Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold198
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: 1648337
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 10 of 11
Found at i:1400926 original size:51 final size:52
Alignment explanation
Indices: 1400860--1400975 Score: 171
Period size: 51 Copynumber: 2.2 Consensus size: 52
1400850 TTTGGAAAGA
* *
1400860 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTAGG-TTTTGACCC
1 AAATGTATCGATACATTTTTCATTATACCGATACATTCTAGGTTTTTGACCC
* * * *
1400911 AAATGTATCGCTACATTTTTTATTATACCGATACATTTTGGGTTTTTGACCC
1 AAATGTATCGATACATTTTTCATTATACCGATACATTCTAGGTTTTTGACCC
1400963 AAATGTATCGATA
1 AAATGTATCGATA
1400976 TATATATATA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
51 36 0.63
52 21 0.37
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.41
Consensus pattern (52 bp):
AAATGTATCGATACATTTTTCATTATACCGATACATTCTAGGTTTTTGACCC
Found at i:1401644 original size:19 final size:20
Alignment explanation
Indices: 1401620--1401670 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
1401610 CATTATGCTT
*
1401620 TGTATCGATACACGTTC-AC
1 TGTATCGATACACGTACAAC
* *
1401639 TGTATCGATACATGTACAAT
1 TGTATCGATACACGTACAAC
1401659 TGTATCGATACA
1 TGTATCGATACA
1401671 TAAAACTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (20 bp):
TGTATCGATACACGTACAAC
Found at i:1401664 original size:20 final size:19
Alignment explanation
Indices: 1401600--1401671 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
1401590 CACACCCAGA
*
1401600 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGTA--CAT
* * *
1401620 TGTATCGATACACGTTCAC
1 TGTATCGATACATGTACAT
1401639 TGTATCGATACATGTACAAT
1 TGTATCGATACATGTAC-AT
1401659 TGTATCGATACAT
1 TGTATCGATACAT
1401672 AAAACTGGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.37
20 26 0.60
21 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTACAT
Found at i:1409442 original size:20 final size:19
Alignment explanation
Indices: 1409393--1409450 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 19
1409383 TTTGCATCAA
*
1409393 TACATTGTAGCGATACATG
1 TACATTGTATCGATACATG
* *
1409412 TTCACTGTATCGATACATG
1 TACATTGTATCGATACATG
1409431 TACAATTGTATCGATACATG
1 TAC-ATTGTATCGATACATG
1409451 AAACTAGCAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (19 bp):
TACATTGTATCGATACATG
Found at i:1413030 original size:63 final size:67
Alignment explanation
Indices: 1412950--1413075 Score: 170
Period size: 67 Copynumber: 1.9 Consensus size: 67
1412940 ATCCTTGCAT
* * *
1412950 TTCTCTAAAGCCCACAC-AGTTGGTGGCAA-CCCTTTT-T-AAGCCCGCACAAGTCGGTGGCAAC
1 TTCTCTAAAGCCCACACAAGTCGATGGCAATCCCTTTTCTAAAGCCCACACAAGTCGGTGGCAAC
1413011 CC
66 CC
* * *
1413013 TTCTCTAAAGCCTACACAAGTCGATGGCAATCCTTTTTCTAAAGCCCACACAAGTTGGTGGCA
1 TTCTCTAAAGCCCACACAAGTCGATGGCAATCCCTTTTCTAAAGCCCACACAAGTCGGTGGCA
1413076 CCTTTTAGTC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
63 16 0.30
64 10 0.19
65 6 0.11
66 1 0.02
67 20 0.38
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (67 bp):
TTCTCTAAAGCCCACACAAGTCGATGGCAATCCCTTTTCTAAAGCCCACACAAGTCGGTGGCAAC
CC
Found at i:1413064 original size:34 final size:33
Alignment explanation
Indices: 1412953--1413075 Score: 153
Period size: 34 Copynumber: 3.8 Consensus size: 33
1412943 CTTGCATTTC
*
1412953 TCTAAAGCCCACAC-AGTTGGTGGCAACCCTTT
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTT
* *
1412985 T-T-AAGCCCGCACAAGTCGGTGGCAACCCTTC
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTT
* * *
1413016 TCTAAAGCCTACACAAGTCGATGGCAATCCTTTT
1 TCTAAAGCCCACACAAGTCGGTGGCAA-CCCTTT
*
1413050 TCTAAAGCCCACACAAGTTGGTGGCA
1 TCTAAAGCCCACACAAGTCGGTGGCA
1413076 CCTTTTAGTC
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
30 9 0.12
31 18 0.24
32 2 0.03
33 20 0.26
34 27 0.36
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.24
Consensus pattern (33 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCCTTT
Found at i:1413136 original size:61 final size:62
Alignment explanation
Indices: 1413047--1413215 Score: 241
Period size: 61 Copynumber: 2.7 Consensus size: 62
1413037 TGGCAATCCT
*
1413047 TTTTCTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAAGACACCTTTTTC
1 TTTT-TAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACACCTTTTTC
* * * * *
1413110 -TTTTAAAGCCCATACAAGTTAGTGGCACTTTTTAGTCCTCAAAGAGTAAGACGCCTTTTTC
1 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACACCTTTTTC
* * *
1413171 TTTTTAAAGCCCACATAAGTTGGTGGCACCTTTTAATCCTTAAAG
1 TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAG
1413216 TGTAGGACGT
Statistics
Matches: 93, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
61 52 0.56
62 41 0.44
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (62 bp):
TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACACCTTTTTC
Found at i:1413237 original size:62 final size:61
Alignment explanation
Indices: 1413046--1413237 Score: 233
Period size: 62 Copynumber: 3.1 Consensus size: 61
1413036 ATGGCAATCC
* * *
1413046 TTTTTCTAAAGCCCACACAAGTTGGTGGCACCTTTTAGT-CTTCAAAGAGCAAGACACCTTT
1 TTTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTT-AAAGAGTAAGACGCCTTT
* * * * *
1413107 TTCTTTTAAAGCCCATACAAGTTAGTGGCACTTTTTAGTCCTCAAAGAGTAAGACGCCTTT
1 TTTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAAGACGCCTTT
* * * * *
1413168 TTCTTTTTAAAGCCCACATAAGTTGGTGGCACCTTTTAATCCTTAAAGTGTAGGACGTCTTT
1 TT-TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAAGACGCCTTT
1413230 CTTTTTTT
1 -TTTTTTT
1413238 CTCTTTTTAA
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
61 52 0.47
62 56 0.51
63 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (61 bp):
TTTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAAGACGCCTTT
Found at i:1413402 original size:52 final size:53
Alignment explanation
Indices: 1413310--1413410 Score: 152
Period size: 52 Copynumber: 1.9 Consensus size: 53
1413300 TAGTTGGTGG
*
1413310 CATCATCTTTAAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCCT
1 CATCATCTTTAAAGTCCAATGTCGCTAGCCTTGAAGCAGCACATTGGCACCCT
* *
1413363 CATCATCTTTAAA-TCTAATGTTGCT-GCCCTTGAAGCAGCACATTGGCA
1 CATCATCTTTAAAGTCCAATGTCGCTAG-CCTTGAAGCAGCACATTGGCA
1413411 TCATACCTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
51 1 0.02
52 30 0.68
53 13 0.30
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (53 bp):
CATCATCTTTAAAGTCCAATGTCGCTAGCCTTGAAGCAGCACATTGGCACCCT
Found at i:1417293 original size:199 final size:199
Alignment explanation
Indices: 1416953--1417343 Score: 755
Period size: 199 Copynumber: 2.0 Consensus size: 199
1416943 TAATTTTGGG
* *
1416953 CATCGTGGGTGTGCTAATCCTTTCCTATACGTAACAGACTCCCAAATCCTATTAAGGAACTCTAA
1 CATCGTGGGTGTGCTAACCCTTTCCTATACGTAACAGACTCCCAAATCCTATTAAGAAACTCTAA
1417018 AATACGCAAACCATGAAATCAAGTACTTGAGTTTCGAAACTTGGGACAGTGATTTCGATAGGTGT
66 AATACGCAAACCATGAAATCAAGTACTTGAGTTTCGAAACTTGGGACAGTGATTTCGATAGGTGT
*
1417083 TCGGTCACACCTAGCCCAAATGATTGGTGGCGACTCCAAATCATCAGTCATTTTGTGCTAATCAT
131 CCGGTCACACCTAGCCCAAATGATTGGTGGCGACTCCAAATCATCAGTCATTTTGTGCTAATCAT
1417148 CAGT
196 CAGT
1417152 CATCGTGGGTGTGCTAACCCTTTCCTATACGTAACAGACTCCCAAATCCTATTAAGAAACTCTAA
1 CATCGTGGGTGTGCTAACCCTTTCCTATACGTAACAGACTCCCAAATCCTATTAAGAAACTCTAA
1417217 AATACGCAAACCATGAAATCAAGTACTTGAGTTTCGAAACTTGGGACAGTGATTTCGATAGGTGT
66 AATACGCAAACCATGAAATCAAGTACTTGAGTTTCGAAACTTGGGACAGTGATTTCGATAGGTGT
1417282 CCGGTCACACCTAGCCCAAATGATTGGTGGCGACTCCAAATCATCAGTCATTTTGTGCTAAT
131 CCGGTCACACCTAGCCCAAATGATTGGTGGCGACTCCAAATCATCAGTCATTTTGTGCTAAT
1417344 TGTTAAAGAT
Statistics
Matches: 189, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
199 189 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (199 bp):
CATCGTGGGTGTGCTAACCCTTTCCTATACGTAACAGACTCCCAAATCCTATTAAGAAACTCTAA
AATACGCAAACCATGAAATCAAGTACTTGAGTTTCGAAACTTGGGACAGTGATTTCGATAGGTGT
CCGGTCACACCTAGCCCAAATGATTGGTGGCGACTCCAAATCATCAGTCATTTTGTGCTAATCAT
CAGT
Found at i:1419472 original size:133 final size:134
Alignment explanation
Indices: 1419242--1419494 Score: 327
Period size: 133 Copynumber: 1.9 Consensus size: 134
1419232 CTACGGGGAT
1419242 ACTCCAACCCCACCATTTCTGAGAGGATACTCCAACCCCATCTTTACTTCTAAAAACATCAAATT
1 ACTCCAACCCCACCATTTCTGAGAGGATACTCCAACCCCATCTTTACTTCTAAAAACATCAAATT
* * *
1419307 TTCTATCTACGAGAATACTCCAACCCCTTTTTTACTTCTAAAACATC-AAATTTTTCGTATTTGG
66 TTCTATCTACGAGAATAATCCAACCCCGTTTTTACTTCTAAAACACCGAAATTTTTCGTATTTGG
1419371 GGTC
131 GGTC
* *
1419375 ACTCCAACCCCATCATTT-TCGA-AGGGATACTCCAACCCCATTTTTACTTCT-AAAACATCAAA
1 ACTCCAACCCCACCATTTCT-GAGA-GGATACTCCAACCCCATCTTTACTTCTAAAAACATCAAA
** * * * * *
1419437 -TTTCTACATCTTTGGGGATAATTCAATCTCGTTTTTACTTCTAAAACACCGAAATTTT
64 TTTTCT--ATCTACGAGAATAATCCAACCCCGTTTTTACTTCTAAAACACCGAAATTTT
1419495 CATCTCAGGG
Statistics
Matches: 103, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
131 5 0.05
132 13 0.13
133 78 0.76
134 7 0.07
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.34
Consensus pattern (134 bp):
ACTCCAACCCCACCATTTCTGAGAGGATACTCCAACCCCATCTTTACTTCTAAAAACATCAAATT
TTCTATCTACGAGAATAATCCAACCCCGTTTTTACTTCTAAAACACCGAAATTTTTCGTATTTGG
GGTC
Found at i:1424943 original size:31 final size:31
Alignment explanation
Indices: 1424886--1424946 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
1424876 TTGCTCCCAA
*
1424886 GAGCACTATTGCCACAGGGTGTTATGCTAGG
1 GAGCACTATTGCCACAGGGTGCTATGCTAGG
**
1424917 GAGCACTATTTTCA-AGGAGTGCTATGCTAG
1 GAGCACTATTGCCACAGG-GTGCTATGCTAG
1424947 AAAATAATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.28
Consensus pattern (31 bp):
GAGCACTATTGCCACAGGGTGCTATGCTAGG
Found at i:1425732 original size:22 final size:22
Alignment explanation
Indices: 1425707--1425749 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1425697 ATTCGTAGTA
1425707 GGTGAAGGATCAGAGATATGTC
1 GGTGAAGGATCAGAGATATGTC
*
1425729 GGTGGAGGATCAGAGATATGT
1 GGTGAAGGATCAGAGATATGT
1425750 GGGGACGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.40, T:0.23
Consensus pattern (22 bp):
GGTGAAGGATCAGAGATATGTC
Found at i:1425960 original size:52 final size:52
Alignment explanation
Indices: 1425851--1425960 Score: 184
Period size: 52 Copynumber: 2.1 Consensus size: 52
1425841 TCACTCTTCG
*
1425851 TGGAGGCAAGGTGTTCGAGATGCAAAAAGTATGGAAAAGTCACATTTTTACC
1 TGGATGCAAGGTGTTCGAGATGCAAAAAGTATGGAAAAGTCACATTTTTACC
* * *
1425903 CGGATGCAAGGTGTTCGGGATGCAAAAAGTATGGAAAAGTCACATTTTTACT
1 TGGATGCAAGGTGTTCGAGATGCAAAAAGTATGGAAAAGTCACATTTTTACC
1425955 TGGATG
1 TGGATG
1425961 TATCAATACA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (52 bp):
TGGATGCAAGGTGTTCGAGATGCAAAAAGTATGGAAAAGTCACATTTTTACC
Found at i:1425991 original size:20 final size:20
Alignment explanation
Indices: 1425958--1426215 Score: 117
Period size: 20 Copynumber: 11.8 Consensus size: 20
1425948 TTTTACTTGG
*
1425958 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
1425978 ATGCATCGATACATGTAT-A
1 ATGTATCGATACATTTTTCA
*
1425997 AGTGTATCGATACATTCTTCA
1 A-TGTATCGATACATTTTTCA
*
1426018 ATGTGTCGATACATTCTATCTTTTTTACCCAA
1 ATGTATCGAT--A--C-A---TTTTT---C-A
1426050 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
1426070 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
1426090 GTGTATCGATACATTCTTT-A
1 ATGTATCGATACATT-TTTCA
*
1426110 ATGTGTCGATACATTCTGTCTTTTTACCCA
1 ATGTATCGATACA-------TTTTT---CA
1426140 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* * *
1426161 ATGTATC-AGTACATGTATGA
1 ATGTATCGA-TACATTTTTCA
*
1426181 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
1426201 ATGTGTCGATACATT
1 ATGTATCGATACATT
1426216 CTATCTTTTT
Statistics
Matches: 181, Mismatches: 28, Indels: 58
0.68 0.10 0.22
Matches are distributed among these distances:
19 3 0.02
20 121 0.67
21 8 0.04
22 1 0.01
24 11 0.06
25 1 0.01
26 3 0.02
27 3 0.02
28 5 0.03
30 2 0.01
31 13 0.07
32 10 0.06
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1426174 original size:51 final size:51
Alignment explanation
Indices: 1426091--1426246 Score: 158
Period size: 51 Copynumber: 3.3 Consensus size: 51
1426081 CATGTATGAG
1426091 TGTATCGATACATTCTTT-AATGTGTCGATACATTCTGTCTTTTTACCCAGA
1 TGTATCGATACATT-TTTCAATGTGTCGATACATTCTGTCTTTTTACCCAGA
* **
1426142 TGTATCGATACATTTTTCAATGTATC-AGTACA---TG------TA-TGA-A
1 TGTATCGATACATTTTTCAATGTGTCGA-TACATTCTGTCTTTTTACCCAGA
* *
1426182 TGTATCGATACATTCTTCAATGTGTCGATACATTCTATCTTTTTACCCAGA
1 TGTATCGATACATTTTTCAATGTGTCGATACATTCTGTCTTTTTACCCAGA
1426233 TGTATCGATACATT
1 TGTATCGATACATT
1426247 CTATCTTTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 28
0.70 0.07 0.24
Matches are distributed among these distances:
40 29 0.35
41 2 0.02
42 2 0.02
43 1 0.01
48 2 0.02
49 2 0.02
50 5 0.06
51 40 0.48
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (51 bp):
TGTATCGATACATTTTTCAATGTGTCGATACATTCTGTCTTTTTACCCAGA
Found at i:1426179 original size:91 final size:91
Alignment explanation
Indices: 1425957--1426246 Score: 492
Period size: 91 Copynumber: 3.2 Consensus size: 91
1425947 TTTTTACTTG
* * *
1425957 GATGTATCAATACATTTTTCAATGCATCGATACATGTATAAGTGTATCGATACATTCTTCAATGT
1 GATGTATCGATACATTTTTCAATGTATCGATACATGTATGAGTGTATCGATACATTCTTCAATGT
1426022 GTCGATACATTCTATCTTTTTTACCCA
66 GTCGATACATTCTATC-TTTTTACCCA
* *
1426049 AATGTATCGATACATTTTTCAATGTATCGATACATGTATGAGTGTATCGATACATTCTTTAATGT
1 GATGTATCGATACATTTTTCAATGTATCGATACATGTATGAGTGTATCGATACATTCTTCAATGT
*
1426114 GTCGATACATTCTGTCTTTTTACCCA
66 GTCGATACATTCTATCTTTTTACCCA
*
1426140 GATGTATCGATACATTTTTCAATGTATC-AGTACATGTATGAATGTATCGATACATTCTTCAATG
1 GATGTATCGATACATTTTTCAATGTATCGA-TACATGTATGAGTGTATCGATACATTCTTCAATG
1426204 TGTCGATACATTCTATCTTTTTACCCA
65 TGTCGATACATTCTATCTTTTTACCCA
1426231 GATGTATCGATACATT
1 GATGTATCGATACATT
1426247 CTATCTTTTT
Statistics
Matches: 187, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
90 1 0.01
91 111 0.59
92 75 0.40
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (91 bp):
GATGTATCGATACATTTTTCAATGTATCGATACATGTATGAGTGTATCGATACATTCTTCAATGT
GTCGATACATTCTATCTTTTTACCCA
Found at i:1426244 original size:31 final size:31
Alignment explanation
Indices: 1426201--1426276 Score: 134
Period size: 31 Copynumber: 2.5 Consensus size: 31
1426191 ACATTCTTCA
*
1426201 ATGTGTCGATACATTCTATCTTTTTACCCAG
1 ATGTATCGATACATTCTATCTTTTTACCCAG
*
1426232 ATGTATCGATACATTCTATCTTTTTATCCAG
1 ATGTATCGATACATTCTATCTTTTTACCCAG
1426263 ATGTATCGATACAT
1 ATGTATCGATACAT
1426277 CGAATAATGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (31 bp):
ATGTATCGATACATTCTATCTTTTTACCCAG
Found at i:1427941 original size:10 final size:11
Alignment explanation
Indices: 1427926--1427954 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
1427916 CCACTAGATG
1427926 ATTTTTCAAA-
1 ATTTTTCAAAC
1427936 ATTTTTCAAAC
1 ATTTTTCAAAC
1427947 ATTTTTCA
1 ATTTTTCA
1427955 TAAAAACTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTTTTCAAAC
Found at i:1440279 original size:11 final size:10
Alignment explanation
Indices: 1440248--1440350 Score: 75
Period size: 10 Copynumber: 9.7 Consensus size: 10
1440238 ATTTCGTACC
1440248 AAAAAAAC--
1 AAAAAAACAA
**
1440256 AAAAAAATTA
1 AAAAAAACAA
*
1440266 AAAAAACCAA
1 AAAAAAACAA
1440276 AAAAAAACCAGGA
1 AAAAAAA-CA--A
1440289 AAAAAAACAA
1 AAAAAAACAA
* *
1440299 AAAAATAGAA
1 AAAAAAACAA
1440309 AAACCAAAAGCAA
1 AAA--AAAA-CAA
1440322 AAAAAAACAA
1 AAAAAAACAA
1440332 AAAACAAACAA
1 AAAA-AAACAA
1440343 ACAAAAAA
1 A-AAAAAA
1440351 GGGTCCAGAT
Statistics
Matches: 76, Mismatches: 9, Indels: 17
0.75 0.09 0.17
Matches are distributed among these distances:
8 7 0.09
10 32 0.42
11 16 0.21
12 8 0.11
13 13 0.17
ACGTcount: A:0.81, C:0.13, G:0.04, T:0.03
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:1440291 original size:13 final size:11
Alignment explanation
Indices: 1440265--1440350 Score: 63
Period size: 11 Copynumber: 7.6 Consensus size: 11
1440255 CAAAAAAATT
1440265 AAAAAAACCAA
1 AAAAAAACCAA
1440276 AAAAAAACCAGGA
1 AAAAAAACCA--A
1440289 AAAAAAA-CAA
1 AAAAAAACCAA
* *
1440299 AAAAATA-GAA
1 AAAAAAACCAA
*
1440309 AAACCAAAAGCAA
1 AAA--AAAACCAA
1440322 AAAAAAA-CAA
1 AAAAAAACCAA
1440332 AAAACAAA-CAA
1 AAAA-AAACCAA
1440343 ACAAAAAA
1 A-AAAAAA
1440351 GGGTCCAGAT
Statistics
Matches: 64, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
10 19 0.30
11 24 0.38
12 8 0.12
13 13 0.20
ACGTcount: A:0.80, C:0.14, G:0.05, T:0.01
Consensus pattern (11 bp):
AAAAAAACCAA
Found at i:1440317 original size:23 final size:24
Alignment explanation
Indices: 1440288--1440350 Score: 56
Period size: 25 Copynumber: 2.5 Consensus size: 24
1440278 AAAAACCAGG
* *
1440288 AAAAAA-AACAAAAAAATAGAAAAAC
1 AAAAAACAA-AAAAAAACAAAAAA-C
* *
1440313 CAAAAGCAAAAAAAAACAAAAAAC
1 AAAAAACAAAAAAAAACAAAAAAC
1440337 AAACAAACAAAAAA
1 AAA-AAACAAAAAA
1440351 GGGTCCAGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
24 3 0.10
25 25 0.83
26 2 0.07
ACGTcount: A:0.83, C:0.13, G:0.03, T:0.02
Consensus pattern (24 bp):
AAAAAACAAAAAAAAACAAAAAAC
Found at i:1440334 original size:40 final size:40
Alignment explanation
Indices: 1440248--1440339 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 40
1440238 ATTTCGTACC
*
1440248 AAAAAAACAAAAAAATTAAAAAAACCAAAAAAAAACCAGGA
1 AAAAAAACAAAAAAATTAAAAAAACCAAAAAAAAA-CAGAA
*
1440289 AAAAAAACAAAAAAA-TAGAAAAACCAAAAGCAAAAA-A-AA
1 AAAAAAACAAAAAAATTAAAAAAACCAAAA--AAAAACAGAA
1440328 ACAAAAAACAAA
1 A-AAAAAACAAA
1440340 CAAACAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
39 2 0.04
40 24 0.52
41 15 0.33
42 5 0.11
ACGTcount: A:0.80, C:0.12, G:0.04, T:0.03
Consensus pattern (40 bp):
AAAAAAACAAAAAAATTAAAAAAACCAAAAAAAAACAGAA
Found at i:1441630 original size:28 final size:28
Alignment explanation
Indices: 1441599--1441922 Score: 434
Period size: 28 Copynumber: 11.5 Consensus size: 28
1441589 ACGTTCATCT
* *
1441599 TTTCAAAGCCCACAGGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
1441627 TTTCAAAGCCCACAAGTCAATGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
1441655 TTTCAAAGCCCACAAGTCAATGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1441683 TTTCAAAGCCCACAAATCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
1441711 TTCCAAAGCCCATAAATCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1441739 TTCCAAAGCCCACAAGTCAGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
1441766 TTTCCAAAGCCCACAAGTCAGTGGCACCC
1 TTT-CAAAGCCCACAAGTCAGTGGCACCC
* *
1441795 TCTCAAAGCCCACAAGTCAGTGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1441823 CTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1441851 TTTCAAAGCCCACAAGTCCGTGGCATACCC
1 TTTCAAAGCCCACAAGTCAGTGGC--ACCC
* * *
1441881 TTTCAAAGCCTACAAGTCGGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
1441909 TTTTAAAGCCCACA
1 TTTCAAAGCCCACA
1441923 TAAGTCGGTG
Statistics
Matches: 268, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
27 4 0.01
28 234 0.87
29 4 0.01
30 26 0.10
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:1441949 original size:32 final size:28
Alignment explanation
Indices: 1441597--1441959 Score: 262
Period size: 28 Copynumber: 12.7 Consensus size: 28
1441587 GAACGTTCAT
* * *
1441597 CTTTTCAAAGCCCACAGGTCAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCGGTGG-AAC
** * *
1441626 C-TTTCAAAGCCCACAAGTCAATGGCAT
1 CTTTTCAAAGCCCACAAGTCGGTGGAAC
** *
1441653 CTTTTCAAAGCCCACAAGTCAATGGCATC
1 CTTTTCAAAGCCCACAAGTCGGTGG-AAC
* * *
1441682 C-TTTCAAAGCCCACAAATCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCGGTGGAAC
* * * * * *
1441709 CCTTCCAAAGCCCATAAATCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCGGTGGAAC
* * * *
1441737 CCTTCCAAAGCCCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCGGTGGAAC
* * *
1441765 CTTTCCAAAGCCCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCGGTGGAAC
* * * *
1441793 CCTCTCAAAGCCCACAAGTCAGTGGTAC
1 CTTTTCAAAGCCCACAAGTCGGTGGAAC
** * *
1441821 CCCTTCAAAGCCCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCGGTGGAAC
* *
1441849 CCTTTCAAAGCCCACAAGTCCGTGGCATAC
1 CTTTTCAAAGCCCACAAGTCGGTGG-A-AC
* * *
1441879 CCTTTCAAAGCCTACAAGTCGGTGGCAC
1 CTTTTCAAAGCCCACAAGTCGGTGGAAC
*
1441907 CTTTTTAAAGCCCACATAAGTCGGTGGTAAC
1 CTTTTCAAAGCCCAC--AAGTCGGTGG-AAC
1441938 TCTTTTCAAAGCCTACACAAGT
1 -CTTTTCAAAGCC--CACAAGT
1441960 TATTGGCACA
Statistics
Matches: 288, Mismatches: 35, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
27 3 0.01
28 228 0.79
29 2 0.01
30 35 0.12
31 2 0.01
32 15 0.05
34 3 0.01
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CTTTTCAAAGCCCACAAGTCGGTGGAAC
Found at i:1442909 original size:20 final size:20
Alignment explanation
Indices: 1442884--1443140 Score: 181
Period size: 20 Copynumber: 11.8 Consensus size: 20
1442874 TTTTACCCAG
*
1442884 ATGTATCGATACTTTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
1442904 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
1442924 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
*
1442944 ATGTGTCGATACATTCTATCTTTTTACCCAA
1 ATGTATCGAT--A--C-A--TTTTT---C-A
1442975 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
1442995 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
1443015 ATCTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
1443035 ATGTGTCGATACATTTTGTCTTTTTACCCA
1 ATGTATCGATACA-------TTTTT---CA
1443065 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* * *
1443086 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
1443106 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
1443126 ATGTATCGATACATT
1 ATGTATCGATACATT
1443141 CTATCTTTTT
Statistics
Matches: 187, Mismatches: 28, Indels: 44
0.72 0.11 0.17
Matches are distributed among these distances:
20 134 0.72
21 3 0.02
22 1 0.01
24 11 0.06
25 1 0.01
26 1 0.01
27 10 0.05
29 1 0.01
30 3 0.02
31 22 0.12
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1442941 original size:40 final size:40
Alignment explanation
Indices: 1442884--1443139 Score: 224
Period size: 40 Copynumber: 5.8 Consensus size: 40
1442874 TTTTACCCAG
*
1442884 ATGTATCGATACTTTTTTCAATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
* * *
1442924 ATGTATCGATACATTTTTCAATGTGTCGATACATTCTATCTTTTTACCCAA
1 ATGTATCGATACATTTTTCAATGTATCGATACA-TGTA------T----GA
1442975 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
* * * **
1443015 ATCTATCGATACATTCTTCAATGTGTCGATACATTTTGTCTTTTTACCCA
1 ATGTATCGATACATTTTTCAATGTATCGATACA---TG------TA-TGA
1443065 GATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
1 -ATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
*
1443106 ATGTATCGATACATTCTTCAATGTATCGATACAT
1 ATGTATCGATACATTTTTCAATGTATCGATACAT
1443140 TCTATCTTTT
Statistics
Matches: 176, Mismatches: 18, Indels: 44
0.74 0.08 0.18
Matches are distributed among these distances:
40 95 0.54
41 4 0.02
42 2 0.01
43 2 0.01
44 1 0.01
47 1 0.01
48 2 0.01
49 2 0.01
50 4 0.02
51 63 0.36
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.41
Consensus pattern (40 bp):
ATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
Found at i:1443028 original size:91 final size:91
Alignment explanation
Indices: 1442873--1443190 Score: 521
Period size: 91 Copynumber: 3.5 Consensus size: 91
1442863 AAAAGTCACA
* *
1442873 TTTTTACCCAGATGTATCGATACTTTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAAATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
*
1442938 TTTTCAATGTGTCGATACATTCTATC
66 TCTTCAATGTGTCGATACATTCTATC
*
1442964 TTTTTACCCAAATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATCTATCGATACAT
1 TTTTTACCCAAATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
* *
1443029 TCTTCAATGTGTCGATACATTTTGTC
66 TCTTCAATGTGTCGATACATTCTATC
*
1443055 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAAATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
*
1443120 TCTTCAATGTATCGATACATTCTATC
66 TCTTCAATGTGTCGATACATTCTATC
* **
1443146 TTTTTACCCAAATGTATCGACACATTGAAT-AATGTATCGATACAT
1 TTTTTACCCAAATGTATCGATACATT-TTTCAATGTATCGATACAT
1443191 CTAATTAAAA
Statistics
Matches: 211, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
91 210 1.00
92 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (91 bp):
TTTTTACCCAAATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
TCTTCAATGTGTCGATACATTCTATC
Found at i:1443095 original size:51 final size:49
Alignment explanation
Indices: 1443018--1443190 Score: 159
Period size: 51 Copynumber: 3.6 Consensus size: 49
1443008 TGTATGAATC
*
1443018 TATCGATACATTCTTCAATGTGTCGATACATTTTGTCTTTTTACCCAGATG
1 TATCGATACATTCTTCAATGTATCGATACA-TTTGTCTTTTTACCCA-ATG
* **
1443069 TATCGATACATTTTTCAATGTATCGATACA--TG------TA-TGAATG
1 TATCGATACATTCTTCAATGTATCGATACATTTGTCTTTTTACCCAATG
*
1443109 TATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTTACCCAAATG
1 TATCGATACATTCTTCAATGTATCGATACATT-TGTCTTTTTACCC-AATG
* **
1443160 TATCGACACATTGAAT-AATGTATCGATACAT
1 TATCGATACATT-CTTCAATGTATCGATACAT
1443191 CTAATTAAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
40 32 0.32
41 1 0.01
42 2 0.02
43 1 0.01
48 2 0.02
49 2 0.02
51 58 0.59
52 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (49 bp):
TATCGATACATTCTTCAATGTATCGATACATTTGTCTTTTTACCCAATG
Found at i:1444835 original size:10 final size:11
Alignment explanation
Indices: 1444820--1444848 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
1444810 CTGCTAGATG
1444820 ATTTTTCAAA-
1 ATTTTTCAAAC
1444830 ATTTTTCAAAC
1 ATTTTTCAAAC
1444841 ATTTTTCA
1 ATTTTTCA
1444849 TAAAAACTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTTTTCAAAC
Found at i:1450293 original size:25 final size:26
Alignment explanation
Indices: 1450265--1450313 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
1450255 GGGAGATCAT
*
1450265 ATGAAAT-AATATCGAGTCGAAACCA
1 ATGAAATCAATATCGAGTCAAAACCA
* *
1450290 ATGAGATCAATGTCGAGTCAAAAC
1 ATGAAATCAATATCGAGTCAAAAC
1450314 ATAGCTAGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.20
Consensus pattern (26 bp):
ATGAAATCAATATCGAGTCAAAACCA
Found at i:1454403 original size:34 final size:34
Alignment explanation
Indices: 1454356--1454425 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
1454346 TGTAATGATA
*
1454356 AAGAGAAGCGATAGACTATTAGAATTTATCTAGC
1 AAGAGAAGCGATAGACTATTAAAATTTATCTAGC
* *
1454390 AAGAGAAGGGATAGACTATTAAAATTTATCTTGC
1 AAGAGAAGCGATAGACTATTAAAATTTATCTAGC
1454424 AA
1 AA
1454426 TTATCATCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (34 bp):
AAGAGAAGCGATAGACTATTAAAATTTATCTAGC
Found at i:1457056 original size:20 final size:20
Alignment explanation
Indices: 1457033--1457080 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1457023 CATTTCAAGC
* *
1457033 ATGTATCGATATATTCACTT
1 ATGTATCGATACATTAACTT
*
1457053 ATGTATTGATACATTAACTT
1 ATGTATCGATACATTAACTT
1457073 ATTGTATC
1 A-TGTATC
1457081 AAGACAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.46
Consensus pattern (20 bp):
ATGTATCGATACATTAACTT
Found at i:1460188 original size:18 final size:20
Alignment explanation
Indices: 1460151--1460189 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
1460141 TTTCCTTGTT
1460151 TTTTTCTCTCTTTTTCTTTC
1 TTTTTCTCTCTTTTTCTTTC
*
1460171 TTTTTCT-T-TTTTTTTTTC
1 TTTTTCTCTCTTTTTCTTTC
1460189 T
1 T
1460190 CTGTACTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 1 0.06
20 7 0.39
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTCTCTCTTTTTCTTTC
Found at i:1460879 original size:165 final size:162
Alignment explanation
Indices: 1460676--1461097 Score: 490
Period size: 165 Copynumber: 2.6 Consensus size: 162
1460666 AAAATTCAAG
* *
1460676 AAAAAAAAATGAAAAACTCATGAAAATACATGAATTTTTCAAAATTGATTTAATATAAATTAAAT
1 AAAAAAAAATGAAAAACTCATGAAAATA-ATGAATTTTTGAAAATT-ATTTAATATGAATTAAAT
* * ** **
1460741 AATCATATTTGATGAATTTTTAAAAATTAAAAACTAAGAAAAATCCTCATGAAAAA-A-TTATGG
64 AATAATATTTGATGAA-TTTTAAAAATTAAAAACCAAG-AAAATCC-CACCAAAAATATTTACAG
1460804 AGAAGAAAACTCCGTATTTCGAAAA-AAGAGAAATTTC
126 AGAAGAAAACTCCGTATTTCGAAAACAAGAG-AATTTC
* * * *
1460841 AAAAAAAAATAAAAAACTCATGAAAATGAATAAATTTTTGGAAACTAATTTAATATGAATTAAAT
1 AAAAAAAAATGAAAAACTCATGAAAAT-AATGAATTTTT-GAAAATTATTTAATATGAATTAAAT
* * * *
1460906 AATAATATTTGATAAATTTTAAAAACTAAAAACCAAGAAAATCCCCCCAAAAATATTTACAGAGT
64 AATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAATCCCACCAAAAATATTTACAGAGA
** *
1460971 AGAAAACTTTGTATTTCGAAAACAAGAGATTTTC
129 AGAAAACTCCGTATTTCGAAAACAAGAGAATTTC
* * * * * *
1461005 AAGGAAAAATTGAAAAATTTATAAAAATAAATGAATTTTTGAAAACTTATTTAACATGAATTAAA
1 AA-AAAAAAATGAAAAACTCATGAAAAT-AATGAATTTTTGAAAA-TTATTTAATATGAATTAAA
*
1461070 TAATAATATTTGATGAATTTCAAAAATT
63 TAATAATATTTGATGAATTTTAAAAATT
1461098 TTGGATCAAT
Statistics
Matches: 217, Mismatches: 33, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
162 6 0.03
163 8 0.04
164 56 0.26
165 142 0.65
166 5 0.02
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.30
Consensus pattern (162 bp):
AAAAAAAAATGAAAAACTCATGAAAATAATGAATTTTTGAAAATTATTTAATATGAATTAAATAA
TAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAATCCCACCAAAAATATTTACAGAGAAG
AAAACTCCGTATTTCGAAAACAAGAGAATTTC
Found at i:1463318 original size:165 final size:165
Alignment explanation
Indices: 1462873--1463463 Score: 751
Period size: 166 Copynumber: 3.6 Consensus size: 165
1462863 TTTTTCTTAA
* * * * * *
1462873 TTTTTAATTCTTAAAATTTATTAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATT
1 TTTTCAATTTTTAAAATTCATCAAATATCATTATTTATTTCATATTAATTCAGTTTTCAAAAATT
* * ***
1462938 AATTCATTTTCATGAGTTTTT-TATTTTTTCCTTAAAATTTCTCTTTTTTTGAAATACGGTGTTT
66 CATTCATTTTCATGAGTTTTTGAATTTTTTCCTTAAAA-TTCTCTTTTTCCAAAATACGGTGTTT
* * **
1463002 TCTACTTTGTAATTATTTTCGAGGGGATTTTTCTTGG
130 T-TACTCTGTAATTTTTTTCGAGGGGATTTTTCAAGG
* * * *
1463039 TTTTCAATTTTTAAAATTCACCAAATATTATCATTTATTTCATATTAATTCAGTTTTTAAAAATT
1 TTTTCAATTTTTAAAATTCATCAAATATCATTATTTATTTCATATTAATTCAGTTTTCAAAAATT
* *
1463104 CATTCATTTTCATGAGCTTTTGATTTTTTTCCTTAAAATTCAT-TTTTTCCAAAATACGGTGTTT
66 CATTCATTTTCATGAGTTTTTGAATTTTTTCCTTAAAATTC-TCTTTTTCCAAAATACGGTGTTT
* * *
1463168 TTACTCTGTAATTTTTTTCGAGAGGATTTTTCGAGT
130 TTACTCTGTAATTTTTTTCGAGGGGATTTTTCAAGG
* * * * *
1463204 TTTTCAATTTTT-AAATTCATCAAACATCATTATTTATTTTATATTAATTTATTTTTTAAAAATT
1 TTTTCAATTTTTAAAATTCATCAAATATCATTATTTATTTCATATTAATTCAGTTTTCAAAAATT
* * *
1463268 CATTCATTTTCATGAGTTTTTGAATTTGTTTCATTGAAATTCTCTTTTTCCAAAATACGATGTTT
66 CATTCATTTTCATGAGTTTTTGAATTT-TTTCCTTAAAATTCTCTTTTTCCAAAATACGGTG-TT
* * *
1463333 TTTACTCCGTAATTTTTTTCAAGGGGATTTTTTAAGG
129 TTTACTCTGTAATTTTTTTCGAGGGGATTTTTCAAGG
* * *
1463370 TTTTCAATTTTTAAAATTCATCAAATGTCATTATTTAGTTCATATTAATTCA--ATTCAAAAATT
1 TTTTCAATTTTTAAAATTCATCAAATATCATTATTTATTTCATATTAATTCAGTTTTCAAAAATT
*
1463433 CATTCATCTTCATGAGTTTTTGAATTTTTTC
66 CATTCATTTTCATGAGTTTTTGAATTTTTTC
1463464 TTTGAAATCC
Statistics
Matches: 372, Mismatches: 47, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
164 75 0.20
165 105 0.28
166 143 0.38
167 49 0.13
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.52
Consensus pattern (165 bp):
TTTTCAATTTTTAAAATTCATCAAATATCATTATTTATTTCATATTAATTCAGTTTTCAAAAATT
CATTCATTTTCATGAGTTTTTGAATTTTTTCCTTAAAATTCTCTTTTTCCAAAATACGGTGTTTT
TACTCTGTAATTTTTTTCGAGGGGATTTTTCAAGG
Found at i:1463546 original size:165 final size:165
Alignment explanation
Indices: 1462878--1463551 Score: 476
Period size: 165 Copynumber: 4.1 Consensus size: 165
1462868 CTTAATTTTT
* * * * * * * * *
1462878 AATTCTTAAAATTTATTAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTC
1 AATTTTTAAAATTCATCAAACATCATTATTTAGTTCATATTAATTCA-TATTCAAAAATTCATTC
* * * * * *** *
1462943 ATTTTCATGAGTTTTT-TATTT-TTTCCTTAAAATTTCTCTTTTTTTGAAATACGGTGTTTTCTA
65 ATCTTCATGAGTTTTTGAATTTGTTTCATTGAAA-TCCTCTTTTTCCAAAATACGATGTTTTCTA
*** * * * **
1463006 CTTTGTAATTATTTTCGAGGGGATTTTTCT-TGGTTTTC
129 CTCCATAAATATTTTC-AGGGGATTTTT-TAAGGTATAA
* * * * * * *
1463044 AATTTTTAAAATTCACCAAATATTATCATTTATTTCATATTAATTCAGTTTTTAAAAATTCATTC
1 AATTTTTAAAATTCATCAAACATCATTATTTAGTTCATATTAATTCA-TATTCAAAAATTCATTC
* * * * * * *
1463109 ATTTTCATGAGCTTTTG-ATTTTTTTCCTTAAAATTCAT-TTTTTCCAAAATACGGTGTTTT-TA
65 ATCTTCATGAGTTTTTGAATTTGTTTCATTGAAA-TCCTCTTTTTCCAAAATACGATGTTTTCTA
** * * * ** * * **
1463171 CTCTGTAATTTTTTTCGAGAGGATTTTTCGAGTTTTTC
129 CTCCATAAATATTTTC-AGGGGATTTTTTAAGGTATAA
* * * * *
1463209 AATTTTT-AAATTCATCAAACATCATTATTTATTTTATATTAATTTATTTTTTAAAAATTCATTC
1 AATTTTTAAAATTCATCAAACATCATTATTTAGTTCATATTAATTCA-TATTCAAAAATTCATTC
* * *
1463273 ATTTTCATGAGTTTTTGAATTTGTTTCATTGAAATTCTCTTTTTCCAAAATACGATGTTTTTTAC
65 ATCTTCATGAGTTTTTGAATTTGTTTCATTGAAATCCTCTTTTTCCAAAATACGATGTTTTCTAC
* * * * **
1463338 TCCGTAATTTTTTTCAAGGGGATTTTTTAAGGTTTTC
130 TCCATAAATATTTTC-AGGGGATTTTTTAAGGTATAA
**
1463375 AATTTTTAAAATTCATCAAATGTCATTATTTAGTTCATATTAATTCA-ATTCAAAAATTCATTCA
1 AATTTTTAAAATTCATCAAACATCATTATTTAGTTCATATTAATTCATATTCAAAAATTCATTCA
*
1463439 TCTTCATGAGTTTTTGAATTT-TTTCTTTGAAATCCT-TATTTTCTCGATAAAT-CGAT-TTTTC
66 TCTTCATGAGTTTTTGAATTTGTTTCATTGAAATCCTCT-TTTTC-C-A-AAATACGATGTTTTC
* *
1463500 TATTCCATAAATATTTTC-GGGAAGATTTTCTT-TGGTATAA
127 TACTCCATAAATATTTTCAGGG--GATTTT-TTAAGGTATAA
1463540 AATTTTTAAAAT
1 AATTTTTAAAAT
1463552 GTGTCTAATA
Statistics
Matches: 435, Mismatches: 59, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
163 4 0.01
164 86 0.20
165 150 0.34
166 143 0.33
167 52 0.12
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.51
Consensus pattern (165 bp):
AATTTTTAAAATTCATCAAACATCATTATTTAGTTCATATTAATTCATATTCAAAAATTCATTCA
TCTTCATGAGTTTTTGAATTTGTTTCATTGAAATCCTCTTTTTCCAAAATACGATGTTTTCTACT
CCATAAATATTTTCAGGGGATTTTTTAAGGTATAA
Found at i:1463546 original size:331 final size:329
Alignment explanation
Indices: 1462902--1463549 Score: 745
Period size: 331 Copynumber: 2.0 Consensus size: 329
1462892 ATTAAATATT
*
1462902 ATTATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTTTATTTTTT
1 ATTATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTTAATTTTTT
* *** * ** *
1462967 CCTTAAAATTTCTCTTTTTTTGAAATACGGTGTTTTCTACTTTGTAATTATTTTCGAGGGGATTT
66 CATTAAAATTTCTCTTTTTCCAAAATACGATGTTTTCTACTCCGTAATTATTTTCAAGGGGATTT
* * * * *
1463032 TTCTTGGTTTTCAATTTTTAAAATTCACCAAATATTATCATTTATTTCATATTAATTCAGTTTTT
131 TTCTAGGTTTTCAATTTTTAAAATTCACCAAATATCATCATTTAGTTCATATTAATTCAG-ATTC
* *
1463097 AAAAATTCATTCATTTTCATGAGCTTTTGATTTTTTTCCTTAAAATTCATTTTTTCCAAAATACG
195 AAAAATTCATTCATCTTCATGAGCTTTTGAATTTTTTCCTTAAAATTCATTTTTTCCAAAATACG
* ** * * * * **
1463162 GTGTTTTTACTCTGTAATTTTTTTCGAGAGGATTTTTCGAGTTTTTCAATTTTTAAATTCATCAA
260 ATGTTTTTACTCCATAAATATTTTCGAGAAGATTTTTCGAGTTATAAAATTTTTAAATTCATCAA
1463227 ACATC
325 ACATC
* * * * * *
1463232 ATTATTTATTTTATATTAATTTATTTTTTAAAAATTCATTCATTTTCATGAGTTTTTGAATTTGT
1 ATTATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTT-AATTT-T
* * *
1463297 TTCATTGAAA-TTCTCTTTTTCCAAAATACGATGTTTTTTACTCCGTAATTTTTTTCAAGGGGAT
64 TTCATTAAAATTTCTCTTTTTCCAAAATACGATGTTTTCTACTCCGTAATTATTTTCAAGGGGAT
* * *
1463361 TTTT-TAAGGTTTTCAATTTTTAAAATTCATCAAATGTCATTATTTAGTTCATATTAATTCA-AT
129 TTTTCT-AGGTTTTCAATTTTTAAAATTCACCAAATATCATCATTTAGTTCATATTAATTCAGAT
* * * *
1463424 TCAAAAATTCATTCATCTTCATGAGTTTTTGAATTTTTTCTTTGAAA-TCCTTATTTTCTCGATA
193 TCAAAAATTCATTCATCTTCATGAGCTTTTGAATTTTTTCCTTAAAATTCATT-TTTTC-C-A-A
* * *
1463488 AAT-CGAT-TTTTCTATTCCATAAATATTTTCGGGAAGATTTTCTTTG-G-TATAAAATTTTTAA
254 AATACGATGTTTT-TACTCCATAAATATTTTCGAGAAGA-TTT-TTCGAGTTATAAAATTTTTAA
1463549 A
316 A
1463550 ATGTGTCTAA
Statistics
Matches: 264, Mismatches: 44, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
328 4 0.02
329 47 0.18
330 57 0.22
331 136 0.52
332 17 0.06
333 3 0.01
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (329 bp):
ATTATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTCATTTTCATGAGTTTTTAATTTTTT
CATTAAAATTTCTCTTTTTCCAAAATACGATGTTTTCTACTCCGTAATTATTTTCAAGGGGATTT
TTCTAGGTTTTCAATTTTTAAAATTCACCAAATATCATCATTTAGTTCATATTAATTCAGATTCA
AAAATTCATTCATCTTCATGAGCTTTTGAATTTTTTCCTTAAAATTCATTTTTTCCAAAATACGA
TGTTTTTACTCCATAAATATTTTCGAGAAGATTTTTCGAGTTATAAAATTTTTAAATTCATCAAA
CATC
Found at i:1465678 original size:20 final size:20
Alignment explanation
Indices: 1465605--1465678 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1465595 TTTTACCTAG
*
1465605 ATGTATTGATACA-TTTTCA
1 ATGTATCGATACATTTTTCA
* * * * *
1465624 ATATATCGATATATGTGTGA
1 ATGTATCGATACATTTTTCA
1465644 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
1465664 ATGTATCGATACATT
1 ATGTATCGATACATT
1465679 CTGTCGTTTT
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 10 0.23
20 33 0.77
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1469858 original size:155 final size:152
Alignment explanation
Indices: 1469569--1470147 Score: 581
Period size: 155 Copynumber: 3.7 Consensus size: 152
1469559 TAAATTACCC
* * * *
1469569 ATTTAGGATAGGTTCATCCCATTTCTAGCCTTTTTATGTCCTTTAAGGTTGTCGAGGTACTTTTA
1 ATTTAGGATAGGTTCAT-CCTTTTCTAGTCTTTTTAAGTCCTTTAGGGTTGTCGAGGTACTTTTA
** * * * * *
1469634 CGTTAAATGTATACCCATAAGGGCAT-TTTTGTACTTTCGTAAAACTGAGTCTTAGGCTGTCACC
65 CGTCGAAGGTATACCCAT-AGGG-ATATTTTGTACTTTC-TTAAACTAAGTCCTAGGTTGTCACC
*
1469698 GGGTCCGCTTTTATGCTGAAGGTGGGC
127 -GGTCCGCTTTTATGCTGAAGGTGGGA
* * *
1469725 A-TTAGGATAGGTTCATCGTATTTCTAGTCTTTTTAAGTCCTTTAGGGTTGCCGGGGTACTTTTA
1 ATTTAGGATAGGTTCATCCT-TTTCTAGTCTTTTTAAGTCCTTTAGGGTTGTCGAGGTACTTTTA
* *
1469789 CGTCGAAGGTATACCCATAGGGATATTTTCATACTTTCTTAGAACTAAGTCCTAGGTTATCACCA
65 CGTCGAAGGTATACCCATAGGGATATTTT-GTACTTTCTTA-AACTAAGTCCTAGGTTGTCACC-
* ** *
1469854 GGTCCGTTTTTATGCTGAATATGGGT
127 GGTCCGCTTTTATGCTGAAGGTGGGA
* * * * *
1469880 ATTTAGGATAGGTTTACCCTTTTCTAGTCTTTTTAAGTCTTTTAGGGTTGTTGAAGTACTTTTAC
1 ATTTAGGATAGGTTCATCCTTTTCTAGTCTTTTTAAGTCCTTTAGGGTTGTCGAGGTACTTTTAC
* * * * * * *
1469945 GTCGAAAGTATACCTATAGGGGTATTTTTGTAATTTCTTAAAATCAAGTCCTAGGTCGTCATCGA
66 GTCGAAGGTATACCCATAGGGATA-TTTTGTACTTTCTTAAACT-AAGTCCTAGGTTGTCACCG-
*
1470010 GTCTGCTTTTATGCTGAAGGTGGGA
128 GTCCGCTTTTATGCTGAAGGTGGGA
* * * *
1470035 ATTTAGGATAGGTTCATCCCTTTTACGAGTTTTTTTAAGTCCTTTAGGGCTGTCGGGGATACTTT
1 ATTTAGGATAGGTTCAT-CCTTTT-CTAGTCTTTTTAAGTCCTTTAGGGTTGTCGAGG-TACTTT
* * * *
1470100 TACATCTAAGGTAT-CCCTTAAGGGCAT-TTTTGTAATTTTTCTTAAACT
63 TACGTCGAAGGTATACCCAT-AGGG-ATATTTTGT-A-CTTTCTTAAACT
1470148 TAGCCTTTTA
Statistics
Matches: 348, Mismatches: 60, Indels: 27
0.80 0.14 0.06
Matches are distributed among these distances:
153 2 0.01
154 15 0.04
155 237 0.68
156 26 0.07
157 35 0.10
158 22 0.06
159 11 0.03
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.40
Consensus pattern (152 bp):
ATTTAGGATAGGTTCATCCTTTTCTAGTCTTTTTAAGTCCTTTAGGGTTGTCGAGGTACTTTTAC
GTCGAAGGTATACCCATAGGGATATTTTGTACTTTCTTAAACTAAGTCCTAGGTTGTCACCGGTC
CGCTTTTATGCTGAAGGTGGGA
Found at i:1472174 original size:33 final size:33
Alignment explanation
Indices: 1472109--1472174 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
1472099 TTATCTTGAT
* * *
1472109 TTTAATTATATTGAAGATAAACGTTATTTCTAA
1 TTTAATAATATTGAAGATAAACATTATCTCTAA
*
1472142 TTTAATAATATTGGAAG-TAAATATTATCTCTAA
1 TTTAATAATATT-GAAGATAAACATTATCTCTAA
1472175 AATTTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 24 0.86
34 4 0.14
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (33 bp):
TTTAATAATATTGAAGATAAACATTATCTCTAA
Found at i:1479328 original size:13 final size:12
Alignment explanation
Indices: 1479301--1479358 Score: 57
Period size: 12 Copynumber: 4.7 Consensus size: 12
1479291 TTTTTAAAAG
1479301 TTTTGTAATAA-A
1 TTTT-TAATAATA
1479313 TTTTTAACTAATA
1 TTTTTAA-TAATA
*
1479326 -TTTTCATAATA
1 TTTTTAATAATA
1479337 TTTTTTAATTAATA
1 -TTTTTAA-TAATA
1479351 TTTTTAAT
1 TTTTTAAT
1479359 TTTTATATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 8 0.21
12 13 0.33
13 13 0.33
14 5 0.13
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (12 bp):
TTTTTAATAATA
Found at i:1479359 original size:13 final size:13
Alignment explanation
Indices: 1479312--1479359 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
1479302 TTTGTAATAA
*
1479312 ATTTTTAACTAAT
1 ATTTTTAATTAAT
*
1479325 A-TTTTCA-TAAT
1 ATTTTTAATTAAT
1479336 ATTTTTTAATTAAT
1 A-TTTTTAATTAAT
1479350 ATTTTTAATT
1 ATTTTTAATT
1479360 TTTATATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 5 0.17
12 5 0.17
13 15 0.50
14 5 0.17
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTTTAATTAAT
Found at i:1479610 original size:23 final size:23
Alignment explanation
Indices: 1479574--1479617 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
1479564 TCAATTAATT
*
1479574 TATTAATTATATAAAATAAAAATA
1 TATTAATTAAAT-AAATAAAAATA
1479598 TATT-ATTAAATAAATAAAAA
1 TATTAATTAAATAAATAAAAA
1479618 ATTAAATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 6 0.32
24 4 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
TATTAATTAAATAAATAAAAATA
Found at i:1479621 original size:16 final size:16
Alignment explanation
Indices: 1479602--1479632 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1479592 AAAATATATT
1479602 ATTAAATAAATAAAAA
1 ATTAAATAAATAAAAA
*
1479618 ATTAAATACATAAAA
1 ATTAAATAAATAAAA
1479633 TTATATGTAA
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:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
ATTAAATAAATAAAAA
Found at i:1479727 original size:2 final size:2
Alignment explanation
Indices: 1479720--1479755 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1479710 AAGTGCAATC
*
1479720 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1479756 CATGCTAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1480088 original size:6 final size:6
Alignment explanation
Indices: 1480061--1480107 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
1480051 ATTATTTCAT
* *
1480061 AAAATA AAAGGATA AAAGTA AAAATA AAAATA AAAATA AAAACA AAA
1 AAAATA AAA--ATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
1480108 TCTTCAACGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 30 0.83
8 6 0.17
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:1480089 original size:12 final size:11
Alignment explanation
Indices: 1480059--1480101 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 11
1480049 ATATTATTTC
1480059 ATAAAATAAAA
1 ATAAAATAAAA
1480070 GGATAAAAGTAAAA
1 --ATAAAA-TAAAA
1480084 ATAAAAATAAAA
1 AT-AAAATAAAA
1480096 ATAAAA
1 ATAAAA
1480102 ACAAAATCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 4 0.14
12 9 0.32
13 10 0.36
14 5 0.18
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:1480254 original size:18 final size:18
Alignment explanation
Indices: 1480206--1480280 Score: 53
Period size: 18 Copynumber: 3.9 Consensus size: 18
1480196 ATGATTAAAA
*
1480206 TAAATAATAAATTATTATT
1 TAAATATTAAATTATT-TT
1480225 ATCATAAT-TTAAATTATTTT
1 -T-A-AATATTAAATTATTTT
* *
1480245 TAAATATTAAATAATTTA
1 TAAATATTAAATTATTTT
* *
1480263 TAAAAATATAACTTATTT
1 TAAATAT-TAAATTATTT
1480281 ATTTAAATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
17 3 0.07
18 17 0.38
19 9 0.20
20 3 0.07
21 10 0.22
22 3 0.07
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATATTAAATTATTTT
Found at i:1481021 original size:17 final size:16
Alignment explanation
Indices: 1481001--1481126 Score: 51
Period size: 17 Copynumber: 7.2 Consensus size: 16
1480991 TATATTTTTA
1481001 TTAATATATTATTATAT
1 TTAATATATTATTA-AT
*
1481018 TTAATATTAATTA-AATAT
1 TTAATA-T-ATTATTA-AT
1481036 TTAA-ATCATATATTTAATAT
1 TTAATAT-AT-TA-TT-A-AT
* *
1481056 TTAATTTAATTTTTAAT
1 TTAATAT-ATTATTAAT
* *
1481073 TAAATA-ATTAATTAAA
1 TTAATATATT-ATTAAT
*
1481089 TTAATTAAATTATTAAT
1 TTAA-TATATTATTAAT
*
1481106 TTAAATATCTTATTAAT
1 TT-AATATATTATTAAT
1481123 TTAA
1 TTAA
1481127 CTTTTGATTT
Statistics
Matches: 84, Mismatches: 14, Indels: 23
0.69 0.12 0.19
Matches are distributed among these distances:
15 3 0.04
16 12 0.14
17 36 0.43
18 15 0.18
19 6 0.07
20 9 0.11
21 3 0.04
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAATATATTATTAAT
Found at i:1481039 original size:12 final size:12
Alignment explanation
Indices: 1481020--1481113 Score: 53
Period size: 12 Copynumber: 8.4 Consensus size: 12
1481010 TATTATATTT
1481020 AATA-TTAATTA
1 AATATTTAATTA
*
1481031 AATATTTAAAT-
1 AATATTTAATTA
* *
1481042 CATA--TATTTA
1 AATATTTAATTA
*
1481052 -ATATTTAATTT
1 AATATTTAATTA
*
1481063 AATTTTTAATTA
1 AATATTTAATTA
*
1481075 AATAATTAATT-
1 AATATTTAATTA
1481086 AA-A-TTAATTA
1 AATATTTAATTA
1481096 AAT-TATTAATTTA
1 AATAT-TTAA-TTA
1481109 AATAT
1 AATAT
1481114 CTTATTAATT
Statistics
Matches: 62, Mismatches: 10, Indels: 19
0.68 0.11 0.21
Matches are distributed among these distances:
9 12 0.19
10 3 0.05
11 13 0.21
12 27 0.44
13 6 0.10
14 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (12 bp):
AATATTTAATTA
Found at i:1481094 original size:21 final size:22
Alignment explanation
Indices: 1481011--1481111 Score: 73
Period size: 21 Copynumber: 4.5 Consensus size: 22
1481001 TTAATATATT
1481011 ATTATATTTAATATTAATTAAATA
1 ATTA-ATTTAA-ATTAATTAAATA
* * * * *
1481035 TTTAAATCATA-T-ATTTAATA
1 ATTAATTTAAATTAATTAAATA
* *
1481055 TTTAATTTAATTTTTAATTAAATA
1 ATTAATTTAA--ATTAATTAAATA
*
1481079 ATTAA-TTAAATTAATTAAATT
1 ATTAATTTAAATTAATTAAATA
1481100 ATTAATTTAAAT
1 ATTAATTTAAAT
1481112 ATCTTATTAA
Statistics
Matches: 59, Mismatches: 13, Indels: 12
0.70 0.15 0.14
Matches are distributed among these distances:
20 14 0.24
21 16 0.27
22 7 0.12
23 8 0.14
24 14 0.24
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTAATTTAAATTAATTAAATA
Found at i:1481672 original size:17 final size:17
Alignment explanation
Indices: 1481650--1481695 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
1481640 AGACAATAAC
1481650 AAAATCAAATAAAATAG
1 AAAATCAAATAAAATAG
*
1481667 AAAATCAAGA-AAAATTG
1 AAAATCAA-ATAAAATAG
1481684 --AATCAAATAAAA
1 AAAATCAAATAAAA
1481696 ATGAACGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 1 0.04
15 10 0.38
17 14 0.54
18 1 0.04
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.17
Consensus pattern (17 bp):
AAAATCAAATAAAATAG
Found at i:1483631 original size:21 final size:22
Alignment explanation
Indices: 1483594--1483635 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1483584 AACTATTAAT
1483594 ATATATAAAATTATATTTATAA
1 ATATATAAAATTATATTTATAA
*
1483616 ATATATACAA-TATATTTATA
1 ATATATAAAATTATATTTATA
1483636 CGTTGAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
ATATATAAAATTATATTTATAA
Found at i:1486044 original size:13 final size:13
Alignment explanation
Indices: 1486026--1486054 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1486016 AAATAGTACC
1486026 CAATGTATCGATA
1 CAATGTATCGATA
1486039 CAATGTATCGATA
1 CAATGTATCGATA
1486052 CAA
1 CAA
1486055 GGAATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1492403 original size:33 final size:32
Alignment explanation
Indices: 1492345--1492406 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
1492335 TTTGTCCATT
* *
1492345 TATCGATACAATGAACATGTTTCGATACAATG
1 TATCGATACAAAGAACATGTATCGATACAATG
*
1492377 TATCGATACAAAGCAGCATGTATCGATACA
1 TATCGATACAAAG-AACATGTATCGATACA
1492407 TCTGGGTGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (32 bp):
TATCGATACAAAGAACATGTATCGATACAATG
Found at i:1492953 original size:109 final size:109
Alignment explanation
Indices: 1492762--1492978 Score: 371
Period size: 109 Copynumber: 2.0 Consensus size: 109
1492752 AGGGCATTGT
*
1492762 GGGGTTTTCTCCTTTACATAAGGAGATAACAGCCAACAACTCAGTCTGCCTTTTATTGCCATTGG
1 GGGGTTTTCTCCTTTACATAAAGAGATAACAGCCAACAACTCAGTCTGCCTTTTATTGCCATTGG
* * *
1492827 TTTTGCCATGCAAGGTGGTGGTCTTGAGGGCTAGGGTTGCCTGA
66 TTTTGCCATGCAAGGTGGTGGTCCTAAGGGCTAGGGCTGCCTGA
* *
1492871 GGGGTTTTCTCTTTTACATAAAGAGATAACAGCCAACAACTCAGTTTGCCTTTTATTGCCATTGG
1 GGGGTTTTCTCCTTTACATAAAGAGATAACAGCCAACAACTCAGTCTGCCTTTTATTGCCATTGG
*
1492936 TTTTGCCATGCAAGGTGGTGGTCCTAAGGGCTGGGGCTGCCTG
66 TTTTGCCATGCAAGGTGGTGGTCCTAAGGGCTAGGGCTGCCTG
1492979 CAATTTGAAA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
109 101 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (109 bp):
GGGGTTTTCTCCTTTACATAAAGAGATAACAGCCAACAACTCAGTCTGCCTTTTATTGCCATTGG
TTTTGCCATGCAAGGTGGTGGTCCTAAGGGCTAGGGCTGCCTGA
Found at i:1493283 original size:52 final size:52
Alignment explanation
Indices: 1493204--1493342 Score: 190
Period size: 52 Copynumber: 2.7 Consensus size: 52
1493194 AAAAATGCCT
* * * *
1493204 AAATATATCGATACATTGAGAAATGTATCGATACATCTAGGTTAAAACCC-A
1 AAATGTATCAATACAATGAAAAATGTATCGATACATCTAGGTTAAAACCCAA
* * *
1493255 GAATGTATCAATGCAATGAAAAAATGTATCGATACATCTGGGTTAAAACCCAA
1 AAATGTATCAATACAATG-AAAAATGTATCGATACATCTAGGTTAAAACCCAA
*
1493308 AAATGTATCGATACAATGAAAAATGTATCGATACA
1 AAATGTATCAATACAATGAAAAATGTATCGATACA
1493343 AACAGTAAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
51 13 0.17
52 47 0.62
53 16 0.21
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (52 bp):
AAATGTATCAATACAATGAAAAATGTATCGATACATCTAGGTTAAAACCCAA
Found at i:1493354 original size:21 final size:20
Alignment explanation
Indices: 1493305--1493361 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
1493295 GGTTAAAACC
*
1493305 CAAAAATGTATCGATACAAT
1 CAAAAATGTATCGATACAAA
*
1493325 GAAAAATGTATCGATACAAA
1 CAAAAATGTATCGATACAAA
*
1493345 CAGTAAATGTATCGATA
1 CA-AAAATGTATCGATA
1493362 TATTTACTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (20 bp):
CAAAAATGTATCGATACAAA
Found at i:1494233 original size:42 final size:42
Alignment explanation
Indices: 1494186--1494279 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
1494176 TGTGGGCTTT
* **
1494186 AAAAGGAAA-AAGAAAGTGTCCTGTTCTTTAAGAACGGAGGAG
1 AAAAGGAAATAA-AAAGTGTCCTGCTCTTTAAGAACAAAGGAG
** * *
1494228 AAAAGGAAATAAAGTGTGTCCTGCTCTTTGAGGACAAAGGAG
1 AAAAGGAAATAAAAAGTGTCCTGCTCTTTAAGAACAAAGGAG
1494270 AAAAGGAAAT
1 AAAAGGAAAT
1494280 GAATCTTGCT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 42 0.95
43 2 0.05
ACGTcount: A:0.44, C:0.10, G:0.28, T:0.19
Consensus pattern (42 bp):
AAAAGGAAATAAAAAGTGTCCTGCTCTTTAAGAACAAAGGAG
Found at i:1494250 original size:146 final size:144
Alignment explanation
Indices: 1494077--1494339 Score: 357
Period size: 144 Copynumber: 1.8 Consensus size: 144
1494067 TCAGGGACAA
*
1494077 AGGAAAAAAGGAAATAAAGTGCATCCTGCTCTTTAAGGACAAAAGAAAAAGAAGGAAATGAGTCC
1 AGGAAAAAAGGAAATAAAGTGCATCCTGCTCTTTAAGGAC-AAAGAAAAA-AAGGAAATGAATCC
* * ** * *
1494142 TGCTCTTTGAGGACTAAA-ATGTTCCACTAACTTGTGTGGGCTTTAAAAGGAAAAAGAAAGTGTC
64 TGCTCTTTGAGGACTAAAGA-GTGCCACCAACTCCTATGGGCTTTAAAAAGAAAAAGAAAGTGTC
1494206 CTGTTCTTTAAGAACGG
128 CTGTTCTTTAAGAACGG
* ** * * * *
1494223 AGGAGAAAAGGAAATAAAGTGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAATGAATCTTG
1 AGGAAAAAAGGAAATAAAGTGCATCCTGCTCTTTAAGGACAAAGAAAAAAAGGAAATGAATCCTG
*
1494288 CTTTTTGAGGACTAAAGAGTGCCACCAACTCCTATGGGCTTTAAAAAGAAAA
66 CTCTTTGAGGACTAAAGAGTGCCACCAACTCCTATGGGCTTTAAAAAGAAAA
1494340 TGGCGTCCTG
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
144 57 0.56
145 8 0.08
146 36 0.36
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (144 bp):
AGGAAAAAAGGAAATAAAGTGCATCCTGCTCTTTAAGGACAAAGAAAAAAAGGAAATGAATCCTG
CTCTTTGAGGACTAAAGAGTGCCACCAACTCCTATGGGCTTTAAAAAGAAAAAGAAAGTGTCCTG
TTCTTTAAGAACGG
Found at i:1494362 original size:62 final size:62
Alignment explanation
Indices: 1494286--1495155 Score: 1067
Period size: 62 Copynumber: 13.9 Consensus size: 62
1494276 AAATGAATCT
* * * * * *
1494286 TGCTTTTTGAGGACTAAAGAGTGCCACCAACTCCTATGGGCTTTAAAAAGAAAATGGCGTCC
1 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * * * * * *
1494348 TGCTCTTTGAGGACTAAAAGGCGCCAACAACTCGTGTGGTCATTGAAAAGAAAAAAGCATCC
1 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* *
1494410 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGAGGGCTTTGAAAAGAAAAAGGCGTCT
1 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * * *
1494472 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCCTGTGGGTTTTGAAAAGAAAAAGGCATCT
1 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* *
1494534 TGCTCTTTAAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCA
1 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* *** * *
1494596 TGCTCTTTGAGGACAAAAATATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCC
1 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * ** * **
1494658 TGCTTTTTGAGAACTAAAGGGCACCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTATCC
1 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
** * * * *
1494720 TATTCTTTGAGGACAAAAGGGTGCCACCAATTCGTGTGGGCTTTTTGAAAAGAAAAAAGACGTCT
1 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGC--TTTGAAAAG-AAAAAGGCGTCC
* * * * *
1494785 TGCTCTTTAAGGACGAGAAGGGTGTCACCAACTCGTGTAGGCTTTTTGAAAAGAAAAAGGTGTCC
1 TGCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGC--TTTGAAAAGAAAAAGGCGTCC
* ** *
1494850 TGCTCTTTAAGGAAGAGAAGGGTGCCACCAACTCGTGTGGACTTTGAAAAGAAAAAGGCGTCC
1 TGCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * * * *
1494913 TACTCTTTAAGGATTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAGCGTCT
1 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * *
1494975 TACTCTTTGAGGAATAGAAGGGTGCTACCAACTC-TGTGGGCTTTGAAAAGAAAAAGGCGTCC
1 TGCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * * *
1495037 TGCTCTTTGAGGACTAAAGGGGTGCTACCAACTCTTGTGAGCTTTGAAAAGAAAAAGGCATCC
1 TGCTCTTTGAGGACTAAA-GGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * * *
1495100 TGCTCTTTGAGGACTAAGGGGTACAACCAACTCATGTGGGCTTTGAAAAGAAAAAG
1 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
1495156 AGGGTGCCAC
Statistics
Matches: 705, Mismatches: 96, Indels: 14
0.87 0.12 0.02
Matches are distributed among these distances:
61 2 0.00
62 502 0.71
63 92 0.13
64 9 0.01
65 67 0.10
66 33 0.05
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (62 bp):
TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
Found at i:1495231 original size:101 final size:99
Alignment explanation
Indices: 1495052--1495254 Score: 266
Period size: 101 Copynumber: 2.0 Consensus size: 99
1495042 TTTGAGGACT
* * *
1495052 AAAGGGGTGCTACCAACTCTTGTGAGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAA
1 AAAGGGGTGCCACCAACTC-TGTGAGCTTTGAAAAGAAAAAAGCATCCTACTCTTTGAGGACTAA
*
1495117 GGGGTACAACCAACTCATGTGGGCTTTGAAAAGAA
65 GGGGTACAACCAACTCATGTGGGCTTCGAAAAGAA
*
1495152 AAAGAGGGTGCCACCAACTC-GTGCAGGCTTTGAAAAGAAAAAAGCGTCCTACTCTTTGAGGACT
1 AAAG-GGGTGCCACCAACTCTGTG-A-GCTTTGAAAAGAAAAAAGCATCCTACTCTTTGAGGACT
* * * *
1495216 ACA-GGGTGCCACCAACTCTTGTGTGCTTCGAAAAGAA
63 A-AGGGGTACAACCAACTCATGTGGGCTTCGAAAAGAA
1495253 AA
1 AA
1495255 GGGTGTCCTA
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
99 3 0.03
100 5 0.06
101 81 0.90
102 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (99 bp):
AAAGGGGTGCCACCAACTCTGTGAGCTTTGAAAAGAAAAAAGCATCCTACTCTTTGAGGACTAAG
GGGTACAACCAACTCATGTGGGCTTCGAAAAGAA
Found at i:1495253 original size:62 final size:62
Alignment explanation
Indices: 1495156--1495432 Score: 347
Period size: 62 Copynumber: 4.5 Consensus size: 62
1495146 AAAGAAAAAG
** * * * *
1495156 AGGGTGCCACCAACTCGTGCAGGCTTTGAAAAGAAAAAAGCGTCCTACTCTTTGAGGACTAC
1 AGGGTGCCACCAACTCGTGTGGGCTTCGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAA
* * * ** * *
1495218 AGGGTGCCACCAACTCTTGTGTGCTTCGAAAAGAAAAGGGTGTCCTACTTTTTAAGGACTAA
1 AGGGTGCCACCAACTCGTGTGGGCTTCGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAA
* * * *
1495280 AGGGTGCCACCAACTCATGTGGGCTTCGAAAAGAAAAAGGCATCTTGCTCTTTGAGGATTAA
1 AGGGTGCCACCAACTCGTGTGGGCTTCGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAA
* * *** *
1495342 AGGGTGCCACCAACTCCTGTGGGCTTTGAAAAGAAAAAGGCATCCCGTTCTTCGAGGACTAA
1 AGGGTGCCACCAACTCGTGTGGGCTTCGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAA
1495404 AGGGTGCCACCAACTCGTGTGGGCTTCGA
1 AGGGTGCCACCAACTCGTGTGGGCTTCGA
1495433 TGAGGACAAA
Statistics
Matches: 185, Mismatches: 30, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 185 1.00
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (62 bp):
AGGGTGCCACCAACTCGTGTGGGCTTCGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAA
Found at i:1495278 original size:163 final size:163
Alignment explanation
Indices: 1494993--1495318 Score: 467
Period size: 163 Copynumber: 2.0 Consensus size: 163
1494983 GAGGAATAGA
* * *
1494993 AGGGTGCTACCAACTCTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGG
1 AGGGTGCCACCAACTCTGTGGGCTTTGAAAAGAAAAAAGCGTCCTACTCTTTGAGGACTAAAGGG
* * * * *
1495058 GTGCTACCAACTCTTGTGAGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAGGGGTA
66 GTGCCACCAACTCTTGTGAGCTTCGAAAAGAAAAAGGCATCCTACTCTTTAAGGACTAAAGGGTA
*
1495123 CAACCAACTCATGTGGGCTTTGAAAAGAAAAAG
131 CAACCAACTCATGTGGGCTTCGAAAAGAAAAAG
*
1495156 AGGGTGCCACCAACTC-GTGCAGGCTTTGAAAAGAAAAAAGCGTCCTACTCTTTGAGGACTACA-
1 AGGGTGCCACCAACTCTGTG--GGCTTTGAAAAGAAAAAAGCGTCCTACTCTTTGAGGACTAAAG
* * ** *
1495219 GGGTGCCACCAACTCTTGTGTGCTTCGAAAAGAAAAGGGTGTCCTACTTTTTAAGGACTAAAGGG
64 GGGTGCCACCAACTCTTGTGAGCTTCGAAAAGAAAAAGGCATCCTACTCTTTAAGGACTAAAGGG
* *
1495284 TGCCACCAACTCATGTGGGCTTCGAAAAGAAAAAG
129 TACAACCAACTCATGTGGGCTTCGAAAAGAAAAAG
1495319 GCATCTTGCT
Statistics
Matches: 144, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
162 3 0.02
163 102 0.71
164 39 0.27
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (163 bp):
AGGGTGCCACCAACTCTGTGGGCTTTGAAAAGAAAAAAGCGTCCTACTCTTTGAGGACTAAAGGG
GTGCCACCAACTCTTGTGAGCTTCGAAAAGAAAAAGGCATCCTACTCTTTAAGGACTAAAGGGTA
CAACCAACTCATGTGGGCTTCGAAAAGAAAAAG
Found at i:1495373 original size:225 final size:226
Alignment explanation
Indices: 1494930--1495380 Score: 672
Period size: 225 Copynumber: 2.0 Consensus size: 226
1494920 TAAGGATTAA
** *
1494930 AGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAGCGTCTTACTCTTTGAGGAATAGAAG
1 AGGGTGCCACCAACTCGTGCAGGCTTTGAAAAGAAAAAAGCGTCCTACTCTTTGAGGAATAGAAG
* * * *
1494995 GGTGCTACCAACTCTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGGT
66 GGTGCCACCAACTCTGTGGGCTTCGAAAAGAAAAAGGCGTCCTACTCTTTAAGGACTAAAGGGGT
* * * *
1495060 GCTACCAACTCTTGTGAGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAGGGGTACA
131 GCCACCAACTCATGTGAGCTTCGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTACA
1495125 ACCAACTCATGTGGGCTTTGAAAAGAAAAAG
196 ACCAACTCATGTGGGCTTTGAAAAGAAAAAG
* *
1495156 AGGGTGCCACCAACTCGTGCAGGCTTTGAAAAGAAAAAAGCGTCCTACTCTTTGAGGACTA-CAG
1 AGGGTGCCACCAACTCGTGCAGGCTTTGAAAAGAAAAAAGCGTCCTACTCTTTGAGGAATAGAAG
* * * *
1495220 GGTGCCACCAACTCTTGTGTGCTTCGAAAAGAAAAGGGTGTCCTACTTTTTAAGGACTAAA-GGG
66 GGTGCCACCAACTC-TGTGGGCTTCGAAAAGAAAAAGGCGTCCTACTCTTTAAGGACTAAAGGGG
* * * *
1495284 TGCCACCAACTCATGTGGGCTTCGAAAAGAAAAAGGCATCTTGCTCTTTGAGGATTAAAGGGTGC
130 TGCCACCAACTCATGTGAGCTTCGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTAC
* *
1495349 CACCAACTCCTGTGGGCTTTGAAAAGAAAAAG
195 AACCAACTCATGTGGGCTTTGAAAAGAAAAAG
1495381 GCATCCCGTT
Statistics
Matches: 201, Mismatches: 23, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
225 105 0.52
226 96 0.48
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (226 bp):
AGGGTGCCACCAACTCGTGCAGGCTTTGAAAAGAAAAAAGCGTCCTACTCTTTGAGGAATAGAAG
GGTGCCACCAACTCTGTGGGCTTCGAAAAGAAAAAGGCGTCCTACTCTTTAAGGACTAAAGGGGT
GCCACCAACTCATGTGAGCTTCGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTACA
ACCAACTCATGTGGGCTTTGAAAAGAAAAAG
Found at i:1495439 original size:225 final size:224
Alignment explanation
Indices: 1495208--1495653 Score: 592
Period size: 225 Copynumber: 2.0 Consensus size: 224
1495198 TCCTACTCTT
* * * * *
1495208 TGAGGACTACAGGGTGCCACCAACTCTTGTGTG-CTTCGAAAAGAAAAGGGTGTCCTACTTTTTA
1 TGAGGACAAAAGGGTGCCACCAACTCGTGTG-GACTTCGAAAAGAAAAAGGTGTCCTACTCTTTA
* * * *
1495272 AGGACTAAAGGGTGCCACCAACTCATGTGGGCTTCGAAAAGAAAAAGGCATCTTGCTCTTTGAGG
65 AGGACAAAAGGATGCCACCAACTCATGTGGGCTTCAAAAAGAAAAAGGCATCTTGCTCTTTAAGG
* * * * ** *
1495337 ATTAAAGGGTGCCACCAAC-TCCTGTGGGCTTTGAAAAGAAAAAGGCATCCCGTTCTTCGAGGAC
130 ACTAAAAGGTGCCACCAACAT-CTGTGGGCGTT-AAAAGAAAAAGACATCCCACTCTTCGAAGAC
*
1495401 TAAAGGGTGCCACCAAC-TCGTGTGGGCTTCGA
193 TAAAAGGTGCCACCAACGT-GTGTGGGCTTCGA
* *
1495433 TGAGGACAAAAGGGTGCCACCAACTCGTGTGGACTTTGAAAAGAAAAAGGTGTCCTACTCTTTGA
1 TGAGGACAAAAGGGTGCCACCAACTCGTGTGGACTTCGAAAAGAAAAAGGTGTCCTACTCTTTAA
* * * **
1495498 GGACAAAAGGATGCCACTAACTCATGTGGGCTTTAAAAAGAAGAAGGTGTCTTGCTCTTTAAGGA
66 GGACAAAAGGATGCCACCAACTCATGTGGGCTTCAAAAAGAAAAAGGCATCTTGCTCTTTAAGGA
* * *
1495563 CTAAAAGGTGCCACCAACATGTGTGGGCGTTAAAAGAAAAAGACATCCTACTCTTTGAAGACTAA
131 CTAAAAGGTGCCACCAACATCTGTGGGCGTTAAAAGAAAAAGACATCCCACTCTTCGAAGACTAA
1495628 AAGGTGCCACCAACGTGTGTGGGCTT
196 AAGGTGCCACCAACGTGTGTGGGCTT
1495654 TAAAAGAAAA
Statistics
Matches: 191, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
224 52 0.27
225 138 0.72
226 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (224 bp):
TGAGGACAAAAGGGTGCCACCAACTCGTGTGGACTTCGAAAAGAAAAAGGTGTCCTACTCTTTAA
GGACAAAAGGATGCCACCAACTCATGTGGGCTTCAAAAAGAAAAAGGCATCTTGCTCTTTAAGGA
CTAAAAGGTGCCACCAACATCTGTGGGCGTTAAAAGAAAAAGACATCCCACTCTTCGAAGACTAA
AAGGTGCCACCAACGTGTGTGGGCTTCGA
Found at i:1495447 original size:163 final size:163
Alignment explanation
Indices: 1495272--1495590 Score: 415
Period size: 163 Copynumber: 2.0 Consensus size: 163
1495262 CTACTTTTTA
* * * *
1495272 AGGACTAAAGGGTGCCACCAACTCATGTGGGCTTCGAAAAGAAAAAGGCATCTTGCTCTTTGAGG
1 AGGACAAAAGGGTGCCACCAACTCATGTGGACTTCGAAAAGAAAAAGGCATCCTACTCTTTGAGG
** * * * * *
1495337 ATTAAAGGGTGCCACCAACTCCTGTGGGCTTTGAAAAGAAAAAGGCATCCCGTTCTTCGAGGACT
66 ACAAAAGGATGCCACCAACTCATGTGGGCTTTAAAAAGAAAAAGGCATCCCGCTCTTCAAGGACT
*
1495402 AAAGGGTGCCACCAAC-TCGTGTGGGCTTCGATG
131 AAAAGGTGCCACCAACAT-GTGTGGGCTTCGATG
* * **
1495435 AGGACAAAAGGGTGCCACCAACTCGTGTGGACTTTGAAAAGAAAAAGGTGTCCTACTCTTTGAGG
1 AGGACAAAAGGGTGCCACCAACTCATGTGGACTTCGAAAAGAAAAAGGCATCCTACTCTTTGAGG
* * ** ** *
1495500 ACAAAAGGATGCCACTAACTCATGTGGGCTTTAAAAAGAAGAAGGTGTCTTGCTCTTTAAGGACT
66 ACAAAAGGATGCCACCAACTCATGTGGGCTTTAAAAAGAAAAAGGCATCCCGCTCTTCAAGGACT
1495565 AAAAGGTGCCACCAACATGTGTGGGC
131 AAAAGGTGCCACCAACATGTGTGGGC
1495591 GTTAAAAGAA
Statistics
Matches: 132, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
163 131 0.99
164 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (163 bp):
AGGACAAAAGGGTGCCACCAACTCATGTGGACTTCGAAAAGAAAAAGGCATCCTACTCTTTGAGG
ACAAAAGGATGCCACCAACTCATGTGGGCTTTAAAAAGAAAAAGGCATCCCGCTCTTCAAGGACT
AAAAGGTGCCACCAACATGTGTGGGCTTCGATG
Found at i:1495472 original size:287 final size:283
Alignment explanation
Indices: 1494867--1495689 Score: 1042
Period size: 287 Copynumber: 2.9 Consensus size: 283
1494857 TAAGGAAGAG
* *
1494867 AAGGGTGCCACCAACTCGTGTGGACTTTGAAAAGAAAAAGGCGTCCTACTCTTTAAGGATTAAAG
1 AAGGGTGCCACCAACTCGTGTGGACTTTGAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAG
* * * * *
1494932 GGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAGCGTCTTACTCTTTGAGGAATAGAAGGG
66 GGTGCCACCAACTCATGTGGGCTTTGAAAAG-AAAAGGTGTCTTACTCTTTAAGGACTA-AAGGG
* *
1494997 TGCTACCAACTCTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGGTGC
129 TGCCACCAACTCTGTGGGC-TTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAA-GGGTGC
* * * * * *
1495062 TACCAACTCTTGTGAGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAGGGGTACAAC
192 CACCAACTCCTGTGGGCTTTGAAAAGAAAAAGGCATCCCGCTCTTCGAGGACTAAAGGGTACAAC
*
1495127 CAACTCATGTGGGCTTTGAAAAGAAAA
257 CAACTCATGTGGGCTTCGAAAAGAAAA
* * *
1495154 AGAGGGTGCCACCAACTCGTGCAGG-CTTTGAAAAGAAAAAAGCGTCCTACTCTTTGAGGACTAC
1 A-AGGGTGCCACCAACTCGTG-TGGACTTTGAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAA
* * * * *
1495218 AGGGTGCCACCAACTCTTGTGTGCTTCGAAAAGAAAAGGGTGTCCTACTTTTTAAGGACTAAAGG
64 AGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAA-GGTGTCTTACTCTTTAAGGACTAAAGG
* *
1495283 GTGCCACCAACTCATGTGGGCTTCGAAAAGAAAAAGGCATCTTGCTCTTTGAGGATTAAAGGGTG
128 GTGCCACCAACTC-TGTGGGCTT-GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTG
* * *
1495348 CCACCAACTCCTGTGGGCTTTGAAAAGAAAAAGGCATCCCGTTCTTCGAGGACTAAAGGGTGCCA
191 CCACCAACTCCTGTGGGCTTTGAAAAGAAAAAGGCATCCCGCTCTTCGAGGACTAAAGGGTACAA
* * * *
1495413 CCAACTCGTGTGGGCTTCGATGAGGACAA
256 CCAACTCATGTGGGCTTCGA-AAAGAAAA
* *
1495442 AAGGGTGCCACCAACTCGTGTGGACTTTGAAAAGAAAAAGGTGTCCTACTCTTTGAGGACAAAAG
1 AAGGGTGCCACCAACTCGTGTGGACTTTGAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAG
* * * * *
1495507 GATGCCACTAACTCATGTGGGCTTTAAAAAGAAGAAGGTGTCTTGCTCTTTAAGGACTAAAAGGT
66 GGTGCCACCAACTCATGTGGGCTTTGAAAAGAA-AAGGTGTCTTACTCTTTAAGGACTAAAGGGT
* * * * *
1495572 GCCACCAACATGTGTGGGCGTT-AAAAGAAAAAGACATCCTACTCTTTGAAGACTAAAAGGTGCC
130 GCCACCAAC-TCTGTGGGC-TTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCC
* * ** *
1495636 ACCAACGT-GTGTGGGCTTT-AAAAGAAAAAGGCGTCTTGCTCTTTGAGGACTAAA
193 ACCAAC-TCCTGTGGGCTTTGAAAAGAAAAAGGCATCCCGCTCTTCGAGGACTAAA
1495690 AGGCTAAAAA
Statistics
Matches: 465, Mismatches: 60, Indels: 24
0.85 0.11 0.04
Matches are distributed among these distances:
285 30 0.06
286 54 0.12
287 227 0.49
288 152 0.33
289 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (283 bp):
AAGGGTGCCACCAACTCGTGTGGACTTTGAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAG
GGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAGGTGTCTTACTCTTTAAGGACTAAAGGGTG
CCACCAACTCTGTGGGCTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACC
AACTCCTGTGGGCTTTGAAAAGAAAAAGGCATCCCGCTCTTCGAGGACTAAAGGGTACAACCAAC
TCATGTGGGCTTCGAAAAGAAAA
Found at i:1495503 original size:62 final size:62
Alignment explanation
Indices: 1495433--1495692 Score: 289
Period size: 61 Copynumber: 4.2 Consensus size: 62
1495423 TGGGCTTCGA
* *
1495433 TGAGGAC-AAAAGGGTGCCACCAAC-TCGTGTGGACTTTGAAAAGAAAAAGGTGTCCTACTCTT
1 TGAGGACTAAAAGGGTGCCACCAACAT-GTGTGGGCTTT-AAAAGAAAAAGGCGTCCTACTCTT
* * * * * * *
1495495 TGAGGAC-AAAAGGATGCCACTAAC-TCATGTGGGCTTTAAAAAGAAGAAGGTGTCTTGCTCTT
1 TGAGGACTAAAAGGGTGCCACCAACAT-GTGTGGGCTTT-AAAAGAAAAAGGCGTCCTACTCTT
* * * *
1495557 TAAGGACTAAAA-GGTGCCACCAACATGTGTGGGCGTTAAAAGAAAAAGACATCCTACTCTT
1 TGAGGACTAAAAGGGTGCCACCAACATGTGTGGGCTTTAAAAGAAAAAGGCGTCCTACTCTT
* * * *
1495618 TGAAGACTAAAA-GGTGCCACCAACGTGTGTGGGCTTTAAAAGAAAAAGGCGTCTTGCTCTT
1 TGAGGACTAAAAGGGTGCCACCAACATGTGTGGGCTTTAAAAGAAAAAGGCGTCCTACTCTT
1495679 TGAGGACTAAAAGG
1 TGAGGACTAAAAGG
1495693 CTAAAAAGGG
Statistics
Matches: 167, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
61 82 0.49
62 80 0.48
63 5 0.03
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (62 bp):
TGAGGACTAAAAGGGTGCCACCAACATGTGTGGGCTTTAAAAGAAAAAGGCGTCCTACTCTT
Found at i:1495507 original size:101 final size:101
Alignment explanation
Indices: 1495340--1495530 Score: 274
Period size: 101 Copynumber: 1.9 Consensus size: 101
1495330 TTTGAGGATT
* ** *
1495340 AAAGGGTGCCACCAACTCCTGTGGGCTTTGAAAAGAAAAAGGCATCCCGTTCTTCGAGGACTAAA
1 AAAGGGTGCCACCAACTCCTGTGGACTTTGAAAAGAAAAAGGCATCCCACTCTTCGAGGACAAAA
* *
1495405 GGGTGCCACCAACTCGTGTGGGCTTCGATGAGGACA
66 GGATGCCACCAACTCATGTGGGCTTCGATGAGGACA
* ** * *
1495441 AAAGGGTGCCACCAACTCGTGTGGACTTTGAAAAGAAAAAGGTGTCCTACTCTTTGAGGACAAAA
1 AAAGGGTGCCACCAACTCCTGTGGACTTTGAAAAGAAAAAGGCATCCCACTCTTCGAGGACAAAA
*
1495506 GGATGCCACTAACTCATGTGGGCTT
66 GGATGCCACCAACTCATGTGGGCTT
1495531 TAAAAAGAAG
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 78 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.21
Consensus pattern (101 bp):
AAAGGGTGCCACCAACTCCTGTGGACTTTGAAAAGAAAAAGGCATCCCACTCTTCGAGGACAAAA
GGATGCCACCAACTCATGTGGGCTTCGATGAGGACA
Found at i:1495655 original size:123 final size:123
Alignment explanation
Indices: 1495435--1495692 Score: 337
Period size: 123 Copynumber: 2.1 Consensus size: 123
1495425 GGCTTCGATG
* *** *
1495435 AGGAC-AAAAGGGTGCCACCAACTCGTGTGGACTTTGAAAAGAAAAAGGTGTCCTACTCTTTGAG
1 AGGACTAAAA-GGTGCCACCAACTCGTGTGGACGTTGAAAAGAAAAAGACATCCTACTCTTTGAA
* * *
1495499 GACAAAAGGATGCCACTAACTCATGTGGGCTTTAAAAAGAAGAAGGTGTCTTGCTCTTTA
65 GACAAAAGGATGCCACCAACTCATGTGGGCTTT-AAAAGAAAAAGGCGTCTTGCTCTTTA
*
1495559 AGGACTAAAAGGTGCCACCAACAT-GTGTGGGCGTT-AAAAGAAAAAGACATCCTACTCTTTGAA
1 AGGACTAAAAGGTGCCACCAAC-TCGTGTGGACGTTGAAAAGAAAAAGACATCCTACTCTTTGAA
* *
1495622 GACTAAAAGG-TGCCACCAACGT-GTGTGGGCTTTAAAAGAAAAAGGCGTCTTGCTCTTTG
65 GAC-AAAAGGATGCCACCAAC-TCATGTGGGCTTTAAAAGAAAAAGGCGTCTTGCTCTTTA
1495681 AGGACTAAAAGG
1 AGGACTAAAAGG
1495693 CTAAAAAGGG
Statistics
Matches: 119, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
122 35 0.29
123 46 0.39
124 33 0.28
125 5 0.04
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (123 bp):
AGGACTAAAAGGTGCCACCAACTCGTGTGGACGTTGAAAAGAAAAAGACATCCTACTCTTTGAAG
ACAAAAGGATGCCACCAACTCATGTGGGCTTTAAAAGAAAAAGGCGTCTTGCTCTTTA
Found at i:1502397 original size:20 final size:19
Alignment explanation
Indices: 1502371--1502465 Score: 104
Period size: 20 Copynumber: 4.8 Consensus size: 19
1502361 TACTGCCGTT
1502371 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
1502390 TGCATGTATCGATACAATGA
1 T-CATGTATCGATACAATGA
*
1502410 TCATGTATCGATACAAAGCA
1 TCATGTATCGATACAATG-A
* *
1502430 TAATGTATCGATACATCTGGA
1 TCATGTATCGATACA-AT-GA
1502451 T-ATGTATCGATACAA
1 TCATGTATCGATACAA
1502466 ACAAGGGTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
19 19 0.29
20 44 0.67
21 2 0.03
22 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:1503197 original size:79 final size:78
Alignment explanation
Indices: 1503076--1503343 Score: 315
Period size: 79 Copynumber: 3.4 Consensus size: 78
1503066 GAGTATTCTC
* * **
1503076 GATGGT-AGAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCTTTC-AGAAATAACG
1 GATGGTGA-AAAATCGATATTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCGA-AAATAA-G
1503139 AGGTTAGAGTATCCCT
63 AGGTTAGAGTATCCCT
* * * * *
1503155 GATGGTGAAAAATCGGTATTTTAAAAATAAAACCAAGGTTGGAGCATCCCCTCGAAAATAATGGG
1 GATGGTGAAAAATCGATATTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAA-GAG
*
1503220 GTTGGAGTATCCCT
65 GTTAGAGTATCCCT
* * * * * *
1503234 GATGATGAAAAATCGATGTTTTAGGAATAAAACCGGGGTTAGAGTATCCCCTCGAAAATAATAGG
1 GATGGTGAAAAATCGATATTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAAGAGG
* *
1503299 GTAGAGTATCCCC
66 TTAGAGTATCCCT
*
1503312 GATGGTGAAAAATCAATATTTTAGAAATAAAA
1 GATGGTGAAAAATCGATATTTTAGAAATAAAA
1503344 ACATCAATGA
Statistics
Matches: 158, Mismatches: 29, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
78 40 0.25
79 116 0.73
80 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (78 bp):
GATGGTGAAAAATCGATATTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAAGAGG
TTAGAGTATCCCT
Found at i:1505494 original size:20 final size:20
Alignment explanation
Indices: 1505469--1505574 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
1505459 TTTTACCCAG
1505469 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* *
1505489 ATGTATCGATAC-TTGTATGA
1 ATGTATCGATACATT-TTTCA
1505509 ATGTATCGATACATTCTATCTTTTTACCCA
1 ATGTATCGAT--A--C-A--TTTTT---CA
1505539 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
1505560 ATGTATCGATACATT
1 ATGTATCGATACATT
1505575 CTGTCTTTTC
Statistics
Matches: 69, Mismatches: 4, Indels: 26
0.70 0.04 0.26
Matches are distributed among these distances:
19 2 0.03
20 40 0.58
21 2 0.03
22 1 0.01
24 6 0.09
26 1 0.01
27 3 0.04
28 2 0.03
29 1 0.01
30 1 0.01
31 10 0.14
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1505563 original size:51 final size:51
Alignment explanation
Indices: 1505489--1505624 Score: 186
Period size: 51 Copynumber: 2.7 Consensus size: 51
1505479 ACATTTTTCA
* *
1505489 ATGTATCGATAC-TTGTATGAATGTATCGATACATTCTATCTTTT-TACCCAG
1 ATGTATCGATACATT-TTTCAATGTATCGATACATTCTATCTTTTCT-CCCAG
* *
1505540 ATGTATCGATACATTTTTCAATGTATCGATACATTCTGTCTTTTCTCCCTG
1 ATGTATCGATACATTTTTCAATGTATCGATACATTCTATCTTTTCTCCCAG
* *
1505591 ATATATCGATACATTGTTCAATGTATCGATACAT
1 ATGTATCGATACATTTTTCAATGTATCGATACAT
1505625 CAAGTTAAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
51 74 0.96
52 3 0.04
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.42
Consensus pattern (51 bp):
ATGTATCGATACATTTTTCAATGTATCGATACATTCTATCTTTTCTCCCAG
Found at i:1518951 original size:13 final size:13
Alignment explanation
Indices: 1518932--1518982 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
1518922 CCTTCATACC
*
1518932 AAAAAAAAACCAAG
1 AAAAAAAAA-AAAG
1518946 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
* *
1518959 AAAAAACTAAAAAC
1 AAAAAA-AAAAAAG
1518973 AAAAAAAAAA
1 AAAAAAAAAA
1518983 TAAAAAGGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
13 12 0.38
14 20 0.62
ACGTcount: A:0.86, C:0.08, G:0.04, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:1518962 original size:24 final size:25
Alignment explanation
Indices: 1518935--1518988 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
1518925 TCATACCAAA
*
1518935 AAAAAACCAAGAA-AAAAAAAAAAG
1 AAAAAACCAAAAACAAAAAAAAAAG
* *
1518959 AAAAAACTAAAAACAAAAAAAAAAT
1 AAAAAACCAAAAACAAAAAAAAAAG
1518984 AAAAA
1 AAAAA
1518989 GGGGTCTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.85, C:0.07, G:0.04, T:0.04
Consensus pattern (25 bp):
AAAAAACCAAAAACAAAAAAAAAAG
Found at i:1518970 original size:17 final size:17
Alignment explanation
Indices: 1518948--1518988 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
1518938 AAACCAAGAA
*
1518948 AAAAAAAAAAGAAAAAACT
1 AAAAACAAAA-AAAAAA-T
1518967 AAAAACAAAAAAAAAAT
1 AAAAACAAAAAAAAAAT
1518984 AAAAA
1 AAAAA
1518989 GGGGTCTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 6 0.29
19 9 0.43
ACGTcount: A:0.88, C:0.05, G:0.02, T:0.05
Consensus pattern (17 bp):
AAAAACAAAAAAAAAAT
Found at i:1520318 original size:28 final size:29
Alignment explanation
Indices: 1520230--1520746 Score: 535
Period size: 30 Copynumber: 17.4 Consensus size: 29
1520220 CGTTCATCTC
*
1520230 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGCAACTC-T
*
1520262 TTCAAAGCCCACAAGTCAGTGGCATCTC-
1 TTCAAAGCCCACAAGTCAGTGGCAACTCT
*
1520290 TTCAAAAGCCCACAAGTTAGTGGC-ACTCT
1 TTC-AAAGCCCACAAGTCAGTGGCAACTCT
*
1520319 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGCAACTC-T
* *
1520351 TTCAAAGCCCATAAGTCAGTGGCAACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAACTCT
*
1520380 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGCAACTC-T
*
1520412 TTCAAAGCCCACAAGTCAGTGGCATCTCT
1 TTCAAAGCCCACAAGTCAGTGGCAACTCT
* ** * *
1520441 TTAAAAGATCACAAGTTAGTGGCATC-CT
1 TTCAAAGCCCACAAGTCAGTGGCAACTCT
* * * *
1520469 TTCGAAGCCCACAAGTTAGTGGCGTACCCT
1 TTCAAAGCCCACAAGTCAGTGGC-AACTCT
*
1520499 TTCAAAGCCCACAAGTCAGTGGC-ACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAACTCT
**
1520527 TTCAAAGCCCACACAAGTTGGTGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGCAACTC-T
*
1520559 TTCAAAGCCCACAAGTCAGTGGCAACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAACTCT
*
1520588 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGCAACTC-T
1520620 TTCAAAGCCCACAAGTCAGTGGCAAC-CT
1 TTCAAAGCCCACAAGTCAGTGGCAACTCT
*
1520648 TTCAAAGCCCACAAGTCAGTGGC-ACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAACTCT
* * ** * *
1520676 TTCACAGCCCACAAGTCAATGG-TTCCCC
1 TTCAAAGCCCACAAGTCAGTGGCAACTCT
* * *
1520704 TTCAAAGCCCACAAGTAAGTGGCATCCCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-ACTCT
1520734 TTCAAAGCCCACA
1 TTCAAAGCCCACA
1520747 CAAGTCATTG
Statistics
Matches: 418, Mismatches: 45, Indels: 46
0.82 0.09 0.09
Matches are distributed among these distances:
27 2 0.00
28 111 0.27
29 67 0.16
30 149 0.36
31 50 0.12
32 39 0.09
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCAGTGGCAACTCT
Found at i:1520390 original size:61 final size:58
Alignment explanation
Indices: 1520230--1520746 Score: 526
Period size: 61 Copynumber: 8.7 Consensus size: 58
1520220 CGTTCATCTC
* * * *
1520230 TTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTC-
1 TTCAAAG-CC-CACAAGTCAGTGGCAAC-CCTTTCAAAGCCCACAAGTCAGTGGCAACCCT
* * * *
1520290 TTCAAAAGCCCACAAGTTAGTGGC-ACTCTTTCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 TTC-AAAGCCCACAAGTCAGTGGCAACCCTTTCAAAG-CC-CACAAGTCAGTGGCAAC-CCT
* * *
1520351 TTCAAAGCCCATAAGTCAGTGGCAACCCTTTCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAACCCTTTCAAAG-CC-CACAAGTCAGTGGCAAC-CCT
* * * ** * *
1520412 TTCAAAGCCCACAAGTCAGTGGCATCTCTTTAAAAGATCACAAGTTAGTGGC-ATCCT
1 TTCAAAGCCCACAAGTCAGTGGCAACCCTTTCAAAGCCCACAAGTCAGTGGCAACCCT
* * *
1520469 TTCGAAGCCCACAAGTTAGTGGCGTACCCTTTCAAAGCCCACAAGTCAGTGGC-ACCCT
1 TTCAAAGCCCACAAGTCAGTGGC-AACCCTTTCAAAGCCCACAAGTCAGTGGCAACCCT
** *
1520527 TTCAAAGCCCACACAAGTTGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCAACCCT
1 TTCAAAG-CC-CACAAGTCAGTGGCAAC-CCTTTCAAAGCCCACAAGTCAGTGGCAACCCT
* *
1520588 TTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCAA-CCT
1 TTCAAAG-CC-CACAAGTCAGTGGCAAC-CCTTTCAAAGCCCACAAGTCAGTGGCAACCCT
* * ** *
1520648 TTCAAAGCCCACAAGTCAGTGGC-ACCCTTTCACAGCCCACAAGTCAATGG-TTCCCC
1 TTCAAAGCCCACAAGTCAGTGGCAACCCTTTCAAAGCCCACAAGTCAGTGGCAACCCT
* *
1520704 TTCAAAGCCCACAAGTAAGTGGCATCCCCTTTCAAAGCCCACA
1 TTCAAAGCCCACAAGTCAGTGGCA-ACCCTTTCAAAGCCCACA
1520747 CAAGTCATTG
Statistics
Matches: 397, Mismatches: 46, Indels: 30
0.84 0.10 0.06
Matches are distributed among these distances:
56 46 0.12
57 33 0.08
58 66 0.17
59 45 0.11
60 71 0.18
61 136 0.34
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (58 bp):
TTCAAAGCCCACAAGTCAGTGGCAACCCTTTCAAAGCCCACAAGTCAGTGGCAACCCT
Found at i:1520783 original size:25 final size:25
Alignment explanation
Indices: 1520734--1520783 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
1520724 GGCATCCCCT
* *
1520734 TTCAAAGCCCACACAAGTCATTGGC
1 TTCAAAGCCCACAAAAGTCAGTGGC
*
1520759 TTCAAAGCCCACAAAAGTTAGTGGC
1 TTCAAAGCCCACAAAAGTCAGTGGC
1520784 ACCTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (25 bp):
TTCAAAGCCCACAAAAGTCAGTGGC
Found at i:1521745 original size:20 final size:20
Alignment explanation
Indices: 1521720--1521865 Score: 132
Period size: 20 Copynumber: 6.8 Consensus size: 20
1521710 TTTTACCCAG
1521720 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
1521740 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
1521760 ATGTATCAATACATTCTTT-A
1 ATGTATCGATACATT-TTTCA
1521780 ATGTATCGATACATTCTATCTTTTTACCCA
1 ATGTATCGAT--A--C-A--TTTTT---CA
1521810 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
*
1521831 ATGTATCGATACATTTTTCG
1 ATGTATCGATACATTTTTCA
1521851 ATGTATCGATACATT
1 ATGTATCGATACATT
1521866 ACATCTAGTT
Statistics
Matches: 105, Mismatches: 8, Indels: 26
0.76 0.06 0.19
Matches are distributed among these distances:
20 74 0.70
21 4 0.04
22 1 0.01
24 6 0.06
25 1 0.01
26 4 0.04
27 3 0.03
29 1 0.01
30 1 0.01
31 10 0.10
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1525885 original size:50 final size:52
Alignment explanation
Indices: 1525828--1525942 Score: 153
Period size: 50 Copynumber: 2.2 Consensus size: 52
1525818 ATAGATTGAG
** *
1525828 AAATGTATCGATACATCTAGATTAAAA-CGTAGAATGTATTAACACAATG-A
1 AAATGTATCGATACATCTAGATTAAAACCCAAAAATGTATTAACACAATGAA
* * *
1525878 AAATGTATCGATACATCTAGGTTAAAACCCAAAAATGTATTGATACAATGAA
1 AAATGTATCGATACATCTAGATTAAAACCCAAAAATGTATTAACACAATGAA
*
1525930 AAATATATCGATA
1 AAATGTATCGATA
1525943 TTGTTGCAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 26 0.46
51 17 0.30
52 13 0.23
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.28
Consensus pattern (52 bp):
AAATGTATCGATACATCTAGATTAAAACCCAAAAATGTATTAACACAATGAA
Found at i:1529174 original size:33 final size:33
Alignment explanation
Indices: 1529132--1529197 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1529122 AAATTCCCAG
1529132 ATGTATCGATACAAAG-ATCAATGTATTGATACA
1 ATGTATCGATACAAAGAAT-AATGTATTGATACA
**
1529165 ATGTATCGATACATTGAATAATGTATTGATACA
1 ATGTATCGATACAAAGAATAATGTATTGATACA
1529198 TTTCCTCGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATTGATACA
Found at i:1530777 original size:15 final size:15
Alignment explanation
Indices: 1530757--1530787 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1530747 ATTAATACAA
1530757 TTTCATTCCTTTCTC
1 TTTCATTCCTTTCTC
*
1530772 TTTCATTTCTTTCTC
1 TTTCATTCCTTTCTC
1530787 T
1 T
1530788 CTTTCTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTCATTCCTTTCTC
Found at i:1531100 original size:15 final size:14
Alignment explanation
Indices: 1530996--1531111 Score: 79
Period size: 14 Copynumber: 8.2 Consensus size: 14
1530986 ATAATCCTTA
*
1530996 TTTGCCACAAGTAC
1 TTTGGCACAAGTAC
**
1531010 TTTGGCATGAGTAC
1 TTTGGCACAAGTAC
* * * *
1531024 TTTGACAGAGGTAT
1 TTTGGCACAAGTAC
* *
1531038 TTTGGTATAAGTAC
1 TTTGGCACAAGTAC
***
1531052 TTTAAAACAAGTAC
1 TTTGGCACAAGTAC
* **
1531066 TTTGGCAGAAACAC
1 TTTGGCACAAGTAC
1531080 TTTGGCACAAGTAC
1 TTTGGCACAAGTAC
*
1531094 TTTTGGCACAGGTAC
1 -TTTGGCACAAGTAC
1531109 TTT
1 TTT
1531112 TGGTGTAGGT
Statistics
Matches: 74, Mismatches: 27, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
14 61 0.82
15 13 0.18
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (14 bp):
TTTGGCACAAGTAC
Found at i:1531112 original size:15 final size:15
Alignment explanation
Indices: 1531058--1531114 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
1531048 GTACTTTAAA
1531058 ACAAGTAC-TTTGGC
1 ACAAGTACTTTTGGC
* **
1531072 AGAAACAC-TTTGGC
1 ACAAGTACTTTTGGC
1531086 ACAAGTACTTTTGGC
1 ACAAGTACTTTTGGC
*
1531101 ACAGGTACTTTTGG
1 ACAAGTACTTTTGG
1531115 TGTAGGTACT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
14 16 0.46
15 19 0.54
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (15 bp):
ACAAGTACTTTTGGC
Found at i:1531881 original size:13 final size:13
Alignment explanation
Indices: 1531863--1531889 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1531853 ACATTATGCT
1531863 TTGTATCGATACA
1 TTGTATCGATACA
1531876 TTGTATCGATACA
1 TTGTATCGATACA
1531889 T
1 T
1531890 GGACAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1531988 original size:20 final size:20
Alignment explanation
Indices: 1531963--1532013 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
1531953 AGGTACGTTA
1531963 TATCGATACATGATGAATTG
1 TATCGATACATGATGAATTG
1531983 TATCGATACATGATGAATTG
1 TATCGATACATGATGAATTG
1532003 TATCGATACAT
1 TATCGATACAT
1532014 TGCTTGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (20 bp):
TATCGATACATGATGAATTG
Found at i:1538197 original size:13 final size:13
Alignment explanation
Indices: 1538179--1538218 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
1538169 ACAACATTCC
*
1538179 TTGTATCGATACA
1 TTGTATTGATACA
*
1538192 TTGTATTGATACG
1 TTGTATTGATACA
1538205 TTGTATTGATACA
1 TTGTATTGATACA
1538218 T
1 T
1538219 GGATTACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (13 bp):
TTGTATTGATACA
Found at i:1540710 original size:20 final size:20
Alignment explanation
Indices: 1540687--1540760 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
1540677 ACATTATGCT
1540687 TTGTATCGATACATGGACAA
1 TTGTATCGATACATGGACAA
*
1540707 TTGTATCAATACAT-GATC-A
1 TTGTATCGATACATGGA-CAA
1540726 TTGTATCGATACATGGACAA
1 TTGTATCGATACATGGACAA
1540746 TTGTATCGATACATG
1 TTGTATCGATACATG
1540761 AAACTGGCAG
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
19 17 0.35
20 32 0.65
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (20 bp):
TTGTATCGATACATGGACAA
Found at i:1540740 original size:39 final size:39
Alignment explanation
Indices: 1540687--1540761 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
1540677 ACATTATGCT
1540687 TTGTATCGATACATGGACAATTGTATCAATACATGATCA
1 TTGTATCGATACATGGACAATTGTATCAATACATGATCA
*
1540726 TTGTATCGATACATGGACAATTGTATCGATACATGA
1 TTGTATCGATACATGGACAATTGTATCAATACATGA
1540762 AACTGGCAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (39 bp):
TTGTATCGATACATGGACAATTGTATCAATACATGATCA
Found at i:1540814 original size:20 final size:20
Alignment explanation
Indices: 1540789--1540842 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
1540779 CTACCACTGT
*
1540789 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
1540809 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
1540829 TTGTATCGATACAT
1 TTGTATCGATACAT
1540843 TGCTTATAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:1543996 original size:134 final size:134
Alignment explanation
Indices: 1543858--1544177 Score: 306
Period size: 134 Copynumber: 2.4 Consensus size: 134
1543848 TTGACCATTA
*
1543858 TGGTCCCAT-TGGCCATTTCCGTCACT-TAACCTAATACAAGTATTCTTAATGGCGAAA-TCGAC
1 TGGTCCCATAT-GCCATTTCCGTCACTCT-ACCTAATACAAGTATTCTTAATGAC-AAATTCGAC
1543920 CATTATGGTCCCATGTGCCACTTCCGTCACTCTCCCATATAAAAATTCTTCCAATAAAGAAGTCA
63 CATTATGGTCCCATGTGCCACTTCCGTCACTCTCCCATATAAAAATTCTTCCAATAAAGAAGTCA
1543985 TTAATTG
128 TTAATTG
** * * ** *
1543992 TGGTCCCATATGCCATTTTTGTTACTCTCCCTAATACGTGTATTTTTAATGACAAATTCGACCAT
1 TGGTCCCATATGCCATTTCCGTCACTCTACCTAATACAAGTATTCTTAATGACAAATTCGACCAT
* ** ** ** * * ** * ***
1544057 TTTGGTCTTATGTGCCACTTTTGTCACTCTCTTATATACAAGTTCTTCCAATGGAGAAGTTAACC
66 TATGGTCCCATGTGCCACTTCCGTCACTCTCCCATATAAAAATTCTTCCAATAAAGAAGTCATTA
1544122 ATTG
131 ATTG
** * * * * *
1544126 TTATCCCGTGTGCCACTTCCGTTACTCT-CTTTAATACAAGTATTCTTAATGA
1 TGGTCCCATATGCCATTTCCGTCACTCTAC-CTAATACAAGTATTCTTAATGA
1544178 AAAAGTTGAC
Statistics
Matches: 148, Mismatches: 34, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
133 4 0.03
134 142 0.96
135 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (134 bp):
TGGTCCCATATGCCATTTCCGTCACTCTACCTAATACAAGTATTCTTAATGACAAATTCGACCAT
TATGGTCCCATGTGCCACTTCCGTCACTCTCCCATATAAAAATTCTTCCAATAAAGAAGTCATTA
ATTG
Found at i:1545190 original size:13 final size:13
Alignment explanation
Indices: 1545172--1545198 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1545162 ACAATTGTGC
1545172 ATGTATCGATACA
1 ATGTATCGATACA
1545185 ATGTATCGATACA
1 ATGTATCGATACA
1545198 A
1 A
1545199 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1553981 original size:19 final size:19
Alignment explanation
Indices: 1553941--1553997 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
1553931 GGTAGTTATT
1553941 TATCGATACAATTG-TGCATG
1 TATCGATACAA-TGAT-CATG
1553961 TATCGATACAATGATCATG
1 TATCGATACAATGATCATG
1553980 TATCGATACAATGTATCA
1 TATCGATACAATG-ATCA
1553998 ATACAAAGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 19 0.54
20 16 0.46
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (19 bp):
TATCGATACAATGATCATG
Found at i:1554021 original size:33 final size:32
Alignment explanation
Indices: 1553958--1554022 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
1553948 ACAATTGTGC
* * *
1553958 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCAATACAAAGATAATGTATCGATACA
*
1553990 ATGTATCAATACAAAGCATAATGTATGGATACA
1 ATGTATCAATACAAAG-ATAATGTATCGATACA
1554023 TCTGGATGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (32 bp):
ATGTATCAATACAAAGATAATGTATCGATACA
Found at i:1555022 original size:15 final size:15
Alignment explanation
Indices: 1555002--1555252 Score: 142
Period size: 15 Copynumber: 17.2 Consensus size: 15
1554992 ACAGAACTGC
1555002 TTTGGCATAGGTACT
1 TTTGGCATAGGTACT
* *
1555017 TTTGGCACAAGTACT
1 TTTGGCATAGGTACT
*
1555032 TTTGGCAAAGGTAC-
1 TTTGGCATAGGTACT
* * *
1555046 TTTGGTAGAAGTAC-
1 TTTGGCATAGGTACT
*** * *
1555060 TTTAATAGAGGTATT
1 TTTGGCATAGGTACT
* * *
1555075 TTTGGCACAAGTATT
1 TTTGGCATAGGTACT
*
1555090 TTTGGCATAAGTAC-
1 TTTGGCATAGGTACT
1555104 TTTGGCATAGGTAC-
1 TTTGGCATAGGTACT
** *
1555118 TTTGATAGAGGTACT
1 TTTGGCATAGGTACT
* * *
1555133 TTAGGCACAGATACT
1 TTTGGCATAGGTACT
* *
1555148 TTTGACAAAGGTAC-
1 TTTGGCATAGGTACT
* *
1555162 TATGGCACAGGTACT
1 TTTGGCATAGGTACT
* *
1555177 TTTGGCACAAGTAC-
1 TTTGGCATAGGTACT
*
1555191 TTTGTCATAGGTAC-
1 TTTGGCATAGGTACT
*
1555205 TTTGGCATAAGTACCT
1 TTTGGCATAGGTA-CT
*
1555221 TTT-GCAAAGGTACCT
1 TTTGGCATAGGTA-CT
*
1555236 TTT-GTATAGGTACT
1 TTTGGCATAGGTACT
1555250 TTT
1 TTT
1555253 AGCAGCAACG
Statistics
Matches: 186, Mismatches: 45, Indels: 11
0.77 0.19 0.05
Matches are distributed among these distances:
14 83 0.45
15 100 0.54
16 3 0.02
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (15 bp):
TTTGGCATAGGTACT
Found at i:1555033 original size:29 final size:29
Alignment explanation
Indices: 1554959--1555252 Score: 143
Period size: 29 Copynumber: 10.1 Consensus size: 29
1554949 GCCACAAGTA
* * * *
1554959 TTTGGCAAAAGTACTTTGGTAGAGGTATT
1 TTTGGCACAAGTACTTTGGCATAGGTACT
* * * *
1554988 TTTGACAGAACTGCTTTGGCATAGGTACT
1 TTTGGCACAAGTACTTTGGCATAGGTACT
*
1555017 TTTGGCACAAGTACTTTTGGCAAAGGTAC-
1 TTTGGCACAAGTAC-TTTGGCATAGGTACT
* * *** * *
1555046 TTTGGTAGAAGTACTTTAATAGAGGTATT
1 TTTGGCACAAGTACTTTGGCATAGGTACT
* *
1555075 TTTGGCACAAGTATTTTTGGCATAAGTAC-
1 TTTGGCACAAGTA-CTTTGGCATAGGTACT
* * ** *
1555104 TTTGGCATAGGTACTTTGATAGAGGTACT
1 TTTGGCACAAGTACTTTGGCATAGGTACT
* * *
1555133 TTAGGCAC-AGATACTTTTGACAAAGGTAC-
1 TTTGGCACAAG-TAC-TTTGGCATAGGTACT
* * * *
1555162 TATGGCACAGGTACTTTTGGCACAAGTAC-
1 TTTGGCACAAGTAC-TTTGGCATAGGTACT
* * * *
1555191 TTTGTCATAGGTACTTTGGCATAAGTACCT
1 TTTGGCACAAGTACTTTGGCATAGGTA-CT
* *
1555221 TTT-GCA-AAGGTACCTTTTGTATAGGTACT
1 TTTGGCACAA-GTA-CTTTGGCATAGGTACT
1555250 TTT
1 TTT
1555253 AGCAGCAACG
Statistics
Matches: 199, Mismatches: 55, Indels: 22
0.72 0.20 0.08
Matches are distributed among these distances:
28 33 0.17
29 118 0.59
30 48 0.24
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTGGCACAAGTACTTTGGCATAGGTACT
Found at i:1555072 original size:58 final size:58
Alignment explanation
Indices: 1555010--1555178 Score: 207
Period size: 58 Copynumber: 2.9 Consensus size: 58
1555000 GCTTTGGCAT
*
1555010 AGGTACTTTTGGCACAAGTACTTTTGGCAAAGGTACTTTGGTAGAAGTACTTTAATAG
1 AGGTACTTTTGGCACAAGTACTTTTGGCAAAGGTACTTTGGCAGAAGTACTTTAATAG
* * * * *
1555068 AGGTATTTTTGGCACAAGTATTTTTGGCATAA-GTACTTTGGCATAGGTACTTTGATAG
1 AGGTACTTTTGGCACAAGTACTTTTGGCA-AAGGTACTTTGGCAGAAGTACTTTAATAG
* * * * *
1555126 AGGTACTTTAGGCAC-AGATACTTTTGACAAAGGTACTATGGCACAGGTACTTT
1 AGGTACTTTTGGCACAAG-TACTTTTGGCAAAGGTACTTTGGCAGAAGTACTTT
1555179 TGGCACAAGT
Statistics
Matches: 96, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
57 4 0.04
58 90 0.94
59 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (58 bp):
AGGTACTTTTGGCACAAGTACTTTTGGCAAAGGTACTTTGGCAGAAGTACTTTAATAG
Found at i:1556122 original size:19 final size:21
Alignment explanation
Indices: 1556094--1556137 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
1556084 ACATATAAAA
1556094 TTTTCTCTTTCTTCTCT-TTT
1 TTTTCTCTTTCTTCTCTCTTT
*
1556114 TTTTC-CTTTTTTCTCTCTTT
1 TTTTCTCTTTCTTCTCTCTTT
1556134 TTTT
1 TTTT
1556138 AATAAATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTCTCTTTCTTCTCTCTTT
Found at i:1556133 original size:11 final size:11
Alignment explanation
Indices: 1556097--1556136 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
1556087 TATAAAATTT
*
1556097 TCTCTTTCTTC
1 TCTCTTTTTTC
1556108 TCT-TTTTTT-
1 TCTCTTTTTTC
1556117 TC-CTTTTTTC
1 TCTCTTTTTTC
1556127 TCTCTTTTTT
1 TCTCTTTTTT
1556137 TAATAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
9 8 0.32
10 7 0.28
11 10 0.40
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (11 bp):
TCTCTTTTTTC
Found at i:1558547 original size:19 final size:18
Alignment explanation
Indices: 1558513--1558548 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1558503 GCTTGGTTTT
*
1558513 TTATTTTTTGATTTTTAA
1 TTATTTTTTGAATTTTAA
1558531 TTATTTTTTAGAATTTTA
1 TTATTTTTT-GAATTTTA
1558549 TAAATTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TTATTTTTTGAATTTTAA
Found at i:1558587 original size:13 final size:14
Alignment explanation
Indices: 1558560--1558589 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1558550 AAATTTATGA
1558560 AATATTTATTATTT
1 AATATTTATTATTT
1558574 AATATTTA-TATTT
1 AATATTTATTATTT
1558587 AAT
1 AAT
1558590 TCAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
AATATTTATTATTT
Found at i:1560494 original size:19 final size:19
Alignment explanation
Indices: 1560450--1560505 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1560440 CTGCCAGTTT
**
1560450 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
*
1560470 CATGTATCGATATAATGAA
1 CATGTATCGATACAATGAA
1560489 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1560506 TATCGATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1560532 original size:33 final size:32
Alignment explanation
Indices: 1560471--1560535 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
1560461 ACAATTGTGC
*
1560471 ATGTATCGATATAATGAACATGTATCGATACA
1 ATGTATCGATATAAAGAACATGTATCGATACA
1560503 ATGTATCGATATAAAGCATA-ATGTATCGATACA
1 ATGTATCGATATAAAG-A-ACATGTATCGATACA
1560536 TCTGGATGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.50
33 14 0.47
34 1 0.03
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (32 bp):
ATGTATCGATATAAAGAACATGTATCGATACA
Found at i:1561269 original size:17 final size:18
Alignment explanation
Indices: 1561247--1561280 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1561237 TTTTATACAT
*
1561247 AAAGTCA-AAATACAAGG
1 AAAGTCACAAAGACAAGG
1561264 AAAGTCACAAAGACAAG
1 AAAGTCACAAAGACAAG
1561281 CAAAAACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.15, G:0.18, T:0.09
Consensus pattern (18 bp):
AAAGTCACAAAGACAAGG
Found at i:1562953 original size:13 final size:13
Alignment explanation
Indices: 1562935--1562973 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
1562925 TAGTAACCCA
*
1562935 TGTATCAATACAT
1 TGTATCGATACAT
*
1562948 TGTATCGATACAA
1 TGTATCGATACAT
1562961 TGTATCGATACAT
1 TGTATCGATACAT
1562974 CTGGGTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1569252 original size:19 final size:19
Alignment explanation
Indices: 1569208--1569263 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1569198 TTGCCAGTTT
**
1569208 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
*
1569228 CATGTATCGATATAATGAA
1 CATGTATCGATACAATGAA
1569247 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1569264 TATCGATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1572546 original size:155 final size:154
Alignment explanation
Indices: 1571900--1572810 Score: 648
Period size: 155 Copynumber: 5.9 Consensus size: 154
1571890 TTCTTGTAAC
* * * * * *
1571900 CCTATCCTAAAAACATACCTTTGGCATAAAAGCGACTAGGAGATTACCTAAGA-CTCAATTT-AA
1 CCTATCCTAAAAGCATACCTTTGGCATAAAAGTGAC-ACGTGATTACCTAGGACCT-AGTTTAAA
* * * * * **
1571963 GAAAAAATTACCAAAAT-GCCTGTAGAGTATACCTTT-AATGTGAAAGTATCTCAGTAACCCGAA
64 G-GAAAATTACCAAAATACCCTTTA-AGTATA-CTTTCAACGTGAAAGTATCTCGGTAACCTTAA
* * * *
1572026 AGGACACATAAATGATATAAAAGGATGAA
126 AAGACATAAAAATGATATAAAAAGATGAA
*** ** *
1572055 CCTATCCTAAAAGCATACCTTTGGCATAAAAGTGAGTTGGTGATTACCTAAAAGTCT-GTTTTAA
1 CCTATCCTAAAAGCATACCTTTGGCATAAAAGTGA-CACGTGATTACCTAGGA-CCTAG-TTTAA
* * * * *
1572119 A-GAAAAATACCAAAAT-GCCTTTAAGGTATA-TCTTCCATGTGAAAGTATCTTGGTAA-CTTAA
63 AGGAAAATTACCAAAATACCCTTTAA-GTATACT-TTCAACGTGAAAGTATCTCGGTAACCTTAA
* * * *
1572180 TAGACATGAAAATGATGTAAAAAAATGAA
126 AAGACATAAAAATGATATAAAAAGATGAA
* * * * * * * * * *
1572209 CCTATCCTAAAAGCATATCTATGGCATAAAAATGACCCTGTAATAACCTAGGACTTAGCTCAAGG
1 CCTATCCTAAAAGCATACCTTTGGCATAAAAGTGACAC-GTGATTACCTAGGACCTAGTTTAAAG
* * * * * ** * * * * * * *
1572274 GAAAATT-GCAAAATGCTTCTTT-GGTGTACCCTCGACATGAAAGCATTTGGGTAATCTTAAAGG
65 GAAAATTACCAAAATAC-CCTTTAAGTATACTTTCAACGTGAAAGTATCTCGGTAACCTTAAAAG
* * * *
1572337 ACACTGAGAATGATATAAGAGGATGAA
129 ACA-TAAAAATGATATAAAAAGATGAA
** * ** * *
1572364 TTTATCCTAAATGCATAATTTTGGCATAAGAGTGACACGATGATTACCTAGGACCTGGTTTAAAG
1 CCTATCCTAAAAGCATACCTTTGGCATAAAAGTGACACG-TGATTACCTAGGACCTAGTTTAAAG
* * * * * * *
1572429 GACAATTACTAAAATACCCTTTAAGTATATTTTCAATGTGAAAGTATCCCAGTAACCCTAAAAGA
65 GAAAATTACCAAAATACCCTTTAAGTATACTTTCAACGTGAAAGTATCTCGGTAACCTTAAAAGA
* *
1572494 CTTAAAAATGATATAAAATGATGAA
130 CATAAAAATGATATAAAAAGATGAA
*
1572519 CCTATCCTAAAAGCATACCTTTGGCATAAAAGTGAGCTA-GTGATTACCTAGGA-CTCGGTTCT-
1 CCTATCCTAAAAGCATACCTTTGGCATAAAAGTGA-C-ACGTGATTACCTAGGACCT-AGTT-TA
* * *
1572581 AAGG-AAATT-----AATACCC-TTAAGGTATACATTCGACGTGAAAATATCTCGGTAACCTTAA
62 AAGGAAAATTACCAAAATACCCTTTAA-GTATACTTTCAACGTGAAAGTATCTCGGTAACCTTAA
*
1572639 AAGACACAAAAATGATATAAAAAGATGAA
126 AAGACATAAAAATGATATAAAAAGATGAA
* * *
1572668 CCTATCCTAAAAGCATACCTTTGGCATAAAAGCGAC-CTGGTGATTGCCTAGGACTTAGTTCTAA
1 CCTATCCTAAAAGCATACCTTTGGCATAAAAGTGACAC--GTGATTACCTAGGACCTAGTT-TAA
* *
1572732 A-G-AAATTACCAAAATACCC-TTAAGATATACTTTTAACATGAAAGTATCTCGGTAACCTTAAA
63 AGGAAAATTACCAAAATACCCTTTAAG-TATACTTTCAACGTGAAAGTATCTCGGTAACCTTAAA
* *
1572794 AGACATGAAAATAATAT
127 AGACATAAAAATGATAT
1572811 GTAATAATTA
Statistics
Matches: 590, Mismatches: 131, Indels: 71
0.74 0.17 0.09
Matches are distributed among these distances:
148 5 0.01
149 120 0.20
150 3 0.01
153 33 0.06
154 149 0.25
155 236 0.40
156 39 0.07
157 5 0.01
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (154 bp):
CCTATCCTAAAAGCATACCTTTGGCATAAAAGTGACACGTGATTACCTAGGACCTAGTTTAAAGG
AAAATTACCAAAATACCCTTTAAGTATACTTTCAACGTGAAAGTATCTCGGTAACCTTAAAAGAC
ATAAAAATGATATAAAAAGATGAA
Found at i:1573303 original size:22 final size:23
Alignment explanation
Indices: 1573264--1573315 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
1573254 AATTAAAACA
*
1573264 CAAAATTAACCACCAAAT-AAAT
1 CAAAATTAACCACAAAATCAAAT
1573286 CAAAATTAA-CACTAAAATCAAAT
1 CAAAATTAACCAC-AAAATCAAAT
*
1573309 CATAATT
1 CAAAATT
1573316 CACAAACAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 3 0.12
22 13 0.50
23 10 0.38
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (23 bp):
CAAAATTAACCACAAAATCAAAT
Found at i:1574450 original size:18 final size:20
Alignment explanation
Indices: 1574418--1574454 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
1574408 AAAACAAAAT
1574418 AAAAAAATTTCAAAATTAAG
1 AAAAAAATTTCAAAATTAAG
1574438 AAAAAAA-TT-AAAATTAA
1 AAAAAAATTTCAAAATTAA
1574455 AATTAATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (20 bp):
AAAAAAATTTCAAAATTAAG
Found at i:1577693 original size:13 final size:13
Alignment explanation
Indices: 1577677--1577701 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1577667 ATCCTTCGAC
1577677 TGTATCGATACAT
1 TGTATCGATACAT
1577690 TGTATCGATACA
1 TGTATCGATACA
1577702 CGATTAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1582358 original size:16 final size:16
Alignment explanation
Indices: 1582337--1582368 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1582327 CATGAGCATG
1582337 ATGGGAGAATTGTCAT
1 ATGGGAGAATTGTCAT
1582353 ATGGGAGAATTGTCAT
1 ATGGGAGAATTGTCAT
1582369 TCCTTTTGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.31, T:0.31
Consensus pattern (16 bp):
ATGGGAGAATTGTCAT
Found at i:1583125 original size:21 final size:20
Alignment explanation
Indices: 1583101--1583143 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
1583091 GTTGTACTCG
*
1583101 AATTTGTAGATACTTTGCACC
1 AATTAGTAGATA-TTTGCACC
* *
1583122 AATTAGTTGATATTTTCACC
1 AATTAGTAGATATTTGCACC
1583142 AA
1 AA
1583144 CCTCTTGACC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.40
Consensus pattern (20 bp):
AATTAGTAGATATTTGCACC
Found at i:1583996 original size:19 final size:19
Alignment explanation
Indices: 1583972--1584074 Score: 101
Period size: 19 Copynumber: 5.6 Consensus size: 19
1583962 TAACGTACAT
1583972 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1583991 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
1584004 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
* ** *
1584023 TGTATCGATATATTTACTGTT
1 TGTATCGATACA-ACACT-TA
*
1584044 TGCATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1584063 TGTATCGATACA
1 TGTATCGATACA
1584075 TTTACTGTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
13 9 0.14
14 1 0.02
16 6 0.09
18 1 0.02
19 32 0.48
20 6 0.09
21 11 0.17
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1584008 original size:32 final size:32
Alignment explanation
Indices: 1583967--1584076 Score: 139
Period size: 32 Copynumber: 3.2 Consensus size: 32
1583957 CTTTGTAACG
1583967 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
1583999 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
1584031 TATATTTACTGTTTGCATCGATACAACACTTATGTATCGA
1 TACA--T--TG--T--ATCGATACAACACTTATGTATCGA
1584071 TACATT
1 TACATT
1584077 TACTGTTTGT
Statistics
Matches: 68, Mismatches: 2, Indels: 12
0.83 0.02 0.15
Matches are distributed among these distances:
32 35 0.51
34 1 0.01
36 3 0.04
38 2 0.03
40 27 0.40
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:1584009 original size:13 final size:13
Alignment explanation
Indices: 1583991--1584015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1583981 ACAACACTTA
1583991 TGTATCGATACAT
1 TGTATCGATACAT
1584004 TGTATCGATACA
1 TGTATCGATACA
1584016 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1584052 original size:21 final size:21
Alignment explanation
Indices: 1584023--1584095 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
1584013 ACAACACTTA
*
1584023 TGTATCGATATATTTACTGTT
1 TGTATCGATACATTTACTGTT
* ** *
1584044 TGCATCGATACA-ACACT-TA
1 TGTATCGATACATTTACTGTT
1584063 TGTATCGATACATTTACTGTT
1 TGTATCGATACATTTACTGTT
1584084 TGTATCGATACA
1 TGTATCGATACA
1584096 AATTGTTGAA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 12 0.29
20 6 0.15
21 23 0.56
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (21 bp):
TGTATCGATACATTTACTGTT
Done.