Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007884.1 Hibiscus syriacus cultivar Beakdansim tig00110264_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: 2814991
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 13
Found at i:870672 original size:35 final size:36
Alignment explanation
Indices: 870625--870707 Score: 100
Period size: 35 Copynumber: 2.3 Consensus size: 36
870615 ACAAAATTCA
**
870625 TTTCAAGAGAAAC-GATCTCAAAGAT-GTTTATTTTG
1 TTTCAAGAGAAACAGAT-TCAAAGATGGTAAATTTTG
*
870660 TTTCAAGGGAAACAGATTCAAAGATGGTAAATTTTG
1 TTTCAAGAGAAACAGATTCAAAGATGGTAAATTTTG
870696 TTTCCAA-AGAAA
1 TTT-CAAGAGAAA
870708 TAAACTCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 20 0.49
36 18 0.44
37 3 0.07
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.33
Consensus pattern (36 bp):
TTTCAAGAGAAACAGATTCAAAGATGGTAAATTTTG
Found at i:870830 original size:26 final size:28
Alignment explanation
Indices: 870750--870816 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
870740 GAGAGACACA
* *
870750 ATTTTGTTTCAAAGGAAACAAACTCAAAG
1 ATTTT-TTTCAAAAGAAACAATCTCAAAG
870779 ATTTTTTTCAAAAGAAACAATCTCAAAG
1 ATTTTTTTCAAAAGAAACAATCTCAAAG
870807 ATTTTTTTCA
1 ATTTTTTTCA
870817 CAAAATTGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 31 0.86
29 5 0.14
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (28 bp):
ATTTTTTTCAAAAGAAACAATCTCAAAG
Found at i:870876 original size:91 final size:88
Alignment explanation
Indices: 870690--870887 Score: 254
Period size: 88 Copynumber: 2.2 Consensus size: 88
870680 AAGATGGTAA
* * * * *
870690 ATTTTGTTTCCAAAGAAATAAACTCAAAGATTTTTCTCAAAGACTGTCTCGAGAGACACAATTTT
1 ATTTT-TTTCAAAAGAAACAAACTCAAAGATTTTTCTCAAAAACTGTCTCGAGAGACAAAACTTT
870755 GTTTCAAAGGAAACAAACTCAAAG
65 GTTTCAAAGGAAACAAACTCAAAG
* * *
870779 ATTTTTTTCAAAAGAAACAATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACT
1 ATTTTTTTCAAAAGAAACAAACTCAAAGATTTTTCTCA-AAAACTGTCTC--GAGAGACAAAACT
*
870844 TTGTTTCAAAGTAAA-ATAGACTCAAAG
63 TTGTTTCAAAGGAAACA-A-ACTCAAAG
870871 ATTTTTTTCAAAAGAAA
1 ATTTTTTTCAAAAGAAA
870888 TTGTCTTTAA
Statistics
Matches: 95, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
88 29 0.31
89 14 0.15
90 1 0.01
91 26 0.27
92 25 0.26
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (88 bp):
ATTTTTTTCAAAAGAAACAAACTCAAAGATTTTTCTCAAAAACTGTCTCGAGAGACAAAACTTTG
TTTCAAAGGAAACAAACTCAAAG
Found at i:870929 original size:64 final size:63
Alignment explanation
Indices: 870774--870933 Score: 184
Period size: 64 Copynumber: 2.5 Consensus size: 63
870764 GAAACAAACT
*
870774 CAAAGATTTT-TTTCAAAAGAAACA-ATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGA
1 CAAA-ATTTTGTTTCAAAAGAAACAGA-CTCAAAGATTTTTTTCAAAAAATTGTCTCAAGAGAGA
* * **
870837 CAAAACTTTGTTTC-AAAGTAAAATAGACTCAAAGATTTTTTTCAAAAGAAATTGTCTTTA-AGA
1 CAAAATTTTGTTTCAAAAG--AAACAGACTCAAAGATTTTTTTC-AAA-AAATTGTCTCAAGAGA
870900 GA
62 GA
*
870902 TAAAATTTTGTTTCAAAAGAAACAGACTCAAA
1 CAAAATTTTGTTTCAAAAGAAACAGACTCAAA
870934 TGATGGATCT
Statistics
Matches: 82, Mismatches: 8, Indels: 13
0.80 0.08 0.13
Matches are distributed among these distances:
62 8 0.10
63 8 0.10
64 32 0.39
65 20 0.24
66 14 0.17
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.32
Consensus pattern (63 bp):
CAAAATTTTGTTTCAAAAGAAACAGACTCAAAGATTTTTTTCAAAAAATTGTCTCAAGAGAGA
Found at i:871205 original size:66 final size:67
Alignment explanation
Indices: 871088--871314 Score: 266
Period size: 67 Copynumber: 3.4 Consensus size: 67
871078 ACTCAAAGAT
* * ** * *
871088 TTTCAAAATG-AACATATTCAAAGA--TTTGCTTCAAAAGAAACGGTCTCAAGAGATACAAAATT
1 TTTCAAAA-GAAACAGATTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGACAAAATT
871150 CAT-
65 -ATG
* * *
871153 TTT-AAGAGAAACAGATTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTT
1 TTTCAAAAGAAACAGATTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGACAAAATTA
871217 TG
66 TG
* * *
871219 TTTCAAAAGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAAAATTT
1 TTTCAAAAGAAACAGATTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGACAAAATTA
871284 TG
66 TG
* * *
871286 TTTCCAAAGAAACAAACTCAAAGATTTTT
1 TTTCAAAAGAAACAGATTCAAAGATTTTT
871315 CAAAAGAAAC
Statistics
Matches: 142, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
63 1 0.01
64 16 0.11
65 4 0.03
66 35 0.25
67 86 0.61
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (67 bp):
TTTCAAAAGAAACAGATTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGACAAAATTA
TG
Found at i:871226 original size:37 final size:36
Alignment explanation
Indices: 871177--871297 Score: 114
Period size: 37 Copynumber: 3.5 Consensus size: 36
871167 ATTCAAAGAT
871177 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAA
1 TTTTGTTTCAAAAGAAA-TATCTTAAGAGAGACAAAA
**
871214 TTTTGTTTCAAAAG-AA-A-C-----AGACTCAAAGA
1 TTTTGTTTCAAAAGAAATATCTTAAGAGAGACAAA-A
*
871243 TTTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAAAA
1 -TTTTGTTTCAAAAGAAA-TATCTTAAGAGAGACAAAA
*
871281 TTTTGTTTCCAAAGAAA
1 TTTTGTTTCAAAAGAAA
871298 CAAACTCAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
28 7 0.10
29 1 0.01
30 14 0.21
31 2 0.03
33 2 0.03
34 2 0.03
36 2 0.03
37 30 0.45
38 1 0.01
39 6 0.09
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (36 bp):
TTTTGTTTCAAAAGAAATATCTTAAGAGAGACAAAA
Found at i:871245 original size:29 final size:28
Alignment explanation
Indices: 871209--871408 Score: 140
Period size: 29 Copynumber: 6.8 Consensus size: 28
871199 TTAAGAGAGA
*
871209 CAAA-ATTTTGTTTCAAAAGAAACAGACT
1 CAAAGATTTT-TTTCAAAAGAAACAAACT
* *
871237 CAAAGATTTTTGTTTCAAAAGAAACTATCTT
1 CAAAGA-TTTT-TTTCAAAAGAAACAAAC-T
* *
871268 AAGAGAGAAAAAATTTTGTTTCCAAAGAAACAAACT
1 CA-A-AG----A-TTTT-TTTCAAAAGAAACAAACT
*
871304 CAAAGA--TTTTTCAAAAGAAAC-GACT
1 CAAAGATTTTTTTCAAAAGAAACAAACT
* *
871329 CAAAGATATTTATTCAAAAGGAACAAACT
1 CAAAGAT-TTTTTTCAAAAGAAACAAACT
* *
871358 CCAAGATTTTTATTCAAAAGGAACAAACT
1 CAAAGATTTTT-TTCAAAAGAAACAAACT
*
871387 CAAAGA-TTTTTTCAAGAGAAAC
1 CAAAGATTTTTTTCAAAAGAAAC
871409 TGTCTCAAGA
Statistics
Matches: 139, Mismatches: 19, Indels: 29
0.74 0.10 0.16
Matches are distributed among these distances:
25 9 0.06
26 12 0.09
27 12 0.09
28 24 0.17
29 32 0.23
30 20 0.14
31 2 0.01
32 1 0.01
33 2 0.01
34 2 0.01
35 1 0.01
36 2 0.01
37 20 0.14
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.28
Consensus pattern (28 bp):
CAAAGATTTTTTTCAAAAGAAACAAACT
Found at i:871251 original size:67 final size:67
Alignment explanation
Indices: 871159--871314 Score: 267
Period size: 67 Copynumber: 2.3 Consensus size: 67
871149 TCATTTTAAG
* * *
871159 AGAAACAGATTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCA
1 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAAAATTTTGTTTCA
871224 AA
66 AA
*
871226 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAAAATTTTGTTTCC
1 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAAAATTTTGTTTCA
871291 AA
66 AA
*
871293 AGAAACAAACTCAAAGATTTTT
1 AGAAACAGACTCAAAGATTTTT
871315 CAAAAGAAAC
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 84 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.31
Consensus pattern (67 bp):
AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGAAAAAATTTTGTTTCA
AA
Found at i:872045 original size:273 final size:273
Alignment explanation
Indices: 871751--872354 Score: 1190
Period size: 273 Copynumber: 2.2 Consensus size: 273
871741 TTCGAGAAAT
*
871751 GATCTCAAGTGAGATCAACTTTGTTTAATGTGAAACAAATCCGAAATTTGGATCTCAAAGGGAAA
1 GATCTCAAGTGAGATCAACTTTGTTTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAA
871816 AGGTCTCAAGCGAAACAAAATTTGTTTTGAAAGAAGCAACAATCTAAGGTGAGATTAATTTTGTT
66 AGGTCTCAAGCGAAACAAAATTTGTTTTGAAAGAAGCAACAATCTAAGGTGAGATTAATTTTGTT
871881 TTTAGTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGT
131 TTTAGTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGT
871946 TTTAAGAGAATTTGTCTTAAGTGATACAAACTTTGTTTTTAAAGAAATTGTCTCAAGCAAAACAA
196 TTTAAGAGAATTTGTCTTAAGTGATACAAACTTTGTTTTTAAAGAAATTGTCTCAAGCAAAACAA
872011 AATTTGAGAAAAC
261 AATTTGAGAAAAC
872024 GATCTCAAGTGAGATCAACTTTGTTTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAA
1 GATCTCAAGTGAGATCAACTTTGTTTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAA
872089 AGGTCTCAAGCGAAACAAAATTTGTTTTGAAAGAAGCAACAATCTAAGGTGAGATTAATTTTGTT
66 AGGTCTCAAGCGAAACAAAATTTGTTTTGAAAGAAGCAACAATCTAAGGTGAGATTAATTTTGTT
872154 TTTAGTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGT
131 TTTAGTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGT
872219 TTTAAGAGAATTTGTCTTAAGTGATACAAACTTTGTTTTTAAAGAAATTGTCTCAAGCAAAACAA
196 TTTAAGAGAATTTGTCTTAAGTGATACAAACTTTGTTTTTAAAGAAATTGTCTCAAGCAAAACAA
872284 AATTTGAGAAAAC
261 AATTTGAGAAAAC
*
872297 GATCTCAAGTGAGATCAACTTTGTTTAATGTGAAACAAATTCGAAATTTGTATCTCAA
1 GATCTCAAGTGAGATCAACTTTGTTTAATGTGAAACAAATTCGAAATTTGGATCTCAA
872355 TGAAAAATGT
Statistics
Matches: 329, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
273 329 1.00
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.31
Consensus pattern (273 bp):
GATCTCAAGTGAGATCAACTTTGTTTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAA
AGGTCTCAAGCGAAACAAAATTTGTTTTGAAAGAAGCAACAATCTAAGGTGAGATTAATTTTGTT
TTTAGTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGT
TTTAAGAGAATTTGTCTTAAGTGATACAAACTTTGTTTTTAAAGAAATTGTCTCAAGCAAAACAA
AATTTGAGAAAAC
Found at i:872419 original size:36 final size:35
Alignment explanation
Indices: 872379--872498 Score: 125
Period size: 35 Copynumber: 3.3 Consensus size: 35
872369 AGTAAGGCGG
872379 AATTTGTTTTTCAAGAAATTGTCTCAAACGAGACAA
1 AATTTGTTTTT-AAGAAATTGTCTCAAACGAGACAA
* * *
872415 AATTTGTTTTT-AGAAAGCTGTCTCGATCGAGACAA
1 AATTTGTTTTTAAGAAA-TTGTCTCAAACGAGACAA
** *
872450 AATTTGCTTTGAAAGAAATTGTCTCAAAGATGAGACAAA
1 AATTTG-TTTTTAAGAAATTGTCTC-AA-ACGAGAC-AA
872489 AATTTGTTTT
1 AATTTGTTTT
872499 AAAATTCTCA
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
34 5 0.07
35 21 0.31
36 20 0.29
37 6 0.09
38 8 0.12
39 8 0.12
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.35
Consensus pattern (35 bp):
AATTTGTTTTTAAGAAATTGTCTCAAACGAGACAA
Found at i:872673 original size:36 final size:34
Alignment explanation
Indices: 872624--872693 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 34
872614 GATCTCAAAG
* * *
872624 GAAAAAATGTCTCAAATGAGACGAAATTTGTTTT
1 GAAAAAATGTCTCAAACGAGACAAAATTTATTTT
*
872658 GAAATAAATTGTCTCAAGCGAGACAAAATTTATTTT
1 GAAA-AAA-TGTCTCAAACGAGACAAAATTTATTTT
872694 TTAGAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 4 0.13
35 3 0.10
36 23 0.77
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (34 bp):
GAAAAAATGTCTCAAACGAGACAAAATTTATTTT
Found at i:872757 original size:196 final size:197
Alignment explanation
Indices: 872443--872833 Score: 612
Period size: 196 Copynumber: 2.0 Consensus size: 197
872433 TGTCTCGATC
* *
872443 GAGACAAAATTTGCTTTGAAAGAAATTGTCTCAAAGATGAGACAAAAATTTGTTTTAAAATTCTC
1 GAGACAAAATTTGCTTTGAAAGAAATTGTCTCAAAGACGAGACAAAAATTTGTTTTAAAAATCTC
* *
872508 AAAATTTGTGGAAAACTATCTCCAGTGAGACAAAAATTTTGTTTTGAAATAGATACGATCTCAAA
66 AAAATTTGTGGAAAAATATCTCAAGTGAGACAAAAATTTTGTTTTGAAATAGATACGATCTCAAA
872573 TGAGATCAACTTTGTTTAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAATGTCTCA
131 TGAGATCAACTTTGTTTAATGTGAAACAAATTCAAAATTTGGATCTCAAAGG-AAAAATGTCTCA
872638 AAT
195 AAT
* * * * *
872641 GAGACGAAATTTGTTTTGAAATAAATTGTCTC-AAG-CGAGACAAAATTTATTTTTTAGAAAAAT
1 GAGACAAAATTTGCTTTGAAAGAAATTGTCTCAAAGACGAGACAAAAATT-TGTTTT--AAAAAT
* *
872704 CTCAAAGTTTGTGGAAAAATGTCTCAAG-G-GACAAAAA-TTTGTTTTGAAATAGATACGATCTC
63 CTCAAAATTTGTGGAAAAATATCTCAAGTGAGACAAAAATTTTGTTTTGAAATAGATACGATCTC
872766 AAATGAGATCAACTTTGTTTAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATGTCT
128 AAATGAGATCAACTTTGTTTAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATGTCT
872831 CAA
193 CAA
872834 GGGACTGAAT
Statistics
Matches: 179, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
195 13 0.07
196 91 0.51
197 16 0.09
198 30 0.17
199 29 0.16
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.31
Consensus pattern (197 bp):
GAGACAAAATTTGCTTTGAAAGAAATTGTCTCAAAGACGAGACAAAAATTTGTTTTAAAAATCTC
AAAATTTGTGGAAAAATATCTCAAGTGAGACAAAAATTTTGTTTTGAAATAGATACGATCTCAAA
TGAGATCAACTTTGTTTAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATGTCTCAA
AT
Found at i:874364 original size:21 final size:22
Alignment explanation
Indices: 874320--874370 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
874310 TTTGTATGTG
874320 CTCTTTGTCCACTTTCTCTTCTTT
1 CTCTTT-T-CACTTTCTCTTCTTT
* *
874344 TTCTTTTCACTTTGT-TTCTTT
1 CTCTTTTCACTTTCTCTTCTTT
874365 CTCTTT
1 CTCTTT
874371 GCTTTTCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 11 0.46
22 7 0.29
23 1 0.04
24 5 0.21
ACGTcount: A:0.04, C:0.27, G:0.04, T:0.65
Consensus pattern (22 bp):
CTCTTTTCACTTTCTCTTCTTT
Found at i:875057 original size:26 final size:24
Alignment explanation
Indices: 875027--875097 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 24
875017 CAAGGTGGAA
875027 AGAATATTTCAAGGTCTCAAAGAG
1 AGAATATTTCAAGGTCTCAAAGAG
* *
875051 AGGGAATGTTTCAAGG--TCGAA-A-
1 A--GAATATTTCAAGGTCTCAAAGAG
875073 AGAATATTTCAAGGTCTCAAAGAG
1 AGAATATTTCAAGGTCTCAAAGAG
875097 A
1 A
875098 TAGAATGTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
20 12 0.32
22 5 0.14
23 2 0.05
24 6 0.16
26 12 0.32
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (24 bp):
AGAATATTTCAAGGTCTCAAAGAG
Found at i:875082 original size:20 final size:20
Alignment explanation
Indices: 875014--875088 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
875004 AAATACAGTG
*
875014 TTTCAAGGT-GGAAAGAATA
1 TTTCAAGGTCGAAAAGAATA
* *
875033 TTTCAAGGTCTCAAAGAGAGGGAATG
1 TTTCAAGG--TCGAA-A-A--GAATA
875059 TTTCAAGGTCGAAAAGAATA
1 TTTCAAGGTCGAAAAGAATA
875079 TTTCAAGGTC
1 TTTCAAGGTC
875089 TCAAAGAGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 8 0.18
20 14 0.32
21 1 0.02
22 2 0.05
23 2 0.05
24 5 0.11
26 12 0.27
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (20 bp):
TTTCAAGGTCGAAAAGAATA
Found at i:875102 original size:26 final size:26
Alignment explanation
Indices: 875024--875103 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
875014 TTTCAAGGTG
875024 GAAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATATTTCAAGGTCTCAAAGA
** *
875050 GAGGGAATGTTTCAAGG--TC---GA
1 GAAAGAATATTTCAAGGTCTCAAAGA
875071 -AAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATATTTCAAGGTCTCAAAGA
*
875096 GATAGAAT
1 GAAAGAAT
875104 GTCAAAAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
20 13 0.32
21 2 0.05
22 2 0.05
24 2 0.05
25 2 0.05
26 20 0.49
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (26 bp):
GAAAGAATATTTCAAGGTCTCAAAGA
Found at i:875104 original size:46 final size:45
Alignment explanation
Indices: 875012--875105 Score: 152
Period size: 46 Copynumber: 2.1 Consensus size: 45
875002 ATAAATACAG
* *
875012 TGTTTCAAGGTGGAAAGAATATTTCAAGGTCTCAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
*
875057 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
875103 TGT
1 TGT
875106 CAAAAATTGG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 11 0.24
46 34 0.76
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.27
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
Found at i:877309 original size:210 final size:210
Alignment explanation
Indices: 876947--877362 Score: 564
Period size: 210 Copynumber: 2.0 Consensus size: 210
876937 AAATAGATCG
* * * *
876947 CTGCTTCGTCTCAGATCTTCGTCCTTGAAAATAATGCCCCTCAATGATCTGTAATCTGACACCAT
1 CTGCTTCGTCTCAGATCTTCGTACTTGAAAACAATGCCCCTCAATGATCTGTAAACTAACACCAT
* * * * *
877012 TAATGCCCCGGCGGTGCTGAAGTCAGTGCGTCGCTCCTTGATGGATAGCGATGAAATAATTGTAG
66 TAATACCCCGGCGATGCTGAAGTCAGTGCGTCACTCCCTGATGGATAACGATGAAATAATTGTAG
* *
877077 ATGAGAATCTACTGTTGGATTACT-CTTCGGATCAATGGATTATCATATCAGTCTCGAATGATGC
131 ATGAGAATCTACTGCTGGATTACTCCTT-AGATCAATGGATTATCATATCAGTCTCGAATGATGC
877141 ACGATCTTCGAGCTCA
195 ACGATCTTCGAGCTCA
* * * * * * * *
877157 CTGCTTCGTCTCGGATCTTTGTACTTGGAACCGATGCCCCTCTATGCTCTGTAAACTAACTCCAT
1 CTGCTTCGTCTCAGATCTTCGTACTTGAAAACAATGCCCCTCAATGATCTGTAAACTAACACCAT
* * ** * * * *
877222 TAATACCTCGGCTATGCTGAAGTTTGTGCTTCACTCCCTGATGGTTAACGATGGAATAATTGTGG
66 TAATACCCCGGCGATGCTGAAGTCAGTGCGTCACTCCCTGATGGATAACGATGAAATAATTGTAG
*
877287 ATGAGAATCTACTGCTGGATTACTCCTTAGATCAGTGGATTATCATATCAGTCTCGAATGATGCA
131 ATGAGAATCTACTGCTGGATTACTCCTTAGATCAATGGATTATCATATCAGTCTCGAATGATGCA
877352 CGATCTTCGAG
196 CGATCTTCGAG
877363 AAAATCTCAT
Statistics
Matches: 177, Mismatches: 28, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
210 174 0.98
211 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (210 bp):
CTGCTTCGTCTCAGATCTTCGTACTTGAAAACAATGCCCCTCAATGATCTGTAAACTAACACCAT
TAATACCCCGGCGATGCTGAAGTCAGTGCGTCACTCCCTGATGGATAACGATGAAATAATTGTAG
ATGAGAATCTACTGCTGGATTACTCCTTAGATCAATGGATTATCATATCAGTCTCGAATGATGCA
CGATCTTCGAGCTCA
Found at i:877596 original size:31 final size:32
Alignment explanation
Indices: 877540--877601 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
877530 TGACAAAATG
877540 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
877572 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
877602 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:881063 original size:25 final size:25
Alignment explanation
Indices: 881029--881077 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
881019 GGCTGGAACA
881029 TTTAGGGTTTGAAACCCTAATCTGG
1 TTTAGGGTTTGAAACCCTAATCTGG
881054 TTTAGGGTTTGAAACCCTAATCTG
1 TTTAGGGTTTGAAACCCTAATCTG
881078 ATGGGTTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (25 bp):
TTTAGGGTTTGAAACCCTAATCTGG
Found at i:881164 original size:16 final size:14
Alignment explanation
Indices: 881150--881202 Score: 74
Period size: 14 Copynumber: 3.9 Consensus size: 14
881140 TTGTAATATG
*
881150 TAATATTAATAATA
1 TAATAATAATAATA
881164 TAATAATAATAATA
1 TAATAATAATAATA
881178 -AATAATAATAATAA
1 TAATAATAATAAT-A
881192 TAATAA-AATAA
1 TAATAATAATAA
881203 CAATAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
13 12 0.33
14 19 0.53
15 5 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:881169 original size:3 final size:3
Alignment explanation
Indices: 881150--881208 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
881140 TTGTAATATG
*
881150 TAA TAT TAA TAA T-A TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
*
881195 TAA -AA TAA CAA TAA
1 TAA TAA TAA TAA TAA
881209 AAAACCCGGA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.08
3 42 0.86
4 3 0.06
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:888740 original size:21 final size:21
Alignment explanation
Indices: 888701--888741 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
888691 CACAAATTAG
* * *
888701 AAGTTTTTTTTTGTGAATTTT
1 AAGTTTTTTATTATAAATTTT
888722 AAGTTTTTTATTATAAATTT
1 AAGTTTTTTATTATAAATTT
888742 AAGGTGAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (21 bp):
AAGTTTTTTATTATAAATTTT
Found at i:890159 original size:17 final size:18
Alignment explanation
Indices: 890137--890171 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
890127 ACTTTGACAA
890137 AAAAGTC-TAATTTTTTG
1 AAAAGTCATAATTTTTTG
*
890154 AAAAGTCATATTTTTTTG
1 AAAAGTCATAATTTTTTG
890172 TCGTCTTGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (18 bp):
AAAAGTCATAATTTTTTG
Found at i:892947 original size:64 final size:64
Alignment explanation
Indices: 892846--892965 Score: 204
Period size: 64 Copynumber: 1.9 Consensus size: 64
892836 ATTCTGTATT
*
892846 ACTGAACTTCCCAAAACTCACACTTTTACTCACCATTTTAGGTTAAAAGAATTGATAGTTGCAC
1 ACTGAACTTCCCAAAACTCACACTTTTACTCACCATTTCAGGTTAAAAGAATTGATAGTTGCAC
* * *
892910 ACTGAACTTCCTAAAGCTCACTCTTTTACTCACCATTTCAGGTTAAAAGAATTGAT
1 ACTGAACTTCCCAAAACTCACACTTTTACTCACCATTTCAGGTTAAAAGAATTGAT
892966 CAAGTGCAGC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (64 bp):
ACTGAACTTCCCAAAACTCACACTTTTACTCACCATTTCAGGTTAAAAGAATTGATAGTTGCAC
Found at i:899905 original size:13 final size:13
Alignment explanation
Indices: 899881--899915 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
899871 TATTTATTAT
899881 ATATTT-ATAAAA
1 ATATTTAATAAAA
899893 ATATTTAAT-AAA
1 ATATTTAATAAAA
899905 ATATTTAATAA
1 ATATTTAATAA
899916 TAAAAATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 18 0.86
13 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTTAATAAAA
Found at i:901387 original size:3 final size:3
Alignment explanation
Indices: 901379--901485 Score: 178
Period size: 3 Copynumber: 35.7 Consensus size: 3
901369 TTAATATATT
* *
901379 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
901427 TAA TAA TAA TGA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
901475 TAA TAA TAA TA
1 TAA TAA TAA TA
901486 TGGATAAAAA
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 96 1.00
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:902051 original size:113 final size:113
Alignment explanation
Indices: 901804--902673 Score: 1564
Period size: 113 Copynumber: 7.7 Consensus size: 113
901794 GAATTATGCC
* * *
901804 AAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
901868 TATGAAC-TTCTCCGGAAAAGATAATCCATCAATTGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
901915 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
901980 TATGAACTTTTTCTGGAAAAAATGTTCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
*
902028 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
902093 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
*
902141 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
902206 TATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
902254 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
902319 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
*
902367 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
902432 TATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
902480 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
902545 TATGAACTTTCTCTGGAAATGATGATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
*
902593 AAAAGGTTGAATAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
902658 TATGAACTTTCCCTGG
66 TATGAACTTTCTCTGG
902674 CAATGTTAAT
Statistics
Matches: 733, Mismatches: 24, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
111 4 0.01
112 64 0.09
113 665 0.91
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
Found at i:903582 original size:133 final size:133
Alignment explanation
Indices: 903344--903706 Score: 690
Period size: 133 Copynumber: 2.7 Consensus size: 133
903334 GTAGTTCTTA
*
903344 CCAAAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAACCAGATCAGA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAACCAGATCAGA
903409 TAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTT
66 TAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTT
903474 CTG
131 CTG
903477 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAACCAGATCAGA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAACCAGATCAGA
903542 TAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTT
66 TAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTT
903607 CTG
131 CTG
* * *
903610 CCAAACTAGATTAGATAACTCAAAGAACACTTCCAGAAGATGATATTCTGTCTAACCAGATCAGA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAACCAGATCAGA
903675 TAACTCAAAGAACACTTCCAGAAGATGCTATT
66 TAACTCAAAGAACACTTCCAGAAGATGCTATT
903707 CTGTCTAACC
Statistics
Matches: 226, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 226 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (133 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAACCAGATCAGA
TAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTT
CTG
Found at i:903676 original size:50 final size:50
Alignment explanation
Indices: 903617--903955 Score: 606
Period size: 50 Copynumber: 6.8 Consensus size: 50
903607 CTGCCAAACT
* *
903617 AGATTAGATAACTCAAAGAACACTTCCAGAAGATGATATTCTGTCTAACC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAACC
903667 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAACC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAACC
*
903717 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTATGTCTAACC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAACC
903767 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAACC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAACC
*
903817 AGATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAACC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAACC
* *
903867 AGATCAGATAACTCAAAGAACATTTCCAGAAGATGCTTTTCTGTCTAACC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAACC
* *
903917 AGATCAGATAACTCTAAGAACACTTCCAAAAGATGCTAT
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
903956 GAGTCTCTTT
Statistics
Matches: 277, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 277 1.00
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (50 bp):
AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTCTGTCTAACC
Found at i:904766 original size:16 final size:17
Alignment explanation
Indices: 904728--904772 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
904718 AATATAAAAG
*
904728 AATAAATTGAATTTCAAA
1 AATAAATTGAATCTC-AA
904746 AATAAATTGAATCTC-A
1 AATAAATTGAATCTCAA
904762 AATAAATTGAA
1 AATAAATTGAA
904773 CTTGAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.46
18 14 0.54
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (17 bp):
AATAAATTGAATCTCAA
Found at i:905140 original size:12 final size:12
Alignment explanation
Indices: 905113--905150 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
905103 TTTTCTTTTT
*
905113 TCTTTTTT-TTG
1 TCTTTTTTATTC
905124 T-TTTTTTATTC
1 TCTTTTTTATTC
905135 TCTTTTTTATTC
1 TCTTTTTTATTC
905147 TCTT
1 TCTT
905151 CAAGCATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 6 0.25
11 4 0.17
12 14 0.58
ACGTcount: A:0.05, C:0.13, G:0.03, T:0.79
Consensus pattern (12 bp):
TCTTTTTTATTC
Found at i:916515 original size:12 final size:12
Alignment explanation
Indices: 916498--916532 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
916488 TATTTATTAT
916498 ATATTT-ATAAAA
1 ATATTTAAT-AAA
916510 ATATTTAATAAA
1 ATATTTAATAAA
916522 ATATTTAATAA
1 ATATTTAATAA
916533 TAAAAATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 20 0.91
13 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATTTAATAAA
Found at i:918004 original size:3 final size:3
Alignment explanation
Indices: 917996--918108 Score: 181
Period size: 3 Copynumber: 37.7 Consensus size: 3
917986 TTAATATATT
*
917996 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
918044 TAA TAA TAA TAA TGA TGA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
918092 TAT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
918109 TGGATAAAAA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 102 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:919200 original size:26 final size:26
Alignment explanation
Indices: 919164--919213 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
919154 TGACCGACCT
*
919164 TTCTTCTTCTTCTTCAACCTAACCCC
1 TTCTTCTTCTTCTTCAACCGAACCCC
*
919190 TTCTTTTTCTTCTTCAACCGAACC
1 TTCTTCTTCTTCTTCAACCGAACC
919214 ATCTTTGGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.16, C:0.38, G:0.02, T:0.44
Consensus pattern (26 bp):
TTCTTCTTCTTCTTCAACCGAACCCC
Found at i:919698 original size:35 final size:35
Alignment explanation
Indices: 919649--919807 Score: 178
Period size: 35 Copynumber: 4.5 Consensus size: 35
919639 TAGTAAGTCA
* * *
919649 TTCGTTCTAGTTGAATCGAAAGTGTGATGCCTCCT
1 TTCGTTCGACTTGAATCGAAAGTGCGATGCCTCCT
**
919684 TTCGTTCGACTTGAATC-AGAAGTGCGATGATTCCT
1 TTCGTTCGACTTGAATCGA-AAGTGCGATGCCTCCT
* * *
919719 TCCGTTCTACTTGAATCGAAAGTGTGATGCCTCC-
1 TTCGTTCGACTTGAATCGAAAGTGCGATGCCTCCT
** *
919753 TTCTGTTTAACTTGAATCGAAAGTGCGATGCTTCCT
1 TTC-GTTCGACTTGAATCGAAAGTGCGATGCCTCCT
*
919789 TCCGTTCGACTTGAATCGA
1 TTCGTTCGACTTGAATCGA
919808 TACAAACTTT
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
34 3 0.03
35 96 0.94
36 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.35
Consensus pattern (35 bp):
TTCGTTCGACTTGAATCGAAAGTGCGATGCCTCCT
Found at i:919766 original size:70 final size:70
Alignment explanation
Indices: 919651--919807 Score: 237
Period size: 70 Copynumber: 2.2 Consensus size: 70
919641 GTAAGTCATT
* *
919651 CGTTCTAGTTGAATCGAAAGTGTGATGCCTCCTTTCGTTCGACTTGAATC-AGAAGTGCGATGAT
1 CGTTCTACTTGAATCGAAAGTGTGATGCCTCCTTTCGTTCAACTTGAATCGA-AAGTGCGATGAT
919715 TCCTTC
65 TCCTTC
* *
919721 CGTTCTACTTGAATCGAAAGTGTGATGCCTCC-TTCTGTTTAACTTGAATCGAAAGTGCGATGCT
1 CGTTCTACTTGAATCGAAAGTGTGATGCCTCCTTTC-GTTCAACTTGAATCGAAAGTGCGATGAT
919785 TCCTTC
65 TCCTTC
*
919791 CGTTCGACTTGAATCGA
1 CGTTCTACTTGAATCGA
919808 TACAAACTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
69 3 0.04
70 76 0.95
71 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (70 bp):
CGTTCTACTTGAATCGAAAGTGTGATGCCTCCTTTCGTTCAACTTGAATCGAAAGTGCGATGATT
CCTTC
Found at i:927461 original size:8 final size:8
Alignment explanation
Indices: 927401--927463 Score: 56
Period size: 8 Copynumber: 7.5 Consensus size: 8
927391 TCAAAGTTTT
927401 GGTCAACG
1 GGTCAACG
927409 CCGGTCAAC-
1 --GGTCAACG
927418 GGTCAACG
1 GGTCAACG
*
927426 GTTCAACG
1 GGTCAACG
*
927434 GGTCAATG
1 GGTCAACG
*
927442 AGTCAAGTCG
1 GGTCAA--CG
927452 GGTCAACG
1 GGTCAACG
927460 GGTC
1 GGTC
927464 GGGTCGGGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
7 7 0.16
8 24 0.55
10 13 0.30
ACGTcount: A:0.24, C:0.25, G:0.33, T:0.17
Consensus pattern (8 bp):
GGTCAACG
Found at i:933641 original size:24 final size:24
Alignment explanation
Indices: 933609--933661 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
933599 TAGACCGGTT
*
933609 GAACCGCTACTAGTGAACCGGCCA
1 GAACTGCTACTAGTGAACCGGCCA
933633 GAACTGCTACTAGTGAACCGGCCA
1 GAACTGCTACTAGTGAACCGGCCA
933657 GAACT
1 GAACT
933662 CAAACTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.15
Consensus pattern (24 bp):
GAACTGCTACTAGTGAACCGGCCA
Found at i:936554 original size:21 final size:18
Alignment explanation
Indices: 936517--936555 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 18
936507 ATCTATTACT
936517 TTAAAAAATTATTTAAAA
1 TTAAAAAATTATTTAAAA
936535 TTAAAAATATATATTTTAAAA
1 TTAAAAA-AT-TA-TTTAAAA
936556 ACTTAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 2 0.11
21 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TTAAAAAATTATTTAAAA
Found at i:937437 original size:30 final size:30
Alignment explanation
Indices: 937403--937460 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
937393 AAAAGGGTTC
*
937403 TTTTA-CAAATTAGTACATTAACTTGATAAA
1 TTTTATCAAATTAGCACATTAA-TTGATAAA
*
937433 TTTTATCAAATTTGCACATTAATTGATA
1 TTTTATCAAATTAGCACATTAATTGATA
937461 TTTTCCCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (30 bp):
TTTTATCAAATTAGCACATTAATTGATAAA
Found at i:938357 original size:5 final size:5
Alignment explanation
Indices: 938347--938405 Score: 109
Period size: 5 Copynumber: 11.8 Consensus size: 5
938337 GTCCGTCCGT
*
938347 CTCGG CTCGG CTCGG CTCGG CACGG CTCGG CTCGG CTCGG CTCGG CTCGG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG
938397 CTCGG CTCG
1 CTCGG CTCG
938406 TGGTCGTGGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.02, C:0.41, G:0.39, T:0.19
Consensus pattern (5 bp):
CTCGG
Found at i:938414 original size:6 final size:6
Alignment explanation
Indices: 938403--938535 Score: 239
Period size: 6 Copynumber: 22.2 Consensus size: 6
938393 TCGGCTCGGC
* *
938403 TCGTGG TCGTGG TCGTGG TCGAGG TCGAGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
*
938451 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGAGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
938499 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
938536 AATACGTGTC
Statistics
Matches: 123, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 123 1.00
ACGTcount: A:0.02, C:0.17, G:0.50, T:0.32
Consensus pattern (6 bp):
TCGTGG
Found at i:938835 original size:22 final size:22
Alignment explanation
Indices: 938810--938864 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
938800 TCAGGAGTTA
* *
938810 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
938832 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
938854 CGGGAGTTATA
1 CAGGAGTTATA
938865 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:944409 original size:5 final size:5
Alignment explanation
Indices: 944399--944457 Score: 91
Period size: 5 Copynumber: 11.8 Consensus size: 5
944389 GTCCGTCCGT
* * *
944399 CTCGG CTCGG CTCGG CACGG CACGG CACGG CTCGG CTCGG CTCGG CTCGG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG
944449 CTCGG CTCG
1 CTCGG CTCG
944458 TGGTCGTGGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.05, C:0.41, G:0.39, T:0.15
Consensus pattern (5 bp):
CTCGG
Found at i:944466 original size:6 final size:6
Alignment explanation
Indices: 944455--944521 Score: 125
Period size: 6 Copynumber: 11.2 Consensus size: 6
944445 TCGGCTCGGC
*
944455 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGAGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
944503 TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG T
944522 AATACGTGTC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.01, C:0.16, G:0.49, T:0.33
Consensus pattern (6 bp):
TCGTGG
Found at i:944821 original size:22 final size:22
Alignment explanation
Indices: 944796--944850 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
944786 TCAGGAGTTA
* *
944796 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
944818 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
944840 CGGGAGTTATA
1 CAGGAGTTATA
944851 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:949778 original size:2 final size:2
Alignment explanation
Indices: 949771--949802 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
949761 GTCTTTAATG
949771 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
949803 GTATCACGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:960538 original size:65 final size:64
Alignment explanation
Indices: 960452--960583 Score: 156
Period size: 65 Copynumber: 2.0 Consensus size: 64
960442 TATAACTTTT
* * * * *
960452 AATAGTTGAGGGACTTAATAAAATAATGTCTTATAGTTAGGGGACCATTTGTATACTTTATCCTA
1 AATAGTTAAAGGACTTAATAAAATAATGTCCTATAG-TAGGAGACCATTTATATACTTTATCCTA
* * * * * *
960517 AATAGTTAAAGGACTTGATAAAGTAATTTCCTATAGTCGGAGATCATTTATGTACTTTATCCTA
1 AATAGTTAAAGGACTTAATAAAATAATGTCCTATAGTAGGAGACCATTTATATACTTTATCCTA
960581 AAT
1 AAT
960584 TTAAAATACT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
64 26 0.46
65 30 0.54
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (64 bp):
AATAGTTAAAGGACTTAATAAAATAATGTCCTATAGTAGGAGACCATTTATATACTTTATCCTA
Found at i:963411 original size:12 final size:12
Alignment explanation
Indices: 963394--963418 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
963384 TAGAGTTGAT
963394 AAGTTGAATTTG
1 AAGTTGAATTTG
963406 AAGTTGAATTTG
1 AAGTTGAATTTG
963418 A
1 A
963419 CTTGTCATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
AAGTTGAATTTG
Found at i:963783 original size:35 final size:36
Alignment explanation
Indices: 963726--963795 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 36
963716 ATGTGCAGGG
963726 GGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCA
1 GGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCA
963762 GGAACAGATT-CCCCCTGGGGGGGTATCGATTCCC
1 GGAACAGATTCCCCCCTGGGGGGGTATCGATTCCC
963796 CCCTAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 24 0.71
36 10 0.29
ACGTcount: A:0.19, C:0.30, G:0.31, T:0.20
Consensus pattern (36 bp):
GGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCA
Found at i:964399 original size:31 final size:31
Alignment explanation
Indices: 964361--964531 Score: 270
Period size: 31 Copynumber: 5.5 Consensus size: 31
964351 AGGGTCGAGG
964361 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
964392 GTTTACCTATGTTCTTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
964423 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
964454 GTTTACCTATGTTCTTCGGGATATATAGTCT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
964485 GTTTACCTATGTTCTTCGGGACATATGAACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
964516 GATTACCTAGGTTCTT
1 GTTTACCTATGTTCTT
964532 TGGAATCTAT
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 127 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.41
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:965184 original size:14 final size:14
Alignment explanation
Indices: 965162--965195 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
965152 TTAACATTTG
*
965162 GGTAATGTTCATAC
1 GGTATTGTTCATAC
965176 GGTATTGTTCATAC
1 GGTATTGTTCATAC
*
965190 CGTATT
1 GGTATT
965196 TTACTGTTCA
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:0.24, C:0.15, G:0.21, T:0.41
Consensus pattern (14 bp):
GGTATTGTTCATAC
Found at i:966839 original size:2 final size:2
Alignment explanation
Indices: 966832--966857 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
966822 GACTGAAAGA
966832 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
966858 GGATAGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:967850 original size:12 final size:12
Alignment explanation
Indices: 967833--967857 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
967823 TAGAGTTGAT
967833 AAGTTTAATTTG
1 AAGTTTAATTTG
967845 AAGTTTAATTTG
1 AAGTTTAATTTG
967857 A
1 A
967858 CTTGTCATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (12 bp):
AAGTTTAATTTG
Found at i:968060 original size:12 final size:12
Alignment explanation
Indices: 968043--968076 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
968033 GTTTAAAATA
968043 GAAGAATTGAGT
1 GAAGAATTGAGT
968055 GAAGAATTGAGT
1 GAAGAATTGAGT
968067 GAAGAATTGA
1 GAAGAATTGA
968077 TGATTTTCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (12 bp):
GAAGAATTGAGT
Found at i:968178 original size:35 final size:36
Alignment explanation
Indices: 968132--968202 Score: 119
Period size: 35 Copynumber: 2.0 Consensus size: 36
968122 ACCCTATGAA
968132 GGGAACAGATTCCCCCCT-GGGGGTATCGA-TTCCCC
1 GGGAACAGATT-CCCCCTGGGGGGTATCGATTTCCCC
968167 GGGAACAGATTCCCCCTGGGGGGTATCGATTTCCCC
1 GGGAACAGATTCCCCCTGGGGGGTATCGATTTCCCC
968203 CTAAATGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
34 6 0.18
35 22 0.65
36 6 0.18
ACGTcount: A:0.17, C:0.32, G:0.30, T:0.21
Consensus pattern (36 bp):
GGGAACAGATTCCCCCTGGGGGGTATCGATTTCCCC
Found at i:968804 original size:31 final size:31
Alignment explanation
Indices: 968766--968952 Score: 340
Period size: 31 Copynumber: 6.0 Consensus size: 31
968756 AGGGTCGAGG
968766 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
968797 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
968828 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
968859 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
968890 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
968921 GTTTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
968952 G
1 G
968953 GTCCTTCGGG
Statistics
Matches: 153, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
31 152 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:969586 original size:14 final size:14
Alignment explanation
Indices: 969567--969600 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
969557 TTAACATTTG
969567 GGTATTGTTCATAC
1 GGTATTGTTCATAC
969581 GGTATTGTTCATAC
1 GGTATTGTTCATAC
*
969595 CGTATT
1 GGTATT
969601 TTACTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (14 bp):
GGTATTGTTCATAC
Found at i:970192 original size:24 final size:26
Alignment explanation
Indices: 970144--970192 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
970134 TTTTAACTTA
*
970144 ATTTAAAAATATTTTGTTTTATTTTC
1 ATTTAAAAATATTATGTTTTATTTTC
970170 ATTTAAAAATA-TAT-TTTTATTTT
1 ATTTAAAAATATTATGTTTTATTTT
970193 AAATTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 2 0.09
26 11 0.50
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (26 bp):
ATTTAAAAATATTATGTTTTATTTTC
Found at i:970202 original size:29 final size:28
Alignment explanation
Indices: 970125--970210 Score: 88
Period size: 29 Copynumber: 3.1 Consensus size: 28
970115 CTTATTAAAC
* *
970125 ATATTTTATTTTTAACTTAATTT-AAAA-
1 ATATTTTA-TTTTAAATTTATTTAAAAAT
* *
970152 ATATTTTGTTTT-ATTTTCATTTAAAAAT
1 ATATTTTATTTTAAATTT-ATTTAAAAAT
970180 ATATTTTTATTTTAAATTTATTTAAAAAT
1 ATA-TTTTATTTTAAATTTATTTAAAAAT
970209 AT
1 AT
970211 TATTAAATTG
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
25 3 0.06
26 8 0.16
27 11 0.22
28 3 0.06
29 20 0.41
30 4 0.08
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (28 bp):
ATATTTTATTTTAAATTTATTTAAAAAT
Found at i:970356 original size:31 final size:31
Alignment explanation
Indices: 970321--970387 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
970311 AATGATCACG
*
970321 TCTTAATTAAATAAAAACGAAAGTGGTCATA
1 TCTTAATTAAATAAAAACGAAAGTGATCATA
*
970352 TCTTAATTAAATAAAAATGAAAGTGATCATA
1 TCTTAATTAAATAAAAACGAAAGTGATCATA
970383 TCTTA
1 TCTTA
970388 TTTTTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (31 bp):
TCTTAATTAAATAAAAACGAAAGTGATCATA
Found at i:971527 original size:12 final size:12
Alignment explanation
Indices: 971506--971539 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
971496 ACCACATTTC
*
971506 CAATACCAAACA
1 CAATATCAAACA
971518 CAATATCAAACA
1 CAATATCAAACA
*
971530 CAATCTCAAA
1 CAATATCAAA
971540 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:974002 original size:18 final size:18
Alignment explanation
Indices: 973979--974014 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
973969 AAGCAAAATG
973979 AAATCAAAATCACAATCA
1 AAATCAAAATCACAATCA
*
973997 AAATCAAAATCCCAATCA
1 AAATCAAAATCACAATCA
974015 CAGCCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.25, G:0.00, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCACAATCA
Found at i:974376 original size:20 final size:20
Alignment explanation
Indices: 974351--974407 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
974341 AAATCACAAC
974351 GCGAATTTGACTTTCGCGTT
1 GCGAATTTGACTTTCGCGTT
*
974371 GCGAATTTGACTTTCACGTT
1 GCGAATTTGACTTTCGCGTT
* *
974391 ACGAATTTTACTTTCGC
1 GCGAATTTGACTTTCGC
974408 AACAATCACA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (20 bp):
GCGAATTTGACTTTCGCGTT
Found at i:975917 original size:21 final size:21
Alignment explanation
Indices: 975891--975963 Score: 101
Period size: 21 Copynumber: 3.5 Consensus size: 21
975881 GTGAATTGGG
**
975891 CTCTTGAACGGTGGGAGGGAT
1 CTCTTGAACGGTGGGAGGGGC
* **
975912 CTCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
975933 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
975954 CTCTTGAACG
1 CTCTTGAACG
975964 ATGACAGGTG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.19, C:0.21, G:0.38, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGC
Found at i:975950 original size:42 final size:42
Alignment explanation
Indices: 975891--975971 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
975881 GTGAATTGGG
*
975891 CTCTTGAACGGTGGGAGGGATCTCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
*
975933 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGACAGG
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGG
975972 TGAATCGAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.21, C:0.20, G:0.38, T:0.21
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
Found at i:976378 original size:21 final size:21
Alignment explanation
Indices: 976354--976403 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
976344 ACCATTGTCG
* *
976354 TCACGTAAAGTACCGACCTTA
1 TCACGTAAAGCACCGACCTCA
* *
976375 TCACGCAAAGCACTGACCTCA
1 TCACGTAAAGCACCGACCTCA
976396 TCACGTAA
1 TCACGTAA
976404 CTCCCCTAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.32, G:0.14, T:0.20
Consensus pattern (21 bp):
TCACGTAAAGCACCGACCTCA
Found at i:976400 original size:42 final size:41
Alignment explanation
Indices: 976306--976403 Score: 99
Period size: 42 Copynumber: 2.3 Consensus size: 41
976296 TAAAACATCT
* * *
976306 ACCTCACCACGTAAAGACCGTACCTTATCACGCCATGCACC
1 ACCTCATCACGTAAAGACCGTACCTTATCACGCAAAGCACC
** * *
976347 ATTGTCGTCACGTAAAGTACCG-ACCTTATCACGCAAAGCACTG
1 A-CCTCATCACGTAAAG-ACCGTACCTTATCACGCAAAGCAC-C
976390 ACCTCATCACGTAA
1 ACCTCATCACGTAA
976404 CTCCCCTAAC
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
41 1 0.02
42 38 0.86
43 5 0.11
ACGTcount: A:0.31, C:0.35, G:0.14, T:0.20
Consensus pattern (41 bp):
ACCTCATCACGTAAAGACCGTACCTTATCACGCAAAGCACC
Found at i:978459 original size:20 final size:20
Alignment explanation
Indices: 978430--978482 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
978420 CACCCATTAA
*
978430 ATTCGGGTTGCGATTTACA-
1 ATTCGCGTTGCGATTTACAT
978449 ATTTCGCGTTGCGATTTACAT
1 A-TTCGCGTTGCGATTTACAT
*
978470 ATTCGCATTGCGA
1 ATTCGCGTTGCGA
978483 ATTTGGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.38
Consensus pattern (20 bp):
ATTCGCGTTGCGATTTACAT
Found at i:979248 original size:20 final size:19
Alignment explanation
Indices: 979223--979269 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
979213 AAAATGTTTG
*
979223 ATTAATTATAAATTAAATAA
1 ATTAATAATAAATTAAA-AA
**
979243 ATTAATAATATTTTAAAAA
1 ATTAATAATAAATTAAAAA
979262 ATTAATAA
1 ATTAATAA
979270 ACTAATACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTAATAATAAATTAAAAA
Found at i:984189 original size:24 final size:22
Alignment explanation
Indices: 984149--984225 Score: 67
Period size: 24 Copynumber: 3.6 Consensus size: 22
984139 ATGCAATTAA
984149 TGCATCGATGCA---TAAGGAG
1 TGCATCGATGCACTGTAAGGAG
984168 TGCATCGATGCACATGTTAAGG-G
1 TGCATCGATGCAC-TG-TAAGGAG
* *
984191 ATGCATCGATACACTGT-A-GAA
1 -TGCATCGATGCACTGTAAGGAG
984212 TGCATCGATGCACT
1 TGCATCGATGCACT
984226 TCAAAGGAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
19 12 0.25
20 14 0.29
21 1 0.02
22 1 0.02
23 3 0.06
24 17 0.35
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (22 bp):
TGCATCGATGCACTGTAAGGAG
Found at i:985744 original size:23 final size:23
Alignment explanation
Indices: 985710--985770 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
985700 TATGGAACTT
* *
985710 CGGTGCAATTCTACGTGGCACTA
1 CGGTGCATTTCTACGCGGCACTA
*
985733 CGGTGCATTTCTACGCGGCACTT
1 CGGTGCATTTCTACGCGGCACTA
* *
985756 CGGTGTATTTATACG
1 CGGTGCATTTCTACG
985771 AGCTGTGGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (23 bp):
CGGTGCATTTCTACGCGGCACTA
Found at i:993081 original size:336 final size:336
Alignment explanation
Indices: 992468--993139 Score: 1317
Period size: 336 Copynumber: 2.0 Consensus size: 336
992458 CAGCCTACTA
992468 TCATACTTCTCCCTTACCCCATTACATATGGGAATAAGGGTTAGCTAATTTTTAGTATTAAATTA
1 TCATACTTCTCCCTTACCCCATTACATATGGGAATAAGGGTTAGCTAATTTTTAGTATTAAATTA
992533 TTAAAATAAAATATAAATACATAATTGCATGGAGCTCATGCTTGTAAGGGTAAAATTATAATTTG
66 TTAAAATAAAATATAAATACATAATTGCATGGAGCTCATGCTTGTAAGGGTAAAATTATAATTTG
*
992598 TTTCCAAACGTAAAGTTGAAAATGAAAAAAAACTAGAAATCTTAGTTTTTGCGGTTGGTTTGAAA
131 TTTCCAAACGTAAAGTTGAAAATGAAAAAAAACTAGAAATCTTAGTTTTTACGGTTGGTTTGAAA
992663 CTACCATTTCTACCACAACTTGTTTTTTCATATTTTACCCGTTTGACATTAATTTTGCGATCAAA
196 CTACCATTTCTACCACAACTTGTTTTTTCATATTTTACCCGTTTGACATTAATTTTGCGATCAAA
*
992728 ATGAACTTTTTAACTAAAAGTGTTTTTAGAAAATCACACCAAATGATATCTAAGTCTACTTATCT
261 ATGAACTTTTTAACTAAAAGTGCTTTTAGAAAATCACACCAAATGATATCTAAGTCTACTTATCT
992793 TATTAATAGAG
326 TATTAATAGAG
992804 TCATACTTCTCCCTTACCCCATTACATATGGGAATAAGGGTTAGCTAATTTTTAGTATTAAATTA
1 TCATACTTCTCCCTTACCCCATTACATATGGGAATAAGGGTTAGCTAATTTTTAGTATTAAATTA
992869 TTAAAATAAAATATAAATACATAATTGCATGGAGCTCATGCTTGTAAGGGTAAAATTATAATTTG
66 TTAAAATAAAATATAAATACATAATTGCATGGAGCTCATGCTTGTAAGGGTAAAATTATAATTTG
992934 TTTCCAAACGTAAAGTTGAAAATGAAAAAAAACTAGAAATCTTAGTTTTTACGGTTGGTTTGAAA
131 TTTCCAAACGTAAAGTTGAAAATGAAAAAAAACTAGAAATCTTAGTTTTTACGGTTGGTTTGAAA
*
992999 CTACCATTTCTACCACAACTTGTTTTTTCATATTTTACCCGTTTGGCATTAATTTTGCGATCAAA
196 CTACCATTTCTACCACAACTTGTTTTTTCATATTTTACCCGTTTGACATTAATTTTGCGATCAAA
993064 ATGAACTTTTTAACTAAAAGTGCTTTTAGAAAATCACACCAAATGATATCTAAGTCTACTTATCT
261 ATGAACTTTTTAACTAAAAGTGCTTTTAGAAAATCACACCAAATGATATCTAAGTCTACTTATCT
993129 TATTAATAGAG
326 TATTAATAGAG
993140 GAGAAGAGTC
Statistics
Matches: 333, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
336 333 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (336 bp):
TCATACTTCTCCCTTACCCCATTACATATGGGAATAAGGGTTAGCTAATTTTTAGTATTAAATTA
TTAAAATAAAATATAAATACATAATTGCATGGAGCTCATGCTTGTAAGGGTAAAATTATAATTTG
TTTCCAAACGTAAAGTTGAAAATGAAAAAAAACTAGAAATCTTAGTTTTTACGGTTGGTTTGAAA
CTACCATTTCTACCACAACTTGTTTTTTCATATTTTACCCGTTTGACATTAATTTTGCGATCAAA
ATGAACTTTTTAACTAAAAGTGCTTTTAGAAAATCACACCAAATGATATCTAAGTCTACTTATCT
TATTAATAGAG
Found at i:1007109 original size:4 final size:4
Alignment explanation
Indices: 1007100--1007165 Score: 50
Period size: 4 Copynumber: 16.8 Consensus size: 4
1007090 TATTTTTATT
* * *
1007100 TTTA TTTA TTT- TATTA TTT- TTTA -CTA ATT- TTTA TTTA TTTT TGTTA
1 TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA
1007146 TTTA TTTA TTTTA TTTA TTT
1 TTTA TTTA -TTTA TTTA TTT
1007166 TATTATTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
3 8 0.16
4 34 0.68
5 8 0.16
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:1007113 original size:21 final size:21
Alignment explanation
Indices: 1007087--1007181 Score: 71
Period size: 19 Copynumber: 4.9 Consensus size: 21
1007077 TTTGGTCTTT
1007087 TTTTATTTTTATTTTTATTTA
1 TTTTATTTTTATTTTTATTTA
* * *
1007108 TTTTA-TTAT-TTTTTACTAA
1 TTTTATTTTTATTTTTATTTA
* *
1007127 TTTT-TATTTATTTTT-GTTA
1 TTTTATTTTTATTTTTATTTA
1007146 -TTTA--TTTATTTT-ATTTA
1 TTTTATTTTTATTTTTATTTA
* *
1007163 TTTTATTATTATTATTATT
1 TTTTATTTTTATTTTTATT
1007182 ATGTTAATTT
Statistics
Matches: 56, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
17 11 0.20
18 7 0.12
19 16 0.29
20 14 0.25
21 8 0.14
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.76
Consensus pattern (21 bp):
TTTTATTTTTATTTTTATTTA
Found at i:1007148 original size:13 final size:12
Alignment explanation
Indices: 1007084--1007172 Score: 73
Period size: 12 Copynumber: 7.6 Consensus size: 12
1007074 CATTTTGGTC
1007084 TTTT-TTTATTT
1 TTTTATTTATTT
1007095 TTATT-TTTATTT
1 TT-TTATTTATTT
1007107 ATTTTA-TTA-TT
1 -TTTTATTTATTT
* *
1007118 TTTTA-CTA-AT
1 TTTTATTTATTT
1007128 TTTTATTTATTT
1 TTTTATTTATTT
1007140 TTGTTATTTATTT
1 TT-TTATTTATTT
1007153 ATTTTATTTATTT
1 -TTTTATTTATTT
*
1007166 TATTATT
1 TTTTATT
1007173 ATTATTATTA
Statistics
Matches: 66, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
10 13 0.20
11 6 0.09
12 23 0.35
13 22 0.33
14 2 0.03
ACGTcount: A:0.20, C:0.01, G:0.01, T:0.78
Consensus pattern (12 bp):
TTTTATTTATTT
Found at i:1007163 original size:17 final size:17
Alignment explanation
Indices: 1007088--1007178 Score: 65
Period size: 17 Copynumber: 5.6 Consensus size: 17
1007078 TTGGTCTTTT
1007088 TTTATTTT-TATT-TTTA
1 TTTATTTTAT-TTATTTA
1007104 TTTATTTTA-TTATTT-
1 TTTATTTTATTTATTTA
* *
1007119 TTTA--CTAATT-TTTA
1 TTTATTTTATTTATTTA
1007133 TTTATTTT-TGTTATTTA
1 TTTATTTTAT-TTATTTA
1007150 TTTATTTTATTTATTT-
1 TTTATTTTATTTATTTA
1007166 TATTATTATTATT
1 T-TTATT-TTATT
1007179 ATTATGTTAA
Statistics
Matches: 61, Mismatches: 3, Indels: 20
0.73 0.04 0.24
Matches are distributed among these distances:
13 5 0.08
14 6 0.10
15 6 0.10
16 15 0.25
17 23 0.38
18 6 0.10
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.76
Consensus pattern (17 bp):
TTTATTTTATTTATTTA
Found at i:1007167 original size:9 final size:9
Alignment explanation
Indices: 1007094--1007178 Score: 77
Period size: 9 Copynumber: 9.2 Consensus size: 9
1007084 TTTTTTTATT
1007094 TTTATTTTTA
1 TTTA-TTTTA
1007104 TTTATTTTA
1 TTTATTTTA
*
1007113 TTATTTTTTA
1 TT-TATTTTA
* *
1007123 CTAATTTTTA
1 TTTA-TTTTA
1007133 TTTATTTT-
1 TTTATTTTA
1007141 TGTTA-TTTA
1 T-TTATTTTA
1007150 TTTATTTTA
1 TTTATTTTA
1007159 TTTATTTTA
1 TTTATTTTA
1007168 -TTATTATTA
1 TTTATT-TTA
1007177 TT
1 TT
1007179 ATTATGTTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
8 12 0.19
9 31 0.50
10 19 0.31
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.75
Consensus pattern (9 bp):
TTTATTTTA
Found at i:1007180 original size:17 final size:16
Alignment explanation
Indices: 1007087--1007181 Score: 60
Period size: 14 Copynumber: 6.1 Consensus size: 16
1007077 TTTGGTCTTT
*
1007087 TTTTATTTTTATTTTTA
1 TTTTA-TTTTATTATTA
1007104 -TTTATTTTATTATT-
1 TTTTATTTTATTATTA
* * *
1007118 TTTTA-CTAATTTTTA
1 TTTTATTTTATTATTA
*
1007133 -TTTATTTTTGTTATT-
1 TTTTA-TTTTATTATTA
1007148 TATTTATTTTA-T-TTA
1 T-TTTATTTTATTATTA
1007163 TTTTATTATTATTATTA
1 TTTTATT-TTATTATTA
1007180 TT
1 TT
1007182 ATGTTAATTT
Statistics
Matches: 59, Mismatches: 9, Indels: 20
0.67 0.10 0.23
Matches are distributed among these distances:
14 18 0.31
15 18 0.31
16 14 0.24
17 9 0.15
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.76
Consensus pattern (16 bp):
TTTTATTTTATTATTA
Found at i:1013022 original size:21 final size:21
Alignment explanation
Indices: 1012998--1013041 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1012988 CTGGTGCCGG
*
1012998 AGGAGGAGCACGAGAAGAGCT
1 AGGAGCAGCACGAGAAGAGCT
* *
1013019 AGGAGCAGCTCGTGAAGAGCT
1 AGGAGCAGCACGAGAAGAGCT
1013040 AG
1 AG
1013042 CTCCCGGGGT
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:0.34, C:0.16, G:0.41, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAAGAGCT
Found at i:1018433 original size:33 final size:33
Alignment explanation
Indices: 1018394--1018464 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
1018384 TTCACTTAGA
* *
1018394 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
1018427 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
1018460 TTTCA
1 TTTCA
1018465 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:1018588 original size:20 final size:21
Alignment explanation
Indices: 1018542--1018620 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
1018532 TTTGCAGAAG
*
1018542 AGTCGCAACGAGATAAATGAAA
1 AGTCGCAACGAGA-GAATGAAA
*
1018564 A-TCGCAACGAGAGAATG-AC
1 AGTCGCAACGAGAGAATGAAA
*
1018583 TGTCGCAACGAGAGAAATGAAA
1 AGTCGCAACGAGAG-AATGAAA
1018605 AG-CGCAACGAGAGAAT
1 AGTCGCAACGAGAGAAT
1018621 CGCAACGCTA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.02
20 19 0.39
21 26 0.53
22 3 0.06
ACGTcount: A:0.46, C:0.16, G:0.27, T:0.11
Consensus pattern (21 bp):
AGTCGCAACGAGAGAATGAAA
Found at i:1018601 original size:41 final size:41
Alignment explanation
Indices: 1018543--1018620 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
1018533 TTGCAGAAGA
* *
1018543 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAATGACT
1018584 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAAT
1018621 CGCAACGCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.45, C:0.17, G:0.27, T:0.12
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAATGACT
Found at i:1018626 original size:14 final size:14
Alignment explanation
Indices: 1018607--1018660 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
1018597 AAATGAAAAG
1018607 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
*
1018621 CGCAACGCTAAATGAAAAT
1 CGCAACG----A-GAGAAT
1018640 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
1018654 CGCAACG
1 CGCAACG
1018661 CGAAACCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 19 0.58
15 1 0.03
18 1 0.03
19 12 0.36
ACGTcount: A:0.43, C:0.24, G:0.24, T:0.09
Consensus pattern (14 bp):
CGCAACGAGAGAAT
Found at i:1018637 original size:33 final size:33
Alignment explanation
Indices: 1018597--1018661 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
1018587 GCAACGAGAG
1018597 AAATGAAAAGCGCAACGAGAGAATCGCAACGCT
1 AAATGAAAAGCGCAACGAGAGAATCGCAACGCT
*
1018630 AAATGAAAATCGCAACGAGAGAATCGCAACGC
1 AAATGAAAAGCGCAACGAGAGAATCGCAACGC
1018662 GAAACCAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.09
Consensus pattern (33 bp):
AAATGAAAAGCGCAACGAGAGAATCGCAACGCT
Found at i:1018672 original size:33 final size:33
Alignment explanation
Indices: 1018602--1018676 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
1018592 GAGAGAAATG
* * **
1018602 AAAAGCGCAACGAGAGAATCGCAACGCTAAATG
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1018635 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1018668 AAAATCGCA
1 AAAATCGCA
1018677 TTGCGATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.47, C:0.24, G:0.21, T:0.08
Consensus pattern (33 bp):
AAAATCGCAACGAGAGAATCGCAACGCGAAACC
Found at i:1018694 original size:19 final size:19
Alignment explanation
Indices: 1018672--1018769 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
1018662 GAAACCAAAA
*
1018672 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1018691 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1018705 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1018724 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
1018738 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
1018757 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1018770 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1018713 original size:14 final size:14
Alignment explanation
Indices: 1018694--1018783 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
1018684 TTTCATTTCG
1018694 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1018708 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1018727 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1018741 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
1018758 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
1018774 CGTTGCGATT
1 CGTTGCGATT
1018784 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1018719 original size:33 final size:33
Alignment explanation
Indices: 1018677--1018791 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
1018667 CAAAATCGCA
1018677 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1018710 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
1018743 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1018776 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1018792 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1020647 original size:93 final size:93
Alignment explanation
Indices: 1020488--1021147 Score: 1293
Period size: 93 Copynumber: 7.1 Consensus size: 93
1020478 TAGATTGCTT
*
1020488 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1020553 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1020581 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1020646 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1020674 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1020739 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1020767 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1020832 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1020860 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1020925 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
1020953 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1021018 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
1021046 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACATTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1021111 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1021139 AGTAAATTT
1 AGTAAATTT
1021148 ATCCATTCAA
Statistics
Matches: 563, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 563 1.00
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1021231 original size:19 final size:19
Alignment explanation
Indices: 1021191--1021319 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
1021181 TAGTTTACTT
* *
1021191 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
1021211 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
1021230 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
1021249 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
1021263 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
1021282 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
*
1021296 TCGCAACGCAAAACCAAAA
1 TCGCAACGCGAAACCAAAA
1021315 TCGCA
1 TCGCA
1021320 TTGCGATTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 21
0.74 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 3 0.03
17 4 0.04
18 2 0.02
19 46 0.52
20 13 0.15
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:1021270 original size:33 final size:32
Alignment explanation
Indices: 1021227--1021319 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
1021217 CGCGAAACCA
**
1021227 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
1021259 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
*
1021292 AAGATCGCAACGCAAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
1021320 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
32 2 0.04
33 54 0.96
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:1021337 original size:19 final size:19
Alignment explanation
Indices: 1021315--1021449 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
1021305 AAAACCAAAA
*
1021315 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1021334 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
1021350 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1021367 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
1021383 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1021400 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
1021419 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
1021439 TCGTGTTGCGA
1 TCGCGTTGCGA
1021450 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1021356 original size:14 final size:14
Alignment explanation
Indices: 1021337--1021393 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1021327 TTTCATTTCG
1021337 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
1021351 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
1021368 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
1021384 CGTTGCGATT
1 CGTTGCGATT
1021394 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:1021362 original size:33 final size:33
Alignment explanation
Indices: 1021320--1021412 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1021310 CAAAATCGCA
*
1021320 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
1021353 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1021386 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
1021413 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:1023393 original size:14 final size:14
Alignment explanation
Indices: 1023374--1023409 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1023364 ATTGTTTAAT
1023374 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1023388 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1023402 TGATTTGT
1 TGATTTGT
1023410 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1023540 original size:19 final size:19
Alignment explanation
Indices: 1023516--1023613 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
1023506 AAAATTGACT
1023516 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1023535 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1023554 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1023568 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1023587 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1023607 ATCGCAA
1 ATCGCAA
1023614 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1023645 original size:53 final size:53
Alignment explanation
Indices: 1023516--1023632 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
1023506 AAAATTGACT
1023516 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1023568 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1023621 ATCGCAATGCGA
1 ATCGCAATGCGA
1023633 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:1025968 original size:12 final size:12
Alignment explanation
Indices: 1025951--1025975 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1025941 TCTTCGGGGA
1025951 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1025963 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1025975 C
1 C
1025976 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1026184 original size:24 final size:24
Alignment explanation
Indices: 1026150--1026196 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1026140 CTGAAACATC
1026150 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1026174 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1026197 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1026907 original size:20 final size:20
Alignment explanation
Indices: 1026879--1027128 Score: 268
Period size: 20 Copynumber: 12.5 Consensus size: 20
1026869 AAATTTCAGT
* * *
1026879 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1026899 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1026919 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1026939 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1026959 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
1026979 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1026999 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
1027019 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
*
1027039 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
1027059 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
1027079 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
1027099 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
1027119 GTTGCGATTT
1 GTTGCGATTT
1027129 TGGAAAATCG
Statistics
Matches: 202, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 201 1.00
21 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:1027145 original size:21 final size:21
Alignment explanation
Indices: 1027115--1027197 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
1027105 ATTTTCATAT
*
1027115 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
1027136 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
1027157 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
1027178 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
1027198 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:1027188 original size:42 final size:43
Alignment explanation
Indices: 1027095--1027193 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
1027085 ATTTATGTGT
* *
1027095 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
1027136 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
1027178 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
1027194 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:1027892 original size:20 final size:21
Alignment explanation
Indices: 1027855--1027894 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1027845 AAATGTTAAA
*
1027855 AAATATTAATGTTTTAGGTAG
1 AAATAATAATGTTTTAGGTAG
1027876 AAATAATAATG-TTTAGGTA
1 AAATAATAATGTTTTAGGTA
1027895 ATTCTAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (21 bp):
AAATAATAATGTTTTAGGTAG
Found at i:1027902 original size:26 final size:26
Alignment explanation
Indices: 1027873--1027925 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
1027863 ATGTTTTAGG
1027873 TAGAAATAATAATGTTTAGGTAATTC
1 TAGAAATAATAATGTTTAGGTAATTC
1027899 TAGAAATAATAATGTTTAGGTAATTC
1 TAGAAATAATAATGTTTAGGTAATTC
1027925 T
1 T
1027926 TTATCGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.40
Consensus pattern (26 bp):
TAGAAATAATAATGTTTAGGTAATTC
Found at i:1031485 original size:21 final size:21
Alignment explanation
Indices: 1031459--1031503 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1031449 GATTTCTGGG
* *
1031459 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1031480 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1031501 CAA
1 CAA
1031504 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1038534 original size:21 final size:21
Alignment explanation
Indices: 1038508--1038547 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1038498 CCCCCTTTGA
*
1038508 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
1038529 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
1038548 TGGGGTTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:1045208 original size:64 final size:64
Alignment explanation
Indices: 1045119--1045269 Score: 173
Period size: 64 Copynumber: 2.3 Consensus size: 64
1045109 ATGCACATTC
* * *
1045119 ATAAGTGCATCGATGCATTCCTTTAAAAGAAGAACATCGAATGCCTTTGATGCATCGATG-CATA
1 ATAA-TGCATCGATGCATTCCTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGACA-A
1045183 G
64 G
* * *
1045184 ATAATGCATCGATGCA-TCTTTTTAAAATAAAAACATCGAATGCATTTTATGCACCGATGTACAA
1 ATAATGCATCGATGCATTC-CTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATG-ACAA
1045248 G
64 G
* *
1045249 -TAGTGCATCGATGCATACCTT
1 ATAATGCATCGATGCATTCCTT
1045270 CATTGAAAGA
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
63 2 0.03
64 62 0.85
65 7 0.10
66 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (64 bp):
ATAATGCATCGATGCATTCCTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGACAAG
Found at i:1046018 original size:31 final size:31
Alignment explanation
Indices: 1045924--1046018 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 31
1045914 AGTCGAGGGT
*
1045924 TTTACCTATG-TCTTTCGAGACATATGGACAG
1 TTTACCTATGTTCTTT-GGGACATATGGACAG
* ** * *
1045955 TATACCTATGTTCTAAGGAACATATAGACAG
1 TTTACCTATGTTCTTTGGGACATATGGACAG
* *
1045986 TTTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTTACCTATGTTCTTTGGGACATATGGACAG
1046017 TT
1 TT
1046019 GTCGAGGTTC
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
31 47 0.94
32 3 0.06
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (31 bp):
TTTACCTATGTTCTTTGGGACATATGGACAG
Found at i:1050575 original size:21 final size:21
Alignment explanation
Indices: 1050546--1050585 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1050536 GGTAAAAAAT
*
1050546 TACCTAAAATATTATTATTTC
1 TACCGAAAATATTATTATTTC
1050567 TACCGAAAATATTATTATT
1 TACCGAAAATATTATTATT
1050586 AATGCTTTAC
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:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (21 bp):
TACCGAAAATATTATTATTTC
Found at i:1056299 original size:17 final size:18
Alignment explanation
Indices: 1056258--1056296 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
1056248 ATTATATAAG
1056258 TAAAATA-TTAAATAAAT
1 TAAAATACTTAAATAAAT
1056275 TAAAATACTTAAATAAAT
1 TAAAATACTTAAATAAAT
1056293 TAAA
1 TAAA
1056297 TACAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATACTTAAATAAAT
Found at i:1056783 original size:25 final size:24
Alignment explanation
Indices: 1056753--1056809 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
1056743 AGTGTATGAT
1056753 TTATTATACTA-TTTATT-TGAATAA
1 TTATTATA-TAGTTTATTATGAA-AA
1056777 TATATTATTATAGTTTATTATGAAAA
1 T-TATTA-TATAGTTTATTATGAAAA
1056803 TTATTAT
1 TTATTAT
1056810 TTTTATTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
24 2 0.07
25 12 0.41
26 11 0.38
27 4 0.14
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (24 bp):
TTATTATATAGTTTATTATGAAAA
Found at i:1059102 original size:30 final size:30
Alignment explanation
Indices: 1059047--1059120 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
1059037 TCAAACGGTC
* *
1059047 GGGGACCATATTGCAAACTGACTAAATGTT
1 GGGGACCATATTGAAAACAGACTAAATGTT
* *
1059077 GGGGTCCATTTTGAAAACAGACTAAATGTT
1 GGGGACCATATTGAAAACAGACTAAATGTT
*
1059107 GAGGGACTATATTG
1 G-GGGACCATATTG
1059121 TAATTTTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 27 0.75
31 9 0.25
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GGGGACCATATTGAAAACAGACTAAATGTT
Found at i:1061637 original size:20 final size:20
Alignment explanation
Indices: 1061612--1061652 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1061602 AGCCAAGTTG
1061612 AATGATAACGGTAGAAATGC
1 AATGATAACGGTAGAAATGC
1061632 AATGATAACGGTAGAAATGC
1 AATGATAACGGTAGAAATGC
1061652 A
1 A
1061653 GTGAACCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.24, T:0.20
Consensus pattern (20 bp):
AATGATAACGGTAGAAATGC
Found at i:1066309 original size:20 final size:20
Alignment explanation
Indices: 1066286--1066330 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 20
1066276 AATAGTTTAC
1066286 AATTAATTTAAATAATATCT
1 AATTAATTTAAATAATATCT
1066306 AATT-A--TAAATAATATCT
1 AATTAATTTAAATAATATCT
1066323 AA-TAATTT
1 AATTAATTT
1066331 GACTCAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
16 1 0.05
17 15 0.68
19 2 0.09
20 4 0.18
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTAATTTAAATAATATCT
Found at i:1066316 original size:17 final size:16
Alignment explanation
Indices: 1066289--1066325 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 16
1066279 AGTTTACAAT
1066289 TAATTTAAATAATATC
1 TAATTTAAATAATATC
1066305 TAATTATAAATAATATC
1 TAATT-TAAATAATATC
1066322 TAAT
1 TAAT
1066326 AATTTGACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATTTAAATAATATC
Found at i:1074765 original size:3 final size:3
Alignment explanation
Indices: 1074757--1074790 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
1074747 GGGTTTTAAT
1074757 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTGA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
1074791 CATTTTTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1075765 original size:20 final size:20
Alignment explanation
Indices: 1075731--1075788 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1075721 GTATGAATAA
*
1075731 GATGAACAA-TATCGATACT
1 GATGAAGAAGTATCGATACT
*
1075750 GATGAAGTAGTATCGATACT
1 GATGAAGAAGTATCGATACT
**
1075770 GATGTGGAAGTATCGATAC
1 GATGAAGAAGTATCGATAC
1075789 CAAAAGGAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 7 0.21
20 26 0.79
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (20 bp):
GATGAAGAAGTATCGATACT
Found at i:1081642 original size:23 final size:24
Alignment explanation
Indices: 1081570--1081681 Score: 115
Period size: 23 Copynumber: 4.8 Consensus size: 24
1081560 GAGTCGAGGG
* *
1081570 TTCTACGCGGTCCTTTGGGACAAA
1 TTCTACGTGGTCCTTCGGGACAAA
*
1081594 TTTCTACGTGGTCATTCGGGA-AAA
1 -TTCTACGTGGTCCTTCGGGACAAA
* * *
1081618 ATCTATGTGGTCCTTCGAGACAAA
1 TTCTACGTGGTCCTTCGGGACAAA
*
1081642 TTCTACGCGGTCCTTC-GGAC-AA
1 TTCTACGTGGTCCTTCGGGACAAA
1081664 TTCTACGTGG-CACTTCGG
1 TTCTACGTGGTC-CTTCGG
1081682 TGCAATTTAT
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.01
22 15 0.21
23 20 0.28
24 19 0.26
25 17 0.24
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.30
Consensus pattern (24 bp):
TTCTACGTGGTCCTTCGGGACAAA
Done.