Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold7
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: 6555642
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 349864 characters in sequence are not A, C, G, or T
File 3 of 37
Found at i:319247 original size:9 final size:9
Alignment explanation
Indices: 319233--319307 Score: 53
Period size: 9 Copynumber: 7.7 Consensus size: 9
319223 TCGTACCCTA
319233 AAAAAAACC
1 AAAAAAACC
319242 AAAAAAAACC
1 -AAAAAAACC
*
319252 AAAAAATCC
1 AAAAAAACC
*
319261 AAGAAAAAAAACA
1 ----AAAAAAACC
319274 AAAAAAACC
1 AAAAAAACC
*
319283 AAAAACAAAC
1 AAAAA-AACC
319293 AAAACAAA-C
1 AAAA-AAACC
319302 AAAAAA
1 AAAAAA
319308 CAAGCAAACA
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
8 2 0.04
9 26 0.48
10 18 0.33
11 1 0.02
13 7 0.13
ACGTcount: A:0.80, C:0.17, G:0.01, T:0.01
Consensus pattern (9 bp):
AAAAAAACC
Found at i:319247 original size:10 final size:10
Alignment explanation
Indices: 319232--319321 Score: 78
Period size: 10 Copynumber: 8.8 Consensus size: 10
319222 TTCGTACCCT
319232 AAAAAAAACC
1 AAAAAAAACC
319242 AAAAAAAACC
1 AAAAAAAACC
*
319252 -AAAAAATCC
1 AAAAAAAACC
*
319261 AAGAAAAAAAAC
1 -A-AAAAAAACC
319273 AAAAAAAACC
1 AAAAAAAACC
319283 AAAAACAAA-C
1 AAAAA-AAACC
*
319293 AAAACAAA-C
1 AAAAAAAACC
*
319302 AAAAAACAAGC
1 AAAAAA-AACC
319313 AAACAAAAA
1 AAA-AAAAA
319322 AGGGGTCCAG
Statistics
Matches: 67, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
9 17 0.25
10 30 0.45
11 10 0.15
12 10 0.15
ACGTcount: A:0.79, C:0.18, G:0.02, T:0.01
Consensus pattern (10 bp):
AAAAAAAACC
Found at i:319257 original size:20 final size:19
Alignment explanation
Indices: 319232--319321 Score: 83
Period size: 19 Copynumber: 4.4 Consensus size: 19
319222 TTCGTACCCT
319232 AAAAAAAACCAAAAAAAAC
1 AAAAAAAACCAAAAAAAAC
* *
319251 CAAAAAATCCAAGAAAAAAAAC
1 AAAAAAAACC---AAAAAAAAC
319273 AAAAAAAACCAAAAACAAAC
1 AAAAAAAACCAAAAA-AAAC
*
319293 AAAACAAA-CAAAAAACAAGC
1 AAAAAAAACCAAAAAA-AA-C
319313 AAACAAAAA
1 AAA-AAAAA
319322 AGGGGTCCAG
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
18 1 0.02
19 21 0.36
20 15 0.26
21 4 0.07
22 17 0.29
ACGTcount: A:0.79, C:0.18, G:0.02, T:0.01
Consensus pattern (19 bp):
AAAAAAAACCAAAAAAAAC
Found at i:319267 original size:22 final size:22
Alignment explanation
Indices: 319242--319301 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
319232 AAAAAAAACC
* *
319242 AAAAAAAACCAAAAAATCCAAG
1 AAAAAAAACAAAAAAAACCAAG
319264 AAAAAAAACAAAAAAAACC-A-
1 AAAAAAAACAAAAAAAACCAAG
* *
319284 AAAACAAACAAAACAAAC
1 AAAAAAAACAAAAAAAAC
319302 AAAAAACAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 16 0.47
21 1 0.03
22 17 0.50
ACGTcount: A:0.78, C:0.18, G:0.02, T:0.02
Consensus pattern (22 bp):
AAAAAAAACAAAAAAAACCAAG
Found at i:319286 original size:15 final size:13
Alignment explanation
Indices: 319264--319322 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
319254 AAAATCCAAG
319264 AAAAAAAACAAA-
1 AAAAAAAACAAAC
*
319276 AAAAACCAA-AAAC
1 AAAAA-AAACAAAC
*
319289 AAACAAAACAAAC
1 AAAAAAAACAAAC
319302 AAAAAACAAGCAAAC
1 AAAAAA-AA-CAAAC
319317 AAAAAA
1 AAAAAA
319323 GGGGTCCAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 10 0.26
13 15 0.39
14 2 0.05
15 11 0.29
ACGTcount: A:0.81, C:0.17, G:0.02, T:0.00
Consensus pattern (13 bp):
AAAAAAAACAAAC
Found at i:319286 original size:16 final size:16
Alignment explanation
Indices: 319267--319297 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
319257 ATCCAAGAAA
319267 AAAAACAAAAAAAACC
1 AAAAACAAAAAAAACC
*
319283 AAAAACAAACAAAAC
1 AAAAACAAAAAAAAC
319298 AAACAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAACAAAAAAAACC
Found at i:320630 original size:28 final size:28
Alignment explanation
Indices: 320537--321157 Score: 496
Period size: 28 Copynumber: 21.4 Consensus size: 28
320527 CATCTCTTCA
* * *
320537 AAAGCTCACAGGTCAGTGGCA-TCTTCTC
1 AAAGCCCACAAGTCAGTGGCACCCTT-TC
* * * *
320565 GAAGCCCACAAGTCTGTGGCATCTCTTTA
1 AAAGCCCACAAGTCAGTGGCA-CCCTTTC
* **
320594 AAAGGCCACAAGTTGGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
*
320622 AAAGCCCACACAAGT-AGGTGGCAACTCTTTTC
1 AAAG-CC-CACAAGTCA-GTGGC-AC-CCTTTC
* *
320654 AAAGCCCACAAGTCAATGGCA-TCTCTTC
1 AAAGCCCACAAGTCAGTGGCACCCT-TTC
* * *
320682 AAAAGACCACAAGTTAGTGGCATCCTTTC
1 -AAAGCCCACAAGTCAGTGGCACCCTTTC
*
320711 AAAGCCCACAAGTTAGTGGCATACCCTTTC
1 AAAGCCCACAAGTCAGTGGC--ACCCTTTC
* *
320741 AAAGCCCACAAGTCGGTGGTACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* *
320769 AAAGCCCACATAAGTCAGTGGCAACTCTTTTG
1 AAAGCCCAC--AAGTCAGTGGC-AC-CCTTTC
* * * *
320801 AAAACCCATAAGTCAATGGCA-TCTCTTC
1 AAAGCCCACAAGTCAGTGGCACCCT-TTC
* * **
320829 AAAAGACCACAAGTTAGTGGCATTCTTTC
1 -AAAGCCCACAAGTCAGTGGCACCCTTTC
* * *
320858 AAAGTCCACAGGTTAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* * * * *
320886 AAAACTCGCAAGTTAGTGACGTACCCTTTC
1 AAAGCCCACAAGTCAGTG--GCACCCTTTC
* *
320916 AAAGCCCACATAAATCAGTGGCACCCTTCC
1 AAAGCCCAC--AAGTCAGTGGCACCCTTTC
*
320946 AAAGTCCACAAGTCAGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* *
320974 AAAGCTCACAAGTCAGTGACGTACCCTTTC
1 AAAGCCCACAAGTCAGTG--GCACCCTTTC
* *
321004 AAAGCTCACACAAATCAGTGGCACCCTTCC
1 AAAGC-C-CACAAGTCAGTGGCACCCTTTC
* *
321034 AAAGCCCAAAAGTCAGTGCCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* *
321062 AAGGCCCACAAGTCAGTGGCACCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* *
321090 ACAGCCCACAAGTCAGTGGTATCCC-TTC
1 AAAGCCCACAAGTCAGTGGCA-CCCTTTC
*
321118 AAAGCCCACAAGTTAGTGGCATCCCCTTTC
1 AAAGCCCACAAGTCAGTGGCA--CCCTTTC
321148 AAAGCCCACA
1 AAAGCCCACA
321158 CAAGTCGGTG
Statistics
Matches: 478, Mismatches: 84, Indels: 60
0.77 0.14 0.10
Matches are distributed among these distances:
27 2 0.00
28 218 0.46
29 67 0.14
30 146 0.31
31 7 0.01
32 38 0.08
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTC
Found at i:320796 original size:147 final size:142
Alignment explanation
Indices: 320527--321157 Score: 621
Period size: 147 Copynumber: 4.3 Consensus size: 142
320517 CTAGAATGTT
* * * *
320527 CATCTCTTCAAAAGCTCACAGGTCAGTGGCAT-CTTCTCGAAGCCCACAAGTCT-GTGGCATCTC
1 CATCTCTTCAAAAGC-CACAAGTTAGTGGCATCCTT-TCAAAGCCCACAAGT-TAGTGGCA-CCC
* * ** *
320590 TTTAAAAGGCCACAAGTTGGTGGCACCCTTTCAAAGCCCACACAAGT-AGGTGGCAACTCTTTTC
62 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACATAAGTCA-GTGGC-AC-CTTTTC
320654 AAAGCCCACAAGTCAATGG
124 AAAGCCCACAAGTCAATGG
320673 CATCTCTTCAAAAGACCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATACCCT
1 CATCTCTTCAAAAG-CCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGC--ACCCT
* * *
320738 TTCAAAGCCCACAAGTCGGTGGTACCCTTTCAAAGCCCACATAAGTCAGTGGCAACTCTTTTGAA
63 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACATAAGTCAGTGGC-AC-CTTTTCAA
* *
320803 AACCCATAAGTCAATGG
126 AGCCCACAAGTCAATGG
* * *
320820 CATCTCTTCAAAAGACCACAAGTTAGTGGCATTCTTTCAAAGTCCACAGGTTAGTGGCACCCTTT
1 CATCTCTTCAAAAG-CCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTT
* * * * * * * *
320885 CAAAACTCGCAAGTTAGTGACGTACCCTTTCAAAGCCCACATAAATCAGTGGCACCCTTCCAAAG
65 CAAAGCCCACAAGTCAGTG--GCACCCTTTCAAAGCCCACATAAGTCAGTGGCACCTTTTCAAAG
* *
320950 TCCACAAGTCAGTGG
128 CCCACAAGTCAATGG
* * * * * *
320965 CA-CCCTTTC-AAAGCTCACAAGTCAGTGACGTACCCTTTCAAAGCTCACACAAATCAGTGGCAC
1 CATCTC-TTCAAAAGC-CACAAGTTAGTG--GCATCCTTTCAAAGC-C-CACAAGTTAGTGGCAC
* * * *
321028 CCTTCCAAAGCCCAAAAGTCAGTGCCACCCTTTCAAGGCCCAC--AAGTCAGTGGCACCTTTTCA
60 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACATAAGTCAGTGGCACCTTTTCA
* *
321091 CAGCCCACAAGTCAGTGG
125 AAGCCCACAAGTCAATGG
* *
321109 TATCCCTTC-AAAGCCCACAAGTTAGTGGCATCCCCTTTCAAAGCCCACA
1 CATCTCTTCAAAAG-CCACAAGTTAGTGGCAT--CCTTTCAAAGCCCACA
321158 CAAGTCGGTG
Statistics
Matches: 412, Mismatches: 55, Indels: 40
0.81 0.11 0.08
Matches are distributed among these distances:
142 6 0.01
143 2 0.00
144 80 0.19
145 49 0.12
146 76 0.18
147 166 0.40
148 33 0.08
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (142 bp):
CATCTCTTCAAAAGCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTC
AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACATAAGTCAGTGGCACCTTTTCAAAGCCC
ACAAGTCAATGG
Found at i:320950 original size:88 final size:87
Alignment explanation
Indices: 320650--321157 Score: 413
Period size: 88 Copynumber: 5.8 Consensus size: 87
320640 TGGCAACTCT
* * * * * * *
320650 TTTCAAAGCCCAC-AAGTCAATGGCATCTCTTCAAAAGACCACAAGTTAGTGGCATCCTTTCAAA
1 TTTCAAAGCCCACAAAATCAGTGGCA-CCCTTCCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* * * *
320714 GCCCACAAGTTAGTGGCATACCC
65 GCTCACAAGTCAGTGACGTACCC
* * * * * *
320737 TTTCAAAGCCCAC-AAGTCGGTGGTACCCTTTCAAAGCCCACATAAGTCAGTGGCAACTCTTTTG
1 TTTCAAAGCCCACAAAATCAGTGGCACCCTTCCAAAGCCCAC--AAGTCAGTGGC-AC-CCTTTC
* * * * * * *
320801 AAAACCCATAAGTCAATGGCAT-CTC
62 AAAGCTCACAAGTCAGTGACGTACCC
* * * ** * * * *
320826 -TTCAAAAGACCAC-AAGTTAGTGGCATTCTTTCAAAGTCCACAGGTTAGTGGCACCCTTTCAAA
1 TTTC-AAAGCCCACAAAATCAGTGGCACCCTTCCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* * *
320889 ACTCGCAAGTTAGTGACGTACCC
65 GCTCACAAGTCAGTGACGTACCC
*
320912 TTTCAAAGCCCACATAAATCAGTGGCACCCTTCCAAAGTCCACAAGTCAGTGGCACCCTTTCAAA
1 TTTCAAAGCCCACA-AAATCAGTGGCACCCTTCCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
320977 GCTCACAAGTCAGTGACGTACCC
65 GCTCACAAGTCAGTGACGTACCC
* * * *
321000 TTTCAAAGCTCACACAAATCAGTGGCACCCTTCCAAAGCCCAAAAGTCAGTGCCACCCTTTCAAG
1 TTTCAAAGCCCACA-AAATCAGTGGCACCCTTCCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
* * *
321065 GCCCACAAGTCAGTG--GCACCT
65 GCTCACAAGTCAGTGACGTACCC
* * * *
321086 TTTCACAGCCCAC-AAGTCAGTGGTATCCCTT-CAAAGCCCACAAGTTAGTGGCATCCCCTTTCA
1 TTTCAAAGCCCACAAAATCAGTGGCA-CCCTTCCAAAGCCCACAAGTCAGTGGCA--CCCTTTCA
*
321149 AAGCCCACA
63 AAGCTCACA
321158 CAAGTCGGTG
Statistics
Matches: 346, Mismatches: 63, Indels: 25
0.80 0.15 0.06
Matches are distributed among these distances:
84 29 0.08
85 24 0.07
86 55 0.16
87 34 0.10
88 149 0.43
89 33 0.10
90 22 0.06
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (87 bp):
TTTCAAAGCCCACAAAATCAGTGGCACCCTTCCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
CTCACAAGTCAGTGACGTACCC
Found at i:321376 original size:48 final size:48
Alignment explanation
Indices: 321274--321483 Score: 250
Period size: 48 Copynumber: 4.5 Consensus size: 48
321264 TCCGATATCA
* * * * *
321274 CTGGCATTGAATCAGCATATTGTCCACCTTT--ATTAGCTCAATGTC-
1 CTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTACCTCAATGTCG
*
321319 CTTGGCCTTGAATCAGCACATTGTCTACTTTTCCCTTACCTCAATGTCG
1 C-TGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTACCTCAATGTCG
*
321368 CTGGCCTTGAATCAGCACATTGTCTACTTTTCCCTTACCTCAATGTCG
1 CTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTACCTCAATGTCG
** **
321416 CTGGCCTTGAATCAGCACATTGTCCAC--TTCCCTTAGATTGATGTCG
1 CTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTACCTCAATGTCG
* **
321462 TTGGCCTTGAATTGGCACATTG
1 CTGGCCTTGAATCAGCACATTG
321484 GCACTCCTCT
Statistics
Matches: 147, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
45 1 0.01
46 60 0.41
48 85 0.58
49 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (48 bp):
CTGGCCTTGAATCAGCACATTGTCCACTTTTCCCTTACCTCAATGTCG
Found at i:321460 original size:94 final size:93
Alignment explanation
Indices: 321274--321483 Score: 244
Period size: 94 Copynumber: 2.2 Consensus size: 93
321264 TCCGATATCA
* * *
321274 CTGGCATTGAATCAGCATATTGTCCACCTTTATTAGCTCAATGTCCTTGGCCTTGAATCAGCACA
1 CTGGCCTTGAATCAGCACATTGTCCACCTTTATTACCTCAATGTCCTTGGCCTTGAATCAGCACA
* *
321339 TTGTCTACTTTTCCCTTACCTCAATGTCG
66 TTGTCCAC-TTTCCCTTACATCAATGTCG
* * *
321368 CTGGCCTTGAATCAGCACATTGTCTACTTTTCCCTTACCTCAATGTCGC-TGGCCTTGAATCAGC
1 CTGGCCTTGAATCAGCACATTGTCCACCTTT--ATTACCTCAATGTC-CTTGGCCTTGAATCAGC
* **
321432 ACATTGTCCAC-TTCCCTTAGATTGATGTCG
63 ACATTGTCCACTTTCCCTTACATCAATGTCG
* **
321462 TTGGCCTTGAATTGGCACATTG
1 CTGGCCTTGAATCAGCACATTG
321484 GCACTCCTCT
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
94 61 0.62
96 37 0.37
97 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (93 bp):
CTGGCCTTGAATCAGCACATTGTCCACCTTTATTACCTCAATGTCCTTGGCCTTGAATCAGCACA
TTGTCCACTTTCCCTTACATCAATGTCG
Found at i:322222 original size:20 final size:20
Alignment explanation
Indices: 322199--322256 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
322189 TACATGTATG
322199 AATGTATTGATACATTCTTC
1 AATGTATTGATACATTCTTC
*
322219 AATGTATTGATACGTTCTTC
1 AATGTATTGATACATTCTTC
*
322239 AATGTATCGATACATTCT
1 AATGTATTGATACATTCT
322257 ATCTTTTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (20 bp):
AATGTATTGATACATTCTTC
Found at i:329440 original size:29 final size:29
Alignment explanation
Indices: 329398--329454 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
329388 GAAGTGACAA
*
329398 AGAAAGCTCCATGGATGCTCCCTTAGGCC
1 AGAAAGCTCCATGGATGCTCCCTCAGGCC
* *
329427 AGAAAGCTGCATGGATGTTCCCTCAGGC
1 AGAAAGCTCCATGGATGCTCCCTCAGGC
329455 AATCATGTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.25, C:0.28, G:0.26, T:0.21
Consensus pattern (29 bp):
AGAAAGCTCCATGGATGCTCCCTCAGGCC
Found at i:339451 original size:57 final size:57
Alignment explanation
Indices: 339361--339840 Score: 589
Period size: 57 Copynumber: 8.4 Consensus size: 57
339351 ATACGACCCT
* * * * * *
339361 TTTTCAAAAGCTCACGAGTCAGTGGCATTCTTTTTCAAAGCCCATAAGTCAGT-GTACC
1 TTTTC-AAAGCCCACAAGTCAGTGGCA-TCCTTTTCAAAGCCCACAAGTTAGTGGCACC
*
339419 TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTTCAAAGCCCATAAGTTAGT-GCACC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTTCAAAGCCCACAAGTTAGTGGCACC
* *
339476 TTTACAAAGCCCACAAGTTAGTGGCATCCTTTTTCAAAGCCCACAAGTTAGTGGCACC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTTCAAAGCCCACAAGTTAGTGGCACC
*
339534 TTTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTTAGTGGCA-CC
* * * *
339591 -TTTCAAAGCCCATAAGTCAATGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTTAGTGGCACC
* * **
339646 TTTTCAAAACCCACAAGTCAGTGGCAT-CTTTTCAAAACCCACAAGCCAGTGGCATCC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTTAGTGGCA-CC
* * *
339703 TTTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAACTCACAAGTTAGTGGCACC
1 -TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTTAGTGGCACC
* * * * *
339760 TTTTTCAAAGCCCATAAGTTAGTGACA-CCTTTTCAAAGCCCATAAGTTAGTGGCATC
1 -TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTTAGTGGCACC
*
339817 TTTTTAAAGCCCACAAGTCAGTGG
1 TTTTCAAAGCCCACAAGTCAGTGG
339841 TAACCTCTTC
Statistics
Matches: 376, Mismatches: 37, Indels: 20
0.87 0.09 0.05
Matches are distributed among these distances:
55 2 0.01
56 140 0.37
57 151 0.40
58 83 0.22
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (57 bp):
TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTTAGTGGCACC
Found at i:339544 original size:28 final size:28
Alignment explanation
Indices: 339361--339840 Score: 554
Period size: 28 Copynumber: 16.9 Consensus size: 28
339351 ATACGACCCT
* * *
339361 TTTTCAAAAGCTCACGAGTCAGTGGCATTCT
1 TTTTC-AAAGCCCACAAGTCAGTGGCA--CC
* *
339392 TTTTCAAAGCCCATAAGTCAGT-GTACC
1 TTTTCAAAGCCCACAAGTCAGTGGCACC
339419 TTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTTCAAAGCCCACAAGTCAGTGGCA-CC
* *
339448 TTTTTCAAAGCCCATAAGTTAGT-GCACC
1 -TTTTCAAAGCCCACAAGTCAGTGGCACC
* *
339476 TTTACAAAGCCCACAAGTTAGTGGCATCC
1 TTTTCAAAGCCCACAAGTCAGTGGCA-CC
*
339505 TTTTTCAAAGCCCACAAGTTAGTGGCACC
1 -TTTTCAAAGCCCACAAGTCAGTGGCACC
*
339534 TTTTCAAAGCCCACAAGTTAGTGGCACC
1 TTTTCAAAGCCCACAAGTCAGTGGCACC
*
339562 TTTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTTCAAAGCCCACAAGTCAGTGGCA-CC
* *
339591 -TTTCAAAGCCCATAAGTCAATGGCATCC
1 TTTTCAAAGCCCACAAGTCAGTGGCA-CC
*
339619 -TTTCAAAGCCCACAAGTCAGTGGCATC
1 TTTTCAAAGCCCACAAGTCAGTGGCACC
* *
339646 TTTTCAAAACCCACAAGTCAGTGGCATC
1 TTTTCAAAGCCCACAAGTCAGTGGCACC
* *
339674 TTTTCAAAACCCACAAGCCAGTGGCATCC
1 TTTTCAAAGCCCACAAGTCAGTGGCA-CC
339703 TTTTTCAAAGCCCACAAGTCAGTGGCACC
1 -TTTTCAAAGCCCACAAGTCAGTGGCACC
* * * *
339732 CTTTCAAAACTCACAAGTTAGTGGCACC
1 TTTTCAAAGCCCACAAGTCAGTGGCACC
* * *
339760 TTTTTCAAAGCCCATAAGTTAGTGACACC
1 -TTTTCAAAGCCCACAAGTCAGTGGCACC
* * *
339789 TTTTCAAAGCCCATAAGTTAGTGGCATC
1 TTTTCAAAGCCCACAAGTCAGTGGCACC
*
339817 TTTTTAAAGCCCACAAGTCAGTGG
1 TTTTCAAAGCCCACAAGTCAGTGG
339841 TAACCTCTTC
Statistics
Matches: 401, Mismatches: 37, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
27 43 0.11
28 231 0.58
29 39 0.10
30 83 0.21
31 5 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (28 bp):
TTTTCAAAGCCCACAAGTCAGTGGCACC
Found at i:339884 original size:31 final size:31
Alignment explanation
Indices: 339821--339920 Score: 98
Period size: 31 Copynumber: 3.3 Consensus size: 31
339811 GGCATCTTTT
* *
339821 TAAAGCC--CACAAGTCAGTGGTAACCTCTTC
1 TAAAGCCTACACAAGTTAGCGGTAACC-CTTC
* *
339851 TAAAGCCTACATAAGTTGGCGGTAACCCTTC
1 TAAAGCCTACACAAGTTAGCGGTAACCCTTC
* * * *
339882 TAAAGCCCACACGAGTTAGTGGCAACCCTTC
1 TAAAGCCTACACAAGTTAGCGGTAACCCTTC
339913 TAAA-CCTA
1 TAAAGCCTA
339921 ATGTTGCATT
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
30 10 0.18
31 33 0.58
32 14 0.25
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (31 bp):
TAAAGCCTACACAAGTTAGCGGTAACCCTTC
Found at i:340999 original size:20 final size:20
Alignment explanation
Indices: 340974--341090 Score: 126
Period size: 20 Copynumber: 5.8 Consensus size: 20
340964 TTTTTACCCA
340974 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
* * * *
340994 AATGTATCAATACATGTATG
1 AATGTATCGATACATTTTTC
* *
341014 AATGTATTGATATATTTTTTC
1 AATGTATCGATACA-TTTTTC
* * * * *
341035 AGTGTTTCGATACATGTATG
1 AATGTATCGATACATTTTTC
341055 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
341075 AATGTATCGATACATT
1 AATGTATCGATACATT
341091 CTACTTTTTT
Statistics
Matches: 74, Mismatches: 22, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
20 61 0.82
21 13 0.18
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.44
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:341048 original size:41 final size:40
Alignment explanation
Indices: 340974--341089 Score: 178
Period size: 41 Copynumber: 2.9 Consensus size: 40
340964 TTTTTACCCA
*
340974 AATGTATCGATACATTTTTCAATGTATCAATACATGTATG
1 AATGTATCGATACATTTTTCAATGTATCGATACATGTATG
* * * *
341014 AATGTATTGATATATTTTTTCAGTGTTTCGATACATGTATG
1 AATGTATCGATACA-TTTTTCAATGTATCGATACATGTATG
341055 AATGTATCGATACATTTTTCAATGTATCGATACAT
1 AATGTATCGATACATTTTTCAATGTATCGATACAT
341090 TCTACTTTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
40 31 0.47
41 35 0.53
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (40 bp):
AATGTATCGATACATTTTTCAATGTATCGATACATGTATG
Found at i:341124 original size:25 final size:25
Alignment explanation
Indices: 341095--341175 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 25
341085 TACATTCTAC
341095 TTTTTTACCCAGATGTATCGATATA
1 TTTTTTACCCAGATGTATCGATATA
341120 -TTTTT---CA-ATGTATCGATACATTCTA
1 TTTTTTACCCAGATGTATCGAT--A---TA
*
341145 CTTTTTTACCTAGATGTATCGATATA
1 -TTTTTTACCCAGATGTATCGATATA
341171 TTTTT
1 TTTTT
341176 CAATGTATCG
Statistics
Matches: 44, Mismatches: 1, Indels: 22
0.66 0.01 0.33
Matches are distributed among these distances:
20 10 0.23
21 2 0.05
22 1 0.02
24 5 0.11
25 7 0.16
26 2 0.05
27 5 0.11
29 1 0.02
30 1 0.02
31 10 0.23
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (25 bp):
TTTTTTACCCAGATGTATCGATATA
Found at i:341132 original size:20 final size:20
Alignment explanation
Indices: 341107--341188 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
341097 TTTTACCCAG
341107 ATGTATCGATATATTTTTCA
1 ATGTATCGATATATTTTTCA
341127 ATGTATCGATACATTCTACTTTTTTACCTA
1 ATGTATCGAT--A---TA--TTTTT--C-A
341157 GATGTATCGATATATTTTTCA
1 -ATGTATCGATATATTTTTCA
341178 ATGTATCGATA
1 ATGTATCGATA
341189 CATCTAGTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 22
0.70 0.00 0.30
Matches are distributed among these distances:
20 21 0.41
21 1 0.02
22 2 0.04
24 5 0.10
25 2 0.04
26 2 0.04
27 5 0.10
29 2 0.04
30 1 0.02
31 10 0.20
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.46
Consensus pattern (20 bp):
ATGTATCGATATATTTTTCA
Found at i:341132 original size:51 final size:51
Alignment explanation
Indices: 341056--341191 Score: 254
Period size: 51 Copynumber: 2.7 Consensus size: 51
341046 ACATGTATGA
*
341056 ATGTATCGATACATTTTTCAATGTATCGATACATTCTACTTTTTTACCCAG
1 ATGTATCGATATATTTTTCAATGTATCGATACATTCTACTTTTTTACCCAG
*
341107 ATGTATCGATATATTTTTCAATGTATCGATACATTCTACTTTTTTACCTAG
1 ATGTATCGATATATTTTTCAATGTATCGATACATTCTACTTTTTTACCCAG
341158 ATGTATCGATATATTTTTCAATGTATCGATACAT
1 ATGTATCGATATATTTTTCAATGTATCGATACAT
341192 CTAGTTGATT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 83 1.00
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (51 bp):
ATGTATCGATATATTTTTCAATGTATCGATACATTCTACTTTTTTACCCAG
Found at i:345240 original size:20 final size:21
Alignment explanation
Indices: 345215--345267 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 21
345205 AAAAACCTAG
345215 ATGTATCGATACAA-TGATAA-
1 ATGTATCGATACAATTGA-AAC
345235 ATGTATCGATACAATTTGAAAC
1 ATGTATCGATACAA-TTGAAAC
345257 ATGTATCGATA
1 ATGTATCGATA
345268 TATTCATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 14 0.47
21 2 0.07
22 14 0.47
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACAATTGAAAC
Found at i:347887 original size:19 final size:19
Alignment explanation
Indices: 347863--347925 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
347853 AAACAGTAAA
347863 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
347882 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
347895 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
347914 TGTATCGATACA
1 TGTATCGATACA
347926 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:347900 original size:13 final size:13
Alignment explanation
Indices: 347882--347939 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
347872 ACATAAGTGT
347882 TGTATCGATACAA
1 TGTATCGATACAA
347895 TGTATCGATACATAA
1 TGTATCGATAC--AA
347910 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
347927 TGTATCGCTACAA
1 TGTATCGATACAA
347940 AGCTACTGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:347902 original size:32 final size:32
Alignment explanation
Indices: 347861--347938 Score: 147
Period size: 32 Copynumber: 2.4 Consensus size: 32
347851 ACAAACAGTA
347861 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
347893 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
347925 AATGTATCGCTACA
1 AATGTATCGATACA
347939 AAGCTACTGC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:349387 original size:13 final size:12
Alignment explanation
Indices: 349350--349391 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
349340 GAGTTCCCTT
*
349350 AAAAAAAAGAAC
1 AAAAAAAACAAC
*
349362 -AAAAAAATAAC
1 AAAAAAAACAAC
349373 AAAAAAAACATAC
1 AAAAAAAACA-AC
349386 AAAAAA
1 AAAAAA
349392 TGAGTGCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 10 0.38
12 8 0.31
13 8 0.31
ACGTcount: A:0.83, C:0.10, G:0.02, T:0.05
Consensus pattern (12 bp):
AAAAAAAACAAC
Found at i:350719 original size:32 final size:30
Alignment explanation
Indices: 350675--350798 Score: 149
Period size: 32 Copynumber: 4.0 Consensus size: 30
350665 ATCTCTCTTC
350675 TCCAAGTCCACGACTCAGTGGCATCTTTTT
1 TCCAAGTCCACGACTCAGTGGCATCTTTTT
* * *
350705 TCCCAAAGTTCACGAATCAGTAGCATCTTTTT
1 T-CC-AAGTCCACGACTCAGTGGCATCTTTTT
* *
350737 TCTAAGTCCACGACTTAGTGGCATCCTTTTCT
1 TCCAAGTCCACGACTCAGTGGCAT-CTTTT-T
* *
350769 TCCAAGTCCACAACTCAATGGCATCTTTTT
1 TCCAAGTCCACGACTCAGTGGCATCTTTTT
350799 CCTTTTAAGT
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
30 19 0.24
31 13 0.17
32 46 0.59
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (30 bp):
TCCAAGTCCACGACTCAGTGGCATCTTTTT
Found at i:350793 original size:62 final size:62
Alignment explanation
Indices: 350678--350798 Score: 158
Period size: 62 Copynumber: 2.0 Consensus size: 62
350668 TCTCTTCTCC
* *
350678 AAGTCCACGACTCAGTGGCATCTTTTTTCCCAAAGTTCACGAATCAGTAGCATCTTTTTTCT
1 AAGTCCACGACTCAGTGGCATCTTTTTTCCCAAAGTCCACGAATCAATAGCATCTTTTTTCT
* *
350740 AAGTCCACGACTTAGTGGCATCCTTTTCTT-CC-AAGTCCAC-AACTCAATGGCATCTTTTT
1 AAGTCCACGACTCAGTGGCAT-CTTTT-TTCCCAAAGTCCACGAA-TCAATAGCATCTTTTT
350799 CCTTTTAAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
61 2 0.04
62 41 0.79
63 7 0.13
64 2 0.04
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (62 bp):
AAGTCCACGACTCAGTGGCATCTTTTTTCCCAAAGTCCACGAATCAATAGCATCTTTTTTCT
Found at i:350817 original size:33 final size:32
Alignment explanation
Indices: 350675--350831 Score: 99
Period size: 32 Copynumber: 4.9 Consensus size: 32
350665 ATCTCTCTTC
* *
350675 TCCAAGTCCACGACTCAGTGGCAT-CTTTT-T
1 TCCAAGTCCACAACTCAATGGCATCCTTTTCT
* * *
350705 TCCCAAAGTTCACGAA-TCAGTAGCAT-CTTTT-T
1 T-CC-AAGTCCAC-AACTCAATGGCATCCTTTTCT
* * * *
350737 TCTAAGTCCACGACTTAGTGGCATCCTTTTCT
1 TCCAAGTCCACAACTCAATGGCATCCTTTTCT
*
350769 TCCAAGTCCACAACTCAATGGCATCTTTTTCCT
1 TCCAAGTCCACAACTCAATGGCATCCTTTT-CT
** * ** *
350802 TTTAAGTCCATAACTCCGTGGCACCCTTTT
1 TCCAAGTCCACAACTCAATGGCATCCTTTT
350832 AAGTCCATAA
Statistics
Matches: 100, Mismatches: 20, Indels: 11
0.76 0.15 0.08
Matches are distributed among these distances:
29 1 0.01
30 16 0.16
31 8 0.08
32 49 0.49
33 26 0.26
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.35
Consensus pattern (32 bp):
TCCAAGTCCACAACTCAATGGCATCCTTTTCT
Found at i:350837 original size:27 final size:27
Alignment explanation
Indices: 350799--350939 Score: 212
Period size: 27 Copynumber: 5.2 Consensus size: 27
350789 GCATCTTTTT
* *
350799 CCTTTTAAGTCCATAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
*
350826 CCTTTTAAGTCCATAACT-TCGTGGCAC
1 CCTTTTAAGTCCACAACTCT-GTGGCAC
*
350853 CCTTTTAAGCCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
350880 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
*
350907 CCTTTTAAGCCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
*
350934 TCTTTT
1 CCTTTT
350940 TCCTTTTAAG
Statistics
Matches: 106, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
27 105 0.99
28 1 0.01
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.31
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCTGTGGCAC
Found at i:350945 original size:34 final size:34
Alignment explanation
Indices: 350907--351067 Score: 211
Period size: 34 Copynumber: 4.8 Consensus size: 34
350897 TCTGTGGCAC
*
350907 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
*
350941 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * * *
350975 TCTTTTAAGCCCACACCTTCGTGCCATCTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCA-CTCTTTTT
* *
351010 CC-TGTAAGCCCATAACTCCGTGGCAC-C-TTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
*
351041 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
351068 CCCCTTCTAA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
31 6 0.06
32 22 0.20
33 1 0.01
34 71 0.65
35 9 0.08
ACGTcount: A:0.18, C:0.34, G:0.12, T:0.35
Consensus pattern (34 bp):
CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:351120 original size:33 final size:33
Alignment explanation
Indices: 351073--351139 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
351063 GGCACCCCCT
* *
351073 TCTAAAGCCTACACAAGTTGGTGGCAACCATTC
1 TCTAAACCCCACACAAGTTGGTGGCAACCATTC
*
351106 TCTAAACCCCACACAAGTTGGTGGCAACCCTTC
1 TCTAAACCCCACACAAGTTGGTGGCAACCATTC
351139 T
1 T
351140 AAGCCCAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.24
Consensus pattern (33 bp):
TCTAAACCCCACACAAGTTGGTGGCAACCATTC
Found at i:351205 original size:49 final size:48
Alignment explanation
Indices: 351152--351561 Score: 372
Period size: 49 Copynumber: 8.5 Consensus size: 48
351142 GCCCAATATT
* * *
351152 GCTGGCCTTGAATCAACATATTGGCACCTTTGTCTTTAAGACCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCA-CTTTATCTTTAAGACCAATGTC
* *
351201 GCTGGCCTTGAATCAGCACATTGG-----TATCTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCACTTTATCTTTAAGACCAATGTC
* * ** *
351244 CCTAGCCTTGAATCAGCATGTTGGCACCTTTGTCTTTAAGACCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCA-CTTTATCTTTAAGACCAATGTC
* *
351293 GCTGGCCTTGAATCAGCACATTGGCAC-----CTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCACTTTATCTTTAAGACCAATGTC
** *
351336 GCTGGCCTTGAATCAGCATGTTGGCACCTTTGTCTTTAAGACCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCA-CTTTATCTTTAAGACCAATGTC
* * *
351385 GTTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCACTTT-ATCTTTAAGACCAATGTC
** * *
351434 GCTGGCCTTGAATCAGCATGTTGGCGTCTTCGTCATCTTTAAAACCCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGC-ACTT--T-ATCTTTAAGA-CCAATGTC
** * *
351487 ATTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGACTAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCA--CTT-T-ATCTTTAAGACCAATGTC
** *
351539 GCTGATCATGAATCAGCACATTG
1 GCTGGCCTTGAATCAGCACATTG
351562 ACATCCTTTT
Statistics
Matches: 293, Mismatches: 49, Indels: 35
0.78 0.13 0.09
Matches are distributed among these distances:
43 74 0.25
44 1 0.00
48 5 0.02
49 134 0.46
50 3 0.01
52 35 0.12
53 38 0.13
54 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (48 bp):
GCTGGCCTTGAATCAGCACATTGGCACTTTATCTTTAAGACCAATGTC
Found at i:351301 original size:92 final size:92
Alignment explanation
Indices: 351139--351510 Score: 519
Period size: 92 Copynumber: 3.9 Consensus size: 92
351129 GCAACCCTTC
* * * *
351139 TAAGCCCAATATTGCTGGCCTTGAATCAACATATTGGCACCTTTGTCTTTAAGACCAATGTCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGGCACCTTTGTCTTTAAGACCAATGTCGCT
351204 GGCCTTGAATCAGCACATTGGTATCTT
66 GGCCTTGAATCAGCACATTGGTATCTT
* *
351231 TAAGTCCAATATCCCTAGCCTTGAATCAGCATGTTGGCACCTTTGTCTTTAAGACCAATGTCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGGCACCTTTGTCTTTAAGACCAATGTCGCT
* *
351296 GGCCTTGAATCAGCACATTGGCACCTT
66 GGCCTTGAATCAGCACATTGGTATCTT
*
351323 TAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGGCACCTTTGTCTTTAAGACCAATGTCGTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGGCACCTTTGTCTTTAAGACCAATGTCGCT
351388 GGCCTTGAATCAGCACATTGGCACTTTCATCTT
66 GGCCTTGAATCAGCACATTGG-----T-ATCTT
** * *
351421 TAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGGCGTCTTCGTCATCTTTAAAACCCAATGT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGGCACCTT--T-GTCTTTAAGA-CCAATGT
**
351486 CATTGGCCTTGAATCAGCACATTGG
62 CGCTGGCCTTGAATCAGCACATTGG
351511 CATTCTTCTC
Statistics
Matches: 252, Mismatches: 18, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
92 167 0.66
98 45 0.18
100 1 0.00
101 8 0.03
102 31 0.12
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (92 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGGCACCTTTGTCTTTAAGACCAATGTCGCT
GGCCTTGAATCAGCACATTGGTATCTT
Found at i:351511 original size:53 final size:50
Alignment explanation
Indices: 351328--351611 Score: 196
Period size: 49 Copynumber: 5.5 Consensus size: 50
351318 ACCTTTAAGT
* * ** * * *
351328 CCAATATCGCTGGCCTTGAATCAGCATGTTGGCACCTT-T-GTCTTTAAGA
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGC-TCTTCTCATCTTTAAAA
* **
351377 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACTT-TCATCTTTAAGT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCTCTTCTCATCTTTAAAA
* * **
351426 CCAATATCGCTGGCCTTGAATCAGCATGTTGGCGTCTTCGTCATCTTTAAAA
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGC-TCTTC-TCATCTTTAAAA
* * *
351478 CCCAATGTCATTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGA
1 -CCAATGTCGTTGGCCTTGAATCAGCACATTGGC--TCTTCTCATCTTTAAAA
* * ** * * *
351531 CTAATGTCGCTGATCATGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAAC
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGC-T-C---TTCTCATCTTTAAAA
* * * *
351586 CCAATATCATTGACCGTGAATCAGCA
1 CCAATGTCGTTGGCCTTGAATCAGCA
351612 TACTGGTTCC
Statistics
Matches: 186, Mismatches: 39, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
48 4 0.02
49 66 0.35
50 3 0.02
51 1 0.01
52 37 0.20
53 38 0.20
54 5 0.03
55 32 0.17
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.33
Consensus pattern (50 bp):
CCAATGTCGTTGGCCTTGAATCAGCACATTGGCTCTTCTCATCTTTAAAA
Found at i:351606 original size:55 final size:52
Alignment explanation
Indices: 351368--351611 Score: 149
Period size: 53 Copynumber: 4.7 Consensus size: 52
351358 GGCACCTTTG
* * * *
351368 TCTTTAAGA-CCAATGTCGTTGGCCTTGAATCAGCACATTGGCA--CTT-TCA
1 TCTTTAA-ACCCAATGTCATTGACCATGAATCAGCACATTGACATTCTTCTCA
** * ** * * ** * *
351417 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATGTTGGC-GTCTTCGTCA
1 TCTTTAAACCCAATGTCATTGACCATGAATCAGCACATTGACATTCTTC-TCA
* * *
351469 TCTTTAAAACCCAATGTCATTGGCCTTGAATCAGCACATTGGCATTCTTCTCA
1 TCTTT-AAACCCAATGTCATTGACCATGAATCAGCACATTGACATTCTTCTCA
* * ** * *
351522 TCTTCAAGA-CTAATGTCGCTGATCATGAATCAGCACATTGACATCCTTTTTCTCA
1 TCTTTAA-ACCCAATGTCATTGACCATGAATCAGCACATTGACA---TTCTTCTCA
* *
351577 TCTTTAAACCCAATATCATTGACCGTGAATCAGCA
1 TCTTTAAACCCAATGTCATTGACCATGAATCAGCA
351612 TACTGGTTCC
Statistics
Matches: 154, Mismatches: 29, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
49 36 0.23
50 3 0.02
52 37 0.24
53 38 0.25
54 6 0.04
55 34 0.22
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (52 bp):
TCTTTAAACCCAATGTCATTGACCATGAATCAGCACATTGACATTCTTCTCA
Found at i:352222 original size:21 final size:20
Alignment explanation
Indices: 352188--352226 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
352178 CACATTTTTG
*
352188 TCTAAATTTATCGATACATT
1 TCTAAATGTATCGATACATT
352208 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
352227 AGGTCCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:352281 original size:19 final size:20
Alignment explanation
Indices: 352257--352316 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
352247 TTTAAATTTC
352257 AACAAT-TTGTATCGATACA
1 AACAATATTGTATCGATACA
*
352276 AACAATAAATGTATCGATACA
1 AACAAT-ATTGTATCGATACA
* * *
352297 TA-AGTGTTGTATCGATACA
1 AACAATATTGTATCGATACA
352316 A
1 A
352317 TGTATCGATA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 18 0.55
20 2 0.06
21 13 0.39
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (20 bp):
AACAATATTGTATCGATACA
Found at i:352322 original size:13 final size:13
Alignment explanation
Indices: 352304--352328 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
352294 ACATAAGTGT
352304 TGTATCGATACAA
1 TGTATCGATACAA
352317 TGTATCGATACA
1 TGTATCGATACA
352329 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:352322 original size:32 final size:32
Alignment explanation
Indices: 352283--352350 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
352273 ACAAACAATA
352283 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
352315 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
352347 AATG
1 AATG
352351 CATCCCTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:352341 original size:19 final size:19
Alignment explanation
Indices: 352285--352347 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
352275 AAACAATAAA
352285 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
352304 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
352317 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
352336 TGTATCGATACA
1 TGTATCGATACA
352348 ATGCATCCCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:358726 original size:51 final size:51
Alignment explanation
Indices: 358671--358811 Score: 165
Period size: 51 Copynumber: 2.8 Consensus size: 51
358661 AAATGTATCG
* ** *
358671 ATACATTCTACATTTTAACCCAGATGTATCGATGTATTTTTCGTTGTACCA
1 ATACATTCTAGATTTTAACCCAGATGTATCGATACATTTTTCATTGTACCA
* * * **
358722 ATACATTCTGGTTTTTAACCCAAATGTATCGATACATTTTTCATTGTTTCA
1 ATACATTCTAGATTTTAACCCAGATGTATCGATACATTTTTCATTGTACCA
* * * *
358773 ATGCATTCTAGGTTTTAACCTAGATGTATTGATACATTT
1 ATACATTCTAGATTTTAACCCAGATGTATCGATACATTT
358812 CTTAATGTAG
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 75 1.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (51 bp):
ATACATTCTAGATTTTAACCCAGATGTATCGATACATTTTTCATTGTACCA
Found at i:358831 original size:51 final size:51
Alignment explanation
Indices: 358662--358831 Score: 164
Period size: 51 Copynumber: 3.3 Consensus size: 51
358652 TACATAAGTA
* ** **
358662 AATGTATCGATACATTCTACATTTTAACCCAGATGTATCGATGTATTTTTC
1 AATGTATCAATACATTCTAGGTTTTAACCCAGATGTATCGATACATTTTTC
** * *
358713 GTTGTACCAATACATTCT-GGTTTTTAACCCAAATGTATCGATACATTTTTC
1 AATGTATCAATACATTCTAGG-TTTTAACCCAGATGTATCGATACATTTTTC
* * * * *
358764 ATTGTTTCAATGCATTCTAGGTTTTAACCTAGATGTATTGATACATTTCTT-
1 AATGTATCAATACATTCTAGGTTTTAACCCAGATGTATCGATACATTT-TTC
* *
358815 AATGTAGCGATACATTC
1 AATGTATCAATACATTC
358832 AGAAATTTTT
Statistics
Matches: 95, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
51 91 0.96
52 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (51 bp):
AATGTATCAATACATTCTAGGTTTTAACCCAGATGTATCGATACATTTTTC
Found at i:361273 original size:79 final size:79
Alignment explanation
Indices: 361166--361387 Score: 259
Period size: 79 Copynumber: 2.8 Consensus size: 79
361156 CATCTCAAGA
* * * * * *
361166 ATACTTCAACCCTGGTTTTATTTCTAAAATACTGATTTTTCGCTATCGGAGATACTCCAACCCCA
1 ATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTTCACTATCGGAGATACTCCAACCCCA
* *
361231 TTATTTTTGAGGGG
66 TTATTTCTAAGGGG
* * * * * *
361245 ATACTCCAACCCCGATTTTATTTATAAAACACCAATTTTTCACCATTGGAGATACTCCAATCCCG
1 ATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTTCACTATCGGAGATACTCCAACCCCA
361310 TTATTTCTAAGGGG
66 TTATTTCTAAGGGG
* * *
361324 ATACTCCAACCTCGATTTTATATCTAAAACA-TCAATTTTTCACTATC-TAGGATACTCCAACCC
1 ATACTCCAACCCCGATTTTATTTCTAAAACACT-AATTTTTCACTATCGGA-GATACTCCAACCC
361387 C
64 C
361388 GGTTTTATTT
Statistics
Matches: 119, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
78 1 0.01
79 118 0.99
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (79 bp):
ATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTTCACTATCGGAGATACTCCAACCCCA
TTATTTCTAAGGGG
Found at i:361408 original size:51 final size:50
Alignment explanation
Indices: 361322--361430 Score: 128
Period size: 51 Copynumber: 2.2 Consensus size: 50
361312 ATTTCTAAGG
* * *
361322 GGATACTCCAACCTCGATTTTATATCTAAAACATCAATTTTTCACTATCTA
1 GGATACTCCAACCCCGATTTTATATCTAAAACATCAATTTTCCACCATC-A
* * * * * *
361373 GGATACTCCAACCCCGGTTTTATTTTTAAAGCATCAGTTTTCCACCATCG
1 GGATACTCCAACCCCGATTTTATATCTAAAACATCAATTTTCCACCATCA
361423 GGATACTC
1 GGATACTC
361431 TAATCCCATT
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
50 8 0.16
51 41 0.84
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (50 bp):
GGATACTCCAACCCCGATTTTATATCTAAAACATCAATTTTCCACCATCA
Found at i:361463 original size:78 final size:77
Alignment explanation
Indices: 361373--361677 Score: 218
Period size: 79 Copynumber: 3.9 Consensus size: 77
361363 TCACTATCTA
* * * *
361373 GGATACTCCAACCCCGGTTTTATTTTTAAAGCATCAGTTTTCCACCATCGGGATACTCTAA-TCC
1 GGATACTTCAACCCCGATTTTATTTCTAAAACATCA-TTTTCCACCATCGGGATACTCTAACT-C
361437 CATTATTTTTGAAG
64 CATTATTTTTGAAG
* * * * * * * *
361451 GGATACTTCAACCCCAATTTTAGTTCTAAGACCCTGATTTTCCACCATCTAGGATACTCCAACTG
1 GGATACTTCAACCCCGATTTTATTTCTAA-AACATCATTTTCCACCATC-GGGATACTCTAACTC
* *
361516 CGTTATTTTTGAGG
64 CATTATTTTTGAAG
* * * * *
361530 GGATACTTTAACCTCGATTTTATTTCTAAAACACCAATTTTCCACTATCGAGGATACTCTAACCC
1 GGATACTTCAACCCCGATTTTATTTCTAAAACATC-ATTTTCCACCATCG-GGATACTCTAACTC
* * * *
361595 CGTTTACTTTCGAGG
64 C-ATTATTTTTGAAG
* ** * * * * * * *
361610 GGATTCGCCAACCTCAATTTTGTTTCCAAAATATCAACTTTT-CACCATCGAGATACTCCAACTC
1 GGATACTTCAACCCCGATTTTATTTCTAAAACATC-A-TTTTCCACCATCGGGATACTCTAACTC
361674 CATT
64 CATT
361678 TTTATTTCTG
Statistics
Matches: 177, Mismatches: 43, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
78 40 0.23
79 87 0.49
80 46 0.26
81 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (77 bp):
GGATACTTCAACCCCGATTTTATTTCTAAAACATCATTTTCCACCATCGGGATACTCTAACTCCA
TTATTTTTGAAG
Found at i:361479 original size:129 final size:130
Alignment explanation
Indices: 361243--361513 Score: 325
Period size: 129 Copynumber: 2.1 Consensus size: 130
361233 ATTTTTGAGG
* *
361243 GGATACTCCAACCCCGATTTTATTTATAAAACACCAATTTTTCACCATTGGAGATACTCCAATCC
1 GGATACTCCAACCCCGATTTTATTTATAAAACACCAATTTTCCACCATCGGAGATACTCCAATCC
* * * * * *
361308 CGTTATTTCTAAGGGGATACTCCAACCTCGATTTTATATCTAAAA-CATCAATTTTTCACTATCT
66 CATTATTTCTAAGGGGATACTCCAACCCCAATTTTATATCTAAAACCCT-AATTTTCCACCATCT
361372 A
130 A
* * * * * *
361373 GGATACTCCAACCCCGGTTTTATTTTTAAAGCATCAGTTTTCCACCATCGG-GATACTCTAATCC
1 GGATACTCCAACCCCGATTTTATTTATAAAACACCAATTTTCCACCATCGGAGATACTCCAATCC
* * * *
361437 CATTATTTTTGAA-GGGATACTTCAACCCCAATTTTAGT-TCTAAGACCCTGATTTTCCACCATC
66 CATTATTTCT-AAGGGGATACTCCAACCCCAATTTTA-TATCTAAAACCCTAATTTTCCACCATC
361500 TA
129 TA
361502 GGATACTCCAAC
1 GGATACTCCAAC
361514 TGCGTTATTT
Statistics
Matches: 120, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
129 71 0.59
130 49 0.41
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (130 bp):
GGATACTCCAACCCCGATTTTATTTATAAAACACCAATTTTCCACCATCGGAGATACTCCAATCC
CATTATTTCTAAGGGGATACTCCAACCCCAATTTTATATCTAAAACCCTAATTTTCCACCATCTA
Found at i:361578 original size:208 final size:209
Alignment explanation
Indices: 361210--361596 Score: 530
Period size: 208 Copynumber: 1.9 Consensus size: 209
361200 ATTTTTCGCT
* * *
361210 ATCGGAGATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCCCGATTTTATTTATAAAAC
1 ATCGGAGATACTCCAACCCCATTATTTTTGAAGGGATACTCCAACCCCAATTTTAGTTATAAAAC
* *
361275 ACCAATTTTTCACCATTGGAGATACTCCAATCCCGTTATTTCTAAGGGGATACTCCAACCTCGAT
66 ACCAATTTTCCACCATTAGAGATACTCCAATCCCGTTATTTCTAAGGGGATACTCCAACCTCGAT
* * *
361340 TTTATATCTAAAACATCAATTTTTCACTATCTAGGATACTCCAACCCCGGTTTTATTTTTAAAGC
131 TTTATATCTAAAACACCAATTTTCCACTATCGAGGATACTCCAACCCCGGTTTTATTTTTAAAGC
361405 ATCAGTTTTCCACC
196 ATCAGTTTTCCACC
* * * * *
361419 ATCGG-GATACTCTAATCCCATTATTTTTGAAGGGATACTTCAACCCCAATTTTAGTTCTAAGAC
1 ATCGGAGATACTCCAACCCCATTATTTTTGAAGGGATACTCCAACCCCAATTTTAGTTATAAAAC
* * * * **
361483 -CCTGATTTTCCACCATCTAG-GATACTCCAA-CTGCGTTATTTTTGAGGGGATACTTTAACCTC
66 ACC-AATTTTCCACCAT-TAGAGATACTCCAATC-CCGTTATTTCTAAGGGGATACTCCAACCTC
* *
361545 GATTTTATTTCTAAAACACCAATTTTCCACTATCGAGGATACTCTAACCCCG
128 GATTTTATATCTAAAACACCAATTTTCCACTATCGAGGATACTCCAACCCCG
361597 TTTACTTTCG
Statistics
Matches: 154, Mismatches: 21, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
207 3 0.02
208 144 0.94
209 7 0.05
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (209 bp):
ATCGGAGATACTCCAACCCCATTATTTTTGAAGGGATACTCCAACCCCAATTTTAGTTATAAAAC
ACCAATTTTCCACCATTAGAGATACTCCAATCCCGTTATTTCTAAGGGGATACTCCAACCTCGAT
TTTATATCTAAAACACCAATTTTCCACTATCGAGGATACTCCAACCCCGGTTTTATTTTTAAAGC
ATCAGTTTTCCACC
Found at i:363855 original size:3 final size:3
Alignment explanation
Indices: 363847--363878 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
363837 TTCTTGCTCT
*
363847 TCA TCA TCA TCA TCA TCA TCA TCA TCG TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
363879 TTCCTCTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.34, G:0.03, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:366783 original size:15 final size:16
Alignment explanation
Indices: 366763--366792 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
366753 AAAACAAAAA
366763 TCTAAAGC-CAAAAGT
1 TCTAAAGCTCAAAAGT
366778 TCTAAAGCTCAAAAG
1 TCTAAAGCTCAAAAG
366793 GAGCAAAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (16 bp):
TCTAAAGCTCAAAAGT
Found at i:369649 original size:19 final size:19
Alignment explanation
Indices: 369625--369667 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
369615 CTTCCTTATT
369625 TTTTATAACAAATTTTAGC
1 TTTTATAACAAATTTTAGC
369644 TTTTATAACAAATTTTAGC
1 TTTTATAACAAATTTTAGC
369663 TTTTA
1 TTTTA
369668 ATGCAACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTTATAACAAATTTTAGC
Found at i:372997 original size:13 final size:13
Alignment explanation
Indices: 372979--373004 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
372969 CAATTTTTGG
372979 TGTATCGATACAT
1 TGTATCGATACAT
372992 TGTATCGATACAT
1 TGTATCGATACAT
373005 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:373016 original size:32 final size:33
Alignment explanation
Indices: 372959--373022 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
372949 TACAAGCCAA
**
372959 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
372992 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
373023 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:373029 original size:19 final size:18
Alignment explanation
Indices: 372959--373029 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
372949 TACAAGCCAA
372959 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
372979 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
372992 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
373011 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
373030 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:373764 original size:59 final size:60
Alignment explanation
Indices: 373672--373813 Score: 277
Period size: 59 Copynumber: 2.4 Consensus size: 60
373662 TTTCATACAT
373672 TCTCCCCCTTAATAAGGTAATTTTAGCAAATTTACGCATTCTCCCCTTTTATT-AAAAAA
1 TCTCCCCCTTAATAAGGTAATTTTAGCAAATTTACGCATTCTCCCCTTTTATTAAAAAAA
373731 TCTCCCCCTTAATAAGGTAATTTTAGCAAATTTACGCATTCTCCCCTTTTATTAAAAAAA
1 TCTCCCCCTTAATAAGGTAATTTTAGCAAATTTACGCATTCTCCCCTTTTATTAAAAAAA
373791 TCTCCCCCTTAATAAGGTAATTT
1 TCTCCCCCTTAATAAGGTAATTT
373814 ACACACATAT
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
59 53 0.65
60 29 0.35
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (60 bp):
TCTCCCCCTTAATAAGGTAATTTTAGCAAATTTACGCATTCTCCCCTTTTATTAAAAAAA
Found at i:381801 original size:13 final size:13
Alignment explanation
Indices: 381783--381808 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
381773 CAATTTTTGG
381783 TGTATCGATACAT
1 TGTATCGATACAT
381796 TGTATCGATACAT
1 TGTATCGATACAT
381809 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:381820 original size:32 final size:33
Alignment explanation
Indices: 381763--381826 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
381753 TACAAGCCAA
**
381763 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
381796 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
381827 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:381833 original size:19 final size:18
Alignment explanation
Indices: 381763--381833 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
381753 TACAAGCCAA
381763 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
381783 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
381796 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
381815 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
381834 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:382798 original size:7 final size:7
Alignment explanation
Indices: 382786--382816 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
382776 CAAAACTAAA
382786 TTTATTT
1 TTTATTT
382793 TTTATTT
1 TTTATTT
382800 TTTATTT
1 TTTATTT
382807 TTTATTT
1 TTTATTT
382814 TTT
1 TTT
382817 TTACATGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTATTT
Found at i:386252 original size:156 final size:156
Alignment explanation
Indices: 386063--386583 Score: 481
Period size: 156 Copynumber: 3.4 Consensus size: 156
386053 TTATAGTCTT
** ** *
386063 TTAGGGGTATTGGGATACTTTCATATCAAAGGTATCCCCT-AGAGGCATTTTCGTAATT-TTTCA
1 TTAGGGGTATCAGGATACTTTCACGTCAAAGGTATCCCCTAAG-GGCATTTTCATAATTCTTTCA
** ** * * *
386126 AAATTTAATCCCTAGTTTGTCA-TCGGGTCCGCTTTTATGCTGAAGGTAGATATTTAGGATAGGT
65 AAATCGAAT-CCTAACTTATCACT-GGATCCGCTTTTATGCCGAAGGTAGATATTTAGGATAGGT
* *
386190 TCATCTAATTTCAAACCTTTTTAAGTCCA
128 TCATCGAATTTCAAACCTTTTCAAGTCCA
* * * * * *
386219 TTAGGGGTATCAGGATATTTTCACGTCGAAGGTATCCCCTAAGGGTATTTTTATAATTCTTTTAG
1 TTAGGGGTATCAGGATACTTTCACGTCAAAGGTATCCCCTAAGGGCATTTTCATAATTCTTTCAA
*
386284 AATCGAGTCCTAACTTATCACTGGATCCGCTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCA
66 AATCGAATCCTAACTTATCACTGGATCCGCTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCA
*
386349 TCGCATTTCAAACCTTTTCAAGTCCA
131 TCGAATTTCAAACCTTTTCAAGTCCA
*
386375 TTAGGGGTATCAGGATACTTTCACGTCAAAGG--T---CT-AGGGATATTTTCATAACTT-TTT-
1 TTAGGGGTATCAGGATACTTTCACGTCAAAGGTATCCCCTAAGGG-CATTTTCATAA-TTCTTTC
** * * * * * * * * *
386432 AGGATCGAGTCTTAACTTATCACCGGGTCCACTTTTGTGCCGAAGGTGGGTATTTAGGATATGTT
64 AAAATCGAATCCTAACTTATCACTGGATCCGCTTTTATGCCGAAGGTAGATATTTAGGATAGGTT
** * * * **
386497 CATC-CCTTTTATAATCTTTTTTAAGTCTT
129 CATCGAATTTCA-AA-CCTTTTCAAGTCCA
* * * * *
386526 TTAGGGGTACCAGGATACTTTCACGTCGAAGGTATTCTCTAAGGGTATTTTCATAATT
1 TTAGGGGTATCAGGATACTTTCACGTCAAAGGTATCCCCTAAGGGCATTTTCATAATT
386584 TTTTAGAATT
Statistics
Matches: 310, Mismatches: 42, Indels: 27
0.82 0.11 0.07
Matches are distributed among these distances:
149 5 0.02
150 66 0.21
151 55 0.18
152 2 0.01
153 1 0.00
154 1 0.00
155 2 0.01
156 162 0.52
157 16 0.05
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (156 bp):
TTAGGGGTATCAGGATACTTTCACGTCAAAGGTATCCCCTAAGGGCATTTTCATAATTCTTTCAA
AATCGAATCCTAACTTATCACTGGATCCGCTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCA
TCGAATTTCAAACCTTTTCAAGTCCA
Found at i:386641 original size:156 final size:154
Alignment explanation
Indices: 386176--386729 Score: 565
Period size: 156 Copynumber: 3.6 Consensus size: 154
386166 TGAAGGTAGA
** * *
386176 TATTTAGGATAGGTTCATCTAATTTCA-AA-CCTTTTTAAGTCCATTAGGGGTATCAGGATATTT
1 TATTTAGGATAGGTTCATC-CCTTTTATAATCCTTTTTAAGTCCATTAGGGGTATCAGGATACTT
* * *
386239 TCACGTCGAAGGTATCCCCTAAGGGTATTTTTATAATTCTTTTAGAATCGAGTCCTAACTTATCA
65 TCACGTCGAAGGTATCCTCT-AGGGTATTTTCATAATT-TTTTAGAATCGAGTCTTAACTTATCA
* * *
386304 CTGGATCCGCTTTTATGCCGAAGGTA-GA-
128 CCGG-GCCGCTTTTATGCC-AA-ATATGAG
* * *
386332 TATTTAGGATAGGTTCATCGCATTTCA-AA-CCTTTTCAAGTCCATTAGGGGTATCAGGATACTT
1 TATTTAGGATAGGTTCATC-CCTTTTATAATCCTTTTTAAGTCCATTAGGGGTATCAGGATACTT
* * *
386395 TCACGTCAAAGG-----TCTAGGGATATTTTCATAACTTTTTAGGATCGAGTCTTAACTTATCAC
65 TCACGTCGAAGGTATCCTCTAGGG-TATTTTCATAATTTTTTAGAATCGAGTCTTAACTTATCAC
* * * ** *
386455 CGGGTCCACTTTTGTGCCGAAGGTGGG
129 CGGG-CCGCTTTTATGCCAAATATGAG
* * ** *
386482 TATTTAGGATATGTTCATCCCTTTTATAATCTTTTTTAAGTCTTTTAGGGGTACCAGGATACTTT
1 TATTTAGGATAGGTTCATCCCTTTTATAATCCTTTTTAAGTCCATTAGGGGTATCAGGATACTTT
* * *
386547 CACGTCGAAGGTATTCTCTAAGGGTATTTTCATAATTTTTTAGAATTGAGTCTTAAGTTATCACC
66 CACGTCGAAGGTATCCTCT-AGGGTATTTTCATAATTTTTTAGAATCGAGTCTTAACTTATCACC
* *
386612 GAGGCTGTTTTTATGCCAAATATGAG
130 G-GGCCGCTTTTATGCCAAATATGAG
* * * **
386638 TATTTAGGATAGGTTCATCCCTTCTATAATCCTTTTTAAGTCCTTTATGGGTATTTGG-TACTTT
1 TATTTAGGATAGGTTCATCCCTTTTATAATCCTTTTTAAGTCCATTAGGGGTATCAGGATACTTT
* *
386702 TACATCGAAGGTATCCTCTAGAGGTATT
66 CACGTCGAAGGTATCCTCTAG-GGTATT
386730 CTTGTAATTT
Statistics
Matches: 333, Mismatches: 51, Indels: 29
0.81 0.12 0.07
Matches are distributed among these distances:
149 7 0.02
150 62 0.19
151 53 0.16
154 2 0.01
155 28 0.08
156 175 0.53
157 6 0.02
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (154 bp):
TATTTAGGATAGGTTCATCCCTTTTATAATCCTTTTTAAGTCCATTAGGGGTATCAGGATACTTT
CACGTCGAAGGTATCCTCTAGGGTATTTTCATAATTTTTTAGAATCGAGTCTTAACTTATCACCG
GGCCGCTTTTATGCCAAATATGAG
Found at i:390704 original size:22 final size:22
Alignment explanation
Indices: 390679--390733 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
390669 AAAAAATAAA
390679 AAAAAAGGAAAAAAAGAAATGG
1 AAAAAAGGAAAAAAAGAAATGG
390701 AAAAAAGGAAAAAAAGAAATGG
1 AAAAAAGGAAAAAAAGAAATGG
390723 AAAAAAGGAAA
1 AAAAAAGGAAA
390734 GAATGAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.04
Consensus pattern (22 bp):
AAAAAAGGAAAAAAAGAAATGG
Found at i:391196 original size:112 final size:111
Alignment explanation
Indices: 390992--391245 Score: 246
Period size: 112 Copynumber: 2.3 Consensus size: 111
390982 AACGTGGAAG
* * * *** *
390992 AACATCATATTTGTTTAATTTTCAAAGAAATTCATGTTTTATACATCTTGATCCATCCGTGCCGA
1 AACATCAAATTTG-TTGATTTTCGAAGAAATTCACACTTTATACATCTTGACCCATCCGTGCCGA
** * * * *
391057 GGAAAATGGGCACATATCTTGTCAG-TTT-CATTCTTTTTTAGCCCCAC
65 GGAAAATAAGCACATATCTTATCAGTTTTGAAATC--TTTAAGCCCCAC
* ** *
391104 AACATCAAATTTGCTTGATTTTCGAAGAAATTCACACTTTATACATTTTGACCCATTTGTGCCTA
1 AACATCAAATTTG-TTGATTTTCGAAGAAATTCACACTTTATACATCTTGACCCATCCGTGCCGA
* *
391169 GG-AAATAAAGCACGTATCTTATTAGTTTTGAAATCTTTAAGCCCCAC
65 GGAAAAT-AAGCACATATCTTATCAGTTTTGAAATCTTTAAGCCCCAC
391216 AACATCAAATTTGTTAGATTTT-GAAAGAAA
1 AACATCAAATTTGTT-GATTTTCG-AAGAAA
391246 CTCATATTTC
Statistics
Matches: 117, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
111 7 0.06
112 104 0.89
113 3 0.03
114 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (111 bp):
AACATCAAATTTGTTGATTTTCGAAGAAATTCACACTTTATACATCTTGACCCATCCGTGCCGAG
GAAAATAAGCACATATCTTATCAGTTTTGAAATCTTTAAGCCCCAC
Found at i:391724 original size:88 final size:89
Alignment explanation
Indices: 391590--391826 Score: 235
Period size: 88 Copynumber: 2.7 Consensus size: 89
391580 CTGCATGAAC
* * * * * * * * *
391590 ATTTGCATTTTTTCATATGCTTTTGTCTTTCCATTGATGCTTGCATTTGCATCGTTTCACCTGCA
1 ATTTGCATTATTCCATATGCATTCGCCCTTCCATTGATGCTTGCATTTGCATCATTTCACATACA
*
391655 TCGGCATTTTAGATAAC-ATTGGT
66 TCGGCACTTTAGATAACGATTGGT
* * *
391678 ATTTGCATTATTCCATATGCATTCGCCCTTCTATTGATGTTTGCATTTGCATTATTTCACATACA
1 ATTTGCATTATTCCATATGCATTCGCCCTTCCATTGATGCTTGCATTTGCATCATTTCACATACA
* * *
391743 TCTGCACTTTAGATGACGTTTGGT
66 TCGGCACTTTAGATAACGATTGGT
* * * ** * *
391767 ATTTGCATTA-TCTCATATGCATTTTGGCATTTTATTGATGCTTGTATTTACATCATTTCA
1 ATTTGCATTATTC-CATATGCA-TTCGCCCTTCCATTGATGCTTGCATTTGCATCATTTCA
391827 TGTGCATCTA
Statistics
Matches: 122, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
88 69 0.57
89 23 0.19
90 30 0.25
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (89 bp):
ATTTGCATTATTCCATATGCATTCGCCCTTCCATTGATGCTTGCATTTGCATCATTTCACATACA
TCGGCACTTTAGATAACGATTGGT
Found at i:392764 original size:48 final size:48
Alignment explanation
Indices: 392699--392802 Score: 165
Period size: 48 Copynumber: 2.2 Consensus size: 48
392689 TGTATCGGGC
* *
392699 CAAACTCTTTTTTTCCCTCATTTGACTATATTGGTGTTAGGGCCTTGT
1 CAAACTCTTTTTATCCCTCATTTGACTATATTGGTGTTAGGGCCTAGT
*
392747 CAAACT-TTTTTCATCCCTTATTTGACTATATTGGTGTTAGGGCCTAGT
1 CAAACTCTTTTT-ATCCCTCATTTGACTATATTGGTGTTAGGGCCTAGT
392795 CAAACTCT
1 CAAACTCT
392803 CCTCTTTCCT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
47 5 0.10
48 45 0.88
49 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.43
Consensus pattern (48 bp):
CAAACTCTTTTTATCCCTCATTTGACTATATTGGTGTTAGGGCCTAGT
Found at i:392840 original size:44 final size:44
Alignment explanation
Indices: 392789--392930 Score: 130
Period size: 44 Copynumber: 3.2 Consensus size: 44
392779 GGTGTTAGGG
* *
392789 CCTAGTCAAACTCTCCTCTTTCCTGTCTGACGTATGGTTATCAC
1 CCTAGTCAAACTCTCCTCTTTCCTGTTTGACGTATGGTTACCAC
* * * *
392833 CCTAGTCAAATTTTTCTCATTT--TGATTTAACGTATGGTTACCAC
1 CCTAGTCAAACTCTCCTC-TTTCCTG-TTTGACGTATGGTTACCAC
* * * *
392877 CTTAGTCAAA-TCTGCCTCCTTCCTATTTGATGTATGGTTACCA-
1 CCTAGTCAAACTCT-CCTCTTTCCTGTTTGACGTATGGTTACCAC
*
392920 CTTAGTCAAAC
1 CCTAGTCAAAC
392931 GATTTGCATT
Statistics
Matches: 79, Mismatches: 13, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
43 16 0.20
44 59 0.75
45 4 0.05
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.39
Consensus pattern (44 bp):
CCTAGTCAAACTCTCCTCTTTCCTGTTTGACGTATGGTTACCAC
Found at i:393135 original size:43 final size:43
Alignment explanation
Indices: 393061--393261 Score: 226
Period size: 43 Copynumber: 4.7 Consensus size: 43
393051 TTAATTCTGC
* *
393061 CTTTGACCTTGGAGACTTCATTACCCATAAGTCTGCCTATCAG
1 CTTTGACCTTGGAGACTTCCTTACCCTTAAGTCTGCCTATCAG
* * *
393104 CTTTAACCTTGGAGACTTCCTTACTCTTAAGTTTGCCTATCAG
1 CTTTGACCTTGGAGACTTCCTTACCCTTAAGTCTGCCTATCAG
* * * *
393147 TTTTGACCTTGGAGACTT-CTTCACCCTTAAGTCTACCTGTCGG
1 CTTTGACCTTGGAGACTTCCTT-ACCCTTAAGTCTGCCTATCAG
* * * * * **
393190 CTTTGACCCTAGAGACTTCCTCACCTTTAAGTTTGCCCGTC-G
1 CTTTGACCTTGGAGACTTCCTTACCCTTAAGTCTGCCTATCAG
393232 ACTTTGACCTTGGAGACTTCCTTACCCTTA
1 -CTTTGACCTTGGAGACTTCCTTACCCTTA
393262 GGTATGCCCG
Statistics
Matches: 131, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
42 4 0.03
43 125 0.95
44 2 0.02
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.36
Consensus pattern (43 bp):
CTTTGACCTTGGAGACTTCCTTACCCTTAAGTCTGCCTATCAG
Found at i:393275 original size:86 final size:86
Alignment explanation
Indices: 393061--393277 Score: 251
Period size: 86 Copynumber: 2.5 Consensus size: 86
393051 TTAATTCTGC
* * * * * * *
393061 CTTTGACCTTGGAGACTTCATTACCCATAAGTCTGCCTATCAGCTTTAACCTTGGAGACTTCCTT
1 CTTTGACCTTGGAGACTTCCTTACCCTTAAGTCTGCCTGTCGGCTTTAACCCTAGAGACTTCCTC
*
393126 ACTCTTAAGTTTGCCTATCAG
66 ACTCTTAAGTTTGCCCATCAG
* * *
393147 TTTTGACCTTGGAGACTT-CTTCACCCTTAAGTCTACCTGTCGGCTTTGACCCTAGAGACTTCCT
1 CTTTGACCTTGGAGACTTCCTT-ACCCTTAAGTCTGCCTGTCGGCTTTAACCCTAGAGACTTCCT
*
393211 CAC-CTTTAAGTTTGCCCGTC-G
65 CACTC-TTAAGTTTGCCCATCAG
* * *
393232 ACTTTGACCTTGGAGACTTCCTTACCCTTAGGTATGCCCGTCGGCT
1 -CTTTGACCTTGGAGACTTCCTTACCCTTAAGTCTGCCTGTCGGCT
393278 CAAACCTGGG
Statistics
Matches: 110, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
85 4 0.04
86 103 0.94
87 3 0.03
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (86 bp):
CTTTGACCTTGGAGACTTCCTTACCCTTAAGTCTGCCTGTCGGCTTTAACCCTAGAGACTTCCTC
ACTCTTAAGTTTGCCCATCAG
Found at i:393290 original size:43 final size:43
Alignment explanation
Indices: 393201--393293 Score: 105
Period size: 43 Copynumber: 2.2 Consensus size: 43
393191 TTTGACCCTA
* * *** *
393201 GAGACTTCCTCACCTTTAAGTTTGCCCGTCGACTTTGACCTTG
1 GAGACTTCCTCACCCTTAAGTATGCCCGTCGACTCAAACCTGG
* * *
393244 GAGACTTCCTTACCCTTAGGTATGCCCGTCGGCTCAAACCTGG
1 GAGACTTCCTCACCCTTAAGTATGCCCGTCGACTCAAACCTGG
393287 GAGACTT
1 GAGACTT
393294 TTTTACCTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.18, C:0.30, G:0.22, T:0.30
Consensus pattern (43 bp):
GAGACTTCCTCACCCTTAAGTATGCCCGTCGACTCAAACCTGG
Found at i:393302 original size:86 final size:85
Alignment explanation
Indices: 393061--393303 Score: 240
Period size: 86 Copynumber: 2.8 Consensus size: 85
393051 TTAATTCTGC
* * * * *
393061 CTTTGACCTTGGAGACTTCATTACCCATAAGTCTGCCTATCAGCTTTAACCTTGGAGACTTCCTT
1 CTTTGACCTTGGAGACTTCCTTACCCTTAAGTCTGCCTGTCGGCTTAAACC-TGGAGACTTCCTT
*
393126 A-CTCTTAAGTTTGCCTATCAG
65 ACCT-TTAAGTTTGCCCATCAG
* * * * *
393147 TTTTGACCTTGGAGACTT-CTTCACCCTTAAGTCTACCTGTCGGCTTTGACCCTAGAGACTTCCT
1 CTTTGACCTTGGAGACTTCCTT-ACCCTTAAGTCTGCCTGTCGGC-TTAAACCTGGAGACTTCCT
* *
393211 CACCTTTAAGTTTGCCCGTC-G
64 TACCTTTAAGTTTGCCCATCAG
* * * * **
393232 ACTTTGACCTTGGAGACTTCCTTACCCTTAGGTATGCCCGTCGGCTCAAACCTGGGAGACTTTTT
1 -CTTTGACCTTGGAGACTTCCTTACCCTTAAGTCTGCCTGTCGGCTTAAACCT-GGAGACTTCCT
393297 TACCTTT
64 TACCTTT
393304 TCTCTGCCCG
Statistics
Matches: 127, Mismatches: 24, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
85 8 0.06
86 109 0.86
87 10 0.08
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.35
Consensus pattern (85 bp):
CTTTGACCTTGGAGACTTCCTTACCCTTAAGTCTGCCTGTCGGCTTAAACCTGGAGACTTCCTTA
CCTTTAAGTTTGCCCATCAG
Found at i:393461 original size:42 final size:43
Alignment explanation
Indices: 393364--393462 Score: 105
Period size: 42 Copynumber: 2.3 Consensus size: 43
393354 CGTCGGCTTT
*
393364 GACTCGGGAGACTTTCTTCATCAATCATCTGCCCGTCAGCTCA
1 GACTCGGGAGACTTTCTTCATCAATAATCTGCCCGTCAGCTCA
* * * * *
393407 GACCCAGAAGACTTT-TTCATC-TTAAGTCTGCCCGT-TGACTCA
1 GACTCGGGAGACTTTCTTCATCAATAA-TCTGCCCGTCAG-CTCA
393449 GACTCGGGAGACTT
1 GACTCGGGAGACTT
393463 CCTTATCCTT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
41 3 0.07
42 30 0.67
43 12 0.27
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (43 bp):
GACTCGGGAGACTTTCTTCATCAATAATCTGCCCGTCAGCTCA
Found at i:393691 original size:84 final size:84
Alignment explanation
Indices: 393588--394100 Score: 561
Period size: 84 Copynumber: 6.1 Consensus size: 84
393578 CTCGGGAAAT
*
393588 AACCTTTATCCATTATTTACCTATCGGCTTAGTCCCCGGTAAACCCATTACCCTTATGGTGACCT
1 AACCTTTATCCATTATTTACCTATCGGCTTAGTCCCTGGTAAACCCATTACCCTTATGGTGACCT
*
393653 GTCAGCTCAGTCTTCGGTC
66 GTCAGCTCAGTCTCCGGTC
* * * * * * *
393672 AACCTTCATCCATTGTTTACCTGTCAGCTTAGTCCCTAGCAAACCCATTACCCTTATGATGACCT
1 AACCTTTATCCATTATTTACCTATCGGCTTAGTCCCTGGTAAACCCATTACCCTTATGGTGACCT
* * *
393737 GTCAGCTCAATCTCTGATC
66 GTCAGCTCAGTCTCCGGTC
* * * * *
393756 AACCTTTATCCATTATTTACTTGTCAGCTCAGT-CCTCGGTAAA-CC-TT-CTCTCCT-TGGTGA
1 AACCTTTATCCATTATTTACCTATCGGCTTAGTCCCT-GGTAAACCCATTAC-C-CTTATGGTGA
* *
393816 CCTGTCAGCTCAGCCTTCGGTC
63 CCTGTCAGCTCAGTCTCCGGTC
* * * * * * *
393838 AACCTTCATCCATTGTTTACCCATAGACTTAGTCCTTGATAAACCCATTACCCTTATGGTGACCT
1 AACCTTTATCCATTATTTACCTATCGGCTTAGTCCCTGGTAAACCCATTACCCTTATGGTGACCT
* *
393903 ATTAGCTCAGTCTCCGGTC
66 GTCAGCTCAGTCTCCGGTC
* * * * * *
393922 AACCTTCATCTATTGTTTACCTATCGACTTAGTCCCTGGTAAACCCATTGCCCCTATGGTGACCT
1 AACCTTTATCCATTATTTACCTATCGGCTTAGTCCCTGGTAAACCCATTACCCTTATGGTGACCT
*
393987 GTCAGCTTAGTCTCCGGTC
66 GTCAGCTCAGTCTCCGGTC
* * * * * *
394006 AACCTTTATCTATTATTTACCTATCTGCTCAGTCCTTGGTAAGCCCATTA-CCTCTATAGTGACC
1 AACCTTTATCCATTATTTACCTATCGGCTTAGTCCCTGGTAAACCCATTACCCT-TATGGTGACC
* *
394070 TATCAGCTCAGTCTCCGGTT
65 TGTCAGCTCAGTCTCCGGTC
394090 AACCTTTATCC
1 AACCTTTATCC
394101 TTCATTCATC
Statistics
Matches: 355, Mismatches: 65, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
81 1 0.00
82 54 0.15
83 15 0.04
84 284 0.80
85 1 0.00
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (84 bp):
AACCTTTATCCATTATTTACCTATCGGCTTAGTCCCTGGTAAACCCATTACCCTTATGGTGACCT
GTCAGCTCAGTCTCCGGTC
Found at i:393801 original size:41 final size:41
Alignment explanation
Indices: 393588--393858 Score: 158
Period size: 41 Copynumber: 6.5 Consensus size: 41
393578 CTCGGGAAAT
* * * *
393588 AACCTTTATCCATTATTTACCTATCGGCTTAGTCCCCGGTA
1 AACCTTTATCCATTATTTACCTGTCAGCTCAGTCCTCGGTA
* * * * *
393629 AACCCATTA-CCCTTATGGTGACCTGTCAGCTCAGTCTTCGGTC
1 AA-CCTTTATCCATTAT--TTACCTGTCAGCTCAGTCCTCGGTA
* * * * *
393672 AACCTTCATCCATTGTTTACCTGTCAGCTTAGTCC-CTAGCA
1 AACCTTTATCCATTATTTACCTGTCAGCTCAGTCCTC-GGTA
* * * * * *
393713 AACCCATTA-CCCTTATGATGACCTGTCAGCTCAAT-CTCTGATC
1 AA-CCTTTATCCATTAT--TTACCTGTCAGCTCAGTCCTC-GGTA
*
393756 AACCTTTATCCATTATTTACTTGTCAGCTCAGTCCTCGGTA
1 AACCTTTATCCATTATTTACCTGTCAGCTCAGTCCTCGGTA
* ** * *
393797 AACCTTCTCTCC-TTGGTGACCTGTCAGCTCAG-CCTTCGGTC
1 AACCTT-TATCCATTATTTACCTGTCAGCTCAGTCC-TCGGTA
* *
393838 AACCTTCATCCATTGTTTACC
1 AACCTTTATCCATTATTTACC
393859 CATAGACTTA
Statistics
Matches: 169, Mismatches: 47, Indels: 28
0.69 0.19 0.11
Matches are distributed among these distances:
40 6 0.04
41 88 0.52
42 26 0.15
43 49 0.29
ACGTcount: A:0.21, C:0.32, G:0.14, T:0.34
Consensus pattern (41 bp):
AACCTTTATCCATTATTTACCTGTCAGCTCAGTCCTCGGTA
Found at i:394038 original size:250 final size:250
Alignment explanation
Indices: 393588--394047 Score: 661
Period size: 250 Copynumber: 1.8 Consensus size: 250
393578 CTCGGGAAAT
* * * * *
393588 AACCTTTATCCATTATTTACCTATCGGCTTAGTCCCCGGTAAACCCATTACCCTTATGGTGACCT
1 AACCTTCATCCATTATTTACCCATAGACTTAGTCCCCGATAAACCCATTACCCTTATGGTGACCT
* * *
393653 GTCAGCTCAGTCTTCGGTCAACCTTCATCCATTGTTTACCTGTCAGCTTAGTCCCTAGCAAACCC
66 ATCAGCTCAGTCTCCGGTCAACCTTCATCCATTGTTTACCTATCAGCTTAGTCCCTAGCAAACCC
* * * *
393718 ATTACCCTTATGATGACCTGTCAGCTCAATCTCTGATCAACCTTTATCCATTATTTACTTGTCAG
131 ATTACCCCTATGATGACCTGTCAGCTCAATCTCCGATCAACCTTTATCCATTATTTACCTATCAG
393783 CTCAGTCCTCGGTAAACCTTCTCTCCTTGGTGACCTGTCAGCTCAGCCTTCGGTC
196 CTCAGTCCTCGGTAAACCTTCTCTCCTTGGTGACCTGTCAGCTCAGCCTTCGGTC
* **
393838 AACCTTCATCCATTGTTTACCCATAGACTTAGTCCTTGATAAACCCATTACCCTTATGGTGACCT
1 AACCTTCATCCATTATTTACCCATAGACTTAGTCCCCGATAAACCCATTACCCTTATGGTGACCT
* * * *
393903 ATTAGCTCAGTCTCCGGTCAACCTTCATCTATTGTTTACCTATC-GACTTAGTCCCTGGTAAACC
66 ATCAGCTCAGTCTCCGGTCAACCTTCATCCATTGTTTACCTATCAG-CTTAGTCCCTAGCAAACC
* * * * * * *
393967 CATTGCCCCTATGGTGACCTGTCAGCTTAGTCTCCGGTCAACCTTTATCTATTATTTACCTATCT
130 CATTACCCCTATGATGACCTGTCAGCTCAATCTCCGATCAACCTTTATCCATTATTTACCTATCA
*
394032 GCTCAGTCCTTGGTAA
195 GCTCAGTCCTCGGTAA
394048 GCCCATTACC
Statistics
Matches: 182, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
249 1 0.01
250 181 0.99
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.34
Consensus pattern (250 bp):
AACCTTCATCCATTATTTACCCATAGACTTAGTCCCCGATAAACCCATTACCCTTATGGTGACCT
ATCAGCTCAGTCTCCGGTCAACCTTCATCCATTGTTTACCTATCAGCTTAGTCCCTAGCAAACCC
ATTACCCCTATGATGACCTGTCAGCTCAATCTCCGATCAACCTTTATCCATTATTTACCTATCAG
CTCAGTCCTCGGTAAACCTTCTCTCCTTGGTGACCTGTCAGCTCAGCCTTCGGTC
Found at i:394158 original size:43 final size:41
Alignment explanation
Indices: 394093--394215 Score: 120
Period size: 43 Copynumber: 2.9 Consensus size: 41
394083 TCCGGTTAAC
* * *
394093 CTTTATCCTTCATTCATCTGTCGGCCTAGTCCCAGGTACTT
1 CTTTATCCTTTATTAACCTGTCGGCCTAGTCCCAGGTACTT
* * * *
394134 CCTTTTATCTTTTATTAACTTGTCGGCCTAATCCCAGTTAACTT
1 -C-TTTATCCTTTATTAACCTGTCGGCCTAGTCCCAGGT-ACTT
* * * *
394178 CTTTATCCTTTATTTACCTGTCAGCTTAGTCCCGGGTA
1 CTTTATCCTTTATTAACCTGTCGGCCTAGTCCCAGGTA
394216 AATCTTTTAT
Statistics
Matches: 64, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
41 1 0.02
42 29 0.45
43 30 0.47
44 4 0.06
ACGTcount: A:0.17, C:0.28, G:0.13, T:0.42
Consensus pattern (41 bp):
CTTTATCCTTTATTAACCTGTCGGCCTAGTCCCAGGTACTT
Found at i:395508 original size:14 final size:14
Alignment explanation
Indices: 395489--395516 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
395479 ACTCAGGTTA
395489 TTTTTTATTTTTAC
1 TTTTTTATTTTTAC
395503 TTTTTTATTTTTAC
1 TTTTTTATTTTTAC
395517 GTGTAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTATTTTTAC
Found at i:397070 original size:80 final size:80
Alignment explanation
Indices: 396720--397121 Score: 368
Period size: 79 Copynumber: 5.1 Consensus size: 80
396710 TATTTTGGAG
* * * * ** *
396720 ATAAAAAC-G-GGATTGAAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCTCGATGCTAGAA
1 ATAAAAACTGAGG-TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGGAA
*
396783 AATCGATGTTTTGGAA
65 AATCGATGTTTTAGAA
* * * * * * * *
396799 ATAAAATC-GGGGTTGGAGTATTCTCTCGAAAATAATGGGATTGGAGTATCCCCGATTTTGGAAA
1 ATAAAAACTGAGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGGAAA
*
396863 ATTGATGTTTTAGAA
66 ATCGATGTTTTAGAA
** * * * *
396878 ATAAAGCCAG-GGTTTGAGTATCCCCTC-GACAATAACGGGGTTGGAGTAT-CCCGATCATGAAA
1 ATAAAAACTGAGGTTGGAGTATCCCCTCGGA-AATAACGGGGTTGGAGTATCCCCGATTATGGAA
* *
396940 AATCGGTGTTTTAGAG
65 AATCGATGTTTTAGAA
* * * * **
396956 ATAAAAACT-AGAGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTCAATTATAAAA
1 ATAAAAACTGAG-GTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGGAA
*
397020 AATCAATGTTTTAGAA
65 AATCGATGTTTTAGAA
* * * * * *
397036 ATAAAAATTGAGGTTGGAGTATCCTCTCGGAAATAATGGGGTTGAAGTATCCCCAATTGTGGAAA
1 ATAAAAACTGAGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGGAAA
* *
397101 ATCGGTGTTTTAAAA
66 ATCGATGTTTTAGAA
397116 ATAAAA
1 ATAAAA
397122 TCGGGTTTGA
Statistics
Matches: 260, Mismatches: 55, Indels: 15
0.79 0.17 0.05
Matches are distributed among these distances:
78 31 0.12
79 131 0.50
80 96 0.37
81 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (80 bp):
ATAAAAACTGAGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGGAAA
ATCGATGTTTTAGAA
Found at i:397133 original size:51 final size:51
Alignment explanation
Indices: 397073--397190 Score: 159
Period size: 50 Copynumber: 2.3 Consensus size: 51
397063 CGGAAATAAT
* *
397073 GGGGTTGAAGTATCCCCAATTGTGGAAAATCGGTGTTTTAAAAATAAAATC
1 GGGGTTGAAGTATCCCCAATGGTGGAAAATCGATGTTTTAAAAATAAAATC
* * * *
397124 GGGTTTGAAGTAT-CCCGATGGTGGAAAATTGATGTTTTAGAAATAAAATC
1 GGGGTTGAAGTATCCCCAATGGTGGAAAATCGATGTTTTAAAAATAAAATC
397174 GGGGTT-AGAGTATCCCC
1 GGGGTTGA-AGTATCCCC
397191 TCAAAAATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
49 1 0.02
50 42 0.72
51 15 0.26
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGGGTTGAAGTATCCCCAATGGTGGAAAATCGATGTTTTAAAAATAAAATC
Found at i:397215 original size:288 final size:288
Alignment explanation
Indices: 396843--397408 Score: 708
Period size: 288 Copynumber: 2.0 Consensus size: 288
396833 ATGGGATTGG
** * * * *
396843 AGTATCCCCGATTTTGGAAAATTGATGTTTTAGAAATAAAGCCAGGGTTTGAGTATCCCCTCGAC
1 AGTATCCCCGATGGTGGAAAATTGATGTTTTAGAAATAAAACCAGGGTTAGAGTATCCCCTCAAA
* * ** * *
396908 AATAACGGGGTTGGAGTATC-CCGATCATGAAAAATCGGTGTTTTAGAGATAAAAA-CTAGAGTT
66 AATAACGAGGTTAGAGTATCTCCGATCATGAAAAATCAATGTTTTGGA-AAAAAAATC-AGAGTT
* * * *
396971 GGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTCAATTATAAAAAATCAATGTTTTAGAA
129 AGAGTATCCCCTTGAAAATAACGGGGTTGAAGTATCCCCAATTATAAAAAATCAATATTTTAGAA
* * * * **
397036 ATAAAAATTGAGGTTGGAGTATCCTCTCGGAA-ATAATGGGGTTGAAGTATCCCCAATTGTGGAA
194 AT-AAAATCGAGGTTGGAGTATCCCCAC-GAATATAACGGGGTTGAAGTATCCCCAATTGTAAAA
*
397100 AATCGGTGTTTTAAAAATAAAATCGGGTTTGA
257 AATCAGTGTTTTAAAAATAAAATCGGGTTTGA
* *
397132 AGTAT-CCCGATGGTGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAAA
1 AGTATCCCCGATGGTGGAAAATTGATGTTTTAGAAATAAAACCAGGGTTAGAGTATCCCCTCAAA
* * * *
397196 AATAATGAGGTTAGAGTATCTCCGATTATGAAAAATCAATGTTTTGGAAAAAAAATCGGGGTTAG
66 AATAACGAGGTTAGAGTATCTCCGATCATGAAAAATCAATGTTTTGGAAAAAAAATCAGAGTTAG
* * * * *
397261 AGTATCCTCTTGAAAATAGCGGGGTTGAAGTATCCCCAATTATGAAAAATCGATATTTTGGAAAT
131 AGTATCCCCTTGAAAATAACGGGGTTGAAGTATCCCCAATTATAAAAAATCAATATTTTAGAAAT
* * * * *
397326 AAAATCGGGGTTGGAGTATCCCCACGAATATAGCGGGGTTGGAGTATCCCCGATTGTAAAAAATT
196 AAAATCGAGGTTGGAGTATCCCCACGAATATAACGGGGTTGAAGTATCCCCAATTGTAAAAAATC
*
397391 AGTGTTTTGAAAATAAAA
261 AGTGTTTTAAAAATAAAA
397409 CTAGGGTTAG
Statistics
Matches: 234, Mismatches: 40, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
286 3 0.01
287 66 0.28
288 136 0.58
289 29 0.12
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (288 bp):
AGTATCCCCGATGGTGGAAAATTGATGTTTTAGAAATAAAACCAGGGTTAGAGTATCCCCTCAAA
AATAACGAGGTTAGAGTATCTCCGATCATGAAAAATCAATGTTTTGGAAAAAAAATCAGAGTTAG
AGTATCCCCTTGAAAATAACGGGGTTGAAGTATCCCCAATTATAAAAAATCAATATTTTAGAAAT
AAAATCGAGGTTGGAGTATCCCCACGAATATAACGGGGTTGAAGTATCCCCAATTGTAAAAAATC
AGTGTTTTAAAAATAAAATCGGGTTTGA
Found at i:397251 original size:79 final size:78
Alignment explanation
Indices: 397155--397444 Score: 305
Period size: 79 Copynumber: 3.7 Consensus size: 78
397145 TGGAAAATTG
* * * * * *
397155 ATGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAATGAGGTTAGAGTATCTCCG
1 ATGTTTTGGAAAAAAAATCGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTT-GAGTATCCCCG
397220 ATTATGAAAAATCA
65 ATTATGAAAAATCA
* * * *
397234 ATGTTTTGGAAAAAAAATCGGGGTTAGAGTATCCTCTTGAAAATAGCGGGGTTGAAGTATCCCCA
1 ATGTTTTGGAAAAAAAATCGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTG-AGTATCCCCG
*
397299 ATTATGAAAAATCG
65 ATTATGAAAAATCA
* * * * * *
397313 ATATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCACGAATATAGCGGGGTTGGAGTATCCCCG
1 ATGTTTTGGAAAAAAAATCGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTT-GAGTATCCCCG
* * *
397378 ATTGTAAAAAATTA
65 ATTATGAAAAATCA
* * * *
397392 GTGTTTT-GAAAATAAAA-CTAGGGTTAGAGTATTCCCTCGAAAATAACAGGGTT
1 ATGTTTTGGAAAA-AAAATC-GGGGTTAGAGTATCCCCTCGAAAATAACGGGGTT
397445 AGAATGGTGG
Statistics
Matches: 174, Mismatches: 33, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
78 6 0.03
79 167 0.96
80 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (78 bp):
ATGTTTTGGAAAAAAAATCGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGAGTATCCCCGA
TTATGAAAAATCA
Found at i:397265 original size:129 final size:130
Alignment explanation
Indices: 397025--397267 Score: 296
Period size: 129 Copynumber: 1.9 Consensus size: 130
397015 TAAAAAATCA
* * * ** *
397025 ATGTTTTAGAAATAAAAATTGAGGTTGGAGTATCCTCTCGGAAATAATGGGGTTGAAGTATCCCC
1 ATGTTTTAGAAATAAAAATCGAGGTTAGAGTATCCCCTCAAAAATAATGAGGTTGAAGTATCCCC
* * ** *
397090 AATTGTGGAAAATCGGTGTTTTAAAAATAAAATCGGGTTTGAAGTATCCCGATGGTGGAAAATTG
66 AATTATGAAAAATCAATGTTTTAAAAATAAAATCGGGTTAGAAGTATCCCGATGGTGGAAAATTG
* *
397155 ATGTTTTAGAAAT-AAAATCGGGGTTAGAGTATCCCCTCAAAAATAATGAGGTT-AGAGTATCTC
1 ATGTTTTAGAAATAAAAATCGAGGTTAGAGTATCCCCTCAAAAATAATGAGGTTGA-AGTATCCC
* *
397218 CGATTATGAAAAATCAATGTTTTGGAAAA-AAAATCGGGGTTAG-AGTATCC
65 CAATTATGAAAAATCAATGTTTT-AAAAATAAAATC-GGGTTAGAAGTATCC
397268 TCTTGAAAAT
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
128 1 0.01
129 71 0.75
130 23 0.24
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (130 bp):
ATGTTTTAGAAATAAAAATCGAGGTTAGAGTATCCCCTCAAAAATAATGAGGTTGAAGTATCCCC
AATTATGAAAAATCAATGTTTTAAAAATAAAATCGGGTTAGAAGTATCCCGATGGTGGAAAATTG
Found at i:397328 original size:208 final size:210
Alignment explanation
Indices: 396913--397347 Score: 543
Period size: 208 Copynumber: 2.1 Consensus size: 210
396903 TCGACAATAA
* * *
396913 CGGGGTTGGAGTATCCCGATCATGAAAAATCGGTGTTTTAGAGATAAAAACTAGAGTTGGAGTAT
1 CGGGGTTGGAGTATCCCGATCATGAAAAATCGATGTTTTAGAAATAAAAACTAGAGTTAGAGTAT
** * *
396978 CCCCTTGAAAATAACGGGGTTGGAGTATCCTCAATTATAAAAAATCAATGTTTTAGAAATAAAAA
66 CCCCTCAAAAATAACGAGGTTAGAGTATCCTCAATTATAAAAAATCAATGTTTTAGAAATAAAAA
* * * * * * * *
397043 TTGAGGTTGGAGTATCCTCTCGGAAATAATGGGGTTGAAGTATCCCCAATTGTGGAAAATCGGTG
131 TCGAGGTTAGAGTATCCTCTCGAAAATAACGGGGTTGAAGTATCCCCAATTATGAAAAATCGATA
397108 TTTTAAAAATAAAAT
196 TTTTAAAAATAAAAT
* * ** * * * * *
397123 CGGGTTTGAAGTATCCCGATGGTGGAAAATTGATGTTTTAGAAATAAAATC-GGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCGATCATGAAAAATCGATGTTTTAGAAATAAAAACTAGAGTTAGAGTAT
* * * *
397187 CCCCTCAAAAATAATGAGGTTAGAGTAT-CTCCGATTATGAAAAATCAATGTTTTGGAAA-AAAA
66 CCCCTCAAAAATAACGAGGTTAGAGTATCCT-CAATTATAAAAAATCAATGTTTTAGAAATAAAA
* * *
397250 ATCGGGGTTAGAGTATCCTCTTGAAAATAGCGGGGTTGAAGTATCCCCAATTATGAAAAATCGAT
130 ATCGAGGTTAGAGTATCCTCTCGAAAATAACGGGGTTGAAGTATCCCCAATTATGAAAAATCGAT
**
397315 ATTTTGGAAATAAAAT
195 ATTTTAAAAATAAAAT
397331 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
397348 CACGAATATA
Statistics
Matches: 189, Mismatches: 35, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
208 89 0.47
209 58 0.31
210 42 0.22
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (210 bp):
CGGGGTTGGAGTATCCCGATCATGAAAAATCGATGTTTTAGAAATAAAAACTAGAGTTAGAGTAT
CCCCTCAAAAATAACGAGGTTAGAGTATCCTCAATTATAAAAAATCAATGTTTTAGAAATAAAAA
TCGAGGTTAGAGTATCCTCTCGAAAATAACGGGGTTGAAGTATCCCCAATTATGAAAAATCGATA
TTTTAAAAATAAAAT
Found at i:397343 original size:158 final size:158
Alignment explanation
Indices: 397148--397436 Score: 368
Period size: 158 Copynumber: 1.8 Consensus size: 158
397138 CCGATGGTGG
* * * *
397148 AAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAATGAGGTTAGAGT
1 AAAATCGATATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCACAAAAATAACGAGGTTAGAGT
* * * *
397213 ATCTCCGATTATGAAAAATCAATGTTTTGGAAAA-AAAA-TCGGGGTTAGAGTA-TCCTCTTGAA
66 ATCCCCGATTATAAAAAATCAATGTTTT-GAAAATAAAACT-AGGGTTAGAGTATTCC-CTCGAA
397275 AATAGCGGGGTTGAAGTATCCCCAATTATGA
128 AATAGCGGGGTTGAAGTATCCCCAATTATGA
* * * * * * *
397306 AAAATCGATATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCACGAATATAGCGGGGTTGGAGT
1 AAAATCGATATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCACAAAAATAACGAGGTTAGAGT
* * *
397371 ATCCCCGATTGTAAAAAATTAGTGTTTTGAAAATAAAACTAGGGTTAGAGTATTCCCTCGAAAAT
66 ATCCCCGATTATAAAAAATCAATGTTTTGAAAATAAAACTAGGGTTAGAGTATTCCCTCGAAAAT
397436 A
131 A
397437 ACAGGGTTAG
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
157 5 0.05
158 101 0.92
159 4 0.04
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (158 bp):
AAAATCGATATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCACAAAAATAACGAGGTTAGAGT
ATCCCCGATTATAAAAAATCAATGTTTTGAAAATAAAACTAGGGTTAGAGTATTCCCTCGAAAAT
AGCGGGGTTGAAGTATCCCCAATTATGA
Found at i:399420 original size:20 final size:20
Alignment explanation
Indices: 399397--399434 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
399387 GTATCAAGGG
*
399397 TTTTTTTTGCTACTAAAACT
1 TTTTTTTTGCTACCAAAACT
399417 TTTTTTTTGCTACCAAAA
1 TTTTTTTTGCTACCAAAA
399435 AGATCCTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (20 bp):
TTTTTTTTGCTACCAAAACT
Found at i:401047 original size:22 final size:22
Alignment explanation
Indices: 401001--401048 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
400991 GCAACCAAAC
*
401001 AGCAACTCCAGCAAACACCAGT
1 AGCAACTCCAGCAAACACCAAT
* **
401023 AGCAACTCTAGCAAATTCCAAT
1 AGCAACTCCAGCAAACACCAAT
401045 AGCA
1 AGCA
401049 GCAAACACCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.31, G:0.12, T:0.15
Consensus pattern (22 bp):
AGCAACTCCAGCAAACACCAAT
Found at i:403391 original size:155 final size:155
Alignment explanation
Indices: 402844--403670 Score: 638
Period size: 156 Copynumber: 5.3 Consensus size: 155
402834 TCAATAGTCA
* **
402844 TTTTTAAGTCTTTTAGGGGTATC-AGGATACTTTCAGGTCGAAGGTATCCCCT-AGGGATATTTT
1 TTTTTAAGTCCTTTAGGGGTATCGA-GATACTTTCACATCGAAGGTATCCCCTAAGGG-TATTTT
* * * * * * * * * * *
402907 CTTAATTTTTTTAGAACCAACTCCTAAGTTATCATCGA-GTCCACTTTTAGGACAAATGTAGGCA
64 CATAA-TTTTTTAGAATCGAGTCCTAACTTATCA-CCATGTCCACTTTTATGACGAAGGTGGGTA
* * ***
402971 TTTAGGATAGGTT-ATCCCTTCTCTAGTA
127 TTTAGGATAGGTTCATCCCTTTTATAACC
* ** * * ** *
402999 TTTTTAAGTCATTTAGGATTGTCGAGGTAC-TT-ACA-CGTTGATATCCCCTAAGGGTATTTTCA
1 TTTTTAAGTCCTTTAGGGGTATCGAGATACTTTCACATCGAAGGTATCCCCTAAGGGTATTTTCA
* * * * *
403061 TAATTTCTTAGAATTGAGTCCTAACTTATCATCGA-GTTCACTTTTATGCCGAAGGTGGGTATTT
66 TAATTTTTTAGAATCGAGTCCTAACTTATCA-CCATGTCCACTTTTATGACGAAGGTGGGTATTT
** *
403125 AGGATATATTCATCCCTTTTATAGTCC
130 AGGATAGGTTCATCCCTTTTATA-ACC
* ** * * * * *
403152 TTTTTAAATCCTTTAGTAGTACCAAGAAACTTTCACATCGAAGGTAT-CCCTTAGTGGTATTTTT
1 TTTTTAAGTCCTTTAGGGGTATCGAGATACTTTCACATCGAAGGTATCCCCTAAG-GGTATTTTC
* * ** * * *
403216 GTAATTTTTTAGAATCGAGTCTTAGGTTATCACCATGTCCATTTTTAT-ACGAAAGGTAGATATT
65 ATAATTTTTTAGAATCGAGTCCTAACTTATCACCATGTCCACTTTTATGACG-AAGGTGGGTATT
*
403280 TAGGATAGGTTCATCCCATTTCA-AACC
129 TAGGATAGGTTCATCCC-TTTTATAACC
* * * *
403307 TTTTTAAGTCCATTAGGGGTATCGAGATATTTTCACGTCGAAGGTATCCCCTAAGGGTATTTTCG
1 TTTTTAAGTCCTTTAGGGGTATCGAGATACTTTCACATCGAAGGTATCCCCTAAGGGTATTTTCA
* * ** *** *
403372 TAGTTTTTTAGAATTGAGTCCTAACTTATCACTGTGTTTGCTTTTATGCCGAAGGTGGGTATTTA
66 TAATTTTTTAGAATCGAGTCCTAACTTATCACCATGTCCACTTTTATGACGAAGGTGGGTATTTA
** **
403437 GGATTTGTTCATCCCTTTTATAGTC
131 GGATAGGTTCATCCCTTTTATAACC
* * * * * * *
403462 TTTATTAAGTCTTTTAGGGGTATCGGGATACTATCACGTCAAAGGTATCCCCTAGGGGCATTTTC
1 TTT-TTAAGTCCTTTAGGGGTATCGAGATACTTTCACATCGAAGGTATCCCCTAAGGGTATTTTC
* * * ** * ** ** *
403527 ATAATTTTTCAAAATCGAGTTCTAGGTTATCATCGGGTCTGCTTTTAT-ATCGAAGGTTGGTATT
65 ATAATTTTTTAGAATCGAGTCCTAACTTATCACCATGTCCACTTTTATGA-CGAAGGTGGGTATT
* *
403591 TAGGACAGGTTCATCCCTTTTATAATCA
129 TAGGATAGGTTCATCCCTTTTATAA-CC
* *
403619 TTTTTAGGTCCTTTAGAGGTATCGAG-TAC-TTCTACATCGAAGGTATCCCCTA
1 TTTTTAAGTCCTTTAGGGGTATCGAGATACTTTC-ACATCGAAGGTATCCCCTA
403671 GGGCCATTCT
Statistics
Matches: 528, Mismatches: 126, Indels: 36
0.77 0.18 0.05
Matches are distributed among these distances:
151 56 0.11
152 31 0.06
153 26 0.05
154 10 0.02
155 171 0.32
156 227 0.43
157 7 0.01
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (155 bp):
TTTTTAAGTCCTTTAGGGGTATCGAGATACTTTCACATCGAAGGTATCCCCTAAGGGTATTTTCA
TAATTTTTTAGAATCGAGTCCTAACTTATCACCATGTCCACTTTTATGACGAAGGTGGGTATTTA
GGATAGGTTCATCCCTTTTATAACC
Found at i:403418 original size:311 final size:311
Alignment explanation
Indices: 403040--403670 Score: 772
Period size: 311 Copynumber: 2.0 Consensus size: 311
403030 TACACGTTGA
403040 TATCCCCTAAGGGTATTTTCATAATTTCTTAGAATTGAGTCCTAACTTATCATCGAGTTCACTTT
1 TATCCCCTAAGGGTATTTTCATAATTTCTTAGAATTGAGTCCTAACTTATCATCGAGTTCACTTT
*
403105 TATGCCGAAGGTGGGTATTTAGGATATATTCATCCCTTTTATAGTCCTTT-TTAAATCCTTTAGT
66 TATGCCGAAGGTGGGTATTTAGGATATATTCATCCCTTTTATAGT-CTTTATTAAATCCTTTAGG
* * * * * ** * *
403169 AGTACCAAGAAACTTTCACATCGAAGGTATCCCTTAGTGGTATTTTTGTAATTTTTTAGAATCGA
130 AGTACCAAGAAACTATCACATCAAAGGTATCCCCTAGGGGCATTTTCATAATTTTTCAAAATCGA
* * *
403234 G-TCTTAGGTTATCACCATGTCCATTTTTATA-CGAAAGGTAGATATTTAGGATAGGTTCATCCC
195 GTTC-TAGGTTATCACCAGGTCCACTTTTATATCG-AAGGTAGATATTTAGGACAGGTTCATCCC
* * * *
403297 ATTTCA-AA-CCTTTTTAAGTCCATTAGGGGTATCGAGATA-TTTTCACGTCGAAGG
258 -TTTCATAATCATTTTTAAGTCCATTAGAGGTATCGAG-TACTTCT-ACATCGAAGG
* * * * **
403351 TATCCCCTAAGGGTATTTTCGTAGTTTTTTAGAATTGAGTCCTAACTTATCA-CTGTGTTTGCTT
1 TATCCCCTAAGGGTATTTTCATAATTTCTTAGAATTGAGTCCTAACTTATCATC-GAGTTCACTT
* * * *
403415 TTATGCCGAAGGTGGGTATTTAGGATTTGTTCATCCCTTTTATAGTCTTTATTAAGTCTTTTAGG
65 TTATGCCGAAGGTGGGTATTTAGGATATATTCATCCCTTTTATAGTCTTTATTAAATCCTTTAGG
* * ** * *
403480 GGTATCGGGATACTATCACGTCAAAGGTATCCCCTAGGGGCATTTTCATAATTTTTCAAAATCGA
130 AGTACCAAGAAACTATCACATCAAAGGTATCCCCTAGGGGCATTTTCATAATTTTTCAAAATCGA
* * ** * *
403545 GTTCTAGGTTATCATCGGGTCTGCTTTTATATCGAAGGTTGGTATTTAGGACAGGTTCATCCCTT
195 GTTCTAGGTTATCACCAGGTCCACTTTTATATCGAAGGTAGATATTTAGGACAGGTTCATCCCTT
* * *
403610 TTATAATCATTTTTAGGTCCTTTAGAGGTATCGAGTACTTCTACATCGAAGG
260 TCATAATCATTTTTAAGTCCATTAGAGGTATCGAGTACTTCTACATCGAAGG
403662 TATCCCCTA
1 TATCCCCTA
403671 GGGCCATTCT
Statistics
Matches: 271, Mismatches: 42, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
310 9 0.03
311 231 0.85
312 31 0.11
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (311 bp):
TATCCCCTAAGGGTATTTTCATAATTTCTTAGAATTGAGTCCTAACTTATCATCGAGTTCACTTT
TATGCCGAAGGTGGGTATTTAGGATATATTCATCCCTTTTATAGTCTTTATTAAATCCTTTAGGA
GTACCAAGAAACTATCACATCAAAGGTATCCCCTAGGGGCATTTTCATAATTTTTCAAAATCGAG
TTCTAGGTTATCACCAGGTCCACTTTTATATCGAAGGTAGATATTTAGGACAGGTTCATCCCTTT
CATAATCATTTTTAAGTCCATTAGAGGTATCGAGTACTTCTACATCGAAGG
Found at i:405407 original size:23 final size:24
Alignment explanation
Indices: 405367--405415 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
405357 GGATTTATGA
405367 AATATTATTAACATAAATAAAATT
1 AATATTATTAACATAAATAAAATT
*
405391 AATATT-TTAATCA-AAATAGAATT
1 AATATTATTAA-CATAAATAAAATT
405414 AA
1 AA
405416 AAATTTGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (24 bp):
AATATTATTAACATAAATAAAATT
Found at i:408058 original size:161 final size:162
Alignment explanation
Indices: 407639--408059 Score: 510
Period size: 161 Copynumber: 2.6 Consensus size: 162
407629 TTATTGTTAT
* * * **
407639 GTTTAATTTTATTCTTTTTTTAAAAATATCATTTCGTATCTTAATGGAAACATGAAAAGATACGA
1 GTTTAATTTTATT-TTTTTTTGAAAATATCATTTCGTACCTTAATGGAAGCCCGAAAAGATACGA
**
407704 AAAGTTTTTGAAGACTTTTATACCCCTACAAACCCTCAAAGGAATGCAAAAGATTAAAAAAGTGA
65 AAAGTTTTTGAA-A-TTTTATACCCCTACGGACCCTCAAAGGAATGCAAAAGATTAAAAAAGTGA
* * *
407769 TTAAAATTTATTTCATCTATGTAAGTATTAGTCTA
128 TTAAAATTTATCTCATCTATGAAAGTATTAATCTA
* * * * * *
407804 ATTTAATTTTATTTATTTTCGTAAATATCATTTCGCACCTTAATGGAAGGCCGAAAAGATACGAA
1 GTTTAATTTTATTTTTTTTTGAAAATATCATTTCGTACCTTAATGGAAGCCCGAAAAGATACGAA
* *
407869 AAGTTTTTGAAATCTTTATACCCCTACGGACCC-CAGAGGAATGTAAAAGATTAAAAAA-TGATT
66 AAGTTTTTGAAAT-TTTATACCCCTACGGACCCTCAAAGGAATGCAAAAGATTAAAAAAGTGATT
* *
407932 AAAATTTATCTCGGT-TATGAAAGTATTAATTTA
130 AAAATTTATCTC-ATCTATGAAAGTATTAATCTA
* * *
407965 GTTTAATTTTATTTTTTTTTGAAAATA-CTATTTCATACCATAATGGAAGCCCGAAAAGATACAA
1 GTTTAATTTTATTTTTTTTTGAAAATATC-ATTTCGTACCTTAATGGAAGCCCGAAAAGATACGA
* *
408029 AAAGTTTTAGAATATTTTCATA-TCCTACGGA
65 AAAGTTTTTGAA-ATTTT-ATACCCCTACGGA
408060 TACCCATGGG
Statistics
Matches: 220, Mismatches: 31, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
160 1 0.00
161 106 0.48
162 30 0.14
163 18 0.08
164 53 0.24
165 12 0.05
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.37
Consensus pattern (162 bp):
GTTTAATTTTATTTTTTTTTGAAAATATCATTTCGTACCTTAATGGAAGCCCGAAAAGATACGAA
AAGTTTTTGAAATTTTATACCCCTACGGACCCTCAAAGGAATGCAAAAGATTAAAAAAGTGATTA
AAATTTATCTCATCTATGAAAGTATTAATCTA
Found at i:409719 original size:164 final size:163
Alignment explanation
Indices: 409469--409856 Score: 420
Period size: 166 Copynumber: 2.4 Consensus size: 163
409459 ATTTAATGGC
* * *
409469 AATATTAGATGAATTTTAAAAAATTTAAATCCAGAAAAATCCCCTCGAAAACATTTACGAAGCAA
1 AATATTTGATGAATTTTAAAAATTTTAAATCCAGAAAAATCCCCTCGAAAAAATTTACGAA-CAA
*
409534 AAAACTCCATATTTCGAAAATA-AAAAATTTCAAGGAAAAA-AAGAAAATGAATGAAAATGAATG
65 AAAACTCCATATTTCGAAAATAGAAAAATTTCAAGGAAAAATAA-AAAATCAA-GAAAATGAATG
* * *
409597 AATTTTTGAAAAC-GTATTTAATATGAATTAAATAAT
128 AATTTTTGAAAACTG-ATTCAATATAAAATAAATAAT
* *
409633 AATATTTGATGAATTTTAAAAATTTTAAA-CCA-ATGAAAATCTTCC-CGAAAAAATTTATGGAA
1 AATATTTGATGAATTTTAAAAATTTTAAATCCAGA--AAAATC-CCCTCGAAAAAATTTA-CGAA
* * *
409695 -AAGAAAAC-CCTATGATTT-GAAAATAGGAGAATTTCAAGGAAAAATTCAAAAACTCAAGAAAA
62 CAA-AAAACTCC-AT-ATTTCGAAAATAGAAAAATTTCAAGGAAAAA-T-AAAAAATCAAGAAAA
409757 TGAATGAATTTTTGAAAACTGATTCAATATAAAATAAATAAT
122 TGAATGAATTTTTGAAAACTGATTCAATATAAAATAAATAAT
* ** *
409799 AATATTTGATAAATTTTAAAAATTAGAAA-CTCAGAAAAATCTCCCT-GAAAAATTTTAC
1 AATATTTGATGAATTTTAAAAATTTTAAATC-CAGAAAAATC-CCCTCGAAAAAATTTAC
409857 AGAGTAGTAA
Statistics
Matches: 191, Mismatches: 18, Indels: 29
0.80 0.08 0.12
Matches are distributed among these distances:
162 1 0.01
163 7 0.04
164 58 0.30
165 25 0.13
166 88 0.46
167 9 0.05
168 3 0.02
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (163 bp):
AATATTTGATGAATTTTAAAAATTTTAAATCCAGAAAAATCCCCTCGAAAAAATTTACGAACAAA
AAACTCCATATTTCGAAAATAGAAAAATTTCAAGGAAAAATAAAAAATCAAGAAAATGAATGAAT
TTTTGAAAACTGATTCAATATAAAATAAATAAT
Found at i:409887 original size:166 final size:166
Alignment explanation
Indices: 409586--409893 Score: 394
Period size: 166 Copynumber: 1.8 Consensus size: 166
409576 GAAAATGAAT
* * * *
409586 GAAAATGAATGAATTTTTGAAAACGTATTTAATATGAATTAAATAATAATATTTGATGAATTTTA
1 GAAAATGAATGAATTTTTGAAAACGTATTCAATATAAAATAAATAATAATATTTGATAAATTTTA
** **
409651 AAAATTTTAAACCAATGAAAATCTTCCCGAAAAAATTTATGGAAAAGAAAACCCTATGATTTGAA
66 AAAATTAGAAACCAA-GAAAATCTTCCCGAAAAAATTTACAGAAAAGAAAACCCTATGATTTGAA
409716 AATAGG-AGAATTTCAAGGAAAAATTCAAAAACTCAA
130 AATAGGAAGAATTTCAAGGAAAAATTCAAAAACTCAA
409752 GAAAATGAATGAATTTTTGAAAAC-TGATTCAATATAAAATAAATAATAATATTTGATAAATTTT
1 GAAAATGAATGAATTTTTGAAAACGT-ATTCAATATAAAATAAATAATAATATTTGATAAATTTT
* ** *
409816 AAAAATTAGAAACTC-AGAAAAATC-TCCCTGAAAAATTTTACAGAGTAGTAAACTCC-AT-AGT
65 AAAAATTAGAAAC-CAAG-AAAATCTTCCC-GAAAAAATTTACAGAAAAGAAAAC-CCTATGA-T
*
409877 TTGGAAATAGGAAGAAT
125 TTGAAAATAGGAAGAAT
409894 CTTAAAAGAA
Statistics
Matches: 122, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
165 7 0.06
166 107 0.88
167 8 0.07
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.30
Consensus pattern (166 bp):
GAAAATGAATGAATTTTTGAAAACGTATTCAATATAAAATAAATAATAATATTTGATAAATTTTA
AAAATTAGAAACCAAGAAAATCTTCCCGAAAAAATTTACAGAAAAGAAAACCCTATGATTTGAAA
ATAGGAAGAATTTCAAGGAAAAATTCAAAAACTCAA
Found at i:410410 original size:20 final size:19
Alignment explanation
Indices: 410385--410477 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 19
410375 AAGCCCTTGT
410385 ATGTATCGATACACTTTCAG
1 ATGTATCGATACA-TTTCAG
410405 ATGTATCGATACATTATGC-G
1 ATGTATCGATACATT-T-CAG
*
410425 TTGTATCGATACATGTTCA-
1 ATGTATCGATACAT-TTCAG
* ** *
410444 TTGTATCGATACATGAACAA
1 ATGTATCGATACAT-TTCAG
410464 ATGTATCGATACAT
1 ATGTATCGATACAT
410478 GAAACTGGCA
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
19 20 0.31
20 42 0.66
21 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGTATCGATACATTTCAG
Found at i:410553 original size:20 final size:21
Alignment explanation
Indices: 410507--410560 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
410497 CTACTACTAT
*
410507 TTGTATCGATACATGGCACAA
1 TTGTATCGATACATGGAACAA
* *
410528 -TATATCGATACAT-GAAGAA
1 TTGTATCGATACATGGAACAA
410547 TTGTATCGATACAT
1 TTGTATCGATACAT
410561 TGTCTCAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (21 bp):
TTGTATCGATACATGGAACAA
Found at i:418200 original size:33 final size:33
Alignment explanation
Indices: 418158--418224 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
418148 TGAAAGTTGA
*
418158 TCACTTCACTTTCGCAGCACATGAATGACCACT
1 TCACTTCACTCTCGCAGCACATGAATGACCACT
* * *
418191 TCACTTCACTCTCGCAGCGCATGGATGAGCACT
1 TCACTTCACTCTCGCAGCACATGAATGACCACT
418224 T
1 T
418225 TAGTTCTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (33 bp):
TCACTTCACTCTCGCAGCACATGAATGACCACT
Found at i:419272 original size:20 final size:20
Alignment explanation
Indices: 419242--419295 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
419232 CTACCACTAT
* *
419242 TTGTATTGATACATGGCACAA
1 TTGTATCGATACAT-GAACAA
*
419263 -TGTATCGATACATGAAGAA
1 TTGTATCGATACATGAACAA
419282 TTGTATCGATACAT
1 TTGTATCGATACAT
419296 TACCTTAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATGAACAA
Found at i:420942 original size:64 final size:64
Alignment explanation
Indices: 420863--420990 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
420853 AAATTTCTCC
420863 ATTACAGATTTGTCTTCTTTATCTAGGAAAGATAAATTTAGGACTCCCAAGAATGAGTAGCTCA
1 ATTACAGATTTGTCTTCTTTATCTAGGAAAGATAAATTTAGGACTCCCAAGAATGAGTAGCTCA
420927 ATTACAGATTTGTCTTCTTTATCTAGGAAAGATAAATTTAGGACTCCCAAGAATGAGTAGCTCA
1 ATTACAGATTTGTCTTCTTTATCTAGGAAAGATAAATTTAGGACTCCCAAGAATGAGTAGCTCA
420991 GGCGAAATTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (64 bp):
ATTACAGATTTGTCTTCTTTATCTAGGAAAGATAAATTTAGGACTCCCAAGAATGAGTAGCTCA
Found at i:421972 original size:42 final size:42
Alignment explanation
Indices: 421849--421984 Score: 134
Period size: 42 Copynumber: 3.2 Consensus size: 42
421839 CGGATAGATG
*
421849 AGGAATAAAGAAA-TCTCCTAGGTCTGAGCCAAT-GAGCAGACA
1 AGGAATAAA-AAAGTCTCCTGGGTCTGAGCCAATAG-GCAGACA
* * ** *
421891 AGGAATAAAGAAGTCTCTTGCATTTGAGCCAACTA-GCAGACA
1 AGGAATAAAAAAGTCTCCTGGGTCTGAGCCAA-TAGGCAGACA
**
421933 AGGAATAAAAAAGTCTCCTGGGTCTGAGCTGATAGGCAGACAA
1 AGGAATAAAAAAGTCTCCTGGGTCTGAGCCAATAGGCAGAC-A
421976 AGGATATAA
1 AGGA-ATAA
421985 GGTGTTTAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
41 4 0.05
42 61 0.81
43 6 0.08
44 4 0.05
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (42 bp):
AGGAATAAAAAAGTCTCCTGGGTCTGAGCCAATAGGCAGACA
Found at i:422614 original size:78 final size:78
Alignment explanation
Indices: 422532--422681 Score: 246
Period size: 78 Copynumber: 1.9 Consensus size: 78
422522 GAAATATGAA
* * *
422532 GGAAGTGCCCCTTATGGCCATGTGATGCATTAATACCATTTAATGTTTGAGAAAGATGGATATGA
1 GGAAGTGCCCCTCATGGCCATGTGATGCATCAATACCATCTAATGTTTGAGAAAGATGGATATGA
422597 CTAGAAGCATGTG
66 CTAGAAGCATGTG
* *
422610 GGAAGTGCCCCTCATGGTCATGTGATGCATCAATACCATCTAGTGTTTGAGAAAGATGGATATGA
1 GGAAGTGCCCCTCATGGCCATGTGATGCATCAATACCATCTAATGTTTGAGAAAGATGGATATGA
*
422675 TTAGAAG
66 CTAGAAG
422682 TGAGTGCTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 66 1.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (78 bp):
GGAAGTGCCCCTCATGGCCATGTGATGCATCAATACCATCTAATGTTTGAGAAAGATGGATATGA
CTAGAAGCATGTG
Found at i:423638 original size:9 final size:9
Alignment explanation
Indices: 423624--423648 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
423614 ATGCCATCAT
423624 AACATCAAC
1 AACATCAAC
423633 AACATCAAC
1 AACATCAAC
423642 AACATCA
1 AACATCA
423649 TTGTTTGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.32, G:0.00, T:0.12
Consensus pattern (9 bp):
AACATCAAC
Found at i:423883 original size:30 final size:30
Alignment explanation
Indices: 423840--423915 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
423830 GGCACCTTTT
423840 TCCTT-TT-AAAGTCCATGAATCAATGGCA
1 TCCTTCTTCAAAGTCCATGAATCAATGGCA
** *
423868 TCTCTTC-TCAAAGTCCGCGATTCAATGGCA
1 TC-CTTCTTCAAAGTCCATGAATCAATGGCA
423898 TCCTTCTTCAAAGTCCAT
1 TCCTTCTTCAAAGTCCAT
423916 AACTCCGTGG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 2 0.05
29 8 0.21
30 29 0.74
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (30 bp):
TCCTTCTTCAAAGTCCATGAATCAATGGCA
Found at i:424032 original size:32 final size:33
Alignment explanation
Indices: 423981--424277 Score: 371
Period size: 32 Copynumber: 9.3 Consensus size: 33
423971 AAAGTCCATG
*
423981 GTCGGTGGCAACCCTTCTCTAAAGCCCACACAA
1 GTCGGTGGCAACCCTTCTCAAAAGCCCACACAA
* * * *
424014 GTCAGTGGC-ACCATTCTCTAAATCCCACACAA
1 GTCGGTGGCAACCCTTCTCAAAAGCCCACACAA
*
424046 GTCGGTGGCAACCCTT-TCTAAAGCCCACACAA
1 GTCGGTGGCAACCCTTCTCAAAAGCCCACACAA
* * *
424078 GTCGATGGTAACCCCTCTC-AAAGCCCACACAA
1 GTCGGTGGCAACCCTTCTCAAAAGCCCACACAA
*
424110 GTTGGTGGCAACCCTTCT-AAAAGCCCACACAA
1 GTCGGTGGCAACCCTTCTCAAAAGCCCACACAA
*
424142 GTCGGTGGCAACCCTTCT-AAAAGCCCACATAA
1 GTCGGTGGCAACCCTTCTCAAAAGCCCACACAA
* * *
424174 -TCAGTGGCAACCTTTCT-TAAAGCCCACACAA
1 GTCGGTGGCAACCCTTCTCAAAAGCCCACACAA
* *
424205 GTTGGTGGCAACCC-T-TCAAAAGCCCACATAA
1 GTCGGTGGCAACCCTTCTCAAAAGCCCACACAA
424236 GTCGGTGGCAACCC-TCTCAAAAGCCCACACAA
1 GTCGGTGGCAACCCTTCTCAAAAGCCCACACAA
*
424268 GTTGGTGGCA
1 GTCGGTGGCA
424278 TCTCTTTCTA
Statistics
Matches: 231, Mismatches: 27, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
30 1 0.00
31 54 0.23
32 161 0.70
33 15 0.06
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.19
Consensus pattern (33 bp):
GTCGGTGGCAACCCTTCTCAAAAGCCCACACAA
Found at i:424356 original size:52 final size:52
Alignment explanation
Indices: 424286--425065 Score: 595
Period size: 52 Copynumber: 14.8 Consensus size: 52
424276 CATCTCTTTC
* * * *
424286 TAAGCCCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTTTTC-TTTCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCT-T
* * * **
424338 TAAGTCCAATATCACTGGCCTTGAATCAGTATATTGG-TGCTTTTATCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTT-TCATCTT
* ** *
424390 TAAGTCCAATATCGCTGGCCTTGAATCAGCACGTTAGGCACCTTTTTC-TTTCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATT-GGCACCTTTTTCATCT-T
* * ** *
424443 TAAGTCCAATGTCGATGGCTTTGAATCAGCATATTGGTGCCTTTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCTT
** * * * * *
424495 TAAGTATAATGTCACTGGCCTTGAATCAACACATTCGCACCTTTTTC-TTTCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCT-T
* * * * *
424547 TAAGTCCAATATTGCTGGCCTTGAAT-AGCATATTGACGCCTTTATCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCTT
* * * * *
424598 TAAATCTAATGTCGCTGGCCTTGAATTAGCACAGTGGCACCTTTTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCTT
* * * * ** * *
424650 TAA-ACCAATATCGTTGGCCTTGAATTAGCATAGCGGTACCTTTCTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCTT
* * * * * * * *
424701 CAAATCCAATGTCACTGGCATTAAATCAACACATTGGCACCTTTTTC-TTTGT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCT-T
* ** * * * * * *
424753 TAAGTCCAATATCATTAGCCTTAAATTAACATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCTT
* * * *
424805 TAAGTCCAATGTTGCTGGCATTGAATCAGCACATTGGCACCTTTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCTT
* * * *
424857 TAAGCCCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTTTCTCATTCTTCTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-----C-C-TT-TT-TCATCTT
* ** * *
424918 TAAGCCCAATGTCATTGGCCTTGAATCAGCACATTGGCACCTTTTTC-TTTGT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCT-T
*** ** * **** *
424970 TAAGTCCAACACCATTAGCCTTGAATCAGCATATTAATGCCTTTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCTT
*
425022 TAAGTCCAATGTCGCTAGCCTTGAATCAGCATATTGGCACCTTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTT
425066 ATTATTCTTC
Statistics
Matches: 570, Mismatches: 135, Indels: 46
0.76 0.18 0.06
Matches are distributed among these distances:
51 90 0.16
52 379 0.66
53 45 0.08
54 7 0.01
55 1 0.00
56 1 0.00
57 1 0.00
58 1 0.00
59 2 0.00
60 1 0.00
61 42 0.07
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (52 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCTT
Found at i:424414 original size:104 final size:104
Alignment explanation
Indices: 424286--425065 Score: 823
Period size: 104 Copynumber: 7.4 Consensus size: 104
424276 CATCTCTTTC
* *
424286 TAAGCCCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAATATC
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAATATC
* * * *
424351 ACTGGCCTTGAATCAGTATATTGGTGCTTTTATCATCTT
66 ATTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTT
* * *
424390 TAAGTCCAATATCGCTGGCCTTGAATCAGCACGTTAGGCACCTTTTTCTTTCTTAAGTCCAATGT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT-GGCACCTTTTTCTTTCTTAAGTCCAATAT
*
424455 CGA-TGGCTTTGAATCAGCATATTGGTGCCTTTGTCATCTT
65 C-ATTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTT
** * * * *
424495 TAAGTATAATGTCACTGGCCTTGAATCAACACATTCGCACCTTTTTCTTTCTTAAGTCCAATATT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAATATC
** ** *
424560 GCTGGCCTTGAAT-AGCATATTGACGCCTTTATCATCTT
66 ATTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTT
* * * * * *
424598 TAAATCTAATGTCGCTGGCCTTGAATTAGCACAGTGGCACCTTTTTC-ATCTTTAA-ACCAATAT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTC-TTAAGTCCAATAT
* * ** * *
424661 CGTTGGCCTTGAATTAGCATAGCGGTACCTTTCTCATCTT
65 CATTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTT
* * * * * * *
424701 CAAATCCAATGTCACTGGCATTAAATCAACACATTGGCACCTTTTTCTTTGTTAAGTCCAATATC
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAATATC
* * * * *
424766 ATTAGCCTTAAATTAACATATTGGCGCCTTTGTCATCTT
66 ATTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTT
* * * * *
424805 TAAGTCCAATGTTGCTGGCATTGAATCAGCACATTGGCACCTTTGTC-ATCTTTAAGCCCAATAT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTC-TTAAGTCCAATAT
** * *
424869 TGTTGGCCTTGAATCAGCATATTGGCACCTTTCTCATTCTTCTCATCTT
65 CATTGGCCTTGAATCAGCATATTGG-----TGC-C--T-TTGTCATCTT
* ** * * *
424918 TAAGCCCAATGTCATTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTGTTAAGTCCAACACC
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAATATC
* **
424983 ATTAGCCTTGAATCAGCATATTAATGCCTTTGTCATCTT
66 ATTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTT
* *
425022 TAAGTCCAATGTCGCTAGCCTTGAATCAGCATATTGGCACCTTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT
425066 ATTATTCTTC
Statistics
Matches: 556, Mismatches: 102, Indels: 36
0.80 0.15 0.05
Matches are distributed among these distances:
102 21 0.04
103 129 0.23
104 226 0.41
105 92 0.17
106 1 0.00
107 1 0.00
108 2 0.00
109 1 0.00
110 1 0.00
112 1 0.00
113 80 0.14
114 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (104 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAATATC
ATTGGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTT
Found at i:424868 original size:310 final size:313
Alignment explanation
Indices: 424293--424892 Score: 780
Period size: 310 Copynumber: 1.9 Consensus size: 313
424283 TTCTAAGCCC
* * *
424293 AATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAATATCACTGGCC
1 AATGTCGCTGGCCTTGAATTAGCACAGTGGCACCTTTTTCTCTCTTAAGACCAATATCACTGGCC
* ** * * * * * * * * *
424358 TTGAATCAGTATATTGGTGCTTTTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACG
66 TTGAATCAGCATAGCGGTACCTTTATCATCTTCAAATCCAATATCACTGGCATTAAATCAACACA
* * * * * *
424423 TTAGGCACCTTTTTCTTTCTTAAGTCCAATGTCGATGGCTTTGAATCAGCATATTGGTGCCTTTG
131 TTAGGCACCTTTTTCTTTCTTAAGTCCAATATCGATAGCCTTAAATCAACATATTGGCGCCTTTG
* * * * *
424488 TCATCTTTAAGTATAATGTCACTGGCCTTGAATCAACACATTCGCACCTTTTTCTTTCTTAAGTC
196 TCATCTTTAAGTACAATGTCACTGGCATTGAATCAACACATTCGCACCTTTGTCTCTCTTAAGCC
424553 CAATATTGCTGGCCTTGAAT-AGCATATTGACGCCTTTATCATCTTTAAATCT
261 CAATATTGCTGGCCTTGAATCAGCATATTGACGCCTTTATCATCTTTAAATCT
**
424605 AATGTCGCTGGCCTTGAATTAGCACAGTGGCACCTTTTTCATCT-TTAA-ACCAATATCGTTGGC
1 AATGTCGCTGGCCTTGAATTAGCACAGTGGCACCTTTTTC-TCTCTTAAGACCAATATCACTGGC
* * *
424668 CTTGAATTAGCATAGCGGTACCTTTCTCATCTTCAAATCCAATGTCACTGGCATTAAATCAACAC
65 CTTGAATCAGCATAGCGGTACCTTTATCATCTTCAAATCCAATATCACTGGCATTAAATCAACAC
* *
424733 ATT-GGCACCTTTTTCTTTGTTAAGTCCAATATC-ATTAGCCTTAAATTAACATATTGGCGCCTT
130 ATTAGGCACCTTTTTCTTTCTTAAGTCCAATATCGA-TAGCCTTAAATCAACATATTGGCGCCTT
* ** * *
424796 TGTCATCTTTAAGTCCAATGTTGCTGGCATTGAATCAGCACATTGGCACCTTTGTCATCT-TTAA
194 TGTCATCTTTAAGTACAATGTCACTGGCATTGAATCAACACATTCGCACCTTTGTC-TCTCTTAA
*
424860 GCCCAATATTGTTGGCCTTGAATCAGCATATTG
258 GCCCAATATTGCTGGCCTTGAATCAGCATATTG
424893 GCACCTTTCT
Statistics
Matches: 245, Mismatches: 39, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
309 1 0.00
310 123 0.50
311 76 0.31
312 43 0.18
313 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (313 bp):
AATGTCGCTGGCCTTGAATTAGCACAGTGGCACCTTTTTCTCTCTTAAGACCAATATCACTGGCC
TTGAATCAGCATAGCGGTACCTTTATCATCTTCAAATCCAATATCACTGGCATTAAATCAACACA
TTAGGCACCTTTTTCTTTCTTAAGTCCAATATCGATAGCCTTAAATCAACATATTGGCGCCTTTG
TCATCTTTAAGTACAATGTCACTGGCATTGAATCAACACATTCGCACCTTTGTCTCTCTTAAGCC
CAATATTGCTGGCCTTGAATCAGCATATTGACGCCTTTATCATCTTTAAATCT
Found at i:424945 original size:61 final size:61
Alignment explanation
Indices: 424850--425331 Score: 437
Period size: 61 Copynumber: 8.2 Consensus size: 61
424840 GGCACCTTTG
** * *
424850 TCATCTTTAAGCCCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTTTCTCATTCTTC
1 TCATCTTTAAGCCCAATATCATTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
* * *
424911 TCATCTTTAAGCCCAATGTCATTGGCCTTGAATCAGCACATTGGCACC-TT-T--TTC-T-
1 TCATCTTTAAGCCCAATATCATTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
* * * * * *
424966 T--T-GTTAAGTCCAACACCATTAGCCTTGAATCAGCATATT---A-----ATGC-CT-TTG
1 TCATCTTTAAGCCCAATATCATTAGCCTTGAATCAGCATATTGGCACCTTTAT-CATTCTTC
* * ** *
425015 TCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCATATTGGCACCTTTATTATTCTTC
1 TCATCTTTAAGCCCAATATCATTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
* * * *
425076 TCATCTTCAAGCCCAATATCACTAGCCTTTAATCAACATATTGGCACCTTTATCATTCTTC
1 TCATCTTTAAGCCCAATATCATTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
* ** * * *
425137 TCATCTTCAAGCCTTATATCATTGGCCGTGAATCAGCATATTGGCACCTTTATCATTTTTC
1 TCATCTTTAAGCCCAATATCATTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
* * ** *
425198 TCATCTTCAAGCCTAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTT
1 TCATCTTTAAGCCCAATATCATTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
* * * * * * *
425259 TCATCTTCAAGCCCTGATATCACTAGTCATAAATCAGCATATTGGCACCTTTAGCATTCTT-
1 TCATCTTTAAGCCC-AATATCATTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
425320 TGCATCTTTAAG
1 T-CATCTTTAAG
425332 TCTAATGTCG
Statistics
Matches: 350, Mismatches: 51, Indels: 39
0.80 0.12 0.09
Matches are distributed among these distances:
46 1 0.00
48 2 0.01
49 2 0.01
51 1 0.00
52 61 0.17
53 1 0.00
55 2 0.01
56 1 0.00
57 3 0.01
59 1 0.00
60 5 0.01
61 221 0.63
62 49 0.14
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (61 bp):
TCATCTTTAAGCCCAATATCATTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
Found at i:425366 original size:123 final size:121
Alignment explanation
Indices: 425036--425366 Score: 351
Period size: 122 Copynumber: 2.7 Consensus size: 121
425026 TCCAATGTCG
* * ** * * * *
425036 CTAGCCTTGAATCAGCATATTGGCACCTTTATTATTCTTCTCATCTTCAAGCCCAATATCACTAG
1 CTAGCCATAAATCAGCATATTGGCACCTTTAGCATTTTTCGCATCTTCAAGCCTAATATCGCTAG
* * * * *
425101 CCTTTAATCAACATATTGGCACCTTTATCATTCTTCTCATCTTCAAGCCTTATATCA
66 -CTTGAATCAGCACAGTGGCACCTTTATCATTCTTCTCATCTTCAAGCCTGATATCA
* * * * * *
425158 TTGGCCGTGAATCAGCATATTGGCACCTTTATCATTTTTCTCATCTTCAAGCCTAATATCGCTAG
1 CTAGCCATAAATCAGCATATTGGCACCTTTAGCATTTTTCGCATCTTCAAGCCTAATATCGCTAG
* * *
425223 CCTTGAATCAGCATATTGGCACCTTTATCATTCTTTTCATCTTCAAGCCCTGATATCA
66 -CTTGAATCAGCACAGTGGCACCTTTATCATTCTTCTCATCTTCAAG-CCTGATATCA
* * * * *
425281 CTAGTCATAAATCAGCATATTGGCACCTTTAGCATTCTTT-GCATCTTTAAGTCTAATGTCGTTG
1 CTAGCCATAAATCAGCATATTGGCACCTTTAGCATT-TTTCGCATCTTCAAGCCTAATATCGCT-
425345 ATG-TTGAATCAGCACAGTGGCA
64 A-GCTTGAATCAGCACAGTGGCA
425367 TTCTTCTCAT
Statistics
Matches: 181, Mismatches: 24, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
122 102 0.56
123 74 0.41
124 4 0.02
125 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (121 bp):
CTAGCCATAAATCAGCATATTGGCACCTTTAGCATTTTTCGCATCTTCAAGCCTAATATCGCTAG
CTTGAATCAGCACAGTGGCACCTTTATCATTCTTCTCATCTTCAAGCCTGATATCA
Found at i:425388 original size:184 final size:183
Alignment explanation
Indices: 425015--425415 Score: 477
Period size: 184 Copynumber: 2.2 Consensus size: 183
425005 AATGCCTTTG
*
425015 TCATCTTTAAGTCC-AATGTCGCTAGCCTTGAATCAGCATATTGGCACCTTTATTATTCTTCTCA
1 TCATCTTTAAG-CCTAATGTCGCTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTCTCA
* * *
425079 TCTTCAAGCCCAATATCACTAGCCTTTAATCAACATATTGGCACCTTTATCATTCTTCTCATCTT
65 TCTTCAAGCCCAATATCACTAGCCATAAATCAACATATTGGCACCTTTAGCATTCTTCTCATCTT
* * * * ** *
425144 CAAGCCTTATATCATTGGCCGTGAATCAGCATATTGGCACCTTTATCATTTTTC
130 CAAGCCTAATATCATTGGACGTGAATCAGCACAGTGGCACCTTTATCATCCTTA
* * *
425198 TCATCTTCAAGCCTAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTTTCAT
1 TCATCTTTAAGCCTAATGTCGCTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTCTCAT
* * *
425263 CTTCAAGCCCTGATATCACTAGTCATAAATCAGCATATTGGCACCTTTAGCATTCTT-TGCATCT
66 CTTCAAGCCC-AATATCACTAGCCATAAATCAACATATTGGCACCTTTAGCATTCTTCT-CATCT
* * * * * * *
425327 TTAAGTCTAATGTCGTT-GATGTTGAATCAGCACAGTGGCA-TTCTTCTCATCCTTA
129 TCAAGCCTAATATCATTGGACG-TGAATCAGCACAGTGGCACCT-TTATCATCCTTA
* * * *
425382 TCATCTTTAAGTCTAGTGTTGCAAGCCTTGAATC
1 TCATCTTTAAGCCTAATGTCGCTAGCCTTGAATC
425416 TGCACACTGG
Statistics
Matches: 183, Mismatches: 30, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
182 2 0.01
183 72 0.39
184 109 0.60
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.38
Consensus pattern (183 bp):
TCATCTTTAAGCCTAATGTCGCTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTCTCAT
CTTCAAGCCCAATATCACTAGCCATAAATCAACATATTGGCACCTTTAGCATTCTTCTCATCTTC
AAGCCTAATATCATTGGACGTGAATCAGCACAGTGGCACCTTTATCATCCTTA
Found at i:427008 original size:49 final size:50
Alignment explanation
Indices: 426920--427030 Score: 170
Period size: 49 Copynumber: 2.2 Consensus size: 50
426910 AACAGTACAT
426920 GTATCAATACATTCTTTTTTTTACCCAAATGTATCGATACATTTTTCAAC
1 GTATCAATACATTCTTTTTTTTACCCAAATGTATCGATACATTTTTCAAC
* * * * *
426970 GTATCGATACATTC-TTTTTTTACCTAGATGTATTGATACATTTTTCAAT
1 GTATCAATACATTCTTTTTTTTACCCAAATGTATCGATACATTTTTCAAC
427019 GTATCAATACAT
1 GTATCAATACAT
427031 CTAGTTAATT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
49 42 0.76
50 13 0.24
ACGTcount: A:0.30, C:0.17, G:0.08, T:0.45
Consensus pattern (50 bp):
GTATCAATACATTCTTTTTTTTACCCAAATGTATCGATACATTTTTCAAC
Found at i:427942 original size:21 final size:20
Alignment explanation
Indices: 427909--427956 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
427899 TCTAAACAGC
*
427909 CCATGTCCCTGCATTTTAAG
1 CCATGTCCATGCATTTTAAG
427929 CCATGTACCATGCATTTTAA-
1 CCATGT-CCATGCATTTTAAG
427949 -CATGTCCA
1 CCATGTCCA
427957 ACATGTAGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 3 0.12
19 5 0.19
20 6 0.23
21 12 0.46
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (20 bp):
CCATGTCCATGCATTTTAAG
Found at i:432623 original size:157 final size:154
Alignment explanation
Indices: 432451--432957 Score: 599
Period size: 157 Copynumber: 3.2 Consensus size: 154
432441 GAAAAATTTA
* * *
432451 ATATTTT-GAAGATAAAAATGGGTTTAGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCCC
1 ATATTTTGGAA-ATAAAACTGGGGTTAGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCTC
* * * * * *
432515 AATAGTGACAAATCAAGATTTTGGAAATAAAATCGAGTTAGAGTATCCCTTCGAAAATAATGGGG
65 GATAGTGAAAAATCAATATTTTGGAAATAAAATCGGGTTGGAGTATCCCTTC-AAAATAACGGGG
432580 TTAGAGTATCCCCGATGGTGAGAAATCG
129 TT-GAGTATCCCCGATGGTGA-AAATCG
* * * *
432608 ATATTTTGGAAATAAAACCGGGGTTGGAGTATCCCTTCAAAAATAACGAGGTTGGACTATCCTCG
1 ATATTTTGGAAATAAAACTGGGGTTAGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCTCG
** *
432673 ATAGTGAAAAATTGATATTTTGAAAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAACGGGG
66 ATAGTGAAAAATCAATATTTTGGAAATAAAATC-GGGTTGGAGTATCCCTTC-AAAATAACGGGG
** *
432738 TTGGAGTATCGTCGATGGTGAAAAATCA
129 TT-GAGTATCCCCGATGGTG-AAAATCG
* * * * *
432766 ATATTTTAGAAATAAAACT-GGGTTGGAGTATCCCCTT-AAAAATAATGGGATTGGAGTATCATC
1 ATATTTTGGAAATAAAACTGGGGTTAGAGTAT-CCCTTCAAAAATAACGGGGTTGGAGTATCCTC
*
432829 GATAGTGAAAAATCAATATTTTGGAAATAAAACTAGGGTTGGAGTATCTCC-TCAGAAATAACGG
65 GATAGTGAAAAATCAATATTTTGGAAATAAAA-TCGGGTTGGAGTATC-CCTTCA-AAATAACGG
* * *
432893 AGTTGTAATATCCCCGATGGTGAAAATTTG
127 GGTTG-AGTATCCCCGATGGTGAAAA-TCG
*
432923 ATGTTTTGGAAATAAAACTGGGGTTAGAGTATCCC
1 ATATTTTGGAAATAAAACTGGGGTTAGAGTATCCC
432958 CGATGGTGAA
Statistics
Matches: 299, Mismatches: 41, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
156 6 0.02
157 204 0.68
158 88 0.29
159 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (154 bp):
ATATTTTGGAAATAAAACTGGGGTTAGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCTCG
ATAGTGAAAAATCAATATTTTGGAAATAAAATCGGGTTGGAGTATCCCTTCAAAATAACGGGGTT
GAGTATCCCCGATGGTGAAAATCG
Found at i:432690 original size:79 final size:79
Alignment explanation
Indices: 432440--432957 Score: 551
Period size: 79 Copynumber: 6.6 Consensus size: 79
432430 CATTCCCCAT
* ** * *
432440 TGAAAAATTTAATATTTT-GAAGATAAAAATGGGTTTAGAGTATCCCTTCAAAAATAACGGGGTT
1 TGAAAAA-TCAATATTTTGGAA-ATAAAACCGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTT
*
432504 GGAGTATCCCCAATAG
64 GGAGTATCCCCGATAG
* * * * * * * *
432520 TGACAAATCAAGATTTTGGAAATAAAATC-GAGTTAGAGTATCCCTTCGAAAATAATGGGGTTAG
1 TGAAAAATCAATATTTTGGAAATAAAACCGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGG
*
432584 AGTATCCCCGATGG
66 AGTATCCCCGATAG
* * *
432598 TGAGAAATCGATATTTTGGAAATAAAACCGGGGTTGGAGTATCCCTTCAAAAATAACGAGGTTGG
1 TGAAAAATCAATATTTTGGAAATAAAACCGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGG
* *
432663 ACTATCCTCGATAG
66 AGTATCCCCGATAG
** * *
432677 TGAAAAATTGATATTTTGAAAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGG
1 TGAAAAATCAATATTTTGGAAATAAAACCGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGG
** *
432742 AGTATCGTCGATGG
66 AGTATCCCCGATAG
* * * *
432756 TGAAAAATCAATATTTTAGAAATAAAA-CTGGGTTGGAGTATCCCCTT-AAAAATAATGGGATTG
1 TGAAAAATCAATATTTTGGAAATAAAACCGGGGTTGGAGTAT-CCCTTCAAAAATAACGGGGTTG
**
432819 GAGTATCATCGATAG
65 GAGTATCCCCGATAG
** * *
432834 TGAAAAATCAATATTTTGGAAATAAAACTAGGGTTGGAGTATCTCC-TCAGAAATAACGGAGTTG
1 TGAAAAATCAATATTTTGGAAATAAAACCGGGGTTGGAGTATC-CCTTCAAAAATAACGGGGTTG
* * *
432898 TAATATCCCCGATGG
65 GAGTATCCCCGATAG
* ** * * *
432913 TGAAAATTTGATGTTTTGGAAATAAAACTGGGGTTAGAGTATCCC
1 TGAAAAATCAATATTTTGGAAATAAAACCGGGGTTGGAGTATCCC
432958 CGATGGTGAA
Statistics
Matches: 372, Mismatches: 60, Indels: 14
0.83 0.13 0.03
Matches are distributed among these distances:
78 137 0.37
79 226 0.61
80 9 0.02
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (79 bp):
TGAAAAATCAATATTTTGGAAATAAAACCGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGG
AGTATCCCCGATAG
Found at i:432870 original size:236 final size:236
Alignment explanation
Indices: 432440--432957 Score: 652
Period size: 236 Copynumber: 2.2 Consensus size: 236
432430 CATTCCCCAT
* * *
432440 TGAAAAATTTAATATTTTGAAGATAAAAAT-GGGTTTAGAGTATCCCTTCAAAAATAACGGGGTT
1 TGAAAAA-TTGATATTTTGAAAAT-AAAATCGGGGTTAGAGTATCCCTTCAAAAATAACGGGGTT
* * *
432504 GGAGTATCCCCAATAGTGACAAATCAAGATTTTGGAAATAAAATCGAGTTAGAGTATCCCTTCGA
64 GGAGTATCCCCAATAGTGAAAAATCAAGATTTTAGAAATAAAATCGAGTTAGAGTATCCCTTCAA
* * * * * *
432569 AAATAATGGGGTTAGAGTATCCCCGATGGTGAGAAATCGATATTTTGGAAATAAAACCGGGGTTG
129 AAATAATGGGATTAGAGTATCACCGATAGTGAAAAATCAATATTTTGGAAATAAAACCAGGGTTG
* *
432634 GAGTATC-CCTTCAAAAATAAC-GAGGTTGGACTATCCTCGATAG
194 GAGTATCTCC-TCAAAAATAACGGA-GTTGGAATATCCCCGATAG
*
432677 TGAAAAATTGATATTTTGAAAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGG
1 TGAAAAATTGATATTTTGAAAATAAAATCGGGGTTAGAGTATCCCTTCAAAAATAACGGGGTTGG
** * * * * *
432742 AGTATCGTCGATGGTGAAAAATCAATATTTTAGAAATAAAA-CTGGGTTGGAGTATCCCCTT-AA
66 AGTATCCCCAATAGTGAAAAATCAAGATTTTAGAAATAAAATC-GAGTTAGAGTAT-CCCTTCAA
* * *
432805 AAATAATGGGATTGGAGTATCATCGATAGTGAAAAATCAATATTTTGGAAATAAAACTAGGGTTG
129 AAATAATGGGATTAGAGTATCACCGATAGTGAAAAATCAATATTTTGGAAATAAAACCAGGGTTG
* * *
432870 GAGTATCTCCTCAGAAATAACGGAGTTGTAATATCCCCGATGG
194 GAGTATCTCCTCAAAAATAACGGAGTTGGAATATCCCCGATAG
* * *
432913 TGAAAATTTGATGTTTTGGAAATAAAA-CTGGGGTTAGAGTATCCC
1 TGAAAAATTGATATTTTGAAAATAAAATC-GGGGTTAGAGTATCCC
432958 CGATGGTGAA
Statistics
Matches: 243, Mismatches: 32, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
235 7 0.03
236 220 0.91
237 16 0.07
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (236 bp):
TGAAAAATTGATATTTTGAAAATAAAATCGGGGTTAGAGTATCCCTTCAAAAATAACGGGGTTGG
AGTATCCCCAATAGTGAAAAATCAAGATTTTAGAAATAAAATCGAGTTAGAGTATCCCTTCAAAA
ATAATGGGATTAGAGTATCACCGATAGTGAAAAATCAATATTTTGGAAATAAAACCAGGGTTGGA
GTATCTCCTCAAAAATAACGGAGTTGGAATATCCCCGATAG
Found at i:433007 original size:21 final size:20
Alignment explanation
Indices: 432967--433009 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
432957 CCGATGGTGA
*
432967 AAAATCGATATTTTAGAAAT
1 AAAATCGATATTTTAAAAAT
432987 AAAATCGATATTTTGAAAAAT
1 AAAATCGATATTTT-AAAAAT
433008 AA
1 AA
433010 CCTAATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (20 bp):
AAAATCGATATTTTAAAAAT
Found at i:442193 original size:18 final size:17
Alignment explanation
Indices: 442167--442213 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
442157 TATGTATATA
442167 TATTTTTATATTTATTT
1 TATTTTTATATTTATTT
442184 CT-TATTTTATA-TTATTT
1 -TAT-TTTTATATTTATTT
442201 TATTTTTATATTT
1 TATTTTTATATTT
442214 TTTATTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 8 0.31
17 10 0.38
18 8 0.31
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTTTATATTTATTT
Found at i:442922 original size:43 final size:43
Alignment explanation
Indices: 442780--443067 Score: 265
Period size: 43 Copynumber: 6.7 Consensus size: 43
442770 AAAGGTGGAA
* * * * **
442780 AAGTCTGCAGGGTCAAAGTCGATAGGCAGACTAAAGGGTAAGG
1 AAGTCTCCAAGGTCAAAGCCGATAGGTAGACTTGAGGGTAAGG
* * * * * * * * **
442823 AAGTTTCCAAGATCAAAGCTGACAGGCAGA-TTAAAGCTAAAA
1 AAGTCTCCAAGGTCAAAGCCGATAGGTAGACTTGAGGGTAAGG
* * *
442865 AAGTCTTCAGGGTCAAAGCCAATAGGTAGACTTGAGGGTAAGG
1 AAGTCTCCAAGGTCAAAGCCGATAGGTAGACTTGAGGGTAAGG
* * * * * * *
442908 AAGTCTCCAAGGTCAAAGACAATAGGTGGAC-CGAAGGTGAGA
1 AAGTCTCCAAGGTCAAAGCCGATAGGTAGACTTGAGGGTAAGG
* * *
442950 AAGTCTCCAAGGTTAAAGCCGACAAGTAGACTTGAGGGTAAGG
1 AAGTCTCCAAGGTCAAAGCCGATAGGTAGACTTGAGGGTAAGG
*
442993 AAGTCTCCAAGGTCAAAGCCGATAGGTAAACTTGAGGGTAAGG
1 AAGTCTCCAAGGTCAAAGCCGATAGGTAGACTTGAGGGTAAGG
* * *
443036 AAGTCTCTAAGGTCAAAGCTGATAGATAGACT
1 AAGTCTCCAAGGTCAAAGCCGATAGGTAGACT
443068 GAAGGTGAAG
Statistics
Matches: 192, Mismatches: 51, Indels: 4
0.78 0.21 0.02
Matches are distributed among these distances:
42 61 0.32
43 131 0.68
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.19
Consensus pattern (43 bp):
AAGTCTCCAAGGTCAAAGCCGATAGGTAGACTTGAGGGTAAGG
Found at i:442953 original size:85 final size:85
Alignment explanation
Indices: 442864--443019 Score: 240
Period size: 85 Copynumber: 1.8 Consensus size: 85
442854 TAAAGCTAAA
* * * *
442864 AAAGTCTTCAGGGTCAAAGCCAATAGGTAGACTTGAGGGTAAGGAAGTCTCCAAGGTCAAAGACA
1 AAAGTCTCCAAGGTCAAAGCCAACAAGTAGACTTGAGGGTAAGGAAGTCTCCAAGGTCAAAGACA
442929 ATAGGTGGACCGAAGGTGAG
66 ATAGGTGGACCGAAGGTGAG
* * * *
442949 AAAGTCTCCAAGGTTAAAGCCGACAAGTAGACTTGAGGGTAAGGAAGTCTCCAAGGTCAAAGCCG
1 AAAGTCTCCAAGGTCAAAGCCAACAAGTAGACTTGAGGGTAAGGAAGTCTCCAAGGTCAAAGACA
443014 ATAGGT
66 ATAGGT
443020 AAACTTGAGG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 63 1.00
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (85 bp):
AAAGTCTCCAAGGTCAAAGCCAACAAGTAGACTTGAGGGTAAGGAAGTCTCCAAGGTCAAAGACA
ATAGGTGGACCGAAGGTGAG
Found at i:443081 original size:85 final size:85
Alignment explanation
Indices: 442864--443067 Score: 239
Period size: 85 Copynumber: 2.4 Consensus size: 85
442854 TAAAGCTAAA
* * * *
442864 AAAGTCTTCAGGGTCAAAGCCAATAGGTAGACTTGAGGGTAAGGAAGTCTCCAAGGTCAAAGACA
1 AAAGTCTCCAAGGTCAAAGCCGATAGATAGACTTGAGGGTAAGGAAGTCTCCAAGGTCAAAGACA
** *
442929 ATAGGTGGACCGAAGGTGAG
66 ATAGGTAAACCGAAGGTAAG
* * *
442949 AAAGTCTCCAAGGTTAAAGCCGACA-AGTAGACTTGAGGGTAAGGAAGTCTCCAAGGTCAAAGCC
1 AAAGTCTCCAAGGTCAAAGCCGATAGA-TAGACTTGAGGGTAAGGAAGTCTCCAAGGTCAAAGAC
* * *
443013 GATAGGTAAACTTGAGGGTAAG
65 AATAGGTAAAC-CGAAGGTAAG
* * *
443035 GAAGTCTCTAAGGTCAAAGCTGATAGATAGACT
1 AAAGTCTCCAAGGTCAAAGCCGATAGATAGACT
443068 GAAGGTGAAG
Statistics
Matches: 98, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
85 64 0.65
86 33 0.34
87 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.19
Consensus pattern (85 bp):
AAAGTCTCCAAGGTCAAAGCCGATAGATAGACTTGAGGGTAAGGAAGTCTCCAAGGTCAAAGACA
ATAGGTAAACCGAAGGTAAG
Found at i:446264 original size:51 final size:52
Alignment explanation
Indices: 446188--446315 Score: 195
Period size: 52 Copynumber: 2.5 Consensus size: 52
446178 CGAAATATGA
* *
446188 AAATTTACCTGCATGTATCGATACATTTAAT-AGGTATCAATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTAATAAGGTATCAATACATCTGGGC
* * * *
446239 AAATTTGCCTGTATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAAGGTATCAATACATCTGGGC
446291 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
446316 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
51 28 0.41
52 41 0.59
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAAGGTATCAATACATCTGGGC
Found at i:446328 original size:52 final size:51
Alignment explanation
Indices: 446188--446335 Score: 183
Period size: 52 Copynumber: 2.9 Consensus size: 51
446178 CGAAATATGA
* * *
446188 AAATTTACCTGCATGTATCGATACATTTAATAG-GTATCAATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* * *
446239 AAATTTGCCTGTATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
446291 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
446336 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
51 31 0.37
52 53 0.63
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:446342 original size:13 final size:13
Alignment explanation
Indices: 446324--446348 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
446314 CAAAGATCAG
446324 TGTATCGATACAA
1 TGTATCGATACAA
446337 TGTATCGATACA
1 TGTATCGATACA
446349 TTTTTTGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Done.