Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold565
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: 47589
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.23
Found at i:309 original size:43 final size:43
Alignment explanation
Indices: 181--946 Score: 742
Period size: 43 Copynumber: 18.1 Consensus size: 43
171 TGGCACACTG
*
181 TCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCA
1 TCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCA
* ** * * * *
224 TCGGC-ACCTTGGTGCTTGGAT-GTGCGAGAACCTCGCGTACCA
1 TCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCA
* *
266 TCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCA
1 TCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCA
* * *
309 TCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCA
1 TCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCA
** *
352 TCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCA
1 TCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCA
* * *
395 TCGGCAAACTAGGGCCTTGGTCGTGCGGGAGCCTCGGCCACCA
1 TCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCA
* ** * * * **
438 TCGGC-ACCTCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTG
1 TCGGCAACCTAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCA
* **
480 TCGGCAACCTAGGCCCTTGGCCGTGCGGGAGCCTCTAGCACCA
1 TCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCA
* ** * * * *
523 TCGGC-ACCTTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCA
1 TCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCA
* * *
565 TCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCA
1 TCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCA
* *
608 TCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCA
1 TCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCA
** *
651 TCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCA
1 TCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCA
* * ** * *
694 TTGGC-TCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCA
1 TCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCA
* *
736 TCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCA
1 TCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCA
* * ** * *
779 TCGAC-ACCTTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCA
1 TCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCA
* * * *
821 TCGGCAACCTAGACCCTTGGTCATGCGAGAGGCTCGGGCACCA
1 TCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCA
* ** *
864 TCGGTAAAATAGGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA
1 TCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCA
*
904 -C--C-A--TCGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCA
1 TCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCA
941 TCGGCA
1 TCGGCA
947 CCTTGGTGGC
Statistics
Matches: 586, Mismatches: 115, Indels: 46
0.78 0.15 0.06
Matches are distributed among these distances:
34 24 0.04
35 2 0.00
36 1 0.00
37 3 0.01
38 1 0.00
39 1 0.00
40 4 0.01
42 165 0.28
43 385 0.66
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (43 bp):
TCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCA
Found at i:499 original size:85 final size:84
Alignment explanation
Indices: 203--975 Score: 642
Period size: 85 Copynumber: 9.2 Consensus size: 84
193 GCCCTTGGTC
* * ** * * *
203 GTGCGGGAGCCTC-GAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGAGAACCTC-GCGTAC
1 GTGCGGGAGCCTCGGA-CACCATCGGCAAACTAGGCCCTTGG-TCGTGCGGGAGCCTCGGC-CAC
** *
264 CATCGGCAACCTAGGCCCTTGGT
63 CATCGGC-ACCTAGGTGCTTGAT
* * * *
287 CGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCA
1 -GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCA
** ** *
352 TCGGCAAAATAGGCCCTTGGT
65 TCGGC-ACCTAGGTGCTTGAT
*
373 CGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGGCCTTGGTCGTGCGGGAGCCTCGGCCACCA
1 -GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCA
*
438 TCGGCACCTCGGTGCTATGAT
65 TCGGCACCTAGGTGCT-TGAT
* ** * * *
459 GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGAGCCTCTAG-CACCA
1 GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTC-GGCCACCA
*
523 TCGGCACCTTGGTGCTTGGAT
65 TCGGCACCTAGGTGCTT-GAT
* * * * * * * *
544 GTCCGAGAACCTCGCG-CACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCA
1 GTGCGGGAGCCTCG-GACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCA
* * ** *
608 TCGGCAAACTAAGCCCTTGGT
65 TCGGC-ACCTAGGTGCTTGAT
* *
629 CGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCA
1 -GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCA
* * *
694 TTGGCTCCTAGGTGCTGGGAT
65 TCGGCACCTAGGTGCT-TGAT
715 GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGAG-CACCA
1 GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCG-GCCACCA
* *
779 TCGACACCTTGGTGCTTGGAT
65 TCGGCACCTAGGTGCTT-GAT
* * * * * * * * *
800 GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGGTCATGCGAGAGGCTCGGGCACCAT
1 GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCAT
* ** ** *
865 CGGTAAAATAGGCCCTTGGT
66 CGG-CACCTAGGTGCTTGAT
* * *
885 CGTGCGGGGGCCTCGG---CCA-C--C--A-TCGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCA
1 -GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCA
* *
941 TCGGCACCTTGGTGGCTCGGAT
65 TCGGCACCTAGGT-GCT-TGAT
963 GTGCGGGAGCCTC
1 GTGCGGGAGCCTC
976 AGTGGCTAGG
Statistics
Matches: 561, Mismatches: 107, Indels: 48
0.78 0.15 0.07
Matches are distributed among these distances:
76 4 0.01
77 47 0.08
78 2 0.00
80 1 0.00
82 1 0.00
83 3 0.01
84 3 0.01
85 298 0.53
86 200 0.36
87 2 0.00
ACGTcount: A:0.17, C:0.32, G:0.34, T:0.18
Consensus pattern (84 bp):
GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCAT
CGGCACCTAGGTGCTTGAT
Found at i:671 original size:256 final size:256
Alignment explanation
Indices: 298--975 Score: 980
Period size: 256 Copynumber: 2.7 Consensus size: 256
288 GTGCGAGAGG
* * * * *
298 CTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATA
1 CTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAATA
* * *
363 GGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGGCCTTGGTCGTGCGGGAGCC
66 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCC
* * * ** *
428 TCGGCCACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGG
131 TCGGCCACCATCGGCACCTAGGTGCTAGGATGTGCGGGAGCCTCGGACACCATCGGCAAACTAGG
* *
493 CCCTTGGCCGTGCGGGAGCCTCTAGCACCATCGGCACCTTGGTGCTTGGATGT-CCGAGAAC
196 CCCTTGGCCGTGCGGGAGCCTCGAGCACCATCGACACCTTGGTGCTTGGATGTGCCG-GAAC
* * *
554 CTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTA
1 CTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAATA
*
619 AGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCC
66 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCC
* * *
684 TCGGCCACCATTGGCTCCTAGGTGCTGGGATGTGCGGGAGCCTCGGACACCATCGGCAAACTAGG
131 TCGGCCACCATCGGCACCTAGGTGCTAGGATGTGCGGGAGCCTCGGACACCATCGGCAAACTAGG
*
749 CCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGACACCTTGGTGCTTGGATGTGCCGGAAC
196 CCCTTGGCCGTGCGGGAGCCTCGAGCACCATCGACACCTTGGTGCTTGGATGTGCCGGAAC
* * *
810 CTCGGGCACCATCGGCAACCTAGACCCTTGGTCATGCGAGAGGCTCGGGCACCATCGGTAAAATA
1 CTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAATA
* *
875 GGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA-C--C---ATCGGCCCTTGGTCGTGCGGGAGCC
66 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCC
* * *
931 TCGGGCACCATCGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTC
131 TCGGCCACCATCGGCACCTAGGT-GCTAGGATGTGCGGGAGCCTC
976 AGTGGCTAGG
Statistics
Matches: 382, Mismatches: 38, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
247 43 0.11
248 20 0.05
250 1 0.00
252 1 0.00
253 3 0.01
255 2 0.01
256 309 0.81
257 3 0.01
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (256 bp):
CTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAATA
GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCC
TCGGCCACCATCGGCACCTAGGTGCTAGGATGTGCGGGAGCCTCGGACACCATCGGCAAACTAGG
CCCTTGGCCGTGCGGGAGCCTCGAGCACCATCGACACCTTGGTGCTTGGATGTGCCGGAAC
Found at i:766 original size:299 final size:299
Alignment explanation
Indices: 175--771 Score: 968
Period size: 299 Copynumber: 2.0 Consensus size: 299
165 TAGGGGTGGC
*
175 ACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCT
1 ACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCT
* * *
240 TGGATGTGCGAGAACCTCGCGTACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGC
66 TGGATGTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGC
305 ACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTT
131 ACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTT
* *
370 GGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGGCCTTGGTCGTGCGGGAGCCTCGGCCA
196 GGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGGCCTGGGTCGTGCGGGAGCCTCGGACA
* * **
435 CCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGG
261 CCATCGGCAACTAGGCCCTATGATGGGCGGGAGCCTCGG
*
474 ACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGAGCCTCTAGCACCATCGGCACCTTGGTGCT
1 ACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCT
539 TGGATGTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGC
66 TGGATGTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGC
*
604 ACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTT
131 ACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTT
* * **
669 GGTCGTGCGGGAGCCTCGGCCACCATTGGC-TCCTAGGTG-CTGGGAT-GTGCGGGAGCCTCGGA
196 GGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGG-GCCTGGG-TCGTGCGGGAGCCTCGGA
* *
731 CACCATCGGCAAACTAGGCCCT-TGGTCGTGCGGGAGCCTCG
259 CACCATCGGC-AACTAGGCCCTATGAT-GGGCGGGAGCCTCG
772 AGCACCATCG
Statistics
Matches: 276, Mismatches: 18, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
298 37 0.13
299 239 0.87
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (299 bp):
ACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCT
TGGATGTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGC
ACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTT
GGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGGCCTGGGTCGTGCGGGAGCCTCGGACA
CCATCGGCAACTAGGCCCTATGATGGGCGGGAGCCTCGG
Found at i:918 original size:34 final size:34
Alignment explanation
Indices: 875--953 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
865 CGGTAAAATA
*
875 GGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
*
909 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
943 GGCACCTTGGT
1 GGC-CCTTGGT
954 GGCTCGGATG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
34 35 0.83
35 7 0.17
ACGTcount: A:0.08, C:0.35, G:0.38, T:0.19
Consensus pattern (34 bp):
GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
Found at i:981 original size:25 final size:25
Alignment explanation
Indices: 952--1000 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
942 CGGCACCTTG
* *
952 GTGGCTCGGATGTGCGGGAGCCTCA
1 GTGGCTAGGAGGTGCGGGAGCCTCA
977 GTGGCTAGGAGGTGCGGGAGCCTC
1 GTGGCTAGGAGGTGCGGGAGCCTC
1001 GGACACCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.22, G:0.47, T:0.18
Consensus pattern (25 bp):
GTGGCTAGGAGGTGCGGGAGCCTCA
Found at i:1034 original size:42 final size:44
Alignment explanation
Indices: 988--1080 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 44
978 TGGCTAGGAG
*
988 GTGCGGGAGCCTCGGACA-CCATCGGCAACTTGGTG-CTTGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
* *
1030 GTGCGGGAGCCTCGGGCACCCATCGGCACCTTGGTGCCTGGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
1074 GTGCGGG
1 GTGCGGG
1081 CTAAAGAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 17 0.37
43 16 0.35
44 13 0.28
ACGTcount: A:0.13, C:0.28, G:0.40, T:0.19
Consensus pattern (44 bp):
GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
Found at i:9081 original size:42 final size:42
Alignment explanation
Indices: 8977--9268 Score: 319
Period size: 42 Copynumber: 6.9 Consensus size: 42
8967 GAGCCTCCAT
*
8977 CACCTTGGTGGC-TCGGATGTGTGGGAGCCTC-AGCCACCATCGG
1 CACCTTGGT-GCAT-GGATGTGCGGGAGCCTCGAG-CACCATCGG
* * *
9020 TAACCTTGATGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 -CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
9063 CACCTTGGTGCATGGATGTGCGGGAGCATCG-GACACCACCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAG-CACCATCGG
* * ** * *
9105 CAAACTAGGCCCTTGGTTGTG-GGGAGCCTCGGAG-ACCATCGG
1 C-ACCTTGGTGCATGGATGTGCGGGAGCCTC-GAGCACCATCGG
*
9147 CACCTCGGTGCTAT-GATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGC-ATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
9189 CACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
9231 CACCTTGGTGCATGGATGAGCGGGAGCCTTC-AGCACCA
1 CACCTTGGTGCATGGATGTGCGGGAGCC-TCGAGCACCA
9269 AAGCTAAAGT
Statistics
Matches: 211, Mismatches: 26, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
41 16 0.08
42 141 0.67
43 43 0.20
44 11 0.05
ACGTcount: A:0.17, C:0.28, G:0.34, T:0.20
Consensus pattern (42 bp):
CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
Found at i:9504 original size:24 final size:24
Alignment explanation
Indices: 9477--9555 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
9467 CCGGTTAGGT
*
9477 TCCCGGTGGTGCTCCGGCGATCCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
9501 TCCCGGCGGTGCTCCGGCGAACCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
9525 TCCC-GTCGGTGCTCCGGTGAACCG
1 TCCCGGT-GGTGCTCCGGCGAACCG
*
9549 TTCCGGT
1 TCCCGGT
9556 AGCATAGGCC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 1 0.02
24 45 0.94
25 2 0.04
ACGTcount: A:0.06, C:0.38, G:0.35, T:0.20
Consensus pattern (24 bp):
TCCCGGTGGTGCTCCGGCGAACCG
Found at i:13386 original size:85 final size:86
Alignment explanation
Indices: 13213--14171 Score: 886
Period size: 85 Copynumber: 11.3 Consensus size: 86
13203 ACACTAGGAT
* * * * * * *
13213 GTGCAGGAGCCCCGGACACCATCGGCAAACTAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGC
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT-CGTG--CGGGAGCCTCGGGCAC
* ** *
13277 CATCGGC-ACCTCGGTGCTTCGAT-
63 CATCGGCAACCTAGGCCCTT-GGTC
*
13300 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* ** *
13365 CGGC-ACCTCGGTGCTATGAT-
66 CGGCAACCTAGGCCCT-TGGTC
* ** *
13385 GTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* **
13450 CGGC-ACCTTGGTGCTTGGAT-
66 CGGCAACCTAGGCCCTTGG-TC
* * * * * *
13470 GTGCGAGAACCTCGCGTACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* *
13535 CGGCAAACTAAGCCCTTGGTC
66 CGGCAACCTAGGCCCTTGGTC
* ** *
13556 GTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
*
13621 CGGCAAACTAGGCCCTTGGTC
66 CGGCAACCTAGGCCCTTGGTC
* * ** * * * **
13642 GTGCGGGAGCCTCGGCCACCATCGGC-ACCTCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTG
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCA
*
13705 TCGGCAACCTAGGCCCTTGGCC
65 TCGGCAACCTAGGCCCTTGGTC
** * ** * * * *
13727 GTGCGGGAGCCTCTAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCA
*
13790 TCGACAACCTAGGCCCTTGGTC
65 TCGGCAACCTAGGCCCTTGGTC
* * * *
13812 GTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
**
13877 CGGCAAAATAGGCCCTTGGTC
66 CGGCAACCTAGGCCCTTGGTC
* * * ** * *
13898 GTGCGGGAGCCTCGGCCACCATTGGC-TCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCA
*
13961 TCGGCAAACTAGGCCCTTGGTC
65 TCGGCAACCTAGGCCCTTGGTC
* * * ** * *
13983 GTGCGGGAGCCTCGAGCACCATCGAC-ACCTTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCA
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCA
*
14046 TCGGCAACCTAGACCCTTGGTC
65 TCGGCAACCTAGGCCCTTGGTC
* * * * ** *
14068 ATGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA-
1 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
*
14129 C--C-A--TCGGCCCTTGGTC
66 CGGCAACCTAGGCCCTTGGTC
14145 GTGCGGGAGCCTCGGGCACCATCGGCA
1 GTGCGGGAGCCTCGGGCACCATCGGCA
14172 CCTTGGTGGC
Statistics
Matches: 733, Mismatches: 127, Indels: 34
0.82 0.14 0.04
Matches are distributed among these distances:
77 34 0.05
79 1 0.00
80 1 0.00
82 1 0.00
83 3 0.00
84 4 0.01
85 448 0.61
86 202 0.28
87 39 0.05
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (86 bp):
GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
CGGCAACCTAGGCCCTTGGTC
Found at i:13494 original size:170 final size:169
Alignment explanation
Indices: 13210--14136 Score: 621
Period size: 171 Copynumber: 5.4 Consensus size: 169
13200 GTGACACTAG
* * * *
13210 GATGTGCAGGAGCCCCGGACACCATCGGCAAACTAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGG
1 GATGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGT-CGTG--CGGGAGCCTC-GG
* * * *
13274 CGCCATCGGCACCTCGGTGCTTCGATGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTT
62 CACCATCGGCACCTCGGTGCTTCGATGTGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTT
* ** **
13339 GGTCGTGCG-GTAGCCTCGGGCACCATCGGC-ACCTCGGTGCTAT
127 GGTCGTGCGAG-AGCCTCGGGCACCATCGGCAAACTAAGCCCT-T
** *
13382 GATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCAC
1 GATGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCG-GCAC
* * *
13447 CATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGTACCATCGGCAACCTAGGCCCTTGGT
65 CATCGGCACCTCGGTGCTTCGATGTGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGGT
*
13512 CGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTT
130 CGTGCGAGAGCCTCGGGCACCATCGGCAAACTAAGCCCTT
* * *
13552 GGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGACA
1 GAT-GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGG-CA
* * ** * * * * **
13617 CCATCGGCAAACTAGGCCCTT-GGTCGTGCGGGAGCCTCG-GCCACCATCGGC-ACCTCGGTGCT
64 CCATCGGC-ACCTCGGTGCTTCGAT-GTGCGAGAACCTCGCG-CACCATCGGCAACCTAGGCCCT
* * * * ** * *
13679 ATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTT
126 -TGGTCGTGCGAGAGCCTCGGGCACCATCGGCAAACTAAGCCCTT
** * * * ** * * *
13723 GGCCGTGCGGGAGCCTC-TAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTCCGAGAACCTCGCG
1 -GATGTGCGGGAGCCTCGGA-CACCATCGGCAAACTAGGCCCTTGG-TCGTGCGGGAGCCTCG-G
* * ** * ** * * *
13785 CACCATCGACAACCTAGGCCCTT-GGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCC
62 CACCATCGGC-ACCTCGGTGCTTCGAT-GTGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCC
* * *
13849 TTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTT
125 TTGGTCGTGCGAGAGCCTCGGGCACCATCGGCAAACTAAGCCCTT
* * * ** ** *
13894 GGTCGTGCGGGAGCCTCGGCCACCATTGGC-TCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGAC
1 GAT-GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGG-TCGTGCGGGAGCCTCGG-C
* * ** * * * * * * **
13957 ACCATCGGCAAACTAGGCCCTT-GGTCGTGCGGGAGCCTCGAGCACCATCGAC-ACCTTGGTGCT
63 ACCATCGGC-ACCTCGGTGCTTCGAT-GTGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCCT
* *
14020 TGGAT-GTGCCG-GAACCTCGGGCACCATCGGCAACCT-AGACCCTT
126 TGG-TCGTG-CGAGAGCCTCGGGCACCATCGGCAAACTAAG-CCCTT
* * * * * * * *
14064 GGTCATGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGGTCGTGCGGGGGCCTCGGCCA
1 GAT-GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGG-CA
14129 CCATCGGC
64 CCATCGGC
14137 CCTTGGTCGT
Statistics
Matches: 616, Mismatches: 114, Indels: 51
0.79 0.15 0.07
Matches are distributed among these distances:
169 2 0.00
170 235 0.38
171 305 0.50
172 74 0.12
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (169 bp):
GATGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCACC
ATCGGCACCTCGGTGCTTCGATGTGCGAGAACCTCGCGCACCATCGGCAACCTAGGCCCTTGGTC
GTGCGAGAGCCTCGGGCACCATCGGCAAACTAAGCCCTT
Found at i:13692 original size:256 final size:253
Alignment explanation
Indices: 13300--14200 Score: 1031
Period size: 256 Copynumber: 3.5 Consensus size: 253
13290 GTGCTTCGAT
* ** *
13300 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCAT
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * ** * * ** **
13365 CGGCACCTCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGG-TC
66 CGGCAACTAGGCCCT-TGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACCTAGGTGC-TGGAT-
* ** * * * *
13428 GTGCGGGAGCCTC-GAGCACCATCGGC-ACCTTGGTGCTTGGATGTGCGAGAACCTCGCGTACCA
127 GTGCGGGAGCCTCGGA-CACCATCGGCAACCTAGGCCCTTGG-TGTGCGGGAGCCTCGAGCACCA
* ** ** *
13491 TCGGCAACCTAGGCCCTTGG-TCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGT
190 TCGGC-ACCTTGGTGCTTGGAT-GTGCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGT
13555 C
253 C
* * *
13556 GTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCAT
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
13621 CGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTCGGTGCTATGATGG
66 CGGC-AACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCT-GGATGT
** * *
13686 GCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGCCGTGCGGGAGCCTCTAGCACCATCG
129 GCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TGTGCGGGAGCCTCGAGCACCATCG
* * * *
13751 GCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTC
193 GCACCTTGGTGCTTGGATGTGCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGTC
* * *
13812 GTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
13877 CGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATTGGCTCCTAGGTGCTGGGATGT
66 CGGC-AACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCT-GGATGT
*
13942 GCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCG
129 GCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGT-GTGCGGGAGCCTCGAGCACCATCG
*
14007 ACACCTTGGTGCTTGGATGTGCCG-GAACCTCGGGCACCATCGGCAACCT-AGACCCTTGGTC
193 GCACCTTGGTGCTTGGATGTG-CGAGAACCTCGGGCACCATCGGCAACCTAAG-CCCTTGGTC
* * * *
14068 ATGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA-
1 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
14129 C--C-A-TCGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGGCTCGGATGT
66 CGGCAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGT-GCT-GGATGT
14190 GCGGGAGCCTC
129 GCGGGAGCCTC
14201 AGTGGCTAGG
Statistics
Matches: 560, Mismatches: 74, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
247 42 0.08
248 21 0.04
250 1 0.00
252 1 0.00
253 3 0.01
255 4 0.01
256 420 0.75
257 68 0.12
ACGTcount: A:0.16, C:0.32, G:0.34, T:0.18
Consensus pattern (253 bp):
GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
CGGCAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCTGGATGTGC
GGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTGTGCGGGAGCCTCGAGCACCATCGGCA
CCTTGGTGCTTGGATGTGCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGTC
Found at i:13996 original size:299 final size:299
Alignment explanation
Indices: 13229--13966 Score: 1162
Period size: 299 Copynumber: 2.5 Consensus size: 299
13219 GAGCCCCGGA
* * ** * *
13229 CACCATCGGCAAACTAAGCCCTTGGTAC-TGCTCTGGAGCCTCGGGCGCCATCGGC-ACCTCGGT
1 CACCATCGGCAAACTAAGCCCTTGGT-CGTG--CGGGAGCCTCGGGCACCATCGGCAAAATAGGC
* * * *
13292 GCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTC
63 CCTT-GGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTC
*
13356 GGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCC
127 GGACACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCC
* *
13421 CTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCG
192 CTTGGCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCG
* *
13486 TACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
257 CACCATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
*
13529 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* *
13594 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCC
66 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
*
13659 ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
131 ACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
*
13724 GCCGTGCGGGAGCCTCTAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
196 GCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
13789 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
261 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
13828 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* * * ** *
13893 TGGTCGTGCGGGAGCCTCGGCCACCATTGGC-TCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGA
66 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGA
13956 CACCATCGGCA
130 CACCATCGGCA
13967 AACTAGGCCC
Statistics
Matches: 406, Mismatches: 28, Indels: 10
0.91 0.06 0.02
Matches are distributed among these distances:
298 57 0.14
299 321 0.79
300 28 0.07
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.18
Consensus pattern (299 bp):
CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
ACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
GCCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
Found at i:14143 original size:34 final size:34
Alignment explanation
Indices: 14100--14178 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
14090 CGGTAAAATA
*
14100 GGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
*
14134 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
14168 GGCACCTTGGT
1 GGC-CCTTGGT
14179 GGCTCGGATG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
34 35 0.83
35 7 0.17
ACGTcount: A:0.08, C:0.35, G:0.38, T:0.19
Consensus pattern (34 bp):
GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
Found at i:14206 original size:25 final size:25
Alignment explanation
Indices: 14177--14225 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
14167 CGGCACCTTG
* *
14177 GTGGCTCGGATGTGCGGGAGCCTCA
1 GTGGCTAGGAGGTGCGGGAGCCTCA
14202 GTGGCTAGGAGGTGCGGGAGCCTC
1 GTGGCTAGGAGGTGCGGGAGCCTC
14226 GGACACCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.22, G:0.47, T:0.18
Consensus pattern (25 bp):
GTGGCTAGGAGGTGCGGGAGCCTCA
Found at i:14259 original size:42 final size:44
Alignment explanation
Indices: 14213--14305 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 44
14203 TGGCTAGGAG
*
14213 GTGCGGGAGCCTCGGACA-CCATCGGCAACTTGGTG-CTTGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
* *
14255 GTGCGGGAGCCTCGGGCACCCATCGGCACCTTGGTGCCTGGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
14299 GTGCGGG
1 GTGCGGG
14306 CTAAAGAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 17 0.37
43 16 0.35
44 13 0.28
ACGTcount: A:0.13, C:0.28, G:0.40, T:0.19
Consensus pattern (44 bp):
GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
Found at i:22309 original size:42 final size:42
Alignment explanation
Indices: 22205--22496 Score: 319
Period size: 42 Copynumber: 6.9 Consensus size: 42
22195 GAGCCTCCAT
*
22205 CACCTTGGTGGC-TCGGATGTGTGGGAGCCTC-AGCCACCATCGG
1 CACCTTGGT-GCAT-GGATGTGCGGGAGCCTCGAG-CACCATCGG
* * *
22248 TAACCTTGATGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 -CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
22291 CACCTTGGTGCATGGATGTGCGGGAGCATCG-GACACCACCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAG-CACCATCGG
* * ** * *
22333 CAAACTAGGCCCTTGGTTGTG-GGGAGCCTCGGAG-ACCATCGG
1 C-ACCTTGGTGCATGGATGTGCGGGAGCCTC-GAGCACCATCGG
*
22375 CACCTCGGTGCTAT-GATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGC-ATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
22417 CACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
22459 CACCTTGGTGCATGGATGAGCGGGAGCCTTC-AGCACCA
1 CACCTTGGTGCATGGATGTGCGGGAGCC-TCGAGCACCA
22497 AAGCTAAAGT
Statistics
Matches: 211, Mismatches: 26, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
41 16 0.08
42 141 0.67
43 43 0.20
44 11 0.05
ACGTcount: A:0.17, C:0.28, G:0.34, T:0.20
Consensus pattern (42 bp):
CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
Found at i:22732 original size:24 final size:24
Alignment explanation
Indices: 22705--22783 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
22695 CCGGTTAGGT
*
22705 TCCCGGTGGTGCTCCGGCGATCCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
22729 TCCCGGCGGTGCTCCGGCGAACCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
22753 TCCC-GTCGGTGCTCCGGTGAACCG
1 TCCCGGT-GGTGCTCCGGCGAACCG
*
22777 TTCCGGT
1 TCCCGGT
22784 AGCATAGGCC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 1 0.02
24 45 0.94
25 2 0.04
ACGTcount: A:0.06, C:0.38, G:0.35, T:0.20
Consensus pattern (24 bp):
TCCCGGTGGTGCTCCGGCGAACCG
Found at i:22909 original size:43 final size:43
Alignment explanation
Indices: 22788--23799 Score: 1003
Period size: 43 Copynumber: 23.9 Consensus size: 43
22778 TCCGGTAGCA
22788 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
** * * * * *
22831 T-GGTGCTAGGAT-GTGCAGGAGCCCCGGACACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** *
22873 TAAGCCCTTGGTATTGCGGGAGCCTCGGGCGCCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** *
22915 TCGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACC
1 TAGGCCCTT-GGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
22958 TAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * **
23000 TCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
23043 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * *
23085 TTGGTGCTTGGAT-GTGCGAGAACCTCGCGTACCATCGGCAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
23128 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * **
23171 TAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
23214 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
23257 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * **
23299 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
23342 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * * *
23384 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
23427 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* **
23470 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
23513 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGC-TCC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
** * * *
23555 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
23598 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGAC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * *
23640 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * * * **
23683 TAGACCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGTAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
23726 TAGGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA-C--C-A--
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
23760 TCGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
23800 CCTTGGTGGC
Statistics
Matches: 787, Mismatches: 151, Indels: 64
0.79 0.15 0.06
Matches are distributed among these distances:
34 24 0.03
35 2 0.00
36 1 0.00
37 3 0.00
38 1 0.00
39 1 0.00
40 4 0.01
42 268 0.34
43 483 0.61
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (43 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
Found at i:22937 original size:85 final size:84
Alignment explanation
Indices: 22788--23799 Score: 739
Period size: 85 Copynumber: 12.0 Consensus size: 84
22778 TCCGGTAGCA
* *
22788 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGATGTGCAGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCT-TGATGTGCGGGAG
* *
22852 CCCCGGACACCATCGGCAAAC
64 CCTCGGACACCATCGGCAACC
* ** *
22873 TAAGCCCTTGGTATTGCGGGAGCCTCGGGCGCCATCGGCACCTCGGTGCTTCGATGTGCGGGAGC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTT-GATGTGCGGGAGC
*
22938 CTCGGGCACCATCGGCAACC
65 CTCGGACACCATCGGCAACC
*
22958 TAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCT-TGATGTGCGGGAGC
**
23023 CTCGGACACTGTCGGCAACC
65 CTCGGACACCATCGGCAACC
* * * *
23043 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTT-GATGTGCGGGAGC
*
23108 CTCGCG-TACCATCGGCAACC
65 CTCG-GACACCATCGGCAACC
* * * ** ** *
23128 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGAG
* **
23193 CCTCGGCCACCATCGGCAAAA
64 CCTCGGACACCATCGGCAACC
* * * ** *
23214 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGAG
*
23279 CCTCGGCCACCATCGGC-ACC
64 CCTCGGACACCATCGGCAACC
* ** * * * ** * ** *
23299 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGA
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGA
23363 GCCTC-GAGCACCATCGGC-ACC
63 GCCTCGGA-CACCATCGGCAACC
* ** * * * * * * ** * *
23384 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGA
* * *
23448 GGCTCGGGCACCATCGGCAAAC
63 GCCTCGGACACCATCGGCAACC
* ** * ** *
23470 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGAG
* *
23535 CCTCGGCCACCATCGGC-TCC
64 CCTCGGACACCATCGGCAACC
** * * * * ** *
23555 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGA
*
23619 GCCTC-GAGCACCATCGAC-ACC
63 GCCTCGGA-CACCATCGGCAACC
* ** * * * *** * *
23640 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGA
* * * **
23704 GGCTCGGGCACCATCGGTAAAA
63 GCCTCGGACACCATCGGCAACC
* * *
23726 TAGGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATCGGC-CCTTGGT-C-----GTGCGGGAGCC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTTGATGTGCGGGAGCC
*
23784 TCGGGCACCATCGGCA
66 TCGGACACCATCGGCA
23800 CCTTGGTGGC
Statistics
Matches: 787, Mismatches: 121, Indels: 46
0.82 0.13 0.05
Matches are distributed among these distances:
77 24 0.03
83 1 0.00
84 13 0.02
85 534 0.68
86 215 0.27
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (84 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTTGATGTGCGGGAGCC
TCGGACACCATCGGCAACC
Found at i:23324 original size:256 final size:254
Alignment explanation
Indices: 22801--23828 Score: 1058
Period size: 256 Copynumber: 4.1 Consensus size: 254
22791 GCCCTTGGTC
* ** * *
22801 GTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT-GTGC-AGGAGCCCCG-GACAC
1 GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGA-GAGCCTCGAG-CAC
* * * * * ** **
22862 CATCGGCAAACTAAGCCCTTGGTAT-TGCGGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCTTC
63 CATCGGC-ACCTAGGCCCTTGG-ATGTGCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTT-
* * ** *
22925 GAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTCGGGCA
125 GGTCGTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCA
* * ** * * ** **
22989 CCATCGGCACCTCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
190 CCATCGGCAACTAGGCCCT-TGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACCTAGGTGC-TG
23053 G-T
252 GAT
* ** * * *
23055 CGTGCGGGAGCCTC-GAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGAGAACCTCGCGTAC
1 -GTGCGGGAGCCTCGGA-CACCATCGGCAACCTAGGCCCTTGG-TCGTGCGAGAGCCTCGAGCAC
** *
23117 CATCGGCAACCTAGGCCCTTGG-TCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTG
63 CATCGGC-ACCTAGGCCCTTGGAT-GTGCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTG
* * *
23181 GTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGACAC
126 GTCGTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCAC
* *
23246 CATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTCGGTGCTATGA
191 CATCGGC-AACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCT-GGA
23311 T
254 T
* ** *
23312 GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCAT
1 GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGAGCACCAT
* ** * * * *
23377 CGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGT
66 CGGCACCTAGGCCCTTGGATGTGCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGTCGT
* * *
23442 GCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCG
131 GCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCG
* *
23507 GCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCTCCTAGGTGCTGGGAT
196 GC-AACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCT-GGAT
* *
23568 GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCAT
1 GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGAGCACCAT
* * **
23633 CGACACCTTGGTGCTTGGATGTGCCG-GAACCTCGGGCACCATCGGCAACCT-AGACCCTTGGTC
66 CGGCACCTAGGCCCTTGGATGTG-CGAGAACCTCGGGCACCATCGGCAACCTAAG-CCCTTGGTC
* * *
23696 GTGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA-
129 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
23757 C--C-A-TCGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGGCTCGGAT
194 CGGCAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGT-GCT-GGAT
23816 GTGCGGGAGCCTC
1 GTGCGGGAGCCTC
23829 AGTGGCTAGG
Statistics
Matches: 672, Mismatches: 82, Indels: 45
0.84 0.10 0.06
Matches are distributed among these distances:
247 43 0.06
248 21 0.03
250 1 0.00
252 1 0.00
253 4 0.01
254 5 0.01
255 93 0.14
256 435 0.65
257 69 0.10
ACGTcount: A:0.16, C:0.32, G:0.34, T:0.18
Consensus pattern (254 bp):
GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGAGCACCAT
CGGCACCTAGGCCCTTGGATGTGCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGTCGT
GCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCG
GCAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCTGGAT
Found at i:23396 original size:299 final size:299
Alignment explanation
Indices: 22859--23594 Score: 1210
Period size: 299 Copynumber: 2.5 Consensus size: 299
22849 GAGCCCCGGA
** * ** * **
22859 CACCATCGGCAAACTAAGCCCTTGGTATTGCGGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* * * *
22923 TCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTCGGG
66 T-GGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGA
*
22987 CACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTT
130 CACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTT
* *
23052 GGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGTAC
195 GGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCAC
*
23117 CATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
260 CATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
*
23157 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* *
23222 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCC
66 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
23287 ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
131 ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
23352 GTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
196 GTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
23417 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
261 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
23456 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* * ** *
23521 TGGTCGTGCGGGAGCCTCGGCCACCATCGGC-TCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGA
66 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGA
23584 CACCATCGGCA
130 CACCATCGGCA
23595 AACTAGGCCC
Statistics
Matches: 409, Mismatches: 26, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
298 86 0.21
299 323 0.79
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (299 bp):
CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
GTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
Found at i:23771 original size:34 final size:34
Alignment explanation
Indices: 23728--23806 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
23718 CGGTAAAATA
*
23728 GGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
*
23762 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
23796 GGCACCTTGGT
1 GGC-CCTTGGT
23807 GGCTCGGATG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
34 35 0.83
35 7 0.17
ACGTcount: A:0.08, C:0.35, G:0.38, T:0.19
Consensus pattern (34 bp):
GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
Found at i:23834 original size:25 final size:25
Alignment explanation
Indices: 23805--23853 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
23795 CGGCACCTTG
* *
23805 GTGGCTCGGATGTGCGGGAGCCTCA
1 GTGGCTAGGAGGTGCGGGAGCCTCA
23830 GTGGCTAGGAGGTGCGGGAGCCTC
1 GTGGCTAGGAGGTGCGGGAGCCTC
23854 GGACACCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.22, G:0.47, T:0.18
Consensus pattern (25 bp):
GTGGCTAGGAGGTGCGGGAGCCTCA
Found at i:23887 original size:42 final size:44
Alignment explanation
Indices: 23841--23933 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 44
23831 TGGCTAGGAG
*
23841 GTGCGGGAGCCTCGGACA-CCATCGGCAACTTGGTG-CTTGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
* *
23883 GTGCGGGAGCCTCGGGCACCCATCGGCACCTTGGTGCCTGGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
23927 GTGCGGG
1 GTGCGGG
23934 CTAAAGAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 17 0.37
43 16 0.35
44 13 0.28
ACGTcount: A:0.13, C:0.28, G:0.40, T:0.19
Consensus pattern (44 bp):
GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
Found at i:31940 original size:42 final size:42
Alignment explanation
Indices: 31836--32127 Score: 319
Period size: 42 Copynumber: 6.9 Consensus size: 42
31826 GAGCCTCCAT
*
31836 CACCTTGGTGGC-TCGGATGTGTGGGAGCCTC-AGCCACCATCGG
1 CACCTTGGT-GCAT-GGATGTGCGGGAGCCTCGAG-CACCATCGG
* * *
31879 TAACCTTGATGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 -CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
31922 CACCTTGGTGCATGGATGTGCGGGAGCATCG-GACACCACCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAG-CACCATCGG
* * ** * *
31964 CAAACTAGGCCCTTGGTTGTG-GGGAGCCTCGGAG-ACCATCGG
1 C-ACCTTGGTGCATGGATGTGCGGGAGCCTC-GAGCACCATCGG
*
32006 CACCTCGGTGCTAT-GATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGC-ATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
32048 CACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
32090 CACCTTGGTGCATGGATGAGCGGGAGCCTTC-AGCACCA
1 CACCTTGGTGCATGGATGTGCGGGAGCC-TCGAGCACCA
32128 AAGCTAAAGT
Statistics
Matches: 211, Mismatches: 26, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
41 16 0.08
42 141 0.67
43 43 0.20
44 11 0.05
ACGTcount: A:0.17, C:0.28, G:0.34, T:0.20
Consensus pattern (42 bp):
CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
Found at i:32363 original size:24 final size:24
Alignment explanation
Indices: 32336--32414 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
32326 CCGGTTAGGT
*
32336 TCCCGGTGGTGCTCCGGCGATCCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
32360 TCCCGGCGGTGCTCCGGCGAACCG
1 TCCCGGTGGTGCTCCGGCGAACCG
*
32384 TCCC-GTCGGTGCTCCGGTGAACCG
1 TCCCGGT-GGTGCTCCGGCGAACCG
*
32408 TTCCGGT
1 TCCCGGT
32415 AGCATAGGCC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 1 0.02
24 45 0.94
25 2 0.04
ACGTcount: A:0.06, C:0.38, G:0.35, T:0.20
Consensus pattern (24 bp):
TCCCGGTGGTGCTCCGGCGAACCG
Found at i:32540 original size:43 final size:43
Alignment explanation
Indices: 32419--33430 Score: 1003
Period size: 43 Copynumber: 23.9 Consensus size: 43
32409 TCCGGTAGCA
32419 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
** * * * * *
32462 T-GGTGCTAGGAT-GTGCAGGAGCCCCGGACACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** *
32504 TAAGCCCTTGGTATTGCGGGAGCCTCGGGCGCCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** *
32546 TCGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACC
1 TAGGCCCTT-GGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
32589 TAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * **
32631 TCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
32674 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * *
32716 TTGGTGCTTGGAT-GTGCGAGAACCTCGCGTACCATCGGCAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
32759 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * **
32802 TAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
32845 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
32888 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * **
32930 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
32973 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * * *
33015 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
33058 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* **
33101 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
33144 TAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGC-TCC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
** * * *
33186 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
33229 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGAC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * *
33271 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * * * **
33314 TAGACCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGTAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
33357 TAGGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA-C--C-A--
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
33391 TCGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
33431 CCTTGGTGGC
Statistics
Matches: 787, Mismatches: 151, Indels: 64
0.79 0.15 0.06
Matches are distributed among these distances:
34 24 0.03
35 2 0.00
36 1 0.00
37 3 0.00
38 1 0.00
39 1 0.00
40 4 0.01
42 268 0.34
43 483 0.61
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (43 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
Found at i:32568 original size:85 final size:84
Alignment explanation
Indices: 32419--33430 Score: 739
Period size: 85 Copynumber: 12.0 Consensus size: 84
32409 TCCGGTAGCA
* *
32419 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGATGTGCAGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCT-TGATGTGCGGGAG
* *
32483 CCCCGGACACCATCGGCAAAC
64 CCTCGGACACCATCGGCAACC
* ** *
32504 TAAGCCCTTGGTATTGCGGGAGCCTCGGGCGCCATCGGCACCTCGGTGCTTCGATGTGCGGGAGC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTT-GATGTGCGGGAGC
*
32569 CTCGGGCACCATCGGCAACC
65 CTCGGACACCATCGGCAACC
*
32589 TAGGCCCTTGGTCGTGCGGTAGCCTCGGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCT-TGATGTGCGGGAGC
**
32654 CTCGGACACTGTCGGCAACC
65 CTCGGACACCATCGGCAACC
* * * *
32674 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTT-GATGTGCGGGAGC
*
32739 CTCGCG-TACCATCGGCAACC
65 CTCG-GACACCATCGGCAACC
* * * ** ** *
32759 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGAG
* **
32824 CCTCGGCCACCATCGGCAAAA
64 CCTCGGACACCATCGGCAACC
* * * ** *
32845 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGAG
*
32910 CCTCGGCCACCATCGGC-ACC
64 CCTCGGACACCATCGGCAACC
* ** * * * ** * ** *
32930 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGA
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGA
32994 GCCTC-GAGCACCATCGGC-ACC
63 GCCTCGGA-CACCATCGGCAACC
* ** * * * * * * ** * *
33015 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGA
* * *
33079 GGCTCGGGCACCATCGGCAAAC
63 GCCTCGGACACCATCGGCAACC
* ** * ** *
33101 TAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGAG
* *
33166 CCTCGGCCACCATCGGC-TCC
64 CCTCGGACACCATCGGCAACC
** * * * * ** *
33186 TAGGTGCTGGGAT-GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGA
*
33250 GCCTC-GAGCACCATCGAC-ACC
63 GCCTCGGA-CACCATCGGCAACC
* ** * * * *** * *
33271 TTGGTGCTTGGAT-GTGCCGGAACCTCGGGCACCATCGGCAACCTAGACCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGA
* * * **
33335 GGCTCGGGCACCATCGGTAAAA
63 GCCTCGGACACCATCGGCAACC
* * *
33357 TAGGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATCGGC-CCTTGGT-C-----GTGCGGGAGCC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTTGATGTGCGGGAGCC
*
33415 TCGGGCACCATCGGCA
66 TCGGACACCATCGGCA
33431 CCTTGGTGGC
Statistics
Matches: 787, Mismatches: 121, Indels: 46
0.82 0.13 0.05
Matches are distributed among these distances:
77 24 0.03
83 1 0.00
84 13 0.02
85 534 0.68
86 215 0.27
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (84 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTTGATGTGCGGGAGCC
TCGGACACCATCGGCAACC
Found at i:32955 original size:256 final size:254
Alignment explanation
Indices: 32432--33459 Score: 1058
Period size: 256 Copynumber: 4.1 Consensus size: 254
32422 GCCCTTGGTC
* ** * *
32432 GTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGAT-GTGC-AGGAGCCCCG-GACAC
1 GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGA-GAGCCTCGAG-CAC
* * * * * ** **
32493 CATCGGCAAACTAAGCCCTTGGTAT-TGCGGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCTTC
63 CATCGGC-ACCTAGGCCCTTGG-ATGTGCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTT-
* * ** *
32556 GAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTCGGGCA
125 GGTCGTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCA
* * ** * * ** **
32620 CCATCGGCACCTCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
190 CCATCGGCAACTAGGCCCT-TGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACCTAGGTGC-TG
32684 G-T
252 GAT
* ** * * *
32686 CGTGCGGGAGCCTC-GAGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGAGAACCTCGCGTAC
1 -GTGCGGGAGCCTCGGA-CACCATCGGCAACCTAGGCCCTTGG-TCGTGCGAGAGCCTCGAGCAC
** *
32748 CATCGGCAACCTAGGCCCTTGG-TCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTG
63 CATCGGC-ACCTAGGCCCTTGGAT-GTGCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTG
* * *
32812 GTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGACAC
126 GTCGTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCAC
* *
32877 CATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTCGGTGCTATGA
191 CATCGGC-AACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCT-GGA
32942 T
254 T
* ** *
32943 GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCAT
1 GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGAGCACCAT
* ** * * * *
33008 CGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGT
66 CGGCACCTAGGCCCTTGGATGTGCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGTCGT
* * *
33073 GCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCG
131 GCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCG
* *
33138 GCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCTCCTAGGTGCTGGGAT
196 GC-AACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCT-GGAT
* *
33199 GTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCAT
1 GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGAGCACCAT
* * **
33264 CGACACCTTGGTGCTTGGATGTGCCG-GAACCTCGGGCACCATCGGCAACCT-AGACCCTTGGTC
66 CGGCACCTAGGCCCTTGGATGTG-CGAGAACCTCGGGCACCATCGGCAACCTAAG-CCCTTGGTC
* * *
33327 GTGCGAGAGGCTCGGGCACCATCGGTAAAATAGGCCCTTGGTCGTGCGGGGGCCTC-GG--CCA-
129 GTGCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT
* * *
33388 C--C-A-TCGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTTGGTGGCTCGGAT
194 CGGCAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGT-GCT-GGAT
33447 GTGCGGGAGCCTC
1 GTGCGGGAGCCTC
33460 AGTGGCTAGG
Statistics
Matches: 672, Mismatches: 82, Indels: 45
0.84 0.10 0.06
Matches are distributed among these distances:
247 43 0.06
248 21 0.03
250 1 0.00
252 1 0.00
253 4 0.01
254 5 0.01
255 93 0.14
256 435 0.65
257 69 0.10
ACGTcount: A:0.16, C:0.32, G:0.34, T:0.18
Consensus pattern (254 bp):
GTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCGAGCACCAT
CGGCACCTAGGCCCTTGGATGTGCGAGAACCTCGGGCACCATCGGCAACCTAAGCCCTTGGTCGT
GCGAGAGCCTCGGGCACCATCGGCAAAATAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCG
GCAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGTGCTGGAT
Found at i:33027 original size:299 final size:299
Alignment explanation
Indices: 32490--33225 Score: 1210
Period size: 299 Copynumber: 2.5 Consensus size: 299
32480 GAGCCCCGGA
** * ** * **
32490 CACCATCGGCAAACTAAGCCCTTGGTATTGCGGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* * * *
32554 TCGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGTAGCCTCGGG
66 T-GGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGA
*
32618 CACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTT
130 CACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTT
* *
32683 GGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGTAC
195 GGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCAC
*
32748 CATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
260 CATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
*
32788 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* *
32853 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGCC
66 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
32918 ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
131 ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
32983 GTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
196 GTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
33048 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
261 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
33087 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* * ** *
33152 TGGTCGTGCGGGAGCCTCGGCCACCATCGGC-TCCTAGGTGCTGGGAT-GTGCGGGAGCCTCGGA
66 TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCGGA
33215 CACCATCGGCA
130 CACCATCGGCA
33226 AACTAGGCCC
Statistics
Matches: 409, Mismatches: 26, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
298 86 0.21
299 323 0.79
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (299 bp):
CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
TGGTCGTGCGGGAGCCTCGGACACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGAC
ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
GTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
Found at i:33402 original size:34 final size:34
Alignment explanation
Indices: 33359--33437 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
33349 CGGTAAAATA
*
33359 GGCCCTTGGTCGTGCGGGGGCCTCGGCCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
*
33393 GGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATC
1 GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
33427 GGCACCTTGGT
1 GGC-CCTTGGT
33438 GGCTCGGATG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
34 35 0.83
35 7 0.17
ACGTcount: A:0.08, C:0.35, G:0.38, T:0.19
Consensus pattern (34 bp):
GGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATC
Found at i:33465 original size:25 final size:25
Alignment explanation
Indices: 33436--33484 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
33426 CGGCACCTTG
* *
33436 GTGGCTCGGATGTGCGGGAGCCTCA
1 GTGGCTAGGAGGTGCGGGAGCCTCA
33461 GTGGCTAGGAGGTGCGGGAGCCTC
1 GTGGCTAGGAGGTGCGGGAGCCTC
33485 GGACACCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.22, G:0.47, T:0.18
Consensus pattern (25 bp):
GTGGCTAGGAGGTGCGGGAGCCTCA
Found at i:33518 original size:42 final size:44
Alignment explanation
Indices: 33472--33564 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 44
33462 TGGCTAGGAG
*
33472 GTGCGGGAGCCTCGGACA-CCATCGGCAACTTGGTG-CTTGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
* *
33514 GTGCGGGAGCCTCGGGCACCCATCGGCACCTTGGTGCCTGGGAT
1 GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
33558 GTGCGGG
1 GTGCGGG
33565 CTAAAGAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 17 0.37
43 16 0.35
44 13 0.28
ACGTcount: A:0.13, C:0.28, G:0.40, T:0.19
Consensus pattern (44 bp):
GTGCGGGAGCCTCGGACACCCATCGGCAACTTGGTGCCTGGGAT
Found at i:41524 original size:43 final size:42
Alignment explanation
Indices: 41476--41574 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 42
41466 TTGGTGGCTC
* *
41476 GGATGTGTGGGAGCCTC-AGCCACCATCGGTAACCTTGATGCTT
1 GGATGTGCGGGAGCCTCGAG-CACCATCGG-AACCTTGATGCAT
* *
41519 GGATGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCAT
1 GGATGTGCGGGAGCCTCGAGCACCATCGGAACCTTGATGCAT
41561 GGATGTGCGGGAGC
1 GGATGTGCGGGAGC
41575 ATCGGACACC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
42 24 0.47
43 25 0.49
44 2 0.04
ACGTcount: A:0.17, C:0.25, G:0.36, T:0.21
Consensus pattern (42 bp):
GGATGTGCGGGAGCCTCGAGCACCATCGGAACCTTGATGCAT
Found at i:41566 original size:42 final size:42
Alignment explanation
Indices: 41462--41683 Score: 147
Period size: 42 Copynumber: 5.2 Consensus size: 42
41452 GAGCCTCCAT
*
41462 CACCTTGGTGGC-TCGGATGTGTGGGAGCCTC-AGCCACCATCGG
1 CACCTTGGT-GCAT-GGATGTGCGGGAGCCTCGAG-CACCATCGG
* * *
41505 TAACCTTGATGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 -CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
41548 CACCTTGGTGCATGGATGTGCGGGAGCATCG-GACACCACCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAG-CACCATCGG
* * ** * * *
41590 CAAAC-TAGCCCTTGGTTGTG-GGGAGCCTCGGACCAGGACCATCGG
1 C-ACCTTGGTGCATGGATGTGCGGGAGCCTC-G---AGCACCATCGG
*
41635 -ACCTCGGT-CTAT-GATGTGCGGGAGCCTCGAGCACCATC-G
1 CACCTTGGTGC-ATGGATGTGCGGGAGCCTCGAGCACCATCGG
41674 CACCATTGGT
1 CACC-TTGGT
41684 CTTTGGATGA
Statistics
Matches: 139, Mismatches: 25, Indels: 31
0.71 0.13 0.16
Matches are distributed among these distances:
39 1 0.01
40 11 0.08
41 13 0.09
42 47 0.34
43 38 0.27
44 21 0.15
45 7 0.05
46 1 0.01
ACGTcount: A:0.18, C:0.29, G:0.33, T:0.20
Consensus pattern (42 bp):
CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
Done.