Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008646.1 Hibiscus syriacus cultivar Beakdansim tig00111633_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: 1024377
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 4 of 5
Found at i:771474 original size:25 final size:24
Alignment explanation
Indices: 771441--771492 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
771431 GCTTTCAAAA
*
771441 ATTTTGTTTTCGAAACTATATAAT
1 ATTTTGTTTTCAAAACTATATAAT
*
771465 ATTTATGTTTTCAAAATTATATAAT
1 ATTT-TGTTTTCAAAACTATATAAT
771490 ATT
1 ATT
771493 GTAGACACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.52
Consensus pattern (24 bp):
ATTTTGTTTTCAAAACTATATAAT
Found at i:771556 original size:3 final size:3
Alignment explanation
Indices: 771548--771599 Score: 86
Period size: 3 Copynumber: 17.0 Consensus size: 3
771538 TAATAGTTAT
771548 TTA TTA TTA TTA TTAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
771594 CTA TTA
1 TTA TTA
771600 ATTTTATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:775787 original size:64 final size:64
Alignment explanation
Indices: 775689--776111 Score: 524
Period size: 64 Copynumber: 6.6 Consensus size: 64
775679 TTCATCTTTT
* * * ** *
775689 AGAGTCAATTTCAACTTCACAATGAAGGATATTGGACTCAATAAACAA-TGTTCCAAATTCATTT
1 AGAGTCAATTTCAACTTCACAGTGAAGGATATTGGACTCAACAAATAACT-TTCCAGTTTCATTC
* * *
775753 AGAGTCAATTTCAATTTCACAGTGAAGGATATTGGACTCAACAAATAACTTTCCAGTTTTATTT
1 AGAGTCAATTTCAACTTCACAGTGAAGGATATTGGACTCAACAAATAACTTTCCAGTTTCATTC
* * ** * * *
775817 AGAGTCAGTTTTAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCTAGTTTTATTC
1 AGAGTCAATTTCAACTTCACAGTGAAGGATATTGGACTCAACAAATAACTTTCCAGTTTCATTC
* * * * * *
775881 AGAGTTAATTTAAACTTCACAATGAATGATATTGGACTCAACAAAAAATTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGTGAAGGATATTGGACTCAACAAATAACTTTCCAGTTTCATTC
* ** *
775945 AGAGTCAATTTCAACTTCATAGAAAAGGATATTGGACTCAACAAATAACTTTCTAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGTGAAGGATATTGGACTCAACAAATAACTTTCCAGTTTCATTC
* * * * * *
776009 AGAGTCAATTTCAACTTTAAAGCGAAGAATATTGGACTCAACAAATAATTTTCCAGTTTCAATC
1 AGAGTCAATTTCAACTTCACAGTGAAGGATATTGGACTCAACAAATAACTTTCCAGTTTCATTC
* *
776073 AGAGTGAATTTCAACTTCACAGTGAAGGATATTAGACTC
1 AGAGTCAATTTCAACTTCACAGTGAAGGATATTGGACTC
776112 GAAATAATAC
Statistics
Matches: 310, Mismatches: 48, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
64 309 1.00
65 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (64 bp):
AGAGTCAATTTCAACTTCACAGTGAAGGATATTGGACTCAACAAATAACTTTCCAGTTTCATTC
Found at i:776043 original size:192 final size:192
Alignment explanation
Indices: 775689--776111 Score: 578
Period size: 192 Copynumber: 2.2 Consensus size: 192
775679 TTCATCTTTT
* * *
775689 AGAGTCAATTTCAACTTCACAATGAAGGATATTGGACTCAATAAACAATGTTCCAAATTCATTTA
1 AGAGTCAATTTCAACTTCACAATGAAGGATATTGGACTCAACAAAAAATGTTCCAAATTCATTCA
* ** * *
775754 GAGTCAATTTCAATTTCACAGTGAAGGATATTGGACTCAACAAATAACTTTCCAGTTTTATTTAG
66 GAGTCAATTTCAACTTCACAGAAAAGGATATTGGACTCAACAAATAACTTTCCAGTTTCATTCAG
* * * * * *
775819 AGTCAGTTTTAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCTAGTTTTATTC
131 AGTCAATTTCAACTTCACAACGAAGAATATTGGACTCAACAAACAACTTTCCAGTTTCAATC
* * * * **
775881 AGAGTTAATTTAAACTTCACAATGAATGATATTGGACTCAACAAAAAATTTTCCAGTTTCATTCA
1 AGAGTCAATTTCAACTTCACAATGAAGGATATTGGACTCAACAAAAAATGTTCCAAATTCATTCA
* *
775946 GAGTCAATTTCAACTTCATAGAAAAGGATATTGGACTCAACAAATAACTTTCTAGTTTCATTCAG
66 GAGTCAATTTCAACTTCACAGAAAAGGATATTGGACTCAACAAATAACTTTCCAGTTTCATTCAG
* * *
776011 AGTCAATTTCAACTTTA-AAGCGAAGAATATTGGACTCAACAAATAATTTTCCAGTTTCAATC
131 AGTCAATTTCAACTTCACAA-CGAAGAATATTGGACTCAACAAACAACTTTCCAGTTTCAATC
* * *
776073 AGAGTGAATTTCAACTTCACAGTGAAGGATATTAGACTC
1 AGAGTCAATTTCAACTTCACAATGAAGGATATTGGACTC
776112 GAAATAATAC
Statistics
Matches: 200, Mismatches: 30, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
191 2 0.01
192 198 0.99
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (192 bp):
AGAGTCAATTTCAACTTCACAATGAAGGATATTGGACTCAACAAAAAATGTTCCAAATTCATTCA
GAGTCAATTTCAACTTCACAGAAAAGGATATTGGACTCAACAAATAACTTTCCAGTTTCATTCAG
AGTCAATTTCAACTTCACAACGAAGAATATTGGACTCAACAAACAACTTTCCAGTTTCAATC
Found at i:776355 original size:121 final size:120
Alignment explanation
Indices: 776203--776605 Score: 574
Period size: 121 Copynumber: 3.3 Consensus size: 120
776193 CTCAAGATTG
* * *
776203 GATTTCAACTTCACGATGAAGGATATTGTGCCCACAAGCAACAATGAAACCTATGGATTTCAACT
1 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATGAACCCT-TGGATTTCAACT
*
776268 TCACGATGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCAT
65 TCACGATGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAAGAGCCATCCAT
* * *
776324 GATTTCAACTTCACGACGAAGGATATCGTGCCTACAAGCAGCAATGCAACCCTTGGATCTCAACT
1 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATG-AACCCTTGGATTTCAACT
** * * *
776389 TCACGACAAAGGATATCCAATTCAAATCTCAACATCATAACGAAAGAGCCATCCAT
65 TCACGATGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAAGAGCCATCCAT
* * * * * *
776445 GATTTTAAATTCACGAAGAAGGATATCGTGCCCATAAGCAACAATCCAACCCTTAGATTTCAACT
1 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAAT-GAACCCTTGGATTTCAACT
* * *
776510 TAACGATGAAGGATATCTAATTCAAAGCTCAACTTCACAACGAAGGAGCCATCCACT
65 TCACGATGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAAGAGCCATCCA-T
776567 -ATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCA
1 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCA
776606 GTGATAACTC
Statistics
Matches: 246, Mismatches: 33, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
121 240 0.98
122 6 0.02
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.23
Consensus pattern (120 bp):
GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATGAACCCTTGGATTTCAACTT
CACGATGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAAGAGCCATCCAT
Found at i:777814 original size:178 final size:183
Alignment explanation
Indices: 777529--777894 Score: 564
Period size: 178 Copynumber: 2.0 Consensus size: 183
777519 AAATTAAATG
*
777529 TTTTTTAATTCAAGAAAAAGTTTATAACTAATTTAAATAATATATAATTATAAAATAAAAATTTC
1 TTTTTTAATTCAAGAAAAAGTTTACAACTAATTTAAATAATATATAATTAT--AATAAAAATTTC
777594 AGATAAAGTTTTCAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTAATAA
64 AGATAAAGTTTTCAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTAATAA
*
777659 TTGAGTTTTAAATGGTTTCGGCTTAGCCCATATGTTATATATAATATATATAATA
129 TTGAGTTTTAAATGGTTTCGGCTGAGCCCATATGTTATATATAATATATATAATA
* *
777714 TTTTTTAATT-AA-AAAATAGTTTACAATTAATTTAAATAATATATAA-T-T-ATAAAAATTTTA
1 TTTTTTAATTCAAGAAAA-AGTTTACAACTAATTTAAATAATATATAATTATAATAAAAATTTCA
* * * *
777774 TAT-AATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAAT
65 GATAAAGTTTTCAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTAATAAT
* * *
777838 TGGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTATATATAATATATTTAATA
130 TGAGTTTTAAATGGTTTCGGCTGAGCCCATATGTTATATATAATATATATAATA
777892 TTT
1 TTT
777895 AAAATTTAAT
Statistics
Matches: 169, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
178 111 0.66
179 13 0.08
182 1 0.01
183 5 0.03
184 29 0.17
185 10 0.06
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.45
Consensus pattern (183 bp):
TTTTTTAATTCAAGAAAAAGTTTACAACTAATTTAAATAATATATAATTATAATAAAAATTTCAG
ATAAAGTTTTCAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTAATAATT
GAGTTTTAAATGGTTTCGGCTGAGCCCATATGTTATATATAATATATATAATA
Found at i:778820 original size:21 final size:19
Alignment explanation
Indices: 778792--778837 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
778782 TCATTGAGTC
778792 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
778812 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
778831 ACTTAGT
1 A-TTAGT
778838 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:789151 original size:21 final size:19
Alignment explanation
Indices: 789123--789168 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
789113 TCATTGAATC
789123 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
789143 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
789162 ACTTAGT
1 A-TTAGT
789169 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:789538 original size:121 final size:121
Alignment explanation
Indices: 789324--789557 Score: 405
Period size: 121 Copynumber: 1.9 Consensus size: 121
789314 ACAAGCGATC
* *
789324 AAGCAGCAGTGCAACCCTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCCCAACTT
1 AAGCAGCAATGCAACCCTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCCCAACAT
* *
789389 CACAATGAATGAGTCATCCATGATTTCAACTTCATGACGAAGGATATCGTGCCCAG
66 CACAACGAATGAGCCATCCATGATTTCAACTTCATGACGAAGGATATCGTGCCCAG
*
789445 AAGCAGCAATGCAACCCTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACAT
1 AAGCAGCAATGCAACCCTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCCCAACAT
* *
789510 CACAGCGAATGAGCCATCCATGATTTCAACTTCATGATGAAGGATATC
66 CACAACGAATGAGCCATCCATGATTTCAACTTCATGACGAAGGATATC
789558 CAATTCAAAG
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
121 106 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (121 bp):
AAGCAGCAATGCAACCCTTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCCCAACAT
CACAACGAATGAGCCATCCATGATTTCAACTTCATGACGAAGGATATCGTGCCCAG
Found at i:789578 original size:66 final size:66
Alignment explanation
Indices: 789465--789744 Score: 307
Period size: 66 Copynumber: 4.4 Consensus size: 66
789455 GCAACCCTTG
*
789465 GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACATCACAGCGAATGAGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACATCACAACGAATGAGCCATCCA
789530 T
66 T
* * * * *
789531 GATTTCAACTTCATGATGAAGGATATCCAATTCAAAGTTTAATATCACAACGAATGAGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACATCACAACGAATGAGCCATCCA
789596 T
66 T
* * * *
789597 GATTTCAACTTCACGACGAAGGATAT-C-A-T----GC-CCACA--AGAA-GCAAT-A-CAACCC
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACATCACAACG-AATGAGCCATCC
*
789649 TT
65 AT
* * *
789651 GGATTTCAACTTCATGACGAAGGATATCCAATTCAAATCTCAACTTCACAACGAATGAGCCATCC
1 -GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACATCACAACGAATGAGCCATCC
*
789716 AA
65 AT
*
789718 GATTTCAACTTCACAACGAAGGATATC
1 GATTTCAACTTCACGACGAAGGATATC
789745 ATGCCTAATG
Statistics
Matches: 172, Mismatches: 27, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
54 5 0.03
55 27 0.16
56 7 0.04
57 1 0.01
58 3 0.02
59 1 0.01
62 1 0.01
63 4 0.02
64 1 0.01
65 7 0.04
66 111 0.65
67 4 0.02
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (66 bp):
GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACATCACAACGAATGAGCCATCCA
T
Found at i:789616 original size:32 final size:32
Alignment explanation
Indices: 789515--789616 Score: 75
Period size: 32 Copynumber: 3.1 Consensus size: 32
789505 AACATCACAG
*
789515 CGAATGAGCCATCCATGATTTCAACTTCATGA
1 CGAATGAGCCATCCATGATTTCAACTTCACGA
* * * * * *
789547 TGAAGGATATCCAATTCA-AAGTTT-AA-TATCACAA
1 CGAATG--AGCC-ATCCATGA-TTTCAACT-TCACGA
789581 CGAATGAGCCATCCATGATTTCAACTTCACGA
1 CGAATGAGCCATCCATGATTTCAACTTCACGA
789613 CGAA
1 CGAA
789617 GGATATCATG
Statistics
Matches: 49, Mismatches: 13, Indels: 16
0.63 0.17 0.21
Matches are distributed among these distances:
31 7 0.14
32 19 0.39
33 2 0.04
34 14 0.29
35 7 0.14
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (32 bp):
CGAATGAGCCATCCATGATTTCAACTTCACGA
Found at i:789659 original size:187 final size:187
Alignment explanation
Indices: 789344--789744 Score: 624
Period size: 187 Copynumber: 2.1 Consensus size: 187
789334 GCAACCCTTG
* *
789344 GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCCCAACTTCACAATGAATGAGTCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCCCAACTTCACAACGAATGAGCCATCCA
* * * * *
789409 TGATTTCAACTTCATGACGAAGGATATCGTGCCCAGAAGCAGCAATGCAACCCTTGGATTTCAAC
66 TGATTTCAACTTCACGACGAAGGATATCATGCCCACAAGAAGCAATACAACCCTTGGATTTCAAC
* *
789474 TTCACGACGAAGGATATCCAATTCAAAGCTCAACATCACAGCGAATGAGCCATCCAT
131 TTCACGACGAAGGATATCCAATTCAAAGCTCAACATCACAACGAATGAGCCATCCAA
* * ***
789531 GATTTCAACTTCATGATGAAGGATATCCAATTCAAAGTTTAA-TATCACAACGAATGAGCCATCC
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCCCAACT-TCACAACGAATGAGCCATCC
789595 ATGATTTCAACTTCACGACGAAGGATATCATGCCCACAAGAAGCAATACAACCCTTGGATTTCAA
65 ATGATTTCAACTTCACGACGAAGGATATCATGCCCACAAGAAGCAATACAACCCTTGGATTTCAA
* * *
789660 CTTCATGACGAAGGATATCCAATTCAAATCTCAACTTCACAACGAATGAGCCATCCAA
130 CTTCACGACGAAGGATATCCAATTCAAAGCTCAACATCACAACGAATGAGCCATCCAA
*
789718 GATTTCAACTTCACAACGAAGGATATC
1 GATTTCAACTTCACGACGAAGGATATC
789745 ATGCCTAATG
Statistics
Matches: 193, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
186 1 0.01
187 192 0.99
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (187 bp):
GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCCCAACTTCACAACGAATGAGCCATCCA
TGATTTCAACTTCACGACGAAGGATATCATGCCCACAAGAAGCAATACAACCCTTGGATTTCAAC
TTCACGACGAAGGATATCCAATTCAAAGCTCAACATCACAACGAATGAGCCATCCAA
Found at i:789705 original size:34 final size:34
Alignment explanation
Indices: 789656--789744 Score: 94
Period size: 32 Copynumber: 2.7 Consensus size: 34
789646 CCCTTGGATT
** *
789656 TCAACTTCATGACGAAGGATATCCAATTCAA-ATC
1 TCAACTTCACAACGAAGGATATCC-ATCCAAGATC
* * *
789690 TCAACTTCACAACGAATG--AGCCATCCAAGATT
1 TCAACTTCACAACGAAGGATATCCATCCAAGATC
789722 TCAACTTCACAACGAAGGATATC
1 TCAACTTCACAACGAAGGATATC
789745 ATGCCTAATG
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
31 5 0.11
32 22 0.50
34 17 0.39
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (34 bp):
TCAACTTCACAACGAAGGATATCCATCCAAGATC
Found at i:789745 original size:121 final size:121
Alignment explanation
Indices: 789531--789749 Score: 370
Period size: 121 Copynumber: 1.8 Consensus size: 121
789521 AGCCATCCAT
* *
789531 GATTTCAACTTCATGATGAAGGATATCCAATTCAAAGTTTAATATCACAACGAATGAGCCATCCA
1 GATTTCAACTTCATGACGAAGGATATCCAATTCAAAGTTCAATATCACAACGAATGAGCCATCCA
* *
789596 TGATTTCAACTTCACGACGAAGGATATCATGCCCACAAGAAGCAATACAACCCTTG
66 AGATTTCAACTTCACAACGAAGGATATCATGCCCACAAGAAGCAATACAACCCTTG
789652 GATTTCAACTTCATGACGAAGGATATCCAATTCAAA-TCTCAACT-TCACAACGAATGAGCCATC
1 GATTTCAACTTCATGACGAAGGATATCCAATTCAAAGT-TCAA-TATCACAACGAATGAGCCATC
789715 CAAGATTTCAACTTCACAACGAAGGATATCATGCC
64 CAAGATTTCAACTTCACAACGAAGGATATCATGCC
789750 TAATGAATCG
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
120 1 0.01
121 90 0.98
122 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (121 bp):
GATTTCAACTTCATGACGAAGGATATCCAATTCAAAGTTCAATATCACAACGAATGAGCCATCCA
AGATTTCAACTTCACAACGAAGGATATCATGCCCACAAGAAGCAATACAACCCTTG
Found at i:790542 original size:3 final size:3
Alignment explanation
Indices: 790521--790577 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
790511 TATATATATA
* * * *
790521 TAT TAT AAT AAT TATT TAT TAT TCT TAT TAAT TAT TCT TAT TAT TA-
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
790567 TAT TAT TAT TA
1 TAT TAT TAT TA
790578 ATACTATTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 2 0.04
3 37 0.82
4 6 0.13
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:790550 original size:16 final size:16
Alignment explanation
Indices: 790531--790573 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 16
790521 TATTATAATA
790531 ATTATTTATTATTCTT
1 ATTATTTATTATTCTT
790547 ATTA---ATTATTCTT
1 ATTATTTATTATTCTT
790560 ATTATTATATTATT
1 ATTATT-TATTATT
790574 ATTAATACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 13 0.57
16 4 0.17
17 6 0.26
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTATTTATTATTCTT
Found at i:790662 original size:22 final size:21
Alignment explanation
Indices: 790615--790663 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
790605 CCACGTTCAA
790615 CCCA-CATTATCTCACCACTAC
1 CCCACCATTATCTCACCAC-AC
790636 CCCACCATTATCTCAACCAC-C
1 CCCACCATTATCTC-ACCACAC
790657 CACCACC
1 C-CCACC
790664 TCGCACGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.24
22 14 0.56
23 5 0.20
ACGTcount: A:0.29, C:0.53, G:0.00, T:0.18
Consensus pattern (21 bp):
CCCACCATTATCTCACCACAC
Found at i:791536 original size:25 final size:26
Alignment explanation
Indices: 791502--791556 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 26
791492 TTTTTTAAAA
791502 TTTAATATTTCATTTTTTTGAT-TTT-T
1 TTTAATATTT-A-TTTTTTGATATTTCT
791528 TTTAA-ATTTATTTTTTGATATTTCT
1 TTTAATATTTATTTTTTGATATTTCT
791553 TTTA
1 TTTA
791557 TTTTATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 9 0.33
24 4 0.15
25 9 0.33
26 5 0.19
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.71
Consensus pattern (26 bp):
TTTAATATTTATTTTTTGATATTTCT
Found at i:791559 original size:23 final size:22
Alignment explanation
Indices: 791515--791562 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 22
791505 AATATTTCAT
791515 TTTTTTGATTTTTTTTAAATTTA
1 TTTTTTGATTTTTTTT-AATTTA
*
791538 TTTTTTGATATTTCTTTTATTTTA
1 TTTTTTGAT-TTT-TTTTAATTTA
791562 T
1 T
791563 AATATAACGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 9 0.41
24 9 0.41
25 4 0.18
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (22 bp):
TTTTTTGATTTTTTTTAATTTA
Found at i:791934 original size:36 final size:36
Alignment explanation
Indices: 791881--792031 Score: 123
Period size: 37 Copynumber: 4.1 Consensus size: 36
791871 TCGCGACAAA
791881 TATATATGTTTCCAAAAATTGTTTTTAAAACTATATAT
1 TATATAT-TTT-CAAAAATTGTTTTTAAAACTATATAT
*
791919 TATACT-TTTTCAAAAATGTGTTTTCAAAACTATATGA-
1 TATA-TATTTTCAAAAAT-TGTTTTTAAAACTATAT-AT
* * * **
791956 TATATGTTTT-TAAAA-TGTATTTTCAAAC-CCATAT
1 TATATATTTTCAAAAATTGT-TTTTAAAACTATATAT
** *
791990 TATATATTTTCAAAAACCGATTTTTAAAATTATATAT
1 TATATATTTTCAAAAATTG-TTTTTAAAACTATATAT
792027 TATAT
1 TATAT
792032 GCTTAAAAAC
Statistics
Matches: 90, Mismatches: 13, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
33 1 0.01
34 14 0.16
35 11 0.12
36 20 0.22
37 37 0.41
38 6 0.07
39 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.46
Consensus pattern (36 bp):
TATATATTTTCAAAAATTGTTTTTAAAACTATATAT
Found at i:791948 original size:37 final size:37
Alignment explanation
Indices: 791882--792005 Score: 125
Period size: 36 Copynumber: 3.5 Consensus size: 37
791872 CGCGACAAAT
* *
791882 ATATATGTTTCCAAAAAT-TGTTTTTAAAACTATAT-
1 ATATATGTTTTCAAAAATGTGTTTTCAAAACTATATG
791917 ATTATACT-TTTTCAAAAATGTGTTTTCAAAACTATATG
1 A-TATA-TGTTTTCAAAAATGTGTTTTCAAAACTATATG
* * * *
791955 ATATATGTTTT-TAAAATGTATTTTCAAACCCATAT-
1 ATATATGTTTTCAAAAATGTGTTTTCAAAACTATATG
*
791990 -TATATATTTTCAAAAA
1 ATATATGTTTTCAAAAA
792006 CCGATTTTTA
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
34 9 0.12
35 5 0.07
36 35 0.47
37 25 0.33
38 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.45
Consensus pattern (37 bp):
ATATATGTTTTCAAAAATGTGTTTTCAAAACTATATG
Found at i:818916 original size:16 final size:17
Alignment explanation
Indices: 818878--818918 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
818868 GAGTATTTAA
* *
818878 AATTATTTTATATTTTT
1 AATTATTTAATATTATT
818895 AA-TATTTAATA-TATT
1 AATTATTTAATATTATT
818910 AATTATTTA
1 AATTATTTA
818919 TAATTTTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 5 0.24
16 14 0.67
17 2 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AATTATTTAATATTATT
Found at i:819075 original size:2 final size:2
Alignment explanation
Indices: 819061--819105 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
819051 TATTTTTTTC
*
819061 AT AT -T AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
819101 TT AT A
1 AT AT A
819106 AAAATTATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:823214 original size:38 final size:39
Alignment explanation
Indices: 823133--823270 Score: 192
Period size: 39 Copynumber: 3.5 Consensus size: 39
823123 TTTGAATAAT
* *
823133 TACTAAAATGAAACAAAAACTAAAAGTTTTTAATGACAT-A
1 TACTAAAATGAAACAAAAACT-AAAGTTTTTAACGGC-TGA
*
823173 TACT-AAATGAAATAAAAACTAAAGTTTTTAACGGCTGA
1 TACTAAAATGAAACAAAAACTAAAGTTTTTAACGGCTGA
*
823211 TACTAAAATGAAATAAAAACTAAAGTTTTTAACGG-TGGA
1 TACTAAAATGAAACAAAAACTAAAGTTTTTAACGGCT-GA
823250 TACTAAAATGAAACAAAAACT
1 TACTAAAATGAAACAAAAACT
823271 TAACTTTAAG
Statistics
Matches: 91, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
37 1 0.01
38 19 0.21
39 67 0.74
40 4 0.04
ACGTcount: A:0.52, C:0.10, G:0.11, T:0.27
Consensus pattern (39 bp):
TACTAAAATGAAACAAAAACTAAAGTTTTTAACGGCTGA
Found at i:828221 original size:26 final size:25
Alignment explanation
Indices: 828191--828273 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 25
828181 AAAATAAAAA
828191 AAAATATTTTAAATTAAGTTAATAAT
1 AAAATATTTTAAATTAAGTTAAT-AT
* *
828217 GAAATATTTTTAA-TAAGTTAATAT
1 AAAATATTTTAAATTAAGTTAATAT
828241 AAAATTATTTTTAAATTTAA--TATATAT
1 AAAA-TA-TTTTAAA-TTAAGTTA-ATAT
828268 AAAATA
1 AAAATA
828274 ATATGAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
24 5 0.10
25 11 0.23
26 21 0.44
27 8 0.17
28 3 0.06
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (25 bp):
AAAATATTTTAAATTAAGTTAATAT
Found at i:828238 original size:25 final size:25
Alignment explanation
Indices: 828168--828254 Score: 86
Period size: 25 Copynumber: 3.4 Consensus size: 25
828158 AATAAAATAT
** * *
828168 ATATTTTTAATTTAAAATAAAAAAAA
1 ATATTTTTAA-TTAAGTTAATATAAA
* *
828194 ATATTTTAAATTAAGTTAATAATGAA
1 ATATTTTTAATTAAGTTAAT-ATAAA
828220 ATATTTTTAA-TAAGTTAATATAAA
1 ATATTTTTAATTAAGTTAATATAAA
828244 ATTATTTTTAA
1 A-TATTTTTAA
828255 ATTTAATATA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
24 5 0.10
25 25 0.49
26 21 0.41
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (25 bp):
ATATTTTTAATTAAGTTAATATAAA
Found at i:831963 original size:20 final size:20
Alignment explanation
Indices: 831938--831989 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
831928 GGCTTGACTA
831938 GTATCGATACTATGATCATG
1 GTATCGATACTATGATCATG
831958 GTATCGATACTATGATCATG
1 GTATCGATACTATGATCATG
831978 GTATCGATACTA
1 GTATCGATACTA
831990 CAGTGTAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (20 bp):
GTATCGATACTATGATCATG
Found at i:832888 original size:18 final size:18
Alignment explanation
Indices: 832862--832910 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
832852 AAGAAAAAGA
*
832862 AAAAGAAAATAAATAAA-
1 AAAATAAAATAAATAAAC
*
832879 ACAAATAAAACAAATAAAC
1 A-AAATAAAATAAATAAAC
832898 AAAATAATAATAA
1 AAAATAA-AATAA
832911 CAAAGTACGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 20 0.77
19 5 0.19
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (18 bp):
AAAATAAAATAAATAAAC
Found at i:832896 original size:22 final size:22
Alignment explanation
Indices: 832868--832914 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
832858 AAGAAAAAGA
*
832868 AAATAAATAAAACAAATAA-AAC
1 AAATAAACAAAA-AAATAATAAC
*
832890 AAATAAACAAAATAATAATAAC
1 AAATAAACAAAAAAATAATAAC
832912 AAA
1 AAA
832915 GTACGAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.15
Consensus pattern (22 bp):
AAATAAACAAAAAAATAATAAC
Found at i:832904 original size:9 final size:9
Alignment explanation
Indices: 832867--832900 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
832857 AAAGAAAAAG
*
832867 AAAATAAAT
1 AAAACAAAT
832876 AAAACAAAT
1 AAAACAAAT
832885 AAAACAAAT
1 AAAACAAAT
832894 -AAACAAA
1 AAAACAAA
832901 ATAATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAACAAAT
Found at i:833214 original size:2 final size:2
Alignment explanation
Indices: 833207--833271 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
833197 CTTGTGTAGA
833207 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
833249 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
833272 ATAATAATAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:833482 original size:10 final size:10
Alignment explanation
Indices: 833469--833507 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
833459 TTTAAAAAGA
*
833469 ACATACATAT
1 ACATATATAT
833479 ACATATATAT
1 ACATATATAT
*
833489 ATATATATAT
1 ACATATATAT
*
833499 ATATATATA
1 ACATATATA
833508 AAAATAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (10 bp):
ACATATATAT
Found at i:833488 original size:2 final size:2
Alignment explanation
Indices: 833475--833507 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
833465 AAGAACATAC
*
833475 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
833508 AAAATAATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:833525 original size:12 final size:11
Alignment explanation
Indices: 833510--833539 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
833500 TATATATAAA
833510 AATAATACAAG
1 AATAATACAAG
833521 TAATAATACAAG
1 -AATAATACAAG
833533 AATAATA
1 AATAATA
833540 AAAAGAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (11 bp):
AATAATACAAG
Found at i:833585 original size:22 final size:22
Alignment explanation
Indices: 833558--833604 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
833548 GAGAAAGTAA
833558 AAAAAATATA-ATAATAAAATAT
1 AAAAAATATACAT-ATAAAATAT
*
833580 AAAAAATATACATATATAATAT
1 AAAAAATATACATATAAAATAT
833602 AAA
1 AAA
833605 TAAGTAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAAAATATACATATAAAATAT
Found at i:833639 original size:24 final size:23
Alignment explanation
Indices: 833612--833667 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
833602 AAATAAGTAG
833612 AATAAAAGAAAATATAATAGTAAA
1 AATAAAA-AAAATATAATAGTAAA
* *
833636 AATAATAATAAATATAATAGTAAT
1 AATAA-AAAAAATATAATAGTAAA
833660 AATAAAAA
1 AATAAAAA
833668 TGCAAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 2 0.07
24 24 0.86
25 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (23 bp):
AATAAAAAAAATATAATAGTAAA
Found at i:833640 original size:12 final size:12
Alignment explanation
Indices: 833620--833664 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
833610 AGAATAAAAG
833620 AAAATATAATAGT
1 AAAA-ATAATAGT
*
833633 AAAAATAATAAT
1 AAAAATAATAGT
*
833645 AAATATAATAGT
1 AAAAATAATAGT
*
833657 AATAATAA
1 AAAAATAA
833665 AAATGCAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (12 bp):
AAAAATAATAGT
Found at i:833646 original size:30 final size:27
Alignment explanation
Indices: 833555--833668 Score: 79
Period size: 30 Copynumber: 3.9 Consensus size: 27
833545 AAAGAGAAAG
833555 TAAAAAAAATATAATA-ATAAAATATAA
1 TAAAAAAAATATAATATA-AAAATATAA
*
833582 -AAAATATACATATATAATATAAATAAGTAGAA
1 TAAAA-A-A-A-ATATAATATAAA-AA-TATAA
833614 TAAAAGAAAATATAATAGTAAAAATAATAA
1 TAAAA-AAAATATAATA-TAAAAAT-ATAA
* *
833644 TAAATATAATAGTAATAATAAAAAT
1 TAAAAAAAATA-TAAT-ATAAAAAT
833669 GCAAAGAAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
26 4 0.06
27 1 0.01
28 1 0.01
29 7 0.10
30 38 0.54
31 9 0.13
32 5 0.07
33 5 0.07
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (27 bp):
TAAAAAAAATATAATATAAAAATATAA
Found at i:834271 original size:37 final size:37
Alignment explanation
Indices: 834230--834334 Score: 131
Period size: 37 Copynumber: 2.8 Consensus size: 37
834220 GTGCTTGTGG
*
834230 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCATAGTAGAACTCT
* * *
834267 ATCCTATTTTTAGGAGTTTAAAT-ACTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCA-TAGTAGAACTCT
* * *
834304 ATCTTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTAAATCATAGTAG
834335 GACGAAAAAG
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
36 1 0.02
37 56 0.98
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCATAGTAGAACTCT
Found at i:835255 original size:106 final size:106
Alignment explanation
Indices: 835065--836441 Score: 2191
Period size: 106 Copynumber: 13.0 Consensus size: 106
835055 GCATTGTTCT
* ** *
835065 GAGTCCAATATCC-TC-CATCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGAC
1 GAGTCCAATATCCTTCGC-T-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGAC
* * *
835128 AACTAGCCGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
64 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * * *
835171 GAGTCCAATATCTTTCGCTGTGAAGTTAAAATTGGCTCCGAAATAGGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
835236 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
835277 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
835342 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
835383 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
835448 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
835489 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
835554 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
835595 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
835660 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
835701 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATAGGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
835766 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
835807 GAGTCCAATATCCTTCGCTGTGTAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
835872 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
835913 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
835978 CCAGCGGTCCCTTCGTCGTGAAATTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
836019 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTAACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
836084 CCAGCGGTCCCTTCGTCCTGAAGTTGAACTTGCGTCGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
836125 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTCGCTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
836190 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTACGTTGTGTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
836231 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
836296 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
836337 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
836402 CCAGCGGTCCCTTCATTGTGAAGTTGAGCTTGTGTTGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
836442 TTAGTGGCAC
Statistics
Matches: 1183, Mismatches: 86, Indels: 4
0.93 0.07 0.00
Matches are distributed among these distances:
106 1179 1.00
107 3 0.00
108 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:836845 original size:30 final size:32
Alignment explanation
Indices: 836809--836870 Score: 92
Period size: 30 Copynumber: 2.0 Consensus size: 32
836799 TTTGCATTAG
836809 GATGTTGAATC-CAAAAATGCCCC-AATATTT
1 GATGTTGAATCTCAAAAATGCCCCAAATATTT
*
836839 GATGTTGAATCTTCAAAGATGCCCCAAATATT
1 GATGTTGAATC-TCAAAAATGCCCCAAATATT
836871 CCTCATTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 11 0.39
32 11 0.39
33 6 0.21
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (32 bp):
GATGTTGAATCTCAAAAATGCCCCAAATATTT
Found at i:837280 original size:22 final size:21
Alignment explanation
Indices: 837254--837305 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 21
837244 TGTTTGGTCA
837254 AAGGTTTGGCATTTGATGCTC
1 AAGGTTTGGCATTTGATGCTC
837275 ATAGGTTTGGCATTTGATGCTC
1 A-AGGTTTGGCATTTGATGCTC
837297 AACGGTTTG
1 AA-GGTTTG
837306 ATGGGGTAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.19, C:0.13, G:0.29, T:0.38
Consensus pattern (21 bp):
AAGGTTTGGCATTTGATGCTC
Found at i:837995 original size:172 final size:173
Alignment explanation
Indices: 837700--838038 Score: 522
Period size: 172 Copynumber: 2.0 Consensus size: 173
837690 TAAATAGGCC
* *
837700 CAAACAAGTATTTCAGGATGTTGAACCAAGGATCAATTCATTCTGATGCCTTCAATCATGTCCTG
1 CAAACAAGTATTTCAGGATGTTGAACCAAGGATCAATTCATTATGATGCCTTCAA-CA-GTCCTA
837765 CTCAAAATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAATGATTCGAGAATG
64 CTCAAAATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAATGATTCGAGAATG
* * *
837830 ATTGTGCTTGATCAATCTTATAGTTTGAGGCTTGATGTGCCATTT
129 ATTATGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
* * *
837875 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGTCTTC-A-A-TCCTACT
1 CAAACAAGTATTTCAGGATGTTGAACCAAGGATCAATTCATTATGATGCCTTCAACAGTCCTACT
* * *
837937 CAAAATTTTTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATG
66 CAAAA--TGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAATGATTCGAGAATG
838002 ATTATGCTTGATCAATCTCATAGTTTGAAGCTTGATG
129 ATTATGCTTGATCAATCTCATAGTTTGAAGCTTGATG
838039 CACCATTTGT
Statistics
Matches: 151, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
170 11 0.07
172 90 0.60
174 1 0.01
175 49 0.32
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (173 bp):
CAAACAAGTATTTCAGGATGTTGAACCAAGGATCAATTCATTATGATGCCTTCAACAGTCCTACT
CAAAATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAATGATTCGAGAATGAT
TATGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
Found at i:838148 original size:21 final size:20
Alignment explanation
Indices: 838095--838157 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 20
838085 TTCTTTTTGA
* *
838095 TTTTTG-TTCTTGTTTCTCT
1 TTTTTGCTTCTTTTTTTTCT
*
838114 TTTTT-CTTTGTTTTTTTTGCT
1 TTTTTGC-TTCTTTTTTTT-CT
838135 TTTTTGCTTCTTTTATTTT-T
1 TTTTTGCTTCTTTT-TTTTCT
838155 TTT
1 TTT
838158 CTTTATTGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
19 5 0.14
20 12 0.34
21 13 0.37
22 5 0.14
ACGTcount: A:0.02, C:0.11, G:0.08, T:0.79
Consensus pattern (20 bp):
TTTTTGCTTCTTTTTTTTCT
Found at i:841613 original size:19 final size:19
Alignment explanation
Indices: 841580--841616 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
841570 TGCAGATGAT
841580 GGAAATAAAATAAAAGAGA
1 GGAAATAAAATAAAAGAGA
841599 GGAAA-AAAATGAAAAGAG
1 GGAAATAAAAT-AAAAGAG
841617 TTAGTAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (19 bp):
GGAAATAAAATAAAAGAGA
Found at i:842840 original size:22 final size:21
Alignment explanation
Indices: 842775--842853 Score: 65
Period size: 22 Copynumber: 3.6 Consensus size: 21
842765 AAATAGTAAG
842775 TAAA-AAAACAAATAATAAAATA
1 TAAATAAAACAAATAA-AAAA-A
* *
842797 TATATAAAA-AAGAAAAAGAAAA
1 TAAATAAAACAA-ATAAA-AAAA
842819 TAAATAAAACAAATAAACAAAA
1 TAAATAAAACAAATAAA-AAAA
842841 T-AATAATAACAAA
1 TAAATAA-AACAAA
842854 GTACGAATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
21 5 0.11
22 30 0.64
23 12 0.26
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (21 bp):
TAAATAAAACAAATAAAAAAA
Found at i:843164 original size:2 final size:2
Alignment explanation
Indices: 843157--843219 Score: 92
Period size: 2 Copynumber: 31.5 Consensus size: 2
843147 CTTGTGTAGA
843157 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
* *
843199 AT A- AT AGT AA AT GT AT AT AT A
1 AT AT AT A-T AT AT AT AT AT AT A
843220 ACAACAATAA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
1 1 0.02
2 52 0.95
3 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:843431 original size:12 final size:11
Alignment explanation
Indices: 843404--843443 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
843394 ATATATATAT
* *
843404 ATAATATAAAA
1 ATAATACAAGA
843415 ATAATACAAGTA
1 ATAATACAAG-A
843427 ATAATACAAGA
1 ATAATACAAGA
843438 ATAATA
1 ATAATA
843444 AAAAGAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (11 bp):
ATAATACAAGA
Found at i:843549 original size:12 final size:12
Alignment explanation
Indices: 843527--843571 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
843517 GAATAAAAGA
843527 AAAATATAATAGT
1 AAAA-ATAATAGT
*
843540 AAAAATAATAAT
1 AAAAATAATAGT
*
843552 AAATATAATAGT
1 AAAAATAATAGT
*
843564 AATAATAA
1 AAAAATAA
843572 AAATGCAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (12 bp):
AAAAATAATAGT
Found at i:843718 original size:2 final size:2
Alignment explanation
Indices: 843711--843757 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
843701 CGGGTTTAAA
843711 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
843752 AT -T AT A
1 AT AT AT A
843758 ATAATTAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:845036 original size:11 final size:10
Alignment explanation
Indices: 845020--845092 Score: 55
Period size: 11 Copynumber: 7.3 Consensus size: 10
845010 TCTTATTTAT
845020 TTTATTAGTA
1 TTTATTAGTA
845030 TTATATTAGTA
1 TT-TATTAGTA
* *
845041 TTTTTTATTA
1 TTTATTAGTA
845051 TTTATCTA-T-
1 TTTAT-TAGTA
*
845060 CTTATT--TA
1 TTTATTAGTA
845068 TTTTATTAGTA
1 -TTTATTAGTA
845079 TTATATTAGTA
1 TT-TATTAGTA
845090 TTT
1 TTT
845093 TTTAATTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 9 0.18
10 16 0.31
11 24 0.47
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.64
Consensus pattern (10 bp):
TTTATTAGTA
Found at i:845057 original size:49 final size:50
Alignment explanation
Indices: 844999--845103 Score: 203
Period size: 49 Copynumber: 2.1 Consensus size: 50
844989 GTATCCTTAT
844999 TTATTTATCTATCTTATTTATTTTATTAGTATTATATTAGTATTTTTT-A
1 TTATTTATCTATCTTATTTATTTTATTAGTATTATATTAGTATTTTTTAA
845048 TTATTTATCTATCTTATTTATTTTATTAGTATTATATTAGTATTTTTTAA
1 TTATTTATCTATCTTATTTATTTTATTAGTATTATATTAGTATTTTTTAA
845098 TTATTT
1 TTATTT
845104 TTTTTCATAT
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 48 0.87
50 7 0.13
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.66
Consensus pattern (50 bp):
TTATTTATCTATCTTATTTATTTTATTAGTATTATATTAGTATTTTTTAA
Found at i:845119 original size:49 final size:49
Alignment explanation
Indices: 844999--845120 Score: 174
Period size: 49 Copynumber: 2.5 Consensus size: 49
844989 GTATCCTTAT
* *
844999 TTATTTATCTATCTTATTTATTTTATTAGTATTATATTAGTATTTTTTA
1 TTATTTATCTATCATATATATTTTATTAGTATTATATTAGTATTTTTTA
* *
845048 TTATTTATCTATCTTATTTATTTTATTAGTATTATATTAGTATTTTTTAA
1 TTATTTATCTATCATATATATTTTATTAGTATTATATTAGTATTTTTT-A
* *
845098 TTATTT-TTTTTCATATATATTTT
1 TTATTTATCTATCATATATATTTT
845121 TATTTTTTAA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
49 61 0.90
50 7 0.10
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.66
Consensus pattern (49 bp):
TTATTTATCTATCATATATATTTTATTAGTATTATATTAGTATTTTTTA
Found at i:848163 original size:9 final size:8
Alignment explanation
Indices: 848126--848187 Score: 54
Period size: 9 Copynumber: 7.4 Consensus size: 8
848116 TAAAAAGGGC
*
848126 AAAAAGGA
1 AAAAAGAA
848134 AAAAAGAA
1 AAAAAGAA
*
848142 GTAAAA-AA
1 -AAAAAGAA
*
848150 TAAAAGCAA
1 AAAAAG-AA
848159 AAAAAGAA
1 AAAAAGAA
848167 CAAAAAGAAA
1 -AAAAAG-AA
848177 AAAAAGAA
1 AAAAAGAA
848185 AAA
1 AAA
848188 GGGACAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
7 5 0.11
8 16 0.35
9 23 0.50
10 2 0.04
ACGTcount: A:0.81, C:0.03, G:0.13, T:0.03
Consensus pattern (8 bp):
AAAAAGAA
Found at i:848196 original size:18 final size:19
Alignment explanation
Indices: 848151--848197 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
848141 AGTAAAAAAT
848151 AAAAG-CAAAAAAAGAACA
1 AAAAGACAAAAAAAGAACA
848169 AAAAGA-AAAAAAAGAA-A
1 AAAAGACAAAAAAAGAACA
**
848186 AAGGGACAAAAA
1 AAAAGACAAAAA
848198 GAACATGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAAGACAAAAAAAGAACA
Found at i:848197 original size:34 final size:34
Alignment explanation
Indices: 848117--848202 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 34
848107 CAATCAGAAT
*
848117 AAAAAGGG-CAAAAAGGA-AAAAAGAAGTAAAAAA
1 AAAAAGGGACAAAAAGAACAAAAAGAAG-AAAAAA
* * *
848150 TAAAA-GCAAAAAAAGAACAAAAAGAA-AAAAAA
1 AAAAAGGGACAAAAAGAACAAAAAGAAGAAAAAA
848182 GAAAAAGGGACAAAAAGAACA
1 -AAAAAGGGACAAAAAGAACA
848203 TGCAAAGATT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
32 7 0.17
33 15 0.36
34 20 0.48
ACGTcount: A:0.74, C:0.06, G:0.17, T:0.02
Consensus pattern (34 bp):
AAAAAGGGACAAAAAGAACAAAAAGAAGAAAAAA
Found at i:848810 original size:22 final size:22
Alignment explanation
Indices: 848782--848832 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
848772 CCCCATCAAT
848782 CCTTTGAGCATCAAATACCAAA
1 CCTTTGAGCATCAAATACCAAA
*
848804 CCTTTGAGCATCAAATGCCAAA
1 CCTTTGAGCATCAAATACCAAA
848826 CCTTTGA
1 CCTTTGA
848833 CCAAACACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACCAAA
Found at i:849732 original size:106 final size:106
Alignment explanation
Indices: 849547--852336 Score: 4761
Period size: 106 Copynumber: 26.3 Consensus size: 106
849537 AATTTGCTCG
849547 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
849612 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
*
849653 AGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
849718 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* * *
849759 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
849824 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
849865 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
849930 CGAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
*
849971 AAGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 -AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
850036 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
65 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* * * *
850078 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * * *
850143 CGAAGGGACTGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
850184 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
850249 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
850290 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
850355 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* * *
850396 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
850461 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
*
850502 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
850567 CGAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
*
850608 AAGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 -AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
850673 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
65 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* * * *
850715 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * * *
850780 CGAAGGGACTGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
850821 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
850886 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
850927 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
850992 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* * *
851033 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * * *
851098 CGAAGGGACCGCTGGTTGTCAACAAATAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
851139 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
851204 CGAAGGGACCGCTGGTTGTCAATAAAAAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
*
851245 AAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 -AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
851310 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
65 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* * * *
851352 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
851417 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
*
851458 AGAGCCAATTTCAACTTCACAACGAAGGATATCGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
851523 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
851564 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
851629 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* * *
851670 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
851735 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
851776 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
851841 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
851882 AAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 -AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
851947 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
65 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* * * * *
851989 AGAGTCAATTTCACCTTCACAGCGAAGGACATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
852054 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
*
852095 AGAGCCAATTTCAACTTCACAAAGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
852160 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* *
852201 AAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACA
1 -AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC-
* * * * * *
852266 AACGAAGGGACGGCTGGTTGTCAACAAACAATTTTCCAGTTCC
64 GACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
* * *
852309 AGAACCAATTTCAACTCCACGACGAAGG
1 AGAGCCAATTTCAACTTCACAACGAAGG
852337 GAATCGTACA
Statistics
Matches: 2535, Mismatches: 143, Indels: 11
0.94 0.05 0.00
Matches are distributed among these distances:
106 1997 0.79
107 501 0.20
108 37 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
Found at i:850620 original size:531 final size:530
Alignment explanation
Indices: 849547--852336 Score: 4799
Period size: 531 Copynumber: 5.3 Consensus size: 530
849537 AATTTGCTCG
*
849547 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
* *
849612 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAATG
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
849677 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
* * *
849742 AACAATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACG
196 AACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
*
849807 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
261 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCA
849872 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
326 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * *
849937 ACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAAGAGCCAATTTCAACTTCACAATGAAGGAT
391 ACCGCTGGTTGTCAATAAACAACTTCTCAATTTC-AGAGCCAATTTCAACTTCACAACGAAGGAT
850002 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
455 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
850067 TTCCCAATTTC
520 TTCCCAATTTC
* * *
850078 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
*
850143 CGAAGGGACTGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
850208 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
* *
850273 AACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
196 AACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * *
850338 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGTCA
261 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCA
* *
850403 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGG
326 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
850468 ACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
391 ACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
* *
850533 TTGGACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAATAATT
456 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATT
850598 TCCCAATTTC
521 TCCCAATTTC
* *
850608 AAGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 -AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACG
* * * * *
850673 ACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGC
65 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAAC
* * * *
850738 GAAGGATATTGGACTCAAGACAATGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAAC
130 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAT
* *
850803 AAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
195 AAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
850868 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
260 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
850933 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
325 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * *
850998 GACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGAT
390 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
* * * *
851063 ATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAAC
455 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
*
851128 TTCTCAATTTC
520 TTCCCAATTTC
*
851139 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
* * * * *
851204 CGAAGGGACCGCTGGTTGTCAATAAAAAATTTCCCAATTTCAAGAGCCAATTTCAACTTCACAGC
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC-AGAGCCAATTTCAACTTCACAAC
851269 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAT
130 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAT
* * * *
851334 AAACAATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAAT
195 AAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
*
851399 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCC
260 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
*
851464 AATTTCAACTTCACAACGAAGGATATCGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
325 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
851529 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
390 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
851594 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
455 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
851659 TTCCCAATTTC
520 TTCCCAATTTC
* *
851670 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
851735 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
66 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
851800 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
851865 AACAATTTCCCAATTTCAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
196 AACAATTTCCCAATTTC-AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAAC
* * *
851930 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGTC
260 GCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCC
* * * *
851995 AATTTCACCTTCACAGCGAAGGACATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGG
325 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
852060 GACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAAAGAAGGAT
390 GACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
852125 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
455 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
852190 TTCCCAATTTC
520 TTCCCAATTTC
*
852201 AAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACA
1 -AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCAC-
* * * * * * * *
852266 AACGAAGGGACGGCTGGTTGTCAACAAACAA-TTTTCCAGTTCCAGAACCAATTTCAACTCCACG
64 GACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT-CAATTTCAGAGCCAATTTCAACTTCACA
852330 ACGAAGG
128 ACGAAGG
852337 GAATCGTACA
Statistics
Matches: 2142, Mismatches: 111, Indels: 10
0.95 0.05 0.00
Matches are distributed among these distances:
530 312 0.15
531 1706 0.80
532 65 0.03
533 59 0.03
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (530 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
AACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCA
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATT
TCCCAATTTC
Found at i:850762 original size:637 final size:637
Alignment explanation
Indices: 849547--852324 Score: 5295
Period size: 637 Copynumber: 4.4 Consensus size: 637
849537 AATTTGCTCG
849547 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
849612 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAATG
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
849677 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
849742 AACAATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACG
196 AACAATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACG
849807 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
261 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
849872 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
326 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
849937 ACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAAGAGCCAATTTCAACTTCACAATGAAGGAT
391 ACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAAGAGCCAATTTCAACTTCACAACGAAGGAT
850002 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
456 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
850067 TTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTT
521 TTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTT
*
850132 CAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAACTTCTCAATTTC
586 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
850184 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
850249 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
850314 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
850379 AACAATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACG
196 AACAATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACG
850444 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
261 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
*
850509 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGG
326 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
850574 ACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAAGAGCCAATTTCAACTTCACAATGAAGGAT
391 ACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAAGAGCCAATTTCAACTTCACAACGAAGGAT
850639 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
456 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
850704 TTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTT
521 TTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTT
*
850769 CAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAACTTCTCAATTTC
586 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
850821 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
850886 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
850951 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
851016 AACAATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACG
196 AACAATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACG
*
851081 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTCAATTTCAGAGCCA
261 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
851146 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
326 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
851211 ACCGCTGGTTGTCAATAAAAAATTTCCCAATTTCAAGAGCCAATTTCAACTTCACAGCGAAGGAT
391 ACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAAGAGCCAATTTCAACTTCACAACGAAGGAT
851276 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
456 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
851341 TTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTT
521 TTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTT
851406 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
586 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
*
851458 AGAGCCAATTTCAACTTCACAACGAAGGATATCGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
851523 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
851588 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
851653 AACAATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACG
196 AACAATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACG
851718 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
261 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
851783 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
326 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
851848 ACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAAGAGCCAATTTCAACTTCACAACGAAGGAT
391 ACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAAGAGCCAATTTCAACTTCACAACGAAGGAT
851913 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
456 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
* * *
851978 TTCCCAATTTCAGAGTCAATTTCACCTTCACAGCGAAGGACATTGGACTCAAGACAACGCAAGTT
521 TTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTT
852043 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
586 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
*
852095 AGAGCCAATTTCAACTTCACAAAGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
852160 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAAGAGCCAATTTCAACTTCACAGC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC-AGAGCCAATTTCAACTTCACAAC
* * *
852225 GAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACAAACGAAGGGACGGCTGGTTGTCAA
130 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC-GACGAAGGGACCGCTGGTTGTCAA
* * * * **
852290 CAAACAATTTTCCAGTTCCAGAACCAATTTCAACT
194 TAAACAATTTCCCAATTTCAGAGTCAATTTCAACT
852325 CCACGACGAA
Statistics
Matches: 2110, Mismatches: 29, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
637 1998 0.95
638 61 0.03
639 51 0.02
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (637 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
AACAATTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACG
CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAAGAGCCAATTTCAACTTCACAACGAAGGAT
ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
TTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATGCAAGTT
CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
Found at i:852762 original size:36 final size:36
Alignment explanation
Indices: 852717--852823 Score: 187
Period size: 36 Copynumber: 3.0 Consensus size: 36
852707 GAAACTAAAG
*
852717 ATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAA
1 ATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAA
*
852753 ATTTTGTCTCTCTTGAGACGGTTTCTCTTGAAACAA
1 ATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAA
*
852789 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
1 ATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
852824 CCAACCAATA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 67 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (36 bp):
ATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAA
Found at i:852765 original size:21 final size:21
Alignment explanation
Indices: 852740--852804 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
852730 TGAGACAATT
852740 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* * *
852761 TCTCTTGAGAC------GGTT
1 TCTCTTGAAACAAATTTTGTC
852776 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
852797 TCTCTTGA
1 TCTCTTGA
852805 GACAGTTTCC
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 12 0.38
21 20 0.62
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.43
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:852959 original size:34 final size:33
Alignment explanation
Indices: 852872--852999 Score: 188
Period size: 33 Copynumber: 3.9 Consensus size: 33
852862 CATGGAGACA
* *
852872 GTTTCTCTTTAAACACAAAAAATCTTTGAAATC
1 GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
852905 GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
1 GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
*
852938 GTTCCTCTTGAAACACAAAAAAACCTTTGAAAAT-
1 GTTTCTCTTGAAACAC-AAAAAACCTTTG-AAATC
*
852972 GTTTCTCTTGAAACAC-AAAGACCTTTGA
1 GTTTCTCTTGAAACACAAAAAACCTTTGA
853000 GTTCGACTAC
Statistics
Matches: 88, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
31 1 0.01
32 10 0.11
33 46 0.52
34 27 0.31
35 4 0.05
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (33 bp):
GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
Found at i:852976 original size:67 final size:65
Alignment explanation
Indices: 852876--852999 Score: 187
Period size: 67 Copynumber: 1.9 Consensus size: 65
852866 GAGACAGTTT
* *
852876 CTCTTTAAACACAAAAAATCTTTGAAATCGTTTCTCTTGAAACACAAAAAACCTTTGAAATCGTT
1 CTCTTGAAACACAAAAAACCTTTGAAATCGTTTCTCTTGAAACAC-AAAAACCTTTGAAATCGTT
852941 C
65 C
*
852942 CTCTTGAAACACAAAAAAACCTTTGAAAAT-GTTTCTCTTGAAACACAAAGACCTTTGA
1 CTCTTGAAACAC-AAAAAACCTTTG-AAATCGTTTCTCTTGAAACACAAAAACCTTTGA
853000 GTTCGACTAC
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
66 22 0.42
67 27 0.51
68 4 0.08
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (65 bp):
CTCTTGAAACACAAAAAACCTTTGAAATCGTTTCTCTTGAAACACAAAAACCTTTGAAATCGTTC
Found at i:853128 original size:84 final size:84
Alignment explanation
Indices: 852987--853174 Score: 268
Period size: 84 Copynumber: 2.2 Consensus size: 84
852977 TCTTGAAACA
*
852987 CAAAGACCTTTGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAACATAGCTCAAGGCA
1 CAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAACATAGCTCAAGGCA
* *
853052 AGAAGGGCTATTTGCTAAC
66 AGAAGGGCTATCTGCCAAC
* * * * * * *
853071 CAAAGACCTTCGAGTTCGACTACTCTCAGCTCCGAGGCACATCATTTGCAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAACATAGCTCAAGGCA
853136 AGAAGGGCTATCTGCCAAC
66 AGAAGGGCTATCTGCCAAC
*
853155 CAAAGACCTAACGAGTTCGA
1 CAAAGACCT-TCGAGTTCGA
853175 TTTCATTCAG
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 83 0.90
85 9 0.10
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (84 bp):
CAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAACATAGCTCAAGGCA
AGAAGGGCTATCTGCCAAC
Found at i:853410 original size:2 final size:2
Alignment explanation
Indices: 853405--853437 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
853395 AAAAAAAAAA
853405 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
853438 ATAATTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:854714 original size:11 final size:10
Alignment explanation
Indices: 854698--854770 Score: 55
Period size: 11 Copynumber: 7.3 Consensus size: 10
854688 TCTTATTTAT
854698 TTTATTAGTA
1 TTTATTAGTA
854708 TTATATTAGTA
1 TT-TATTAGTA
* *
854719 TTTTTTATTA
1 TTTATTAGTA
854729 TTTATCTA-T-
1 TTTAT-TAGTA
*
854738 CTTATT--TA
1 TTTATTAGTA
854746 TTTTATTAGTA
1 -TTTATTAGTA
854757 TTATATTAGTA
1 TT-TATTAGTA
854768 TTT
1 TTT
854771 TTTAATTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 9 0.18
10 16 0.31
11 24 0.47
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.64
Consensus pattern (10 bp):
TTTATTAGTA
Found at i:854735 original size:49 final size:50
Alignment explanation
Indices: 854677--854781 Score: 203
Period size: 49 Copynumber: 2.1 Consensus size: 50
854667 GTATCCTTAT
854677 TTATTTATCTATCTTATTTATTTTATTAGTATTATATTAGTATTTTTT-A
1 TTATTTATCTATCTTATTTATTTTATTAGTATTATATTAGTATTTTTTAA
854726 TTATTTATCTATCTTATTTATTTTATTAGTATTATATTAGTATTTTTTAA
1 TTATTTATCTATCTTATTTATTTTATTAGTATTATATTAGTATTTTTTAA
854776 TTATTT
1 TTATTT
854782 TTTTTCATAT
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 48 0.87
50 7 0.13
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.66
Consensus pattern (50 bp):
TTATTTATCTATCTTATTTATTTTATTAGTATTATATTAGTATTTTTTAA
Found at i:854797 original size:49 final size:49
Alignment explanation
Indices: 854677--854798 Score: 174
Period size: 49 Copynumber: 2.5 Consensus size: 49
854667 GTATCCTTAT
* *
854677 TTATTTATCTATCTTATTTATTTTATTAGTATTATATTAGTATTTTTTA
1 TTATTTATCTATCATATATATTTTATTAGTATTATATTAGTATTTTTTA
* *
854726 TTATTTATCTATCTTATTTATTTTATTAGTATTATATTAGTATTTTTTAA
1 TTATTTATCTATCATATATATTTTATTAGTATTATATTAGTATTTTTT-A
* *
854776 TTATTT-TTTTTCATATATATTTT
1 TTATTTATCTATCATATATATTTT
854799 TATTTTTTAA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
49 61 0.90
50 7 0.10
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.66
Consensus pattern (49 bp):
TTATTTATCTATCATATATATTTTATTAGTATTATATTAGTATTTTTTA
Found at i:855635 original size:37 final size:37
Alignment explanation
Indices: 855594--855698 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
855584 GTGCTTGTAG
* *
855594 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
* * *
855631 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
*
855668 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAG
855699 GACGAAAAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
Found at i:858512 original size:21 final size:21
Alignment explanation
Indices: 858486--858546 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
858476 CTAGGACAGG
858486 GAGTATCGGTACTCCTTTAAT
1 GAGTATCGGTACTCCTTTAAT
858507 GAGTATCGGTACTCCTTTAAT
1 GAGTATCGGTACTCCTTTAAT
*
858528 GAGTATCAGTACTTCCTTT
1 GAGTATCGGTAC-TCCTTT
858547 GTAATATTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 32 0.84
22 6 0.16
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (21 bp):
GAGTATCGGTACTCCTTTAAT
Found at i:858784 original size:17 final size:17
Alignment explanation
Indices: 858762--858812 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
858752 CAGTATCGAT
*
858762 ACTGTAAGAACAATATC
1 ACTGTAAGAACAGTATC
*
858779 ACTGTAAAAACAGTATC
1 ACTGTAAGAACAGTATC
* *
858796 GCTATAAGAACAGTATC
1 ACTGTAAGAACAGTATC
858813 GGTACTACGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.24
Consensus pattern (17 bp):
ACTGTAAGAACAGTATC
Found at i:859334 original size:2 final size:2
Alignment explanation
Indices: 859327--859366 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
859317 AATGATAAGA
859327 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
859367 GTGACATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:869170 original size:21 final size:21
Alignment explanation
Indices: 869113--869164 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
869103 TTTATAACTG
* *
869113 TAAAAAAAT-AAATAATTAAA
1 TAAAACAATAAAAAAATTAAA
*
869133 TAAAATAATAAAAAAATTAAA
1 TAAAACAATAAAAAAATTAAA
*
869154 TAATACAATAA
1 TAAAACAATAA
869165 TTAAATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAAACAATAAAAAAATTAAA
Found at i:869175 original size:21 final size:20
Alignment explanation
Indices: 869113--869176 Score: 73
Period size: 16 Copynumber: 3.4 Consensus size: 20
869103 TTTATAACTG
*
869113 TAAAAAAATAAATAATTAAA
1 TAAAATAATAAATAATTAAA
869133 TAAAATAAT-AA-AA--AAA
1 TAAAATAATAAATAATTAAA
*
869149 TTAAATAATACAATAATTAAA
1 TAAAATAATA-AATAATTAAA
869170 TAAAATA
1 TAAAATA
869177 CTAACAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
16 11 0.31
18 4 0.11
19 4 0.11
20 8 0.22
21 9 0.25
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAAATAATAAATAATTAAA
Found at i:870122 original size:154 final size:153
Alignment explanation
Indices: 869981--870289 Score: 586
Period size: 154 Copynumber: 2.0 Consensus size: 153
869971 TTTTTTTACA
869981 TTTTTATTTTTATTTTTTTCCTTTTGA-TTATTATTATTATTACTATTTTTTATGTTTTT-TTTG
1 TTTTTATTTTTATTTTTTTCCTTTTGATTTATTATTATTATTACTATTTTTTATGTTTTTCTTTG
870044 ATTTATTTAATATTTTTTTATCTAACATTTTTGACTTTTTTAGAACCAATTAAAGGTAAGTAATT
66 ATTTATTTAATATTTTTTTATCTAACATTTTTGACTTTTTTAGAACCAATTAAAGGTAAGTAATT
870109 TGAATCGGGTTTTTAAATTTTATT
131 TGAATCGGGTTTTT-AATTTTATT
870133 TTTTTATTTTTATTTTTTTCCTTTTGATTTATTATTATTATTACTATTTTTTATGTTTTTCTTTG
1 TTTTTATTTTTATTTTTTTCCTTTTGATTTATTATTATTATTACTATTTTTTATGTTTTTCTTTG
870198 ATTTATTTAATATTTTTTTATCTAACATTTTTGACTTTTTTAGAACCAATTAAAGGTAAGTAATT
66 ATTTATTTAATATTTTTTTATCTAACATTTTTGACTTTTTTAGAACCAATTAAAGGTAAGTAATT
870263 TGAATCGGGTTTTTAAATTTTATT
131 TGAATCGGGTTTTT-AATTTTATT
870287 TTT
1 TTT
870290 AATTTTTCGC
Statistics
Matches: 155, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
152 27 0.17
153 32 0.21
154 96 0.62
ACGTcount: A:0.25, C:0.06, G:0.08, T:0.61
Consensus pattern (153 bp):
TTTTTATTTTTATTTTTTTCCTTTTGATTTATTATTATTATTACTATTTTTTATGTTTTTCTTTG
ATTTATTTAATATTTTTTTATCTAACATTTTTGACTTTTTTAGAACCAATTAAAGGTAAGTAATT
TGAATCGGGTTTTTAATTTTATT
Found at i:870157 original size:15 final size:14
Alignment explanation
Indices: 870126--870218 Score: 53
Period size: 15 Copynumber: 6.0 Consensus size: 14
870116 GGTTTTTAAA
870126 TTTTATTTTTTTAT
1 TTTTATTTTTTTAT
*
870140 TTTTATTTTTTTCCT
1 TTTTATTTTTTT-AT
*
870155 TTTGATTTATTATTAT
1 TTTTATTT-TT-TTAT
*
870171 TATTACTATTTTTTAT
1 TTTTA-T-TTTTTTAT
870187 GTTTT-TCTTTGATTTAT
1 -TTTTAT-TTT--TTTAT
*
870204 TTAATATTTTTTTAT
1 TT-TTATTTTTTTAT
870219 CTAACATTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
14 12 0.20
15 17 0.28
16 12 0.20
17 17 0.28
18 3 0.05
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTTATTTTTTTAT
Found at i:871284 original size:14 final size:14
Alignment explanation
Indices: 871265--871291 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
871255 GTAGTAATTG
871265 TGTTATCACAATGT
1 TGTTATCACAATGT
871279 TGTTATCACAATG
1 TGTTATCACAATG
871292 AAGATAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (14 bp):
TGTTATCACAATGT
Found at i:872279 original size:92 final size:95
Alignment explanation
Indices: 872089--872432 Score: 439
Period size: 92 Copynumber: 3.7 Consensus size: 95
872079 AGATTATAAT
872089 ATTAT-ATATACAATAAAGCTTGAGTTGT-CCTCTAAAGCAATTGGTTAAA-ACC-CGGCTTTAT
1 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACACCTCGGCTTTAT
872150 GGATAAGATTCAGCTAG-CTGATAAAGG-G
66 GGATAAGATTCAGCTAGCCTGATAAAGGTG
*
872178 ATTATAATATA-AATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCTCGG-TTTAT
1 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACACCTCGGCTTTAT
872241 GGATAAGATTCAGCTAGCCTGAT-AAGGTG
66 GGATAAGATTCAGCTAGCCTGATAAAGGTG
* * ** *
872270 ATTATAATATACAATAAAGTTTGAGTTGTCCCT-TAGAGCAATTAATTAAACACCTCGAC-TTAT
1 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACACCTCGGCTTTAT
*
872333 -GATAATATTCAGCTAGCCTGATAAAGGTG
66 GGATAAGATTCAGCTAGCCTGATAAAGGTG
* * * *
872362 ATTATAATAT-CTATACAATGATGTTGAG--GTCCCTCTAAAGCAATTGGTTAAAACGCCCCGGC
1 ATTATAATATACAATA-AA-G--CTTGAGTTGTCCCTCTAAAGCAATTGGTT-AAACACCTCGGC
872424 TTTATGGAT
61 TTTATGGAT
872433 CTAGCTATGC
Statistics
Matches: 222, Mismatches: 16, Indels: 26
0.84 0.06 0.10
Matches are distributed among these distances:
89 22 0.10
90 26 0.12
91 53 0.24
92 62 0.28
93 27 0.12
94 11 0.05
95 14 0.06
96 4 0.02
97 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (95 bp):
ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACACCTCGGCTTTAT
GGATAAGATTCAGCTAGCCTGATAAAGGTG
Found at i:873784 original size:33 final size:34
Alignment explanation
Indices: 873742--873805 Score: 121
Period size: 33 Copynumber: 1.9 Consensus size: 34
873732 ATTATAACAG
873742 TTTTTTTTGTACGATAGT-TAATTTTTTTTAAGT
1 TTTTTTTTGTACGATAGTCTAATTTTTTTTAAGT
873775 TTTTTTTTGTACGATAGTCTAATTTTTTTTA
1 TTTTTTTTGTACGATAGTCTAATTTTTTTTA
873806 TTGTTACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 18 0.60
34 12 0.40
ACGTcount: A:0.20, C:0.05, G:0.11, T:0.64
Consensus pattern (34 bp):
TTTTTTTTGTACGATAGTCTAATTTTTTTTAAGT
Found at i:874853 original size:39 final size:39
Alignment explanation
Indices: 874808--874903 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 39
874798 AGCTTTTATT
*
874808 CTTTTTTTTAATTT-A-TTTTTAATTTTTTATTTATTTCAC
1 CTTTTTTTT-ATTTGATTTTTTAATTTATT-TTTATTTCAC
* * *
874847 GTTTTTTTTCTTTGATTTTTTAATTTATTTTTATTTTAC
1 CTTTTTTTTATTTGATTTTTTAATTTATTTTTATTTCAC
**
874886 CTTTTTTTCCTTTGATTT
1 CTTTTTTTTATTTGATTT
874904 ATTATTATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
38 3 0.06
39 34 0.69
40 12 0.24
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.73
Consensus pattern (39 bp):
CTTTTTTTTATTTGATTTTTTAATTTATTTTTATTTCAC
Found at i:874867 original size:40 final size:39
Alignment explanation
Indices: 874823--874903 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
874813 TTTTAATTTA
* * *
874823 TTTTTAATTTTTTATTTATTTCACGTTTTTTTTCTTTGAT
1 TTTTTAATTTATT-TTTATTTCACCTTTTTTTCCTTTGAT
*
874863 TTTTTAATTTATTTTTATTTTACCTTTTTTTCCTTTGAT
1 TTTTTAATTTATTTTTATTTCACCTTTTTTTCCTTTGAT
874902 TT
1 TT
874904 ATTATTATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 25 0.68
40 12 0.32
ACGTcount: A:0.15, C:0.09, G:0.04, T:0.73
Consensus pattern (39 bp):
TTTTTAATTTATTTTTATTTCACCTTTTTTTCCTTTGAT
Found at i:875041 original size:13 final size:13
Alignment explanation
Indices: 875023--875047 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
875013 TCGAGTTTTT
875023 AAATTTTAATTTA
1 AAATTTTAATTTA
875036 AAATTTTAATTT
1 AAATTTTAATTT
875048 TTCGCAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AAATTTTAATTTA
Found at i:877674 original size:2 final size:2
Alignment explanation
Indices: 877667--877697 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
877657 CCTGTCATCT
877667 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
877698 TTTAATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:878298 original size:28 final size:28
Alignment explanation
Indices: 878266--878344 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 28
878256 TTTTACTTAA
878266 AATAGCTTTGTTTTGATGTTGACTTATC
1 AATAGCTTTGTTTTGATGTTGACTTATC
* * * *
878294 AATAG--ATG---TAAT-TTTACTTA-A
1 AATAGCTTTGTTTTGATGTTGACTTATC
878315 AATAGCTTTGTTTTGATGTTGACTTATC
1 AATAGCTTTGTTTTGATGTTGACTTATC
878343 AA
1 AA
878345 ATTAAGTGAC
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
21 5 0.14
22 7 0.19
23 5 0.14
26 5 0.14
27 7 0.19
28 7 0.19
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (28 bp):
AATAGCTTTGTTTTGATGTTGACTTATC
Found at i:878301 original size:49 final size:49
Alignment explanation
Indices: 878247--878344 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
878237 TGACTTGATT
878247 TAGATGTAATTTTACTTAAAATAGCTTTGTTTTGATGTTGACTTATCAA
1 TAGATGTAATTTTACTTAAAATAGCTTTGTTTTGATGTTGACTTATCAA
878296 TAGATGTAATTTTACTTAAAATAGCTTTGTTTTGATGTTGACTTATCAA
1 TAGATGTAATTTTACTTAAAATAGCTTTGTTTTGATGTTGACTTATCAA
878345 ATTAAGTGAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (49 bp):
TAGATGTAATTTTACTTAAAATAGCTTTGTTTTGATGTTGACTTATCAA
Found at i:881586 original size:2 final size:2
Alignment explanation
Indices: 881581--881609 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
881571 CCCCCCCCCT
881581 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
881610 TAAGAACAAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:884983 original size:30 final size:30
Alignment explanation
Indices: 884947--885006 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
884937 GGTACCGAAA
884947 GTCGAGGGAGAAGTGAAACCGGTTGTTGGG
1 GTCGAGGGAGAAGTGAAACCGGTTGTTGGG
884977 GTCGAGGGAGAAGTGAAACCGGTTGTTGGG
1 GTCGAGGGAGAAGTGAAACCGGTTGTTGGG
885007 ATACTCGGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.10, G:0.47, T:0.20
Consensus pattern (30 bp):
GTCGAGGGAGAAGTGAAACCGGTTGTTGGG
Found at i:896545 original size:19 final size:19
Alignment explanation
Indices: 896521--896560 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
896511 TATTGGAATA
896521 TGCATTCTAGAATATGCAG
1 TGCATTCTAGAATATGCAG
896540 TGCATTCTAGAATATGCAG
1 TGCATTCTAGAATATGCAG
896559 TG
1 TG
896561 TTAACATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (19 bp):
TGCATTCTAGAATATGCAG
Found at i:899654 original size:81 final size:81
Alignment explanation
Indices: 898672--899641 Score: 1399
Period size: 81 Copynumber: 12.0 Consensus size: 81
898662 TTATAATTCC
* * * * *
898672 TTTATTCTTTTACCCAAAGGTATTTAAACC-TTCATCTAACTTGCATGATTGACAC-TTGTCTG-
1 TTTA-TCTTTTACTCAACGGTCTTT-AACCGTTCATCTAACTGGCATAATTGACACATT-TCTGC
898734 CAAATGCACAGCTAGGCCA
63 CAAATGCACAGCTAGGCCA
* * *
898753 TTTATCTTTTACTCAATGGTTTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTACCAA
1 TTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAA
*
898818 ATGTACAGCTAGGCCA
66 ATGCACAGCTAGGCCA
* * * * *
898834 TTTATCTTTTACTCAACGGTCTTTAATCATTCATCTAACTGGCACAATTGACACCTTTCTACCAA
1 TTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAA
*
898899 ATGCATAGCTAGGCCA
66 ATGCACAGCTAGGCCA
* * * *
898915 TTTATCTTTTACTCAACGGTCTTTAACCATTCATCTAACTAGCATAATTGTCACCTTTCTGCCAA
1 TTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAA
* * *
898980 ATACATAGCTAAGCCA
66 ATGCACAGCTAGGCCA
* * * *
898996 TTTATGTTTTACTCAACGGTCTTTAACCGTTCATCTAGCTAGTATAATTGACACATTTCTGCCAA
1 TTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAA
899061 ATGCACAGCTAGGCCA
66 ATGCACAGCTAGGCCA
* * * * *
899077 TTTATCTTTTATTCAACGGTCTTTAACCGTTCATATAACTGCCATAGTTGACACATTTCTTCCAA
1 TTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAA
899142 ATGCACAGCTAGGCCA
66 ATGCACAGCTAGGCCA
* * * * *
899158 TTTATCTTTTATTCAACGATCTTTAATCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAA
1 TTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAA
*
899223 ATGCACAACTAGGCCA
66 ATGCACAGCTAGGCCA
*
899239 TTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAA
1 TTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAA
899304 ATGCACAGCTAGGCCA
66 ATGCACAGCTAGGCCA
* *
899320 TTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTATTCCAA
1 TTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAA
899385 ATGCACAGCTAGGCCA
66 ATGCACAGCTAGGCCA
* * * *
899401 TTTATCTTTTACTCAATGGTCTTTAACCATTTATCTAACTGGCATAATTGACACCTTTCTGCCAA
1 TTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAA
*
899466 ATGCACAACTAGGCCA
66 ATGCACAGCTAGGCCA
* * *
899482 TTTATCTTTTACTCAACTGTCTTTAACCATTCATCTAACTGGCATAATTGAAACATTTCTGCCAA
1 TTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAA
899547 ATGCACAGCTAGGCCA
66 ATGCACAGCTAGGCCA
* ** **
899563 GTTATCTTTTACTCAACAATCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGGTAA
1 TTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAA
*
899628 ATGCAC-GTTAGGCC
66 ATGCACAGCTAGGCC
899642 TATTAATATT
Statistics
Matches: 809, Mismatches: 77, Indels: 7
0.91 0.09 0.01
Matches are distributed among these distances:
79 4 0.00
80 50 0.06
81 755 0.93
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (81 bp):
TTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAA
ATGCACAGCTAGGCCA
Found at i:899973 original size:55 final size:55
Alignment explanation
Indices: 899853--900017 Score: 212
Period size: 55 Copynumber: 3.0 Consensus size: 55
899843 ACATATATTT
* * * *
899853 CCCATACA-AAATTAATACACTTCGTATGGATTTCTTAG--TTACACACATAGTG
1 CCCATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACATAGTG
*
899905 CCCATAC-GAAAATTCATACACTTAGTATGAATTTATTAGTTTTGCACACATAGTG
1 CCCATACAG-AAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACATAGTG
* * *
899960 CCCATACAGAAATTCATACACTTAATATGAATTTCTTAGTTTTTGCACGCTTAGTG
1 CCCATACAGAAATTCATACACTTAGTATGAATTTCTTAG-TTTTGCACACATAGTG
900016 CC
1 CC
900018 ATTTGGTAAT
Statistics
Matches: 98, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
52 7 0.07
53 26 0.27
55 48 0.49
56 17 0.17
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.35
Consensus pattern (55 bp):
CCCATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACATAGTG
Found at i:903266 original size:3 final size:3
Alignment explanation
Indices: 903260--903320 Score: 63
Period size: 3 Copynumber: 20.7 Consensus size: 3
903250 AATTTTTTTT
* * * *
903260 TAA TAA TAA TAA TAA AAA TTA TAA TAA TAA TAA AAA TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
903308 -AA T-A TAAA TAA TA
1 TAA TAA T-AA TAA TA
903321 TTCAAATGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 4 0.09
3 41 0.87
4 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:903283 original size:18 final size:17
Alignment explanation
Indices: 903262--903320 Score: 79
Period size: 18 Copynumber: 3.5 Consensus size: 17
903252 TTTTTTTTTA
903262 ATAATAATAATAAAAATT
1 ATAATAATAATAAAAA-T
903280 ATAATAATAATAAAAAT
1 ATAATAATAATAAAAAT
903297 A-AA-AATAAT-AAAAT
1 ATAATAATAATAAAAAT
903311 ATAAATAATA
1 AT-AATAATA
903321 TTCAAATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
15 6 0.16
16 4 0.11
17 6 0.16
18 16 0.42
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAATAATAATAAAAAT
Found at i:904028 original size:65 final size:65
Alignment explanation
Indices: 903958--904114 Score: 228
Period size: 65 Copynumber: 2.4 Consensus size: 65
903948 CACACCCATT
*
903958 TCGAATGCATTTTGTGTACCGATGCACA-AGCCATGCATCGATGCACTCTTGAATAT-TTTGAAA
1 TCGAATGCATTTTGTGTACCGATGCACATA-CCATGCATCGATGCACTCCTGAAT-TGTTTGAAA
904021 CA
64 CA
**
904023 TCGAATGCATTTTGTGTACCGATGCACATACCATGCATCGATGCACTCCTGGCTTGTTTGAAACA
1 TCGAATGCATTTTGTGTACCGATGCACATACCATGCATCGATGCACTCCTGAATTGTTTGAAACA
* * *
904088 TCGAATGTAATTAGTGTACCGATGCAC
1 TCGAATGCATTTTGTGTACCGATGCAC
904115 CCCTAGTGTA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
64 1 0.01
65 82 0.98
66 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (65 bp):
TCGAATGCATTTTGTGTACCGATGCACATACCATGCATCGATGCACTCCTGAATTGTTTGAAACA
Found at i:907358 original size:21 final size:21
Alignment explanation
Indices: 907311--907360 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
907301 CAATCTGAAC
907311 TATTTATTTTAAAATATAAAA
1 TATTTATTTTAAAATATAAAA
* *
907332 TCTTTATTTTAAAATA-ATAAT
1 TATTTATTTTAAAATATA-AAA
907353 TATTTATT
1 TATTTATT
907361 GACTAACGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTTATTTTAAAATATAAAA
Found at i:908959 original size:16 final size:15
Alignment explanation
Indices: 908940--908974 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
908930 AATTGATTTA
908940 ATATTTATCCAACTT
1 ATATTTATCCAACTT
*
908955 GATATTTATCTAACTT
1 -ATATTTATCCAACTT
908971 ATAT
1 ATAT
908975 ATTACTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.34, C:0.14, G:0.03, T:0.49
Consensus pattern (15 bp):
ATATTTATCCAACTT
Found at i:909454 original size:23 final size:23
Alignment explanation
Indices: 909410--909454 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
909400 GTTGATATCT
**
909410 AAAATCTGAATAACATTTAATTG
1 AAAATCTGAATAACATAAAATTG
*
909433 AAAATTTGAATAACATAAAATT
1 AAAATCTGAATAACATAAAATT
909455 TATGACTGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (23 bp):
AAAATCTGAATAACATAAAATTG
Found at i:911201 original size:7 final size:7
Alignment explanation
Indices: 911166--911193 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
911156 TATTATTTTG
911166 AAATAAA
1 AAATAAA
911173 AAATAAA
1 AAATAAA
911180 AAATAAA
1 AAATAAA
911187 AAATAAA
1 AAATAAA
911194 TTAAAAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAATAAA
Found at i:911962 original size:103 final size:103
Alignment explanation
Indices: 911695--911973 Score: 314
Period size: 103 Copynumber: 2.7 Consensus size: 103
911685 TTTTGATATT
* * * *
911695 AAAAAACAGGTTAGGTT-AAGGTTTTTGGTGTTTGTAAGGTTCAAACAATGGTTTTACGGATAAA
1 AAAAAATAGGTT-GGTTCAAGGTTTTTGGTGTTTGTAAGGATCAAACAATGGTTTTAAGGATGAA
* * *
911759 TAGATGATGAACAAGCTCAAAGTTTTGGGTTTTGATCTA
65 CAGATGATGAACAAGCACAAAGTTTTGGGTTTTAATCTA
* ** * * **
911798 AAAAAATTGGTTGGTTCAAAATTTTTGGTGTTTGTAAGGATTAAA-AGATGATTTTGGGGATGAA
1 AAAAAATAGGTTGGTTCAAGGTTTTTGGTGTTTGTAAGGATCAAACA-ATGGTTTTAAGGATGAA
*
911862 CAGATGATGAACATGCA-ACAAGTTTTGGGTTTTAATCTA
65 CAGATGATGAACAAGCACA-AAGTTTTGGGTTTTAATCTA
* * *
911901 AAAAAATAGGTTGGTTCTAGGTTTATGGTGTTTGTAATGATCAAACAA-GGTTTTCAAGGATGAG
1 AAAAAATAGGTTGGTTCAAGGTTTTTGGTGTTTGTAAGGATCAAACAATGGTTTT-AAGGATGA-
911965 CACAGATGA
64 -ACAGATGA
911974 AACTAAAGAG
Statistics
Matches: 145, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
102 11 0.08
103 125 0.86
104 1 0.01
105 8 0.06
ACGTcount: A:0.34, C:0.07, G:0.25, T:0.34
Consensus pattern (103 bp):
AAAAAATAGGTTGGTTCAAGGTTTTTGGTGTTTGTAAGGATCAAACAATGGTTTTAAGGATGAAC
AGATGATGAACAAGCACAAAGTTTTGGGTTTTAATCTA
Found at i:912330 original size:19 final size:17
Alignment explanation
Indices: 912299--912333 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
912289 TGATCCCTAT
912299 ATATTTTATAATTTATC
1 ATATTTTATAATTTATC
912316 ATATTTTGATAAATTTAT
1 ATATTTT-AT-AATTTAT
912334 TTTTAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (17 bp):
ATATTTTATAATTTATC
Found at i:912417 original size:16 final size:16
Alignment explanation
Indices: 912396--912441 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
912386 CATATTTTGA
912396 TAAATTTTTAATTTTT
1 TAAATTTTTAATTTTT
*
912412 TAAATTATTAATTTTT
1 TAAATTTTTAATTTTT
*
912428 T--ATGTTTAATTTTT
1 TAAATTTTTAATTTTT
912442 ATTTTATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 11 0.41
16 16 0.59
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TAAATTTTTAATTTTT
Found at i:912532 original size:36 final size:34
Alignment explanation
Indices: 912482--912582 Score: 129
Period size: 36 Copynumber: 3.0 Consensus size: 34
912472 TATGCATGCA
912482 TCATACATACATATACATATATACTGCATCATA-
1 TCATACATACATATACATATATACTGCATCATAC
*
912515 -C-T-CATACATGTACATATATACATGCATCATAC
1 TCATACATACATATACATATATAC-TGCATCATAC
*
912547 TCATACATACATCATACATATATACATGCATTATAC
1 TCATACATACAT-ATACATATATAC-TGCATCATAC
912583 ATATATTCAC
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
30 18 0.31
31 10 0.17
32 1 0.02
33 1 0.02
34 1 0.02
35 7 0.12
36 21 0.36
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.33
Consensus pattern (34 bp):
TCATACATACATATACATATATACTGCATCATAC
Found at i:912551 original size:21 final size:21
Alignment explanation
Indices: 912487--912585 Score: 68
Period size: 21 Copynumber: 4.9 Consensus size: 21
912477 ATGCATCATA
* *
912487 CATACATATA-CATATATACT
1 CATACATACATCATACATACT
*
912507 GCAT-CATAC-TCATACAT-GT
1 -CATACATACATCATACATACT
*
912526 ACATATATACATGCAT-CATACT
1 -CATACATACAT-CATACATACT
912548 CATACATACATCATACATA-T
1 CATACATACATCATACATACT
* *
912568 -ATACATGCATTATACATA
1 CATACATACATCATACATA
912586 TATTCACTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
19 20 0.32
20 18 0.29
21 21 0.33
22 4 0.06
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.32
Consensus pattern (21 bp):
CATACATACATCATACATACT
Found at i:912602 original size:15 final size:15
Alignment explanation
Indices: 912578--912610 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
912568 ATACATGCAT
912578 TATACATATATTCAC
1 TATACATATATTCAC
*
912593 TATACCTATATTCAC
1 TATACATATATTCAC
912608 TAT
1 TAT
912611 CTGAGTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.42
Consensus pattern (15 bp):
TATACATATATTCAC
Found at i:912718 original size:2 final size:2
Alignment explanation
Indices: 912711--912985 Score: 135
Period size: 2 Copynumber: 135.5 Consensus size: 2
912701 TCATGTAGTT
* * *
912711 TA TA TA TA TA TA TA TA TA CA TA GTT TA TA TT TA TA TA TA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA
* * * *
912755 TA GT- TA TA AA T- TA TA TA GTC TA TA TA TA GTT TA TA TA TA AA
1 TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA
* * * * *
912796 CTA TA TA -A TT TA TA T- TA -A TA AA T- TA TC TA GTT TA TA CA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * *
912836 GTA TA TA TA GTT TA TA TA TA TA TA TA -A GTA TA AA CTA CA TA GTA
1 -TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA
* *
912880 TA TA TA TA GTT TA TA TA CTA TA TA TA TA TA TA TA TA TA GTT TA
1 TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA
* *
912923 TA TA TA T- TG TA TA TA -A TA TA TA GT- TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
912963 TA T- TA TA TA TA -A CTA TA T- TA TA T
1 TA TA TA TA TA TA TA -TA TA TA TA TA T
912986 GGTTTATATA
Statistics
Matches: 206, Mismatches: 37, Indels: 60
0.68 0.12 0.20
Matches are distributed among these distances:
1 13 0.06
2 172 0.83
3 21 0.10
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:912745 original size:17 final size:17
Alignment explanation
Indices: 912717--912762 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
912707 AGTTTATATA
*
912717 TATATATATATACATAG
1 TATATATTTATACATAG
* *
912734 TTTATATTTATATATAG
1 TATATATTTATACATAG
*
912751 TATATAGTTATA
1 TATATATTTATA
912763 AATTATATAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (17 bp):
TATATATTTATACATAG
Found at i:912756 original size:11 final size:11
Alignment explanation
Indices: 912713--912996 Score: 115
Period size: 11 Copynumber: 27.8 Consensus size: 11
912703 ATGTAGTTTA
912713 TATATATATA-
1 TATATATATAG
*
912723 TATATACATAG
1 TATATATATAG
912734 T-T-TATAT--
1 TATATATATAG
912741 T-TATATATAG
1 TATATATATAG
912751 TATATAGT-TA-
1 TATATA-TATAG
*
912761 TAAATTATATAG
1 TATA-TATATAG
*
912773 TCTATATATAG
1 TATATATATAG
912784 T-T-TATATA-
1 TATATATATAG
* *
912792 TAAACTATATAA
1 TATA-TATATAG
* *
912804 TTTATAT-TAA
1 TATATATATAG
* *
912814 TAAATTATCTAG
1 TATA-TATATAG
* *
912826 TTTATACATAG
1 TATATATATAG
912837 --TATATATAG
1 TATATATATAG
912846 T-T-TATATA-
1 TATATATATAG
912854 TATATATA-AG
1 TATATATATAG
*
912864 TATAAACTACATAG
1 TAT--A-TATATAG
912878 TATATATATAG
1 TATATATATAG
*
912889 T-T-TATATAC
1 TATATATATAG
912898 TATATATATA-
1 TATATATATAG
912908 TATATATATAG
1 TATATATATAG
912919 T-T-TATATA-
1 TATATATATAG
*
912927 TAT-TGTATA-
1 TATATATATAG
912936 TA-ATATATAG
1 TATATATATAG
912946 T-TATATATA-
1 TATATATATAG
* *
912955 TATGTATATAT
1 TATATATATAG
*
912966 TATATATA-AC
1 TATATATATAG
*
912976 TATATTATATGG
1 TATA-TATATAG
*
912988 TTTATATAT
1 TATATATAT
912997 TTATGTTATT
Statistics
Matches: 213, Mismatches: 27, Indels: 67
0.69 0.09 0.22
Matches are distributed among these distances:
7 2 0.01
8 8 0.04
9 53 0.25
10 62 0.29
11 66 0.31
12 14 0.07
13 3 0.01
14 5 0.02
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (11 bp):
TATATATATAG
Found at i:912951 original size:43 final size:41
Alignment explanation
Indices: 912717--912973 Score: 124
Period size: 41 Copynumber: 6.2 Consensus size: 41
912707 AGTTTATATA
* * * *
912717 TATATATATATACATAGTTTATATTTATATATAGTATATAG-T
1 TATATATAT-TATATAATATATATATATATATA-TATATAGTT
* * * * * *
912759 TATA-A-ATTATATAGTCTATATATAGTTTATATATAAACTA
1 TATATATATTATATAATATATATATA-TATATATATATAGTT
* * * * *
912799 TATA-AT-TTATATTAATAAAT-TATCTAGTTTATACATAGTA
1 TATATATATTATA-TAATATATATATATA-TATATATATAGTT
* * *
912839 TATATAGT-TTATAT-ATATATATA-AGTATAAACTACATAGTA
1 TATATA-TATTATATAATATATATATA-TATATA-TATATAGTT
912880 TATATATAGTT-TAT-ATACTATATATATATATATATATAGTT
1 TATATATA-TTATATAATA-TATATATATATATATATATAGTT
*
912921 TATATATATTGTATATAATATATAGTTATATATATATGTATA-TAT
1 TATATATA-T-TATATAATATATA--TATATATATATATATAGT-T
912966 TATATATA
1 TATATATA
912974 ACTATATTAT
Statistics
Matches: 170, Mismatches: 25, Indels: 37
0.73 0.11 0.16
Matches are distributed among these distances:
39 20 0.12
40 41 0.24
41 49 0.29
42 24 0.14
43 8 0.05
44 4 0.02
45 24 0.14
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (41 bp):
TATATATATTATATAATATATATATATATATATATATAGTT
Found at i:912977 original size:105 final size:102
Alignment explanation
Indices: 912706--912977 Score: 238
Period size: 105 Copynumber: 2.6 Consensus size: 102
912696 ATACCTCATG
* * * *
912706 TAGTTTATATATA-TATATAT-ATACATAGTTTATATTTATATATAGTATATAGT-TATAAATTA
1 TAGTTTATATATATTGTATATAATATATAG-TTATA-TTATATAT-GTATATATTATATAAACTA
* * *
912768 TATAGTCTATATATAGTTTATATATAAACTATATAATTTA
63 CATAGTATATATATAGTTTATATATAAACTATATAATATA
* * * * *
912808 TA-TTAATAAATTATCTAGTTTATACATAGTATA--TATAGTT-TATATATATATATAAGTATAA
1 TAGTTTATATA-TAT-T-GTATATA-ATA-TATAGTTATA-TTATATATGTATATATTA-TATAA
912869 ACTACATAGTATATATATAGTTTATATACTATATA-TATATATATATA
59 ACTACATAGTATATATATAGTTTATATA-TA-A-ACTATATA-ATATA
912916 TAGTTTATATATATTGTATATAATATATAGTTATA-TATATATGTATATATTATATATAACTA
1 TAGTTTATATATATTGTATATAATATATAGTTATATTATATATGTATATATTATATA-AACTA
912978 TATTATATGG
Statistics
Matches: 134, Mismatches: 18, Indels: 33
0.72 0.10 0.18
Matches are distributed among these distances:
101 6 0.04
102 4 0.03
103 6 0.04
104 15 0.11
105 61 0.46
106 12 0.09
107 11 0.08
108 13 0.10
109 6 0.04
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (102 bp):
TAGTTTATATATATTGTATATAATATATAGTTATATTATATATGTATATATTATATAAACTACAT
AGTATATATATAGTTTATATATAAACTATATAATATA
Found at i:913011 original size:12 final size:13
Alignment explanation
Indices: 912906--913012 Score: 51
Period size: 13 Copynumber: 7.8 Consensus size: 13
912896 ACTATATATA
*
912906 TATATATATATAGT
1 TATATATTTAT-GT
*
912920 T-TATATATAT-T
1 TATATATTTATGT
*
912931 GTATATAATATATAGT
1 -TATAT-ATTTAT-GT
*
912947 TATATATATATG-
1 TATATATTTATGT
*
912959 TATATATTATATAT
1 TATATATT-TATGT
*
912973 AACTATATTATATGGTT
1 TA-TATATT-TAT-G-T
912990 TATATATTTATGT
1 TATATATTTATGT
913003 TAT-TATTTAT
1 TATATATTTAT
913013 ATTTTATAAT
Statistics
Matches: 78, Mismatches: 5, Indels: 22
0.74 0.05 0.21
Matches are distributed among these distances:
11 1 0.01
12 15 0.19
13 20 0.26
14 15 0.19
15 18 0.23
16 7 0.09
17 2 0.03
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.54
Consensus pattern (13 bp):
TATATATTTATGT
Found at i:925825 original size:19 final size:19
Alignment explanation
Indices: 925770--925826 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
925760 TTAAATTGGT
*
925770 ATTATATATATATTCAATTTA
1 ATTATATATATAATC--TTTA
*
925791 ATTATTTAT-TATATCTTTA
1 ATTATATATATA-ATCTTTA
*
925810 TTTATATATATAATCTT
1 ATTATATATATAATCTT
925827 AATCGTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 16 0.53
20 4 0.13
21 10 0.33
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTATATATATAATCTTTA
Found at i:926384 original size:134 final size:135
Alignment explanation
Indices: 926159--926723 Score: 718
Period size: 135 Copynumber: 4.2 Consensus size: 135
926149 ACTCTTCTGA
* * * * * * *
926159 GAAGATTGAATCGAAATCGATTTGCTTCACTGTTCTTCAGGAAGACTAAATCTGAAAGAAGAAGA
1 GAAGATTGAATCGAACTTGATTTGCTTCGCTGCTCTTCAAGAAGACCAAATTTGAAAGAAGAAGA
* * * * * *
926224 ATATGCTCCACTACTCCTTAGGGGAGATCACACTCGAG-AAAACTTTGATCCACTTCACTGCGCA
66 ATATGCTCCGCTACTCTTTAGGGGAGATCAGACTCGAGAAAAATTTTGATCCACTTCGCTGCGCT
*
926288 TCATG
131 TCAGG
* * *
926293 GAATATTGAATCGAACTTTATTTGCTTCGTTGCTCTTCAAGAAGACCAAATTTGAAAGAAGAAGA
1 GAAGATTGAATCGAACTTGATTTGCTTCGCTGCTCTTCAAGAAGACCAAATTTGAAAGAAGAAGA
* * * * * * * *
926358 ATCTACTCCGCTATTCTTTAGAGGAGATCAAACTCGAGATAAATTTTGATCCACTTTGTTGCGCT
66 ATATGCTCCGCTACTCTTTAGGGGAGATCAGACTCGAGAAAAATTTTGATCCACTTCGCTGCGCT
*
926423 TAAGG
131 TCAGG
* * * *
926428 TAAGATTGAATCGAACTTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAATTTGAAAGAAAAAAA
1 GAAGATTGAATCGAACTTGATTTGCTTCGCTGCTCTTCAAGAAGACCAAATTTGAAAGAAGAAGA
* * * * * * * *
926493 ATATGTTCTGCTACACTTTAGGGGAGATCAGACTCGAGAAAAAATTTGATCCGCTTCGTTACTCT
66 ATATGCTCCGCTACTCTTTAGGGGAGATCAGACTCGAGAAAAATTTTGATCCACTTCGCTGCGCT
926558 TCAGG
131 TCAGG
* * *
926563 GAAGATTGAATCGAACTTGATTTGCTTCGCCGCTCTTCAAGAAGACCAAATATGGAAGAAGAAGA
1 GAAGATTGAATCGAACTTGATTTGCTTCGCTGCTCTTCAAGAAGACCAAATTTGAAAGAAGAAGA
* * * *
926628 ATCTTCTCTGCTACTCTTTAGGGGAGATCAGACTCGAGAAAAATTTTGATCCACTTCGCTGCTCT
66 ATATGCTCCGCTACTCTTTAGGGGAGATCAGACTCGAGAAAAATTTTGATCCACTTCGCTGCGCT
926693 TCAGG
131 TCAGG
926698 GAAGATTGAATCGAACTTGATTTGCT
1 GAAGATTGAATCGAACTTGATTTGCT
926724 ATCGAACTTG
Statistics
Matches: 368, Mismatches: 62, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
134 86 0.23
135 282 0.77
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (135 bp):
GAAGATTGAATCGAACTTGATTTGCTTCGCTGCTCTTCAAGAAGACCAAATTTGAAAGAAGAAGA
ATATGCTCCGCTACTCTTTAGGGGAGATCAGACTCGAGAAAAATTTTGATCCACTTCGCTGCGCT
TCAGG
Found at i:926729 original size:17 final size:17
Alignment explanation
Indices: 926707--926740 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
926697 GGAAGATTGA
926707 ATCGAACTTGATTTGCT
1 ATCGAACTTGATTTGCT
926724 ATCGAACTTGATTTGCT
1 ATCGAACTTGATTTGCT
926741 TCGCTGTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (17 bp):
ATCGAACTTGATTTGCT
Found at i:927998 original size:22 final size:21
Alignment explanation
Indices: 927985--928029 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
927975 TCTTCTTTTC
927985 TTTTCCTTTTTTTCTTCTCTA
1 TTTTCCTTTTTTTCTTCTCTA
* *
928006 TTTTCC-TTTTTCCTTTTCTA
1 TTTTCCTTTTTTTCTTCTCTA
928026 TTTT
1 TTTT
928030 TTCTTATTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTCCTTTTTTTCTTCTCTA
Found at i:928030 original size:21 final size:20
Alignment explanation
Indices: 927985--928043 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
927975 TCTTCTTTTC
* *
927985 TTTTCCTTTTTTTCTTCTCTA
1 TTTTCC-TTTTTCCTTTTCTA
928006 TTTTCCTTTTTCCTTTTCTA
1 TTTTCCTTTTTCCTTTTCTA
* *
928026 TTTTTTCTTATTCCTTTT
1 -TTTTCCTTTTTCCTTTT
928044 TTCTTTAGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.36
21 21 0.64
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTCCTTTTTCCTTTTCTA
Found at i:928043 original size:14 final size:13
Alignment explanation
Indices: 928006--928049 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
927996 TTCTTCTCTA
*
928006 TTTTCCTTTTTCC
1 TTTTCCTTTTTTC
*
928019 TTTTCTATTTTTTC
1 TTTTC-CTTTTTTC
928033 TTATTCCTTTTTTC
1 TT-TTCCTTTTTTC
928047 TTT
1 TTT
928050 AGACATAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 6 0.23
14 17 0.65
15 3 0.12
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTCCTTTTTTC
Found at i:944556 original size:2 final size:2
Alignment explanation
Indices: 944551--944598 Score: 80
Period size: 2 Copynumber: 24.0 Consensus size: 2
944541 ATCCTCAATA
944551 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
944593 AT AT AT
1 AT AT AT
944599 TAACCCATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 41 0.93
3 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:960306 original size:41 final size:41
Alignment explanation
Indices: 960249--960335 Score: 167
Period size: 41 Copynumber: 2.1 Consensus size: 41
960239 AAGTGAGTGC
960249 TTATCAATTCAGCTTTGGTACATTCGTGTATCAATGTTCAA
1 TTATCAATTCAGCTTTGGTACATTCGTGTATCAATGTTCAA
960290 TTATCAATTCAGCTTTGGTACATTCGTGTATCAATGTTCAA
1 TTATCAATTCAGCTTTGGTACATTCGTGTATCAATGTTCAA
960331 -TATCA
1 TTATCA
960336 CCATTCGTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 5 0.11
41 41 0.89
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (41 bp):
TTATCAATTCAGCTTTGGTACATTCGTGTATCAATGTTCAA
Found at i:961921 original size:22 final size:22
Alignment explanation
Indices: 961896--962046 Score: 155
Period size: 22 Copynumber: 6.5 Consensus size: 22
961886 GGGTATATTA
961896 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
961918 GTCCTTCGGGATGTATCTCCAGTG
1 GTCCTTCGGGACGTA--TCCAGTG
961942 GTCCTTC-GGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
961963 GTCCTTCGGGACGTATCGGTACA-T-
1 GTCCTTCGGGACGTATC----CAGTG
*
961987 ATCCAATGGTCGGGACGTATCCAGTG
1 GTCC--T--TCGGGACGTATCCAGTG
*
962013 GTCCTTCGGGACGTATCTAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
962035 GTTCTTCGGGAC
1 GTCCTTCGGGAC
962047 ATAGTGATCC
Statistics
Matches: 110, Mismatches: 6, Indels: 26
0.77 0.04 0.18
Matches are distributed among these distances:
21 14 0.13
22 50 0.45
23 6 0.05
24 20 0.18
25 2 0.02
26 6 0.05
28 12 0.11
ACGTcount: A:0.15, C:0.25, G:0.30, T:0.29
Consensus pattern (22 bp):
GTCCTTCGGGACGTATCCAGTG
Found at i:961961 original size:45 final size:45
Alignment explanation
Indices: 961896--962046 Score: 175
Period size: 45 Copynumber: 3.3 Consensus size: 45
961886 GGGTATATTA
*
961896 GTCCTTCGGGACGTATCCAGTGGTCCTTCGGGATGTATCTCCAGTG
1 GTCCTTCGGGACGTATCCAGTGGTCCTTCGGGACGTATCT-CAGTG
961942 GTCCTTC-GGACGTATCCAGTGGTCCTTCGGGACGTATCGGTACA-T-
1 GTCCTTCGGGACGTATCCAGTGGTCCTTCGGGACGTATC--T-CAGTG
*
961987 ATCCAATGGTCGGGACGTATCCAGTGGTCCTTCGGGACGTATCT-AGTG
1 GTCC--T--TCGGGACGTATCCAGTGGTCCTTCGGGACGTATCTCAGTG
*
962035 GTTCTTCGGGAC
1 GTCCTTCGGGAC
962047 ATAGTGATCC
Statistics
Matches: 91, Mismatches: 5, Indels: 20
0.78 0.04 0.17
Matches are distributed among these distances:
44 7 0.08
45 33 0.36
46 10 0.11
47 5 0.05
48 3 0.03
49 2 0.02
50 31 0.34
ACGTcount: A:0.15, C:0.25, G:0.30, T:0.29
Consensus pattern (45 bp):
GTCCTTCGGGACGTATCCAGTGGTCCTTCGGGACGTATCTCAGTG
Done.