATATAATATATAGTTTTTAAAAAACGGATTTTGAAAACATA
944327 TTTTTAAAAACATATAATATATAG-TTTTAAAAAACGG-TTTTGAAAACATA
1 TTTTTAAAAACATATAATATATAGTTTTTAAAAAACGGATTTTGAAAACATA
944377 T
1 T
944378 ATAATATAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
50 14 0.30
51 10 0.21
52 23 0.49
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.42
Consensus pattern (52 bp):
TTTTTAAAAACATATAATATATAGTTTTTAAAAAACGGATTTTGAAAACATA
Found at i:944406 original size:17 final size:16
Alignment explanation
Indices: 944381--944418 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
944371 AACATATATA
944381 ATATAGTTTTTGAAAAC
1 ATATAG-TTTTGAAAAC
*
944398 ATATTGTTTTGAAAAC
1 ATATAGTTTTGAAAAC
944414 ATATA
1 ATATA
944419 TGTATAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (16 bp):
ATATAGTTTTGAAAAC
Found at i:946436 original size:35 final size:35
Alignment explanation
Indices: 946397--946482 Score: 172
Period size: 35 Copynumber: 2.5 Consensus size: 35
946387 CTCCCCCTTA
946397 CTTTAACACTTCTCCCATTTATCATTTAAAAACAC
1 CTTTAACACTTCTCCCATTTATCATTTAAAAACAC
946432 CTTTAACACTTCTCCCATTTATCATTTAAAAACAC
1 CTTTAACACTTCTCCCATTTATCATTTAAAAACAC
946467 CTTTAACACTTCTCCC
1 CTTTAACACTTCTCCC
946483 CCTTTTTGTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (35 bp):
CTTTAACACTTCTCCCATTTATCATTTAAAAACAC
Found at i:948768 original size:21 final size:21
Alignment explanation
Indices: 948742--948781 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
948732 CAGAACCCCA
*
948742 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
948763 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
948782 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:948810 original size:20 final size:20
Alignment explanation
Indices: 948764--948825 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
948754 TTCCCCTGTG
948764 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TC-AA
948787 GGGGGAATCGGTTCCCTCAA
1 GGGGGAATCGGTTCCCTCAA
* *
948807 GGGGGGATCGATTCCCTCA
1 GGGGGAATCGGTTCCCTCA
948826 GCTCCAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 19 0.51
21 2 0.05
22 3 0.08
23 13 0.35
ACGTcount: A:0.19, C:0.26, G:0.34, T:0.21
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCTCAA
Found at i:952672 original size:20 final size:20
Alignment explanation
Indices: 952630--952672 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
952620 TTGTTTTCAT
* *
952630 TTTTTAATTTTGAAACATCA
1 TTTTTAATTTTGAAAAATAA
952650 TTTTTATATTTT-AAAAATAA
1 TTTTTA-ATTTTGAAAAATAA
952670 TTT
1 TTT
952673 CTCATAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTAATTTTGAAAAATAA
Found at i:965021 original size:36 final size:36
Alignment explanation
Indices: 964974--965046 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
964964 TAATTTCAAA
964974 AATATATAATATATATAGTTTTTGAAGATATAATAT
1 AATATATAATATATATAGTTTTTGAAGATATAATAT
965010 AATATATAATATATATAGTTTTTGAAGATATAATAT
1 AATATATAATATATATAGTTTTTGAAGATATAATAT
965046 A
1 A
965047 GTCTTTTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (36 bp):
AATATATAATATATATAGTTTTTGAAGATATAATAT
Found at i:965122 original size:39 final size:39
Alignment explanation
Indices: 965037--965237 Score: 195
Period size: 40 Copynumber: 5.3 Consensus size: 39
965027 GTTTTTGAAG
**
965037 ATATAATATAGTCTTTT-AAAAC--GGTTTTTGAAAACAT
1 ATATAATATAGT-TTTTGAAAACATATTTTTTGAAAACAT
*
965074 ATATAATATAGTTTTTGAAAACATATTTTTTGAAAACAG
1 ATATAATATAGTTTTTGAAAACATATTTTTTGAAAACAT
**
965113 ATA-ATATATAG-TTTT-AAAA-A-AAGTTTTGAAAACAT
1 ATATA-ATATAGTTTTTGAAAACATATTTTTTGAAAACAT
965148 ATATAATATAGTTTTTGAAAACATATTATTTTGAAAACAT
1 ATATAATATAGTTTTTGAAAACATATT-TTTTGAAAACAT
* * * ** *
965188 ATAT-GTATAGTTTTTTTTAAAAAATGGTTTTTGAAAACGT
1 ATATAATATAG--TTTTTGAAAACATATTTTTTGAAAACAT
965228 ATATAATATA
1 ATATAATATA
965238 TATAATCTTT
Statistics
Matches: 136, Mismatches: 15, Indels: 22
0.79 0.09 0.13
Matches are distributed among these distances:
35 21 0.15
36 10 0.07
37 25 0.18
38 6 0.04
39 27 0.20
40 31 0.23
41 16 0.12
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (39 bp):
ATATAATATAGTTTTTGAAAACATATTTTTTGAAAACAT
Found at i:965128 original size:74 final size:76
Alignment explanation
Indices: 965035--965260 Score: 271
Period size: 74 Copynumber: 2.9 Consensus size: 76
965025 TAGTTTTTGA
*
965035 AGATATAATATAGTCTTTT-AAAACGGTTTTTGAAAACATATATAATATAGTTTTTGAAAACATA
1 AGATAT-ATATAGT-TTTTAAAAAAGGTTTTTGAAAACATATATAATATAGTTTTTGAAAACATA
965099 TT-TTTTGAAAAC
64 TTATTTTGAAAAC
*
965111 AGATAATATATAG-TTTTAAAAAAAG-TTTTGAAAACATATATAATATAGTTTTTGAAAACATAT
1 AGAT-ATATATAGTTTTTAAAAAAGGTTTTTGAAAACATATATAATATAGTTTTTGAAAACATAT
965174 TATTTTGAAAAC
65 TATTTTGAAAAC
* * * *
965186 ATATATGTATAGTTTTTTTTAAAAAATGGTTTTTGAAAACGTATATAATATATATAATCTTTGAA
1 AGATATATATAG---TTTTTAAAAAA-GGTTTTTGAAAAC--ATAT-ATA-ATATAGTTTTTGAA
965251 AACATATTAT
58 AACATATTAT
965261 ATTGTTTTTT
Statistics
Matches: 130, Mismatches: 7, Indels: 18
0.84 0.05 0.12
Matches are distributed among these distances:
74 50 0.38
75 18 0.14
76 10 0.08
77 2 0.02
78 10 0.08
79 1 0.01
80 10 0.08
82 4 0.03
83 3 0.02
84 22 0.17
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.42
Consensus pattern (76 bp):
AGATATATATAGTTTTTAAAAAAGGTTTTTGAAAACATATATAATATAGTTTTTGAAAACATATT
ATTTTGAAAAC
Found at i:966107 original size:20 final size:20
Alignment explanation
Indices: 966082--966132 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
966072 GATCTACACT
*
966082 ATTTGGGGTTTATTGTGGGG
1 ATTTGGGGCTTATTGTGGGG
* * *
966102 ATTTGGGGCTTGTTTTGTGG
1 ATTTGGGGCTTATTGTGGGG
966122 ATTTGGGGCTT
1 ATTTGGGGCTT
966133 GGGTTTAGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.08, C:0.04, G:0.41, T:0.47
Consensus pattern (20 bp):
ATTTGGGGCTTATTGTGGGG
Found at i:966671 original size:18 final size:18
Alignment explanation
Indices: 966636--966676 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
966626 AATTCTTTCA
*
966636 TTCACTTTTTTATTTTAT
1 TTCACTTTTATATTTTAT
966654 TTCA-TTTTATATTATTAT
1 TTCACTTTTATATT-TTAT
966672 TTCAC
1 TTCAC
966677 ATTAATTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (18 bp):
TTCACTTTTATATTTTAT
Found at i:980879 original size:5 final size:5
Alignment explanation
Indices: 980828--980862 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
980818 AAAGTTTTTT
980828 TAAAA TAAAAA TAAGAA TAAAA TAAAA TAAAA TAA
1 TAAAA T-AAAA TAA-AA TAAAA TAAAA TAAAA TAA
980863 TTAAATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:982372 original size:21 final size:21
Alignment explanation
Indices: 982348--982400 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 21
982338 TTGCAAATAT
982348 AAAATATAAATAATTTATTTA
1 AAAATATAAATAATTTATTTA
* *
982369 AAAA-A-ATAT-A-TTATTTT
1 AAAATATAAATAATTTATTTA
*
982386 AAAATATAGATAATT
1 AAAATATAAATAATT
982401 ATTAATACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
17 10 0.40
18 2 0.08
19 6 0.24
20 2 0.08
21 5 0.20
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
AAAATATAAATAATTTATTTA
Found at i:983148 original size:54 final size:54
Alignment explanation
Indices: 983066--983858 Score: 1094
Period size: 54 Copynumber: 14.7 Consensus size: 54
983056 AAATGGACCA
* * * * *
983066 TTATTATGAATTATGTGGTTTGCACACTTAGTACCGATACAGTCGTTCCTAAAC
1 TTATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAAC
* *
983120 TTATTATGAATTCTGTGGGTTGCACACTTAGTACCGATACGGTTGTTCATAAAC
1 TTATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAAC
* **
983174 TTATTATGAATTCTATGGGTTGCACACTTAGTGTTGATACGGTCGTTCATAAAC
1 TTATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAAC
* * *
983228 TTATTATGAATTCTTTGAGTTGCACACTTAGTACCGATACGGTCGTTCATAAAC
1 TTATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAAC
* * * * * **
983282 TTATTATGAATTTTATGGTTTGCAAACTTAGTGTCGATGTGGTCGTTCATAAAC
1 TTATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAAC
* * **
983336 TTATTATGAATTTTGTGGTTTGCACACTTAGTTTCGATACGGTCGTTCATAAAC
1 TTATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAAC
* *
983390 TTATTATGAATT-TCGTGCGTTGCACACTTAGTGCCGATACGATCGTTCATAAAC
1 TTATTATGAATTCT-GTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAAC
* * *
983444 TTATTATGAATT-TCGTGGGTTGAACACTTAGTGTCGATA-GGTCGCTCATAAAC
1 TTATTATGAATTCT-GTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAAC
* * * *
983497 TTATTATGAATTCTATGGTTTGCACACTTAGTGTCGATACAGTCGTTCATAAAC
1 TTATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAAC
* *
983551 TTATTATGAATTATGTGGTTTGCACACTTAGTGCCGATACGGTCGTTCATAAAC
1 TTATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAAC
* *
983605 TTATTATGAATT-TCATGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAAA
1 TTATTATGAATTCT-GTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAAC
* * *
983659 TTATTATGAATT-TCGTGGGTTACACACTTAGTGTCGATACGATCGTTCATAAAC
1 TTATTATGAATTCT-GTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAAC
* * * *
983713 TTATTATGAATTCTGTGGTTTGCCCACTTAGTGTCGATACGGTCCTTCATAAAC
1 TTATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAAC
*
983767 TTATTATGAATTC-GTGGGTTGCACACTTACTGCCGATACGGTCGTTCATAAAC
1 TTATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAAC
*
983820 TTATTATGAATTCTGTGGGTTGTACACTTAGTGCCGATA
1 TTATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATA
983859 ATACACATAG
Statistics
Matches: 665, Mismatches: 68, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
53 96 0.14
54 568 0.85
55 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (54 bp):
TTATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAAC
Found at i:987820 original size:16 final size:17
Alignment explanation
Indices: 987788--987824 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
987778 TATGTGAAAT
987788 GTGTCATAGATATTAAA
1 GTGTCATAGATATTAAA
*
987805 GTGTCATGGA-ATTAAA
1 GTGTCATAGATATTAAA
987821 GTGT
1 GTGT
987825 AGATACCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (17 bp):
GTGTCATAGATATTAAA
Found at i:992391 original size:30 final size:30
Alignment explanation
Indices: 992355--992413 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
992345 GTAGCAGTAT
992355 TGTAGCAGTGACTGTAGCGTATCAATGCAC
1 TGTAGCAGTGACTGTAGCGTATCAATGCAC
* * *
992385 TGTAGCAGTTACTGTAGTGTATCGATGCA
1 TGTAGCAGTGACTGTAGCGTATCAATGCA
992414 TAATATTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (30 bp):
TGTAGCAGTGACTGTAGCGTATCAATGCAC
Found at i:993061 original size:16 final size:16
Alignment explanation
Indices: 993036--993073 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
993026 TCGTTGCTCA
*
993036 TTAAGCTCATTACTCG
1 TTAAGATCATTACTCG
*
993052 TTAAGATCATTGCTCG
1 TTAAGATCATTACTCG
993068 TTAAGA
1 TTAAGA
993074 ACGTCGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (16 bp):
TTAAGATCATTACTCG
Found at i:993204 original size:8 final size:8
Alignment explanation
Indices: 993191--993247 Score: 51
Period size: 8 Copynumber: 6.8 Consensus size: 8
993181 GTCGTAAAAT
993191 ATAAATTA
1 ATAAATTA
*
993199 ATAAATAA
1 ATAAATTA
993207 ATTTATAATTA
1 A--TA-AATTA
*
993218 ATATATTA
1 ATAAATTA
*
993226 ATACATTA
1 ATAAATTA
*
993234 ATAAACTA
1 ATAAATTA
993242 ATAAAT
1 ATAAAT
993248 ATCAAAAGAG
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
8 30 0.77
9 2 0.05
10 2 0.05
11 5 0.13
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (8 bp):
ATAAATTA
Found at i:996522 original size:21 final size:20
Alignment explanation
Indices: 996488--996534 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
996478 TAAACTGGAA
996488 ATAAATAGTACAA-TAACATT
1 ATAAATAGTACAATTAA-ATT
*
996508 ATAAATATTTACAATTAAATT
1 ATAAATA-GTACAATTAAATT
996529 -TAAATA
1 ATAAATA
996535 AAAACTCGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 13 0.54
21 8 0.33
22 3 0.12
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (20 bp):
ATAAATAGTACAATTAAATT
Found at i:998283 original size:28 final size:28
Alignment explanation
Indices: 998235--998288 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
998225 AACGTACCTT
* *
998235 AAAAATATAATTATTAAAAAATTAAAGA
1 AAAAATATAATTAATAAAAAAATAAAGA
*
998263 AAAAATAT-ATATAATATAAAAATAAA
1 AAAAATATAAT-TAATAAAAAAATAAA
998289 TAAATATTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 2 0.09
28 20 0.91
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (28 bp):
AAAAATATAATTAATAAAAAAATAAAGA
Found at i:1008038 original size:2 final size:2
Alignment explanation
Indices: 1008031--1008073 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1008021 TAAACGTTAT
1008031 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1008073 T
1 T
1008074 GTATTTGAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1010579 original size:145 final size:144
Alignment explanation
Indices: 1010030--1010871 Score: 732
Period size: 143 Copynumber: 6.0 Consensus size: 144
1010020 TACGTGTTCG
* * * *
1010030 ATACTAGTTATGACAGTATCGATACTCTTT-TTCCAGTATGCTTTCTCAAACAATTTGCATG-AA
1 ATACTTGTTATGCCCGTGTCGATACT-TTTATTCCAGTATGC-TTCTCAAACAATTTGCATGAAA
* ** * * * * * * * * *
1010093 TTGTATCGATACTTATAGATCAAGTATCGATATTTCTTATTTCGAAACAACATTTACAATATCTG
64 ATGTATCGATACACATATATAAAGTATCGATATATATAATTTCAAAACAAAATATGCAATATCTG
*
1010158 AAATGTCAAAGTATCG
129 AAATGTCAAAGTATCA
* *** * * * *
1010174 ATACTAGTTATGATTGTATCGATACTTTTATTCCACTATGCTTCTCATACAATTTGCATTCAAAA
1 ATACTTGTTATGCCCGTGTCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCA-TGAAAA
* * * * * * *
1010239 TGAATCGATACACATATATAAAATATCG--GTATATAATATCAAAACAAGATATGAAATATCTTA
65 TGTATCGATACACATATATAAAGTATCGATATATATAATTTCAAAACAAAATATGCAATATCTGA
*
1010302 AATATCAAAGTATCA
130 AATGTCAAAGTATCA
* * * * * * *
1010317 ATACTTGTTATGCTCATGTTGAT-TTTTTTTTTCAGTATGCTTCTCAAACAATTTGCATGAAACT
1 ATACTTGTTATGCCCGTGTCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCATGAAAAT
* * *
1010381 GTATCGATACACGTATATAAAGTATCAATATATATAATTTCAAAACAAGATATGCAATATCTGAA
66 GTATCGATACACATATATAAAGTATCGATATATATAATTTCAAAACAAAATATGCAATATCTGAA
*
1010446 ATGTAAAAGTATCA
131 ATGTCAAAGTATCA
* *
1010460 ATACTTGTTATGCCCGTGTCTATACTTTTATTCCAGTATGCTTCTCAAACAATTTTCATGCAAAA
1 ATACTTGTTATGCCCGTGTCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCATG-AAAA
* * * * *
1010525 TGTATCAATACACATATATAAAGTATCGATACATATAATTTTAAAACAATATATGTAATATCTGA
65 TGTATCGATACACATATATAAAGTATCGATATATATAATTTCAAAACAAAATATGCAATATCTGA
*
1010590 AATGTCCAAGTATCA
130 AATGTCAAAGTATCA
* * * * *
1010605 A-ACTTTTTATACCCGTATCGATATTTTTATTCC---A-----CT---ATAATTTGCATGAAAAT
1 ATACTTGTTATGCCCGTGTCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCATGAAAAT
* * ** * * *
1010658 GTATCGATACAC--ATATAAAGTAGCGATATTTATAATTTTGAAACAAAATATGGAATACCGTCA
66 GTATCGATACACATATATAAAGTATCGATATATATAATTTCAAAACAAAATATGCAATATC-TGA
* *
1010721 ACA--TCAAAATATCG
130 A-ATGTCAAAGTATCA
* * * * *
1010735 ATACTTG---T--CC-TGACAAATA-TTTTTTTCCAGTATACTTGTCAAACAATTTGCATGAAAA
1 ATACTTGTTATGCCCGTGTC-GATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCATGAAAA
* * * * * *
1010793 TGTATCAATACACATATATAAAGTATCAATATTTATAACTTCAAAACAAAATATACAATATCTAA
65 TGTATCGATACACATATATAAAGTATCGATATATATAATTTCAAAACAAAATATGCAATATCTGA
1010858 AATGTCAAAGTATC
130 AATGTCAAAGTATC
1010872 CATATTTCTT
Statistics
Matches: 569, Mismatches: 103, Indels: 58
0.78 0.14 0.08
Matches are distributed among these distances:
125 10 0.02
126 5 0.01
128 2 0.00
130 49 0.09
131 7 0.01
132 17 0.03
133 11 0.02
136 30 0.05
137 3 0.01
138 48 0.08
141 29 0.05
142 29 0.05
143 136 0.24
144 94 0.17
145 99 0.17
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (144 bp):
ATACTTGTTATGCCCGTGTCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCATGAAAAT
GTATCGATACACATATATAAAGTATCGATATATATAATTTCAAAACAAAATATGCAATATCTGAA
ATGTCAAAGTATCA
Found at i:1011386 original size:231 final size:231
Alignment explanation
Indices: 1010998--1011450 Score: 576
Period size: 231 Copynumber: 2.0 Consensus size: 231
1010988 ATGGAAATGG
* * *
1010998 TAAAATAATTACAACTTAACCGGTTAAAAAACAATAGCCGCAACCTGTTACGTTAAAGTTTCTAC
1 TAAAATAAGTACAACTTAACCGGTTAAAAAACAATAGCCACAACCTGTTACGTTAAAATTTCTAC
* *
1011063 CGGTATAAGAAAAATGTAAACGGTCAAATATTTTCAACCTAACCAGTATAATCATAATGTAAATG
66 CAGTATAAGAAAAATGTAAACGGTCAAATATTTTCAACCTAACCAGTATAATCATAATGTAAACG
* * * * * *
1011128 GTATAATATTGACAACCTTATCGGTTAAAACAA-TT-CGAGCACAATCTATTACTTTAAACTTCT
131 GTACAATACTGACAACCTAACCGGTTAAAACAATTTACGAG--CAACCTATTACTTTAAACTTCC
*
1011191 TACCGGTTTGTTTATAGTTATATTAATAATGCGCACAA
194 TACCGGTTTGTTTATAGGTATATTAATAATGCGCACAA
* * *
1011229 TAAAATACGTACAACTTAACCTGTTAAAAAACAATATG-CACAACCTGTTATGTTAAAATTTCTA
1 TAAAATAAGTACAACTTAACCGGTTAAAAAACAATA-GCCACAACCTGTTACGTTAAAATTTCTA
* * * * * *
1011293 TCAGTTTAATG-ATAATGTAGATGGT--AATATTGTTTCAACCTAGCCAGTATAATCATAATGTA
65 CCAGTATAA-GAAAAATGTAAACGGTCAAATA-T-TTTCAACCTAACCAGTATAATCATAATGTA
* * ** *
1011355 AACGGTACAATACTGACGATCTAACCGGTTAAAGTAATTTACGTGCAACCTATTACTTTAAACTT
127 AACGGTACAATACTGACAACCTAACCGGTTAAAACAATTTACGAGCAACCTATTACTTTAAACTT
1011420 CCTACCGGTTTGTTTATAGGTATATTAATAA
192 CCTACCGGTTTGTTTATAGGTATATTAATAA
1011451 GGTCAACCGT
Statistics
Matches: 190, Mismatches: 26, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
229 4 0.02
230 1 0.01
231 178 0.94
232 4 0.02
233 3 0.02
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (231 bp):
TAAAATAAGTACAACTTAACCGGTTAAAAAACAATAGCCACAACCTGTTACGTTAAAATTTCTAC
CAGTATAAGAAAAATGTAAACGGTCAAATATTTTCAACCTAACCAGTATAATCATAATGTAAACG
GTACAATACTGACAACCTAACCGGTTAAAACAATTTACGAGCAACCTATTACTTTAAACTTCCTA
CCGGTTTGTTTATAGGTATATTAATAATGCGCACAA
Found at i:1012212 original size:83 final size:84
Alignment explanation
Indices: 1012071--1012240 Score: 288
Period size: 83 Copynumber: 2.0 Consensus size: 84
1012061 ATACTTTCAC
*
1012071 TAAAAGTATCGATACTTGAACATTCAACAAAATGGATGGTGTGTTTTGAAATTGTAAATATTAAT
1 TAAAAGTATCGATACTTGAACATTCAACAAAATGGATGGTGTGTTTTGAAATTATAAATATTAAT
1012136 ACTTCATATA-TGTATCGA
66 ACTTCATATAGTGTATCGA
* *
1012154 TAAAAGTATCGATTCTTGAACATTCAACAAAATGGATGGTGTGTTTTGAAATTATAAATATTGAT
1 TAAAAGTATCGATACTTGAACATTCAACAAAATGGATGGTGTGTTTTGAAATTATAAATATTAAT
*
1012219 ACTTTATATATGTGTATCGA
66 ACTTCATATA-GTGTATCGA
1012239 TA
1 TA
1012241 CGTTTTCATG
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
83 71 0.88
85 10 0.12
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (84 bp):
TAAAAGTATCGATACTTGAACATTCAACAAAATGGATGGTGTGTTTTGAAATTATAAATATTAAT
ACTTCATATAGTGTATCGA
Found at i:1012970 original size:98 final size:99
Alignment explanation
Indices: 1012756--1012980 Score: 283
Period size: 98 Copynumber: 2.3 Consensus size: 99
1012746 GTTAGGTTGC
* * *
1012756 AAATATTTTACCGTTTACATTATTATTAACCCTATACACAAATTGGTAGCAATTTTAAAGTAATA
1 AAATATTTTACCGTTTACATTATTATTAACCCTATACACAAACTGGAAGCAAGTTTAAAGTAATA
* * * ** **
1012821 GATTGCCCCTATTTTTTTTAAATAGTTAGTTTGT
66 GATTGCCCCTAATTGTTTTAAACAGTTAGCATCA
* *
1012855 AAATATTTTACCTTTTACATTATTATTAACCCTATA-A-AAACTGGAAGCAGGTTTAAAGTAATA
1 AAATATTTTACCGTTTACATTATTATTAACCCTATACACAAACTGGAAGCAAGTTTAAAGTAATA
* ** *
1012918 GGTTGTGCCTAAATTGTTTTAACCAGTTAGCATCA
66 GATTGCCCCT-AATTGTTTTAAACAGTTAGCATCA
1012953 AAATATTTTACCGTTTACATTATTATTA
1 AAATATTTTACCGTTTACATTATTATTA
1012981 TACCGGTATA
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
97 29 0.27
98 44 0.41
99 35 0.32
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (99 bp):
AAATATTTTACCGTTTACATTATTATTAACCCTATACACAAACTGGAAGCAAGTTTAAAGTAATA
GATTGCCCCTAATTGTTTTAAACAGTTAGCATCA
Found at i:1013426 original size:18 final size:17
Alignment explanation
Indices: 1013403--1013445 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
1013393 TGAGACGCAG
1013403 TTCTTCTAACGCAAAATC
1 TTCTTCTAAC-CAAAATC
**
1013421 TTCTTCCTAACCAATGTC
1 TTCTT-CTAACCAAAATC
1013439 TTCTTCT
1 TTCTTCT
1013446 CAAGTAAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 15 0.68
19 5 0.23
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42
Consensus pattern (17 bp):
TTCTTCTAACCAAAATC
Found at i:1013771 original size:2 final size:2
Alignment explanation
Indices: 1013764--1013793 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1013754 ACGGGGAAGG
1013764 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
1013794 CTTCGAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1018326 original size:20 final size:19
Alignment explanation
Indices: 1018275--1018326 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
1018265 TTTATGGATT
1018275 TTTTTTAAA-TATCAATAC
1 TTTTTTAAAGTATCAATAC
*
1018293 TGGTTATTAAAGTATCAATAC
1 T--TTTTTAAAGTATCAATAC
1018314 TTTTTTGAAAGTA
1 TTTTTT-AAAGTA
1018327 AGCTATGTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 1 0.04
19 4 0.14
20 13 0.46
21 10 0.36
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.46
Consensus pattern (19 bp):
TTTTTTAAAGTATCAATAC
Found at i:1018567 original size:100 final size:100
Alignment explanation
Indices: 1018388--1018678 Score: 379
Period size: 103 Copynumber: 2.9 Consensus size: 100
1018378 ATCGATACCT
* * *
1018388 ATATTTATAACTTAACCGGTTAAAATAAAATAGGCGCTACATATTATGTTAAAATAGCTA-TCGA
1 ATATTTACAACTTAACCGGTTAAAATAAAATAGGCGCTACCTATTATGTTAAACTAGCTACT-GA
* * *
1018452 TTTGTTTAAAAGTATAATATTAATGTAAATGGTCAA
65 TTTGTTTAAAGGTATAATATTAATGTAAAGGGTAAA
* * * *
1018488 ATATTTACAAATTAACCTGTTAAAATAAAATTGGCGCCTACCTATTACGTTAAACTAGCTACTGA
1 ATATTTACAACTTAACCGGTTAAAATAAAATAGGCG-CTACCTATTATGTTAAACTAGCTACTGA
1018553 TTTGTTT-AAGGTATAATAATAATAATGTAAAGGGTAAA
65 TTTGTTTAAAGGTATAAT-AT--TAATGTAAAGGGTAAA
* * * * * *
1018591 ATATTTACAACTTAACCGGTTAAAATAAAATAAGCACTATCTATTATGTTAAACTACCTACCGGT
1 ATATTTACAACTTAACCGGTTAAAATAAAATAGGCGCTACCTATTATGTTAAACTAGCTACTGAT
1018656 TTGTTTAAAGGTATAATATTAAT
66 TTGTTTAAAGGTATAATATTAAT
1018679 ATTGTTGAAC
Statistics
Matches: 165, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
100 45 0.27
101 32 0.19
102 33 0.20
103 55 0.33
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.35
Consensus pattern (100 bp):
ATATTTACAACTTAACCGGTTAAAATAAAATAGGCGCTACCTATTATGTTAAACTAGCTACTGAT
TTGTTTAAAGGTATAATATTAATGTAAAGGGTAAA
Found at i:1020717 original size:18 final size:18
Alignment explanation
Indices: 1020694--1020741 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
1020684 CAGCTTGGAG
1020694 TGATGAAGATGACTGCAA
1 TGATGAAGATGACTGCAA
1020712 TGATGAAGATGACTGCAA
1 TGATGAAGATGACTGCAA
1020730 TGATGAAGATGA
1 TGATGAAGATGA
1020742 AGTAGCCAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.40, C:0.08, G:0.29, T:0.23
Consensus pattern (18 bp):
TGATGAAGATGACTGCAA
Found at i:1022270 original size:20 final size:20
Alignment explanation
Indices: 1022245--1022312 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
1022235 TGACAAGCAA
*
1022245 TATCGATATTGTTCTTGCAG
1 TATCGATATTGTTCTTACAG
1022265 TATCGATATTGTTCTTACAG
1 TATCGATATTGTTCTTACAG
*
1022285 TATCAATATTGTTCTTACAG
1 TATCGATATTGTTCTTACAG
1022305 TATCGATA
1 TATCGATA
1022313 CCTCGTTAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
TATCGATATTGTTCTTACAG
Found at i:1022334 original size:40 final size:42
Alignment explanation
Indices: 1022242--1022354 Score: 126
Period size: 40 Copynumber: 2.8 Consensus size: 42
1022232 TTTTGACAAG
* * *
1022242 CAATATCGATATTGTTCTTGCAGTATCGATA--TTGTTCTTA
1 CAATATCGATATTGTTCTTACAGTATCGATACCTCGTTCTAA
* *
1022282 CAGTATCAATATTGTTCTTACAGTATCGATACCTCG-T-TAA
1 CAATATCGATATTGTTCTTACAGTATCGATACCTCGTTCTAA
* **
1022322 CAATATCGATATTGTTCATATGGTATCGATACC
1 CAATATCGATATTGTTCTTACAGTATCGATACC
1022355 AAAGGTAAGG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
40 58 0.95
41 1 0.02
42 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (42 bp):
CAATATCGATATTGTTCTTACAGTATCGATACCTCGTTCTAA
Found at i:1023272 original size:100 final size:100
Alignment explanation
Indices: 1023152--1023345 Score: 262
Period size: 100 Copynumber: 1.9 Consensus size: 100
1023142 GTTCCTAACA
* * *
1023152 AATGTAAACAGTAAAATATTTACAACTTAACCAGTTAAAATAAAATAGGCGCTACCTAATATGTT
1 AATGTAAACAGTAAAATATTTACAACATAACCAGTTAAAATAAAATAAGCGCTACCTAATACGTT
*
1023217 AAACTACCTACCGGTTTGTTTATAGGTATAATATT
66 AAACTACCTACCGGTTTGTTTAAAGGTATAATATT
** ** ** * *
1023252 AATGTAAATGGTAAAATATTTACAACATAACTGGTTAAAATAAAATAAGTTCTACTTATTACGTT
1 AATGTAAACAGTAAAATATTTACAACATAACCAGTTAAAATAAAATAAGCGCTACCTAATACGTT
**
1023317 AAACTACCTATTGGTTTGTTTAAAGGTAT
66 AAACTACCTACCGGTTTGTTTAAAGGTAT
1023346 TTTTTTATTA
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (100 bp):
AATGTAAACAGTAAAATATTTACAACATAACCAGTTAAAATAAAATAAGCGCTACCTAATACGTT
AAACTACCTACCGGTTTGTTTAAAGGTATAATATT
Found at i:1023628 original size:25 final size:25
Alignment explanation
Indices: 1023598--1023645 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
1023588 TATGGAGTAA
*
1023598 TCAACCAACAACTCATCGAAAAATC
1 TCAACCAACAACTCATCAAAAAATC
1023623 TCAACCAACAACTCATCAAAAAA
1 TCAACCAACAACTCATCAAAAAA
1023646 ACTTGAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.52, C:0.31, G:0.02, T:0.15
Consensus pattern (25 bp):
TCAACCAACAACTCATCAAAAAATC
Found at i:1024936 original size:100 final size:99
Alignment explanation
Indices: 1024555--1024938 Score: 499
Period size: 100 Copynumber: 3.8 Consensus size: 99
1024545 TTAGTTAACA
* *
1024555 TTAAAATAAAATAAGTGCTACCTATTACGTTAAACTAGCTA-CGAGTTTGTTTAAAGGTGTAATA
1 TTAAAATAAAATAAGTGCTACCTATTACGTTAAACTACCTACCG-GTTTGTTTAAAGGTATAATA
*
1024619 TCAATGTAAATGATAAACTATTTACAACTTAATCGG
65 TCAATGTAAATGATAAAATATTTACAACTTAA-CGG
*
1024655 TTAAAATAAAATAAGTGCTACCCATTACGTTAAACTACCTACCGGTTTGTTTAAAGGTATAATAT
1 TTAAAATAAAATAAGTGCTACCTATTACGTTAAACTACCTACCGGTTTGTTTAAAGGTATAATAT
* * *
1024720 CAATATAAATGGTAAACTATTTACAACTTAACCGG
66 CAATGTAAATGATAAAATATTTACAACTTAA-CGG
* *
1024755 TTAAAATAAAAT-AGATGCTACCTCTTACGTTAAACTACCTACCGATTTGTTTAAAGGTATAATA
1 TTAAAATAAAATAAG-TGCTACCTATTACGTTAAACTACCTACCGGTTTGTTTAAAGGTATAATA
* * *
1024819 TTAATAG-AAACGATAAAATATTTACAACTTAACATG
65 TCAAT-GTAAATGATAAAATATTTACAACTTAAC-GG
* * * ** *
1024855 TTAAAATAAAATAGGTGCCACCTATTACGTTAAGCTAGTTACCGGTTTGTTTAAAGGTATATTAA
1 TTAAAATAAAATAAGTGCTACCTATTACGTTAAACTACCTACCGGTTTGTTTAAAGGTATAAT-A
1024920 T-AATGTAAAT-AGTAAAATA
65 TCAATGTAAATGA-TAAAATA
1024939 AAATATACGC
Statistics
Matches: 252, Mismatches: 24, Indels: 16
0.86 0.08 0.05
Matches are distributed among these distances:
99 5 0.02
100 242 0.96
101 5 0.02
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (99 bp):
TTAAAATAAAATAAGTGCTACCTATTACGTTAAACTACCTACCGGTTTGTTTAAAGGTATAATAT
CAATGTAAATGATAAAATATTTACAACTTAACGG
Found at i:1024987 original size:76 final size:76
Alignment explanation
Indices: 1024856--1025014 Score: 210
Period size: 76 Copynumber: 2.1 Consensus size: 76
1024846 CTTAACATGT
** * ** * * *
1024856 TAAAATAAAATAGGTGCCACCTATTACGTTAAGCTAGTTACCGGTTTGTTTAAAGGTATATTAAT
1 TAAAATAAAATAGACGCCACCTATTACGTTAAACTACCTACCGATTTGTTAAAAGGTATAATAAT
1024921 AATGTAAATAG
66 AATGTAAATAG
* * *
1024932 TAAAATAAAATATACGCTACCTATTACGTTAAACTACCTACCGATTTGTTAAAAGGTGTAATAAT
1 TAAAATAAAATAGACGCCACCTATTACGTTAAACTACCTACCGATTTGTTAAAAGGTATAATAAT
*
1024997 AATGTAAATGG
66 AATGTAAATAG
1025008 TAAAATA
1 TAAAATA
1025015 TTTACAACTT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (76 bp):
TAAAATAAAATAGACGCCACCTATTACGTTAAACTACCTACCGATTTGTTAAAAGGTATAATAAT
AATGTAAATAG
Found at i:1025597 original size:13 final size:13
Alignment explanation
Indices: 1025579--1025633 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
1025569 GTTTTTGAAA
1025579 AAAATAGAAAAAT
1 AAAATAGAAAAAT
*
1025592 AAAATAGAGAAA-
1 AAAATAGAAAAAT
1025604 AAAAT---AAAAT
1 AAAATAGAAAAAT
*
1025614 AAAATTGAAAAAT
1 AAAATAGAAAAAT
1025627 AAGAATA
1 AA-AATA
1025634 AGGATGAGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
9 3 0.09
10 5 0.15
12 5 0.15
13 18 0.53
14 3 0.09
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (13 bp):
AAAATAGAAAAAT
Found at i:1026633 original size:12 final size:12
Alignment explanation
Indices: 1026616--1026646 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1026606 GTAAATATGT
*
1026616 TATTATTATTAG
1 TATTATTATTAC
1026628 TATTATTATTAC
1 TATTATTATTAC
1026640 TATTATT
1 TATTATT
1026647 TTTATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:1028636 original size:105 final size:107
Alignment explanation
Indices: 1028450--1028811 Score: 383
Period size: 108 Copynumber: 3.4 Consensus size: 107
1028440 GTTAATATTT
* * * * * * * * *
1028450 ATATTTATAACAAAATAAGTATATAAACGTATTTTGTTGTCATGGGATTTCGATGGCCACATCAG
1 ATATTAATAACAAAATAAGTA-ATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCAG
* * *
1028515 CTTCAAA-TTTGGTAACATTTTAGGCGCTATCTAATATG-T-TA
65 -TTTAAACTTTGATAACATTTTAGGCGCTACCTAATATGTTATA
*
1028556 ATATTAATAACAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCGA-CAG
1 ATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCC-ATCAG
*
1028620 TTTAAACTTTGATAACATTTTATGCGCTACCTAATATGTTGATA
65 TTTAAACTTTGATAACATTTTAGGCGCTACCTAATATGTT-ATA
* * * * ** ** **
1028664 ATATTAATAAAAAAACAAATAATTAACCTATTTTATTATCGTCAAATTTCTAAGGTTCCATCAAC
1 ATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCAGT
* *
1028729 TTAAACTTT-AGTAACATTTTAGTCACTACCTAATATGTTGATA
66 TTAAACTTTGA-TAACATTTTAGGCGCTACCTAATATGTT-ATA
* *
1028772 ATATTAATAACAAATTAAGTAATTCACCTATTTTGTTATC
1 ATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATC
1028812 ATTTAATTTC
Statistics
Matches: 215, Mismatches: 34, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
104 5 0.02
105 61 0.28
106 21 0.10
107 2 0.01
108 126 0.59
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (107 bp):
ATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGGCCCCATCAGT
TTAAACTTTGATAACATTTTAGGCGCTACCTAATATGTTATA
Found at i:1029173 original size:3 final size:3
Alignment explanation
Indices: 1029158--1029223 Score: 123
Period size: 3 Copynumber: 22.0 Consensus size: 3
1029148 TGTAGTACAA
*
1029158 AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1029206 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
1029224 GAGAGGAGGC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1037493 original size:10 final size:10
Alignment explanation
Indices: 1037480--1037515 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
1037470 TAAAATTGGA
*
1037480 GGTTTTTTCT
1 GGTTTTTTCC
*
1037490 GGTTTTTCCC
1 GGTTTTTTCC
1037500 GGTTTTTTCC
1 GGTTTTTTCC
1037510 GGTTTT
1 GGTTTT
1037516 CAGCCGGTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.22, T:0.61
Consensus pattern (10 bp):
GGTTTTTTCC
Found at i:1037874 original size:41 final size:42
Alignment explanation
Indices: 1037805--1037940 Score: 195
Period size: 41 Copynumber: 3.3 Consensus size: 42
1037795 TATTGCAGTG
* * * *
1037805 TTTGTATAAAAACGCCACTAAAGTACTACTTTGTCATGGCGT
1 TTTGTATAAAAACACCGCTAAAGTACTACTCTGTCGTGGCGT
*
1037847 TTTGTATAAAAA-ACCGCTAAAGTACTACTCTGTCGTGACG-
1 TTTGTATAAAAACACCGCTAAAGTACTACTCTGTCGTGGCGT
* *
1037887 TTTGTATAAAAACACCGCTAAAATACTACTCTATCGTGGCGT
1 TTTGTATAAAAACACCGCTAAAGTACTACTCTGTCGTGGCGT
1037929 TTTGTATAAAAA
1 TTTGTATAAAAA
1037941 TATCGTTAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
40 12 0.14
41 48 0.57
42 24 0.29
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (42 bp):
TTTGTATAAAAACACCGCTAAAGTACTACTCTGTCGTGGCGT
Found at i:1041788 original size:95 final size:95
Alignment explanation
Indices: 1041662--1041839 Score: 259
Period size: 95 Copynumber: 1.9 Consensus size: 95
1041652 ATACCGAAGA
* *
1041662 GGTAGTATCGATACCATGATAAGGGTATCGATACCAAGCAACATCGAATCTAAAATGGGTATCGT
1 GGTAGTATCGATACCATGATAAGGGTATCGATACCAAGCAACATCGAACCTAAAATGGGTATCGA
**
1041727 TACTGGAAGGGGGTATCGGTACCATAGTAT
66 TACCAGAAGGGGGTATCGGTACCATAGTAT
* * * *
1041757 GGTAGTATTGATACCATTG-TAAGGGTATCGATACTAGGCAACATCGAACCTAAAATTGGTATCG
1 GGTAGTATCGATACCA-TGATAAGGGTATCGATACCAAGCAACATCGAACCTAAAATGGGTATCG
*
1041821 ATACCAGAATGGGGTATCG
65 ATACCAGAAGGGGGTATCG
1041840 ATGCCATAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 71 0.97
96 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (95 bp):
GGTAGTATCGATACCATGATAAGGGTATCGATACCAAGCAACATCGAACCTAAAATGGGTATCGA
TACCAGAAGGGGGTATCGGTACCATAGTAT
Found at i:1041789 original size:20 final size:20
Alignment explanation
Indices: 1041737--1041790 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 20
1041727 TACTGGAAGG
* *
1041737 GGGTATCGGTACCATAGTAT
1 GGGTATCGATACCATAGTAA
* *
1041757 GGTAGTATTGATACCATTGTAA
1 GG--GTATCGATACCATAGTAA
1041779 GGGTATCGATAC
1 GGGTATCGATAC
1041791 TAGGCAACAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 11 0.41
22 16 0.59
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (20 bp):
GGGTATCGATACCATAGTAA
Found at i:1041847 original size:95 final size:95
Alignment explanation
Indices: 1041647--1041865 Score: 257
Period size: 95 Copynumber: 2.3 Consensus size: 95
1041637 ATTCAATCAA
1041647 TATCGATACCGA-AG-A-GGTAGTATCGATACCATGATAAGGGTATCGATACCAAGCAACATCGA
1 TATCGATACC-ATAGTATGGTAGTATCGATACCATGATAAGGGTATCGATACCAAGCAACATCGA
* * **
1041709 ATCTAAAATGGGTATCGTTACTGGAAGGGGG
65 ACCTAAAATGGGTATCGATACCAGAAGGGGG
* * * *
1041740 TATCGGTACCATAGTATGGTAGTATTGATACCATTG-TAAGGGTATCGATACTAGGCAACATCGA
1 TATCGATACCATAGTATGGTAGTATCGATACCA-TGATAAGGGTATCGATACCAAGCAACATCGA
* *
1041804 ACCTAAAATTGGTATCGATACCAGAATGGGG
65 ACCTAAAATGGGTATCGATACCAGAAGGGGG
* * ***
1041835 TATCGATGCCATAATATAAAAGTATCGATAC
1 TATCGATACCATAGTATGGTAGTATCGATAC
1041866 TAGGTAGTAA
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
92 1 0.01
93 11 0.10
94 1 0.01
95 90 0.86
96 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.26
Consensus pattern (95 bp):
TATCGATACCATAGTATGGTAGTATCGATACCATGATAAGGGTATCGATACCAAGCAACATCGAA
CCTAAAATGGGTATCGATACCAGAAGGGGG
Found at i:1042281 original size:59 final size:59
Alignment explanation
Indices: 1042215--1042645 Score: 709
Period size: 59 Copynumber: 7.3 Consensus size: 59
1042205 ATGGCACTAA
* *
1042215 GTGTGCTAAAATGTTAAGGAATTCATACTAAGAGTATGAATTTCCGTATAGGGCACTTA
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* *
1042274 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTT
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* *
1042333 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAGGGCAGTTC
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
*
1042392 GTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* * ** *
1042451 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAAGTTACTTT
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* * * *
1042510 GTGTGCTAAAATGTTAAGGAATTCACACTAAGTGTATGAATTTTCGTAAAGGGCAATTC
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
1042569 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
1 GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
*
1042628 GTGTGCAAAAATGTTAAG
1 GTGTGCTAAAATGTTAAG
1042646 AAATGGTTGA
Statistics
Matches: 344, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 344 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (59 bp):
GTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
Found at i:1042993 original size:59 final size:59
Alignment explanation
Indices: 1042919--1043223 Score: 423
Period size: 59 Copynumber: 5.2 Consensus size: 59
1042909 AATGGTTGAG
*
1042919 AAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCGTGTGCTA
1 AAATGTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCGTGTGCTA
* ** *
1042978 AAATGTTAAGGAATTCATACTAAGTGTAT-AATTTTCCATATAGAACACTTAGTGTGCTA
1 AAATGTTAAGGAATTCATACTAAGTGTATGAATTTT-CGTATAGGGCACTTCGTGTGCTA
* * ** **
1043037 AAATGTTATGGAATTCATACTAAGTGTATGAATTTTCGTATAAGTTACTTTATGTGCTA
1 AAATGTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCGTGTGCTA
* * * * *
1043096 AAATGTTAAGGAATTCACACTAAGTGTATGAATTTTTGTAAAGGGCAATTCATGTGCTA
1 AAATGTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCGTGTGCTA
* * *
1043155 AAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGCACTTCGTGTGCAA
1 AAATGTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCGTGTGCTA
1043214 AAATGTTAAG
1 AAATGTTAAG
1043224 AAATGGTTGA
Statistics
Matches: 214, Mismatches: 30, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
58 6 0.03
59 202 0.94
60 6 0.03
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.36
Consensus pattern (59 bp):
AAATGTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCGTGTGCTA
Found at i:1043442 original size:578 final size:578
Alignment explanation
Indices: 1042341--1043478 Score: 2116
Period size: 578 Copynumber: 2.0 Consensus size: 578
1042331 TTGTGTGCTA
* *
1042341 AAATGTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAGGGCAGTTCGTGTGCTAAAATGT
1 AAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCGTGTGCTAAAATGT
* ** *
1042406 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTCGTGTGCTAAAATGTTAAGGA
66 TAAGAAATTCATACTAAGTGTATGAATTTCCATATAGAACACTTAGTGTGCTAAAATGTTAAGGA
*
1042471 ATTCATACTAAGTGTATGAATTTTCGTATAAGTTACTTTGTGTGCTAAAATGTTAAGGAATTCAC
131 ATTCATACTAAGTGTATGAATTTTCGTATAAGTTACTTTATGTGCTAAAATGTTAAGGAATTCAC
*
1042536 ACTAAGTGTATGAATTTTCGTAAAGGGCAATTCGTGTGCTAAAATGTTAAGGAATTCATACTAAG
196 ACTAAGTGTATGAATTTTCGTAAAGGGCAATTCATGTGCTAAAATGTTAAGGAATTCATACTAAG
*
1042601 TGTATGAATTTCCGTATAGGGCACTTCGTGTGCAAAAATGTTAAGAAATGGTTGAGAAATGACGG
261 TGTATGAATTTCCATATAGGGCACTTCGTGTGCAAAAATGTTAAGAAATGGTTGAGAAATGACGG
*
1042666 TATAGGAACTACGTGTTCATCTTAATAAATAAATGGGAATAAAAAGTTGGTAAATTACCATGTGA
326 TATAGGAACTACGTGTTCATCTTAATAAATAAACGGGAATAAAAAGTTGGTAAATTACCATGTGA
1042731 GCACTAAGGGTGCAAATATATAAGGGTTATAATAAATTAAAAGAGATTTAATTAATATTGAAAGT
391 GCACTAAGGGTGCAAATATATAAGGGTTATAATAAATTAAAAGAGATTTAATTAATATTGAAAGT
*
1042796 AAGTATTAGAGTAGAAACTATTCCAAAATAAAAGCTTTAAGGCCTAACTGTGCAATTGACACAAA
456 AAGGATTAGAGTAGAAACTATTCCAAAATAAAAGCTTTAAGGCCTAACTGTGCAATTGACACAAA
1042861 AGTGTCATTTATGCCAGTTATATGAAAGGCTAAGTGCCTTAATAAATAAATGGTTGAG
521 AGTGTCATTTATGCCAGTTATATGAAAGGCTAAGTGCCTTAATAAATAAATGGTTGAG
1042919 AAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCGTGTGCTAAAATGT
1 AAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCGTGTGCTAAAATGT
* *
1042984 TAAGGAATTCATACTAAGTGTAT-AATTTTCCATATAGAACACTTAGTGTGCTAAAATGTTATGG
66 TAAGAAATTCATACTAAGTGTATGAA-TTTCCATATAGAACACTTAGTGTGCTAAAATGTTAAGG
1043048 AATTCATACTAAGTGTATGAATTTTCGTATAAGTTACTTTATGTGCTAAAATGTTAAGGAATTCA
130 AATTCATACTAAGTGTATGAATTTTCGTATAAGTTACTTTATGTGCTAAAATGTTAAGGAATTCA
*
1043113 CACTAAGTGTATGAATTTTTGTAAAGGGCAATTCATGTGCTAAAATGTTAAGGAATTCATACTAA
195 CACTAAGTGTATGAATTTTCGTAAAGGGCAATTCATGTGCTAAAATGTTAAGGAATTCATACTAA
1043178 GTGTATGAATTTCCATATAGGGCACTTCGTGTGCAAAAATGTTAAGAAATGGTTGAGAAATGACG
260 GTGTATGAATTTCCATATAGGGCACTTCGTGTGCAAAAATGTTAAGAAATGGTTGAGAAATGACG
*
1043243 GTATAGGCACTACGTGTTCATCTTAATAAATAAACGGGAATAAAAAGTTGGTAAATTACCATGTG
325 GTATAGGAACTACGTGTTCATCTTAATAAATAAACGGGAATAAAAAGTTGGTAAATTACCATGTG
1043308 AGCACTAAGGGTGCAAATATATAAGGGTTATAATAAATTAAAAGAGATTTAATTAATATTGAAAG
390 AGCACTAAGGGTGCAAATATATAAGGGTTATAATAAATTAAAAGAGATTTAATTAATATTGAAAG
*
1043373 TAAGGATTAGAGTAGAAACTATTCCAAAATAAAAGCTTTAAGGCCTAACTGTGCAATTGACAGAA
455 TAAGGATTAGAGTAGAAACTATTCCAAAATAAAAGCTTTAAGGCCTAACTGTGCAATTGACACAA
1043438 AAGTGTCATTTATGCCAGTTATATGAAAGGCTAAGTGCCTT
520 AAGTGTCATTTATGCCAGTTATATGAAAGGCTAAGTGCCTT
1043479 TGAGGCCTAA
Statistics
Matches: 543, Mismatches: 16, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
577 2 0.00
578 541 1.00
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (578 bp):
AAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATAGGGCACTTCGTGTGCTAAAATGT
TAAGAAATTCATACTAAGTGTATGAATTTCCATATAGAACACTTAGTGTGCTAAAATGTTAAGGA
ATTCATACTAAGTGTATGAATTTTCGTATAAGTTACTTTATGTGCTAAAATGTTAAGGAATTCAC
ACTAAGTGTATGAATTTTCGTAAAGGGCAATTCATGTGCTAAAATGTTAAGGAATTCATACTAAG
TGTATGAATTTCCATATAGGGCACTTCGTGTGCAAAAATGTTAAGAAATGGTTGAGAAATGACGG
TATAGGAACTACGTGTTCATCTTAATAAATAAACGGGAATAAAAAGTTGGTAAATTACCATGTGA
GCACTAAGGGTGCAAATATATAAGGGTTATAATAAATTAAAAGAGATTTAATTAATATTGAAAGT
AAGGATTAGAGTAGAAACTATTCCAAAATAAAAGCTTTAAGGCCTAACTGTGCAATTGACACAAA
AGTGTCATTTATGCCAGTTATATGAAAGGCTAAGTGCCTTAATAAATAAATGGTTGAG
Found at i:1043621 original size:81 final size:81
Alignment explanation
Indices: 1043482--1043829 Score: 579
Period size: 81 Copynumber: 4.3 Consensus size: 81
1043472 GTGCCTTTGA
* *
1043482 GGCCTAACTATGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGT
1 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
* *
1043547 CGAGTAAACGAATAAT
66 TGAGTAAAAGAATAAT
* * * *
1043563 GGCCTAACTATGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAATGGTTAAATACTGT
1 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1043628 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * *
1043644 GGCCTAATTGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCTT
1 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1043709 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
*
1043725 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGCTTAAATACCGT
1 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
1043790 TGAGTAAAGGAATAAT
66 TGAGTAAAAGAATAAT
1043806 GGCCTAACTGTGCAATTGATAGAA
1 GGCCTAACTGTGCAATTGATAGAA
1043830 TTTTTGTGGC
Statistics
Matches: 251, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 251 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.28
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
TGAGTAAAAGAATAAT
Found at i:1043918 original size:59 final size:59
Alignment explanation
Indices: 1043843--1044219 Score: 565
Period size: 59 Copynumber: 6.4 Consensus size: 59
1043833 TTGTGGCCTA
* *
1043843 ACTTTGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAGGGC
1 ACTTCGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGC
* *
1043902 AGTTCGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGC
1 ACTTCGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGC
* * * *
1043961 ACTTCGTGTGCTAAAATGTTAAAGAATTAATACTAAGTGTATAAATTTCCATATAGGGC
1 ACTTCGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGC
* * * **
1044020 ACTTAGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTTCGTATAAGTT
1 ACTTCGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGC
* * * *
1044079 ACTTTGTGTGCTAAAATGTTAAGGAATTCACACTAAGTGTATGAATTTTCGTAAAGGGC
1 ACTTCGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGC
* *
1044138 AATTCGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCATATAGGGC
1 ACTTCGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGC
* *
1044197 ACTTTGTGTGCAAAAATGTTAAG
1 ACTTCGTGTGCTAAAATGTTAAG
1044220 AAATGGTTGA
Statistics
Matches: 284, Mismatches: 34, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 284 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.35
Consensus pattern (59 bp):
ACTTCGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGC
Found at i:1044617 original size:81 final size:81
Alignment explanation
Indices: 1044478--1044882 Score: 621
Period size: 81 Copynumber: 5.0 Consensus size: 81
1044468 GTGCCTTTGA
* * *
1044478 GGCCTAACTATGCAATTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGT
1 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
* *
1044543 CGAGTAAACGAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
1044559 GGCCTAATTGTGCAATTGACAGAAATGTGTAAATTATGCCAGTTAGATGAATGGTTAAATACTGT
1 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1044624 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* *
1044640 GGCCTAATTGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1044705 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
1044721 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
1044786 TGAGTAAAGGAATAAT
66 TGAGTAAAAGAATAAT
* * * * * ** *
1044802 GGCCTAACTATGCAATTGATAGAAAAGTGTCAATTATGCTAGTTAGATCAACGATTAAACGCTGT
1 GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1044867 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
1044883 AGATTAGCTA
Statistics
Matches: 299, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 299 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
TGAGTAAAAGAATAAT
Found at i:1045023 original size:2 final size:2
Alignment explanation
Indices: 1045016--1045066 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1045006 TGAAATGATG
1045016 AT 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 AT
1045058 AT AT AT AT A
1 AT AT AT AT A
1045067 ATGTTCCAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1046843 original size:2 final size:2
Alignment explanation
Indices: 1046836--1046864 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1046826 TCTAGAGACG
1046836 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
1046865 GCTTTTATGG
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:1049194 original size:59 final size:59
Alignment explanation
Indices: 1049111--1049394 Score: 435
Period size: 59 Copynumber: 4.8 Consensus size: 59
1049101 AATGGAACTA
1049111 AGTGTGCT-AAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTT
1 AGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTT
1049169 AGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTT
1 AGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTT
* * * * * *
1049228 CGTTTACTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCATTTAGGACACTT
1 AGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTT
* ** **
1049287 AGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGATTTTTTGTATAGGTTACTT
1 AGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTT
* * *
1049346 CGTGTGCTAAAATGTTAAGGAATTCACACTAAGTGTATGAATTTTCGTA
1 AGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTA
1049395 ATTCATACTA
Statistics
Matches: 205, Mismatches: 20, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
58 8 0.04
59 197 0.96
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (59 bp):
AGTGTGCTAAAATGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTT
Found at i:1049406 original size:28 final size:28
Alignment explanation
Indices: 1049366--1049422 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
1049356 AATGTTAAGG
*
1049366 AATTCACACTAAGTGTATGAATTTTCGT
1 AATTCACACTAAGTGTATGAATTTCCGT
*
1049394 AATTCATACTAAGTGTATGAATTTCCGT
1 AATTCACACTAAGTGTATGAATTTCCGT
1049422 A
1 A
1049423 TATGCACTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (28 bp):
AATTCACACTAAGTGTATGAATTTCCGT
Found at i:1049463 original size:84 final size:87
Alignment explanation
Indices: 1049307--1049472 Score: 257
Period size: 84 Copynumber: 1.9 Consensus size: 87
1049297 AATGTTAAGG
* ** *
1049307 AATTCATACTAAGTGTATGATTTTTTGTATAGGTTACTTCGTGTGCTAAAATGTTAAGGAATTCA
1 AATTCATACTAAGTGTATGAATTTCCGTATAGGTCACTTCGTGTGCTAAAATGTTAAGGAATTCA
1049372 CACTAAGTGTATGAATTTTCGT
66 CACTAAGTGTATGAATTTTCGT
*
1049394 AATTCATACTAAGTGTATGAATTTCCGTATATG-CACTT-GTGTGC-AAAATGTTAAGGAATTCA
1 AATTCATACTAAGTGTATGAATTTCCGTATAGGTCACTTCGTGTGCTAAAATGTTAAGGAATTCA
*
1049456 TACTAAGTGTATGAATT
66 CACTAAGTGTATGAATT
1049473 CTGTATGGGG
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
84 34 0.47
85 6 0.08
86 4 0.05
87 29 0.40
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (87 bp):
AATTCATACTAAGTGTATGAATTTCCGTATAGGTCACTTCGTGTGCTAAAATGTTAAGGAATTCA
CACTAAGTGTATGAATTTTCGT
Found at i:1049486 original size:56 final size:58
Alignment explanation
Indices: 1049394--1049506 Score: 169
Period size: 56 Copynumber: 2.0 Consensus size: 58
1049384 GAATTTTCGT
*
1049394 AATTCATACTAAGTGTATGAATTTCCGTATATGCAC-TTGTGTGC-AAAATGTTAAGG
1 AATTCATACTAAGTGTATGAATTTCCGTATAGGCACTTTGTGTGCTAAAATGTTAAGG
* *
1049450 AATTCATACTAAGTGTATGAA-TTCTGTATGGGGCACTTTGTGTGCTAAAATGTTAAG
1 AATTCATACTAAGTGTATGAATTTCCGTAT-AGGCACTTTGTGTGCTAAAATGTTAAG
1049507 AAATGGTTGA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
55 7 0.14
56 25 0.49
57 8 0.16
58 11 0.22
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (58 bp):
AATTCATACTAAGTGTATGAATTTCCGTATAGGCACTTTGTGTGCTAAAATGTTAAGG
Found at i:1050005 original size:79 final size:81
Alignment explanation
Indices: 1049774--1050158 Score: 550
Period size: 79 Copynumber: 4.8 Consensus size: 81
1049764 CTAATTCAAT
* * * *
1049774 TTGATAGAAAGGTGTCAATTATGCCAATTAGATGAATGGTTAAATACCGTTGAGTAAAAGAATAA
1 TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAAAGAATAA
1049839 TGGCCTAACTGTGCAA
66 TGGCCTAACTGTGCAA
* * *
1049855 TTGACAG-AAGGTGTCAATTATGACAGTTAGATGAACGGTTAAATTCT-TTGAGTAAAA-TATAA
1 TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAAAGAATAA
* *
1049917 TGACCTAACTGTGTAA
66 TGGCCTAACTGTGCAA
* *
1049933 TTGACAGAAAGGTGTCAATTATGCCA-TTAGATG-ATGGGTAAATACTGTTGAGTAAAAGAATAA
1 TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAAAGAATAA
1049996 TGGCCTAACTGTGCAA
66 TGGCCTAACTGTGCAA
* *
1050012 TTGACAGAAAGGTGTCAAATATGCCAGTTAGATGAACGGTTAAATACTGTTAAGT-AAAG-ATAA
1 TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAAAGAATAA
* * *
1050075 TGTCGTAATTGTGCAA
66 TGGCCTAACTGTGCAA
* * *
1050091 TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAACATTGTTGAGTAAAAGAATAA
1 TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAAAGAATAA
1050156 TGG
66 TGG
1050159 ATTAGTTATA
Statistics
Matches: 268, Mismatches: 29, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
77 10 0.04
78 42 0.16
79 137 0.51
80 50 0.19
81 29 0.11
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (81 bp):
TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAAAGAATAA
TGGCCTAACTGTGCAA
Found at i:1050289 original size:2 final size:2
Alignment explanation
Indices: 1050282--1050323 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
1050272 TGAAAGGATG
1050282 AT AT AT AT AT AT AT AT AT -T 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 AT
1050323 A
1 A
1050324 ATGTTCCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1050413 original size:25 final size:23
Alignment explanation
Indices: 1050383--1050447 Score: 82
Period size: 25 Copynumber: 2.9 Consensus size: 23
1050373 ACAGAACAAT
1050383 AGGCATGAAAGGATGCCATATTA
1 AGGCATGAAAGGATGCCATATTA
1050406 AGATGCATGAAAGGATG-C--ATTA
1 AG--GCATGAAAGGATGCCATATTA
*
1050428 AGGCATGACAGGATGCCATA
1 AGGCATGAAAGGATGCCATA
1050448 AAAAAAATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
20 12 0.33
21 1 0.03
22 6 0.17
23 3 0.08
24 1 0.03
25 13 0.36
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (23 bp):
AGGCATGAAAGGATGCCATATTA
Found at i:1050435 original size:20 final size:21
Alignment explanation
Indices: 1050383--1050443 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 21
1050373 ACAGAACAAT
1050383 AGGCATGAAAGGATGCCATATTA
1 AGGCATGAAAGGATG-CA-ATTA
1050406 AGATGCATGAAAGGATGC-ATTA
1 AG--GCATGAAAGGATGCAATTA
*
1050428 AGGCATGACAGGATGC
1 AGGCATGAAAGGATGC
1050444 CATAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
20 13 0.37
22 6 0.17
23 2 0.06
24 1 0.03
25 13 0.37
ACGTcount: A:0.38, C:0.13, G:0.30, T:0.20
Consensus pattern (21 bp):
AGGCATGAAAGGATGCAATTA
Found at i:1052818 original size:17 final size:17
Alignment explanation
Indices: 1052796--1052828 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1052786 AATTTATCCT
*
1052796 TATATATATAGTATATG
1 TATATATATAATATATG
1052813 TATATATATAATATAT
1 TATATATATAATATAT
1052829 AATTTACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
TATATATATAATATATG
Found at i:1053202 original size:24 final size:24
Alignment explanation
Indices: 1053155--1053202 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1053145 CAATTTTGTC
*
1053155 CATTTTATATTAATATCAGCTTCA
1 CATTTTATATTAATATCAACTTCA
*
1053179 CATTTTATAATTAAT-TCAATTTCA
1 CATTTTAT-ATTAATATCAACTTCA
1053203 TCCCTCATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (24 bp):
CATTTTATATTAATATCAACTTCA
Found at i:1053333 original size:27 final size:26
Alignment explanation
Indices: 1053284--1053346 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
1053274 CTTTATATAC
* *
1053284 ATATATAAACTATAAAGTGTAAGTAT
1 ATATATACACTATAAAGTATAAGTAT
*
1053310 ATATATACACATATATAGTATAAGTAT
1 ATATATACAC-TATAAAGTATAAGTAT
1053337 ATAATATACA
1 AT-ATATACA
1053347 ATAATAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 9 0.28
27 16 0.50
28 7 0.22
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (26 bp):
ATATATACACTATAAAGTATAAGTAT
Found at i:1053388 original size:22 final size:20
Alignment explanation
Indices: 1053363--1053503 Score: 132
Period size: 22 Copynumber: 6.9 Consensus size: 20
1053353 AATTATTTGG
1053363 ATATAAGTATTAAAGTATATAA
1 ATATAAGTATTAAA-TATAT-A
*
1053385 ATATAAGTATTAAATATAAA
1 ATATAAGTATTAAATATATA
* *
1053405 GTATATAAGTACCTAAGTATATA
1 --ATATAAGTA-TTAAATATATA
1053428 ATATAAAGTATTAAACTATATA
1 ATAT-AAGTATTAAA-TATATA
1053450 ATATAAGTATT--A-A-AT-
1 ATATAAGTATTAAATATATA
1053465 ATA-AAGTATTAAAGTATATAA
1 ATATAAGTATTAAA-TATAT-A
1053486 ATATAAGTATTAAATATA
1 ATATAAGTATTAAATATA
1053504 AAGTATATTA
Statistics
Matches: 100, Mismatches: 6, Indels: 27
0.75 0.05 0.20
Matches are distributed among these distances:
14 7 0.07
15 3 0.03
16 3 0.03
17 1 0.01
18 1 0.01
19 3 0.03
20 1 0.01
21 25 0.25
22 48 0.48
23 8 0.08
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (20 bp):
ATATAAGTATTAAATATATA
Found at i:1053399 original size:44 final size:42
Alignment explanation
Indices: 1053331--1053516 Score: 132
Period size: 44 Copynumber: 4.3 Consensus size: 42
1053321 TATATAGTAT
* * * *
1053331 AAGTATATAATATACAATAATAAATTATTTGGATATAAGTATTA
1 AAGTATATAATATA-AGTATTAAA-TATATGAATATAAGTATTA
* * *
1053375 AAGTATATAAATATAAGTATTAAATATAAAGTATATAAGTACCT-
1 AAGTATAT-AATATAAGTATTAAATAT-ATGAATATAAGTA-TTA
1053419 AAGTATATAATATAAAGTATTAAACTATAT-AATATAAGTATTA
1 AAGTATATAATAT-AAGTATTAAA-TATATGAATATAAGTATTA
* * *
1053462 AA-TATA-AAGTATTAAAGTATATAAATATAAGTAT-TAAATA-TA
1 AAGTATATAA-TA-T-AAGTAT-TAAATATATGAATATAAGTATTA
1053504 AAGTATATTAATA
1 AAGTATA-TAATA
1053517 ATCATAATTA
Statistics
Matches: 117, Mismatches: 12, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
41 2 0.02
42 11 0.09
43 40 0.34
44 52 0.44
45 12 0.10
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (42 bp):
AAGTATATAATATAAGTATTAAATATATGAATATAAGTATTA
Found at i:1053424 original size:30 final size:28
Alignment explanation
Indices: 1053286--1053516 Score: 121
Period size: 28 Copynumber: 8.1 Consensus size: 28
1053276 TTATATACAT
* * *
1053286 ATATAAACTATA-AAGTGTAAGTATAT-
1 ATATAAAGTATATAAATATAAGTATATA
*
1053312 ATATACACA-TATAT-AGTATAAGTATATA
1 ATATA-A-AGTATATAAATATAAGTATATA
** *
1053340 ATATACAA-TA-ATAAATTATTTGGATATA
1 ATATA-AAGTATATAAA-TATAAGTATATA
1053368 AGTATTAAAGTATATAAATATAAGTAT-TAA
1 A-TA-TAAAGTATATAAATATAAGTATAT-A
*
1053398 ATATAAAGTATATAAGTACCTAAGTATATA
1 ATATAAAGTATATAAATA--TAAGTATATA
1053428 ATATAAAGTAT-TAAACTAT-A-TAATATA
1 ATATAAAGTATATAAA-TATAAGT-ATATA
*
1053455 AGTATTAAA-TATA-AAGTATTAAAGTATATA
1 A-TA-TAAAGTATATAAATA-T-AAGTATATA
1053485 A-ATATAAGTAT-TAAATATAAAGTATATTA
1 ATATA-AAGTATATAAATAT-AAGTATA-TA
1053514 ATA
1 ATA
1053517 ATCATAATTA
Statistics
Matches: 165, Mismatches: 12, Indels: 52
0.72 0.05 0.23
Matches are distributed among these distances:
26 8 0.05
27 32 0.19
28 53 0.32
29 24 0.15
30 41 0.25
31 7 0.04
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.36
Consensus pattern (28 bp):
ATATAAAGTATATAAATATAAGTATATA
Found at i:1053466 original size:35 final size:36
Alignment explanation
Indices: 1053418--1053509 Score: 152
Period size: 35 Copynumber: 2.6 Consensus size: 36
1053408 TATAAGTACC
1053418 TAAGTA-TATAATATAAAGTATTAAACTATAT-AATA
1 TAAGTATTA-AATATAAAGTATTAAACTATATAAATA
*
1053453 TAAGTATTAAATATAAAGTATTAAAGTATATAAATA
1 TAAGTATTAAATATAAAGTATTAAACTATATAAATA
1053489 TAAGTATTAAATATAAAGTAT
1 TAAGTATTAAATATAAAGTAT
1053510 ATTAATAATC
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
35 27 0.50
36 27 0.50
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.37
Consensus pattern (36 bp):
TAAGTATTAAATATAAAGTATTAAACTATATAAATA
Found at i:1053517 original size:13 final size:13
Alignment explanation
Indices: 1053373--1053517 Score: 59
Period size: 14 Copynumber: 10.2 Consensus size: 13
1053363 ATATAAGTAT
1053373 TAAAGTATATAAA
1 TAAAGTATATAAA
1053386 TATAAGTAT-TAAATA
1 TA-AAGTATAT-AA-A
*
1053401 TAAAGTATATAAG
1 TAAAGTATATAAA
1053414 TACCTAAGTATATAATA
1 TA---AAGTATATAA-A
1053431 TAAAGTAT-TAAA
1 TAAAGTATATAAA
*
1053443 CTATA-TAATATAAGTA
1 -TAAAGT-ATATAA--A
1053459 TTAAA-TATA-AAGTA
1 -TAAAGTATATAA--A
1053473 TTAAAGTATATAAA
1 -TAAAGTATATAAA
1053487 TATAAGTAT-TAAATA
1 TA-AAGTATAT-AA-A
*
1053502 TAAAGTATATTAA
1 TAAAGTATATAAA
1053515 TAA
1 TAA
1053518 TCATAATTAC
Statistics
Matches: 107, Mismatches: 6, Indels: 38
0.71 0.04 0.25
Matches are distributed among these distances:
12 2 0.02
13 20 0.19
14 51 0.48
15 15 0.14
16 17 0.16
17 2 0.02
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (13 bp):
TAAAGTATATAAA
Found at i:1054159 original size:39 final size:39
Alignment explanation
Indices: 1054096--1054288 Score: 142
Period size: 39 Copynumber: 5.0 Consensus size: 39
1054086 CCTATACACC
* * * *
1054096 CAGTAAGGGCTTACCCTGTGCACAAAGCGGAGGAGCCTG
1 CAGTAAGGTCTTACCATGTACACAAAGCAGAGGAGCCTG
* *
1054135 CAGTAAGGTCTTATCATGTACACAAAGCAGAGGAGTCTG
1 CAGTAAGGTCTTACCATGTACACAAAGCAGAGGAGCCTG
* * * * *
1054174 CAGTAAGGTCTTACCCTG-AGCACAAATCCGAGGAACCTA
1 CAGTAAGGTCTTACCATGTA-CACAAAGCAGAGGAGCCTG
* * * * *
1054213 CGGTAAGGACTTACCCTG-AGCTCAAA-CCGAGGAGCCTG
1 CAGTAAGGTCTTACCATGTA-CACAAAGCAGAGGAGCCTG
* * * * *
1054251 CAGAAAGGACTTACCCTG-AGCACAAAGCCGAGGTGCCT
1 CAGTAAGGTCTTACCATGTA-CACAAAGCAGAGGAGCCT
1054289 ACGAAAAACG
Statistics
Matches: 130, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
38 34 0.26
39 96 0.74
ACGTcount: A:0.30, C:0.26, G:0.27, T:0.17
Consensus pattern (39 bp):
CAGTAAGGTCTTACCATGTACACAAAGCAGAGGAGCCTG
Found at i:1054291 original size:77 final size:78
Alignment explanation
Indices: 1054100--1054291 Score: 217
Period size: 78 Copynumber: 2.5 Consensus size: 78
1054090 TACACCCAGT
* * * * * * *
1054100 AAGGGCTTACCCTGTGCACAAAGCGGAGGAGCCTGCAGTAAGGTCTTATCATGTACACAAAGCAG
1 AAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTACGGTAAGGACTTACCATGTACACAAAGCAG
* *
1054165 AGGAGTCTGCAGT
66 AGGAGCCTGCAGA
* * * * * *
1054178 AAGGTCTTACCCTGAGCACAAATCCGAGGAACCTACGGTAAGGACTTACCCTG-AGCTCAAA-CC
1 AAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTACGGTAAGGACTTACCATGTA-CACAAAGCA
1054241 GAGGAGCCTGCAGA
65 GAGGAGCCTGCAGA
*
1054255 AAGGACTTACCCTGAGCACAAAGCCGAGGTGCCTACG
1 AAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTACG
1054292 AAAAACGGTA
Statistics
Matches: 95, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
77 47 0.49
78 48 0.51
ACGTcount: A:0.30, C:0.26, G:0.27, T:0.17
Consensus pattern (78 bp):
AAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTACGGTAAGGACTTACCATGTACACAAAGCAG
AGGAGCCTGCAGA
Found at i:1055062 original size:16 final size:16
Alignment explanation
Indices: 1055031--1055060 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1055021 TGAAAAACAT
1055031 AAAATATGACTTTTTG
1 AAAATATGACTTTTTG
1055047 AAAAT-TGACTTTTT
1 AAAATATGACTTTTT
1055061 TGTCAAAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (16 bp):
AAAATATGACTTTTTG
Found at i:1055303 original size:17 final size:18
Alignment explanation
Indices: 1055281--1055314 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1055271 CTTTCATTCT
1055281 AAAAGAG-GAAAAATTTG
1 AAAAGAGAGAAAAATTTG
1055298 AAAAGAGAGAAAAATTT
1 AAAAGAGAGAAAAATTT
1055315 TAGTTTCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.18
Consensus pattern (18 bp):
AAAAGAGAGAAAAATTTG
Found at i:1055715 original size:16 final size:16
Alignment explanation
Indices: 1055694--1055746 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
1055684 CCATTTACAA
1055694 GTCAGGTTAAAAACAG
1 GTCAGGTTAAAAACAG
* * *
1055710 GTCAGGTTCATAACAT
1 GTCAGGTTAAAAACAG
* * *
1055726 GTCTGGTTGAAAATAG
1 GTCAGGTTAAAAACAG
1055742 GTCAG
1 GTCAG
1055747 ATAATACAAG
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.26
Consensus pattern (16 bp):
GTCAGGTTAAAAACAG
Found at i:1056614 original size:181 final size:182
Alignment explanation
Indices: 1056300--1056704 Score: 670
Period size: 181 Copynumber: 2.2 Consensus size: 182
1056290 ACAAAATCGG
* *
1056300 TAAAGTGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATT
1 TAAAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATT
*
1056365 TAAAAGAGAAGCAGTTTTAGCACCTATAAAGTATCGATACTTTATAATAATGTATCGATCCACAA
66 TAAAAGAGAAGCAGTTTTAGCACCTATAAAGTATCGATACTTTATAAAAATGTATCGATCCACAA
1056430 CGATATAACAGGTAAAAATATGACAAAA-CTAGTCTCTAAAGGAAAAAACCGA
131 CGATATAACAGGTAAAAATATGACAAAATC-AGTCTCTAAAGGAAAAAACCGA
* *
1056482 TATAGAGCGACCGGATATATTGAAAGTGTTG-TACTTTAATATAAGTATCGACACTTTGTGAATT
1 TAAAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATT
* *
1056546 TAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATCCACAA
66 TAAAAGAGAAGCAGTTTTAGCACCTATAAAGTATCGATACTTTATAAAAATGTATCGATCCACAA
* * * *
1056611 CGATATAACATGTAAAAATATGACAAAATCGGTCTCTAAAGGACAAAACCGG
131 CGATATAACAGGTAAAAATATGACAAAATCAGTCTCTAAAGGAAAAAACCGA
* *
1056663 TAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATA
1 TAAAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATA
1056705 AGTACACATA
Statistics
Matches: 206, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
181 168 0.82
182 38 0.18
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.28
Consensus pattern (182 bp):
TAAAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTGAATT
TAAAAGAGAAGCAGTTTTAGCACCTATAAAGTATCGATACTTTATAAAAATGTATCGATCCACAA
CGATATAACAGGTAAAAATATGACAAAATCAGTCTCTAAAGGAAAAAACCGA
Found at i:1059182 original size:33 final size:33
Alignment explanation
Indices: 1059145--1059211 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
1059135 AAATAGATTG
*
1059145 AGTGGTAAAAGAAGTTGAGGTGTTGAGGGGTGA
1 AGTGGTAAAAGAAGTTCAGGTGTTGAGGGGTGA
*
1059178 AGTGGTGAAAGAAGTTCAGGTGTTGAGGGGTGA
1 AGTGGTAAAAGAAGTTCAGGTGTTGAGGGGTGA
1059211 A
1 A
1059212 CTTAAGATGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.01, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTAAAAGAAGTTCAGGTGTTGAGGGGTGA
Found at i:1059416 original size:18 final size:18
Alignment explanation
Indices: 1059393--1059449 Score: 114
Period size: 18 Copynumber: 3.2 Consensus size: 18
1059383 GAAAAAATAT
1059393 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
1059411 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
1059429 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
1059447 GAA
1 GAA
1059450 ATGAGGAGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.56, C:0.00, G:0.39, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:1060812 original size:15 final size:15
Alignment explanation
Indices: 1060792--1060830 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
1060782 GTCCAGTATG
*
1060792 GTTCCCAAATGTAAA
1 GTTCCCAAACGTAAA
1060807 GTTCCCAAACGTAAA
1 GTTCCCAAACGTAAA
*
1060822 GTTTCCAAA
1 GTTCCCAAA
1060831 AAATAGGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (15 bp):
GTTCCCAAACGTAAA
Found at i:1061530 original size:199 final size:198
Alignment explanation
Indices: 1060938--1061960 Score: 1327
Period size: 199 Copynumber: 5.1 Consensus size: 198
1060928 AATGTATCGA
* * * * *
1060938 TTTTGAAATTTGTGTTGATACTTTTTATCCAGAATAAATGCCCGAAATGGTGAACGCATAAAGTG
1 TTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACGCATAAAGTG
* * *
1061003 TCGATACATTTATAAAAAGTGTCGATCTCAGAGACATCG-AACCCATAATTATAGTGTAATAGGT
66 TCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGT
*
1061067 AATTTTGTAATGTAAACGGTATAAATATACATGTTTTATGTGAGAATAGGTCTACATAATGTATC
131 AATTTT-TAATGTAACCGGTATAAATATACA-GTTTTATGTGAGAATAGGTCTACATAATGTATC
1061132 GACAC
194 GACAC
* * * * * *
1061137 TTTTTAATTTTGTGTCAATACATTTTGTCCAGAATGAATTCCCAAAAAAATGGTGCATGCATAAA
1 TTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC---AAAATGGTGCACGCATAAA
* *
1061202 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATGATTATAATGTAATA
63 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
1061267 GGTAATTTTTCAATGTAACCGGTATAAATATACATGTTTTATGTGAGAATAGGTCTACATAATGT
128 GGTAATTTTT-AATGTAACCGGTATAAATATACA-GTTTTATGTGAGAATAGGTCTACATAATGT
*
1061332 ATCTACAC
191 ATCGACAC
* * * * *
1061340 ATTTGAAATTGGTGTTGATACTTTTTGTCCAGAATGAATGCCCAAAATAGTGAACGCATAAAGTG
1 TTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACGCATAAAGTG
* * * * *
1061405 TCGATACATTTTTAAAAAGTGTCGATCCCAGAGACATTG-AACCTATAATTATAATGTTATAGGT
66 TCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGT
1061469 AATTTTGTAATGTAACCGGTATAAATATATCAGTTTTATGTGAGAATAGGTCTACATAATGTATC
131 AATTTT-TAATGTAACCGGTATAAATATA-CAGTTTTATGTGAGAATAGGTCTACATAATGTATC
1061534 GACAC
194 GACAC
* * * *
1061539 TTTTTAATTTTGTGTCGATACATTTTGTCCAG-ATGAATGCCCAAAAAAACGGTGCACGCATAAA
1 TTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC---AAAATGGTGCACGCATAAA
* * *
1061603 GTGTCGATACATTTATAAAAAGTATTGATCCCAGAAACATCGAAACCCATGATTATAATGTAATA
63 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
1061668 GGTGATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGCGAGAATAGGTCTAGAAAATGT
128 GGTAATTTTT-AATGTAACCGGTATAAATATA-CAGTTTTATGTGAGAATAGGTCTACATAATGT
1061733 ATCGACAC
191 ATCGACAC
* * * * * *
1061741 TTATGGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATG-CCAAAAGGGTGCACCCATTAAGTG
1 TTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACGCATAAAGTG
* * *
1061805 TCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGT
66 TCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGT
** * * * * * *
1061870 AAATTTCCAATGTAACCAGTATAAATATACCAGTTTTATGAGAAAATAAGTCAACATAAAGTATC
131 -AATTTTTAATGTAACCGGTATAAATATA-CAGTTTTATGTGAGAATAGGTCTACATAATGTATC
*
1061935 GACAA
194 GACAC
*
1061940 TTGTT-AAATTTGCGTCGATAC
1 TT-TTGAAATTTGTGTCGATAC
1061961 CATTTTAAAA
Statistics
Matches: 718, Mismatches: 91, Indels: 30
0.86 0.11 0.04
Matches are distributed among these distances:
198 10 0.01
199 293 0.41
200 62 0.09
201 54 0.08
202 169 0.24
203 130 0.18
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (198 bp):
TTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACGCATAAAGTG
TCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAGGT
AATTTTTAATGTAACCGGTATAAATATACAGTTTTATGTGAGAATAGGTCTACATAATGTATCGA
CAC
Found at i:1061856 original size:401 final size:401
Alignment explanation
Indices: 1060939--1061966 Score: 1558
Period size: 401 Copynumber: 2.6 Consensus size: 401
1060929 ATGTATCGAT
* * *
1060939 TTTGAAATTTGTGTTGATACTTTTTATCCAGAATAAATGCCCGAAATGGTGAACGCATAAAGTGT
1 TTTGAAATTTGTGTTGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCATAAAGTGT
* * *
1061004 CGATACATTTATAAAAAGTGTCGATCTCAGAGACATCGAACCCATAATTATAGTGTAATAGGTAA
66 CGATACATTTTTAAAAAGTGTCGATCCCAGAGACATCGAACCCATAATTATAATGTAATAGGTAA
*
1061069 TTTTGTAATGTAAACGGTATAAATATACATGTTTTATGTGAGAATAGGTCTACATAATGTATCGA
131 TTTTGTAATGTAACCGGTATAAATATACA-GTTTTATGTGAGAATAGGTCTACATAATGTATCGA
* * * *
1061134 CACTTTTTAATTTTGTGTCAATACATTTTGTCCAGAATGAATTCCCAAAAAAATGGTGCATGCAT
195 CACTTTTTAATTTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAAAAACGGTGCACGCAT
1061199 AAAGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATGATTATAATGTA
260 AAAGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATGATTATAATGTA
* * *
1061264 ATAGGTAATTTTTCAATGTAACCGGTATAAATATACATGTTTTATGTGAGAATAGGTCTACATAA
325 ATAGGTAATTTTTCAATGTAACCGGTATAAATATACAGGTTTTATGCGAGAATAGGTCTACAAAA
*
1061329 TGTATCTACACA
390 TGTATCGACACA
* *
1061341 TTTGAAATTGGTGTTGATACTTTTTGTCCAGAATGAATGCCCAAAATAGTGAACGCATAAAGTGT
1 TTTGAAATTTGTGTTGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCATAAAGTGT
* * *
1061406 CGATACATTTTTAAAAAGTGTCGATCCCAGAGACATTGAACCTATAATTATAATGTTATAGGTAA
66 CGATACATTTTTAAAAAGTGTCGATCCCAGAGACATCGAACCCATAATTATAATGTAATAGGTAA
1061471 TTTTGTAATGTAACCGGTATAAATATATCAGTTTTATGTGAGAATAGGTCTACATAATGTATCGA
131 TTTTGTAATGTAACCGGTATAAATATA-CAGTTTTATGTGAGAATAGGTCTACATAATGTATCGA
1061536 CACTTTTTAATTTTGTGTCGATACATTTTGTCCAG-ATGAATGCCCAAAAAAACGGTGCACGCAT
195 CACTTTTTAATTTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAAAAACGGTGCACGCAT
*
1061600 AAAGTGTCGATACATTTATAAAAAGTATTGATCCCAGAAACATCGAAACCCATGATTATAATGTA
260 AAAGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATGATTATAATGTA
* * *
1061665 ATAGGTGATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGCGAGAATAGGTCTAGAAAA
325 ATAGGTAATTTTTCAATGTAACCGGTATAAATATACAGGTTTTATGCGAGAATAGGTCTACAAAA
1061730 TGTATCGACAC-
390 TGTATCGACACA
* * * * * * *
1061741 TTATGGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATG-CCAAAAGGGTGCACCCATTAAGTG
1 TT-TGAAATTTGTGTTGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCATAAAGTG
* * *
1061805 TCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGT
65 TCGATACATTTTTAAAAAGTGTCGATCCCAGAGACATCG-AACCCATAATTATAATGTAATAGGT
* ** * * * * * *
1061870 AAATTTCCAATGTAACCAGTATAAATATACCAGTTTTATGAGAAAATAAGTCAACATAAAGTATC
129 AATTTTGTAATGTAACCGGTATAAATATA-CAGTTTTATGTGAGAATAGGTCTACATAATGTATC
* * * *
1061935 GACAATTGTTAAATTTGCGTCGATACCATTTT
193 GACACTTTTTAATTTTGTGTCGATA-CATTTT
1061967 AAAAATCGCG
Statistics
Matches: 570, Mismatches: 52, Indels: 8
0.90 0.08 0.01
Matches are distributed among these distances:
400 57 0.10
401 291 0.51
402 220 0.39
403 2 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (401 bp):
TTTGAAATTTGTGTTGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCATAAAGTGT
CGATACATTTTTAAAAAGTGTCGATCCCAGAGACATCGAACCCATAATTATAATGTAATAGGTAA
TTTTGTAATGTAACCGGTATAAATATACAGTTTTATGTGAGAATAGGTCTACATAATGTATCGAC
ACTTTTTAATTTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAAAAAAACGGTGCACGCATA
AAGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATGATTATAATGTAA
TAGGTAATTTTTCAATGTAACCGGTATAAATATACAGGTTTTATGCGAGAATAGGTCTACAAAAT
GTATCGACACA
Found at i:1062627 original size:2 final size:2
Alignment explanation
Indices: 1062620--1062665 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1062610 ATGGGGAATG
1062620 AT 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 AT
1062662 AT AT
1 AT AT
1062666 CCAGATACTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1064845 original size:18 final size:18
Alignment explanation
Indices: 1064824--1064860 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1064814 GTAATTGGAG
1064824 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
1064842 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
1064860 T
1 T
1064861 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:1064867 original size:24 final size:24
Alignment explanation
Indices: 1064816--1064868 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1064806 TTTCATATGT
* * *
1064816 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
1064840 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
1064864 AATTT
1 AATTT
1064869 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:1065609 original size:200 final size:198
Alignment explanation
Indices: 1065096--1065858 Score: 903
Period size: 200 Copynumber: 3.8 Consensus size: 198
1065086 TAAAGTTTCC
* *
1065096 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAATATCGAAACCGAAAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAAT
* * * * * *
1065161 GTAATAGGTAAATTTATAATGTTATTGGTATAAATATACCGATTTTATGAGCAAATAGGCCAGCA
66 GTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGATTTTATGAGAAAATAGG-TAACA
* * * ** * *
1065226 TAAAGTATCGACAACTTATAAATTTGTGTCGATACTTTTTGTCCGAGCCT--TTGCTC-AACGAG
130 TAATGTATCGAC-ACTTTTAAATTTGTGTCGATACATTTTGTCC-AGAATGAATGC-CAAACGGG
* *
1065288 CTTCACA-
192 GTGCA-AG
*
1065295 CATAAAAGTGTCGATACA--TTTAAAATTGTATCGATCCAAAAAACATCGAAACCGAAAATTATA
1 CAT-AAAGTGTCGATACATTTTTAAAA-AGTATCGATCCAAAAAACATCGAAACCGAAAATTATA
* * ** * *
1065358 ATGTAATAGGTATATATACAATGTAACCAGTATAAATATATCGGTTTTATGAGAAAATAGGTATA
64 ATGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGATTTTATGAGAAAATAGGTA-A
* *
1065423 CATAATGTATCGACACTGTTTAAATTTGTGTCAATACATTTTGTCCATAATGAATGCCAAACGGG
128 CATAATGTATCGACACT-TTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGGG
1065488 GTGCAAG
192 GTGCAAG
*
1065495 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCTC-AAAAACATCGAAACCGATAATTATAA
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATC-CAAAAAACATCGAAACCGAAAATTATAA
* * * ** *
1065559 TATAATACGCAAATTTACAATGTAACTGGTATAAGCATACCGATTTTATGAGAAAATAGGTGAGC
65 TGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGATTTTATGAGAAAATAGGT-AAC
* * *
1065624 ATAATGTATCGACACTTTTTAGATTTGTGTCGATACATTTTTTCCAGAATGAATG-CAAAGCGGA
129 ATAATGTATCGACAC-TTTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAA-CGGG
*
1065688 GTGCACG
192 GTGCAAG
* * * *
1065695 CATAAAGTGTCGATACATTAATAAAAAAATATCGATCCAAAAAACATCGAAACCGAAAAGTATAA
1 CATAAAGTGTCGATACATT-TTTAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAA
* * *
1065760 TGTAATAGGTAAATTTATAATGTAACTGGTATAAATATACCGGTTTTATGAGAAAATAGGTTAAT
65 TGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGATTTTATGAGAAAATAGG-TAAC
* * * *
1065825 ATAGTATATCAACACTTTTAAATTTATGTCGATA
129 ATAATGTATCGACACTTTTAAATTTGTGTCGATA
1065859 TGTTTTAAAT
Statistics
Matches: 482, Mismatches: 65, Indels: 33
0.83 0.11 0.06
Matches are distributed among these distances:
198 12 0.02
199 147 0.30
200 208 0.43
201 114 0.24
202 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.31
Consensus pattern (198 bp):
CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAAT
GTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGATTTTATGAGAAAATAGGTAACAT
AATGTATCGACACTTTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGGGGTGC
AAG
Found at i:1069895 original size:200 final size:197
Alignment explanation
Indices: 1069538--1070061 Score: 653
Period size: 200 Copynumber: 2.6 Consensus size: 197
1069528 TGTTAAGAAT
* * *
1069538 ATAAAGTGTCGATACATTTATTAAAATTATTGATCCCAATAACATCGAAACCAATAATTATAATG
1 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAA-AACATCGAAACCGATAATTATAATG
* ** *
1069603 TAATAGGTAAATTTACAATGTAACTGGTATAAATATATCATTTTTATAAGAAAATATGTCAGCAT
65 TAATAGGTAAATTTACAATGT-ACTGGTATAAATATACCGGTTTTATAAGAAAATATGTCAGAAT
* * * *
1069668 AAAGTATCGACACTATTTAAATTTGTGTCGATACTTTTTGTCCATAATGAAT-GCCAAACGGGGT
129 AAAGTATCGACACTATTTAAATTTGTGTCGATACTTTTT-TCAAGAATAAATGGCC-AACGAGGT
1069732 GCACAC
192 GCACAC
* *
1069738 ATAAAATGTCGATACATTTATTAAAAGTATCGATCCCACAAACATCGAAACCGATAATTACAATG
1 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCA-AAACATCGAAACCGATAATTATAATG
* * * *
1069803 TGATAGGTAAATTTACAATGTACCCGATATAAATATACCGGTTTTATGAGAAAATATGTCTA-AA
65 TAATAGGTAAATTTACAATGTA-CTGGTATAAATATACCGGTTTTATAAGAAAATATGTC-AGAA
* * *
1069867 TAATGTATCGACACTTTTTAAGTTTGTGTCGATACTTTTTTCAAGAATAAATGGCCAACGAGGTG
128 TAAAGTATCGACACTATTTAAATTTGTGTCGATACTTTTTTCAAGAATAAATGGCCAACGAGGTG
**
1069932 CATGC
193 CACAC
* **
1069937 ATAAAGTGTCGATACATTTA--AAATTGTATCGATCTAAAAAACATCGAAACCGATAATTATAAT
1 ATAAAGTGTCGATACATTTATTAAA-AGTATCGATC-CCAAAACATCGAAACCGATAATTATAAT
* * * *
1070000 ATAATAGGTAAATTTACAATTTTACTGGTATAAATATACCGG-TTTACTTAGAAAATAGGTCA
64 GTAATAGGTAAATTTACAA-TGTACTGGTATAAATATACCGGTTTTA-TAAGAAAATATGTCA
1070062 ATATAAATGC
Statistics
Matches: 282, Mismatches: 34, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
197 8 0.03
198 78 0.28
199 44 0.16
200 150 0.53
201 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (197 bp):
ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAACATCGAAACCGATAATTATAATGT
AATAGGTAAATTTACAATGTACTGGTATAAATATACCGGTTTTATAAGAAAATATGTCAGAATAA
AGTATCGACACTATTTAAATTTGTGTCGATACTTTTTTCAAGAATAAATGGCCAACGAGGTGCAC
AC
Found at i:1070153 original size:86 final size:86
Alignment explanation
Indices: 1070062--1070262 Score: 348
Period size: 86 Copynumber: 2.3 Consensus size: 86
1070052 AAATAGGTCA
* *
1070062 ATATAAATGCTACCTATTACATTATATAAGCGCTACATAATATGTTATTGTACTTGATAATATTT
1 ATATAAGTGCTACCTATTACATTATATAAGCGCTACATAATATATTATTGTACTTGATAATATTT
**
1070127 TCGGTTAAATGTTATTTTATT
66 TCGGTTAAATACTATTTTATT
*
1070148 ATATAAGTGCTACCTATTACATTATATAAGCGCTACCTAATATATTATTGTACTTGATAATATTT
1 ATATAAGTGCTACCTATTACATTATATAAGCGCTACATAATATATTATTGTACTTGATAATATTT
1070213 TCGGTTAAATACTATTTTATT
66 TCGGTTAAATACTATTTTATT
*
1070234 ATATAAGCGCTACCTATTACATTATATAA
1 ATATAAGTGCTACCTATTACATTATATAA
1070263 ACGTTACCTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 109 1.00
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.43
Consensus pattern (86 bp):
ATATAAGTGCTACCTATTACATTATATAAGCGCTACATAATATATTATTGTACTTGATAATATTT
TCGGTTAAATACTATTTTATT
Found at i:1070165 original size:23 final size:23
Alignment explanation
Indices: 1070139--1070195 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
1070129 GGTTAAATGT
* *
1070139 TATTTTATTATATAAGTGCTACC
1 TATTATATTATATAAGCGCTACC
*
1070162 TATTACATTATATAAGCGCTACC
1 TATTATATTATATAAGCGCTACC
*
1070185 TAATATATTAT
1 TATTATATTAT
1070196 TGTACTTGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (23 bp):
TATTATATTATATAAGCGCTACC
Found at i:1070304 original size:23 final size:23
Alignment explanation
Indices: 1070231--1070295 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
1070221 ATACTATTTT
1070231 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
* *
1070254 ATTATATAAACGTTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
1070277 ATTATATAAGCGCTACCTA
1 ATTATATAAGCGCTACCTA
1070296 ATATGTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTATTAC
Found at i:1071042 original size:197 final size:199
Alignment explanation
Indices: 1070547--1071069 Score: 585
Period size: 200 Copynumber: 2.6 Consensus size: 199
1070537 TGTTAAGAAT
* * *
1070547 ATAAAGTGTCGATACATTTATTAAAAGTATTGATCCCAATAACATCGAAACCAATAATTATAATG
1 ATAAAGTGTCGATACATTTA-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* * * ** *
1070612 TAAT-AGATAAATTTACAATGTAACTGGTATAAATATATCATTTTTATAAGAAAATATGTCAGCA
65 TAATAAG-TAAATTTACAATTTTACTGGTATAAATATACCGGTTTTATAAGAAAATATGTCAGAA
* * * *
1070676 TAAAGTATCGATACTATTTAAATTTGTGTCGATACTTTTTGTCAATAATGAATGTCAAACGGGGT
129 TAAAGTATCGACACTATTTAAATTTGTGTCGATACTTTTTGTCAAGAATGAATGGCAAACGAGGT
1070741 GCTCAC
194 GCTCAC
* * *
1070747 ATAAAATGTCGATACATTTATTAAAAGTATCGATCCCACAAACATCGAAACCGATAATTACAATG
1 ATAAAGTGTCGATACATTTA-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* * * * * *
1070812 TGATAGGTAAATTTACAA-TGTACCCGATATAAATATACCGGTTTTATGAGAAAATATGTCTA-A
65 TAATAAGTAAATTTACAATTTTA-CTGGTATAAATATACCGGTTTTATAAGAAAATATGTC-AGA
** * * * *
1070875 ATAATTTATCGACACTTTTTAAGTTTGTGTCGATAC-TTTT-TCCAGAATGAATGGCCAACGAGG
128 ATAAAGTATCGACACTATTTAAATTTGTGTCGATACTTTTTGTCAAGAATGAATGGCAAACGAGG
*
1070938 TGCAT-GC
193 TGC-TCAC
* **
1070945 ATAAAGTGTCGATACATTTA-AAATTGTATCGATCTAAAAAACATCGAAACCGATAATTATAATG
1 ATAAAGTGTCGATACATTTATAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* ** * *
1071009 CAATAAGTAAATTTGTAATTTTACTGGTATAAATATACCGG-TTTACTTAGAAAATAAGTCA
65 TAATAAGTAAATTTACAATTTTACTGGTATAAATATACCGGTTTTA-TAAGAAAATATGTCA
1071070 ATATAAATGC
Statistics
Matches: 271, Mismatches: 45, Indels: 18
0.81 0.13 0.05
Matches are distributed among these distances:
196 8 0.03
197 76 0.28
198 44 0.16
199 6 0.02
200 135 0.50
201 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (199 bp):
ATAAAGTGTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGT
AATAAGTAAATTTACAATTTTACTGGTATAAATATACCGGTTTTATAAGAAAATATGTCAGAATA
AAGTATCGACACTATTTAAATTTGTGTCGATACTTTTTGTCAAGAATGAATGGCAAACGAGGTGC
TCAC
Found at i:1071167 original size:86 final size:86
Alignment explanation
Indices: 1071070--1071277 Score: 353
Period size: 86 Copynumber: 2.4 Consensus size: 86
1071060 AAATAAGTCA
* * *
1071070 ATATAAATGCTACCTATTATATTATATAAACGCTACCTAATCTGTTATTGTACTTGATAATATTT
1 ATATAAGTGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
*
1071135 TCGGTTAAATGTTATTTTATT
66 TCGGTTAAATGCTATTTTATT
* *
1071156 ATATAAGTGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTATTTGATAATATTT
1 ATATAAGTGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
1071221 TCGGTTAAATGCTATTTTATT
66 TCGGTTAAATGCTATTTTATT
*
1071242 ATATAAGCGCTACCTATTACATTATATAAACGCTAC
1 ATATAAGTGCTACCTATTACATTATATAAACGCTAC
1071278 TTATTACATT
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 114 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (86 bp):
ATATAAGTGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
TCGGTTAAATGCTATTTTATT
Found at i:1071203 original size:23 final size:23
Alignment explanation
Indices: 1071153--1071197 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1071143 ATGTTATTTT
* *
1071153 ATTATATAAGTGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
1071176 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
1071198 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:1071312 original size:23 final size:23
Alignment explanation
Indices: 1071239--1071303 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
1071229 ATGCTATTTT
1071239 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
* *
1071262 ATTATATAAACGCTACTTATTAC
1 ATTATATAAGCGCTACCTATTAC
1071285 ATTATATAAGCGCTACCTA
1 ATTATATAAGCGCTACCTA
1071304 ATATGTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTATTAC
Found at i:1074730 original size:16 final size:17
Alignment explanation
Indices: 1074709--1074744 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1074699 CCGACCCAAC
1074709 CCGTTGACC-ACGTTGA
1 CCGTTGACCGACGTTGA
*
1074725 CCGTTGACCGGCGTTGA
1 CCGTTGACCGACGTTGA
1074742 CCG
1 CCG
1074745 ATCGTTGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.14, C:0.33, G:0.31, T:0.22
Consensus pattern (17 bp):
CCGTTGACCGACGTTGA
Found at i:1078185 original size:2 final size:2
Alignment explanation
Indices: 1078178--1078211 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1078168 ACATTATACT
* *
1078178 TA TA TA TA TA TA TA TA TA TA TA CA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1078212 CTTAAACTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:1078187 original size:12 final size:12
Alignment explanation
Indices: 1078172--1078215 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
1078162 TAATTTACAT
1078172 TATACTTATATA
1 TATACTTATATA
1078184 TATA-TATATATA
1 TATACT-TATATA
* *
1078196 TATACATACATA
1 TATACTTATATA
1078208 TATACTTA
1 TATACTTA
1078216 AACTGTATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 1 0.04
12 26 0.96
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (12 bp):
TATACTTATATA
Found at i:1078668 original size:22 final size:21
Alignment explanation
Indices: 1078638--1078732 Score: 54
Period size: 22 Copynumber: 4.4 Consensus size: 21
1078628 TAATACATTA
1078638 ACACATTATAAGTATATATATAT
1 ACAC-TTATAA-TATATATATAT
* *
1078661 ACACTTATATAAATATATTTATT
1 ACACTTATA-ATATATATATA-T
* *
1078684 A-A-TATAAAAGTATATACATAT
1 ACACT-TATAA-TATATATATAT
1078705 ACA-TATATAA-ATATATATAT
1 ACACT-TATAATATATATATAT
*
1078725 AGACTTAT
1 ACACTTAT
1078733 TTAAATATAC
Statistics
Matches: 57, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
20 14 0.25
21 5 0.09
22 31 0.54
23 7 0.12
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.40
Consensus pattern (21 bp):
ACACTTATAATATATATATAT
Found at i:1078725 original size:36 final size:34
Alignment explanation
Indices: 1078685--1078815 Score: 83
Period size: 36 Copynumber: 3.8 Consensus size: 34
1078675 ATATTTATTA
*
1078685 ATATAAAAGTATATACATATACATATATAAATATAT
1 ATATAAAAGTATATAAATATACATATAT-AATA-AT
* ** *
1078721 ATATAGACTTATTTAAATATACATATATAAT-A-
1 ATATAAAAGTATATAAATATACATATATAATAAT
** *
1078753 ATAT-AAAGTAT-TATGTATA-AGTATATAAGTATT
1 ATATAAAAGTATATAAATATACA-TATATAA-TAAT
*
1078786 AAATATAAAGTATATATATATATACATATA
1 ATATA-AAAGTATATA-A-ATATACATATA
1078816 AACTTCTAGT
Statistics
Matches: 71, Mismatches: 14, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
29 1 0.01
30 13 0.18
31 5 0.07
32 4 0.06
33 4 0.06
35 10 0.14
36 25 0.35
38 8 0.11
39 1 0.01
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.39
Consensus pattern (34 bp):
ATATAAAAGTATATAAATATACATATATAATAAT
Found at i:1078737 original size:22 final size:21
Alignment explanation
Indices: 1078651--1078856 Score: 86
Period size: 22 Copynumber: 9.4 Consensus size: 21
1078641 CATTATAAGT
1078651 ATATATATATACACTTATATAA
1 ATATATATATA-ACTTATATAA
*
1078673 ATATATTTATTAA--TATA-AA
1 ATATATATA-TAACTTATATAA
* *
1078692 AGTATATACATATACATATATAA
1 A-TATATATATA-ACTTATATAA
*
1078715 ATATATATATAGACTTATTTAA
1 ATATATATATA-ACTTATATAA
*
1078737 ATATACATATATAA-TAATATAA
1 ATAT--ATATATAACTTATATAA
* *
1078759 AGTATTATGTATAA-GTATATAA
1 A-TA-TATATATAACTTATATAA
* * * *
1078781 GTATTAAATATAAAGTATATATAT
1 ATA-TATATAT-AACT-TATATAA
*
1078805 ATATACATATAAACTTCTAGTATAA
1 ATATATATAT-AAC-T-TA-TATAA
*
1078830 AT-TATATAT-ACATATATAA
1 ATATATATATAACTTATATAA
*
1078849 TTA-ATATA
1 ATATATATA
1078857 AAGTTAAGTA
Statistics
Matches: 143, Mismatches: 25, Indels: 35
0.70 0.12 0.17
Matches are distributed among these distances:
19 16 0.11
20 13 0.09
21 8 0.06
22 58 0.41
23 17 0.12
24 25 0.17
25 6 0.04
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (21 bp):
ATATATATATAACTTATATAA
Found at i:1078856 original size:28 final size:29
Alignment explanation
Indices: 1078802--1078858 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
1078792 AAAGTATATA
*
1078802 TATATATACATATAAACTTCTAGTATAAAT
1 TATATATACATATAAAC-TCTAATATAAAT
1078832 TATATATACATATATAA-T-TAATATAAA
1 TATATATACATATA-AACTCTAATATAAA
1078859 GTTAAGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 8 0.32
29 1 0.04
30 14 0.56
31 2 0.08
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (29 bp):
TATATATACATATAAACTCTAATATAAAT
Found at i:1078895 original size:22 final size:21
Alignment explanation
Indices: 1078870--1079192 Score: 89
Period size: 23 Copynumber: 14.5 Consensus size: 21
1078860 TTAAGTAAAG
1078870 TATAATTATAAAGACTAAAGTA
1 TATAATTATAAAGA-TAAAGTA
* * *
1078892 TATAAATATATTATATAAAGTA
1 TATAATTATA-AAGATAAAGTA
1078914 TATATACTTATAAAG-TACAAGTA
1 TATA-A-TTATAAAGATA-AAGTA
1078937 TATATATATACTTATAA-AGTACAAGTA
1 TATA-AT-TA--TA-AAGA-TA-AAGTA
1078964 TATATATATACTTTATAAG-TATAAGTA
1 TATA-AT-TA---TA-AAGATA-AAGTA
*
1078991 TATTA-TATATAA-A-AAAGTA
1 TATAATTATA-AAGATAAAGTA
*
1079010 TA-AA-TATAAAGCCTAAAGTA
1 TATAATTATAAAG-ATAAAGTA
*
1079030 TATAAGTATATAAATATAAAGTA
1 TATAA-T-TATAAAGATAAAGTA
* *
1079053 TATAAGTATATAATATAAAGTA
1 TATAATTATA-AAGATAAAGTA
** *
1079075 TATAAGCATTAA-ATATAAGTA
1 TATAATTATAAAGATA-AAGTA
* * *
1079096 TATAAATATAAAATATATAACTA
1 TATAATTAT-AAAGATA-AAGTA
1079119 TATAAGTATATATAA-ATAAA-TA
1 TATAA-T-TATA-AAGATAAAGTA
*
1079141 -ATAA-TATAAAG-TATAACTA
1 TATAATTATAAAGATA-AAGTA
* *
1079160 TATAATAATAATAATATAAAGTA
1 TATAATTAT-A-AAGATAAAGTA
*
1079183 TATAAGTATA
1 TATAATTATA
1079193 TATATATATA
Statistics
Matches: 240, Mismatches: 26, Indels: 70
0.71 0.08 0.21
Matches are distributed among these distances:
17 6 0.03
18 11 0.05
19 9 0.04
20 16 0.07
21 31 0.13
22 48 0.20
23 57 0.24
24 18 0.08
25 7 0.03
26 3 0.01
27 28 0.12
28 6 0.03
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (21 bp):
TATAATTATAAAGATAAAGTA
Found at i:1078946 original size:27 final size:27
Alignment explanation
Indices: 1078912--1079001 Score: 146
Period size: 27 Copynumber: 3.3 Consensus size: 27
1078902 TTATATAAAG
1078912 TATATATACTTATAAAGTACAAGTATA
1 TATATATACTTATAAAGTACAAGTATA
1078939 TATATATACTTATAAAGTACAAGTATA
1 TATATATACTTATAAAGTACAAGTATA
*
1078966 TATATATACTT-TATAAGTATAAGTATA
1 TATATATACTTATA-AAGTACAAGTATA
1078993 TTATATATA
1 -TATATATA
1079002 AAAAAGTATA
Statistics
Matches: 60, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
26 2 0.03
27 50 0.83
28 8 0.13
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.41
Consensus pattern (27 bp):
TATATATACTTATAAAGTACAAGTATA
Found at i:1079038 original size:8 final size:8
Alignment explanation
Indices: 1079025--1079194 Score: 131
Period size: 8 Copynumber: 23.1 Consensus size: 8
1079015 ATAAAGCCTA
1079025 AAGTATAT
1 AAGTATAT
1079033 AAGTATAT
1 AAGTATAT
*
1079041 AAATATA-
1 AAGTATAT
1079048 AAGTATAT
1 AAGTATAT
1079056 AAGTATAT
1 AAGTATAT
1079064 AA-TATA-
1 AAGTATAT
1079070 AAGTATAT
1 AAGTATAT
*
1079078 AAGCAT-T
1 AAGTATAT
1079085 AA--ATAT
1 AAGTATAT
1079091 AAGTATAT
1 AAGTATAT
*
1079099 AAATATA-
1 AAGTATAT
*
1079106 AAATATAT
1 AAGTATAT
*
1079114 AACTATAT
1 AAGTATAT
1079122 AAGTATAT
1 AAGTATAT
*
1079130 -A-TAAAT
1 AAGTATAT
*
1079136 AAATA-AT
1 AAGTATAT
1079143 AA-TATA-
1 AAGTATAT
1079149 AAG--TAT
1 AAGTATAT
*
1079155 AACTATAT
1 AAGTATAT
1079163 AA-TA-AT
1 AAGTATAT
1079169 AA-TAATAT
1 AAGT-ATAT
1079177 AAAGTATAT
1 -AAGTATAT
1079186 AAGTATAT
1 AAGTATAT
1079194 A
1 A
1079195 TATATATATA
Statistics
Matches: 136, Mismatches: 8, Indels: 36
0.76 0.04 0.20
Matches are distributed among these distances:
5 4 0.03
6 20 0.15
7 34 0.25
8 71 0.52
9 6 0.04
10 1 0.01
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (8 bp):
AAGTATAT
Found at i:1079052 original size:23 final size:23
Alignment explanation
Indices: 1079023--1079200 Score: 182
Period size: 23 Copynumber: 8.1 Consensus size: 23
1079013 ATATAAAGCC
1079023 TAAAGTATATAAGTATATAAATA
1 TAAAGTATATAAGTATATAAATA
1079046 TAAAGTATATAAGTATAT-AATA
1 TAAAGTATATAAGTATATAAATA
*
1079068 TAAAGTATATAAGCAT-TAAATA
1 TAAAGTATATAAGTATATAAATA
*
1079090 T-AAGTATATAAATATA-AAATA
1 TAAAGTATATAAGTATATAAATA
*
1079111 TATAACTATATAAGTATATATAA-A
1 TA-AAGTATATAAGTATATA-AATA
*
1079135 TAAA-TA-ATAA-TATA-AAGTA
1 TAAAGTATATAAGTATATAAATA
*
1079154 T-AACTATATAA-TA-ATAATAATA
1 TAAAGTATATAAGTATAT-A-AATA
*
1079176 TAAAGTATATAAGTATATATATA
1 TAAAGTATATAAGTATATAAATA
1079199 TA
1 TA
1079201 TATATACTTA
Statistics
Matches: 131, Mismatches: 9, Indels: 30
0.77 0.05 0.18
Matches are distributed among these distances:
18 3 0.02
19 6 0.05
20 10 0.08
21 24 0.18
22 30 0.23
23 47 0.36
24 7 0.05
25 4 0.03
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (23 bp):
TAAAGTATATAAGTATATAAATA
Found at i:1079153 original size:58 final size:58
Alignment explanation
Indices: 1079023--1079196 Score: 174
Period size: 58 Copynumber: 2.9 Consensus size: 58
1079013 ATATAAAGCC
* * * *
1079023 TAAAGTATATAAGTATATAAATATAAAGTATATAAGTATATAA-TATAAAGTATATAAGCA
1 TAAAATATA-AAGTATATAAATATAAAATATATAAGTATATAAGTATATA-TAAATAA-CA
* *
1079083 TTAAATAT-AAGTATATAAATATAAAATATATAACTATATAAGTATATATAAATAA-A
1 TAAAATATAAAGTATATAAATATAAAATATATAAGTATATAAGTATATATAAATAACA
*
1079139 TAATAATATAAAGTATAACTATATAATAATAATAATATAAAGTATATAAGTATATATA
1 TAA-AATATAAAGTAT-A-TAAAT-ATAA-AAT-ATAT-AAGTATATAAGTATATATA
1079197 TATATATATA
Statistics
Matches: 96, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
56 3 0.03
57 5 0.05
58 43 0.45
59 6 0.06
60 10 0.10
61 4 0.04
62 3 0.03
63 4 0.04
64 18 0.19
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (58 bp):
TAAAATATAAAGTATATAAATATAAAATATATAAGTATATAAGTATATATAAATAACA
Found at i:1079231 original size:14 final size:13
Alignment explanation
Indices: 1079212--1079295 Score: 80
Period size: 14 Copynumber: 6.1 Consensus size: 13
1079202 ATATACTTAA
1079212 ATACTTTATATTAT
1 ATACTTTATATT-T
1079226 ATAC-TTATACTTT
1 ATACTTTATA-TTT
** *
1079239 AGCCTTTATAATT
1 ATACTTTATATTT
1079252 ATACTTTATATTT
1 ATACTTTATATTT
1079265 AATACTTTATATTT
1 -ATACTTTATATTT
1079279 AATACTTATATACTTT
1 -ATACTT-TATA-TTT
1079295 A
1 A
1079296 AATTATTATA
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
13 20 0.34
14 31 0.53
15 5 0.08
16 3 0.05
ACGTcount: A:0.35, C:0.11, G:0.01, T:0.54
Consensus pattern (13 bp):
ATACTTTATATTT
Done.