Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 36 of 203
Found at i:11885413 original size:18 final size:18
Alignment explanation
Indices: 11885392--11885476 Score: 54
Period size: 18 Copynumber: 4.7 Consensus size: 18
11885382 TACTGACGGC
11885392 GATGATGAGGATGAGGAT
1 GATGATGAGGATGAGGAT
* * *
11885410 GATGGTGAGCAGGAGGAT
1 GATGATGAGGATGAGGAT
*
11885428 GAAGATGA--A-GAGGAAT
1 GATGATGAGGATGAGG-AT
11885444 -ATGATG-GGACTGATGCCGAT
1 GATGATGAGGA-TGA-G--GAT
11885464 GATGATGAGGATG
1 GATGATGAGGATG
11885477 CGTTTGATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 17
0.69 0.08 0.23
Matches are distributed among these distances:
15 9 0.18
16 4 0.08
18 23 0.45
19 1 0.02
20 2 0.04
21 9 0.18
22 3 0.06
ACGTcount: A:0.33, C:0.05, G:0.42, T:0.20
Consensus pattern (18 bp):
GATGATGAGGATGAGGAT
Found at i:11888459 original size:27 final size:28
Alignment explanation
Indices: 11888429--11888483 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
11888419 TGGTTTAATA
*
11888429 TGTAATTGTATAC-GTAATTTTGATTTG
1 TGTAATTGTATACAGAAATTTTGATTTG
*
11888456 TGTAATTTTATACATGAAATTTTGATTT
1 TGTAATTGTATACA-GAAATTTTGATTT
11888484 CATCCTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 12 0.50
29 12 0.50
ACGTcount: A:0.29, C:0.04, G:0.15, T:0.53
Consensus pattern (28 bp):
TGTAATTGTATACAGAAATTTTGATTTG
Found at i:11888919 original size:18 final size:18
Alignment explanation
Indices: 11888896--11888940 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
11888886 ATGCAATATA
11888896 ATTTTAAATAATTAAAA-C
1 ATTTTAAA-AATTAAAATC
*
11888914 ATTTTAAAAGTTAAAATC
1 ATTTTAAAAATTAAAATC
11888932 A-TTTAAAAA
1 ATTTTAAAAA
11888941 GTAATTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (18 bp):
ATTTTAAAAATTAAAATC
Found at i:11888929 original size:17 final size:18
Alignment explanation
Indices: 11888896--11888942 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
11888886 ATGCAATATA
*
11888896 ATTTTAAATAATTAAAA-C
1 ATTTTAAA-AGTTAAAATC
11888914 ATTTTAAAAGTTAAAATC
1 ATTTTAAAAGTTAAAATC
*
11888932 ATTTAAAAAGT
1 ATTTTAAAAGT
11888943 AATTTAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (18 bp):
ATTTTAAAAGTTAAAATC
Found at i:11890569 original size:4 final size:4
Alignment explanation
Indices: 11890560--11890614 Score: 101
Period size: 4 Copynumber: 13.8 Consensus size: 4
11890550 TTAGGAGTTT
11890560 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
11890608 AGAC ATA
1 ATAC ATA
11890615 TGTATATGTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.51, C:0.24, G:0.02, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:11895076 original size:19 final size:19
Alignment explanation
Indices: 11895052--11895092 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
11895042 GACATACTTT
*
11895052 ATGGATTTCAAAAGAGCAC
1 ATGGATTTCAAAAAAGCAC
11895071 ATGGATTTCAAAAAAGCAC
1 ATGGATTTCAAAAAAGCAC
11895090 ATG
1 ATG
11895093 AGGAGCTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.22
Consensus pattern (19 bp):
ATGGATTTCAAAAAAGCAC
Found at i:11895813 original size:36 final size:36
Alignment explanation
Indices: 11895767--11895839 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
11895757 CTCAGAAAAG
11895767 AAAGTTTTTTTTCCTTTTCTAGAAAAAGAGACATCA
1 AAAGTTTTTTTTCCTTTTCTAGAAAAAGAGACATCA
11895803 AAAGTTTTTTTTCCTTTTCTAGAAAAAGAGACATCA
1 AAAGTTTTTTTTCCTTTTCTAGAAAAAGAGACATCA
11895839 A
1 A
11895840 CAAATACTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (36 bp):
AAAGTTTTTTTTCCTTTTCTAGAAAAAGAGACATCA
Found at i:11899946 original size:88 final size:88
Alignment explanation
Indices: 11899797--11899985 Score: 369
Period size: 88 Copynumber: 2.1 Consensus size: 88
11899787 TGGGGGGGGG
11899797 GATGAATTATTTACTTAGGAACTTGGGGGGGAAATCGTCATTAGAAGTCATGCAGGTTCTAATTA
1 GATGAATTATTTACTTAGGAACTTGGGGGGGAAATCGTCATTAGAAGTCATGCAGGTTCTAATTA
*
11899862 TGTTTTGAAATACATAGAAAGAT
66 TGTTTTGAAACACATAGAAAGAT
11899885 GATGAATTATTTACTTAGGAACTTGGGGGGGAAATCGTCATTAGAAGTCATGCAGGTTCTAATTA
1 GATGAATTATTTACTTAGGAACTTGGGGGGGAAATCGTCATTAGAAGTCATGCAGGTTCTAATTA
11899950 TGTTTTGAAACACATAGAAAGAT
66 TGTTTTGAAACACATAGAAAGAT
11899973 GATGAATTATTTA
1 GATGAATTATTTA
11899986 AGAATTAAGC
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 100 1.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.33
Consensus pattern (88 bp):
GATGAATTATTTACTTAGGAACTTGGGGGGGAAATCGTCATTAGAAGTCATGCAGGTTCTAATTA
TGTTTTGAAACACATAGAAAGAT
Found at i:11905957 original size:19 final size:18
Alignment explanation
Indices: 11905935--11906015 Score: 58
Period size: 18 Copynumber: 4.3 Consensus size: 18
11905925 CAACACTCGT
11905935 TTGAATCGAAAACAATTTC
1 TTGAATCG-AAACAATTTC
* * * *
11905954 TTGAATAGAATCTA-CTC
1 TTGAATCGAAACAATTTC
11905971 GTTTGAATCGAAAACAATTTC
1 --TTGAATCG-AAACAATTTC
*
11905992 TTGGATTC-AAACAATTTC
1 TT-GAATCGAAACAATTTC
11906010 TTGAAT
1 TTGAAT
11906016 AGAATCTTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 12
0.68 0.14 0.17
Matches are distributed among these distances:
17 5 0.11
18 16 0.34
19 16 0.34
20 8 0.17
21 2 0.04
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTGAATCGAAACAATTTC
Found at i:11908877 original size:20 final size:20
Alignment explanation
Indices: 11908852--11908897 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
11908842 CTCGTCATCG
11908852 TCATATAATGGATCATGCTT
1 TCATATAATGGATCATGCTT
11908872 TCATATAATGGATCATGCTT
1 TCATATAATGGATCATGCTT
11908892 T-ATATA
1 TCATATA
11908898 TGTGGGGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (20 bp):
TCATATAATGGATCATGCTT
Found at i:11914235 original size:34 final size:33
Alignment explanation
Indices: 11914163--11914272 Score: 105
Period size: 34 Copynumber: 3.3 Consensus size: 33
11914153 TTTAATATTC
* *
11914163 TTTTTTAAAAATTAATTCAATTAGGGTTTAAG-G
1 TTTTTAAAAAATTAATTAAATTAGGGTTT-AGTG
* * *
11914196 GTTTTAAATAAATAAATTTAATTAGGGTTTAGTG
1 TTTTTAAA-AAATTAATTAAATTAGGGTTTAGTG
* * * *
11914230 TTTTTAAGAAATTTAATTAAATTAAGATTTAGTT
1 TTTTTAA-AAAATTAATTAAATTAGGGTTTAGTG
11914264 TTTTTAAAA
1 TTTTTAAAA
11914273 TAATATTGTG
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
33 10 0.16
34 52 0.83
35 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (33 bp):
TTTTTAAAAAATTAATTAAATTAGGGTTTAGTG
Found at i:11914490 original size:125 final size:126
Alignment explanation
Indices: 11914329--11914853 Score: 716
Period size: 126 Copynumber: 4.2 Consensus size: 126
11914319 AAGGATTTTA
* *
11914329 TTTTTTTTCTACAGTAGTTCCT-AAAAAATAATTTTGAGAATACGGTTCTGAACAAATAGTGTCA
1 TTTTTTTTCTACAGTAGTTCATGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCA
* *
11914393 AAAATGCTTCAAGCA-GATGCACTATCAGCAAAATTACTGGAAAAAGCTCCCACGTGGACG
66 AAAACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACG
* * * *
11914453 TTTTTTTTCTAAAGTGGTTCATGAAAAAATAACTTTGAGAAGACGTTTCTGAACAAATAGTGTCA
1 TTTTTTTTCTACAGTAGTTCATGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCA
* * * * * *
11914518 AAAACTCTTCAAGCAGGATGCATTGTCAGCAAAATTACTAAAAAAAGCTCTCATGTGGACG
66 AAAACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACG
* * * * *
11914579 CTCTTTTTT-TACAGTAGTTCTTAAAAAAATAATTTTGAGAAGACAGTTCTGAATAAATAGTGTC
1 -TTTTTTTTCTACAGTAGTTCATGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTC
* * * *
11914643 AAAAACGCTTCAAGGAGGATGCACTGTCAGCAAAATTAATGAAAAAAGCTTCCACGTGGACG
65 AAAAACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACG
* * * *
11914705 CTCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTATGAACAAATAGTGTCA
1 TTTTTTTTCTACAGTAGTTCATGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCA
* * *
11914770 AAAACGCTTCAAGCAAGATGCACTATCAGCAAAATTGA-TGAAAAAAGCTCCTACGTTGACG
66 AAAACGCTTCAAGCAGGATGCACTATCAGCAAAATT-ACTGAAAAAAGCTCCCACGTGGACG
* *
11914831 CTATTTTTCTACAGTAGTTCATG
1 TTTTTTTTCTACAGTAGTTCATG
11914854 TTTGGCCTTA
Statistics
Matches: 349, Mismatches: 47, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
124 19 0.05
125 57 0.16
126 265 0.76
127 8 0.02
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (126 bp):
TTTTTTTTCTACAGTAGTTCATGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCA
AAAACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACG
Found at i:11918414 original size:18 final size:18
Alignment explanation
Indices: 11918373--11918415 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
11918363 GACTGGGAAA
* *
11918373 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
11918391 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
11918409 ATGATAC
1 AGGATAC
11918416 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.26, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:11920221 original size:30 final size:30
Alignment explanation
Indices: 11920167--11920223 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11920157 AATTAATGAG
*
11920167 AGCTTTGAGAAATTTAAGGGGAAATTTGAA
1 AGCTTTGAGAAATTTAAGGAGAAATTTGAA
11920197 AGCTTTGAGAAATTT-AGCGAGAAATTT
1 AGCTTTGAGAAATTTAAG-GAGAAATTT
11920224 AAGAGTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.32
Consensus pattern (30 bp):
AGCTTTGAGAAATTTAAGGAGAAATTTGAA
Found at i:11925818 original size:273 final size:273
Alignment explanation
Indices: 11925320--11925846 Score: 848
Period size: 273 Copynumber: 1.9 Consensus size: 273
11925310 ATCAACTCCT
*
11925320 TTATAAAATTATAAAAATATCATTTCTTTCAAAATATAATTAATATTATTACTATAATTTTTTTA
1 TTATAAAATTATAAAAATATCATTTCTTTCAAAATATAATTAATATTATTACAATAATTTTTTTA
11925385 TTTTTTTATATTTTGATATCATCTTTAAATAAAGAAAACAATTACAAATGCAATGTTGAAACACA
66 TTTTTTTATATTTTGATATCATCTTT--ATAAAGAAAACAATTACAAATGCAATGTTGAAACACA
*
11925450 TATTTAATAACATTAAAATTAAAGTTTATGTTAGTGTTTTCTTATTGAATAATTTTTTTAAAAAT
129 TATTTAATAACATCAAAATTAAAGTTTATGTTAGTGTTTTCTTATTGAATAATTTTTTTAAAAAT
* * * *
11925515 TTAACATAAAATATTTTCTTTCTCCCTAAAATTATAATAGGTGTGACAAAATCTGATATTTAACT
194 TTAACATAAAATATTTACTTTCTCCCTAAAATTATAATAAGTGGGACAAAATCTAATATTTAACT
11925580 ATTCCATCAGTTATG
259 ATTCCATCAGTTATG
* *
11925595 TTATGAAATTATAAAAATATCATTTCTTTTAAAATATAATTAATATTATTACAATGAAGTTTTTA
1 TTATAAAATTATAAAAATATCATTTCTTTCAAAATATAATTAATATTATTACAAT-AA-TTTTT-
11925660 TT-TTTTCTTTATATTTTGATATCATC-TT-T-AAGAAAACAATTACAAATGCAATGTTGAAACA
63 TTATTTT-TTTATATTTTGATATCATCTTTATAAAGAAAACAATTACAAATGCAATGTTGAAACA
*
11925721 CATATTTAATAACATCAAAATTAAAGTTTATGTTAGTGTTTTCTTATTGAATAATTTTTTT-TAA
127 CATATTTAATAACATCAAAATTAAAGTTTATGTTAGTGTTTTCTTATTGAATAATTTTTTTAAAA
* * *
11925785 ATTTAGCATAAAATATTTACTTTTTTTCCTAAAATTATAATAAGTGGGACAAAATCTAATAT
192 ATTTAACATAAAATATTTAC-TTTCTCCCTAAAATTATAATAAGTGGGACAAAATCTAATAT
11925847 ATAATAACCA
Statistics
Matches: 235, Mismatches: 12, Indels: 12
0.91 0.05 0.05
Matches are distributed among these distances:
272 20 0.09
273 128 0.54
274 1 0.00
275 52 0.22
276 2 0.01
277 11 0.05
278 21 0.09
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.45
Consensus pattern (273 bp):
TTATAAAATTATAAAAATATCATTTCTTTCAAAATATAATTAATATTATTACAATAATTTTTTTA
TTTTTTTATATTTTGATATCATCTTTATAAAGAAAACAATTACAAATGCAATGTTGAAACACATA
TTTAATAACATCAAAATTAAAGTTTATGTTAGTGTTTTCTTATTGAATAATTTTTTTAAAAATTT
AACATAAAATATTTACTTTCTCCCTAAAATTATAATAAGTGGGACAAAATCTAATATTTAACTAT
TCCATCAGTTATG
Found at i:11927867 original size:41 final size:42
Alignment explanation
Indices: 11927801--11927883 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 42
11927791 AAAATGAATA
* *
11927801 AAATTATAAAAATGTAAAAAGATAT-ATGTATGTATATATAT
1 AAATTATAAAAATGAAAAAAGATATAAAGTATGTATATATAT
*
11927842 AAATTATAAAATAT-AAAAAATATATACAAGTATGTATATATA
1 AAATTATAAAA-ATGAAAAAAGATATA-AAGTATGTATATATA
11927884 CATATATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 20 0.56
42 2 0.06
43 14 0.39
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.35
Consensus pattern (42 bp):
AAATTATAAAAATGAAAAAAGATATAAAGTATGTATATATAT
Found at i:11927880 original size:39 final size:41
Alignment explanation
Indices: 11927801--11927881 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 41
11927791 AAAATGAATA
* ** *
11927801 AAATTATAAAAATGTAAAAAGATATATGTATGTATATATAT
1 AAATTATAAAAATATAAAAAGATATATACAAGTATATATAT
*
11927842 AAATTAT-AAAATATAAAAA-ATATATACAAGTATGTATAT
1 AAATTATAAAAATATAAAAAGATATATACAAGTATATATAT
11927881 A
1 A
11927882 TACATATATA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 17 0.49
40 11 0.31
41 7 0.20
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.35
Consensus pattern (41 bp):
AAATTATAAAAATATAAAAAGATATATACAAGTATATATAT
Found at i:11927909 original size:61 final size:63
Alignment explanation
Indices: 11927822--11927947 Score: 184
Period size: 61 Copynumber: 2.0 Consensus size: 63
11927812 ATGTAAAAAG
* * *
11927822 ATATATGTATGTATATATATAAATTATAAAATATAAAAAATATATACAAGTATGTATATATAC
1 ATATATATATGTATATATATAAATTATAAAATATAAAAAAAATATAAAAGTATGTATATATAC
* * *
11927885 ATATATATATGTATATA-A-GAATTATGAAATATAAAAAAAATATAAAAGTATGTGTATATAC
1 ATATATATATGTATATATATAAATTATAAAATATAAAAAAAATATAAAAGTATGTATATATAC
11927946 AT
1 AT
11927948 GTTTATAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
61 40 0.70
62 1 0.02
63 16 0.28
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (63 bp):
ATATATATATGTATATATATAAATTATAAAATATAAAAAAAATATAAAAGTATGTATATATAC
Found at i:11928853 original size:24 final size:23
Alignment explanation
Indices: 11928794--11928952 Score: 98
Period size: 23 Copynumber: 6.9 Consensus size: 23
11928784 AACAAATGGG
* *
11928794 CAGCATATACATACCAAATTTAA
1 CAGCATATATACACCAAATTTAA
*
11928817 CAGCACT-TTTACACCAAAATTTAA
1 CAGCA-TATATACACC-AAATTTAA
* *
11928841 CAGCATATATACAGCAAA--TAGG
1 CAGCATATATACACCAAATTTA-A
* *
11928863 CAACATATATATACCAAATTTAA
1 CAGCATATATACACCAAATTTAA
*
11928886 CACCACT-T-TACACCAAAATTTAA
1 CAGCA-TATATACACC-AAATTTAA
* *
11928909 CAGCATAGATATACAAC-AA-TTAGG
1 CAGCAT--ATATACACCAAATTTA-A
*
11928933 CAGCATATATATACCAAATT
1 CAGCATATATACACCAAATT
11928953 GAGCAATATT
Statistics
Matches: 104, Mismatches: 17, Indels: 29
0.69 0.11 0.19
Matches are distributed among these distances:
21 2 0.02
22 28 0.27
23 36 0.35
24 32 0.31
25 1 0.01
26 5 0.05
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.26
Consensus pattern (23 bp):
CAGCATATATACACCAAATTTAA
Found at i:11928870 original size:69 final size:69
Alignment explanation
Indices: 11928740--11928990 Score: 299
Period size: 70 Copynumber: 3.6 Consensus size: 69
11928730 ATACCAAATT
* * * * * *
11928740 AATTAAACAACA-TTTATACACCAAAATTTGGACAGCTTATATATAACAAATGGGCAGCATATAC
1 AATTTAACAACACTTT-TACACCAAAATTT-AACAGCATATATACAACAAATAGGCAGCATATAT
11928804 ATACCA
64 ATACCA
* * *
11928810 AATTTAACAGCACTTTTACACCAAAATTTAACAGCATATATACAGCAAATAGGCAACATATATAT
1 AATTTAACAACACTTTTACACCAAAATTTAACAGCATATATACAACAAATAGGCAGCATATATAT
11928875 ACCA
66 ACCA
* *
11928879 AATTTAACACCAC-TTTACACCAAAATTTAACAGCATAGATATACAACAATTAGGCAGCATATAT
1 AATTTAACAACACTTTTACACCAAAATTTAACAGCAT--ATATACAACAAATAGGCAGCATATAT
11928943 ATACCA
64 ATACCA
* * * * * *
11928949 AATTGAGCAATATTTTTACACCAAAATTGAACAGTATATATA
1 AATTTAACAACACTTTTACACCAAAATTTAACAGCATATATA
11928991 TATATATATA
Statistics
Matches: 157, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
68 23 0.15
69 50 0.32
70 60 0.38
71 24 0.15
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (69 bp):
AATTTAACAACACTTTTACACCAAAATTTAACAGCATATATACAACAAATAGGCAGCATATATAT
ACCA
Found at i:11929034 original size:16 final size:16
Alignment explanation
Indices: 11929013--11929050 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
11929003 AAATGGGCAG
11929013 CATATACA-TAATACA
1 CATATACACTAATACA
11929028 TCATATACATCTAATACA
1 -CATATACA-CTAATACA
11929046 CATAT
1 CATAT
11929051 TATTTTCGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 8 0.40
17 5 0.25
18 7 0.35
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (16 bp):
CATATACACTAATACA
Found at i:11929871 original size:41 final size:41
Alignment explanation
Indices: 11929826--11929982 Score: 199
Period size: 41 Copynumber: 3.8 Consensus size: 41
11929816 TTGTATAAAA
* * * * *
11929826 CACCGGCATAAAGCCTACTAGGCACAAAGCCCGATACATTT
1 CACCGGCATAAAGCCTGCTAGGCATAAAGCCTGATATAATT
* * * *
11929867 CACCGGCACAAAGCCTGCTAGACATAAGGTCTGATATAATT
1 CACCGGCATAAAGCCTGCTAGGCATAAAGCCTGATATAATT
* *
11929908 CACTGGCACT-GAGCCTGCTAGGCATAAAGCCTGATATAATT
1 CACCGGCA-TAAAGCCTGCTAGGCATAAAGCCTGATATAATT
11929949 CACCGGCATAAAGCCTGCTAGGCATAAAGCCTGA
1 CACCGGCATAAAGCCTGCTAGGCATAAAGCCTGA
11929983 ACTTACAAAA
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
40 1 0.01
41 96 0.99
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (41 bp):
CACCGGCATAAAGCCTGCTAGGCATAAAGCCTGATATAATT
Found at i:11944153 original size:27 final size:27
Alignment explanation
Indices: 11944105--11944166 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 27
11944095 TATAAACTTT
*
11944105 GAATTTTTTTTTTACGATTTTGGGGTCA
1 GAATTTTTTTTTTAC-AATTTGGGGTCA
11944133 GAATTTTATTTTTTA-AATTTGGGGTCA
1 GAATTTT-TTTTTTACAATTTGGGGTCA
11944160 GATATTT
1 GA-ATTT
11944167 AAACTTCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 13 0.42
28 11 0.35
29 7 0.23
ACGTcount: A:0.23, C:0.05, G:0.19, T:0.53
Consensus pattern (27 bp):
GAATTTTTTTTTTACAATTTGGGGTCA
Found at i:11949237 original size:16 final size:15
Alignment explanation
Indices: 11949221--11949262 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
11949211 CGTTATTAAT
11949221 TTAAAATTTTATAAA
1 TTAAAATTTTATAAA
*
11949236 TTATAAATGGTT-TAAA
1 TTA-AAAT-TTTATAAA
11949252 TTAAAATTTTA
1 TTAAAATTTTA
11949263 CTGTTTTAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
14 2 0.09
15 7 0.32
16 11 0.50
17 2 0.09
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (15 bp):
TTAAAATTTTATAAA
Found at i:11958718 original size:16 final size:17
Alignment explanation
Indices: 11958694--11958728 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
11958684 CTAAAAAAAA
11958694 CTAAGAAAAA-TAAACT
1 CTAAGAAAAATTAAACT
*
11958710 CTAATAAAAATTAAACT
1 CTAAGAAAAATTAAACT
11958727 CT
1 CT
11958729 GATTAAAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.26
Consensus pattern (17 bp):
CTAAGAAAAATTAAACT
Found at i:11971872 original size:44 final size:43
Alignment explanation
Indices: 11971816--11971929 Score: 192
Period size: 44 Copynumber: 2.6 Consensus size: 43
11971806 AAGTACCAAG
11971816 TACCAACCCAATAAACTAAAGTCTACCCAAACCCAATTACCATT
1 TACCAA-CCAATAAACTAAAGTCTACCCAAACCCAATTACCATT
11971860 TACCAACGCAATAAACTAAAGTCTACCCAAACCCAATTACCATT
1 TACCAAC-CAATAAACTAAAGTCTACCCAAACCCAATTACCATT
11971904 TACCAATCCAATAAAACTAAAGTCTA
1 TACCAA-CCAAT-AAACTAAAGTCTA
11971930 AAACTAAAGA
Statistics
Matches: 67, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
43 1 0.01
44 52 0.78
45 14 0.21
ACGTcount: A:0.45, C:0.31, G:0.04, T:0.21
Consensus pattern (43 bp):
TACCAACCAATAAACTAAAGTCTACCCAAACCCAATTACCATT
Found at i:11971933 original size:13 final size:13
Alignment explanation
Indices: 11971915--11971944 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11971905 ACCAATCCAA
*
11971915 TAAAACTAAAGTC
1 TAAAACTAAAGAC
11971928 TAAAACTAAAGAC
1 TAAAACTAAAGAC
11971941 TAAA
1 TAAA
11971945 TCTCTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
TAAAACTAAAGAC
Found at i:11972586 original size:21 final size:21
Alignment explanation
Indices: 11972562--11972601 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11972552 TTAATCAGTT
*
11972562 AAATATCATTATATAGCAATA
1 AAATAACATTATATAGCAATA
11972583 AAATAACATTATATAGCAA
1 AAATAACATTATATAGCAA
11972602 ATCGGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (21 bp):
AAATAACATTATATAGCAATA
Found at i:11972630 original size:26 final size:26
Alignment explanation
Indices: 11972601--11972655 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
11972591 TTATATAGCA
*
11972601 AATCGGTTAAATC-AGTTAAATCGATT
1 AATCAGTTAAATCGA-TTAAATCGATT
*
11972627 AATCAGTTAAATCGATTAAATCGGTT
1 AATCAGTTAAATCGATTAAATCGATT
11972653 AAT
1 AAT
11972656 TTTTAACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.35
Consensus pattern (26 bp):
AATCAGTTAAATCGATTAAATCGATT
Found at i:11972632 original size:17 final size:17
Alignment explanation
Indices: 11972600--11972645 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
11972590 ATTATATAGC
*
11972600 AAATCGGTTAAATCAGTT
1 AAATCGATT-AATCAGTT
11972618 AAATCGATTAATCAGTT
1 AAATCGATTAATCAGTT
11972635 AAATCGATTAA
1 AAATCGATTAA
11972646 ATCGGTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 19 0.70
18 8 0.30
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (17 bp):
AAATCGATTAATCAGTT
Found at i:11973919 original size:3 final size:3
Alignment explanation
Indices: 11973905--11973948 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
11973895 AATAACATCT
*
11973905 TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
11973949 CTAACTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11974104 original size:10 final size:10
Alignment explanation
Indices: 11974066--11974104 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
11974056 TAAAAAATAC
11974066 CTTTTTTTCT
1 CTTTTTTTCT
*
11974076 CTTCTCTTTCT
1 CTT-TTTTTCT
*
11974087 CTCTTTTTCT
1 CTTTTTTTCT
11974097 CTTTTTTT
1 CTTTTTTT
11974105 TTCTGCAGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (10 bp):
CTTTTTTTCT
Found at i:11974224 original size:27 final size:27
Alignment explanation
Indices: 11974194--11974282 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
11974184 GAGTAGTCCT
*
11974194 GCCAATCAGTATGACACCATTGGTGCC
1 GCCAATCAGTATGGCACCATTGGTGCC
*
11974221 GCCAACCTCA-T-TGGCACCATCGGTGCC
1 GCCAA--TCAGTATGGCACCATTGGTGCC
* *
11974248 GCCACTCAGTATGGCACCTTTGGTGCC
1 GCCAATCAGTATGGCACCATTGGTGCC
11974275 GCCAATCA
1 GCCAATCA
11974283 CAATTCCTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
25 3 0.06
26 1 0.02
27 44 0.85
28 1 0.02
29 3 0.06
ACGTcount: A:0.21, C:0.35, G:0.22, T:0.21
Consensus pattern (27 bp):
GCCAATCAGTATGGCACCATTGGTGCC
Found at i:11984039 original size:21 final size:21
Alignment explanation
Indices: 11984013--11984053 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11984003 TGTCCTTCAA
*
11984013 TATCAGCTCCCTTTTT-TTTCT
1 TATCAGC-ACCTTTTTATTTCT
11984034 TATCAGCACCTTTTTATTTC
1 TATCAGCACCTTTTTATTTC
11984054 CCCTATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.15, C:0.27, G:0.05, T:0.54
Consensus pattern (21 bp):
TATCAGCACCTTTTTATTTCT
Found at i:11993883 original size:99 final size:99
Alignment explanation
Indices: 11993712--11993911 Score: 382
Period size: 99 Copynumber: 2.0 Consensus size: 99
11993702 TGGTGGACTT
11993712 TCTGTGCTTCCCCAGGTTAGCTCTTTTCCCGCTGTTCTCTGCTCGCACTTAAAAATCCCTCTGCA
1 TCTGTGCTTCCCCAGGTTAGCTCTTTTCCCGCTGTTCTCTGCTCGCACTTAAAAATCCCTCTGCA
11993777 CACACAAACTCGAACATGATATATTTACAGATCA
66 CACACAAACTCGAACATGATATATTTACAGATCA
*
11993811 TCTGTGCTTCCCCAGGTTAGCTCTTTTCCCGCTGTTCTCTGCTCGCACTTAAAAATCCCTGTGCA
1 TCTGTGCTTCCCCAGGTTAGCTCTTTTCCCGCTGTTCTCTGCTCGCACTTAAAAATCCCTCTGCA
*
11993876 CGCACAAACTCGAACATGATATATTTACAGATCA
66 CACACAAACTCGAACATGATATATTTACAGATCA
11993910 TC
1 TC
11993912 AAAATCTATG
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (99 bp):
TCTGTGCTTCCCCAGGTTAGCTCTTTTCCCGCTGTTCTCTGCTCGCACTTAAAAATCCCTCTGCA
CACACAAACTCGAACATGATATATTTACAGATCA
Found at i:11996537 original size:27 final size:27
Alignment explanation
Indices: 11996507--11996572 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 27
11996497 AAATAGATAC
11996507 TAATAATT-TTATTTAAATATAATTAAA
1 TAATAATTATTA-TTAAATATAATTAAA
* *
11996534 TAATAATTAATTATTAATTATATTTAAA
1 TAATAATT-ATTATTAAATATAATTAAA
11996562 TAA-AATTATTA
1 TAATAATTATTA
11996573 ATATTTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 4 0.11
27 12 0.34
28 16 0.46
29 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TAATAATTATTATTAAATATAATTAAA
Found at i:11999583 original size:5 final size:6
Alignment explanation
Indices: 11999566--11999591 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11999556 AATTTAGTGT
11999566 ATAAAA ATAAAA ATAAAA ATAAAA AT
1 ATAAAA ATAAAA ATAAAA ATAAAA AT
11999592 TTTTAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:12010357 original size:25 final size:25
Alignment explanation
Indices: 12010329--12010379 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
12010319 CCTTCTTGCT
12010329 TAATTTTTTATTTCGTCTCTTTCAA
1 TAATTTTTTATTTCGTCTCTTTCAA
12010354 TAATTTTTTATTTCGTCTCTTTCAA
1 TAATTTTTTATTTCGTCTCTTTCAA
12010379 T
1 T
12010380 TGATGTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.16, G:0.04, T:0.61
Consensus pattern (25 bp):
TAATTTTTTATTTCGTCTCTTTCAA
Found at i:12016828 original size:11 final size:11
Alignment explanation
Indices: 12016799--12016833 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
12016789 GCAACACCTT
12016799 AATATATAATTA
1 AATATA-AATTA
12016811 AAT-TAAATTA
1 AATATAAATTA
12016821 AATATAAATTA
1 AATATAAATTA
12016832 AA
1 AA
12016834 AATATTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.36
11 11 0.50
12 3 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AATATAAATTA
Found at i:12017578 original size:17 final size:20
Alignment explanation
Indices: 12017553--12017591 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
12017543 AAAAAAATAT
12017553 AAATATATAAAT-TATT-TA
1 AAATATATAAATATATTATA
12017571 AAAT-TATAAATATATTATA
1 AAATATATAAATATATTATA
12017590 AA
1 AA
12017592 TATTCTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 8 0.42
19 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATATATAAATATATTATA
Found at i:12017592 original size:18 final size:18
Alignment explanation
Indices: 12017550--12017594 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 18
12017540 TTTAAAAAAA
12017550 TATAAATATATAAATTAT
1 TATAAATATATAAATTAT
12017568 T-TAAA-ATTATAAATATAT
1 TATAAATA-TATAAAT-TAT
12017586 TATAAATAT
1 TATAAATAT
12017595 TCTTCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 1 0.04
17 11 0.48
18 5 0.22
19 5 0.22
20 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TATAAATATATAAATTAT
Found at i:12017803 original size:31 final size:31
Alignment explanation
Indices: 12017730--12017805 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 31
12017720 GGGTCCAATT
** **
12017730 TGGTACTCGAACTTGACACATTTTCCTAATT
1 TGGTACTTAAACTTGACACATTTTCCTAAGC
* * * *
12017761 TGATACCTAAACTTGACACTTTTTCTTAAGC
1 TGGTACTTAAACTTGACACATTTTCCTAAGC
12017792 TGGTACTTAAACTT
1 TGGTACTTAAACTT
12017806 TTTGGGGGTC
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (31 bp):
TGGTACTTAAACTTGACACATTTTCCTAAGC
Found at i:12018309 original size:61 final size:60
Alignment explanation
Indices: 12018244--12018375 Score: 144
Period size: 59 Copynumber: 2.2 Consensus size: 60
12018234 CAATAAATTT
* *
12018244 AAGTACCAAATT-GAACCTAAAAAGAAGCTGAGGTACCAAATTAGGAAAAAA-TG-CTAAGTTC
1 AAGTACCAAATTAG-ACC-AAAAA-AAGCTGAGGTACCAAACTAAGAAAAAAGTGTC-AAGTTC
* * * *
12018305 AAGTACCAAATTAGGCCCAAAAAAGTTTAGGTACCAAACTAAGAAAAAAGTGTCAAGTTC
1 AAGTACCAAATTAGACCAAAAAAAGCTGAGGTACCAAACTAAGAAAAAAGTGTCAAGTTC
*
12018365 AGGTACCAAAT
1 AAGTACCAAAT
12018376 ATTATATTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
59 23 0.38
60 22 0.36
61 15 0.25
62 1 0.02
ACGTcount: A:0.47, C:0.16, G:0.17, T:0.20
Consensus pattern (60 bp):
AAGTACCAAATTAGACCAAAAAAAGCTGAGGTACCAAACTAAGAAAAAAGTGTCAAGTTC
Found at i:12023572 original size:5 final size:5
Alignment explanation
Indices: 12023562--12023591 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
12023552 AGTTGAAATG
12023562 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT
12023592 CCAAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:12026707 original size:15 final size:15
Alignment explanation
Indices: 12026689--12026717 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12026679 CAAACTCCAT
12026689 TAAAATCAACTACAA
1 TAAAATCAACTACAA
12026704 TAAAATCAACTACA
1 TAAAATCAACTACA
12026718 CAAAGCTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAAATCAACTACAA
Found at i:12027983 original size:23 final size:23
Alignment explanation
Indices: 12027957--12028007 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
12027947 AAAATTATTA
12027957 AATATTAAATA-TTAAAATAATAT
1 AATATTAAATATTTAAAA-AATAT
12027980 AATA-TAAATATTTAAAAAATAT
1 AATATTAAATATTTAAAAAATAT
12028002 ATATAT
1 A-ATAT
12028008 GTGGACAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AATATTAAATATTTAAAAAATAT
Found at i:12033450 original size:29 final size:30
Alignment explanation
Indices: 12033418--12033476 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
12033408 TTTTTTATAA
*
12033418 TATATTTGC-AAT-TTTTTAAATAATTTTTT
1 TATATTTCCTAATGTTTTTAAAT-ATTTTTT
*
12033447 TATATTTCCTATTGTTTTTAAATATTTTTT
1 TATATTTCCTAATGTTTTTAAATATTTTTT
12033477 GTAATTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 8 0.31
30 9 0.35
31 9 0.35
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.64
Consensus pattern (30 bp):
TATATTTCCTAATGTTTTTAAATATTTTTT
Found at i:12033495 original size:30 final size:31
Alignment explanation
Indices: 12033429--12033496 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 31
12033419 ATATTTGCAA
*
12033429 TTTTTTAAATAATTTTTTTATATTTCCTATT
1 TTTTTTAAATAATTTTTTTATATTTCATATT
*
12033460 GTTTTTAAAT-ATTTTTTGTA-ATTT-ATATAT
1 TTTTTTAAATAATTTTTT-TATATTTCATAT-T
12033490 TTTTTTA
1 TTTTTTA
12033497 GAATTTAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 3 0.09
30 18 0.56
31 11 0.34
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (31 bp):
TTTTTTAAATAATTTTTTTATATTTCATATT
Found at i:12037710 original size:2 final size:2
Alignment explanation
Indices: 12037705--12037733 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12037695 AAAAAAGAAA
12037705 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
12037734 CAGACAGACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12038660 original size:30 final size:30
Alignment explanation
Indices: 12038626--12038687 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
12038616 ACAAATATAG
12038626 ATTGACATAAAGTAAAGGA-TTTCAAA-GTCA
1 ATTGACATAAAGTAAA--ACTTTCAAAGGTCA
12038656 ATTGACATAAAGTAAAACTTTCAAAGGTCA
1 ATTGACATAAAGTAAAACTTTCAAAGGTCA
12038686 AT
1 AT
12038688 GTAACATGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 1 0.03
29 7 0.23
30 22 0.73
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.27
Consensus pattern (30 bp):
ATTGACATAAAGTAAAACTTTCAAAGGTCA
Found at i:12040379 original size:880 final size:863
Alignment explanation
Indices: 12038462--12040623 Score: 2538
Period size: 892 Copynumber: 2.5 Consensus size: 863
12038452 AGAATTTATG
* * * *
12038462 AAAGGAAAAGTGATCGAAACTTTAGAAGGTTATGAGTGATAAAACACATTGAATATTATTATTGG
1 AAAGGAAAAGTGATCGAAACTTTAAAAGGTTATGAGTGACAAAACACATAGAATTTTATTATTGG
* * * * * * *
12038527 AGACTTA-ATTACCTTCTTACGTCACGATTTTTTACAAATATAGAATGGTTGGAGGAGAAAAACG
66 AGACTTAGTTTA-CTTCTTACATCAAGCTTCTAT-C-AATATAGAATGATTGGA-GAGAAAAACG
*
12038591 ACAAATAC-GATTTATAAGATATTTTACAAATATAGATTGACATAAAGTAAA-GGATTTCAAAGT
127 ACAAATACTG-TGTATAAGATATTTTACAAATATAGATTGACATAAAGTAAAGGGATTTCAAAGT
* * * * * *
12038654 CAATTGACATAAAGTAAAACTTTCAAAGGTCAATGTAA-CATGTGTCTCTATTTAATTTGGCATT
191 CAATTGACATAAAGTAAAACTTTCAAAGGTCACTGTAATC-TATGTCTCCATCTAATGTGACATT
* * * ** **
12038718 CAATTATTTAATCTATCATTCCTTTTTTTTTCTTTTATACTGATAAAAAG-GGTCTTGTGCTTCT
255 CAATTATTTAATC-ATCATTCCATTTTTTTTCTTTTATAATGAT-AAATGCAATCTTGTATTTCT
* *
12038782 TTCGGATCAAGGTTTGTCTCCATATATGTCTGCATTATATGGTGATTTTTTTTATCACATTTTCA
318 TTAGGATCAAGGTTTGTCTCCATATATGTCTGCACTATA-GGTGATTTTTTTTATCACATTTTCA
12038847 TAATTATCATACCAAGATAGTTTTGGAACCATTCTTTTGGGGATTAATTATAAAATTAGTCATTA
382 TAATTATCATACCAAGATAGTTTTGGAACCATTCTTTTGGGGATTAATTATAAAATTAGTCATTA
* * *
12038912 AACTATACAACTTTTTTACTTAGATACCTAATAATTTTTTGGGTCAAAAATGATACATAAACTAT
447 AACCATACAACTTTTTTACTTAGACACCTAATAATTTTTGGGGTCAAAAATGATACATAAACTAT
*
12038977 CAATTCTATCCCATTTTACTCAAAAAGTGTACGGCATCCAATAAGATTATGCCTTGCATGTGTTT
512 CAATTCCATCCCATTTTACTCAAAAAGTGTACGGCATCCAATAAGATTATGCCTTGCATGTGTTT
12039042 CTTACTTTTCTTTCGGGTTTTAATTTTTTTACAATTAGATGTTTAGCATTCACACATGCTATTTA
577 CTTAC-TTTCTTTC---------TTTTTTTACAATTAGATGTTTAGCATTCACACATGCTATTTA
*
12039107 TTTTATAATAATTAGAGGGTTAATGCTCCCCCAAAACTCGAATTTTGGTAAATTTTATGAGTGAA
632 TTTTATAATAATTA-AGGGTTAAT-CT----C-AAACTC-----TTGGTAAATTTTATGAGTAAA
* * * * *
12039172 CATATCTTAACCACTAGACCAAACAATGTTGCACCCTCAATATATAATGTTATATTCTAAATTTA
685 CATATCTTAACAACTAGACCAAAAAATATCGCACCCTCAATATATAATATTATATTCTAAATTTA
* *
12039237 TATAATGGAAAAATAACTATATTAATTTAAATATATTTACTTGTTTTCCACTAATAATATGAATA
750 TATAATGGAAAAATAACTATAATAATTTAAATATATTTACTTGTTTTCCAATAATAATATGAATA
* * * * *
12039302 CTTTCAAGGAAACTTACAATCCATAGTATGTTTTCTCATAGAATTCATA
815 CTTTCAAGAAAACTCACAATCCATAATATATTTTCTCATAGAATTCACA
* * * *
12039351 AAAGGAAAAGTGATCAAAACTTTAAAAGGTCATGAGTGACAAAACACATAAAATTTTATTATTAG
1 AAAGGAAAAGTGATCGAAACTTTAAAAGGTTATGAGTGACAAAACACATAGAATTTTATTATTGG
** *
12039416 AGACTTAGTTGCCTTCTTACATCACA-CTTCTATCAATACAGAATGATTGGAGAAGAAAAACGAC
66 AGACTTAGTTTACTTCTTACATCA-AGCTTCTATCAATATAGAATGATTGGAG-AGAAAAACGAC
* * * *
12039480 AAATACTGTGTACAAGATATATATTTTGCATATATAGATCGACATAAAGTAAAGGGATTTCAAAG
129 AAATACTGTGTATAAG----ATATTTTACAAATATAGATTGACATAAAGTAAAGGGATTTCAAAG
* **
12039545 TCAATTGACATAAAGTAAGACTTTCAAATATCACTGTAATCTATGTCTCCATCTAATGTGACATT
190 TCAATTGACATAAAGTAAAACTTTCAAAGGTCACTGTAATCTATGTCTCCATCTAATGTGACATT
12039610 CAATTATTTAATCAGTCATTCCATTTTTTTTCTTTTATAATGATAAATGCAATCTTGTATTTCTT
255 CAATTATTTAATCA-TCATTCCATTTTTTTTCTTTTATAATGATAAATGCAATCTTGTATTTCTT
12039675 TAGGATCAAGGTTTGTCTCCATATATGTCTGCACTATCAGGTGATTTTTTTTATCACATTTTCAT
319 TAGGATCAAGGTTTGTCTCCATATATGTCTGCACTAT-AGGTGATTTTTTTTATCACATTTTCAT
* * * *
12039740 AACTATCATACCAAGGATAGTTTTGGGACCGTTCTTTTGGGGCTTAATTATAAAATTAGTCATTA
383 AATTATCATACCAA-GATAGTTTTGGAACCATTCTTTTGGGGATTAATTATAAAATTAGTCATTA
* * *
12039805 AACCATACAACTTTTTTATTTA-AGCACCTAATAATTTTTGGGGTCAAAAATGGTATC-TAGACT
447 AACCATACAACTTTTTTACTTAGA-CACCTAATAATTTTTGGGGTCAAAAATGATA-CATAAACT
* * * *
12039868 ATCAATTCCGTCTCATTTTA-TCGAAAAAGTGTACTGCATCCAATAAGATTATGTCTTGCATGTG
510 ATCAATTCCATCCCATTTTACTC-AAAAAGTGTACGGCATCCAATAAGATTATGCCTTGCATGTG
*
12039932 TTTCTTGC-TTC-TTC-TTTTTTACAATTAGAT-TATTAGCATTCACACATGCTAGGGTTT-TTT
574 TTTCTTACTTTCTTTCTTTTTTTACAATTAGATGT-TTAGCATTCACACATGCTA---TTTATTT
* ** **** * ** * **
12039992 TTTCCTAATT-TTTTTTTAT-T-TTACTC-TGGTAAATTTTATGAGTAAACATCTCTTATTAACT
635 TATAATAATTAAGGGTTAATCTCAAACTCTTGGTAAATTTTATGAGTAAACATATCTTAACAACT
* *
12040053 AGACCAAAAAATATCGCACTCTCAATGTATAATATTATATTCTAAATTTATATAATGGAAAAATA
700 AGACCAAAAAATATCGCACCCTCAATATATAATATTATATTCTAAATTTATATAATGGAAAAATA
12040118 ACTATAATAATTTAAATATATTTAACTTGTTTTCCATTAATAGTATGAATATAGAGTATACTTTC
765 ACTATAATAATTTAAATATATTT-ACTTGTTTTCC---AATA--AT-AATAT-GA--ATACTTTC
* *
12040183 AAGAAAACTCACAAAAGATCCATAATATATTTTCTCGTAGAATTCGCA
820 AAGAAAACTCAC---A-ATCCATAATATATTTTCTCATAGAATTCACA
* * *
12040231 AAAGGAAAAGTGATTGAAACTTCAAAAGGTTATGAGTGACAAAACACATCGAATTTTATTATTGG
1 AAAGGAAAAGTGATCGAAACTTTAAAAGGTTATGAGTGACAAAACACATAGAATTTTATTATTGG
* * * *
12040296 AGACTTAGTTTATTTTTTACATCAAGCTTCTCTCTATATAGAATGATTGGAGATGAAAAACGACA
66 AGACTTAGTTTACTTCTTACATCAAGCTTCTATCAATATAGAATGATTGGAGA-GAAAAACGACA
** *
12040361 AATACTGTGTATAAGATATTGCACAGATATAGATTGACATAAAGTAAAGGGATTTCAAAGTCAAT
130 AATACTGTGTATAAGATATTTTACAAATATAGATTGACATAAAGTAAAGGGATTTCAAAGTCAAT
* * ** * * *
12040426 TAACACAAAGTAAAACTTT-ATAAGGTCACTGTAATCTATGTCTCCATCCGATGTGAC-GTGAGT
195 TGACATAAAGTAAAACTTTCA-AAGGTCACTGTAATCTATGTCTCCATCTAATGTGACATTCAAT
* * * * * *
12040489 TATTTAATC-T-A-T-CATTTCTTTTT-TTTTATATTAATAAATACTATCTTGTATTTATTTAAG
259 TATTTAATCATCATTCCATTT-TTTTTCTTTTATAATGATAAATGCAATCTTGTATTTCTTTAGG
* * * *
12040549 ATCAAGGTTTGTCTCCATATATGTATGCACTATTGGGTAATTTTGTTTATCACATTTTCATAATT
323 ATCAAGGTTTGTCTCCATATATGTCTGCACTA-TAGGTGATTTTTTTTATCACATTTTCATAATT
12040614 ATCATACCAA
387 ATCATACCAA
12040624 TAGCATACTT
Statistics
Matches: 1105, Mismatches: 128, Indels: 99
0.83 0.10 0.07
Matches are distributed among these distances:
866 111 0.10
867 11 0.01
870 107 0.10
871 7 0.01
872 7 0.01
873 6 0.01
874 2 0.00
875 13 0.01
876 111 0.10
878 1 0.00
879 4 0.00
880 191 0.17
882 10 0.01
883 3 0.00
886 1 0.00
887 38 0.03
888 2 0.00
889 79 0.07
890 4 0.00
891 38 0.03
892 193 0.17
893 165 0.15
894 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (863 bp):
AAAGGAAAAGTGATCGAAACTTTAAAAGGTTATGAGTGACAAAACACATAGAATTTTATTATTGG
AGACTTAGTTTACTTCTTACATCAAGCTTCTATCAATATAGAATGATTGGAGAGAAAAACGACAA
ATACTGTGTATAAGATATTTTACAAATATAGATTGACATAAAGTAAAGGGATTTCAAAGTCAATT
GACATAAAGTAAAACTTTCAAAGGTCACTGTAATCTATGTCTCCATCTAATGTGACATTCAATTA
TTTAATCATCATTCCATTTTTTTTCTTTTATAATGATAAATGCAATCTTGTATTTCTTTAGGATC
AAGGTTTGTCTCCATATATGTCTGCACTATAGGTGATTTTTTTTATCACATTTTCATAATTATCA
TACCAAGATAGTTTTGGAACCATTCTTTTGGGGATTAATTATAAAATTAGTCATTAAACCATACA
ACTTTTTTACTTAGACACCTAATAATTTTTGGGGTCAAAAATGATACATAAACTATCAATTCCAT
CCCATTTTACTCAAAAAGTGTACGGCATCCAATAAGATTATGCCTTGCATGTGTTTCTTACTTTC
TTTCTTTTTTTACAATTAGATGTTTAGCATTCACACATGCTATTTATTTTATAATAATTAAGGGT
TAATCTCAAACTCTTGGTAAATTTTATGAGTAAACATATCTTAACAACTAGACCAAAAAATATCG
CACCCTCAATATATAATATTATATTCTAAATTTATATAATGGAAAAATAACTATAATAATTTAAA
TATATTTACTTGTTTTCCAATAATAATATGAATACTTTCAAGAAAACTCACAATCCATAATATAT
TTTCTCATAGAATTCACA
Found at i:12050571 original size:25 final size:26
Alignment explanation
Indices: 12050518--12050574 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
12050508 ATTAGGGTAA
* * *
12050518 TAATTATGTTTTTTTATAATTATTAT
1 TAATTATATTTTTTTATAAATATGAT
*
12050544 TAATTATATTTTTTTA-AAATATGCT
1 TAATTATATTTTTTTATAAATATGAT
12050569 TAATTA
1 TAATTA
12050575 ATAAAGTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 12 0.44
26 15 0.56
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (26 bp):
TAATTATATTTTTTTATAAATATGAT
Found at i:12054217 original size:17 final size:18
Alignment explanation
Indices: 12054188--12054221 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
12054178 TGTCAGATAT
12054188 TTTTATAAATTTCTTAAA
1 TTTTATAAATTTCTTAAA
12054206 TTTTAT-AATTTCTTAA
1 TTTTATAAATTTCTTAA
12054222 TAATTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTATAAATTTCTTAAA
Found at i:12054626 original size:21 final size:22
Alignment explanation
Indices: 12054596--12054644 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
12054586 AATATCAAAG
12054596 ATATAATTTTAT-ATTAATATTT
1 ATATAATTTTATAATTAA-ATTT
12054618 ATAT-ATTTTATAATTAAATTT
1 ATATAATTTTATAATTAAATTT
*
12054639 AAATAA
1 ATATAA
12054645 AAATATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATAATTTTATAATTAAATTT
Found at i:12057866 original size:25 final size:26
Alignment explanation
Indices: 12057820--12057894 Score: 66
Period size: 26 Copynumber: 2.8 Consensus size: 26
12057810 ATTATAAAAC
* *
12057820 AAAGAAATAAA-AGAAACGGAAATAGA
1 AAAGAAAGAAAGA-AAACGGAAACAGA
12057846 AAAGAAAGAAAGAAAAC-GAAACAGA
1 AAAGAAAGAAAGAAAACGGAAACAGA
*
12057871 AGGGAA-AAAGAAAGAAAAAGGAAA
1 A---AAGAAAGAAAGAAAACGGAAA
12057895 GAAAGAAGGA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
25 8 0.20
26 14 0.34
27 13 0.32
28 6 0.15
ACGTcount: A:0.71, C:0.04, G:0.23, T:0.03
Consensus pattern (26 bp):
AAAGAAAGAAAGAAAACGGAAACAGA
Found at i:12058809 original size:41 final size:39
Alignment explanation
Indices: 12058761--12058867 Score: 128
Period size: 37 Copynumber: 2.7 Consensus size: 39
12058751 TTCGACTTCG
12058761 AGTCGATGAGACACTGGGTGTCAATTTACTACTTCGAATTA
1 AGTCGATGAGACACTGGGTGTCAATTTA-TACTTC-AATTA
* * * *
12058802 ATTCGATGAGGCACTGGGTGCCAA-TT-TACTTCAATTT
1 AGTCGATGAGACACTGGGTGTCAATTTATACTTCAATTA
* *
12058839 AGCCGATGAGACATTGGGTGTCAATTTAT
1 AGTCGATGAGACACTGGGTGTCAATTTAT
12058868 TTGTTCAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
37 23 0.42
38 8 0.15
39 1 0.02
40 2 0.04
41 21 0.38
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (39 bp):
AGTCGATGAGACACTGGGTGTCAATTTATACTTCAATTA
Found at i:12059099 original size:22 final size:20
Alignment explanation
Indices: 12059057--12059107 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 20
12059047 GTGAAAAGCT
12059057 AATTGAATAGCAAATATGAG
1 AATTGAATAGCAAATATGAG
* *
12059077 ATTTGAAGTAGCAAGTGATGAG
1 AATTGAA-TAGCAAAT-ATGAG
12059099 AATTGAATA
1 AATTGAATA
12059108 TGTTATGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 6 0.23
21 9 0.35
22 11 0.42
ACGTcount: A:0.45, C:0.04, G:0.24, T:0.27
Consensus pattern (20 bp):
AATTGAATAGCAAATATGAG
Found at i:12063783 original size:31 final size:31
Alignment explanation
Indices: 12063732--12063794 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
12063722 TATCATGAAT
* *
12063732 TAATTCTTTTCATAATGAAGCTAAGTGCAAA
1 TAATCCTTTTCATAACGAAGCTAAGTGCAAA
*
12063763 TAATCCTTTTTATAACGAAGCTAAGTGCAAA
1 TAATCCTTTTCATAACGAAGCTAAGTGCAAA
12063794 T
1 T
12063795 TTATTATAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (31 bp):
TAATCCTTTTCATAACGAAGCTAAGTGCAAA
Found at i:12064235 original size:35 final size:34
Alignment explanation
Indices: 12064154--12064236 Score: 80
Period size: 35 Copynumber: 2.4 Consensus size: 34
12064144 ATAAATAATA
** **
12064154 ATTTTTATTTAAATTTAAATTATATTAATTAACTT
1 ATTTTTA-TTAAATTTAAATTATAAAAATTAAAAT
12064189 ATTATTT-TTAAATGTTAAATTA-AAAAATATAAAAT
1 ATT-TTTATTAAAT-TTAAATTATAAAAAT-TAAAAT
12064224 ATTTTTATTAAAT
1 ATTTTTATTAAAT
12064237 ATTATCTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
34 13 0.32
35 24 0.60
36 3 0.08
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (34 bp):
ATTTTTATTAAATTTAAATTATAAAAATTAAAAT
Found at i:12071750 original size:18 final size:18
Alignment explanation
Indices: 12071729--12071766 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
12071719 TTATTTTGGT
12071729 TTAATTTTACT-TTTTATA
1 TTAATTTTA-TATTTTATA
12071747 TTAATTTTATATTTTATA
1 TTAATTTTATATTTTATA
12071765 TT
1 TT
12071767 TTTGGGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TTAATTTTATATTTTATA
Found at i:12073903 original size:6 final size:6
Alignment explanation
Indices: 12073894--12073923 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
12073884 CTCTAAAATT
12073894 AAATAA AAATAA AAATAA AAAT-A AAATAA A
1 AAATAA AAATAA AAATAA AAATAA AAATAA A
12073924 CCTGAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:12073913 original size:11 final size:11
Alignment explanation
Indices: 12073888--12073923 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
12073878 ATCTTCCTCT
*
12073888 AAAATTAAATA
1 AAAATAAAATA
12073899 AAAATAAAAATA
1 AAAAT-AAAATA
12073911 AAAATAAAATA
1 AAAATAAAATA
12073922 AA
1 AA
12073924 CCTGAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:12081840 original size:29 final size:27
Alignment explanation
Indices: 12081807--12081874 Score: 64
Period size: 29 Copynumber: 2.3 Consensus size: 27
12081797 GTTGGACCTG
12081807 AAATTTAAAAATTGAAAAATAAAGAAACT
1 AAATTTAAAAA-T-AAAAATAAAGAAACT
* * *
12081836 AAATTCTTAAAAATAAAAATATATAGACT
1 AAA-T-TTAAAAATAAAAATAAAGAAACT
12081865 AAATTCTAAA
1 AAATT-TAAA
12081875 TTTATAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 1 0.03
28 5 0.15
29 18 0.55
30 2 0.06
31 7 0.21
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (27 bp):
AAATTTAAAAATAAAAATAAAGAAACT
Found at i:12081846 original size:31 final size:29
Alignment explanation
Indices: 12081811--12081871 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
12081801 GACCTGAAAT
12081811 TTAAAAATTGAAAAATAAAGAAACTAAATTC
1 TTAAAAA-T-AAAAATAAAGAAACTAAATTC
* * *
12081842 TTAAAAATAAAAATATATAGACTAAATTC
1 TTAAAAATAAAAATAAAGAAACTAAATTC
12081871 T
1 T
12081872 AAATTTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 19 0.70
30 1 0.04
31 7 0.26
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.30
Consensus pattern (29 bp):
TTAAAAATAAAAATAAAGAAACTAAATTC
Found at i:12083630 original size:15 final size:15
Alignment explanation
Indices: 12083607--12083637 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12083597 CTGCGATCAT
*
12083607 CGCTTAATTCGAAGC
1 CGCTAAATTCGAAGC
12083622 CGCTAAATTCGAAGC
1 CGCTAAATTCGAAGC
12083637 C
1 C
12083638 TTCGATTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (15 bp):
CGCTAAATTCGAAGC
Found at i:12086992 original size:29 final size:31
Alignment explanation
Indices: 12086931--12087002 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 31
12086921 AATTATACGT
* * *
12086931 AAACTTTAATTTAATGTGTAATTATATACATG
1 AAACTTTAATTT-AGGTGCAATTATACACATG
*
12086963 -AACTTTAATTT-GGTGCAATTATACATATG
1 AAACTTTAATTTAGGTGCAATTATACACATG
*
12086992 AAACTCTAATT
1 AAACTTTAATT
12087003 GCGGTTCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
29 14 0.41
30 9 0.26
31 11 0.32
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.42
Consensus pattern (31 bp):
AAACTTTAATTTAGGTGCAATTATACACATG
Found at i:12088219 original size:18 final size:19
Alignment explanation
Indices: 12088177--12088219 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
12088167 TAAAATGAGT
12088177 TTGATTGTGTAACGATTGC
1 TTGATTGTGTAACGATTGC
* * *
12088196 TGGATTGT-TAAGGTTTGC
1 TTGATTGTGTAACGATTGC
12088214 TTGATT
1 TTGATT
12088220 TCCTGGAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.19, C:0.07, G:0.28, T:0.47
Consensus pattern (19 bp):
TTGATTGTGTAACGATTGC
Found at i:12090611 original size:82 final size:82
Alignment explanation
Indices: 12090474--12090642 Score: 329
Period size: 82 Copynumber: 2.1 Consensus size: 82
12090464 GACTAGCATG
12090474 CTTGGATTAGGTAAATCCCCATAGTTTAATTTTAAACCGCATTTTTTAGTCATATAATCTTCTTA
1 CTTGGATTAGGTAAATCCCCATAGTTTAATTTTAAACCGCATTTTTTAGTCATATAATCTTCTTA
12090539 TATCTCTACTTAATCTA
66 TATCTCTACTTAATCTA
12090556 CTTGGATTAGGTAAATCCCCATAGTTTAATTTTAAACCGCATTTTTTAGTCATATAATCTTCTTA
1 CTTGGATTAGGTAAATCCCCATAGTTTAATTTTAAACCGCATTTTTTAGTCATATAATCTTCTTA
*
12090621 TATCTCTACTTAATTTA
66 TATCTCTACTTAATCTA
12090638 CTTGG
1 CTTGG
12090643 TGATGCAGCC
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 86 1.00
ACGTcount: A:0.28, C:0.18, G:0.09, T:0.44
Consensus pattern (82 bp):
CTTGGATTAGGTAAATCCCCATAGTTTAATTTTAAACCGCATTTTTTAGTCATATAATCTTCTTA
TATCTCTACTTAATCTA
Found at i:12096647 original size:15 final size:15
Alignment explanation
Indices: 12096627--12096656 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12096617 TCATTGTGAT
12096627 TGGTTTATACAAAGG
1 TGGTTTATACAAAGG
*
12096642 TGGTTTATAGAAAGG
1 TGGTTTATACAAAGG
12096657 AAGTTAACCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.33
Consensus pattern (15 bp):
TGGTTTATACAAAGG
Found at i:12101725 original size:43 final size:43
Alignment explanation
Indices: 12101691--12101821 Score: 181
Period size: 43 Copynumber: 3.0 Consensus size: 43
12101681 ACGCCTCATT
*
12101691 AGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCACTAA
1 AGACCCTGATCTTTAGCGGCGCTTTGACCACAAACGCCACTAA
** * ** *
12101734 AGACTATGATCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAA
1 AGACCCTGATCTTTAGCGGCGCTTTGACCACAAACGCCACTAA
* *
12101777 AGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAA
1 AGACCCTGATCTTTAGCGGCGCTTTGACCACAAACGCCACTAA
12101820 AG
1 AG
12101822 GCCAACACCT
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (43 bp):
AGACCCTGATCTTTAGCGGCGCTTTGACCACAAACGCCACTAA
Found at i:12101834 original size:43 final size:43
Alignment explanation
Indices: 12101699--12101840 Score: 158
Period size: 43 Copynumber: 3.3 Consensus size: 43
12101689 TTAGACCCTG
* * *
12101699 ATCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGACTATG
1 ATCTTTAGCGGCGCTTTGACCACAAACGCCACTAAAGACCATC
* ** * * *
12101742 ATCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTT
1 ATCTTTAGCGGCGCTTTGACCACAAACGCCACTAAAGACCATC
* * *
12101785 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGGCCAAC
1 ATCTTTAGCGGCGCTTTGACCACAAACGCCACTAAAGACCATC
* *
12101828 ACCTTTAGTGGCG
1 ATCTTTAGCGGCG
12101841 TTTTTTTTAA
Statistics
Matches: 80, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 80 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (43 bp):
ATCTTTAGCGGCGCTTTGACCACAAACGCCACTAAAGACCATC
Found at i:12105875 original size:23 final size:23
Alignment explanation
Indices: 12105845--12105889 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
12105835 CAATATTAAT
*
12105845 ATATATAT-GTTTCATAATATATA
1 ATATATATCGTTGCAT-ATATATA
12105868 ATATATATCGTTGCATATATAT
1 ATATATATCGTTGCATATATAT
12105890 CTTTTTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (23 bp):
ATATATATCGTTGCATATATATA
Found at i:12108437 original size:23 final size:23
Alignment explanation
Indices: 12108407--12108451 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
12108397 CAATATTAAT
*
12108407 ATATATAT-GTTTCATAATATATA
1 ATATATATCGTTGCAT-ATATATA
12108430 ATATATATCGTTGCATATATAT
1 ATATATATCGTTGCATATATAT
12108452 CTTTTTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (23 bp):
ATATATATCGTTGCATATATATA
Found at i:12109871 original size:14 final size:14
Alignment explanation
Indices: 12109852--12109878 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12109842 CGCTTAATTC
12109852 GAAGAAATTTGGAA
1 GAAGAAATTTGGAA
12109866 GAAGAAATTTGGA
1 GAAGAAATTTGGA
12109879 GGAATCGCTT
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:0.48, C:0.00, G:0.30, T:0.22
Consensus pattern (14 bp):
GAAGAAATTTGGAA
Found at i:12112019 original size:15 final size:16
Alignment explanation
Indices: 12112001--12112036 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
12111991 TTTTAGGTAA
12112001 TTTAT-TTTTTCCTTC
1 TTTATATTTTTCCTTC
12112016 TTTATAATTTTTCCTTC
1 TTTAT-ATTTTTCCTTC
12112033 TTTA
1 TTTA
12112037 ATGTTTGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
17 14 0.74
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTATATTTTTCCTTC
Found at i:12114585 original size:50 final size:50
Alignment explanation
Indices: 12114483--12114749 Score: 230
Period size: 50 Copynumber: 5.4 Consensus size: 50
12114473 GGGAATAAGA
* **
12114483 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCGTCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTT-G-G-CACCGAG---ATGAGAGG
* *
12114539 TCTCATGTAAGACCATGTCTGGGACATGGCGCTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
* * * * *
12114589 TCTCATATAAGACCATGTCTGGGACAAGGTGTTGG---C---AT-CGA--
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
*
12114630 -CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
* ** * * * **
12114679 TCCCACGTAAGACCATGTCTGGGACATGGTATGGGCACCGATATAAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
*
12114729 TCCCATGTAAGACCATATCTG
1 TCCCATGTAAGACCATGTCTG
12114750 AGATATGACA
Statistics
Matches: 175, Mismatches: 26, Indels: 26
0.77 0.11 0.11
Matches are distributed among these distances:
40 30 0.17
43 3 0.02
44 2 0.01
46 2 0.01
47 3 0.02
50 98 0.56
53 5 0.03
54 1 0.01
55 1 0.01
56 30 0.17
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
Found at i:12114736 original size:90 final size:90
Alignment explanation
Indices: 12114545--12114719 Score: 251
Period size: 90 Copynumber: 1.9 Consensus size: 90
12114535 GAGGTCTCAT
* * *
12114545 GTAAGACCATGTCTGGGACATGGCGCTGGCACCGAGATGAGAGGTCTCATATAAGACCATGTCTG
1 GTAAGACCATGTCTGGGACATGGCGCTGGCACCAAGATGAGAGGTCCCACATAAGACCATGTCTG
* * * * *
12114610 GGACAAGGTGTTGGCATCGACCCAT
66 GGACAAGGTATGGGCACCGACACAA
* *
12114635 GTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCACGTAAGACCATGTCTG
1 GTAAGACCATGTCTGGGACATGGCGCTGGCACCAAGATGAGAGGTCCCACATAAGACCATGTCTG
*
12114700 GGACATGGTATGGGCACCGA
66 GGACAAGGTATGGGCACCGA
12114720 TATAAGAACT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 76 1.00
ACGTcount: A:0.26, C:0.22, G:0.32, T:0.20
Consensus pattern (90 bp):
GTAAGACCATGTCTGGGACATGGCGCTGGCACCAAGATGAGAGGTCCCACATAAGACCATGTCTG
GGACAAGGTATGGGCACCGACACAA
Found at i:12114742 original size:140 final size:142
Alignment explanation
Indices: 12114484--12114749 Score: 340
Period size: 140 Copynumber: 1.9 Consensus size: 142
12114474 GGAATAAGAT
** * *
12114484 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCGTCATTGAGATTATGAGAGGTCTCATGTAA
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-T-AG--TATGAGAGGTCCCACGTAA
* * ** * *
12114549 GACCATGTCTGGGACATGGCGCTGGCACCGAGATGAGAGGTCTCATATAAGACCATGTCTGGGAC
62 GACCATGTCTGGGACATGGCGATGGCACCGAGATAAGAACTCCCATATAAGACCATATCTGGGAC
12114614 AAGGTGTTGGCATCGA
127 AAGGTGTTGGCATCGA
*
12114630 CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCA-AG-ATGAGAGGTCCCACGTAAGACC
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGTATGAGAGGTCCCACGTAAGACC
* * *
12114693 ATGTCTGGGACATGG-TATGGGCACCGATATAAGAACTCCCATGTAAGACCATATCTG
66 ATGTCTGGGACATGGCGAT-GGCACCGAGATAAGAACTCCCATATAAGACCATATCTG
12114750 AGATATGACA
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
139 1 0.01
140 66 0.63
143 2 0.02
146 36 0.34
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.23
Consensus pattern (142 bp):
CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGTATGAGAGGTCCCACGTAAGACC
ATGTCTGGGACATGGCGATGGCACCGAGATAAGAACTCCCATATAAGACCATATCTGGGACAAGG
TGTTGGCATCGA
Found at i:12115031 original size:12 final size:12
Alignment explanation
Indices: 12115014--12115052 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
12115004 ATGAGTTATT
12115014 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
12115026 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
12115038 TAAGTGAGTAAG
1 TAAGTAAGCAAG
12115050 TAA
1 TAA
12115053 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:12117846 original size:21 final size:21
Alignment explanation
Indices: 12117805--12117847 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
12117795 AATAAAGTAG
*
12117805 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
12117826 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
12117847 A
1 A
12117848 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:12117926 original size:58 final size:58
Alignment explanation
Indices: 12117830--12117994 Score: 178
Period size: 58 Copynumber: 2.9 Consensus size: 58
12117820 TATAGTATTA
* * * *
12117830 TATATTATGATTTTAGTAAATTCATA--TAATAATAATTATATTAAGAATTTTATTAAAT
1 TATATTATTATTTTATTAAATT-ATATTTAATAATAATTATATTAA-AATTTGACTAAAT
* * * *
12117888 TATA-TATTATTTTATTAAATTATATTTAATAATAATTATGTTTAAATATGGCTAAAT
1 TATATTATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATTTGACTAAAT
*
12117945 TA-ATTATTATTTTTATTAAATTATTTTTAATAATAATCT-TATTAAAATTT
1 TATATTATTA-TTTTATTAAATTATATTTAATAATAAT-TATATTAAAATTT
12117995 AATAACACTA
Statistics
Matches: 90, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
56 4 0.04
57 31 0.34
58 54 0.60
59 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (58 bp):
TATATTATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATTTGACTAAAT
Found at i:12118193 original size:16 final size:16
Alignment explanation
Indices: 12118174--12118219 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
12118164 AATTACAATT
12118174 CTATTCCATTACAGCC
1 CTATTCCATTACAGCC
*
12118190 CTATTCAATTACAGCC
1 CTATTCCATTACAGCC
*
12118206 TTATTCCATTACAG
1 CTATTCCATTACAG
12118220 TAAACCAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (16 bp):
CTATTCCATTACAGCC
Found at i:12126293 original size:9 final size:9
Alignment explanation
Indices: 12126279--12126306 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
12126269 AACCCAGCTT
12126279 TCTTTCACC
1 TCTTTCACC
12126288 TCTTTCACC
1 TCTTTCACC
12126297 TCTTTCACC
1 TCTTTCACC
12126306 T
1 T
12126307 AAAATAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.43, G:0.00, T:0.46
Consensus pattern (9 bp):
TCTTTCACC
Found at i:12128080 original size:7 final size:7
Alignment explanation
Indices: 12128068--12128097 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
12128058 GTTGTAATTA
12128068 ATTTTAT
1 ATTTTAT
12128075 ATTTTAT
1 ATTTTAT
12128082 ATTTTAT
1 ATTTTAT
12128089 ATTTTAT
1 ATTTTAT
12128096 AT
1 AT
12128098 ATATGGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTTTAT
Found at i:12134237 original size:32 final size:32
Alignment explanation
Indices: 12134193--12134257 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
12134183 TAGTAGTAAC
* *
12134193 ATAATAATAAAATGGTAACAAAACAGTAAAAA
1 ATAATAAGAAAATAGTAACAAAACAGTAAAAA
12134225 ATAATAAGAAAATAGTAACAAAACAGTAAAAA
1 ATAATAAGAAAATAGTAACAAAACAGTAAAAA
12134257 A
1 A
12134258 ATAACAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.68, C:0.06, G:0.09, T:0.17
Consensus pattern (32 bp):
ATAATAAGAAAATAGTAACAAAACAGTAAAAA
Found at i:12134257 original size:21 final size:21
Alignment explanation
Indices: 12134207--12134264 Score: 50
Period size: 21 Copynumber: 2.8 Consensus size: 21
12134197 TAATAAAATG
*
12134207 GTAACAAAACAGTAA-AAAATA
1 GTAACAAAA-AGTAACAAAACA
* *
12134228 ATAAGAAAATAGTAACAAAACA
1 GTAACAAAA-AGTAACAAAACA
12134250 GTAA-AAAAA-TAACAA
1 GTAACAAAAAGTAACAA
12134265 TTTTTTTGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 6 0.19
20 1 0.03
21 16 0.52
22 8 0.26
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.14
Consensus pattern (21 bp):
GTAACAAAAAGTAACAAAACA
Found at i:12135096 original size:23 final size:24
Alignment explanation
Indices: 12135059--12135113 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
12135049 AAAAAATATA
*
12135059 TAAAATCAT-TAAATAT-TAATTT
1 TAAAATAATATAAATATATAATTT
*
12135081 TAAAATAATATAAATATATATTTT
1 TAAAATAATATAAATATATAATTT
12135105 TAAAA-AATA
1 TAAAATAATA
12135114 ATACGGGCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 8 0.28
23 11 0.38
24 10 0.34
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
TAAAATAATATAAATATATAATTT
Found at i:12146499 original size:24 final size:24
Alignment explanation
Indices: 12146454--12146499 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
12146444 ATATAATGTG
* * **
12146454 AGTGTCTAAACTGAAATTTTTTTC
1 AGTGCCTAAAATGAAAAATTTTTC
12146478 AGTGCCTAAAATGAAAAATTTT
1 AGTGCCTAAAATGAAAAATTTT
12146500 AAATGTTGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (24 bp):
AGTGCCTAAAATGAAAAATTTTTC
Found at i:12148073 original size:3 final size:3
Alignment explanation
Indices: 12148065--12148095 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
12148055 AGCCTTGCCC
12148065 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
12148096 ATAGTGATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:12166268 original size:21 final size:21
Alignment explanation
Indices: 12166242--12166282 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12166232 AGACGAGCAA
* *
12166242 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
12166263 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
12166283 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:12168221 original size:16 final size:16
Alignment explanation
Indices: 12168188--12168221 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12168178 GGAGATTGTT
* *
12168188 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
12168204 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
12168220 AA
1 AA
12168222 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:12169440 original size:21 final size:21
Alignment explanation
Indices: 12169416--12169468 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
12169406 AGCGGTGGCG
*
12169416 GTGAGATTAGTTACTGTAACA
1 GTGAGATTAGATACTGTAACA
* *
12169437 GTGAGATTTGATACTGTAGCA
1 GTGAGATTAGATACTGTAACA
12169458 GTGAGATTAGA
1 GTGAGATTAGA
12169469 AACAATGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAACA
Found at i:12176210 original size:18 final size:18
Alignment explanation
Indices: 12176178--12176213 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
12176168 CTTCTTACAT
12176178 ATATTAAAATCTATAAAA
1 ATATTAAAATCTATAAAA
12176196 ATATTGAAAAT-TATAAAA
1 ATATT-AAAATCTATAAAA
12176214 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATTAAAATCTATAAAA
Found at i:12177154 original size:41 final size:40
Alignment explanation
Indices: 12177097--12177257 Score: 162
Period size: 41 Copynumber: 3.9 Consensus size: 40
12177087 TAAACAGATT
* * *
12177097 CACCGGCATTTTGCCTGCTAGGCTTAAAGCCTGATTCAGTA
1 CACCGGCATTTAGCCTGCTAGACTTAAAGTCTGATT-AGTA
* * * *
12177138 CACCGGCACTTAGCCTGCTAGACATATAGTCTGA-AATGTA
1 CACCGGCATTTAGCCTGCTAGACTTAAAGTCTGATTA-GTA
* *
12177178 TCACCGGCATTTAGCCTGCTAGACTTAAAGTCTGAATTACTT
1 -CACCGGCATTTAGCCTGCTAGACTTAAAGTCTG-ATTAGTA
* * *
12177220 CACCGGCATTAAGCCTGCTAGACGTAACGTCTGTATTA
1 CACCGGCATTTAGCCTGCTAGACTTAAAGTCTG-ATTA
12177258 CATTCAATCA
Statistics
Matches: 99, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 1 0.01
40 3 0.03
41 92 0.93
42 2 0.02
43 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (40 bp):
CACCGGCATTTAGCCTGCTAGACTTAAAGTCTGATTAGTA
Found at i:12179689 original size:29 final size:30
Alignment explanation
Indices: 12179631--12179707 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 30
12179621 GAACGGGATC
*
12179631 AAATCAAAATTTCATGTATAAAATTACACA-
1 AAATC-AAAGTTCATGTATAAAATTACACAT
* * *
12179661 AAATCAAAGTTCATGTATATAGTTGCACATT
1 AAATCAAAGTTCATGTATAAAATTACACA-T
* *
12179692 AAACCATAGTTCATGT
1 AAATCAAAGTTCATGT
12179708 GTAATTTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 20 0.51
30 5 0.13
31 14 0.36
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.32
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATTACACAT
Found at i:12180478 original size:21 final size:22
Alignment explanation
Indices: 12180454--12180494 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
12180444 TTATTATTAA
12180454 TTTCAAACAATG-TATTTTATT
1 TTTCAAACAATGTTATTTTATT
**
12180475 TTTCATTCAATGTTATTTTA
1 TTTCAAACAATGTTATTTTA
12180495 CAAATGCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTCAAACAATGTTATTTTATT
Found at i:12181512 original size:18 final size:18
Alignment explanation
Indices: 12181480--12181515 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
12181470 GTTCTTACAT
12181480 ATATTAAAATCTATAAAA
1 ATATTAAAATCTATAAAA
12181498 ATATTGAAAAT-TATAAAA
1 ATATT-AAAATCTATAAAA
12181516 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATTAAAATCTATAAAA
Found at i:12186136 original size:41 final size:40
Alignment explanation
Indices: 12186079--12186239 Score: 155
Period size: 41 Copynumber: 3.9 Consensus size: 40
12186069 TAAACAGATT
** * *
12186079 CACCGGCATTTTGCCTGCTAGGCTTAAAGCCTGATTCAGTA
1 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTGATT-AGTA
* * *
12186120 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGA-AATGTA
1 CACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGATTA-GTA
* *
12186160 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTACTT
1 -CACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-ATTAGTA
* *
12186202 CACCGGCATTAAGCCTGCTAGACGTAACGTCTGTATTA
1 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-ATTA
12186240 TATTCAATCA
Statistics
Matches: 100, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
39 1 0.01
40 5 0.05
41 89 0.89
42 4 0.04
43 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACTTAAAGTCTGATTAGTA
Found at i:12189776 original size:29 final size:30
Alignment explanation
Indices: 12189718--12189794 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 30
12189708 GAACGGGATC
*
12189718 AAATCAAAATTTCATGTATAAAATTACACA-
1 AAATC-AAAGTTCATGTATAAAATTACACAT
* * *
12189748 AAATCAAAGTTCATGTATATAGTTGCACATT
1 AAATCAAAGTTCATGTATAAAATTACACA-T
* *
12189779 AAACCATAGTTCATGT
1 AAATCAAAGTTCATGT
12189795 GTAATTTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 20 0.51
30 5 0.13
31 14 0.36
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.32
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATTACACAT
Found at i:12190197 original size:41 final size:41
Alignment explanation
Indices: 12190151--12190231 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
12190141 ACGTATTATA
12190151 CTCCTATTTATGGGTTGGGAATGGACTATGTATAATTCTAC
1 CTCCTATTTATGGGTTGGGAATGGACTATGTATAATTCTAC
*
12190192 CTCCTATTTATGGGTTGGGAATGGACTATGTGTAATTCTA
1 CTCCTATTTATGGGTTGGGAATGGACTATGTATAATTCTA
12190232 AGTATTATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.40
Consensus pattern (41 bp):
CTCCTATTTATGGGTTGGGAATGGACTATGTATAATTCTAC
Found at i:12197511 original size:18 final size:18
Alignment explanation
Indices: 12197485--12197519 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12197475 GTATGTTTAT
*
12197485 ATATTTAATTTGTAATAA
1 ATATATAATTTGTAATAA
12197503 ATATATAATTTGTAATA
1 ATATATAATTTGTAATA
12197520 CATAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
ATATATAATTTGTAATAA
Found at i:12217230 original size:22 final size:21
Alignment explanation
Indices: 12217191--12217238 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
12217181 GTAAACGATT
12217191 TATTTTGATTTAACTCTAGATA
1 TATTTTGATTTAACTCTA-ATA
* *
12217213 TATTTTGATATTCA-TCTACTA
1 TATTTTGAT-TTAACTCTAATA
12217234 TATTT
1 TATTT
12217239 CATAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 7 0.30
22 13 0.57
23 3 0.13
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.54
Consensus pattern (21 bp):
TATTTTGATTTAACTCTAATA
Found at i:12240623 original size:19 final size:22
Alignment explanation
Indices: 12240577--12240624 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 22
12240567 AATTAGTTTC
12240577 AAATCATATGTTTTATTATTTAT
1 AAAT-ATATGTTTTATTATTTAT
12240600 AAATATAT-TTTTA-TATTT-T
1 AAATATATGTTTTATTATTTAT
12240619 AAATAT
1 AAATAT
12240625 GTAGTTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 5 0.20
21 5 0.20
22 4 0.16
23 4 0.16
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
AAATATATGTTTTATTATTTAT
Found at i:12240632 original size:21 final size:21
Alignment explanation
Indices: 12240582--12240624 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
12240572 GTTTCAAATC
12240582 ATAT-GTTTTATTATTTATAA
1 ATATAGTTTTATTATTTATAA
*
12240602 ATATATTTTTA-TATTT-TAA
1 ATATAGTTTTATTATTTATAA
12240621 ATAT
1 ATAT
12240625 GTAGTTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 9 0.43
21 5 0.24
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATATAGTTTTATTATTTATAA
Found at i:12240925 original size:11 final size:11
Alignment explanation
Indices: 12240905--12240998 Score: 84
Period size: 11 Copynumber: 9.4 Consensus size: 11
12240895 ACAAAAATTA
12240905 AAAAAGTATTTT
1 AAAAA-TATTTT
12240917 AAAAATATTTT
1 AAAAATATTTT
12240928 --AAA-A--TT
1 AAAAATATTTT
12240934 AAAAATATTTT
1 AAAAATATTTT
12240945 AAAAATATTTT
1 AAAAATATTTT
12240956 --AAA-A--TT
1 AAAAATATTTT
12240962 AAAAA-ATTTT
1 AAAAATATTTT
*
12240972 AAAAAAAGTTTT
1 AAAAATA-TTTT
12240984 AAAAATATTTT
1 AAAAATATTTT
12240995 AAAA
1 AAAA
12240999 TAAATAAATA
Statistics
Matches: 70, Mismatches: 1, Indels: 23
0.74 0.01 0.24
Matches are distributed among these distances:
6 4 0.06
8 9 0.13
9 7 0.10
10 7 0.10
11 28 0.40
12 15 0.21
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:12240945 original size:28 final size:28
Alignment explanation
Indices: 12240898--12240987 Score: 137
Period size: 28 Copynumber: 3.1 Consensus size: 28
12240888 AATTAAAACA
12240898 AAAATTAAAAAAGTATTTTAAAAATATTTT
1 AAAATT-AAAAA-TATTTTAAAAATATTTT
12240928 AAAATTAAAAATATTTTAAAAATATTTT
1 AAAATTAAAAATATTTTAAAAATATTTT
*
12240956 AAAATTAAAAA-ATTTTAAAAAAAGTTTT
1 AAAATTAAAAATATTTTAAAAATA-TTTT
12240984 AAAA
1 AAAA
12240988 ATATTTTAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
27 11 0.19
28 36 0.62
29 5 0.09
30 6 0.10
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (28 bp):
AAAATTAAAAATATTTTAAAAATATTTT
Found at i:12240976 original size:17 final size:17
Alignment explanation
Indices: 12240915--12240975 Score: 73
Period size: 17 Copynumber: 4.0 Consensus size: 17
12240905 AAAAAGTATT
12240915 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
12240932 TTAAAAATA--TT----
1 TTAAAAATATTTTAAAA
12240943 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
12240960 TTAAAAA-ATTTTAAAA
1 TTAAAAATATTTTAAAA
12240976 AAAGTTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
11 9 0.24
13 2 0.05
15 2 0.05
16 9 0.24
17 16 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:12243260 original size:20 final size:21
Alignment explanation
Indices: 12243215--12243261 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
12243205 GCTTTCGGCA
12243215 GGGGTTATGGTTGCTCCAGCG
1 GGGGTTATGGTTGCTCCAGCG
*
12243236 GGGGTTATGGTTGCTCC-GGG
1 GGGGTTATGGTTGCTCCAGCG
12243256 GGGGTT
1 GGGGTT
12243262 GTGGGTGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.06, C:0.15, G:0.49, T:0.30
Consensus pattern (21 bp):
GGGGTTATGGTTGCTCCAGCG
Found at i:12243529 original size:18 final size:18
Alignment explanation
Indices: 12243503--12243545 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
12243493 GACTGGGAAA
* *
12243503 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
12243521 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
12243539 AGGATAC
1 AGGATAC
12243546 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:12244999 original size:25 final size:23
Alignment explanation
Indices: 12244932--12245000 Score: 59
Period size: 25 Copynumber: 2.9 Consensus size: 23
12244922 AAAATTTACA
*
12244932 ACAATAATATAAAATAATGATATGT
1 ACAAAAATAT-AAATAAT-ATATGT
* *
12244957 ACAAATATATATAT-ATATATGT
1 ACAAAAATATAAATAATATATGT
*
12244979 ACATAAAATATACACTAATATA
1 ACA-AAAATATA-AATAATATA
12245001 ATAATAGTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
22 9 0.26
23 9 0.26
24 4 0.11
25 13 0.37
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
ACAAAAATATAAATAATATATGT
Found at i:12245684 original size:29 final size:29
Alignment explanation
Indices: 12245651--12245728 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
12245641 GTTTCTTGGC
12245651 TTTTTTTGGGGGGTTAGG-TTTTTCTTTT
1 TTTTTTTGGGGGGTTAGGTTTTTTCTTTT
***
12245679 TCTTTTTTTTTGGGTTAGGTTTTTTC-TTT
1 T-TTTTTTGGGGGGTTAGGTTTTTTCTTTT
12245708 TTTTTTT---GGGTTAGGTTTTTT
1 TTTTTTTGGGGGGTTAGGTTTTTT
12245729 TTTGGGAGGG
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
25 14 0.31
28 7 0.16
29 18 0.40
30 6 0.13
ACGTcount: A:0.04, C:0.04, G:0.23, T:0.69
Consensus pattern (29 bp):
TTTTTTTGGGGGGTTAGGTTTTTTCTTTT
Found at i:12245686 original size:30 final size:30
Alignment explanation
Indices: 12245650--12245728 Score: 89
Period size: 25 Copynumber: 2.8 Consensus size: 30
12245640 GGTTTCTTGG
12245650 CTTTTTTTGGGGGGTTAGG-TTTTTCTTTTT
1 CTTTTTTT-GGGGGTTAGGTTTTTTCTTTTT
**
12245680 CTTTTTTTTTGGGTTAGGTTTTTTC--TTT
1 CTTTTTTTGGGGGTTAGGTTTTTTCTTTTT
12245708 -TTTTTTT--GGGTTAGGTTTTTT
1 CTTTTTTTGGGGGTTAGGTTTTTT
12245729 TTTGGGAGGG
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
25 14 0.30
27 7 0.15
28 3 0.07
29 8 0.17
30 14 0.30
ACGTcount: A:0.04, C:0.05, G:0.23, T:0.68
Consensus pattern (30 bp):
CTTTTTTTGGGGGTTAGGTTTTTTCTTTTT
Found at i:12245703 original size:25 final size:25
Alignment explanation
Indices: 12245675--12245728 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
12245665 TAGGTTTTTC
12245675 TTTTTC-TTTTTTTTTGGGTTAGGT
1 TTTTTCTTTTTTTTTTGGGTTAGGT
12245699 TTTTTCTTTTTTTTTTGGGTTAGGT
1 TTTTTCTTTTTTTTTTGGGTTAGGT
12245724 TTTTT
1 TTTTT
12245729 TTTGGGAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 6 0.21
25 23 0.79
ACGTcount: A:0.04, C:0.04, G:0.19, T:0.74
Consensus pattern (25 bp):
TTTTTCTTTTTTTTTTGGGTTAGGT
Found at i:12246592 original size:30 final size:30
Alignment explanation
Indices: 12246556--12246616 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
12246546 TTTGAAAAAT
12246556 AGAAATT-AAAAGACTCAACTCAACTCTCGC
1 AGAAATTAAAAAG-CTCAACTCAACTCTCGC
*
12246586 AGAAATTAAAAAGCTCAACTCACCTCTCGC
1 AGAAATTAAAAAGCTCAACTCAACTCTCGC
12246616 A
1 A
12246617 ATATGAGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.20
Consensus pattern (30 bp):
AGAAATTAAAAAGCTCAACTCAACTCTCGC
Found at i:12246657 original size:84 final size:84
Alignment explanation
Indices: 12246516--12246717 Score: 395
Period size: 84 Copynumber: 2.4 Consensus size: 84
12246506 GACTGGAGGT
12246516 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGACTCAACTCAACT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGACTCAACTCAACT
12246581 CTCGCAGAAATTAAAAAGC
66 CTCGCAGAAATTAAAAAGC
12246600 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGACTCAACTCAACT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGACTCAACTCAACT
12246665 CTCGCAGAAATTAAAAAGC
66 CTCGCAGAAATTAAAAAGC
12246684 TCAACTCACCTCTCGCAATATGAGTTGAATTTTT
1 TCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
12246718 TTGAAAAAAA
Statistics
Matches: 117, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 111 0.95
85 6 0.05
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (84 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGACTCAACTCAACT
CTCGCAGAAATTAAAAAGC
Found at i:12246676 original size:30 final size:30
Alignment explanation
Indices: 12246640--12246700 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
12246630 TTTGAAAAAT
12246640 AGAAATT-AAAAGACTCAACTCAACTCTCGC
1 AGAAATTAAAAAG-CTCAACTCAACTCTCGC
*
12246670 AGAAATTAAAAAGCTCAACTCACCTCTCGC
1 AGAAATTAAAAAGCTCAACTCAACTCTCGC
12246700 A
1 A
12246701 ATATGAGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.20
Consensus pattern (30 bp):
AGAAATTAAAAAGCTCAACTCAACTCTCGC
Found at i:12246939 original size:79 final size:77
Alignment explanation
Indices: 12246849--12247535 Score: 461
Period size: 77 Copynumber: 8.8 Consensus size: 77
12246839 ATGTGACCCG
* * * * * * *
12246849 AGGCTCAACTCACATCTCGCAATGTAAGTTAATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG--AAAATAGCT
** * * *
12246914 CAATGTGTGATCTA
64 CAGCGCGTGAGCCA
*
12246928 AAGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
1 AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
12246993 GCGCGTGAGCCA
66 GCGCGTGAGCCA
*
12247005 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
1 AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
12247070 GCGCGTGAGCCA
66 GCGCGTGAGCCA
* * *
12247082 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGGCAGAAATTGAAAAACAG
1 AGGCTCAACTCACATCTCGCAATATGAGTTGA---TTTTTTTGAAAGACAGAAATTG-AAAATAG
* * * * *
12247147 AAATTGAAAATAC-CTTG-G-CG
62 ---CT---CA-GCGCGTGAGCCA
* * * * * *
12247167 TGTGACCTGAGGCTCA-ACTCGCCTCTCACAATACGAGTTGATTTTTTTGACA-ACAGAAATTGA
1 AG-G--CTCA-ACTCACA-T-----CTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGA
* * *
12247230 AATTACCTCA--GCGTG-TCCTA
56 AAATAGCTCAGCGCGTGAGCC-A
* * *
12247250 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
** **
12247315 GCATGTTTTG---
66 GCGCG-TGAGCCA
** * * *
12247325 AGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTTTTTGAAAAACAGAAATTGAAAATACCT
1 AGGCTCAACTCACATCTCGCAATATGAGTTGA--TTTTTTTGAAAGACAGAAATTGAAAATAGCT
* *
12247390 CGGCGTGTGA-CCTA
64 CAGCGCGTGAGCC-A
* ** * * * *
12247404 AGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTTGACA-ACAGAAATTGAAATTACCTCA
1 AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
** * *
12247468 --GTATG-TCCTG
66 GCGCGTGAGCC-A
* ** *
12247478 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTTTGAAAGGCAGAAATTGAAAA
1 AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAA
12247536 ACGGAAATTG
Statistics
Matches: 494, Mismatches: 76, Indels: 80
0.76 0.12 0.12
Matches are distributed among these distances:
74 69 0.14
75 61 0.12
76 20 0.04
77 171 0.35
78 1 0.00
79 78 0.16
80 24 0.05
81 9 0.02
82 2 0.00
83 2 0.00
84 1 0.00
85 2 0.00
86 3 0.01
87 4 0.01
88 4 0.01
89 9 0.02
90 9 0.02
91 10 0.02
94 15 0.03
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (77 bp):
AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
GCGCGTGAGCCA
Found at i:12247141 original size:14 final size:14
Alignment explanation
Indices: 12247130--12247156 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12247120 TTTTGAAAGG
12247130 CAGAAATTGAAAAA
1 CAGAAATTGAAAAA
12247144 CAGAAATTGAAAA
1 CAGAAATTGAAAA
12247157 TACCTTGGCG
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:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (14 bp):
CAGAAATTGAAAAA
Found at i:12247205 original size:94 final size:94
Alignment explanation
Indices: 12247042--12247214 Score: 249
Period size: 94 Copynumber: 1.8 Consensus size: 94
12247032 GTTGATTTTT
* * * *
12247042 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
12247107 GAGTTGATTTTTTTTTTGAAAGGCAGAAA
66 GAGTTGATTTTTTTTTTGAAAGGCAGAAA
** * * *
12247136 TTGAAAAACAGAAATTGAAAATACCTTGGCGTGTGA-CCTGAGGCTCAACTCGCCTCTCACAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCACAATA
12247200 CGAGTTGATTTTTTT
65 CGAGTTGATTTTTTT
12247215 GACAACAGAA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
93 2 0.03
94 67 0.97
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (94 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
GAGTTGATTTTTTTTTTGAAAGGCAGAAA
Found at i:12247331 original size:75 final size:75
Alignment explanation
Indices: 12247136--12247535 Score: 489
Period size: 74 Copynumber: 5.3 Consensus size: 75
12247126 AAGGCAGAAA
** * * *
12247136 TTGAAAAACAGAAATTGAAAATACCTTGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATAT
12247201 GAGTTGATTTTT
64 GAGTTGATTTTT
* * *
12247213 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
12247277 GTTGATTTTT
66 GTTGATTTTT
* ** ** *
12247287 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTTTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
12247352 GTTGATTTTTTT
66 GTTGA--TTTTT
* * * * *
12247364 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCGCTCGCAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATAT
12247429 GAGTTGATTTTT
64 GAGTTGATTTTT
* * **
12247441 TTG-ACAACAGAAATTGAAATTACCTCAGTATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
**
12247505 GTCAATTTTT
66 GTTGATTTTT
**
12247515 TTGAAAGGCAGAAATTGAAAA
1 TTGAAAAACAGAAATTGAAAA
12247536 ACGGAAATTG
Statistics
Matches: 274, Mismatches: 43, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
74 78 0.28
75 70 0.26
76 51 0.19
77 48 0.18
79 27 0.10
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Done.