Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 24 of 255
Found at i:6521677 original size:35 final size:35
Alignment explanation
Indices: 6521619--6521725 Score: 160
Period size: 35 Copynumber: 3.0 Consensus size: 35
6521609 AATCATATCT
*
6521619 TCTAAGATTGTATATCATATCTAATATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
6521656 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
6521691 TTTAAGATTGTATCGTATCTAAGATTGCATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
6521726 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
35 51 0.77
36 5 0.08
37 10 0.15
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:6527293 original size:15 final size:15
Alignment explanation
Indices: 6527273--6527302 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6527263 ACTTCAATGG
6527273 TTAATTTATAACAAA
1 TTAATTTATAACAAA
6527288 TTAATTTATAACAAA
1 TTAATTTATAACAAA
6527303 CATTGAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAATTTATAACAAA
Found at i:6527848 original size:21 final size:21
Alignment explanation
Indices: 6527824--6527863 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6527814 AATATCTATT
*
6527824 ACTTAAAATAACTAAAAATTA
1 ACTTAAAACAACTAAAAATTA
6527845 ACTTAAAACAACTAAAAAT
1 ACTTAAAACAACTAAAAAT
6527864 AATATAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (21 bp):
ACTTAAAACAACTAAAAATTA
Found at i:6529033 original size:20 final size:20
Alignment explanation
Indices: 6529008--6529046 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
6528998 ATCCAATTCA
6529008 TCTCATTTAAACAAGGGATT
1 TCTCATTTAAACAAGGGATT
6529028 TCTCATTTAAACAAGGGAT
1 TCTCATTTAAACAAGGGAT
6529047 CTTACCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
TCTCATTTAAACAAGGGATT
Found at i:6534815 original size:16 final size:16
Alignment explanation
Indices: 6534794--6534824 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6534784 GGATATAAGA
6534794 GAATCAAGAAACTAAC
1 GAATCAAGAAACTAAC
6534810 GAATCAAGAAACTAA
1 GAATCAAGAAACTAA
6534825 GGTTCAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.16, G:0.13, T:0.13
Consensus pattern (16 bp):
GAATCAAGAAACTAAC
Found at i:6535295 original size:26 final size:26
Alignment explanation
Indices: 6535258--6535341 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
6535248 TGATACAAAT
* *
6535258 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6535284 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6535310 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6535336 TGATAA
1 TGATAA
6535342 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:6538972 original size:34 final size:34
Alignment explanation
Indices: 6538856--6538979 Score: 135
Period size: 34 Copynumber: 3.6 Consensus size: 34
6538846 ACATATATAA
* *
6538856 ATATCATATCA-ACATGTCATATTACCATAAACAT
1 ATATCAAATCAGA-ATGTCATATTTCCATAAACAT
* *
6538890 ATATCAGATCAAAATGTCATATTTCCGA-AAACAT
1 ATATCAAATCAGAATGTCATATTTCC-ATAAACAT
* *
6538924 ATATCGAATCAGAATGTCATATTTCCATAAGCAT
1 ATATCAAATCAGAATGTCATATTTCCATAAACAT
* * *
6538958 ATGTCAAATTAGAATGTAATAT
1 ATATCAAATCAGAATGTCATAT
6538980 CATATTAGAA
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
33 1 0.01
34 74 0.96
35 2 0.03
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (34 bp):
ATATCAAATCAGAATGTCATATTTCCATAAACAT
Found at i:6541112 original size:141 final size:142
Alignment explanation
Indices: 6540840--6541099 Score: 314
Period size: 141 Copynumber: 1.8 Consensus size: 142
6540830 TTGATGTCAT
* * * *
6540840 TTTAAAGGTTTAGCCCAGACGAGTAACCTTACATGTACATTAACAGCTTTAGCCAAGCTATTTGA
1 TTTAAAGGTTCAACCCAGACGAGTAACCTGACATGTACATTAACAGCTTGAGCCAAGCTATTTGA
* * * *
6540905 TGTGTTGAGAAAGGCTTAAACCAGAAAGCTAACCTGACATTAATATATGTTCATCTCGAACGAGC
66 TGTGTCGAGAAAGGCTTAAACCAGAAAGCTAACATGACATGAATATAAGTTCATCTCGAACGAGC
6540970 AACCTAAGGTTG
131 AACCTAAGGTTG
* *
6540982 TTTAAAGGTTCAACCCAGAC-AGGTAACCTGACATGTATATT-ACAGCTATGA-TCAAGCTATTT
1 TTTAAAGGTTCAACCCAGACGA-GTAACCTGACATGTACATTAACAGCT-TGAGCCAAGCTATTT
* * ** *
6541044 GATGTGTCGATAATGGCTTAGCCCA-AACGAG-TAACATGACATGATTATAAGTTCAT
64 GATGTGTCGAGAAAGGCTTAAACCAGAA--AGCTAACATGACATGAATATAAGTTCAT
6541100 TTTGGACGAG
Statistics
Matches: 99, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
140 2 0.02
141 58 0.59
142 39 0.39
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (142 bp):
TTTAAAGGTTCAACCCAGACGAGTAACCTGACATGTACATTAACAGCTTGAGCCAAGCTATTTGA
TGTGTCGAGAAAGGCTTAAACCAGAAAGCTAACATGACATGAATATAAGTTCATCTCGAACGAGC
AACCTAAGGTTG
Found at i:6542795 original size:23 final size:23
Alignment explanation
Indices: 6542769--6542813 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6542759 TGGGTATGTG
*
6542769 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
6542792 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
6542814 TTGAATTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:6548722 original size:30 final size:28
Alignment explanation
Indices: 6548641--6548723 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 28
6548631 TATATACATA
*
6548641 TGTACATAAAATATACACTAATATAATAAT
1 TGTA-ATAATATATACAC-AATATAATAAT
* *
6548671 AGTTATAATA-ATACTAGCAATAGTAATAATT
1 TGTAATAATATATAC-A-CAATA-TAATAA-T
6548702 TGTAATAATATATACACAATAT
1 TGTAATAATATATACACAATAT
6548724 GGTATTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
28 4 0.09
29 11 0.26
30 14 0.33
31 10 0.23
32 4 0.09
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (28 bp):
TGTAATAATATATACACAATATAATAAT
Found at i:6548825 original size:23 final size:23
Alignment explanation
Indices: 6548768--6548826 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 23
6548758 ATTTAAGAAT
*
6548768 ATATACATAAGAAATATATAACTA
1 ATATATATAA-AAATATATAACTA
*
6548792 ATGACAT-TAAAAATATAT-ACATA
1 AT-ATATATAAAAATATATAAC-TA
6548815 ATATATATAAAA
1 ATATATATAAAA
6548827 TACCTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
22 5 0.17
23 17 0.59
24 5 0.17
25 2 0.07
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (23 bp):
ATATATATAAAAATATATAACTA
Found at i:6549329 original size:25 final size:25
Alignment explanation
Indices: 6549281--6549327 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 25
6549271 GTTTCTTGGT
6549281 TTTTTTGGGGGGGAGTTAGGTTTTC
1 TTTTTTGGGGGGGAGTTAGGTTTTC
6549306 TTTTTT-GGGGGG-GTTAGGTTTT
1 TTTTTTGGGGGGGAGTTAGGTTTT
6549328 TTTGGGGGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 10 0.45
24 6 0.27
25 6 0.27
ACGTcount: A:0.06, C:0.02, G:0.40, T:0.51
Consensus pattern (25 bp):
TTTTTTGGGGGGGAGTTAGGTTTTC
Found at i:6550202 original size:29 final size:30
Alignment explanation
Indices: 6550146--6550204 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
6550136 TTTTGAAAAA
6550146 CAGAAATTAAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAGACTCAACTCAACTCTCG
*
6550176 CAGAAATTAAAAG-CTCAACTCACCTCTCG
1 CAGAAATTAAAAGACTCAACTCAACTCTCG
6550205 TAATATGAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.41, C:0.29, G:0.10, T:0.20
Consensus pattern (30 bp):
CAGAAATTAAAAGACTCAACTCAACTCTCG
Found at i:6550322 original size:14 final size:14
Alignment explanation
Indices: 6550305--6550334 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6550295 TTGATTTTTG
6550305 AAACAGAATTTGAA
1 AAACAGAATTTGAA
*
6550319 AAACAGATTTTGAA
1 AAACAGAATTTGAA
6550333 AA
1 AA
6550335 TACCTCGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.13, T:0.23
Consensus pattern (14 bp):
AAACAGAATTTGAA
Found at i:6550372 original size:86 final size:88
Alignment explanation
Indices: 6550230--6550394 Score: 219
Period size: 87 Copynumber: 1.9 Consensus size: 88
6550220 TTTTTGAAAA
* **
6550230 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACTCAAATCTCGCAATATAAG
6550295 TTGA-TTTTTGAAACAGAATTTG
66 TTGATTTTTTGAAACAGAATTTG
** * * * *
6550317 AAAAACAGATTTTGAAAATACCTC-GACATGTGA-CCGAGGCTCAACTCAAATCTCGCAATGTGA
1 AAAAACAGAAATTGAAAATACCTCAG-CACGTGAGCCAAGGCTCAACTCAAATCTCGCAATATAA
6550380 GTTGATTTTTTGAAA
65 GTTGATTTTTTGAAA
6550395 AATATAAATT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
86 31 0.46
87 36 0.54
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (88 bp):
AAAAACAGAAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACTCAAATCTCGCAATATAAG
TTGATTTTTTGAAACAGAATTTG
Found at i:6550530 original size:76 final size:76
Alignment explanation
Indices: 6550328--6550566 Score: 241
Period size: 78 Copynumber: 3.1 Consensus size: 76
6550318 AAAACAGATT
** * ** * *
6550328 TTGAAAATACCTC-GACATGTGACCGAGGCTCAACTCAAATCTCGCAATGTGAGTTGA-TTTTTT
1 TTGAAAATACCTCAG-CGCGTGACCAAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTTT
* * *
6550391 GAAAAATATAAA
65 GAAAGACAAAAA
* * *
6550403 TTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTTATTTT
1 TTG--AAAATACCTCAGCGCGTGA-C-CAAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTT
6550467 TTTGAAAGACAAAAA
62 TTTGAAAGACAAAAA
* *
6550482 TTGAAAATAGCTCAGCGCGTGACCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
1 TTGAAAATACCTCAGCGCGTGACCAAGGCTCAACTCACCTCTCGCAATATGAGTT--TATTTTTT
* *
6550547 TGAAAGGCAGAAA
64 TGAAAGACAAAAA
6550560 TTGAAAA
1 TTGAAAA
6550567 ACGGAAATTG
Statistics
Matches: 137, Mismatches: 18, Indels: 15
0.81 0.11 0.09
Matches are distributed among these distances:
75 5 0.04
76 29 0.21
77 31 0.23
78 53 0.39
79 19 0.14
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (76 bp):
TTGAAAATACCTCAGCGCGTGACCAAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTTTG
AAAGACAAAAA
Found at i:6550609 original size:169 final size:165
Alignment explanation
Indices: 6550408--6550731 Score: 434
Period size: 169 Copynumber: 1.9 Consensus size: 165
6550398 ATAAATTGAA
* * * * *
6550408 AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTTTGAA
1 AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGAA
*
6550473 AGACAAAAATTGAAAATAGCTCAGCGCGTGACC-AAGGCTCAACTCACCTCTCGCAATATGAGTT
66 A-ACAAAAATTGAAAATACCTC--CGCGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGTT
**
6550537 GATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
128 GA--TTTTTTTGAAAAACAGAAATTGAAAAACGGAAATTG
* * * *
6550577 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTGAC
1 AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGAA
* * * * * *
6550642 AATAGAAATTGAAATTACCTCTGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACAAAAATTGAAAATACCTCCGCGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
6550707 TTTTTTGAAAAACAGAAATTGAAAA
131 TTTTTTGAAAAACAGAAATTGAAAA
6550732 TACCTCAGCA
Statistics
Matches: 136, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
165 24 0.18
166 7 0.05
167 32 0.24
168 16 0.12
169 57 0.42
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (165 bp):
AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGAA
AACAAAAATTGAAAATACCTCCGCGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTGAAAAACAGAAATTGAAAAACGGAAATTG
Found at i:6550714 original size:243 final size:242
Alignment explanation
Indices: 6549983--6550809 Score: 785
Period size: 249 Copynumber: 3.4 Consensus size: 242
6549973 AACAGACATT
* * *
6549983 AAAACAGAAA-TGAAAATAGCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTCGTAATATGAGT
1 AAAACAGAAATTGAAAATAGCTCAGCGCGTGA-CCAAGGCTCAACTCACTTCTCGCAATATGAGT
** * * ** * *
6550047 TGA----TTTTTGAAACTTAACTTG-AAAGCAGATTTTGAAAATACCTCGATATGTGACTGGAGG
65 TGATTTTTTTTTGAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGAC-CGAGG
* ** * * * *
6550107 TTCAACTCACCTCTCGCAATATGAGTTGA--TTTTGAAAAACAGAAATT-AAAAGACTCAACTCA
129 CTCAACTCAAATCTCACAATACGAGTTGATTTTTTGAAAAATAGAAATTGAAAA-A-T-ACCTC-
** * * *
6550169 ACTCTCGCAGAAAT-TAAAAGCTCAACTCACCTCTCGTAATATGAGTTGAATTTTTTGAAAAA
190 A---T-GC-GTGATCT-GAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG----A
* *
6550231 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATAAGT
1 AAAACAGAAATTGAAAATAGCTCAGCGCGTGA-CCAAGGCTCAACTCACTTCTCGCAATATGAGT
* **
6550296 TGA----TTTTTGAAACAGAATTTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCGAGGC
65 TGATTTTTTTTTGAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCGAGGC
* ** *
6550357 TCAACTCAAATCTCGCAATGTGAGTTGATTTTTTGAAAAATATAAATTGAAAAAATACCTCAGTG
130 TCAACTCAAATCTCACAATACGAGTTGATTTTTTGAAAAATAGAAATTG-AAAAATACCTCA-TG
* *
6550422 TGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTTTGA
193 CGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
* * *
6550472 AAGACAAAAATTGAAAATAGCTCAGCGCGTGACCAAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAACAGAAATTGAAAATAGCTCAGCGCGTGACCAAGGCTCAACTCACTTCTCGCAATATGAGTT
* * *
6550537 GATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAG
66 GATTTTTTTTTGAAA--CAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGACC-GAG
*** * *
6550602 GCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTG-ACAATAGAAATTG-AAATTACCTC-T
128 GCTCAACTCAAATCTCACAATACGAGTTGA-TTTTTTGAAAAATAGAAATTGAAAAATACCTCAT
*
6550664 GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
192 GCGTGAT-CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
* * * ** * *
6550715 AAAACAGAAATTGAAAATACCTCA--GCATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGT
1 AAAACAGAAATTGAAAATAGCTCAGCGCGTGAC-CAAGGCTCAACTCACTTCTCGCAATATGAGT
6550778 TGATTTTTTTTTTGAAAAACAGAAATTGAAAA
65 TGA-TTTTTTTTTG--AAACAGAAATTGAAAA
6550810 TACCTCAGCA
Statistics
Matches: 500, Mismatches: 59, Indels: 45
0.83 0.10 0.07
Matches are distributed among these distances:
240 33 0.07
241 35 0.07
242 30 0.06
243 91 0.18
244 9 0.02
245 52 0.10
246 40 0.08
247 39 0.08
248 17 0.03
249 97 0.19
250 35 0.07
251 17 0.03
252 1 0.00
253 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (242 bp):
AAAACAGAAATTGAAAATAGCTCAGCGCGTGACCAAGGCTCAACTCACTTCTCGCAATATGAGTT
GATTTTTTTTTGAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCGAGGCT
CAACTCAAATCTCACAATACGAGTTGATTTTTTGAAAAATAGAAATTGAAAAATACCTCATGCGT
GATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
Found at i:6550817 original size:78 final size:75
Alignment explanation
Indices: 6550560--6550913 Score: 419
Period size: 78 Copynumber: 4.7 Consensus size: 75
6550550 AAGGCAGAAA
* * * *** *
6550560 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTCACAATAT
6550625 GAGTTGATTTTT
64 GAGTTGATTTTT
* * * * * ** *
6550637 TTG-ACAATAGAAATTGAAATTACCTCTGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
6550701 GTTGATTTTT
66 GTTGATTTTT
*
6550711 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
6550776 GTTGATTTTTTTT
66 GTTGA---TTTTT
* * * *
6550789 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGATCAACTAATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
*
6550854 GTTGA--ATT
66 GTTGATTTTT
* * *
6550862 TTG-AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAATTCATTT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTT
6550914 TGAACAGAAA
Statistics
Matches: 246, Mismatches: 27, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
72 43 0.17
73 5 0.02
74 41 0.17
75 57 0.23
76 25 0.10
77 3 0.01
78 72 0.29
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
GTTGATTTTT
Found at i:6550845 original size:153 final size:147
Alignment explanation
Indices: 6550560--6550913 Score: 431
Period size: 153 Copynumber: 2.4 Consensus size: 147
6550550 AAGGCAGAAA
* * * ***
6550560 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTCACAATAC
* * * * * * *
6550625 GAGTTGATTTTTTTGACAATAGAAATTGAAATTACCTCTGCGTGTCCTGAGGCTCAACTCACCTC
64 GAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGATCAACTAACCTC
*
6550690 TCGCAATATGAGTTGATTTTT
129 TCGCAATATGAGTTGA--ATT
* *
6550711 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATACGA
* **
6550776 GTTGATTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGATCAACTAATT
66 GTTGA---TTTTTTTG-AAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGATCAACTAACC
6550841 TCTCGCAATATGAGTTGAATT
127 TCTCGCAATATGAGTTGAATT
* * *
6550862 TTG-AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAATTCATTT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTT
6550914 TGAACAGAAA
Statistics
Matches: 176, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
149 31 0.18
150 45 0.26
151 36 0.20
152 8 0.05
153 56 0.32
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (147 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATACGA
GTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGATCAACTAACCTCTC
GCAATATGAGTTGAATT
Found at i:6550933 original size:49 final size:49
Alignment explanation
Indices: 6550867--6550962 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
6550857 GAATTTTGAA
*
6550867 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAATTCATTTTG
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
6550916 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
6550963 CTCGCAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (49 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:6550997 original size:71 final size:71
Alignment explanation
Indices: 6550916--6551138 Score: 270
Period size: 71 Copynumber: 3.0 Consensus size: 71
6550906 ATTCATTTTG
*
6550916 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
6550981 TTTGAA
66 TTTGAA
*
6550987 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGTTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
6551052 TTTTTTTTTGAA
66 ------TTTGAA
* * * ** *
6551064 AGACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGC
1 A-ACAGAAATTGAAATTACCTCA--ATGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
6551128 TG-ATTTGAA
62 TGAATTTGAA
6551137 AA
1 AA
6551139 AGTAGAAATT
Statistics
Matches: 133, Mismatches: 9, Indels: 19
0.83 0.06 0.12
Matches are distributed among these distances:
71 63 0.47
72 1 0.01
73 7 0.05
77 7 0.05
78 20 0.15
79 1 0.01
80 33 0.25
81 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (71 bp):
AACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTGAA
Found at i:6551137 original size:270 final size:272
Alignment explanation
Indices: 6550645--6551138 Score: 728
Period size: 270 Copynumber: 1.8 Consensus size: 272
6550635 TTTTGACAAT
** *
6550645 AGAAATTGAAATTACCTCTGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TA
*
6550710 TTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATG
64 TTTGAAAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAATATG
* * *
6550775 AGTTGATTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGATCAACTAAT
129 AGTTGAATTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTCGAGGATCAACTAAC
* *
6550840 TTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTC
194 CTCTCGCAATATGAGCTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTC
6550905 AATTCATTTTGAAC
259 AATTCATTTTGAAC
* **
6550919 AGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATT
1 AGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATT
* ** * *
6550983 TG-AAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGTTCAACTCATTTCTCGCAATATGAG
66 TGAAAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAATATGAG
* * *
6551047 TTGAATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCA
131 TTGAATTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGT---CTCGAGGATCAACTAA
6551111 CCTCTCGCAATATGAGCTG-A-TTTGAAAA
193 CCTCTCGCAATATGAGCTGAATTTTGAAAA
6551139 AGTAGAAATT
Statistics
Matches: 197, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
270 108 0.55
271 5 0.03
272 27 0.14
273 1 0.01
274 56 0.28
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (272 bp):
AGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATT
TGAAAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAATATGAG
TTGAATTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTCGAGGATCAACTAACCT
CTCGCAATATGAGCTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAA
TTCATTTTGAAC
Found at i:6551324 original size:87 final size:82
Alignment explanation
Indices: 6551156--6551369 Score: 302
Period size: 87 Copynumber: 2.5 Consensus size: 82
6551146 ATTAAAAGGT
* * * *
6551156 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACATAAATGAAAACAGAATTGAAAATA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA-AA-GTAAATGAAAACAGAAATGAAAATA
6551221 CCTCAGCGTGACCTGAGGC
64 CCTCAGCGTGACCTGAGGC
6551240 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGTAGGAATTGAAAAGCAGAAATGAAA
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGTA--AA-TGAAAA-CAGAAATGAAA
*
6551305 ATACCTCAGCGTGCCCTGAGGC
61 ATACCTCAGCGTGACCTGAGGC
* *
6551327 TCAACTCACCTCTCGCAATATGAGTTGGTTTTGGAAAAGTAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTAAA
6551370 AATTAAAAAC
Statistics
Matches: 118, Mismatches: 7, Indels: 10
0.87 0.05 0.07
Matches are distributed among these distances:
83 2 0.02
84 31 0.26
85 9 0.08
86 18 0.15
87 58 0.49
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (82 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTAAATGAAAACAGAAATGAAAATACC
TCAGCGTGACCTGAGGC
Found at i:6551394 original size:14 final size:14
Alignment explanation
Indices: 6551377--6551403 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6551367 AAAAATTAAA
6551377 AACAGAATTTGAAT
1 AACAGAATTTGAAT
6551391 AACAGAATTTGAA
1 AACAGAATTTGAA
6551404 AATACCTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.26
Consensus pattern (14 bp):
AACAGAATTTGAAT
Found at i:6551540 original size:55 final size:53
Alignment explanation
Indices: 6551429--6551587 Score: 246
Period size: 55 Copynumber: 2.9 Consensus size: 53
6551419 GACCCGAGGC
* * *
6551429 TCAACTCACCTCTCACAATATGAGCTGATTTTGAAAAGTAGAAATTAAAAGGT
1 TCAACCCACCTCTCGCAATATGAGTTGATTTTGAAAAGTAGAAATTAAAAGGT
6551482 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAAGTAGAAATTAAAAGGT
1 TCAACCCACCTCTCGCAATATGAGTTGATT-TTGAA-AAGTAGAAATTAAAAGGT
* *
6551537 TCAACCCACCTCTCGCAATATGAGTTGGTTTTGGAAAAGTAAAAATTAAAA
1 TCAACCCACCTCTCGCAATATGAGTTGATTTT-GAAAAGTAGAAATTAAAA
6551588 ACAGAATTTG
Statistics
Matches: 98, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
53 27 0.28
54 21 0.21
55 50 0.51
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (53 bp):
TCAACCCACCTCTCGCAATATGAGTTGATTTTGAAAAGTAGAAATTAAAAGGT
Found at i:6551952 original size:71 final size:72
Alignment explanation
Indices: 6551768--6551959 Score: 255
Period size: 72 Copynumber: 2.7 Consensus size: 72
6551758 ATTAAAAGGT
* * * * * * *
6551768 TCAACCCACCTCTCGCAATATGAGTTGATTCTGACAAACAGAAATTGAAATTACCTCATCGTGTC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAATACCTCAGCGTGTC
*
6551833 CTGAGGC
66 CCGAGGC
**
6551840 TCAACTCACCTCTCGCAATATGAGTTGAAATT-AAAACACAAAAATTAAAAATACCTCAGCGTG-
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAA-ACAAAAATTAAAAATACCTCAGCGTGT
6551903 CCCGAGGC
65 CCCGAGGC
*
6551911 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAC-AAAATTAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
6551960 GGCTTAACTC
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
70 10 0.10
71 41 0.39
72 54 0.51
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAATACCTCAGCGTGTC
CCGAGGC
Found at i:6551985 original size:52 final size:53
Alignment explanation
Indices: 6551907--6552064 Score: 212
Period size: 55 Copynumber: 2.9 Consensus size: 53
6551897 AGCGTGCCCG
* *
6551907 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACA-AAATTAAA
1 AGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAAATTAAA
* *
6551959 AGGCTTAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAAGTAGAAATTAAA
1 AGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAAA-CAGAAATTAAA
* *
6552014 AGG-TTAAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATT
1 AGGCTT-AACTCACCTCTCGCAATATGAGTTGATT-TTGAAAAACAGAAATT
6552065 GAAATTACCT
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
52 34 0.37
53 5 0.05
54 10 0.11
55 41 0.44
56 3 0.03
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (53 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAAATTAAA
Found at i:6552134 original size:70 final size:71
Alignment explanation
Indices: 6552024--6552203 Score: 209
Period size: 70 Copynumber: 2.5 Consensus size: 71
6552014 AGGTTAAACC
* ** * * * * * *
6552024 CACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTGAG
1 CACCTCTAGCAATATGAGTTGA-AATTAAAAAACA-AAATTGAAAATACCTCAGCGTGCCCCGAG
6552089 GCTCAACT
64 GCTCAACT
* * *
6552097 CATCTCTCGC-ATATGAGTTGAAATTAAAACACAAAATTGAAAATACCTCAGCGTGCCCCGAGGC
1 CACCTCTAGCAATATGAGTTGAAATTAAAAAACAAAATTGAAAATACCTCAGCGTGCCCCGAGGC
6552161 TCAACT
66 TCAACT
**
6552167 CACCTCTAGCAATATGAGTTGATTTTAAAAAACAAAA
1 CACCTCTAGCAATATGAGTTGAAATTAAAAAACAAAA
6552204 ATTAAAAGGC
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
70 41 0.45
71 30 0.33
72 11 0.12
73 9 0.10
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (71 bp):
CACCTCTAGCAATATGAGTTGAAATTAAAAAACAAAATTGAAAATACCTCAGCGTGCCCCGAGGC
TCAACT
Found at i:6552159 original size:250 final size:253
Alignment explanation
Indices: 6551709--6552488 Score: 1430
Period size: 250 Copynumber: 3.1 Consensus size: 253
6551699 GCGTGACCTG
* *
6551709 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAAGTCGAAATTAAAAGGTTCAACC
1 AGGCTTAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAAGTAGAAATTAAAAGGTTCAACC
6551774 CACCTCTCGCAATATGAGTTGATTC-TGACAAACAGAAATTGAAATTACCTCATCGTGTCCTGAG
66 CACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTGAG
*
6551838 GCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTAAAAATACCTCAGCGTG
131 GCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTG
6551903 -CCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAC-AAAATTAAA
196 CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
*
6551959 AGGCTTAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAAGTAGAAATTAAAAGGTTAAACC
1 AGGCTTAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAAGTAGAAATTAAAAGGTTCAACC
6552024 CACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTGAG
66 CACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTGAG
*
6552089 GCTCAACTCATCTCTCGC-ATATGAGTTGAAATTAAAACAC-AAAATTGAAAATACCTCAGCGTG
131 GCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTG
*
6552152 CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTAAAAAACAAAAATTAAA
196 CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
*
6552210 AGGCTTAACTCACCTCTCGCAATATGAGCTAATTTTGAAAAAAGTAGAAA-TAAAAGGTTCAACC
1 AGGCTTAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAAGTAGAAATTAAAAGGTTCAACC
6552274 CACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTGAG
66 CACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTGAG
*
6552339 GCTCAACTCACCTCTTGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTG
131 GCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTG
6552404 CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAACAAAAATTAAA
196 CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
*
6552461 AGGCTTAACTCACCTCTTGCAATATGAG
1 AGGCTTAACTCACCTCTCGCAATATGAG
6552489 TCAATTTAAA
Statistics
Matches: 513, Mismatches: 12, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
249 22 0.04
250 249 0.49
251 178 0.35
252 64 0.12
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (253 bp):
AGGCTTAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAAGTAGAAATTAAAAGGTTCAACC
CACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTGAG
GCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTG
CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:6552237 original size:53 final size:54
Alignment explanation
Indices: 6552157--6552302 Score: 181
Period size: 54 Copynumber: 2.7 Consensus size: 54
6552147 GCGTGCCCCG
* *
6552157 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT-AAAAAA-CAAAAATTAAA
1 AGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAAGCAAAAA-TAAA
* * * *
6552210 AGGCTTAACTCACCTCTCGCAATATGAGCTAATTTTGAAAAAAGTAGAAATAAA
1 AGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAAGCAAAAATAAA
*
6552264 AGG-TTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
1 AGGCTT-AACTCACCTCTCGCAATATGAGTTGATT-TTGA
6552303 CAAACAGAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
53 34 0.43
54 38 0.47
55 8 0.10
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.27
Consensus pattern (54 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAAGCAAAAATAAA
Found at i:6552361 original size:73 final size:71
Alignment explanation
Indices: 6552268--6552461 Score: 255
Period size: 72 Copynumber: 2.7 Consensus size: 71
6552258 AATAAAAGGT
* * * * * *
6552268 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGT
1 TCAACTCACCTCTAGCAATATGAGTTGATT-TTGA-AAACAAAAATTGAAAATACCTCAGCGTGC
*
6552333 CCTGAGGC
64 CCCGAGGC
* ** *
6552341 TCAACTCACCTCTTGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCC
1 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAA-ACAAAAATTGAAAATACCTCAGCGTGCC
6552406 CCGAGGC
65 CCGAGGC
6552413 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATT-AAAA
1 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTGAAAA
6552462 GGCTTAACTC
Statistics
Matches: 106, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
70 4 0.04
71 11 0.10
72 65 0.61
73 26 0.25
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (71 bp):
TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTGAAAATACCTCAGCGTGCCC
CGAGGC
Found at i:6565162 original size:43 final size:43
Alignment explanation
Indices: 6565101--6565214 Score: 194
Period size: 43 Copynumber: 2.7 Consensus size: 43
6565091 ATTCAGGCCT
*
6565101 TCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCGGGCG
1 TCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGGCG
*
6565144 TCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGGCT
1 TCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGGCG
*
6565187 TCGAGCCTAGCAGGC-GTAATGCCGGTGA
1 TCGAGCCTAGCAGGCTATAATGCCGGTGA
6565215 ATGAGTTCAG
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
42 12 0.18
43 56 0.82
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.23
Consensus pattern (43 bp):
TCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATATCAGGCG
Found at i:6568647 original size:18 final size:18
Alignment explanation
Indices: 6568624--6568660 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6568614 TAGTAAATAT
*
6568624 ATTATTTTAAAAATTTAA
1 ATTATTTTAAAAAATTAA
6568642 ATTATTTTAAAAAATTAA
1 ATTATTTTAAAAAATTAA
6568660 A
1 A
6568661 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATTTTAAAAAATTAA
Found at i:6568656 original size:19 final size:18
Alignment explanation
Indices: 6568624--6568662 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
6568614 TAGTAAATAT
*
6568624 ATTATTTTAAAAATTTAA
1 ATTATTTTAAAAATTAAA
6568642 ATTATTTTAAAAAATTAAA
1 ATTATTTT-AAAAATTAAA
6568661 AT
1 AT
6568663 AAAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATTTTAAAAATTAAA
Found at i:6571261 original size:27 final size:27
Alignment explanation
Indices: 6571227--6571281 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
6571217 AAAGATTGGG
6571227 AATTTGAAGGACAAAGTAATAGAGGAA
1 AATTTGAAGGACAAAGTAATAGAGGAA
6571254 AATTTGAAGGACAAAGTAATAGAGGAA
1 AATTTGAAGGACAAAGTAATAGAGGAA
6571281 A
1 A
6571282 GGAAAGTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.53, C:0.04, G:0.25, T:0.18
Consensus pattern (27 bp):
AATTTGAAGGACAAAGTAATAGAGGAA
Found at i:6581085 original size:5 final size:5
Alignment explanation
Indices: 6581075--6581102 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6581065 CAATTTGTGA
6581075 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
6581103 GAACATACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:6584806 original size:57 final size:58
Alignment explanation
Indices: 6584680--6584814 Score: 182
Period size: 57 Copynumber: 2.3 Consensus size: 58
6584670 ATTGACCTCA
* * *
6584680 TTACAAATAAGATTTAGCCTAGACGGGTAATCTTGATATAAGCCCTCTCAAGCATATG
1 TTACAGATAGGATTTAGCTTAGACGGGTAATCTTGATATAAGCCCTCTCAAGCATATG
* * **
6584738 TTACAGATAGGATTTAGCTTAGACGGGTAATCTTGAT-TAAGCTCTTTTGAGCATATG
1 TTACAGATAGGATTTAGCTTAGACGGGTAATCTTGATATAAGCCCTCTCAAGCATATG
**
6584795 TTGGAGATAGGATTTAGCTT
1 TTACAGATAGGATTTAGCTT
6584815 GGACAAGTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
57 34 0.50
58 34 0.50
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.34
Consensus pattern (58 bp):
TTACAGATAGGATTTAGCTTAGACGGGTAATCTTGATATAAGCCCTCTCAAGCATATG
Found at i:6594280 original size:139 final size:139
Alignment explanation
Indices: 6594030--6594308 Score: 558
Period size: 139 Copynumber: 2.0 Consensus size: 139
6594020 CTCGGCATTG
6594030 TCTATCTCATTGGTTATCTTCGATTATTTTCCCATTTCACTTTCAAATCTAATAGGGGAATCCAT
1 TCTATCTCATTGGTTATCTTCGATTATTTTCCCATTTCACTTTCAAATCTAATAGGGGAATCCAT
6594095 AGATCAAGTTAATGCGACGATAGGGGTTTTAATTAGAAGGAGATTTCAATTAATCAACCTAGAGT
66 AGATCAAGTTAATGCGACGATAGGGGTTTTAATTAGAAGGAGATTTCAATTAATCAACCTAGAGT
6594160 CAGTTGTTC
131 CAGTTGTTC
6594169 TCTATCTCATTGGTTATCTTCGATTATTTTCCCATTTCACTTTCAAATCTAATAGGGGAATCCAT
1 TCTATCTCATTGGTTATCTTCGATTATTTTCCCATTTCACTTTCAAATCTAATAGGGGAATCCAT
6594234 AGATCAAGTTAATGCGACGATAGGGGTTTTAATTAGAAGGAGATTTCAATTAATCAACCTAGAGT
66 AGATCAAGTTAATGCGACGATAGGGGTTTTAATTAGAAGGAGATTTCAATTAATCAACCTAGAGT
6594299 CAGTTGTTC
131 CAGTTGTTC
6594308 T
1 T
6594309 TACTCTCGAA
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 140 1.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (139 bp):
TCTATCTCATTGGTTATCTTCGATTATTTTCCCATTTCACTTTCAAATCTAATAGGGGAATCCAT
AGATCAAGTTAATGCGACGATAGGGGTTTTAATTAGAAGGAGATTTCAATTAATCAACCTAGAGT
CAGTTGTTC
Found at i:6600638 original size:70 final size:70
Alignment explanation
Indices: 6600525--6600664 Score: 244
Period size: 70 Copynumber: 2.0 Consensus size: 70
6600515 AAATTAATTC
* *
6600525 GTAAACTCCGGTAATACCTCGTACCCTATTCCGGTAATGAATACGAGTAGGAGGTATTACATTTG
1 GTAAACTCCAGTAATACCTCGTACCCTATTCCGGTAATGAATACAAGTAGGAGGTATTACATTTG
6600590 TTGGT
66 TTGGT
* *
6600595 GTAAACTCTAGTAATACCTCGTACCCTATTCCGGTAATGAATACAAGTAGGGGGTATTACATTTG
1 GTAAACTCCAGTAATACCTCGTACCCTATTCCGGTAATGAATACAAGTAGGAGGTATTACATTTG
6600660 TTGGT
66 TTGGT
6600665 ATCAGAGCTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (70 bp):
GTAAACTCCAGTAATACCTCGTACCCTATTCCGGTAATGAATACAAGTAGGAGGTATTACATTTG
TTGGT
Found at i:6609870 original size:39 final size:38
Alignment explanation
Indices: 6609827--6609915 Score: 108
Period size: 39 Copynumber: 2.3 Consensus size: 38
6609817 CGGTACCTTA
* * * *
6609827 TGGTGTGTAGGGTTTGATGGGTTGA-TTTATCTCCATACT
1 TGGTGTGTAGGGCTAGATGGGTTGATTTTATC-CC-CACG
*
6609866 TGGTGTGTAGGGCTAGGTGGGTTGATTTTATCCCCACG
1 TGGTGTGTAGGGCTAGATGGGTTGATTTTATCCCCACG
6609904 TGGTGTGTAGGG
1 TGGTGTGTAGGG
6609916 GTGGACGAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
38 14 0.32
39 24 0.55
40 6 0.14
ACGTcount: A:0.13, C:0.11, G:0.37, T:0.38
Consensus pattern (38 bp):
TGGTGTGTAGGGCTAGATGGGTTGATTTTATCCCCACG
Found at i:6617990 original size:16 final size:17
Alignment explanation
Indices: 6617949--6617990 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
6617939 TTTTAGTAAA
6617949 ATTTCTTTTCATCCTCT
1 ATTTCTTTTCATCCTCT
*
6617966 ATTT-ATTTCATCCTCT
1 ATTTCTTTTCATCCTCT
6617982 -TTTCTTTTC
1 ATTTCTTTTC
6617991 CTCTCTCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 3 0.14
16 15 0.68
17 4 0.18
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTCTTTTCATCCTCT
Found at i:6618239 original size:22 final size:22
Alignment explanation
Indices: 6618213--6618272 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
6618203 CGATCTAATC
* **
6618213 AAACTTTTGACAAATTTTGCCA
1 AAACTTTCGACAAATCATGCCA
6618235 AAACTTTCGACAAATCATGCCA
1 AAACTTTCGACAAATCATGCCA
6618257 AAACTTTCGACAAATC
1 AAACTTTCGACAAATC
6618273 TTGATTAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.28
Consensus pattern (22 bp):
AAACTTTCGACAAATCATGCCA
Found at i:6621164 original size:15 final size:15
Alignment explanation
Indices: 6621144--6621178 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
6621134 AAACAAAAGA
6621144 AACCTTAATAAACAC
1 AACCTTAATAAACAC
6621159 AACCTTAATAAACAC
1 AACCTTAATAAACAC
6621174 -ACCTT
1 AACCTT
6621179 TTAGTTGCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.23
Consensus pattern (15 bp):
AACCTTAATAAACAC
Found at i:6622260 original size:29 final size:29
Alignment explanation
Indices: 6622179--6622293 Score: 97
Period size: 29 Copynumber: 4.0 Consensus size: 29
6622169 TACATACATG
* * *
6622179 CATATAGCCAACTAGGCCCAA-TCTTATT
1 CATATGGCCCACTAGGCCCAATTCATATT
* * * *
6622207 CAAATGGCCCATTTGGCCCAGTTCATATT
1 CATATGGCCCACTAGGCCCAATTCATATT
* * * **
6622236 CTTATGGCCTACTAGGCCTAATTCACCTT
1 CATATGGCCCACTAGGCCCAATTCATATT
* *
6622265 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAATTCATATT
6622294 ATACTCATGC
Statistics
Matches: 63, Mismatches: 23, Indels: 1
0.72 0.26 0.01
Matches are distributed among these distances:
28 15 0.24
29 48 0.76
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAATTCATATT
Found at i:6622540 original size:8 final size:8
Alignment explanation
Indices: 6622527--6622556 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
6622517 CGACATTTTA
6622527 GCTTTTCG
1 GCTTTTCG
6622535 GCTTTTCG
1 GCTTTTCG
*
6622543 GCATTTCG
1 GCTTTTCG
6622551 GCTTTT
1 GCTTTT
6622557 GTCGATTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.50
Consensus pattern (8 bp):
GCTTTTCG
Found at i:6629937 original size:29 final size:29
Alignment explanation
Indices: 6629880--6629970 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 29
6629870 GGTTCAATCT
* * * * *
6629880 TATTCAAATGGCCCATTTGGTCTAGTTCA
1 TATTCATATGGCCCATTAGGCCCAATTCA
*
6629909 TATTCTTATGGCCCATTAGGCCCAATTCA
1 TATTCATATGGCCCATTAGGCCCAATTCA
* *
6629938 CT-TTCATATGGCCTATTAGGCCCAAATCA
1 -TATTCATATGGCCCATTAGGCCCAATTCA
6629967 TATT
1 TATT
6629971 ATACTCATGC
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
28 1 0.02
29 49 0.96
30 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.36
Consensus pattern (29 bp):
TATTCATATGGCCCATTAGGCCCAATTCA
Found at i:6634195 original size:15 final size:14
Alignment explanation
Indices: 6634171--6634201 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
6634161 CATAAAACTG
6634171 TTTAGATTTATTAA
1 TTTAGATTTATTAA
6634185 TTTATGATTTATTAA
1 TTTA-GATTTATTAA
6634200 TT
1 TT
6634202 AATTTGGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (14 bp):
TTTAGATTTATTAA
Found at i:6640520 original size:45 final size:45
Alignment explanation
Indices: 6640449--6640537 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
6640439 ACCTGTGTTC
* * *
6640449 TGGCATGCACTGGTTGCTTTGGATCAACACTAAATCTTGTGGTTT
1 TGGCATGCACTGATTGATTTGAATCAACACTAAATCTTGTGGTTT
6640494 TGGCATGCACTGATTGATTTGAATCAACACTAAATCTTGTGGTT
1 TGGCATGCACTGATTGATTTGAATCAACACTAAATCTTGTGGTT
6640538 ATGTTAGGAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (45 bp):
TGGCATGCACTGATTGATTTGAATCAACACTAAATCTTGTGGTTT
Found at i:6643874 original size:162 final size:161
Alignment explanation
Indices: 6643673--6644131 Score: 521
Period size: 162 Copynumber: 2.8 Consensus size: 161
6643663 TGACTGACAT
* * *
6643673 TGGGAAGAGAAACTTTAAATTATAGCATTTTTGAACTTCTACTTTCCTTAAACTTTGGAGGCTTA
1 TGGGAAGAGATACTTTAAATTATTGCATTTTT-AACTTCTACTTTCCTTAAACTTTGGAGGTTTA
* * * *
6643738 TATTTGACACTTGTGGATCTTGGATTATGTCTTCCACTCGTGAGCAACTCTTTATCTTCAAAGTA
65 TATTTGACACTTGTGGATCTTGGATTATTTCTTCTAATCGAGAGCAACTCTTTATCTTCAAAGTA
* * *
6643803 TGCAATTGCCCAAG-GATTTTAGCAACAGACT-G
130 TGCAATTGCCCAAGAG-TATCAACAACAGA-TAG
* *
6643835 TGGGAAGAGGTACTTTAAATTATTGCATTTGTTAACTTCTACTTCCCTTAAACTTTGGAGGTTTA
1 TGGGAAGAGATACTTTAAATTATTGCATTT-TTAACTTCTACTTTCCTTAAACTTTGGAGGTTTA
* * * * *
6643900 TGTGTGACACTTGTGGGTCTTGGATTATTTCTTCTAATTGCGAGCAACTCTTTATCTTCAAAGTA
65 TATTTGACACTTGTGGATCTTGGATTATTTCTTCTAATCGAGAGCAACTCTTTATCTTCAAAGTA
* *
6643965 TGCAATTGTCCAAGAGTATCAACAACAGATAT
130 TGCAATTGCCCAAGAGTATCAACAACAGATAG
* ** * * ** * *
6643997 TGGGAAGATATA-TTTCAAATTATTGCAGCCTATAACTTGTA-TTTCCCTTAGGCATTGGAAGTT
1 TGGGAAGAGATACTTT-AAATTATTGCA-TTTTTAACTTCTACTTT-CCTTAAACTTTGGAGGTT
* * * * *
6644060 TATATTTGATACTTGTGGATCTTGAATTATTTCTTCTAATCCAGAGCACCTCTTTATCTTCAACG
63 TATATTTGACACTTGTGGATCTTGGATTATTTCTTCTAATCGAGAGCAACTCTTTATCTTCAAAG
*
6644125 TTTGCAA
128 TATGCAA
6644132 CTTGGGTGCA
Statistics
Matches: 251, Mismatches: 40, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
161 6 0.02
162 241 0.96
163 4 0.02
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (161 bp):
TGGGAAGAGATACTTTAAATTATTGCATTTTTAACTTCTACTTTCCTTAAACTTTGGAGGTTTAT
ATTTGACACTTGTGGATCTTGGATTATTTCTTCTAATCGAGAGCAACTCTTTATCTTCAAAGTAT
GCAATTGCCCAAGAGTATCAACAACAGATAG
Found at i:6645720 original size:162 final size:162
Alignment explanation
Indices: 6645453--6645772 Score: 376
Period size: 162 Copynumber: 2.0 Consensus size: 162
6645443 CGTAGTTTGT
* * * * *
6645453 AATTGCCCAGGGCTATTAGCAACATATAATGGGAAGAGATACTTTAAATTTTCCATTTTTTTAAC
1 AATTACCCAGGGCTATTAGCAACAGACAATGGGAAAAGATACTTTAAATTATCCATTTTTTTAAC
* * * *
6645518 TTCTACTTTCCTAAAAATTCGGAAGCTTATATACGACACTTGTGGATCTTGGATTATATTTTTTA
66 TTCTACTTTCCTAAAAATTCGGAAGCTTACATACGACACTTGTGGATCTTGAATTAGATGTTTTA
* *
6645583 AATGCAAGTAATTTTTTATCTTCAAAGTATGC
131 AATGCAAGCAATTCTTTATCTTCAAAGTATGC
*
6645615 AATTACCCAAGGGC-ATTAGCAACAGACAATGGGAAAAGATACTTTAAATTATCGCA-TTTTTTC
1 AATTACCC-AGGGCTATTAGCAACAGACAATGGGAAAAGATACTTTAAATTATC-CATTTTTTTA
* ** * * * * * *
6645678 ATTTCTA-TTTCCCTTGAACTTTGGAGGCTTACGTATGACACTTGTGGATCTTGAATTAGGTGTT
64 ACTTCTACTTT-CCTAAAAATTCGGAAGCTTACATACGACACTTGTGGATCTTGAATTAGATGTT
* * *
6645742 TTAATTGCGAGCAATTCTTTATCTTTAAAGT
128 TTAAATGCAAGCAATTCTTTATCTTCAAAGT
6645773 GTAAATGTAT
Statistics
Matches: 131, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
161 3 0.02
162 121 0.92
163 7 0.05
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.38
Consensus pattern (162 bp):
AATTACCCAGGGCTATTAGCAACAGACAATGGGAAAAGATACTTTAAATTATCCATTTTTTTAAC
TTCTACTTTCCTAAAAATTCGGAAGCTTACATACGACACTTGTGGATCTTGAATTAGATGTTTTA
AATGCAAGCAATTCTTTATCTTCAAAGTATGC
Found at i:6648305 original size:30 final size:32
Alignment explanation
Indices: 6648269--6648337 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
6648259 GTTTCATTTC
** *
6648269 AGTCACTTAAC-TT-TCGAAAAGTTACAAAAT
1 AGTCACTTAACGTTATAAAAAAGTGACAAAAT
6648299 AGTCAC-TAACGTTATAAAAAAGTGACAAAAT
1 AGTCACTTAACGTTATAAAAAAGTGACAAAAT
6648330 AGTCACTT
1 AGTCACTT
6648338 TTTAACAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 4 0.12
30 8 0.24
31 20 0.61
32 1 0.03
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.28
Consensus pattern (32 bp):
AGTCACTTAACGTTATAAAAAAGTGACAAAAT
Found at i:6648888 original size:6 final size:6
Alignment explanation
Indices: 6648877--6648910 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
6648867 TTTGGTTTAA
* *
6648877 ATTTTG ATTTTG ATTTTG ATTTCG ATTTAG ATTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTT
6648911 CAATTTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.21, C:0.03, G:0.15, T:0.62
Consensus pattern (6 bp):
ATTTTG
Found at i:6648892 original size:12 final size:12
Alignment explanation
Indices: 6648877--6648919 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
6648867 TTTGGTTTAA
*
6648877 ATTTTGATTTTG
1 ATTTTGATTTCG
6648889 ATTTTGATTTCG
1 ATTTTGATTTCG
* *
6648901 ATTTAGATTTCA
1 ATTTTGATTTCG
6648913 ATTTTGA
1 ATTTTGA
6648920 AGCACTCACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.23, C:0.05, G:0.14, T:0.58
Consensus pattern (12 bp):
ATTTTGATTTCG
Found at i:6648957 original size:6 final size:6
Alignment explanation
Indices: 6648929--6649006 Score: 50
Period size: 6 Copynumber: 13.0 Consensus size: 6
6648919 AAGCACTCAC
* * * ** **
6648929 TGATTC TGATGT TGATGT TGATTT TGATTT CAATTT CAATTT CT-ATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT -TGATTT
* * *
6648977 AGATTT TGATTT AGATTT TGATTT CGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT
6649007 ACGGTTATTT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.22, C:0.06, G:0.15, T:0.56
Consensus pattern (6 bp):
TGATTT
Found at i:6648995 original size:12 final size:12
Alignment explanation
Indices: 6648973--6649006 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
6648963 TTCAATTTCT
6648973 ATTTAGATTTTG
1 ATTTAGATTTTG
6648985 ATTTAGATTTTG
1 ATTTAGATTTTG
*
6648997 ATTTCGATTT
1 ATTTAGATTT
6649007 ACGGTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.59
Consensus pattern (12 bp):
ATTTAGATTTTG
Found at i:6649332 original size:62 final size:60
Alignment explanation
Indices: 6649259--6649398 Score: 183
Period size: 62 Copynumber: 2.3 Consensus size: 60
6649249 GTACTGGTTA
*
6649259 TTGTATGTTATTGTCTGCCATGTGCATGACAAAAATGGTCATGTTTGTATTAAATTATTT
1 TTGTATGTTATTGTCTGCCATGTGCATGACAAAAATGGTCATGTTCGTATTAAATTATTT
* * * **
6649319 TTGTACTGTTTATTTTCTGCTATGTGCATGACAGAAATGGTTGTGTTCGTATTAAATTATTT
1 TTGTA-TG-TTATTGTCTGCCATGTGCATGACAAAAATGGTCATGTTCGTATTAAATTATTT
6649381 TT-TATTGGTTATTGTCTG
1 TTGTA-T-GTTATTGTCTG
6649399 ACAAAAATGG
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
60 5 0.07
61 14 0.20
62 50 0.72
ACGTcount: A:0.23, C:0.09, G:0.19, T:0.49
Consensus pattern (60 bp):
TTGTATGTTATTGTCTGCCATGTGCATGACAAAAATGGTCATGTTCGTATTAAATTATTT
Found at i:6649526 original size:15 final size:15
Alignment explanation
Indices: 6649502--6649531 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6649492 GAATAAGAAA
6649502 TGTCTAGTAGTGATG
1 TGTCTAGTAGTGATG
*
6649517 TGTCTGGTAGTGATG
1 TGTCTAGTAGTGATG
6649532 CATCTGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.37, T:0.40
Consensus pattern (15 bp):
TGTCTAGTAGTGATG
Found at i:6649710 original size:28 final size:28
Alignment explanation
Indices: 6649670--6649725 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
6649660 CAGATAGCCA
6649670 AAATTGGCTTGAGTTCAACCTAGAGAAT
1 AAATTGGCTTGAGTTCAACCTAGAGAAT
6649698 AAATTGGCTTGAGTTCAACCTAGAGAAT
1 AAATTGGCTTGAGTTCAACCTAGAGAAT
6649726 GACATAGGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (28 bp):
AAATTGGCTTGAGTTCAACCTAGAGAAT
Found at i:6652288 original size:25 final size:25
Alignment explanation
Indices: 6652260--6652309 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
6652250 GACTTAGAGG
*
6652260 AACTTCTCTTGTAAGACTCTTTATT
1 AACTTCTCTCGTAAGACTCTTTATT
6652285 AACTTCTCTCGTAAGACTCTTTATT
1 AACTTCTCTCGTAAGACTCTTTATT
6652310 TCGTTTATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.46
Consensus pattern (25 bp):
AACTTCTCTCGTAAGACTCTTTATT
Found at i:6656516 original size:130 final size:129
Alignment explanation
Indices: 6656294--6656884 Score: 300
Period size: 130 Copynumber: 4.5 Consensus size: 129
6656284 AATACGTGTA
* * * * **
6656294 AAATTCCGAAGAGATATTCGATTATTTTGGACAAATGAAAAAGCGCAACCCAGCACGATAGGGTT
1 AAATTCCGAAGAGATATTCAATTATTTTGAACAAA-GAAAAAACGCAACCCAACACGATAGGGCA
*
6656359 CGATTCTCAAATCACCAAACATCAAACATCGCCTTCATTTTGAAA-GATTTTAGA-AAATGTGAG
65 CGATTCTCAAATCACCAAACATCAAACATCGCCTTCATTTT-AAAGGATTTTA-ATAAATATGAG
6656422 TG
128 TG
* *
6656424 AAATTCCGAAGGGATCTTCAATTATTTTGAAACAACA-AAAAAACGCAACCCAACACGATAGGGC
1 AAATTCCGAAGAGATATTCAATTATTTTG-AACAA-AGAAAAAACGCAACCCAACACGATAGGGC
* * * ** * * ** *
6656488 ACGATTTTCAAATCGCCGAATGTTAAACATTGTTTTCATTTTAAAGGTTTTTAATAAATATGAGT
64 ACGATTCTCAAATCACCAAACATCAAACATCGCCTTCATTTTAAAGGATTTTAATAAATATGAGT
6656553 G
129 G
* * * * * * * * *
6656554 AAA-ACCTAA-AGGAATACTCGATTGTTTTGAACAAATGAGAAATCACAACCCAGCACGATAGGG
1 AAATTCCGAAGA-G-ATATTCAATTATTTTGAACAAA-GAAAAAACGCAACCCAACACGATAGGG
* * * *** * * * ** ** ** * **
6656617 CATGATTCCCGAATTGTCAAACACCGAGCATTACCTTTGTTTTAAAGGATTTTAGGAGACCTGAG
63 CACGATTCTCAAATCACCAAACATCAAACATCGCCTTCATTTTAAAGGATTTTAATAAATATGAG
6656682 TG
128 TG
** * *** * ** * *
6656684 AAATTTTGAAGGGATATTTGGTTATTTT-AAGCAAACGAGAAATTGCAACCCGACACGTTAGGGC
1 AAATTCCGAAGAGATATTCAATTATTTTGAA-CAAA-GAAAAAACGCAACCCAACACGATAGGGC
** * ** * ** * *
6656748 ACGATTC-CACGAATTGCCAAATATCGCATATCGCCTTCA-TTTAGGGGATTTTGAA-AGACATG
64 ACGATTCTCA--AATCACCAAACATCAAACATCGCCTTCATTTTAAAGGATTTT-AATAAATATG
6656810 AGTG
126 AGTG
** * * * ** ** *
6656814 AAATTTTGAAGTGATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCA
1 AAATTCCGAAGAGATATTCAATTATTTTGAACAAA-GAAAAAACGCAACCCAACACGATAGGGCA
6656879 CGATTC
65 CGATTC
6656885 CACGAATTGC
Statistics
Matches: 355, Mismatches: 91, Indels: 30
0.75 0.19 0.06
Matches are distributed among these distances:
128 1 0.00
129 17 0.05
130 309 0.87
131 27 0.08
132 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.28
Consensus pattern (129 bp):
AAATTCCGAAGAGATATTCAATTATTTTGAACAAAGAAAAAACGCAACCCAACACGATAGGGCAC
GATTCTCAAATCACCAAACATCAAACATCGCCTTCATTTTAAAGGATTTTAATAAATATGAGTG
Found at i:6659580 original size:20 final size:21
Alignment explanation
Indices: 6659530--6659582 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
6659520 GAGTTTTGGG
* *
6659530 ATTCTGGGTTTAAGGTTTGAT
1 ATTCAGGGTTTAAGGATTGAT
* *
6659551 ATTTAAGGTTTAA-GATTGAT
1 ATTCAGGGTTTAAGGATTGAT
6659571 ATTCAGGGTTTA
1 ATTCAGGGTTTA
6659583 GTGTTTAAGG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.26, C:0.04, G:0.25, T:0.45
Consensus pattern (21 bp):
ATTCAGGGTTTAAGGATTGAT
Found at i:6661885 original size:38 final size:39
Alignment explanation
Indices: 6661826--6661931 Score: 114
Period size: 38 Copynumber: 2.8 Consensus size: 39
6661816 CATTTTTAAG
* *
6661826 AATAT-AAAGAATATATATAAGTATGTATATG-A-TGTAA
1 AATATGAAA-AATATATATAAGTATGTATAAGAATTATAA
* *
6661863 AATATGCATAAATATATGTAAGTA--TATAAGAATTATAA
1 AATATG-AAAAATATATATAAGTATGTATAAGAATTATAA
*
6661901 AATATGAAAAATATATTTAAGTATGTATAAG
1 AATATGAAAAATATATATAAGTATGTATAAG
6661932 TACGTATATA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
36 5 0.09
37 21 0.37
38 23 0.40
39 8 0.14
ACGTcount: A:0.52, C:0.01, G:0.12, T:0.35
Consensus pattern (39 bp):
AATATGAAAAATATATATAAGTATGTATAAGAATTATAA
Found at i:6662324 original size:19 final size:17
Alignment explanation
Indices: 6662300--6662416 Score: 59
Period size: 16 Copynumber: 6.9 Consensus size: 17
6662290 TAATACTAGA
6662300 AAAATATATATAATAGTGT
1 AAAATATATATAATA-T-T
6662319 AAAATATAACTAATAATATT
1 AAAATAT-A-T-ATAATATT
*
6662339 AAAATATATACAATGA-T
1 AAAATATATATAAT-ATT
* * *
6662356 AATATATATAAAAGA-T
1 AAAATATATATAATATT
* *
6662372 -ATATGTATAT-ATAATT
1 AAAATATATATAAT-ATT
*
6662388 -ATATA-ATATAATATT
1 AAAATATATATAATATT
6662403 AAAATATA-ATAATA
1 AAAATATATATAATA
6662417 CGACATAAGA
Statistics
Matches: 80, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
14 1 0.01
15 16 0.20
16 19 0.24
17 17 0.21
18 2 0.03
19 8 0.10
20 9 0.11
21 2 0.03
22 6 0.08
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (17 bp):
AAAATATATATAATATT
Found at i:6662629 original size:3 final size:3
Alignment explanation
Indices: 6662614--6662649 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
6662604 AAGCATAAAC
* *
6662614 TAA TAA AAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6662650 CATTGGAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:6662805 original size:6 final size:6
Alignment explanation
Indices: 6662763--6662796 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
6662753 ATAAAAATAT
*
6662763 ATACTA ATACATA ATAGTA ATACTA ATACTA ATA
1 ATACTA ATAC-TA ATACTA ATACTA ATACTA ATA
6662797 ATACTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (6 bp):
ATACTA
Found at i:6663295 original size:11 final size:11
Alignment explanation
Indices: 6663279--6663314 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
6663269 AGAAAAAAAA
6663279 GAAGAGAGAGG
1 GAAGAGAGAGG
*
6663290 GAAGAGAGAAG
1 GAAGAGAGAGG
6663301 GAAGAGAGAAGG
1 GAAGAGAG-AGG
6663313 GA
1 GA
6663315 GGGGGGAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAGG
Found at i:6664422 original size:132 final size:132
Alignment explanation
Indices: 6664193--6665131 Score: 1574
Period size: 132 Copynumber: 7.1 Consensus size: 132
6664183 AAGATCTGTA
* * * * **
6664193 ATCTTCAATCTACTTCATGCCAATACATG-AGACAAGATCTACTTTCTTCGATCTACTTTACCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* ** * *
6664257 CAGTATGGGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
66 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
6664322 CT
131 CT
6664324 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* *
6664389 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAGGACCTG
66 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
*
6664454 TT
131 CT
*
6664456 ATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* *
6664521 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAGGACCTG
66 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
*
6664586 TT
131 CT
*
6664588 ATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
6664653 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
66 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
6664718 CT
131 CT
*
6664720 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
** * *
6664785 CAATATGGGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
66 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
6664850 CT
131 CT
6664852 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* *
6664917 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAGGACCTG
66 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
*
6664982 TT
131 CT
*
6664984 ATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
1 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
* * * *
6665049 CAATATGGGAAGACAAAATCTGCGTCGTCGATCCACTTCCTATCAATATAGGAAGATAGAATCAG
66 CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
6665114 CT
131 CT
*
6665116 ATCTTTGATCTACTTC
1 ATCTTCGATCTACTTC
6665132 TTGCCCCGGG
Statistics
Matches: 767, Mismatches: 40, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
131 27 0.04
132 740 0.96
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (132 bp):
ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC
CAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCTATCAATATAGGAAGATAGGACCTG
CT
Found at i:6665349 original size:95 final size:95
Alignment explanation
Indices: 6665244--6665532 Score: 508
Period size: 95 Copynumber: 3.0 Consensus size: 95
6665234 AAGATCTGCA
6665244 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCC-CAT
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCAC-T
6665308 GTAGTCAGGGAGGTAAAATCTGCCATCTTTG
65 GTAGTCAGGGAGGTAAAATCTGCCATCTTTG
* * *
6665339 ATCTTCAATCTATTCCACTGCCAAATGCAGAGAGATAGAGTTATCGGCTTTAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
6665404 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
6665434 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* * *
6665499 TTGTCAGGGAGGTAAAATCTACCATCTTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
6665529 ATCT
1 ATCT
6665533 GCTTCGCTGC
Statistics
Matches: 184, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
95 183 0.99
96 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTG
Found at i:6665657 original size:86 final size:86
Alignment explanation
Indices: 6665522--6665872 Score: 540
Period size: 86 Copynumber: 4.1 Consensus size: 86
6665512 AAAATCTACC
* * * *
6665522 ATCTTCGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTGATATCTTCAACCAGCTCTGCT
1 ATCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACT
6665587 ACAAACGAGAGAGGCAAGGTTT
65 ACAAACGAGAGAGGCAAGGTTT
* * * * *
6665609 GTCTTCGATCTGCTTCACTGTCAGTGCAGGAAGGCAATATCTGCTATCTTCAACCAGCTCTACTA
1 ATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTA
*
6665674 CAAACGAGAGTGGCAAGGTTT
66 CAAACGAGAGAGGCAAGGTTT
*
6665695 ATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTA
1 ATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTA
*
6665760 CAAACGAGAGTGGCAAGGTTT
66 CAAACGAGAGAGGCAAGGTTT
* * *
6665781 GTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTA
1 ATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTA
* *
6665846 CGACCGAGAGAGGCAAGGTTT
66 CAAACGAGAGAGGCAAGGTTT
6665867 ATCTTC
1 ATCTTC
6665873 AATTTTTACT
Statistics
Matches: 242, Mismatches: 22, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
86 223 0.92
87 19 0.08
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (86 bp):
ATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTA
CAAACGAGAGAGGCAAGGTTT
Found at i:6665698 original size:41 final size:41
Alignment explanation
Indices: 6665653--6665786 Score: 103
Period size: 41 Copynumber: 3.2 Consensus size: 41
6665643 CAATATCTGC
6665653 TATCTTCAACCAGCTCTACTACAAACGAGAGTGGCAAGGTT
1 TATCTTCAACCAGCTCTACTACAAACGAGAGTGGCAAGGTT
* * * * * * * *
6665694 TATCTTCGATCTGCT-TCGCTGTC-AATGCAG-GAAGGCAAGATCT
1 TATCTTCAACCAGCTCT-ACT-ACAAACG-AGAG-TGGCAAGGT-T
6665737 GCTATCTTCAACCAGCTCTACTACAAACGAGAGTGGCAAGGTT
1 --TATCTTCAACCAGCTCTACTACAAACGAGAGTGGCAAGGTT
*
6665780 TGTCTTC
1 TATCTTC
6665787 GATCTGCTTC
Statistics
Matches: 66, Mismatches: 17, Indels: 20
0.64 0.17 0.19
Matches are distributed among these distances:
40 1 0.02
41 24 0.36
42 10 0.15
43 2 0.03
44 10 0.15
45 18 0.27
46 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (41 bp):
TATCTTCAACCAGCTCTACTACAAACGAGAGTGGCAAGGTT
Found at i:6665818 original size:42 final size:42
Alignment explanation
Indices: 6665685--6665818 Score: 105
Period size: 42 Copynumber: 3.1 Consensus size: 42
6665675 AAACGAGAGT
6665685 GGCAAGGTTTATCTTCGATCTGCTTCGCTGTCAATGCAGGAA
1 GGCAAGGTTTATCTTCGATCTGCTTCGCTGTCAATGCAGGAA
* * * * * * * *
6665727 GGCAAGATCTGCTATCTTCAACCAGC-TCTACT-ACAA-AC-GAGAGT
1 GGCAAGGT-T--TATCTTCGATCTGCTTC-GCTGTCAATGCAG-GA-A
*
6665771 GGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAA
1 GGCAAGGTTTATCTTCGATCTGCTTCGCTGTCAATGCAGGAA
6665813 GGCAAG
1 GGCAAG
6665819 ATCTGATAAC
Statistics
Matches: 65, Mismatches: 17, Indels: 20
0.64 0.17 0.20
Matches are distributed among these distances:
41 12 0.18
42 19 0.29
43 8 0.12
44 13 0.20
45 13 0.20
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (42 bp):
GGCAAGGTTTATCTTCGATCTGCTTCGCTGTCAATGCAGGAA
Found at i:6670000 original size:19 final size:20
Alignment explanation
Indices: 6669976--6670019 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
6669966 CGTGAAAGTC
* *
6669976 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
6669995 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
6670015 -AATGC
1 TAATGC
6670020 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:6672123 original size:38 final size:38
Alignment explanation
Indices: 6672072--6672177 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 38
6672062 GCATTTTAAG
*
6672072 AATAT-AAAGAATATATATAAGTATGTATATG-ATGTA-A
1 AATATGAAA-AATATATATAAGTATGTATAAGAAT-TAGA
* *
6672109 AATATGCATAAATATATGTAAGTA--TATAAGAATTATGA
1 AATATG-AAAAATATATATAAGTATGTATAAGAATTA-GA
*
6672147 AATATGAAAAATATATTTAAGTATGTATAAG
1 AATATGAAAAATATATATAAGTATGTATAAG
6672178 TACGTATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
36 7 0.12
37 22 0.39
38 20 0.35
39 8 0.14
ACGTcount: A:0.51, C:0.01, G:0.13, T:0.35
Consensus pattern (38 bp):
AATATGAAAAATATATATAAGTATGTATAAGAATTAGA
Found at i:6672570 original size:19 final size:17
Alignment explanation
Indices: 6672546--6672662 Score: 59
Period size: 16 Copynumber: 6.9 Consensus size: 17
6672536 TAATACTAGA
6672546 AAAATATATATAATAGTGT
1 AAAATATATATAATA-T-T
6672565 AAAATATAACTAATAATATT
1 AAAATAT-A-T-ATAATATT
*
6672585 AAAATATATACAATGA-T
1 AAAATATATATAAT-ATT
* * *
6672602 AATATATATAAAAGA-T
1 AAAATATATATAATATT
* *
6672618 -ATATGTATAT-ATAATT
1 AAAATATATATAAT-ATT
*
6672634 -ATATA-ATATAATATT
1 AAAATATATATAATATT
6672649 AAAATATA-ATAATA
1 AAAATATATATAATA
6672663 CGACATAAGA
Statistics
Matches: 80, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
14 1 0.01
15 16 0.20
16 19 0.24
17 17 0.21
18 2 0.03
19 8 0.10
20 9 0.11
21 2 0.03
22 6 0.08
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (17 bp):
AAAATATATATAATATT
Found at i:6673049 original size:6 final size:6
Alignment explanation
Indices: 6673007--6673040 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
6672997 ATAAAAATAT
*
6673007 ATACTA ATACATA ATAGTA ATACTA ATACTA ATA
1 ATACTA ATAC-TA ATACTA ATACTA ATACTA ATA
6673041 ATACTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (6 bp):
ATACTA
Found at i:6673539 original size:11 final size:11
Alignment explanation
Indices: 6673523--6673558 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
6673513 AGAAAAAAAA
6673523 GAAGAGAGAGG
1 GAAGAGAGAGG
*
6673534 GAAGAGAGAAG
1 GAAGAGAGAGG
6673545 GAAGAGAGAAGG
1 GAAGAGAG-AGG
6673557 GA
1 GA
6673559 GGGGGGAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAGG
Found at i:6674409 original size:19 final size:19
Alignment explanation
Indices: 6674374--6674452 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
6674364 ATATTACAAG
6674374 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
6674395 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
6674414 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
6674431 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
6674450 ATC
1 ATC
6674453 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:6674416 original size:14 final size:15
Alignment explanation
Indices: 6674396--6674452 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
6674386 AGATTGCATA
6674396 TCATATCTAAGATTG
1 TCATATCTAAGATTG
6674411 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
6674430 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
6674447 -CATATC
1 TCATATC
6674453 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:6674438 original size:36 final size:39
Alignment explanation
Indices: 6674374--6674452 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 39
6674364 ATATTACAAG
6674374 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTG-ATATCATATCTAAGATTGCAT
6674414 ATCATATC-T-AAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
6674450 ATC
1 ATC
6674453 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
39 1 0.03
40 8 0.21
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (39 bp):
ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
Found at i:6677392 original size:24 final size:24
Alignment explanation
Indices: 6677360--6677407 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
6677350 ATAGAATGAA
*
6677360 TGAAATAATTGAGTGGTTATTCTT
1 TGAAATAATTGAGTGGCTATTCTT
6677384 TGAAATAATTGAGTGGCTATTCTT
1 TGAAATAATTGAGTGGCTATTCTT
6677408 ATAATTTACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (24 bp):
TGAAATAATTGAGTGGCTATTCTT
Found at i:6679553 original size:22 final size:20
Alignment explanation
Indices: 6679510--6679565 Score: 53
Period size: 22 Copynumber: 2.8 Consensus size: 20
6679500 TTAGCATATT
6679510 TAATA-TATTATTATTACTC
1 TAATATTATTATTATTACTC
*
6679529 TAACTTATTATTATTATT-TTGC
1 TAA--TATTATTATTATTACT-C
*
6679551 TAATATTACTATTAT
1 TAATATTATTATTAT
6679566 GATTATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
19 3 0.10
20 11 0.35
21 3 0.10
22 14 0.45
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (20 bp):
TAATATTATTATTATTACTC
Found at i:6679597 original size:13 final size:13
Alignment explanation
Indices: 6679574--6679608 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
6679564 ATGATTATAT
6679574 TTCATTTTTGTGTA
1 TTCA-TTTTGTGTA
*
6679588 TTTATTTTGTGTA
1 TTCATTTTGTGTA
6679601 TTCATTTT
1 TTCATTTT
6679609 ATATTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (13 bp):
TTCATTTTGTGTA
Found at i:6679675 original size:16 final size:15
Alignment explanation
Indices: 6679650--6679689 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
6679640 ATGTCCTTGG
*
6679650 TATTTTTATTTCTAT
1 TATTTTTATTACTAT
6679665 TATTATTTATTACTAT
1 TATT-TTTATTACTAT
6679681 TATTTTTAT
1 TATTTTTAT
6679690 CTTGATACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTTATTACTAT
Found at i:6680136 original size:26 final size:26
Alignment explanation
Indices: 6680107--6680210 Score: 181
Period size: 26 Copynumber: 4.0 Consensus size: 26
6680097 TGGTACAAAT
6680107 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
6680133 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6680159 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6680185 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6680211 GGATGGGCAT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:6682235 original size:137 final size:137
Alignment explanation
Indices: 6681989--6682275 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
6681979 GAGTAGTCTC
6681989 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
6682054 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
6682119 ACTGTTA
131 ACTGTTA
6682126 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
6682191 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
6682256 ACTGTTA
131 ACTGTTA
**
6682263 CCTGAATGGGCTT
1 CCCAAATGGGCTT
6682276 AGGCCCAATG
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:6687235 original size:25 final size:26
Alignment explanation
Indices: 6687188--6687242 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
6687178 TTTACCATAT
* *
6687188 AGGCTTTCCAAATAACTTCGCCACTA
1 AGGCTTCCCAAATAACTTCGCCACAA
6687214 AGGCTTCCCAAATAA-TAT-GCCACAA
1 AGGCTTCCCAAATAACT-TCGCCACAA
6687239 AGGC
1 AGGC
6687243 CTTTTAGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.22
Consensus pattern (26 bp):
AGGCTTCCCAAATAACTTCGCCACAA
Found at i:6687270 original size:24 final size:26
Alignment explanation
Indices: 6687225--6687280 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
6687215 GGCTTCCCAA
*
6687225 ATAATATGCCACAAAGGCCTTT-TAG
1 ATAATTTGCCACAAAGGCCTTTATAG
*
6687250 ATAATTTGCCAC-AAGGGCTTTATAG
1 ATAATTTGCCACAAAGGCCTTTATAG
6687275 ATAATT
1 ATAATT
6687281 CACAACAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (26 bp):
ATAATTTGCCACAAAGGCCTTTATAG
Found at i:6687288 original size:25 final size:24
Alignment explanation
Indices: 6687238--6687288 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 24
6687228 ATATGCCACA
** *
6687238 AAGGCCTTTTAGATAATTTGCCAC
1 AAGGCCTTTTAGATAATTCACAAC
*
6687262 AAGGGCTTTATAGATAATTCACAAC
1 AAGGCCTTT-TAGATAATTCACAAC
6687287 AA
1 AA
6687289 AGGTTCGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (24 bp):
AAGGCCTTTTAGATAATTCACAAC
Found at i:6690457 original size:4 final size:4
Alignment explanation
Indices: 6690440--6690473 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
6690430 AACCAAATAT
*
6690440 ATAC ATAG ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
6690474 CCTTCCCCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:6693167 original size:28 final size:26
Alignment explanation
Indices: 6693136--6693200 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 26
6693126 ATGTTAAATT
6693136 ATTTAATAAAATAAACGA-AAAAATTAA
1 ATTTAATAAAATAAA--ATAAAAATTAA
6693163 CATTTCAA-AAAATAAAATAAAAATTAA
1 -ATTT-AATAAAATAAAATAAAAATTAA
6693190 ATTATAATAAA
1 ATT-TAATAAA
6693201 GAGAATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
26 6 0.18
27 13 0.39
28 12 0.36
29 2 0.06
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (26 bp):
ATTTAATAAAATAAAATAAAAATTAA
Found at i:6697214 original size:3 final size:3
Alignment explanation
Indices: 6697206--6697251 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
6697196 CCAAAATCAA
6697206 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
6697252 GACCCTGCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6698021 original size:10 final size:10
Alignment explanation
Indices: 6697926--6698021 Score: 56
Period size: 10 Copynumber: 10.0 Consensus size: 10
6697916 TTTTATATTT
*
6697926 AAAATTATAT
1 AAAATTATAA
*
6697936 AAAATT-TTA
1 AAAATTATAA
*
6697945 AAAA-TATAT
1 AAAATTATAA
* * *
6697954 CAAAGTGTAA
1 AAAATTATAA
6697964 AAAATTAT-A
1 AAAATTATAA
*
6697973 AAAA-TATAG
1 AAAATTATAA
* *
6697982 AAATTTATTA
1 AAAATTATAA
*
6697992 AAAATTATTA
1 AAAATTATAA
* *
6698002 TAAATGATAA
1 AAAATTATAA
6698012 AAAATTATAA
1 AAAATTATAA
6698022 GAATAATTAA
Statistics
Matches: 62, Mismatches: 20, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
8 4 0.06
9 17 0.27
10 41 0.66
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (10 bp):
AAAATTATAA
Found at i:6699160 original size:22 final size:23
Alignment explanation
Indices: 6699135--6699195 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 23
6699125 AAAACATTGT
6699135 TGTTTTTGCTATTGTTTTCCCA-
1 TGTTTTTGCTATTGTTTTCCCAC
* * *
6699157 TG-TTTTGTTGTTGTTTTTCCAC
1 TGTTTTTGCTATTGTTTTCCCAC
*
6699179 T-TTTTTTCTATTGTTTT
1 TGTTTTTGCTATTGTTTT
6699196 GTTGACATTC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.07, C:0.13, G:0.13, T:0.67
Consensus pattern (23 bp):
TGTTTTTGCTATTGTTTTCCCAC
Found at i:6699183 original size:21 final size:20
Alignment explanation
Indices: 6699137--6699195 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
6699127 AACATTGTTG
6699137 TTTTTGCTATTGTTTTCCCA
1 TTTTTGCTATTGTTTTCCCA
* * *
6699157 TGTTTTGTTGTTGTTTTTCCACT
1 T-TTTTGCTATTG-TTTTCC-CA
*
6699180 TTTTTTCTATTGTTTT
1 TTTTTGCTATTGTTTT
6699196 GTTGACATTC
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
20 1 0.03
21 13 0.43
22 14 0.47
23 2 0.07
ACGTcount: A:0.07, C:0.14, G:0.12, T:0.68
Consensus pattern (20 bp):
TTTTTGCTATTGTTTTCCCA
Found at i:6699186 original size:33 final size:33
Alignment explanation
Indices: 6699131--6699199 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
6699121 AAAAAAAACA
*
6699131 TTGTTGTTTTTGCTATTGTTTTCCCA-TGTTTTG
1 TTGTTGTTTTTGCCATTGTTTT-CCATTGTTTTG
* *
6699164 TTGTTGTTTTT-CCACTTTTTTTCTATTGTTTTG
1 TTGTTGTTTTTGCCA-TTGTTTTCCATTGTTTTG
6699197 TTG
1 TTG
6699200 ACATTCATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 4 0.13
33 27 0.87
ACGTcount: A:0.06, C:0.12, G:0.16, T:0.67
Consensus pattern (33 bp):
TTGTTGTTTTTGCCATTGTTTTCCATTGTTTTG
Found at i:6701426 original size:39 final size:39
Alignment explanation
Indices: 6701376--6701460 Score: 127
Period size: 39 Copynumber: 2.2 Consensus size: 39
6701366 GCTCTGATAA
* *
6701376 GCTTCAATTAGCATTCAGG-CTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCATTC-GGCCTTCCGTTTAGCACTTATGT
*
6701415 GCTTCAGTTAGCCTTCGGCCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCATTCGGCCTTCCGTTTAGCACTTATGT
6701454 GCTTCAG
1 GCTTCAG
6701461 CTAGACTTCG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
38 2 0.05
39 40 0.95
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCATTCGGCCTTCCGTTTAGCACTTATGT
Found at i:6701470 original size:39 final size:39
Alignment explanation
Indices: 6701395--6701476 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
6701385 AGCATTCAGG
* * *
6701395 CTTCCGTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGC
1 CTTCCGTTTAGCACTTATGTGCTTCAGCTAGACTTCGGC
*
6701434 CTTCCGTTTAGCACTTATGTGCTTCAGCTAGACTTCGGG
1 CTTCCGTTTAGCACTTATGTGCTTCAGCTAGACTTCGGC
6701473 CTTC
1 CTTC
6701477 AGATCACGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.12, C:0.28, G:0.22, T:0.38
Consensus pattern (39 bp):
CTTCCGTTTAGCACTTATGTGCTTCAGCTAGACTTCGGC
Found at i:6703465 original size:3 final size:3
Alignment explanation
Indices: 6703451--6703685 Score: 84
Period size: 3 Copynumber: 76.3 Consensus size: 3
6703441 AAGGAACAAA
* * * * * *
6703451 AAT AAT AGT AAT AAT AAG AAT ATTT AAC AAT AGT AAT AAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
* * * *
6703497 AAT -AT AAAT AAT AAT ATAT GTAT GAT AAT AGT GAT AA- AAT AAGTT
1 AAT AAT -AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AA--T
* * * * *
6703542 AAT AAT AAT TAT AAT AAT GACCT AAT AAT AAA AAT -AT AAC AGT AAT
1 AAT AAT AAT AAT AAT AAT -A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
6703588 AAT AAT AGT GAAT -AT AACT -AT AGT AAT ATT AAT AAT AAA AAT AAT
1 AAT AAT AAT -AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * * * * * *
6703633 AGC AAT AAC AAT GAC AAT AAAG AAT AAT AGT AAT AAT AAG AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
6703679 AAG AAT A
1 AAT AAT A
6703686 TTAAAAGTAA
Statistics
Matches: 161, Mismatches: 55, Indels: 32
0.65 0.22 0.13
Matches are distributed among these distances:
2 9 0.06
3 133 0.83
4 15 0.09
5 4 0.02
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:6710582 original size:112 final size:113
Alignment explanation
Indices: 6710453--6710679 Score: 420
Period size: 112 Copynumber: 2.0 Consensus size: 113
6710443 AACATTTTAT
6710453 AATTTAGTCCTTTCTTTGCCCATTTAATCACATTAACAATAATCACAATCATTTATCACTTTCTT
1 AATTTAGTCCTTTCTTTGCCCATTTAATCACATTAACAATAATCACAATCATTTATCACTTTCTT
6710518 GAATTCTTCACATTTATTAACATGTTCATTAATTTATTATTTT-AAAA
66 GAATTCTTCACATTTATTAACATGTTCATTAATTTATTATTTTCAAAA
*
6710565 AATTTAGTCCTTTCTTTGCCCATTTAATCACATTAATAATAATCACAATCATTTATCACTTTCTT
1 AATTTAGTCCTTTCTTTGCCCATTTAATCACATTAACAATAATCACAATCATTTATCACTTTCTT
* *
6710630 GAATTTTTCACATTTTTTAACATGTTCATTAATTTATTATTTTCAAAA
66 GAATTCTTCACATTTATTAACATGTTCATTAATTTATTATTTTCAAAA
6710678 AA
1 AA
6710680 ATCTAATTAG
Statistics
Matches: 111, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
112 105 0.95
113 6 0.05
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (113 bp):
AATTTAGTCCTTTCTTTGCCCATTTAATCACATTAACAATAATCACAATCATTTATCACTTTCTT
GAATTCTTCACATTTATTAACATGTTCATTAATTTATTATTTTCAAAA
Found at i:6710992 original size:5 final size:5
Alignment explanation
Indices: 6710982--6711006 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6710972 ACTAATATTT
6710982 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
6711007 TTCAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:6717595 original size:10 final size:10
Alignment explanation
Indices: 6717576--6717611 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
6717566 AGAGAAAAGT
6717576 TTTAATTTGA
1 TTTAATTTGA
*
6717586 TTTGATTTGA
1 TTTAATTTGA
*
6717596 TTTAATTTAA
1 TTTAATTTGA
6717606 TTTAAT
1 TTTAAT
6717612 AAGATTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (10 bp):
TTTAATTTGA
Found at i:6720599 original size:18 final size:17
Alignment explanation
Indices: 6720573--6720673 Score: 69
Period size: 18 Copynumber: 5.5 Consensus size: 17
6720563 TAAGTTATAG
*
6720573 AAAAGTATTAAAATTACA
1 AAAATTATTAAAATTA-A
6720591 AAAATTATTAAAAATTAA
1 AAAATTATT-AAAATTAA
*
6720609 TAAAA-TATTATAAAATAA
1 -AAAATTATTA-AAATTAA
*
6720627 AAAAGTTCTTAAAATTTTAA
1 AAAA-TTATTAAAA--TTAA
* *
6720647 TAAAAATATTAAAAGTTAT
1 -AAAATTATTAAAA-TTAA
6720666 AAAATTAT
1 AAAATTAT
6720674 AGAACTCTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
17 5 0.08
18 29 0.44
19 18 0.27
20 10 0.15
21 4 0.06
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (17 bp):
AAAATTATTAAAATTAA
Found at i:6720625 original size:10 final size:9
Alignment explanation
Indices: 6720520--6720623 Score: 57
Period size: 10 Copynumber: 10.7 Consensus size: 9
6720510 CACAATAAAA
6720520 ATAAAAATT
1 ATAAAAATT
* *
6720529 TTAGAAATT
1 ATAAAAATT
6720538 ATTAAAAATT
1 A-TAAAAATT
*
6720548 -TAAAAAACT
1 AT-AAAAATT
*
6720557 ACAAAATAAGTT
1 A-TAAA-AA-TT
*
6720569 ATAGAAAAGT
1 ATA-AAAATT
*
6720579 ATTAAAATT
1 ATAAAAATT
*
6720588 ACAAAAATT
1 ATAAAAATT
6720597 ATTAAAAATT
1 A-TAAAAATT
6720607 AATAAAATATT
1 -ATAAAA-ATT
6720618 ATAAAA
1 ATAAAA
6720624 TAAAAAAGTT
Statistics
Matches: 71, Mismatches: 14, Indels: 19
0.68 0.13 0.18
Matches are distributed among these distances:
8 1 0.01
9 26 0.37
10 31 0.44
11 9 0.13
12 4 0.06
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:6720660 original size:37 final size:37
Alignment explanation
Indices: 6720573--6720673 Score: 100
Period size: 39 Copynumber: 2.7 Consensus size: 37
6720563 TAAGTTATAG
*
6720573 AAAAGTATTAAAATTACAAAAATTATTAAAAATTAAT
1 AAAAATATTAAAATTACAAAAATTATTAAAAATTAAT
* * *
6720610 -AAAATATTATAAAATA-AAAAAGTTCTTAAAATTTTAAT
1 AAAAATATTA-AAATTACAAAAA-TTATTAAAA-ATTAAT
*
6720648 AAAAATATTAAAAGTTA-TAAAATTAT
1 AAAAATATTAAAA-TTACAAAAATTAT
6720674 AGAACTCTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
36 13 0.25
37 13 0.25
38 11 0.21
39 15 0.29
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (37 bp):
AAAAATATTAAAATTACAAAAATTATTAAAAATTAAT
Found at i:6724599 original size:3 final size:3
Alignment explanation
Indices: 6724535--6724573 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
6724525 AATGATAACG
6724535 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6724574 TAACGTAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6724814 original size:25 final size:23
Alignment explanation
Indices: 6724771--6724816 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
6724761 GTGATATTAA
6724771 AAATATATACATAAAAATATAAT
1 AAATATATACATAAAAATATAAT
*
6724794 AAATATATATATAATATAATATA
1 AAATATATACATAA-A-AATATA
6724817 TACATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
24 1 0.05
25 6 0.30
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
AAATATATACATAAAAATATAAT
Found at i:6724815 original size:39 final size:39
Alignment explanation
Indices: 6724772--6724848 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
6724762 TGATATTAAA
*
6724772 AATATATACATAAAAATA-TAATAAATATATATATAATAT
1 AATATATACAT-AAAATAGTAATAAAAATATATATAATAT
* *
6724811 AATATATACATAATATAGTATTAAAAATATATATAATA
1 AATATATACATAAAATAGTAATAAAAATATATATAATA
6724849 CATACACATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 5 0.15
39 29 0.85
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (39 bp):
AATATATACATAAAATAGTAATAAAAATATATATAATAT
Found at i:6724816 original size:16 final size:16
Alignment explanation
Indices: 6724787--6724827 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
6724777 ATACATAAAA
6724787 ATATAATA-AATATAT
1 ATATAATATAATATAT
6724802 ATATAATATAATATAT
1 ATATAATATAATATAT
*
6724818 ACATAATATA
1 ATATAATATA
6724828 GTATTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATAATATAATATAT
Found at i:6724817 original size:27 final size:26
Alignment explanation
Indices: 6724773--6724843 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
6724763 GATATTAAAA
*
6724773 ATATATACATAAAAATATA-ATAAATAT
1 ATATATA-ATAAATATATACAT-AATAT
6724800 ATATATAATATAATATATACATAATAT
1 ATATATAATA-AATATATACATAATAT
6724827 AGTAT-TAA-AAATATATA
1 A-TATATAATAAATATATA
6724844 TAATACATAC
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
25 8 0.20
26 4 0.10
27 23 0.57
28 5 0.12
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (26 bp):
ATATATAATAAATATATACATAATAT
Found at i:6725065 original size:24 final size:24
Alignment explanation
Indices: 6725038--6725105 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
6725028 TAGTAATTAT
* * *
6725038 AATACTAATACTAATAATAAATAC
1 AATAATAATACTAAAAATAAACAC
* *
6725062 AATAATAGTAGTAAAAATAAACAC
1 AATAATAATACTAAAAATAAACAC
6725086 AATAATAAT-CATAAAAATAA
1 AATAATAATAC-TAAAAATAA
6725106 TATAAATAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.63, C:0.09, G:0.03, T:0.25
Consensus pattern (24 bp):
AATAATAATACTAAAAATAAACAC
Found at i:6726710 original size:44 final size:44
Alignment explanation
Indices: 6726637--6727083 Score: 659
Period size: 44 Copynumber: 10.2 Consensus size: 44
6726627 AGGAACACCG
* * * *
6726637 ATCTGTTATTTTCGATTTGCTCTCTGCCGCTACAGAGACGCTAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
6726681 ATCTATTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
6726725 ATCTGTTATCTTCGATCTGCTCTTCGCTGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
6726769 ATCTGTTATCTTCGATCTGTTCTCCGCCGTTACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
6726813 ATC----ATATTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
6726853 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
6726897 ATCTGTTATATTCGATCTGCTCTCCGCTGCTACAGAGACGTCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
6726941 ATCTGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
6726985 ATTTGTTATCTCCGATCTGCTCTCTGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
6727029 ATCTGTTATCTTCAATCTGTTCTCCGCCACTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
6727073 ATCTGTTATCT
1 ATCTGTTATCT
6727084 GTTTCAAGGA
Statistics
Matches: 360, Mismatches: 39, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
40 35 0.10
44 325 0.90
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:6726944 original size:172 final size:173
Alignment explanation
Indices: 6726647--6727081 Score: 674
Period size: 172 Copynumber: 2.5 Consensus size: 173
6726637 ATCTGTTATT
* * *
6726647 TTCGATTTGCTCTCTGCCGCTACAGAGACGCTAAATCTATTATCTTCGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
* *
6726712 ACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTTCGCTGCTACAGAGACGCCAAATCTGTTA
66 ACAGAGACGCCAAATCTGTTATATTCGATCTGCTCTCCGCTGCTACAGAGACGCCAAATCTGTTA
* * * *
6726777 TCTTCGATCTGTTCTCCGCCGTTACAAAGATGCCAAA-TCATA
131 TCTTCGATCTGCTCTCCACCGCTACAAAGACGCCAAATTCATA
*
6726819 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
*
6726884 ACAGAGACGCCAAATCTGTTATATTCGATCTGCTCTCCGCTGCTACAGAGACGTCAAATCTGTTA
66 ACAGAGACGCCAAATCTGTTATATTCGATCTGCTCTCCGCTGCTACAGAGACGCCAAATCTGTTA
* **
6726949 TCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAAATTTGTTA
131 TCTTCGATCTGCTCTCCACCGCTACAAAGACGCCAAA-TTCATA
* * * *
6726993 TCTCCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATCTGTTATCTTCAATCTGTTCTCCGCCA
1 T-T-CGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCG
6727058 CTACAGAGACGCCAAATCTGTTAT
64 CTACAGAGACGCCAAATCTGTTAT
6727082 CTGTTTCAAG
Statistics
Matches: 240, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
172 155 0.65
174 4 0.02
175 1 0.00
176 80 0.33
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (173 bp):
TTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
ACAGAGACGCCAAATCTGTTATATTCGATCTGCTCTCCGCTGCTACAGAGACGCCAAATCTGTTA
TCTTCGATCTGCTCTCCACCGCTACAAAGACGCCAAATTCATA
Found at i:6736679 original size:23 final size:23
Alignment explanation
Indices: 6736653--6736705 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
6736643 ACAATTTATT
*
6736653 AATATTTT-ATAATTTAAAATATA
1 AATATTTTAATAATAT-AAATATA
*
6736676 AATATTTTAATAATATAAATATG
1 AATATTTTAATAATATAAATATA
6736699 AATATTT
1 AATATTT
6736706 ATTTAAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
AATATTTTAATAATATAAATATA
Found at i:6736690 original size:17 final size:16
Alignment explanation
Indices: 6736665--6736697 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
6736655 TATTTTATAA
6736665 TTTAAAATATAAATAT
1 TTTAAAATATAAATAT
6736681 TTTAATAATATAAATAT
1 TTTAA-AATATAAATAT
6736698 GAATATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTAAAATATAAATAT
Found at i:6741138 original size:19 final size:19
Alignment explanation
Indices: 6741103--6741146 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
6741093 TACAATTATT
6741103 AATATTTTTAATATTTTTAA
1 AATATTTTT-ATATTTTTAA
*
6741123 AATATTTTT-TAGTTTTTTA
1 AATATTTTTATA-TTTTTAA
6741142 AATAT
1 AATAT
6741147 AAATGATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 2 0.09
19 11 0.50
20 9 0.41
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
AATATTTTTATATTTTTAA
Found at i:6742032 original size:25 final size:25
Alignment explanation
Indices: 6741998--6742049 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
6741988 ATAAATAACT
* *
6741998 AAAATATAAGTGATTGAAGTCGGCA
1 AAAATATAAGTAACTGAAGTCGGCA
*
6742023 AAAATGTAAGTAACTGAAGTCGGCA
1 AAAATATAAGTAACTGAAGTCGGCA
6742048 AA
1 AA
6742050 GCTTTACATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.21
Consensus pattern (25 bp):
AAAATATAAGTAACTGAAGTCGGCA
Found at i:6748473 original size:63 final size:61
Alignment explanation
Indices: 6748093--6749338 Score: 398
Period size: 63 Copynumber: 19.8 Consensus size: 61
6748083 TGGTTGTACG
* * ** ** * * * *
6748093 ACAGGGCCATGATGCTTGGGTGAGTATGCTAATCCAAGAGATGATGCTTTGGGTGGTTTTGGA
1 ACAGGGCCATGATGCTTGGGAGAGTGTGCT-GGCCCTGAGATGAGGCTTT-GGAGGTTCTGCA
* ** * * * * * *
6748156 ACATGATCATTGA-GCTTGGAAGAGTGAGCTGGCACTGGGGATGGGGCTTTGGCAGGCTCTGCA
1 ACAGGGCCA-TGATGCTTGGGAGAGTGTGCTGGCCCT-GAGATGAGGCTTTGG-AGGTTCTGCA
* * * * * * *
6748219 ACAGGGTCATGATGCTCGGGAGAGTATGCTGGCTCTGCAGATAATGCTTTGGGAGGTTCTTCA
1 ACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCCCTG-AGATGAGGCTTT-GGAGGTTCTGCA
*** ** * * * *
6748282 AC-GGAAATATGATGCTCAGGACAGTGTGCTGGTCCTAGAGATGATGCTTTAAGAGGTTCTAG-A
1 ACAGG-GCCATGATGCTTGGGAGAGTGTGCTGGCCCT-GAGATGAGGCTTT-GGAGGTTCT-GCA
* * * * * ** * * *** * * *
6748345 AGAGGTCCATCG-TGCTTGAGAGAATTTTTTGTCTCTG-GAATTGATATTTCTGGTGGTTTTACA
1 ACAGGGCCAT-GATGCTTGGGAGAGTGTGCTGGCCCTGAG-A-TGAGGCTT-TGGAGGTTCTGCA
* * *
6748408 ACAGAGCCATGATGCTTGGGTGAGTGTGCTGGCCCCTGAGATGAGGCTTTGGCTGGTTCTGCA
1 ACAGGGCCATGATGCTTGGGAGAGTGTGCTGG-CCCTGAGATGAGGCTTTGG-AGGTTCTGCA
* * * ** *
6748471 ACAGGGCCATGATGCTCGGGAGAGTGGGCTGGCCCAAGAGATGATACTTTCAGAGGTTCTAG-A
1 ACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCCC-TGAGATGAGGCTTT-GGAGGTTCT-GCA
* * * ** * * * * * *
6748534 ACAGGTCCAT-AGTGCTTGGGAGAATTTTTTGTCTCT-AGATTCGATGTTTCTGG-GGCCTCTAC
1 ACAGGGCCATGA-TGCTTGGGAGAGTGTGCTGGCCCTGAGA-T-GAGGCTT-TGGAGG-TTCTGC
6748596 A
61 A
* * * * *
6748597 A-TGGAGCCATGATACTTGGGTGAGTGTGCTGGCCATGGAGATGAGGCTTTGGCTGGTTCTGCA
1 ACAGG-GCCATGATGCTTGGGAGAGTGTGCTGGCCCT-GAGATGAGGCTTTGG-AGGTTCTGCA
* * * * *
6748660 ACAGGGCCATGGTGCTTGGGAGAGGGGGCTGGCTCTGGTGATGAGGCTTTGGGAGGTTCTGCA
1 ACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCCCT-GAGATGAGGCTTT-GGAGGTTCTGCA
* * * * * * * * * * **
6748723 ATAGTGCCATGATGATCGGGAGACTGTGCTTGCTCTGGACATGAGGCTTCGGGGGGTTCCACA
1 ACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCCCT-GAGATGAGGCTT-TGGAGGTTCTGCA
* * * * * * *
6748786 ACAGGGCTATGATGTTTGGGTGAGTATGCTGGCCCCGGAGATGATGCTTTGAGAGATTCTAG-A
1 ACAGGGCCATGATGCTTGGGAGAGTGTGCTGG-CCCTGAGATGAGGCTTTG-GAGGTTCT-GCA
* * * * * * * *
6748849 ACGGGGCCATGATGCTTGAGAGAGTGTTCTGGCTCT-AGAATTGATG-TTTGAGGGAGTTCAGAA
1 ACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCCCTGAG-A-TGAGGCTTTG-GAG-GTTCTGCA
* * * * * * *
6748912 ACAGGGCCATGATGCTTGGGTGAGTATGCTGGTCCTGGAGATGATGCTTCAGGAGTTTCTCCA
1 ACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCCCT-GAGATGAGGCTT-TGGAGGTTCTGCA
** * * * * * *
6748975 ACAGGGTGATCATTCTTGGGAGAGTGTGCAGGCACCAGAGATGAGGCTTTAGGTGATTCTGCA
1 ACAGGGCCATGATGCTTGGGAGAGTGTGCTGGC-CCTGAGATGAGGCTTT-GGAGGTTCTGCA
* * * * * * * * * ** *
6749038 ACATGGCTATGATGTTTGAGTGAGTATGCTGGCCCCGGAGATGATGCCTTGAGATATTCTGGA
1 ACAGGGCCATGATGCTTGGGAGAGTGTGCTGG-CCCTGAGATGAGGCTTTG-GAGGTTCTGCA
* * * * * * * ***
6749101 ACAGGGCCGTGATGATTGAGAGAGTGTTCTGGCTCT-AGAATTGATG-TTTCAGGGGGTTCAAAA
1 ACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCCCTGAG-A-TGAGGCTTT--GGAGGTTCTGCA
* * * * ** * * *
6749164 ACAGGGCCATGATGCCTGGGTGAGTATGCTGGTCCCGGAGATGATACTTCAGGAGTTTCTCCA
1 ACAGGGCCATGATGCTTGGGAGAGTGTGCTGG-CCCTGAGATGAGGCTT-TGGAGGTTCTGCA
** * * * * * *
6749227 ACAGGGTGATGATTCTTGGGAGAGTGTGCGGGCACCAGAGATGAGGCTTCAGGTGATTCTGCA
1 ACAGGGCCATGATGCTTGGGAGAGTGTGCTGGC-CCTGAGATGAGGCTT-TGGAGGTTCTGCA
* * * * * *
6749290 ACATGGCTATGATGCTCGGGAGAGTGCGCTGGCTCTGGAGATGATGCTT
1 ACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCCCT-GAGATGAGGCTT
6749339 CATGATTCTT
Statistics
Matches: 848, Mismatches: 273, Indels: 124
0.68 0.22 0.10
Matches are distributed among these distances:
61 8 0.01
62 47 0.06
63 742 0.88
64 42 0.05
65 9 0.01
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.28
Consensus pattern (61 bp):
ACAGGGCCATGATGCTTGGGAGAGTGTGCTGGCCCTGAGATGAGGCTTTGGAGGTTCTGCA
Found at i:6748513 original size:189 final size:189
Alignment explanation
Indices: 6748290--6748692 Score: 569
Period size: 189 Copynumber: 2.1 Consensus size: 189
6748280 CAACGGAAAT
* * * * * * *
6748290 ATGATGCTCAGGACAGTGTGCTGGTCCTAGAGATGATGCTTTAAGAGGTTCTAGAAGAGGTCCAT
1 ATGATGCTCGGGAGAGTGGGCTGGCCCAAGAGATGATACTTTAAGAGGTTCTAGAACAGGTCCAT
* * * *
6748355 CGTGCTTGAGAGAATTTTTTGTCTCTGGAATT-GATATTTCTGGTGG-TTTTACAACAGAGCCAT
66 AGTGCTTGAGAGAATTTTTTGTCTCTAG-ATTCGATATTTCTGG-GGCCTCTACAACAGAGCCAT
* *
6748418 GATGCTTGGGTGAGTGTGCTGGCCCCT-GAGATGAGGCTTTGGCTGGTTCTGCAACAGGGCC
129 GATACTTGGGTGAGTGTGCTGG-CCATGGAGATGAGGCTTTGGCTGGTTCTGCAACAGGGCC
*
6748479 ATGATGCTCGGGAGAGTGGGCTGGCCCAAGAGATGATACTTTCAGAGGTTCTAGAACAGGTCCAT
1 ATGATGCTCGGGAGAGTGGGCTGGCCCAAGAGATGATACTTTAAGAGGTTCTAGAACAGGTCCAT
* * **
6748544 AGTGCTTGGGAGAATTTTTTGTCTCTAGATTCGATGTTTCTGGGGCCTCTACAATGGAGCCATGA
66 AGTGCTTGAGAGAATTTTTTGTCTCTAGATTCGATATTTCTGGGGCCTCTACAACAGAGCCATGA
6748609 TACTTGGGTGAGTGTGCTGGCCATGGAGATGAGGCTTTGGCTGGTTCTGCAACAGGGCC
131 TACTTGGGTGAGTGTGCTGGCCATGGAGATGAGGCTTTGGCTGGTTCTGCAACAGGGCC
* * *
6748668 ATGGTGCTTGGGAGAGGGGGCTGGC
1 ATGATGCTCGGGAGAGTGGGCTGGC
6748693 TCTGGTGATG
Statistics
Matches: 190, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
188 8 0.04
189 182 0.96
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.29
Consensus pattern (189 bp):
ATGATGCTCGGGAGAGTGGGCTGGCCCAAGAGATGATACTTTAAGAGGTTCTAGAACAGGTCCAT
AGTGCTTGAGAGAATTTTTTGTCTCTAGATTCGATATTTCTGGGGCCTCTACAACAGAGCCATGA
TACTTGGGTGAGTGTGCTGGCCATGGAGATGAGGCTTTGGCTGGTTCTGCAACAGGGCC
Found at i:6749332 original size:252 final size:252
Alignment explanation
Indices: 6748784--6749336 Score: 890
Period size: 252 Copynumber: 2.2 Consensus size: 252
6748774 GGGGGTTCCA
* *
6748784 CAACAGGGCTATGATGTTTGGGTGAGTATGCTGGCCCCGGAGATGATGCTTTGAGAGATTCTAGA
1 CAACATGGCTATGATGTTTGGGTGAGTATGCTGGCCCCGGAGATGATGCCTTGAGAGATTCTAGA
* * * *
6748849 ACGGGGCCATGATGCTTGAGAGAGTGTTCTGGCTCTAGAATTGATGTTTGAGGGAGTTCAGAAAC
66 ACAGGGCCATGATGATTGAGAGAGTGTTCTGGCTCTAGAATTGATGTTTCAGGGAGTTCAAAAAC
* * *
6748914 AGGGCCATGATGCTTGGGTGAGTATGCTGGTCCTGGAGATGATGCTTCAGGAGTTTCTCCAACAG
131 AGGGCCATGATGCCTGGGTGAGTATGCTGGTCCCGGAGATGATACTTCAGGAGTTTCTCCAACAG
*
6748979 GGTGATCATTCTTGGGAGAGTGTGCAGGCACCAGAGATGAGGCTTTAGGTGATTCTG
196 GGTGATCATTCTTGGGAGAGTGTGCAGGCACCAGAGATGAGGCTTCAGGTGATTCTG
* * *
6749036 CAACATGGCTATGATGTTTGAGTGAGTATGCTGGCCCCGGAGATGATGCCTTGAGATATTCTGGA
1 CAACATGGCTATGATGTTTGGGTGAGTATGCTGGCCCCGGAGATGATGCCTTGAGAGATTCTAGA
* *
6749101 ACAGGGCCGTGATGATTGAGAGAGTGTTCTGGCTCTAGAATTGATGTTTCAGGGGGTTCAAAAAC
66 ACAGGGCCATGATGATTGAGAGAGTGTTCTGGCTCTAGAATTGATGTTTCAGGGAGTTCAAAAAC
6749166 AGGGCCATGATGCCTGGGTGAGTATGCTGGTCCCGGAGATGATACTTCAGGAGTTTCTCCAACAG
131 AGGGCCATGATGCCTGGGTGAGTATGCTGGTCCCGGAGATGATACTTCAGGAGTTTCTCCAACAG
* *
6749231 GGTGATGATTCTTGGGAGAGTGTGCGGGCACCAGAGATGAGGCTTCAGGTGATTCTG
196 GGTGATCATTCTTGGGAGAGTGTGCAGGCACCAGAGATGAGGCTTCAGGTGATTCTG
* * * ** * *
6749288 CAACATGGCTATGATGCTCGGGAGAGTGCGCTGGCTCTGGAGATGATGC
1 CAACATGGCTATGATGTTTGGGTGAGTATGCTGGCCCCGGAGATGATGC
6749337 TTCATGATTC
Statistics
Matches: 276, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
252 276 1.00
ACGTcount: A:0.22, C:0.16, G:0.34, T:0.27
Consensus pattern (252 bp):
CAACATGGCTATGATGTTTGGGTGAGTATGCTGGCCCCGGAGATGATGCCTTGAGAGATTCTAGA
ACAGGGCCATGATGATTGAGAGAGTGTTCTGGCTCTAGAATTGATGTTTCAGGGAGTTCAAAAAC
AGGGCCATGATGCCTGGGTGAGTATGCTGGTCCCGGAGATGATACTTCAGGAGTTTCTCCAACAG
GGTGATCATTCTTGGGAGAGTGTGCAGGCACCAGAGATGAGGCTTCAGGTGATTCTG
Done.