Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 275 of 311
Found at i:90598826 original size:23 final size:23
Alignment explanation
Indices: 90598782--90598827 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
90598772 GTATTACCAT
*
90598782 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
90598805 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
90598828 CATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:90611804 original size:76 final size:73
Alignment explanation
Indices: 90611673--90611930 Score: 313
Period size: 72 Copynumber: 3.5 Consensus size: 73
90611663 TTTGTTTTTC
** * *
90611673 AAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCAGGACACGCTGAGATAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGAACACGCTGAGGTAATTTCAATTTCT
90611738 GTTGTTAAAAA
66 GTT-TT--AAA
*
90611749 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGAACACGCTGAGGTAATTTCGATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGAACACGCTGAGGTAATTTCAATTTCT
*
90611814 GTTTT-CA
66 GTTTTAAA
* * * * *
90611821 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCA-AGACACGTTAAGGTATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGA-ACACGCTGAGGTAATTTCAATTTC
90611885 TGTTTTCAAA
65 TGTTTT-AAA
** ** *
90611895 AAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
90611931 TTTAATTTTT
Statistics
Matches: 159, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
71 1 0.01
72 63 0.40
74 30 0.19
75 2 0.01
76 63 0.40
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.31
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGAACACGCTGAGGTAATTTCAATTTCT
GTTTTAAA
Found at i:90611964 original size:275 final size:269
Alignment explanation
Indices: 90611480--90612200 Score: 1067
Period size: 273 Copynumber: 2.7 Consensus size: 269
90611470 GCTTTCCAAG
* * *
90611480 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGATGTATTTTTAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
* * * * ** * ** *
90611545 TTTTTCAAAA-TCAACACATATTGCAAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT
66 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
* *
90611609 AGTTTATGTTTT--AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTT
131 AATTTCTGTTTTCAAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTT
*
90611672 CAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCAGGACACGCTGAGATAATTTCAATTTC
196 CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATAATTTCAATTTC
90611737 TGTTGTTAAAA
261 TGTT-TT-AAA
* * *
90611748 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-AGAACACGCTGAGGTAATTTCGATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACACGTTGAGGTATTTTCAATTT
* *
90611812 CTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTAAGGTATTT
65 -TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTT
90611877 TCAATTTCTGTTTTCAAAAAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTG
129 TCAATTTCTGTTTTC---AAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTG
* *
90611942 TTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
191 TTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATAATTTCA
*
90612007 ATTTCTGTTTTCAA
256 ATTTCTGTTTTAAA
*
90612021 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA-TTT
90612086 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
65 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
* *
90612151 CAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGA--TGAGTTGAGCCT
130 CAATTTCTG-TTTTCAAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCCT
90612201 CAGACACGTG
Statistics
Matches: 409, Mismatches: 32, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
267 2 0.00
268 55 0.13
269 10 0.02
270 64 0.16
271 6 0.01
272 15 0.04
273 128 0.31
274 12 0.03
275 117 0.29
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (269 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
AATTTCTGTTTTCAAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTT
CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATAATTTCAATTTC
TGTTTTAAA
Found at i:90611979 original size:199 final size:198
Alignment explanation
Indices: 90611749--90612129 Score: 604
Period size: 199 Copynumber: 1.9 Consensus size: 198
90611739 TTGTTAAAAA
*
90611749 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGAACACGCTGAGGTAATTTCGATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGAACACGCTGAGGTAATTTCAATTTCT
*
90611814 GTTTTC-AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTAAGGTATTTT
66 GTTTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTAAGGTATTTT
* **
90611878 CAATTTCTGTTTTCAAAAAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTG
131 CAATTTCTGTTTTC---AAAATTCAACTCATATTGCGAGAAATGAGTTAAGCCTTTTAATTTTTG
90611942 TTTTTC
193 TTTTTC
* ** *
90611948 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGAACACGCTGAGGTAATTTCAATTTCT
*
90612013 GTTTTCAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTT
66 GTTTTC-AAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTAAGGTATTT
* *
90612078 TCAATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
130 TCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTAAGCCT
90612130 CAAGACACGT
Statistics
Matches: 167, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
198 6 0.04
199 92 0.55
201 69 0.41
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (198 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGAACACGCTGAGGTAATTTCAATTTCT
GTTTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTAAGGTATTTT
CAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTAAGCCTTTTAATTTTTGTTT
TTC
Found at i:90612039 original size:127 final size:132
Alignment explanation
Indices: 90611808--90612200 Score: 437
Period size: 127 Copynumber: 2.9 Consensus size: 132
90611798 GGTAATTTCG
* * *
90611808 ATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTAAGGT
1 ATTTGTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
* *
90611873 ATTTTCAATTTCTGTTTTCAAAAAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCCTT-TTA-
66 ATTTTCAATTTCTGTTTTC-AAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTTGGTAT
90611935 ATT
130 ATT
* ** * *
90611938 -TTTGT-TTTTCAAAA-TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
1 ATTTGTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
* *
90612000 AATTTCAATTTCTGTTTTCAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
66 ATTTTCAATTTCTGTTTTCAAAAAATTCAACTCATATTGCGAG--A-G-G-TGAG--TTAAG-C-
*
90612065 CGTTGAGGTATTTT
122 C-TT--GGTATATT
*
90612079 CAATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 --ATTTGTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
*
90612144 GTATTTTCAATTTCTGCTTTTC--AAAATTCAACTCATATTGCGAGA--TGAGTTGAGCCT
64 GTATTTTCAATTTCTG-TTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCT
90612201 CAGACACGTG
Statistics
Matches: 220, Mismatches: 22, Indels: 39
0.78 0.08 0.14
Matches are distributed among these distances:
126 8 0.04
127 73 0.33
128 9 0.04
129 5 0.02
130 1 0.00
131 1 0.00
132 4 0.02
133 1 0.00
134 5 0.02
135 2 0.01
136 4 0.02
137 2 0.01
138 4 0.02
140 2 0.01
141 2 0.01
143 1 0.00
144 4 0.02
145 31 0.14
146 56 0.25
147 5 0.02
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (132 bp):
ATTTGTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
ATTTTCAATTTCTGTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTTGGTATA
TT
Found at i:90612050 original size:74 final size:72
Alignment explanation
Indices: 90611930--90612219 Score: 430
Period size: 72 Copynumber: 4.1 Consensus size: 72
90611920 GAGTTAAGCC
* * ** *
90611930 TTTT-AATTTTTGTTTTTCAAAA-TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
*
90611993 CTGAGGTA
65 TTGAGGTA
*
90612001 ATTTCAATTTCTGTTTTCAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
90612066 GTTGAGGTA
64 GTTGAGGTA
*
90612075 TTTTCAATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
90612140 TGAGGTA
66 TGAGGTA
90612147 TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAG--ATGAGTTGAGCCTC-AGACACG
1 TTTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
90612209 -TGAGGTA
65 TTGAGGTA
90612216 TTTT
1 TTTT
90612220 TGAGCCTCAA
Statistics
Matches: 204, Mismatches: 10, Indels: 12
0.90 0.04 0.05
Matches are distributed among these distances:
69 11 0.05
70 7 0.03
71 22 0.11
72 73 0.36
73 31 0.15
74 60 0.29
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (72 bp):
TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
TGAGGTA
Found at i:90612222 original size:26 final size:28
Alignment explanation
Indices: 90612193--90612247 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
90612183 GCGAGATGAG
90612193 TTGAGCCTC-AGACACG-TGAGGTATTT
1 TTGAGCCTCAAGACACGTTGAGGTATTT
90612219 TTGAGCCTCAAGACACGTTGAGGTATTT
1 TTGAGCCTCAAGACACGTTGAGGTATTT
90612247 T
1 T
90612248 CAATTTCTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 9 0.33
27 7 0.26
28 11 0.41
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (28 bp):
TTGAGCCTCAAGACACGTTGAGGTATTT
Found at i:90612445 original size:42 final size:42
Alignment explanation
Indices: 90612397--90612551 Score: 219
Period size: 42 Copynumber: 3.7 Consensus size: 42
90612387 AAGTTGCAAG
90612397 TCTTATCTCCCTAAGCAATAGTGGAGCAGACAGAACCACAGA
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGACAGAACCACAGA
90612439 TCTTATCTCCCTAAGCAATAGTGGAGCAGACAGAACCACAGA
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGACAGAACCACAGA
* * * *
90612481 TCTTATCTCCCTAAGCAATAATGGAGCAAATCA-CATC-CAG-
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGA-CAGAACCACAGA
*
90612521 CCTTATCTCCCTAAGC-ATCAGTGGAGCAGAC
1 TCTTATCTCCCTAAGCAAT-AGTGGAGCAGAC
90612552 GAAAAAAACC
Statistics
Matches: 104, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
39 3 0.03
40 24 0.23
41 3 0.03
42 72 0.69
43 2 0.02
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (42 bp):
TCTTATCTCCCTAAGCAATAGTGGAGCAGACAGAACCACAGA
Found at i:90614196 original size:23 final size:23
Alignment explanation
Indices: 90614152--90614197 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
90614142 GTATTACCAT
*
90614152 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
90614175 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
90614198 CATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:90622362 original size:15 final size:15
Alignment explanation
Indices: 90622342--90622374 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
90622332 CAACAGGTGA
90622342 TTACAAATTATTATC
1 TTACAAATTATTATC
90622357 TTACAAATTATTATC
1 TTACAAATTATTATC
90622372 TTA
1 TTA
90622375 ACACATCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (15 bp):
TTACAAATTATTATC
Found at i:90625577 original size:15 final size:14
Alignment explanation
Indices: 90625552--90625590 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
90625542 TTAGCATTGC
*
90625552 ATTTGAAAAAAAT-
1 ATTTAAAAAAAATG
90625565 ATTGTAAAAAAAATG
1 ATT-TAAAAAAAATG
90625580 ATTTAAAAAAA
1 ATTTAAAAAAA
90625591 TAATTTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 17 0.74
15 3 0.13
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (14 bp):
ATTTAAAAAAAATG
Found at i:90626643 original size:93 final size:92
Alignment explanation
Indices: 90626530--90626698 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 92
90626520 TCACATTTTG
*
90626530 AAAAGAGTCAAAACGCTTTTTTTAAAT-GAAAACATTGACTAAAACATTATTATTTTTTTAATGA
1 AAAAGAGTCAAAACACTTTTTTTAAATAG-AAACATTGACTAAAACATTATTA-TTTTTTAATGA
90626594 TGTTGACATGACAGCTATTGTGGTAATTA
64 TGTTGACATGACAGCTATTGTGGTAATTA
** ** *
90626623 AAAAGAGTCAAGTCACTTTTTTTAAATAGAAATGTTGACTAAAACATTATTATTTTTTAGTGATG
1 AAAAGAGTCAAAACACTTTTTTTAAATAGAAACATTGACTAAAACATTATTATTTTTTAATGATG
90626688 TTGACATGACA
66 TTGACATGACA
90626699 ATCGTTATGA
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
92 23 0.33
93 45 0.65
94 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.38
Consensus pattern (92 bp):
AAAAGAGTCAAAACACTTTTTTTAAATAGAAACATTGACTAAAACATTATTATTTTTTAATGATG
TTGACATGACAGCTATTGTGGTAATTA
Found at i:90627544 original size:30 final size:32
Alignment explanation
Indices: 90627510--90627574 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
90627500 AATGTCAATA
* *
90627510 TAACTC-TTTTTAAAAGGTT-ATGGTCAAATT
1 TAACTCTTTTTTAAAAGATTAATGGCCAAATT
90627540 TAACTCTTTTTTAAAAGATTAATGGCCAAATT
1 TAACTCTTTTTTAAAAGATTAATGGCCAAATT
90627572 TAA
1 TAA
90627575 TTAAAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 6 0.19
31 12 0.39
32 13 0.42
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (32 bp):
TAACTCTTTTTTAAAAGATTAATGGCCAAATT
Found at i:90630050 original size:25 final size:25
Alignment explanation
Indices: 90630000--90630050 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
90629990 TTATTTAAAA
* *
90630000 TCAATTTAAAACTGAATTGTTTCTT
1 TCAATTTAAAACTGAATTATTACTT
90630025 TCAATTTAAAACTGAATTATTACTT
1 TCAATTTAAAACTGAATTATTACTT
90630050 T
1 T
90630051 TTCTTTTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (25 bp):
TCAATTTAAAACTGAATTATTACTT
Found at i:90631989 original size:18 final size:19
Alignment explanation
Indices: 90631943--90631990 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
90631933 TAATTTAATT
*
90631943 TTTTCATATTTAAAATAAA
1 TTTTAATATTTAAAATAAA
* * *
90631962 TTATATTATTT-AAATATA
1 TTTTAATATTTAAAATAAA
90631980 TTTTAATATTT
1 TTTTAATATTT
90631991 TGATCTTTTA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTAATATTTAAAATAAA
Found at i:90643211 original size:15 final size:16
Alignment explanation
Indices: 90643178--90643211 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
90643168 GAAAATATAA
90643178 AAAATTATATTTGCTT
1 AAAATTATATTTGCTT
90643194 AAAATTATATTT-CTT
1 AAAATTATATTTGCTT
90643209 AAA
1 AAA
90643212 TGGAGTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (16 bp):
AAAATTATATTTGCTT
Found at i:90645492 original size:7 final size:7
Alignment explanation
Indices: 90645480--90645505 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
90645470 TCATGTTTCA
90645480 GTTCACT
1 GTTCACT
90645487 GTTCACT
1 GTTCACT
90645494 GTTCACT
1 GTTCACT
90645501 GTTCA
1 GTTCA
90645506 ATATCAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.27, G:0.15, T:0.42
Consensus pattern (7 bp):
GTTCACT
Found at i:90645606 original size:18 final size:18
Alignment explanation
Indices: 90645580--90645617 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
90645570 ATCAGTCAAT
*
90645580 ATTTTTCAATATCAATCA
1 ATTTATCAATATCAATCA
*
90645598 ATTTATCAATATCATTCA
1 ATTTATCAATATCAATCA
90645616 AT
1 AT
90645618 AACAATCAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTATCAATATCAATCA
Found at i:90645649 original size:39 final size:40
Alignment explanation
Indices: 90645599--90645680 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 40
90645589 TATCAATCAA
*
90645599 TTTATCAATATCATTCAATAACAATCAGTCATTTAGAACC
1 TTTATCAATATCATTCAATAACAATCAGTCATTCAGAACC
* * * * *
90645639 TTTAT-AATATCATTTAGTAACAGTCGGTCATTCAGTACC
1 TTTATCAATATCATTCAATAACAATCAGTCATTCAGAACC
90645678 TTT
1 TTT
90645681 TTTACCCTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 31 0.86
40 5 0.14
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (40 bp):
TTTATCAATATCATTCAATAACAATCAGTCATTCAGAACC
Found at i:90645876 original size:44 final size:44
Alignment explanation
Indices: 90645818--90645904 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
90645808 GAATTAAACC
*
90645818 GAAGTAACAGTAATAGTACGACACACATGGTGCCTCATCGACTT
1 GAAGTAACAGTAATAGTACGACACACATAGTGCCTCATCGACTT
**
90645862 GAAGTCAA-AGTAATAGTACGACACTTATAGTGCCTCATCGACT
1 GAAGT-AACAGTAATAGTACGACACACATAGTGCCTCATCGACT
90645905 CAAGGTCGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
44 37 0.95
45 2 0.05
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (44 bp):
GAAGTAACAGTAATAGTACGACACACATAGTGCCTCATCGACTT
Found at i:90645917 original size:44 final size:44
Alignment explanation
Indices: 90645826--90645917 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
90645816 CCGAAGTAAC
* *
90645826 AGTAATAGTACGACACACATGGTGCCTCATCGACTTGAAGTCAA
1 AGTAATAGTACGACACACATAGTGCCTCATCGACTTCAAGTCAA
** *
90645870 AGTAATAGTACGACACTTATAGTGCCTCATCGAC-TCAAGGTCGA
1 AGTAATAGTACGACACACATAGTGCCTCATCGACTTCAA-GTCAA
90645914 AGTA
1 AGTA
90645918 TCCCTGAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 3 0.07
44 39 0.93
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.24
Consensus pattern (44 bp):
AGTAATAGTACGACACACATAGTGCCTCATCGACTTCAAGTCAA
Found at i:90647074 original size:17 final size:16
Alignment explanation
Indices: 90647052--90647099 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
90647042 CTTTTCCTTC
90647052 TCTGTTTCGTTTTATAT
1 TCTGTTTC-TTTTATAT
* *
90647069 TCTGTTTTTTTTTATGT
1 TCTG-TTTCTTTTATAT
*
90647086 TTTGTTTCTTTTAT
1 TCTGTTTCTTTTAT
90647100 TACATGCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 9 0.35
17 14 0.54
18 3 0.12
ACGTcount: A:0.08, C:0.08, G:0.10, T:0.73
Consensus pattern (16 bp):
TCTGTTTCTTTTATAT
Found at i:90647130 original size:5 final size:5
Alignment explanation
Indices: 90647120--90647148 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
90647110 ATTTATTTAT
90647120 TAATA TAATA TAATA TAATA TAATA TAAT
1 TAATA TAATA TAATA TAATA TAATA TAAT
90647149 CATTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:90647284 original size:16 final size:16
Alignment explanation
Indices: 90647259--90647347 Score: 71
Period size: 15 Copynumber: 5.8 Consensus size: 16
90647249 ATTTAATTTA
*
90647259 ATTATCATATAAATAT
1 ATTATAATATAAATAT
*
90647275 CTTATAATAT-AAT-T
1 ATTATAATATAAATAT
* *
90647289 ATTTTAA-ATTAATAT
1 ATTATAATATAAATAT
*
90647304 AATATAATAT-AATAT
1 ATTATAATATAAATAT
*
90647319 ATTACTAATATATATAT
1 ATTA-TAATATAAATAT
*
90647336 TTTATAAT-TAAA
1 ATTATAATATAAA
90647348 ATCTAAGTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
13 2 0.03
14 9 0.16
15 20 0.34
16 20 0.34
17 7 0.12
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTATAATATAAATAT
Found at i:90647287 original size:5 final size:5
Alignment explanation
Indices: 90647277--90647334 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
90647267 ATAAATATCT
* * *
90647277 TATAA TATAA T-TAT TTTAA -ATTAA TATAA TATAA TATAA TATAT TACTAA
1 TATAA TATAA TATAA TATAA TA-TAA TATAA TATAA TATAA TATAA TA-TAA
90647327 TAT-A TATA
1 TATAA TATA
90647335 TTTTATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
4 7 0.16
5 31 0.72
6 5 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (5 bp):
TATAA
Found at i:90647318 original size:15 final size:15
Alignment explanation
Indices: 90647259--90647343 Score: 75
Period size: 16 Copynumber: 5.5 Consensus size: 15
90647249 ATTTAATTTA
*
90647259 ATTATCATATAAATAT
1 ATTATAATAT-AATAT
*
90647275 CTTATAATATAAT-T
1 ATTATAATATAATAT
*
90647289 ATTTTAA-ATTAATAT
1 ATTATAATA-TAATAT
*
90647304 AATATAATATAATAT
1 ATTATAATATAATAT
90647319 ATTACTAATATATATAT
1 ATTA-TAATATA-ATAT
*
90647336 TTTATAAT
1 ATTATAAT
90647344 TAAAATCTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
13 1 0.02
14 10 0.18
15 18 0.32
16 20 0.36
17 7 0.12
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATATAATAT
Found at i:90654119 original size:26 final size:26
Alignment explanation
Indices: 90654088--90654195 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
90654078 TAAAATGCCC
*
90654088 ATCATGGAACATTTACCTAAGCCATT
1 ATCATGGAACATTTACCTAACCCATT
90654114 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
90654140 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
*
90654166 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90654192 ATCA
1 ATCA
90654196 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:90657948 original size:40 final size:40
Alignment explanation
Indices: 90657864--90657998 Score: 144
Period size: 40 Copynumber: 3.4 Consensus size: 40
90657854 TCGAGAATAA
* * ** * *
90657864 AAAGTGGATAGGATTCGTTCCTGATTCAATATAATACCTC
1 AAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACTT
* *
90657904 AAAGTGGATAGGATTTGTTCCTGATTCACTGTGGTAATTT
1 AAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACTT
* * * *
90657944 AAAGTGAATAAGATTTATTCTTGATTCACTATGGTAACTT
1 AAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACTT
* *
90657984 AAGGCGGATAGGATT
1 AAAGTGGATAGGATT
90657999 ACGGTTACAT
Statistics
Matches: 77, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (40 bp):
AAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACTT
Found at i:90658129 original size:79 final size:77
Alignment explanation
Indices: 90657998--90658150 Score: 218
Period size: 79 Copynumber: 2.0 Consensus size: 77
90657988 CGGATAGGAT
* * *
90657998 TACGGTTACATGATATATGATCCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGG
1 TACGGTTACACGATACATGATCCATTATGATAACCTAAGGTGGATAGGATTTGA-CTGAAAA-GG
90658063 TAATCCTGATTCGC
64 TAATCCTGATTCGC
* * *
90658077 TACGGTTACACGATACATGATTCC-TTATGATAACTTAAGGTGGGTAGGATTTGACTTAAAAGGT
1 TACGGTTACACGATACATGA-TCCATTATGATAACCTAAGGTGGATAGGATTTGACTGAAAAGGT
90658141 AATCCTGATT
65 AATCCTGATT
90658151 TACTACAGTT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
77 13 0.19
78 6 0.09
79 45 0.67
80 3 0.04
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (77 bp):
TACGGTTACACGATACATGATCCATTATGATAACCTAAGGTGGATAGGATTTGACTGAAAAGGTA
ATCCTGATTCGC
Found at i:90659772 original size:46 final size:46
Alignment explanation
Indices: 90659722--90660015 Score: 379
Period size: 46 Copynumber: 6.7 Consensus size: 46
90659712 TGCCATAGAG
* * *
90659722 TCTTTCAACTATGGTCTTACTCATTTTC-TATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
** * * *
90659768 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
90659814 TCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
90659860 TCTTTCAACCATGGTCTT--ACA---C--A-CAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
90659898 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
90659944 TCTTTCAACCATGGTCTT--ACA---C--A-CAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
90659982 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
90660016 AGAGCACACT
Statistics
Matches: 220, Mismatches: 11, Indels: 34
0.83 0.04 0.13
Matches are distributed among these distances:
38 66 0.30
39 2 0.01
40 6 0.03
41 2 0.01
43 2 0.01
44 6 0.03
45 6 0.03
46 130 0.59
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:90659896 original size:38 final size:38
Alignment explanation
Indices: 90659845--90660004 Score: 248
Period size: 38 Copynumber: 4.0 Consensus size: 38
90659835 CATCTCATAT
90659845 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
90659883 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
90659928 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
90659967 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
90660005 TTTCATATCA
Statistics
Matches: 114, Mismatches: 0, Indels: 16
0.88 0.00 0.12
Matches are distributed among these distances:
38 71 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 33 0.29
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:90659943 original size:84 final size:84
Alignment explanation
Indices: 90659802--90660015 Score: 419
Period size: 84 Copynumber: 2.5 Consensus size: 84
90659792 TTCATGTCAC
*
90659802 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
90659867 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
90659886 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
90659951 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
90659970 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
90660016 AGAGCACACT
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 129 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (84 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACACAG
Found at i:90664833 original size:23 final size:25
Alignment explanation
Indices: 90664807--90664853 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
90664797 TATCATTCAT
*
90664807 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
90664830 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
90664854 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:90665174 original size:46 final size:43
Alignment explanation
Indices: 90665114--90665400 Score: 337
Period size: 46 Copynumber: 6.7 Consensus size: 43
90665104 TTTGACGTGA
* * * *
90665114 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTA--CA-TTTCAT-TCAGGT
*
90665160 TGCCATGGTATCTTTCAACCATGGTCTTAC-TTTCATTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACATTTCATTCAGGT
90665202 TGCCATGGTATCTTTCAACCATGGTCTTACA---CA--CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACATTTCATTCAGGT
*
90665240 TTCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTAC--ATTTCAT-TCAGGT
*
90665286 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTT--ACATTTCAT-TCAGGT
90665332 TGCCATGGTATCTTTCAACCATGGTCTTACA---CA--CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACATTTCATTCAGGT
90665370 TGCCATGGTATCTTTCAACCATGGTCTTACA
1 TGCCATGGTATCTTTCAACCATGGTCTTACA
90665401 CATTTCATAT
Statistics
Matches: 220, Mismatches: 9, Indels: 32
0.84 0.03 0.12
Matches are distributed among these distances:
38 68 0.31
40 3 0.01
41 2 0.01
42 39 0.18
43 3 0.01
44 4 0.02
46 99 0.45
48 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (43 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACATTTCATTCAGGT
Found at i:90665182 original size:24 final size:24
Alignment explanation
Indices: 90665155--90665224 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
90665145 CATTTTCTGT
90665155 CATGTTGCCATGGTATCTTTCAAC
1 CATGTTGCCATGGTATCTTTCAAC
* **
90665179 CATG--GTC-T--TA-CTTTCATT
1 CATGTTGCCATGGTATCTTTCAAC
*
90665197 CACGTTGCCATGGTATCTTTCAAC
1 CATGTTGCCATGGTATCTTTCAAC
90665221 CATG
1 CATG
90665225 GTCTTACACA
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
18 9 0.28
19 2 0.06
20 2 0.06
21 2 0.06
22 2 0.06
23 2 0.06
24 13 0.41
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.39
Consensus pattern (24 bp):
CATGTTGCCATGGTATCTTTCAAC
Found at i:90665311 original size:84 final size:84
Alignment explanation
Indices: 90665158--90665403 Score: 332
Period size: 84 Copynumber: 3.0 Consensus size: 84
90665148 TTTCTGTCAT
*
90665158 GTTGCCATGGTATCTTTCAACCATGGTCTTAC-TTTCAT-TCACGTTGCCATGGTATCTTTCAAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
90665221 CATGGTCTTACACA-C-AG
66 CATGGTCTTACACATCTAG
*
90665238 GTTTCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTAC--ATTTCATATCAGGTTGCCATGGTATCTTTCA
90665303 ACCATGGTCTTACACATTTCATATTAG
64 ACCATGGTCTTACACA--TC----TAG
90665330 GTTGCCATGGTATCTTTCAACCATGGTCTTACA---C--A-CAGGTTGCCATGGTATCTTTCAAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
90665389 CATGGTCTTACACAT
66 CATGGTCTTACACAT
90665404 TTCATATCAG
Statistics
Matches: 151, Mismatches: 3, Indels: 22
0.86 0.02 0.12
Matches are distributed among these distances:
80 31 0.21
82 1 0.01
83 6 0.04
84 76 0.50
85 1 0.01
87 2 0.01
90 1 0.01
92 33 0.22
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (84 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATCTAG
Found at i:90665381 original size:130 final size:126
Alignment explanation
Indices: 90665114--90665413 Score: 451
Period size: 130 Copynumber: 2.3 Consensus size: 126
90665104 TTTGACGTGA
* * * * *
90665114 TGCCATAGTGTCTTTCAACTATGGTCTTAC-TCATTTTC-TGTCATGTTGCCATGGTATCTTTCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACAT-A-TTTCATATCAGGTTGCCATGGTATCTTTCA
90665177 ACCATGGTCTTACTTTCATTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGT
64 ACCATGGTCTTACTTTCATTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGT
*
90665240 TTCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGTTGCCATGGTATCTTTCAAC
* *
90665305 CATGGTCTTACACATTTCATATTAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGT
66 CATGGTCTT--AC-TTTCAT-TCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGT
*
90665370 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAG
90665414 AGAGCACACT
Statistics
Matches: 158, Mismatches: 10, Indels: 8
0.90 0.06 0.05
Matches are distributed among these distances:
125 4 0.03
126 61 0.39
127 1 0.01
128 2 0.01
129 6 0.04
130 84 0.53
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (126 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACTTTCATTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGT
Found at i:90670397 original size:16 final size:16
Alignment explanation
Indices: 90670378--90670416 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
90670368 AAATATTAAA
90670378 ATATTATATCATTATT
1 ATATTATATCATTATT
*
90670394 ATATTATATTATTATT
1 ATATTATATCATTATT
90670410 ATTATTA
1 A-TATTA
90670417 AAATAAAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATTATATCATTATT
Found at i:90671582 original size:48 final size:50
Alignment explanation
Indices: 90671496--90671592 Score: 137
Period size: 48 Copynumber: 2.0 Consensus size: 50
90671486 AAGTGTCGTA
*
90671496 TTACTATTATTACTTCGGATAAATCCGATGAGGTACTGAGTACTGTATTG
1 TTACTATTATTACTTCGGATAAATCCGATGAGGCACTGAGTACTGTATTG
* *
90671546 TTACTGTT-TTACTTCGG-TAAAGT-CGATGAGGCACTGAGTGCTGTATT
1 TTACTATTATTACTTCGGATAAA-TCCGATGAGGCACTGAGTACTGTATT
90671593 AGTGTGTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
48 26 0.60
49 10 0.23
50 7 0.16
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (50 bp):
TTACTATTATTACTTCGGATAAATCCGATGAGGCACTGAGTACTGTATTG
Found at i:90672880 original size:2 final size:2
Alignment explanation
Indices: 90672873--90672902 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
90672863 GCAGTACCAG
90672873 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
90672903 AGGGGGGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:90674605 original size:36 final size:36
Alignment explanation
Indices: 90674565--90674636 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
90674555 ATCTGGAAGA
90674565 AAAACTCTTGGTCTCCTTTTTCACTTAGTTTTCATT
1 AAAACTCTTGGTCTCCTTTTTCACTTAGTTTTCATT
90674601 AAAACTCTTGGTCTCCTTTTTCACTTAGTTTTCATT
1 AAAACTCTTGGTCTCCTTTTTCACTTAGTTTTCATT
90674637 TCTATTTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.22, G:0.08, T:0.50
Consensus pattern (36 bp):
AAAACTCTTGGTCTCCTTTTTCACTTAGTTTTCATT
Found at i:90676225 original size:29 final size:29
Alignment explanation
Indices: 90676183--90676242 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
90676173 GTTATAACCA
* * *
90676183 AACCTTTATATGCCATTGTTGACCA-AATT
1 AACCTATACATGCCATT-TTAACCATAATT
90676212 AACCTATACATGCCATTTTAACCATAATT
1 AACCTATACATGCCATTTTAACCATAATT
90676241 AA
1 AA
90676243 TTACCATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.35
Consensus pattern (29 bp):
AACCTATACATGCCATTTTAACCATAATT
Found at i:90682573 original size:43 final size:43
Alignment explanation
Indices: 90682510--90682616 Score: 110
Period size: 43 Copynumber: 2.5 Consensus size: 43
90682500 ATGGTTTATT
* * * *
90682510 AATTACCGGTCCAAGATAAATCCC-ATCTCCAACATATA-ATTAG
1 AATTACCAGTCCAGGCTAAATCCCAAT-TCCAACATA-AGATCAG
* * *
90682553 GATTACCAGTCCAGGCTAAATCCCAATTTCAACGTAAGATCAG
1 AATTACCAGTCCAGGCTAAATCCCAATTCCAACATAAGATCAG
*
90682596 AATTACTAGTCCAGGCTAAAT
1 AATTACCAGTCCAGGCTAAAT
90682617 TCTGTCTTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 1 0.02
43 50 0.94
44 2 0.04
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.25
Consensus pattern (43 bp):
AATTACCAGTCCAGGCTAAATCCCAATTCCAACATAAGATCAG
Found at i:90684329 original size:11 final size:11
Alignment explanation
Indices: 90684313--90684343 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
90684303 ATATTACATG
90684313 AAATAATAATA
1 AAATAATAATA
90684324 AAATAATAATA
1 AAATAATAATA
90684335 AAAT-ATAAT
1 AAATAATAAT
90684344 TTTTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAATAATAATA
Found at i:90688022 original size:22 final size:21
Alignment explanation
Indices: 90687997--90688061 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 21
90687987 AAAACCCGAA
90687997 TTTGAATGTATATTTTTTTTCT
1 TTTGAATGTATATTTTTTTT-T
* * *
90688019 TTTGACTATATATTTTTCTTT
1 TTTGAATGTATATTTTTTTTT
*
90688040 TTTAAATAGTATGCATTTTTTT
1 TTTGAAT-GTAT--ATTTTTTT
90688062 AAAGAAAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 6 0.18
22 20 0.61
24 7 0.21
ACGTcount: A:0.22, C:0.06, G:0.08, T:0.65
Consensus pattern (21 bp):
TTTGAATGTATATTTTTTTTT
Found at i:90688592 original size:27 final size:26
Alignment explanation
Indices: 90688561--90688623 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 26
90688551 AGAAAACAGA
90688561 GTGGACAAAACAAAAACCACGAAAAAT
1 GTGGACAAAACAAAAACCAC-AAAAAT
* * **
90688588 GTGGACAAAA-TAAAACTACAAAGCT
1 GTGGACAAAACAAAAACCACAAAAAT
90688613 GTGGACAAAAC
1 GTGGACAAAAC
90688624 TGCGATAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 14 0.45
26 7 0.23
27 10 0.32
ACGTcount: A:0.54, C:0.17, G:0.17, T:0.11
Consensus pattern (26 bp):
GTGGACAAAACAAAAACCACAAAAAT
Found at i:90693180 original size:14 final size:14
Alignment explanation
Indices: 90693161--90693191 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
90693151 AAGCTTATGG
90693161 TTTCTTTTTCTTTT
1 TTTCTTTTTCTTTT
*
90693175 TTTCTTTTTGTTTT
1 TTTCTTTTTCTTTT
90693189 TTT
1 TTT
90693192 TATTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (14 bp):
TTTCTTTTTCTTTT
Found at i:90695675 original size:12 final size:14
Alignment explanation
Indices: 90695648--90695678 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
90695638 TCATTTAATA
90695648 TTAATATAATTTTT
1 TTAATATAATTTTT
90695662 TTAAT-TAATTTTT
1 TTAATATAATTTTT
90695675 TTAA
1 TTAA
90695679 ATTTTTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTAATATAATTTTT
Found at i:90697658 original size:15 final size:15
Alignment explanation
Indices: 90697635--90697664 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
90697625 AGACCGATAG
*
90697635 CATTGTGTCTTACAA
1 CATTATGTCTTACAA
90697650 CATTATGTCTTACAA
1 CATTATGTCTTACAA
90697665 ATAAAACATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (15 bp):
CATTATGTCTTACAA
Found at i:90698941 original size:3 final size:3
Alignment explanation
Indices: 90698933--90698957 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
90698923 ATTGATTTTC
90698933 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
90698958 TTATTTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:90711026 original size:21 final size:20
Alignment explanation
Indices: 90711002--90711053 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
90710992 TTATGCCATA
90711002 TCAGTATTCTTATCCTGAATT
1 TCAGTATT-TTATCCTGAATT
*
90711023 TCAGGATTTTATCCTGAATT
1 TCAGTATTTTATCCTGAATT
*
90711043 TTAGTATTTTA
1 TCAGTATTTTA
90711054 ATTTGGATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.50
Consensus pattern (20 bp):
TCAGTATTTTATCCTGAATT
Found at i:90711546 original size:26 final size:25
Alignment explanation
Indices: 90711498--90711559 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
90711488 AGAAAACAGA
90711498 GTGGACAAAACAAAAACCACAAATAAT
1 GTGGACAAAACAAAAACCAC-AA-AAT
* * *
90711525 GTGGACAAAA-TAAAACTACAAAGT
1 GTGGACAAAACAAAAACCACAAAAT
90711549 GTGGACAAAAC
1 GTGGACAAAAC
90711560 TGCGATAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 12 0.39
25 2 0.06
26 7 0.23
27 10 0.32
ACGTcount: A:0.55, C:0.16, G:0.16, T:0.13
Consensus pattern (25 bp):
GTGGACAAAACAAAAACCACAAAAT
Found at i:90715347 original size:16 final size:17
Alignment explanation
Indices: 90715314--90715347 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
90715304 AACAAATCTG
*
90715314 ATAATTTTAAATACAAT
1 ATAATTATAAATACAAT
90715331 ATAATTATAAA-ACAAT
1 ATAATTATAAATACAAT
90715347 A
1 A
90715348 AAAAAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATTATAAATACAAT
Found at i:90720348 original size:17 final size:17
Alignment explanation
Indices: 90720326--90720363 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
90720316 CTTTAACTTG
90720326 TTGACATATTAAACACC
1 TTGACATATTAAACACC
90720343 TTGACATATTAAACACC
1 TTGACATATTAAACACC
90720360 TTGA
1 TTGA
90720364 TACACTCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (17 bp):
TTGACATATTAAACACC
Found at i:90723750 original size:12 final size:12
Alignment explanation
Indices: 90723733--90723759 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
90723723 TTTGAGCCGG
90723733 AGCATGACTCCC
1 AGCATGACTCCC
90723745 AGCATGACTCCC
1 AGCATGACTCCC
90723757 AGC
1 AGC
90723760 TTCCTCAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.41, G:0.19, T:0.15
Consensus pattern (12 bp):
AGCATGACTCCC
Found at i:90729360 original size:29 final size:29
Alignment explanation
Indices: 90729317--90729384 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
90729307 CTCGTTTCCC
*
90729317 CATAACCACCGCACTACCTTTACTTCAAG
1 CATAACCACCACACTACCTTTACTTCAAG
* *
90729346 CATAACCACCACACTCCCTTTATTTCAAG
1 CATAACCACCACACTACCTTTACTTCAAG
90729375 CATAACCACC
1 CATAACCACC
90729385 GTACAAACTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.32, C:0.40, G:0.04, T:0.24
Consensus pattern (29 bp):
CATAACCACCACACTACCTTTACTTCAAG
Found at i:90734605 original size:15 final size:16
Alignment explanation
Indices: 90734572--90734605 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
90734562 AAATATAAAA
90734572 AAAATTATATTTGCTT
1 AAAATTATATTTGCTT
90734588 AAAATTATATTT-CTT
1 AAAATTATATTTGCTT
90734603 AAA
1 AAA
90734606 TGGAGTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (16 bp):
AAAATTATATTTGCTT
Found at i:90735525 original size:52 final size:52
Alignment explanation
Indices: 90735464--90735567 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
90735454 GTAATCTACA
90735464 TGTATGTTATGTAATAAAATTAACAAAGACTAATTTTTCCATCCAATTTTAG
1 TGTATGTTATGTAATAAAATTAACAAAGACTAATTTTTCCATCCAATTTTAG
90735516 TGTATGTTATGTAATAAAATTAACAAAGACTAATTTTTCCATCCAATTTTAG
1 TGTATGTTATGTAATAAAATTAACAAAGACTAATTTTTCCATCCAATTTTAG
90735568 ATGATTTAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (52 bp):
TGTATGTTATGTAATAAAATTAACAAAGACTAATTTTTCCATCCAATTTTAG
Found at i:90740442 original size:16 final size:17
Alignment explanation
Indices: 90740409--90740442 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
90740399 AACAATTCTG
*
90740409 ATAATTTTAAATACAAT
1 ATAATTATAAATACAAT
90740426 ATAATTATAAA-ACAAT
1 ATAATTATAAATACAAT
90740442 A
1 A
90740443 CGAAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATTATAAATACAAT
Found at i:90741504 original size:46 final size:46
Alignment explanation
Indices: 90741437--90741529 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
90741427 TTTGTTTGGG
90741437 TTGATACTTGATAGAAGTGTGCTATTCTTTTTCTTCTAAATTAAGT
1 TTGATACTTGATAGAAGTGTGCTATTCTTTTTCTTCTAAATTAAGT
90741483 TTGATACTTGATAGAAGTGTGCTATTCTTTTTCTTCTAAATTAAGT
1 TTGATACTTGATAGAAGTGTGCTATTCTTTTTCTTCTAAATTAAGT
90741529 T
1 T
90741530 CTTTTTTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (46 bp):
TTGATACTTGATAGAAGTGTGCTATTCTTTTTCTTCTAAATTAAGT
Found at i:90741693 original size:18 final size:18
Alignment explanation
Indices: 90741670--90741706 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
90741660 TATAAATCAG
90741670 TCTCTCTCTCTC--TATC
1 TCTCTCTCTCTCATTATC
90741686 TCTCTCTCTCTCATTATC
1 TCTCTCTCTCTCATTATC
90741704 TCT
1 TCT
90741707 TTATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.63
18 7 0.37
ACGTcount: A:0.08, C:0.41, G:0.00, T:0.51
Consensus pattern (18 bp):
TCTCTCTCTCTCATTATC
Found at i:90745942 original size:19 final size:18
Alignment explanation
Indices: 90745914--90745954 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
90745904 ATGTTCATAT
90745914 TTTTAAAATAAGTTAATTA
1 TTTTAAAAT-AGTTAATTA
* *
90745933 TTTTATAATATTTAATTA
1 TTTTAAAATAGTTAATTA
90745951 TTTT
1 TTTT
90745955 TTTGACAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTTAAAATAGTTAATTA
Found at i:90745955 original size:19 final size:20
Alignment explanation
Indices: 90745911--90745955 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
90745901 ATAATGTTCA
90745911 TATTTTTAAAATAAGTTAAT
1 TATTTTTAAAATAAGTTAAT
* *
90745931 TA-TTTTATAAT-ATTTAAT
1 TATTTTTAAAATAAGTTAAT
90745949 TATTTTT
1 TATTTTT
90745956 TTGACAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 8 0.36
19 12 0.55
20 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TATTTTTAAAATAAGTTAAT
Found at i:90752993 original size:15 final size:15
Alignment explanation
Indices: 90752970--90752999 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
90752960 AGACCGATAG
*
90752970 CATTGTGTCTTACAA
1 CATTATGTCTTACAA
90752985 CATTATGTCTTACAA
1 CATTATGTCTTACAA
90753000 ATAAAACATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (15 bp):
CATTATGTCTTACAA
Found at i:90753439 original size:19 final size:19
Alignment explanation
Indices: 90753381--90753440 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
90753371 ACCACTAAAC
90753381 AAAACATACCTTCAAAGTA
1 AAAACATACCTTCAAAGTA
* * *
90753400 AAAAAATTTA-C-TGAAA-CA
1 AAAACA--TACCTTCAAAGTA
90753418 AAAACATACCTTCAAAGTA
1 AAAACATACCTTCAAAGTA
90753437 AAAA
1 AAAA
90753441 AATTTACTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
16 2 0.07
17 1 0.03
18 10 0.33
19 14 0.47
20 1 0.03
21 2 0.07
ACGTcount: A:0.58, C:0.17, G:0.05, T:0.20
Consensus pattern (19 bp):
AAAACATACCTTCAAAGTA
Found at i:90753458 original size:37 final size:37
Alignment explanation
Indices: 90753377--90753449 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
90753367 GATTACCACT
90753377 AAAC-AAAACATACCTTCAAAGTAAAAAAATTTACTG
1 AAACAAAAACATACCTTCAAAGTAAAAAAATTTACTG
90753413 AAACAAAAACATACCTTCAAAGTAAAAAAATTTACTG
1 AAACAAAAACATACCTTCAAAGTAAAAAAATTTACTG
90753450 TATAAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 4 0.11
37 32 0.89
ACGTcount: A:0.56, C:0.16, G:0.05, T:0.22
Consensus pattern (37 bp):
AAACAAAAACATACCTTCAAAGTAAAAAAATTTACTG
Found at i:90754979 original size:103 final size:103
Alignment explanation
Indices: 90754800--90755010 Score: 415
Period size: 103 Copynumber: 2.1 Consensus size: 103
90754790 CTAACATAAT
90754800 CATTATCTGCATATACAGATTTTTAGAGTACTTGTTATCCATACTTCATCGGATCCATTTATATA
1 CATTATCTGCATATACAGATTTTTAGAGTACTTGTTATCCATACTTCATCGGATCCATTTATATA
90754865 TTTGTTCAATTACGTATACCAAAAGCATAATTTTTATA
66 TTTGTTCAATTACGTATACCAAAAGCATAATTTTTATA
90754903 CATTATCTGCATATACAGATTTTTAGAGTACTTGTTATCCATACTTCATCGGATCCATTTATATA
1 CATTATCTGCATATACAGATTTTTAGAGTACTTGTTATCCATACTTCATCGGATCCATTTATATA
90754968 TTTGTTCAATTACGTATACCAAAAGCATAATTTTTATA
66 TTTGTTCAATTACGTATACCAAAAGCATAATTTTTATA
90755006 C-TTAT
1 CATTAT
90755011 AAACTATAAA
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
102 4 0.04
103 104 0.96
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (103 bp):
CATTATCTGCATATACAGATTTTTAGAGTACTTGTTATCCATACTTCATCGGATCCATTTATATA
TTTGTTCAATTACGTATACCAAAAGCATAATTTTTATA
Found at i:90755308 original size:41 final size:41
Alignment explanation
Indices: 90755258--90755597 Score: 518
Period size: 41 Copynumber: 8.3 Consensus size: 41
90755248 AATTCATCAT
* *
90755258 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
90755299 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
90755340 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* * *
90755381 ATTCAGATCACCAGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
90755422 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
90755463 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
90755504 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
90755545 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
90755586 ATTCATATCACC
1 ATTCAGATCACC
90755598 AATTCCAAAC
Statistics
Matches: 268, Mismatches: 31, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 268 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:90755401 original size:82 final size:82
Alignment explanation
Indices: 90755264--90755597 Score: 659
Period size: 82 Copynumber: 4.1 Consensus size: 82
90755254 TCATATTCGG
90755264 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
90755329 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
*
90755346 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCAGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
90755411 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
90755428 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
90755493 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
90755510 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
90755575 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
90755592 ATCACC
1 ATCACC
90755598 AATTCCAAAC
Statistics
Matches: 250, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 250 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:90755833 original size:19 final size:19
Alignment explanation
Indices: 90755809--90755845 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
90755799 TTGTTCGATC
*
90755809 CACACATATATATATATTA
1 CACACATATACATATATTA
90755828 CACACATATACATATATT
1 CACACATATACATATATT
90755846 CGCACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
CACACATATACATATATTA
Found at i:90767378 original size:30 final size:30
Alignment explanation
Indices: 90767326--90767391 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
90767316 AACTTATATC
* *
90767326 TTTATCATTTTTAAAGGATTAAATTA-AAT
1 TTTATTATTTTTAAAGGATTAAAGTACAAT
*
90767355 TCTTATTATTTTTAGA-GAGTTAAAGTACAAT
1 T-TTATTATTTTTAAAGGA-TTAAAGTACAAT
90767386 TTTATT
1 TTTATT
90767392 TTTACTAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 3 0.10
30 24 0.77
31 4 0.13
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (30 bp):
TTTATTATTTTTAAAGGATTAAAGTACAAT
Found at i:90773235 original size:29 final size:30
Alignment explanation
Indices: 90773190--90773253 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
90773180 TTTAAAATAT
90773190 TTTTTATATATTTAGAATTTAATT-TTTATA
1 TTTTTATATATTTAGAATTTAATTCTTTA-A
90773220 TTTTTAT-T-TTTAAGAATTTAATTCTTTAA
1 TTTTTATATATTT-AGAATTTAATTCTTTAA
90773249 TTTTT
1 TTTTT
90773254 GAATTTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
28 3 0.09
29 18 0.56
30 11 0.34
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (30 bp):
TTTTTATATATTTAGAATTTAATTCTTTAA
Found at i:90773260 original size:29 final size:29
Alignment explanation
Indices: 90773190--90773266 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
90773180 TTTAAAATAT
*
90773190 TTTTTATATATTTAGAATTTAATTTTTATA
1 TTTTTATAT-TTAAGAATTTAATTTTTATA
*
90773220 TTTTTATTTTTAAGAATTTAATTCTTTA-A
1 TTTTTATATTTAAGAATTTAATT-TTTATA
90773249 TTTTTGA-ATTTAA-AATTT
1 TTTTT-ATATTTAAGAATTT
90773267 TAGGTCCATT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 5 0.12
29 24 0.57
30 13 0.31
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (29 bp):
TTTTTATATTTAAGAATTTAATTTTTATA
Found at i:90777562 original size:4 final size:4
Alignment explanation
Indices: 90777553--90777589 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
90777543 ACTTGTAGTT
90777553 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
90777590 AGAAAGGGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:90780283 original size:46 final size:46
Alignment explanation
Indices: 90780230--90780325 Score: 183
Period size: 46 Copynumber: 2.1 Consensus size: 46
90780220 AAGAGAAAAA
*
90780230 GTTAACTCGGATTCCCGGAAATGGGAAATGTATATATAGGGATAGT
1 GTTAACTCGGATTCCCGGAAACGGGAAATGTATATATAGGGATAGT
90780276 GTTAACTCGGATTCCCGGAAACGGGAAATGTATATATAGGGATAGT
1 GTTAACTCGGATTCCCGGAAACGGGAAATGTATATATAGGGATAGT
90780322 GTTA
1 GTTA
90780326 GAGCAAGAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.28
Consensus pattern (46 bp):
GTTAACTCGGATTCCCGGAAACGGGAAATGTATATATAGGGATAGT
Found at i:90788860 original size:22 final size:22
Alignment explanation
Indices: 90788796--90788861 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 22
90788786 GGAATTTTCT
90788796 AAAAATTATATTTTTTAT-TT-
1 AAAAATTATATTTTTTATATTA
* ** * *
90788816 TAAGTTTTTATTTTTAAATTATTA
1 AAAAATTATATTTTT-TA-TATTA
90788840 AAAAATTATATTTTTTATATTA
1 AAAAATTATATTTTTTATATTA
90788862 CTTGCAACCT
Statistics
Matches: 32, Mismatches: 10, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
20 11 0.34
21 1 0.03
22 6 0.19
23 3 0.09
24 11 0.34
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
AAAAATTATATTTTTTATATTA
Found at i:90789308 original size:40 final size:40
Alignment explanation
Indices: 90789264--90789347 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
90789254 CTGCAGAAAG
* *
90789264 AAAACTAAACTAGAGAAGAAGGAATTAAAACCAGAATACA
1 AAAACTAAACTAAAGAAGAAGGAACTAAAACCAGAATACA
* * *
90789304 AAAACTAAACTAAAGAAGAATGAACTAAAATCTGAATACA
1 AAAACTAAACTAAAGAAGAAGGAACTAAAACCAGAATACA
90789344 AAAA
1 AAAA
90789348 GTAGTCTACT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.14
Consensus pattern (40 bp):
AAAACTAAACTAAAGAAGAAGGAACTAAAACCAGAATACA
Found at i:90792227 original size:25 final size:25
Alignment explanation
Indices: 90792131--90792247 Score: 62
Period size: 25 Copynumber: 4.7 Consensus size: 25
90792121 ATTCAAGATA
* * *
90792131 AAATAATATATAAAACTCTT-TAA-
1 AAATAATATATAAAAATATTAAAAT
* *
90792154 AAATAATATACAAACAAT-TCAAAAT
1 AAATAATATATAAA-AATATTAAAAT
* * *
90792179 ATATAATGTGCAAAAAAAGT-TTAAAAT
1 AAATAATAT--ATAAAAA-TATTAAAAT
* * *
90792206 ATATAATATATGAAAATATTAAAGT
1 AAATAATATATAAAAATATTAAAAT
*
90792231 AAATAATGTATAAAAAT
1 AAATAATATATAAAAAT
90792248 TTGAAATGAG
Statistics
Matches: 72, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
23 14 0.19
24 5 0.07
25 32 0.44
26 2 0.03
27 19 0.26
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (25 bp):
AAATAATATATAAAAATATTAAAAT
Found at i:90792426 original size:29 final size:28
Alignment explanation
Indices: 90792388--90792497 Score: 82
Period size: 29 Copynumber: 3.8 Consensus size: 28
90792378 ATTAGTATAT
*
90792388 AAATAGAAATAGAAATATAATAAATAGA
1 AAATAAAAATAGAAATATAATAAATAGA
90792416 AATATAAAAATAGTAGAA-AT-ATAAATAGA
1 AA-ATAAAAATAG-A-AATATAATAAATAGA
* * * * *
90792445 TAAATAATAATAGTATTAGAATAACA-AAA
1 -AAATAAAAATAGAAATATAATAA-ATAGA
*
90792474 TAAATAGAAATAGAAATATAATAA
1 -AAATAAAAATAGAAATATAATAA
90792498 TAATAGCAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
27 1 0.02
28 3 0.05
29 52 0.81
30 6 0.09
31 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.09, T:0.25
Consensus pattern (28 bp):
AAATAAAAATAGAAATATAATAAATAGA
Found at i:90797025 original size:12 final size:12
Alignment explanation
Indices: 90797008--90797033 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
90796998 AAAATAGGGC
90797008 TTTAGCGGCGTT
1 TTTAGCGGCGTT
90797020 TTTAGCGGCGTT
1 TTTAGCGGCGTT
90797032 TT
1 TT
90797034 ATCAAAAAAC
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:90797167 original size:41 final size:41
Alignment explanation
Indices: 90797088--90797348 Score: 400
Period size: 41 Copynumber: 6.4 Consensus size: 41
90797078 CGTTTTACCA
* *
90797088 AAAACGCCGCTAAAA-ACTGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
* * *
90797128 AAAACGCCGCTAAAAGATAGAGCTTTAGCGGCGCTTTTGGC
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
* * *
90797169 AAAATGCCGCTAAAAGATAGAG-ATTTAGCGGCGCTTTTGGC
1 AAAACGCCGCTAAAAGACAGAGCA-TTAGCGGCGCTTTTGGT
*
90797210 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTGGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
*
90797251 AAAACGCCGCTAAAAGACAGAGCATTAGCGTCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
*
90797292 AAAACGCCGCTAAAAGACAGAGCAGTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
90797333 AAAACGCCGCTAAAAG
1 AAAACGCCGCTAAAAG
90797349 TCATATAACT
Statistics
Matches: 203, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
40 15 0.07
41 187 0.92
42 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
Found at i:90797989 original size:24 final size:24
Alignment explanation
Indices: 90797962--90798010 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
90797952 CGTATATTTA
*
90797962 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
90797986 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
90798010 T
1 T
90798011 GTTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:90798351 original size:7 final size:7
Alignment explanation
Indices: 90798292--90798444 Score: 76
Period size: 7 Copynumber: 21.6 Consensus size: 7
90798282 GAGTTACTAT
*
90798292 TTTAAGG
1 TTTATGG
*
90798299 TTTATGA
1 TTTATGG
*
90798306 ATTATGG
1 TTTATGG
*
90798313 ATTATGGG
1 TTTAT-GG
90798321 TTTATGG
1 TTTATGG
*
90798328 ATTATGG
1 TTTATGG
**
90798335 TTTACAG
1 TTTATGG
90798342 TTTATGG
1 TTTATGG
*
90798349 TTTAAGG
1 TTTATGG
* *
90798356 GTTAGGG
1 TTTATGG
*
90798363 TTTAAGG
1 TTTATGG
90798370 TTTA-GG
1 TTTATGG
*
90798376 TGTTAGGG
1 T-TTATGG
*
90798384 GTTATGG
1 TTTATGG
*
90798391 GTTATGG
1 TTTATGG
*
90798398 GTTATGG
1 TTTATGG
*
90798405 GTTATGG
1 TTTATGG
*
90798412 ATTTAAGG
1 -TTTATGG
*
90798420 GTTAT-G
1 TTTATGG
*
90798426 TTGTATGA
1 TT-TATGG
*
90798434 TTTAGGG
1 TTTATGG
90798441 TTTA
1 TTTA
90798445 GGGGATAAAA
Statistics
Matches: 114, Mismatches: 26, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
6 5 0.04
7 94 0.82
8 15 0.13
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.45
Consensus pattern (7 bp):
TTTATGG
Found at i:90798365 original size:21 final size:21
Alignment explanation
Indices: 90798318--90798423 Score: 90
Period size: 21 Copynumber: 5.0 Consensus size: 21
90798308 TATGGATTAT
* * *
90798318 GGGTTTATGGATTATGGTTTA
1 GGGTTTATGGTTTAAGGGTTA
**
90798339 CAGTTTATGGTTTAAGGGTTA
1 GGGTTTATGGTTTAAGGGTTA
*
90798360 GGGTTTAAGGTTT-AGGTGTTA
1 GGGTTTATGGTTTAAGG-GTTA
* * *
90798381 GGGGTTATGGGTTATGGGTTA
1 GGGTTTATGGTTTAAGGGTTA
90798402 TGGG-TTATGGATTTAAGGGTTA
1 -GGGTTTATGG-TTTAAGGGTTA
90798424 TGTTGTATGA
Statistics
Matches: 67, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
20 3 0.04
21 50 0.75
22 14 0.21
ACGTcount: A:0.20, C:0.01, G:0.37, T:0.42
Consensus pattern (21 bp):
GGGTTTATGGTTTAAGGGTTA
Found at i:90798585 original size:14 final size:14
Alignment explanation
Indices: 90798566--90798632 Score: 89
Period size: 14 Copynumber: 4.7 Consensus size: 14
90798556 GTTTGCAGGT
*
90798566 AAAATGTTTTCTGG
1 AAAATGATTTCTGG
90798580 AAAATGATTTCTGG
1 AAAATGATTTCTGG
* *
90798594 AAAATAATTTCTTGA
1 AAAATGATTTC-TGG
*
90798609 AAAATGATTTATGG
1 AAAATGATTTCTGG
90798623 AAAATGATTT
1 AAAATGATTT
90798633 ACTTTTCTGG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 35 0.76
15 11 0.24
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:90799207 original size:22 final size:23
Alignment explanation
Indices: 90799182--90799245 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
90799172 TAAATTTTAA
*
90799182 AAAAATTATTTAAAATT-AATAT
1 AAAAATTATTAAAAATTCAATAT
90799204 AAAAGA-TA-TAAAAATTCAATAT
1 AAAA-ATTATTAAAAATTCAATAT
* *
90799226 AAAAATTATAAAAAAGTCAA
1 AAAAATTATTAAAAATTCAA
90799246 AAATTAACGG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
21 8 0.23
22 17 0.49
23 10 0.29
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (23 bp):
AAAAATTATTAAAAATTCAATAT
Found at i:90799281 original size:40 final size:40
Alignment explanation
Indices: 90799253--90799358 Score: 162
Period size: 38 Copynumber: 2.7 Consensus size: 40
90799243 CAAAAATTAA
90799253 CGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAATAG
1 CGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAATAG
* * *
90799293 CGGCGTTTAT-AT-AAAACGCCGTAAAAGGCAATCAATAG
1 CGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAATAG
*
90799331 CGGCGTTTATGATAAAAACACCGCAAAA
1 CGGCGTTTATGATAAAAACGCCGCAAAA
90799359 AGTAAGTTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 33 0.56
39 4 0.07
40 22 0.37
ACGTcount: A:0.42, C:0.20, G:0.21, T:0.18
Consensus pattern (40 bp):
CGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAATAG
Found at i:90801773 original size:17 final size:18
Alignment explanation
Indices: 90801748--90801781 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
90801738 AATTCTGTCC
90801748 TTTGATTAT-TTTTTTAA
1 TTTGATTATGTTTTTTAA
*
90801765 TTTGCTTATGTTTTTTA
1 TTTGATTATGTTTTTTA
90801782 TCCTTAGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.71
Consensus pattern (18 bp):
TTTGATTATGTTTTTTAA
Found at i:90802383 original size:9 final size:9
Alignment explanation
Indices: 90802369--90802427 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
90802359 AATCTTAAAA
90802369 ATAACTTAC
1 ATAACTTAC
*
90802378 ATAACTCAC
1 ATAACTTAC
90802387 ATAACTTAC
1 ATAACTTAC
*
90802396 ATAATTTAC
1 ATAACTTAC
*
90802405 ATAACTCAC
1 ATAACTTAC
*
90802414 ATAACGTAC
1 ATAACTTAC
90802423 ATAAC
1 ATAAC
90802428 AACTTACGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.29
Consensus pattern (9 bp):
ATAACTTAC
Found at i:90802404 original size:27 final size:27
Alignment explanation
Indices: 90802369--90802427 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
90802359 AATCTTAAAA
*
90802369 ATAACTTACATAACTCACATAACTTAC
1 ATAACTTACATAACTCACATAACGTAC
*
90802396 ATAATTTACATAACTCACATAACGTAC
1 ATAACTTACATAACTCACATAACGTAC
90802423 ATAAC
1 ATAAC
90802428 AACTTACGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.29
Consensus pattern (27 bp):
ATAACTTACATAACTCACATAACGTAC
Found at i:90807623 original size:46 final size:46
Alignment explanation
Indices: 90807556--90807650 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
90807546 ACTTAATAAT
*
90807556 ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTTTTTA
1 ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTGTTTA
*
90807602 ATTTGATTTATTCTAAATATTTATAATCTTTAATTATAATTGTTTA
1 ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTGTTTA
90807648 ATT
1 ATT
90807651 CAATTCATCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (46 bp):
ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTGTTTA
Found at i:90808551 original size:43 final size:44
Alignment explanation
Indices: 90808504--90808710 Score: 305
Period size: 43 Copynumber: 4.8 Consensus size: 44
90808494 GTAGTAAAAG
* ** * *
90808504 CGCCGCTAAAAATCGTGACTTTTAGCGGCGCTTTT-CCAATAAA
1 CGCCGCTAAAAGTCAAGGCTTTTAGCGGCGCTTTTACCAACAAA
*
90808547 CGCCGCTAAAAGTCAAGGCTTTTAGCGGTGCTTTTACCAA-AAA
1 CGCCGCTAAAAGTCAAGGCTTTTAGCGGCGCTTTTACCAACAAA
* *
90808590 CGCCGCTAAAAGTCAAGGCTTTTAGCGGCGCTTTT-CCCACAGA
1 CGCCGCTAAAAGTCAAGGCTTTTAGCGGCGCTTTTACCAACAAA
90808633 CGCCGCTAAAAGTCAAGGCTTTTAGCGGCGCTTTTACC-ACAAA
1 CGCCGCTAAAAGTCAAGGCTTTTAGCGGCGCTTTTACCAACAAA
*
90808676 CGCCGCTAAAAGTCAAGGCTTTTAGCGGCGTTTTT
1 CGCCGCTAAAAGTCAAGGCTTTTAGCGGCGCTTTT
90808711 TTTCAATAAA
Statistics
Matches: 151, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
42 3 0.02
43 142 0.94
44 6 0.04
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (44 bp):
CGCCGCTAAAAGTCAAGGCTTTTAGCGGCGCTTTTACCAACAAA
Found at i:90814645 original size:131 final size:132
Alignment explanation
Indices: 90814408--90814688 Score: 297
Period size: 131 Copynumber: 2.1 Consensus size: 132
90814398 AGAAATTGCG
* * * * *
90814408 ACCCAGCACGATAGGGTACTATTCCCCGAACTGCCAAACATCGAACACTTCTTTCGTTTTAAAGG
1 ACCCAGCACGATAGGGCACGATTCCCCAAACTGCCAAACATCGAACACTCCTTTCATTTTAAAGG
* * * * *
90814473 GTTTTTAGAAAACGTGAATGAAATTCCGAAGGGATCTTCGATTGTTTAGAACAAATGGAAAAAAG
66 GTTTTTAGAAAACATGAATGAAATACCAAAGGAATATTCGATTGTTTAGAACAAAT-G-AAAAAG
*
90814538 CGCA
129 CACA
*
90814542 ACCCAGCACGATAGGGCACGATT-CTCAAA-TCGCCAAACATCGAACA-TCCTTT-ATTTTGAAA
1 ACCCAGCACGATAGGGCACGATTCCCCAAACT-GCCAAACATCGAACACTCCTTTCATTTT-AAA
* * * * *
90814603 -GGTTTTTA-ATAAACATGAGTGAAA-ACCTAAAGGAATATTCGATTGTTTTGATCAAATGAGAG
64 GGGTTTTTAGA-AAACATGAATGAAATACC-AAAGGAATATTCGATTGTTTAGAACAAATGAAAA
*
90814665 ATCACA
127 AGCACA
90814671 ACCCAGCACGATAGGGCA
1 ACCCAGCACGATAGGGCA
90814689 TGATCCCTGA
Statistics
Matches: 125, Mismatches: 18, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
129 24 0.19
130 4 0.03
131 48 0.38
132 9 0.07
133 19 0.15
134 21 0.17
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (132 bp):
ACCCAGCACGATAGGGCACGATTCCCCAAACTGCCAAACATCGAACACTCCTTTCATTTTAAAGG
GTTTTTAGAAAACATGAATGAAATACCAAAGGAATATTCGATTGTTTAGAACAAATGAAAAAGCA
CA
Found at i:90815657 original size:3 final size:3
Alignment explanation
Indices: 90815649--90815684 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
90815639 AAACATTCAA
90815649 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
90815685 TTTAATTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:90815962 original size:17 final size:19
Alignment explanation
Indices: 90815942--90815983 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
90815932 TATGCGAAAT
90815942 ATATATGTAT-GTA-CAAA
1 ATATATGTATCGTAGCAAA
90815959 ATATAT-TATCGTAGCAAA
1 ATATATGTATCGTAGCAAA
90815977 ATATATG
1 ATATATG
90815984 CTAAAATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.14
17 9 0.41
18 10 0.45
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (19 bp):
ATATATGTATCGTAGCAAA
Found at i:90820118 original size:11 final size:11
Alignment explanation
Indices: 90820102--90820126 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
90820092 TAAAAATTTG
90820102 TTTTTATATTA
1 TTTTTATATTA
90820113 TTTTTATATTA
1 TTTTTATATTA
90820124 TTT
1 TTT
90820127 CTTAACGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:90822065 original size:21 final size:23
Alignment explanation
Indices: 90822039--90822098 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 23
90822029 ATTTTAAAAA
*
90822039 TTGTTTTAGTA-TTATTTTTAT-
1 TTGTTTTAATATTTATTTTTATG
*
90822060 TTGTTTTAATATTTGTTTTTATG
1 TTGTTTTAATATTTATTTTTATG
*
90822083 TT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
90822099 GATTTATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 16 0.48
22 15 0.45
23 2 0.06
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (23 bp):
TTGTTTTAATATTTATTTTTATG
Found at i:90825192 original size:30 final size:30
Alignment explanation
Indices: 90825158--90825243 Score: 129
Period size: 30 Copynumber: 2.9 Consensus size: 30
90825148 AAAACCCTAG
*
90825158 CCACCTTTCCTCCAACTTGCACCTACTCCA
1 CCACCTTTCCTCCCACTTGCACCTACTCCA
*
90825188 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTTCCTCCCACTTGCACCTACTCCA
*
90825218 CCGCCTTGT-CTCCCACTTGCACCTAC
1 CCACCTT-TCCTCCCACTTGCACCTAC
90825244 ACCATCAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.16, C:0.51, G:0.07, T:0.26
Consensus pattern (30 bp):
CCACCTTTCCTCCCACTTGCACCTACTCCA
Found at i:90825758 original size:3 final size:3
Alignment explanation
Indices: 90825747--90825948 Score: 66
Period size: 3 Copynumber: 65.3 Consensus size: 3
90825737 TTTATTTTTT
* * *
90825747 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTTC TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA -TTA TTA
**
90825792 TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA -TA TATA CCA TCTCA
1 T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA T-T-A
* * * *
90825837 ATA TTTA TT- TATA TTA TTA CTA TAA TTA TTG TTA TT- TCTA TTA TT-
1 TTA -TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * *
90825882 TT- TTA TT- TCTGA CTA CTA TTA TTA TATA TATA TGTA TTA TTG TT-
1 TTA TTA TTA T-T-A TTA TTA TTA TTA T-TA T-TA T-TA TTA TTA TTA
90825926 TGTA TTA TTA TTA TTA TTA TTA T
1 T-TA TTA TTA TTA TTA TTA TTA T
90825949 CACCCCTATT
Statistics
Matches: 152, Mismatches: 23, Indels: 48
0.68 0.10 0.22
Matches are distributed among these distances:
2 16 0.11
3 106 0.70
4 29 0.19
5 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:90825763 original size:9 final size:9
Alignment explanation
Indices: 90825738--90825816 Score: 63
Period size: 9 Copynumber: 8.6 Consensus size: 9
90825728 GAGCTTTGTT
*
90825738 TTATTTTTT
1 TTATTTTTA
90825747 TTA-TTTTA
1 TTATTTTTA
90825755 TTATTTTTA
1 TTATTTTTA
*
90825764 CTATTATTTA
1 TTATT-TTTA
*
90825774 -TATTATTA
1 TTATTTTTA
90825782 TTATTTCTTA
1 TTATTT-TTA
*
90825792 TGTATATATTA
1 T-TAT-TTTTA
*
90825803 TTATTTATA
1 TTATTTTTA
90825812 TTATT
1 TTATT
90825817 ATATTATATA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
8 10 0.18
9 28 0.49
10 11 0.19
11 7 0.12
12 1 0.02
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.70
Consensus pattern (9 bp):
TTATTTTTA
Found at i:90825768 original size:17 final size:14
Alignment explanation
Indices: 90825736--90825787 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
90825726 GAGAGCTTTG
90825736 TTTTATTTTTTTTA
1 TTTTATTTTTTTTA
*
90825750 TTTTATTATTTTTA
1 TTTTATTTTTTTTA
* * *
90825764 CTATTATTTATATTA
1 -TTTTATTTTTTTTA
90825779 TTATTATTT
1 TT-TTATTT
90825788 CTTATGTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 14 0.47
15 16 0.53
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTATTTTTTTTA
Found at i:90825824 original size:27 final size:27
Alignment explanation
Indices: 90825752--90825827 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 27
90825742 TTTTTTTATT
* *
90825752 TTATTATTTTTACTA-T-TATT-TATA
1 TTATTATTTATATTATTATATTATATA
* *
90825776 TTATTA-TTAT-TTCTTAT-GTATATA
1 TTATTATTTATATTATTATATTATATA
90825800 TTATTATTTATATTATTATATTATATA
1 TTATTATTTATATTATTATATTATATA
90825827 T
1 T
90825828 ACCATCTCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
22 1 0.03
23 5 0.12
24 17 0.43
25 4 0.10
26 6 0.15
27 7 0.17
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (27 bp):
TTATTATTTATATTATTATATTATATA
Found at i:90826075 original size:16 final size:17
Alignment explanation
Indices: 90826049--90826090 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
90826039 ATATATTAGT
* *
90826049 GTATATTTTTATGTATA
1 GTATATGTTTATATATA
90826066 -TATATGTTTATATATA
1 GTATATGTTTATATATA
90826082 GTAT-TGTTT
1 GTATATGTTT
90826091 TTTATTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.60
Consensus pattern (17 bp):
GTATATGTTTATATATA
Found at i:90828126 original size:19 final size:19
Alignment explanation
Indices: 90828102--90828147 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
90828092 CTTCCTTTCT
*
90828102 TTTGCATT-CATTTCATGCA
1 TTTGCATTGCATTGCAT-CA
*
90828121 TTTGCATTGCATTGCATTA
1 TTTGCATTGCATTGCATCA
90828140 TTTGCATT
1 TTTGCATT
90828148 AAGCTTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (19 bp):
TTTGCATTGCATTGCATCA
Found at i:90836323 original size:42 final size:42
Alignment explanation
Indices: 90836183--90836938 Score: 186
Period size: 44 Copynumber: 17.5 Consensus size: 42
90836173 GGCCTTAAAC
* ** *
90836183 CCCTAAGCAGTAGGGTAACAGACCGAATTGTAGATCTTATTT
1 CCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCT
* *** * * *
90836225 CCCTAAGCAGTAGTGG-AGCAGATTGAA-GACGAAGGGTCTTAAAC-
1 CCCTAAGCAGTAG-GGTAACAGACCAAATTAC--A-GATCTT-ATCT
*
90836269 CCCTAAGCAGTAGGGTAACAGACCAATTTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCT
* * * * * *
90836311 CCCTAAGTAGTAGTGG-AGCAGATCGAAGATGA-AGGGTCTTAAAC-
1 CCCTAAGCAGTAG-GGTAACAGA-CCAA-ATTACA-GATCTT-ATCT
*
90836355 CCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCT
* * * ** *
90836397 CCCTAAGCAGTAGTGG-AGCAGATCAAA-GACGAAGGGCCTTAAAC-
1 CCCTAAGCAGTAG-GGTAACAGACCAAATTAC--A-GATCTT-ATCT
* * * * * *
90836441 CCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAACC
1 CCCTAAGCAGTAGGGTAACAGAC-CAAATTACAGATCTTATCT
* * * * * * *
90836484 CCCTATGCAGTAGGGAAACAGATCGAAGA-CAAAGGGTCTTAAAC-
1 CCCTAAGCAGTAGGGTAACAGA-CCAA-ATTACA-GATCTT-ATCT
*
90836528 CCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCT
* * * * * * *
90836570 CCCTAAACAGTAGTGG-AGCAGATCGAA-GACGAAGGGTCTTAAAC-
1 CCCTAAGCAGTAG-GGTAACAGACCAAATTAC--A-GATCTT-ATCT
* * * *
90836614 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCC
1 CCCTAAGCAGTAGGGTAACAGAC-CAAATTACAGATCTTATCT
* * * * ** *
90836657 CCCTAAACAGTAGTGG-AGCAGATCGAA-GGC-GATAGCCTTAAC-
1 CCCTAAGCAGTAG-GGTAACAGACCAAATTACAGAT---CTTATCT
* * * * * *
90836699 CCTCTAAGCAGTAGGGTAGCAGGCTAAATTTACAAATCTTAACC
1 CC-CTAAGCAGTAGGGTAACAGACCAAA-TTACAGATCTTATCT
* * * * ** *
90836743 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATAGGCCTTAAAC-
1 CCCTAAGCAGTAGGGTAACAGA-CCAA-ATTACAGATCTT-ATCT
*** * *
90836787 CCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTTAAC-
1 CCCTAAGCAGTAGGGTAACA-GACCAAATTACAGATCTTATCT
* *** ** * * *
90836829 CCCTTAAGCAGTAGGGAAACAGATTGAA-GGCGATGGACCTTAACC
1 CCC-TAAGCAGTAGGGTAACAGACCAAATTAC-A--GATCTTATCT
* * * * *
90836874 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACC
1 CCCTAAGCAGTAGGGTAACAGAC-CAAATTACAGATCTTATCT
*
90836917 CCCTAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGA
90836939 TCGAAGGCGA
Statistics
Matches: 518, Mismatches: 135, Indels: 121
0.67 0.17 0.16
Matches are distributed among these distances:
40 3 0.01
41 10 0.02
42 118 0.23
43 177 0.34
44 178 0.34
45 26 0.05
46 6 0.01
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCT
Found at i:90836494 original size:43 final size:43
Alignment explanation
Indices: 90836434--90837270 Score: 414
Period size: 43 Copynumber: 19.4 Consensus size: 43
90836424 GACGAAGGGC
* *
90836434 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTCCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * * *** * *
90836477 CTTAACCCCCTATGCAGTAGGGAAACA-GATCGAAGACAAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAATTTACA-GAT
* * * * *
90836521 CTTAAACCCCTAAGCAGTAGGGTAACAGAC-CAAATTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * * * * * *
90836563 CTTATCTCCCTAAACAGTAGTGG-AGCA-GATCGAA--GACGAAGGGT
1 CTTAACCCCCTAAGCAGTAG-GGTAACAGGCT-GAATTTAC--A-GAT
*
90836607 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * * * *** * *
90836650 CTTATCCCCCTAAACAGTAGTGG-AGCA-GATCGAAGGCGATAG-C
1 CTTAACCCCCTAAGCAGTAG-GGTAACAGGCT-GAA-TTTACAGAT
* * * *
90836693 CTTAACCCTCTAAGCAGTAGGGTAGCAGGCTAAATTTACAAAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * * * * **
90836736 CTTAACCCCCTAAGCAGTAGGGAAACA-GATCGAAGATGATAGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGAT
* *
90836780 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * ** *** ** *
90836823 CTTAACCCCTTAAGCAGTAGGGAAACAGATTGAAGGCGATGGAC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAA-TTTACAGAT
90836867 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * *** ** **
90836910 CTTAACCCCCTAAGCAGTAGGGAAACA-GATCGAAGGCGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGAT
*
90836954 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * * * **
90836997 CTTAACCCCCTAAGCAATAGGGAAACA-GATCAA-AGAC-GAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
* * *
90837037 AAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTTACAG--
1 ----CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
** * * * * *
90837082 ----A--CCCTAAATAGTAGGGAAACA-GATCGAAGGTGACA-AGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGA-T
*
90837120 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTG-A-ATTTACAGAT
* * * * * *
90837165 CTTAAACCCGCTAAGCAGTAGGGAAACA-GATCGAAGGTGACA-AGC
1 CTT-AACCCCCTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGA-T
* *
90837210 CTTAA-CCCCTAAACAGTAGGGTAACAGGCTAAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
*
90837252 CTTAACACCCTAAGCAGTA
1 CTTAACCCCCTAAGCAGTA
90837271 AGGAAATAGA
Statistics
Matches: 574, Mismatches: 165, Indels: 110
0.68 0.19 0.13
Matches are distributed among these distances:
34 2 0.00
35 19 0.03
36 4 0.01
37 1 0.00
40 3 0.01
41 3 0.01
42 47 0.08
43 236 0.41
44 200 0.35
45 30 0.05
46 28 0.05
47 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
Found at i:90836519 original size:87 final size:87
Alignment explanation
Indices: 90836119--90837329 Score: 1349
Period size: 87 Copynumber: 14.0 Consensus size: 87
90836109 CTAGAATCAG
* * * * * ** *
90836119 TGAATTTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAAATCGAGGTTGATGGGCCTTAAACC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACC
*
90836184 CCTAAGCAGTAGGGTAACAGAC
66 CCTAAGCAGTAGGGTAACAGGC
* *** * * *
90836206 CGAATTGT--AGATCTTATTTCCCTAAGCAGTAGTGG-AGCAGATTGAAGACGAAGGGTCTTAAA
1 TGAATT-TACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAA
*
90836268 CCCCTAAGCAGTAGGGTAACAGAC
64 CCCCTAAGCAGTAGGGTAACAGGC
* * * * * * *
90836292 -CAATTTACAGATCTTATCTCCCTAAGTAGTAGTGG-AGCAGATCGAAGATGAAGGGTCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAAC
*
90836355 CCCTAAGCAGTAGGGTAACAGAC
65 CCCTAAGCAGTAGGGTAACAGGC
* * * * * * *
90836378 -CAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCAAAGACGAAGGGCCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAAC
90836441 CCCTAAGCAGTAGGGTAACAGGC
65 CCCTAAGCAGTAGGGTAACAGGC
* * * *
90836464 TGAATTTCCAGATCTTAACCCCCTATGCAGTAGGGAAACAGATCGAAGACAAAGGGTCTTAAACC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACC
*
90836529 CCTAAGCAGTAGGGTAACAGAC
66 CCTAAGCAGTAGGGTAACAGGC
* * * * * * * *
90836551 -CAAATTGCAGATCTTATCTCCCTAAACAGTAGTGG-AGCAGATCGAAGACGAAGGGTCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAAC
90836614 CCCTAAGCAGTAGGGTAACAGGC
65 CCCTAAGCAGTAGGGTAACAGGC
* * * *
90836637 TGAATTTACAGATCTTATCCCCCTAAACAGTAGTGG-AGCAGATCGAAGGCGATA--GCCTT-AA
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGA-AGGGCCTTAAA
*
90836698 CCCTCTAAGCAGTAGGGTAGCAGGC
64 CCC-CTAAGCAGTAGGGTAACAGGC
* * *
90836723 TAAATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATA-GGCCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGCCTTAAAC
*
90836787 CCCTAAGCAGTAGGGTAACAGGT
65 CCCTAAGCAGTAGGGTAACAGGC
* * * * * *
90836810 TGAATTTACAGATCTTAACCCCTTAAGCAGTAGGGAAACAGATTGAAGGCGATGGACCTTAACCC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACC
90836875 CCTAAGCAGTAGGGTAACAGGC
66 CCTAAGCAGTAGGGTAACAGGC
* *
90836897 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAACC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACC
90836962 CCTAAGCAGTAGGGTAACAGGC
66 CCTAAGCAGTAGGGTAACAGGC
* * *
90836984 TGAATTTACAGATCTTAACCCCCTAAGCAATAGGGAAACAGATCAAAGACGATA-AGCCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGCCTTAAAC
*
90837048 CCCTAAGCAGTAGGGTAACAGGT
65 CCCTAAGCAGTAGGGTAACAGGC
* ** ** *
90837071 TAAATTTACAG------A--CCCTAAATAGTAGGGAAACAGATCGAAGGTGACA-AGCCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGCCTTAAAC
90837127 CCCTAAGCAGTAGGGTAACAGGC
65 CCCTAAGCAGTAGGGTAACAGGC
* ** *
90837150 TGAAGATTTACAGATCTTAAACCCGCTAAGCAGTAGGGAAACAGATCGAAGGTGACA-AGCCTT-
1 TG-A-ATTTACAGATCTT-AACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGCCTTA
*
90837213 AACCCCTAAACAGTAGGGTAACAGGC
62 AACCCCTAAGCAGTAGGGTAACAGGC
* * * * *
90837239 TAAATTTACAGATCTTAACACCCTAAGCAGTAAGGAAATAGATCGAAGACGATGGGCCTTAAACC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACC
* *
90837304 CCTAAGCAGTAGGGTACCAAGC
66 CCTAAGCAGTAGGGTAACAGGC
90837326 TGAA
1 TGAA
90837330 AATTACAACT
Statistics
Matches: 990, Mismatches: 106, Indels: 56
0.86 0.09 0.05
Matches are distributed among these distances:
79 60 0.06
80 1 0.00
81 9 0.01
84 1 0.00
85 11 0.01
86 397 0.40
87 439 0.44
88 9 0.01
89 26 0.03
90 37 0.04
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (87 bp):
TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACC
CCTAAGCAGTAGGGTAACAGGC
Found at i:90836566 original size:173 final size:172
Alignment explanation
Indices: 90836119--90837329 Score: 1305
Period size: 173 Copynumber: 7.0 Consensus size: 172
90836109 CTAGAATCAG
* * * * * *** *
90836119 TGAATTTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAAATCGAGGTTGATGGGCCTTAAACC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACAAAGGGCCTTAAACC
* * ** ** * *
90836184 CCTAAGCAGTAGGGTAACAGACCGAATTGTAGATCTTATTTCCCTAAGCAGTAGTGGAGCAGATT
66 CCTAAGCAGTAGGGTAACAGGCCAAATTACAGATCTTAACTCCCTAAGCAGTAG-GGAACAGATC
* *
90836249 GAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGAC
130 GAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * * * ** *
90836292 -CAATTTACAGATCTTATCTCCCTAAGTAGTAGTGG-AGCAGATCGAAGATGAAGGGTCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACAAAGGGCCTTAAAC
* * * *
90836355 CCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
65 CCCTAAGCAGTAGGGTAACAGGCCAAATTACAGATCTTAACTCCCTAAGCAGTAG-GGAACAGAT
*
90836420 CAAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
129 CGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * *
90836464 TGAATTTCCAGATCTTAACCCCCTATGCAGTAGGGAAACAGATCGAAGACAAAGGGTCTTAAACC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACAAAGGGCCTTAAACC
* * * * *
90836529 CCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATC
66 CCTAAGCAGTAGGGTAACAGGCCAAATTACAGATCTTAACTCCCTAAGCAGTAG-GGAACAGATC
*
90836594 GAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGGC
130 GAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * * *
90836637 TGAATTTACAGATCTTATCCCCCTAAACAGTAGTGG-AGCAGATCGAAGGCGATA--GCCTT-AA
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGAC-AAAGGGCCTTAAA
* * * *
90836698 CCCTCTAAGCAGTAGGGTAGCAGGCTAAATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAACA
64 CCC-CTAAGCAGTAGGGTAACAGGCCAAA-TTACAGATCTTAACTCCCTAAGCAGTAGGG-AACA
* *
90836763 GATCGAAGATGATA-GGCCTTAAACCCCTAAGCAGTAGGGTAACAGGT
126 GATCGAAGACGA-AGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * * * * *
90836810 TGAATTTACAGATCTTAACCCCTTAAGCAGTAGGGAAACAGATTGAAGGCGATGGACCTTAACCC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACAAAGGGCCTTAAACC
* * *
90836875 CCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAT
66 CCTAAGCAGTAGGGTAACAGGC-CAAATTACAGATCTTAACTCCCTAAGCAGTAGGG-AACAGAT
* *
90836940 CGAAGGCGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
129 CGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* *
90836984 TGAATTTACAGATCTTAACCCCCTAAGCAATAGGGAAACAGATCAAAGACGATAA--GCCTTAAA
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGAC-A-AAGGGCCTTAAA
** **
90837047 CCCCTAAGCAGTAGGGTAACAGG-----TTA-A-AT-TTACAGACCCTAAATAGTAGGGAAACAG
64 CCCCTAAGCAGTAGGGTAACAGGCCAAATTACAGATCTTA-ACTCCCTAAGCAGTAGGG-AACAG
** *
90837104 ATCGAAGGTGACA-AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
127 ATCGAAGACGA-AGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
*
90837150 TGAAGATTTACAGATCTTAAACCCGCTAAGCAGTAGGGAAACAGATCGAAGGTGAC-AA--GCCT
1 TG-A-ATTTACAGATCTT-AACCCCCTAAGCAGTAGGGAAACAGATCGAA---GACAAAGGGCCT
* * * *
90837212 T-AACCCCTAAACAGTAGGGTAACAGGCTAAATTTACAGATCTTAACACCCTAAGCAGTAAGGAA
60 TAAACCCCTAAGCAGTAGGGTAACAGGCCAAA-TTACAGATCTTAACTCCCTAAGCAGT-AGGGA
* * * *
90837276 ATAGATCGAAGACGATGGGCCTTAAACCCCTAAGCAGTAGGGTACCAAGC
123 ACAGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
90837326 TGAA
1 TGAA
90837330 AATTACAACT
Statistics
Matches: 905, Mismatches: 97, Indels: 71
0.84 0.09 0.07
Matches are distributed among these distances:
165 3 0.00
166 66 0.07
167 2 0.00
168 40 0.04
169 35 0.04
171 5 0.01
172 188 0.21
173 310 0.34
174 183 0.20
175 8 0.01
176 59 0.07
177 6 0.01
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (172 bp):
TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACAAAGGGCCTTAAACC
CCTAAGCAGTAGGGTAACAGGCCAAATTACAGATCTTAACTCCCTAAGCAGTAGGGAACAGATCG
AAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
Found at i:90837878 original size:30 final size:30
Alignment explanation
Indices: 90837841--90837927 Score: 147
Period size: 30 Copynumber: 2.9 Consensus size: 30
90837831 CAAAACCCTA
90837841 ACCACCTTGCCTCCCACTTGTACCTACTCC
1 ACCACCTTGCCTCCCACTTGTACCTACTCC
*
90837871 ACTACCTTGCCTCCCACTTGTACCTACTCC
1 ACCACCTTGCCTCCCACTTGTACCTACTCC
* *
90837901 ACCACCTTGTCTCCCACTTGCACCTAC
1 ACCACCTTGCCTCCCACTTGTACCTAC
90837928 ACCATCAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.17, C:0.48, G:0.07, T:0.28
Consensus pattern (30 bp):
ACCACCTTGCCTCCCACTTGTACCTACTCC
Found at i:90838451 original size:9 final size:9
Alignment explanation
Indices: 90838422--90838499 Score: 54
Period size: 9 Copynumber: 8.6 Consensus size: 9
90838412 GAGCTTTGTT
90838422 TTATTTTT-
1 TTATTTTTA
90838430 TTA-TTTTA
1 TTATTTTTA
90838438 TTATTTTTA
1 TTATTTTTA
*
90838447 CTATTATTTA
1 TTATT-TTTA
*
90838457 -TATTATTA
1 TTATTTTTA
*
90838465 TTATTTCTCA
1 TTATTT-TTA
*
90838475 TGTATATATTA
1 T-TAT-TTTTA
*
90838486 TTATTTATA
1 TTATTTTTA
90838495 TTATT
1 TTATT
90838500 ATATTATATA
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
7 4 0.07
8 9 0.16
9 25 0.45
10 10 0.18
11 6 0.11
12 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (9 bp):
TTATTTTTA
Found at i:90838496 original size:12 final size:12
Alignment explanation
Indices: 90838429--90838508 Score: 74
Period size: 12 Copynumber: 6.6 Consensus size: 12
90838419 GTTTTATTTT
*
90838429 TTTATTTTATTA
1 TTTATATTATTA
* *
90838441 TTTTTACTATTA
1 TTTATATTATTA
90838453 TTTATATTATTA
1 TTTATATTATTA
* *
90838465 -TTAT-TTCTCA
1 TTTATATTATTA
90838475 TGTATATATTATTA
1 T-T-TATATTATTA
90838489 TTTATATTATTA
1 TTTATATTATTA
90838501 TATTATAT
1 T-TTATAT
90838509 ATACCCTCTC
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
10 4 0.07
11 4 0.07
12 31 0.57
13 10 0.19
14 5 0.09
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:90840196 original size:16 final size:16
Alignment explanation
Indices: 90840177--90840211 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
90840167 TATTTCTGTT
90840177 TTTATTTAAATTTA-AA
1 TTTATTT-AATTTAGAA
90840193 TTTATTTAATTTAGAA
1 TTTATTTAATTTAGAA
90840209 TTT
1 TTT
90840212 TATATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
TTTATTTAATTTAGAA
Found at i:90840220 original size:9 final size:9
Alignment explanation
Indices: 90840208--90840354 Score: 65
Period size: 9 Copynumber: 16.4 Consensus size: 9
90840198 TTAATTTAGA
90840208 ATTTTATAT
1 ATTTTATAT
**
90840217 ATTTTATGG
1 ATTTTATAT
*
90840226 ATTTATATAC
1 ATTT-TATAT
* *
90840236 ATTTTTTAAG
1 ATTTTAT-AT
90840246 ATTTTATAT
1 ATTTTATAT
*
90840255 ATTTT-TCT
1 ATTTTATAT
90840263 ATTTT-TAT
1 ATTTTATAT
*
90840271 A-ATT-T-T
1 ATTTTATAT
* *
90840277 -TTTTAAAA
1 ATTTTATAT
*
90840285 ATTTATACAT
1 ATTT-TATAT
*
90840295 ATTTGATACT
1 ATTTTATA-T
*
90840305 TTTTTATAT
1 ATTTTATAT
*
90840314 -TTTTAGAT
1 ATTTTATAT
90840322 ATTTTACATAT
1 ATTTT--ATAT
*
90840333 ATTTTATAG
1 ATTTTATAT
90840342 ATTTTATAT
1 ATTTTATAT
90840351 ATTT
1 ATTT
90840355 ATTTCTATTT
Statistics
Matches: 103, Mismatches: 24, Indels: 22
0.69 0.16 0.15
Matches are distributed among these distances:
6 3 0.03
7 3 0.03
8 17 0.17
9 44 0.43
10 28 0.27
11 8 0.08
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.61
Consensus pattern (9 bp):
ATTTTATAT
Found at i:90840461 original size:26 final size:26
Alignment explanation
Indices: 90840401--90840465 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 26
90840391 TTATTTATAT
**
90840401 TTATATTTTTTATAATGTTTTAAA-A
1 TTATATTTTTTATAATGTTAGAAATA
*
90840426 TTGATTTTTTTTATAAT-TTAGAAATA
1 TT-ATATTTTTTATAATGTTAGAAATA
*
90840452 -TATATATTTTATAA
1 TTATATTTTTTATAA
90840466 AAGAAATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
24 11 0.33
25 8 0.24
26 14 0.42
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (26 bp):
TTATATTTTTTATAATGTTAGAAATA
Found at i:90842634 original size:286 final size:291
Alignment explanation
Indices: 90842149--90842774 Score: 820
Period size: 286 Copynumber: 2.1 Consensus size: 291
90842139 TGTCATAATC
* * *
90842149 TAGTGTTGATAATATTGTTGATTGAGTTGGTGTCATAAGCTAACTCAACATTAACTCAAGATTCA
1 TAGTATTGATAAT-GTGTTGATTGAGTTGGTGTC---A-C-AACGCAACATTAACTCAAGATTCA
* *
90842214 TGATAAAAATTTTTGTTCATTTAATATTCTTAATTTGATGTATTTACATATTTAAATTTTATTTT
60 TGATAAAAATTTTTGTACATTCAATATTCTTAATTTGATGTATTTA-ATATTTAAATTTTATTTT
* *
90842279 ACTCACAATTTAATCTATTTCTTCATTTTAATATCATATATACTTAATGTGTTATTATTAATCAA
124 ACTCACAATTTAATCTATTTCTTCATTTTAATATCATACATACTTAATGTATTATTATTAATCAA
90842344 TTTCAAACCATAAGTTTCATTATATCATATGTTATTTTTAAATACCCCTATGTGTTCT-A-A-AA
189 TTTCAAACCATAAGTTTCATTATATCATATGTTATTTTTAAATACCCCTATGTGTTCTAAGACAA
*
90842406 A-TG-TAGTTTCCACGTGCATACACAAATGATAGAATTTT
254 AGTGATAGTTTCCAC--GCATACACAAATGATAAAATTTT
*
90842444 TAGTATTGATAATGTGGTTGATTGAGTTGGTGTCACAA-GCAACATTAGCTCAAGATTCATGATA
1 TAGTATTGATAATGT-GTTGATTGAGTTGGTGTCACAACGCAACATTAACTCAAGATTCATGATA
* * * * *
90842508 AACAATTTTTGTACATTCAGTATTCTTAATTTGATGTATTT-TTGTTTAAATTTTGTTTTGCTCA
65 AA-AATTTTTGTACATTCAATATTCTTAATTTGATGTATTTAATATTTAAATTTTATTTTACTCA
* * * *
90842572 CAATTT-ATTTATTTTTTC-TTTTAATATCATACATATTTAATGTATTATTATTAATTAATTTCA
129 CAATTTAATCTATTTCTTCATTTTAATATCATACATACTTAATGTATTATTATTAATCAATTTCA
* * *
90842635 AATCATACGTTTTATTATATCATATGTTATTTTTAAATACCCCTATGTGTTCTAAGTACGTAAAG
194 AACCATAAGTTTCATTATATCATATGTTATTTTTAAATACCCCTATGTGTTCTAAG-AC--AAAG
* *
90842700 TGCATAGTTTCCTCGCATACACGAATGATAAAATTTT
256 TG-ATAGTTTCCACGCATACACAAATGATAAAATTTT
* *
90842737 TAGTATTGATAATAGTATTGATTGAATTGGTGTCACAA
1 TAGTATTGATAAT-GTGTTGATTGAGTTGGTGTCACAA
90842775 ATCAACTTAA
Statistics
Matches: 294, Mismatches: 25, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
286 91 0.31
287 11 0.04
288 25 0.09
289 27 0.09
290 37 0.13
291 1 0.00
292 4 0.01
293 56 0.19
294 3 0.01
295 39 0.13
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (291 bp):
TAGTATTGATAATGTGTTGATTGAGTTGGTGTCACAACGCAACATTAACTCAAGATTCATGATAA
AAATTTTTGTACATTCAATATTCTTAATTTGATGTATTTAATATTTAAATTTTATTTTACTCACA
ATTTAATCTATTTCTTCATTTTAATATCATACATACTTAATGTATTATTATTAATCAATTTCAAA
CCATAAGTTTCATTATATCATATGTTATTTTTAAATACCCCTATGTGTTCTAAGACAAAGTGATA
GTTTCCACGCATACACAAATGATAAAATTTT
Found at i:90845241 original size:20 final size:18
Alignment explanation
Indices: 90845218--90845269 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
90845208 ATGTTTCTAT
90845218 TAATATTTATTTTGTTATTC
1 TAATATTTATTTT-TTA-TC
*
90845238 TAATACTATTATTATTTATC
1 TAATA-T-TTATTTTTTATC
*
90845258 TAATTTTTATTT
1 TAATATTTATTT
90845270 ATCTATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 5 0.19
19 1 0.04
20 11 0.41
21 4 0.15
22 6 0.22
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (18 bp):
TAATATTTATTTTTTATC
Found at i:90845269 original size:15 final size:14
Alignment explanation
Indices: 90845243--90845329 Score: 61
Period size: 15 Copynumber: 6.0 Consensus size: 14
90845233 TATTCTAATA
*
90845243 CTATTATTATTTAT
1 CTATTTTTATTTAT
90845257 CTAATTTTTATTTAT
1 CT-ATTTTTATTTAT
* *
90845272 CTATTTATATTTCT
1 CTATTTTTATTTAT
*
90845286 ACTATTATTATATT-T
1 -CTATTTTTAT-TTAT
90845301 CTATTTATTATATT-T
1 CTATTT-TTAT-TTAT
* *
90845316 TTATTTCTATTTAT
1 CTATTTTTATTTAT
90845330 ATACTAATAT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
13 2 0.03
14 21 0.35
15 35 0.58
16 2 0.03
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (14 bp):
CTATTTTTATTTAT
Found at i:90845282 original size:14 final size:15
Alignment explanation
Indices: 90845250--90845283 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
90845240 ATACTATTAT
*
90845250 TATTTATCTAATTTT
1 TATTTATCTAATTTA
90845265 TATTTATCT-ATTTA
1 TATTTATCTAATTTA
90845279 TATTT
1 TATTT
90845284 CTACTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTATCTAATTTA
Found at i:90845282 original size:29 final size:29
Alignment explanation
Indices: 90845250--90845308 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
90845240 ATACTATTAT
*
90845250 TATTTAT-CTAATTTTTAT-TTATCTATTTA
1 TATTTATACT-ATTATTATATT-TCTATTTA
*
90845279 TATTTCTACTATTATTATATTTCTATTTA
1 TATTTATACTATTATTATATTTCTATTTA
90845308 T
1 T
90845309 TATATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.64
Consensus pattern (29 bp):
TATTTATACTATTATTATATTTCTATTTA
Found at i:90845298 original size:17 final size:15
Alignment explanation
Indices: 90845276--90845321 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
90845266 ATTTATCTAT
90845276 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
90845293 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
90845308 TTATATTTTTATTT
1 TTATATTTCTATTT
90845322 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Done.