Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold492
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: 781693
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:596181 original size:10 final size:10
Alignment explanation
Indices: 596163--596273 Score: 93
Period size: 10 Copynumber: 10.8 Consensus size: 10
596153 CATCCTCCGT
596163 AAAAA-AAAA
1 AAAAACAAAA
596172 AAAAACAAAA
1 AAAAACAAAA
*
596182 CAAAACAAAA
1 AAAAACAAAA
* * *
596192 AAAGAGACAA
1 AAAAACAAAA
596202 AAAAACAAAA
1 AAAAACAAAA
*
596212 TAAAACAAAA
1 AAAAACAAAA
596222 TAAAAA-AACAA
1 -AAAAACAA-AA
596233 AGTAAAA-AAAA
1 A--AAAACAAAA
*
596244 ACAAAGCAAAA
1 A-AAAACAAAA
596255 AAAAACAAAA
1 AAAAACAAAA
596265 AAACAACAA
1 AAA-AACAA
596274 CGAAAAGGGT
Statistics
Matches: 82, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
9 5 0.06
10 52 0.63
11 19 0.23
12 6 0.07
ACGTcount: A:0.83, C:0.11, G:0.04, T:0.03
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:597736 original size:28 final size:28
Alignment explanation
Indices: 597696--597886 Score: 233
Period size: 28 Copynumber: 6.8 Consensus size: 28
597686 CCTCTCCTTC
597696 TAAAGCCCACAAGTCAGTGGCACATTTT
1 TAAAGCCCACAAGTCAGTGGCACATTTT
*
597724 TAAAGCCCACAAGTTAGTGGCACATTTT
1 TAAAGCCCACAAGTCAGTGGCACATTTT
*
597752 TAAAAAGCCCACAAGTCAGTGGCACATTTC
1 T--AAAGCCCACAAGTCAGTGGCACATTTT
*
597782 TAAAGCCCACAAGTCAGTGGCACCTTTT
1 TAAAGCCCACAAGTCAGTGGCACATTTT
* *
597810 CAAAGCCCACAAGTCAGTGGCATC-TCTT
1 TAAAGCCCACAAGTCAGTGGCA-CATTTT
* * **
597838 CAAAGCCCACAAGACAGTGGCA-ACCTT
1 TAAAGCCCACAAGTCAGTGGCACATTTT
* * *
597865 CAAAGCCCATAAGACAGTGGCA
1 TAAAGCCCACAAGTCAGTGGCA
597887 ACCTTTAAAA
Statistics
Matches: 149, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
27 24 0.16
28 98 0.66
29 1 0.01
30 26 0.17
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (28 bp):
TAAAGCCCACAAGTCAGTGGCACATTTT
Found at i:597787 original size:58 final size:56
Alignment explanation
Indices: 597697--597932 Score: 239
Period size: 58 Copynumber: 4.2 Consensus size: 56
597687 CTCTCCTTCT
* * *
597697 AAAGCCCACAAGTCAGTGGCACATTTTTAAAGCCCACAAGTTAGTGGCACATTTTTAA
1 AAAGCCCACAAGTCAGTGGCACATTTCTAAAGCCCACAAGTCAGTGGCAC-CTTTT-A
*
597755 AAAGCCCACAAGTCAGTGGCACATTTCTAAAGCCCACAAGTCAGTGGCACCTTTTC
1 AAAGCCCACAAGTCAGTGGCACATTTCTAAAGCCCACAAGTCAGTGGCACCTTTTA
* *
597811 AAAGCCCACAAGTCAGTGGCATC-TCTTC-AAAGCCCACAAGACAGTGGCAACC--TTC
1 AAAGCCCACAAGTCAGTGGCA-CAT-TTCTAAAGCCCACAAGTCAGTGGC-ACCTTTTA
* * * * * ** **
597866 AAAGCCCATAAGACAGTGGCAACCTTT-AAAAGCACACAAGTTGGTGTAACCCTTTTA
1 AAAGCCCACAAGTCAGTGGC-ACATTTCTAAAGCCCACAAGTCAGTGGCA-CCTTTTA
597923 AAAGCCCACA
1 AAAGCCCACA
597933 CAAGTTGGTG
Statistics
Matches: 154, Mismatches: 15, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
54 1 0.01
55 40 0.26
56 43 0.28
57 22 0.14
58 48 0.31
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (56 bp):
AAAGCCCACAAGTCAGTGGCACATTTCTAAAGCCCACAAGTCAGTGGCACCTTTTA
Found at i:598016 original size:49 final size:49
Alignment explanation
Indices: 597944--599052 Score: 1210
Period size: 49 Copynumber: 22.8 Consensus size: 49
597934 AAGTTGGTGG
*
597944 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
597993 TAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCA-CTATCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT-TCATCTT
* ** * * *
598042 TAAGTTCAATATCATTGGCCTTGAATCAGCATATTGGTACCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * **
598091 TAAGTTCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTTGTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
598140 TAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* **
598183 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
598232 TAA-TACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-T-A----
1 TAAGT-CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
598275 TAAGTCTAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
598324 TAAGACCAATGTCGCTGGCCTTGAATCAGAACATTGGCA----C--CTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* **
598367 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
598416 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
598459 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTATCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTT
* * * * **
598511 TAAGTCTAATGTCACTGACCTTGAATCAGCACATTGGCACCTTTGTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
598560 T-AGTACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGT-CCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
598609 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAACTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * ***
598658 GAAGTCCAATATCGCTAGCCTTGAATTAGCATATTGGCTTTTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGC--ACCT-TCATCTT
* *
598710 TAAGTCCAATGTCGCTGGCTTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * * *
598759 TAAATCCAATATCGCTGGTCTTAAATCAGCATAGTGGCGCCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTT
* *
598811 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
598860 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTT
* *
598912 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
598961 TAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-T--TCATCTT
** * *
599013 TAAAACCCAATTTCGTTGGCCTTGAATCAGCACATTGGCA
1 T-AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
599053 TTTTTCTCGT
Statistics
Matches: 898, Mismatches: 116, Indels: 88
0.81 0.11 0.08
Matches are distributed among these distances:
43 149 0.17
44 2 0.00
45 1 0.00
48 7 0.01
49 523 0.58
50 11 0.01
51 3 0.00
52 170 0.19
53 32 0.04
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:598790 original size:101 final size:101
Alignment explanation
Indices: 597944--599052 Score: 1397
Period size: 101 Copynumber: 11.4 Consensus size: 101
597934 AAGTTGGTGG
* * * *
597944 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATGTTGCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
* * *
598009 GGCCTTGAATCAGCACATTGGCA-C--TATCACCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * ** * * * *
598042 TAAGTTCAATATCATTGGCCTTGAATCAGCATATTGGTACCTTTATCTTTAAGTTCAATATCGCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
*
598107 GGCCTTGAATCAGCATATTGGCACATTTG---TCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* *
598140 TAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
598199 GGCCTTGAATCAGCATATTGGCACCTTTG---TCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
*
598232 TAA-TACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-T-A----TAAGTCTAATATCGC
1 TAAGT-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGC
*
598290 TGGCCTTGAATTAGCATATTGGCACC-TT-T-ATCTT
65 TGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* *
598324 TAAGACCAATGTCGCTGGCCTTGAATCAGAACATTGGCA----C--CTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
598383 GGCCTTGAATCAGCATATTGGCACCTTTG---TCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
*
598416 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
* *
598475 GGCCTTGAATCAGCATATTGGCGCCTTTATCATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * * ** *
598511 TAAGTCTAATGTCACTGACCTTGAATCAGCACATTGGCACCTTTGTCTTT-AGTACCAATGTCGC
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT-CCAATATCGC
*
598575 TGGCCTTGAATCAGCACATTGGCACC--T-TCATCTT
65 TGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* *
598609 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCAACTTGAAGTCCAATATCGCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
* * ***
598674 AGCCTTGAATTAGCATATTGGCTTTTTTGTCATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* *
598710 TAAGTCCAATGTCGCTGGCTTTGAATCAGCACATTGGCACCTTCATCTTTAAATCCAATATCGCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
* * * *
598775 GGTCTTAAATCAGCATAGTGGCGCCTTTGTCATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
*
598811 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
*
598876 GGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* *
598912 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAGTATCGCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
*
598977 GGCCTTGAATCAGCATATTGGCACCTTCGTCATCTT
66 GGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
** * *
599013 TAAAACCCAATTTCGTTGGCCTTGAATCAGCACATTGGCA
1 T-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
599053 TTTTTCTCGT
Statistics
Matches: 893, Mismatches: 86, Indels: 60
0.86 0.08 0.06
Matches are distributed among these distances:
91 2 0.00
92 293 0.33
93 2 0.00
95 39 0.04
98 190 0.21
99 4 0.00
100 4 0.00
101 326 0.37
102 33 0.04
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (101 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
GGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
Found at i:599730 original size:21 final size:20
Alignment explanation
Indices: 599702--599740 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
599692 CATATTTTTG
599702 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
599722 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
599741 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:600816 original size:21 final size:22
Alignment explanation
Indices: 600783--600823 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
600773 CCATGTTAAC
600783 AGCTCATGATTCATGCATTTTG
1 AGCTCATGATTCATGCATTTTG
*
600805 AGCT-ATGTTTCATGCATTT
1 AGCTCATGATTCATGCATTT
600824 ACAGCATGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (22 bp):
AGCTCATGATTCATGCATTTTG
Found at i:606263 original size:19 final size:19
Alignment explanation
Indices: 606239--606299 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
606229 TTTCAGCGAT
606239 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
606258 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
606272 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
606290 TTGTATCGAT
1 TTGTATCGAT
606300 GTAATGTATC
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.31
15 2 0.06
17 2 0.06
19 21 0.58
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:606276 original size:32 final size:32
Alignment explanation
Indices: 606240--606310 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
606230 TTCAGCGATT
606240 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
**
606272 TGTATCGATACATAAGTGTTGTATCGATGTAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
606304 TGTATCG
1 TGTATCG
606311 CTAAAGCTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:606277 original size:13 final size:13
Alignment explanation
Indices: 606259--606283 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
606249 ACATAAGTGT
606259 TGTATCGATACAA
1 TGTATCGATACAA
606272 TGTATCGATACA
1 TGTATCGATACA
606284 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:606370 original size:13 final size:13
Alignment explanation
Indices: 606352--606377 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
606342 CATTATTCCA
606352 TGTATCGATACAT
1 TGTATCGATACAT
606365 TGTATCGATACAT
1 TGTATCGATACAT
606378 GGATCTTTGT
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:608826 original size:51 final size:52
Alignment explanation
Indices: 608771--608871 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 52
608761 TTCCGTCTCT
* * *
608771 GATTTTATTTTC-AAAACACTAA-TTTTCTATAATCGGGGATACCCCAACATC
1 GATTTTATTTCCAAAAACACCAATTTTTC-ACAATCGGGGATACCCCAACATC
*
608822 GATTTTATTTCCAAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
1 GATTTTATTTCC-AAAAACACCAATTTTTCACAATCGGGGATACCCCAAC
608872 CCCGTTAATC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
51 11 0.26
53 27 0.63
54 5 0.12
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (52 bp):
GATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACCCCAACATC
Found at i:608889 original size:27 final size:28
Alignment explanation
Indices: 608859--608928 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
608849 TTCACAATCG
**
608859 GGGATACTCCAACCCCGTTA-ATCATCA
1 GGGATACTCCAACCCCGTTATATCAGAA
* *
608886 GGGATACTCCAACCCCGTTATTTCCGAA
1 GGGATACTCCAACCCCGTTATATCAGAA
608914 GGGATACTCCAACCC
1 GGGATACTCCAACCC
608929 TGGCTTCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 20 0.53
28 18 0.47
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.21
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTTATATCAGAA
Found at i:609039 original size:52 final size:53
Alignment explanation
Indices: 608960--609059 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 53
608950 GATTTCTCAC
* ** *
608960 AATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCTTT
1 AATCAGGGATACTCCAACCCCAATTTTATTTCCAAAAACACCAATTTTCCTTT
* *
609012 AATCAGGGATACTCCAGCTCCAATTTTATTTCCAAAAACACCAATTTT
1 AATCAGGGATACTCCAACCCCAATTTTATTTCCAAAAACACCAATTTT
609060 TTTCACAATC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
52 27 0.66
53 14 0.34
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (53 bp):
AATCAGGGATACTCCAACCCCAATTTTATTTCCAAAAACACCAATTTTCCTTT
Found at i:609183 original size:213 final size:210
Alignment explanation
Indices: 608773--609194 Score: 598
Period size: 213 Copynumber: 2.0 Consensus size: 210
608763 CCGTCTCTGA
* * *
608773 TTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACCCCAACATCGATTTTATTTCCAAAA
1 TTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATACCCCAACATCAATTTTATTTCCAAAA
*
608838 AACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTAATCATCAGGGATACTCCAACCCCG
66 AACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTAATCATCAGGGATACTCCAACCCCG
** *
608903 TTATTTCCGAAGGGATACTCCAACCCTGGCTTCATTTCCAAAATATTGATTTCTCACAATCGGGG
131 TTACCTCCGAAGGGATACTCCAACCCTGGCTTCATTCCCAAAATATTGATTTCTCACAATCGGGG
608968 ATACTCCAACCCCGG
196 ATACTCCAACCCCGG
* * *
608983 TTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACTCCAGC-TCCAATTTTATTTCC-A
1 TTTTATTTTCAAAACACCAATTTT-CTATAATCAGGGATACCCCAACAT-CAATTTTATTTCCAA
* * *
609046 AAAACACCAATTTTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAA
64 AAAACACCAA--TTTTTCACAATCGAGGATACTCCAACCCCGTTA-ATCATCAGGGATACTCCAA
* * * **
609111 CCCCGTTACCTCCGAGGGGATACTCTAA-CCTCGGCTTTATTCCCAAAATATTGATTTCTCTTAA
126 CCCCGTTACCTCCGAAGGGATACTCCAACCCT-GGCTTCATTCCCAAAATATTGATTTCTCACAA
*
609175 TTGGGGATACTCCAACCCCG
190 TCGGGGATACTCCAACCCCG
609195 TTATTTCCGA
Statistics
Matches: 187, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
210 35 0.19
211 30 0.16
212 34 0.18
213 88 0.47
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (210 bp):
TTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATACCCCAACATCAATTTTATTTCCAAAA
AACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTAATCATCAGGGATACTCCAACCCCG
TTACCTCCGAAGGGATACTCCAACCCTGGCTTCATTCCCAAAATATTGATTTCTCACAATCGGGG
ATACTCCAACCCCGG
Found at i:611631 original size:163 final size:164
Alignment explanation
Indices: 611197--611672 Score: 595
Period size: 161 Copynumber: 2.9 Consensus size: 164
611187 CGAAAGTATT
* * * *
611197 AATTCAATTTTATTTTATTTATTTTCGAAAATACCATTTTATACCCTAATGGAAGCCCGAAAGGA
1 AATTTAATTTTATTTTATTTATTTTTGAAAATACCATTTAATACCCTAATGGAAGCCC-AAAGAA
** * * * * * * *
611262 TATAAAAAATTTTTGAAATCTTTTATA-CCCTATGAATGCCCATAAGAATATCAAAGATTA-AAA
65 TACGAAAAGTTTTTGAAATCTTTTATACCCCTACGGATGCTCATAGGAATATAAAAAATTAGAAA
* * *
611325 AAGATAAATATTAG---AATTTATCCTAATAATACC
130 AAAATAAATATT-GTTTAATTTAACCCAATAATACC
* * * ** *
611358 AATTTAAGTTAATTTTATTTATTCTTGAAAATACCATTTCGTACCCTAATGGAAGCTCGAAAGAA
1 AATTTAATTTTATTTTATTTATTTTTGAAAATACCATTTAATACCCTAATGGAAGC-CCAAAGAA
* * *
611423 TACGAAAGGTTTTTGAAATATTTTATACCCCTACGGATGCTCATAGGAATATAAAATATTAGAAA
65 TACGAAAAGTTTTTGAAATCTTTTATACCCCTACGGATGCTCATAGGAATATAAAAAATTAGAAA
*
611488 AAAATAAATATTGTTTAATTTAACCCAATCATACC
130 AAAATAAATATTGTTTAATTTAACCCAATAATACC
* * * *
611523 AATTTAATTTTATTTTATTTCTTTTTGAAAATATCATTTAATACCTTAATGAAAGCCCAAAGAAT
1 AATTTAATTTTATTTTATTTATTTTTGAAAATACCATTTAATACCCTAATGGAAGCCCAAAGAAT
*
611588 ACGAAAAGTTTTT-AAATCTTTTATACCCCTACGGATACTCATAGGAATATAAAAAATTAGGAAA
66 ACGAAAAGTTTTTGAAATCTTTTATACCCCTACGGATGCTCATAGGAATATAAAAAATTA-GAAA
611652 AAAATAAATATTGTTTAATTT
130 AAAATAAATATTGTTTAATTT
611673 TACCACTAAG
Statistics
Matches: 270, Mismatches: 38, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
161 76 0.28
162 29 0.11
163 57 0.21
164 45 0.17
165 63 0.23
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (164 bp):
AATTTAATTTTATTTTATTTATTTTTGAAAATACCATTTAATACCCTAATGGAAGCCCAAAGAAT
ACGAAAAGTTTTTGAAATCTTTTATACCCCTACGGATGCTCATAGGAATATAAAAAATTAGAAAA
AAATAAATATTGTTTAATTTAACCCAATAATACC
Found at i:614027 original size:21 final size:21
Alignment explanation
Indices: 613998--614040 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
613988 ATATATATTT
*
613998 ATATTTAAATA-TAATTATAAA
1 ATATATAAATATTAA-TATAAA
614019 ATATATAAATATTAATATAAA
1 ATATATAAATATTAATATAAA
614040 A
1 A
614041 GTAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATATAAATATTAATATAAA
Found at i:615090 original size:29 final size:29
Alignment explanation
Indices: 615048--615103 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
615038 AGTAATAGAG
*
615048 AAATAATAATATTTTGATAATATATTTCA
1 AAATAATAATATTTTGATAATAAATTTCA
*
615077 AAATAATGATATTTTGATAATAAATTT
1 AAATAATAATATTTTGATAATAAATTT
615104 AAATATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (29 bp):
AAATAATAATATTTTGATAATAAATTTCA
Found at i:615365 original size:20 final size:20
Alignment explanation
Indices: 615342--615394 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
615332 TAACATAATT
*
615342 ATAAAAAATAAATT-GATATA
1 ATAAAAAAT-AATTAAATATA
615362 AT-AAAAATAATTAAAATATA
1 ATAAAAAATAATT-AAATATA
615382 ATAAAAAAGTAAT
1 ATAAAAAA-TAAT
615395 ATATACAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 4 0.14
19 6 0.21
20 9 0.32
21 5 0.18
22 4 0.14
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
ATAAAAAATAATTAAATATA
Found at i:615436 original size:11 final size:11
Alignment explanation
Indices: 615357--615437 Score: 53
Period size: 11 Copynumber: 7.3 Consensus size: 11
615347 AAATAAATTG
615357 ATATA-ATAAA
1 ATATATATAAA
615367 A-ATA-ATTAAA
1 ATATATA-TAAA
*
615377 ATATAATAAAAA
1 ATAT-ATATAAA
*
615389 AGTAATATATACA
1 A-T-ATATATAAA
615402 ATATATATATAA
1 ATATATATA-AA
*
615414 ATGTAT-TAAA
1 ATATATATAAA
*
615424 ATTTATATAAA
1 ATATATATAAA
615435 ATA
1 ATA
615438 AATTATTAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
9 4 0.07
10 13 0.23
11 17 0.30
12 12 0.21
13 8 0.14
14 2 0.04
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (11 bp):
ATATATATAAA
Found at i:626195 original size:2 final size:2
Alignment explanation
Indices: 626188--626236 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
626178 AAATTTTAAA
* * * *
626188 AT AT AT AT TT AC AT AT AA AC AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
626229 AT AT AT AT
1 AT AT AT AT
626237 GTGTATATCA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:626562 original size:17 final size:18
Alignment explanation
Indices: 626540--626576 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
626530 AAAGTATTAT
626540 ATTAAAAATAAAAAA-AA
1 ATTAAAAATAAAAAATAA
*
626557 ATTAAACATAAAAAATAA
1 ATTAAAAATAAAAAATAA
626575 AT
1 AT
626577 ATTTCTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (18 bp):
ATTAAAAATAAAAAATAA
Found at i:627680 original size:17 final size:16
Alignment explanation
Indices: 627660--627718 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
627650 TATTTAAAAT
627660 ATTTCAATATTTATATC
1 ATTT-AATATTTATATC
*
627677 ATTT-ATATTCT-GATC
1 ATTTAATATT-TATATC
627692 ATTTATATATTTATATC
1 ATTTA-ATATTTATATC
627709 ATATTAATAT
1 AT-TTAATAT
627719 ATTTTATCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 12 0.34
16 2 0.06
17 18 0.51
18 3 0.09
ACGTcount: A:0.36, C:0.08, G:0.02, T:0.54
Consensus pattern (16 bp):
ATTTAATATTTATATC
Found at i:627684 original size:23 final size:24
Alignment explanation
Indices: 627658--627707 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
627648 CATATTTAAA
627658 ATATTTC-AAT-ATTTATATCATTT
1 ATATTTCTAATCATTTATAT-ATTT
*
627681 ATA-TTCTGATCATTTATATATTT
1 ATATTTCTAATCATTTATATATTT
627704 ATAT
1 ATAT
627708 CATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
22 3 0.13
23 12 0.52
24 8 0.35
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.56
Consensus pattern (24 bp):
ATATTTCTAATCATTTATATATTT
Found at i:636880 original size:21 final size:20
Alignment explanation
Indices: 636854--636903 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
636844 TAATGATGAA
*
636854 AAAATTAATTATTATAATAAT
1 AAAATTAA-TACTATAATAAT
*
636875 AAAATTAGATACTATACTAAT
1 AAAATTA-ATACTATAATAAT
*
636896 AAGATTAA
1 AAAATTAA
636904 AATTAAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (20 bp):
AAAATTAATACTATAATAAT
Found at i:637346 original size:13 final size:13
Alignment explanation
Indices: 637328--637353 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
637318 TATTTAATAT
637328 ATAATTATATAAA
1 ATAATTATATAAA
637341 ATAATTATATAAA
1 ATAATTATATAAA
637354 TTATATATAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATTATATAAA
Found at i:638912 original size:19 final size:21
Alignment explanation
Indices: 638873--638915 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
638863 TATTATATAT
638873 ATTTATTATATATTTTAAAAA
1 ATTTATTATATATTTTAAAAA
638894 ATTTATTATATA-TTTAAAAA
1 ATTTATTATATATTTTAAAAA
638914 AT
1 AT
638916 ATAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTATTATATATTTTAAAAA
Found at i:640608 original size:18 final size:19
Alignment explanation
Indices: 640575--640610 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
640565 TTTAAATCTG
*
640575 TTTAAATATTAAATAAATC
1 TTTAAATATAAAATAAATC
640594 TTTAAAT-TAAAATAAAT
1 TTTAAATATAAAATAAAT
640611 AATTTTATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTAAATATAAAATAAATC
Found at i:641670 original size:10 final size:10
Alignment explanation
Indices: 641611--641671 Score: 61
Period size: 10 Copynumber: 6.1 Consensus size: 10
641601 TAAATTTAAA
641611 TAATTTT-TT
1 TAATTTTATT
* *
641620 TAATTTAAAT
1 TAATTTTATT
*
641630 TAATTTAATT
1 TAATTTTATT
*
641640 TAATTTAATT
1 TAATTTTATT
641650 TAATTTATATT
1 TAATTT-TATT
*
641661 TAGTTTTATT
1 TAATTTTATT
641671 T
1 T
641672 TTTATTTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
9 6 0.13
10 31 0.69
11 8 0.18
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (10 bp):
TAATTTTATT
Found at i:641672 original size:5 final size:5
Alignment explanation
Indices: 641618--641662 Score: 72
Period size: 5 Copynumber: 8.8 Consensus size: 5
641608 AAATAATTTT
*
641618 TTTAA TTTAA ATTAA TTTAA TTTAA TTTAA TTTAA TTTATA TTTA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTA-A TTTA
641663 GTTTTATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
5 32 0.86
6 5 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:641802 original size:2 final size:2
Alignment explanation
Indices: 641797--641830 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
641787 TTGCAATAAT
641797 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
641831 AAGTTCTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:642652 original size:2 final size:2
Alignment explanation
Indices: 642645--642678 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
642635 AATATAAAGA
642645 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
642679 TTCATTGGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:646667 original size:20 final size:20
Alignment explanation
Indices: 646642--646720 Score: 77
Period size: 20 Copynumber: 4.0 Consensus size: 20
646632 ATAAAGTAAA
646642 TGCAATGTATCGATACATGC
1 TGCAATGTATCGATACATGC
* * * **
646662 TGCAATGTTTTGATATATTT
1 TGCAATGTATCGATACATGC
* * *
646682 TTCATTGTATCGATACATTC
1 TGCAATGTATCGATACATGC
*
646702 TTCAATGTATCGATACATG
1 TGCAATGTATCGATACATG
646721 TAGGCAAATT
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
TGCAATGTATCGATACATGC
Found at i:648571 original size:79 final size:79
Alignment explanation
Indices: 648406--648991 Score: 967
Period size: 79 Copynumber: 7.4 Consensus size: 79
648396 AAAATAAAAT
*
648406 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAAT-AAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
648470 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* *
648484 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTCGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
648549 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * * *
648563 CGGGGTTGGAGTATCCCCAATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
**
648628 CCCCTCCAAAATAA
66 CCCCTCGGAAATAA
* * * * *
648642 CAGGGTTGGAGTATCCCCGATTATGACAAATGGATGTTTTAGAGATAAAACCGGGGTTGAAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
648707 CCCCTCAGAAATAA
66 CCCCTCGGAAATAA
*
648721 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
648786 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* *
648800 CGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
648865 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * *
648879 CGGGATTGGAGTATCCCCGATTATGAAAAATTGATTTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
648944 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
*
648958 CGGGATTGGAGTATCCCCGATTATGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
648992 GAAACTTAAC
Statistics
Matches: 474, Mismatches: 33, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
78 44 0.09
79 430 0.91
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:650269 original size:35 final size:35
Alignment explanation
Indices: 650203--650321 Score: 188
Period size: 35 Copynumber: 3.4 Consensus size: 35
650193 TCCTTTCTCT
*
650203 CCATCATTCCATGCCTTCA-ATTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
650237 CCATCATAT-TATGCCTTCATTTTTTTATTCCATGC
1 CCATCAT-TCCATGCCTTCATTTTTTTATTCCATGC
*
650272 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
650307 CCATCATTCCATGCC
1 CCATCATTCCATGCC
650322 CATCATATTA
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
34 17 0.22
35 61 0.78
ACGTcount: A:0.20, C:0.32, G:0.06, T:0.42
Consensus pattern (35 bp):
CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
Found at i:650282 original size:14 final size:14
Alignment explanation
Indices: 650263--650327 Score: 58
Period size: 14 Copynumber: 4.1 Consensus size: 14
650253 TCATTTTTTT
650263 ATTCCATGCCCATC
1 ATTCCATGCCCATC
*
650277 ATTCCATGCCTTCATTTTT
1 ATTCCATGCC--CA---TC
650296 ATATTCCATGCCCATC
1 AT--TCCATGCCCATC
650312 ATTCCATGCCCATC
1 ATTCCATGCCCATC
650326 AT
1 AT
650328 ATTATGCCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
14 24 0.57
16 5 0.12
19 5 0.12
21 8 0.19
ACGTcount: A:0.22, C:0.35, G:0.06, T:0.37
Consensus pattern (14 bp):
ATTCCATGCCCATC
Found at i:650316 original size:49 final size:49
Alignment explanation
Indices: 650263--650368 Score: 169
Period size: 49 Copynumber: 2.2 Consensus size: 49
650253 TCATTTTTTT
650263 ATTCCATGCCCATCAT-TCCATGCCTTCATTTTTATATTCCATGCCCATC
1 ATTCCATGCCCATCATAT-CATGCCTTCATTTTTATATTCCATGCCCATC
* *
650312 ATTCCATGCCCATCATATTATGCCTTCATTTTTTTATTCCATGCCCATC
1 ATTCCATGCCCATCATATCATGCCTTCATTTTTATATTCCATGCCCATC
*
650361 ATCCCATG
1 ATTCCATG
650369 TTTTTTTTAT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
49 52 0.98
50 1 0.02
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.40
Consensus pattern (49 bp):
ATTCCATGCCCATCATATCATGCCTTCATTTTTATATTCCATGCCCATC
Found at i:650335 original size:14 final size:14
Alignment explanation
Indices: 650298--650327 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
650288 TCATTTTTAT
650298 ATTCCATGCCCATC
1 ATTCCATGCCCATC
650312 ATTCCATGCCCATC
1 ATTCCATGCCCATC
650326 AT
1 AT
650328 ATTATGCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.40, G:0.07, T:0.30
Consensus pattern (14 bp):
ATTCCATGCCCATC
Found at i:651037 original size:40 final size:41
Alignment explanation
Indices: 650991--651084 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 41
650981 TCCCATTTTA
* * *
650991 TTGAGGACAAAGAAAA-AGGGAATGAAATAG-GTCCTGCTCC
1 TTGAGGACAAAGAAAAGAAGAAAAGAAA-AGTGTCCTGCTCC
* *
651031 TTGAGGACAAAGGAAAAGAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAA-GAAAAGAAGAAAAGAAAAGTGTCCTGCTCC
651073 TTGAGGACAAAG
1 TTGAGGACAAAG
651085 TGAAAAGGAG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
40 11 0.24
41 8 0.17
42 27 0.59
ACGTcount: A:0.41, C:0.13, G:0.29, T:0.17
Consensus pattern (41 bp):
TTGAGGACAAAGAAAAGAAGAAAAGAAAAGTGTCCTGCTCC
Found at i:651186 original size:37 final size:37
Alignment explanation
Indices: 651145--651283 Score: 199
Period size: 37 Copynumber: 3.8 Consensus size: 37
651135 ACGAAATACA
* * *
651145 TCCTGCTCTCTAAGGACAAAAGAAAAAGGAAAGTGCG
1 TCCTGCTCTTTGAGGACAAAAGAAAAAGTAAAGTGCG
*
651182 TCCTGCTCTTTGAGGACAAAAGAAAAAATAAAGTGCG
1 TCCTGCTCTTTGAGGACAAAAGAAAAAGTAAAGTGCG
* *
651219 TCCTGCTCTTTGAGAACAAAAGAAAAA-TAAAATGCG
1 TCCTGCTCTTTGAGGACAAAAGAAAAAGTAAAGTGCG
*
651255 TCCTGTTCTTTGAGGACAAAAGAGAAAAG
1 TCCTGCTCTTTGAGGACAAAAGA-AAAAG
651284 AAGGGAAAAA
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
36 29 0.32
37 63 0.68
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.21
Consensus pattern (37 bp):
TCCTGCTCTTTGAGGACAAAAGAAAAAGTAAAGTGCG
Found at i:651208 original size:81 final size:78
Alignment explanation
Indices: 651124--651463 Score: 204
Period size: 78 Copynumber: 4.4 Consensus size: 78
651114 ACAAAGGAAA
*
651124 AAAAAAGGGAAACGAAATACATCCTGCTCTCTAAGGACAAAAGAAAAAGGAAAGTGCGTCCTGCT
1 AAAAAAGGGAAA-GAAATACGTCCTGCTCTCTAAGGACAAAAGAAAAA-GAAAGTGCGTCCTGCT
651189 CTTTGAGGACAAAAG
64 CTTTGAGGACAAAAG
* * * * * * * *
651204 AAAAAA--TAAAG---TGCGTCCTGCTCTTTGAGAACAAAAGAAAAATAAAATGCGTCCTGTTCT
1 AAAAAAGGGAAAGAAATACGTCCTGCTCTCTAAGGACAAAAGAAAAAGAAAGTGCGTCCTGCTCT
651264 TTGAGGACAAAAGAG
66 TTGAGGAC-AAA-AG
** * * * ** *
651279 AAAAGAAGGGAAA-AAAGTGTGTCCTGCTCTTTGAGGATTGAAGTGAAAAAG--AGTACGT-CT-
1 AAAA-AAGGGAAAGAAA-TACGTCCTGCTCTCTAAGGA--CAAAAGAAAAAGAAAGTGCGTCCTG
* *
651339 CGTTTTTCGAGGA-TAAAG
62 C-TCTTT-GAGGACAAAAG
* * * * * *
651357 GAAAAAGGGAAACGAAATACTTCCTACTCTCTAAGGACAAAAGAAAAATAAAGTGCGTCATGTTC
1 AAAAAAGGGAAA-GAAATACGTCCTGCTCTCTAAGGACAAAAGAAAAAGAAAGTGCGTCCTGCTC
* *
651422 TTTAAGGAC--GAG
65 TTTGAGGACAAAAG
* *
651434 AGAGAAGGGAAAGAAA-AGGCGTCCTGCTCT
1 AAAAAAGGGAAAGAAATA--CGTCCTGCTCT
651464 TTGAGGACTG
Statistics
Matches: 195, Mismatches: 43, Indels: 47
0.68 0.15 0.16
Matches are distributed among these distances:
73 23 0.12
74 29 0.15
75 7 0.04
76 14 0.07
77 29 0.15
78 35 0.18
79 10 0.05
80 12 0.06
81 28 0.14
83 8 0.04
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (78 bp):
AAAAAAGGGAAAGAAATACGTCCTGCTCTCTAAGGACAAAAGAAAAAGAAAGTGCGTCCTGCTCT
TTGAGGACAAAAG
Found at i:651267 original size:73 final size:74
Alignment explanation
Indices: 651145--651282 Score: 206
Period size: 73 Copynumber: 1.9 Consensus size: 74
651135 ACGAAATACA
* *
651145 TCCTGCTCTCTAAGGACAAAAGAAAAAGGAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAAAAAA
1 TCCTGCTCTCTAAGAACAAAAGAAAAAGGAAAATGCGTCCTGCTCTTTGAGGACAAAAGAAAAAA
651210 TAAAGTGCG
66 TAAAGTGCG
* * * * *
651219 TCCTGCTCTTTGAGAACAAAAGAAAAA-TAAAATGCGTCCTGTTCTTTGAGGACAAAAGAGAAAA
1 TCCTGCTCTCTAAGAACAAAAGAAAAAGGAAAATGCGTCCTGCTCTTTGAGGACAAAAGAAAAAA
651283 GAAGGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
73 33 0.58
74 24 0.42
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (74 bp):
TCCTGCTCTCTAAGAACAAAAGAAAAAGGAAAATGCGTCCTGCTCTTTGAGGACAAAAGAAAAAA
TAAAGTGCG
Found at i:651595 original size:59 final size:59
Alignment explanation
Indices: 651455--651684 Score: 354
Period size: 59 Copynumber: 3.9 Consensus size: 59
651445 AGAAAAGGCG
* * * *
651455 TCCTGCTCTTTGAGGACTG-GAAGATGCCACTAACTAGTGTGGGATTTGCAAAAAGAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTTGTGTGGGCTTT--AAAAAGAAAGCA
*
651516 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGAA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGCA
*
651575 TCCTGCTCTTTGAGGGCTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGCA
**
651634 TTTTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
651685 GGCGTCCCGC
Statistics
Matches: 158, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
59 116 0.73
61 39 0.25
62 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAGCA
Found at i:651897 original size:160 final size:154
Alignment explanation
Indices: 651575--652353 Score: 856
Period size: 160 Copynumber: 4.9 Consensus size: 154
651565 AAAGAAAGAA
* * **
651575 TCCTGCTCTTTGAGGGCT-GAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAA-AGAAAGCATTT
1 TCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAAGCATCC
* *
651637 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTA-AAAGGCGTCCCGCTCCTTG
65 TGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGC-TTAGAAAGGCGTCCTGCTCTTTG
*
651701 AGGACAAAAAGGCGAAAGGAGAGAGCG
128 AGGACAAAAAGGCGAAAGGAGAGAACG
*
651728 TCTTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTTAAAAAGAGAAAGCATCC
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGC-TTTAAAAAGAGAAAGCATCC
* * * *
651793 TACTTTTTGAAGACTGAAGGTGCCACCAACTTGTGTGGGCTTAAAAGGAGAAGGCGTCCTGCTCT
65 TGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTT---A-GA-AAGGCGTCCTGCTCT
651858 TTGAGGACAAAAAGGCGAAAGGAGAGAACG
125 TTGAGGACAAAAAGGCGAAAGGAGAGAACG
*
651888 TCCTGCTCTTTGAGGACTAGGAAGTGCCATCAACTTGTGTGGGCTTTACAAAA-AGAAAGCATCC
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTA-AAAAGAGAAAGCATCC
* * *
651952 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGCCCTGCTCTTTGA
65 TGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTAGAAAGGCGTCCTGCTCTTTGA
* * * * *
652017 GGACTGGAAAATGCCACCAACTAGTGTGGGCTTTAAAAGGCG
129 GGAC---AAAAAG--GCGAA--A--G-GAG----AGAA--CG
* * *
652059 TCCTGCTCTTTGAGGACT--GAATGGTGCCAACAACTTGTGTGGGCTTTGAAATG-GAAAAGGCA
1 TCCTGCTCTTTGAGGACTAGGAA--GTGCCACCAACTTGTGTGGGCTTTAAAAAGAG-AAA-GCA
* * *
652121 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGACGTCCTGCTCTTT
62 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTAGAAAGGCGTCCTGCTCTTT
* * * * * * **
652186 GAGGACTAAAGGGTGAGAGAAGATAGTG
127 GAGGACAAAAAGGCGAAAGGAGAGAACG
* * *
652214 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAAGCATCCT
652279 GCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTA-AAAGGCGTCCTGCTCTTTGAG
66 GCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGC-TTAGAAAGGCGTCCTGCTCTTTGAG
652343 GACTAAAAAGG
130 GAC-AAAAAGG
652354 TGCCACCAAC
Statistics
Matches: 534, Mismatches: 54, Indels: 74
0.81 0.08 0.11
Matches are distributed among these distances:
153 39 0.07
154 73 0.14
155 104 0.19
156 25 0.05
157 6 0.01
158 5 0.01
159 28 0.05
160 116 0.22
161 1 0.00
162 2 0.00
164 2 0.00
165 2 0.00
166 1 0.00
168 4 0.01
169 6 0.01
170 4 0.01
171 95 0.18
172 21 0.04
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (154 bp):
TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAAGCATCCT
GCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTAGAAAGGCGTCCTGCTCTTTGAGG
ACAAAAAGGCGAAAGGAGAGAACG
Found at i:651983 original size:61 final size:55
Alignment explanation
Indices: 651888--652195 Score: 314
Period size: 55 Copynumber: 5.4 Consensus size: 55
651878 GGAGAGAACG
** *
651888 TCCTGCTCTTTGAGGACTAGGAAGTGCCATCAACTTGTGTGGGCTTTACAAAAAGAAAGCA
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT---AAAAG---GCA
* *
651949 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* * * *
652004 CCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTAGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* ** *
652059 TCCTGCTCTTTGAGGACTGAATGGTGCCAACAACTTGTGTGGGCTTTGAAATGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGC-TT----T--AAAAGGCA
* * * * *
652121 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGACG
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
652175 TCCTGCTCTTTGAGGACTAAA
1 TCCTGCTCTTTGAGGACTAAA
652196 GGGTGAGAGA
Statistics
Matches: 215, Mismatches: 22, Indels: 26
0.82 0.08 0.10
Matches are distributed among these distances:
54 26 0.12
55 84 0.39
56 7 0.03
58 4 0.02
60 3 0.01
61 66 0.31
62 25 0.12
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
Found at i:652186 original size:116 final size:110
Alignment explanation
Indices: 651888--652816 Score: 573
Period size: 116 Copynumber: 8.2 Consensus size: 110
651878 GGAGAGAACG
* *
651888 TCCTGCTCTTTGAGGACTAGGAAGTGCCATCAACTTGTGTGGGCTTTACAAAAAGAAAGCATCCT
1 TCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTT---AAAAG--A-CGTCCT
*
651953 GCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGC
59 GCTCTTTGAGGACTAAAAAGTGCCAACAACTTGTGTGGGCTTTGAAAGGCGC
* * *
652005 -CCTGCTCTTTGAGGACTGGAAAATGCCACCAACTAGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTGCTCTT
* ** *
652069 TGAGGACTGAATGGTGCCAACAACTTGTGTGGGCTTTGAAATGGAAAAGGC
65 TGAGGACTAAAAAGTGCCAACAACTTGTGTGGGCTTTGAAA-GG----CGC
*
652120 ATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGACGTCCTGCTCT
1 -TCCTGCTCTTTGAGGACTGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTGCTCT
** * * * ** *
652184 TTGAGGACTAAAGGGTG--AGAGAAGATAGTGTCCTGCTCTTTG--AGGACTAGG
64 TTGAGGACTAAAAAGTGCCA-ACAA-CT--TGT-GTGGGCTTTGAAAGG-C--GC
*** *** * * ** *** * *
652235 AAGTGC-C-ACCA--ACTTG-TGTG-----GGCTT-TAAAAGG----AGAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAGTGCCACCAACTTGT-GTGGGCTTTAAAAGACGTCCTGCTCTT
* * *
652285 TGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG-
65 TGAGGACTAAAAAGTGCCAACAACTTGTGTGGGCTTTGAAAGGCGC
**
652329 TCCTGCTCTTTGAGGACTAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
1 TCCTGCTCTTTGAGGACT-GGAA-GTGCCACCAACTTGTGTGGGCTTTAAAA-G---A--CGTCC
* * *
652394 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGC-A
58 TGCTCTTTGAGGACTAAAAAGTGCCAACAACTTGTGTGGGCTTT----G--AAAGGCGC
* * * * *
652452 TCATGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
1 TCCTGCTCTTTGAGGACTG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTGCTCTT
* * * *
652517 TGAGGATTGAAAGGTGCC-ACTAACTTGTGTGGGCTTTAAAAGAAAAAGGC-A
65 TGAGGACTAAAAAGTGCCAAC-AACTTGTGTGGGCTTT----G--AAAGGCGC
* * *
652568 TCCTGCTCTTTGAGGATTGAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTG--GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTGCTCT
* * * * *
652633 TTGAGGACTGAAAGGTGCCACCAACTT-TGTGGGCTTTAAAAGGAAAAGGC
64 TTGAGGACTAAAAAGTGCCAACAACTTGTGTGGGCTTTGAAAGG----CGC
* * * *
652683 ATCTTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
1 -TCCTGCTCTTTGAGGACTG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTGCTCT
* * * *
652748 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAATGCG-
64 TTGAGGACTAAAAAGTGCCAACAACTTGTGTGGGCTTTGAAAGGCGC
652794 TCCTGCTCTTTGAGGACTGGAAG
1 TCCTGCTCTTTGAGGACTGGAAG
652817 GGCTAAAAGA
Statistics
Matches: 660, Mismatches: 88, Indels: 136
0.75 0.10 0.15
Matches are distributed among these distances:
94 3 0.00
95 2 0.00
96 7 0.01
97 4 0.01
98 6 0.01
99 5 0.01
100 25 0.04
101 4 0.01
103 1 0.00
104 5 0.01
106 5 0.01
107 1 0.00
109 6 0.01
110 76 0.12
111 4 0.01
112 2 0.00
113 7 0.01
114 4 0.01
115 83 0.13
116 233 0.35
117 112 0.17
118 4 0.01
119 7 0.01
121 1 0.00
122 28 0.04
123 25 0.04
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (110 bp):
TCCTGCTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTGCTCTTT
GAGGACTAAAAAGTGCCAACAACTTGTGTGGGCTTTGAAAGGCGC
Found at i:652254 original size:94 final size:96
Alignment explanation
Indices: 652121--652297 Score: 263
Period size: 94 Copynumber: 1.8 Consensus size: 96
652111 GGAAAAGGCA
652121 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-GA-AAGACGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAGAGAAGACGTCCTGCTCT
652184 TTGAGGACT-AAAGGGTGAGAGAAGATAGTG
66 TTGAGGACTGAAAGGGTGAGAGAAGATAGTG
*
652214 TCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 TCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTT---A-GAGAAGACGTCC
652278 TGCTCTTTGAGGACTGAAAG
60 TGCTCTTTGAGGACTGAAAG
652298 TGCCACCAAC
Statistics
Matches: 74, Mismatches: 1, Indels: 10
0.87 0.01 0.12
Matches are distributed among these distances:
93 18 0.24
94 24 0.32
95 3 0.04
99 2 0.03
100 23 0.31
101 4 0.05
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.27
Consensus pattern (96 bp):
TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAGAGAAGACGTCCTGCTCT
TTGAGGACTGAAAGGGTGAGAGAAGATAGTG
Found at i:652339 original size:154 final size:154
Alignment explanation
Indices: 652058--652349 Score: 480
Period size: 154 Copynumber: 1.9 Consensus size: 154
652048 TTTAAAAGGC
*
652058 GTCCTGCTCTTTGAGGACTGAATGGTGCCAACAACTTGTGTGGGCTTTGAAATGGAAAAGGCATC
1 GTCCTGCTCTTTGAGGACTGAA-GGTGCCAACAACTTGTGTGGGCTTTGAAAAGGAAAAGGCATC
* *
652123 CTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGACGTCCTGCTCTTTGA
65 CTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTGCTCTTTGA
652188 GGACTAAAGGGTGAGAGAAGATAGT
130 GGACTAAAGGGTGAGAGAAGATAGT
* * *
652213 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCGT
1 GTCCTGCTCTTTGAGGACT--GAAGGTGCCAACAACTTGTGTGGGCTTTGAAAAGGAAAAGGCAT
*
652276 CCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTG
64 CCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTGCTCTTTG
652341 AGGACTAAA
129 AGGACTAAA
652350 AAGGTGCCAC
Statistics
Matches: 128, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
154 83 0.65
155 42 0.33
157 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (154 bp):
GTCCTGCTCTTTGAGGACTGAAGGTGCCAACAACTTGTGTGGGCTTTGAAAAGGAAAAGGCATCC
TGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTGCTCTTTGAG
GACTAAAGGGTGAGAGAAGATAGT
Found at i:652474 original size:27 final size:27
Alignment explanation
Indices: 652444--652528 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
652434 CTTTAAAAGA
652444 AAAAGGCATCATGCTCTTTGAGGATTG
1 AAAAGGCATCATGCTCTTTGAGGATTG
* * * *
652471 AAAAGTGCCACCA-ACT-TGTGTG-GGCTTT
1 AAAAG-G-CATCATGCTCT-T-TGAGGATTG
*
652499 AAAAGGCATCCTGCTCTTTGAGGATTG
1 AAAAGGCATCATGCTCTTTGAGGATTG
652526 AAA
1 AAA
652529 GGTGCCACTA
Statistics
Matches: 42, Mismatches: 9, Indels: 14
0.65 0.14 0.22
Matches are distributed among these distances:
26 5 0.12
27 17 0.40
28 14 0.33
29 6 0.14
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (27 bp):
AAAAGGCATCATGCTCTTTGAGGATTG
Found at i:652532 original size:177 final size:175
Alignment explanation
Indices: 652213--652812 Score: 813
Period size: 177 Copynumber: 3.5 Consensus size: 175
652203 AGAAGATAGT
* *
652213 GTCCTGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTC
1 GTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCGTC
*
652277 CTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTG
64 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTG
**
652341 AGGACTAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
129 AGGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGC
* *
652390 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCA
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAAGGCGTCC
*
652455 TGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGA
65 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGA
*
652520 GGATTGAAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAAGGC
130 GGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAAGGC
* *
652567 ATCCTGCTCTTTGAGGATTGAAAAAGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGCGTCC
1 GTCCTGCTCTTTGAGGACTG-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCC
* *
652627 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTT-TGTGGGCTTTAAAAGGAAAAGGCATCTTGCT
65 TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCATCCTGCT
*
652691 CTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGC
124 CTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
* *
652738 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAATGCGTCCT
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT
652798 GCTCTTTGAGGACTG
66 GCTCTTTGAGGACTG
652813 GAAGGGCTAA
Statistics
Matches: 389, Mismatches: 22, Indels: 31
0.88 0.05 0.07
Matches are distributed among these distances:
170 52 0.13
171 35 0.09
172 40 0.10
176 2 0.01
177 181 0.47
178 79 0.20
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (175 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCT
GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAG
GATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
Found at i:652675 original size:28 final size:28
Alignment explanation
Indices: 652587--652675 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 28
652577 TTGAGGATTG
*
652587 AAAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGTGCCACCAACTT-TGTGGGCTTT
* ** * * *
652616 AAAAGGCGTCCTGC-TCTTTGAGGAC--T
1 AAAAGGTG-CCACCAACTTTGTGGGCTTT
*
652642 GAAAGGTGCCACCAACTTTGTGGGCTTT
1 AAAAGGTGCCACCAACTTTGTGGGCTTT
652670 AAAAGG
1 AAAAGG
652676 AAAAGGCATC
Statistics
Matches: 41, Mismatches: 15, Indels: 9
0.63 0.23 0.14
Matches are distributed among these distances:
25 3 0.07
26 15 0.37
28 11 0.27
29 9 0.22
30 3 0.07
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (28 bp):
AAAAGGTGCCACCAACTTTGTGGGCTTT
Found at i:652715 original size:232 final size:228
Alignment explanation
Indices: 652217--652811 Score: 867
Period size: 232 Copynumber: 2.5 Consensus size: 228
652207 GATAGTGTCC
* *
652217 TGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGC
1 TGCTCTTTGAGGATTGA-AAAGTGCCACCAACTTGTGTGGGCTTT---A--A-AAGGCGTCCTGC
*
652281 TCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGA
59 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGA
652345 CTAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTG
124 CTAAAAAGGTGCCACCAACTTGTGTGGGCTTT---A--AAAAGGCGTCCTGCTCTTTGAGGACTG
652410 AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCA
184 AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCA
*
652455 TGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGA
1 TGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
* * *
652520 GGATTGAAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCCTGCTCTTTGAGGAT
66 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCATCCTGCTCTTTGAGGAC
*
652585 TGAAAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
125 T-AAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAG
* *
652648 TGCCACCAACTT-TGTGGGCTTTAAAAGGAAAAGGCATCT
189 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCA
652687 TGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
1 TGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
* * *
652752 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAATGCGTCCTGCTCTTTGAGGACT
66 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACT
652812 GGAAGGGCTA
Statistics
Matches: 331, Mismatches: 17, Indels: 30
0.88 0.04 0.08
Matches are distributed among these distances:
226 22 0.07
232 147 0.44
233 67 0.20
235 1 0.00
238 40 0.12
239 49 0.15
240 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (228 bp):
TGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTAAAAA
GGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACC
AACTTGTGTGGGCTTTAAAAGAAAAAGGCATCA
Found at i:659024 original size:51 final size:50
Alignment explanation
Indices: 658893--659028 Score: 148
Period size: 53 Copynumber: 2.6 Consensus size: 50
658883 AAAATTAGTA
* * *
658893 TTTTAGAGATAACAACGGGGCTAGAGTATCCCCGATTATGGAAAAACGGTG
1 TTTTAGAAATAA-AACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
* * *
658944 TTCTAAAAAAATAAAATCGGGGTTAGAGTATCCCCGATTAT-GAAAAATTGATG
1 TT-T-TAGAAATAAAA-CGGGGTTAGAGTATCCCCGATTATGGAAAAA-CGATG
*
658997 TTTTAGAAATAAAACGGGGGTTGGAGTATCCC
1 TTTTAGAAATAAAAC-GGGGTTAGAGTATCCC
659029 TTCGGAAATA
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
50 1 0.01
51 26 0.37
52 10 0.14
53 34 0.48
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.26
Consensus pattern (50 bp):
TTTTAGAAATAAAACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
Found at i:659096 original size:79 final size:79
Alignment explanation
Indices: 658961--659545 Score: 931
Period size: 79 Copynumber: 7.4 Consensus size: 79
658951 AAAATAAAAT
* *
658961 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACGGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
659026 CCCTTCGGAAATAA
66 CCCCTCGGAAATAA
* * * *
659040 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAAAAATAAGACTGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
659105 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * * *
659119 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTTGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
**
659184 CCCCTCCAAAATAA
66 CCCCTCGGAAATAA
** * *
659198 CATGGTTGGAGTATCCCCGATTATGAAAAATGGATGTTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
659263 CCCCTCAGAGATAA
66 CCCCTCGGAAATAA
*
659277 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
659342 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* *
659356 CGGGATTGGAGTATCCCCGATTATTAAAAATTGATGTTTTAGAAAT-AAA-CGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
659419 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* *
659433 CGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
659498 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
*
659512 CGGGATTGGAGTATCCCCGATTATGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
659546 GAAACTTAAG
Statistics
Matches: 465, Mismatches: 39, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
77 73 0.16
78 5 0.01
79 387 0.83
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:660822 original size:35 final size:35
Alignment explanation
Indices: 660756--660909 Score: 231
Period size: 35 Copynumber: 4.4 Consensus size: 35
660746 TCCTTTCTCT
* *
660756 CCATCATTCCATGCCTTCAATTTT-TATTCCATGC
1 CCATCATTCAATGCCTTCATTTTTATATTCCATGC
* *
660790 CCATCATAT-TATGCCTTCATTTTTTTATTCCATGC
1 CCATCAT-TCAATGCCTTCATTTTTATATTCCATGC
660825 CCATCATTCAATGCCTTCATTTTTATATTCCATGC
1 CCATCATTCAATGCCTTCATTTTTATATTCCATGC
*
660860 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATCATTCAATGCCTTCATTTTTATATTCCATGC
*
660895 CCATCATTCCATGCC
1 CCATCATTCAATGCC
660910 CATCATATTA
Statistics
Matches: 112, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
34 21 0.19
35 91 0.81
ACGTcount: A:0.21, C:0.31, G:0.06, T:0.42
Consensus pattern (35 bp):
CCATCATTCAATGCCTTCATTTTTATATTCCATGC
Found at i:660870 original size:14 final size:14
Alignment explanation
Indices: 660851--660915 Score: 58
Period size: 14 Copynumber: 4.1 Consensus size: 14
660841 TCATTTTTAT
660851 ATTCCATGCCCATC
1 ATTCCATGCCCATC
*
660865 ATTCCATGCCTTCATTTTT
1 ATTCCATGCC--CA---TC
660884 ATATTCCATGCCCATC
1 AT--TCCATGCCCATC
660900 ATTCCATGCCCATC
1 ATTCCATGCCCATC
660914 AT
1 AT
660916 ATTATGCCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
14 24 0.57
16 5 0.12
19 5 0.12
21 8 0.19
ACGTcount: A:0.22, C:0.35, G:0.06, T:0.37
Consensus pattern (14 bp):
ATTCCATGCCCATC
Found at i:660904 original size:49 final size:49
Alignment explanation
Indices: 660851--660950 Score: 166
Period size: 49 Copynumber: 2.0 Consensus size: 49
660841 TCATTTTTAT
660851 ATTCCATGCCCATCAT-TCCATGCCTTCATTTTTATATTCCATGCCCATC
1 ATTCCATGCCCATCATAT-CATGCCTTCATTTTTATATTCCATGCCCATC
* *
660900 ATTCCATGCCCATCATATTATGCCTTCATTTTTTTATTCCATGCCCATC
1 ATTCCATGCCCATCATATCATGCCTTCATTTTTATATTCCATGCCCATC
660949 AT
1 AT
660951 CCTGTGTTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 47 0.98
50 1 0.02
ACGTcount: A:0.21, C:0.32, G:0.06, T:0.41
Consensus pattern (49 bp):
ATTCCATGCCCATCATATCATGCCTTCATTTTTATATTCCATGCCCATC
Found at i:660923 original size:14 final size:14
Alignment explanation
Indices: 660886--660915 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
660876 TCATTTTTAT
660886 ATTCCATGCCCATC
1 ATTCCATGCCCATC
660900 ATTCCATGCCCATC
1 ATTCCATGCCCATC
660914 AT
1 AT
660916 ATTATGCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.40, G:0.07, T:0.30
Consensus pattern (14 bp):
ATTCCATGCCCATC
Found at i:663496 original size:17 final size:17
Alignment explanation
Indices: 663474--663508 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
663464 TTCATACGTT
* *
663474 TTTTTCTTTTTTTTTTC
1 TTTTTCTTCTTTTCTTC
663491 TTTTTCTTCTTTTCTTC
1 TTTTTCTTCTTTTCTTC
663508 T
1 T
663509 CCATCTTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTCTTTTCTTC
Found at i:668218 original size:2 final size:2
Alignment explanation
Indices: 668211--668250 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
668201 ATGTATAGTC
668211 AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
668251 CAACCTAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:668676 original size:34 final size:34
Alignment explanation
Indices: 668609--668925 Score: 433
Period size: 34 Copynumber: 9.4 Consensus size: 34
668599 CCGACCATTA
* * *
668609 TGTTGATTAAAT-GGTGATTTAGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
668642 TGTTGATTAAATGGGTGATTTGGTGGTTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
668676 TGTTGACTAAAT-GGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
668709 TGTTGATTAAATGGGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
668743 TGTTGATTAAATGGGTGATTTGGTGGTTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
668777 TGTTGACTAAAT-GGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
668810 TGTTGATTAAATGGGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
668844 TGTTGATTAAATGGGTGATTTGGTGGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
668878 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
668912 TGTTGATTAAATGG
1 TGTTGATTAAATGG
668926 TGGTTTTTAC
Statistics
Matches: 250, Mismatches: 31, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
33 68 0.27
34 182 0.73
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:668689 original size:67 final size:67
Alignment explanation
Indices: 668609--668925 Score: 420
Period size: 67 Copynumber: 4.7 Consensus size: 67
668599 CCGACCATTA
* * * * * * *
668609 TGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 TGTTGATTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
668674 AT
66 AT
* *
668676 TGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 TGTTGATTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
668741 AT
66 AT
* * * * *
668743 TGTTGATTAAATGGGTGATTTGGTGGTTTGCCATTGTTGACTAAAT-GGAGATTTGGTAGCTTAC
1 TGTTGATTAAAT-GGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTAC
668807 CAT
65 CAT
* * *
668810 TGTTGATTAAATGGGAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTAC
1 TGTTGATTAAAT-GGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTAC
668875 CAT
65 CAT
* * *
668878 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCATTGTTGATTAAATGG
1 TGTTGATTAAAT-GGAGATTTGGTAGCTTACCATTGTTGATTAAATGG
668926 TGGTTTTTAC
Statistics
Matches: 220, Mismatches: 28, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
67 129 0.59
68 91 0.41
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (67 bp):
TGTTGATTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
AT
Found at i:668783 original size:101 final size:101
Alignment explanation
Indices: 668609--668925 Score: 548
Period size: 101 Copynumber: 3.1 Consensus size: 101
668599 CCGACCATTA
* *
668609 TGTTGATTAAATGGTG--ATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 TGTTGATTAAATGG-GAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
668672 CCATTGTTGACTAAATGGAGATTTGGTAGCTTACCAT
65 CCATTGTTGACTAAATGGAGATTTGGTAGCTTACCAT
668709 TGTTGATTAAATGGGAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGC
1 TGTTGATTAAATGGGAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGC
668774 CATTGTTGACTAAATGGAGATTTGGTAGCTTACCAT
66 CATTGTTGACTAAATGGAGATTTGGTAGCTTACCAT
* *
668810 TGTTGATTAAATGGGAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTAC
1 TGTTGATTAAATGGGAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGC
* *
668875 CATTGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
66 CATTGTTGACTAAAT-GGAGATTTGGTAGCTTACCAT
668912 TGTTGATTAAATGG
1 TGTTGATTAAATGG
668926 TGGTTTTTAC
Statistics
Matches: 208, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
99 1 0.00
100 14 0.07
101 160 0.77
102 33 0.16
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (101 bp):
TGTTGATTAAATGGGAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGC
CATTGTTGACTAAATGGAGATTTGGTAGCTTACCAT
Found at i:669284 original size:19 final size:19
Alignment explanation
Indices: 669228--669290 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
669218 TGGTTGTCGA
**
669228 GGTACTATTCACGTATATA
1 GGTACTATTCACGTATACG
669247 GGTACTATTCACGTATACG
1 GGTACTATTCACGTATACG
*
669266 GGTACTATTCAAGTATACG
1 GGTACTATTCACGTATACG
*
669285 GTTACT
1 GGTACT
669291 GTACACGTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (19 bp):
GGTACTATTCACGTATACG
Found at i:673425 original size:34 final size:34
Alignment explanation
Indices: 673356--673573 Score: 296
Period size: 34 Copynumber: 6.5 Consensus size: 34
673346 AAGTGGGAGA
* * *
673356 ATTGTTGATTAAAT-GGTGATTTAGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
673389 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
673423 ATTGTTGACTAAAT-GGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
673456 ATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
673490 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
673524 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
673558 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
673574 TGGTTTTTAC
Statistics
Matches: 164, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
33 42 0.26
34 122 0.74
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:673539 original size:68 final size:67
Alignment explanation
Indices: 673356--673575 Score: 323
Period size: 67 Copynumber: 3.3 Consensus size: 67
673346 AAGTGGGAGA
* * * * *
673356 ATTGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
673421 CC
66 CC
* * * *
673423 ATTGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAAATTTGGTAGCTTA
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
673488 CC
66 CC
* * *
673490 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTT
1 ATTGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTT
673555 GCC
65 GCC
673558 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
673576 GTTTTTACCA
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
67 75 0.55
68 61 0.45
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (67 bp):
ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
CC
Found at i:674228 original size:24 final size:24
Alignment explanation
Indices: 674175--674230 Score: 60
Period size: 26 Copynumber: 2.3 Consensus size: 24
674165 AATCAATCAA
*
674175 TTTTT-TAATTATATAGTATATAT
1 TTTTTATAATTATATAGTATATAC
* *
674198 TAGTTTTATATTTATATATTATATAC
1 T--TTTTATAATTATATAGTATATAC
674224 TTTTTAT
1 TTTTTAT
674231 CATATAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
23 1 0.04
24 6 0.22
25 4 0.15
26 16 0.59
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTTTATAATTATATAGTATATAC
Found at i:674980 original size:22 final size:21
Alignment explanation
Indices: 674953--675017 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 21
674943 TATTATTATT
674953 ATTATTTAACAAAATTAAAAATA
1 ATTATTTAA-AAAATTAAAAA-A
*
674976 A-TATTTAATTAAATTTAAAAAA
1 ATTATTTAA--AAAATTAAAAAA
*
674998 ATTACATTAAAAAATTAAAA
1 ATTA-TTTAAAAAATTAAAA
675018 TATTAATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
22 18 0.51
23 13 0.37
24 4 0.11
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTATTTAAAAAATTAAAAAA
Found at i:675070 original size:35 final size:38
Alignment explanation
Indices: 675018--675097 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 38
675008 AAAATTAAAA
675018 TATTAATTATATGTTTTT-ATAAAAATAAAAA-G-TATT
1 TATTAATTATATGTTTTTAAT-AAAATAAAAATGATATT
675054 TATT-ATTATTAT-TTTTTAATAAAATAAAAATGATATT
1 TATTAATTA-TATGTTTTTAATAAAATAAAAATGATATT
675091 TAATTAA
1 T-ATTAA
675098 ATTTTAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
35 19 0.50
36 10 0.26
37 5 0.13
38 3 0.08
39 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (38 bp):
TATTAATTATATGTTTTTAATAAAATAAAAATGATATT
Found at i:675118 original size:22 final size:22
Alignment explanation
Indices: 675088--675133 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
675078 TAAAAATGAT
**
675088 ATTTAATTAA-ATTTTAAAAAA
1 ATTTAATTAACAAATTAAAAAA
675109 ATTTACATTAACAAATTAAAAAA
1 ATTTA-ATTAACAAATTAAAAAA
675132 AT
1 AT
675134 AACATTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 5 0.24
23 11 0.52
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTTAATTAACAAATTAAAAAA
Found at i:675127 original size:23 final size:23
Alignment explanation
Indices: 675101--675165 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
675091 TAATTAAATT
675101 TTAAAAAAATTTACATTAACAAA
1 TTAAAAAAATTTACATTAACAAA
* **
675124 TTAAAAAAA-TAACATTTAAGGAA
1 TTAAAAAAATTTACA-TTAACAAA
*
675147 CTAAAAAAATTTATCATTA
1 TTAAAAAAATTTA-CATTA
675166 TTCAAAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
22 4 0.12
23 23 0.68
24 5 0.15
25 2 0.06
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (23 bp):
TTAAAAAAATTTACATTAACAAA
Found at i:675570 original size:119 final size:122
Alignment explanation
Indices: 675436--675794 Score: 441
Period size: 119 Copynumber: 2.9 Consensus size: 122
675426 ATATATTTAA
675436 AAAAATATTATAATAAAAACTTTTTTAATTTAAAATTTTTTATTTTTAAAAACATAATAATTAAT
1 AAAAA-ATTATAATAAAAACTTTTTTAATTTAAAATTTTTTATTTTTAAAAACATAATAATTAAT
* *
675501 ATTTTAATTCGTTAATGTAAATTTTTAAA-TTGAATTAAATATT-TTTTT-ATTTTATT
65 ATTTTAATTTGTTAATGTAATTTTTTAAACTT-AATTAAATATTATTTTTAATTTTATT
* *
675557 -AAAAATTATAATAAAAAC-CTTTTATTTTAAAATTTTTTATTTTTATAAAAACATAATAATTAA
1 AAAAAATTATAATAAAAACTTTTTTAATTTAAAATTTTTTA-TTTT-TAAAAACATAATAATTAA
*
675620 -ATTTTAATTTATTAATGTAATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATT
64 TATTTTAATTTGTTAATGTAATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATT
* * * *
675678 AAAAAATAATAATAATGAATTCTTTTTATTTTTATTTAAAATTTTTTATTATT--AAA-A-AATA
1 AAAAAATTATAATAA--AA-AC---TT-TTTTAATTTAAAATTTTTTATTTTTAAAAACATAATA
* *
675739 ATTAATATTTTAATTTGTTAATATAATTTTTTTAAAGTTAATTAAATATTATTTTT
59 ATTAATATTTTAATTTGTTAATGTAA-TTTTTTAAACTTAATTAAATATTATTTTT
675795 TATTAAAAGT
Statistics
Matches: 208, Mismatches: 14, Indels: 27
0.84 0.06 0.11
Matches are distributed among these distances:
118 19 0.09
119 55 0.26
120 29 0.14
121 8 0.04
122 13 0.06
124 11 0.05
125 20 0.10
126 31 0.15
128 1 0.00
129 3 0.01
130 18 0.09
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (122 bp):
AAAAAATTATAATAAAAACTTTTTTAATTTAAAATTTTTTATTTTTAAAAACATAATAATTAATA
TTTTAATTTGTTAATGTAATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATT
Found at i:675625 original size:45 final size:45
Alignment explanation
Indices: 675543--675630 Score: 101
Period size: 45 Copynumber: 1.9 Consensus size: 45
675533 AATTAAATAT
* *
675543 TTTTTTATTTTATTAAAAATTATAATAAAAACCTTTTATTTTAAAA
1 TTTTTTATTTTATTAAAAATCATAATAAAAA-CTTTTAATTTAAAA
675589 TTTTTTATTTT-TATAAAAA-CATAATAATTAAA-TTTTAATTTA
1 TTTTTTATTTTAT-TAAAAATCATAATAA--AAACTTTTAATTTA
675631 TTAATGTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
45 17 0.46
46 17 0.46
47 3 0.08
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (45 bp):
TTTTTTATTTTATTAAAAATCATAATAAAAACTTTTAATTTAAAA
Found at i:676540 original size:91 final size:92
Alignment explanation
Indices: 676391--676590 Score: 303
Period size: 91 Copynumber: 2.2 Consensus size: 92
676381 AAATAAATGT
* * * * *
676391 AATTATATCTTAAAATCATATTCTTTTTTATGAAAAAAAAAAAAAAGTTGATTGATTGTAAATGT
1 AATTATATCTGAGAATTA-ATTCTTTTTTATGAAAAAAAAAAAAAAGTTAATTAATTGTAAATGT
676456 CAGACTGTAAGGATTAGACTAATGCATG
65 CAGACTGTAAGGATTAGACTAATGCATG
* * *
676484 AATTATATTTGAGAATTAATTCTTTTTTAT-AGAAAAAAAGAAAAGTTAATTAATTGTAAATGTC
1 AATTATATCTGAGAATTAATTCTTTTTTATGAAAAAAAAAAAAAAGTTAATTAATTGTAAATGTC
*
676548 AGACTGTAAGGTTTAGACTAATGCATG
66 AGACTGTAAGGATTAGACTAATGCATG
676575 AATTATATCTGAGAAT
1 AATTATATCTGAGAAT
676591 ATTATAAATG
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 71 0.73
92 12 0.12
93 14 0.14
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.36
Consensus pattern (92 bp):
AATTATATCTGAGAATTAATTCTTTTTTATGAAAAAAAAAAAAAAGTTAATTAATTGTAAATGTC
AGACTGTAAGGATTAGACTAATGCATG
Found at i:676604 original size:146 final size:142
Alignment explanation
Indices: 676449--676732 Score: 444
Period size: 142 Copynumber: 2.0 Consensus size: 142
676439 TGATTGATTG
* **
676449 TAAATGTCAGACTGTAAGGATTAGACTAATGCATGAATTATATTTGAGAATT-AATTCTTTTTTA
1 TAAATGTCAGACTGTAAAGATTAGACTAATGCATGAATTATACATGAGAATTAAATTCTTTTTTA
* *
676513 TAGAAAAAAAGAAAAGTTAATTAATTGTAAATGTCAGACTGTAAGGTTTAGACTAATGCATGAAT
66 TAG---AAAA-AAAA-TTAATTAATTGTAAATGTCAAACTGTAAGGATTAGACTAATGCATGAAT
676578 TATATCTGAGAATATTA
126 TATATCTGAGAATATTA
676595 TAAATGTCAGACTGTAAAGATTAGACTAATGCATGAATTATACATGAGAATTAAATTCTTTTTTA
1 TAAATGTCAGACTGTAAAGATTAGACTAATGCATGAATTATACATGAGAATTAAATTCTTTTTTA
* * *
676660 TAGAAAAAAAATTGATTGATTGTAAATGTTAAACTGTAAGGATTAGACTAATGCATGAATTATAT
66 TAGAAAAAAAATTAATTAATTGTAAATGTCAAACTGTAAGGATTAGACTAATGCATGAATTATAT
676725 CTGAGAAT
131 CTGAGAAT
676733 CAGATTCTTT
Statistics
Matches: 129, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
142 57 0.44
143 4 0.03
144 4 0.03
146 49 0.38
147 15 0.12
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (142 bp):
TAAATGTCAGACTGTAAAGATTAGACTAATGCATGAATTATACATGAGAATTAAATTCTTTTTTA
TAGAAAAAAAATTAATTAATTGTAAATGTCAAACTGTAAGGATTAGACTAATGCATGAATTATAT
CTGAGAATATTA
Found at i:676624 original size:55 final size:55
Alignment explanation
Indices: 676540--676645 Score: 178
Period size: 55 Copynumber: 1.9 Consensus size: 55
676530 TAATTAATTG
* *
676540 TAAATGTCAGACTGTAAGGTTTAGACTAATGCATGAATTATATC-TGAGAATATTA
1 TAAATGTCAGACTGTAAAGATTAGACTAATGCATGAATTATA-CATGAGAATATTA
676595 TAAATGTCAGACTGTAAAGATTAGACTAATGCATGAATTATACATGAGAAT
1 TAAATGTCAGACTGTAAAGATTAGACTAATGCATGAATTATACATGAGAAT
676646 TAAATTCTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
54 1 0.02
55 47 0.98
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (55 bp):
TAAATGTCAGACTGTAAAGATTAGACTAATGCATGAATTATACATGAGAATATTA
Found at i:676741 original size:87 final size:88
Alignment explanation
Indices: 676595--676758 Score: 251
Period size: 87 Copynumber: 1.9 Consensus size: 88
676585 GAGAATATTA
* *
676595 TAAATGTCAGACTGTAAAGATTAGACTAATGCATGAATTATACATGAGAATTAAATTC-TTTTTT
1 TAAATGTCAAACTGTAAAGATTAGACTAATGCATGAATTATACATGAGAATCAAATTCTTTTTTT
676659 ATAGAAAAAAAATTGATTGATTG
66 ATAGAAAAAAAATTGATTGATTG
* * *
676682 TAAATGTTAAACTGTAAGGATTAGACTAATGCATGAATTATATC-TGAGAATCAGATTCTTTTTT
1 TAAATGTCAAACTGTAAAGATTAGACTAATGCATGAATTATA-CATGAGAATCAAATTC-TTTTT
676746 TTATAGAAAAAAA
64 TTATAGAAAAAAA
676759 GAAAGACTGC
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
87 51 0.74
88 1 0.01
89 17 0.25
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (88 bp):
TAAATGTCAAACTGTAAAGATTAGACTAATGCATGAATTATACATGAGAATCAAATTCTTTTTTT
ATAGAAAAAAAATTGATTGATTG
Found at i:676898 original size:70 final size:70
Alignment explanation
Indices: 676692--676898 Score: 335
Period size: 70 Copynumber: 2.9 Consensus size: 70
676682 TAAATGTTAA
*
676692 ACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTTTATAGAAAAA
1 ACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTC--TTTTTTATAGAAAAA
676757 AAGAAAG
64 AAGAAAG
* *
676764 ACTGCAAGGATTAGACTAATGCATGAATTATATTTGAGAATCGGATTCTTTTTTATA-AGAAAAA
1 ACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGA-AAAAA
676828 AGAAAG
65 AGAAAG
* *
676834 ACTGCAAGGATTAGACTAATGCATTAATTATATCTGAGAATTAGATTCTTTTTTATAGAAAAAAA
1 ACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAAAA
676899 AGTTGACTAA
Statistics
Matches: 126, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
69 1 0.01
70 79 0.63
71 1 0.01
72 45 0.36
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (70 bp):
ACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAAAA
GAAAG
Found at i:676981 original size:88 final size:87
Alignment explanation
Indices: 676832--677165 Score: 394
Period size: 88 Copynumber: 3.8 Consensus size: 87
676822 GAAAAAAGAA
* *
676832 AGACTGCAAGGATTAGACTAATGCATTAATTATATCTGAGAATTAGATTCTTTTTTATAGAAAAA
1 AGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAA
676897 AAAGTTGACTAATTGTAAATGT
66 AAAGTTGACTAATTGTAAATGT
*
676919 CAGACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAG-AAA
1 -AGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAA
* * *
676983 AAAAG--GA-AAGATTGGTTGATTGT
65 AAAAGTTGACTA-ATT-G-TAAATGT
* * *
677006 A-A-TGCATGAATTAGACTAATGCATGAATTATA-CATGAGAATCAAATTCTTTTTTATAGAAAA
1 AGACTGCAAGGATTAGACTAATGCATGAATTATATC-TGAGAATCAGATTCTTTTTTATAG----
*
677068 AAAAGAAAAGTTGACTGATTGTAAATGTT
61 AAAA-AAAAGTTGACTAATTGTAAATG-T
* *
677097 AAACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTTTATAGAAA
1 AGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTC--TTTTTTATAGAAA
677162 AAAA
64 AAAA
677166 GAAAGACTGC
Statistics
Matches: 209, Mismatches: 18, Indels: 36
0.79 0.07 0.14
Matches are distributed among these distances:
83 1 0.00
84 51 0.24
85 6 0.03
86 2 0.01
87 13 0.06
88 57 0.27
89 3 0.01
90 12 0.06
91 7 0.03
92 6 0.03
93 40 0.19
94 1 0.00
95 10 0.05
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (87 bp):
AGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAA
AAAGTTGACTAATTGTAAATGT
Found at i:677054 original size:84 final size:89
Alignment explanation
Indices: 676842--677171 Score: 389
Period size: 84 Copynumber: 3.7 Consensus size: 89
676832 AGACTGCAAG
* *
676842 GATTAGACTAATGCATTAATTATATCTGAGAATTAGATTCTTTTTTATAG---AAAA-AAA-AGT
1 GATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAAAAGAAAGAGT
*
676902 TGACTAATTGTAAATGTCAGACTGTAA
66 TGACTGATTGTAAATGT-A-ACTG-AA
676929 GGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAAAAGGAAAGA
1 -GATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAAAA-GAAAGA
** *
676994 -TTGGTTGATTGT-AATG-CA-TG-A
64 GTTGACTGATTGTAAATGTAACTGAA
*
677015 -ATTAGACTAATGCATGAATTATA-CATGAGAATCAAATTCTTTTTTATAGAAAAAAAAGAAA-A
1 GATTAGACTAATGCATGAATTATATC-TGAGAATCAGATTCTTTTTTATAG-AAAAAAAGAAAGA
677077 GTTGACTGATTGTAAATGTTAAACTGTAA
64 GTTGACTGATTGTAAATG-T-AACTG-AA
677106 GGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTTTATAGAAAAAAAGAAAG
1 -GATTAGACTAATGCATGAATTATATCTGAGAATCAGATTC--TTTTTTATAGAAAAAAAGAAAG
677171 A
63 A
677172 CTGCAAGGAT
Statistics
Matches: 209, Mismatches: 11, Indels: 37
0.81 0.04 0.14
Matches are distributed among these distances:
83 2 0.01
84 60 0.29
85 11 0.05
86 1 0.00
88 51 0.24
89 3 0.01
91 5 0.02
92 4 0.02
93 48 0.23
94 13 0.06
95 11 0.05
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.34
Consensus pattern (89 bp):
GATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAAAAGAAAGAGT
TGACTGATTGTAAATGTAACTGAA
Found at i:677134 original size:177 final size:172
Alignment explanation
Indices: 676843--677171 Score: 518
Period size: 177 Copynumber: 1.9 Consensus size: 172
676833 GACTGCAAGG
* * *
676843 ATTAGACTAATGCATTAATTATATCTGAGAATTAGATTCTTTTTTATAGAAAAAAAAGTTGACTA
1 ATTAGACTAATGCATGAATTATATCTGAGAATCAAATTCTTTTTTATAGAAAAAAAAGTTGACTA
*
676908 ATTGTAAATGTCAGACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTC-TT
66 ATTGTAAATGTCAAACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTT
676972 TTTTATAGAAAAAAAGGAAAGATTGGTTGATTGTAATGCATGA
131 TTTTATAGAAAAAAA-GAAAGATTGGTTGATTGTAATGCATGA
677015 ATTAGACTAATGCATGAATTATA-CATGAGAATCAAATTCTTTTTTATAGAAAAAAAAGAAAAGT
1 ATTAGACTAATGCATGAATTATATC-TGAGAATCAAATTCTTTTTTATAG----AAAA-AAAAGT
* *
677079 TGACTGATTGTAAATGTTAAACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGA
60 TGACTAATTGTAAATGTCAAACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGA
677144 TTCTTTTTTTTATAGAAAAAAAGAAAGA
125 TTC-TTTTTTTATAGAAAAAAAGAAAGA
677172 CTGCAAGGAT
Statistics
Matches: 143, Mismatches: 6, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
171 1 0.01
172 44 0.31
176 4 0.03
177 71 0.50
178 6 0.04
179 17 0.12
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (172 bp):
ATTAGACTAATGCATGAATTATATCTGAGAATCAAATTCTTTTTTATAGAAAAAAAAGTTGACTA
ATTGTAAATGTCAAACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTT
TTTTATAGAAAAAAAGAAAGATTGGTTGATTGTAATGCATGA
Found at i:677138 original size:407 final size:409
Alignment explanation
Indices: 676614--677488 Score: 1527
Period size: 407 Copynumber: 2.1 Consensus size: 409
676604 GACTGTAAAG
*
676614 ATTAGACTAATGCATGAATTATACATGAGAATTAAATTCTTTTTTATAG----AAAAAAAATTGA
1 ATTAGACTAATGCATGAATTATACATGAGAATCAAATTCTTTTTTATAGAAAAAAAAAAAATTGA
*
676675 TTGATTGTAAATGTTAAACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTC
66 CTGATTGTAAATGTTAAACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTC
676740 TTTTTTTTATAGAAAAAAAGAAAGACTGCAAGGATTAGACTAATGCATGAATTATATTTGAGAAT
131 TTTTTTTTATAGAAAAAAAGAAAGACTGCAAGGATTAGACTAATGCATGAATTATATTTGAGAAT
676805 CGGATTCTTTTTTATAAGAAAAAAGAAAGACTGCAAGGATTAGACTAATGCATTAATTATATCTG
196 CGGATTCTTTTTTATAAGAAAAAAGAAAGACTGCAAGGATTAGACTAATGCATTAATTATATCTG
* *
676870 AGAATTAGATTCTTTTTTATAGAAAAAAAAGTTGACTAATTGTAAATGTCAGACTGTAAGGATTA
261 AGAATTAAATTCTTTTTTATAG-AAAAAAAGTTGACTAATTGTAAATATCAGACTGTAAGGATTA
*
676935 GACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAAAAGGAAAGATTGGTT
325 GACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAAAAGGAAAGATTAGTT
677000 GATTGT-AATG-C-A-T-GA
390 GATTGTAAATGTCAACTAGA
677015 ATTAGACTAATGCATGAATTATACATGAGAATCAAATTCTTTTTTATAGAAAAAAAAGAAAAGTT
1 ATTAGACTAATGCATGAATTATACATGAGAATCAAATTCTTTTTTATAGAAAAAAAA-AAAA-TT
677080 GACTGATTGTAAATGTTAAACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGAT
64 GACTGATTGTAAATGTTAAACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGAT
*
677145 TCTTTTTTTTATAGAAAAAAAGAAAGACTGCAAGGATTAGACTAATGCTTGAATTATATTTGAGA
129 TCTTTTTTTTATAGAAAAAAAGAAAGACTGCAAGGATTAGACTAATGCATGAATTATATTTGAGA
677210 ATCGGATTCTTTTTTATAAGAAAAAAGAAAGACTGCAAGGATTAGACTAATGCATTAATTATATC
194 ATCGGATTCTTTTTTATAAGAAAAAAGAAAGACTGCAAGGATTAGACTAATGCATTAATTATATC
*
677275 TGAGAATTAAATTCTTTTTTATAGAAAACAAGTTGACTAATTGTAAATATCAGACTGTAAGGATT
259 TGAGAATTAAATTCTTTTTTATAGAAAAAAAGTTGACTAATTGTAAATATCAGACTGTAAGGATT
677340 AGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAAAAGGAAAGATTAGT
324 AGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAAAAGGAAAGATTAGT
677405 TGATTGTAAATGTCAGACTGTAAGA
389 TGATTGTAAATGTCA-AC--T-AGA
* *
677430 ATTAGACTAATGCATGAATTATATC-TGAGAATCAGATTTTTTTTTATAGAAAAAAAAAA
1 ATTAGACTAATGCATGAATTATA-CATGAGAATCAAATTCTTTTTTATAGAAAAAAAAAA
677489 GACTGCAAGG
Statistics
Matches: 449, Mismatches: 9, Indels: 19
0.94 0.02 0.04
Matches are distributed among these distances:
401 48 0.11
405 4 0.01
406 114 0.25
407 222 0.49
408 1 0.00
410 1 0.00
413 1 0.00
414 2 0.00
415 55 0.12
416 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.34
Consensus pattern (409 bp):
ATTAGACTAATGCATGAATTATACATGAGAATCAAATTCTTTTTTATAGAAAAAAAAAAAATTGA
CTGATTGTAAATGTTAAACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTC
TTTTTTTTATAGAAAAAAAGAAAGACTGCAAGGATTAGACTAATGCATGAATTATATTTGAGAAT
CGGATTCTTTTTTATAAGAAAAAAGAAAGACTGCAAGGATTAGACTAATGCATTAATTATATCTG
AGAATTAAATTCTTTTTTATAGAAAAAAAGTTGACTAATTGTAAATATCAGACTGTAAGGATTAG
ACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAAAAGGAAAGATTAGTTG
ATTGTAAATGTCAACTAGA
Found at i:677262 original size:70 final size:70
Alignment explanation
Indices: 677099--677302 Score: 304
Period size: 70 Copynumber: 2.9 Consensus size: 70
677089 TAAATGTTAA
* * *
677099 ACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTTTATAGAAAAA
1 ACTGCAAGGATTAGACTAATGCTTGAATTATATCTGAGAATCAGATTCTTTTTTATA-AG-AAAA
677164 AAGAAAG
64 AAGAAAG
* *
677171 ACTGCAAGGATTAGACTAATGCTTGAATTATATTTGAGAATCGGATTCTTTTTTATAAGAAAAAA
1 ACTGCAAGGATTAGACTAATGCTTGAATTATATCTGAGAATCAGATTCTTTTTTATAAGAAAAAA
677236 GAAAG
66 GAAAG
* *
677241 ACTGCAAGGATTAGACTAATGCATT-AATTATATCTGAGAATTAAATTCTTTTTTAT-AGAAAA
1 ACTGCAAGGATTAGACTAATGC-TTGAATTATATCTGAGAATCAGATTCTTTTTTATAAGAAAA
677303 CAAGTTGACT
Statistics
Matches: 122, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
69 6 0.05
70 60 0.49
71 4 0.03
72 52 0.43
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (70 bp):
ACTGCAAGGATTAGACTAATGCTTGAATTATATCTGAGAATCAGATTCTTTTTTATAAGAAAAAA
GAAAG
Found at i:677385 original size:87 final size:90
Alignment explanation
Indices: 677239--677492 Score: 347
Period size: 93 Copynumber: 2.8 Consensus size: 90
677229 GAAAAAAGAA
* * * * *
677239 AGACTGCAAGGATTAGACTAATGCATTAATTATATCTGAGAATTAAATTCTTTTTTATAGAAAAC
1 AGACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAA
**
677304 AA-G-TTGACTA-ATTGTAAATATC
66 AAGGAAAGACTAGATTGTAAATATC
677326 AGACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAA
1 AGACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAA
* *
677391 AAGGAAAGATTAGTTGATTGTAAATGTC
66 AAGGAAAGACTA---GATTGTAAATATC
* *
677419 AGACTGTAAGAATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTTTTTTTATAGAAAAA
1 AGACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAA
677484 AA--AAAGACT
66 AAGGAAAGACT
677493 GCAAGGATTA
Statistics
Matches: 149, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
87 62 0.42
88 1 0.01
89 4 0.03
91 6 0.04
93 76 0.51
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (90 bp):
AGACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAA
AAGGAAAGACTAGATTGTAAATATC
Found at i:677411 original size:322 final size:316
Alignment explanation
Indices: 676920--677542 Score: 889
Period size: 319 Copynumber: 2.0 Consensus size: 316
676910 TGTAAATGTC
* *
676920 AGACTGTAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAA
1 AGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAAATTCTTTTTTATAGAAAAA
** *
676985 AAGGAAAGATTGGTTGATTGTAATGCATGAATTAGACTAATGCATGAATTATACATGAGAATCAA
66 AAGGAAAGATTGGTAAATTGTAATGCAAGAATTAGACTAATGCATGAATTATACATGAGAATCAA
* *
677050 ATTCTTTTTTATAGAAAAAAAAGAAAAGTTGACTGATTGTAAATGTTAAACTGTAAGGATTAGAC
131 ATTCTTTTTTATAGAAAAAAAAGAAAAGTTGACTGATTGTAAATGTCAAACTGTAAGAATTAGAC
677115 TAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTTTATAGAAAAAAAGAAAGACTGCAAGG
196 TAATGCATGAATTATATCTGAGAATCAGA-T-TTTTTTTTATAGAAAAAAA-AAAGACTGCAAGG
* * *
677180 ATTAGACTAATGCTTGAATTATATTTGAGAATCGGATTCTTTTTTATAAGAAAAAAGAA
258 ATTAGACTAATGCATAAATTATATTTGAGAATCAGATTCTTTTTTATAAGAAAAAAGAA
* * *
677239 AGACTGCAAGGATTAGACTAATGCATTAATTATATCTGAGAATTAAATTCTTTTTTATAGAAAAC
1 AGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAAATTCTTTTTTATAGAAAAA
* * * *
677304 AAGTTGACTA-ATT-GTAAATATCAG-ACTGTAAGGATTAGACTAATGCATGAATTATATC-TGA
66 AAG--GA-AAGATTGGTAAAT-T--GTAATGCAAGAATTAGACTAATGCATGAATTATA-CATGA
* * * *
677365 GAATCAGATTCTTTTTTATAG-AAAAAAAGGAAAGATT-AGTTGATTGTAAATGTCAGACTGTAA
124 GAATCAAATTCTTTTTTATAGAAAAAAAAGAAAAG-TTGA-CTGATTGTAAATGTCAAACTGTAA
677428 GAATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTTTTTTTATAGAAAAAAAAAAGACT
187 GAATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTTTTTTTATAGAAAAAAAAAAGACT
* *
677493 GCAAGGATTAGATTAATGCATAAATTATATTTGAGAATTAGATTCTTTTT
252 GCAAGGATTAGACTAATGCATAAATTATATTTGAGAATCAGATTCTTTTT
677543 GATCGAAAAG
Statistics
Matches: 272, Mismatches: 23, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
319 115 0.42
320 23 0.08
321 20 0.07
322 112 0.41
323 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (316 bp):
AGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAAATTCTTTTTTATAGAAAAA
AAGGAAAGATTGGTAAATTGTAATGCAAGAATTAGACTAATGCATGAATTATACATGAGAATCAA
ATTCTTTTTTATAGAAAAAAAAGAAAAGTTGACTGATTGTAAATGTCAAACTGTAAGAATTAGAC
TAATGCATGAATTATATCTGAGAATCAGATTTTTTTTTATAGAAAAAAAAAAGACTGCAAGGATT
AGACTAATGCATAAATTATATTTGAGAATCAGATTCTTTTTTATAAGAAAAAAGAA
Found at i:677510 original size:69 final size:69
Alignment explanation
Indices: 677419--677551 Score: 185
Period size: 69 Copynumber: 1.9 Consensus size: 69
677409 TGTAAATGTC
* * * *
677419 AGACTGTAAGAATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTTTTTTTATAGAAAAA
1 AGACTGCAAGAATTAGACTAATGCATAAATTATATCTGAGAATCAGATTCTTTTTGATAGAAAAA
677484 AAAA
66 AAAA
* * * * *
677488 AGACTGCAAGGATTAGATTAATGCATAAATTATATTTGAGAATTAGATTCTTTTTGATCGAAAA
1 AGACTGCAAGAATTAGACTAATGCATAAATTATATCTGAGAATCAGATTCTTTTTGATAGAAAA
677552 GCTGAAAAGT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 55 1.00
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.35
Consensus pattern (69 bp):
AGACTGCAAGAATTAGACTAATGCATAAATTATATCTGAGAATCAGATTCTTTTTGATAGAAAAA
AAAA
Found at i:678230 original size:19 final size:19
Alignment explanation
Indices: 678197--678233 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
678187 ATATATTCAT
678197 TATAATATTTTTTAATTTG
1 TATAATATTTTTTAATTTG
678216 TATAA-ATTTTATTAATTT
1 TATAATATTTT-TTAATTT
678234 TAATGGTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TATAATATTTTTTAATTTG
Found at i:678524 original size:16 final size:16
Alignment explanation
Indices: 678505--678539 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
678495 GTAGTAAAAT
678505 TTTTAA-TCATTTTTAA
1 TTTTAACTCA-TTTTAA
678521 TTTTAACTCATTTTAA
1 TTTTAACTCATTTTAA
678537 TTT
1 TTT
678540 CGGGTCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTAACTCATTTTAA
Found at i:678760 original size:16 final size:16
Alignment explanation
Indices: 678748--678799 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
678738 GTAATTTTGG
* *
678748 ATTTGAATTATTTCAA
1 ATTTAAATTATTTTAA
678764 ATTTAAATTATTTTAA
1 ATTTAAATTATTTTAA
*
678780 ATTTAAATTATTTTGA
1 ATTTAAATTATTTTAA
678796 ATTT
1 ATTT
678800 GAATCAATCG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (16 bp):
ATTTAAATTATTTTAA
Found at i:679552 original size:16 final size:16
Alignment explanation
Indices: 679522--679556 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
679512 CTATATAAAT
679522 ATAATTAAAATATATA
1 ATAATTAAAATATATA
679538 ATAATATAAAA-ATATA
1 ATAAT-TAAAATATATA
679554 ATA
1 ATA
679557 TAAAAACACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAATTAAAATATATA
Found at i:679554 original size:13 final size:13
Alignment explanation
Indices: 679538--679562 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
679528 AAAATATATA
679538 ATAATATAAAAAT
1 ATAATATAAAAAT
679551 ATAATATAAAAA
1 ATAATATAAAAA
679563 CACATCAATT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
ATAATATAAAAAT
Found at i:679886 original size:2 final size:2
Alignment explanation
Indices: 679879--679909 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
679869 ATTATTGAAG
679879 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
679910 CCCATTAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:680659 original size:45 final size:45
Alignment explanation
Indices: 680574--680662 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 45
680564 TATCATAATA
* * *
680574 TAAATTATTTTTTTATTAAATTTTTAAGTTAAATAGTTAATTTAT
1 TAAATTATATTTTTATTAAATTTATAACTTAAATAGTTAATTTAT
*
680619 TAAATTATATTTTTATTTAAATTTA-ATACTTAAA-ATTTAATTTA
1 TAAATTATATTTTTA-TTAAATTTATA-ACTTAAATAGTTAATTTA
680663 ATTAGTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 24 0.63
46 14 0.37
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (45 bp):
TAAATTATATTTTTATTAAATTTATAACTTAAATAGTTAATTTAT
Found at i:681960 original size:12 final size:11
Alignment explanation
Indices: 681943--681973 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
681933 AATTTTAATT
681943 AATTAATTATAA
1 AATTAATTAT-A
681955 AATTAATTATA
1 AATTAATTATA
681966 AATTAATT
1 AATTAATT
681974 TTATTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
AATTAATTATA
Found at i:682467 original size:18 final size:17
Alignment explanation
Indices: 682444--682494 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
682434 ACACAAAAAT
682444 AATATAAAAAATAAGTAA
1 AATATAAAAAATAA-TAA
* *
682462 AATATAACATAATAATAC
1 AATATAA-AAAATAATAA
682480 AATATAAATAAATAA
1 AATATAAA-AAATAA
682495 ATATATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 1 0.04
18 21 0.75
19 6 0.21
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (17 bp):
AATATAAAAAATAATAA
Found at i:682467 original size:34 final size:36
Alignment explanation
Indices: 682415--682494 Score: 92
Period size: 34 Copynumber: 2.2 Consensus size: 36
682405 ATTATATGTA
* * * *
682415 AAAAAATGATTAAGATATAACACAA-AA-ATAATAT
1 AAAAAATAAGTAAAATATAACACAATAATACAATAT
*
682449 AAAAAATAAGTAAAATATAACATAATAATACAATAT
1 AAAAAATAAGTAAAATATAACACAATAATACAATAT
682485 AAATAAATAA
1 AAA-AAATAA
682495 ATATATTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
34 21 0.55
35 2 0.05
36 9 0.24
37 6 0.16
ACGTcount: A:0.68, C:0.05, G:0.04, T:0.24
Consensus pattern (36 bp):
AAAAAATAAGTAAAATATAACACAATAATACAATAT
Found at i:683002 original size:28 final size:29
Alignment explanation
Indices: 682971--683030 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
682961 ATTATAATTG
682971 TTTTTAAAAATTTATAA-ATTTATATAA-A
1 TTTTTAAAAATTTA-AATATTTATATAATA
* * *
682999 TTTTTATACATTTAAATATTTTTATAATA
1 TTTTTAAAAATTTAAATATTTATATAATA
683028 TTT
1 TTT
683031 ATATTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 2 0.07
28 21 0.78
29 4 0.15
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (29 bp):
TTTTTAAAAATTTAAATATTTATATAATA
Found at i:683040 original size:20 final size:19
Alignment explanation
Indices: 682981--683041 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
682971 TTTTTAAAAA
*
682981 TTTATAAATTTATATAAATT
1 TTTATAAATTTATAT-TATT
* *
683001 TTTATACATTTA-AATATT
1 TTTATAAATTTATATTATT
683019 TTTATAATATTTATATTATT
1 TTTATAA-ATTTATATTATT
683039 TTT
1 TTT
683042 TACATCATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 9 0.26
19 6 0.18
20 19 0.56
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTATAAATTTATATTATT
Found at i:692192 original size:52 final size:52
Alignment explanation
Indices: 692081--692199 Score: 186
Period size: 52 Copynumber: 2.3 Consensus size: 52
692071 GCATGTACAT
***
692081 TAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTTTA
1 TAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATAAGA
*
692133 TAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACA-AAGA
1 TAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATAAGA
692184 TCAGTGTATCGATACA
1 T-AGTGTATCGATACA
692200 ATATATCGAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 2 0.03
52 59 0.97
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (52 bp):
TAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATAAGA
Found at i:692280 original size:19 final size:18
Alignment explanation
Indices: 692256--692353 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
692246 TAGCTTAAAT
692256 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
692275 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
692288 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
692307 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
692320 TGTATCGATACAACACTCTA
1 TGTATCGATACAA-ACT-TA
692340 TGTATCGATACAAA
1 TGTATCGATACAAA
692354 TCATTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:692293 original size:13 final size:13
Alignment explanation
Indices: 692275--692331 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
692265 ACAAAACTTA
692275 TGTATCGATACAT
1 TGTATCGATACAT
692288 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
692306 ATGTATCGATACAT
1 -TGTATCGATACAT
692320 TGTATCGATACA
1 TGTATCGATACA
692332 ACACTCTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:692295 original size:32 final size:32
Alignment explanation
Indices: 692254--692351 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
692244 AGTAGCTTAA
*
692254 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
692286 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
692318 ATTGTATCGATACAACACTCTATGTATCGATAC
1 ATTGTATCGATACAACACT-TATGTATCGATAC
692351 A
1 A
692352 AATCATTGAA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 50 0.78
33 14 0.22
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:692430 original size:21 final size:22
Alignment explanation
Indices: 692383--692430 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
692373 TTAACCGTTG
*
692383 GGACATTGTATCGATACATTCT
1 GGACAATGTATCGATACATTCT
*
692405 -AACAATGTATCGATACATT-T
1 GGACAATGTATCGATACATTCT
692425 GGACAA
1 GGACAA
692431 AAATGTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (22 bp):
GGACAATGTATCGATACATTCT
Found at i:692833 original size:12 final size:12
Alignment explanation
Indices: 692781--692844 Score: 69
Period size: 12 Copynumber: 5.5 Consensus size: 12
692771 GGACCTTATA
* *
692781 ATATTAAATAAG
1 ATATAAAATATG
*
692793 ATAT-AAATATA
1 ATATAAAATATG
* *
692804 ATATAAAAAATA
1 ATATAAAATATG
692816 AT-TAAAATATG
1 ATATAAAATATG
692827 ATATAAAATATG
1 ATATAAAATATG
692839 ATATAA
1 ATATAA
692845 TATGAACATA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
11 18 0.40
12 27 0.60
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (12 bp):
ATATAAAATATG
Found at i:693110 original size:17 final size:18
Alignment explanation
Indices: 693088--693143 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
693078 TTAAAAGTGC
693088 AATTATATT-TTTATTTT
1 AATTATATTATTTATTTT
693105 AATTATATTATTTA-TTT
1 AATTATATTATTTATTTT
* *
693122 ATTTAT-TTATTGATATTT
1 AATTATATTATTTAT-TTT
693140 AATT
1 AATT
693144 CGAAATATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 6 0.18
17 17 0.52
18 10 0.30
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
AATTATATTATTTATTTT
Found at i:693862 original size:16 final size:15
Alignment explanation
Indices: 693835--693866 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
693825 GTATTAAATA
693835 AATATTTTAATATAT
1 AATATTTTAATATAT
693850 AATATTTTAA-ATAT
1 AATATTTTAATATAT
693864 AAT
1 AAT
693867 TATGATACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATATTTTAATATAT
Found at i:693865 original size:14 final size:14
Alignment explanation
Indices: 693828--693866 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
693818 TTAAATTGTA
693828 TTAAATA-AATATT
1 TTAAATATAATATT
693841 TTAATATATAATATT
1 TTAA-ATATAATATT
693856 TTAAATATAAT
1 TTAAATATAAT
693867 TATGATACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.17
14 10 0.42
15 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TTAAATATAATATT
Found at i:694210 original size:23 final size:23
Alignment explanation
Indices: 694168--694212 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
694158 AATATCATTA
**
694168 TATTAAATATATTTTTTATTAAT
1 TATTAAATATATTTAATATTAAT
*
694191 TATTATATATATTTAATATTAA
1 TATTAAATATATTTAATATTAA
694213 ATTTAGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTAAATATATTTAATATTAAT
Found at i:694929 original size:31 final size:28
Alignment explanation
Indices: 694894--694965 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 28
694884 TTGATTTATG
694894 TTAAAAATTTATTTTAAATACAAATTAAAAA
1 TTAAAAATTTATTTT-AATA-AAA-TAAAAA
* *
694925 TTAAAATATATATTTTAATAGAATAAAAA
1 TTAAAA-ATTTATTTTAATAAAATAAAAA
694954 TATAAAAATTTA
1 T-TAAAAATTTA
694966 GTGAAGTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 11 0.31
30 7 0.19
31 10 0.28
32 8 0.22
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (28 bp):
TTAAAAATTTATTTTAATAAAATAAAAA
Found at i:695227 original size:20 final size:21
Alignment explanation
Indices: 695183--695229 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
695173 TTTCATCAAG
695183 TTTTCATTTACATCTTATTTCT
1 TTTTCATTTACATCTTA-TTCT
*
695205 TTTTCATTTACCTCTTA-TCT
1 TTTTCATTTACATCTTATTCT
695225 TTTTC
1 TTTTC
695230 CTCAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 8 0.33
22 16 0.67
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTCATTTACATCTTATTCT
Found at i:695556 original size:12 final size:12
Alignment explanation
Indices: 695533--695595 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
695523 CAAAGAAAAA
*
695533 TAAATGATAATT
1 TAAATTATAATT
*
695545 TATATTATAATT
1 TAAATTATAATT
**
695557 TAAATTAATGTTT
1 TAAATT-ATAATT
*
695570 TAAATTATAATA
1 TAAATTATAATT
* *
695582 TAAAGTATTATT
1 TAAATTATAATT
695594 TA
1 TA
695596 CTTTTTTGTA
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
12 29 0.74
13 10 0.26
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (12 bp):
TAAATTATAATT
Found at i:696815 original size:21 final size:21
Alignment explanation
Indices: 696764--696816 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
696754 AATGTATTAT
*
696764 ATATTTATATAAATTTAAAAA
1 ATATTTATATAAAATTAAAAA
*
696785 ATATTAATATAAAATTAAAATA
1 ATATTTATATAAAATTAAAA-A
696807 AT-TTTATATA
1 ATATTTATATA
696817 TTTTATAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATATTTATATAAAATTAAAAA
Found at i:697777 original size:32 final size:32
Alignment explanation
Indices: 697736--697796 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
697726 AACTAGACTT
697736 TCAAAATATTATA-CTTTTGAATCTTACCTCTG
1 TCAAAATATTATACCTTTT-AATCTTACCTCTG
697768 TCAAAATATTATACCTTTTAATCTTACCT
1 TCAAAATATTATACCTTTTAATCTTACCT
697797 ATCTACCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
32 23 0.82
33 5 0.18
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.44
Consensus pattern (32 bp):
TCAAAATATTATACCTTTTAATCTTACCTCTG
Found at i:697938 original size:21 final size:19
Alignment explanation
Indices: 697892--697932 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
697882 ATGTTGAAAT
697892 TATTTATTTTTATATGTTA
1 TATTTATTTTTATATGTTA
* *
697911 TATTTATTTTAATATATTA
1 TATTTATTTTTATATGTTA
697930 TAT
1 TAT
697933 ATTTATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TATTTATTTTTATATGTTA
Found at i:698380 original size:11 final size:11
Alignment explanation
Indices: 698336--698387 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 11
698326 ATAATTAATA
698336 TTATATTA-AT
1 TTATATTATAT
*
698346 TT-TAATATAT
1 TTATATTATAT
698356 TTAT-TTCATAT
1 TTATATT-ATAT
698367 TTATATTAT-T
1 TTATATTATAT
698377 TT-TATTATAT
1 TTATATTATAT
698387 T
1 T
698388 AATTATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
9 10 0.29
10 12 0.34
11 11 0.31
12 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATATTATAT
Found at i:700331 original size:8 final size:8
Alignment explanation
Indices: 700318--700343 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
700308 CACTAATTTT
700318 TTTTTTAA
1 TTTTTTAA
700326 TTTTTTAA
1 TTTTTTAA
700334 TTTTTTAA
1 TTTTTTAA
700342 TT
1 TT
700344 ACTATGATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTAA
Found at i:704764 original size:20 final size:20
Alignment explanation
Indices: 704713--704766 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
704703 TTTTACCTAG
* * *
704713 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATGTATGA
*
704733 ATGTAACGATACATGTATGA
1 ATGTATCGATACATGTATGA
*
704753 ATGTATCAATACAT
1 ATGTATCGATACAT
704767 TCTATCTTCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATGTATGA
Found at i:712317 original size:49 final size:49
Alignment explanation
Indices: 712256--712485 Score: 295
Period size: 43 Copynumber: 4.9 Consensus size: 49
712246 TAAAGATGCT
* *
712256 AATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGATACC
1 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACC
* * * *
712305 AATGTGCTGATTCAAGGCCGGCGACATTGGACTT-AA-A-G--G-TGCC
1 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACC
712348 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACC
1 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACC
* * *
712397 AATATGCTGATTCAAGGCCGGCGACATTGGACTT-AA-A-G--G-TGCC
1 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACC
712440 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGAT
1 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGAT
712486 GCCACCAACT
Statistics
Matches: 154, Mismatches: 15, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
43 69 0.45
44 6 0.04
45 2 0.01
46 4 0.03
47 2 0.01
48 6 0.04
49 65 0.42
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (49 bp):
AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACC
Found at i:712405 original size:92 final size:92
Alignment explanation
Indices: 712245--712485 Score: 437
Period size: 92 Copynumber: 2.6 Consensus size: 92
712235 CTTAGGAATG
* * * * *
712245 TTAAAGATGCTAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGATACCAATGT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACCAATAT
712310 GCTGATTCAAGGCCGGCGACATTGGAC
66 GCTGATTCAAGGCCGGCGACATTGGAC
712337 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACCAATAT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACCAATAT
712402 GCTGATTCAAGGCCGGCGACATTGGAC
66 GCTGATTCAAGGCCGGCGACATTGGAC
712429 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGAT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGAT
712486 GCCACCAACT
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 144 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (92 bp):
TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACCAATAT
GCTGATTCAAGGCCGGCGACATTGGAC
Found at i:712523 original size:31 final size:30
Alignment explanation
Indices: 712485--712799 Score: 189
Period size: 28 Copynumber: 10.9 Consensus size: 30
712475 AAGATGAAGA
712485 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
1 TGCCACCAACTT-TGTGGGCTTTTGAAA-GGT
712517 TG-CACCAACTTATGT--GCTTTT-AAAGGT
1 TGCCACCAACTT-TGTGGGCTTTTGAAAGGT
** * *
712544 TGCCACTGAC-TTGTGGGCTTTTGAAAAGA
1 TGCCACCAACTTTGTGGGCTTTTGAAAGGT
* ** * *
712573 TACCACTGAC-TTGTGGGCTTTGGAAAAGGG
1 TGCCACCAACTTTGTGGGCTTTTG-AAAGGT
* **
712603 TGTCACTGAC-TTGTGGGCTTTTG-AAGGT
1 TGCCACCAACTTTGTGGGCTTTTGAAAGGT
** * * *
712631 TGCCACTGAC-TTGTGGGCTTTGGAAAAGA
1 TGCCACCAACTTTGTGGGCTTTTGAAAGGT
712660 TGCCA-CAGAC-TTGTGGGCTTTTG-AAGGT
1 TGCCACCA-ACTTTGTGGGCTTTTGAAAGGT
** * *
712688 TGCCACTGAC-TTGTGGGCTTTGGAAAGGA
1 TGCCACCAACTTTGTGGGCTTTTGAAAGGT
** * *
712717 TGCCACTGAC-TTGTGGGCTTTGGAAAAGGG
1 TGCCACCAACTTTGTGGGCTTTTG-AAAGGT
**
712747 TGCCACTGAC-TTGTGGGCTTTTG-AAGGT
1 TGCCACCAACTTTGTGGGCTTTTGAAAGGT
**
712775 TGCCACTGAC-TTGTGGGC-TTTGAAA
1 TGCCACCAACTTTGTGGGCTTTTGAAA
712800 AAGATGCCAC
Statistics
Matches: 243, Mismatches: 29, Indels: 26
0.82 0.10 0.09
Matches are distributed among these distances:
26 3 0.01
27 10 0.04
28 85 0.35
29 80 0.33
30 51 0.21
31 12 0.05
32 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (30 bp):
TGCCACCAACTTTGTGGGCTTTTGAAAGGT
Done.