Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 170 of 204
Found at i:50733201 original size:57 final size:57
Alignment explanation
Indices: 50733131--50733243 Score: 217
Period size: 57 Copynumber: 2.0 Consensus size: 57
50733121 TTTCTTAAAA
*
50733131 ACGCCGTTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTT
1 ACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTT
50733188 ACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGTTTTTTT
1 ACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGTTTTTTT
50733244 GCGGCGCTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (57 bp):
ACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTT
Found at i:50733307 original size:73 final size:72
Alignment explanation
Indices: 50733188--50733342 Score: 220
Period size: 73 Copynumber: 2.1 Consensus size: 72
50733178 TGTTTTTTTT
** *
50733188 ACGCCGCTAAATCCCCAAAAGCCCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTT
1 ACGCCGCTAAATCCCCAAAAGCCCACAAAACAACGTCGTTGGGCTTA-GGTTTTTTGCGGCGCTT
50733253 TCTCAAAA
65 TCTCAAAA
* **
50733261 ACGCCGCTAAATCCCCAAAAGCTCTGAAAACAACGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTT
1 ACGCCGCTAAATCCCCAAAAGCCCACAAAACAACGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTT
* **
50733326 TTGGAAA
66 CTCAAAA
50733333 ACGCCGCTAA
1 ACGCCGCTAA
50733343 TGCTTATTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
72 31 0.42
73 42 0.58
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (72 bp):
ACGCCGCTAAATCCCCAAAAGCCCACAAAACAACGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTT
CTCAAAA
Found at i:50733802 original size:15 final size:16
Alignment explanation
Indices: 50733784--50733813 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50733774 TCACATTACA
50733784 AAAATTA-TTTACATG
1 AAAATTATTTTACATG
50733799 AAAATTATTTTACAT
1 AAAATTATTTTACAT
50733814 TGCCAACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (16 bp):
AAAATTATTTTACATG
Found at i:50733880 original size:15 final size:16
Alignment explanation
Indices: 50733850--50733883 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
50733840 TTACATAATT
*
50733850 CAAAATTTATATTTTA
1 CAAAATATATATTTTA
50733866 CAAAATATA-ATTTTA
1 CAAAATATATATTTTA
50733881 CAA
1 CAA
50733884 TTGCAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (16 bp):
CAAAATATATATTTTA
Found at i:50744183 original size:15 final size:16
Alignment explanation
Indices: 50744163--50744192 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50744153 TGGTGCCTTG
50744163 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
50744178 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
50744193 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:50764232 original size:25 final size:26
Alignment explanation
Indices: 50764204--50764252 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
50764194 TAAATGAAGT
50764204 TATAAATGTAATG-TT-GGTTTGAATA
1 TATAAATGT-ATGTTTGGGTTTGAATA
50764229 TATAAATGTATGTTTGGGTTTGAA
1 TATAAATGTATGTTTGGGTTTGAA
50764253 GCCATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 3 0.14
25 11 0.50
26 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.45
Consensus pattern (26 bp):
TATAAATGTATGTTTGGGTTTGAATA
Found at i:50764259 original size:26 final size:25
Alignment explanation
Indices: 50764205--50764259 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
50764195 AAATGAAGTT
* *
50764205 ATAAATGTAATGTTGGTTTGAATAT
1 ATAAATGTAATGTTGGTTTGAAGAC
*
50764230 ATAAATGT-ATGTTTGGGTTTGAAGCC
1 ATAAATGTAATG-TT-GGTTTGAAGAC
50764256 ATAA
1 ATAA
50764260 TTTGACATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 3 0.12
25 10 0.40
26 12 0.48
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.40
Consensus pattern (25 bp):
ATAAATGTAATGTTGGTTTGAAGAC
Found at i:50765137 original size:18 final size:18
Alignment explanation
Indices: 50765114--50765149 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
50765104 AATAGAGATA
50765114 GAGTCATTAGCTATGTTG
1 GAGTCATTAGCTATGTTG
50765132 GAGTCATTAGCTATGTTG
1 GAGTCATTAGCTATGTTG
50765150 ATGCTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.28, T:0.39
Consensus pattern (18 bp):
GAGTCATTAGCTATGTTG
Found at i:50773126 original size:35 final size:35
Alignment explanation
Indices: 50773087--50773157 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
50773077 AGAAAGAATC
50773087 TACCTTTGTTTTCTTGTTTTTTTGTTGTTAGCATA
1 TACCTTTGTTTTCTTGTTTTTTTGTTGTTAGCATA
50773122 TACCTTTGTTTTCTTGTTTTTTTGTTGTTAGCATA
1 TACCTTTGTTTTCTTGTTTTTTTGTTGTTAGCATA
50773157 T
1 T
50773158 CTTCAACAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.11, C:0.11, G:0.14, T:0.63
Consensus pattern (35 bp):
TACCTTTGTTTTCTTGTTTTTTTGTTGTTAGCATA
Found at i:50778371 original size:20 final size:20
Alignment explanation
Indices: 50778346--50778390 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
50778336 TGTTAAAACA
50778346 TTATTAACACGAAAATAACT
1 TTATTAACACGAAAATAACT
50778366 TTATTAACACGAAAATAACT
1 TTATTAACACGAAAATAACT
50778386 TTATT
1 TTATT
50778391 TTTGAGTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (20 bp):
TTATTAACACGAAAATAACT
Found at i:50778914 original size:3 final size:3
Alignment explanation
Indices: 50778906--50778940 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
50778896 ATACTATCGC
50778906 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
50778941 AATCAATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:50779268 original size:73 final size:75
Alignment explanation
Indices: 50779164--50779314 Score: 180
Period size: 73 Copynumber: 2.0 Consensus size: 75
50779154 GAAGTAAAAG
* *
50779164 AATAAATAAGTGAATAATAGATAAAACAAATGTAAACAATTTTAAATTTAAGCATTTGAAAAGTA
1 AATAAATAAGT-AATAATAGATAAAACAAATGTAAACAATATTAAATTTAAACATTTGAAAAGTA
50779229 AAAGAATAATA
65 AAAGAATAATA
** ** * * * *
50779240 AATAAATAAGT-A-AATAGATAAAGTAAATGTTCATAATATTAGATTTAAATATTTTAAAAGTAA
1 AATAAATAAGTAATAATAGATAAAACAAATGTAAACAATATTAAATTTAAACATTTGAAAAGTAA
*
50779303 AAGAATGATA
66 AAGAATAATA
50779313 AA
1 AA
50779315 AGGATGAGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
73 52 0.81
74 1 0.02
76 11 0.17
ACGTcount: A:0.57, C:0.03, G:0.11, T:0.30
Consensus pattern (75 bp):
AATAAATAAGTAATAATAGATAAAACAAATGTAAACAATATTAAATTTAAACATTTGAAAAGTAA
AAGAATAATA
Found at i:50779340 original size:73 final size:71
Alignment explanation
Indices: 50779217--50779383 Score: 167
Period size: 73 Copynumber: 2.3 Consensus size: 71
50779207 AAATTTAAGC
* * * * *
50779217 ATTTGAAAAGTAAAAGAATAATAAATAAATAAGTAAATAGATAAAGTAAATGTTCATAATATTAG
1 ATTTTAAAAGTAAAAGAATGATAAATAAATAAGTAAATAAATAAAGTAAAT-AT-ATAATATTAA
**
50779282 ATTTAAAT
64 ACATAAAT
* * *
50779290 ATTTTAAAAGTAAAAGAATGATAAA-AGGATGAGTAAATAAATGAAA-TAAATATATAGTATTAA
1 ATTTTAAAAGTAAAAGAATGATAAATA-AATAAGTAAATAAAT-AAAGTAAATATATAATATTAA
*
50779353 ACATAGAT
64 ACATAAAT
*
50779361 ATTTTAAACGGTAAAAGAATGAT
1 ATTTTAAA-AGTAAAAGAATGAT
50779384 GAACAAAAGT
Statistics
Matches: 79, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
71 21 0.27
72 15 0.19
73 40 0.51
74 3 0.04
ACGTcount: A:0.55, C:0.02, G:0.13, T:0.30
Consensus pattern (71 bp):
ATTTTAAAAGTAAAAGAATGATAAATAAATAAGTAAATAAATAAAGTAAATATATAATATTAAAC
ATAAAT
Found at i:50782390 original size:28 final size:28
Alignment explanation
Indices: 50782359--50782417 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
50782349 AGGCAAACAA
50782359 CGAGATAG-CACTGCGAAGTGGCAAGGTG
1 CGAG-TAGACACTGCGAAGTGGCAAGGTG
* * **
50782387 CGAGTTGACGCTTTGAAGTGGCAAGGTG
1 CGAGTAGACACTGCGAAGTGGCAAGGTG
50782415 CGA
1 CGA
50782418 ACTGTAGCTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.25, C:0.17, G:0.39, T:0.19
Consensus pattern (28 bp):
CGAGTAGACACTGCGAAGTGGCAAGGTG
Found at i:50785354 original size:98 final size:98
Alignment explanation
Indices: 50785182--50785376 Score: 363
Period size: 98 Copynumber: 2.0 Consensus size: 98
50785172 ACAATAAAAT
*
50785182 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
50785247 TCTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
50785280 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
50785345 TTTAAAATCCCAAACTCGGAATATTTCCTTTA
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTA
50785377 TTATTTTTAG
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
Found at i:50786857 original size:19 final size:19
Alignment explanation
Indices: 50786833--50786945 Score: 172
Period size: 19 Copynumber: 5.8 Consensus size: 19
50786823 AATCATATAT
50786833 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
50786852 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
50786871 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
50786892 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
50786911 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
50786930 TCTAAGATTTCATATC
1 TCTAAGATTGCATATC
50786946 CTCAAAAATT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
19 66 0.78
21 19 0.22
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:50786898 original size:40 final size:38
Alignment explanation
Indices: 50786810--50786945 Score: 173
Period size: 40 Copynumber: 3.4 Consensus size: 38
50786800 AAATTAAATC
*
50786810 TCTAAGATTACAAAATCATATATTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATC--ATA-TCTAAGATTGCATATCATA
*
50786852 TCTAAGATTATATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGC--ATATCATA
* *
50786892 TCTAAGATTGCATATCATATCTAGGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
*
50786930 TCTAAGATTTCATATC
1 TCTAAGATTACATATC
50786946 CTCAAAAATT
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
38 34 0.40
39 3 0.03
40 35 0.41
41 4 0.05
42 10 0.12
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:50786900 original size:59 final size:59
Alignment explanation
Indices: 50786833--50786944 Score: 188
Period size: 59 Copynumber: 1.9 Consensus size: 59
50786823 AATCATATAT
*
50786833 TCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTGCATATATCATA
* * *
50786892 TCTAAGATTGCATATCATATCTAGGATTGCATATCATATCTAAGATTTCATAT
1 TCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTGCATAT
50786945 CCTCAAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (59 bp):
TCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTGCATATATCATA
Found at i:50786944 original size:38 final size:38
Alignment explanation
Indices: 50786825--50786945 Score: 176
Period size: 40 Copynumber: 3.2 Consensus size: 38
50786815 GATTACAAAA
50786825 TCATAT-AT-TCTAAGATTGCATATCATATCTAAGATT
1 TCATATCATATCTAAGATTGCATATCATATCTAAGATT
50786861 AT-ATATCATATCTAAGATTGCATATATCATATCTAAGATT
1 -TCATATCATATCTAAGATTGC--ATATCATATCTAAGATT
* *
50786901 GCATATCATATCTAGGATTGCATATCATATCTAAGATT
1 TCATATCATATCTAAGATTGCATATCATATCTAAGATT
50786939 TCATATC
1 TCATATC
50786946 CTCAAAAATT
Statistics
Matches: 76, Mismatches: 3, Indels: 9
0.86 0.03 0.10
Matches are distributed among these distances:
36 4 0.05
37 3 0.04
38 34 0.45
40 35 0.46
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (38 bp):
TCATATCATATCTAAGATTGCATATCATATCTAAGATT
Found at i:50787328 original size:44 final size:44
Alignment explanation
Indices: 50787280--50787738 Score: 151
Period size: 44 Copynumber: 10.4 Consensus size: 44
50787270 AAAGTCCACC
*
50787280 ATCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTACTTAGGGAGATAAGATCTGAA
* ** * * *
50787324 ATCTTCAATCTATTCCACTGTTGCCTAGGGA-AGT-AGAAT-T-ACT
1 ATCTTCAATCTACTCCACTACTACTTAGGGAGA-TAAG-ATCTGA-A
* * * * * * *
50787367 AGCTTCAATGTACTCCACTGTAACCAC--AGGGAGGTAAAATCCGCA
1 ATCTTCAATCTACTCCAC--T-ACTACTTAGGGAGATAAGATCTGAA
* *
50787412 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTACTTAGGGAGATAAGATCTGAA
* ** * * *
50787456 ATCTTCAATCTATTCCACTGTTGCTCA-GGAAAGT-AGAAT-T--A
1 ATCTTCAATCTACTCCACTACTACTTAGGGAGA-TAAG-ATCTGAA
* * ** * * * **
50787497 TTGGCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCGCC
1 AT--CTTCAATCTACTCCACTACT-A-CTTAGGGAGATAAGATCTGAA
* * *
50787544 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTACTTAGGGAGATAAGATCTGAA
* ** * ** *
50787588 ATCTTCAATCTATTCCACTGTTGCCCAGGGA-AGT-AGAAT-T-ACT
1 ATCTTCAATCTACTCCACTACTACTTAGGGAGA-TAAG-ATCTGA-A
* * ** * * * **
50787631 AGCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTACT-A-CTTAGGGAGATAAGATCTGAA
* * *
50787676 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTACTTAGGGAGATAAGATCTGAA
* *
50787720 ATCTTTAATCTATTCCACT
1 ATCTTCAATCTACTCCACT
50787739 GCTGCCCAGG
Statistics
Matches: 289, Mismatches: 92, Indels: 68
0.64 0.20 0.15
Matches are distributed among these distances:
41 2 0.01
42 7 0.02
43 62 0.21
44 161 0.56
45 53 0.18
46 3 0.01
47 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTACTTAGGGAGATAAGATCTGAA
Found at i:50787354 original size:132 final size:132
Alignment explanation
Indices: 50787174--50788088 Score: 1189
Period size: 132 Copynumber: 6.9 Consensus size: 132
50787164 CTGCAACTGC
* * * * *
50787174 AGGGAGATAAGA-CTTACAATCTTCAACCTATTCCACTGCTGACCAGGG-AGATAGGATTACTGA
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGCCCAGGGAAG-TAGAATTACTGA
* * * * *
50787237 CTTCAATGTACTCTACTGTAACCACAGGGAGGTAAAGTCCACCATCTTCGATCTACTCCACTACT
64 CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
50787302 ACTT
129 ACTT
*
50787306 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACT-AGC
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGA-C
* * * *
50787370 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCAATCTTCAATCTGCTCCACTACTG
65 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTA
50787435 CTT
130 CTT
* * * *
50787438 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCTCAGGAAAGTAGAATTATTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGACT
*
50787503 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTAC
50787568 TT
131 TT
50787570 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACT-AGC
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGA-C
*
50787634 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG
65 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTA
50787699 CTT
130 CTT
* * * * *
50787702 AGGGAGATAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAAAATTAATGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGACT
* * * *
50787767 TCAATGTACTCCACTATAACCACATGGAGGTAAAATCCGCCATCTTCGATCTGCTTCGCT-GTCA
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT-A
* *
50787831 ATGC
130 CT-T
* ** ** * * * *
50787835 AGGAAGGCAAGATCTGCTATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTATTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGACT
* * *
50787900 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGTCATCTTCGATCTGCTTCGCTA-TCA
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT-A
* *
50787964 ATGC
130 CT-T
* * ** * * *
50787968 AAGAAGGCAAGATCT-ACTATCTTTAATCTATTCCACTATTGCCCCAGGGAAGTAGAATTACT-A
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTG-CCCAGGGAAGTAGAATTACTGA
*
50788031 GCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCT
64 -CTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
50788089 TCGCTGTCAA
Statistics
Matches: 717, Mismatches: 54, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
131 2 0.00
132 477 0.67
133 164 0.23
134 74 0.10
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGACT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTAC
TT
Found at i:50793624 original size:98 final size:98
Alignment explanation
Indices: 50793452--50793646 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
50793442 ACAATAAAAT
* *
50793452 TTTAAAAGAACATCCACTTATTCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* *
50793517 TCTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCGAAATATTTCCTTTAC
50793550 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
50793615 TTTAAAATCCCAAACTCGAAATATTTCCTTTA
66 TCTAAAATCCCAAACTCGAAATATTTCCTTTA
50793647 TTGTTTTTAG
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCGAAATATTTCCTTTAC
Found at i:50795124 original size:19 final size:19
Alignment explanation
Indices: 50795100--50795192 Score: 141
Period size: 19 Copynumber: 4.8 Consensus size: 19
50795090 AATCATATAT
50795100 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
50795119 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
50795138 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
50795159 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
50795178 TCTAGGATTGCATAT
1 TCTAAGATTGCATAT
50795193 ACTCAAAAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
19 48 0.72
21 19 0.28
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:50795165 original size:40 final size:40
Alignment explanation
Indices: 50795077--50795193 Score: 148
Period size: 40 Copynumber: 2.9 Consensus size: 40
50795067 AAATTAAATC
*
50795077 TCTAAGATTACAAAATCATATATTCTAAGATTGC--ATATCATA
1 TCTAAGATTAC-ATATC--ATA-TCTAAGATTGCATATATCATA
*
50795119 TCTAAGATTATATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATATCATA
* *
50795159 TCTAAGATTGCATATCATATCTAGGATTGCATATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATA
50795194 CTCAAAAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 11 0.16
39 3 0.04
40 40 0.59
41 4 0.06
42 10 0.15
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (40 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATATCATA
Found at i:50802686 original size:18 final size:19
Alignment explanation
Indices: 50802663--50802707 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
50802653 AGAAATTTTT
*
50802663 TAAATTATTTT-TGTTAGG
1 TAAATTATTTTATATTAGG
*
50802681 TAAATTGTTTTTATATTAGG
1 TAAATT-ATTTTATATTAGG
50802701 TAAATTA
1 TAAATTA
50802708 CATTTGTAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 6 0.27
19 4 0.18
20 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (19 bp):
TAAATTATTTTATATTAGG
Found at i:50806773 original size:128 final size:128
Alignment explanation
Indices: 50806593--50807215 Score: 998
Period size: 128 Copynumber: 4.9 Consensus size: 128
50806583 AGATTTGTGG
* ** * ** ** *
50806593 CTTTAGTCTGCTCCACTACAACTTCAGGGATATAAGGTTTGATATGATCTGCTCTACTACAACTT
1 CTTTTGTCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTT
*
50806658 CAGAGAGATAAGATCTATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTT
65 CAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTT
* *
50806722 CTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCAATCTGCTCTACTACAACTTC
1 CTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTC
50806787 AGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTT
66 AGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTT
50806850 CTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTC
1 CTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTC
* * * *
50806915 AGAGAGATAAGATCTGTAGTTTTAATCTGCTCCACTGCAATTTCAAGGAGATAGGATTGGTTT
66 AGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTT
* *
50806978 CTTTTGTCTGCTCCACTACTAC-TAAGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTC
1 CTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTC
* *
50807042 AGATG-GATAAGATCTGTGGTTTTAATCCGCTCTACTGCAACTTCAGAGAGATAGGATTGGTTT
66 AGA-GAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTT
* * *
50807105 CTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCAATCTACTCTACTGTAACTTC
1 CTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTC
*
50807170 AGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAG
66 AGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAG
50807216 ACAGATAAGA
Statistics
Matches: 460, Mismatches: 31, Indels: 7
0.92 0.06 0.01
Matches are distributed among these distances:
127 118 0.26
128 321 0.70
129 21 0.05
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (128 bp):
CTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTC
AGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTT
Found at i:50807101 original size:255 final size:255
Alignment explanation
Indices: 50806593--50807214 Score: 987
Period size: 255 Copynumber: 2.4 Consensus size: 255
50806583 AGATTTGTGG
* ** * ** ** *
50806593 CTTTAGTCTGCTCCACTACAACTTCAGGGATATAAGGTTTGATATGATCTGCTCTACTACAACTT
1 CTTTTGTCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTT
* *
50806658 CAGAGAGATAAGATCTATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTC
65 CAGAGAGATAAGATCTGT-GTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTGGTTTC
* *
50806723 TTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCAATCTGCTCTACTACAACTTCA
129 TTTTGTCTGCTCCACTACTACTTAAGGAGATAAGACTTGATGCAATCTGCTCTACTACAACTTCA
*
50806788 GAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTT
194 GAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTT
50806850 CTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTC
1 CTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTC
* *
50806915 AGAGAGATAAGATCTGTAGTTTTAATCTGCTCCACTGCAATTTCAAGGAGATAGGATTGGTTTCT
66 AGAGAGATAAGATCTGT-GTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTGGTTTCT
* *
50806980 TTTGTCTGCTCCACTACTAC-TAAGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAG
130 TTTGTCTGCTCCACTACTACTTAAGGAGATAAGACTTGATGCAATCTGCTCTACTACAACTTCAG
*
50807044 ATG-GATAAGATCTGTGGTTTTAATCCGCTCTACTGCAACTTCAGAGAGATAGGATTGGTTT
195 A-GAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTT
* * *
50807105 CTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCAATCTACTCTACTGTAACTTC
1 CTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTC
50807170 AGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCA
66 AGAGAGATAAGATCTGTG-TTTTAATCCGCTCCACTGCAACTTCA
50807215 GACAGATAAG
Statistics
Matches: 338, Mismatches: 25, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
254 1 0.00
255 201 0.59
256 115 0.34
257 21 0.06
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (255 bp):
CTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTC
AGAGAGATAAGATCTGTGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTGGTTTCTT
TTGTCTGCTCCACTACTACTTAAGGAGATAAGACTTGATGCAATCTGCTCTACTACAACTTCAGA
GAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTT
Found at i:50807320 original size:50 final size:50
Alignment explanation
Indices: 50807259--50807403 Score: 130
Period size: 50 Copynumber: 2.9 Consensus size: 50
50807249 TGCAATGTCG
* * *
50807259 GGGAAACAAGATTCGCCTTTATAGCTTCAATCTGTTCCACTGCACCGCCA
1 GGGAATCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * * * ** * ** *
50807309 GGGAAGT-AAGATTTGCCATTGTGGCTTCAATATTTTAAATTGCAATGTCA
1 GGGAA-TCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * *
50807359 GGGAATCAAGATTCGCCGTCGTAGCTTCAATCCGTTCCACTGCAC
1 GGGAATCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCAC
50807404 TTCCAAGTAA
Statistics
Matches: 69, Mismatches: 24, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
49 1 0.01
50 68 0.99
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (50 bp):
GGGAATCAAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCGCCA
Found at i:50807369 original size:100 final size:100
Alignment explanation
Indices: 50807234--50807535 Score: 351
Period size: 100 Copynumber: 3.1 Consensus size: 100
50807224 GATTAGTAGT
* * **
50807234 TTCAATATTTTAAATTGCAATGTCGGGGAAACAAGATTCGCCTTTATAGCTTCAATCTGTTCCAC
1 TTCAATATTTTAAATTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCAC
* *
50807299 TGCACCGCCAGGGAAGTAAGATTTGCCATTGTGGC
66 TGCACCGCCAGGGAAGTAAGATTCGCCATTGCGGC
* *
50807334 TTCAATATTTTAAATTGCAATGTCAGGGAATCAAGATTCGCCGTCGTAGCTTCAATCCGTTCCAC
1 TTCAATATTTTAAATTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCAC
** * *
50807399 TGCACTTCC----AAGTAAGATTCGTCGTTGCGGC
66 TGCACCGCCAGGGAAGTAAGATTCGCCATTGCGGC
* * * * * * * *
50807430 TTCAATCTTTTTAATTGTAATGTCAGAGAAACAATATTCGCAGTCGTAGCTTTAATCTATTCCAC
1 TTCAATATTTTAAATTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCAC
* * * * *
50807495 TACACCGCCAGGGAAGTAAAATTCACCGTTGCGGT
66 TGCACCGCCAGGGAAGTAAGATTCGCCATTGCGGC
50807530 TTCAAT
1 TTCAAT
50807536 CCACTTTGCT
Statistics
Matches: 169, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
96 79 0.47
100 90 0.53
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (100 bp):
TTCAATATTTTAAATTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCAC
TGCACCGCCAGGGAAGTAAGATTCGCCATTGCGGC
Found at i:50807615 original size:45 final size:44
Alignment explanation
Indices: 50807559--50807831 Score: 151
Period size: 45 Copynumber: 6.1 Consensus size: 44
50807549 AACTATGGTG
* *
50807559 TCTTCGATTTGCTTCGCCATCAATGCAGGAAGGCAAGATCTGTTA
1 TCTTCGATTTGCTTCGCCGTCAATACAGGAAGGCAAGATCTG-TA
* * * * *
50807604 TCTTC-AGTTTGCTCCACCGTCAATACTGGAAGGCAAG-GCTAGTG
1 TCTTCGA-TTTGCTTCGCCGTCAATACAGGAAGGCAAGATCT-GTA
* * *
50807648 TCTTCGATCTGCTTCGTCGTCAGTACAGGAAGGCAAGATCTGCTA
1 TCTTCGATTTGCTTCGCCGTCAATACAGGAAGGCAAGATCTG-TA
* * * * *** *
50807693 TCTT-TAGTCTACTCCGCTACCAATACAGGAAGACAAGA-CTTGCTA
1 TCTTCGA-TTTGCTTCGCCGTCAATACAGGAAGGCAAGATC-TG-TA
* *** * *
50807738 TCTTCAATCCACTTCGCTGTCAATACAGGAAGACAAGA-CTTGCTA
1 TCTTCGATTTGCTTCGCCGTCAATACAGGAAGGCAAGATC-TG-TA
* * * * * *
50807783 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATATGCTA
1 TCTTCGATTTGCTTCGCCGTCAATACAGGAAGGCAAGATCTG-TA
50807828 TCTT
1 TCTT
50807832 TAGTCTATTT
Statistics
Matches: 186, Mismatches: 33, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
44 36 0.19
45 149 0.80
46 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (44 bp):
TCTTCGATTTGCTTCGCCGTCAATACAGGAAGGCAAGATCTGTA
Found at i:50807717 original size:89 final size:88
Alignment explanation
Indices: 50807556--50808000 Score: 280
Period size: 90 Copynumber: 5.0 Consensus size: 88
50807546 TCAAACTATG
* * * * * * * *
50807556 GTGTCTTCGATTTGCTTCGCCATCAATGCAGGAAGGCAAGATCTGTTATCTTCAGTTTGCTCCAC
1 GTGTCTTCGATCTGCTTCG-CGTCAATACAGGAAGGCAAGATCTGCTATCTTTAGTCTACTCCGC
* * * * *
50807621 CGTCAATACTGGAAGGCAAGGCTA
65 TGCCAATACAGGAAGACAAGACTA
*
50807645 GTGTCTTCGATCTGCTTCGTCGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTACTCCGC
1 GTGTCTTCGATCTGCTTCG-CGTCAATACAGGAAGGCAAGATCTGCTATCTTTAGTCTACTCCGC
* *
50807710 TACCAATACAGGAAGACAAGACTT
65 TGCCAATACAGGAAGACAAGACTA
* * ** * * *
50807734 GCTATCTTCAATCCACTTCGCTGTCAATACAGGAAGACAAGA-CTTGCTATC-TTCGATCTACTT
1 G-TGTCTTCGATCTGCTTCGC-GTCAATACAGGAAGGCAAGATC-TGCTATCTTTAG-TCTACTC
50807797 CGCTGCCAATACAGGAAGACAAGA-TA
62 CGCTGCCAATACAGGAAGACAAGACTA
* * ** * * * *
50807823 TGCTATCTT-TAGTCTATTTTGCTGCCAATACAGGAAGACAAGA-CTTGCTATATTT-GATCTAC
1 -G-TGTCTTCGA-TCTGCTTCGC-GTCAATACAGGAAGGCAAGATC-TGCTATCTTTAG-TCTAC
* * *
50807885 TTCGCTACCAATAAAGGAAGACAAGATCT-
60 TCCGCTGCCAATACAGGAAGACAAGA-CTA
* ** * * * *
50807914 GCTATCTTC-AGTCCACTTCACTGCCAATACAGGAAGACAAGA-CTTGCTATC-TTCGATCTACT
1 G-TGTCTTCGA-TCTGCTTCGC-GTCAATACAGGAAGGCAAGATC-TGCTATCTTTAG-TCTACT
*
50807976 TCGCTGCCAATACAGGAAGACAAGA
61 CCGCTGCCAATACAGGAAGACAAGA
50808001 TCTGCTATAA
Statistics
Matches: 303, Mismatches: 42, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
89 82 0.27
90 218 0.72
91 2 0.01
92 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (88 bp):
GTGTCTTCGATCTGCTTCGCGTCAATACAGGAAGGCAAGATCTGCTATCTTTAGTCTACTCCGCT
GCCAATACAGGAAGACAAGACTA
Found at i:50807782 original size:90 final size:90
Alignment explanation
Indices: 50807671--50808008 Score: 484
Period size: 90 Copynumber: 3.8 Consensus size: 90
50807661 TCGTCGTCAG
* * *
50807671 TACAGGAAGGCAAGA-TCTGCTATCTT-TAGTCTACTCCGCTACCAATACAGGAAGACAAGA-CT
1 TACAGGAAGACAAGACT-TGCTATCTTCGA-TCTACTTCGCTACCAATACAGGAAGACAAGATC-
* *
50807733 TGCTATCTTCAATCCACTTCGCTGTCAA
63 TGCTATCTTCAGTCCACTTCGCTGCCAA
* *
50807761 TACAGGAAGACAAGACTTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATATGC
1 TACAGGAAGACAAGACTTGCTATCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGC
* * * *
50807826 TATCTTTAGTCTATTTTGCTGCCAA
66 TATCTTCAGTCCACTTCGCTGCCAA
* * *
50807851 TACAGGAAGACAAGACTTGCTATATTTGATCTACTTCGCTACCAATAAAGGAAGACAAGATCTGC
1 TACAGGAAGACAAGACTTGCTATCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGC
*
50807916 TATCTTCAGTCCACTTCACTGCCAA
66 TATCTTCAGTCCACTTCGCTGCCAA
*
50807941 TACAGGAAGACAAGACTTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
1 TACAGGAAGACAAGACTTGCTATCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGC
50808006 TAT
66 TAT
50808009 AATGACTTTA
Statistics
Matches: 220, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
90 218 0.99
91 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (90 bp):
TACAGGAAGACAAGACTTGCTATCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGC
TATCTTCAGTCCACTTCGCTGCCAA
Found at i:50807827 original size:135 final size:134
Alignment explanation
Indices: 50807622--50808009 Score: 455
Period size: 135 Copynumber: 2.9 Consensus size: 134
50807612 TTGCTCCACC
* * * * * * * * *
50807622 GTCAATACTGGAAGGCAAGGCTAG-TGTCTTCGATCTGCTTCG-TCGTCAGTACAGGAAGGCAAG
1 GTCAATACAGGAAGACAAGACTTGCTATCTTCGATCTACTTCGCT-GCCAATACAGGAAGACAAG
* * *
50807685 ATCTGCTATCTTTAGTCTACTCCGCTACCAATACAGGAAGACAAGACTTGCTATCTTCAATCCAC
65 AT-TGCTATCTTTAGTCTACTTCGCTGCCAATACAGGAAGACAAGACTTGCTATATTCAATCCAC
50807750 TTCGCT
129 TTCGCT
50807756 GTCAATACAGGAAGACAAGACTTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGA
1 GTCAATACAGGAAGACAAGACTTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGA
* * ** *
50807821 TATGCTATCTTTAGTCTATTTTGCTGCCAATACAGGAAGACAAGACTTGCTATATTTGATCTACT
66 T-TGCTATCTTTAGTCTACTTCGCTGCCAATACAGGAAGACAAGACTTGCTATATTCAATCCACT
50807886 TCGCT
130 TCGCT
** * * *
50807891 ACCAATAAAGGAAGACAAGA-TCTGCTATCTTC-AGTCCACTTCACTGCCAATACAGGAAGACAA
1 GTCAATACAGGAAGACAAGACT-TGCTATCTTCGA-TCTACTTCGCTGCCAATACAGGAAGACAA
*
50807954 GACTTGCTATC-TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGA-TCTGCTATA
64 GA-TTGCTATCTTTAG-TCTACTTCGCTGCCAATACAGGAAGACAAGACT-TGCTATA
50808010 ATGACTTTAA
Statistics
Matches: 221, Mismatches: 26, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
134 26 0.12
135 193 0.87
136 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (134 bp):
GTCAATACAGGAAGACAAGACTTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGA
TTGCTATCTTTAGTCTACTTCGCTGCCAATACAGGAAGACAAGACTTGCTATATTCAATCCACTT
CGCT
Found at i:50807847 original size:45 final size:45
Alignment explanation
Indices: 50807671--50808008 Score: 411
Period size: 45 Copynumber: 7.5 Consensus size: 45
50807661 TCGTCGTCAG
* * *
50807671 TACAGGAAGGCAAGA-TCTGCTATCTTTAGTCTACTCCGCTACCAA
1 TACAGGAAGACAAGACT-TGCTATCTTTAGTCTACTTCGCTGCCAA
* * * *
50807716 TACAGGAAGACAAGACTTGCTATCTTCAATCCACTTCGCTGTCAA
1 TACAGGAAGACAAGACTTGCTATCTTTAGTCTACTTCGCTGCCAA
*
50807761 TACAGGAAGACAAGACTTGCTATC-TTCGATCTACTTCGCTGCCAA
1 TACAGGAAGACAAGACTTGCTATCTTTAG-TCTACTTCGCTGCCAA
* *
50807806 TACAGGAAGACAAGA-TATGCTATCTTTAGTCTATTTTGCTGCCAA
1 TACAGGAAGACAAGACT-TGCTATCTTTAGTCTACTTCGCTGCCAA
* *
50807851 TACAGGAAGACAAGACTTGCTATATTT-GATCTACTTCGCTACCAA
1 TACAGGAAGACAAGACTTGCTATCTTTAG-TCTACTTCGCTGCCAA
* * * *
50807896 TAAAGGAAGACAAGA-TCTGCTATCTTCAGTCCACTTCACTGCCAA
1 TACAGGAAGACAAGACT-TGCTATCTTTAGTCTACTTCGCTGCCAA
*
50807941 TACAGGAAGACAAGACTTGCTATC-TTCGATCTACTTCGCTGCCAA
1 TACAGGAAGACAAGACTTGCTATCTTTAG-TCTACTTCGCTGCCAA
50807986 TACAGGAAGACAAGA-TCTGCTAT
1 TACAGGAAGACAAGACT-TGCTAT
50808009 AATGACTTTA
Statistics
Matches: 252, Mismatches: 30, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
44 7 0.03
45 238 0.94
46 7 0.03
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (45 bp):
TACAGGAAGACAAGACTTGCTATCTTTAGTCTACTTCGCTGCCAA
Found at i:50809445 original size:19 final size:18
Alignment explanation
Indices: 50809432--50809474 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
50809422 TTTTTATTCT
50809432 CTTTTTTTTGTTTTTTTA
1 CTTTTTTTTGTTTTTTTA
*
50809450 CCTTTTTTTGTTTTTTTA
1 CTTTTTTTTGTTTTTTTA
50809468 CTTTTTT
1 CTTTTTT
50809475 GCCTTTTTTT
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:0.05, C:0.09, G:0.05, T:0.81
Consensus pattern (18 bp):
CTTTTTTTTGTTTTTTTA
Found at i:50809481 original size:17 final size:18
Alignment explanation
Indices: 50809434--50809483 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
50809424 TTTATTCTCT
*
50809434 TTTTTTTGTTTTTTTACC
1 TTTTTTTGCTTTTTTACC
*
50809452 TTTTTTTGTTTTTTTA-C
1 TTTTTTTGCTTTTTTACC
50809469 -TTTTTTGCCTTTTTT
1 TTTTTTTG-CTTTTTT
50809484 TTGCCTCCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 7 0.23
17 7 0.23
18 16 0.53
ACGTcount: A:0.04, C:0.10, G:0.06, T:0.80
Consensus pattern (18 bp):
TTTTTTTGCTTTTTTACC
Found at i:50813302 original size:7 final size:7
Alignment explanation
Indices: 50813292--50813318 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
50813282 TAATAAAACA
50813292 AATAATC
1 AATAATC
50813299 AATAATC
1 AATAATC
50813306 AATAATC
1 AATAATC
50813313 AATAAT
1 AATAAT
50813319 AAACAAAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (7 bp):
AATAATC
Found at i:50815142 original size:26 final size:25
Alignment explanation
Indices: 50815092--50815142 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
50815082 TTTTGAGCAA
* **
50815092 TTTAATTTTTTTTCTTTTATGTTCT
1 TTTAATTTTTTTTATTTTACATTCT
50815117 TTTAACTTTTTTTTATTTTACATTCT
1 TTTAA-TTTTTTTTATTTTACATTCT
50815143 CTTCTATTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.16, C:0.10, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTAATTTTTTTTATTTTACATTCT
Found at i:50819449 original size:21 final size:22
Alignment explanation
Indices: 50819417--50819457 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
50819407 GTTCACTTTT
*
50819417 TTAAAGTTAAAAGTCAAAACCA
1 TTAAAGTTAAAAGACAAAACCA
50819439 TTAAA-TTAAAAGACAAAAC
1 TTAAAGTTAAAAGACAAAAC
50819458 TACATCGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.59, C:0.12, G:0.07, T:0.22
Consensus pattern (22 bp):
TTAAAGTTAAAAGACAAAACCA
Found at i:50823300 original size:22 final size:22
Alignment explanation
Indices: 50823274--50823319 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
50823264 AACGAATCTA
*
50823274 GTTAATGGCCGACAGATCAAAT
1 GTTAATGGCAGACAGATCAAAT
50823296 GTTAATGGCAGACAGATCAAAT
1 GTTAATGGCAGACAGATCAAAT
50823318 GT
1 GT
50823320 GAAAGCTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (22 bp):
GTTAATGGCAGACAGATCAAAT
Found at i:50825580 original size:29 final size:29
Alignment explanation
Indices: 50825548--50825637 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
50825538 GTTTATGAGA
50825548 TGATTTTATTAGGTAATTTCAATAGAAAT
1 TGATTTTATTAGGTAATTTCAATAGAAAT
* * ** *
50825577 TGATTTGTATTA-AT-TTTTTTAT-GAGA-
1 TGATTT-TATTAGGTAATTTCAATAGAAAT
50825603 TGATTTTATTAGGTAATTTCAATAGAAAT
1 TGATTTTATTAGGTAATTTCAATAGAAAT
*
50825632 TTATTT
1 TGATTT
50825638 GTAGGACCTA
Statistics
Matches: 45, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
25 5 0.11
26 7 0.16
27 8 0.18
28 8 0.18
29 12 0.27
30 5 0.11
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.51
Consensus pattern (29 bp):
TGATTTTATTAGGTAATTTCAATAGAAAT
Found at i:50825598 original size:55 final size:55
Alignment explanation
Indices: 50825531--50825640 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
50825521 AATTGAAGCT
50825531 TTAATTTGTTTATGAGATGATTTTATTAGGTAATTTCAATAGAAATTGATTTGTA
1 TTAATTTGTTTATGAGATGATTTTATTAGGTAATTTCAATAGAAATTGATTTGTA
* *
50825586 TTAATTTTTTTATGAGATGATTTTATTAGGTAATTTCAATAGAAATTTATTTGTA
1 TTAATTTGTTTATGAGATGATTTTATTAGGTAATTTCAATAGAAATTGATTTGTA
50825641 GGACCTAATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.51
Consensus pattern (55 bp):
TTAATTTGTTTATGAGATGATTTTATTAGGTAATTTCAATAGAAATTGATTTGTA
Found at i:50829132 original size:24 final size:24
Alignment explanation
Indices: 50829098--50829149 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
50829088 TTTCTAGAAG
* **
50829098 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
50829122 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
50829146 ATTT
1 ATTT
50829150 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:50835496 original size:31 final size:34
Alignment explanation
Indices: 50835432--50835502 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
50835422 ATTATTCACC
* *
50835432 AAAAATTTTTTTTTGAGGTTAATTTTCTCTTCTT
1 AAAATTTTTTTTTTGAGGTCAATTTTCTCTTCTT
50835466 AAAATTTTTTTTTTGAGGTCAA-TTT-T-TTCTT
1 AAAATTTTTTTTTTGAGGTCAATTTTCTCTTCTT
50835497 AAAATT
1 AAAATT
50835503 CATATCATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
31 11 0.31
32 1 0.03
33 3 0.09
34 20 0.57
ACGTcount: A:0.27, C:0.07, G:0.08, T:0.58
Consensus pattern (34 bp):
AAAATTTTTTTTTTGAGGTCAATTTTCTCTTCTT
Found at i:50837217 original size:11 final size:11
Alignment explanation
Indices: 50837201--50837248 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
50837191 CTCTAATATT
*
50837201 CTCTCAAGTTC
1 CTCTCAAATTC
50837212 CTCTCAAATTC
1 CTCTCAAATTC
* *
50837223 TTCTCAAATTT
1 CTCTCAAATTC
*
50837234 CTCTCAAAATC
1 CTCTCAAATTC
50837245 CTCT
1 CTCT
50837249 TAAAAAAAGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.25, C:0.33, G:0.02, T:0.40
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:50837237 original size:22 final size:21
Alignment explanation
Indices: 50837177--50837241 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
50837167 CCTAAATCCT
*
50837177 TTCTCTC-GATTTCTCTCTAATA
1 TTCTCTCAAATTTCTCTC-AA-A
* *
50837199 TTCTCTCAAGTTCCTCTCAAA
1 TTCTCTCAAATTTCTCTCAAA
50837220 TTCTTCTCAAATTTCTCTCAAA
1 TTC-TCTCAAATTTCTCTCAAA
50837242 ATCCTCTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 4 0.11
22 25 0.69
23 7 0.19
ACGTcount: A:0.23, C:0.29, G:0.03, T:0.45
Consensus pattern (21 bp):
TTCTCTCAAATTTCTCTCAAA
Found at i:50838442 original size:7 final size:7
Alignment explanation
Indices: 50838432--50838456 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50838422 TTAGTATTTA
50838432 GTATTAT
1 GTATTAT
50838439 GTATTAT
1 GTATTAT
50838446 GTATTAT
1 GTATTAT
50838453 GTAT
1 GTAT
50838457 ATAACTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
GTATTAT
Found at i:50838442 original size:14 final size:14
Alignment explanation
Indices: 50838411--50838456 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
50838401 TAGTCGATTG
*
50838411 GTATTTAATATT-T
1 GTATTTAGTATTAT
50838424 AGTATTTAGTATTAT
1 -GTATTTAGTATTAT
50838439 GTA-TTATGTATTAT
1 GTATTTA-GTATTAT
50838453 GTAT
1 GTAT
50838457 ATAACTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 3 0.11
14 24 0.86
15 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (14 bp):
GTATTTAGTATTAT
Found at i:50839120 original size:18 final size:18
Alignment explanation
Indices: 50839097--50839139 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
50839087 TGTCAGGTGC
* *
50839097 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
50839115 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
50839133 GTTTCCT
1 GTATCCT
50839140 TTTTCTAGTC
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:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:50840775 original size:95 final size:95
Alignment explanation
Indices: 50840499--50840804 Score: 381
Period size: 95 Copynumber: 3.2 Consensus size: 95
50840489 TCTTTTAATT
* * *
50840499 AAGTAACCCTAAACCCTAATTTATTTGAGTTTTTCCTTAATAACCCTAAA-ACTAAACCCTAAAC
1 AAGTAACCCTAAACCCTAATTTATTTGA-TTTTTTCTTAAAAACCCTAAACACTAAACCCTAATC
*
50840563 TAATTTTTTAAAACTTTATAATTAATTTACTC
65 TAATTTTTTAAAA-TTTATAATTAATTTATTC
* *
50840595 AAGTAACCTTAAACCCTAATTTATTTGATTTTTTCTTAAAAACCCTTAACACTAAACCCTAATCT
1 AAGTAACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCT
* *
50840660 AATTTTTTTTAAAA-AT-TAATTAAATTATTC
66 AA--TTTTTTAAAATTTATAATTAATTTATTC
* * *
50840690 AAGTAACCCTAAACCCTAATTTAATTGATTTTTTCTTTAAAAACCATAAACACGAAA-CCTAATC
1 AAGTAACCCTAAACCCTAATTTATTTGATTTTTTC-TTAAAAACCCTAAACACTAAACCCTAATC
*
50840754 TAA-TTTTGAAAATTTTATAATTAATTTAATT-
65 TAATTTTTTAAAA-TTTATAATTAATTT-ATTC
* *
50840785 GAGAAACCCTAAACCCTAAT
1 AAGTAACCCTAAACCCTAAT
50840805 CCATTATTTA
Statistics
Matches: 184, Mismatches: 18, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
92 8 0.04
94 1 0.01
95 100 0.54
96 65 0.35
98 10 0.05
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (95 bp):
AAGTAACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCT
AATTTTTTAAAATTTATAATTAATTTATTC
Found at i:50841292 original size:19 final size:18
Alignment explanation
Indices: 50841252--50841296 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
50841242 CACTATACAT
50841252 TTTTAAATTATGATTCTCA
1 TTTTAAATTA-GATTCTCA
50841271 TTTTAAATTA-ATTCTTCAA
1 TTTTAAATTAGATTC-TC-A
50841290 TTTTAAA
1 TTTTAAA
50841297 ATATTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.17
18 2 0.08
19 18 0.75
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (18 bp):
TTTTAAATTAGATTCTCA
Found at i:50841894 original size:14 final size:15
Alignment explanation
Indices: 50841846--50841896 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
50841836 TTAATCATAT
* *
50841846 TTAAACATAGTTATTA
1 TTAAATATA-TTATAA
50841862 TTAAATATATTATAA
1 TTAAATATATTATAA
50841877 TTAAA-ATA-TATAA
1 TTAAATATATTATAA
*
50841890 TTTAATA
1 TTAAATA
50841897 AAATTCTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 9 0.29
14 4 0.13
15 10 0.32
16 8 0.26
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (15 bp):
TTAAATATATTATAA
Found at i:50842014 original size:14 final size:15
Alignment explanation
Indices: 50841970--50842016 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
50841960 AGATAATTTG
*
50841970 AAATA-ATTATTATT
1 AAATATATTATAATT
50841984 AAATATATTATAATT
1 AAATATATTATAATT
50841999 AAA-ATA-TATAATT
1 AAATATATTATAATT
*
50842012 TAATA
1 AAATA
50842017 AAATTCTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 9 0.31
14 9 0.31
15 11 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATATATTATAATT
Found at i:50842018 original size:59 final size:59
Alignment explanation
Indices: 50841856--50842260 Score: 226
Period size: 59 Copynumber: 6.8 Consensus size: 59
50841846 TTAAACATAG
* * * *
50841856 TTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATA
1 TTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TCATAATATTAAATA
* * * * * * * *
50841916 TTCTTATATGAATTTACTCA-AATCATAATATATGATACT-ATAAAA-GATAAT-TTGAAATAA
1 TTATTAT-TAAATATA-TTATAATTAAAATATATGAT-TTAATAAAATCATAATATT-AAAT-A
* *
50841976 TTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT-AATA
1 TTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TCATAAT-ATTAAATA
* * * * * * * *
50842036 TTCTTATATGAATTTACTCA-AATCATAATATATGATACT-ATAAAA-GATAAT-TTAACATAA
1 TTATTAT-TAAATATA-TTATAATTAAAATATATGAT-TTAATAAAATCATAATATTAA-AT-A
* *
50842096 TTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT-AATA
1 TTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TCATAAT-ATTAAATA
* * * * * * * *
50842156 TTCTTATATGAATTTACTCA-AATCATAATATATGATACT-ATAAAA-GATAAT-TTGAAATAA
1 TTATTAT-TAAATATA-TTATAATTAAAATATATGAT-TTAATAAAATCATAATATT-AAAT-A
* *
50842216 TTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAAT
1 TTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAAT
50842261 TTAAAATAAT
Statistics
Matches: 252, Mismatches: 61, Indels: 64
0.67 0.16 0.17
Matches are distributed among these distances:
57 4 0.02
58 10 0.04
59 96 0.38
60 40 0.16
61 88 0.35
62 10 0.04
63 4 0.02
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (59 bp):
TTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATCATAATATTAAATA
Found at i:50842125 original size:16 final size:16
Alignment explanation
Indices: 50842082--50842127 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
50842072 ACTATAAAAG
*
50842082 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
50842098 ATTATT-AAATATATT
1 ATAATTAAAATATATT
50842113 ATAATTAAAATATAT
1 ATAATTAAAATATAT
50842128 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:50842134 original size:14 final size:15
Alignment explanation
Indices: 50842082--50842136 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
50842072 ACTATAAAAG
50842082 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
50842098 ATTATTAAATATATT
1 ATAATTAAATATATT
50842113 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
50842126 ATAATTTAATA
1 ATAATTAAATA
50842137 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:50842272 original size:120 final size:120
Alignment explanation
Indices: 50841856--50842261 Score: 760
Period size: 120 Copynumber: 3.4 Consensus size: 120
50841846 TTAAACATAG
*
50841856 TTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTT
1 TTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTT
50841921 ATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAAATAA
66 ATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAAATAA
50841976 TTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTT
1 TTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTT
50842041 ATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT-AACATAA
66 ATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA-ATAA
50842096 TTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTT
1 TTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTT
50842161 ATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAAATAA
66 ATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAAATAA
* * *
50842216 TTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
50842262 TAAAATAATT
Statistics
Matches: 280, Mismatches: 4, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
119 2 0.01
120 276 0.99
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
TTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTT
ATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAAATAA
Found at i:50842332 original size:26 final size:28
Alignment explanation
Indices: 50842302--50842362 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
50842292 TATGAATTTG
*
50842302 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
50842328 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
50842356 TAAAATT
1 TATAATT
50842363 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:50842372 original size:91 final size:91
Alignment explanation
Indices: 50842277--50842484 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
50842267 TAATTATAAC
* * * *
50842277 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
50842342 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTAA
*
50842368 TAATATATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
50842433 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
50842459 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
50842485 CTAAAATCAA
Statistics
Matches: 107, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 88 0.82
92 19 0.18
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:50842444 original size:44 final size:43
Alignment explanation
Indices: 50842302--50842444 Score: 128
Period size: 44 Copynumber: 3.2 Consensus size: 43
50842292 TATGAATTTG
*
50842302 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
* * ** *
50842346 TATAATTTCATAA-AATTCTTGA-TAATATATTTTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-ATTAA-ATATAAT-TTA-AT-AATATA
* *
50842393 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
50842437 TATAATTT
1 TATAATTT
50842445 CATAAAATTC
Statistics
Matches: 76, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
43 3 0.04
44 27 0.36
45 12 0.16
46 12 0.16
47 19 0.25
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (43 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAATATA
Found at i:50842459 original size:47 final size:47
Alignment explanation
Indices: 50842321--50842465 Score: 122
Period size: 47 Copynumber: 3.1 Consensus size: 47
50842311 AAATAATTAT
* *
50842321 TATTACATATAATTTAATAATAATATATAATTTCATAAAATTCTT--
1 TATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAA
* * ** * * **
50842366 GA-T-AATATATTTTCTTATATGAATTTATACAATT--TAAAATAATTAA
1 TATTAAATATAATTTAATA-ATG-ATATATA-ATTTCATAAAATTCTTAA
50842412 TATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAA
1 TATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAA
*
50842459 TAATAAA
1 TATTAAA
50842466 ATGTTCTTAT
Statistics
Matches: 72, Mismatches: 19, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
43 10 0.14
44 11 0.15
45 10 0.14
46 10 0.14
47 20 0.28
48 11 0.15
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (47 bp):
TATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAA
Found at i:50845521 original size:33 final size:33
Alignment explanation
Indices: 50845483--50845548 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
50845473 ATTATAAAGC
50845483 ATGTATAATTGACCTAAAATTAATTATTGGTAT
1 ATGTATAATTGACCTAAAATTAATTATTGGTAT
*
50845516 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTATTGGTAT
50845549 TTGTTAGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTATTGGTAT
Found at i:50845781 original size:37 final size:37
Alignment explanation
Indices: 50845740--50845828 Score: 160
Period size: 37 Copynumber: 2.4 Consensus size: 37
50845730 GTATAAATAT
*
50845740 ATTGATTAGTTTATTAAAGCATGTTCAAAGTTTTAAC
1 ATTGATTAGTTTATTAAAGCATGTTCAAAGTTTGAAC
*
50845777 ATTGATTAGTTTACTAAAGCATGTTCAAAGTTTGAAC
1 ATTGATTAGTTTATTAAAGCATGTTCAAAGTTTGAAC
50845814 ATTGATTAGTTTATT
1 ATTGATTAGTTTATT
50845829 TATTTATATT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.44
Consensus pattern (37 bp):
ATTGATTAGTTTATTAAAGCATGTTCAAAGTTTGAAC
Found at i:50851832 original size:16 final size:16
Alignment explanation
Indices: 50851808--50851847 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
50851798 AAAATTAGAA
* *
50851808 ATATGTAAGTGTGTAT
1 ATATATAAGTATGTAT
50851824 ATATATAAGTATGTAT
1 ATATATAAGTATGTAT
50851840 ATATATAA
1 ATATATAA
50851848 CAAAATCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (16 bp):
ATATATAAGTATGTAT
Found at i:50851885 original size:3 final size:3
Alignment explanation
Indices: 50851877--50851920 Score: 52
Period size: 3 Copynumber: 13.7 Consensus size: 3
50851867 TAAATGGGTA
*
50851877 AAT AAT AAT TAT AAT AAT AAAT GCAAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT -AAT --AAT AAT AAT AAT AAT AAT AA
50851921 AAAAACTGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
3 30 0.83
4 3 0.08
5 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:50855056 original size:48 final size:48
Alignment explanation
Indices: 50854978--50855101 Score: 140
Period size: 48 Copynumber: 2.6 Consensus size: 48
50854968 AGTTTATTTG
** * ** *
50854978 CACAACCAGTGGTTCATCCACATTGGATTTTAGTCGACAACCTATCTG
1 CACAACCAGTGGTTCATCCACAACGTATTTTAACCGACAACCTATCTA
* ** * *
50855026 TACAACCAGTGGTTCATCCACAACGTATTTTAACCGGTAGCTTATCTA
1 CACAACCAGTGGTTCATCCACAACGTATTTTAACCGACAACCTATCTA
*
50855074 CACGACCAGTGGTTCATCCACAACGTAT
1 CACAACCAGTGGTTCATCCACAACGTAT
50855102 CAATAGTTTT
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (48 bp):
CACAACCAGTGGTTCATCCACAACGTATTTTAACCGACAACCTATCTA
Found at i:50858382 original size:3 final size:3
Alignment explanation
Indices: 50858374--50858399 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
50858364 ATTGTCATAA
50858374 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
50858400 CATCATCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:50858404 original size:3 final size:3
Alignment explanation
Indices: 50858398--50858450 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
50858388 TATTATTATT
* *
50858398 ATC ATC ATC ATC ATC ATC ATC CTC ATC ATC GTC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
50858446 ATC AT
1 ATC AT
50858451 ATGCTATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.30, C:0.34, G:0.02, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:50859968 original size:13 final size:15
Alignment explanation
Indices: 50859940--50859974 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
50859930 TTTATTTTCT
50859940 TTTTTAATATTTATA
1 TTTTTAATATTTATA
50859955 TTTTTAA-A-TTATA
1 TTTTTAATATTTATA
50859968 TTTTTAA
1 TTTTTAA
50859975 GAAGTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.60
14 1 0.05
15 7 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTTAATATTTATA
Found at i:50875908 original size:17 final size:18
Alignment explanation
Indices: 50875881--50875914 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
50875871 AAAGCAAAGG
*
50875881 ATTTCTATCTTCATAACC
1 ATTTCTATCTTAATAACC
50875899 ATTT-TATCTTAATAAC
1 ATTTCTATCTTAATAAC
50875915 TGCAACAGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTCTATCTTAATAACC
Found at i:50881648 original size:128 final size:128
Alignment explanation
Indices: 50881464--50881724 Score: 371
Period size: 128 Copynumber: 2.0 Consensus size: 128
50881454 GACTAATATG
* * ** * * * * *
50881464 TCATCTATCAAGTCCAATTGAGGAGATGTTTTGTCTTGGGCATTGGAGTGGATGACTCCTAGAAG
1 TCATGTATCAAGTCCAATTGAGGAGATGCTTTGTCTTGCACATTAGAGCGAATGACTCCCAAAAG
* * * *
50881529 ATAAAGACATAGATGTGACTAACTAGACTGATAGTACATCGGACTAGACTCAAGAAGAATAGA
66 ATAAAGACATAGATGTGACTAACTAGACTAACAGTACATCGGACTAGACCCAAAAAGAATAGA
50881592 TCATGTATCAAGTCCAATTTG-GGAGATGCTTTGTCTTGCACATTAGAGCGAATGACTCCCAAAA
1 TCATGTATCAAGTCCAA-TTGAGGAGATGCTTTGTCTTGCACATTAGAGCGAATGACTCCCAAAA
* *
50881656 GATAAAGACATAGATGTGACTGACTGGACTAACAGTACATCGGACTAGACCCAAAAAGAATAGA
65 GATAAAGACATAGATGTGACTAACTAGACTAACAGTACATCGGACTAGACCCAAAAAGAATAGA
50881720 TCATG
1 TCATG
50881725 AATCCGTTTA
Statistics
Matches: 117, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
128 114 0.97
129 3 0.03
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (128 bp):
TCATGTATCAAGTCCAATTGAGGAGATGCTTTGTCTTGCACATTAGAGCGAATGACTCCCAAAAG
ATAAAGACATAGATGTGACTAACTAGACTAACAGTACATCGGACTAGACCCAAAAAGAATAGA
Found at i:50882691 original size:23 final size:23
Alignment explanation
Indices: 50882657--50882707 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
50882647 TATTTTAAGG
* *
50882657 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTAATAC
50882680 TGTAATACCCCGAAAATTAATAC
1 TGTAATACCCCGAAAATTAATAC
*
50882703 AGTAA
1 TGTAA
50882708 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTAATAC
Found at i:50883199 original size:8 final size:8
Alignment explanation
Indices: 50883186--50883210 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
50883176 TTTTAAATAA
50883186 TATTTTAT
1 TATTTTAT
50883194 TATTTTAT
1 TATTTTAT
50883202 TATTTTAT
1 TATTTTAT
50883210 T
1 T
50883211 TAGTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:50899019 original size:7 final size:7
Alignment explanation
Indices: 50899003--50899075 Score: 67
Period size: 7 Copynumber: 10.3 Consensus size: 7
50898993 TATTGTTTTC
*
50899003 TTTTCGT
1 TTTTCTT
50899010 TTTTCTT
1 TTTTCTT
50899017 TTTTCTT
1 TTTTCTT
50899024 TTTTCTT
1 TTTTCTT
*
50899031 TTTTC-C
1 TTTTCTT
*
50899037 TTTTCCT
1 TTTTCTT
*
50899044 TTTCCTT
1 TTTTCTT
*
50899051 TTTTATTT
1 TTTT-CTT
*
50899059 TTTTATT
1 TTTTCTT
50899066 TATTTCTT
1 T-TTTCTT
50899074 TT
1 TT
50899076 ACAAATCTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
6 5 0.09
7 37 0.69
8 12 0.22
ACGTcount: A:0.04, C:0.15, G:0.01, T:0.79
Consensus pattern (7 bp):
TTTTCTT
Found at i:50906446 original size:13 final size:14
Alignment explanation
Indices: 50906410--50906446 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
50906400 AAAAGGTATG
50906410 TATATGAAATGAGC
1 TATATGAAATGAGC
*
50906424 TATAT-TAATGAGC
1 TATATGAAATGAGC
50906437 -ATATGAAATG
1 TATATGAAATG
50906447 GAAATAGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
12 4 0.20
13 11 0.55
14 5 0.25
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.32
Consensus pattern (14 bp):
TATATGAAATGAGC
Found at i:50911475 original size:20 final size:20
Alignment explanation
Indices: 50911452--50911492 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
50911442 TTACTGATAA
50911452 ATTGAAAAACCTATTAAATT
1 ATTGAAAAACCTATTAAATT
50911472 ATTGAAAAACCTATTAAATT
1 ATTGAAAAACCTATTAAATT
50911492 A
1 A
50911493 ATCTTTGAGT
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:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (20 bp):
ATTGAAAAACCTATTAAATT
Found at i:50917131 original size:39 final size:39
Alignment explanation
Indices: 50917077--50917156 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
50917067 GAAAATATAG
50917077 AAAAACTTGAACATACTTGTGTCGGATGCATACTTGTTC
1 AAAAACTTGAACATACTTGTGTCGGATGCATACTTGTTC
50917116 AAAAACTTGAACATACTTGTGTCGGATGCATACTTGTTC
1 AAAAACTTGAACATACTTGTGTCGGATGCATACTTGTTC
50917155 AA
1 AA
50917157 CACTTACACC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (39 bp):
AAAAACTTGAACATACTTGTGTCGGATGCATACTTGTTC
Found at i:50921277 original size:17 final size:17
Alignment explanation
Indices: 50921251--50921286 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
50921241 TATGATGCTG
*
50921251 TTATTTTTATATTATTA
1 TTATTATTATATTATTA
*
50921268 TTATTATTATATTTTTA
1 TTATTATTATATTATTA
50921285 TT
1 TT
50921287 CTATTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTATTATATTATTA
Found at i:50927592 original size:18 final size:18
Alignment explanation
Indices: 50927569--50927604 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
50927559 CTAGGGGTAA
*
50927569 ACGCGATAATTGAGAATG
1 ACGCGATAATTAAGAATG
50927587 ACGCGATAATTAAGAATG
1 ACGCGATAATTAAGAATG
50927605 GAGGGAAGAA
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:0.42, C:0.11, G:0.25, T:0.22
Consensus pattern (18 bp):
ACGCGATAATTAAGAATG
Found at i:50930318 original size:132 final size:132
Alignment explanation
Indices: 50930078--50930392 Score: 459
Period size: 132 Copynumber: 2.4 Consensus size: 132
50930068 CAGATCAAAA
* *
50930078 ACTGGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTATCTCCCTAAGT
1 ACTGGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTATCTCCCTAAGC
* * * *
50930143 AGTAGTGGAACATACCGAAGATGGCGAATCTTATCTTCCCAAGGCAGTATGGAAGTAGATTTAAG
66 AGTAATGGAACAAACCGAAGATGGCGAATCTTATCTTCCCAAGGCAGTAGGGAAGCAGATTTAAG
*
50930208 CT
131 CC
* * * *
50930210 ACTGGTCCTATCTCCCTGAGCGGCAATGGAGTAGGTTGAAAATTGCAGATCCTGTCTCCCTAAGC
1 ACTGGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTATCTCCCTAAGC
* * * *
50930275 AGTAATGGAGCAAATCGAAGATGGCGAATCTTATCTTCTCAAGGTAGTAGGGAAGCAGATTTAAG
66 AGTAATGGAACAAACCGAAGATGGCGAATCTTATCTTCCCAAGGCAGTAGGGAAGCAGATTTAAG
50930340 CC
131 CC
* * * *
50930342 ACTAGTCCTATCTCCTTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGATC
1 ACTGGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATC
50930393 TTGCCTTCCT
Statistics
Matches: 161, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
132 161 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (132 bp):
ACTGGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTATCTCCCTAAGC
AGTAATGGAACAAACCGAAGATGGCGAATCTTATCTTCCCAAGGCAGTAGGGAAGCAGATTTAAG
CC
Found at i:50930464 original size:218 final size:218
Alignment explanation
Indices: 50930210--50930647 Score: 709
Period size: 218 Copynumber: 2.0 Consensus size: 218
50930200 GATTTAAGCT
*
50930210 ACTGGTCCTATCTCCCTGAGCGGCAATGGAGTAGGTTGAAAATTGCAGATCCTGTCTCCCTAAGC
1 ACTGGTCCTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTGCAGATCCTGTCTCCCTAAGC
* *
50930275 AGTAA-TGGAGCAAATCGAAGATGGCGAATCTTATC-TTCTCAAGGTAGTAGGGAAGCAGATTTA
66 AG-AAGTGGAGCAAATCGAAGATGGCGAATCTTATCTTTCT-AAGGCAATAGGGAAGCAGATTTA
* *
50930338 AGCCACTAGTCCTATCTCCTTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGATCTTGCCTTCCT
129 AGCCACTAGTCCTATCTCCATGAGCAACAGTGGAGTAGGTTGAAGATCGTAGATCTTGCCTTCCT
* *
50930403 GTACTGGCAGTGAAGCAGATCGAAA
194 GTACTAGCAGTGAAACAGATCGAAA
* * * *
50930428 ACTGGTCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTGAGC
1 ACTGGTCCTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTGCAGATCCTGTCTCCCTAAGC
* *
50930493 AGAAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTTCTAAGGCAATAGGGAAGTAGATTTAAG
66 AGAAGTGGAGCAAATCGAAGATGGCGAATCTTATCTTTCTAAGGCAATAGGGAAGCAGATTTAAG
* *
50930558 CCACTAGTCCTATCTCCATGAGCAGCAGTGGAGTAGGTTGAAGATCGTAGATCTTGTCTTCCTGT
131 CCACTAGTCCTATCTCCATGAGCAACAGTGGAGTAGGTTGAAGATCGTAGATCTTGCCTTCCTGT
50930623 ACTAGCAGTGAAACAGATCGAAA
196 ACTAGCAGTGAAACAGATCGAAA
50930646 AC
1 AC
50930648 AAATCACATT
Statistics
Matches: 203, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
217 2 0.01
218 197 0.97
219 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (218 bp):
ACTGGTCCTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTGCAGATCCTGTCTCCCTAAGC
AGAAGTGGAGCAAATCGAAGATGGCGAATCTTATCTTTCTAAGGCAATAGGGAAGCAGATTTAAG
CCACTAGTCCTATCTCCATGAGCAACAGTGGAGTAGGTTGAAGATCGTAGATCTTGCCTTCCTGT
ACTAGCAGTGAAACAGATCGAAA
Found at i:50930706 original size:218 final size:218
Alignment explanation
Indices: 50930215--50930708 Score: 629
Period size: 218 Copynumber: 2.3 Consensus size: 218
50930205 AAGCTACTGG
* * * * * * * *
50930215 TCCTATCTCCCTGAGCGGCAATGGAGTAGGTTGAAAATTGCAGATCCTGTCTCCCTAAGCAGTAA
1 TCCTATCTCCCTGAGCAGCAGTGGAGCAGATTGAAGATTACAGATCCTATCTCCCTGAGCAGTAA
* *
50930280 TGGAGCAAATCGAAGATGGCGAATCTTATCTTCTCAAGGTAGTAGGGAAGCAGATTTAAGCCACT
66 TGGAGCAAATCGAAGATGGCGAATCTTATCTTCTCAAGGCAATAGGGAAGCAGATTTAAGCCACT
* * *
50930345 AGTCCTATCTCCTTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGATCTTGCCTTCCTGTACTGG
131 AGTCCTATCTCCATGAGCAACAGTGGAGTAGGTTGAAGATCGTAGATCTTGCCTTCCTGTACTAG
* ***
50930410 CAGTGAAGCAGATCGAAAACTGG
196 CAGTGAAACAGATCGAAAACAAA
* * * * *
50930433 TCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTGAGCAG-AA
1 TCCTATCTCCCTGAGCAGCAGTGGAGCAGATTGAAGATTACAGATCCTATCTCCCTGAGCAGTAA
* *
50930497 GTGGAGCAGATCGAAGATGGCGAATCTTATCTT-TCTAAGGCAATAGGGAAGTAGATTTAAGCCA
66 -TGGAGCAAATCGAAGATGGCGAATCTTATCTTCTC-AAGGCAATAGGGAAGCAGATTTAAGCCA
* *
50930561 CTAGTCCTATCTCCATGAGCAGCAGTGGAGTAGGTTGAAGATCGTAGATCTTGTCTTCCTGTACT
129 CTAGTCCTATCTCCATGAGCAACAGTGGAGTAGGTTGAAGATCGTAGATCTTGCCTTCCTGTACT
50930626 AGCAGTGAAACAGATCGAAAACAAA
194 AGCAGTGAAACAGATCGAAAACAAA
* * ** *
50930651 TCAC-ATTTCCTTGAAGTTGCAGTGGAGCAGATTGAAGA-TACA-AGTCTTATCTCCCTGA
1 TC-CTATCTCCCTG-AGCAGCAGTGGAGCAGATTGAAGATTACAGA-TCCTATCTCCCTGA
50930709 AGTTGCAGTG
Statistics
Matches: 243, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
217 5 0.02
218 218 0.90
219 20 0.08
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (218 bp):
TCCTATCTCCCTGAGCAGCAGTGGAGCAGATTGAAGATTACAGATCCTATCTCCCTGAGCAGTAA
TGGAGCAAATCGAAGATGGCGAATCTTATCTTCTCAAGGCAATAGGGAAGCAGATTTAAGCCACT
AGTCCTATCTCCATGAGCAACAGTGGAGTAGGTTGAAGATCGTAGATCTTGCCTTCCTGTACTAG
CAGTGAAACAGATCGAAAACAAA
Found at i:50930716 original size:44 final size:44
Alignment explanation
Indices: 50930662--50930771 Score: 159
Period size: 44 Copynumber: 2.5 Consensus size: 44
50930652 CACATTTCCT
*
50930662 TGAAGTTGCAGTGGAGCAGATTGAAGATAC-AAGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATACTAA-TCCTATCTCCC
* * *
50930706 TGAAGTTGCAGTGGAGCAGACTGAAGCTACTAATCCTATCTCCT
1 TGAAGTTGCAGTGGAGCAGATTGAAGATACTAATCCTATCTCCC
*
50930750 TGAAGTTGCAGTGGGGCAGATT
1 TGAAGTTGCAGTGGAGCAGATT
50930772 AAAACGATGA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 57 0.97
45 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAGATTGAAGATACTAATCCTATCTCCC
Found at i:50930785 original size:44 final size:42
Alignment explanation
Indices: 50930658--50930788 Score: 129
Period size: 44 Copynumber: 3.0 Consensus size: 42
50930648 AAATCACATT
* *
50930658 TCCTTGAAGTTGCAGTGGAGCAGATTGAA-GATACAAGTCTTATC
1 TCCTTGAAGTTGCAGTGGAGCAGATTAAACGAT--AA-TCCTATC
* * * *
50930702 TCCCTGAAGTTGCAGTGGAGCAGACTGAAGCTACTAATCCTATC
1 TCCTTGAAGTTGCAGTGGAGCAGA-TTAAACGA-TAATCCTATC
*
50930746 TCCTTGAAGTTGCAGTGGGGCAGATTAAAACGATGAATCCTAT
1 TCCTTGAAGTTGCAGTGGAGCAGATT-AAACGAT-AATCCTAT
50930789 ACCTTTAAAG
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
43 2 0.03
44 63 0.89
45 4 0.06
46 1 0.01
47 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (42 bp):
TCCTTGAAGTTGCAGTGGAGCAGATTAAACGATAATCCTATC
Found at i:50934236 original size:20 final size:21
Alignment explanation
Indices: 50934194--50934242 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
50934184 ATGTAAATTA
50934194 AATA-ATATAATTTTCTGTTT
1 AATATATATAATTTTCTGTTT
50934214 AATATATATAATTTT-T-TTAT
1 AATATATATAATTTTCTGTT-T
50934234 AATATATAT
1 AATATATAT
50934243 TTTTTAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 2 0.07
20 15 0.56
21 10 0.37
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
AATATATATAATTTTCTGTTT
Found at i:50934276 original size:18 final size:17
Alignment explanation
Indices: 50934195--50934277 Score: 51
Period size: 23 Copynumber: 4.3 Consensus size: 17
50934185 TGTAAATTAA
50934195 ATAATATAATTTTCTGTTT
1 ATAATATAATTTTC--TTT
50934214 AATATATATAATTTT-TTT
1 -ATA-ATATAATTTTCTTT
*
50934232 ATAATATATATTTTTTAAGATTT
1 ATAATATA-A--TTTT---CTTT
50934255 ATAATATAATTTTCTTT
1 ATAATATAATTTTCTTT
50934272 CATAAT
1 -ATAAT
50934278 CATCTTAAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 20
0.72 0.01 0.27
Matches are distributed among these distances:
16 5 0.09
17 7 0.13
18 8 0.15
19 4 0.08
20 7 0.13
21 10 0.19
22 1 0.02
23 11 0.21
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (17 bp):
ATAATATAATTTTCTTT
Found at i:50939037 original size:21 final size:22
Alignment explanation
Indices: 50939012--50939054 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
50939002 TTAAAAATAA
50939012 AAAAATCTAAAAAT-TATTTTT
1 AAAAATCTAAAAATATATTTTT
*
50939033 AAAAATTTAAAAATATATTTTT
1 AAAAATCTAAAAATATATTTTT
50939055 TTAAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAAATCTAAAAATATATTTTT
Found at i:50941669 original size:9 final size:9
Alignment explanation
Indices: 50941642--50941686 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
50941632 TTTTTTCTCC
50941642 AAAACCCTA
1 AAAACCCTA
**
50941651 AAAATTCTA
1 AAAACCCTA
50941660 AAAACCCT-
1 AAAACCCTA
50941668 AAAACCCT-
1 AAAACCCTA
50941676 -AAACCCTA
1 AAAACCCTA
50941684 AAA
1 AAA
50941687 TCCAAAAACC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 7 0.23
8 8 0.27
9 15 0.50
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.16
Consensus pattern (9 bp):
AAAACCCTA
Found at i:50942665 original size:30 final size:30
Alignment explanation
Indices: 50942629--50942711 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 30
50942619 ACACATATTC
50942629 TTAAGAAAAGAATTATTCATAACACATAGG
1 TTAAGAAAAGAATTATTCATAACACATAGG
* * **
50942659 TTAAGAAAAGAATGATTCACAACACATATT
1 TTAAGAAAAGAATTATTCATAACACATAGG
* * *
50942689 TTAGGAAAAGATTTATTGATAAC
1 TTAAGAAAAGAATTATTCATAAC
50942712 TTAAATTGAG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.29
Consensus pattern (30 bp):
TTAAGAAAAGAATTATTCATAACACATAGG
Found at i:50948914 original size:405 final size:398
Alignment explanation
Indices: 50947973--50949409 Score: 1651
Period size: 402 Copynumber: 3.6 Consensus size: 398
50947963 CAGTGTGGGA
* * * *
50947973 CTGCCTGTTCTTGAAACAAGATCAGTAGAAGATATTGATTTGGCATTTAAGCAACTTCATGAAGG
1 CTGCCTGTTCTTGAAGCAAGATCGGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
* * * *
50948038 AGTGGATTTTGAGGAAGTAATTCTTCCAAGTATGATTAAGAATCAGCCGGATCATGCAGATACCA
66 AGTGGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGAAGATACC-
* * * * *
50948103 AC-TCGGATTTACCTGTTGTTGAGGCGAGATCTCTGGAGGATATACATAATGCTTTGCAACAA-G
130 ACTTCGAATTTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCAAAAAGG
*
50948166 ACCCAGAACCTAATCTAGCTCAGCTGCCACATTCCACAGACTTGAGGATTGGATCATCAGAAGTA
195 A-CCAGAACCTAATCTAGCTGAGCTGCCACATTCCACAGACTTGAGGA-TGGATCATCAGAAGTA
* * * * * *
50948231 GAGCAGCATGTTGTTGTTTCTTCTGAAGAAGAGATCGAAGTT-AGTAATGCTGTCTCTGG-TATT
258 GAGCAGCATGATGTGGTTTCTTCT-AAG-AG-G-TTGAAGTTGGGCAA-GCAGTCTCTGGCT-TT
** * * * *
50948294 GAAGAAGGTTGTGATAA-TGCTGCTGGTGAACCCAAAAATG-AA-GAAGAAATAGAAGAACTAAA
317 GAAGAAAATT-TGAGAATTGCTGCTGGTGAA-CCAAAAAAGAAATGAAGAAATAGAAGAAATGAA
** * *
50948356 GACAGAAACCAATGTGGAG
380 GATGGAGACCAATGCGGAG
*
50948375 CTACCTGTTCTTGAAGCAAGATCGGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
1 CTGCCTGTTCTTGAAGCAAGATCGGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
* * *
50948440 AGTGGATGTTGAGGAAGTAATTCTTCCAAGTATGATTGAGAATCTGCCAGATCAT-ACAGATACC
66 AGTGGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGA-AGATACC
*
50948504 ACTTCAGAATTT-CCTGTTGTCGAGGCAAGATCTCTGGATGATATACATAATGCTTT-CATAAAA
130 ACTTC-GAATTTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCA-AAAA
* * *
50948567 GGACCGGAACCTAATCCAGCTGAGCTGCCGCATT-CAGCAGACTTGAGGCATGGATCATCAGAAG
193 GGACCAGAACCTAATCTAGCTGAGCTGCCACATTCCA-CAGACTTGAGG-ATGGATCATCAGAAG
*
50948631 TAGAGCTGCATGATGTGGTTTCTTCTAATGAGGTTGAAGTTGGGCAAGCAGTCTCTGGCTTTGAA
256 TAGAGCAGCATGATGTGGTTTCTTCTAA-GAGGTTGAAGTTGGGCAAGCAGTCTCTGGCTTTGAA
* *
50948696 GAACATCTTGAGAATGTTGCTGCTGGTGAACCGAAAAAAGAATATGAAGAAATAGAAGAATTGAA
320 GAAAAT-TTGAGAA--TTGCTGCTGGTGAACC-AAAAAAGAA-ATGAAGAAATAGAAGAAATGAA
50948761 GATGGAGACCAATGCGGAG
380 GATGGAGACCAATGCGGAG
50948780 CTGCCTGTTC-TGAATGCAAGATCGGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAG
1 CTGCCTGTTCTTGAA-GCAAGATCGGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAG
* * * * * * **
50948844 GTGTAGATGTTGAGGAAGTAGTTCTTGCAAGCATGATTGAGGATCAGCTGGATCATGAAGATTTC
65 GAGTGGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGAAGATACC
* *
50948909 ACTTCAAAGTTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCAAAAAGG
130 ACTTCGAATTTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCAAAAAGG
* * * * * * *
50948974 TCCAGAACCTAATCTGGCCGAGCTGCCACTTTCCACAGACTTGAGAAATGGATCATCAGAAATGG
195 ACCAGAACCTAATCTAGCTGAGCTGCCACATTCCACAGACTTGAG-GATGGATCATCAGAAGTAG
** * * ** * * *
50949039 AGCAGCATGATGTGGTTTCTAATAAAGAGATTGAAGTTGGCCGTGCCGTCTCTGGCATTCAAGAA
259 AGCAGCATGATGTGGTTTCTTCT-AAGAGGTTGAAGTTGGGCAAGCAGTCTCTGGCTTTGAAGAA
* * * * * *
50949104 AATAGTCAGAATT-CTGCCGGTGAACCAAAAAATGACCATGAAGAAACAGAGGAAATGAAGATGG
323 AAT-TTGAGAATTGCTGCTGGTGAACCAAAAAA-GA-AATGAAGAAATAGAAGAAATGAAGATGG
*
50949168 AGACCAATGCAGAG
385 AGACCAATGCGGAG
* * *
50949182 CTGCCTGTTCTTGAAGCAAGATC-ATTGGAAGACATTGATTTGGCTTTTAAGCAATTTCATGAAG
1 CTGCCTGTTCTTGAAGCAAGATCGGTT-GAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAG
* * * * * *
50949246 GAGTTGATGTTGAGGAAATAATTCTTCCAAGCATGATTGAGAATCAGCAGGGTGATGCAGATACC
65 GAGTGGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGAAGATACC
* * * * * * * * *
50949311 AATTCGGATTTACCAGTTGTTGAGGCGAGATCTCTGGAGGATATACAGAGTGCTTTTCAACAAGG
130 ACTTCGAATTTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCAAAAAGG
* * * *
50949376 CCCCGAATCTAATCTAGCTGAGGTGCCACATTCC
195 ACCAGAACCTAATCTAGCTGAGCTGCCACATTCC
50949410 TCAGGAGTAG
Statistics
Matches: 892, Mismatches: 114, Indels: 58
0.84 0.11 0.05
Matches are distributed among these distances:
399 31 0.03
400 6 0.01
401 20 0.02
402 497 0.56
403 15 0.02
404 9 0.01
405 307 0.34
406 7 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.27
Consensus pattern (398 bp):
CTGCCTGTTCTTGAAGCAAGATCGGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
AGTGGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGAAGATACCA
CTTCGAATTTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCAAAAAGGA
CCAGAACCTAATCTAGCTGAGCTGCCACATTCCACAGACTTGAGGATGGATCATCAGAAGTAGAG
CAGCATGATGTGGTTTCTTCTAAGAGGTTGAAGTTGGGCAAGCAGTCTCTGGCTTTGAAGAAAAT
TTGAGAATTGCTGCTGGTGAACCAAAAAAGAAATGAAGAAATAGAAGAAATGAAGATGGAGACCA
ATGCGGAG
Found at i:50955385 original size:17 final size:17
Alignment explanation
Indices: 50955365--50955760 Score: 148
Period size: 18 Copynumber: 22.5 Consensus size: 17
50955355 AACATGAGAA
*
50955365 TTTTGAAACACGAATTT
1 TTTTGAAACACGAAATT
* * *
50955382 TTTTAAAAAAGACGAAAGT
1 TTTT--GAAACACGAAATT
*
50955401 TTTTGAAACAC-AAGAAT
1 TTTTGAAACACGAA-ATT
*
50955418 TTTTGAAAACACGAAAAT
1 TTTTG-AAACACGAAATT
* *
50955436 CTTTAAAACAC-AATATT
1 TTTTGAAACACGAA-ATT
50955453 TTTTGAAACACGAGAA--
1 TTTTGAAACACGA-AATT
* ** *
50955469 TTTTAAAACATAAAAAT
1 TTTTGAAACACGAAATT
* *
50955486 TTTTAAAACACGAAAAT
1 TTTTGAAACACGAAATT
* * * *
50955503 TTGTGAAACACTAGAGT
1 TTTTGAAACACGAAATT
* *
50955520 TGTTGAAAACACGAAAAT
1 TTTTG-AAACACGAAATT
* *
50955538 TTGTGAAAACACGAAAAT
1 TTTTG-AAACACGAAATT
50955556 TTTTGAAACACGGAAA-T
1 TTTTGAAACAC-GAAATT
* *
50955573 TTCTGAAAGCACGAGGA-T
1 TTTTGAAA-CACGA-AATT
** * *
50955591 TTTCAAAATACGAATTT
1 TTTTGAAACACGAAATT
* *
50955608 TTTTGAAAATACGAAAAT
1 TTTTG-AAACACGAAATT
* *
50955626 TTTT-AAAAACAGAGAAAT
1 TTTTGAAACAC-GA-AATT
* *
50955644 TTTTAAAACACAGGAA-T
1 TTTTGAAACAC-GAAATT
*
50955661 TTTTGAAACATCGGAATTTTT
1 TTTTGAAACA-C-GAA--ATT
* *
50955682 TTTTTAAA-ACGTGAAAAT
1 TTTTGAAACAC--GAAATT
50955700 TTTTGAAACACTGAAA--
1 TTTTGAAACAC-GAAATT
50955716 TTTTGAAAACACGAAGATT
1 TTTTG-AAACACGAA-ATT
*
50955735 TTTTGAAACACGGGAATT
1 TTTTGAAACAC-GAAATT
50955753 TTTTGAAA
1 TTTTGAAA
50955761 ACACAAAAAA
Statistics
Matches: 294, Mismatches: 55, Indels: 59
0.72 0.13 0.14
Matches are distributed among these distances:
15 2 0.01
16 27 0.09
17 106 0.36
18 114 0.39
19 33 0.11
20 4 0.01
21 8 0.03
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.32
Consensus pattern (17 bp):
TTTTGAAACACGAAATT
Found at i:50955445 original size:35 final size:34
Alignment explanation
Indices: 50955401--50955668 Score: 190
Period size: 35 Copynumber: 7.7 Consensus size: 34
50955391 AGACGAAAGT
*
50955401 TTTTGAAACACAAGAATTTTTGAAAACACGAAAA
1 TTTTAAAACACAAGAATTTTTGAAAACACGAAAA
* * *
50955435 TCTTTAAAACACAATATTTTTTG-AAACACGAGAA
1 T-TTTAAAACACAAGAATTTTTGAAAACACGAAAA
* *
50955469 TTTTAAAACATAAAAATTTTT-AAAACACGAAAA
1 TTTTAAAACACAAGAATTTTTGAAAACACGAAAA
* * * *
50955502 TTTGTGAAACACTAGAGTTGTTGAAAACACGAAAA
1 TTT-TAAAACACAAGAATTTTTGAAAACACGAAAA
*
50955537 TTTGTGAAAACACGAA-AATTTTTG-AAACACGGAAA
1 TTT-T-AAAACAC-AAGAATTTTTGAAAACACGAAAA
* * * * * **
50955572 TTTCTGAAAGCACGAGGA-TTTTCAAAATACGAATTT
1 TTT-T-AAAACACAAGAATTTTTGAAAACACGAA-AA
* *
50955608 TTTTGAAAATACGAA-AATTTTTAAAAACA-GAGAAA
1 TTTT-AAAACAC-AAGAATTTTTGAAAACACGA-AAA
*
50955643 TTTTTAAAACACAGGAATTTTTGAAA
1 -TTTTAAAACACAAGAATTTTTGAAA
50955669 CATCGGAATT
Statistics
Matches: 181, Mismatches: 39, Indels: 27
0.73 0.16 0.11
Matches are distributed among these distances:
33 30 0.17
34 30 0.17
35 90 0.50
36 30 0.17
37 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.30
Consensus pattern (34 bp):
TTTTAAAACACAAGAATTTTTGAAAACACGAAAA
Found at i:50955585 original size:18 final size:18
Alignment explanation
Indices: 50955388--50955654 Score: 123
Period size: 17 Copynumber: 15.4 Consensus size: 18
50955378 ATTTTTTTAA
* * *
50955388 AAAAGACGAAAGTTTTTG
1 AAAACACGAAAATTTCTG
*
50955406 -AAACAC-AAGAATTTTTG
1 AAAACACGAA-AATTTCTG
50955423 AAAACACGAAAATCTT-T-
1 AAAACACGAAAAT-TTCTG
* *
50955440 AAAACAC-AATATTTTTTG
1 AAAACACGAA-AATTTCTG
*
50955458 -AAACACGAGAATTT-T-
1 AAAACACGAAAATTTCTG
** *
50955473 AAAACATAAAAATTT-TT
1 AAAACACGAAAATTTCTG
*
50955490 AAAACACGAAAATTTGTG
1 AAAACACGAAAATTTCTG
* * *
50955508 -AAACACTAGAGTTGT-TG
1 AAAACACGAAAATT-TCTG
*
50955525 AAAACACGAAAATTTGTG
1 AAAACACGAAAATTTCTG
*
50955543 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTCTG
*
50955561 -AAACACGGAAATTTCTG
1 AAAACACGAAAATTTCTG
* ** *
50955578 AAAGCACGAGGATTT-TC
1 AAAACACGAAAATTTCTG
* ** *
50955595 AAAATACGAATTTTTTTG
1 AAAACACGAAAATTTCTG
* * *
50955613 AAAATACGAAAATTTTTA
1 AAAACACGAAAATTTCTG
*
50955631 AAAACA-GAGAAATTT-TT
1 AAAACACGA-AAATTTCTG
50955648 AAAACAC
1 AAAACAC
50955655 AGGAATTTTT
Statistics
Matches: 195, Mismatches: 36, Indels: 36
0.73 0.13 0.13
Matches are distributed among these distances:
16 19 0.10
17 93 0.48
18 79 0.41
19 4 0.02
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.28
Consensus pattern (18 bp):
AAAACACGAAAATTTCTG
Found at i:50955682 original size:18 final size:17
Alignment explanation
Indices: 50955623--50955681 Score: 68
Period size: 17 Copynumber: 3.4 Consensus size: 17
50955613 AAAATACGAA
50955623 AATTTTTAAAA-ACAGAG
1 AATTTTTAAAACACAG-G
50955640 AAATTTTTAAAACACAGG
1 -AATTTTTAAAACACAGG
*
50955658 AATTTTTGAAACATC-GG
1 AATTTTTAAAACA-CAGG
50955675 AATTTTT
1 AATTTTT
50955682 TTTTTAAAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
17 21 0.55
18 13 0.34
19 4 0.11
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (17 bp):
AATTTTTAAAACACAGG
Found at i:50955714 original size:18 final size:17
Alignment explanation
Indices: 50955694--50955778 Score: 66
Period size: 18 Copynumber: 4.8 Consensus size: 17
50955684 TTTAAAACGT
50955694 GAAAATTTTTGAAACAC
1 GAAAATTTTTGAAACAC
50955711 TG-AAA-TTTTGAAAACAC
1 -GAAAATTTTTG-AAACAC
*
50955728 GAAGATTTTTTGAAACAC
1 GAA-AATTTTTGAAACAC
* *
50955746 GGGAATTTTTTGAAAACAC
1 -GAAAATTTTTG-AAACAC
* *
50955765 AAAAAATTTTGAAA
1 GAAAATTTTTGAAA
50955779 AATAGAATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
16 6 0.11
17 13 0.24
18 23 0.42
19 13 0.24
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (17 bp):
GAAAATTTTTGAAACAC
Found at i:50956300 original size:10 final size:8
Alignment explanation
Indices: 50956252--50956292 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
50956242 GAATTAAATT
50956252 AAAT-TAA
1 AAATATAA
50956259 AAATAT--
1 AAATATAA
*
50956265 AAATACAA
1 AAATATAA
50956273 AAATATAA
1 AAATATAA
50956281 AAATATAA
1 AAATATAA
50956289 AAAT
1 AAAT
50956293 GCATAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
6 5 0.17
7 4 0.14
8 20 0.69
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATATAA
Found at i:50956446 original size:16 final size:16
Alignment explanation
Indices: 50956425--50956470 Score: 74
Period size: 17 Copynumber: 2.8 Consensus size: 16
50956415 AATTTAACTT
50956425 TTTTTTTCTTTTTCTC
1 TTTTTTTCTTTTTCTC
50956441 TTTTTTTCTTTTTTCTC
1 TTTTTTTC-TTTTTCTC
*
50956458 TTTATTTCTTTTT
1 TTTTTTTCTTTTT
50956471 TTTCTTCTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 13 0.46
17 15 0.54
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTTCTTTTTCTC
Found at i:50956486 original size:27 final size:27
Alignment explanation
Indices: 50956435--50956487 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
50956425 TTTTTTTCTT
* *
50956435 TTTCTCTTTTTTTCTTTTTTCTCTTTA
1 TTTCTCTTTTTTTCTTCTCTCTCTTTA
50956462 TTTCT-TTTTTTTCTTCTCTCTTCTTT
1 TTTCTCTTTTTTTCTTCTCTC-TCTTT
50956488 CTGTCCTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (27 bp):
TTTCTCTTTTTTTCTTCTCTCTCTTTA
Found at i:50956487 original size:19 final size:17
Alignment explanation
Indices: 50956429--50956476 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
50956419 TAACTTTTTT
*
50956429 TTTC-TTTTTCTCTTTT
1 TTTCTTTTTTCTCTTTA
50956445 TTTCTTTTTTCTCTTTA
1 TTTCTTTTTTCTCTTTA
*
50956462 TTTCTTTTTTTTCTT
1 TTTCTTTTTTCTCTT
50956477 CTCTCTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 4 0.14
17 25 0.86
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTCTTTTTTCTCTTTA
Found at i:50956731 original size:21 final size:20
Alignment explanation
Indices: 50956698--50956741 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
50956688 GGTTGGGTCA
*
50956698 CCGGATCGGGTCGGGTCAGAC
1 CCGGATCGAGTCGGGTC-GAC
*
50956719 CCGGGTCGAGTCGGGTCGAC
1 CCGGATCGAGTCGGGTCGAC
50956739 CCG
1 CCG
50956742 ACTATTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.11, C:0.32, G:0.43, T:0.14
Consensus pattern (20 bp):
CCGGATCGAGTCGGGTCGAC
Found at i:50956833 original size:3 final size:3
Alignment explanation
Indices: 50956790--50956869 Score: 69
Period size: 3 Copynumber: 27.3 Consensus size: 3
50956780 TTATTTTTTT
* * * * *
50956790 TTC TTT TTC TTT TTC TTT TTC TTTC TTC TTG TTC TTG TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC
50956836 TTCC TTC TT- TTC TTC -TC TT- TT- TTC TTC TTC TTC T
1 TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
50956870 CCGTTCGGCC
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
2 8 0.13
3 48 0.77
4 6 0.10
ACGTcount: A:0.00, C:0.25, G:0.03, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:50957400 original size:30 final size:30
Alignment explanation
Indices: 50957364--50957531 Score: 189
Period size: 30 Copynumber: 5.7 Consensus size: 30
50957354 AAACACAGCA
* **
50957364 AAAGTTTTGGGGCCAAAATGTAATTTTGAG
1 AAAGTTTAGGGGTTAAAATGTAATTTTGAG
* *
50957394 AAAGTTTA-GGGTTAAAATGTAATTTCGAT
1 AAAGTTTAGGGGTTAAAATGTAATTTTGAG
*
50957423 AAAGTTTAGGGGTTAAAATGTAA-TTTCAG
1 AAAGTTTAGGGGTTAAAATGTAATTTTGAG
* * *
50957452 AATGTTTAGGGGTTGAAATGTAATTTTGAA
1 AAAGTTTAGGGGTTAAAATGTAATTTTGAG
* * *
50957482 AAATTTTAGAGGTCAAAATGTAATTTT-AG
1 AAAGTTTAGGGGTTAAAATGTAATTTTGAG
*
50957511 AAAAGTTTAGGGGTAAAAATG
1 -AAAGTTTAGGGGTTAAAATG
50957532 CAAATTTTTT
Statistics
Matches: 114, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
29 50 0.44
30 64 0.56
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (30 bp):
AAAGTTTAGGGGTTAAAATGTAATTTTGAG
Found at i:50957417 original size:29 final size:29
Alignment explanation
Indices: 50957378--50957528 Score: 171
Period size: 29 Copynumber: 5.1 Consensus size: 29
50957368 TTTTGGGGCC
50957378 AAAATGTAATTTTGAGAAAGTTTAGGGTT
1 AAAATGTAATTTTGAGAAAGTTTAGGGTT
* *
50957407 AAAATGTAATTTCGATAAAGTTTAGGGGTT
1 AAAATGTAATTTTGAGAAAGTTTA-GGGTT
* *
50957437 AAAATGTAA-TTTCAGAATGTTTAGGGGTT
1 AAAATGTAATTTTGAGAAAGTTTA-GGGTT
* * * *
50957466 GAAATGTAATTTTGAAAAATTTTAGAGGTC
1 AAAATGTAATTTTGAGAAAGTTTAG-GGTT
*
50957496 AAAATGTAATTTT-AGAAAAGTTTAGGGGT
1 AAAATGTAATTTTGAG-AAAGTTTAGGGTT
50957525 AAAA
1 AAAA
50957529 ATGCAAATTT
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
29 54 0.53
30 47 0.47
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.36
Consensus pattern (29 bp):
AAAATGTAATTTTGAGAAAGTTTAGGGTT
Found at i:50957441 original size:59 final size:58
Alignment explanation
Indices: 50957363--50957528 Score: 206
Period size: 59 Copynumber: 2.8 Consensus size: 58
50957353 TAAACACAGC
* *
50957363 AAAAGTTTTGGGGCCAAAATGTAATTTTGAGAAAGTTTAGGGTTAAAATGTAATTTCGA
1 AAAAGTTTAGGGGTCAAAATGTAATTTT-AGAAAGTTTAGGGTTAAAATGTAATTTCGA
* * * * * *
50957422 TAAAGTTTAGGGGTTAAAATGTAATTTCAGAATGTTTAGGGGTTGAAATGTAATTTTGA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTAGAAAGTTTA-GGGTTAAAATGTAATTTCGA
* * *
50957481 AAAATTTTAGAGGTCAAAATGTAATTTTAGAAAAGTTTAGGGGTAAAA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTAG-AAAGTTTAGGGTTAAAA
50957529 ATGCAAATTT
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
58 9 0.10
59 73 0.82
60 7 0.08
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (58 bp):
AAAAGTTTAGGGGTCAAAATGTAATTTTAGAAAGTTTAGGGTTAAAATGTAATTTCGA
Found at i:50957707 original size:20 final size:20
Alignment explanation
Indices: 50957679--50957740 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
50957669 ACGGGATTGT
50957679 ACTTTGGTGCCCCTGTTTGC
1 ACTTTGGTGCCCCTGTTTGC
* * *
50957699 ACTTCGGTGCCCC-ATTTAC
1 ACTTTGGTGCCCCTGTTTGC
*
50957718 ACTTTGGTGTCCCTGTTTGC
1 ACTTTGGTGCCCCTGTTTGC
50957738 ACT
1 ACT
50957741 ATAGTGCTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.10, C:0.31, G:0.21, T:0.39
Consensus pattern (20 bp):
ACTTTGGTGCCCCTGTTTGC
Found at i:50957726 original size:19 final size:20
Alignment explanation
Indices: 50957679--50957731 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
50957669 ACGGGATTGT
* *
50957679 ACTTTGGTGCCCCTGTTTGC
1 ACTTTGGTGCCCCTATTTAC
*
50957699 ACTTCGGTGCCCC-ATTTAC
1 ACTTTGGTGCCCCTATTTAC
*
50957718 ACTTTGGTGTCCCT
1 ACTTTGGTGCCCCT
50957732 GTTTGCACTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.09, C:0.32, G:0.21, T:0.38
Consensus pattern (20 bp):
ACTTTGGTGCCCCTATTTAC
Found at i:50959059 original size:23 final size:23
Alignment explanation
Indices: 50959033--50959140 Score: 101
Period size: 23 Copynumber: 4.7 Consensus size: 23
50959023 AAACAAAGAC
*
50959033 GAACAATGAATATTCTCTGCAAT
1 GAACAATGAAGATTCTCTGCAAT
* *
50959056 GAACAATGAAGATTTTTTGCAA-
1 GAACAATGAAGATTCTCTGCAAT
* * *
50959078 GAACAGTGGAGATTCTCTACAAT
1 GAACAATGAAGATTCTCTGCAAT
* ** * *
50959101 GATCGGTAAAGATTCGCTGCAAT
1 GAACAATGAAGATTCTCTGCAAT
*
50959124 AAACAATGAAGATTCTC
1 GAACAATGAAGATTCTC
50959141 CGTAAAAAGA
Statistics
Matches: 64, Mismatches: 20, Indels: 2
0.74 0.23 0.02
Matches are distributed among these distances:
22 17 0.27
23 47 0.73
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (23 bp):
GAACAATGAAGATTCTCTGCAAT
Found at i:50959513 original size:44 final size:41
Alignment explanation
Indices: 50959465--50959552 Score: 113
Period size: 44 Copynumber: 2.1 Consensus size: 41
50959455 TTAGTTATAT
50959465 AAATAAAAGAGTTATTAATTAAAAAGATGAATTAAAAAAATTAA
1 AAATAAAAGAGTTATTAATTAAAAA-ATGAATT--AAAAATTAA
* * * *
50959509 AAATAATATATTTATTAATTAAAAAATTAATTAAAAATTAA
1 AAATAAAAGAGTTATTAATTAAAAAATGAATTAAAAATTAA
50959550 AAA
1 AAA
50959553 AATTAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 12 0.30
43 6 0.15
44 22 0.55
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (41 bp):
AAATAAAAGAGTTATTAATTAAAAAATGAATTAAAAATTAA
Found at i:50959537 original size:12 final size:11
Alignment explanation
Indices: 50959522--50959558 Score: 51
Period size: 9 Copynumber: 3.5 Consensus size: 11
50959512 TAATATATTT
50959522 ATTAATTAAAAA
1 ATTAATT-AAAA
50959534 ATTAATTAAAA
1 ATTAATTAAAA
50959545 ATTAA--AAAA
1 ATTAATTAAAA
50959554 ATTAA
1 ATTAA
50959559 AATAACATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.36
11 9 0.36
12 7 0.28
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATTAATTAAAA
Found at i:50965011 original size:8 final size:8
Alignment explanation
Indices: 50964998--50965030 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
50964988 AGGAAAATAA
50964998 TTTAAAAT
1 TTTAAAAT
50965006 TTTAAAAT
1 TTTAAAAT
50965014 TTTAAAA-
1 TTTAAAAT
*
50965021 CTTAAAAT
1 TTTAAAAT
50965029 TT
1 TT
50965031 GGAGAAACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (8 bp):
TTTAAAAT
Found at i:50965014 original size:15 final size:16
Alignment explanation
Indices: 50964998--50965030 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
50964988 AGGAAAATAA
*
50964998 TTTAAAATTTTAAAAT
1 TTTAAAATCTTAAAAT
50965014 TTTAAAA-CTTAAAAT
1 TTTAAAATCTTAAAAT
50965029 TT
1 TT
50965031 GGAGAAACGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTAAAATCTTAAAAT
Found at i:50965279 original size:22 final size:22
Alignment explanation
Indices: 50965217--50965304 Score: 88
Period size: 23 Copynumber: 3.9 Consensus size: 22
50965207 ATACAAACTA
* *
50965217 CAGAGAATATTCACTATTCATGC
1 CAGAG-ATATTTACTGTTCATGC
*
50965240 CAGAAAATATTTACTGTTCATGC
1 CAG-AGATATTTACTGTTCATGC
50965263 CAGAGAT-TTCTACTGTTCATGC
1 CAGAGATATT-TACTGTTCATGC
* *
50965285 TAGAGAATATTTCCTGTTCA
1 CAGAG-ATATTTACTGTTCA
50965305 CTCGTTTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
21 2 0.04
22 19 0.35
23 31 0.56
24 3 0.05
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (22 bp):
CAGAGATATTTACTGTTCATGC
Found at i:50980612 original size:21 final size:21
Alignment explanation
Indices: 50980446--50980612 Score: 72
Period size: 21 Copynumber: 8.0 Consensus size: 21
50980436 CATCATTTTT
* *
50980446 AGAAGCTC-GAAG-GCTGAAC
1 AGAAGCTCATAAGAGCTAAAC
* * *
50980465 AAAAGCACATAAGTGCTAAAC
1 AGAAGCTCATAAGAGCTAAAC
* * * * *
50980486 AGAAACCCATAAGGGTTGAAC
1 AGAAGCTCATAAGAGCTAAAC
* *
50980507 AGAAGCTCATAAGAGCTGAAT
1 AGAAGCTCATAAGAGCTAAAC
* * * * * *
50980528 AAAAACCCAGAAGGGTTAAAC
1 AGAAGCTCATAAGAGCTAAAC
* *
50980549 AGAAGCTTGA-AAGAGCTAATC
1 AGAAGC-TCATAAGAGCTAAAC
* * * *
50980570 AAAAACTCATATA-AGTTGAAC
1 AGAAGCTCATA-AGAGCTAAAC
50980591 AGAAGCTCATAAGAGCTAAAC
1 AGAAGCTCATAAGAGCTAAAC
50980612 A
1 A
50980613 AAAACTAAAC
Statistics
Matches: 102, Mismatches: 40, Indels: 10
0.67 0.26 0.07
Matches are distributed among these distances:
19 6 0.06
20 6 0.06
21 88 0.86
22 2 0.02
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (21 bp):
AGAAGCTCATAAGAGCTAAAC
Found at i:50980618 original size:42 final size:42
Alignment explanation
Indices: 50980460--50980617 Score: 176
Period size: 42 Copynumber: 3.8 Consensus size: 42
50980450 GCTCGAAGGC
* * * *
50980460 TGAACAAAAGCACATAAGTGCTAAACAGAAACCCATAAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACAAAAACCCATAAGGGT
* * *
50980502 TGAACAGAAGCTCATAAGAGCTGAATAAAAACCCAGAAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACAAAAACCCATAAGGGT
* * * * *
50980544 TAAACAGAAGCTTGA-AAGAGCTAATCAAAAACTCATATA-AGT
1 TGAACAGAAGC-TCATAAGAGCTAAACAAAAACCCATA-AGGGT
50980586 TGAACAGAAGCTCATAAGAGCTAAACAAAAAC
1 TGAACAGAAGCTCATAAGAGCTAAACAAAAAC
50980618 TAAACACGAA
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 2 0.02
42 90 0.95
43 3 0.03
ACGTcount: A:0.49, C:0.17, G:0.18, T:0.16
Consensus pattern (42 bp):
TGAACAGAAGCTCATAAGAGCTAAACAAAAACCCATAAGGGT
Found at i:50984014 original size:33 final size:34
Alignment explanation
Indices: 50983974--50984039 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 34
50983964 CAAATATGTT
*
50983974 AAATATTTTAATATAATTTAATATAAAA-ATTAA
1 AAATATTTTAATATAATTCAATATAAAATATTAA
*
50984007 AAATATTTTAATATAATTCAATTTAAAATATTA
1 AAATATTTTAATATAATTCAATATAAAATATTA
50984040 TTTCCAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (34 bp):
AAATATTTTAATATAATTCAATATAAAATATTAA
Found at i:50987409 original size:33 final size:32
Alignment explanation
Indices: 50987338--50987409 Score: 74
Period size: 32 Copynumber: 2.2 Consensus size: 32
50987328 AATTAAAATC
*
50987338 ACTAAAAATATTAAAATAAATATTTTCAATAA
1 ACTAAAAATATTAAAATAAATATTTTAAATAA
* * **
50987370 ATTAAAAATATT-TAATATTTATATTTAAATAA
1 ACTAAAAATATTAAAATAAATAT-TTTAAATAA
50987402 TACTAAAA
1 -ACTAAAA
50987410 TAAATATAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
31 7 0.22
32 19 0.59
33 6 0.19
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (32 bp):
ACTAAAAATATTAAAATAAATATTTTAAATAA
Found at i:50988422 original size:11 final size:11
Alignment explanation
Indices: 50988406--50988434 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
50988396 ATTGCTTGAT
50988406 TTTTACAGAAA
1 TTTTACAGAAA
50988417 TTTTACAGAAA
1 TTTTACAGAAA
50988428 TTTTACA
1 TTTTACA
50988435 TTCTTCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (11 bp):
TTTTACAGAAA
Found at i:50991529 original size:18 final size:18
Alignment explanation
Indices: 50991506--50991553 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
50991496 AAAATATGAG
*
50991506 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
50991524 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
50991542 AAATGATGTTCA
1 AAATGATGTTCA
50991554 AATTGATGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:50992077 original size:72 final size:72
Alignment explanation
Indices: 50991977--50992148 Score: 260
Period size: 72 Copynumber: 2.4 Consensus size: 72
50991967 AACAACAATG
* *
50991977 CTAAA-CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTT
50992041 ATTTAT-
66 ATTTATA
* * *
50992047 GTGTAATCTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACT
1 CT-AAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACT
50992112 TATTTATA
65 TATTTATA
*
50992120 CTAAAT-TAGTTTTATCAATATTTGTTTAT
1 CTAAATCTAGTTTTATCAATAGTTGTTTAT
50992149 ATATGAATTT
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
70 1 0.01
71 23 0.26
72 65 0.72
73 1 0.01
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (72 bp):
CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTT
ATTTATA
Found at i:50996917 original size:14 final size:14
Alignment explanation
Indices: 50996885--50996931 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
50996875 TATCAAACAA
*
50996885 TTTTATTATTTAAAT
1 TTTTAATATTT-AAT
50996900 TTTTAATATTTAAT
1 TTTTAATATTTAAT
*
50996914 TTTTCAAAATTT-AT
1 TTTT-AATATTTAAT
50996928 TTTT
1 TTTT
50996932 CCAATTTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 13 0.45
15 16 0.55
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTAATATTTAAT
Done.