Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
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: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 38 of 47
Found at i:6162338 original size:79 final size:77
Alignment explanation
Indices: 6162198--6162676 Score: 463
Period size: 79 Copynumber: 6.1 Consensus size: 77
6162188 GGTGTCTACA
* * **
6162198 GAGTTTCCCCTCAGAATTGATGGGTTGGAGTA-CCCCGAGATGAAAAATTTAGCATTTTGGAAAT
1 GAGTATCCCCTCAGAATTGATGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGGAAAT
*
6162262 AAAAGCGGGGTTG
66 AAAA-TGGGGTTG
* * *
6162275 GAGTATCCCCTCGGAATTGATGGGATTGGAGTATCCCTAAGATGAAAATTTTAATATTTTGGAAA
1 GAGTATCCCCTCAGAATTGATGGG-TTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGGAAA
* * *
6162340 TGAAAACGGGATTA
65 T-AAAATGGGGTTG
* * * * * *
6162354 GAGTGTCCCTTC-GAAAATAATAGGGTTGGAGTATCCACGAGATGAAAAATTTAATATTTTGGAA
1 GAGTATCCCCTCAG-AATTGAT-GGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGGAA
*
6162418 ATAAAAATGTGGTTG
64 AT-AAAATGGGGTTG
** *
6162433 GAGTATCCCCTCAGAATTGATGGGGTTGGAGTATCCCTGAGATGAAAATTTTAATATTTCTGG-A
1 GAGTATCCCCTCAGAATTGAT-GGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTT-TGGAA
6162497 AT----T-GGGTTG
64 ATAAAATGGGGTTG
** *
6162506 GAGTATCCTTTCAGAATTGATGGGTCGGAGTATCCCCAAGATGAAAAATTTAATATTTTGGAAAT
1 GAGTATCCCCTCAGAATTGATGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGGAAAT
*
6162571 AAAAGTTGGGTTG
66 AAAA-TGGGGTTG
* * * * * ** *
6162584 AAGTATCCCGTC-GAAATTAATGGGGTTGGAATATCCCAAATGGTAAAAAAAATTTGATATTTTG
1 GAGTATCCCCTCAG-AATTGAT-GGGTTGGAGTATCCCCAA--G-ATGAAAAATTTAATATTTTG
6162648 GAAATAAAAATGGGGTTG
61 GAAAT-AAAATGGGGTTG
6162666 GAGTATCCCCT
1 GAGTATCCCCT
6162677 TTTGATGTTT
Statistics
Matches: 332, Mismatches: 50, Indels: 35
0.80 0.12 0.08
Matches are distributed among these distances:
71 3 0.01
72 36 0.11
73 24 0.07
74 1 0.00
77 24 0.07
78 30 0.09
79 160 0.48
80 11 0.03
81 1 0.00
82 38 0.11
83 4 0.01
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.30
Consensus pattern (77 bp):
GAGTATCCCCTCAGAATTGATGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTGGAAAT
AAAATGGGGTTG
Found at i:6162554 original size:73 final size:71
Alignment explanation
Indices: 6162428--6162568 Score: 203
Period size: 72 Copynumber: 2.0 Consensus size: 71
6162418 ATAAAAATGT
* **
6162428 GGTTGGAGTATCCCCTCAGAATTGATGGGGTTGGAGTATCCCTGAGATGAAAATTTTAATATTTC
1 GGTTGGAGTATCCCCTCAGAATTGATGGGGTCGGAGTATCCCCAAGATGAAAA-TTTAATATTT-
6162493 TGGAATTG
64 TGGAATTG
**
6162501 GGTTGGAGTATCCTTTCAGAATTGAT-GGGTCGGAGTATCCCCAAGATGAAAAATTTAATATTTT
1 GGTTGGAGTATCCCCTCAGAATTGATGGGGTCGGAGTATCCCCAAGATG-AAAATTTAATATTTT
6162565 GGAA
65 GGAA
6162569 ATAAAAGTTG
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
71 5 0.08
72 29 0.47
73 28 0.45
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.33
Consensus pattern (71 bp):
GGTTGGAGTATCCCCTCAGAATTGATGGGGTCGGAGTATCCCCAAGATGAAAATTTAATATTTTG
GAATTG
Found at i:6162607 original size:151 final size:153
Alignment explanation
Indices: 6162197--6162620 Score: 511
Period size: 158 Copynumber: 2.8 Consensus size: 153
6162187 TGGTGTCTAC
* * **
6162197 AGAGTTTCCCCTCAGAATTGATGGGTTGGAGTA-CCCCGAGATGAAAAATTTAGCATTTTGGAAA
1 AGAGTATCCCTTCAGAATTGATGGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTGGAAA
** * *
6162261 TAAAAGCGGGGTTGGAGTATCCCCTCGGAATTGATGGGATTGGAGTATCCCTAAGATGAAAATTT
66 TAAAAGATGGGTTGGAGTATCCCCTCGAAATTGATGGGGTTGGAGTATCCCTAAGATGAAAATTT
6162326 TAATATTTTGGAAATGAAAACGGGATT
131 TAATATTTTGGAAAT----ACGGGATT
* * * *
6162353 AGAGTGTCCCTTC-GAAAATAATAGGGTTGGAGTATCCACGAGATGAAAAATTTAATATTTTGGA
1 AGAGTATCCCTTCAG-AATTGAT-GGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTGGA
*
6162417 AATAAAA-ATGTGGTTGGAGTATCCCCTC-AGAATTGATGGGGTTGGAGTATCCCTGAGATGAAA
64 AATAAAAGATG-GGTTGGAGTATCCCCTCGA-AATTGATGGGGTTGGAGTATCCCTAAGATGAAA
*
6162480 ATTTTAATATTTCTGG-AAT-TGGG-TT
127 ATTTTAATATTT-TGGAAATACGGGATT
* * * *
6162505 GGAGTATCCTTTCAGAATTGATGGGTCGGAGTATCCCCAAGATGAAAAATTTAATATTTTGGAAA
1 AGAGTATCCCTTCAGAATTGATGGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTGGAAA
* * * * *
6162570 TAAAAGTTGGGTTGAAGTATCCCGTCGAAATTAATGGGGTTGGAATATCCC
66 TAAAAGATGGGTTGGAGTATCCCCTCGAAATTGATGGGGTTGGAGTATCCC
6162621 AAATGGTAAA
Statistics
Matches: 233, Mismatches: 26, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
151 81 0.35
152 20 0.09
153 4 0.02
155 1 0.00
156 16 0.07
157 12 0.05
158 96 0.41
159 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (153 bp):
AGAGTATCCCTTCAGAATTGATGGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTGGAAA
TAAAAGATGGGTTGGAGTATCCCCTCGAAATTGATGGGGTTGGAGTATCCCTAAGATGAAAATTT
TAATATTTTGGAAATACGGGATT
Found at i:6164534 original size:71 final size:71
Alignment explanation
Indices: 6164451--6164603 Score: 270
Period size: 71 Copynumber: 2.2 Consensus size: 71
6164441 AAAGGAGGAA
*
6164451 GTTTTCTAGTAGTATAGTTGAGGGAGAAGTTATTTGAGGGCGAAGATGTGAAGAATATTGAGTTT
1 GTTTTCTGGTAGTATAGTTGAGGGAGAAGTTATTTGAGGGCGAAGATGTGAAGAATATTGAGTTT
6164516 TGGGAG
66 TGGGAG
* * *
6164522 GTTTTCTGGTAGTATGGTTGAGGGAGAGGTTATTTGAGGGTGAAGATGTGAAGAATATTGAGTTT
1 GTTTTCTGGTAGTATAGTTGAGGGAGAAGTTATTTGAGGGCGAAGATGTGAAGAATATTGAGTTT
6164587 TGGGAG
66 TGGGAG
6164593 GTTTTCTGGTA
1 GTTTTCTGGTA
6164604 ATGGTTTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 78 1.00
ACGTcount: A:0.25, C:0.03, G:0.37, T:0.36
Consensus pattern (71 bp):
GTTTTCTGGTAGTATAGTTGAGGGAGAAGTTATTTGAGGGCGAAGATGTGAAGAATATTGAGTTT
TGGGAG
Found at i:6165295 original size:20 final size:21
Alignment explanation
Indices: 6165270--6165323 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
6165260 CATTTTAGGC
*
6165270 ATGTATCGATATAGTCACT-T
1 ATGTATCGATACAGTCACTAT
* *
6165290 ATGTATTGATACATTCACTAT
1 ATGTATCGATACAGTCACTAT
*
6165311 TTGTATCGATACA
1 ATGTATCGATACA
6165324 AATTATAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACAGTCACTAT
Found at i:6171103 original size:52 final size:52
Alignment explanation
Indices: 6171025--6171153 Score: 195
Period size: 52 Copynumber: 2.5 Consensus size: 52
6171015 CGAAATATGA
* * *
6171025 AAATTTATCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGT
1 AAATTTACCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* *
6171077 AAATTTACCAGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* *
6171129 AAATTTGCTTGCATGTATCGATACA
1 AAATTTACCTGCATGTATCGATACA
6171154 AAGATCGGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTACCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:6171166 original size:52 final size:52
Alignment explanation
Indices: 6171025--6171173 Score: 158
Period size: 52 Copynumber: 2.9 Consensus size: 52
6171015 CGAAATATGA
* * * *
6171025 AAATTTATCTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGT
1 AAATTTACCAGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGC
*** *
6171077 AAATTTACCAGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTACCAGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGC
* ** *
6171129 AAATTTGCTTGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 AAATTTACCAGCATGTATCGATACATAAGAT-AGTGTATCGATACA
6171174 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
51 4 0.05
52 78 0.95
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTACCAGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGC
Found at i:6171180 original size:13 final size:13
Alignment explanation
Indices: 6171162--6171186 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6171152 CAAAGATCGG
6171162 TGTATCGATACAA
1 TGTATCGATACAA
6171175 TGTATCGATACA
1 TGTATCGATACA
6171187 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:6171269 original size:13 final size:13
Alignment explanation
Indices: 6171251--6171275 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6171241 AAAAAAAATA
6171251 TGTATCGATACAT
1 TGTATCGATACAT
6171264 TGTATCGATACA
1 TGTATCGATACA
6171276 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6172391 original size:49 final size:49
Alignment explanation
Indices: 6172182--6173036 Score: 1052
Period size: 49 Copynumber: 17.8 Consensus size: 49
6172172 AACAGGATGT
* *
6172182 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGC
* * *
6172234 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT---GGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* *
6172277 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGT-GAGGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* * *
6172325 CAATGTGCTGATTCAAGGCCAGCTACATTGGATTTAAAGATGAAGGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
*
6172374 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* * * * *
6172423 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGA-GAAGGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAA-AGATAAAGGTGC
*
6172472 CAATGTGCTGAGTCAAGGCCAACTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* * * *
6172521 CAATATGCTGACTCAAAGCCAGCTATATTGGACTT--A-AT---GGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
6172564 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* * *
6172613 CAATGTGCTGAGTCAAGGCCAACTACATTGGACTTAATGGA-GAAGGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAA-AGATAAAGGTGC
6172662 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* * * * * * * *
6172711 CAATATGCTGATTCAAGGCCAGCTATATTAGACTTAATGGTGAAGGTGA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
*
6172760 CAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* * * *
6172809 CAATATGCTGATTCAAGGCCAGCTATATTAGACTT--A-AT---GGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* *
6172852 CAATGTGCTGAGTCAAGGCTAGCTACATTGGACTTAAAGATAAAGGTGA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* * * * * *
6172901 CAATATGCTGATTCAGGGCCAGCTATATTGGACTTAATGGA-GAAGGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAA-AGATAAAGGTGC
*
6172950 CAATGTGCTGAGTCAAGGCCAGCTACATCGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* * * *
6172999 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
6173037 AGGGTTGCCA
Statistics
Matches: 689, Mismatches: 90, Indels: 51
0.83 0.11 0.06
Matches are distributed among these distances:
43 108 0.16
45 3 0.00
46 9 0.01
47 2 0.00
48 49 0.07
49 479 0.70
50 7 0.01
52 32 0.05
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
Found at i:6172470 original size:98 final size:98
Alignment explanation
Indices: 6172272--6173035 Score: 1205
Period size: 98 Copynumber: 7.9 Consensus size: 98
6172262 TGGACTTAAT
* * *
6172272 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGT-GAGGTGCCAATGTGCTGA
1 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGA
* * *
6172336 TTCAAGGCCAGCTACATTGGATTTAA-AGATGAA
66 TTCAAGGCCAGCTATATTGGACTTAATGGA-GAA
*
6172369 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGA
1 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGA
6172434 TTCAAGGCCAGCTATATTGGACTTAATGGAGAA
66 TTCAAGGCCAGCTATATTGGACTTAATGGAGAA
*
6172467 GGTGCCAATGTGCTGAGTCAAGGCCAACTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGA
1 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGA
* *
6172532 CTCAAAGCCAGCTATATTGGACTTAAT------
66 TTCAAGGCCAGCTATATTGGACTTAATGGAGAA
*
6172559 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGA
1 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGA
* * *
6172624 GTCAAGGCCAACTACATTGGACTTAATGGAGAA
66 TTCAAGGCCAGCTATATTGGACTTAATGGAGAA
6172657 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGA
1 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGA
* *
6172722 TTCAAGGCCAGCTATATTAGACTTAATGGTGAA
66 TTCAAGGCCAGCTATATTGGACTTAATGGAGAA
* *
6172755 GGTGACAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGA
1 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGA
*
6172820 TTCAAGGCCAGCTATATTAGACTTAAT------
66 TTCAAGGCCAGCTATATTGGACTTAATGGAGAA
* *
6172847 GGTGCCAATGTGCTGAGTCAAGGCTAGCTACATTGGACTTAAAGATAAAGGTGACAATATGCTGA
1 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGA
*
6172912 TTCAGGGCCAGCTATATTGGACTTAATGGAGAA
66 TTCAAGGCCAGCTATATTGGACTTAATGGAGAA
*
6172945 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATCGGACTTAAAGATAAAGGTGCCAATATGCTGA
1 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGA
*
6173010 TTCAAGGCCAGCTATATTGGGCTTAA
66 TTCAAGGCCAGCTATATTGGACTTAA
6173036 AAGGGTTGCC
Statistics
Matches: 617, Mismatches: 36, Indels: 27
0.91 0.05 0.04
Matches are distributed among these distances:
92 172 0.28
97 44 0.07
98 399 0.65
99 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (98 bp):
GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGA
TTCAAGGCCAGCTATATTGGACTTAATGGAGAA
Found at i:6172702 original size:288 final size:288
Alignment explanation
Indices: 6172182--6173035 Score: 1442
Period size: 288 Copynumber: 3.0 Consensus size: 288
6172172 AACAGGATGT
* *
6172182 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
6172247 CAAGGCCAGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
63 CAAGGCCAGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
* * * *
6172312 AAAGGT-GAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGATTTAA-AGATGAAGGTGCC
128 AAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAATGGA-GAAGGTGCC
*
6172375 AATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAG
192 AATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAG
*
6172440 GCCAGCTATATTGGACTTAATGGAGAAGGTGC
257 GCCAGCTATATTGGACTTAATGGAGAAGGTGA
* *
6172472 CAATGTGCTGAGTCAAGGCCAACTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGACTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
6172537 AGCCAGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
66 GGCCAGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* *
6172602 GATAAAGGTGCCAATGTGCTGAGTCAAGGCCAACTACATTGGACTTAATGGAGAAGGTGCCAATG
131 GATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAATGGAGAAGGTGCCAATG
6172667 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
196 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
* *
6172732 GCTATATTAGACTTAATGGTGAAGGTGA
261 GCTATATTGGACTTAATGGAGAAGGTGA
*
6172760 CAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
* *
6172825 GGCCAGCTATATTAGACTTAATGGTGCCAATGTGCTGAGTCAAGGCTAGCTACATTGGACTTAAA
66 GGCCAGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* * * *
6172890 GATAAAGGTGACAATATGCTGATTCAGGGCCAGCTATATTGGACTTAATGGAGAAGGTGCCAATG
131 GATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAATGGAGAAGGTGCCAATG
*
6172955 TGCTGAGTCAAGGCCAGCTACATCGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
196 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
*
6173020 GCTATATTGGGCTTAA
261 GCTATATTGGACTTAA
6173036 AAGGGTTGCC
Statistics
Matches: 532, Mismatches: 30, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
287 89 0.17
288 403 0.76
289 2 0.00
290 38 0.07
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (288 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
GATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAATGGAGAAGGTGCCAATG
TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCA
GCTATATTGGACTTAATGGAGAAGGTGA
Found at i:6173082 original size:33 final size:33
Alignment explanation
Indices: 6173039--6173134 Score: 129
Period size: 33 Copynumber: 2.9 Consensus size: 33
6173029 GGCTTAAAAG
**
6173039 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAGT
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAA
* ** *
6173072 GGTTGTCACCGACTTGTGTGGGCTTCGGAAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAA
*
6173105 GGTTGCCATCGACTTGTGTGGGCTTTAGAG
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAG
6173135 GAAAAGAGTA
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.17, C:0.18, G:0.35, T:0.30
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAA
Found at i:6173158 original size:33 final size:33
Alignment explanation
Indices: 6173121--6173604 Score: 430
Period size: 33 Copynumber: 15.2 Consensus size: 33
6173111 CATCGACTTG
* * *
6173121 TGTGGGCTTTAGAGGAAAAGAGTACCACGTAGT
1 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
6173154 TGTGGGCTTTAAAGGAAAA-AGATGCCACGGAGT
1 TGTGGGCTTTAAAGGAAAAGAG-TGCCACGGAGT
* * *
6173187 TGTGGACTTAAAAGGAAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
* *
6173220 TGTGGGCTTTAAAGAAAAAAATGGTGCCACGGAGT
1 TGTGGGCTTTAAAGGAAAAGA--GTGCCACGGAGT
* *
6173255 TGTGGGCTTAAAAGGAAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
*
6173288 TGTGGGC-TTAAACG----G-GTGCCACGGAGT
1 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
* **
6173315 TGTGGACTTGGAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAGG-AAAAGAGTGCCACGGAGT
*
6173349 TGTGGGCTTT-GA-GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAGGAA-AAGAGTGCCACGGAGT
*
6173380 TGTGGGC-TTAGAAGGAAAAAGAGTGCCATGGAGT
1 TGTGGGCTTTA-AAGG-AAAAGAGTGCCACGGAGT
* * *
6173414 TGTGGGCTTAAAAGAAAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
6173447 TGTGGGCTTT----GAAAAGGAGGTGCCACGGAGT
1 TGTGGGCTTTAAAGGAAAA-GA-GTGCCACGGAGT
* *
6173478 TGTGGGC-TTAAA-G---TG-GTGCCACAGAGT
1 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
* * * *
6173505 TGTGGACTTAAAAGGAAAAGAGTGCCATGTAGT
1 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
*
6173538 TGTGGGC-TTAAACG----G-GTGCCACGGAGT
1 TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
*
6173565 TGTGGAC-TTAGAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTA-AAGG-AAAAGAGTGCCACGGAGT
6173599 TGTGGG
1 TGTGGG
6173605 GTTTGAGAAT
Statistics
Matches: 365, Mismatches: 50, Indels: 71
0.75 0.10 0.15
Matches are distributed among these distances:
27 53 0.15
28 13 0.04
29 6 0.02
30 6 0.02
31 39 0.11
32 18 0.05
33 137 0.38
34 62 0.17
35 31 0.08
ACGTcount: A:0.30, C:0.12, G:0.36, T:0.22
Consensus pattern (33 bp):
TGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGT
Found at i:6173315 original size:60 final size:61
Alignment explanation
Indices: 6173242--6173604 Score: 411
Period size: 60 Copynumber: 5.9 Consensus size: 61
6173232 AGAAAAAAAT
* *
6173242 GGTGCCACGGAGTTGTGGGCTTAAAAGG-AAAAGAGTGCCACGTAGTTGTGGGCTTAAACG-
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAA-GA
**
6173302 GGTGCCACGGAGTTGTGGACTTGGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAGAAGAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-A-AAG-A
* * *
6173367 GGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCATGGAGTTGTGGGCTTAAAAGAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT-AAAG----
6173432 A
61 A
* * *
6173433 GAGTGCCACGTAGTTGTGGGCTTTGAAAAGG----AG-GTGCCACGGAGTTGTGGGCTTAAAGT
1 G-GTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAGA
* * *
6173492 GGTGCCACAGAGTTGTGGACTTAAAAGG-AAAAGAGTGCCATGTAGTTGTGGGCTTAAACG-
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAA-GA
*
6173552 GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGG
6173605 GTTTGAGAAT
Statistics
Matches: 264, Mismatches: 21, Indels: 35
0.82 0.07 0.11
Matches are distributed among these distances:
56 6 0.02
57 2 0.01
58 16 0.06
59 3 0.01
60 73 0.28
61 47 0.18
62 2 0.01
63 9 0.03
64 25 0.09
65 53 0.20
66 3 0.01
67 18 0.07
68 2 0.01
69 5 0.02
ACGTcount: A:0.28, C:0.13, G:0.38, T:0.21
Consensus pattern (61 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAGA
Found at i:6173587 original size:250 final size:251
Alignment explanation
Indices: 6173121--6173613 Score: 719
Period size: 250 Copynumber: 1.9 Consensus size: 251
6173111 CATCGACTTG
* *
6173121 TGTGGGCTTTAGAGGAAAAGAGTACCACGTAGTTGTGGGCTTTAAAGGAAAAAGATGCCACGGAG
1 TGTGGGCTTTAGAGGAAAAGAGTACCACGGAGTTGTGGGCTTTAAAAGAAAAAGATGCCACGGAG
* *
6173186 TTGTGGACTTAAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGAAAAAAATGGTGCCACG
66 TTGTGGACTTAAAAGG--AAGAGTGCCACGGAGTTGTGGGCTTTAAAG------ATGGTGCCACA
*
6173251 GAGTTGTGGGCTTAAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTAAACGGGTGCCACGGAGTT
123 GAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTAAACGGGTGCCACGGAGTT
*
6173316 GTGGACTTGGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAGAAGAAGGTGCCACGGAGT
188 GTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAGAAGAAGGTGCCACGGAGT
* *
6173380 TGTGGGC-TTAGAAGGAAAAAGAGTGCCATGGAGTTGTGGGC-TTAAAAGAAAAAGAGTGCCACG
1 TGTGGGCTTTAG-AGG-AAAAGAGTACCACGGAGTTGTGGGCTTTAAAAGAAAAAGA-TGCCACG
* *
6173443 TAGTTGTGGGCTTTGAAAAGG-AG-GTGCCACGGAGTTGTGGGC-TTAAAG-TGGTGCCACAGAG
63 GAGTTGTGGAC-TT-AAAAGGAAGAGTGCCACGGAGTTGTGGGCTTTAAAGATGGTGCCACAGAG
*
6173504 TTGTGGACTTAAAAGGAAAAGAGTGCCATGTAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTG
126 TTGTGGACTTAAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTG
*
6173569 GACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGGTTTGAGAA
191 GACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAGAA
6173614 TAGATTGCCA
Statistics
Matches: 217, Mismatches: 12, Indels: 19
0.88 0.05 0.08
Matches are distributed among these distances:
250 118 0.54
257 6 0.03
258 22 0.10
259 25 0.12
260 38 0.18
261 2 0.01
262 6 0.03
ACGTcount: A:0.30, C:0.12, G:0.36, T:0.22
Consensus pattern (251 bp):
TGTGGGCTTTAGAGGAAAAGAGTACCACGGAGTTGTGGGCTTTAAAAGAAAAAGATGCCACGGAG
TTGTGGACTTAAAAGGAAGAGTGCCACGGAGTTGTGGGCTTTAAAGATGGTGCCACAGAGTTGTG
GACTTAAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTT
AGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAGAAGAAGGTGCCACGGAGT
Found at i:6182222 original size:24 final size:25
Alignment explanation
Indices: 6182176--6182226 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
6182166 ACATAATTAA
*
6182176 AAGCATTAAACATAGTTACAAACAC
1 AAGCATTAAACATAATTACAAACAC
* *
6182201 AAGCA-TAAGCATAATTATAAACAC
1 AAGCATTAAACATAATTACAAACAC
6182225 AA
1 AA
6182227 CAGTAGGCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.55, C:0.18, G:0.08, T:0.20
Consensus pattern (25 bp):
AAGCATTAAACATAATTACAAACAC
Found at i:6184939 original size:17 final size:17
Alignment explanation
Indices: 6184917--6184949 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6184907 AATTAAATCT
6184917 TATCCATAACCCAAAAA
1 TATCCATAACCCAAAAA
*
6184934 TATCCATAAGCCAAAA
1 TATCCATAACCCAAAA
6184950 TCAATATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.27, G:0.03, T:0.18
Consensus pattern (17 bp):
TATCCATAACCCAAAAA
Found at i:6185823 original size:20 final size:20
Alignment explanation
Indices: 6185798--6185872 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
6185788 TTTACCCAAA
*
6185798 TGTATCGATACATTGTTCAT
1 TGTATCGATACATTTTTCAT
*
6185818 TGTATCGATTCATTTTTCAT
1 TGTATCGATACATTTTTCAT
* *
6185838 TGTATCGATACATTTTTTAA
1 TGTATCGATACATTTTTCAT
6185858 TGTATCGATACATTT
1 TGTATCGATACATTT
6185873 AGGCATTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.49
Consensus pattern (20 bp):
TGTATCGATACATTTTTCAT
Found at i:6188308 original size:51 final size:51
Alignment explanation
Indices: 6188246--6188364 Score: 145
Period size: 51 Copynumber: 2.3 Consensus size: 51
6188236 TATTTTCGAG
* *
6188246 GGGATACTCCAACCCCGGTTTTA-TTTCTAAAACACCAA-TTTTCTACAAT-T
1 GGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTTC-ACAATCA
* **
6188296 GATGATACTCCAACTTCGATTTTATTTTCAAAACACCAATTTTTCACAATCA
1 G-GGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCA
6188348 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
6188365 TTATTTTTGA
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
50 1 0.02
51 46 0.81
52 10 0.18
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATCA
Found at i:6188433 original size:130 final size:130
Alignment explanation
Indices: 6188185--6188435 Score: 328
Period size: 130 Copynumber: 1.9 Consensus size: 130
6188175 TTAACCTCGG
* *
6188185 TTTTATTTTCAAAACATCAAATTTTCAAAATCGAGGATACTCCAATCCCATTATTTTCGAGGGGA
1 TTTTATTTTCAAAACACCAAATTTTCAAAATCGAGGATACTCCAACCCCATTATTTTCGAGGGGA
* * *
6188250 TACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCTACAATTGATGATACTCCAACTTCGA
66 TACTCCAACCCCGCTTTTATTTCTAAAACACCAATTTTCTACAATAGAGGATACTCCAACTTCGA
* * * * *
6188315 TTTTATTTTCAAAACACCAATTTTTCACAATC-AGGGATACTCCAACCCCGTTATTTTTGATGGG
1 TTTTATTTTCAAAACACCAAATTTTCAAAATCGA-GGATACTCCAACCCCATTATTTTCGAGGGG
* * * *
6188379 ATACTCCAACCCCGCTTTTATTT-TCAGAACATCGATTTTCTATAATCAG-GGATACTC
65 ATACTCCAACCCCGCTTTTATTTCT-AAAACACCAATTTTCTACAAT-AGAGGATACTC
6188436 TAGCCCCATT
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
129 2 0.02
130 101 0.97
131 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (130 bp):
TTTTATTTTCAAAACACCAAATTTTCAAAATCGAGGATACTCCAACCCCATTATTTTCGAGGGGA
TACTCCAACCCCGCTTTTATTTCTAAAACACCAATTTTCTACAATAGAGGATACTCCAACTTCGA
Found at i:6189475 original size:45 final size:46
Alignment explanation
Indices: 6189411--6189557 Score: 183
Period size: 45 Copynumber: 3.3 Consensus size: 46
6189401 ACGTTGCGAC
* * * *
6189411 ATTTTTA-ATTGGGTTTTAATTGGGCTTGGGTTTAAGTTTATATAG
1 ATTTTTACTTTGGATTTTAATTGGGTTTGGGTTTAAATTTATATAG
* * *
6189456 ATTTTTA-TTTGGATTTTAATTAGGTTTAGGTTTAAATTTATATAT
1 ATTTTTACTTTGGATTTTAATTGGGTTTGGGTTTAAATTTATATAG
* *
6189501 ATTTTTACTTT-GATTTTAAATGGGTTTGGGTTTAATTTTATATAG
1 ATTTTTACTTTGGATTTTAATTGGGTTTGGGTTTAAATTTATATAG
*
6189546 ATTTTTAGTTTG
1 ATTTTTACTTTG
6189558 TATTAAATGG
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
45 84 0.97
46 3 0.03
ACGTcount: A:0.24, C:0.01, G:0.18, T:0.56
Consensus pattern (46 bp):
ATTTTTACTTTGGATTTTAATTGGGTTTGGGTTTAAATTTATATAG
Found at i:6189580 original size:45 final size:45
Alignment explanation
Indices: 6189440--6189585 Score: 125
Period size: 45 Copynumber: 3.2 Consensus size: 45
6189430 TTGGGCTTGG
* * * * * *
6189440 GTTTAAGTTTATATAGATTTTTA-TTTGGATTTTAATTAGGTTTAG
1 GTTTAAATTTATATAGATTTTTACTTT-GATATTAAATGGGTTAAC
* * ***
6189485 GTTTAAATTTATATATATTTTTACTTTGATTTTAAATGGGTTTGG
1 GTTTAAATTTATATAGATTTTTACTTTGATATTAAATGGGTTAAC
* *
6189530 GTTTAATTTTATATAGATTTTTAGTTTG-TATTAAATGGGCTTAAC
1 GTTTAAATTTATATAGATTTTTACTTTGATATTAAATGGG-TTAAC
* *
6189575 TTTTAAGTTTA
1 GTTTAAATTTA
6189586 ATTTATATTT
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
44 10 0.12
45 72 0.85
46 3 0.04
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.55
Consensus pattern (45 bp):
GTTTAAATTTATATAGATTTTTACTTTGATATTAAATGGGTTAAC
Found at i:6189580 original size:90 final size:91
Alignment explanation
Indices: 6189424--6189596 Score: 208
Period size: 90 Copynumber: 1.9 Consensus size: 91
6189414 TTTAATTGGG
* * * * *
6189424 TTTTAATTGGGCTTGGGTTTAAGTTTATATAGATTTTTATTTGGATTTTAATTAGGTTTAGGTTT
1 TTTTAAATGGGCTTGGGTTTAAGTTTATATAGATTTTTATTTGGATATTAAATAGGTTAACGTTT
6189489 AAATTT-ATATATATTTTTACTTTGA
66 AAATTTAATATATATTTTTACTTTGA
* * * *
6189514 TTTTAAATGGGTTTGGGTTTAATTTTATATAGATTTTTAGTTT-G-TATTAAATGGGCTTAACTT
1 TTTTAAATGGGCTTGGGTTTAAGTTTATATAGATTTTTA-TTTGGATATTAAATAGG-TTAACGT
* *
6189577 TTAAGTTTAATTTATATTTT
64 TTAAATTTAATATATATTTT
6189597 ATTAAATATA
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
89 8 0.12
90 48 0.70
91 13 0.19
ACGTcount: A:0.26, C:0.02, G:0.16, T:0.55
Consensus pattern (91 bp):
TTTTAAATGGGCTTGGGTTTAAGTTTATATAGATTTTTATTTGGATATTAAATAGGTTAACGTTT
AAATTTAATATATATTTTTACTTTGA
Found at i:6191411 original size:18 final size:18
Alignment explanation
Indices: 6191380--6191423 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
6191370 TGAATACTAA
*
6191380 TTAATTCTGATTAAACTG
1 TTAATTTTGATTAAACTG
* *
6191398 TTAATTTTGTTTAACCTG
1 TTAATTTTGATTAAACTG
*
6191416 ATAATTTT
1 TTAATTTT
6191424 TTATAACTCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (18 bp):
TTAATTTTGATTAAACTG
Found at i:6201517 original size:20 final size:18
Alignment explanation
Indices: 6201494--6201533 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 18
6201484 AAAAAATAAA
6201494 TATATTTTTATATTAATATT
1 TATATTTTTA-ATTAA-ATT
6201514 TATATTTTTAATTAAATT
1 TATATTTTTAATTAAATT
6201532 TA
1 TA
6201534 AATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.25
19 5 0.25
20 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATTTTTAATTAAATT
Found at i:6201905 original size:21 final size:23
Alignment explanation
Indices: 6201872--6201913 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
6201862 ATTAAAAAAT
6201872 TATTTTATATAAAT-AATTTATA
1 TATTTTATATAAATAAATTTATA
6201894 TATTTT-TATAAATAAATTTA
1 TATTTTATATAAATAAATTTA
6201914 AATAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTTTATATAAATAAATTTATA
Found at i:6206227 original size:23 final size:22
Alignment explanation
Indices: 6206201--6206252 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
6206191 GAATTTATTT
6206201 ATTTTTATTTTAAAATTTTTAGA
1 ATTTTTATTTTAAAATTTTTA-A
* * **
6206224 ATTTTCATTTTCATTTTTTTAA
1 ATTTTTATTTTAAAATTTTTAA
6206246 ATTTTTA
1 ATTTTTA
6206253 ATTATTTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (22 bp):
ATTTTTATTTTAAAATTTTTAA
Found at i:6206248 original size:31 final size:29
Alignment explanation
Indices: 6206157--6206252 Score: 108
Period size: 31 Copynumber: 3.2 Consensus size: 29
6206147 TTTATTTTTG
6206157 TTTTTAGAA-TT-TTTTATTTTTTTAAAAA
1 TTTTTAGAATTTATTTTATTTTTTT-AAAA
*
6206185 TTTTTAGAATTTATTTATTTTTATTTTAAAA
1 TTTTTAGAATTTATTT-TATTT-TTTTAAAA
6206216 TTTTTAGAATTTTCATTTTCATTTTTTT-AAA
1 TTTTTAGAA-TTT-ATTTT-ATTTTTTTAAAA
6206247 TTTTTA
1 TTTTTA
6206253 ATTATTTTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
28 9 0.15
29 2 0.03
30 3 0.05
31 26 0.44
32 12 0.20
33 7 0.12
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (29 bp):
TTTTTAGAATTTATTTTATTTTTTTAAAA
Found at i:6206259 original size:20 final size:20
Alignment explanation
Indices: 6206236--6206277 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6206226 TTTCATTTTC
6206236 ATTTTT-TTAAATTTTTAATT
1 ATTTTTATT-AATTTTTAATT
*
6206256 ATTTTTATTATTTTTTAATT
1 ATTTTTATTAATTTTTAATT
6206276 AT
1 AT
6206278 GTAATATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTTATTAATTTTTAATT
Found at i:6206285 original size:27 final size:26
Alignment explanation
Indices: 6206230--6206282 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
6206220 TAGAATTTTC
*
6206230 ATTTTCATTTTTTTAAATTTTTAATT
1 ATTTTCATTTTTTTAAATTTGTAATT
* *
6206256 ATTTTTATTATTTTTTAATTATGTAAT
1 ATTTTCATT-TTTTTAAATT-TGTAAT
6206283 ATTAGGAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 8 0.36
27 9 0.41
28 5 0.23
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (26 bp):
ATTTTCATTTTTTTAAATTTGTAATT
Found at i:6213758 original size:16 final size:14
Alignment explanation
Indices: 6213739--6213772 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
6213729 CCCTATAAAT
6213739 AAAAAATAAGAAAAA
1 AAAAAAT-AGAAAAA
6213754 GAAAAAATAGAAAAA
1 -AAAAAATAGAAAAA
6213769 AAAA
1 AAAA
6213773 CACAAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 7 0.39
16 7 0.39
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (14 bp):
AAAAAATAGAAAAA
Found at i:6213765 original size:15 final size:15
Alignment explanation
Indices: 6213739--6213809 Score: 56
Period size: 14 Copynumber: 4.6 Consensus size: 15
6213729 CCCTATAAAT
6213739 AAAAAATAAGAAAAA
1 AAAAAATAAGAAAAA
6213754 GAAAAAAT-AGAAAAA
1 -AAAAAATAAGAAAAA
* * **
6213769 AAAACACAA-AATGA
1 AAAAAATAAGAAAAA
6213783 AAAAAATACAGATAACAA
1 AAAAAATA-AGA-AA-AA
6213801 AAAAAATAA
1 AAAAAATAA
6213810 AATAATGAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
14 14 0.33
15 9 0.21
16 8 0.19
17 2 0.05
18 9 0.21
ACGTcount: A:0.79, C:0.06, G:0.07, T:0.08
Consensus pattern (15 bp):
AAAAAATAAGAAAAA
Found at i:6215819 original size:60 final size:60
Alignment explanation
Indices: 6215771--6215887 Score: 148
Period size: 60 Copynumber: 1.9 Consensus size: 60
6215761 TTTTGGTTTC
* *
6215771 ATCTAGG-CTATTTCATTGAGTCTTGGTTTCGCCCAAGTCATTGTTTAGGATTCTAGTTAT
1 ATCTAGGCCT-TTTCATTGAGTCTTGATTTCACCCAAGTCATTGTTTAGGATTCTAGTTAT
* * * *
6215831 ATCTAGGCCTTTTCGTTGAGTCTTTATTTTACCCAAGTCATT-TTGTAGGTTTCTAGT
1 ATCTAGGCCTTTTCATTGAGTCTTGATTTCACCCAAGTCATTGTT-TAGGATTCTAGT
6215888 GCCATTATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
59 2 0.04
60 45 0.92
61 2 0.04
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (60 bp):
ATCTAGGCCTTTTCATTGAGTCTTGATTTCACCCAAGTCATTGTTTAGGATTCTAGTTAT
Found at i:6216212 original size:126 final size:124
Alignment explanation
Indices: 6215907--6216256 Score: 305
Period size: 126 Copynumber: 2.8 Consensus size: 124
6215897 TCATTGAACT
* * * * * *
6215907 ATGGTTTGCCCTAGTCAATCATTTTAATTGAAAGTTCTA-TTCTAGTCAGCTCTTTTACTATTAT
1 ATGGTTTCCCCTAGTCAATC-TTTTAACTAAAAGTTCTACCT-TAGTCACCTCTTTAACTATTAT
* * * *
6215971 GGTTTTGCCCTAGTTAA-CTTTCTGACTAAAGGTTTTACCTTGAGCACCTTTTTGACTATT
64 GGTTTCGCCCTAGTTAATCTTTTTGACTAAAGGTTTTACCTTGAGCACCTTTTTAACTATC
* * * * * * * * * *
6216031 ATGATTTCGCCTTGATCAATCTTTTTAACTAAAGGTTCCACC-CAGACCACTTCTTTGATTATTA
1 ATGGTTTCCCCTAG-TCAATC-TTTTAACTAAAAGTTCTACCTTAG-TCACCTCTTTAACTATTA
* * *
6216095 TGGTTTCGCCCTAGTTAATCTTTTTGACTGAAGGTTTTGCCTTG-GTCA-CTTCTTTAATTATC
63 TGGTTTCGCCCTAGTTAATCTTTTTGACTAAAGGTTTTACCTTGAG-CACCTT-TTTAACTATC
* * *
6216157 ATGGTTTCACCCTAGTCAATCTTTTCGACTAAAAGTTCTACCTTAGTCACCTCTTTAACTCTCAT
1 ATGGTTTC-CCCTAGTCAATCTTTT-AACTAAAAGTTCTACCTTAGTCACCTCTTTAACTATTAT
** * * *
6216222 GGTTTCATCCTGGTTAATCTTTTTTATTAAAGGTT
64 GGTTTCGCCCTAGTTAATCTTTTTGACTAAAGGTT
6216257 CTATGCTAGC
Statistics
Matches: 175, Mismatches: 42, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
124 12 0.07
125 58 0.33
126 99 0.57
127 6 0.03
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (124 bp):
ATGGTTTCCCCTAGTCAATCTTTTAACTAAAAGTTCTACCTTAGTCACCTCTTTAACTATTATGG
TTTCGCCCTAGTTAATCTTTTTGACTAAAGGTTTTACCTTGAGCACCTTTTTAACTATC
Found at i:6216258 original size:63 final size:63
Alignment explanation
Indices: 6215949--6216281 Score: 244
Period size: 63 Copynumber: 5.3 Consensus size: 63
6215939 AGTTCTATTC
* * * ** * *
6215949 TAGTCAGCTCTTTTACTATTATGGTTTTGCCCTAGTTAA-CTTTCTGACTAAAGGTTTTACCT
1 TAGTCACCTCTTTAACTATCATGGTTTCACCCTAGTTAATCTTTTTGACTAAAGGTTCTACCT
* * * * * * * * *
6216011 TGAG-CACCTTTTTGACTATTATGATTTC-GCCTTGATCAATCTTTTTAACTAAAGGTTCCACC-
1 T-AGTCACCTCTTTAACTATCATGGTTTCACCCTAG-TTAATCTTTTTGACTAAAGGTTCTACCT
* * * * * * * * * *
6216073 CAGACCACTTCTTTGATTATTATGGTTTCGCCCTAGTTAATCTTTTTGACTGAAGGTTTTGCCT
1 TAG-TCACCTCTTTAACTATCATGGTTTCACCCTAGTTAATCTTTTTGACTAAAGGTTCTACCT
* * * * * *
6216137 TGGTCACTTCTTTAATTATCATGGTTTCACCCTAGTCAATCTTTTCGACTAAAAGTTCTACCT
1 TAGTCACCTCTTTAACTATCATGGTTTCACCCTAGTTAATCTTTTTGACTAAAGGTTCTACCT
* * * * * *
6216200 TAGTCACCTCTTTAACTCTCATGGTTTCATCCTGGTTAATCTTTTTTATTAAAGGTTCTATGC-
1 TAGTCACCTCTTTAACTATCATGGTTTCACCCTAGTTAATCTTTTTGACTAAAGGTTCTA-CCT
*
6216263 TAGCCACCTCTTTAACTAT
1 TAGTCACCTCTTTAACTAT
6216282 TTTTTTAATT
Statistics
Matches: 212, Mismatches: 51, Indels: 15
0.76 0.18 0.05
Matches are distributed among these distances:
61 6 0.03
62 23 0.11
63 177 0.83
64 6 0.03
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (63 bp):
TAGTCACCTCTTTAACTATCATGGTTTCACCCTAGTTAATCTTTTTGACTAAAGGTTCTACCT
Found at i:6217638 original size:184 final size:184
Alignment explanation
Indices: 6217329--6217687 Score: 700
Period size: 184 Copynumber: 2.0 Consensus size: 184
6217319 TTAGCTTGGC
6217329 ATTTTTGTTGTTCAAGAAAAGTACATAAGGGAAGTGATAGAGAATTGCAAGGCTGTGAGTACATT
1 ATTTTTGTTGTTCAAGAAAAGTACATAAGGGAAGTGATAGAGAATTGCAAGGCTGTGAGTACATT
6217394 TACGGTTCAATGTGAGAAACTTTACAAGGATGACGGCTCAAAATGGATTAATGAGAGAACCTATA
66 TACGGTTCAATGTGAGAAACTTTACAAGGATGACGGCTCAAAATGGATTAATGAGAGAACCTATA
* *
6217459 AAAGCTTGATCTATTGCTTGCTGCATTTGACAGCAACCAAACCTGTGATAGAGA
131 AAAGCTTGATCGATTGCTTGCTACATTTGACAGCAACCAAACCTGTGATAGAGA
6217513 ATTTTTGTTGTTCAAGAAAAGTACATAAGGGAAGTGATAGAGAATTGCAAGGCTGTGAGTACATT
1 ATTTTTGTTGTTCAAGAAAAGTACATAAGGGAAGTGATAGAGAATTGCAAGGCTGTGAGTACATT
6217578 TACGGTTCAATGTGAGAAACTTTACAAGGATGACGGCTCAAAATGGATTAATGAGAGAACCTATA
66 TACGGTTCAATGTGAGAAACTTTACAAGGATGACGGCTCAAAATGGATTAATGAGAGAACCTATA
6217643 AAAGCTTGATCGATTGCTTGCTACATTTGACAGCAACCAAACCTG
131 AAAGCTTGATCGATTGCTTGCTACATTTGACAGCAACCAAACCTG
6217688 ATAAATGTTT
Statistics
Matches: 173, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
184 173 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (184 bp):
ATTTTTGTTGTTCAAGAAAAGTACATAAGGGAAGTGATAGAGAATTGCAAGGCTGTGAGTACATT
TACGGTTCAATGTGAGAAACTTTACAAGGATGACGGCTCAAAATGGATTAATGAGAGAACCTATA
AAAGCTTGATCGATTGCTTGCTACATTTGACAGCAACCAAACCTGTGATAGAGA
Found at i:6220373 original size:47 final size:45
Alignment explanation
Indices: 6220321--6220502 Score: 184
Period size: 46 Copynumber: 4.0 Consensus size: 45
6220311 TTTTCATTGT
* * *
6220321 AAAAATGCTTCTCTAAATGATGCATAAACTTTATAATTTGCAAATG
1 AAAAATGCTTCTCTTAATGAGGCATAAACTTTAAAATTT-CAAATG
* * *
6220367 AGAAAATGTTTCTCTTAAGGAGGCATAAACTTTAAAAATTCCAAATG
1 A-AAAATGCTTCTCTTAATGAGGCATAAACTTT-AAAATTTCAAATG
* * * * * * **
6220414 ATAAAGGCTTTTCCTAGTGAGGCATAAACTTTAAATTTTCAAACCA
1 AAAAATGCTTCTCTTAATGAGGCATAAACTTTAAAATTTCAAA-TG
* *
6220460 AAAAATGCTTCTCTTAACGAGGCATAAAGTTTAAAATTTCAAA
1 AAAAATGCTTCTCTTAATGAGGCATAAACTTTAAAATTTCAAA
6220503 CAATAAAATG
Statistics
Matches: 108, Mismatches: 25, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
45 9 0.08
46 60 0.56
47 34 0.31
48 5 0.05
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (45 bp):
AAAAATGCTTCTCTTAATGAGGCATAAACTTTAAAATTTCAAATG
Found at i:6221639 original size:22 final size:22
Alignment explanation
Indices: 6221621--6221663 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
6221611 AAATAATATG
6221621 TTTTATTTTGAAATATAATTAA
1 TTTTATTTTGAAATATAATTAA
6221643 TTTTATTTTGAAATATAATTA
1 TTTTATTTTGAAATATAATTA
6221664 TGAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTTATTTTGAAATATAATTAA
Found at i:6226554 original size:126 final size:126
Alignment explanation
Indices: 6226357--6226848 Score: 812
Period size: 126 Copynumber: 4.0 Consensus size: 126
6226347 GTATTGAGAG
** * *
6226357 TAGTGACAGGTGGTAGTAGGTAAGGTGAACAAATGTAAGGAGATGATGGACTTAGACCAAGTAGG
1 TAGTGACAACTGGTAGTAGGTAAGGTGAAC-AATGTAAGGAGATGATGGACTTACACTAAGTAGG
6226422 GTGAATAACAAGACTAAGAAAAGAATTAGAGAAGAGATAACTGCAGGGAGAAAGTTTTGCCA
65 GTGAATAACAAGACTAAGAAAAGAATTAGAGAAGAGATAACTGCAGGGAGAAAGTTTTGCCA
**
6226484 TAGTGACAGGTGGTAGTAGGTAAGGTGAACAATGTAAGGAGATGATGGACTTACACTAAGTAGGG
1 TAGTGACAACTGGTAGTAGGTAAGGTGAACAATGTAAGGAGATGATGGACTTACACTAAGTAGGG
*
6226549 TGAATAACAAGACTAAGAAAAGAACTAGAGAAGAGATAACTGCAGGGAGAAAGTTTTGCCA
66 TGAATAACAAGACTAAGAAAAGAATTAGAGAAGAGATAACTGCAGGGAGAAAGTTTTGCCA
*
6226610 TAGTGACAACTGGTAGTAGGTAAGGTGAACAATGTAAGGAGTTGATGGACTTACACTAAGTAGGG
1 TAGTGACAACTGGTAGTAGGTAAGGTGAACAATGTAAGGAGATGATGGACTTACACTAAGTAGGG
6226675 TGAATAACAAGACTAAGAAAAGAATTAGAGAAGAGATAACTGCAGGGAGAAAGTTTTGCCA
66 TGAATAACAAGACTAAGAAAAGAATTAGAGAAGAGATAACTGCAGGGAGAAAGTTTTGCCA
6226736 TAGTGACAACT-G--GTA-GT-AGGT----AA-G---GGAGATGATGGACTTACACTAAGTAGGG
1 TAGTGACAACTGGTAGTAGGTAAGGTGAACAATGTAAGGAGATGATGGACTTACACTAAGTAGGG
6226788 TGAATAACAAGACTAAGAAAAGAATTAGAGAAGAGATAACTGCAGGGAGAAAGTTTTGCCA
66 TGAATAACAAGACTAAGAAAAGAATTAGAGAAGAGATAACTGCAGGGAGAAAGTTTTGCCA
6226849 AATGCCAAAA
Statistics
Matches: 357, Mismatches: 8, Indels: 14
0.94 0.02 0.04
Matches are distributed among these distances:
113 88 0.25
116 1 0.00
117 2 0.01
121 4 0.01
122 2 0.01
123 3 0.01
125 1 0.00
126 226 0.63
127 30 0.08
ACGTcount: A:0.41, C:0.09, G:0.30, T:0.20
Consensus pattern (126 bp):
TAGTGACAACTGGTAGTAGGTAAGGTGAACAATGTAAGGAGATGATGGACTTACACTAAGTAGGG
TGAATAACAAGACTAAGAAAAGAATTAGAGAAGAGATAACTGCAGGGAGAAAGTTTTGCCA
Found at i:6227300 original size:16 final size:16
Alignment explanation
Indices: 6227281--6227315 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6227271 AAACATAAAC
*
6227281 TATTTTAAATAGTAAT
1 TATTTTAAACAGTAAT
*
6227297 TATTTTAAACATTAAT
1 TATTTTAAACAGTAAT
6227313 TAT
1 TAT
6227316 CTATACAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (16 bp):
TATTTTAAACAGTAAT
Found at i:6229331 original size:11 final size:12
Alignment explanation
Indices: 6229314--6229346 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
6229304 AGTTTCTTCT
6229314 TTTTTTTTTCCC
1 TTTTTTTTTCCC
6229326 TTTTTTTTTCCC
1 TTTTTTTTTCCC
6229338 TTTTTTTTT
1 TTTTTTTTT
6229347 TAAAAATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTTTTTCCC
Found at i:6240523 original size:4 final size:4
Alignment explanation
Indices: 6240514--6240557 Score: 65
Period size: 4 Copynumber: 11.5 Consensus size: 4
6240504 CAAACCAAGG
*
6240514 AAGA AAGA AAG- AA-A AAGA AAGA AAGA AAGA AAGA AAGA AGGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
6240558 AAAAAGGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
3 4 0.11
4 32 0.89
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:6241329 original size:109 final size:108
Alignment explanation
Indices: 6241121--6241704 Score: 523
Period size: 109 Copynumber: 5.4 Consensus size: 108
6241111 ATTTAATTAT
* * *
6241121 ATTACTTACA-AAGATTCGGGCACCAAGGGATTGGCCTCGAAATAAATCATTGTCTAGAGTCGTA
1 ATTAATTACATAAGATTCGGGCACCAAAGGATTGGCCTCGAAAT-AATCATTGTCTAGAGTCATA
* * * * *
6241185 AAGTGGCATACGAACGCTCTTTATATAAGAAAATTCATTTTTGC
65 AAGTAGCGTACGAACGCCCTTTATATAGGATAATTCATTTTTGC
* * * *
6241229 ATTGATTACATAATATTCGGGCACCAAGGGATTGGCC-CTAAAACTAATCATTGTCTAGAGTCAT
1 ATTAATTACATAAGATTCGGGCACCAAAGGATTGGCCTC-GAAA-TAATCATTGTCTAGAGTCAT
* *
6241293 AAAGTAGTGTACGAACGCCTTTTATATAGGATAATTCATTTTT--
64 AAAGTAGCGTACGAACGCCCTTTATATAGGATAATTCATTTTTGC
** * ** * * * * *
6241336 -TT--GCAC-T-A-ATTCGGGCACAAAAAAATTGGCCTCGAAATAGGTTATCGTTTAGAGTTATA
1 ATTAATTACATAAGATTCGGGCACCAAAGGATTGGCCTCGAAATA-ATCATTGTCTAGAGTCATA
*
6241395 AAGTAGCGTATGAACGCCCTTTATATAGGATAATTCATTTTTTTGC
65 AAGTAGCGTACGAACGCCCTTTATATAGGATAATTCA--TTTTTGC
* * * * *
6241441 ATTAATTACA-AAAATTCGGGCACTAAAAGATTGACCTCGAAATAAGTCATTGCCTAGAGTCATA
1 ATTAATTACATAAGATTCGGGCACCAAAGGATTGGCCTCGAAATAA-TCATTGTCTAGAGTCATA
* * * *
6241505 AAGTGGTGTACAAACGCCCTTTATATAGGATAATTAATTTTTTGC
65 AAGTAGCGTACGAACGCCCTTTATATAGGATAATTCA-TTTTTGC
* * * * *
6241550 ATTAATTACAT-AGATTCAGGTACCAAAGGATTAGCTTCGAAATAGGTCATTGTCTAGAGTCATA
1 ATTAATTACATAAGATTCGGGCACCAAAGGATTGGCCTCGAAATA-ATCATTGTCTAGAGTCATA
* ** *
6241614 AAGT-GACATACGAATACCCTTTATATAAGATAATTCATTTTT-C
65 AAGTAG-CGTACGAACGCCCTTTATATAGGATAATTCATTTTTGC
* * * *
6241657 ATATAAATTACATAATACTCGGGTACCAAGGGATTGGTCC-CGAAATAA
1 AT-T-AATTACATAAGATTCGGGCACCAAAGGATTGG-CCTCGAAATAA
6241705 ATCTCTCCAA
Statistics
Matches: 386, Mismatches: 67, Indels: 45
0.78 0.13 0.09
Matches are distributed among these distances:
100 2 0.01
101 70 0.18
102 2 0.01
103 6 0.02
104 2 0.01
106 4 0.01
107 3 0.01
108 18 0.05
109 179 0.46
110 99 0.26
111 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (108 bp):
ATTAATTACATAAGATTCGGGCACCAAAGGATTGGCCTCGAAATAATCATTGTCTAGAGTCATAA
AGTAGCGTACGAACGCCCTTTATATAGGATAATTCATTTTTGC
Found at i:6241547 original size:211 final size:209
Alignment explanation
Indices: 6241150--6241685 Score: 515
Period size: 219 Copynumber: 2.5 Consensus size: 209
6241140 GCACCAAGGG
* * * *
6241150 ATTGGCCTCGAAATAAATCATTGTCTAGAGTCGTAAAGTGGCATACGAACGCTCTTTATATAAGA
1 ATTGGCCTCGAAATAAATCATCGTCTAGAGTCATAAAGTAGCATACGAACGCCCTTTATATAAGA
* * ** *
6241215 AAATTCATTTTTGCATTGATTACATAATATTCGGGCACCAAGGGATTGGCCCTAAAACTAATCAT
66 AAATTCATTTTTGCATTAATTACATAAAATTCGGGCACCAAAAGATTGACCCTAAAACTAATCAT
* * * *
6241280 TGTCTAGAGTCATAAAGTAGTGTACGAACGCCTTTTATATAGGATAATTCATTTTTTTGCACTAA
131 TGCCTAGAGTCATAAAGTAGTGTACAAACGCCCTTTATATAGGATAATT-AATTTTTTGCACTAA
6241345 TTCGGGCACAAAAAA
195 TTCGGGCACAAAAAA
** * * * * * *
6241360 ATTGGCCTCGAAATAGGTTATCGTTTAGAGTTATAAAGTAGCGTATGAACGCCCTTTATATAGGA
1 ATTGGCCTCGAAATAAATCATCGTCTAGAGTCATAAAGTAGCATACGAACGCCCTTTATATAAGA
* * *
6241425 TAATTCATTTTTTTGCATTAATTACA-AAAATTCGGGCACTAAAAGATTGA-CCTCGAAA-TAAG
66 AAATTCA--TTTTTGCATTAATTACATAAAATTCGGGCACCAAAAGATTGACCCT-AAAACTAA-
*
6241487 TCATTGCCTAGAGTCATAAAGTGGTGTACAAACGCCCTTTATATAGGATAATTAATTTTTTGCAT
127 TCATTGCCTAGAGTCATAAAGTAGTGTACAAACGCCCTTTATATAGGATAATTAATTTTTTGC--
* * * **
6241552 TAATTACATAGATTCAGGTACCAAAGG
190 -----AC-TA-ATTCGGGCACAAAAAA
* * ** * **
6241579 ATTAGCTTCGAAATAGGTCATTGTCTAGAGTCATAAAGT-GACATACGAATACCCTTTATATAAG
1 ATTGGCCTCGAAATAAATCATCGTCTAGAGTCATAAAGTAG-CATACGAACGCCCTTTATATAAG
* * * *
6241643 ATAATTCATTTTT-CATATAAATTACATAATACTCGGGTACCAA
65 AAAATTCATTTTTGCAT-T-AATTACATAAAATTCGGGCACCAA
6241686 GGGATTGGTC
Statistics
Matches: 264, Mismatches: 45, Indels: 25
0.79 0.13 0.07
Matches are distributed among these distances:
210 74 0.28
211 71 0.27
212 16 0.06
216 3 0.01
217 8 0.03
218 10 0.04
219 82 0.31
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (209 bp):
ATTGGCCTCGAAATAAATCATCGTCTAGAGTCATAAAGTAGCATACGAACGCCCTTTATATAAGA
AAATTCATTTTTGCATTAATTACATAAAATTCGGGCACCAAAAGATTGACCCTAAAACTAATCAT
TGCCTAGAGTCATAAAGTAGTGTACAAACGCCCTTTATATAGGATAATTAATTTTTTGCACTAAT
TCGGGCACAAAAAA
Found at i:6243166 original size:21 final size:21
Alignment explanation
Indices: 6243136--6243211 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 21
6243126 TTTTACAATT
*
6243136 TGTATTGATACAAATAGTAAA
1 TGTATCGATACAAATAGTAAA
* * *
6243157 TGTATCGATATATA-AGTGAA
1 TGTATCGATACAAATAGTAAA
* *
6243177 TGTATAGATAC--ATACCTAAAA
1 TGTATCGATACAAATA-GT-AAA
6243198 TGTATCGATACAAA
1 TGTATCGATACAAA
6243212 ACCACTTTGC
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 15 0.37
21 23 0.56
23 1 0.02
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (21 bp):
TGTATCGATACAAATAGTAAA
Found at i:6243302 original size:20 final size:20
Alignment explanation
Indices: 6243277--6243314 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6243267 CATACTCACA
6243277 ATTGTATCGATACATTATTC
1 ATTGTATCGATACATTATTC
6243297 ATTGTATCGATACATTAT
1 ATTGTATCGATACATTAT
6243315 GGGTTTCGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (20 bp):
ATTGTATCGATACATTATTC
Found at i:6245688 original size:503 final size:503
Alignment explanation
Indices: 6244741--6245741 Score: 1867
Period size: 503 Copynumber: 2.0 Consensus size: 503
6244731 AGTTTCGGAT
* *
6244741 AGTCACCACGAAATGACCATTAACTTGGAGTCGCTATCGATCATTTTGGGCTAGGCATGATCGGA
1 AGTCACCACGAAATGACCATGAACTTGGAGTCACTATCGATCATTTTGGGCTAGGCATGATCGGA
* *
6244806 TGCCTATTGAAACCTATATTTCGAGTCACAAAACATGAAAAAATGATCCCACGATCTACGTAATT
66 TGCCTATTGAAACCTATATTTCGAGTCACAAAACACGAAAAAACGATCCCACGATCTACGTAATT
* * *
6244871 TCGAGATTTGTTGTTTAGGTTTAGGAGTTGGTTATGCGCAGGGAAAGATTAGCACCCCCACAATA
131 TCGAGATTCGTTGTTTAGGTTCAAGAGTTGGTTATGCGCAGGGAAAGATTAGCACCCCCACAATA
* *
6244936 CTCGAAATCAGTACCTTCTAACTATGTCTCATTTAAATCTTGGTTTTCTCGATTTCATTCTTGTT
196 CTCGAAATCAGTACCTTCTAACTATGTCTCATTTAAATCTTGGTTTCCTCGATTTCATCCTTGTT
*
6245001 ATTATTTAAATATAATTCTCTCTAATGTATGGAGTTTTATAGAAAACGTGCATCCAAGCTTAGTA
261 ATTATTTAAATATAATTCTCTCTAATGTATAGAGTTTTATAGAAAACGTGCATCCAAGCTTAGTA
*
6245066 AGAAAACTTATATCACTTATGTGCTTCGAAGAAATAAGGAACATCGAAATTTTTATAGAAAAGAT
326 AGAAAACTTATATCACTTATGTGCTTCGAAGAAATAAGGAACACCGAAATTTTTATAGAAAAGAT
6245131 TTTTGGATTGGGTTTAGAAAAATCAAATATTTCGTGCCAAGCATTGTAGAGATACCGACACAGAA
391 TTTTGGATTGGGTTTAGAAAAATCAAATATTTCGTGCCAAGCATTGTAGAGATACCGACACAGAA
6245196 TATCATTTTGTGATTTTCAAAATAGGTTTTTTTAAAGCATGAACTTGG
456 TATCATTTTGTGATTTTCAAAATAGGTTTTTTTAAAGCATGAACTTGG
*
6245244 AGTCACCACGAAATGACCATGAACTTGGAGTCACTATCGATCATTTTGGGCTAGGCATGCTCGGA
1 AGTCACCACGAAATGACCATGAACTTGGAGTCACTATCGATCATTTTGGGCTAGGCATGATCGGA
* *
6245309 TGCCTATTGAAACCTATATTTCGAGTCACAAAACACGAAAAAGCGATCCCACGATCTATGTAATT
66 TGCCTATTGAAACCTATATTTCGAGTCACAAAACACGAAAAAACGATCCCACGATCTACGTAATT
*
6245374 TCGAGATTCGTTGTTTAGGTTCAAGAGTTGGTTATGCGTAGGGAAAGATTAGCACCCCCACAATA
131 TCGAGATTCGTTGTTTAGGTTCAAGAGTTGGTTATGCGCAGGGAAAGATTAGCACCCCCACAATA
6245439 CTCGAAATCAGTACCTTCTAACTATGTCTCATTTAAATCTTGGTTTCCTCGATTTCATCCTTGTT
196 CTCGAAATCAGTACCTTCTAACTATGTCTCATTTAAATCTTGGTTTCCTCGATTTCATCCTTGTT
6245504 ATTATTTAAATATAATTCTCTCTAATGTATAGAGTTTTATAGAAAACGTGCATCCAAGCTTAGTA
261 ATTATTTAAATATAATTCTCTCTAATGTATAGAGTTTTATAGAAAACGTGCATCCAAGCTTAGTA
6245569 AGAAAACTTATATCACTTATGTGCTTCGAAGAAATAAGGAACACCGAAATTTTTATAGAAAAGAT
326 AGAAAACTTATATCACTTATGTGCTTCGAAGAAATAAGGAACACCGAAATTTTTATAGAAAAGAT
6245634 TTTTGGATTGGGTTTAGAAAAATCAAATATTTCGTGCCAAGCATTGTAGAGATACCGACACAGAA
391 TTTTGGATTGGGTTTAGAAAAATCAAATATTTCGTGCCAAGCATTGTAGAGATACCGACACAGAA
6245699 TATCATTTTGTGATTTTCAAAATAGGTTTTTTTAAAGCATGAA
456 TATCATTTTGTGATTTTCAAAATAGGTTTTTTTAAAGCATGAA
6245742 TGCATAAAGT
Statistics
Matches: 483, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
503 483 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (503 bp):
AGTCACCACGAAATGACCATGAACTTGGAGTCACTATCGATCATTTTGGGCTAGGCATGATCGGA
TGCCTATTGAAACCTATATTTCGAGTCACAAAACACGAAAAAACGATCCCACGATCTACGTAATT
TCGAGATTCGTTGTTTAGGTTCAAGAGTTGGTTATGCGCAGGGAAAGATTAGCACCCCCACAATA
CTCGAAATCAGTACCTTCTAACTATGTCTCATTTAAATCTTGGTTTCCTCGATTTCATCCTTGTT
ATTATTTAAATATAATTCTCTCTAATGTATAGAGTTTTATAGAAAACGTGCATCCAAGCTTAGTA
AGAAAACTTATATCACTTATGTGCTTCGAAGAAATAAGGAACACCGAAATTTTTATAGAAAAGAT
TTTTGGATTGGGTTTAGAAAAATCAAATATTTCGTGCCAAGCATTGTAGAGATACCGACACAGAA
TATCATTTTGTGATTTTCAAAATAGGTTTTTTTAAAGCATGAACTTGG
Found at i:6246364 original size:52 final size:52
Alignment explanation
Indices: 6246220--6246373 Score: 197
Period size: 52 Copynumber: 3.0 Consensus size: 52
6246210 AAAAATTATA
* * * *
6246220 GGGTTAGAGTATCCCCGATAGTGAAAAATTCTATGTTTTTGGAAGTTAAAACT
1 GGGTTAGAGTATCCCCGATAGTGAAAAATTCAATATTTTAGGAAG-TAAAAAT
*
6246273 GGGTTAGAGTATCCCCGATGGTGAAAAATTCAATA-TTTAGGAAGTAAAAAT
1 GGGTTAGAGTATCCCCGATAGTGAAAAATTCAATATTTTAGGAAGTAAAAAT
* * *
6246324 GGGGTTAGAGTATCCCCTATAGTGAAAAA-TCGATATTTTA-GAAATAAAAA
1 -GGGTTAGAGTATCCCCGATAGTGAAAAATTCAATATTTTAGGAAGTAAAAA
6246374 AAACGAGGTT
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
51 20 0.22
52 38 0.42
53 32 0.36
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (52 bp):
GGGTTAGAGTATCCCCGATAGTGAAAAATTCAATATTTTAGGAAGTAAAAAT
Found at i:6246496 original size:79 final size:80
Alignment explanation
Indices: 6246325--6246512 Score: 186
Period size: 79 Copynumber: 2.3 Consensus size: 80
6246315 AGTAAAAATG
* * * * * *
6246325 GGGTTAGAGTATCCCCTATAGTGAAAAATCGATATTTTAGAAATAAAAAAAACGAGGTTCGAGTA
1 GGGTTAGAGTATCCTCAATGGTGAAAAATCGAGATTTTAGAAAT--AAAAAACAAGGTTAGAGTA
*
6246390 TCCCTTTAGAAATAATG
64 TCCCTTTAGAAATAATA
* * * *
6246407 GGGTTGGAGTATCCTCGATGGTGAAAAATTGAGATTTTA-AAAGT-AAAAACAAGGTTATAGTAT
1 GGGTTAGAGTATCCTCAATGGTGAAAAATCGAGATTTTAGAAA-TAAAAAACAAGGTTAGAGTAT
* *
6246470 -TCTTTCAGAAATGATA
65 CCCTTT-AGAAATAATA
6246486 GGGTTAGAGTATCCAT-AATGGTGAAAA
1 GGGTTAGAGTATCC-TCAATGGTGAAAA
6246513 TTTTGATGTT
Statistics
Matches: 89, Mismatches: 14, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
78 4 0.04
79 47 0.53
80 1 0.01
81 3 0.03
82 34 0.38
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (80 bp):
GGGTTAGAGTATCCTCAATGGTGAAAAATCGAGATTTTAGAAATAAAAAACAAGGTTAGAGTATC
CCTTTAGAAATAATA
Found at i:6248958 original size:51 final size:52
Alignment explanation
Indices: 6248836--6248974 Score: 172
Period size: 51 Copynumber: 2.7 Consensus size: 52
6248826 AATAGCCTGC
* * *
6248836 ATGTATCGATACATTGAAGAATATATCGATACATTTAGGCCAAAAACCCAAA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTAGGCCAAAAACCCAAA
* * ** * *
6248888 ATGTATCGATATAATGAAAAATGTATCGATATATTTAGG-TTAAAACCGAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTAGGCCAAAAACCCAAA
* *
6248939 ATGTATCGATACAAAGAAAAATGTTTCGATACATTT
1 ATGTATCGATACAATGAAAAATGTATCGATACATTT
6248975 CCTTTCCAGA
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
51 40 0.54
52 34 0.46
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.29
Consensus pattern (52 bp):
ATGTATCGATACAATGAAAAATGTATCGATACATTTAGGCCAAAAACCCAAA
Found at i:6250391 original size:21 final size:22
Alignment explanation
Indices: 6250358--6250404 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
6250348 ATACGAAATA
6250358 CATATATGTATATGAAGGTTAT
1 CATATATGTATATGAAGGTTAT
* *
6250380 CATATA-GTATATGTAGGTTGT
1 CATATATGTATATGAAGGTTAT
6250401 CATA
1 CATA
6250405 CTGAGATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.40
Consensus pattern (22 bp):
CATATATGTATATGAAGGTTAT
Found at i:6252955 original size:19 final size:19
Alignment explanation
Indices: 6252931--6253062 Score: 129
Period size: 19 Copynumber: 7.9 Consensus size: 19
6252921 AATTCAACAA
6252931 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
6252950 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
6252965 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
6252982 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
6252997 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
6253014 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
6253029 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
6253046 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
6253063 TTAGCTACTG
Statistics
Matches: 95, Mismatches: 0, Indels: 36
0.73 0.00 0.27
Matches are distributed among these distances:
13 33 0.35
15 6 0.06
17 6 0.06
19 50 0.53
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:6252970 original size:13 final size:13
Alignment explanation
Indices: 6252952--6253040 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
6252942 ACATAAGTTT
6252952 TGTATCGATACAA
1 TGTATCGATACAA
6252965 TGTATCGATACATAA
1 TGTATCGATAC--AA
6252980 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
6252997 TGTATCGATACATAA
1 TGTATCGATAC--AA
6253012 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
6253029 TGTATCGATACA
1 TGTATCGATACA
6253041 TAAGTATTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 34 0.53
15 4 0.06
17 4 0.06
19 22 0.34
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:6252974 original size:32 final size:32
Alignment explanation
Indices: 6252933--6253059 Score: 245
Period size: 32 Copynumber: 4.0 Consensus size: 32
6252923 TTCAACAATT
6252933 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
6252965 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
6252997 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
*
6253029 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTTTTGTATCGATACA
6253060 TAATTAGCTA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 94 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTATCGATACAA
Found at i:6253120 original size:13 final size:13
Alignment explanation
Indices: 6253102--6253127 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6253092 CATTTTTCTG
6253102 TGTATCGATACAT
1 TGTATCGATACAT
6253115 TGTATCGATACAT
1 TGTATCGATACAT
6253128 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6253124 original size:33 final size:33
Alignment explanation
Indices: 6253082--6253148 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
6253072 GCCAAGGAAA
***
6253082 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
6253115 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
6253148 T
1 T
6253149 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:6255653 original size:28 final size:28
Alignment explanation
Indices: 6255593--6255664 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
6255583 TCACAATCGA
* * **
6255593 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
* *
6255621 CGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
6255649 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
6255665 GCTTTATTCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:6267332 original size:21 final size:21
Alignment explanation
Indices: 6267308--6267364 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
6267298 ATTTTATCCA
6267308 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
6267329 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
6267350 AATGTATCGATACAT
1 AATGTATCGATACAT
6267365 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:6267545 original size:13 final size:13
Alignment explanation
Indices: 6267527--6267552 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6267517 CATTTTTCTG
6267527 TGTATCGATACAT
1 TGTATCGATACAT
6267540 TGTATCGATACAT
1 TGTATCGATACAT
6267553 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6267549 original size:33 final size:33
Alignment explanation
Indices: 6267507--6267573 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
6267497 GCCAAGGAAA
***
6267507 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
6267540 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
6267573 T
1 T
6267574 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:6270049 original size:28 final size:28
Alignment explanation
Indices: 6270013--6270089 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
6270003 ATTTTTCACA
* * *
6270013 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
6270041 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
6270069 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
6270090 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:6270223 original size:78 final size:78
Alignment explanation
Indices: 6270043--6270246 Score: 221
Period size: 78 Copynumber: 2.6 Consensus size: 78
6270033 GTTATTTCAT
* * *
6270043 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC-GATTTATTCCCAAAATAT
* * *
6270108 TGATTTCTCATAAT
65 CGATTTCTCACAAC
* * * * ** *
6270122 TGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTATTCCCAAAAT-AT
6270186 CGATTTCTCACAAC
65 CGATTTCTCACAAC
* * * * *
6270200 CGGGGATACTCGAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
6270247 TTATTATCTC
Statistics
Matches: 103, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
77 3 0.03
78 59 0.57
79 41 0.40
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTATTCCCAAAATATC
GATTTCTCACAAC
Found at i:6272103 original size:17 final size:16
Alignment explanation
Indices: 6272080--6272128 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
6272070 AAAAGTAATT
6272080 TATATTATTAATTATA
1 TATATTATTAATTATA
6272096 TGATATTAATT--TTAT-
1 T-ATATT-ATTAATTATA
*
6272111 TATTTTATTAATTATA
1 TATATTATTAATTATA
6272127 TA
1 TA
6272129 AGATACAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
13 3 0.11
14 4 0.15
15 5 0.19
16 7 0.26
17 5 0.19
18 3 0.11
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TATATTATTAATTATA
Found at i:6272206 original size:21 final size:21
Alignment explanation
Indices: 6272180--6272227 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
6272170 AATAGTTATT
*
6272180 ATTATT-TTTTAGTATTTTTAA
1 ATTATTATTATAG-ATTTTTAA
*
6272201 ATTATTATTATAGATTTTT-T
1 ATTATTATTATAGATTTTTAA
6272221 ATTATTA
1 ATTATTA
6272228 AATTTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.29
21 12 0.50
22 5 0.21
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (21 bp):
ATTATTATTATAGATTTTTAA
Found at i:6272705 original size:12 final size:12
Alignment explanation
Indices: 6272688--6272713 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6272678 TTTAAAATAT
6272688 TATAAATTTTTA
1 TATAAATTTTTA
6272700 TATAAATTTTTA
1 TATAAATTTTTA
6272712 TA
1 TA
6272714 CGTTAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TATAAATTTTTA
Found at i:6273347 original size:15 final size:17
Alignment explanation
Indices: 6273318--6273349 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
6273308 TAAATTTAAA
6273318 ATTTTATTTTATTAATT
1 ATTTTATTTTATTAATT
6273335 ATTTT-TTTT-TTAATT
1 ATTTTATTTTATTAATT
6273350 TTTAAACGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
ATTTTATTTTATTAATT
Found at i:6273579 original size:21 final size:21
Alignment explanation
Indices: 6273546--6273589 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
6273536 AAGTTAAAAA
*
6273546 TTTATTTTATTAATTATTTTAT
1 TTTAATTTATTAATTA-TTTAT
6273568 TTTAATTT-TTAATTATTTAT
1 TTTAATTTATTAATTATTTAT
6273588 TT
1 TT
6273590 AAAGGGATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
21 7 0.33
22 7 0.33
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTAATTTATTAATTATTTAT
Found at i:6273714 original size:21 final size:22
Alignment explanation
Indices: 6273671--6273716 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
6273661 AAAAAATAAA
*
6273671 TTTATTTTAAAAATTATTATAT
1 TTTATTTTAAAAATTAATATAT
* *
6273693 TTTATTTTTAAAA-TAATGTAT
1 TTTATTTTAAAAATTAATATAT
6273714 TTT
1 TTT
6273717 GAATGATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TTTATTTTAAAAATTAATATAT
Found at i:6274988 original size:21 final size:22
Alignment explanation
Indices: 6274963--6275005 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
6274953 TAAAGCTCAT
6274963 GATATAATTTAGTTTTT-ATAA
1 GATATAATTTAGTTTTTGATAA
*
6274984 GATATAATTTATTTTTTGATAA
1 GATATAATTTAGTTTTTGATAA
6275006 ATTATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (22 bp):
GATATAATTTAGTTTTTGATAA
Found at i:6279667 original size:2 final size:2
Alignment explanation
Indices: 6279660--6279692 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6279650 CACGGATCCT
6279660 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6279693 GGTCTTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6279918 original size:31 final size:29
Alignment explanation
Indices: 6279883--6280023 Score: 105
Period size: 29 Copynumber: 4.8 Consensus size: 29
6279873 AAAAAATAAC
* *
6279883 ATAATATGAATATAAATATTTTAAAATTTAT
1 ATAATATAAAT-TAAA-ATATTAAAATTTAT
6279914 ATAATATAAATTAAAATATTAAAATTTAT
1 ATAATATAAATTAAAATATTAAAATTTAT
* *
6279943 GTAA-AT--A-TAAAATATCAAAATTTAT
1 ATAATATAAATTAAAATATTAAAATTTAT
*
6279968 ATAAATATAAAATATAATAATATATAATATTT-T
1 AT-AATAT-AAAT-TAA-AATAT-TAAAATTTAT
* *
6280001 A-AATATAATTATAAAATAATAAA
1 ATAATATAAAT-TAAAATATTAAA
6280024 TATGCAAATA
Statistics
Matches: 91, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
25 18 0.20
26 3 0.03
27 2 0.02
28 5 0.05
29 20 0.22
30 12 0.13
31 15 0.16
32 3 0.03
33 7 0.08
34 6 0.07
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (29 bp):
ATAATATAAATTAAAATATTAAAATTTAT
Found at i:6279919 original size:25 final size:26
Alignment explanation
Indices: 6279886--6279983 Score: 101
Period size: 25 Copynumber: 3.7 Consensus size: 26
6279876 AAATAACATA
* *
6279886 ATATGAATATAAATATTTTAAAATTT
1 ATATAAATATAAATATATTAAAATTT
6279912 ATAT-AATATAAATTAAAATATTAAAATTT
1 ATATAAATATAAA-T---ATATTAAAATTT
* *
6279941 ATGTAAATATAAA-ATATCAAAATTT
1 ATATAAATATAAATATATTAAAATTT
6279966 ATATAAATATAAAATATA
1 ATATAAATAT-AAATATA
6279984 ATAATATATA
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
25 28 0.46
26 8 0.13
27 3 0.05
29 14 0.23
30 8 0.13
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (26 bp):
ATATAAATATAAATATATTAAAATTT
Found at i:6279957 original size:7 final size:7
Alignment explanation
Indices: 6279945--6279997 Score: 52
Period size: 7 Copynumber: 6.9 Consensus size: 7
6279935 AAATTTATGT
6279945 AAATATA
1 AAATATA
6279952 AAATATCA
1 AAATAT-A
6279960 AAATTTATA
1 AAA--TATA
6279969 TAAATATA
1 -AAATATA
6279977 AAATATA
1 AAATATA
6279984 ATAATATA
1 A-AATATA
*
6279992 TAATAT
1 AAATAT
6279998 TTTAAATATA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
7 19 0.47
8 14 0.35
9 1 0.03
10 6 0.15
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (7 bp):
AAATATA
Found at i:6279968 original size:17 final size:17
Alignment explanation
Indices: 6279947--6279999 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
6279937 ATTTATGTAA
6279947 ATATAAAATATCAAAATTT
1 ATAT-AAATAT-AAAATTT
*
6279966 ATATAAATATAAAATAT
1 ATATAAATATAAAATTT
*
6279983 A-ATAATATATAATATTT
1 ATATAA-ATATAAAATTT
6280000 TAAATATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 4 0.13
17 16 0.53
18 6 0.20
19 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAAATATAAAATTT
Found at i:6279989 original size:15 final size:15
Alignment explanation
Indices: 6279945--6279997 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
6279935 AAATTTATGT
6279945 AAATATAA-AATATCA
1 AAATATAATAATAT-A
*
6279960 AAATTTATATAAATATA
1 AAATATA-AT-AATATA
6279977 AAATATAATAATATA
1 AAATATAATAATATA
*
6279992 TAATAT
1 AAATAT
6279998 TTTAAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
15 17 0.53
16 3 0.09
17 7 0.22
18 5 0.16
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATATAATAATATA
Found at i:6279993 original size:25 final size:24
Alignment explanation
Indices: 6279912--6279993 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 24
6279902 TTTAAAATTT
6279912 ATATAATATAAAT-TAAAATATTAAA
1 ATAT-ATATAAATATAAAATA-TAAA
* *
6279937 ATTTATGTAAATATAAAATATCAAA
1 ATATATATAAATATAAAATAT-AAA
*
6279962 ATTTATATAAATATAAAATATAATA
1 ATATATATAAATATAAAATATAA-A
6279987 ATATATA
1 ATATATA
6279994 ATATTTTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.20
25 40 0.80
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (24 bp):
ATATATATAAATATAAAATATAAA
Found at i:6281598 original size:11 final size:10
Alignment explanation
Indices: 6281567--6281619 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
6281557 AAATATATTT
*
6281567 ATAAATTATT
1 ATAAATTATA
*
6281577 ATTAATTATA
1 ATAAATTATA
6281587 ATAAACTTATA
1 ATAAA-TTATA
*
6281598 ATAAGATTTAAA
1 ATAA-A-TTATA
6281610 ATAAATTATA
1 ATAAATTATA
6281620 CGTGTATAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 16 0.46
11 10 0.29
12 9 0.26
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (10 bp):
ATAAATTATA
Found at i:6282144 original size:7 final size:7
Alignment explanation
Indices: 6282132--6282165 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
6282122 TATTTTTAAA
6282132 TATTATT
1 TATTATT
6282139 TATTATT
1 TATTATT
6282146 TATTATT
1 TATTATT
6282153 TATT-TT
1 TATTATT
6282159 TA-TATT
1 TATTATT
6282165 T
1 T
6282166 TAATTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 1 0.04
6 7 0.27
7 18 0.69
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TATTATT
Found at i:6282161 original size:17 final size:17
Alignment explanation
Indices: 6282118--6282163 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 17
6282108 ATGATGTCTA
*
6282118 TATTTATTTTTAAATAT
1 TATTTATTTTTATATAT
*
6282135 TATTTA---TTATTTAT
1 TATTTATTTTTATATAT
6282149 TATTTATTTTTATAT
1 TATTTATTTTTATAT
6282164 TTTAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 6
0.72 0.09 0.19
Matches are distributed among these distances:
14 12 0.52
17 11 0.48
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTTATTTTTATATAT
Found at i:6283127 original size:20 final size:21
Alignment explanation
Indices: 6283102--6283157 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 21
6283092 CAAATATATC
*
6283102 AATATATATTATAT-TCAAAA
1 AATATATATAATATGTCAAAA
6283122 AATATATATAATATGTCAAAA
1 AATATATATAATATGTCAAAA
*
6283143 TTTATATATATAATA
1 --AATATATATAATA
6283158 CTTTAAATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 13 0.42
21 6 0.19
23 12 0.39
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (21 bp):
AATATATATAATATGTCAAAA
Found at i:6284450 original size:21 final size:21
Alignment explanation
Indices: 6284421--6284460 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6284411 TAAAACTGAT
6284421 AAAAAAATAAATC-ATAAAGA
1 AAAAAAATAAATCTATAAAGA
*
6284441 AAAAATAATATATCTATAAA
1 AAAAA-AATAAATCTATAAA
6284461 ATTATATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 7 0.41
22 5 0.29
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (21 bp):
AAAAAAATAAATCTATAAAGA
Found at i:6285060 original size:2 final size:2
Alignment explanation
Indices: 6285053--6285078 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6285043 ACAGAAAAAC
6285053 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6285079 GTATGTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6285427 original size:3 final size:3
Alignment explanation
Indices: 6285419--6285456 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6285409 CACATGCAAC
6285419 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6285457 ATGGTTGCGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6290273 original size:16 final size:17
Alignment explanation
Indices: 6290249--6290293 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
6290239 TACATTTATT
6290249 ATTTATTTAATA-TTAAA
1 ATTT-TTTAATATTTAAA
6290266 ATTTTTTAATATTTAAA
1 ATTTTTTAATATTTAAA
6290283 ATTATTTTAAT
1 ATT-TTTTAAT
6290294 TCAAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.27
17 12 0.46
18 7 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTTTTAATATTTAAA
Found at i:6291035 original size:14 final size:13
Alignment explanation
Indices: 6291018--6291065 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
6291008 TATATATTCG
6291018 TATTATGTTTATAT
1 TATTAT-TTTATAT
6291032 TATT-TTTTATAT
1 TATTATTTTATAT
6291044 TA-TATTTTATA-
1 TATTATTTTATAT
*
6291055 TAATATTTTAT
1 TATTATTTTAT
6291066 TTTTATTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 3 0.09
12 24 0.75
13 1 0.03
14 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (13 bp):
TATTATTTTATAT
Found at i:6291042 original size:12 final size:12
Alignment explanation
Indices: 6291025--6291065 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
6291015 TCGTATTATG
*
6291025 TTTATATTATTT
1 TTTATATTATAT
6291037 TTTATATTATAT
1 TTTATATTATAT
*
6291049 TTTATATAATAT
1 TTTATATTATAT
6291061 TTTAT
1 TTTAT
6291066 TTTTATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTATATTATAT
Found at i:6291086 original size:30 final size:29
Alignment explanation
Indices: 6291028--6291088 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
6291018 TATTATGTTT
*
6291028 ATATTATTTTTTATATTATATTTTATATA
1 ATATTATTTTTTATATTATATTTGATATA
6291057 ATATT-TTATTTT-TATTATATGTATGATATA
1 ATATTATT-TTTTATATTATAT-T-TGATATA
6291087 AT
1 AT
6291089 TCTATTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 10 0.36
29 10 0.36
30 8 0.29
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (29 bp):
ATATTATTTTTTATATTATATTTGATATA
Found at i:6294808 original size:13 final size:15
Alignment explanation
Indices: 6294778--6294811 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
6294768 CAATAATTGA
6294778 AAATTTTATTATATT
1 AAATTTTATTATATT
6294793 AAATTTTA-TA-ATT
1 AAATTTTATTATATT
6294806 AAATTT
1 AAATTT
6294812 AAATAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 2 0.11
15 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
AAATTTTATTATATT
Found at i:6296691 original size:15 final size:14
Alignment explanation
Indices: 6296650--6296689 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
6296640 AAACGTAATT
6296650 TTATT-TTT-AAAA
1 TTATTATTTAAAAA
6296662 TTATTATTTAAAAA
1 TTATTATTTAAAAA
6296676 TT-TTAATTTAAAAA
1 TTATT-ATTTAAAAA
6296690 ATAAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.20
13 5 0.20
14 15 0.60
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATTATTTAAAAA
Found at i:6299278 original size:16 final size:16
Alignment explanation
Indices: 6299244--6299276 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6299234 TTATATTAAT
*
6299244 AATAAGTTTATGAGTA
1 AATAAATTTATGAGTA
6299260 AATAAATTTA-GAGTA
1 AATAAATTTATGAGTA
6299275 AA
1 AA
6299277 ATTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (16 bp):
AATAAATTTATGAGTA
Found at i:6299704 original size:22 final size:20
Alignment explanation
Indices: 6299648--6299715 Score: 72
Period size: 19 Copynumber: 3.4 Consensus size: 20
6299638 AATCATAAAA
6299648 ATAAATATAA-TATAA-ATAT
1 ATAAA-ATAATTATAATATAT
6299667 ATAAACAT-ATTATAATATAT
1 ATAAA-ATAATTATAATATAT
6299687 ATAAAATAATTTATTAATATAT
1 ATAAAATAA-TTA-TAATATAT
6299709 A-AAAATA
1 ATAAAATA
6299716 TATAAAAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
18 1 0.02
19 14 0.33
20 10 0.23
21 9 0.21
22 9 0.21
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAAATAATTATAATATAT
Found at i:6299729 original size:12 final size:10
Alignment explanation
Indices: 6299611--6299729 Score: 59
Period size: 10 Copynumber: 11.5 Consensus size: 10
6299601 TTGTGATATG
*
6299611 ATATAAAAAC
1 ATATAAAAAT
6299621 ATA-AAAAAT
1 ATATAAAAAT
6299630 A-ATTAAAAA-
1 ATA-TAAAAAT
6299639 ATCATAAAAAT
1 AT-ATAAAAAT
6299650 AAATATAATATAAAT
1 --ATAT-A-A-AAAT
*
6299665 ATATAAACAT
1 ATATAAAAAT
*
6299675 AT-T-ATAAT
1 ATATAAAAAT
6299683 ATATATAAAAT
1 ATATA-AAAAT
* **
6299694 AATTTATTAAT
1 -ATATAAAAAT
6299705 ATATAAAAAT
1 ATATAAAAAT
6299715 ATATAAAAAT
1 ATATAAAAAT
*
6299725 TTATA
1 ATATA
6299730 GTATTTAAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 28
0.67 0.10 0.23
Matches are distributed among these distances:
8 6 0.07
9 9 0.11
10 40 0.48
11 9 0.11
12 7 0.08
13 7 0.08
14 1 0.01
15 4 0.05
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.34
Consensus pattern (10 bp):
ATATAAAAAT
Found at i:6299821 original size:25 final size:25
Alignment explanation
Indices: 6299765--6299830 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
6299755 CAGACAAATA
*
6299765 TTTTTTTTTCATTTCTCCCTCATTTC
1 TTTTTTTTTC-TTTCTCCCCCATTTC
6299791 TATTTTTTTTCTTT-TCCTCCCATTTC
1 T-TTTTTTTTCTTTCTCC-CCCATTTC
*
6299817 TTTTTCTTTCTTTC
1 TTTTTTTTTCTTTC
6299831 CTTCTCCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 14 0.40
26 12 0.34
27 9 0.26
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.68
Consensus pattern (25 bp):
TTTTTTTTTCTTTCTCCCCCATTTC
Found at i:6300898 original size:24 final size:25
Alignment explanation
Indices: 6300871--6300918 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
6300861 AATTTTAAAA
6300871 TTTAAATAAT-ATTATAT-ATTATTT
1 TTTAAA-AATAATTATATAATTATTT
6300895 TTTAAAAATAATTATATAATTATT
1 TTTAAAAATAATTATATAATTATT
6300919 AAATTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 3 0.14
24 13 0.59
25 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TTTAAAAATAATTATATAATTATTT
Found at i:6300925 original size:26 final size:24
Alignment explanation
Indices: 6300872--6300927 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 24
6300862 ATTTTAAAAT
**
6300872 TTAAATAATATTATATATTATTTT
1 TTAAATAATATTATATATTATTAA
6300896 TTAAA-AATAATTATATAATTATTAAA
1 TTAAATAAT-ATTATAT-ATTATT-AA
6300922 TTAAAT
1 TTAAAT
6300928 TTTAGGTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 3 0.12
24 12 0.46
25 6 0.23
26 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TTAAATAATATTATATATTATTAA
Found at i:6301559 original size:2 final size:2
Alignment explanation
Indices: 6301554--6301594 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
6301544 TTTCTCTAGG
6301554 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6301595 AACACATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6301707 original size:20 final size:20
Alignment explanation
Indices: 6301682--6301720 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6301672 TTTATATTAT
6301682 ATTTATTTAAATTTATAAAA
1 ATTTATTTAAATTTATAAAA
* *
6301702 ATTTATTTATATTTGTAAA
1 ATTTATTTAAATTTATAAA
6301721 TAAGTAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
ATTTATTTAAATTTATAAAA
Found at i:6302177 original size:2 final size:2
Alignment explanation
Indices: 6302170--6302218 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
6302160 AACTATAACT
* * *
6302170 TA TA TA TA TG TA TA TA TA TA TA TA TA TA AA CA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6302212 TA TA TA T
1 TA TA TA T
6302219 GTTTTGTAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:6303614 original size:19 final size:20
Alignment explanation
Indices: 6303561--6303615 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 20
6303551 AACAGTAAAA
6303561 ATTTTTAAAGAT-TATTTTGT
1 ATTTTTAAA-ATATATTTTGT
*
6303581 -TTTTTAAATTA-ATTTT-T
1 ATTTTTAAAATATATTTTGT
6303598 ATTTTTAAAATATATTTT
1 ATTTTTAAAATATATTTT
6303616 AAAAATATAG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 1 0.03
18 16 0.53
19 13 0.43
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (20 bp):
ATTTTTAAAATATATTTTGT
Found at i:6303615 original size:18 final size:17
Alignment explanation
Indices: 6303561--6303616 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 17
6303551 AACAGTAAAA
6303561 ATTTTTAAAGATTATTTT
1 ATTTTTAAA-ATTATTTT
* *
6303579 GTTTTTTAAATTAATTTTT
1 ATTTTTAAAATT-A-TTTT
6303598 ATTTTTAAAATATATTTT
1 ATTTTTAAAAT-TATTTT
6303616 A
1 A
6303617 AAAATATAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 3 0.10
18 13 0.42
19 14 0.45
20 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (17 bp):
ATTTTTAAAATTATTTT
Found at i:6304121 original size:12 final size:12
Alignment explanation
Indices: 6304104--6304155 Score: 70
Period size: 12 Copynumber: 4.2 Consensus size: 12
6304094 TTGATAAAGA
6304104 AATATTAAAAAT
1 AATATTAAAAAT
6304116 AATATTAAAAAT
1 AATATTAAAAAT
*
6304128 AAT-TTATTTAAAT
1 AATATTA--AAAAT
6304141 AATATTAAAAAT
1 AATATTAAAAAT
6304153 AAT
1 AAT
6304156 TTTTTATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 3 0.09
12 22 0.63
13 7 0.20
14 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATTAAAAAT
Found at i:6304162 original size:28 final size:25
Alignment explanation
Indices: 6304112--6304169 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
6304102 GAAATATTAA
6304112 AAATAATATTAAAAATAATTTATTT
1 AAATAATATTAAAAATAATTTATTT
6304137 AAATAATATTAAAAATAATTT-TTT
1 AAATAATATTAAAAATAATTTATTT
*
6304161 -ATTAATATT
1 AAATAATATT
6304170 TATATATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 8 0.25
24 3 0.09
25 21 0.66
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AAATAATATTAAAAATAATTTATTT
Found at i:6304207 original size:22 final size:22
Alignment explanation
Indices: 6304115--6304207 Score: 71
Period size: 23 Copynumber: 4.0 Consensus size: 22
6304105 ATATTAAAAA
* *
6304115 TAATATTAAAAATAATTTATTTAAA
1 TAATATT-TAAATAA-TT-TTTAAT
* *
6304140 TAATATTAAAAATAATTTTTTAT
1 TAATATT-TAAATAATTTTTAAT
* *
6304163 TAATATTTATATATTTTTATAAT
1 TAATATTTAAATAATTTT-TAAT
6304186 TAA-ATTTAAATAAATTTTTAAT
1 TAATATTTAAAT-AATTTTTAAT
6304208 ATTTGCAGGA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
22 19 0.33
23 22 0.38
24 2 0.03
25 15 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATATTTAAATAATTTTTAAT
Found at i:6304521 original size:18 final size:18
Alignment explanation
Indices: 6304471--6304526 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 18
6304461 ATGTATTTTA
6304471 TTAAATATATTTATTAA-AT
1 TTAAATAT-TTTA-TAATAT
*
6304490 TTAATAAAATTTTATAATAT
1 TT-A-AATATTTTATAATAT
6304510 TTAAATATTTTATAATA
1 TTAAATATTTTATAATA
6304527 ATATTTCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
18 13 0.41
19 6 0.19
20 9 0.28
21 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTAAATATTTTATAATAT
Found at i:6304526 original size:10 final size:10
Alignment explanation
Indices: 6304464--6304526 Score: 51
Period size: 10 Copynumber: 6.2 Consensus size: 10
6304454 TTACTGCATG
6304464 TATTTTATTAAA
1 TATTTTA-T-AA
6304476 TATATTTATTAA
1 TAT-TTTA-TAA
*
6304488 -ATTTAATAA
1 TATTTTATAA
*
6304497 AATTTTATAA
1 TATTTTATAA
6304507 TA-TTTA-AA
1 TATTTTATAA
6304515 TATTTTATAA
1 TATTTTATAA
6304525 TA
1 TA
6304527 ATATTTCTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
8 4 0.09
9 11 0.25
10 16 0.36
11 2 0.05
12 5 0.11
13 6 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TATTTTATAA
Found at i:6304754 original size:15 final size:14
Alignment explanation
Indices: 6304736--6304783 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
6304726 GAGAACTTAA
6304736 TATATTCTTAATATT
1 TATATT-TTAATATT
*
6304751 TATATTATAATATT
1 TATATTTTAATATT
6304765 ATATATTTT-ATATT
1 -TATATTTTAATATT
*
6304779 GATAT
1 TATAT
6304784 GATATAAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 4 0.14
14 12 0.41
15 13 0.45
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (14 bp):
TATATTTTAATATT
Found at i:6304909 original size:17 final size:16
Alignment explanation
Indices: 6304887--6304926 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
6304877 TTTAATATAT
6304887 TTTTTAAATAAATTTTA
1 TTTTTAAATAAA-TTTA
**
6304904 TTTTTATTTAAATTTA
1 TTTTTAAATAAATTTA
6304920 TTTTTAA
1 TTTTTAA
6304927 TTTAATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTAAATAAATTTA
Found at i:6304919 original size:16 final size:18
Alignment explanation
Indices: 6304895--6304935 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
6304885 ATTTTTTAAA
6304895 TAAATTTTATTTTT-ATT
1 TAAATTTTATTTTTAATT
6304912 TAAA-TTTATTTTTAATT
1 TAAATTTTATTTTTAATT
6304929 T-AATTTT
1 TAAATTTT
6304936 TTAATTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TAAATTTTATTTTTAATT
Found at i:6304925 original size:12 final size:12
Alignment explanation
Indices: 6304914--6304949 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 12
6304904 TTTTTATTTA
6304914 AATTT-ATTTTT
1 AATTTAATTTTT
6304925 AATTTAATTTTTT
1 AATTTAA-TTTTT
6304938 AATTTAATTTTT
1 AATTTAATTTTT
6304950 TTAAACATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.22
12 6 0.26
13 12 0.52
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
AATTTAATTTTT
Found at i:6304929 original size:17 final size:17
Alignment explanation
Indices: 6304895--6304980 Score: 60
Period size: 16 Copynumber: 5.3 Consensus size: 17
6304885 ATTTTTTAAA
6304895 TAAATTTTATTTTT-ATT
1 TAAA-TTTATTTTTAATT
6304912 TAAATTTATTTTTAATT
1 TAAATTTATTTTTAATT
6304929 T-AA--T-TTTTTAATT
1 TAAATTTATTTTTAATT
* *
6304942 T-AATTT-TTTTAAACAT
1 TAAATTTATTTTTAA-TT
**
6304958 TAAATAAATTTTTAAATT
1 TAAATTTATTTTT-AATT
6304976 TAAAT
1 TAAAT
6304981 ATATAATCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
13 12 0.21
14 1 0.02
15 7 0.12
16 13 0.23
17 11 0.20
18 10 0.18
19 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (17 bp):
TAAATTTATTTTTAATT
Found at i:6304953 original size:14 final size:13
Alignment explanation
Indices: 6304920--6304950 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
6304910 TTTAAATTTA
6304920 TTTTTAATTTAAT
1 TTTTTAATTTAAT
6304933 TTTTTAATTTAAT
1 TTTTTAATTTAAT
6304946 TTTTT
1 TTTTT
6304951 TAAACATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTAATTTAAT
Found at i:6305320 original size:22 final size:21
Alignment explanation
Indices: 6305284--6305330 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
6305274 TATAATAATT
6305284 TTATTTTAAATTTAACTTAAA
1 TTATTTTAAATTTAACTTAAA
* * *
6305305 TTATTATTTAATTTAATTTTAA
1 TTATT-TTAAATTTAACTTAAA
6305327 TTAT
1 TTAT
6305331 AAACTATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTTTAAATTTAACTTAAA
Found at i:6305367 original size:19 final size:21
Alignment explanation
Indices: 6305319--6305371 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
6305309 TATTTAATTT
*
6305319 AATTTTAATTATAAACTATATA
1 AATTTTAA-TATAAACAATATA
*
6305341 AATATTAATATAAA-AATA-A
1 AATTTTAATATAAACAATATA
6305360 AATTTTAATATA
1 AATTTTAATATA
6305372 TTTTAAATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 6 0.21
22 7 0.25
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTTTAATATAAACAATATA
Found at i:6305617 original size:23 final size:25
Alignment explanation
Indices: 6305585--6305633 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 25
6305575 AAATATTATA
6305585 TATTTAAAT-AAATTTT-TATATTT
1 TATTTAAATAAAATTTTATATATTT
*
6305608 TATTTTAATAAAATTTTATATATTT
1 TATTTAAATAAAATTTTATATATTT
6305633 T
1 T
6305634 TATATTTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.35
24 7 0.30
25 8 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TATTTAAATAAAATTTTATATATTT
Found at i:6305659 original size:21 final size:20
Alignment explanation
Indices: 6305603--6305663 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
6305593 TAAATTTTTA
* *
6305603 TATTTTATTTTAATAAAATTT
1 TATTATATTTT-ATAATATTT
6305624 TA-TATATTTT-T-ATATTT
1 TATTATATTTTATAATATTT
6305641 CTATTATATTTTATAATATTT
1 -TATTATATTTTATAATATTT
6305662 TA
1 TA
6305664 CTTACTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
17 5 0.15
18 3 0.09
19 8 0.24
20 10 0.29
21 8 0.24
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTATATTTTATAATATTT
Found at i:6305673 original size:38 final size:39
Alignment explanation
Indices: 6305603--6305676 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 39
6305593 TAAATTTTTA
* *
6305603 TATTTTATTTTAATAAAATTTTATATATTTTTATATTTC
1 TATTATATTTTAATAAAATTTTATATACTTTTATATTTC
*
6305642 TATTATATTTT-ATAATATTTTACT-TACTTTTATAT
1 TATTATATTTTAATAAAATTTTA-TATACTTTTATAT
6305677 ATTATCAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 20 0.65
39 11 0.35
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (39 bp):
TATTATATTTTAATAAAATTTTATATACTTTTATATTTC
Found at i:6305816 original size:2 final size:2
Alignment explanation
Indices: 6305809--6305839 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6305799 TAAAGTTGGA
6305809 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6305840 AAAGTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6306111 original size:20 final size:19
Alignment explanation
Indices: 6306066--6306112 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
6306056 TTTCCTGATC
*
6306066 AGTTTAAAATAGTATTTTT
1 AGTTTAAAATAATATTTTT
**
6306085 AAATTAAAATAATATATTTT
1 AGTTTAAAATAATAT-TTTT
6306105 AGTTTAAA
1 AGTTTAAA
6306113 TTTAATTATA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (19 bp):
AGTTTAAAATAATATTTTT
Found at i:6306875 original size:26 final size:26
Alignment explanation
Indices: 6306845--6306894 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
6306835 GTGCTTGTAT
6306845 TAATTTTTTATGTATTTAA-AATATTA
1 TAATTTTTTATGTA-TTAATAATATTA
*
6306871 TAATTTTTTATTTATTAATAATAT
1 TAATTTTTTATGTATTAATAATAT
6306895 ATTTTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (26 bp):
TAATTTTTTATGTATTAATAATATTA
Done.