Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 195 of 250
Found at i:60944130 original size:3 final size:3
Alignment explanation
Indices: 60944122--60944276 Score: 65
Period size: 3 Copynumber: 51.7 Consensus size: 3
60944112 ATACATTAAT
* *
60944122 TAA TAA TAA TAA -AA CTAGA -AA TAA TAA TAA TTAG TAA TAA TAA TACG
1 TAA TAA TAA TAA TAA -TA-A TAA TAA TAA TAA -TAA TAA TAA TAA TA-A
* * ** * *
60944169 TTA GAA -AA TAA TTAA T-A TGT TAA TAA AAA TAA TAG TAA TGAA -AA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
* * *
60944213 TAA TAC TAA CAG TAA TAA TAA -AGA TAA TAA TAGA -AA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA
* *
60944257 TAG TAA TAA TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
60944277 TGTAAAAAAT
Statistics
Matches: 112, Mismatches: 24, Indels: 32
0.67 0.14 0.19
Matches are distributed among these distances:
2 13 0.12
3 87 0.78
4 11 0.10
5 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:60944179 original size:31 final size:31
Alignment explanation
Indices: 60944118--60944200 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 31
60944108 ATACATACAT
60944118 TAATTAATAATAATAAAACTAGAAATAATAA
1 TAATTAATAATAATAAAACTAGAAATAATAA
* *
60944149 TAATTAGTAATAATAATACGTTAGAAAATAATTAA
1 TAATTAATAATAATAAAAC--TAG-AAATAA-TAA
* *
60944184 TATGTTAATAAAAATAA
1 TA-ATTAATAATAATAA
60944201 TAGTAATGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
31 17 0.40
33 3 0.07
34 6 0.14
35 5 0.12
36 11 0.26
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (31 bp):
TAATTAATAATAATAAAACTAGAAATAATAA
Found at i:60946080 original size:16 final size:16
Alignment explanation
Indices: 60946059--60946110 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
60946049 TTTGGTTCGC
60946059 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
60946075 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
60946091 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
60946107 TGTA
1 TGTA
60946111 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:60946157 original size:45 final size:44
Alignment explanation
Indices: 60946091--60946185 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
60946081 GGATTAGAGG
* *
60946091 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
60946136 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
60946180 TGTAAT
1 TGTAAT
60946186 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:60946368 original size:18 final size:17
Alignment explanation
Indices: 60946347--60946381 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60946337 TTATTATTTA
*
60946347 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
60946365 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
60946382 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:60946375 original size:28 final size:27
Alignment explanation
Indices: 60946305--60946377 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
60946295 TTTATTATCA
*
60946305 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
60946333 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
60946360 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
60946378 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:60946514 original size:18 final size:17
Alignment explanation
Indices: 60946493--60946527 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60946483 TTATTATTAA
*
60946493 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
60946511 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
60946528 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:60946537 original size:146 final size:148
Alignment explanation
Indices: 60946266--60946539 Score: 507
Period size: 146 Copynumber: 1.9 Consensus size: 148
60946256 ATGATTATTG
*
60946266 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
60946331 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
60946396 AGAATTTGTTTTGGTAAA
131 AGAATTTGTTTTGGTAAA
*
60946414 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
60946477 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
60946540 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
146 95 0.77
147 23 0.19
148 5 0.04
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (148 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAATTTGTTTTGGTAAA
Found at i:60946608 original size:118 final size:120
Alignment explanation
Indices: 60946476--60946766 Score: 464
Period size: 118 Copynumber: 2.4 Consensus size: 120
60946466 ATCATATTTA
60946476 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
60946541 TATTCTTATATGAATTTACTCAAA-C-CAATATATGATACTGTAAAATATAAA-AT
66 TATTCTTATATGAATTTACTCAAATCACAATATATGATACTATAAAATA-AAATAT
* *
60946594 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
60946659 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATAAAATTTT
66 TATTCTTATATGAATTTACTCAAATCACAATATATGATACTATAAAATAAAA-TAT
* * *
60946715 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
60946767 TAAAATAATT
Statistics
Matches: 159, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
118 87 0.55
119 4 0.03
120 65 0.41
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCACAATATATGATACTATAAAATAAAATAT
Found at i:60946632 original size:18 final size:17
Alignment explanation
Indices: 60946611--60946645 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60946601 TTATTATTAA
60946611 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
60946629 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
60946646 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:60946704 original size:61 final size:61
Alignment explanation
Indices: 60946521--60946706 Score: 172
Period size: 61 Copynumber: 3.1 Consensus size: 61
60946511 ATATAATTTA
*
60946521 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAA-C-CAATATATGATACT
1 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAAAATATATGATACT
* * * * * * * * * *
60946580 GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAAAATATATAAT-TT
1 ATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAAAATATATGATACT
*
60946638 AATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAAAATATATGATACT
60946700 ATAAAAT
1 ATAAAAT
60946707 AAAATTTTAA
Statistics
Matches: 93, Mismatches: 22, Indels: 22
0.68 0.16 0.16
Matches are distributed among these distances:
56 5 0.05
57 14 0.15
58 9 0.10
59 19 0.20
60 8 0.09
61 32 0.34
62 6 0.06
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.40
Consensus pattern (61 bp):
ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAAAATATATGATACT
Found at i:60946760 original size:18 final size:17
Alignment explanation
Indices: 60946721--60946752 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
60946711 TTTTAAATAA
60946721 TTAATATTAAATATATT
1 TTAATATTAAATATATT
60946738 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
60946753 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:60949462 original size:14 final size:14
Alignment explanation
Indices: 60949437--60949471 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
60949427 AAGAAGAAGC
60949437 AGAAATATGGAGAAA
1 AGAAA-ATGGAGAAA
60949452 AGAAAATGGAGAAA
1 AGAAAATGGAGAAA
60949466 AGAAAA
1 AGAAAA
60949472 GAAATGTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (14 bp):
AGAAAATGGAGAAA
Found at i:60949469 original size:19 final size:18
Alignment explanation
Indices: 60949447--60949491 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
60949437 AGAAATATGG
60949447 AGAAAAGAAAATG-GAGAAA
1 AGAAAAGAAAATGTGAG--A
60949466 AGAAAAG-AAATGTGAGA
1 AGAAAAGAAAATGTGAGA
60949483 AGAAAAGAA
1 AGAAAAGAA
60949492 GCGTATCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (18 bp):
AGAAAAGAAAATGTGAGA
Found at i:60949920 original size:18 final size:18
Alignment explanation
Indices: 60949894--60949928 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
60949884 ATCAAAATTT
60949894 TAAAAATCAAATTTAAAC
1 TAAAAATCAAATTTAAAC
*
60949912 TAAAGATCAAATTTAAA
1 TAAAAATCAAATTTAAA
60949929 TTAATTATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.09, G:0.03, T:0.29
Consensus pattern (18 bp):
TAAAAATCAAATTTAAAC
Found at i:60950002 original size:29 final size:29
Alignment explanation
Indices: 60949969--60950060 Score: 121
Period size: 29 Copynumber: 3.1 Consensus size: 29
60949959 TAATTTGATC
* *
60949969 TTTATCCAGCCAATTTCAATTCTTCAATT
1 TTTATCCAGCCAACTTCAAATCTTCAATT
* * *
60949998 TTTATCCAGCCTACTTCAAATCTTTAATC
1 TTTATCCAGCCAACTTCAAATCTTCAATT
*
60950027 TTTATCCAGCCAACTTCAAATATTCAATCT
1 TTTATCCAGCCAACTTCAAATCTTCAAT-T
60950057 TTTA
1 TTTA
60950061 ATATAGAGTA
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 49 0.92
30 4 0.08
ACGTcount: A:0.29, C:0.25, G:0.03, T:0.42
Consensus pattern (29 bp):
TTTATCCAGCCAACTTCAAATCTTCAATT
Found at i:60954130 original size:14 final size:15
Alignment explanation
Indices: 60954106--60954140 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
60954096 TATATATATT
60954106 ACCATATAAATACTA
1 ACCATATAAATACTA
60954121 ACCATA-AAATACTA
1 ACCATATAAATACTA
60954135 ATCCAT
1 A-CCAT
60954141 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:60954838 original size:41 final size:41
Alignment explanation
Indices: 60954807--60955208 Score: 535
Period size: 41 Copynumber: 9.9 Consensus size: 41
60954797 CTATATAAAA
* ** * * *
60954807 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCG-ATTCATTT
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAAT-AATT
* * * * *
60954848 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCGGAATTAATT
1 CACCGGCATC-AAGCCTGCTAGGCATTAAGCCTGAAATAATT
* * * *
60954889 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
60954930 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAA-T
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
* * * *
60954970 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
*
60955011 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
* *
60955052 CACCGGCATCAAGCCTGCTA-GCA-TAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
*
60955091 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
*
60955132 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
60955173 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
60955209 ATCTCATATA
Statistics
Matches: 327, Mismatches: 28, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
39 33 0.10
40 42 0.13
41 248 0.76
42 4 0.01
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATT
Found at i:60955153 original size:121 final size:122
Alignment explanation
Indices: 60954846--60955210 Score: 547
Period size: 121 Copynumber: 3.0 Consensus size: 122
60954836 CCCGATTCAT
* *
60954846 TTCACCGGCA-CAAAGCCTGCTAGACATAAAGTCGGAATTAATTCACCGGCATCAAGCCTGCTAG
1 TTCACCGGCATC-AAGCCTGCTAGACATAAAGTCTGAAATAATTCACCGGCATCAAGCCTGCTAG
* * * * * *
60954910 ACATAAAGTCTAAAATAATTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAA
65 GCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTA-GCATTAAGCCTAAAATAA
*
60954969 -TCACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATTCACCGGCATCAAGCCTGCTAGG
1 TTCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAATAATTCACCGGCATCAAGCCTGCTAGG
*
60955033 CATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGCA-TAAGTCTAAAATAA
66 CATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGCATTAAGCCTAAAATAA
* * * *
60955089 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGG
1 TTCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAATAATTCACCGGCATCAAGCCTGCTAGG
60955154 CATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAAAT
66 CATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTA-GCATTAAGCCT-AAAAT
60955211 CTCATATACA
Statistics
Matches: 221, Mismatches: 16, Indels: 9
0.90 0.07 0.04
Matches are distributed among these distances:
120 12 0.05
121 101 0.46
122 96 0.43
123 7 0.03
124 5 0.02
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (122 bp):
TTCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAATAATTCACCGGCATCAAGCCTGCTAGG
CATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGCATTAAGCCTAAAATAA
Found at i:60955441 original size:64 final size:63
Alignment explanation
Indices: 60955323--60955503 Score: 262
Period size: 64 Copynumber: 2.9 Consensus size: 63
60955313 GCAAACAAAC
*
60955323 ATTCGAACCACATATGT-AT-AATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTAATAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTA
60955384 T
63 T
60955385 ATTCGAACCACATATGTAAGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAA-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* *
60955449 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTA-ATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
60955504 AAATATATAT
Statistics
Matches: 110, Mismatches: 3, Indels: 10
0.89 0.02 0.08
Matches are distributed among these distances:
62 17 0.15
63 6 0.05
64 77 0.70
65 10 0.09
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (63 bp):
ATTCGAACCACATATGTAATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:60961212 original size:14 final size:15
Alignment explanation
Indices: 60961188--60961222 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
60961178 TATATATATT
60961188 ACCATATAAATACTA
1 ACCATATAAATACTA
60961203 ACCATA-AAATACTA
1 ACCATATAAATACTA
60961217 ATCCAT
1 A-CCAT
60961223 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:60961921 original size:41 final size:41
Alignment explanation
Indices: 60961890--60962294 Score: 535
Period size: 41 Copynumber: 9.9 Consensus size: 41
60961880 CTATATAAAA
* * * * *
60961890 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCG-ATTCATTT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAAT-AATT
* * * *
60961931 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCGGAATTAATT
1 CACCGGCATC-AAGCCTGCTAGGCATAAAGCCTGAAATAATT
* * *
60961972 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
* *
60962013 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
* * *
60962054 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
* *
60962095 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
* * *
60962136 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
* *
60962177 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
* *
60962218 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
*
60962259 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAA
60962295 ATCTCATATA
Statistics
Matches: 327, Mismatches: 34, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
41 323 0.99
42 4 0.01
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAAATAATT
Found at i:60962015 original size:82 final size:82
Alignment explanation
Indices: 60961929--60962294 Score: 617
Period size: 82 Copynumber: 4.5 Consensus size: 82
60961919 CCCGATTCAT
* * * * * *
60961929 TTCACCGGCA-CAAAGCCTGCTAGACATAAAGTCGGAATTAATTCACCGGCATCAAGCCTGCTAG
1 TTCACCGGCATC-AAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAG
60961993 ACATAAAGTCTAAAATAA
65 ACATAAAGTCTAAAATAA
60962011 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
1 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
60962076 CATAAAGTCTAAAATAA
66 CATAAAGTCTAAAATAA
60962093 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
1 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
60962158 CATAAAGTCTAAAATAA
66 CATAAAGTCTAAAATAA
*
60962175 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGG
1 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
* * *
60962240 CATTAAGCCTGAAATAA
66 CATAAAGTCTAAAATAA
*
60962257 TCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
1 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
60962295 ATCTCATATA
Statistics
Matches: 272, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
82 271 1.00
83 1 0.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.20
Consensus pattern (82 bp):
TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
CATAAAGTCTAAAATAA
Found at i:60962527 original size:64 final size:63
Alignment explanation
Indices: 60962409--60962589 Score: 262
Period size: 64 Copynumber: 2.9 Consensus size: 63
60962399 GCAAACAAAC
*
60962409 ATTCGAACCACATATGT-AT-AATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTAATAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTA
60962470 T
63 T
60962471 ATTCGAACCACATATGTAAGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAA-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* *
60962535 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTA-ATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
60962590 AAATATATAT
Statistics
Matches: 110, Mismatches: 3, Indels: 10
0.89 0.02 0.08
Matches are distributed among these distances:
62 17 0.15
63 6 0.05
64 77 0.70
65 10 0.09
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (63 bp):
ATTCGAACCACATATGTAATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:60981725 original size:18 final size:17
Alignment explanation
Indices: 60981694--60981728 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60981684 GTAATTATTG
*
60981694 ATATAATATCATTTTAT
1 ATATAATATAATTTTAT
60981711 ATATATATATAATTTTAT
1 ATATA-ATATAATTTTAT
60981729 TCATCCAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATAATATAATTTTAT
Found at i:60985096 original size:45 final size:45
Alignment explanation
Indices: 60985046--60985167 Score: 199
Period size: 45 Copynumber: 2.7 Consensus size: 45
60985036 ATACGCTTAC
60985046 AATGAGTAAGACCATAGCTAAAAGATGCTATGACATTGTGACAAA
1 AATGAGTAAGACCATAGCTAAAAGATGCTATGACATTGTGACAAA
* * *
60985091 AATGAGTAAGACCATAGCTCAAAGATGCTATAACATTGTGACAAG
1 AATGAGTAAGACCATAGCTAAAAGATGCTATGACATTGTGACAAA
* *
60985136 AATGAGTAAGACCATAGCTGAAAGATGTTATG
1 AATGAGTAAGACCATAGCTAAAAGATGCTATG
60985168 GCGTGTTGGT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 71 1.00
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (45 bp):
AATGAGTAAGACCATAGCTAAAAGATGCTATGACATTGTGACAAA
Found at i:60985113 original size:23 final size:23
Alignment explanation
Indices: 60985046--60985113 Score: 54
Period size: 23 Copynumber: 3.0 Consensus size: 23
60985036 ATACGCTTAC
60985046 AATGAGTAAGACCATAGCT-AAA
1 AATGAGTAAGACCATAGCTCAAA
* * *
60985068 AGATG-CTATGA-CATTG-TGACAAA
1 A-ATGAGTAAGACCATAGCT--CAAA
60985091 AATGAGTAAGACCATAGCTCAAA
1 AATGAGTAAGACCATAGCTCAAA
60985114 GATGCTATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 13
0.63 0.12 0.25
Matches are distributed among these distances:
20 1 0.03
21 4 0.12
22 8 0.24
23 15 0.45
24 4 0.12
25 1 0.03
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.21
Consensus pattern (23 bp):
AATGAGTAAGACCATAGCTCAAA
Found at i:60989504 original size:23 final size:23
Alignment explanation
Indices: 60989474--60989519 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
60989464 TTAAAAGTAA
60989474 GATTTTCTCAAGATTTTTATGTT
1 GATTTTCTCAAGATTTTTATGTT
60989497 GATTTTCTCAAGATTTTTATGTT
1 GATTTTCTCAAGATTTTTATGTT
60989520 CTTTAGAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.09, G:0.13, T:0.57
Consensus pattern (23 bp):
GATTTTCTCAAGATTTTTATGTT
Found at i:60991218 original size:19 final size:19
Alignment explanation
Indices: 60991175--60991234 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 19
60991165 ATTTTAAATA
60991175 AGTTTTTATTAATTTATAAT
1 AGTTTTTA-TAATTTATAAT
* *
60991195 A-TTTTTATAATTTCTCAT
1 AGTTTTTATAATTTATAAT
*
60991213 AGTTTTTTAATAATTTTTAAT
1 AG-TTTTT-ATAATTTATAAT
60991234 A
1 A
60991235 ATTATTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
18 10 0.30
19 6 0.18
20 6 0.18
21 11 0.33
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (19 bp):
AGTTTTTATAATTTATAAT
Found at i:60991231 original size:10 final size:10
Alignment explanation
Indices: 60991163--60991237 Score: 64
Period size: 10 Copynumber: 7.5 Consensus size: 10
60991153 ATATTTGTTG
*
60991163 TAATTTTAAA
1 TAATTTTTAA
*
60991173 TAAGTTTTTAT
1 TAA-TTTTTAA
*
60991184 TAATTTATAA
1 TAATTTTTAA
60991194 T-ATTTTT-A
1 TAATTTTTAA
* *
60991202 TAATTTCTCA
1 TAATTTTTAA
*
60991212 TAGTTTTTTAA
1 TA-ATTTTTAA
60991223 TAATTTTTAA
1 TAATTTTTAA
60991233 TAATT
1 TAATT
60991238 ATTTGAAAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
8 2 0.04
9 10 0.20
10 24 0.47
11 15 0.29
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:60993997 original size:18 final size:17
Alignment explanation
Indices: 60993965--60994003 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
60993955 ACAATTTTGA
* *
60993965 TTAAATTATAATTATTT
1 TTAAATTACAATTATCT
60993982 TTAAATATACAATTATCT
1 TTAAAT-TACAATTATCT
60994000 TTAA
1 TTAA
60994004 CTTCTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAAATTACAATTATCT
Found at i:61005791 original size:31 final size:31
Alignment explanation
Indices: 61005756--61005818 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
61005746 ATAATAACCC
61005756 AATGACTTAAAT-AATAACTTTCAAATAGTTT
1 AATGACTTAAATGAA-AACTTTCAAATAGTTT
*
61005787 AATGACTTAAATGAAAGCTTTCAAATAGTTT
1 AATGACTTAAATGAAAACTTTCAAATAGTTT
61005818 A
1 A
61005819 GTGGCTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (31 bp):
AATGACTTAAATGAAAACTTTCAAATAGTTT
Found at i:61006900 original size:15 final size:15
Alignment explanation
Indices: 61006858--61006901 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
61006848 TATTTTTTGA
*
61006858 ATTTTTAGAACTTTTT
1 ATTTTT-GAATTTTTT
**
61006874 ATTTTTTTATTTTTT
1 ATTTTTGAATTTTTT
61006889 ATTTTTGAATTTT
1 ATTTTTGAATTTT
61006902 AAAGGGTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 17 0.74
16 6 0.26
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (15 bp):
ATTTTTGAATTTTTT
Found at i:61007215 original size:20 final size:20
Alignment explanation
Indices: 61007179--61007218 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
61007169 CTTACAACTT
61007179 GAAAAATAAAATTTTTCATAA
1 GAAAAATAAAA-TTTTCATAA
61007200 GAAAATATAAAA-TTTCATA
1 GAAAA-ATAAAATTTTCATA
61007219 TTTCGATCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
GAAAAATAAAATTTTCATAA
Found at i:61017854 original size:38 final size:38
Alignment explanation
Indices: 61017803--61017878 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
61017793 TTAAACCTAA
61017803 GCTTAAAAGTAAAAATAAATATCTACTCATAATTAGAT
1 GCTTAAAAGTAAAAATAAATATCTACTCATAATTAGAT
61017841 GCTTAAAAGTAAAAATAAATATCTACTCATAATTAGAT
1 GCTTAAAAGTAAAAATAAATATCTACTCATAATTAGAT
61017879 TATGCCCTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (38 bp):
GCTTAAAAGTAAAAATAAATATCTACTCATAATTAGAT
Found at i:61021216 original size:12 final size:11
Alignment explanation
Indices: 61021190--61021215 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
61021180 TCATCTGCCC
61021190 TTTTCTTTTTT
1 TTTTCTTTTTT
61021201 TTTTCTTTTTT
1 TTTTCTTTTTT
61021212 TTTT
1 TTTT
61021216 TTGCAATCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:61025278 original size:16 final size:16
Alignment explanation
Indices: 61025257--61025292 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
61025247 TTTGGTTCGC
61025257 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
61025273 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
61025289 TGTA
1 TGTA
61025293 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:61025616 original size:157 final size:157
Alignment explanation
Indices: 61025422--61025731 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
61025412 CCCTTAGCAT
*
61025422 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
61025487 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
61025552 TTTAATAAAATTCTTAATAATTACCAG
131 TTTAATAAAATTCTTAATAATTACCAG
* * * *
61025579 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
61025644 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
61025709 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
61025732 ATATTCTTAT
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAG
Found at i:61025728 original size:82 final size:81
Alignment explanation
Indices: 61025485--61025734 Score: 186
Period size: 76 Copynumber: 3.1 Consensus size: 81
61025475 TATTATTATC
* * *
61025485 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTAT-ATTAAAATATAT
61025550 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
* * * * *
61025567 AATAATTACCAGA-AATTT-GT--T-TTGGT-AA-ATTATTATTGTT--AT-TGTTAT-TTAAAT
1 AATAA-TA--A-ATAATTTAATCATATT--TAAACATAATTATTATTAAATATATTATATTAAAA
* * * * *
61025621 TTTGATAAGATT-AT-TAA-TATG
60 TAT-ATAA-TTTAATAAAATTCTT
61025642 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATA-TTAAAATATAT
61025707 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
*
61025724 AATAATTAATA
1 AATAATAAATA
61025735 TTCTTATATG
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 3 0.02
75 10 0.08
76 21 0.17
77 6 0.05
78 8 0.07
79 8 0.07
80 6 0.05
81 21 0.17
82 20 0.17
83 3 0.02
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (81 bp):
AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATATTAAAATATATA
ATTTAATAAAATTCTT
Found at i:61025805 original size:157 final size:155
Alignment explanation
Indices: 61025468--61025789 Score: 349
Period size: 157 Copynumber: 2.0 Consensus size: 155
61025458 TTAAATTTTA
* * * *
61025468 ATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * * * * ** *
61025533 TTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTACCAGAAATTTGTTTTGGTAAATT
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
* * * * *
61025598 ATTATTGTTATTGTTATTTAAATTTTG
131 ATAATTATTATTGATATATAAA--TAG
* *
61025625 ATAAGATTATTAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * **
61025690 TTATACTTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACA--CAAATATG-ATTTACT-A
61025755 AATCATAATATATTATATGATACTATAAA-AG
127 AATCATAAT-TATTAT-TGATA-TATAAATAG
61025786 ATAA
1 ATAA
61025790 TTTGAAATAA
Statistics
Matches: 137, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
157 102 0.74
159 4 0.03
160 4 0.03
161 13 0.09
162 5 0.04
163 4 0.03
164 5 0.04
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (155 bp):
ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
ATAATTATTATTGATATATAAATAG
Found at i:61036029 original size:18 final size:18
Alignment explanation
Indices: 61035995--61036028 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
61035985 CTTTTATTAA
61035995 ATGATTATTATTATTTTG
1 ATGATTATTATTATTTTG
*
61036013 ATGATT-TTTTTATTTT
1 ATGATTATTATTATTTT
61036029 TTCATACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (18 bp):
ATGATTATTATTATTTTG
Found at i:61036266 original size:29 final size:29
Alignment explanation
Indices: 61036207--61036266 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 29
61036197 TTTAATCTAA
* * * *
61036207 TGTGTAATTCTATACATGTACTTTGATTT
1 TGTGGAATTCTATACATGAAATTTGAATT
* *
61036236 TGTGGAATTTTATACATGAAATTTTAATT
1 TGTGGAATTCTATACATGAAATTTGAATT
61036265 TG
1 TG
61036267 ATCAGATTCT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (29 bp):
TGTGGAATTCTATACATGAAATTTGAATT
Found at i:61038430 original size:25 final size:26
Alignment explanation
Indices: 61038404--61038454 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
61038394 TAAAAAAATA
61038404 AAAATAAA-AA-TTCTAAAATTATAT
1 AAAATAAATAATTTCTAAAATTATAT
*
61038428 AAAATAAATAATTTTCTTAAATTATAT
1 AAAATAAATAA-TTTCTAAAATTATAT
61038455 TTTTACTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 8 0.35
25 2 0.09
27 13 0.57
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (26 bp):
AAAATAAATAATTTCTAAAATTATAT
Found at i:61038494 original size:21 final size:21
Alignment explanation
Indices: 61038470--61038510 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61038460 CTTTTTGAAA
61038470 TTATAAAAAAATATAAAATTG
1 TTATAAAAAAATATAAAATTG
* *
61038491 TTATAAAAATATTTAAAATT
1 TTATAAAAAAATATAAAATT
61038511 AACATGAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TTATAAAAAAATATAAAATTG
Found at i:61038912 original size:2 final size:2
Alignment explanation
Indices: 61038907--61038945 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
61038897 CTTTAATACA
61038907 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61038946 ATACTTGGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:61041550 original size:15 final size:16
Alignment explanation
Indices: 61041530--61041560 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61041520 TAATGTAAAG
61041530 TGAATTG-AAATATAT
1 TGAATTGAAAATATAT
61041545 TGAATTGAAAATATAT
1 TGAATTGAAAATATAT
61041561 ATGATTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (16 bp):
TGAATTGAAAATATAT
Found at i:61041785 original size:12 final size:12
Alignment explanation
Indices: 61041768--61041797 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
61041758 GTACCGCTAC
61041768 TGTTACTGTTAT
1 TGTTACTGTTAT
61041780 TGTTACTGTTAT
1 TGTTACTGTTAT
*
61041792 CGTTAC
1 TGTTAC
61041798 GGTGTATTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.53
Consensus pattern (12 bp):
TGTTACTGTTAT
Found at i:61045949 original size:46 final size:46
Alignment explanation
Indices: 61045897--61046218 Score: 500
Period size: 46 Copynumber: 7.0 Consensus size: 46
61045887 GTGTGCTCTT
*
61045897 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
61045943 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* *
61045989 TGATATTAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
61046035 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
**
61046081 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* * * *
61046127 TGATATGAAATGAGTAAGACCATGGTTGAAGGATACTATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*** **
61046173 TGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
61046219 ATGACAGAAA
Statistics
Matches: 258, Mismatches: 17, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
46 223 0.86
47 35 0.14
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
Found at i:61046248 original size:46 final size:46
Alignment explanation
Indices: 61045897--61046255 Score: 495
Period size: 46 Copynumber: 7.8 Consensus size: 46
61045887 GTGTGCTCTT
* *
61045897 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
61045943 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACC
* * *
61045989 TGATATTAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACC
* *
61046035 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
61046081 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACC
* * *
61046127 TGATATGAAATGAGTAAGACCATGGTTGAAGGATACTATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACC
*** * *
61046173 TGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACC
* ** * *
61046220 TGACA-GAAAACAAGTAAAACCATAGTTGAAAGATAC
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
61046256 TATGACATCA
Statistics
Matches: 289, Mismatches: 23, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 249 0.86
47 40 0.14
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACC
Found at i:61047921 original size:24 final size:24
Alignment explanation
Indices: 61047889--61047935 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
61047879 TTTTCTAATC
61047889 GCGAGACAGT-TCACCAATCACCTT
1 GCGAGACAGTCT-ACCAATCACCTT
* *
61047913 GCGATACAGTCTACCAGTCACCT
1 GCGAGACAGTCTACCAATCACCT
61047936 GTTCATCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (24 bp):
GCGAGACAGTCTACCAATCACCTT
Found at i:61061620 original size:21 final size:21
Alignment explanation
Indices: 61061595--61061636 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
61061585 ATTAGAAAAC
61061595 ATGTAAAAGTACAAGATAAAT
1 ATGTAAAAGTACAAGATAAAT
61061616 ATGTAAAAGTACAAGATAAAT
1 ATGTAAAAGTACAAGATAAAT
61061637 TACATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (21 bp):
ATGTAAAAGTACAAGATAAAT
Found at i:61065675 original size:3 final size:3
Alignment explanation
Indices: 61065667--61065691 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
61065657 TAAAAGAAGG
61065667 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
61065692 TTAAACTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:61065681 original size:31 final size:29
Alignment explanation
Indices: 61065615--61065681 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 29
61065605 CAAGCAAATG
*
61065615 AATAAAAT-AAATAAATAAAAGAAGGAAT
1 AATAAAATAAAACAAATAAAAGAAGGAAT
61065643 --TAAAATAAAACAAATAAAAGAAGGTAAT
1 AATAAAATAAAACAAATAAAAGAAGG-AAT
61065671 AATAATAATAA
1 AATAA-AATAA
61065682 TAATAATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
26 6 0.18
27 16 0.48
28 3 0.09
30 3 0.09
31 5 0.15
ACGTcount: A:0.70, C:0.01, G:0.09, T:0.19
Consensus pattern (29 bp):
AATAAAATAAAACAAATAAAAGAAGGAAT
Found at i:61067606 original size:12 final size:12
Alignment explanation
Indices: 61067589--61067620 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
61067579 TAGTTAGAAA
61067589 AAGAAATTATTG
1 AAGAAATTATTG
61067601 AAGAAATTATTG
1 AAGAAATTATTG
61067613 AAGAAATT
1 AAGAAATT
61067621 GGGTAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (12 bp):
AAGAAATTATTG
Found at i:61069622 original size:54 final size:54
Alignment explanation
Indices: 61069554--61069687 Score: 241
Period size: 54 Copynumber: 2.5 Consensus size: 54
61069544 TCGTTGCAAA
61069554 GGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTGCAGG
1 GGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTGCAGG
*
61069608 GGATTTAGCCTGGACTGGTAATCCCGATAATACTCTATGAGTTTATATTGCAGG
1 GGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTGCAGG
* *
61069662 TGATTTAGCTTGGACTGGTAATCCCG
1 GGATTTAGCCTGGACTGGTAATCCCG
61069688 CTGCAAGGTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (54 bp):
GGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTGCAGG
Found at i:61070293 original size:23 final size:23
Alignment explanation
Indices: 61070267--61070311 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
61070257 TGGGTATGTG
*
61070267 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
61070290 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
61070312 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:61073662 original size:18 final size:18
Alignment explanation
Indices: 61073639--61073674 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
61073629 TGAAATTTCA
61073639 AAATTAGAAAAATATGCT
1 AAATTAGAAAAATATGCT
*
61073657 AAATTAGGAAAATATGCT
1 AAATTAGAAAAATATGCT
61073675 GGAAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.14, T:0.28
Consensus pattern (18 bp):
AAATTAGAAAAATATGCT
Found at i:61074275 original size:16 final size:16
Alignment explanation
Indices: 61074254--61074287 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
61074244 ATATATAGTT
61074254 AATTAATT-AAAATATG
1 AATTAATTGAAAAT-TG
61074270 AATTAATTGAAAATTG
1 AATTAATTGAAAATTG
61074286 AA
1 AA
61074288 AAGTGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
AATTAATTGAAAATTG
Found at i:61074701 original size:18 final size:18
Alignment explanation
Indices: 61074638--61074708 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
61074628 TGGAGAGATC
61074638 GACTGTTACTGAATAATTT
1 GACTGTTACTGAATAA-TT
* * *
61074657 AATTGTTACTGTAT-ATCT
1 GACTGTTACTGAATAAT-T
* *
61074675 GATTTTTACTGAATAATT
1 GACTGTTACTGAATAATT
*
61074693 GACTGTTACTGGATAA
1 GACTGTTACTGAATAA
61074709 CCGATCAATT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
17 1 0.02
18 27 0.66
19 13 0.32
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (18 bp):
GACTGTTACTGAATAATT
Found at i:61074749 original size:18 final size:18
Alignment explanation
Indices: 61074725--61074788 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
61074715 AATTGATTGA
61074725 TACTGAATAACTGATTAT
1 TACTGAATAACTGATTAT
* * *
61074743 TATTGAATAATTGATTGT
1 TACTGAATAACTGATTAT
* *
61074761 TACCGAATAACTGACTAT
1 TACTGAATAACTGATTAT
*
61074779 TACTAAATAA
1 TACTGAATAA
61074789 ATAATTGTTC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:61074788 original size:36 final size:36
Alignment explanation
Indices: 61074715--61074797 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 36
61074705 ATAACCGATC
* * * * *
61074715 AATTGATTGATACTGAATAACTGATTATTATTGAAT
1 AATTGATTGTTACCGAATAACTGACTATTACTAAAT
61074751 AATTGATTGTTACCGAATAACTGACTATTACTAAAT
1 AATTGATTGTTACCGAATAACTGACTATTACTAAAT
* *
61074787 AAATAATTGTT
1 AATTGATTGTT
61074798 CTGATTGACT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (36 bp):
AATTGATTGTTACCGAATAACTGACTATTACTAAAT
Found at i:61075498 original size:26 final size:26
Alignment explanation
Indices: 61075487--61075539 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
61075477 TAAAAAATAT
61075487 AGTATAAAGAAATAAATAAAATAAAC
1 AGTATAAAGAAATAAATAAAATAAAC
61075513 AGTATAAAGAAATAAATAAAATAAAC
1 AGTATAAAGAAATAAATAAAATAAAC
61075539 A
1 A
61075540 ATAGTGAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.70, C:0.04, G:0.08, T:0.19
Consensus pattern (26 bp):
AGTATAAAGAAATAAATAAAATAAAC
Found at i:61075501 original size:22 final size:23
Alignment explanation
Indices: 61075476--61075528 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 23
61075466 TTTGAAACAT
*
61075476 ATAAAAAAT-ATAGTATAAAGAA
1 ATAAAAAATAACAGTATAAAGAA
61075498 ATAAATAAAATAAACAGTATAAAGAA
1 AT-AA-AAAAT-AACAGTATAAAGAA
61075524 ATAAA
1 ATAAA
61075529 TAAAATAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 2 0.08
23 2 0.08
24 6 0.23
25 2 0.08
26 14 0.54
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.21
Consensus pattern (23 bp):
ATAAAAAATAACAGTATAAAGAA
Found at i:61086726 original size:13 final size:13
Alignment explanation
Indices: 61086704--61086733 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
61086694 CAAAGGGGTT
61086704 GAGAAAAAAAATA
1 GAGAAAAAAAATA
*
61086717 GAGAAGAAAAATA
1 GAGAAAAAAAATA
61086730 GAGA
1 GAGA
61086734 TAGGGAGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (13 bp):
GAGAAAAAAAATA
Found at i:61087857 original size:19 final size:19
Alignment explanation
Indices: 61087813--61087851 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
61087803 TAGTGTATAG
* *
61087813 ATGAATTGAAATTTGGATG
1 ATGAATTGAAATTTGAATA
61087832 ATGAATTGAAATTTGAATA
1 ATGAATTGAAATTTGAATA
61087851 A
1 A
61087852 GTAATTTAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.36
Consensus pattern (19 bp):
ATGAATTGAAATTTGAATA
Found at i:61092076 original size:36 final size:37
Alignment explanation
Indices: 61092036--61092109 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 37
61092026 TAGGCATCCG
61092036 ACTCGTTGAGTTGAGTCCGAGTTCA-TGTGGATGCGA
1 ACTCGTTGAGTTGAGTCCGAGTTCACTGTGGATGCGA
61092072 ACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGA
1 ACTCGTTGAGTTGAGTCCGAGTTCAC-TGTGGATGCGA
61092110 CGCCCGAGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 25 0.69
38 11 0.31
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (37 bp):
ACTCGTTGAGTTGAGTCCGAGTTCACTGTGGATGCGA
Found at i:61101289 original size:46 final size:46
Alignment explanation
Indices: 61101239--61101414 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
61101229 TGGTTGAGCA
61101239 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
61101285 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
61101330 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
61101378 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61101415 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:61101395 original size:93 final size:93
Alignment explanation
Indices: 61101236--61101407 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
61101226 GGATGGTTGA
* *
61101236 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
61101301 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
61101329 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
61101394 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
61101408 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:61105366 original size:29 final size:30
Alignment explanation
Indices: 61105317--61105380 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
61105307 TGTTTTATTA
* * *
61105317 TGGTA-TTTTACTTTTATAAATGTCCAATG
1 TGGTACTTGTACTTTGATAAATGTACAATG
*
61105346 TGGTACTTGTACTTTGA-AAATGTATAATG
1 TGGTACTTGTACTTTGATAAATGTACAATG
61105375 TGGTAC
1 TGGTAC
61105381 CTAAATTATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (30 bp):
TGGTACTTGTACTTTGATAAATGTACAATG
Found at i:61105551 original size:5 final size:5
Alignment explanation
Indices: 61105543--61105567 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
61105533 AAACTAAAAT
61105543 AATTA AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA
61105568 GAAAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:61106551 original size:15 final size:14
Alignment explanation
Indices: 61106508--61106548 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
61106498 TTGGACTTAT
61106508 TTTTTATATTTTAA
1 TTTTTATATTTTAA
61106522 TTTAATTA-ATTTTAA
1 TTT--TTATATTTTAA
61106537 TTTTTATATTTT
1 TTTTTATATTTT
61106549 TAAAATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 3 0.12
14 8 0.33
15 10 0.42
16 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTATATTTTAA
Found at i:61115454 original size:16 final size:17
Alignment explanation
Indices: 61115428--61115467 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
61115418 ACATCATTCC
61115428 TAAATTATTTT-TTTTT
1 TAAATTATTTTATTTTT
* *
61115444 TGAATTCTTTTATTTTT
1 TAAATTATTTTATTTTT
61115461 TAAATTA
1 TAAATTA
61115468 AAAATTAATC
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TAAATTATTTTATTTTT
Found at i:61117491 original size:27 final size:27
Alignment explanation
Indices: 61117461--61117515 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
61117451 AGGGGATTTT
61117461 TTTGAAACCATTGAATTCAAATTATGG
1 TTTGAAACCATTGAATTCAAATTATGG
61117488 TTTGAAACCATTGAATTCAAATTATGG
1 TTTGAAACCATTGAATTCAAATTATGG
61117515 T
1 T
61117516 AAGGTAGCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (27 bp):
TTTGAAACCATTGAATTCAAATTATGG
Found at i:61122460 original size:30 final size:30
Alignment explanation
Indices: 61122421--61122482 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
61122411 ACTTGTTTTA
61122421 TTGTCAATTTTGTTATTATTTTAAAGACAT
1 TTGTCAATTTTGTTATTATTTTAAAGACAT
* * *
61122451 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTCAATTTTGTTATTATTTTAAAGACAT
61122481 TT
1 TT
61122483 ACTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (30 bp):
TTGTCAATTTTGTTATTATTTTAAAGACAT
Found at i:61128553 original size:24 final size:24
Alignment explanation
Indices: 61128483--61128580 Score: 135
Period size: 24 Copynumber: 4.1 Consensus size: 24
61128473 GTCGCTGTCC
*
61128483 CCCTTGCCCTTACCATTGCTGTCG
1 CCCTTGCCCTTACCATTGCTGTTG
61128507 CCCTTGCCCTTACCATTGCTGTTG
1 CCCTTGCCCTTACCATTGCTGTTG
*
61128531 CCCTTGCTCTTACCATTGCTGTTG
1 CCCTTGCCCTTACCATTGCTGTTG
* * *
61128555 CCATAT-CCATTACCATTGTTGTTG
1 CCCT-TGCCCTTACCATTGCTGTTG
61128579 CC
1 CC
61128581 ATTCCCATTG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 66 0.99
25 1 0.01
ACGTcount: A:0.11, C:0.36, G:0.15, T:0.38
Consensus pattern (24 bp):
CCCTTGCCCTTACCATTGCTGTTG
Found at i:61128558 original size:12 final size:12
Alignment explanation
Indices: 61128495--61128558 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
61128485 CTTGCCCTTA
*
61128495 CCATTGCTGTCG
1 CCATTGCTGTTG
* ** *
61128507 CCCTTGCCCTTA
1 CCATTGCTGTTG
61128519 CCATTGCTGTTG
1 CCATTGCTGTTG
* * *
61128531 CCCTTGCTCTTA
1 CCATTGCTGTTG
61128543 CCATTGCTGTTG
1 CCATTGCTGTTG
61128555 CCAT
1 CCAT
61128559 ATCCATTACC
Statistics
Matches: 37, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.09, C:0.36, G:0.17, T:0.38
Consensus pattern (12 bp):
CCATTGCTGTTG
Found at i:61132282 original size:16 final size:17
Alignment explanation
Indices: 61132247--61132279 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
61132237 TGGCTTGTTA
61132247 ATTTTTTAATGAAAATT
1 ATTTTTTAATGAAAATT
61132264 ATTTTTTAATGAAAAT
1 ATTTTTTAATGAAAAT
61132280 ATTGATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (17 bp):
ATTTTTTAATGAAAATT
Found at i:61133947 original size:31 final size:32
Alignment explanation
Indices: 61133856--61133945 Score: 130
Period size: 31 Copynumber: 2.9 Consensus size: 32
61133846 ATTGATGTAT
* **
61133856 AGGGTTTAATTG-TTATTTTAATTATTTTATG
1 AGGGTTTAATTGATTTTTTTAATTATTTTAAA
*
61133887 AGGGGTTAATTGA-TTTTTTAATTATTTTAAA
1 AGGGTTTAATTGATTTTTTTAATTATTTTAAA
61133918 AGGGTTTAATTGATTTTTTTAATTATTT
1 AGGGTTTAATTGATTTTTTTAATTATTT
61133946 AAGTCTAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
31 38 0.73
32 14 0.27
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.57
Consensus pattern (32 bp):
AGGGTTTAATTGATTTTTTTAATTATTTTAAA
Found at i:61134295 original size:29 final size:25
Alignment explanation
Indices: 61134242--61134291 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
61134232 TAAAATAAAA
61134242 AGCACACCACTCAATCAATTTTTCT
1 AGCACACCACTCAATCAATTTTTCT
61134267 AGCACACCACTCAATCAATTTTTCT
1 AGCACACCACTCAATCAATTTTTCT
61134292 TTCTTTGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.04, T:0.32
Consensus pattern (25 bp):
AGCACACCACTCAATCAATTTTTCT
Found at i:61137588 original size:60 final size:58
Alignment explanation
Indices: 61137461--61137615 Score: 140
Period size: 60 Copynumber: 2.6 Consensus size: 58
61137451 TAATAATTTC
* * * * *
61137461 ATATTTTTATCATTTTAATAGTTTTTATATTATTTTATATAACTTATTTATTGTGTTCT
1 ATATTTTTA-AATTTTTATAATTTTTATAATATTTTATATAACATATTTATTGTGTTCT
61137520 ATATTTTTAAATTTTTTTATAATTTTTATAATATTTT-TCATAACATATTTA-T-T-TTCT
1 ATATTTTTAAA--TTTTTATAATTTTTATAATATTTTAT-ATAACATATTTATTGTGTTCT
* *
61137577 ATAATTATTTTAGATTTTTATAATATTT-TAATAATTTTA
1 AT-A-T-TTTTAAATTTTTATAATTTTTATAAT-ATTTTA
61137616 CACTTAAATA
Statistics
Matches: 81, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
57 10 0.12
58 21 0.26
59 12 0.15
60 38 0.47
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (58 bp):
ATATTTTTAAATTTTTATAATTTTTATAATATTTTATATAACATATTTATTGTGTTCT
Found at i:61137600 original size:19 final size:19
Alignment explanation
Indices: 61137570--61137606 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
61137560 TAACATATTT
61137570 ATTTTCTATAATTATTTTAG
1 ATTTTCTATAA-TATTTTAG
61137590 ATTTT-TATAATATTTTA
1 ATTTTCTATAATATTTTA
61137607 ATAATTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 5 0.29
20 5 0.29
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
ATTTTCTATAATATTTTAG
Found at i:61139847 original size:3 final size:3
Alignment explanation
Indices: 61139839--61139867 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
61139829 TTGACTTCAT
61139839 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
61139868 TTTGAATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:61149231 original size:23 final size:23
Alignment explanation
Indices: 61149200--61149244 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
61149190 TTACTTTTTC
*
61149200 AAATTATTAATAATTTT-TAAAG
1 AAATTATTAAAAATTTTATAAAG
61149222 AAATTCATTAAAAATTTTATAAA
1 AAATT-ATTAAAAATTTTATAAA
61149245 AAACTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 11 0.55
24 4 0.20
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
AAATTATTAAAAATTTTATAAAG
Found at i:61151227 original size:14 final size:14
Alignment explanation
Indices: 61151210--61151240 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
61151200 ATAAAGAGAG
61151210 AAAAATAATGTAAA
1 AAAAATAATGTAAA
*
61151224 AAAAATAATTTAAA
1 AAAAATAATGTAAA
61151238 AAA
1 AAA
61151241 TAATTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (14 bp):
AAAAATAATGTAAA
Found at i:61151807 original size:18 final size:18
Alignment explanation
Indices: 61151780--61151817 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
61151770 AAATTTGAAC
61151780 TTTTACTCAAAAATA-TT
1 TTTTACTCAAAAATACTT
61151797 TTTTAACTCAAAAATACTT
1 TTTT-ACTCAAAAATACTT
61151816 TT
1 TT
61151818 AAAAAACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 11 0.58
19 4 0.21
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTTACTCAAAAATACTT
Found at i:61152300 original size:19 final size:20
Alignment explanation
Indices: 61152273--61152317 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
61152263 ATTATACACC
* *
61152273 AAAAAATAT-GAATTTAATT
1 AAAATATATAGAATTCAATT
61152292 AAAATATATAGAATTCAATT
1 AAAATATATAGAATTCAATT
*
61152312 TAAATA
1 AAAATA
61152318 ATTTAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (20 bp):
AAAATATATAGAATTCAATT
Found at i:61153186 original size:89 final size:89
Alignment explanation
Indices: 61153031--61153210 Score: 270
Period size: 89 Copynumber: 2.0 Consensus size: 89
61153021 AAAGCAAATG
* * *
61153031 AATTTTGATCATCAAACAGTCATGAACCAACATCCCAAATTCAGAAACATTTACATGTGAATCTG
1 AATTTTGATCATCAAACAATCATGAACCAACATCCCAAATTCAAAAACATTTACATGTGAACCTG
*
61153096 TCAAAGCAGAAATAATATTGTAGC
66 TCAAAGCAGAAATAACATTGTAGC
* * * * *
61153120 AATTTTGATTATCGAACAATCATGAACCAGCATCCCAAATTTAAAAAGATTTACATGTGAACCTG
1 AATTTTGATCATCAAACAATCATGAACCAACATCCCAAATTCAAAAACATTTACATGTGAACCTG
*
61153185 TCAAAGCAGAAATAGCATTGTAGC
66 TCAAAGCAGAAATAACATTGTAGC
61153209 AA
1 AA
61153211 ATGGAGTGTA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 81 1.00
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (89 bp):
AATTTTGATCATCAAACAATCATGAACCAACATCCCAAATTCAAAAACATTTACATGTGAACCTG
TCAAAGCAGAAATAACATTGTAGC
Found at i:61160211 original size:46 final size:46
Alignment explanation
Indices: 61160122--61160244 Score: 142
Period size: 46 Copynumber: 2.6 Consensus size: 46
61160112 TATCTCAAGT
61160122 CGATGCCATGTCCCAGACATGGTCTTACACTGATTATCATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGATTATCATCTCG-AGGC
* *
61160170 CGATGCATGTCCCAGACATGTCTTACACTGGCTTA-CGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACT-GATTATCATCTCGAGGC
* * * *
61160216 TGATGTATGTTCTAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
61160245 AGCCCTCATT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
45 1 0.01
46 43 0.64
47 18 0.27
48 5 0.07
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGATTATCATCTCGAGGC
Found at i:61166533 original size:51 final size:50
Alignment explanation
Indices: 61166370--61166558 Score: 173
Period size: 51 Copynumber: 3.7 Consensus size: 50
61166360 ATGAGAACAC
* * ** * *
61166370 GTGTAGTACTATGTGCAGGCTACTATGTGTTGAAGACGGTT-TTAGCTCACGT
1 GTGTAGTACTAAGTGCAGGCTACTATGCG-T-ACCA-GATTCTTAGATCACGT
* * * * * * * *
61166422 GTCTAGTACTAAATGCAGGCTACTACGTGTATCAGATTGTTAGGTCACAT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTCTTAGATCACGT
* * *
61166472 GTGTAGTACTAAGTACAGGCTACTATGCGTACCCGATATCTTCGATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT-TCTTAGATCACGT
*
61166523 GTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGA
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
61166559 GAGCTTCGGT
Statistics
Matches: 112, Mismatches: 23, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
49 3 0.03
50 41 0.37
51 43 0.38
52 25 0.22
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (50 bp):
GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTCTTAGATCACGT
Found at i:61170502 original size:29 final size:30
Alignment explanation
Indices: 61170455--61170522 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
61170445 CGGCCCAAGA
* *
61170455 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
61170485 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
61170515 GCAAATAT
1 GTAAATAT
61170523 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:61172774 original size:46 final size:46
Alignment explanation
Indices: 61172722--61172949 Score: 296
Period size: 46 Copynumber: 5.0 Consensus size: 46
61172712 AGTGTGCTCT
* *
61172722 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
61172768 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
61172814 CTGATATGAAATGAATAAGACCATGGTTGAAATATACTATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** *
61172860 GTGACATGAAATGAACAAGACCATGGTTGAAAGATATCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
61172906 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
61172950 TCATGTCAAA
Statistics
Matches: 163, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 162 0.99
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:61174746 original size:14 final size:15
Alignment explanation
Indices: 61174727--61174755 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
61174717 AGTGTATTAT
61174727 TATTTTTAAA-AAAA
1 TATTTTTAAATAAAA
61174741 TATTTTTAAATAAAA
1 TATTTTTAAATAAAA
61174756 ATTAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTTTAAATAAAA
Found at i:61178530 original size:2 final size:2
Alignment explanation
Indices: 61178523--61178554 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
61178513 AAATGTAGCT
61178523 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
61178555 AGCATTCCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:61182157 original size:46 final size:46
Alignment explanation
Indices: 61182105--61182332 Score: 296
Period size: 46 Copynumber: 5.0 Consensus size: 46
61182095 AGTGTGCTCT
* *
61182105 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
61182151 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
61182197 CTGATATGAAATGAATAAGACCATGGTTGAAATATACTATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** *
61182243 GTGACATGAAATGAACAAGACCATGGTTGAAAGATATCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
61182289 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
61182333 TCATGTCAAA
Statistics
Matches: 163, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 162 0.99
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:61184131 original size:14 final size:15
Alignment explanation
Indices: 61184112--61184140 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
61184102 AGTGTATTAT
61184112 TATTTTTAAA-AAAA
1 TATTTTTAAATAAAA
61184126 TATTTTTAAATAAAA
1 TATTTTTAAATAAAA
61184141 ATTAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTTTAAATAAAA
Found at i:61187914 original size:2 final size:2
Alignment explanation
Indices: 61187907--61187938 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
61187897 AAATGTAGCT
61187907 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
61187939 AGCATTCCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:61191143 original size:29 final size:27
Alignment explanation
Indices: 61191079--61191191 Score: 85
Period size: 29 Copynumber: 4.2 Consensus size: 27
61191069 TAATTTAATC
61191079 TTAAATTTAAATATATATATAAATAAA
1 TTAAATTTAAATATATATATAAATAAA
*
61191106 TAAATATTTAAA-ATATATATACTAATAAA
1 TTAA-ATTTAAATATATATATA--AATAAA
* *
61191135 TTTAAATTT-TATAT-TA-AT-ATTAAA
1 -TTAAATTTAAATATATATATAAATAAA
*
61191159 -TAAATTTAATTATATTATATTAAATAAA
1 TTAAATTTAAATATA-TATA-TAAATAAA
*
61191187 ATAAA
1 TTAAA
61191192 AATCCCCCAC
Statistics
Matches: 67, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
22 7 0.10
23 3 0.04
24 5 0.07
25 2 0.03
26 1 0.01
27 15 0.22
28 15 0.22
29 16 0.24
30 3 0.04
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (27 bp):
TTAAATTTAAATATATATATAAATAAA
Found at i:61191260 original size:26 final size:25
Alignment explanation
Indices: 61191229--61191286 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
61191219 CCACCACCGT
*
61191229 ACTTCAACAT-CCATCTTTCCATGCAA
1 ACTTCAACATGCCAT-TGTCC-TGCAA
61191255 ACTTCAA-ATGCCATTGTCCTGCAA
1 ACTTCAACATGCCATTGTCCTGCAA
*
61191279 ATTTCAAC
1 ACTTCAAC
61191287 CTCCCATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 11 0.39
25 6 0.21
26 11 0.39
ACGTcount: A:0.31, C:0.31, G:0.07, T:0.31
Consensus pattern (25 bp):
ACTTCAACATGCCATTGTCCTGCAA
Found at i:61191685 original size:25 final size:24
Alignment explanation
Indices: 61191648--61191696 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
61191638 GGTGGGGGGT
*
61191648 TTATTTTCTTTAATACTAATATAA
1 TTATTTTATTTAATACTAATATAA
*
61191672 TTATATTTATTTAATATTAATATAA
1 TTAT-TTTATTTAATACTAATATAA
61191697 ATACAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (24 bp):
TTATTTTATTTAATACTAATATAA
Found at i:61194266 original size:17 final size:16
Alignment explanation
Indices: 61194246--61194314 Score: 57
Period size: 18 Copynumber: 3.9 Consensus size: 16
61194236 TTTCTTTTCT
61194246 TTTTTTTAACTTTTATA
1 TTTTTTTAA-TTTTATA
* *
61194263 TTTTTCTTTAATTTTTTCC
1 -TTTT-TTTAATTTTAT-A
61194282 TTTTTTTAAGTTTTATA
1 TTTTTTTAA-TTTTATA
*
61194299 TTTTTTCTTATTTTAT
1 TTTTTT-TAATTTTAT
61194315 TTTGTTTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 17 0.40
18 20 0.48
19 5 0.12
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.74
Consensus pattern (16 bp):
TTTTTTTAATTTTATA
Found at i:61194337 original size:14 final size:14
Alignment explanation
Indices: 61194297--61194344 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
61194287 TTAAGTTTTA
*
61194297 TATTTTTTCTTATT
1 TATTTTTTGTTATT
*
61194311 T-TATTTTGTTTATT
1 TATTTTTTG-TTATT
61194325 TATTTTTTGTTATT
1 TATTTTTTGTTATT
*
61194339 AATTTT
1 TATTTT
61194345 AAAAAATTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 5 0.18
14 17 0.61
15 6 0.21
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (14 bp):
TATTTTTTGTTATT
Found at i:61194412 original size:21 final size:21
Alignment explanation
Indices: 61194373--61194484 Score: 82
Period size: 21 Copynumber: 5.0 Consensus size: 21
61194363 ATTTGAAATG
61194373 TTTTATAATATATATTTTTTAAAA
1 TTTTA-AATAT-TA-TTTTTAAAA
*
61194397 TTTTAAATATTATTTTTTAAA
1 TTTTAAATATTATTTTTAAAA
*
61194418 TTTTAAATTTTATTTTTTTAAATA
1 TTTTAAATATTA--TTTTTAAA-A
* * *
61194442 TTATTTAAT-TTGTTTTATAATA
1 TT-TTAAATATTATTTT-TAAAA
*
61194464 TTTTAAATTATAATTTTTAAA
1 TTTTAAA-TATTATTTTTAAA
61194485 TTATTTGTAA
Statistics
Matches: 71, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
21 23 0.32
22 13 0.18
23 20 0.28
24 10 0.14
25 5 0.07
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.62
Consensus pattern (21 bp):
TTTTAAATATTATTTTTAAAA
Found at i:61194413 original size:22 final size:22
Alignment explanation
Indices: 61194373--61194481 Score: 96
Period size: 23 Copynumber: 4.8 Consensus size: 22
61194363 ATTTGAAATG
61194373 TTTTATAATATATATTTTTTAAAA
1 TTTTA-AATAT-TATTTTTTAAAA
61194397 TTTTAAATATTATTTTTT-AAA
1 TTTTAAATATTATTTTTTAAAA
*
61194418 TTTTAAATTTTATTTTTTTAAATA
1 TTTTAAATATTA-TTTTTTAAA-A
* * * *
61194442 TTATTTAAT-TTGTTTTATAATA
1 TT-TTAAATATTATTTTTTAAAA
*
61194464 TTTTAAATTATAATTTTT
1 TTTTAAA-TATTATTTTT
61194482 AAATTATTTG
Statistics
Matches: 70, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
21 18 0.26
22 18 0.26
23 19 0.27
24 10 0.14
25 5 0.07
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (22 bp):
TTTTAAATATTATTTTTTAAAA
Found at i:61194436 original size:15 final size:15
Alignment explanation
Indices: 61194418--61194447 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61194408 ATTTTTTAAA
*
61194418 TTTTAAATTTTATTT
1 TTTTAAATATTATTT
61194433 TTTTAAATATTATTT
1 TTTTAAATATTATTT
61194448 AATTTGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTAAATATTATTT
Found at i:61194448 original size:19 final size:22
Alignment explanation
Indices: 61194424--61194465 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
61194414 TAAATTTTAA
*
61194424 ATTTTATTT-TTTTA-AATATT
1 ATTTAATTTGTTTTATAATATT
61194444 ATTTAATTTGTTTTATAATATT
1 ATTTAATTTGTTTTATAATATT
61194466 TTAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 5 0.26
22 6 0.32
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTAATTTGTTTTATAATATT
Found at i:61194481 original size:14 final size:15
Alignment explanation
Indices: 61194456--61194488 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
61194446 TTAATTTGTT
61194456 TTATAATATTTTAAA
1 TTATAATATTTTAAA
61194471 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
61194485 TTAT
1 TTAT
61194489 TTGTAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:61194752 original size:20 final size:19
Alignment explanation
Indices: 61194710--61194752 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
61194700 TATTTAAAAG
*
61194710 TTAAAAAATAATATTTTAT
1 TTAAAAAATAATATTTTAA
61194729 TTAAAAAAGTAA-ATTTTGAA
1 TTAAAAAA-TAATATTTT-AA
61194749 TTAA
1 TTAA
61194753 TTAAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
TTAAAAAATAATATTTTAA
Found at i:61194859 original size:20 final size:19
Alignment explanation
Indices: 61194810--61194859 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
61194800 TTATTTTAAT
61194810 ATATATATTAAAAAGTAAAA
1 ATATATATT-AAAAGTAAAA
* *
61194830 ATTTAAATTAAAAGTTAAAA
1 ATATATATTAAAAG-TAAAA
61194850 ATATATATTA
1 ATATATATTA
61194860 TAAAATCACA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (19 bp):
ATATATATTAAAAGTAAAA
Found at i:61195334 original size:40 final size:40
Alignment explanation
Indices: 61195290--61195366 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
61195280 AGTGTTGGTT
*
61195290 ATAATTTTTTTA-TTATAGTACACATTTATAAATTTATATA
1 ATAA-TTTTTTAGTTATAGTACACATTCATAAATTTATATA
*
61195330 ATAATTTTTTAGTTTTAGTACACATTCATAAATTTAT
1 ATAATTTTTTAGTTATAGTACACATTCATAAATTTAT
61195367 GTACTTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 7 0.21
40 27 0.79
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (40 bp):
ATAATTTTTTAGTTATAGTACACATTCATAAATTTATATA
Found at i:61195413 original size:32 final size:32
Alignment explanation
Indices: 61195377--61195442 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
61195367 GTACTTAATA
61195377 TATATTTTTAATAGATAAAGACAAAAAAGATT
1 TATATTTTTAATAGATAAAGACAAAAAAGATT
61195409 TATATTTTTAATAGATAAAGACAAAAAAGATT
1 TATATTTTTAATAGATAAAGACAAAAAAGATT
61195441 TA
1 TA
61195443 CTTAATAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.35
Consensus pattern (32 bp):
TATATTTTTAATAGATAAAGACAAAAAAGATT
Found at i:61195663 original size:16 final size:17
Alignment explanation
Indices: 61195641--61195678 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
61195631 AAAAACGTAA
*
61195641 AAAAATTTAAATATATT
1 AAAATTTTAAATATATT
61195658 AAAATTTTAAATATATT
1 AAAATTTTAAATATATT
61195675 AAAA
1 AAAA
61195679 GAAAATGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATTTTAAATATATT
Found at i:61195746 original size:17 final size:17
Alignment explanation
Indices: 61195733--61195771 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
61195723 ATATTTAGAT
61195733 ATATTAAAATTTTAAAC
1 ATATTAAAATTTTAAAC
61195750 ATATTAAAATTTATAAGAC
1 ATATTAAAATTT-TAA-AC
61195769 ATA
1 ATA
61195772 ATTTCAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 12 0.60
18 3 0.15
19 5 0.25
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (17 bp):
ATATTAAAATTTTAAAC
Found at i:61195804 original size:21 final size:20
Alignment explanation
Indices: 61195780--61195818 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
61195770 TAATTTCAAA
*
61195780 AAAAAATAATATTCAAAATTT
1 AAAAAATAAT-TTAAAAATTT
61195801 AAAAAATAATTTAAAAAT
1 AAAAAATAATTTAAAAAT
61195819 AATATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAATAATTTAAAAATTT
Found at i:61195822 original size:32 final size:35
Alignment explanation
Indices: 61195781--61195852 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 35
61195771 AATTTCAAAA
61195781 AAAAATAATATTCAAAA-TTTAAAAAATA-ATT-T
1 AAAAATAATATTCAAAATTTTAAAAAATATATTAT
* *
61195813 AAAAATAATATTTAAAATTTTAAAATATATATTAT
1 AAAAATAATATTCAAAATTTTAAAAAATATATTAT
61195848 AAAAA
1 AAAAA
61195853 AATTCAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
32 16 0.46
33 10 0.29
34 3 0.09
35 6 0.17
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (35 bp):
AAAAATAATATTCAAAATTTTAAAAAATATATTAT
Found at i:61195831 original size:20 final size:22
Alignment explanation
Indices: 61195808--61195851 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
61195798 TTTAAAAAAT
61195808 AATTTAAAAATA-ATATT-TAA
1 AATTTAAAAATATATATTATAA
*
61195828 AATTTTAAAATATATATTATAA
1 AATTTAAAAATATATATTATAA
61195850 AA
1 AA
61195852 AAATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 5 0.24
22 5 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTTAAAAATATATATTATAA
Found at i:61195852 original size:23 final size:22
Alignment explanation
Indices: 61195808--61195884 Score: 68
Period size: 23 Copynumber: 3.5 Consensus size: 22
61195798 TTTAAAAAAT
*
61195808 AATTTAAAAATA-ATATTT-AA
1 AATTTTAAAATATATATTTAAA
61195828 AATTTTAAAATATATATTATAAA
1 AATTTTAAAATATATATT-TAAA
** *
61195851 AAAATTCAAATATATATTTTAAA
1 AATTTTAAAATATATA-TTTAAA
**
61195874 TTTTTTAAAAT
1 AATTTTAAAAT
61195885 TAATAACAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
20 11 0.25
21 5 0.11
22 1 0.02
23 25 0.57
24 2 0.05
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTTTAAAATATATATTTAAA
Found at i:61195920 original size:19 final size:18
Alignment explanation
Indices: 61195893--61195933 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
61195883 ATTAATAACA
61195893 AAAATAAATAAACAAA-AT
1 AAAATAAATAAA-AAATAT
61195911 AAAATAAAATAAAAAATAT
1 AAAAT-AAATAAAAAATAT
61195930 AAAA
1 AAAA
61195934 CTTTAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAATAAATAAAAAATAT
Found at i:61195954 original size:29 final size:27
Alignment explanation
Indices: 61195910--61195983 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 27
61195900 ATAAACAAAA
* **
61195910 TAAAATAAAATAAAAAATATA-AAACTT
1 TAAAA-AAAATAAAAAAAATACAAAAGT
* *
61195937 TAAAAAAATTAAAGAAAAAGACAAAAGT
1 TAAAAAAAATAAA-AAAAATACAAAAGT
61195965 TAAAAAAAATAAAAAAAAT
1 TAAAAAAAATAAAAAAAAT
61195984 CAGATAAGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
26 7 0.18
27 15 0.39
28 16 0.42
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.19
Consensus pattern (27 bp):
TAAAAAAAATAAAAAAAATACAAAAGT
Found at i:61195982 original size:9 final size:9
Alignment explanation
Indices: 61195892--61195983 Score: 60
Period size: 9 Copynumber: 10.0 Consensus size: 9
61195882 AATTAATAAC
61195892 AAAAATAAAT
1 AAAAA-AAAT
*
61195902 AAACAAAAT
1 AAAAAAAAT
61195911 AAAATAAAAT
1 AAAA-AAAAT
*
61195921 AAAAAATAT
1 AAAAAAAAT
***
61195930 -AAAACTTT
1 AAAAAAAAT
*
61195938 AAAAAAATT
1 AAAAAAAAT
*
61195947 AAAGAAAAAG
1 AAA-AAAAAT
* **
61195957 ACAAAAGTT
1 AAAAAAAAT
61195966 AAAAAAAAT
1 AAAAAAAAT
61195975 AAAAAAAAT
1 AAAAAAAAT
61195984 CAGATAAGTG
Statistics
Matches: 63, Mismatches: 16, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
8 6 0.10
9 38 0.60
10 19 0.30
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.17
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:61206027 original size:23 final size:24
Alignment explanation
Indices: 61205983--61206038 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
61205973 AAAAAAATAA
61205983 TGAAAAAAATTAAACATTG-AAAT
1 TGAAAAAAATTAAACATTGAAAAT
* *
61206006 TGAAAAAGA-TAAACTTTAGAAAAT
1 TGAAAAAAATTAAACATT-GAAAAT
*
61206030 TTAAAAAAA
1 TGAAAAAAA
61206039 AACCCAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 7 0.26
23 9 0.33
24 11 0.41
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.25
Consensus pattern (24 bp):
TGAAAAAAATTAAACATTGAAAAT
Done.