Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008550.1 Hibiscus syriacus cultivar Beakdansim tig00111445_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: 1154708
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 5 of 6
Found at i:791372 original size:29 final size:29
Alignment explanation
Indices: 791329--791438 Score: 186
Period size: 29 Copynumber: 3.8 Consensus size: 29
791319 TTTCATATGT
791329 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
791357 TCATGTAGTTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
791386 TCATGTAGCTCGTGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
791415 TCATGTAGCTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
791439 ATATCACATA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
28 7 0.09
29 64 0.84
30 5 0.07
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.45
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:791884 original size:64 final size:63
Alignment explanation
Indices: 791815--791971 Score: 178
Period size: 64 Copynumber: 2.5 Consensus size: 63
791805 TAATGAAGGT
*
791815 ATGCATCGATGCACTACTTGTGCATC-AGTGCA-TAAAATGCATTCGAT-GTTTTATTATTAATG
1 ATGCATCGATGCACTACTTGTGCATCGA-TGCACT-AAATGCATTCGATCGTTTTATT-TTAA-A
*
791877 GG
62 AG
* * * *
791879 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATCTTTTTATTTTAAAAG
1 ATGCATCGATGCACT-ACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
791942 AGTGCATCGATGCACTACTTGTGCATCGAT
1 A-TGCATCGATGCACTACTTGTGCATCGAT
791972 ACACCTTCAA
Statistics
Matches: 79, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
63 3 0.04
64 66 0.84
65 10 0.13
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
Found at i:794038 original size:21 final size:20
Alignment explanation
Indices: 793996--794042 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
793986 TTCCTTTTAA
* * *
793996 ATATTTTATATTTTTAATAT
1 ATATTTTATATTGTCAAAAT
794016 ATATGTTTATATTGTCAAAAT
1 ATAT-TTTATATTGTCAAAAT
794037 AT-TTTT
1 ATATTTT
794043 GAACCCATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 3 0.13
20 5 0.22
21 15 0.65
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (20 bp):
ATATTTTATATTGTCAAAAT
Found at i:801617 original size:6 final size:6
Alignment explanation
Indices: 801606--801644 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
801596 AGAACTTGAG
*
801606 TCGAGC TCGAGC TCGAG- TCGAGT TCGAGC TCGAG- TCGAG
1 TCGAGC TCGAGC TCGAGC TCGAGC TCGAGC TCGAGC TCGAG
801645 TCCATTCGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.18, C:0.26, G:0.36, T:0.21
Consensus pattern (6 bp):
TCGAGC
Found at i:801632 original size:11 final size:11
Alignment explanation
Indices: 801603--801644 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
801593 TTAAGAACTT
801603 GAGTCGAGCTC
1 GAGTCGAGCTC
801614 GAGCTCGAG-TC
1 GAG-TCGAGCTC
801625 GAGTTCGAGCTC
1 GAG-TCGAGCTC
801637 GAGTCGAG
1 GAGTCGAG
801645 TCCATTCGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.19, C:0.24, G:0.38, T:0.19
Consensus pattern (11 bp):
GAGTCGAGCTC
Found at i:801645 original size:17 final size:17
Alignment explanation
Indices: 801603--801645 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
801593 TTAAGAACTT
*
801603 GAGTCGAGCTCGAGCTC
1 GAGTCGAGTTCGAGCTC
801620 GAGTCGAGTTCGAGCTC
1 GAGTCGAGTTCGAGCTC
801637 GAGTCGAGT
1 GAGTCGAGT
801646 CCATTCGATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.19, C:0.23, G:0.37, T:0.21
Consensus pattern (17 bp):
GAGTCGAGTTCGAGCTC
Found at i:806587 original size:243 final size:241
Alignment explanation
Indices: 806162--806816 Score: 833
Period size: 243 Copynumber: 2.7 Consensus size: 241
806152 TATTTTTTAA
* * * *
806162 ATTTGTGGAAAAATACCGATACTTACTCGCATACA-TTT-TATAAAAAGTTTTGAA-ACTTTTTA
1 ATTTGTGGAAAAATATCGATACTTATTCGCATACATTTTATATAAAAAG-TTTCAATACTTTTTT
** * *
806224 ACCGGTTTTG--T-CTCGTTTTTTTATCGGTTACCTTAGTAAAATAATAACAGTTATTTATAAGA
65 ACCGGTTTTGCCTCCTTTTTTTTTTATCGGTTACCTTAGTAAAAAAATAACA-TTATTTATAAGG
* * * *
806286 AAGTAGGAGAAATTGAAGTATTGATATTTTGCGTAAGTATCAATATTTGTGGAAAAATATCGATA
129 AAGTAGGAGAAATTGAAGTATCGATATTTTGCGTAAGTATCAATACTTGTGAAAAAATATCAATA
*
806351 CTTTGTAACCTTCTCATTTTTCATGTCTTTTTAAATTTGAAAA-TATCGAT
194 CTTTGCAACCTTCTCATTTTTCAT-T-TTTTTAAATTT-AAAAGTATCGAT
* *
806401 ATTTGTGAAAAAATATCGATACTTATTCACATACATTTTATATAAAAAGTTTCAATA-TTTTTTA
1 ATTTGTGGAAAAATATCGATACTTATTCGCATACATTTTATATAAAAAGTTTCAATACTTTTTTA
*
806465 CCGGTTTCGCCTCCTTTTGTTTTTTATCGGTTACCTTAG-AAAAAAATAACGATTATTTATAAGG
66 CCGGTTTTGCCTCCTTTT-TTTTTTATCGGTTACCTTAGTAAAAAAATAAC-ATTATTTATAAGG
* * * *
806529 AAGTTGAAGAAATTGAAGTATCGATATTTTGCGTAAGTATCGATACTTGTGAAAAAATATTAATA
129 AAGTAGGAGAAATTGAAGTATCGATATTTTGCGTAAGTATCAATACTTGTGAAAAAATATCAATA
* * *
806594 CTTTGCAGCCTTCTTATTTTTCATTTTTTTAAATTTAAAAGTATTGAT
194 CTTTGCAACCTTCTCATTTTTCATTTTTTTAAATTTAAAAGTATCGAT
* * * * *
806642 ATTTGTGGAAAAGTATCGATACTTATTTGCATACGTTTTATATAAAAAATTTCTATACTTTTTTA
1 ATTTGTGGAAAAATATCGATACTTATTCGCATACATTTTATATAAAAAGTTTCAATACTTTTTTA
* * * ** * *
806707 CTGGTTTTACCTCGTTTTATTTTTTATTAGTTACCTTAGTAAAACAATAACAATTACTTATAAGG
66 CCGGTTTTGCCTCCTTTT-TTTTTTATCGGTTACCTTAGTAAAAAAATAAC-ATTATTTATAAGG
* *
806772 AAGTAGGAGAAATCGAAGTATCGATATTTTTCGTAAGTATCAATA
129 AAGTAGGAGAAATTGAAGTATCGATATTTTGCGTAAGTATCAATA
806817 TTTTTAAAAA
Statistics
Matches: 360, Mismatches: 45, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
239 31 0.09
240 26 0.07
241 77 0.21
242 41 0.11
243 164 0.46
244 21 0.06
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (241 bp):
ATTTGTGGAAAAATATCGATACTTATTCGCATACATTTTATATAAAAAGTTTCAATACTTTTTTA
CCGGTTTTGCCTCCTTTTTTTTTTATCGGTTACCTTAGTAAAAAAATAACATTATTTATAAGGAA
GTAGGAGAAATTGAAGTATCGATATTTTGCGTAAGTATCAATACTTGTGAAAAAATATCAATACT
TTGCAACCTTCTCATTTTTCATTTTTTTAAATTTAAAAGTATCGAT
Found at i:807259 original size:109 final size:107
Alignment explanation
Indices: 807052--807432 Score: 428
Period size: 108 Copynumber: 3.5 Consensus size: 107
807042 TATATTGTAG
* ** * * * *
807052 ATATTCATAACATTATAAGTAATTAACTTATTTTGTTATCGT-GAGATTTTTAAGGCCTCGTCAA
1 ATATTTATAACAAAATAAGTAATTAACCTATTTTGTTATCGTAG-GATTTCTAAGGCC-CATTAA
* * *
807116 TTTAAACTTT-AGTAATATTTTAGGCACAATCTAATATGTTAATA
64 CTTAAACTTTGA-TAATATTTTAGGCGCAACCTAATATGTTAATA
* *
807160 ATATTTATAACAAAAATAAGTAGTTAACTTATTTTGTTATCGTGAGG-TTTCTAAGGTCCCATTA
1 ATATTTATAAC-AAAATAAGTAATTAACCTATTTTGTTATCGT-AGGATTTCTAAGG-CCCATTA
** * * *
807224 ACCCAAACTTTGATAACATTTTAGACGCAACCTAATATGTTAACA
63 ACTTAAACTTTGATAATATTTTAGGCGCAACCTAATATGTTAATA
* * * *
807269 ATATTTAAAACAAAATAAGTAATTGACCTATTTTGCTATCGTAGGATTTCTAA-GACCATATAAG
1 ATATTTATAACAAAATAAGTAATTAACCTATTTTGTTATCGTAGGATTTCTAAGGCCCAT-TAA-
* * * *
807333 CTTAAATTTTGTTAATATTTTAGGCGCAACATAATAAGTTAATA
64 CTTAAACTTTGATAATATTTTAGGCGCAACCTAATATGTTAATA
*
807377 ATATTTATAACAAAATAAGTAATTAACCTATTTTGTTATCGTAGGATTTATAAGGC
1 ATATTTATAACAAAATAAGTAATTAACCTATTTTGTTATCGTAGGATTTCTAAGGC
807433 TTCATCAGCT
Statistics
Matches: 229, Mismatches: 35, Indels: 17
0.81 0.12 0.06
Matches are distributed among these distances:
106 4 0.02
107 7 0.03
108 128 0.56
109 85 0.37
110 4 0.02
111 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.39
Consensus pattern (107 bp):
ATATTTATAACAAAATAAGTAATTAACCTATTTTGTTATCGTAGGATTTCTAAGGCCCATTAACT
TAAACTTTGATAATATTTTAGGCGCAACCTAATATGTTAATA
Found at i:807457 original size:108 final size:108
Alignment explanation
Indices: 807052--807481 Score: 406
Period size: 108 Copynumber: 4.0 Consensus size: 108
807042 TATATTGTAG
* ** * * * *
807052 ATATTCATAACATTATAAGTAATTAACTTATTTTGTTATCGT-GAGATTTTTAAGGCCTCGTCAA
1 ATATTTATAACAAAATAAGTAATTAACCTATTTTGTTATCGTAG-GATTTCTAAGGCTTCATCAA
*
807116 TTTAAACTTT-AGTAATATTTTAGGCACAATC-TAATATGTTAATA
65 CTTAAACTTTGA-TAATATTTTAGGCACAA-CATAATATGTTAATA
* * * *
807160 ATATTTATAACAAAAATAAGTAGTTAACTTATTTTGTTATCGTGAGG-TTTCTAAGG-TCCCATT
1 ATATTTATAAC-AAAATAAGTAATTAACCTATTTTGTTATCGT-AGGATTTCTAAGGCT-TCATC
** * * * * *
807223 AACCCAAACTTTGATAACATTTTAGACGCAACCTAATATGTTAACA
63 AACTTAAACTTTGATAATATTTTAGGCACAACATAATATGTTAATA
* * * * *
807269 ATATTTAAAACAAAATAAGTAATTGACCTATTTTGCTATCGTAGGATTTCTAAGAC--CATATAA
1 ATATTTATAACAAAATAAGTAATTAACCTATTTTGTTATCGTAGGATTTCTAAGGCTTCAT-CAA
* * * *
807332 GCTTAAATTTTGTTAATATTTTAGGCGCAACATAATAAGTTAATA
65 -CTTAAACTTTGATAATATTTTAGGCACAACATAATATGTTAATA
* *
807377 ATATTTATAACAAAATAAGTAATTAACCTATTTTGTTATCGTAGGATTTATAAGGCTTCATCAGC
1 ATATTTATAACAAAATAAGTAATTAACCTATTTTGTTATCGTAGGATTTCTAAGGCTTCATCAAC
*** * * **
807442 TTAAACTCCCATAATATATTATGCACAACATGTTATGTTA
66 TTAAACTTTGATAATATTTTAGGCACAACATAATATGTTA
807482 TTACGATTGA
Statistics
Matches: 261, Mismatches: 49, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
106 3 0.01
107 6 0.02
108 162 0.62
109 84 0.32
110 5 0.02
111 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.38
Consensus pattern (108 bp):
ATATTTATAACAAAATAAGTAATTAACCTATTTTGTTATCGTAGGATTTCTAAGGCTTCATCAAC
TTAAACTTTGATAATATTTTAGGCACAACATAATATGTTAATA
Found at i:818540 original size:22 final size:22
Alignment explanation
Indices: 818496--818540 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
818486 ACATCCAAAC
* *
818496 ACAAAATTTAAAAGTTTAAAAT
1 ACAAAATCTAAAAGTCTAAAAT
* *
818518 ACAAAATCTAATAGTCTATAAT
1 ACAAAATCTAAAAGTCTAAAAT
818540 A
1 A
818541 TAAATAAAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.31
Consensus pattern (22 bp):
ACAAAATCTAAAAGTCTAAAAT
Found at i:819701 original size:27 final size:27
Alignment explanation
Indices: 819663--819751 Score: 144
Period size: 27 Copynumber: 3.3 Consensus size: 27
819653 ATGTTTGAAT
*
819663 TCATTAATGAAATGATAACTTGCTTAA
1 TCATTCATGAAATGATAACTTGCTTAA
819690 TCATTCATGAAATGATAACTTGCTTAA
1 TCATTCATGAAATGATAACTTGCTTAA
*
819717 TCATTCATGAAATGGTAACATT-CTTAA
1 TCATTCATGAAATGATAAC-TTGCTTAA
819744 TCATTCAT
1 TCATTCAT
819752 TTATTAGATC
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 57 0.97
28 2 0.03
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (27 bp):
TCATTCATGAAATGATAACTTGCTTAA
Found at i:821217 original size:2 final size:2
Alignment explanation
Indices: 821210--821243 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
821200 TACCATTTAC
821210 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
821244 GTTTCAAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:821857 original size:53 final size:53
Alignment explanation
Indices: 821780--821961 Score: 222
Period size: 53 Copynumber: 3.3 Consensus size: 53
821770 GCTCATATAA
*
821780 ATGTCCCGAAGGACCAGTCCATAGATTCCGAAGAACCTAGGTAATCAGTCCAT
1 ATGTCCCGAAGAACCAGTCCATAGATTCCGAAGAACCTAGGTAATCAGTCCAT
*
821833 ATGTCCCGAAGAACCAGTCCATAGATTCCAAAGAACCTAGGTAATCAGTCCAT
1 ATGTCCCGAAGAACCAGTCCATAGATTCCGAAGAACCTAGGTAATCAGTCCAT
* * *
821886 ATGTCCCGAAGAACATAGGTAAACAGTCCATATG-TCCCGAAGAACATAGGTAAACAGTCCAT
1 ATGTCCCGAAGAAC---------CAGTCCATA-GATTCCGAAGAACCTAGGTAATCAGTCCAT
821948 ATGTCCCGAAGAAC
1 ATGTCCCGAAGAAC
821962 ATAGGTAAAC
Statistics
Matches: 113, Mismatches: 6, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
53 65 0.58
62 47 0.42
63 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (53 bp):
ATGTCCCGAAGAACCAGTCCATAGATTCCGAAGAACCTAGGTAATCAGTCCAT
Found at i:821885 original size:31 final size:31
Alignment explanation
Indices: 821863--822033 Score: 297
Period size: 31 Copynumber: 5.5 Consensus size: 31
821853 ATAGATTCCA
* *
821863 AAGAACCTAGGTAATCAGTCCATATGTCCCG
1 AAGAACATAGGTAAACAGTCCATATGTCCCG
821894 AAGAACATAGGTAAACAGTCCATATGTCCCG
1 AAGAACATAGGTAAACAGTCCATATGTCCCG
821925 AAGAACATAGGTAAACAGTCCATATGTCCCG
1 AAGAACATAGGTAAACAGTCCATATGTCCCG
* *
821956 AAGAACATAGGTAAACAATCCATATATCCCG
1 AAGAACATAGGTAAACAGTCCATATGTCCCG
*
821987 AAAAACATAGGTAAACAGTCCATATGTCCCG
1 AAGAACATAGGTAAACAGTCCATATGTCCCG
822018 AAGAACATAGGTAAAC
1 AAGAACATAGGTAAAC
822034 CCTCGACCCT
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 132 1.00
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (31 bp):
AAGAACATAGGTAAACAGTCCATATGTCCCG
Found at i:823682 original size:13 final size:13
Alignment explanation
Indices: 823664--823689 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
823654 GACTTTGTTG
823664 TAAGTAACCCTTT
1 TAAGTAACCCTTT
823677 TAAGTAACCCTTT
1 TAAGTAACCCTTT
823690 CTTCTTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
TAAGTAACCCTTT
Found at i:828920 original size:29 final size:29
Alignment explanation
Indices: 828875--828933 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
828865 ATTTTCACCT
* *
828875 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATATAAGCAATGAAATCAA
828904 AACTAAATTGATATAAGCAATGAAATCAA
1 AACTAAATTGATATAAGCAATGAAATCAA
828933 A
1 A
828934 TTAATTTAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATATAAGCAATGAAATCAA
Found at i:832942 original size:29 final size:29
Alignment explanation
Indices: 832900--832958 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
832890 ATTTTCACTT
*
832900 AACTAAATTGATATAAACAATGACATCAA
1 AACTAAATTGATATAAACAATAACATCAA
832929 AACTAAATTGATATAAACAATAACATCAA
1 AACTAAATTGATATAAACAATAACATCAA
832958 A
1 A
832959 TTAATTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.58, C:0.14, G:0.05, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATATAAACAATAACATCAA
Found at i:833577 original size:33 final size:33
Alignment explanation
Indices: 833530--833633 Score: 183
Period size: 33 Copynumber: 3.2 Consensus size: 33
833520 ACAAAGTTTA
* *
833530 CGAT-AATTAAAATACTTAAATACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
833562 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
833595 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
833628 CGATAA
1 CGATAA
833634 TTGAAACAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 4 0.06
33 65 0.94
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (33 bp):
CGATAAATTCAAATACTTAAAAACTTCCAAGTT
Found at i:833653 original size:21 final size:21
Alignment explanation
Indices: 833628--833669 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
833618 CTTCCAAGTT
833628 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
833649 CGATAATTGAAATAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
833670 AAAATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:837003 original size:227 final size:228
Alignment explanation
Indices: 836521--837014 Score: 884
Period size: 229 Copynumber: 2.2 Consensus size: 228
836511 TCTGTTATGT
* * * * *
836521 AAAGTATCTATCCTTTTTATAAAAGTGTCCATATTTATTTTACTGTGAAAATATATTTATTATTA
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
*
836586 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
66 TATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
836651 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATCAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTAT-AA
836716 AAAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAAATTGAAACATAAATTACATAACTTTAAAA
*
836750 AAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAACATATTTATTATT
836815 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAA-AATCAA
65 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
*
836879 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTAT-T
130 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATAA
836943 AAAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAAATTGAAACATAAATTACATAACTTTAAAA
836977 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTAT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTAT
837015 AAAAGTAGGT
Statistics
Matches: 255, Mismatches: 9, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
227 71 0.28
229 110 0.43
230 74 0.29
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (228 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
TATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATAAA
AAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:837316 original size:20 final size:19
Alignment explanation
Indices: 837293--837339 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
837283 CGATATACCA
*
837293 GGTAAAAATATGATAAAATC
1 GGTAAAAA-ATGATAAAACC
837313 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
837333 GGTAAAA
1 GGTAAAA
837340 CGTTACCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:837416 original size:181 final size:182
Alignment explanation
Indices: 837081--837553 Score: 702
Period size: 181 Copynumber: 2.6 Consensus size: 182
837071 GATCCAAATT
* * * *
837081 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATA-GAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGAT
* * * * *
837145 AAAATCGGTAAAGCGCTACCGGATACATTTAAAGTGTC-AGTACTTTAATATAAGGATCGACACT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGA-TACTTTAATATAAGGATCGACACT
* *
837209 TCGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATACA-GTGTCGATACTTTTA
129 TCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATA-ATGTGTCGATACTTTAA
* *
837263 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAATCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
837328 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
**
837392 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAATGTGTCGATACTTTAA
* * *
837444 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
*
837509 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
837554 CGTAAGTACG
Statistics
Matches: 265, Mismatches: 23, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
180 1 0.00
181 168 0.63
182 95 0.36
183 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAATGTGTCGATACTTTAA
Found at i:837497 original size:20 final size:19
Alignment explanation
Indices: 837474--837520 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
837464 CGATATAACA
837474 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
837494 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
837514 GGTAAAA
1 GGTAAAA
837521 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:837522 original size:17 final size:19
Alignment explanation
Indices: 837483--837525 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
837473 AGGTAAAAAT
837483 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
837503 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
837520 ATGATA
1 ATGATA
837526 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:839749 original size:21 final size:21
Alignment explanation
Indices: 839725--839768 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
839715 AAGACAATCA
*
839725 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCAAAGAGAAACTTGAG
* *
839746 AGAGTCAAAGATACACTTGAG
1 AGAGTCAAAGAGAAACTTGAG
839767 AG
1 AG
839769 GCATAAGGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.30, T:0.16
Consensus pattern (21 bp):
AGAGTCAAAGAGAAACTTGAG
Found at i:839844 original size:33 final size:33
Alignment explanation
Indices: 839802--839867 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
839792 AAATAGATGG
*
839802 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
839835 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
839868 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:841681 original size:19 final size:19
Alignment explanation
Indices: 841657--841705 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
841647 AATGTAGGGT
841657 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
841676 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
841695 TATTTTTGTAT
1 TAATTTTGTAT
841706 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:842167 original size:200 final size:200
Alignment explanation
Indices: 841818--843194 Score: 2568
Period size: 200 Copynumber: 6.9 Consensus size: 200
841808 AATTTACAAT
* * *
841818 ATGGACAACAGGGTGCAACAATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
841883 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
841948 ATGAGAGAATATGTCTAAATAATGTGTCGAAACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
842013 AATGA
196 AATGA
842018 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
*
842083 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
842148 ATAAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA-TTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
842212 AATGA
196 AATGA
*
842217 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACAT
1 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
842282 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGG-TTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
842346 ATGAGAGAATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
842410 AATGA
196 AATGA
*
842415 ATGGAAAACAGGGTGCAACCATAAAGTGTCAATCC--ATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
842478 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
842543 ATGAGAGAATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
842607 AATGA
196 AATGA
842612 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
*
842677 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
842742 ATGAGATAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
842807 AATGA
196 AATGA
842812 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
* *
842877 CGAAACCCAAAAGTATAATGTAATATGTAATTTGTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
842942 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTTGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
843007 AATGA
196 AATGA
*
843012 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCGTATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
*
843077 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
843142 ATGATAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
843195 CTAATTTAAA
Statistics
Matches: 1151, Mismatches: 21, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
196 88 0.08
197 125 0.11
198 85 0.07
199 264 0.23
200 589 0.51
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:843845 original size:2 final size:2
Alignment explanation
Indices: 843838--843883 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
843828 ATGGGGAAGG
843838 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
843880 AT AT
1 AT AT
843884 CTCCAGAAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:844392 original size:23 final size:23
Alignment explanation
Indices: 844361--844433 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
844351 ATAGGTAAAA
*
844361 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
844384 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
844407 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
844430 ATAT
1 ATAT
844434 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:847674 original size:25 final size:25
Alignment explanation
Indices: 847646--847710 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
847636 TTATCATTAA
847646 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
847671 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
847696 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
847711 TCTTTGAGTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:848084 original size:23 final size:23
Alignment explanation
Indices: 848053--848125 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
848043 ATAGGTAAAA
*
848053 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
848076 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
848099 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
848122 ATAT
1 ATAT
848126 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:848573 original size:23 final size:23
Alignment explanation
Indices: 848542--848614 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
848532 ATAGGTAAAA
*
848542 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
848565 ATATAATGTAATAGATATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
848588 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
848611 ATAT
1 ATAT
848615 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:849058 original size:23 final size:23
Alignment explanation
Indices: 849032--849104 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
849022 ATAGGTAAAA
* * *
849032 ATATGATGTAATAAGTAGCGCTT
1 ATATAATGTAATAGGTAGTGCTT
* *
849055 ATATAATGTAATAGGTATTGTTT
1 ATATAATGTAATAGGTAGTGCTT
*
849078 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
849101 ATAT
1 ATAT
849105 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:849573 original size:21 final size:23
Alignment explanation
Indices: 849523--849593 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
849513 ATAGGTAAAA
* *
849523 ATATGATGTAATAAGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
849546 ATATAATGTAATAGGTATCG-TT
1 ATATAATGTAATAGGTAGCGCTT
* *
849568 -TATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
849590 ATAT
1 ATAT
849594 TGTAAAGTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 17 0.41
22 4 0.10
23 20 0.49
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:849597 original size:21 final size:21
Alignment explanation
Indices: 849547--849598 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
849537 GTAGCGCTTA
*
849547 TATAATGTAATAGGTATCGTT
1 TATAATGTAATAGGTATCGGT
849568 TATAATGTAATAGGTAGT-GGT
1 TATAATGTAATAGGTA-TCGGT
*
849589 TATATTGTAA
1 TATAATGTAA
849599 AGTATCTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (21 bp):
TATAATGTAATAGGTATCGGT
Found at i:849727 original size:979 final size:979
Alignment explanation
Indices: 847713--849996 Score: 4305
Period size: 979 Copynumber: 2.3 Consensus size: 979
847703 TATATACATC
*
847713 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGATTTA-TTTTTACGTTA
1 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
847777 CGATATATATATTATTATTAAATTAAAAACAATAAAC--ATATATTACATATTTATTATTATCTT
66 CG--ATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTT
847840 TGGTTAATATTGTTAAATTTAAATTCTAAATATTA-TTTATAAAATATCAAAACAATCAAATAAT
129 TGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAAT
847904 TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAA
194 TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAA
*
847968 AATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACAC
259 AATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACAC
*
848033 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTT
324 TTTCAATATAATAGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTATCGTT
848098 TATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATAC
389 TATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATAC
*
848163 TTTTTTCACTGTAGAAAACATTAATTTAATGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTA
454 TTTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTA
848228 GTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAAC
519 GTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAAC
848293 AATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAA
584 AATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAA
*
848358 TATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAAT
649 TATTATTTTATAAAATATCAAAACAATCAAATAATATTTTGTGTAAATGAAATTATTAAATTAAT
848423 ATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAACA
714 ATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAACA
*
848488 AAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAA
779 AAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAA
*
848553 TAGGTAGCGCTTATATAATGTAATAGATATCGTTTATATAATGTAATAGGTAGTGGTTATATTGT
844 TAAGTAGCGCTTATATAATGTAATAGATATCGTTTATATAATGTAATAGGTAGTGGTTATATTGT
*
848618 AAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAATATTAATTTAAGG
909 AAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGG
848683 TTATCT
974 TTATCT
848689 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
1 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
848754 CGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTG
66 CGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTG
* *
848819 GTTAATATTGTTAAATTTAAATTTTAAATATTATTTTATAAAATATCAAAACAATCAAATAATAT
131 GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
848884 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
196 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
848949 TTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
261 TTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
*
849014 TCAATATAATAGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTATTGTTTA
326 TCAATATAATAGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTATCGTTTA
849079 TATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTT
391 TATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTT
*
849144 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
456 TTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
849209 AATTATAGGCGTCTAATGATTTAATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACA
521 AATTATAGGCGTCTAATGATTT-ATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACA
849274 ATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAAT
585 ATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAAT
849339 ATTATTTTATAAAATATCAAAACAATCAAATAATATTTTGTGTAAATGAAATTATTAAATTAATA
650 ATTATTTTATAAAATATCAAAACAATCAAATAATATTTTGTGTAAATGAAATTATTAAATTAATA
849404 TTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAACA
715 TTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAACA
849469 AAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAA
779 AAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAA
*
849534 TAAGTAGCGCTTATATAATGTAATAGGTATCG-TT-TATAATGTAATAGGTAGTGGTTATATTGT
844 TAAGTAGCGCTTATATAATGTAATAGATATCGTTTATATAATGTAATAGGTAGTGGTTATATTGT
*
849597 AAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGG
909 AAAGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGG
849662 TTAT-T
974 TTATCT
849667 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTTACGTT
1 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTTACGTT
*
849732 ACGATATATATTATTATTAAATTAAAAATAATAAACATATATATTACATATTTATTATTATCTTT
65 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
849797 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
130 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
*
849862 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
195 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
* *
849927 ATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGAACACT
260 ATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACT
849992 TTCAA
325 TTCAA
849997 CATATTATAA
Statistics
Matches: 1280, Mismatches: 20, Indels: 13
0.97 0.02 0.01
Matches are distributed among these distances:
975 33 0.03
976 52 0.04
977 73 0.06
978 141 0.11
979 650 0.51
980 201 0.16
981 130 0.10
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (979 bp):
TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
CGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTG
GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
TTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
TCAATATAATAGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTATCGTTTA
TATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTT
TTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT
AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA
TAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATA
TTATTTTATAAAATATCAAAACAATCAAATAATATTTTGTGTAAATGAAATTATTAAATTAATAT
TGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAACAAA
GTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATA
AGTAGCGCTTATATAATGTAATAGATATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAA
AGTATCTATCATTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
ATCT
Found at i:849919 original size:488 final size:490
Alignment explanation
Indices: 847713--849996 Score: 4298
Period size: 489 Copynumber: 4.7 Consensus size: 490
847703 TATATACATC
*
847713 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGATTTA-TTTTTACGTTA
1 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
847777 CGATATATATATTATTATTAAATTAAAAACAATAAAC--ATATATTACATATTTATTATTATCTT
66 CG--ATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTT
847840 TGGTTAATATTGTTAAATTTAAATTCTAAATATTA-TTTATAAAATATCAAAACAATCAAATAAT
129 TGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAAT
847904 TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAA
194 TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAA
847968 AATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACAC
259 AATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACAC
*
848033 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTT
324 TTTCAATATAATAGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTATCGTT
848098 TATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATAC
389 TATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATAC
* *
848163 TTTTTTCACTGTAGAAAACATTAATTTAATGTTATCT
454 TTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCT
848200 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
1 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
848265 CGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTG
66 CGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTG
848330 GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
131 GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
848395 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAA
196 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
848459 TTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
261 TTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
* *
848524 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTTA
326 TCAATATAATAGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTATCGTTTA
*
848589 TATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCTATACTT
391 TATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTT
*
848654 TTTTCACTGTGGAAAATATTAATTTAAGGTTATCT
456 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCT
848689 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
1 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
848754 CGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTG
66 CGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTG
* *
848819 GTTAATATTGTTAAATTTAAATTTTAAATATTATTTTATAAAATATCAAAACAATCAAATAATAT
131 GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
848884 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
196 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
*
848949 TTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
261 TTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
*
849014 TCAATATAATAGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTATTGTTTA
326 TCAATATAATAGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTATCGTTTA
849079 TATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTT
391 TATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTT
849144 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCT
456 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCT
849179 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAATTTTTTACGTT
1 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTT-ATTTTTTACGTT
849244 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
65 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
*
849309 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATA
130 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
849374 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
195 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
*
849439 ATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCATTTTTATAAAAAGTATGGACACT
260 ATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACT
849504 TTCAATATAATAGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTATCG-TT
325 TTCAATATAATAGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTATCGTTT
849568 -TATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACT
390 ATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACT
849632 TTTTTCACTGTGGAAAACATTAATTTAAGGTTAT-T
455 TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCT
849667 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTTACGTT
1 TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTTACGTT
*
849732 ACGATATATATTATTATTAAATTAAAAATAATAAACATATATATTACATATTTATTATTATCTTT
65 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
849797 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
130 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
*
849862 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
195 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
* * *
849927 ATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGAACACT
260 ATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACT
849992 TTCAA
325 TTCAA
849997 CATATTATAA
Statistics
Matches: 1767, Mismatches: 23, Indels: 13
0.98 0.01 0.01
Matches are distributed among these distances:
486 33 0.02
487 53 0.03
488 398 0.23
489 668 0.38
490 285 0.16
491 330 0.19
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (490 bp):
TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
CGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTG
GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
TTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
TCAATATAATAGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTATCGTTTA
TATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTT
TTTTCACTGTGGAAAACATTAATTTAAGGTTATCT
Found at i:869425 original size:2 final size:2
Alignment explanation
Indices: 869418--869448 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
869408 TATCTTTTAT
869418 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
869449 GACATTAATG
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:876211 original size:26 final size:26
Alignment explanation
Indices: 876176--876233 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
876166 CTTTTTTATA
*
876176 AGAGAATAAGAGATAAAGGAAAGGGG
1 AGAGAATAAGAAATAAAGGAAAGGGG
876202 AGAGAATAAGAAATAAAGGAAAGGGG
1 AGAGAATAAGAAATAAAGGAAAGGGG
876228 AGAGAA
1 AGAGAA
876234 ATGGACGGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.57, C:0.00, G:0.36, T:0.07
Consensus pattern (26 bp):
AGAGAATAAGAAATAAAGGAAAGGGG
Found at i:877292 original size:21 final size:21
Alignment explanation
Indices: 877266--877307 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
877256 TCAAAAATGA
* *
877266 TAAGTCCTTTAATTGAAAGAT
1 TAAGTCATTTAATCGAAAGAT
*
877287 TAAGTCATTTTATCGAAAGAT
1 TAAGTCATTTAATCGAAAGAT
877308 CTTAACCCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
TAAGTCATTTAATCGAAAGAT
Found at i:879737 original size:29 final size:30
Alignment explanation
Indices: 879667--879726 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
879657 CAATTTAAGG
*
879667 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTCAATTTA
879698 CAAAATGTTTTTGGACTT-AATTCAATTTA
1 CAAAATGTTTTTGGACTTGAATTCAATTTA
879727 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 10 0.36
30 12 0.43
31 6 0.21
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTCAATTTA
Found at i:879854 original size:22 final size:20
Alignment explanation
Indices: 879826--879883 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 20
879816 TACACCCCTG
879826 TAGTGCATCCATGCACATGCAC
1 TAGTGCATCCATGCACATG--C
*
879848 TAGTGCATCAATGCACCATGC
1 TAGTGCATCCATGCA-CATGC
879869 -AGTGCATCCATGCAC
1 TAGTGCATCCATGCAC
879884 TCAAACACCG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 1 0.03
20 13 0.39
21 1 0.03
22 14 0.42
23 4 0.12
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (20 bp):
TAGTGCATCCATGCACATGC
Found at i:879874 original size:20 final size:22
Alignment explanation
Indices: 879826--879883 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 22
879816 TACACCCCTG
879826 TAGTGCATCCATGCA-CATGCAC
1 TAGTGCATCCATGCACCATG-AC
*
879848 TAGTGCATCAATGCACCATG-C
1 TAGTGCATCCATGCACCATGAC
879869 -AGTGCATCCATGCAC
1 TAGTGCATCCATGCAC
879884 TCAAACACCG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.42
21 1 0.03
22 14 0.42
23 4 0.12
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (22 bp):
TAGTGCATCCATGCACCATGAC
Found at i:879947 original size:20 final size:20
Alignment explanation
Indices: 879904--879977 Score: 112
Period size: 20 Copynumber: 3.6 Consensus size: 20
879894 AATGCAATTA
**
879904 GTGCATCGATGCATCAAGGTT
1 GTGCATCGATGCATC-CTGTT
879925 GTGCATCGATGCATCCTGTT
1 GTGCATCGATGCATCCTGTT
879945 GTGCATCGATGCATCCTGTT
1 GTGCATCGATGCATCCTGTT
*
879965 GTGCATCCATGCA
1 GTGCATCGATGCA
879978 CGAAGGCTAC
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
20 35 0.70
21 15 0.30
ACGTcount: A:0.19, C:0.24, G:0.26, T:0.31
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGTT
Found at i:883253 original size:28 final size:30
Alignment explanation
Indices: 883184--883242 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
883174 CAATTTAAGG
883184 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
883215 CAAAATGTTTTTGGACTTG-A-TGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
883243 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 8 0.29
29 1 0.04
30 13 0.46
31 6 0.21
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:883348 original size:21 final size:21
Alignment explanation
Indices: 883322--883398 Score: 127
Period size: 21 Copynumber: 3.7 Consensus size: 21
883312 AGGGTGTCAA
* * *
883322 AGTGCATACATGTACCCCTGC
1 AGTGCATCCATGCATCCCTGC
883343 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
883364 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
883385 AGTGCATCCATGCA
1 AGTGCATCCATGCA
883399 CCTGCACTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.23
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTGC
Found at i:883472 original size:41 final size:41
Alignment explanation
Indices: 883426--883508 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 41
883416 AATGCAATTA
* * * * *
883426 GTGCATCGATGCATCCTTCTATGCATCGATGCATGAAGGCT
1 GTGCATCCAAGCATCTTGCTATGCATCCATGCATGAAGGCT
* * *
883467 GTGCATCCAAGCATCTTGTTGTGTATCCATGCATGAAGGCT
1 GTGCATCCAAGCATCTTGCTATGCATCCATGCATGAAGGCT
883508 G
1 G
883509 CAATGGCTAG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (41 bp):
GTGCATCCAAGCATCTTGCTATGCATCCATGCATGAAGGCT
Found at i:885004 original size:21 final size:21
Alignment explanation
Indices: 884980--885055 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 21
884970 AACAATTCTC
884980 TTCATGAAAAGATTAAATCAT
1 TTCATGAAAAGATTAAATCAT
*
885001 TTCATGAAAAGGTTAAA-CACTT
1 TTCATGAAAAGATTAAATCA--T
* *
885023 TTCATCAAAAGGA-TAAGTCAT
1 TTCATGAAAA-GATTAAATCAT
885044 TTCATCGAAAAG
1 TTCAT-GAAAAG
885056 TTTTAACCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
20 2 0.04
21 23 0.51
22 17 0.38
23 3 0.07
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (21 bp):
TTCATGAAAAGATTAAATCAT
Found at i:885054 original size:22 final size:20
Alignment explanation
Indices: 884980--885055 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 20
884970 AACAATTCTC
884980 TTCATGAAAA-GATTAAATCAT
1 TTCATGAAAAGGA-T-AATCAT
* *
885001 TTCATGAAAAGGTTAAACACTT
1 TTCATGAAAAGGATAATCA--T
*
885023 TTCATCAAAAGGATAAGTCAT
1 TTCATGAAAAGGATAA-TCAT
885044 TTCATCGAAAAG
1 TTCAT-GAAAAG
885056 TTTTAACCCT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 4 0.09
21 17 0.39
22 21 0.48
23 2 0.05
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (20 bp):
TTCATGAAAAGGATAATCAT
Found at i:885548 original size:19 final size:19
Alignment explanation
Indices: 885507--885550 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
885497 ATTTATTATT
* * *
885507 ATTATCATTTTTATCTCAT
1 ATTAACATTTTTATCTAAC
*
885526 ATTAACATTTTTTTCTAAC
1 ATTAACATTTTTATCTAAC
885545 ATTAAC
1 ATTAAC
885551 TAATATCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTAACATTTTTATCTAAC
Found at i:891492 original size:34 final size:33
Alignment explanation
Indices: 891454--891532 Score: 81
Period size: 34 Copynumber: 2.3 Consensus size: 33
891444 AAAAAAAACG
*
891454 AAAATACAAATAAAGAAAAAGAAGAA-A-ATATAAT
1 AAAATA-AAATAAAGAAAAA-AA-AATACACATAAT
**
891488 AAAATATAAATGGAGAAAAAAAAATACACATAAT
1 AAAATA-AAATAAAGAAAAAAAAATACACATAAT
891522 AAAATAAAATA
1 AAAATAAAATA
891533 TAAAACAATG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
32 2 0.05
33 7 0.18
34 29 0.76
ACGTcount: A:0.72, C:0.04, G:0.08, T:0.16
Consensus pattern (33 bp):
AAAATAAAATAAAGAAAAAAAAATACACATAAT
Found at i:891749 original size:17 final size:19
Alignment explanation
Indices: 891729--891781 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
891719 TACATATACG
*
891729 TATATAATAATAAAAAATA
1 TATATAATAATAAATAATA
891748 TAATATAATAGCATAAATAA-A
1 T-ATATAATA--ATAAATAATA
*
891769 TAAATAATAATAA
1 TATATAATAATAA
891782 TAGTAAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 4 0.14
19 1 0.03
20 15 0.52
21 2 0.07
22 7 0.24
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
TATATAATAATAAATAATA
Found at i:891753 original size:20 final size:20
Alignment explanation
Indices: 891730--891783 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 20
891720 ACATATACGT
891730 ATATAATAATAAA-AAATATA
1 ATATAATAATAAATAAATA-A
891750 ATATAATAGCATAAATAAATAA
1 ATATAATA--ATAAATAAATAA
891772 ATAATAATAATA
1 AT-ATAATAATA
891784 GTAAAAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 8 0.27
21 3 0.10
22 8 0.27
23 11 0.37
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
ATATAATAATAAATAAATAA
Found at i:893182 original size:43 final size:41
Alignment explanation
Indices: 893126--893207 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
893116 TAAATAAAAT
893126 TAATACTAATATATATATGTAAATATTATAAAAGTGTGGAG
1 TAATACTAATATATATATGTAAATATTATAAAAGTGTGGAG
893167 TAATACTAATATATATATGTAAATATTATAAAAGTGTGGAG
1 TAATACTAATATATATATGTAAATATTATAAAAGTGTGGAG
893208 ACGAAATTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.46, C:0.02, G:0.15, T:0.37
Consensus pattern (41 bp):
TAATACTAATATATATATGTAAATATTATAAAAGTGTGGAG
Found at i:893846 original size:105 final size:105
Alignment explanation
Indices: 893574--894191 Score: 1020
Period size: 105 Copynumber: 5.9 Consensus size: 105
893564 TGGGAAGTTA
* *
893574 TTTATTAACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCC
1 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* * *
893639 TTCGCTGCGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTA
66 TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATG
* *
893680 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
*
893745 TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATG
66 TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
*
893785 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTGGAGTCCAATATCC
1 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* *
893850 TTCGCTGTGAAGTTGAAATTGGCTCTGAAATGGGGAAATG
66 TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
893890 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* * *
893955 TTCGTTGTGAAGTTGAAATTGACTCTGGAATTGAGAAATG
66 TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
*
893995 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* * *
894060 TTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAGATT
66 TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
* *
894100 TTTGTGGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
* * *
894165 TTCGTTGTAAAGTTAAAATTGGCTCTG
66 TTCGCTGTGAAGTTGAAATTGGCTCTG
894192 GGTAAAACCT
Statistics
Matches: 486, Mismatches: 26, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
105 390 0.80
106 96 0.20
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (105 bp):
TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG
Found at i:895013 original size:14 final size:14
Alignment explanation
Indices: 894994--895027 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
894984 CACCCTAAAC
894994 GTTTTTCTCTTTTT
1 GTTTTTCTCTTTTT
* *
895008 GTTTTTTTGTTTTT
1 GTTTTTCTCTTTTT
895022 GTTTTT
1 GTTTTT
895028 TTTTTCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.06, G:0.12, T:0.82
Consensus pattern (14 bp):
GTTTTTCTCTTTTT
Found at i:895028 original size:14 final size:14
Alignment explanation
Indices: 895003--895029 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
894993 CGTTTTTCTC
895003 TTTTTGTTTTTTTG
1 TTTTTGTTTTTTTG
895017 TTTTTGTTTTTTT
1 TTTTTGTTTTTTT
895030 TTTCATATTA
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:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (14 bp):
TTTTTGTTTTTTTG
Found at i:904495 original size:10 final size:10
Alignment explanation
Indices: 904470--904503 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
904460 AAGGTTAGTA
*
904470 AAATAGAAAT
1 AAATAAAAAT
*
904480 AGATAAAAAT
1 AAATAAAAAT
904490 AAATAAAAAT
1 AAATAAAAAT
904500 AAAT
1 AAAT
904504 GGTAAATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:905572 original size:34 final size:32
Alignment explanation
Indices: 905534--905611 Score: 77
Period size: 34 Copynumber: 2.3 Consensus size: 32
905524 AAAAAAAACG
*
905534 AAAATACAAATAAAGAAAAAGAAGA-AAATATAAT
1 AAAATA-AAATAAAGAAAAA-AA-ATAAACATAAT
** *
905568 AAAATATAAATGGAGAAAAAAAATACACATAAT
1 AAAATA-AAATAAAGAAAAAAAATAAACATAAT
905601 AAAATAAAATA
1 AAAATAAAATA
905612 TAAAACAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
32 5 0.14
33 15 0.41
34 17 0.46
ACGTcount: A:0.72, C:0.04, G:0.08, T:0.17
Consensus pattern (32 bp):
AAAATAAAATAAAGAAAAAAAATAAACATAAT
Found at i:905828 original size:17 final size:19
Alignment explanation
Indices: 905808--905860 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
905798 TACATATACG
*
905808 TATATAATAATAAAAAATA
1 TATATAATAATAAATAATA
905827 TAATATAATAGCATAAATAA-A
1 T-ATATAATA--ATAAATAATA
*
905848 TAAATAATAATAA
1 TATATAATAATAA
905861 TAGTAAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 4 0.14
19 1 0.03
20 15 0.52
21 2 0.07
22 7 0.24
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
TATATAATAATAAATAATA
Found at i:905832 original size:20 final size:20
Alignment explanation
Indices: 905809--905862 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 20
905799 ACATATACGT
905809 ATATAATAATAAA-AAATATA
1 ATATAATAATAAATAAATA-A
905829 ATATAATAGCATAAATAAATAA
1 ATATAATA--ATAAATAAATAA
905851 ATAATAATAATA
1 AT-ATAATAATA
905863 GTAAAAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 8 0.27
21 3 0.10
22 8 0.27
23 11 0.37
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
ATATAATAATAAATAAATAA
Found at i:907266 original size:43 final size:41
Alignment explanation
Indices: 907210--907291 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
907200 TAAATAAAAT
907210 TAATACTAATATATATATGTAAATATTATAAAAGTGTGGAG
1 TAATACTAATATATATATGTAAATATTATAAAAGTGTGGAG
907251 TAATACTAATATATATATGTAAATATTATAAAAGTGTGGAG
1 TAATACTAATATATATATGTAAATATTATAAAAGTGTGGAG
907292 ACGAAATTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.46, C:0.02, G:0.15, T:0.37
Consensus pattern (41 bp):
TAATACTAATATATATATGTAAATATTATAAAAGTGTGGAG
Found at i:908785 original size:11 final size:11
Alignment explanation
Indices: 908764--908855 Score: 73
Period size: 11 Copynumber: 8.1 Consensus size: 11
908754 TAAGTTTGAG
908764 TATTTTTTATT
1 TATTTTTTATT
* *
908775 TGTTATTTATT
1 TATTTTTTATT
*
908786 TATTTATTT-CT
1 TATTT-TTTATT
*
908797 TATTTCTTATT
1 TATTTTTTATT
908808 TATTTTTTATT
1 TATTTTTTATT
908819 T-TTTCCTTTGATT
1 TATTT--TTT-ATT
908832 TATTATTTTA-T
1 TATT-TTTTATT
908843 TATTTTATTATT
1 TATTTT-TTATT
908855 T
1 T
908856 TCATGTTTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
10 7 0.11
11 38 0.59
12 9 0.14
13 7 0.11
14 2 0.03
15 1 0.02
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.75
Consensus pattern (11 bp):
TATTTTTTATT
Found at i:908786 original size:4 final size:4
Alignment explanation
Indices: 908764--908819 Score: 50
Period size: 4 Copynumber: 15.2 Consensus size: 4
908754 TAAGTTTGAG
* * *
908764 TATT T-TT TATT T-GT TATT TATT TATT TATT T-CT TATT T-CT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
908808 TATT T-TT TATT T
1 TATT TATT TATT T
908820 TTTCCTTTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
3 12 0.29
4 29 0.71
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.77
Consensus pattern (4 bp):
TATT
Found at i:908816 original size:7 final size:7
Alignment explanation
Indices: 908764--908856 Score: 62
Period size: 7 Copynumber: 12.9 Consensus size: 7
908754 TAAGTTTGAG
908764 TATTTTT
1 TATTTTT
*
908771 TATTTGT
1 TATTTTT
908778 TATTTATT
1 TATTT-TT
908786 TATTTATT
1 TATTT-TT
* *
908794 TCTTATT
1 TATTTTT
* *
908801 TCTTATT
1 TATTTTT
908808 TATTTTT
1 TATTTTT
908815 TATTTTT
1 TATTTTT
**
908822 T-CCTTT
1 TATTTTT
* *
908828 GATTTAT
1 TATTTTT
908835 TATTTTAT
1 TATTTT-T
908843 TATTTTAT
1 TATTTT-T
908851 TATTTT
1 TATTTT
908857 CATGTTTTTT
Statistics
Matches: 69, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
6 3 0.04
7 39 0.57
8 27 0.39
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.75
Consensus pattern (7 bp):
TATTTTT
Found at i:908841 original size:8 final size:8
Alignment explanation
Indices: 908830--908856 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
908820 TTTCCTTTGA
908830 TTTATTAT
1 TTTATTAT
908838 TTTATTAT
1 TTTATTAT
908846 TTTATTAT
1 TTTATTAT
908854 TTT
1 TTT
908857 CATGTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTATTAT
Found at i:911515 original size:95 final size:95
Alignment explanation
Indices: 911400--911660 Score: 362
Period size: 95 Copynumber: 2.7 Consensus size: 95
911390 ATTATAATTA
* * *
911400 TATATATATATAATAAAGCTTGAGTTGTCCCTATAGAGCAATTGGTTAAACGCCCCAGCTTTATG
1 TATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATG
* *
911465 GATAAGATTCAACTATCCTGATAAAGGCGAT
65 GATAAGATTCAACTAGCCTAATAAAGGCGAT
*
911496 TATAATATACAATAAAGCTTGAGTTGTCCTTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGG
1 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGG
* * *
911561 ATAATATTCAGCTAGCCTAATAAAGGTGAT
66 ATAAGATTCAACTAGCCTAATAAAGGCGAT
* * *
911591 TATAATAT-CTATACAATGATATTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCTGGCTTT
1 TATAATATACAATA-AA-G--CTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTT
911655 ATGGAT
62 ATGGAT
911661 CCAACTAGCC
Statistics
Matches: 148, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
94 4 0.03
95 92 0.62
96 5 0.03
98 47 0.32
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (95 bp):
TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGG
ATAAGATTCAACTAGCCTAATAAAGGCGAT
Found at i:913051 original size:65 final size:65
Alignment explanation
Indices: 912964--913348 Score: 258
Period size: 64 Copynumber: 5.7 Consensus size: 65
912954 TTGAGATAGT
* * * * *
912964 TTGAAATAAATTTTATCCCTCTTGAGACATTTTCCCTTGAAACAAAATCTTTGAATATGTTTCCC
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAATATGTTTCCC
* * *
913029 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAA-TAAATCTTTGAATATGTTTTAC
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAATATG-TTTCC
*
913093 A
65 C
* * * * * * *
913094 TT-AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGT-TTTGTCTATCTTGAGT
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTTG---A--AT-A-T
*
913157 CAGTTTCTC
59 --GTTTCCC
* * ** *
913166 TTGAAACAAATTTTGTCTTTGTCTCTTTTGAGACAGTTTCTTTTTAAAC-AAAT-TTTGTCTCTC
1 TTGAAACAAATTTTGTC----TCTC--TTGAGACAGTTTCTCTTGAAACAAAATCTTTG--AATA
*
913229 TTTTTCCC
58 TGTTTCCC
* * *
913237 TTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAACACCAACCTTTGAATATGTTTC
1 TTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA-AAATCTTTGAATATGTTTC
**
913302 AA
64 CC
* * **
913304 TTGAAACAAAATTTTGCCTCCCAGGAGACAGTTTCTCTTGAAACA
1 TTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
913349 CAGAAAAAAA
Statistics
Matches: 252, Mismatches: 45, Indels: 44
0.74 0.13 0.13
Matches are distributed among these distances:
64 53 0.21
65 48 0.19
66 19 0.08
67 43 0.17
68 9 0.04
69 5 0.02
70 1 0.00
71 16 0.06
72 12 0.05
73 15 0.06
75 1 0.00
77 3 0.01
78 7 0.03
79 20 0.08
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (65 bp):
TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAATATGTTTCCC
Found at i:913069 original size:36 final size:36
Alignment explanation
Indices: 913022--913281 Score: 149
Period size: 37 Copynumber: 7.4 Consensus size: 36
913012 CTTTGAATAT
913022 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* *
913058 GTTTCCCTTGAAATAAA-------TCT-TTGA-ATA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * * *
913085 TGTTTTACATT-AAACAAATTTCGTCTCCCTTGAGACA
1 -G-TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
** * * * *
913122 GTTTCTTTTGGAACTAAGTTTTGTCTATCTTGAGTCA
1 GTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACA
*
913159 GTTTCTCTTGAAACAAATTTTGTCTTTGTCTCTTTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTC----TCTC--TTGAGACA
** *
913201 GTTTCTTTTTAAACAAATTTTGTCTCTCTT------
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
913231 -TTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACA
* *
913267 ATTTCTCTTGAAACA
1 GTTTCCCTTGAAACA
913282 CCAACCTTTG
Statistics
Matches: 170, Mismatches: 27, Indels: 53
0.68 0.11 0.21
Matches are distributed among these distances:
27 2 0.01
28 11 0.06
29 22 0.13
30 13 0.08
35 7 0.04
36 35 0.21
37 44 0.26
38 4 0.02
40 3 0.02
42 29 0.17
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:913203 original size:42 final size:42
Alignment explanation
Indices: 913141--913225 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
913131 GGAACTAAGT
*
913141 TTTGTCTATCTTGAGTCAGTTTCTCTTGAAACAAATTTTGTC
1 TTTGTCTATCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
* * * *
913183 TTTGTCTCTTTTGAGACAGTTTCTTTTTAAACAAATTTTGTC
1 TTTGTCTATCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
913225 T
1 T
913226 CTCTTTTTCC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (42 bp):
TTTGTCTATCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
Found at i:913554 original size:79 final size:81
Alignment explanation
Indices: 913405--913563 Score: 205
Period size: 79 Copynumber: 2.0 Consensus size: 81
913395 TCTTGAAATA
* * **
913405 CAAAGACCTTCGAGTTCGACTACACTCAGCTTCGAGGGCACATTATTTGCAACATAACTCAAGGC
1 CAAAGACCTTAGAGTTCGACTACACTCAGCTTCGAAGGCACATTATTCACAACATAACTCAAGGC
* *
913470 TAGAAGGGTTATCAGC
66 AAGAAGGGATATCAGC
* * * * *
913486 CAAAGACCTTAGAGTTCGATTCCATTCAGC-TC-AAGGCACATTATTCACAGCATAGCTCAAGGC
1 CAAAGACCTTAGAGTTCGACTACACTCAGCTTCGAAGGCACATTATTCACAACATAACTCAAGGC
913549 AAGAAGGGATATCAG
66 AAGAAGGGATATCAG
913564 TCAACAAATT
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
79 39 0.58
80 2 0.03
81 26 0.39
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.23
Consensus pattern (81 bp):
CAAAGACCTTAGAGTTCGACTACACTCAGCTTCGAAGGCACATTATTCACAACATAACTCAAGGC
AAGAAGGGATATCAGC
Found at i:917707 original size:15 final size:15
Alignment explanation
Indices: 917687--917718 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
917677 ATAATCTTTC
*
917687 TTTCCCATTCTTGAT
1 TTTCCCATTCTGGAT
917702 TTTCCCATTCTGGAT
1 TTTCCCATTCTGGAT
917717 TT
1 TT
917719 CGATCTGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.53
Consensus pattern (15 bp):
TTTCCCATTCTGGAT
Found at i:919928 original size:19 final size:18
Alignment explanation
Indices: 919899--919965 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
919889 TAAGTTTGAG
*
919899 TATTTTTTATTTGTTATT
1 TATTTTTTATTTCTTATT
*
919917 TATTTATTTATTTCTTTTT
1 TATTT-TTTATTTCTTATT
** *
919936 TATTTTTTCCTT-TGATT
1 TATTTTTTATTTCTTATT
919953 TATTATTTTATTT
1 TATT-TTTTATTT
919966 TCATTTTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
17 7 0.18
18 16 0.41
19 16 0.41
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.76
Consensus pattern (18 bp):
TATTTTTTATTTCTTATT
Found at i:919948 original size:15 final size:14
Alignment explanation
Indices: 919901--919944 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
919891 AGTTTGAGTA
* *
919901 TTTTTTATTTGTTA
1 TTTTTTATTTTTTC
919915 TTTATTTATTTATTTC
1 TTT-TTTATTT-TTTC
919931 TTTTTTATTTTTTC
1 TTTTTTATTTTTTC
919945 CTTTGATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 7 0.27
15 14 0.54
16 5 0.19
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTTTTATTTTTTC
Found at i:919959 original size:31 final size:29
Alignment explanation
Indices: 919901--919974 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 29
919891 AGTTTGAGTA
*
919901 TTTTTTATTTGTTATTTATTTATTTATTT
1 TTTTTTATTTTTTATTTATTTATTTATTT
*
919930 CTTTTTTATTTTTTCCTTTGATTTA-TTATTT
1 -TTTTTTATTTTTT-ATTT-ATTTATTTATTT
*
919961 TATTTTCATTTTTT
1 T-TTTTTATTTTTT
919975 TATGTTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
30 13 0.34
31 20 0.53
32 5 0.13
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (29 bp):
TTTTTTATTTTTTATTTATTTATTTATTT
Found at i:920086 original size:12 final size:13
Alignment explanation
Indices: 920064--920099 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
920054 AATCGAATGC
920064 TTTTAAATTTTAA
1 TTTTAAATTTTAA
920077 TTTT-AATTTTAA
1 TTTTAAATTTTAA
*
920089 TTTCAAATTTT
1 TTTTAAATTTT
920100 TGCAAATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:925851 original size:24 final size:25
Alignment explanation
Indices: 925819--925876 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
925809 ACCAATCTAA
925819 AAGCAATCCTATTTT-TTAGCAACC
1 AAGCAATCCTATTTTCTTAGCAACC
925843 AAGCAATCCTATTTTCTTAGCAACC
1 AAGCAATCCTATTTTCTTAGCAACC
925868 AAGCAATCC
1 AAGCAATCC
925877 AACGAACAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 15 0.45
25 18 0.55
ACGTcount: A:0.34, C:0.28, G:0.09, T:0.29
Consensus pattern (25 bp):
AAGCAATCCTATTTTCTTAGCAACC
Found at i:927564 original size:19 final size:17
Alignment explanation
Indices: 927533--927568 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
927523 ATTATTTTTA
927533 AAATATATATATTAAAT
1 AAATATATATATTAAAT
927550 AAATATATTACTATTAAAT
1 AAATATA-TA-TATTAAAT
927569 TTAATCTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 2 0.12
19 8 0.47
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATATATATTAAAT
Found at i:927606 original size:16 final size:16
Alignment explanation
Indices: 927581--927611 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
927571 AATCTATGCT
927581 TTATTAAATATATTTA
1 TTATTAAATATATTTA
*
927597 TTATTTAATATATTT
1 TTATTAAATATATTT
927612 TTCTATCGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTAAATATATTTA
Found at i:930773 original size:15 final size:16
Alignment explanation
Indices: 930753--930792 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
930743 AAGCAAGACT
930753 AAATAAAAAAAT-CAA
1 AAATAAAAAAATACAA
*
930768 AAATAAAAAAAATAGAA
1 AAAT-AAAAAAATACAA
930785 AAATAAAA
1 AAATAAAA
930793 CCAAGCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 12 0.55
17 6 0.27
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (16 bp):
AAATAAAAAAATACAA
Found at i:930779 original size:17 final size:17
Alignment explanation
Indices: 930753--930792 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
930743 AAGCAAGACT
930753 AAAT-AAAAAAAT-CAA
1 AAATAAAAAAAATACAA
*
930768 AAATAAAAAAAATAGAA
1 AAATAAAAAAAATACAA
930785 AAATAAAA
1 AAATAAAA
930793 CCAAGCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.18
16 8 0.36
17 10 0.45
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (17 bp):
AAATAAAAAAAATACAA
Found at i:930884 original size:17 final size:19
Alignment explanation
Indices: 930862--930898 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
930852 TACTTCATTG
930862 TATTAC-CAT-TTTTAAAT
1 TATTACTCATATTTTAAAT
*
930879 TATTACTCTTATTTTAAAT
1 TATTACTCATATTTTAAAT
930898 T
1 T
930899 TATCTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
19 9 0.53
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTACTCATATTTTAAAT
Found at i:943918 original size:12 final size:12
Alignment explanation
Indices: 943903--943940 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
943893 ATTATTTAAA
943903 CGGGTATTGGGC
1 CGGGTATTGGGC
*
943915 CGGGTATTGGGT
1 CGGGTATTGGGC
943927 CGGGTATTGGGC
1 CGGGTATTGGGC
943939 CG
1 CG
943941 AGAATCGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.08, C:0.16, G:0.50, T:0.26
Consensus pattern (12 bp):
CGGGTATTGGGC
Found at i:943930 original size:24 final size:24
Alignment explanation
Indices: 943903--943957 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
943893 ATTATTTAAA
* * *
943903 CGGGTATTGGGCCGGGTATTGGGT
1 CGGGTATTGGGCCGAGAATCGGGT
943927 CGGGTATTGGGCCGAGAATCGGGT
1 CGGGTATTGGGCCGAGAATCGGGT
943951 CGGGTAT
1 CGGGTAT
943958 ATATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.13, C:0.15, G:0.47, T:0.25
Consensus pattern (24 bp):
CGGGTATTGGGCCGAGAATCGGGT
Found at i:943962 original size:2 final size:2
Alignment explanation
Indices: 943955--944058 Score: 83
Period size: 2 Copynumber: 54.5 Consensus size: 2
943945 TCGGGTCGGG
* * * *
943955 TA TA TA TA TA TA TA TA TT TA AA T- TA AA TA TA TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
943996 T- TT TT TA TT TA AA T- TA AA TT TA T- TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
944034 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 T
944059 TATTTTTAAT
Statistics
Matches: 80, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
1 5 0.06
2 75 0.94
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:944129 original size:13 final size:13
Alignment explanation
Indices: 944073--944116 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
944063 TTTAATATTT
*
944073 ATCGGGTCGGGT-
1 ATCGGGGCGGGTA
*
944085 ATCGGGGCGGGAA
1 ATCGGGGCGGGTA
944098 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
944111 ATCGGG
1 ATCGGG
944117 TAATCGGGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.16, C:0.16, G:0.52, T:0.16
Consensus pattern (13 bp):
ATCGGGGCGGGTA
Found at i:944191 original size:6 final size:6
Alignment explanation
Indices: 944180--944204 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
944170 AAATGGGTTT
944180 TCCCCG TCCCCG TCCCCG TCCCCG T
1 TCCCCG TCCCCG TCCCCG TCCCCG T
944205 TTATCATCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.64, G:0.16, T:0.20
Consensus pattern (6 bp):
TCCCCG
Found at i:952989 original size:15 final size:15
Alignment explanation
Indices: 952969--953010 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 15
952959 TCAACATTAT
*
952969 ATTTTGGATTGTTTG
1 ATTTTGGATTGTTGG
952984 ATTTTGTGGATTGTTGG
1 A-TTT-TGGATTGTTGG
953001 ATTTTGGATT
1 ATTTTGGATT
953011 TATGAATGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 7 0.29
16 6 0.25
17 11 0.46
ACGTcount: A:0.14, C:0.00, G:0.29, T:0.57
Consensus pattern (15 bp):
ATTTTGGATTGTTGG
Found at i:952995 original size:17 final size:17
Alignment explanation
Indices: 952973--953006 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
952963 CATTATATTT
*
952973 TGGATTGTTTGATTTTG
1 TGGATTGTTGGATTTTG
952990 TGGATTGTTGGATTTTG
1 TGGATTGTTGGATTTTG
953007 GATTTATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.32, T:0.56
Consensus pattern (17 bp):
TGGATTGTTGGATTTTG
Found at i:955251 original size:2 final size:2
Alignment explanation
Indices: 955244--955287 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
955234 GACATGTTCT
955244 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
955286 TA
1 TA
955288 ATCTTTGATC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:965141 original size:24 final size:24
Alignment explanation
Indices: 965109--965159 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
965099 AATTCCTTGG
965109 AAATATGCTGATTTCTTGGTTTTC
1 AAATATGCTGATTTCTTGGTTTTC
965133 AAATATGCTGATTTCTTGGTTTTC
1 AAATATGCTGATTTCTTGGTTTTC
965157 AAA
1 AAA
965160 GAAACTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (24 bp):
AAATATGCTGATTTCTTGGTTTTC
Found at i:965810 original size:20 final size:21
Alignment explanation
Indices: 965782--965836 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
965772 TGGTGCAGAA
*
965782 GGAATCGATCCCCCCTTG-AG
1 GGAACCGATCCCCCCTTGAAG
* *
965802 GGAACCGAT-TCCCTTTGAAG
1 GGAACCGATCCCCCCTTGAAG
*
965822 GGAACCGATTCCCCC
1 GGAACCGATCCCCCC
965837 ACAGGGGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 6 0.21
20 19 0.68
21 3 0.11
ACGTcount: A:0.22, C:0.35, G:0.24, T:0.20
Consensus pattern (21 bp):
GGAACCGATCCCCCCTTGAAG
Found at i:966406 original size:28 final size:28
Alignment explanation
Indices: 966349--966409 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
966339 CACCTATTCC
*
966349 AATTTCTAATCCTAATCCCATCTATTCT
1 AATTTCTAATCCTAATCCCATCTATCCT
*
966377 AATTTCTAATCCTAATCCTAT-TGATCCT
1 AATTTCTAATCCTAATCCCATCT-ATCCT
966405 AATTT
1 AATTT
966410 GACTATCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 1 0.03
28 29 0.97
ACGTcount: A:0.30, C:0.25, G:0.02, T:0.44
Consensus pattern (28 bp):
AATTTCTAATCCTAATCCCATCTATCCT
Found at i:972467 original size:34 final size:34
Alignment explanation
Indices: 972420--972485 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
972410 ATTAAGTAGA
*
972420 AAAATAAATTATTTACTTAATTCACAAATTGTTG
1 AAAATAAAATATTTACTTAATTCACAAATTGTTG
972454 AAAATAAAATATTTACTTAATTCACAAATTGT
1 AAAATAAAATATTTACTTAATTCACAAATTGT
972486 AAATTACTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (34 bp):
AAAATAAAATATTTACTTAATTCACAAATTGTTG
Found at i:973620 original size:189 final size:189
Alignment explanation
Indices: 973300--973678 Score: 749
Period size: 189 Copynumber: 2.0 Consensus size: 189
973290 CATTTTCTGT
973300 TTGAAAAAACAAATAAGCCTTCCCATAACCAAAAAATAAAAATAAAAAACCCTACATAAATAGGC
1 TTGAAAAAACAAATAAGCCTTCCCATAACCAAAAAATAAAAATAAAAAACCCTACATAAATAGGC
973365 AGTGCAGGAAAGCAATATTCAACTTCCCTGTTTACTTGTAAGACCTAATTTTCCCGGCAACATGA
66 AGTGCAGGAAAGCAATATTCAACTTCCCTGTTTACTTGTAAGACCTAATTTTCCCGGCAACATGA
973430 AAATGTGTTATAAATATGTTTCAGCAGGCATTATACAGTCAAGACCATGTGACCTATAC
131 AAATGTGTTATAAATATGTTTCAGCAGGCATTATACAGTCAAGACCATGTGACCTATAC
*
973489 TTGAAAAAACAAATAAGCCTTCCCATAACCAAAAAATTAAAATAAAAAACCCTACATAAATAGGC
1 TTGAAAAAACAAATAAGCCTTCCCATAACCAAAAAATAAAAATAAAAAACCCTACATAAATAGGC
973554 AGTGCAGGAAAGCAATATTCAACTTCCCTGTTTACTTGTAAGACCTAATTTTCCCGGCAACATGA
66 AGTGCAGGAAAGCAATATTCAACTTCCCTGTTTACTTGTAAGACCTAATTTTCCCGGCAACATGA
973619 AAATGTGTTATAAATATGTTTCAGCAGGCATTATACAGTCAAGACCATGTGACCTATAC
131 AAATGTGTTATAAATATGTTTCAGCAGGCATTATACAGTCAAGACCATGTGACCTATAC
973678 T
1 T
973679 GGTTTACTGT
Statistics
Matches: 189, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
189 189 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (189 bp):
TTGAAAAAACAAATAAGCCTTCCCATAACCAAAAAATAAAAATAAAAAACCCTACATAAATAGGC
AGTGCAGGAAAGCAATATTCAACTTCCCTGTTTACTTGTAAGACCTAATTTTCCCGGCAACATGA
AAATGTGTTATAAATATGTTTCAGCAGGCATTATACAGTCAAGACCATGTGACCTATAC
Found at i:987496 original size:38 final size:35
Alignment explanation
Indices: 987429--987582 Score: 136
Period size: 38 Copynumber: 4.3 Consensus size: 35
987419 TTATATATAC
* ** *
987429 ATATATATTATATAGTTTGCAAATGATTTTTGAATTAT
1 ATATATAATATATAGTTTTAAAATCA-TTTTGAA--AT
*
987467 ATATATAACATATAGTTTTTAAAAT-ATTTTGAAAAAAT
1 ATATATAATATATAG-TTTTAAAATCATTTTG---AAAT
*
987505 ATATATAATATATAGTTTTGAAATCATTTTGAAA-
1 ATATATAATATATAGTTTTAAAATCATTTTGAAAT
*
987539 ACATATAATATATAGTTTTAAAA-CATTTTTGAAA-
1 ATATATAATATATAGTTTTAAAATCA-TTTTGAAAT
987573 ACTATATAAT
1 A-TATATAAT
987583 TTTAAAAACA
Statistics
Matches: 100, Mismatches: 9, Indels: 17
0.79 0.07 0.13
Matches are distributed among these distances:
33 2 0.02
34 30 0.30
35 10 0.10
37 13 0.13
38 36 0.36
39 7 0.07
40 2 0.02
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (35 bp):
ATATATAATATATAGTTTTAAAATCATTTTGAAAT
Found at i:987550 original size:34 final size:35
Alignment explanation
Indices: 987468--987582 Score: 128
Period size: 34 Copynumber: 3.2 Consensus size: 35
987458 TTGAATTATA
* * *
987468 TATATAACATATAGTTTTTAAA-ATATTTTGAAAAAATA
1 TATATAATATATAGTTTTAAAACAT-TTTTG--AAAA-C
*
987506 TATATAATATATAGTTTTGAAATCA-TTTTGAAAAC
1 TATATAATATATAGTTTT-AAAACATTTTTGAAAAC
987541 -ATATAATATATAGTTTTAAAACATTTTTGAAAAC
1 TATATAATATATAGTTTTAAAACATTTTTGAAAAC
987575 TATATAAT
1 TATATAAT
987583 TTTAAAAACA
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
33 5 0.07
34 27 0.40
35 7 0.10
36 4 0.06
38 22 0.32
39 2 0.03
40 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (35 bp):
TATATAATATATAGTTTTAAAACATTTTTGAAAAC
Found at i:988829 original size:19 final size:19
Alignment explanation
Indices: 988805--988853 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
988795 TAAATTAGAC
*
988805 ATTTTTTCATGTTTTATTT
1 ATTTTTTCATATTTTATTT
*
988824 A-TTTTTGATATTTTATTT
1 ATTTTTTCATATTTTATTT
988842 -TTTATTTCATAT
1 ATTT-TTTCATAT
988854 ATATGTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.71
Consensus pattern (19 bp):
ATTTTTTCATATTTTATTT
Found at i:988933 original size:5 final size:5
Alignment explanation
Indices: 988920--988997 Score: 52
Period size: 5 Copynumber: 14.8 Consensus size: 5
988910 CTTCTTTTCC
* * * *
988920 TTTTC TTTTA TTTTA TTTTA TCTTA TATATA TTTT- TGGTTTA TTTAA
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA T--TTTA TTTTA
988967 TATTT- TTTTA TTTTA TTTTA TGATTTA TTTT
1 T-TTTA TTTTA TTTTA TTTTA T--TTTA TTTT
988998 TACTTATTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
4 4 0.07
5 40 0.69
6 8 0.14
7 6 0.10
ACGTcount: A:0.21, C:0.03, G:0.04, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:988962 original size:32 final size:30
Alignment explanation
Indices: 988926--988997 Score: 74
Period size: 32 Copynumber: 2.3 Consensus size: 30
988916 TTCCTTTTCT
*
988926 TTTATTTTATTTTATCTTATATATATTTT-TGG
1 TTTATTTTATTTT-T-TTAT-TATATTTTATGA
*
988958 TTTATTTAATATTTTTTTATTTTATTTTATGA
1 TTTATTT--TATTTTTTTATTATATTTTATGA
988990 TTTATTTT
1 TTTATTTT
988998 TACTTATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
30 1 0.03
31 7 0.20
32 20 0.57
33 1 0.03
34 6 0.17
ACGTcount: A:0.22, C:0.01, G:0.04, T:0.72
Consensus pattern (30 bp):
TTTATTTTATTTTTTTATTATATTTTATGA
Found at i:988981 original size:20 final size:21
Alignment explanation
Indices: 988930--988999 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 21
988920 TTTTCTTTTA
988930 TTTTATTTTATCTTATATATAT
1 TTTTATTTTAT-TTATATATAT
** *
988952 TTTTGGTTTATTTA-ATATTT
1 TTTTATTTTATTTATATATAT
*
988972 TTTTATTTTATTTTATGATTTAT
1 TTTTATTTTA-TTTAT-ATATAT
988995 TTTTA
1 TTTTA
989000 CTTATTTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 13 0.34
21 7 0.18
22 9 0.24
23 9 0.24
ACGTcount: A:0.23, C:0.01, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTTATTTTATTTATATATAT
Found at i:989540 original size:83 final size:83
Alignment explanation
Indices: 989401--989854 Score: 532
Period size: 83 Copynumber: 5.4 Consensus size: 83
989391 GGCCTAACTG
* * *
989401 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATTATTTGTAGCATAACTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
* *
989466 TAAGGGTTATCTGTCATC
66 GAAGGGTTATCTGTCAAC
* * * *
989484 AAAGACCTTCGAGTTTGATTACACTCAACTCAAAGGCACATCATTTACAGCATAACTCAAGGCTA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
*
989549 TAAGGGTTATCTGTCAAC
66 GAAGGGTTATCTGTCAAC
* **
989567 AAAGACCTTCGAGTTTGATTACACTCAGCTCAAATACACATCATTTGCAGCATAACTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
* * * *
989632 AAAGGGCTATATGTCATC
66 GAAGGGTTATCTGTCAAC
* * * *
989650 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCATCATTTGCGGCATAGCTCAAGGCGA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
* *
989715 GAAGGGCTATCTGCCAAC
66 GAAGGGTTATCTGTCAAC
* * ** * * * * *
989733 AAAATACCTTCGAGTTCGATTATACTCAGCTCAAATTCATATCAAATTTACAACATAGCTCAAAG
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTGCAGCATAACTCAAGG
**
989798 TGAGAAGGGTTATCTGTCAAC
63 CAAGAAGGGTTATCTGTCAAC
* * * *
989819 AAATACCTTCAAGTTAGATTACATTCAGCT-AAAGGC
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGC
989855 CATGTCAAAT
Statistics
Matches: 321, Mismatches: 47, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
83 221 0.69
84 40 0.12
85 26 0.08
86 34 0.11
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (83 bp):
AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
GAAGGGTTATCTGTCAAC
Found at i:990637 original size:16 final size:18
Alignment explanation
Indices: 990616--990648 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
990606 TTCTCCCGCT
990616 TAAATTA-ATAT-TATTA
1 TAAATTATATATATATTA
990632 TAAATTATATATATATT
1 TAAATTATATATATATT
990649 TACATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TAAATTATATATATATTA
Found at i:990704 original size:25 final size:26
Alignment explanation
Indices: 990676--990724 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
990666 ATGAACAAGT
*
990676 CCATTACAAAGAATA-TGGCCCAAAG
1 CCATTACAAAGAAAATTGGCCCAAAG
*
990701 CCATTACAAATAAAATTGGCCCAA
1 CCATTACAAAGAAAATTGGCCCAA
990725 GGAACTAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.45, C:0.24, G:0.12, T:0.18
Consensus pattern (26 bp):
CCATTACAAAGAAAATTGGCCCAAAG
Found at i:992044 original size:26 final size:26
Alignment explanation
Indices: 992010--992059 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
992000 TATATATATA
992010 TTATTTA-TTTACTTTTATTTTTTCC
1 TTATTTATTTTACTTTTATTTTTTCC
**
992035 TTATCTTATTTTTTTTTTATTTTTT
1 TTAT-TTATTTTACTTTTATTTTTT
992060 TTCTTTATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 3 0.14
27 14 0.67
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (26 bp):
TTATTTATTTTACTTTTATTTTTTCC
Found at i:992046 original size:21 final size:20
Alignment explanation
Indices: 992014--992052 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
992004 TATATATTAT
992014 TTATTTACTTTTATTTTTTCC
1 TTATTTACTTTT-TTTTTTCC
992035 TTATCTTA-TTTTTTTTTT
1 TTAT-TTACTTTTTTTTTT
992053 ATTTTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 8 0.47
22 3 0.18
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (20 bp):
TTATTTACTTTTTTTTTTCC
Found at i:992054 original size:16 final size:16
Alignment explanation
Indices: 992024--992070 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
992014 TTATTTACTT
*
992024 TTATTTTTTCCTTATC
1 TTATTTTTTCTTTATC
*
992040 TTATTTTTT-TTT-TA
1 TTATTTTTTCTTTATC
992054 TT-TTTTTTCTTTATC
1 TTATTTTTTCTTTATC
992069 TT
1 TT
992071 CGTTTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
13 6 0.23
14 6 0.23
15 5 0.19
16 9 0.35
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (16 bp):
TTATTTTTTCTTTATC
Found at i:992064 original size:23 final size:24
Alignment explanation
Indices: 992038--992179 Score: 64
Period size: 23 Copynumber: 5.8 Consensus size: 24
992028 TTTTTCCTTA
992038 TCTTATTTTTTT-TTTATTTTTTT
1 TCTTATTTTTTTATTTATTTTTTT
992061 TCTTTATCTTCGTTTTATTTATTCATTTTT
1 TC-TTAT-TT--TTTTATTTATT--TTTTT
*
992091 T-GTATTTGTCTTTATTT-TTTTATTT
1 TCTTATTT-T-TTTATTTATTTT-TTT
* *
992116 TCTT-TATATTTATTT-TTTTTTT
1 TCTTATTTTTTTATTTATTTTTTT
* ** *
992138 CATTTTATTTACTT-TTTATTTTTAT
1 --TCTTATTTTTTTATTTATTTTTTT
*
992163 TC-TATTTTTTTCTTTAT
1 TCTTATTTTTTTATTTAT
992180 ATCGTTATAT
Statistics
Matches: 93, Mismatches: 11, Indels: 30
0.69 0.08 0.22
Matches are distributed among these distances:
22 10 0.11
23 19 0.20
24 12 0.13
25 19 0.20
26 5 0.05
27 13 0.14
28 9 0.10
30 6 0.06
ACGTcount: A:0.13, C:0.08, G:0.02, T:0.77
Consensus pattern (24 bp):
TCTTATTTTTTTATTTATTTTTTT
Found at i:992076 original size:28 final size:29
Alignment explanation
Indices: 992027--992083 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
992017 TTTACTTTTA
** *
992027 TTTTTTCCTTATCTTATTTTTTTTTTATT
1 TTTTTTCCTTATCTTACGTTTTATTTATT
*
992056 TTTTTTCTTTATCTT-CGTTTTATTTATT
1 TTTTTTCCTTATCTTACGTTTTATTTATT
992084 CATTTTTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.77
Consensus pattern (29 bp):
TTTTTTCCTTATCTTACGTTTTATTTATT
Found at i:992108 original size:17 final size:17
Alignment explanation
Indices: 992087--992122 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
992077 ATTTATTCAT
992087 TTTTTGTATTTGTCTTTA
1 TTTTTGTATTT-TCTTTA
*
992105 TTTTTTTATTTTCTTTA
1 TTTTTGTATTTTCTTTA
992122 T
1 T
992123 ATTTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.78
Consensus pattern (17 bp):
TTTTTGTATTTTCTTTA
Found at i:992114 original size:18 final size:18
Alignment explanation
Indices: 992085--992122 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 18
992075 TTATTTATTC
992085 ATTTTTTGTATTTGTCTTT
1 ATTTTTTGTATTT-TCTTT
992104 ATTTTTT-TATTTTCTTT
1 ATTTTTTGTATTTTCTTT
992121 AT
1 AT
992123 ATTTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 5 0.26
19 7 0.37
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.76
Consensus pattern (18 bp):
ATTTTTTGTATTTTCTTT
Found at i:992133 original size:17 final size:17
Alignment explanation
Indices: 992099--992181 Score: 51
Period size: 17 Copynumber: 4.5 Consensus size: 17
992089 TTTGTATTTG
*
992099 TCTTTAT-TTTTTTATTT
1 TCTTTATATTTATT-TTT
992116 TCTTTATATTTATTTTT
1 TCTTTATATTTATTTTT
* *
992133 TTTTTCATTTTATTTACTTTT
1 TCTTT-A---TATTTATTTTT
* *
992154 TATTTTTATTCTATTTTTT
1 TCTTTATATT-TA-TTTTT
992173 TCTTTATAT
1 TCTTTATAT
992182 CGTTATATTT
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
17 18 0.35
18 8 0.16
19 11 0.22
21 14 0.27
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (17 bp):
TCTTTATATTTATTTTT
Found at i:992135 original size:27 final size:28
Alignment explanation
Indices: 992043--992181 Score: 90
Period size: 28 Copynumber: 4.8 Consensus size: 28
992033 CCTTATCTTA
*
992043 TTTTTTTTTTATTTT-TTT-TCTTTATC
1 TTTTTTTTTTATTTTCTTTATATTTATC
* * * *
992069 TTCGTTTTATTTATTCATTTTTTGTATTTGTC
1 TT--TTTTTTTTATT--TTCTTTATATTTATC
992101 TTTATTTTTTTATTTTCTTTATATTTAT-
1 TTT-TTTTTTTATTTTCTTTATATTTATC
* * *
992129 TTTTTTTTTCATTTTATTTACTTTTTAT-
1 TTTTTTTTTTATTTTCTTTA-TATTTATC
992157 TTTTATTCTATTT-TTTTCTTTATAT
1 TTTT-TT-T-TTTATTTTCTTTATAT
992182 CGTTATATTT
Statistics
Matches: 89, Mismatches: 13, Indels: 19
0.74 0.11 0.16
Matches are distributed among these distances:
26 2 0.02
27 15 0.17
28 23 0.26
29 15 0.17
30 12 0.13
31 14 0.16
32 8 0.09
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (28 bp):
TTTTTTTTTTATTTTCTTTATATTTATC
Found at i:992168 original size:22 final size:21
Alignment explanation
Indices: 992107--992173 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
992097 TGTCTTTATT
992107 TTTTTATTTTCT-TTATATTTA
1 TTTTTATTTT-TATTATATTTA
*
992128 TTTTT-TTTTTCATTTTATTTA
1 TTTTTATTTTT-ATTATATTTA
*
992149 CTTTTTATTTTTATTCTATTT-
1 -TTTTTATTTTTATTATATTTA
992170 TTTT
1 TTTT
992174 CTTTATATCG
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 1 0.03
20 8 0.20
21 13 0.32
22 13 0.32
23 5 0.12
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTATTTTTATTATATTTA
Found at i:996077 original size:16 final size:16
Alignment explanation
Indices: 996056--996088 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
996046 CGGCGAGGAT
996056 GCTCATCTATCTTTTC
1 GCTCATCTATCTTTTC
996072 GCTCATCTATCTTTTC
1 GCTCATCTATCTTTTC
996088 G
1 G
996089 AATCCGACGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.30, G:0.09, T:0.48
Consensus pattern (16 bp):
GCTCATCTATCTTTTC
Found at i:996947 original size:17 final size:18
Alignment explanation
Indices: 996909--996954 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
996899 GTTTCTGAGG
996909 GAATTGGAATCTGTGAAA
1 GAATTGGAATCTGTGAAA
* *
996927 GAATTAGAATCTGT-CAA
1 GAATTGGAATCTGTGAAA
996944 GAATTGGAATC
1 GAATTGGAATC
996955 CAATTCTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (18 bp):
GAATTGGAATCTGTGAAA
Found at i:997566 original size:28 final size:28
Alignment explanation
Indices: 997500--997570 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
997490 TTTTTACCCT
*
997500 AAACCCGAA-CCGAATATCACACTTAAA
1 AAACCCGAACCCGACTATCACACTTAAA
*
997527 AAACCCGGACCCGACTATCACACTTAAAA
1 AAACCCGAACCCGACTATCACACTT-AAA
*
997556 AAATCC-AACCCGACT
1 AAACCCGAACCCGACT
997571 CGACCCGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 8 0.21
28 22 0.58
29 8 0.21
ACGTcount: A:0.44, C:0.34, G:0.08, T:0.14
Consensus pattern (28 bp):
AAACCCGAACCCGACTATCACACTTAAA
Found at i:1006258 original size:85 final size:86
Alignment explanation
Indices: 1006100--1006260 Score: 198
Period size: 85 Copynumber: 1.8 Consensus size: 86
1006090 TATTTGAGTA
* * * * *
1006100 AATAGTCACTTTGACCCTTATTCTTTTTTTTTGAGTATTTTGACTCTCAACATTTCATTTTAGGA
1 AATAGTCACTTTGACCCTTA---TTTTTTTTGGAGTACTTTAACTCCCAACATTTCATTTTAAGA
1006165 CAAAAAAATCCTACCGTTTAACTG
63 CAAAAAAATCCTACCGTTTAACTG
* ** * *
1006189 AATAGTCACTTTGACGCTTA-TTTTTTTGGAGTACTTTAACTCCCAATGTTTTATTTTAAGATAA
1 AATAGTCACTTTGACCCTTATTTTTTTTGGAGTACTTTAACTCCCAACATTTCATTTTAAGACAA
1006253 AAAAATCC
66 AAAAATCC
1006261 CTATTTCAGA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 43 0.69
89 19 0.31
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (86 bp):
AATAGTCACTTTGACCCTTATTTTTTTTGGAGTACTTTAACTCCCAACATTTCATTTTAAGACAA
AAAAATCCTACCGTTTAACTG
Found at i:1019281 original size:5 final size:5
Alignment explanation
Indices: 1019271--1019310 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
1019261 AATTAATTAC
* *
1019271 AAAAT AAAAT AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
1019311 CTTAAATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (5 bp):
AAAAG
Done.