Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1873
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: 405709
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 3 of 4
Found at i:267859 original size:19 final size:19
Alignment explanation
Indices: 267835--267897 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
267825 AAACAGTAAA
*
267835 TGTATCAATACATAAGTGT
1 TGTATCGATACATAAGTGT
267854 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
267867 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
267886 TGTATCGATACA
1 TGTATCGATACA
267898 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
17 2 0.05
19 22 0.59
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:267872 original size:13 final size:13
Alignment explanation
Indices: 267854--267911 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
267844 ACATAAGTGT
267854 TGTATCGATACAA
1 TGTATCGATACAA
267867 TGTATCGATACATAA
1 TGTATCGATAC--AA
267882 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
267899 TGTATCGCTACAA
1 TGTATCGATACAA
267912 AGCTACTGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:267878 original size:32 final size:32
Alignment explanation
Indices: 267833--267910 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
267823 ACAAACAGTA
*
267833 AATGTATCAATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
267865 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
267897 AATGTATCGCTACA
1 AATGTATCGATACA
267911 AAGCTACTGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:275001 original size:13 final size:14
Alignment explanation
Indices: 274981--275017 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
274971 TCAAAAGTAG
*
274981 ACACAAAAACAAA-
1 ACACAAAAAAAAAC
274994 ACA-AAAAAAAAAC
1 ACACAAAAAAAAAC
275007 ACACAAAAAAA
1 ACACAAAAAAA
275018 GTGCAAAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 8 0.38
13 6 0.29
14 7 0.33
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (14 bp):
ACACAAAAAAAAAC
Found at i:276243 original size:30 final size:30
Alignment explanation
Indices: 276207--276737 Score: 436
Period size: 30 Copynumber: 17.2 Consensus size: 30
276197 TCTTAAAATC
276207 TCTTTTCTCAAAGTCCACGACTCAGTGGCA
1 TCTTTTCTCAAAGTCCACGACTCAGTGGCA
276237 TCTTTTCTTCAAAGTCCACGACTCAGTGGCA
1 TCTTTTC-TCAAAGTCCACGACTCAGTGGCA
* *
276268 TCTTTTTTCTTCAAAGTCCACAATTCAGTGGCA
1 TC--TTTTC-TCAAAGTCCACGACTCAGTGGCA
* *
276301 TCTTGTTC-CAAAGTCCACAATTCAGTGGCA
1 TCTT-TTCTCAAAGTCCACGACTCAGTGGCA
* *
276331 TC-TTGCTCCAAAGTCCACGACTCCGTGGCA
1 TCTTTTCT-CAAAGTCCACGACTCAGTGGCA
*
276361 TCTTTTCTTCAAAGTCCACGACTTAGTGGCA
1 TCTTTTC-TCAAAGTCCACGACTCAGTGGCA
* * *
276392 TCTCTTT-TCTAAGTCCATGACTCAGTAGCA
1 TCT-TTTCTCAAAGTCCACGACTCAGTGGCA
*
276422 TCTCTTC-CTAAAGTCCACGACTCAGTGGCA
1 TCTTTTCTC-AAAGTCCACGACTCAGTGGCA
* *
276452 TCTTGTCTTCAAAGTTCACGACTCAGTGGCAA
1 TCTTTTC-TCAAAGTCCACGACTCAGTGGC-A
* * * *
276484 TCTCTTT-TCAAAGTCTACAATTTC-GTAGCA
1 TCT-TTTCTCAAAGTCCACGA-CTCAGTGGCA
* * * *
276514 CCTTTT-T--AAGCCCACAACTCAGTTGCA
1 TCTTTTCTCAAAGTCCACGACTCAGTGGCA
* * *
276541 CTCTTTTTCTTCTTAAGTCCACGACTTAGTGCCA
1 -TC-TTTTC-TC-AAAGTCCACGACTCAGTGGCA
* *
276575 TCCTTTTCTTCCAAGTCCACGACTCAGTGGAA
1 T-CTTTTC-TCAAAGTCCACGACTCAGTGGCA
* * *
276607 TCTTTTTTCTTTAAAGTCCACGACTCAATGGCT
1 TC--TTTTC-TCAAAGTCCACGACTCAGTGGCA
* *
276640 TCTCTTT-TCTAAGTCCACGACTCACTGGCA
1 TCT-TTTCTCAAAGTCCACGACTCAGTGGCA
*
276670 TCCTTTTCTTCCAAGTCCACGACTCAGTGGCAA
1 T-CTTTTC-TCAAAGTCCACGACTCAGTGGC-A
* *
276703 TCTCTTC-CAAAGTCCACGACTCTGTGGCA
1 TCTTTTCTCAAAGTCCACGACTCAGTGGCA
*
276732 CCTTTT
1 TCTTTT
276738 TCTTTTTAAA
Statistics
Matches: 412, Mismatches: 57, Indels: 65
0.77 0.11 0.12
Matches are distributed among these distances:
26 2 0.00
27 13 0.03
28 3 0.01
29 17 0.04
30 142 0.34
31 91 0.22
32 60 0.15
33 68 0.17
34 16 0.04
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (30 bp):
TCTTTTCTCAAAGTCCACGACTCAGTGGCA
Found at i:276281 original size:33 final size:33
Alignment explanation
Indices: 276204--276909 Score: 394
Period size: 30 Copynumber: 22.2 Consensus size: 33
276194 AATTCTTAAA
*
276204 ATCTCTTTTC-TCAAAGTCCACGACTCAGTGGC
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC
276236 ATC--TTTTCTTCAAAGTCCACGACTCAGTGGC
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC
* *
276267 ATCTTTTTTCTTCAAAGTCCACAATTCAGTGGC
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC
* * *
276300 ATC-TTGTTC--CAAAGTCCACAATTCAGTGGC
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC
* * *
276330 ATC---TTGCTCCAAAGTCCACGACTCCGTGGC
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC
*
276360 ATC--TTTTCTTCAAAGTCCACGACTTAGTGGC
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC
* * *
276391 ATCTCTTTTC-T--AAGTCCATGACTCAGTAGC
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC
* *
276421 ATC--TCTTCCT-AAAGTCCACGACTCAGTGGC
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC
* *
276451 ATC--TTGTCTTCAAAGTTCACGACTCAGTGGC
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC
* * * * *
276482 AATC--TCTT-TTCAAAGTCTACAATTTC-GTAGC
1 -ATCTTTTTTCTTCAAAGTCCACGA-CTCAGTGGC
* * * *
276513 A-C--CTTT-TT--AAGCCCACAACTCAGTTGC
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC
* * *
276540 A-CTCTTTTTCTTCTTAAGTCCACGACTTAGTGCC
1 ATCT-TTTTTCTTC-AAAGTCCACGACTCAGTGGC
* * *
276574 ATC-CTTTTCTTCCAAGTCCACGACTCAGTGGA
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC
* *
276606 ATCTTTTTTCTTTAAAGTCCACGACTCAATGGC
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC
* * *
276639 TTCTCTTTTC-T--AAGTCCACGACTCACTGGC
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC
* *
276669 ATC-CTTTTCTTCCAAGTCCACGACTCAGTGGC
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC
* *
276701 AATC--TCTTC--CAAAGTCCACGACTCTGTGGC
1 -ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC
* * * * * *
276731 ACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGC
1 ATCTTTTT-TCTTCAAAGTCCACGACTCAGTGGC
* * * ** * *
276765 ATATGTTTCCTTTTAAGTCCACAACTCCGTGGC
1 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC
* * * * *
276798 ACCTTTTTTCTTTTTAAAGCCCACAACTCCGTGGC
1 ATCTTTTTTC--TTCAAAGTCCACGACTCAGTGGC
* ** **
276833 ACTCTTTTTCCTTTTAAGTCCATAACTCCA-TGGC
1 A-TCTTTTTTCTTCAAAGTCCACGACT-CAGTGGC
* * * * * *
276867 ACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGC
1 ATCTTTTT-TCTTCAAAGTCCACGACTCAGTGGC
276901 ACTCTTTTT
1 A-TCTTTTT
276910 CCTTTTAAGT
Statistics
Matches: 542, Mismatches: 93, Indels: 75
0.76 0.13 0.11
Matches are distributed among these distances:
26 2 0.00
27 14 0.03
28 6 0.01
29 14 0.03
30 137 0.25
31 89 0.16
32 59 0.11
33 111 0.20
34 73 0.13
35 30 0.06
36 7 0.01
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.35
Consensus pattern (33 bp):
ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC
Found at i:276394 original size:91 final size:90
Alignment explanation
Indices: 276207--276737 Score: 434
Period size: 91 Copynumber: 5.7 Consensus size: 90
276197 TCTTAAAATC
*
276207 TCTTTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTT
1 TCTTTTCTCAAAGTCCACGACTCAGTGGCATC--TTCTCCAAAGTCCACGACTCAGTGGCATC--
*
276272 TTTTCTTCAAAGTCCAC-AATTCAGTGGCA
62 TTTTCTTCAAAGTCCACGACTT-AGTGGCA
* * *
276301 TCTTGTTC-CAAAGTCCACAATTCAGTGGCATCTTGCTCCAAAGTCCACGACTCCGTGGCATCTT
1 TCTT-TTCTCAAAGTCCACGACTCAGTGGCATCTT-CTCCAAAGTCCACGACTCAGTGGCATCTT
276365 TTCTTCAAAGTCCACGACTTAGTGGCA
64 TTCTTCAAAGTCCACGACTTAGTGGCA
* * *
276392 TCTCTTT-TCTAAGTCCATGACTCAGTAGCATC-TCTTCCTAAAGTCCACGACTCAGTGGCATCT
1 TCT-TTTCTCAAAGTCCACGACTCAGTGGCATCTTC-TCC-AAAGTCCACGACTCAGTGGCATCT
* * *
276455 TGTCTTCAAAGTTCACGACTCAGTGGCAA
63 TTTCTTCAAAGTCCACGACTTAGTGGC-A
* * * * * ** * * *
276484 TCTCTTT-TCAAAGTCTACAATTTC-GTAGCACCTT-T-TTAAGCCCACAACTCAGTTGCACTCT
1 TCT-TTTCTCAAAGTCCACGA-CTCAGTGGCATCTTCTCCAAAGTCCACGACTCAGTGGCA-TC-
* *
276545 TTTTCTTCTTAAGTCCACGACTTAGTGCCA
62 TTTTCTTC-AAAGTCCACGACTTAGTGGCA
* * ** * *
276575 TCCTTTTCTTCCAAGTCCACGACTCAGTGGAATCTTTTTTCTTTAAAGTCCACGACTCAATGGCT
1 T-CTTTTC-TCAAAGTCCACGACTCAGTGGCATC----TTCTCCAAAGTCCACGACTCAGTGGCA
* * * *
276640 TCTCTT-TTCTAAGTCCACGACTCACTGGCA
60 TCTTTTCTTCAAAGTCCACGACTTAGTGGCA
* * *
276670 TCCTTTTCTTCCAAGTCCACGACTCAGTGGCAATC-TCTTCCAAAGTCCACGACTCTGTGGCACC
1 T-CTTTTC-TCAAAGTCCACGACTCAGTGGC-ATCTTC-TCCAAAGTCCACGACTCAGTGGCATC
276734 TTTT
62 TTTT
276738 TCTTTTTAAA
Statistics
Matches: 357, Mismatches: 55, Indels: 52
0.77 0.12 0.11
Matches are distributed among these distances:
89 18 0.05
90 6 0.02
91 110 0.31
92 73 0.20
93 43 0.12
94 26 0.07
95 51 0.14
96 6 0.02
97 5 0.01
98 3 0.01
99 16 0.04
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (90 bp):
TCTTTTCTCAAAGTCCACGACTCAGTGGCATCTTCTCCAAAGTCCACGACTCAGTGGCATCTTTT
CTTCAAAGTCCACGACTTAGTGGCA
Found at i:276709 original size:124 final size:123
Alignment explanation
Indices: 276207--276804 Score: 508
Period size: 124 Copynumber: 4.8 Consensus size: 123
276197 TCTTAAAATC
276207 TCTT-TTCTCAAAGTCCACGACTCAGTGGCATC-TTTTCTTCAAAGTCCACGACTCAGTGGCATC
1 TCTTCTTC-CAAAGTCCACGACTCAGTGGCATCTTTTTCTTCAAAGTCCACGACTCAGTGGCATC
* * * *
276270 TTTTTTCTTCAAAGTCCACAATTCAGTGGCATCTTGTTC--CAAAGTCCACAATTCAGTGGCA
65 TCTTTTC-T--AAGTCCACAACTCAGTGGCATCTT-TTCTTCAAAGTCCACGACTCAGTGGCA
* *
276331 TCTTGC-TCCAAAGTCCACGACTCCGTGGCATC-TTTTCTTCAAAGTCCACGACTTAGTGGCATC
1 TCTT-CTTCCAAAGTCCACGACTCAGTGGCATCTTTTTCTTCAAAGTCCACGACTCAGTGGCATC
** * * *
276394 TCTTTTCTAAGTCCATGACTCAGTAGCATCTCTTCCT-AAAGTCCACGACTCAGTGGCA
65 TCTTTTCTAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCA
* * * * * *
276452 TCTTGTCTT-CAAAGTTCACGACTCAGTGGCAATC-TCTT-TTCAAAGTCTACAATTTC-GTAGC
1 TC-T-TCTTCCAAAGTCCACGACTCAGTGGC-ATCTTTTTCTTCAAAGTCCACGA-CTCAGTGGC
* * * * *
276513 A-C-CTTTT-TAAGCCCACAACTCAGTTGCACTCTTTTTCTTCTTAAGTCCACGACTTAGTGCCA
62 ATCTCTTTTCTAAGTCCACAACTCAGTGGCA-TC-TTTTCTTC-AAAGTCCACGACTCAGTGGCA
* * *
276575 TCCTTTTCTTCC-AAGTCCACGACTCAGTGGAATCTTTTTTCTTTAAAGTCCACGACTCAATGGC
1 T-C--TTCTTCCAAAGTCCACGACTCAGTGGCATC-TTTTTCTTCAAAGTCCACGACTCAGTGGC
* * * *
276639 TTCTCTTTTCTAAGTCCACGACTCACTGGCATCCTTTTCTTCCAAGTCCACGACTCAGTGGCAA
62 ATCTCTTTTCTAAGTCCACAACTCAGTGGCAT-CTTTTCTTCAAAGTCCACGACTCAGTGGC-A
* * * * * *
276703 TC-TCTTCCAAAGTCCACGACTCTGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAT
1 TCTTCTTCCAAAGTCCACGACTCAGTGGCATCTTTTTC--TTCAAAGTCCACGACTCAGTGGCAT
* * * * *
276767 ATGTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
64 CT-CTT--TTCTAAGTCCACAACTCAGTGGCATCTTTT
276805 TTCTTTTTAA
Statistics
Matches: 384, Mismatches: 59, Indels: 58
0.77 0.12 0.12
Matches are distributed among these distances:
119 17 0.04
120 10 0.03
121 46 0.12
122 38 0.10
123 32 0.08
124 97 0.25
125 29 0.08
126 35 0.09
127 21 0.05
128 21 0.05
129 38 0.10
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (123 bp):
TCTTCTTCCAAAGTCCACGACTCAGTGGCATCTTTTTCTTCAAAGTCCACGACTCAGTGGCATCT
CTTTTCTAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCA
Found at i:276779 original size:34 final size:34
Alignment explanation
Indices: 276716--277367 Score: 451
Period size: 34 Copynumber: 20.5 Consensus size: 34
276706 CTTCCAAAGT
* * *
276716 CCACGACTCTGTGGCAC-CTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTT-AAGC
* * *
276750 CCACAACTCCGTGGCA-TATGTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
276783 CCACAACTCCGTGGCAC-CTTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTC-TTTTTCCTTTT-AAGC
*
276818 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
276852 CCATAACTCCATGGCAC-CTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTT-AAGC
*
276886 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* **
276920 CCATAACTCCGTGGCA--C-----CCTTTTAATT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
276947 CCACAACTCTGTGGCA--C-----CCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
276974 CCACAACTCCGTGGCACT-TTTTTCCTTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCC-TTTTAAGC
* * *
277008 CCACAACTTCGTGGC-CCCTTGTTT-CTTTTAAGT
1 CCACAACTCCGTGGCACTCTT-TTTCCTTTTAAGC
** * *
277041 CCACAACTCTATGGCA-TC-TTTTCTTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
277073 CCATAACTCCGTGGCA--C-----CCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
277100 CCATAACTCCGTGGCA--C-----CCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
277127 CCACAACTCCGTGGCA--C-----CCTTTGAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
277154 CTACAACTCCATGGCA-TCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
277187 CCACAACTCCATGGCA--C-----CCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
277214 CCACAACTTCGTGGCA-TCTTTTTCCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTT-CCTTTTAAGC
*
277248 CCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTT-AAGC
* *
277282 CCATAACTCCGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
277316 CCATAACTCCGTGGCAC-CTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTT-AAGC
*
277350 CCATAACTCCGTGGCACT
1 CCACAACTCCGTGGCACT
277368 TGTAGACACC
Statistics
Matches: 526, Mismatches: 55, Indels: 73
0.80 0.08 0.11
Matches are distributed among these distances:
27 147 0.28
28 2 0.00
31 4 0.01
32 24 0.05
33 93 0.18
34 200 0.38
35 55 0.10
36 1 0.00
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.36
Consensus pattern (34 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
Found at i:276940 original size:27 final size:27
Alignment explanation
Indices: 276910--277270 Score: 290
Period size: 27 Copynumber: 12.2 Consensus size: 27
276900 CACTCTTTTT
*
276910 CCTTTTAAGTCCATAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
276937 CCTTTTAATTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
276964 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
276991 TTTTTTCCTTTTTAAGCCCACAACTTCGTGGCCC
1 ------CC-TTTTAAGTCCACAACTCCGTGGCAC
**
277025 CTTGTTTCTTTTAAGTCCACAACTCTATGGCATC
1 C------CTTTTAAGTCCACAACTCCGTGGCA-C
* *
277059 TTTTCTTTTTAAGTCCATAACTCCGTGGCAC
1 ----CCTTTTAAGTCCACAACTCCGTGGCAC
*
277090 CCTTTTAAGTCCATAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
277117 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
277144 CCTTTGAAGTCTACAACTCCATGGCATC
1 CCTTTTAAGTCCACAACTCCGTGGCA-C
*
277172 TTTTTCCTTTTAAGTCCACAACTCCATGGCAC
1 -----CCTTTTAAGTCCACAACTCCGTGGCAC
*
277204 CCTTTTAAGTCCACAACTTCGTGGCATCTTTTTC
1 CCTTTTAAGTCCACAACTCCGTGGCA-------C
277238 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
277265 CTTTTT
1 CCTTTT
277271 CTTTTTAAAG
Statistics
Matches: 275, Mismatches: 28, Indels: 62
0.75 0.08 0.17
Matches are distributed among these distances:
27 154 0.56
28 2 0.01
31 1 0.00
32 22 0.08
33 45 0.16
34 50 0.18
38 1 0.00
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:277091 original size:153 final size:156
Alignment explanation
Indices: 276773--277367 Score: 582
Period size: 153 Copynumber: 3.8 Consensus size: 156
276763 GCATATGTTT
*
276773 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCT
1 CCTTTTAAGTCCACAACTCCGTGGCACC------C-TTTT-AAGTCCACAACTCCGTGGCACTCT
* * *
276838 TTTTCCTTTTAAGTCCATAACTCCATGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC
58 TTTTCCTTTTAAGCCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCACAACTCCATGGCAC
276903 TCTTTTTCCTTTTAAGTCCATAACTCCGTGGCAC
123 TCTTTTTCCTTTTAAGTCCATAACTCCGTGGCAC
* *
276937 CCTTTTAATTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACT-TTTTTCCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCC-T
* * * * *
277001 TTTAAGCCCACAACTTCGTGGCCCCTTGTTTC-TTTT-AAGTCCACAACTCTATGGCA-TC-TTT
65 TTTAAGCCCACAACTCCATGGCACCTT-TTTCTTTTTAAAGCCCACAACTCCATGGCACTCTTTT
*
277062 TCTTTTTAAGTCCATAACTCCGTGGCAC
129 TCCTTTTAAGTCCATAACTCCGTGGCAC
*
277090 CCTTTTAAGTCCATAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA--C-----CCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTT
* * * * * *
277148 TGAAGTCTACAACTCCATGGCATCTTTTTCCTTTT-AAGTCCACAACTCCATGGCA--C-----C
66 TTAAGCCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCACAACTCCATGGCACTCTTTTTC
* *
277205 CTTTTAAGTCCACAACTTCGTGGCATCTTTTTC
131 CTTTTAAGTCCATAACTCCGTGGCA-------C
* *
277238 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCATAACTCCGTGGCACTCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACC-----C-TTTT-AAGTCCACAACTCCGTGGCACTCTT
* * * * *
277303 TTTCCTTTTAAGTCCATAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCATAACTCCGTGGCACT
59 TTTCCTTTTAAGCCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCACAACTCCATGGCACT
277368 TGTAGACACC
Statistics
Matches: 365, Mismatches: 38, Indels: 55
0.80 0.08 0.12
Matches are distributed among these distances:
141 23 0.06
145 5 0.01
146 44 0.12
147 2 0.01
148 28 0.08
153 81 0.22
154 6 0.02
155 42 0.12
156 48 0.13
157 9 0.02
158 1 0.00
162 33 0.09
163 17 0.05
164 26 0.07
ACGTcount: A:0.20, C:0.31, G:0.12, T:0.36
Consensus pattern (156 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTT
TTAAGCCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCACAACTCCATGGCACTCTTTTTC
CTTTTAAGTCCATAACTCCGTGGCAC
Found at i:277268 original size:87 final size:87
Alignment explanation
Indices: 276909--277269 Score: 259
Period size: 87 Copynumber: 4.1 Consensus size: 87
276899 GCACTCTTTT
* * *
276909 TCCTTTTAAGTCCATAACTCCGTGGCACCCTTTTAATTCCACAAC-TCTGTGGCA------CCCT
1 TCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAACTTC-GTGGCATCTTTTCCCT
276967 TTTAAGTCCACAACTCCGTGGCA
65 TTTAAGTCCACAACTCCGTGGCA
* * * * *
276990 CTTTTTTCCTTTTTAAGCCCACAACTTCGTGGCCCCTTGTTTCTTTTAAGTCCACAAC-TCTATG
1 ------TCC-TTTTAAGTCCACAACTCCATGGCACC------CTTTTAAGTCCACAACTTC-GTG
* *
277054 GCATCTTTT-CTTTTTAAGTCCATAACTCCGTGGCA
52 GCATCTTTTCCCTTTTAAGTCCACAACTCCGTGGCA
* * * *
277089 CCCTTTTAAGTCCATAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA------CCCTT
1 TCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAACTTCGTGGCATCTTTTCCCTT
* * *
277148 TGAAGTCTACAACTCCATGGCA
66 TTAAGTCCACAACTCCGTGGCA
277170 TCTTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAACTTCGTGGCATCTTT
1 ------TCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAACTTCGTGGCATC-TT
277235 TTCCCTTTTAAGTCCACAACTCCGTGGCA
59 TTCCCTTTTAAGTCCACAACTCCGTGGCA
277264 -CCTTTT
1 TCCTTTT
277270 TCTTTTTAAA
Statistics
Matches: 219, Mismatches: 27, Indels: 56
0.73 0.09 0.19
Matches are distributed among these distances:
81 21 0.10
86 21 0.10
87 60 0.27
88 22 0.10
92 22 0.10
93 2 0.01
94 47 0.21
99 24 0.11
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (87 bp):
TCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAACTTCGTGGCATCTTTTCCCTT
TTAAGTCCACAACTCCGTGGCA
Found at i:277824 original size:20 final size:20
Alignment explanation
Indices: 277795--277884 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
277785 TTTACCCAAA
277795 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTTGCAT
*
277815 TGTATTGATACA--TTGCCTAT
1 TGTATCGATACATTTTG-C-AT
*
277835 TGTATCGATACATTGCT-CAT
1 TGTATCGATACATT-TTGCAT
* *
277855 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTTGCAT
277875 TGTATCGATA
1 TGTATCGATA
277885 AATTAAGGCA
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
18 3 0.05
19 2 0.03
20 52 0.88
21 1 0.02
23 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTTTGCAT
Found at i:277879 original size:40 final size:40
Alignment explanation
Indices: 277793--277884 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
277783 AGTTTACCCA
* * *
277793 AATGTATCGATACATTTTGCATTGTATTGATACATTGCCT
1 AATGTATCGATACATTCTGCATTGTATCGATACATTGACT
* *
277833 ATTGTATCGATACATTGCT-CATTGTATCGATACATTTTAC-
1 AATGTATCGATACATT-CTGCATTGTATCGATACA-TTGACT
277873 AATGTATCGATA
1 AATGTATCGATA
277885 AATTAAGGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
40 40 0.91
41 4 0.09
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.41
Consensus pattern (40 bp):
AATGTATCGATACATTCTGCATTGTATCGATACATTGACT
Found at i:280327 original size:51 final size:51
Alignment explanation
Indices: 280264--280432 Score: 234
Period size: 50 Copynumber: 3.4 Consensus size: 51
280254 TTATTTTCGA
*
280264 GGGGATACTCCAACCCTGGTTTTATTTCTAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCTGATTTTATTTCTAAAATACCAATTTTTCACAATC
* * *
280315 GGGGATACTCCAACTCTGATTTTATTTCTAAAATATCAATTTTTCAC-ATA
1 GGGGATACTCCAACCCTGATTTTATTTCTAAAATACCAATTTTTCACAATC
* * * *
280365 GGGGATACTCCAACCCCGATTTCATTTTTAAAATACCAATTTTT-ATAATC
1 GGGGATACTCCAACCCTGATTTTATTTCTAAAATACCAATTTTTCACAATC
* *
280415 AGGGATACTCTAACCCTG
1 GGGGATACTCCAACCCTG
280433 TTATTTCCGA
Statistics
Matches: 103, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
49 1 0.01
50 58 0.56
51 44 0.43
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.36
Consensus pattern (51 bp):
GGGGATACTCCAACCCTGATTTTATTTCTAAAATACCAATTTTTCACAATC
Found at i:281569 original size:27 final size:27
Alignment explanation
Indices: 281492--281571 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
281482 CACTATTTTT
* *
281492 CCTTTTAAATCCACAACTCCGTGACAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
281519 CTTTTTAAGTCTACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
281546 CCTTTTAAGTCCACAACTCTGTGGCA
1 CCTTTTAAGTCCACAACTCCGTGGCA
281572 TCTTTCTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.30
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:281661 original size:29 final size:30
Alignment explanation
Indices: 281585--281721 Score: 147
Period size: 29 Copynumber: 4.6 Consensus size: 30
281575 TTCTCCTTTT
** *
281585 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTTGGTGGCACCCCTTTCAA
*
281615 AAGCCCACAAGTCGGTGGCACCCCTTTC-A
1 AAGCCCACAAGTTGGTGGCACCCCTTTCAA
* *
281644 AAGCCCACAAGTTAGTGGCA-ACC-TTCAA
1 AAGCCCACAAGTTGGTGGCACCCCTTTCAA
* * *
281672 AAGCACATAAGTTGGT-GCAACCCTTTCAA
1 AAGCCCACAAGTTGGTGGCACCCCTTTCAA
281701 AAGCCTACACAAGTTGGTGGC
1 AAGCC--CACAAGTTGGTGGC
281722 GTCTTCTTCT
Statistics
Matches: 90, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
27 6 0.07
28 18 0.20
29 28 0.31
30 26 0.29
31 10 0.11
32 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.20
Consensus pattern (30 bp):
AAGCCCACAAGTTGGTGGCACCCCTTTCAA
Found at i:281661 original size:59 final size:57
Alignment explanation
Indices: 281585--281721 Score: 159
Period size: 59 Copynumber: 2.3 Consensus size: 57
281575 TTCTCCTTTT
* * * *
281585 AAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTCGGTGGCACCCCTTTC-A
1 AAGCCCACAAGTTAGTGGCAACC--TTCAAAAGCACACAAGTCGGT-GCAACCCTTTCAA
* *
281644 AAGCCCACAAGTTAGTGGCAACCTTCAAAAGCACATAAGTTGGTGCAACCCTTTCAA
1 AAGCCCACAAGTTAGTGGCAACCTTCAAAAGCACACAAGTCGGTGCAACCCTTTCAA
*
281701 AAGCCTACACAAGTTGGTGGC
1 AAGCC--CACAAGTTAGTGGC
281722 GTCTTCTTCT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
56 10 0.15
57 24 0.35
59 34 0.50
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.20
Consensus pattern (57 bp):
AAGCCCACAAGTTAGTGGCAACCTTCAAAAGCACACAAGTCGGTGCAACCCTTTCAA
Found at i:281807 original size:48 final size:48
Alignment explanation
Indices: 281744--282078 Score: 314
Period size: 48 Copynumber: 7.5 Consensus size: 48
281734 GTCCAATATT
281744 GCTGGCCTTGAATCAGCATATTGGCACCTTGTCTATAAGACCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTGTCTATAAGACCAATGTC
* * *
281792 GCTGGCCTTGAATCAG--TA----CA--TTGGC-ATAAGCCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTGTCTATAAGACCAATGTC
*
281831 GCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTGTCTATAAGACCAATGTC
* * *
281879 GCTGGCCTTGAATCAGC--A----CA--TTGGC-ATAAGCCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTGTCTATAAGACCAATGTC
* *
281918 GCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTGTCTATAAGACCAATGTC
* * *
281966 GCTGGCCTTGAATCAGC--A----CA--TTGGC-ATAAGCCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTGTCTATAAGACCAATGTC
282005 G-TCGGCCTTGAATCAGCATATTGGCACCTTGTCT-TCAAGACCAATGTC
1 GCT-GGCCTTGAATCAGCATATTGGCACCTTGTCTAT-AAGACCAATGTC
* * *
282053 GTTGCCCTTGAATCAGCACATTGGCA
1 GCTGGCCTTGAATCAGCATATTGGCA
282079 TAAGCCTAAT
Statistics
Matches: 231, Mismatches: 26, Indels: 60
0.73 0.08 0.19
Matches are distributed among these distances:
38 1 0.00
39 82 0.35
40 11 0.05
41 4 0.02
42 6 0.03
45 6 0.03
46 4 0.02
47 12 0.05
48 104 0.45
49 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (48 bp):
GCTGGCCTTGAATCAGCATATTGGCACCTTGTCTATAAGACCAATGTC
Found at i:281882 original size:87 final size:87
Alignment explanation
Indices: 281731--282427 Score: 1101
Period size: 87 Copynumber: 8.0 Consensus size: 87
281721 CGTCTTCTTC
* * * *
281731 TAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTATAAGACCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
*
281796 GCCTTGAATCAGTACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
*
281818 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
281883 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
281905 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
281970 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* * *
281992 TAAGCCCAATATCG-TCGGCCTTGAATCAGCATATTGGCACCTTGTCTTCAAGACCAATGTCGTT
1 TAAGCCCAATATCGCT-GGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCT
*
282056 GCCCTTGAATCAGCACATTGGCA
65 GGCCTTGAATCAGCACATTGGCA
* * * *
282079 TAAGCCTAATATC-ATAGACCTTGAATCAACATATTGGCACCTTATCTTTAAGACCAATGTCGCT
1 TAAGCCCAATATCGCT-GGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCT
*
282143 GGCCTTGAATCAGCACGTTGGCA
65 GGCCTTGAATCAGCACATTGGCA
* * *
282166 TAAGCCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
*
282231 GCCTTGAATCAACACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* * * *
282253 CAAGCCTAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATATTTAAGACCAATGTCGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACCAATGTCGCT
*
282318 AGCCTTGAATCAGCACATTGGCA
65 GGCCTTGAATCAGCACATTGGCA
* * *
282341 CAAGCCCAACATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACCAATGTCGCT
282406 GGCCTTGAATCAGCACATTGGC
65 GGCCTTGAATCAGCACATTGGC
282428 TCCTTAACCA
Statistics
Matches: 564, Mismatches: 42, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
86 1 0.00
87 442 0.78
88 121 0.21
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (87 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTGGCA
Found at i:282463 original size:52 final size:50
Alignment explanation
Indices: 282356--282688 Score: 293
Period size: 52 Copynumber: 6.6 Consensus size: 50
282346 CCAACATCGC
* *
282356 TGGCCTTGAATCAGCATATTGGCA-CCTTCATCTTTAAGACCAATGTCGT
1 TGGCCTTGAATCAGCACATTGGCATCCTTCATCTTTAAGTCCAATGTCGT
*
282405 TGGCCTTGAATCAGCACATTGGC-TCCTTAACCATCTTTAAGTCCAATGTCGC
1 TGGCCTTGAATCAGCACATTGGCATCCTT---CATCTTTAAGTCCAATGTCGT
** * * * *
282457 CAGCCTTGAATCAGCATATTAGCAT-CTTCATC-TTAAGTCCGATATCGT
1 TGGCCTTGAATCAGCACATTGGCATCCTTCATCTTTAAGTCCAATGTCGT
* * * *
282505 TGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTTAA-CCCAATGTCGT
1 TGGCCTTGAATCAGCACATTGGCATCCTT--CA-TCTTTAAGTCCAATGTCGT
* * * *
282557 TGGACTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGT
1 TGGCCTTGAATCAGCACATTGGCA-TCCT-TCATCTTTAAGTCCAATGTCGT
* * * * * **
282609 TGACCTTGAATCAGCACATTGACATTCTTTACATCTTTAAGCCCAATATCAC
1 TGGCCTTGAATCAGCACATTGGCA-TCCTT-CATCTTTAAGTCCAATGTCGT
*
282661 TGGTCC-TGAATCAGCATATTGGCA-CCTT
1 TGG-CCTTGAATCAGCACATTGGCATCCTT
282689 TATCACTCTT
Statistics
Matches: 233, Mismatches: 36, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
48 35 0.15
49 32 0.14
50 3 0.01
51 8 0.03
52 143 0.61
53 11 0.05
54 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (50 bp):
TGGCCTTGAATCAGCACATTGGCATCCTTCATCTTTAAGTCCAATGTCGT
Found at i:282551 original size:100 final size:100
Alignment explanation
Indices: 282358--282684 Score: 356
Period size: 100 Copynumber: 3.2 Consensus size: 100
282348 AACATCGCTG
* *
282358 GCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACA
1 GCCTTGAATCAGCATATTGGCATCTTCATC-TTAAGTCCAATGTCGTTGGCCTTGAATCAGCACA
* *
282423 TTGGC-TCCTTAACCATCTTTAAGTCCAATGTCGCCA
65 TTGGCATCTTTAA-CATCTTTAAGCCCAATGTCGCCA
* * * *
282459 GCCTTGAATCAGCATATTAGCATCTTCATCTTAAGTCCGATATCGTTGGCCTTGAATCAGCATAT
1 GCCTTGAATCAGCATATTGGCATCTTCATCTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACAT
* ***
282524 TGGCATCTTTAACATTCCTTAA-CCCAATGTCGTTG
66 TGGCATCTTTAACA-TCTTTAAGCCCAATGTCGCCA
* * * *
282559 GACTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGTTGACCTTGAATCAGC
1 GCCTTGAATCAGCATATTGGCA-TC-T-TCATCTT-AAGTCCAATGTCGTTGGCCTTGAATCAGC
* * * **
282624 ACATTGACATTCTTT-ACATCTTTAAGCCCAATATCACTG
62 ACATTGGCA-TCTTTAACATCTTTAAGCCCAATGTCGCCA
282663 GTCC-TGAATCAGCATATTGGCA
1 G-CCTTGAATCAGCATATTGGCA
282685 CCTTTATCAC
Statistics
Matches: 190, Mismatches: 27, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
100 65 0.34
101 42 0.22
102 1 0.01
103 13 0.07
104 63 0.33
105 6 0.03
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (100 bp):
GCCTTGAATCAGCATATTGGCATCTTCATCTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACAT
TGGCATCTTTAACATCTTTAAGCCCAATGTCGCCA
Found at i:283168 original size:32 final size:32
Alignment explanation
Indices: 283131--283437 Score: 196
Period size: 28 Copynumber: 10.3 Consensus size: 32
283121 TGGGGACGAT
*
283131 ATGGGTTACCACCGACTTGTGTGGGCTTTGAA
1 ATGGGTTGCCACCGACTTGTGTGGGCTTTGAA
283163 ATGGGTTGCCACCGACTTGTGTGGGCTTTGAA
1 ATGGGTTGCCACCGACTTGTGTGGGCTTTGAA
* * **
283195 CT--GATGCCACTAAC-T-TGTGGGCTTTGAA
1 ATGGGTTGCCACCGACTTGTGTGGGCTTTGAA
* **
283223 ATGGGTTGCCACCAACTTGTGTGGGCTTTCCA
1 ATGGGTTGCCACCGACTTGTGTGGGCTTTGAA
* * **
283255 ATGAGTTACTGCCGACTTGTGTGGGCTTTGAA
1 ATGGGTTGCCACCGACTTGTGTGGGCTTTGAA
** * *
283287 A--GAATGCCACTGAC-T-TGTGGG-TTTAAA
1 ATGGGTTGCCACCGACTTGTGTGGGCTTTGAA
* * * *
283314 AAGTGG-TGCCACTGAC-T-TGTGGACTTTGGA
1 ATG-GGTTGCCACCGACTTGTGTGGGCTTTGAA
283344 A-GGG-TGCCACCGAC-T-TGTGGGCTTTGAA
1 ATGGGTTGCCACCGACTTGTGTGGGCTTTGAA
* * *
283372 A-AGGATGCCACCGAC-T-TGTGGACTTTGAA
1 ATGGGTTGCCACCGACTTGTGTGGGCTTTGAA
* * *
283401 A--AGATGCCACTGAC-T-TGTGGGCTTTGAA
1 ATGGGTTGCCACCGACTTGTGTGGGCTTTGAA
283429 A-GGG-TGCCA
1 ATGGGTTGCCA
283438 TATTTGTGGA
Statistics
Matches: 227, Mismatches: 38, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
27 6 0.03
28 76 0.33
29 44 0.19
30 31 0.14
31 1 0.00
32 69 0.30
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (32 bp):
ATGGGTTGCCACCGACTTGTGTGGGCTTTGAA
Found at i:283211 original size:30 final size:31
Alignment explanation
Indices: 283134--283287 Score: 152
Period size: 32 Copynumber: 5.0 Consensus size: 31
283124 GGACGATATG
* *
283134 GGTTACCACCGACTTGTGTGGGCTTTGAAAT
1 GGTTGCCACCAACTTGTGTGGGCTTTGAAAT
* *
283165 GGGTTGCCACCGACTTGTGTGGGCTTTGAACT
1 -GGTTGCCACCAACTTGTGTGGGCTTTGAAAT
* *
283197 -GATGCCACTAAC-T-TGTGGGCTTTGAAAT
1 GGTTGCCACCAACTTGTGTGGGCTTTGAAAT
**
283225 GGGTTGCCACCAACTTGTGTGGGCTTTCCAAT
1 -GGTTGCCACCAACTTGTGTGGGCTTTGAAAT
* ** *
283257 GAGTTACTGCCGACTTGTGTGGGCTTTGAAA
1 G-GTTGCCACCAACTTGTGTGGGCTTTGAAA
283288 GAATGCCACT
Statistics
Matches: 101, Mismatches: 16, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
28 14 0.14
29 1 0.01
30 19 0.19
31 2 0.02
32 65 0.64
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.32
Consensus pattern (31 bp):
GGTTGCCACCAACTTGTGTGGGCTTTGAAAT
Found at i:283294 original size:92 final size:92
Alignment explanation
Indices: 283131--283307 Score: 248
Period size: 92 Copynumber: 1.9 Consensus size: 92
283121 TGGGGACGAT
* * * *
283131 ATGGGTTACCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAC
1 ATGGGTTACCACCAACTTGTGTGGGCTTTCAAATGAGTTACCACCGACTTGTGTGGGCTTTGAAC
*
283196 TGATGCCACTAACTTGTGGGCTTTGAA
66 AGATGCCACTAACTTGTGGGCTTTGAA
* * **
283223 ATGGGTTGCCACCAACTTGTGTGGGCTTTCCAATGAGTTACTGCCGACTTGTGTGGGCTTTGAA-
1 ATGGGTTACCACCAACTTGTGTGGGCTTTCAAATGAGTTACCACCGACTTGTGTGGGCTTTGAAC
*
283287 AGAATGCCACTGACTTGTGGG
66 AG-ATGCCACTAACTTGTGGG
283308 TTTAAAAAGT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
91 1 0.01
92 73 0.99
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.31
Consensus pattern (92 bp):
ATGGGTTACCACCAACTTGTGTGGGCTTTCAAATGAGTTACCACCGACTTGTGTGGGCTTTGAAC
AGATGCCACTAACTTGTGGGCTTTGAA
Found at i:283352 original size:57 final size:56
Alignment explanation
Indices: 283274--283536 Score: 250
Period size: 57 Copynumber: 4.7 Consensus size: 56
283264 TGCCGACTTG
*
283274 TGTGGGCTTTG-AAAGAATGCCACTGACTTGTGGG-TTTAAAAAGTGGTGCCACTGACT
1 TGTGGACTTTGAAAAG-ATGCCACTGACTTGTGGGCTTT-AAAAG-GGTGCCACTGACT
* * * * * *
283331 TGTGGACTTTGGAAGGGTGCCACCGACTTGTGGGCTTTGAAAAGGATGCCACCGACT
1 TGTGGACTTTGAAAAGATGCCACTGACTTGTGGGCTTT-AAAAGGGTGCCACTGACT
* *
283388 TGTGGACTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCA-T-ATT
1 TGTGGACTTTGAAAAGATGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACT
* ** * * * *
283442 TGTGGACTTT-AAAAGGATGCCACGGGGTTGT-GACTTTAAAAGGATGCCACAGAGT
1 TGTGGACTTTGAAAA-GATGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACT
* * *
283497 TGTGGACTTTAAAAAGAAATGCCACTGAATTGTGGACTTT
1 TGTGGACTTTGAAAAG--ATGCCACTGACTTGTGGGCTTT
283537 GAAGAGGTCA
Statistics
Matches: 171, Mismatches: 26, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
53 19 0.11
54 25 0.15
55 13 0.08
56 14 0.08
57 83 0.49
58 17 0.10
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.29
Consensus pattern (56 bp):
TGTGGACTTTGAAAAGATGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTGACT
Found at i:283429 original size:28 final size:28
Alignment explanation
Indices: 283274--283539 Score: 222
Period size: 28 Copynumber: 9.5 Consensus size: 28
283264 TGCCGACTTG
*
283274 TGTGGGCTTTG-AAAGAATGCCACTGACT
1 TGTGGACTTTGAAAAG-ATGCCACTGACT
* * *
283302 TGTGG-GTTTAAAAAGTGGTGCCACTGACT
1 TGTGGACTTTGAAAA--GATGCCACTGACT
* * * *
283331 TGTGGACTTTGGAAGGGTGCCACCGACT
1 TGTGGACTTTGAAAAGATGCCACTGACT
* *
283359 TGTGGGCTTTGAAAAGGATGCCACCGACT
1 TGTGGACTTTGAAAA-GATGCCACTGACT
283388 TGTGGACTTTGAAAAGATGCCACTGACT
1 TGTGGACTTTGAAAAGATGCCACTGACT
* * * *
283416 TGTGGGCTTTGAAAGGGTGCCA-T-ATT
1 TGTGGACTTTGAAAAGATGCCACTGACT
* **
283442 TGTGGACTTT-AAAAGGATGCCACGGGGT
1 TGTGGACTTTGAAAA-GATGCCACTGACT
* *
283470 TGT-GACTTT-AAAAGGATGCCACAGAGT
1 TGTGGACTTTGAAAA-GATGCCACTGACT
* *
283497 TGTGGACTTTAAAAAGAAATGCCACTGAAT
1 TGTGGACTTTGAAAAG--ATGCCACTGACT
283527 TGTGGACTTTGAA
1 TGTGGACTTTGAA
283540 GAGGTCACAG
Statistics
Matches: 197, Mismatches: 29, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
25 3 0.02
26 17 0.09
27 29 0.15
28 74 0.38
29 46 0.23
30 28 0.14
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (28 bp):
TGTGGACTTTGAAAAGATGCCACTGACT
Found at i:284865 original size:13 final size:13
Alignment explanation
Indices: 284847--284871 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
284837 TATTCAATGA
284847 ATCGATACATTGT
1 ATCGATACATTGT
284860 ATCGATACATTG
1 ATCGATACATTG
284872 ATCTTTGTAT
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):
ATCGATACATTGT
Found at i:294922 original size:19 final size:19
Alignment explanation
Indices: 294895--294945 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 19
294885 ATCCAAAATC
*
294895 CGGTAACCGGCCACCACGT
1 CGGTCACCGGCCACCACGT
294914 CGGTCACCGGTGGCCACCACGT
1 CGGTCACC---GGCCACCACGT
*
294936 CGGTCGCCGG
1 CGGTCACCGG
294946 TGACCACCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 9 0.33
22 18 0.67
ACGTcount: A:0.14, C:0.41, G:0.33, T:0.12
Consensus pattern (19 bp):
CGGTCACCGGCCACCACGT
Found at i:294931 original size:22 final size:22
Alignment explanation
Indices: 294903--294953 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
294893 TCCGGTAACC
294903 GGCCACCACGTCGGTCACCGGT
1 GGCCACCACGTCGGTCACCGGT
*
294925 GGCCACCACGTCGGTCGCCGGT
1 GGCCACCACGTCGGTCACCGGT
*
294947 GACCACC
1 GGCCACC
294954 GTCGACCGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.14, C:0.43, G:0.31, T:0.12
Consensus pattern (22 bp):
GGCCACCACGTCGGTCACCGGT
Found at i:297384 original size:13 final size:13
Alignment explanation
Indices: 297366--297391 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
297356 CAATTTTTTG
297366 TGTATCGATACAT
1 TGTATCGATACAT
297379 TGTATCGATACAT
1 TGTATCGATACAT
297392 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:298104 original size:58 final size:58
Alignment explanation
Indices: 298039--298157 Score: 220
Period size: 58 Copynumber: 2.1 Consensus size: 58
298029 GTGGAAAGGA
298039 ACAAAGATTTGGTTTAAAAAGACTCCTAACGATGAATTTTGAAAGGATTAAAAGGGTG
1 ACAAAGATTTGGTTTAAAAAGACTCCTAACGATGAATTTTGAAAGGATTAAAAGGGTG
* *
298097 ACAAAGATTTGGTTTAAAAAGACTCCTAATGATGAGTTTTGAAAGGATTAAAAGGGTG
1 ACAAAGATTTGGTTTAAAAAGACTCCTAACGATGAATTTTGAAAGGATTAAAAGGGTG
298155 ACA
1 ACA
298158 GAAAACTGTT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (58 bp):
ACAAAGATTTGGTTTAAAAAGACTCCTAACGATGAATTTTGAAAGGATTAAAAGGGTG
Found at i:298407 original size:13 final size:13
Alignment explanation
Indices: 298389--298441 Score: 74
Period size: 13 Copynumber: 4.1 Consensus size: 13
298379 TAGTAACCCA
298389 TGTATCGATACAT
1 TGTATCGATACAT
298402 TGTATCGA-ACCCA-
1 TGTATCGATA--CAT
298415 TGTATCGATACAT
1 TGTATCGATACAT
298428 TGTATCGATACAT
1 TGTATCGATACAT
298441 T
1 T
298442 CTGAAAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
12 3 0.08
13 30 0.83
14 3 0.08
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:298412 original size:26 final size:26
Alignment explanation
Indices: 298383--298435 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
298373 CTCAAATAGT
298383 AACCCATGTATCGATACATTGTATCG
1 AACCCATGTATCGATACATTGTATCG
298409 AACCCATGTATCGATACATTGTATCG
1 AACCCATGTATCGATACATTGTATCG
298435 A
1 A
298436 TACATTCTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (26 bp):
AACCCATGTATCGATACATTGTATCG
Found at i:307789 original size:20 final size:19
Alignment explanation
Indices: 307756--307793 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
307746 TTGTATTGAT
307756 ACAATGTATCGATACATGG
1 ACAATGTATCGATACATGG
*
307775 ACAATTGTATTGATACATG
1 ACAA-TGTATCGATACATG
307794 AAACTGGCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (19 bp):
ACAATGTATCGATACATGG
Found at i:309471 original size:3 final size:3
Alignment explanation
Indices: 309456--309486 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
309446 AACCATCAAA
*
309456 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
309487 GTGACTCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:311521 original size:21 final size:21
Alignment explanation
Indices: 311488--311528 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
311478 CTAAGTAAAA
311488 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
311509 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
311529 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:311594 original size:21 final size:20
Alignment explanation
Indices: 311565--311621 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
311555 AAAACCCTGA
**
311565 AAAGTATCGATACACATTTT
1 AAAGTATCGATACACATTGC
*
311585 AAATGTATCGATACAGATTGC
1 AAA-GTATCGATACACATTGC
*
311606 ATAGTATCGATACACA
1 AAAGTATCGATACACA
311622 CAAATATGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
AAAGTATCGATACACATTGC
Found at i:311692 original size:53 final size:53
Alignment explanation
Indices: 311609--311745 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
311599 AGATTGCATA
*
311609 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
*
311663 GTATCGATACACACAATATGTATCGATACAGGTCACTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
*
311716 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
311746 TTGGTAGTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 66 0.82
54 14 0.17
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
Found at i:311811 original size:21 final size:21
Alignment explanation
Indices: 311777--311900 Score: 212
Period size: 21 Copynumber: 5.8 Consensus size: 21
311767 TTTCACTGTT
311777 CATCACTGTTCATGTATCGATA
1 CATCACT-TTCATGTATCGATA
311799 CATCACTTTCATGTATCGATA
1 CATCACTTTCATGTATCGATA
311820 CATCACTTTCATGTATCGATA
1 CATCACTTTCATGTATCGATA
311841 CATCACTTTCATGTATCGATA
1 CATCACTTTCATGTATCGATA
311862 CATCACTTTCATGTATCGATA
1 CATCACTTTCATGTATCGATA
* *
311883 CATAACTGTTCATATATC
1 CATCACT-TTCATGTATC
311901 ACTATTCATG
Statistics
Matches: 99, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
21 83 0.84
22 16 0.16
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (21 bp):
CATCACTTTCATGTATCGATA
Found at i:311961 original size:13 final size:13
Alignment explanation
Indices: 311943--311981 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
311933 TCACTATTCA
311943 TGTATCGATACAT
1 TGTATCGATACAT
*
311956 TGTATCGATACAG
1 TGTATCGATACAT
311969 TGTATCGATACAT
1 TGTATCGATACAT
311982 CATAAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:317484 original size:21 final size:22
Alignment explanation
Indices: 317446--317488 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
317436 TTTTAACCGA
* *
317446 TTATCAAGGGGGAGAATTTTTT
1 TTATCAAGAGGGAAAATTTTTT
317468 TTATCAA-AGGGAAAATTTTTT
1 TTATCAAGAGGGAAAATTTTTT
317489 AATGAGAGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (22 bp):
TTATCAAGAGGGAAAATTTTTT
Found at i:318099 original size:32 final size:32
Alignment explanation
Indices: 318042--318105 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
318032 CACACCTAGA
*
318042 TGTATCGATACATTATGCTTTTATCGATACAT
1 TGTATCGATACATTATGCTTATATCGATACAT
318074 TGTATCGATACATGT-T-CATTATATCGATACAT
1 TGTATCGATACAT-TATGC-TTATATCGATACAT
318106 GGACAATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 1 0.03
32 27 0.93
33 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATTATGCTTATATCGATACAT
Found at i:318120 original size:20 final size:19
Alignment explanation
Indices: 318070--318126 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
318060 TTTTATCGAT
*
318070 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
318089 TCATTATATCGATACATGG
1 ACATTGTATCGATACATGG
318108 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
318127 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:318190 original size:13 final size:13
Alignment explanation
Indices: 318172--318223 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
318162 GATACATGGC
318172 ACATTGTATCGAT
1 ACATTGTATCGAT
318185 ACATTGTATCGAT
1 ACATTGTATCGAT
318198 ACA-TG-AT-G--
1 ACATTGTATCGAT
318206 A-ATTGTATCGAT
1 ACATTGTATCGAT
318218 ACATTG
1 ACATTG
318224 CTTCAAACGG
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:318192 original size:33 final size:32
Alignment explanation
Indices: 318155--318223 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 32
318145 CTACCACTGT
318155 TTGTATCGATACATG-GCACATTGTATCGATACA
1 TTGTATCGATACATGAG-A-ATTGTATCGATACA
318188 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGA-GAATTGTATCGATACA
318221 TTG
1 TTG
318224 CTTCAAACGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 32 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACATGAGAATTGTATCGATACA
Found at i:322562 original size:19 final size:19
Alignment explanation
Indices: 322517--322573 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
322507 CTGCGAGTTT
**
322517 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
322538 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
322557 CATGTATCAATACAATG
1 CATGTATCGATACAATG
322574 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.55
21 15 0.45
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:322580 original size:32 final size:33
Alignment explanation
Indices: 322539--322603 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
322529 CAATTTGTCC
*
322539 ATGTATCGATACAATG-AACATGTATCAATACA
1 ATGTATCGATACAAAGCAACATGTATCAATACA
* *
322571 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAGCAACATGTATCAATACA
322604 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAACATGTATCAATACA
Found at i:323164 original size:18 final size:18
Alignment explanation
Indices: 323119--323164 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
323109 TATCTCCTCC
*
323119 TTTAAAAAATTTTTCCCT
1 TTTAAAAATTTTTTCCCT
323137 TTTAAAAATTTTTTCCCT
1 TTTAAAAATTTTTTCCCT
*
323155 TTTAACAATT
1 TTTAAAAATT
323165 ATCTTCTCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTAAAAATTTTTTCCCT
Found at i:325024 original size:14 final size:14
Alignment explanation
Indices: 325005--325031 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
324995 GACTATTCAG
325005 ATAGTACCCAATGA
1 ATAGTACCCAATGA
325019 ATAGTACCCAATG
1 ATAGTACCCAATG
325032 TATCGATACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (14 bp):
ATAGTACCCAATGA
Found at i:331229 original size:33 final size:33
Alignment explanation
Indices: 331187--331250 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 33
331177 GTTACAAGCT
331187 ATGTATCGATACATT-T-CTTCATGTATCGATATA
1 ATGTATCGATACATTGTAC--CATGTATCGATATA
331220 ATGTATCGATACATTGTACCATGTATCGATA
1 ATGTATCGATACATTGTACCATGTATCGATA
331251 CAAATAGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATATA
Found at i:331320 original size:13 final size:13
Alignment explanation
Indices: 331302--331328 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
331292 TAGAATAAAC
331302 ATGTATCGATACA
1 ATGTATCGATACA
331315 ATGTATCGATACA
1 ATGTATCGATACA
331328 A
1 A
331329 AGCAGCATGT
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:331846 original size:53 final size:53
Alignment explanation
Indices: 331789--331897 Score: 132
Period size: 53 Copynumber: 2.1 Consensus size: 53
331779 AAATGAGACG
* *
331789 AGTGAT-ATGGATAGACTAGTAC-TAGCTAATTAGCCCATGCCAAAAGTAAGCCT
1 AGTGATAATGG-TAGACTAGT-CTTAGCTAATTAACCCATACCAAAAGTAAGCCT
* * * *
331842 AGTGATAATGGTAGGCTAGTCTTGGCTAGTTAACCCATACCAAATGTAAGCCT
1 AGTGATAATGGTAGACTAGTCTTAGCTAATTAACCCATACCAAAAGTAAGCCT
331895 AGT
1 AGT
331898 AATACCAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
52 1 0.02
53 43 0.90
54 4 0.08
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (53 bp):
AGTGATAATGGTAGACTAGTCTTAGCTAATTAACCCATACCAAAAGTAAGCCT
Found at i:332055 original size:50 final size:50
Alignment explanation
Indices: 331999--332207 Score: 231
Period size: 50 Copynumber: 4.2 Consensus size: 50
331989 GCTAAATTAA
* *
331999 AAAGTCCATACTAGCTAGCACTTGGTAAGGAGGATAAGCCCTATAAAGTC
1 AAAGTCCATACTAGCTAGCACCTGGTAAGGAGGTTAAGCCCTATAAAGTC
* * * * * *
332049 AAAGTCCACACTATC-AGCCCCTGGTAAAGAGGTTAAGCTCTATAGAGTC
1 AAAGTCCATACTAGCTAGCACCTGGTAAGGAGGTTAAGCCCTATAAAGTC
* ** *
332098 AAAGTCCATACTAGCTAGTACCTGGTGGGGAGGTTAAACCCCTATAAAGTC
1 AAAGTCCATACTAGCTAGCACCTGGTAAGGAGGTT-AAGCCCTATAAAGTC
* * * ** * *
332149 AAAGTTCACACTAGCTTGCACCTAATAAGGAGGTTAAGCCCTTTAGAGTC
1 AAAGTCCATACTAGCTAGCACCTGGTAAGGAGGTTAAGCCCTATAAAGTC
332199 AAAGTCCAT
1 AAAGTCCAT
332208 GGTAACAGGC
Statistics
Matches: 126, Mismatches: 31, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
49 41 0.33
50 46 0.37
51 39 0.31
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.23
Consensus pattern (50 bp):
AAAGTCCATACTAGCTAGCACCTGGTAAGGAGGTTAAGCCCTATAAAGTC
Found at i:332291 original size:100 final size:101
Alignment explanation
Indices: 332037--332308 Score: 271
Period size: 100 Copynumber: 2.7 Consensus size: 101
332027 GGAGGATAAG
* * * * ** * *
332037 CCCTATAAAGTCAAAGTCCACACTATC-AGCCCCTGGTAAAGAGGTTAAGCTCTATAGAGTCAAA
1 CCCTATAAAGTCAAAGTTCACACTAGCTGGCACCTAATAAAGAGGTTAAGCCCTTTAGAGTCAAA
** * * * ** *
332101 GTCCATACTAGCTA-GTACCTGGTGGGGAGGTTAAAC
66 GTCCATGGTAAC-AGGCACATAATAGGGAGGTTAAAC
* *
332137 CCCTATAAAGTCAAAGTTCACACTAGCTTGCACCTAATAAGGAGGTTAAGCCCTTTAGAGTCAAA
1 CCCTATAAAGTCAAAGTTCACACTAGCTGGCACCTAATAAAGAGGTTAAGCCCTTTAGAGTCAAA
332202 GTCCATGGTAACAGGCACATAATAGGGAGGTTAAA-
66 GTCCATGGTAACAGGCACATAATAGGGAGGTTAAAC
* * * ** ** * *
332237 CCTTATATAGTCAAAGTTCGCACTAGCTGGCATTTGGTAAAGAGTTTAAGCCCTTTGGAGTCAAA
1 CCCTATAAAGTCAAAGTTCACACTAGCTGGCACCTAATAAAGAGGTTAAGCCCTTTAGAGTCAAA
332302 GTCCATG
66 GTCCATG
332309 CTAATTGACA
Statistics
Matches: 142, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
100 87 0.61
101 55 0.39
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (101 bp):
CCCTATAAAGTCAAAGTTCACACTAGCTGGCACCTAATAAAGAGGTTAAGCCCTTTAGAGTCAAA
GTCCATGGTAACAGGCACATAATAGGGAGGTTAAAC
Found at i:332469 original size:50 final size:50
Alignment explanation
Indices: 332338--332584 Score: 229
Period size: 50 Copynumber: 5.0 Consensus size: 50
332328 AAAGTTACAA
* * *
332338 TCCAC-CTAGCTGGCACTTGATAG-GTGGTTAAGCCCTATAGAGTCAAAG
1 TCCACACTAGTTGGCACTTAATAGAGAGGTTAAGCCCTATAGAGTCAAAG
* * *
332386 TCCACACTCA-TTGGC-CTCTAATAAAGAGTTTAAGCCTTATAGAGTCAAAG
1 TCCACACT-AGTTGGCACT-TAATAGAGAGGTTAAGCCCTATAGAGTCAAAG
* * * *
332436 TCCACGCTAGCTGGCACTTGATAGAGAGGTTAAG-CCTAGT-GAGTTAAAG
1 TCCACACTAGTTGGCACTTAATAGAGAGGTTAAGCCCTA-TAGAGTCAAAG
** * * * * *
332485 TATACACTAGTTGGTACCTAATAGAGAGGTTAATCCCTATATAGTCAAAA
1 TCCACACTAGTTGGCACTTAATAGAGAGGTTAAGCCCTATAGAGTCAAAG
* * * *
332535 TCCACATTAGTTGGCACCTAATAGAAAGGTTAAGCCCT-TAGAGTTAAAG
1 TCCACACTAGTTGGCACTTAATAGAGAGGTTAAGCCCTATAGAGTCAAAG
332584 T
1 T
332585 ACAATTTAGT
Statistics
Matches: 157, Mismatches: 33, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
48 7 0.04
49 58 0.37
50 90 0.57
51 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (50 bp):
TCCACACTAGTTGGCACTTAATAGAGAGGTTAAGCCCTATAGAGTCAAAG
Found at i:332531 original size:99 final size:98
Alignment explanation
Indices: 332336--332587 Score: 253
Period size: 99 Copynumber: 2.6 Consensus size: 98
332326 ATAAAGTTAC
* *
332336 AATCCACCTAGCTGGCACTTGATAG-GTGGTTAAGCCCTATAGAGTCAAAGTCCACACTCATTGG
1 AATCCACCTAGCTGGCACTTGATAGAGAGGTTAAG-CCTATAGAGTCAAAGTACACACTCATTGG
* * *
332400 CCTCTAATAAAGAGTTTAAGCCTTATAGAGTCAA
65 ACTCTAATAAAGAGGTTAAGCCCTATAGAGTCAA
* * *
332434 AGTCCACGCTAGCTGGCACTTGATAGAGAGGTTAAGCCTAGT-GAGTTAAAGTATACACT-AGTT
1 AATCCAC-CTAGCTGGCACTTGATAGAGAGGTTAAGCCTA-TAGAGTCAAAGTACACACTCA-TT
* * *
332497 GGTAC-CTAATAGAGAGGTTAATCCCTATATAGTCAA
63 GG-ACTCTAATAAAGAGGTTAAGCCCTATAGAGTCAA
* * * * * *
332533 AATCCACATTAGTTGGCACCTAATAGAAAGGTTAAGCCCT-TAGAGTTAAAGTACA
1 AATCCAC-CTAGCTGGCACTTGATAGAGAGGTTAAG-CCTATAGAGTCAAAGTACA
332588 ATTTAGTTAG
Statistics
Matches: 128, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
98 8 0.06
99 107 0.84
100 13 0.10
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (98 bp):
AATCCACCTAGCTGGCACTTGATAGAGAGGTTAAGCCTATAGAGTCAAAGTACACACTCATTGGA
CTCTAATAAAGAGGTTAAGCCCTATAGAGTCAA
Found at i:333309 original size:20 final size:21
Alignment explanation
Indices: 333280--333359 Score: 72
Period size: 21 Copynumber: 3.9 Consensus size: 21
333270 CATATATTAG
333280 TAAATGTATTAATACATTTTC
1 TAAATGTATTAATACATTTTC
* * *
333301 -AAATCTATTTATACATTTGC
1 TAAATGTATTAATACATTTTC
* *
333321 TAAATGTATCAATACAATTTC
1 TAAATGTATTAATACATTTTC
* * * *
333342 CAACTATATTGATACATT
1 TAAATGTATTAATACATT
333360 CAAGCTTTTT
Statistics
Matches: 44, Mismatches: 14, Indels: 2
0.73 0.23 0.03
Matches are distributed among these distances:
20 17 0.39
21 27 0.61
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAATGTATTAATACATTTTC
Found at i:333335 original size:21 final size:21
Alignment explanation
Indices: 333280--333336 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
333270 CATATATTAG
*
333280 TAAATGTATTAATACATTTTC
1 TAAATGTATTAATACATTTGC
* *
333301 -AAATCTATTTATACATTTGC
1 TAAATGTATTAATACATTTGC
*
333321 TAAATGTATCAATACA
1 TAAATGTATTAATACA
333337 ATTTCCAACT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAATGTATTAATACATTTGC
Found at i:334626 original size:19 final size:21
Alignment explanation
Indices: 334588--334626 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
334578 TAAGGTCTAC
*
334588 CATACTTTTGTTGTTTGATGA
1 CATACTTTTGTTGTTGGATGA
334609 CATA-TTTTG-TGTTGGATG
1 CATACTTTTGTTGTTGGATG
334627 TGGCTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 5 0.29
21 4 0.24
ACGTcount: A:0.18, C:0.08, G:0.23, T:0.51
Consensus pattern (21 bp):
CATACTTTTGTTGTTGGATGA
Found at i:336274 original size:21 final size:20
Alignment explanation
Indices: 336250--336295 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
336240 CAATTTATAT
336250 CGATATAACAAGTGAATGTAC
1 CGATAT-ACAAGTGAATGTAC
* *
336271 CGATATATAAGTGAATGTAT
1 CGATATACAAGTGAATGTAC
336291 CGATA
1 CGATA
336296 CATTTTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (20 bp):
CGATATACAAGTGAATGTAC
Found at i:336490 original size:52 final size:50
Alignment explanation
Indices: 336367--336491 Score: 128
Period size: 52 Copynumber: 2.4 Consensus size: 50
336357 TGCATCAACG
* * * *
336367 CATTTTCATTGTACCGATACATTTTGGGTTTTGAACCAATTGTATCAATA
1 CATTTTCAATGTATCGATACATTCTGGGTTTTGAACCAAATGTATCAATA
* * *
336417 CATTTTTCATTATGT-T-AATACATTCTGGGTTTTTGACCCAAATGTATTAATA
1 CA-TTTTCA--ATGTATCGATACATTCTGGG-TTTTGAACCAAATGTATCAATA
336469 CATTCTTCAATGTATCGATACAT
1 CATT-TTCAATGTATCGATACAT
336492 CTAGTTAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
50 6 0.10
51 20 0.33
52 31 0.52
53 3 0.05
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (50 bp):
CATTTTCAATGTATCGATACATTCTGGGTTTTGAACCAAATGTATCAATA
Found at i:340315 original size:79 final size:78
Alignment explanation
Indices: 340223--340813 Score: 551
Period size: 79 Copynumber: 7.5 Consensus size: 78
340213 TCATTCATTT
* * *
340223 TTTTATTTCCAAAATACCGATTTTCCACCATCGGGGATACTCCAACCGCGTTATTTTCGATGGGA
1 TTTTATTTCCAAAACACCGATTTTCCACAATCGGGGATACTCCAACC-CGTTATTTTCGAGGGGA
* *
340288 TACTTCAACTCTAG
65 TACTCCAACCCTAG
* * * * *
340302 TTTTATCTCCAAAACATCGAGTTTT-CACCATCGAGGATACTCCAACCCCGTTATTTTTGAGGGG
1 TTTTATTTCCAAAACACCGA-TTTTCCACAATCGGGGATACTCCAA-CCCGTTATTTTCGAGGGG
* *
340366 ATACTCTAA-CCTCGG
64 ATACTCCAACCCT-AG
* ** * * * *
340381 TTTTTATTTTCAAAACATTGATTTTCCATAATCAGGGATACTCCAACCCTGTTATTTCCGAGAGG
1 -TTTTATTTCCAAAACACCGATTTTCCACAATCGGGGATACTCCAACCC-GTTATTTTCGAGGGG
340446 ATACTCCAACCC-AG
64 ATACTCCAACCCTAG
* * * * ** * * *
340460 TTTTATTTCCAAAGCACCAATTTTTCACAATCGAGGATACTCTGACCTCGTTGTTTTCGAAGGAA
1 TTTTATTTCCAAAACACCGATTTTCCACAATCGGGGATACTCCAACC-CGTTATTTTCGAGGGGA
* *
340525 TACTCCAACCCCAA
65 TACTCCAACCCTAG
* * * * ** *
340539 TTTGATTTTCAAAACACCGATTTTTCACCATCGGGGATACTTTAACCCTGTTA-TTTCTGAGAGG
1 TTTTATTTCCAAAACACCGATTTTCCACAATCGGGGATACTCCAACCC-GTTATTTTC-GAGGGG
340603 ATACTCCAACCCTAG
64 ATACTCCAACCCTAG
** * *
340618 TTTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAATCCCGTTATTTTTGAGGGG
1 -TTTTATTTCCAAAACACCGATTTTCCACAATCGGGGATACTCCAA-CCCGTTATTTTCGAGGGG
* * *
340683 ATGCTCTAACCCTGG
64 ATACTCCAACCCTAG
* * ** **
340698 CTTTATTTCTAAAACATTGATTTTCCACAATCGAAGATACTCCAACCCCGTTATTTTCGAGGGGA
1 TTTTATTTCCAAAACACCGATTTTCCACAATCGGGGATACTCCAA-CCCGTTATTTTCGAGGGGA
* *
340763 TACTCCAACCCCAA
65 TACTCCAACCCTAG
* * *
340777 TTTTATTTCTAAAACATCGATTTTCCACTATCGGGGA
1 TTTTATTTCCAAAACACCGATTTTCCACAATCGGGGA
340814 ATGTACTCTA
Statistics
Matches: 414, Mismatches: 84, Indels: 28
0.79 0.16 0.05
Matches are distributed among these distances:
78 65 0.16
79 223 0.54
80 118 0.29
81 8 0.02
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (78 bp):
TTTTATTTCCAAAACACCGATTTTCCACAATCGGGGATACTCCAACCCGTTATTTTCGAGGGGAT
ACTCCAACCCTAG
Found at i:340658 original size:237 final size:238
Alignment explanation
Indices: 340223--340813 Score: 677
Period size: 237 Copynumber: 2.5 Consensus size: 238
340213 TCATTCATTT
* * * * *
340223 TTTTATTTCCAAAATACCGATTTTCCACCATCGGGGATACTCCAACCGCGTTATTTTCGATGGGA
1 TTTTATTTCCAAAACACCGATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTTCGAAGGGA
* * * * * * * *
340288 TACTTCAACTCTAGTTTTATCTCCAAAACATCGAGTTTTCACCATCGAGGATACTCCAACCCCGT
66 TACTCCAACCCCAATTTTATTTTCAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCGT
* * * * * * * *
340353 TATTTTTGAGGGGATACTCTAACCTCGGTTTTTATTTTCAAAACATTGATTTTCCATAATCAGGG
131 TATTTCTGAGAGGATACTCCAACCTCAGTTTTTATTTCCAAAACACTAATTTTCCACAATCAGGG
340418 ATACTCCAA-CCCTGTTATTTCCGAGAGGATACTCCAACCC-AG
196 ATACTCCAATCCC-GTTATTTCCGAGAGGATACTCCAACCCTAG
* * * ** * * *
340460 TTTTATTTCCAAAGCACCAATTTTTCACAATCGAGGATACTCTGACCTCGTTGTTTTCGAAGGAA
1 TTTTATTTCCAAAACACCGATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTTCGAAGGGA
* * ** *
340525 TACTCCAACCCCAATTTGATTTTCAAAACACCGATTTTTCACCATCGGGGATACTTTAACCCTGT
66 TACTCCAACCCCAATTTTATTTTCAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCGT
* *
340590 TATTTCTGAGAGGATACTCCAACC-CTAGTTTTTATTTCCAAAACACTAATTTTTCACAATCGGG
131 TATTTCTGAGAGGATACTCCAACCTC-AGTTTTTATTTCCAAAACACTAATTTTCCACAATCAGG
** * * * *
340654 GATACTCCAATCCCGTTATTTTTGAGGGGATGCTCTAACCCTGG
195 GATACTCCAATCCCGTTATTTCCGAGAGGATACTCCAACCCTAG
* * ** * *
340698 CTTTATTTCTAAAACATTGATTTTCCACAATCGAAGATACTCCAACCCCGTTATTTTCGAGGGGA
1 TTTTATTTCCAAAACACCGATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTTCGAAGGGA
* *
340763 TACTCCAACCCCAATTTTA-TTTCTAAAACATCGATTTTCCACTATCGGGGA
66 TACTCCAACCCCAATTTTATTTTC-AAAACATCGATTTTTCACCATCGGGGA
340814 ATGTACTCTA
Statistics
Matches: 291, Mismatches: 59, Indels: 7
0.82 0.17 0.02
Matches are distributed among these distances:
236 1 0.00
237 193 0.66
238 97 0.33
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (238 bp):
TTTTATTTCCAAAACACCGATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTTCGAAGGGA
TACTCCAACCCCAATTTTATTTTCAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCGT
TATTTCTGAGAGGATACTCCAACCTCAGTTTTTATTTCCAAAACACTAATTTTCCACAATCAGGG
ATACTCCAATCCCGTTATTTCCGAGAGGATACTCCAACCCTAG
Found at i:340712 original size:159 final size:157
Alignment explanation
Indices: 340224--340792 Score: 596
Period size: 159 Copynumber: 3.6 Consensus size: 157
340214 CATTCATTTT
* * *
340224 TTTATTTCCAAAATACCGATTTTCCACCATCGGGGATACTCCAACCGC-GTTATTTTCGATG-GG
1 TTTATTTTCAAAACACCGATTTTCCACAATCGGGGATACTCCAACC-CTGTTATTTTCGA-GAGG
* * * * * *
340287 ATACTTCAACTCTAGTTTTATCTCCAAAACA-TCGAGTTTTCACCATCGAGGATACTCCAACCCC
64 ATACTCCAACCCTAGTTTTATTTCCAAAACACT-AATTTTTCACAATCGAGGATACTCCAA-CCC
*
340351 GTTATTTTTGAGGGGATACTCTAA-CCTCGGTT
127 GTTATTTTTGAGGGGATACTCTAACCCT-GG-A
** * * *
340383 TTTATTTTCAAAACATTGATTTTCCATAATCAGGGATACTCCAACCCTGTTATTTCCGAGAGGAT
1 TTTATTTTCAAAACACCGATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGAGGAT
* * **
340448 ACTCCAACCC-AGTTTTATTTCCAAAGCACCAATTTTTCACAATCGAGGATACTCTGACCTCGTT
66 ACTCCAACCCTAGTTTTATTTCCAAAACACTAATTTTTCACAATCGAGGATACTCCAACC-CGTT
* * * * * **
340512 GTTTTCGAAGGAATACTCCAACCC-CAA
130 ATTTTTGAGGGGATACTCTAACCCTGGA
* * **
340539 TTTGATTTTCAAAACACCGATTTTTCACCATCGGGGATACTTTAACCCTGTTA-TTTCTGAGAGG
1 TTT-ATTTTCAAAACACCGATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTTC-GAGAGG
*
340603 ATACTCCAACCCTAGTTTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAATCCC
64 ATACTCCAACCCTAG-TTTTATTTCCAAAACACTAATTTTTCACAATCGAGGATACTCCAA-CCC
* *
340668 GTTATTTTTGAGGGGATGCTCTAACCCTGGC
127 GTTATTTTTGAGGGGATACTCTAACCCTGGA
** ** * *
340699 TTTA-TTTCTAAAACATTGATTTTCCACAATCGAAGATACTCCAACCCCGTTATTTTCGAGGGGA
1 TTTATTTTC-AAAACACCGATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGAGGA
* * *
340763 TACTCCAACCCCAATTTTATTTCTAAAACA
65 TACTCCAACCCTAGTTTTATTTCCAAAACA
340793 TCGATTTTCC
Statistics
Matches: 335, Mismatches: 62, Indels: 27
0.79 0.15 0.06
Matches are distributed among these distances:
156 6 0.02
157 61 0.18
158 81 0.24
159 178 0.53
160 9 0.03
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (157 bp):
TTTATTTTCAAAACACCGATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTTCGAGAGGAT
ACTCCAACCCTAGTTTTATTTCCAAAACACTAATTTTTCACAATCGAGGATACTCCAACCCGTTA
TTTTTGAGGGGATACTCTAACCCTGGA
Found at i:343377 original size:15 final size:15
Alignment explanation
Indices: 343342--343370 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
343332 TTGTCCTTCA
343342 AATCCTTCAAATCTC
1 AATCCTTCAAATCTC
343357 AATCCTTCAAATCT
1 AATCCTTCAAATCT
343371 TTTTCCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (15 bp):
AATCCTTCAAATCTC
Found at i:343584 original size:30 final size:30
Alignment explanation
Indices: 343508--343585 Score: 77
Period size: 31 Copynumber: 2.6 Consensus size: 30
343498 TCCTTAGTTG
* * *
343508 CATCCCTTCTCAAAATCCATGACTCAATGG
1 CATCTCTTCTCAAAGTCCATGACTCAATGA
***
343538 CAT-TCCTTCTTCAAAGTCCATGACTTGGTGA
1 CATCT-CTTC-TCAAAGTCCATGACTCAATGA
343569 CATCTCTTCTCAAAGTC
1 CATCTCTTCTCAAAGTC
343586 AATAACTCTG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
30 15 0.38
31 23 0.59
32 1 0.03
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.32
Consensus pattern (30 bp):
CATCTCTTCTCAAAGTCCATGACTCAATGA
Found at i:343707 original size:33 final size:33
Alignment explanation
Indices: 343603--343823 Score: 239
Period size: 33 Copynumber: 7.0 Consensus size: 33
343593 CTGTGGCACC
* *
343603 TCTTTTAAAGTCCACAACTCCTTGGCA---TCT
1 TCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
*
343633 T-TTTTAAAGTCCACAACTCCGTGGCACTTTTT
1 TCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* *
343665 TC-TTCAAAGTCCACAACTCCATGGCACCTTTT
1 TCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* *
343697 TCTTTTAAAGTCCACAACTCTGTGGCATCTTTT
1 TCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* *
343730 CCTTTTAAAGTCCACAACTCCGTGGCACATTTT
1 TCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* * *
343763 TC-TTCAAAGTCCACAACTTCGTGTCACC----
1 TCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* *
343791 T-TTTTAAAGTCCACAACTCCATAGCACCTTTT
1 TCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
343823 T
1 T
343824 TTTAAGCCCA
Statistics
Matches: 158, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
28 22 0.14
29 24 0.15
30 1 0.01
32 55 0.35
33 56 0.35
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.36
Consensus pattern (33 bp):
TCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
Found at i:343768 original size:98 final size:94
Alignment explanation
Indices: 343603--343795 Score: 298
Period size: 98 Copynumber: 2.0 Consensus size: 94
343593 CTGTGGCACC
*
343603 TCTTTTAAAGTCCACAACTCCTTGGCATCTTTTTTAAAGTCCACAACTCCGTGGCACTTTTTTCT
1 TCTTTTAAAGTCCACAACTCCTTGGCATCTTTTTTAAAGTCCACAACTCCGTGGCACATTTTTCT
343668 TCAAAGTCCACAACTCCATGGCACCTTTT
66 TCAAAGTCCACAACTCCATGGCACCTTTT
343697 TCTTTTAAAGTCCACAACT-CTGTGGCATCTTTTCCTTTTAAAGTCCACAACTCCGTGGCACATT
1 TCTTTTAAAGTCCACAACTCCT-TGGCATC--TT--TTTTAAAGTCCACAACTCCGTGGCACATT
* * *
343761 TTTCTTCAAAGTCCACAACTTCGTGTCACCTTTT
61 TTTCTTCAAAGTCCACAACTCCATGGCACCTTTT
343795 T
1 T
343796 AAAGTCCACA
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
93 2 0.02
94 26 0.29
96 2 0.02
98 60 0.67
ACGTcount: A:0.23, C:0.29, G:0.11, T:0.37
Consensus pattern (94 bp):
TCTTTTAAAGTCCACAACTCCTTGGCATCTTTTTTAAAGTCCACAACTCCGTGGCACATTTTTCT
TCAAAGTCCACAACTCCATGGCACCTTTT
Found at i:343979 original size:130 final size:130
Alignment explanation
Indices: 343830--344129 Score: 338
Period size: 130 Copynumber: 2.3 Consensus size: 130
343820 TTTTTTTAAG
* * ** *
343830 CCCACACAAGTCGGTGGCAA-CCTTCTCAAAAGCCTACACAAGTCGGTGGCAACCTTTTTTTTTC
1 CCCACACAAGTTGGTGGCAACCCTTCTCAAAAGCCCACACAAGTCGGTGGCAACC--CCTTTCT-
* * ** * *
343894 AAAGCCCACACAAGTCGATGGCAACC-CT-TCTAAAGTCCACACAAGTTGGTGGCAACCCTTTTC
63 AAAGCCCACACAAGTCGATAGCAACCTCTCTCTAAAGCCCACACAAGTCAGTGGCAACCCTTCTA
343957 AAC
128 AAC
* * * *
343960 TCCACACAAGTTAGTGGCAACCCCTT-TCAAAAGCCCACATAAGTCGGTGGTAACCCCTTTCTAA
1 CCCACACAAGTTGGTGGCAA-CCCTTCTCAAAAGCCCACACAAGTCGGTGGCAACCCCTTTCTAA
* * * *
344024 AGTCCACACAAGTCGGTAGCAACCTTTCTCTAAAGCCCACACAAGTCAGTGGCAATCCTTCTAAA
65 AGCCCACACAAGTCGATAGCAACCTCTCTCTAAAGCCCACACAAGTCAGTGGCAACCCTTCTAAA
344089 C
130 C
* * *
344090 CCCACATAAGTTGGTGGCAACCCTTCACTAAAGCCCACAC
1 CCCACACAAGTTGGTGGCAACCCTTCTCAAAAGCCCACAC
344130 GTTGGCACTT
Statistics
Matches: 140, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
128 23 0.16
129 10 0.07
130 77 0.55
131 26 0.19
132 4 0.03
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (130 bp):
CCCACACAAGTTGGTGGCAACCCTTCTCAAAAGCCCACACAAGTCGGTGGCAACCCCTTTCTAAA
GCCCACACAAGTCGATAGCAACCTCTCTCTAAAGCCCACACAAGTCAGTGGCAACCCTTCTAAAC
Found at i:344015 original size:33 final size:32
Alignment explanation
Indices: 343827--344129 Score: 283
Period size: 33 Copynumber: 9.3 Consensus size: 32
343817 CCTTTTTTTT
*
343827 AAGCCCACACAAGTCGGTGGCAA-CCTTCTCAA
1 AAGCCCACACAAGTCGGTGGCAACCCTT-TCTA
* * *
343859 AAGCCTACACAAGTCGGTGGCAACCTTTTTTTTTCA
1 AAGCCCACACAAGTCGGTGGCAACC---CTTTCT-A
*
343895 AAGCCCACACAAGTCGATGGCAACCC-TTCTA
1 AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
* * *
343926 AAGTCCACACAAGTTGGTGGCAACCCTTT-TC
1 AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
** *
343957 AA-CTCCACACAAGTTAGTGGCAACCCCTTTCAA
1 AAGC-CCACACAAGTCGGTGGCAA-CCCTTTCTA
* *
343990 AAGCCCACATAAGTCGGTGGTAACCCCTTTCTA
1 AAGCCCACACAAGTCGGTGGCAA-CCCTTTCTA
* * *
344023 AAGTCCACACAAGTCGGTAGCAACCTTTCTCTA
1 AAGCCCACACAAGTCGGTGGCAACCCTT-TCTA
* *
344056 AAGCCCACACAAGTCAGTGGCAATCC-TTCTA
1 AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
* * * *
344087 AACCCCACATAAGTTGGTGGCAACCCTTCACTA
1 AAGCCCACACAAGTCGGTGGCAACCCTT-TCTA
344120 AAGCCCACAC
1 AAGCCCACAC
344130 GTTGGCACTT
Statistics
Matches: 219, Mismatches: 39, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
31 70 0.32
32 39 0.18
33 82 0.37
34 1 0.00
35 1 0.00
36 26 0.12
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (32 bp):
AAGCCCACACAAGTCGGTGGCAACCCTTTCTA
Found at i:344381 original size:52 final size:51
Alignment explanation
Indices: 344172--344374 Score: 174
Period size: 52 Copynumber: 3.9 Consensus size: 51
344162 CCGATATCAT
* * ** *
344172 TGGCCTTGAATTAATATATTGGCACTTTTATTTTCTTTAAACCCAATGTCAC
1 TGGCCTTGAATCAACATATTGGCACTTTTACATT-TTTAAGCCCAATGTCAC
* * ** * * * * *
344224 TAGCCTTGAATCAGCATATTGGCACACTT-CATCTTTAAGTCTAATATCGC
1 TGGCCTTGAATCAACATATTGGCACTTTTACATTTTTAAGCCCAATGTCAC
* * * *
344274 TGGCCTTAAATCAACACATTGGCATTTTTCTCATTTTTAAGCCCAATGTCAC
1 TGGCCTTGAATCAACATATTGGCACTTTT-ACATTTTTAAGCCCAATGTCAC
* ** *
344326 TGGCCTTGAATTAGTATATTGGCACTTTTACCATTATTAAGCCCAATGT
1 TGGCCTTGAATCAACATATTGGCACTTTTA-CATTTTTAAGCCCAATGT
344375 TGCTGGCTTT
Statistics
Matches: 114, Mismatches: 34, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
50 34 0.30
51 1 0.01
52 79 0.69
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (51 bp):
TGGCCTTGAATCAACATATTGGCACTTTTACATTTTTAAGCCCAATGTCAC
Found at i:345920 original size:13 final size:13
Alignment explanation
Indices: 345902--345929 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
345892 CCGTGGGCAT
345902 AATGTATCGATAC
1 AATGTATCGATAC
345915 AATGTATCGATAC
1 AATGTATCGATAC
345928 AA
1 AA
345930 ACAGTGGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:346833 original size:20 final size:20
Alignment explanation
Indices: 346808--346859 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
346798 TACAAGCCAA
**
346808 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
346828 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
346847 TGTATCGATACAA
1 TGTATCGATACAA
346860 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:347929 original size:33 final size:33
Alignment explanation
Indices: 347892--347958 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
347882 TTCAATGATT
347892 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
347925 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
347958 T
1 T
347959 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:347930 original size:13 final size:13
Alignment explanation
Indices: 347912--347936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
347902 CATAAAATGT
347912 TGTATCGATACAA
1 TGTATCGATACAA
347925 TGTATCGATACA
1 TGTATCGATACA
347937 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:348019 original size:13 final size:13
Alignment explanation
Indices: 348001--348025 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
347991 ATTACTCACA
348001 TGTATCGATACAT
1 TGTATCGATACAT
348014 TGTATCGATACA
1 TGTATCGATACA
348026 CTGATTTTTG
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:348090 original size:52 final size:52
Alignment explanation
Indices: 348034--348154 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
348024 CACTGATTTT
*
348034 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
348086 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
348138 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
348155 TAACACGCTT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:350088 original size:13 final size:13
Alignment explanation
Indices: 350070--350095 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
350060 TATAATCCCC
350070 CTGTATCGATACA
1 CTGTATCGATACA
350083 CTGTATCGATACA
1 CTGTATCGATACA
350096 AAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:352195 original size:15 final size:15
Alignment explanation
Indices: 352175--352205 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
352165 ATTTCGTTTG
*
352175 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
352190 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
352205 G
1 G
352206 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:355713 original size:13 final size:13
Alignment explanation
Indices: 355695--355720 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
355685 CAATTTTTTG
355695 TGTATCGATACAT
1 TGTATCGATACAT
355708 TGTATCGATACAT
1 TGTATCGATACAT
355721 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:355732 original size:32 final size:33
Alignment explanation
Indices: 355675--355738 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
355665 TACAAGCCAA
**
355675 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
355708 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
355739 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:361941 original size:13 final size:13
Alignment explanation
Indices: 361919--361943 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
361909 TCATTTCATT
361919 TTTTTATTTTTTA
1 TTTTTATTTTTTA
361932 TTTTTATTTTTT
1 TTTTTATTTTTT
361944 GCTTTGCATC
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:362528 original size:22 final size:22
Alignment explanation
Indices: 362503--362550 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
362493 GATGGTTGCT
*
362503 GAGCCGCTAGAGGCTGCTGTGG
1 GAGCCACTAGAGGCTGCTGTGG
* *
362525 GAGCTACTAGAGGTTGCTGTGG
1 GAGCCACTAGAGGCTGCTGTGG
362547 GAGC
1 GAGC
362551 TGTTGCTACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.17, C:0.19, G:0.44, T:0.21
Consensus pattern (22 bp):
GAGCCACTAGAGGCTGCTGTGG
Found at i:362551 original size:22 final size:22
Alignment explanation
Indices: 362509--362551 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
362499 TGCTGAGCCG
362509 CTAGAGGCTGCTGTGGGAGCTA
1 CTAGAGGCTGCTGTGGGAGCTA
*
362531 CTAGAGGTTGCTGTGGGAGCT
1 CTAGAGGCTGCTGTGGGAGCT
362552 GTTGCTACTA
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:0.16, C:0.16, G:0.42, T:0.26
Consensus pattern (22 bp):
CTAGAGGCTGCTGTGGGAGCTA
Found at i:363506 original size:9 final size:9
Alignment explanation
Indices: 363481--363525 Score: 60
Period size: 8 Copynumber: 5.3 Consensus size: 9
363471 CCCCTTTTTA
363481 TTTTT-ATT
1 TTTTTGATT
*
363489 TTATT-ATT
1 TTTTTGATT
363497 TTTTTGA-T
1 TTTTTGATT
363505 TTTTTGATT
1 TTTTTGATT
363514 TTTTTGATT
1 TTTTTGATT
363523 TTT
1 TTT
363526 GATTTCTACT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
8 19 0.58
9 14 0.42
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (9 bp):
TTTTTGATT
Found at i:363506 original size:17 final size:17
Alignment explanation
Indices: 363481--363530 Score: 70
Period size: 16 Copynumber: 3.1 Consensus size: 17
363471 CCCCTTTTTA
363481 TTTTT-ATTTTATT-ATT
1 TTTTTGATTTT-TTGATT
363497 TTTTTGATTTTTTGATT
1 TTTTTGATTTTTTGATT
363514 TTTTTGA-TTTTTGATT
1 TTTTTGATTTTTTGATT
363530 T
1 T
363531 CTACTTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 17 0.53
17 15 0.47
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (17 bp):
TTTTTGATTTTTTGATT
Found at i:363515 original size:7 final size:8
Alignment explanation
Indices: 363496--363530 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
363486 ATTTTATTAT
363496 TTTTTTGA
1 TTTTTTGA
363504 TTTTTTGA
1 TTTTTTGA
363512 TTTTTTTGA
1 -TTTTTTGA
363521 -TTTTTGA
1 TTTTTTGA
363528 TTT
1 TTT
363531 CTACTTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.28
8 10 0.40
9 8 0.32
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.77
Consensus pattern (8 bp):
TTTTTTGA
Found at i:366724 original size:19 final size:19
Alignment explanation
Indices: 366700--366756 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
366690 TTGTATCGAT
366700 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
*
366719 ACATTGTATCGATACATAC
1 ACATTGTATCGATACATGC
*
366738 CCAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
366757 AAACTGACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:366735 original size:13 final size:13
Alignment explanation
Indices: 366690--366716 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
366680 ACATTATGCT
366690 TTGTATCGATACA
1 TTGTATCGATACA
366703 TTGTATCGATACA
1 TTGTATCGATACA
366716 T
1 T
366717 GCACATTGTA
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:366823 original size:13 final size:13
Alignment explanation
Indices: 366805--366838 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
366795 AATGGGATAA
*
366805 TGTATCGATGTAT
1 TGTATCGATGCAT
366818 TGTATCGATGCAT
1 TGTATCGATGCAT
366831 TGTATCGA
1 TGTATCGA
366839 AACATTATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.41
Consensus pattern (13 bp):
TGTATCGATGCAT
Found at i:369623 original size:16 final size:17
Alignment explanation
Indices: 369598--369635 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
369588 TTGTGCTATA
* *
369598 ATCATGACATC-ATGAC
1 ATCATAACATCAATAAC
369614 ATCATAACATCAATAAC
1 ATCATAACATCAATAAC
369631 ATCAT
1 ATCAT
369636 TATTTGCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (17 bp):
ATCATAACATCAATAAC
Found at i:369839 original size:34 final size:34
Alignment explanation
Indices: 369738--370272 Score: 602
Period size: 34 Copynumber: 16.8 Consensus size: 34
369728 AAATACCTTC
* * *
369738 TCAAAGCCCACGACTCAGTGGCA--TT-TT-GTC
1 TCAAAGCCCACGACTCCGTGGCACCTTCTTCTTT
** * * * *
369768 TCAAAGTTCACGACTCAGTGGCA-TTTTTTTTTT
1 TCAAAGCCCACGACTCCGTGGCACCTTCTTCTTT
*
369801 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 TCAAAGCCCACGACTCCGTGGCACCTTCTTCTTT
*
369835 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 TCAAAGCCCACGACTCCGTGGCACCTTCTTCTTT
*
369869 TTAAAGCCCACGACTCCGTGGCA----C-TCTTT
1 TCAAAGCCCACGACTCCGTGGCACCTTCTTCTTT
369898 TCAAAGCCCACGACTCCGTGGCA-C-TC-T-TTT
1 TCAAAGCCCACGACTCCGTGGCACCTTCTTCTTT
* *
369928 T-AAATCCCATGACTCCGTGGCA-C-TC-T-TTT
1 TCAAAGCCCACGACTCCGTGGCACCTTCTTCTTT
*
369957 T-AAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 TCAAAGCCCACGACTCCGTGGCACCTTCTTCTTT
369990 TCAAAGCCCACGACTCCGTGGCA----C-TCTTT
1 TCAAAGCCCACGACTCCGTGGCACCTTCTTCTTT
370019 TCAAAGCCCACGACTCCGTGGCA-C-TC-T-TTT
1 TCAAAGCCCACGACTCCGTGGCACCTTCTTCTTT
370049 T-AAAGCCCACGACTCCGTGGCA-C-TC-T-TTT
1 TCAAAGCCCACGACTCCGTGGCACCTTCTTCTTT
370078 T-AAAGCCCACGACTCCGTGGCACCTTCTTCTTT
1 TCAAAGCCCACGACTCCGTGGCACCTTCTTCTTT
* *
370111 TTAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 TCAAAGCCCACGACTCCGTGGCACCTTCTTCTTT
*
370145 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 TCAAAGCCCACGACTCCGTGGCACCTTCTTCTTT
370179 TCAAAGCCCACGACTCCGTGGCACCTTCTTCTTT
1 TCAAAGCCCACGACTCCGTGGCACCTTCTTCTTT
* *
370213 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTT
1 TCAAAGCCCACGACTCCGTGGCACCTTCTTCT-TT
* * *
370248 T-AATGCCCACAACTCTGTGGCACCT
1 TCAAAGCCCACGACTCCGTGGCACCT
370273 ACAACTCCGT
Statistics
Matches: 459, Mismatches: 27, Indels: 34
0.88 0.05 0.07
Matches are distributed among these distances:
29 150 0.33
30 33 0.07
31 10 0.02
32 4 0.01
33 28 0.06
34 231 0.50
35 3 0.01
ACGTcount: A:0.21, C:0.35, G:0.15, T:0.30
Consensus pattern (34 bp):
TCAAAGCCCACGACTCCGTGGCACCTTCTTCTTT
Found at i:369963 original size:121 final size:121
Alignment explanation
Indices: 369797--370270 Score: 651
Period size: 121 Copynumber: 3.7 Consensus size: 121
369787 GGCATTTTTT
*
369797 TTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTT
1 TTTTT-AAAGCCCACGACTCCGTGGCA-C-TC-T-TTTT-AAAGCCCACAACTCCGTGGCACCTT
*
369862 CTTCTTTTTAAAGCCCACGACTCCGTGGCACTCTTTTCAAAGCCCACGACTCCGTGGCACTC
60 CTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTCAAAGCCCACGACTCCGTGGCACTC
* *
369924 TTTTTAAATCCCATGACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 TTTTTAAAGCCCACGACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
* *
369989 TTCAAAGCCCACGACTCCGTGGCACTCTTTTCAAAGCCCACGACTCCGTGGCACTC
66 TTTAAAGCCCACAACTCCGTGGCACTCTTTTCAAAGCCCACGACTCCGTGGCACTC
*
370045 TTTTTAAAGCCCACGACTCCGTGGCACTCTTTTTAAAGCCCACGACTCCGTGGCACCTTCTTCTT
1 TTTTTAAAGCCCACGACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
*
370110 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTC
66 TTTAAAGCCCACAACTCCGTGGCA----C-TCTTTTCAAAGCCCACGACTCCGTGGCA-C-TC
370173 TTCTTTTCAAAGCCCACGACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACC
1 -T-TTTT-AAAGCCCACGACTCCGTGGCA-C-TC-T-TTTT-AAAGCCCACAACTCCGTGGCACC
* * * *
370238 TTTTTCTGTTTAATGCCCACAACTCTGTGGCAC
58 TTCTTCTTTTTAAAGCCCACAACTCCGTGGCAC
370271 CTACAACTCC
Statistics
Matches: 317, Mismatches: 15, Indels: 25
0.89 0.04 0.07
Matches are distributed among these distances:
121 170 0.54
122 4 0.01
123 1 0.00
124 2 0.01
125 2 0.01
126 45 0.14
127 6 0.02
128 2 0.01
129 1 0.00
130 4 0.01
131 21 0.07
132 2 0.01
133 2 0.01
134 1 0.00
135 4 0.01
136 50 0.16
ACGTcount: A:0.20, C:0.36, G:0.14, T:0.30
Consensus pattern (121 bp):
TTTTTAAAGCCCACGACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
TTTAAAGCCCACAACTCCGTGGCACTCTTTTCAAAGCCCACGACTCCGTGGCACTC
Found at i:370322 original size:54 final size:51
Alignment explanation
Indices: 370222--370324 Score: 145
Period size: 54 Copynumber: 2.0 Consensus size: 51
370212 TTCAAAGCCC
* *
370222 ACAACTCCGTGGCACCTTTTTCTGTTTAATGCCCACAACTCTGTGGCACCT
1 ACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACCT
370273 ACAACTCCGTGGCACTCTTTTTCCCT-TTTCAAAGCCCACAACTCCGTGGCAC
1 ACAACTCCGTGGCAC-CTTTTT--CTGTTT-AAAGCCCACAACTCCGTGGCAC
370325 TTTTTTCTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
51 15 0.33
52 6 0.13
53 3 0.07
54 22 0.48
ACGTcount: A:0.20, C:0.36, G:0.15, T:0.29
Consensus pattern (51 bp):
ACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACCT
Found at i:370345 original size:33 final size:35
Alignment explanation
Indices: 370273--370416 Score: 188
Period size: 33 Copynumber: 4.1 Consensus size: 35
370263 TGTGGCACCT
370273 ACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCC
1 ACAACTCCGTGGCACTCTTTTT-CCTTTT-AAAGCCC
370310 ACAACTCCGTGGCACT-TTTTT-CTTTTAAAGCCC
1 ACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCC
*
370343 ACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCC
1 ACAACTCCGTGGCACTCTTTTT-CCTTTTAAAGCCC
* *
370378 ACAACTCCGTGGCA-TCTTTCTCCATTCCTAAAGCCC
1 ACAACTCCGTGGCACTCTTTTTCC-TT-TTAAAGCCC
370414 ACA
1 ACA
370417 CAAGTCGGTG
Statistics
Matches: 97, Mismatches: 4, Indels: 13
0.85 0.04 0.11
Matches are distributed among these distances:
33 25 0.26
34 18 0.19
35 20 0.21
36 18 0.19
37 16 0.16
ACGTcount: A:0.21, C:0.35, G:0.11, T:0.33
Consensus pattern (35 bp):
ACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCC
Found at i:370363 original size:35 final size:35
Alignment explanation
Indices: 370273--370416 Score: 186
Period size: 35 Copynumber: 4.1 Consensus size: 35
370263 TGTGGCACCT
370273 ACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCC
1 ACAACTCCGTGGCA-TCTTTTTCCCTTTT-AAAGCCC
*
370310 ACAACTCCGTGGCA-CTTTTT-TCTTTTAAAGCCC
1 ACAACTCCGTGGCATCTTTTTCCCTTTTAAAGCCC
*
370343 ACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCC
1 ACAACTCCGTGGCA-TCTTTTTCCCTTTTAAAGCCC
* * *
370378 ACAACTCCGTGGCATCTTTCTCCATTCCTAAAGCCC
1 ACAACTCCGTGGCATCTTTTTCCCTT-TTAAAGCCC
370414 ACA
1 ACA
370417 CAAGTCGGTG
Statistics
Matches: 95, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
33 21 0.22
34 15 0.16
35 32 0.34
36 13 0.14
37 14 0.15
ACGTcount: A:0.21, C:0.35, G:0.11, T:0.33
Consensus pattern (35 bp):
ACAACTCCGTGGCATCTTTTTCCCTTTTAAAGCCC
Found at i:370559 original size:52 final size:51
Alignment explanation
Indices: 370470--370903 Score: 483
Period size: 43 Copynumber: 9.0 Consensus size: 51
370460 GCAACCCTTC
* * *
370470 TAAGCCCACTATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTT-CATCTT
* *
370522 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TTTTCATCTT
* * *
370574 TAAGTACAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-TTT-ATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTT
*
370623 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA------C-T-TT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTT
* * *
370666 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTT
*
370715 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA------C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTT
370758 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA------C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTT
*
370801 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTT-CATCTT
* *
370853 TAAGTTCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CC-TTTTCATC
370904 ATCTTTAAGC
Statistics
Matches: 344, Mismatches: 19, Indels: 37
0.86 0.05 0.09
Matches are distributed among these distances:
43 121 0.35
44 1 0.00
45 1 0.00
47 1 0.00
48 1 0.00
49 80 0.23
50 4 0.01
52 121 0.35
53 10 0.03
54 4 0.01
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (51 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTT
Found at i:370729 original size:92 final size:91
Alignment explanation
Indices: 370572--370888 Score: 410
Period size: 92 Copynumber: 3.4 Consensus size: 91
370562 CTTTTTCATC
* * * *
370572 TTTAAGTACAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCAATGTAG
370637 CTGGCCTTGAATCAGCACATTGGCACT
65 CTGGCCTTGAATCAGCACATTGGCACT
* *
370664 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCAATGTAG
*
370729 CTGGCCTTGAATCAGCACATTGGCACC
65 CTGGCCTTGAATCAGCACATTGGCACT
*
370756 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---C--CTTTAAGTCCAATATAGC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATGTAGC
*
370816 TGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
66 TGGCCTTGAATCAGCACATTGGCA-------C-T
*
370850 CTTTAAGTTCAATATAGCTGGCCTTGAATCAGCACATTG
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
370889 ACATCCTTTT
Statistics
Matches: 202, Mismatches: 14, Indels: 15
0.87 0.06 0.06
Matches are distributed among these distances:
86 40 0.20
88 1 0.00
92 123 0.61
93 1 0.00
95 37 0.18
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (91 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATGTAGC
TGGCCTTGAATCAGCACATTGGCACT
Found at i:370757 original size:21 final size:21
Alignment explanation
Indices: 370733--370800 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
370723 ATGTAGCTGG
370733 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* * *
370754 CCTTTAAGTC--CA-ATATAGCTGG
1 CCTTGAA-TCAGCACAT-TGGC--A
370776 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
370797 CCTT
1 CCTT
370801 TAAGTCCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:370776 original size:24 final size:24
Alignment explanation
Indices: 370749--370819 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 24
370739 ATCAGCACAT
370749 TGGCACCTTTAAGTCCAATATAGC
1 TGGCACCTTTAAGTCCAATATAGC
* ** * *
370773 TGG--CCTTGAA-T-CAGCACA-T
1 TGGCACCTTTAAGTCCAATATAGC
370792 TGGCACCTTTAAGTCCAATATAGC
1 TGGCACCTTTAAGTCCAATATAGC
370816 TGGC
1 TGGC
370820 CTTGAATCAG
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 7 0.22
22 7 0.22
23 4 0.12
24 7 0.22
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (24 bp):
TGGCACCTTTAAGTCCAATATAGC
Found at i:370779 original size:22 final size:22
Alignment explanation
Indices: 370754--370822 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
370744 CACATTGGCA
370754 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
* * *
370776 CCTTGAA-TCAGCACAT-TGGC--A
1 CCTTTAAGTC--CA-ATATAGCTGG
370797 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
370819 CCTT
1 CCTT
370823 GAATCAGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
CCTTTAAGTCCAATATAGCTGG
Found at i:370996 original size:175 final size:170
Alignment explanation
Indices: 370795--371185 Score: 425
Period size: 170 Copynumber: 2.3 Consensus size: 170
370785 AGCACATTGG
* * *
370795 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTC
1 CACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTT--ATCTTTAAGTCC
* * *
370860 AATATAGCTGGCCTTG-A-ATCAGCACATTGACATCCTTTTTCATCATCTTT-AAGCCTAATATC
63 AATACAGCTAGCC--GCATATCAGCAC-TT-ACATCCTTTTTC-TCATCTTTGAA-CCCAATATC
* *
370922 ATTGGCCGTGAATCAACATATTGG-CATCTTT-ATCACTTTTC-TCATCTT
122 ATTGGCCGTGAATCAACATATTGGTC--CTTTCATCACTCTTCATCATCAT
* *
370970 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAAT
* ** * ** *
371035 ACCGCTAGCCGCATATTGGCTCTTTTATCCTTTTTCTCATCTTTGAACCCAATATCGTTGGCCGT
66 ACAGCTAGCCGCATATCAGCACTTACATCCTTTTTCTCATCTTTGAACCCAATATCATTGGCCGT
* *
371100 GAATCAACATATTGGTCCTTTCATCGCTCTTCATCCTCAT
131 GAATCAACATATTGGTCCTTTCATCACTCTTCATCATCAT
* * * * *
371140 CACCTTTAAGTCCAGTGTGGCAGGCCTTGAATCTGCACAATGGCAC
1 CACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
371186 ACTGCAAGAC
Statistics
Matches: 185, Mismatches: 25, Indels: 17
0.81 0.11 0.07
Matches are distributed among these distances:
168 4 0.02
169 47 0.25
170 59 0.32
171 3 0.02
172 26 0.14
174 3 0.02
175 43 0.23
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.35
Consensus pattern (170 bp):
CACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAAT
ACAGCTAGCCGCATATCAGCACTTACATCCTTTTTCTCATCTTTGAACCCAATATCATTGGCCGT
GAATCAACATATTGGTCCTTTCATCACTCTTCATCATCAT
Found at i:371758 original size:33 final size:33
Alignment explanation
Indices: 371721--371787 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
371711 TTCAACGATT
371721 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
371754 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
371787 T
1 T
371788 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:371759 original size:13 final size:13
Alignment explanation
Indices: 371741--371765 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
371731 CATAAAATGT
371741 TGTATCGATACAA
1 TGTATCGATACAA
371754 TGTATCGATACA
1 TGTATCGATACA
371766 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:371846 original size:13 final size:13
Alignment explanation
Indices: 371828--371852 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
371818 ATTACTCAAA
371828 TGTATCGATACAT
1 TGTATCGATACAT
371841 TGTATCGATACA
1 TGTATCGATACA
371853 CTGATCTTTG
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:371917 original size:52 final size:52
Alignment explanation
Indices: 371861--371985 Score: 216
Period size: 52 Copynumber: 2.4 Consensus size: 52
371851 CACTGATCTT
*
371861 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACA-TTTTATAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTA-AA
371913 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
371965 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
371986 GTTTTCATAT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
52 66 0.94
53 4 0.06
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:378693 original size:14 final size:14
Alignment explanation
Indices: 378674--378700 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
378664 AATAGTCAAA
378674 AGTAAAAAAAAAAG
1 AGTAAAAAAAAAAG
378688 AGTAAAAAAAAAA
1 AGTAAAAAAAAAA
378701 CGCGAAGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.07
Consensus pattern (14 bp):
AGTAAAAAAAAAAG
Found at i:379014 original size:1 final size:1
Alignment explanation
Indices: 378937--379007 Score: 52
Period size: 1 Copynumber: 71.0 Consensus size: 1
378927 GTTTTTTTCC
* * * * * * * * * *
378937 AAAAAAAGAAACAAAACAAAAAAGAAAAAAAGAAGAAACAAAAAAAAAGACAAAAAAAAAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
379002 AAAAAA
1 AAAAAA
379008 CGAAAAACCC
Statistics
Matches: 50, Mismatches: 20, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.86, C:0.06, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:379845 original size:16 final size:17
Alignment explanation
Indices: 379820--379857 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
379810 TTGTGCTATA
* *
379820 ATCATGACATC-ATGAC
1 ATCATAACATCAATAAC
379836 ATCATAACATCAATAAC
1 ATCATAACATCAATAAC
379853 ATCAT
1 ATCAT
379858 TATTTGCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (17 bp):
ATCATAACATCAATAAC
Found at i:380059 original size:34 final size:34
Alignment explanation
Indices: 380019--380525 Score: 653
Period size: 34 Copynumber: 15.8 Consensus size: 34
380009 GGCATTTTTT
380019 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
1 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
380053 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
1 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
* *
380087 TTTTTAAAGCCCACGACTCCGTGGCA----C-TC
1 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
*
380116 TTTTCAAAGCCCACGACTCCGTGGCA-C-TC-T-
1 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
**
380146 TTTT-AAAGCCCATGACTCCGTGGCA-C-TC-T-
1 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
380175 TTTT-AAAGCCCACAACTCCGTGGCACCTTCTTC
1 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
*
380208 TTTTCAAAGCCCACGACTCCGTGGCA----C-TC
1 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
*
380237 TTTTCAAAGCCCACGACTCCGTGGCA-C-TC-T-
1 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
*
380267 TTTT-AAAGCCCACGACTCCGTGGCA-C-TC-T-
1 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
*
380296 TTTT-AAAGCCCACGACTCCGTGGCACCTTCTTC
1 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
*
380329 TTTTTAAAGCCCACAACTCCGTGGCACCTTCTTC
1 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
380363 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
1 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
380397 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
1 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
* *
380431 TTTTCAAAGCCCACGACTCCGTGGCACCTTCTTT
1 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
*
380465 TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC
1 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
* *
380499 TGTTT-AATGCCCACAACTCTGTGGCAC
1 T-TTTCAAAGCCCACAACTCCGTGGCAC
380526 GTACAACTCC
Statistics
Matches: 442, Mismatches: 16, Indels: 30
0.91 0.03 0.06
Matches are distributed among these distances:
29 152 0.34
30 12 0.03
31 8 0.02
32 2 0.00
33 8 0.02
34 257 0.58
35 3 0.01
ACGTcount: A:0.20, C:0.36, G:0.14, T:0.29
Consensus pattern (34 bp):
TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
Found at i:380127 original size:29 final size:30
Alignment explanation
Indices: 379960--380498 Score: 493
Period size: 34 Copynumber: 17.1 Consensus size: 30
379950 AAATACCTTC
*
379960 TCAAAGCCCACGACTCAGTGGCAT-T-TTGT
1 TCAAAGCCCACGACTCCGTGGCATCTCTT-T
** * * *
379989 CTCAAAGTTCACGACTCAGTGGCATTTTTTTTT
1 -TCAAAGCCCACGACTCCGTGGCA--TCTCTTT
*
380022 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 TCAAAGCCCACGACTCCGTGGCA---TC-TCTTT
*
380056 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 TCAAAGCCCACGACTCCGTGGCA---TC-TCTTT
*
380090 TTAAAGCCCACGACTCCGTGGCA-CTCTTT
1 TCAAAGCCCACGACTCCGTGGCATCTCTTT
380119 TCAAAGCCCACGACTCCGTGGCA-CTCTTT
1 TCAAAGCCCACGACTCCGTGGCATCTCTTT
* *
380148 TTAAAGCCCATGACTCCGTGGCA-CTCTTT
1 TCAAAGCCCACGACTCCGTGGCATCTCTTT
* *
380177 TTAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 TCAAAGCCCACGACTCCGTGGCA---TC-TCTTT
380211 TCAAAGCCCACGACTCCGTGGCA-CTCTTT
1 TCAAAGCCCACGACTCCGTGGCATCTCTTT
380240 TCAAAGCCCACGACTCCGTGGCA-CTCTTT
1 TCAAAGCCCACGACTCCGTGGCATCTCTTT
*
380269 TTAAAGCCCACGACTCCGTGGCA-CTCTTT
1 TCAAAGCCCACGACTCCGTGGCATCTCTTT
*
380298 TTAAAGCCCACGACTCCGTGGCACCTTCTTCTTT
1 TCAAAGCCCACGACTCCGTGGCA---TC-TCTTT
* *
380332 TTAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 TCAAAGCCCACGACTCCGTGGCA---TC-TCTTT
*
380366 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 TCAAAGCCCACGACTCCGTGGCA---TC-TCTTT
*
380400 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 TCAAAGCCCACGACTCCGTGGCA---TC-TCTTT
*
380434 TCAAAGCCCACGACTCCGTGGCACCTTCTTTTTT
1 TCAAAGCCCACGACTCCGTGGCA---TC-TCTTT
* *
380468 TCAAAGCCCACAACTCCGTGGCACCT-TTT
1 TCAAAGCCCACGACTCCGTGGCATCTCTTT
380497 TC
1 TC
380499 TGTTTAATGC
Statistics
Matches: 468, Mismatches: 25, Indels: 33
0.89 0.05 0.06
Matches are distributed among these distances:
29 171 0.37
30 24 0.05
31 1 0.00
32 20 0.04
33 6 0.01
34 246 0.53
ACGTcount: A:0.21, C:0.35, G:0.15, T:0.30
Consensus pattern (30 bp):
TCAAAGCCCACGACTCCGTGGCATCTCTTT
Found at i:380197 original size:121 final size:128
Alignment explanation
Indices: 379962--380496 Score: 690
Period size: 121 Copynumber: 4.2 Consensus size: 128
379952 ATACCTTCTC
* * ** * * *
379962 AAAGCCCACGACTCAGTGGCA-TTTTGTCTCAAAGTTCACGACTCAGTGGCATTTTTTTTTTCAA
1 AAAGCCCACGACTCCGTGGCACTCTT-T-TCAAAGCCCACGACTCCGTGGCA-TCTCTTTTTCAA
380026 AGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
63 AGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
380091 T
128 T
380092 AAAGCCCACGACTCCGTGGCACTCTTTTCAAAGCCCACGACTCCGTGGCA-CTCTTTTT-AAAGC
1 AAAGCCCACGACTCCGTGGCACTCTTTTCAAAGCCCACGACTCCGTGGCATCTCTTTTTCAAAGC
** *
380155 CCATGACTCCGTGGCA-C-TC-T-TTTT-AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
66 CCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTT
380213 AAAGCCCACGACTCCGTGGCACTCTTTTCAAAGCCCACGACTCCGTGGCA-CTCTTTTT-AAAGC
1 AAAGCCCACGACTCCGTGGCACTCTTTTCAAAGCCCACGACTCCGTGGCATCTCTTTTTCAAAGC
* *
380276 CCACGACTCCGTGGCA-C-TC-T-TTTT-AAAGCCCACGACTCCGTGGCACCTTCTTCTTTTT
66 CCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTT
* * *
380334 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 AAAGCCCACGACTCCGTGGCA----C-TCTTTTCAAAGCCCACGACTCCGTGGCATC-TC-T-TT
*
380399 TTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACGACTCCGTGGCACCTTCTT
58 TTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTT
380464 -TTTTT
123 CTTTTT
*
380469 CAAAGCCCACAACTCCGTGGCAC-CTTTT
1 -AAAGCCCACGACTCCGTGGCACTCTTTT
380497 TCTGTTTAAT
Statistics
Matches: 372, Mismatches: 16, Indels: 34
0.88 0.04 0.08
Matches are distributed among these distances:
121 171 0.46
122 4 0.01
123 1 0.00
124 2 0.01
125 2 0.01
126 46 0.12
127 7 0.02
128 2 0.01
129 21 0.06
130 30 0.08
131 23 0.06
132 2 0.01
133 2 0.01
134 1 0.00
135 9 0.02
136 49 0.13
ACGTcount: A:0.21, C:0.35, G:0.15, T:0.30
Consensus pattern (128 bp):
AAAGCCCACGACTCCGTGGCACTCTTTTCAAAGCCCACGACTCCGTGGCATCTCTTTTTCAAAGC
CCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTT
Found at i:380512 original size:68 final size:62
Alignment explanation
Indices: 379962--380496 Score: 608
Period size: 68 Copynumber: 8.5 Consensus size: 62
379952 ATACCTTCTC
* * * ** * *
379962 AAAGCCCACGACTCAGTGGCA-TTTTGTCTCAAAGTTCACGACTCAGTGGCA--TTTTTTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTT-T-TCAAAGCCCACGACTCCGTGGCACCTTCTTTTTTT
*
380023 CAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCT
1 -AAAGCCCACAACTCCGTGGCA----C-TCTTTTCAAAGCCCACGACTCCGTGGCACCTTCTT-T
380088 TTTT
59 TTTT
*
380092 AAAGCCCACGACTCCGTGGCACTCTTTTCAAAGCCCACGACTCCGTGGCA-C-TC--TTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTCAAAGCCCACGACTCCGTGGCACCTTCTTTTTTT
** * * *
380150 AAAGCCCATGACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTCAAAGCCCACGACTCCGTGGCACCTTCTT-TTTTT
*
380213 AAAGCCCACGACTCCGTGGCACTCTTTTCAAAGCCCACGACTCCGTGGCA-C-TC--TTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTCAAAGCCCACGACTCCGTGGCACCTTCTTTTTTT
* *
380271 AAAGCCCACGACTCCGTGGCACTCTTTTTAAAGCCCACGACTCCGTGGCACCTTCTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTCAAAGCCCACGACTCCGTGGCACCTTCTT-TTTTT
*
380334 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 AAAGCCCACAACTCCGTGGCA----C-TCTTTTCAAAGCCCACGACTCCGTGGCACCTTCTT-TT
*
380399 TTC
60 TTT
380402 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACGACTCCGTGGCACCTTCTTTTT
1 AAAGCCCACAACTCCGTGGCA----C-TCTTTTCAAAGCCCACGACTCCGTGGCACCTTCTTTTT
380467 TT
61 TT
380469 CAAAGCCCACAACTCCGTGGCAC-CTTTT
1 -AAAGCCCACAACTCCGTGGCACTCTTTT
380497 TCTGTTTAAT
Statistics
Matches: 423, Mismatches: 25, Indels: 50
0.85 0.05 0.10
Matches are distributed among these distances:
58 105 0.25
59 2 0.00
60 4 0.01
61 4 0.01
62 26 0.06
63 103 0.24
64 2 0.00
66 19 0.04
67 6 0.01
68 147 0.35
69 5 0.01
ACGTcount: A:0.21, C:0.35, G:0.15, T:0.30
Consensus pattern (62 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTCAAAGCCCACGACTCCGTGGCACCTTCTTTTTTT
Found at i:380575 original size:54 final size:51
Alignment explanation
Indices: 380477--380579 Score: 154
Period size: 54 Copynumber: 2.0 Consensus size: 51
380467 TTCAAAGCCC
*
380477 ACAACTCCGTGGCACCTTTTTCTGTTTAATGCCCACAACTCTGTGGCACGT
1 ACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCTGTGGCACGT
380528 ACAACTCCGTGGCACTCTTTTTCCCT-TTTCAAAGCCCACAACTCTGTGGCAC
1 ACAACTCCGTGGCAC-CTTTTT--CTGTTT-AAAGCCCACAACTCTGTGGCAC
380580 TTTTTTCTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
51 15 0.32
52 6 0.13
53 3 0.06
54 23 0.49
ACGTcount: A:0.20, C:0.34, G:0.16, T:0.30
Consensus pattern (51 bp):
ACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCTGTGGCACGT
Found at i:380600 original size:33 final size:35
Alignment explanation
Indices: 380528--380671 Score: 170
Period size: 33 Copynumber: 4.1 Consensus size: 35
380518 TGTGGCACGT
380528 ACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCC
1 ACAACTCCGTGGCACTCTTTTT-CCTTTT-AAAGCCC
*
380565 ACAACTCTGTGGCACT-TTTTT-CTTTTAAAGCCC
1 ACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCC
*
380598 ACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCC
1 ACAACTCCGTGGCACTCTTTTT-CCTTTTAAAGCCC
* * *
380633 ACAACTCCATGGCA-TCTTTCTCCATTCCTAAAGCCC
1 ACAACTCCGTGGCACTCTTTTTCC-TT-TTAAAGCCC
380669 ACA
1 ACA
380672 CAAGTCGGTG
Statistics
Matches: 94, Mismatches: 7, Indels: 13
0.82 0.06 0.11
Matches are distributed among these distances:
33 24 0.26
34 18 0.19
35 19 0.20
36 18 0.19
37 15 0.16
ACGTcount: A:0.22, C:0.35, G:0.10, T:0.33
Consensus pattern (35 bp):
ACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCC
Found at i:380618 original size:35 final size:35
Alignment explanation
Indices: 380528--380671 Score: 168
Period size: 35 Copynumber: 4.1 Consensus size: 35
380518 TGTGGCACGT
380528 ACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCC
1 ACAACTCCGTGGCA-TCTTTTTCCCTTTT-AAAGCCC
* *
380565 ACAACTCTGTGGCA-CTTTTT-TCTTTTAAAGCCC
1 ACAACTCCGTGGCATCTTTTTCCCTTTTAAAGCCC
*
380598 ACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCC
1 ACAACTCCGTGGCA-TCTTTTTCCCTTTTAAAGCCC
* * * *
380633 ACAACTCCATGGCATCTTTCTCCATTCCTAAAGCCC
1 ACAACTCCGTGGCATCTTTTTCCCTT-TTAAAGCCC
380669 ACA
1 ACA
380672 CAAGTCGGTG
Statistics
Matches: 92, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
33 20 0.22
34 15 0.16
35 31 0.34
36 13 0.14
37 13 0.14
ACGTcount: A:0.22, C:0.35, G:0.10, T:0.33
Consensus pattern (35 bp):
ACAACTCCGTGGCATCTTTTTCCCTTTTAAAGCCC
Found at i:380646 original size:122 final size:119
Alignment explanation
Indices: 380409--380646 Score: 322
Period size: 122 Copynumber: 2.0 Consensus size: 119
380399 TTCAAAGCCC
*
380409 ACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACGACTCCGTGGCACCTTCTTTTTTTCAAAG
1 ACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTTTTTTCAAAG
**
380474 CCCACAACTCCGTGGCACCTTTTTCTGTTTAATGCCCACAACTCTGTGGCACGT
66 CCCACAACTCCGTGGCACCTTTTTCTGTTTAATGCCCACAACTCCATGGCACGT
* * *
380528 ACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCTGTGGCA-CTT-TTTTCTTTT
1 ACAACTCCGTGGCAC-CTTCTT--CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTTT-TTTC
*
380591 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCT-TTTAA-GTCCACAACTCCATGGCA
62 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTGTTTAATGCCCACAACTCCATGGCA
380647 TCTTTCTCCA
Statistics
Matches: 105, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
119 15 0.14
120 9 0.09
121 28 0.27
122 46 0.44
123 5 0.05
124 2 0.02
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (119 bp):
ACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTTTTTTCAAAG
CCCACAACTCCGTGGCACCTTTTTCTGTTTAATGCCCACAACTCCATGGCACGT
Found at i:380699 original size:33 final size:35
Alignment explanation
Indices: 380657--380725 Score: 115
Period size: 33 Copynumber: 2.0 Consensus size: 35
380647 TCTTTCTCCA
*
380657 TTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTTC
1 TTCCTAAAGCCCACACAAGTCAGTGGCAACCCTTC
380691 TTCC-AAAGCCCACACAAGTCAGTGGCAACCCTTC
1 TTCCTAAAGCCCACACAAGTCAGTGGCAACCCTTC
380725 T
1 T
380726 AAGCCCACTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
33 23 0.70
34 10 0.30
ACGTcount: A:0.28, C:0.36, G:0.16, T:0.20
Consensus pattern (35 bp):
TTCCTAAAGCCCACACAAGTCAGTGGCAACCCTTC
Found at i:380938 original size:43 final size:43
Alignment explanation
Indices: 380876--381192 Score: 409
Period size: 43 Copynumber: 7.1 Consensus size: 43
380866 CACCTTTATC
*
380876 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACT
* *
380919 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C-T
* * *
380967 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACT
* *
381011 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C-T
* *
381059 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACT
*
381103 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACT
*
381146 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CT
381190 TTT
1 TTT
381193 CCATCTTTAA
Statistics
Matches: 241, Mismatches: 20, Indels: 25
0.84 0.07 0.09
Matches are distributed among these distances:
43 157 0.65
44 4 0.02
45 2 0.01
47 2 0.01
48 1 0.00
49 75 0.31
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (43 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACT
Done.