Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold42
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: 3911082
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 18191 characters in sequence are not A, C, G, or T
File 20 of 24
Found at i:3030303 original size:135 final size:135
Alignment explanation
Indices: 3029768--3030624 Score: 716
Period size: 135 Copynumber: 6.5 Consensus size: 135
3029758 GTGGCACCTT
* * * * * * * *
3029768 CTTTTCAAAGCCCACAACTCTGTGGCACATTTTTCTTTTTAAAGCCCACGACTCCGTGGCAC-CT
1 CTTTT-AAAGTCCACAACTCCGTGGCACCTTGTTCCTTTCAAAGGCCACAACTCCGTGGCACTCT
* * * * * *
3029832 TCTT--TTCAAAGCCCACAACTCCGTAGCACCTTTTTCTTTTTAAAGCCCACGACTCCGTGGCAC
65 TTTTCCTTCTAAGTCCACAACTCCGTGGCA-C--TTTCTTTTCAAAGCCCACAACTCCGTGGCAC
*
3029895 ----CTT--
127 TATTTTTCC
* * * * * *
3029898 CTTTTCAAAGCCCACAACTCCGTGGCACATTTTTCTTTTTAAAGCCCACAACTCCGTGGCAC-CT
1 CTTTT-AAAGTCCACAACTCCGTGGCACCTTGTTCCTTTCAAAGGCCACAACTCCGTGGCACTCT
* * * * * * * * *
3029962 TTTTCTTTTCAAAGCCCACGACTCAGTGGCA-TTT-TGTCTCAAAGTCCACGACTCAGTGGCA-T
65 TTTTC-CTTCTAAGTCCACAACTCCGTGGCACTTTCT-TTTCAAAGCCCACAACTCCGTGGCACT
**
3030024 CCTTTT--
128 ATTTTTCC
* * * * * * ** *
3030030 C-TTCAAAGCCCACAACTCAGTGGCA--TT-TT-GTTTCAAAGTCTATGACTCAC-TGGCA-TCC
1 CTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTCAAAGGCCACAACTC-CGTGGCACTCT
* ** ** * * *
3030088 TTTT-CTTCAAAGTCCATGACTTAGTGGCA-TTT-TGTCTCAAAGTCCACGACTCAC-TGGCA-T
65 TTTTCCTTCTAAGTCCACAACTCCGTGGCACTTTCT-TTTCAAAGCCCACAACTC-CGTGGCACT
**
3030148 CCTTTTCC
128 ATTTTTCC
* *
3030156 CTTTTAAAGTCCACGACCCCGTGGCACCTTGTTCCTTTCAAAGGCCACAACTCCGTGGCACTCTT
1 CTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTCAAAGGCCACAACTCCGTGGCACTCTT
* * * *
3030221 TTTCCTTCTAAGTCCACAACTCTGTGGCACCTTCTTTTCAAAGCCCACAACTTCGTGGCACTCTT
66 TTTCCTTCTAAGTCCACAACTCCGTGGCACTTTCTTTTCAAAGCCCACAACTCCGTGGCACTATT
*
3030286 TTTCT
131 TTTCC
3030291 CTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTCAAAGGCCACAACTCCGTGGCACTCTT
1 CTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTCAAAGGCCACAACTCCGTGGCACTCTT
3030356 TTTCCTTCTAAGTCCACAACTCCGTGGCACTTTCTTTTCAAAGCCCACAACTCCGTGGCACTATT
66 TTTCCTTCTAAGTCCACAACTCCGTGGCACTTTCTTTTCAAAGCCCACAACTCCGTGGCACTATT
*
3030421 TTTCT
131 TTTCC
* *
3030426 CTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTT-TAAGCCCACAACTCCGTGGCAC-CTT
1 CTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTCAAAGGCCACAACTCCGTGGCACTCTT
* * * * * *
3030489 GTTCCTTTCAAAGCCCACCACTCCGTGGCATCTTTTCTTTT-TAAGTCCACAACTCCGTGGCACT
66 TTTCC-TTCTAAGTCCACAACTCCGTGGCA-C-TTTCTTTTCAAAGCCCACAACTCCGTGGCACT
3030553 ATTTTTCC
128 ATTTTTCC
* * ** * *
3030561 CTTTTAAAGCCCACAACTCCGTGGCACCTTCTT-CTTTTTAAGTCCACAACTTCGTGGCA-TCTT
1 CTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTCAAAGGCCACAACTCCGTGGCACTCTT
3030624 T
66 T
3030625 CACCCTTTTC
Statistics
Matches: 629, Mismatches: 68, Indels: 55
0.84 0.09 0.07
Matches are distributed among these distances:
124 56 0.09
126 24 0.04
127 22 0.03
128 3 0.00
129 26 0.04
130 88 0.14
131 21 0.03
132 9 0.01
133 49 0.08
134 66 0.10
135 257 0.41
136 8 0.01
ACGTcount: A:0.21, C:0.32, G:0.14, T:0.33
Consensus pattern (135 bp):
CTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTCAAAGGCCACAACTCCGTGGCACTCTT
TTTCCTTCTAAGTCCACAACTCCGTGGCACTTTCTTTTCAAAGCCCACAACTCCGTGGCACTATT
TTTCC
Found at i:3030662 original size:32 final size:32
Alignment explanation
Indices: 3030626--3030891 Score: 344
Period size: 32 Copynumber: 8.2 Consensus size: 32
3030616 GGCATCTTTC
3030626 ACCCTTTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTTTCAAAGCCCACACAAGTCGGTGGCA
*
3030658 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTTTCAAAGCCCACACAAGTCGGTGGCA
* * *
3030690 ACCC-TCTCTAAAGCCCACACAAGTTGGTGGTA
1 ACCCTTTTC-AAAGCCCACACAAGTCGGTGGCA
* *
3030722 ACCCTCCTCCAAAGCCCACACAAGTCGGTGGCA
1 ACCCT-TTTCAAAGCCCACACAAGTCGGTGGCA
*
3030755 ACCC-TTCCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTTTC-AAAGCCCACACAAGTCGGTGGCA
3030787 A-CCTTCTTCCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTT-TT-C-AAAGCCCACACAAGTCGGTGGCA
*
3030821 ACCTTCTTTT-AAAGCCCACACAAGTCGATGGCA
1 ACC--CTTTTCAAAGCCCACACAAGTCGGTGGCA
3030854 ACCCTCTTT-AAAGCCCACACAAGTCGGTGGCA
1 ACCCT-TTTCAAAGCCCACACAAGTCGGTGGCA
3030886 ACCCTT
1 ACCCTT
3030892 CTAAGCCCAA
Statistics
Matches: 211, Mismatches: 12, Indels: 23
0.86 0.05 0.09
Matches are distributed among these distances:
31 12 0.06
32 115 0.55
33 51 0.24
34 27 0.13
35 1 0.00
36 2 0.01
37 3 0.01
ACGTcount: A:0.28, C:0.36, G:0.18, T:0.19
Consensus pattern (32 bp):
ACCCTTTTCAAAGCCCACACAAGTCGGTGGCA
Found at i:3030758 original size:65 final size:64
Alignment explanation
Indices: 3030626--3030900 Score: 385
Period size: 65 Copynumber: 4.2 Consensus size: 64
3030616 GGCATCTTTC
* *
3030626 ACCCTTTTCAAAGCCCACACAAGTCGGTGGCAACCCTTCT-CAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCT-AAAGCCCACACAAGTCGGTGGCAACCCTCCTCCAAAGCCCACACAAGTCGGTGGCA
* *
3030690 ACCCTCTCTAAAGCCCACACAAGTTGGTGGTAACCCTCCTCCAAAGCCCACACAAGTCGGTGGCA
1 ACCCT-TCTAAAGCCCACACAAGTCGGTGGCAACCCTCCTCCAAAGCCCACACAAGTCGGTGGCA
* *
3030755 ACCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCCTAAAGCCCACACAAGTCGGTGGC
1 ACCCTT-CTAAAGCCCACACAAGTCGGTGGCAACCCTCCTCC-AAAGCCCACACAAGTCGGTGGC
3030820 A
64 A
* * **
3030821 ACCTTCTTTTAAAGCCCACACAAGTCGATGGCAACCCT-CTTTAAAGCCCACACAAGTCGGTGGC
1 ACC--CTTCTAAAGCCCACACAAGTCGGTGGCAACCCTCCTCCAAAGCCCACACAAGTCGGTGGC
3030885 A
64 A
3030886 ACCCTTCT-AAGCCCA
1 ACCCTTCTAAAGCCCA
3030901 ATATAGCTGG
Statistics
Matches: 190, Mismatches: 15, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
62 7 0.04
63 4 0.02
64 34 0.18
65 88 0.46
66 27 0.14
67 27 0.14
68 3 0.02
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.19
Consensus pattern (64 bp):
ACCCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTCCTCCAAAGCCCACACAAGTCGGTGGCA
Found at i:3030858 original size:99 final size:98
Alignment explanation
Indices: 3030629--3030900 Score: 385
Period size: 99 Copynumber: 2.8 Consensus size: 98
3030619 ATCTTTCACC
3030629 CTTTTCAAAGCCCACACAAGTCGGTGGCAACCCTT-CTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTT-AAAGCCCACACAAGTCGGTGGCAACCCTTCCT-AAAGCCCACACAAGTCGGTGGCAACC
* * *
3030693 CTC-TCTAAAGCCCACACAAGTTGGTGGTAACCCT
64 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
* **
3030727 CCTCCAAAGCCCACACAAGTCGGTGGCAACCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTT
1 CTTTTAAAGCCCACACAAGTCGGTGGCAACCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTT
*
3030792 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCTT
66 CTT-CTAAAGCCCACACAAGTCGGTGGCAACCCT
* *
3030826 CTTTTAAAGCCCACACAAGTCGATGGCAACCC-TCTTTAAAGCCCACACAAGTCGGTGGCAACC-
1 CTTTTAAAGCCCACACAAGTCGGTGGCAACCCTTC-CTAAAGCCCACACAAGTCGGTGGCAACCT
3030889 -CTTCT-AAGCCCA
65 TCTTCTAAAGCCCA
3030901 ATATAGCTGG
Statistics
Matches: 158, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
95 7 0.04
96 2 0.01
97 60 0.38
98 7 0.04
99 82 0.52
ACGTcount: A:0.28, C:0.36, G:0.18, T:0.19
Consensus pattern (98 bp):
CTTTTAAAGCCCACACAAGTCGGTGGCAACCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTT
CTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
Found at i:3030957 original size:49 final size:49
Alignment explanation
Indices: 3030893--3031500 Score: 768
Period size: 49 Copynumber: 12.7 Consensus size: 49
3030883 GCAACCCTTC
* * * *
3030893 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCGT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
*
3030942 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC---A---T
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
3030985 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
3031034 TAAGTCCAATGTAGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * * * *
3031083 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * * *
3031132 TAAGTCCAATATAGTTGGCCTTGAATCAACATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * * * *
3031181 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
3031230 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
3031279 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
3031322 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
3031370 TAAGTCCAGTGTAGTTGGCCTTGAATCAGCACATTGGCA-C-----CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* *
3031413 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTT--ATCTT
*
3031465 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
3031501 ACATCCGTTT
Statistics
Matches: 487, Mismatches: 52, Indels: 37
0.85 0.09 0.06
Matches are distributed among these distances:
43 119 0.24
44 2 0.00
46 2 0.00
47 1 0.00
48 41 0.08
49 286 0.59
52 36 0.07
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
Found at i:3031321 original size:21 final size:21
Alignment explanation
Indices: 3031297--3031363 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 21
3031287 ATGTAGCTGG
3031297 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* * *
3031318 CCTTTAAGTC--CA-ATGTAGCTGG
1 CCTTGAA-TCAGCACAT-TGGC--A
3031340 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
3031361 CCT
1 CCT
3031364 CACCTTTAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 11 0.33
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:3031343 original size:22 final size:22
Alignment explanation
Indices: 3031276--3031343 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
3031266 GCACCTTTAT
3031276 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
* * *
3031298 CTTGAA-TCAGCACAT-TGGC--AC
1 CTTTAAGTC--CA-ATGTAGCTGGC
3031319 CTTTAAGTCCAATGTAGCTGGC
1 CTTTAAGTCCAATGTAGCTGGC
3031341 CTT
1 CTT
3031344 GAATCAGCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATGTAGCTGGC
Found at i:3031409 original size:91 final size:92
Alignment explanation
Indices: 3031224--3031500 Score: 448
Period size: 91 Copynumber: 3.0 Consensus size: 92
3031214 TTGGCACCTT
* *
3031224 CACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
3031289 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* * * *
3031316 CACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAGT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
*
3031380 GTAGTTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
*
3031407 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTC
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCC
3031472 AATGTAGCTGGCCTTGAATCAGCACATTG
63 AATGTAGCTGGCCTTGAATCAGCACATTG
3031501 ACATCCGTTT
Statistics
Matches: 168, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
91 85 0.51
92 44 0.26
94 1 0.01
95 38 0.23
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (92 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
GTAGCTGGCCTTGAATCAGCACATTGG
Found at i:3031488 original size:52 final size:53
Alignment explanation
Indices: 3031410--3031563 Score: 193
Period size: 52 Copynumber: 2.9 Consensus size: 53
3031400 ACATTGGCAC
3031410 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
3031462 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCGTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * * *
3031517 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
3031564 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 6 0.07
55 36 0.42
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:3031621 original size:67 final size:68
Alignment explanation
Indices: 3031513--3031639 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
3031503 ATCCGTTTTC
* * *
3031513 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
3031577 TCT
66 TCT
* * * * *
3031580 TCATCTTTAAGTCTAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
3031640 AAAACCCAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:3032399 original size:13 final size:13
Alignment explanation
Indices: 3032381--3032405 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3032371 CATAAAGTGT
3032381 TGTATCGATACAA
1 TGTATCGATACAA
3032394 TGTATCGATACA
1 TGTATCGATACA
3032406 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3032403 original size:33 final size:33
Alignment explanation
Indices: 3032361--3032427 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3032351 TTCAATGATT
3032361 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
3032394 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
3032427 T
1 T
3032428 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:3032484 original size:13 final size:13
Alignment explanation
Indices: 3032466--3032526 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 13
3032456 ACATTACTCA
3032466 AATGTATCGATAC
1 AATGTATCGATAC
*
3032479 AATGTATTGATAC
1 AATGTATCGATAC
*
3032492 -AT-T-T-GAGA-
1 AATGTATCGATAC
*
3032500 AATGTATCAATAC
1 AATGTATCGATAC
*
3032513 ATTGTATCGATAC
1 AATGTATCGATAC
3032526 A
1 A
3032527 TTGATCTTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
9 5 0.14
10 2 0.05
11 2 0.05
12 4 0.11
13 24 0.65
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.34
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:3032491 original size:34 final size:34
Alignment explanation
Indices: 3032445--3032528 Score: 105
Period size: 34 Copynumber: 2.5 Consensus size: 34
3032435 ACTGCCAAAA
* *
3032445 AATGTATCGATACATTACTCAAATGTATCGATAC
1 AATGTATCGATACATTACACAAATGTATCAATAC
* ** *
3032479 AATGTATTGATACATTTGAGAAATGTATCAATAC
1 AATGTATCGATACATTACACAAATGTATCAATAC
*
3032513 ATTGTATCGATACATT
1 AATGTATCGATACATT
3032529 GATCTTTGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (34 bp):
AATGTATCGATACATTACACAAATGTATCAATAC
Found at i:3032578 original size:52 final size:52
Alignment explanation
Indices: 3032535--3032659 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
3032525 CATTGATCTT
3032535 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* *
3032587 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
3032639 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
3032660 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:3036135 original size:25 final size:25
Alignment explanation
Indices: 3036107--3036170 Score: 128
Period size: 25 Copynumber: 2.6 Consensus size: 25
3036097 AGATAAATAA
3036107 ATGTGAATAGATAATTTTTAACTTG
1 ATGTGAATAGATAATTTTTAACTTG
3036132 ATGTGAATAGATAATTTTTAACTTG
1 ATGTGAATAGATAATTTTTAACTTG
3036157 ATGTGAATAGATAA
1 ATGTGAATAGATAA
3036171 ATGTGTCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.41
Consensus pattern (25 bp):
ATGTGAATAGATAATTTTTAACTTG
Found at i:3036838 original size:33 final size:33
Alignment explanation
Indices: 3036794--3036858 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
3036784 TACCACTGTT
* * * *
3036794 TGTATCGATACATGGCACATTGTATTGATACAA
1 TGTATCAATACATGACAAATTGTATCGATACAA
*
3036827 TGTATCAATACATGATAAATTGTATCGATACA
1 TGTATCAATACATGACAAATTGTATCGATACA
3036859 TTGCTTCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCAATACATGACAAATTGTATCGATACAA
Found at i:3038466 original size:3 final size:3
Alignment explanation
Indices: 3038452--3038489 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
3038442 CATCAAAGAC
*
3038452 GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
3038490 CTTGGATGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.34, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:3039118 original size:13 final size:13
Alignment explanation
Indices: 3039100--3039127 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3039090 CATTATTCAA
3039100 TGTATTGATACAT
1 TGTATTGATACAT
3039113 TGTATTGATACAT
1 TGTATTGATACAT
3039126 TG
1 TG
3039128 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (13 bp):
TGTATTGATACAT
Found at i:3047117 original size:49 final size:49
Alignment explanation
Indices: 3046957--3047579 Score: 556
Period size: 49 Copynumber: 12.8 Consensus size: 49
3046947 CGAAGAATGA
* * * * * *
3046957 CAATGTGCTGATTTATGGCCAACGACATTAGACTTGAAGAAGAA--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* ** * * * *
3047004 CAATGTGTTGAGACAAGGCTAGCGACATTAGG-CTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTA--AA-GATGAAGGTGC
* * *
3047056 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
3047105 CAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
3047154 CAATATGCTGATTCAAGGCCAGCGATATCGGACTGAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
3047203 CAATGTGCTGATTCAAGGTCGGTGATATTGGACTTAAAGATGGTTAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-G--AAGGTGC
* * * ** *
3047255 AAATGTGCTGATTCAAGGCCAACAACATCAGTCTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
3047304 CAATATGCTGATTCAAGGCCAGTGATATTGGGC-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
3047343 CAATGTGCTGATTCTAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
3047391 CAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
3047440 CAATGTGCTGATTCAAGGCC-GACGACATTGGACTTAAAGATGGTTAAGGTAC
1 CAATGTGCTGATTCAAGGCCAG-CGACATTGGACTTAAAGAT-G--AAGGTGC
* * * * *
3047492 TAATATGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
3047541 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
3047580 TTGCCACGGA
Statistics
Matches: 460, Mismatches: 90, Indels: 50
0.77 0.15 0.08
Matches are distributed among these distances:
39 32 0.07
40 1 0.00
43 1 0.00
47 25 0.05
48 41 0.09
49 243 0.53
50 7 0.02
51 3 0.01
52 106 0.23
53 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:3047418 original size:87 final size:88
Alignment explanation
Indices: 3047251--3047425 Score: 262
Period size: 87 Copynumber: 2.0 Consensus size: 88
3047241 GATGGTTAAG
*
3047251 GTGCAAATGTGCTGATTCAAGGCCAACAACATCAGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCAAATGTGCTGATTCAAGGCCAACAACATCAGTCTTAAAGATCAAGGTGCCAATATGCTGAT
**
3047316 TCAAGGCCAGTGATATTGGGCTT
66 TCAAGGCCAACGATATTGGGCTT
* * * * **
3047339 GTGCCAATGTGCTGATTCTAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
1 GTGCAAATGTGCTGATTCAAGGCCAACAACATCAGTCTTAAAGATCAAGGTGCCAATATGCTGAT
3047403 TCAAGGCCAACGATATTGGGCTT
66 TCAAGGCCAACGATATTGGGCTT
3047426 AAAGATGAAG
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
87 40 0.51
88 38 0.49
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (88 bp):
GTGCAAATGTGCTGATTCAAGGCCAACAACATCAGTCTTAAAGATCAAGGTGCCAATATGCTGAT
TCAAGGCCAACGATATTGGGCTT
Found at i:3047433 original size:237 final size:238
Alignment explanation
Indices: 3047101--3047571 Score: 746
Period size: 237 Copynumber: 2.0 Consensus size: 238
3047091 AAAGATGAAG
*
3047101 GTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
* * ** *
3047166 TCAAGGCCAGCGATATCGGACTGAAAGATGAAGATGCCAATGTGCTGATTCAAGGTCGGTGATAT
66 TCAAGGCCAACGATATCGGACTGAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCGACGACAT
* *
3047231 TGGACTTAAAGATGGTTAAGGTGCAAATGTGCTGATTCAAGGCCAACAACATCAGTCTTAAAGAT
131 TGGACTTAAAGATGGTTAAGGTACAAATATGCTGATTCAAGGCCAACAACATCAGTCTTAAAGAT
* *
3047296 GAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCTT
196 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* *
3047339 GTGCCAATGTGCTGATTCTAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
* * *
3047403 TCAAGGCCAACGATATTGGGCTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCGACGACAT
66 TCAAGGCCAACGATATCGGACTGAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCGACGACAT
* * * * **
3047468 TGGACTTAAAGATGGTTAAGGTACTAATATGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGAT
131 TGGACTTAAAGATGGTTAAGGTACAAATATGCTGATTCAAGGCCAACAACATCAGTCTTAAAGAT
3047533 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
196 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
3047572 ACTTAAAGTT
Statistics
Matches: 212, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
237 170 0.80
238 42 0.20
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (238 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
TCAAGGCCAACGATATCGGACTGAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCGACGACAT
TGGACTTAAAGATGGTTAAGGTACAAATATGCTGATTCAAGGCCAACAACATCAGTCTTAAAGAT
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
Found at i:3047542 original size:101 final size:97
Alignment explanation
Indices: 3047339--3047579 Score: 313
Period size: 101 Copynumber: 2.4 Consensus size: 97
3047329 TATTGGGCTT
* * *
3047339 GTGCCAATGTGCTGATTCTAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGGTACCAATATGCTGATT
* *
3047404 CAAGGCCAACGATATTGGGCTTAAAGATGAAG
66 CAAGGCCAACGACATTGGGCTTAAAGATAAAG
* * *
3047436 ATGCCAATGTGCTGATTCAAGGCC-GACGACATTGGACTTAAAGATGGTTAAGGTACTAATATGC
1 GTGCCAATGTGCTGATTCAAGGCCAG-CGACATTGGACTTAAAGA----CAAGGTACCAATATGC
* * *
3047500 TGATTCAAGGCTAGCGACATTGGTCTTAAAGATAAAG
61 TGATTCAAGGCCAACGACATTGGGCTTAAAGATAAAG
* *
3047537 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
3047580 TTGCCACGGA
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
96 1 0.01
97 39 0.31
101 83 0.67
102 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (97 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGGTACCAATATGCTGATT
CAAGGCCAACGACATTGGGCTTAAAGATAAAG
Found at i:3047719 original size:33 final size:33
Alignment explanation
Indices: 3047576--3047901 Score: 346
Period size: 34 Copynumber: 9.9 Consensus size: 33
3047566 TATTGGACTT
* * *
3047576 AAAGTTGCCACGGAGTTGTGGACTT-ACAGGAA
1 AAAGGTGCCACAGAGTTGTGGACTTAAAAGGAA
* *
3047608 AAAGGGATGCCACGGAGGTGTAGG-CTTAAAAGGGAA
1 AAA-GG-TGCCACAGAGTTGT-GGACTTAAAA-GGAA
* * *
3047644 AAGGGTGCCACAGAGTCGTGGACTTAAAAAG-A
1 AAAGGTGCCACAGAGTTGTGGACTTAAAAGGAA
* *
3047676 AAAGGTGCCACGGAGTTATGGACTTAAAAGGAA
1 AAAGGTGCCACAGAGTTGTGGACTTAAAAGGAA
* *
3047709 CAAGGTGCCACAGTGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACAGAGTTGTGGACTTAAAAGGAA
*
3047742 AAAGATGCCACAGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCACAGAGTTGTGGACTTAAAAGGAA
*
3047772 ---GGTGCCACAGAGTTGTGGACTTAAAAAGAA
1 AAAGGTGCCACAGAGTTGTGGACTTAAAAGGAA
* * *
3047802 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACAGAGTTGTGGAC-TTAAAAGGAA
* *
3047837 AAAGGTACCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACAGAGTTGTGGACTTAAAAGGAA
*
3047870 AAAGAGTGCCACAGAGTCGTGGACTTAAAAGG
1 AAAG-GTGCCACAGAGTTGTGGACTTAAAAGG
3047902 GTGTCACGGA
Statistics
Matches: 249, Mismatches: 29, Indels: 30
0.81 0.09 0.10
Matches are distributed among these distances:
27 25 0.10
28 1 0.00
32 31 0.12
33 74 0.30
34 92 0.37
35 20 0.08
36 6 0.02
ACGTcount: A:0.37, C:0.13, G:0.31, T:0.18
Consensus pattern (33 bp):
AAAGGTGCCACAGAGTTGTGGACTTAAAAGGAA
Found at i:3047899 original size:27 final size:27
Alignment explanation
Indices: 3047869--3047922 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
3047859 CTTAAAAGGA
*
3047869 AAAAGAGTGCCACAGAGTCGTGGACTT
1 AAAAGAGTGCCACAGAGTCATGGACTT
* * *
3047896 AAAAGGGTGTCACGGAGTCATGGACTT
1 AAAAGAGTGCCACAGAGTCATGGACTT
3047923 TGGGAAGAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.20
Consensus pattern (27 bp):
AAAAGAGTGCCACAGAGTCATGGACTT
Found at i:3048235 original size:64 final size:64
Alignment explanation
Indices: 3047916--3048331 Score: 473
Period size: 64 Copynumber: 6.6 Consensus size: 64
3047906 CACGGAGTCA
* * * * * *
3047916 TGGACTTTGGGAAGAGATTGCCACTAAGTCATGGACTTT---GAAGAAAAGATGCCACTGAGTCG
1 TGGACTTTGAGAAAAGA-TGCCACTGAGTCGTGGACTTTGAGGAAAAAAAGATGCCACTGAGTTG
* * * *
3047978 TGGACTTAGAAGAAAAGGATGCCATTAAGTCGTGGAC-TT-A-G-AAAAGAGATGCCACTGAGTT
1 TGGACTTTG-AGAAAA-GATGCCACTGAGTCGTGGACTTTGAGGAAAAAAAGATGCCACTGAGTT
*
3048039 A
64 G
* * * * *
3048040 TGGACTTTAAAGAAAAGATGCCACTAAGTCGTGAACTTTG-GG---ACAAGATGCCACTGAGTCG
1 TGGACTTT-GAGAAAAGATGCCACTGAGTCGTGGACTTTGAGGAAAAAAAGATGCCACTGAGTTG
* * *
3048101 TGGACTTTGAGAATAGATTGCCACTGAGCCGTGGACTTT---GAAGAAAAGATGCCACTGAGTTG
1 TGGACTTTGAGAAAAGA-TGCCACTGAGTCGTGGACTTTGAGGAAAAAAAGATGCCACTGAGTTG
* *
3048163 TGGACTTTGGGAAAAGATGCCACTGAGTCGTGGACTTTGAGGAAAAAAAGATGCCACTAAGTTG
1 TGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTGAGGAAAAAAAGATGCCACTGAGTTG
* *
3048227 TGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAGGAAAAAAAGATGCCACTAAGTTG
1 TGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTGAGGAAAAAAAGATGCCACTGAGTTG
*
3048291 TGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAG
1 TGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTGAG
3048332 AAGAGAGATT
Statistics
Matches: 309, Mismatches: 31, Indels: 26
0.84 0.08 0.07
Matches are distributed among these distances:
59 1 0.00
60 7 0.02
61 79 0.26
62 74 0.24
63 22 0.07
64 126 0.41
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (64 bp):
TGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTGAGGAAAAAAAGATGCCACTGAGTTG
Found at i:3048337 original size:30 final size:30
Alignment explanation
Indices: 3047869--3048333 Score: 470
Period size: 30 Copynumber: 15.1 Consensus size: 30
3047859 CTTAAAAGGA
*
3047869 AAAAGAGTGCCACAGAGTCGTGGAC-TT-A-
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAG
* * * * * *
3047897 AAAGGGTGTCACGGAGTCATGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* * *
3047927 AAGAGATTGCCACTAAGTCATGGACTTTGAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTG-AG
*
3047959 AAAAGATGCCACTGAGTCGTGGACTTAGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-AG
* * *
3047990 AAAAGGATGCCATTAAGTCGTGGACTTAGA-
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
** *
3048020 AAAGAGATGCCACTGAGTTATGGACTTTAAAG
1 AAA-AGATGCCACTGAGTCGTGGACTTT-GAG
* * *
3048052 AAAAGATGCCACTAAGTCGTGAACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
*
3048082 ACAAGATGCCACTGAGTCGTGGACTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
* *
3048112 AATAGATTGCCACTGAGCCGTGGACTTTGAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTG-AG
* *
3048144 AAAAGATGCCACTGAGTTGTGGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
3048174 AAAAGATGCCACTGAGTCGTGGACTTTGAGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGA-G
* *
3048205 AAAAAAAGATGCCACTAAGTTGTGGACTTTGAG
1 ---AAAAGATGCCACTGAGTCGTGGACTTTGAG
*
3048238 AAGAGATGCCACTGAGTCGTGGACTTTGAGG
1 AAAAGATGCCACTGAGTCGTGGACTTTGA-G
* *
3048269 AAAAAAAGATGCCACTAAGTTGTGGACTTTGAG
1 ---AAAAGATGCCACTGAGTCGTGGACTTTGAG
*
3048302 AAGAGATGCCACTGAGTCGTGGACTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAG
3048332 AA
1 AA
3048334 GAGAGATTTG
Statistics
Matches: 363, Mismatches: 55, Indels: 36
0.80 0.12 0.08
Matches are distributed among these distances:
27 15 0.04
28 6 0.02
30 138 0.38
31 111 0.31
32 38 0.10
33 2 0.01
34 53 0.15
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.23
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:3051618 original size:13 final size:13
Alignment explanation
Indices: 3051600--3051624 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3051590 CAAAGATCAG
3051600 TGTATCGATACAA
1 TGTATCGATACAA
3051613 TGTATCGATACA
1 TGTATCGATACA
3051625 TTTGAAATGT
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:3051702 original size:13 final size:13
Alignment explanation
Indices: 3051684--3051708 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3051674 ACAACACTTA
3051684 TGTATCGATACAT
1 TGTATCGATACAT
3051697 TGTATCGATACA
1 TGTATCGATACA
3051709 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3051704 original size:32 final size:33
Alignment explanation
Indices: 3051663--3051728 Score: 125
Period size: 32 Copynumber: 2.0 Consensus size: 33
3051653 AGTAGCTTAT
3051663 ATTGTATCGATACAACAC-TTATGTATCGATAC
1 ATTGTATCGATACAACACTTTATGTATCGATAC
3051695 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACACTTTATGTATCGATAC
3051728 A
1 A
3051729 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 18 0.55
33 15 0.45
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAACACTTTATGTATCGATAC
Found at i:3052626 original size:55 final size:52
Alignment explanation
Indices: 3052526--3053038 Score: 341
Period size: 43 Copynumber: 10.7 Consensus size: 52
3052516 GAAAAGTGAT
* * * * * * **
3052526 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
* *
3052580 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
3052633 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
3052676 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * * *
3052725 GAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
3052768 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
3052818 -AAGATGCCAATATGCTGATTCAAGGCCAG-TGATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCT-ACATTGAACTTAAAGATGGA
* *
3052860 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
3052910 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC------CT---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
3052952 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
*
3053002 -AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTG
3053039 TGCTTAGAAG
Statistics
Matches: 381, Mismatches: 44, Indels: 73
0.77 0.09 0.15
Matches are distributed among these distances:
43 148 0.39
44 4 0.01
46 1 0.00
48 3 0.01
49 145 0.38
51 1 0.00
52 32 0.08
53 6 0.02
54 5 0.01
55 36 0.09
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:3052694 original size:43 final size:44
Alignment explanation
Indices: 3052632--3053038 Score: 473
Period size: 43 Copynumber: 8.9 Consensus size: 44
3052622 TTAAAGATGG
3052632 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
3052676 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
3052719 AAAGAAGAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTT
1 ----AA-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
3052768 -AAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTT
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
3052811 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTT
1 AAA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCT-ATATTGGACTT
* *
3052860 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
3052903 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACCT
1 --A-A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
3052952 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
3052995 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 --A-A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
3053039 TGCTTAGAAG
Statistics
Matches: 311, Mismatches: 26, Indels: 47
0.81 0.07 0.12
Matches are distributed among these distances:
43 150 0.48
44 5 0.02
45 2 0.01
46 2 0.01
47 3 0.01
48 5 0.02
49 144 0.46
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (44 bp):
AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:3052766 original size:92 final size:92
Alignment explanation
Indices: 3052580--3053038 Score: 792
Period size: 92 Copynumber: 4.9 Consensus size: 92
3052570 AAGATGAGAA
* *
3052580 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
*
3052645 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
*
3052676 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
3052741 TGATTTAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
3052768 AAAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
3052833 TGATTCAAGGCCAGTGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
3052860 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
3052925 TGATTCAAGGCCAGCGATATTGGACCT
66 TGATTCAAGGCCAGCGATATTGGACTT
3052952 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
3053017 TGATTCAAGGCCAGCTATATTG
66 TGATTCAAGGCCAGCGATATTG
3053039 TGCTTAGAAG
Statistics
Matches: 348, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
92 301 0.86
94 1 0.00
95 41 0.12
96 5 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:3053086 original size:33 final size:33
Alignment explanation
Indices: 3053044--3053472 Score: 670
Period size: 33 Copynumber: 13.1 Consensus size: 33
3053034 TATTGTGCTT
3053044 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
3053077 AGAATGGTTGCCACCAACTTGTGTGGGCTTCAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
3053110 AG-AGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
3053141 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
3053174 AAAAAGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
3053206 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
3053239 AAGAA-GGTTGCCACCGACTTGTGTGGACTTTAG
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
3053272 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
3053305 AAGAA-GGTTGCCACCGACTTGTGTGGGCTTTAG
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
3053338 AGAAGGTTTGCCACAGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
3053371 AGAAGGGTTGCCACTGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
3053404 AAAAAGGTTGCCACCGAGTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
3053437 AGAAGGGTTGCCATCGACTTGTGTGGGCTTTGAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-AG
3053471 AG
1 AG
3053473 GAAGATGCCA
Statistics
Matches: 364, Mismatches: 24, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
31 3 0.01
32 92 0.25
33 258 0.71
34 11 0.03
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:3053527 original size:33 final size:36
Alignment explanation
Indices: 3053474--3054194 Score: 341
Period size: 34 Copynumber: 21.7 Consensus size: 36
3053464 CTTTGAGAGG
*
3053474 AAGA-TGCCACGGAGTCGTGGAC-TTAAAA-AGAAC
1 AAGAGTGCCACGGAGTCGTGGACTTTAAAAGAGAAA
* * *
3053507 AAG-GTGCCACGGGGTTGTGGACTTTAAAAGGGAAA
1 AAGAGTGCCACGGAGTCGTGGACTTTAAAAGAGAAA
*** ** *
3053542 AAGAGTGCCACGGAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
1 AAGAGTGCCAC-G-GAGT----C---G-TG-GACTTTAAAAGAGAAA
* * *
3053589 AA-AGTGCCACAGAGTTGTGGGCTTTAAAA-AGAAA
1 AAGAGTGCCACGGAGTCGTGGACTTTAAAAGAGAAA
* *
3053623 AAG-GTGCCACGGAGTTGTGGGCTTTAAAA-AGAAA
1 AAGAGTGCCACGGAGTCGTGGACTTTAAAAGAGAAA
* *
3053657 AAG-GTGCCACGGAGTTGTGGAC-TTAAAAG-GAAC
1 AAGAGTGCCACGGAGTCGTGGACTTTAAAAGAGAAA
3053690 AAGA-TGCCAC-GAGGTCGTGGAC-TTAAAAG-GAACA
1 AAGAGTGCCACGGA-GTCGTGGACTTTAAAAGAGAA-A
* * * * *
3053724 AAGAGTGCCATGGAGTTGTGGGCTTTGAAA-AGAAC
1 AAGAGTGCCACGGAGTCGTGGACTTTAAAAGAGAAA
*
3053759 AAG-GTGCCACGGGGTCGTGGAC-TTAAAA-AG-AA
1 AAGAGTGCCACGGAGTCGTGGACTTTAAAAGAGAAA
* * *
3053791 AAG-GTGCCACGGAGTGGTGGGCTTTGAAA-AG---
1 AAGAGTGCCACGGAGTCGTGGACTTTAAAAGAGAAA
* *
3053822 AAGA-TGCCACGGAGTCATGGAC-TTAAAAG-GAAC
1 AAGAGTGCCACGGAGTCGTGGACTTTAAAAGAGAAA
* * *
3053855 AAG-GTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
1 AAGAGTGCCACGGAGTCGTGGACTTTAAAAGAGAAA
* *
3053890 AAGAGTGCCACGGAGTTGTGGGCTTTAAAA-AG-AA
1 AAGAGTGCCACGGAGTCGTGGACTTTAAAAGAGAAA
* *
3053924 AAG-GTGCCACGGAGTTGTGGAC-TTAGAAG-GAAA
1 AAGAGTGCCACGGAGTCGTGGACTTTAAAAGAGAAA
* *
3053957 ACGAGTGCCACGGAGTTGTAGG-C-TT-AAA-AG---
1 AAGAGTGCCACGGAGTCGT-GGACTTTAAAAGAGAAA
* *
3053987 --G-GTGCCACGGAGTTGTGGAC-TTAGAAG-GAAA
1 AAGAGTGCCACGGAGTCGTGGACTTTAAAAGAGAAA
* *
3054018 AAGAGTGCCACGGAGTTGTGGGC-TT-AAA-AG---
1 AAGAGTGCCACGGAGTCGTGGACTTTAAAAGAGAAA
* *
3054048 --G-GTGCCACGGAGTTGTGGAC-TTAGAAG-GAAA
1 AAGAGTGCCACGGAGTCGTGGACTTTAAAAGAGAAA
* *
3054079 AAGAGTGCCACGGAGTTGTGGGC-TT-AAA-AG---
1 AAGAGTGCCACGGAGTCGTGGACTTTAAAAGAGAAA
* * *
3054109 --G-GTGCCACAGAGTTGTGGGCTTT--A-----AA
1 AAGAGTGCCACGGAGTCGTGGACTTTAAAAGAGAAA
* *
3054135 AAGAGTGCCACGGAGTTGTGGACTTTGAAA-AGAAA
1 AAGAGTGCCACGGAGTCGTGGACTTTAAAAGAGAAA
3054170 AAG-GTGCCACGGAGTCGTGGACTTT
1 AAGAGTGCCACGGAGTCGTGGACTTT
3054195 GGAAAGAAAT
Statistics
Matches: 555, Mismatches: 63, Indels: 139
0.73 0.08 0.18
Matches are distributed among these distances:
26 2 0.00
27 57 0.10
28 12 0.02
29 20 0.04
30 6 0.01
31 19 0.03
32 28 0.05
33 120 0.22
34 174 0.31
35 41 0.07
36 45 0.08
37 2 0.00
38 3 0.01
44 4 0.01
45 1 0.00
46 10 0.02
47 11 0.02
ACGTcount: A:0.33, C:0.14, G:0.34, T:0.19
Consensus pattern (36 bp):
AAGAGTGCCACGGAGTCGTGGACTTTAAAAGAGAAA
Found at i:3053560 original size:12 final size:12
Alignment explanation
Indices: 3053543--3053568 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3053533 AAAGGGAAAA
3053543 AGAGTGCCACGG
1 AGAGTGCCACGG
3053555 AGAGTGCCACGG
1 AGAGTGCCACGG
3053567 AG
1 AG
3053569 TTGTGGGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.42, T:0.08
Consensus pattern (12 bp):
AGAGTGCCACGG
Found at i:3053597 original size:82 final size:79
Alignment explanation
Indices: 3053478--3053636 Score: 210
Period size: 82 Copynumber: 2.0 Consensus size: 79
3053468 GAGAGGAAGA
* * * * *
3053478 TGCCACGGAGTCGTGGACTTAAAAAGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAA
1 TGCCACGGAGTCGTGGACTTAAAAAGAAAAAAGTGCCACAGAGTTGTGGACTTTAAAA-AGAAAA
3053543 AGAGTGCCACGGAGAG
65 AG-GTGCCACGGAGAG
* * * *
3053559 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAA
1 TGCCACGGAGTCGTGGAC-TTAAAAAGAAAAAAGTGCCACAGAGTTGTGGACTTTAAAAAGAAAA
3053624 AGGTGCCACGGAG
65 AGGTGCCACGGAG
3053637 TTGTGGGCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
80 11 0.16
81 23 0.34
82 34 0.50
ACGTcount: A:0.34, C:0.15, G:0.33, T:0.18
Consensus pattern (79 bp):
TGCCACGGAGTCGTGGACTTAAAAAGAAAAAAGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAA
GGTGCCACGGAGAG
Found at i:3053604 original size:34 final size:33
Alignment explanation
Indices: 3053557--3054203 Score: 471
Period size: 34 Copynumber: 19.9 Consensus size: 33
3053547 TGCCACGGAG
3053557 AGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA
1 AGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAA
*
3053591 AGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAA
1 AGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAA
*
3053625 GGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
1 AGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAA
* * * *
3053659 GGTGCCACGGAGTTGTGGAC-TTAAAAGGAACA
1 AGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
* *
3053691 AGATGCCAC-GAGGTCGTGGAC-TTAAAAGGAACAAA
1 AG-TGCCACGGA-GTTGTGGGCTTTAAAA-GAA-AAA
* *
3053726 GAGTGCCATGGAGTTGTGGGCTTTGAAAAGAACAA
1 -AGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAA
* * * * *
3053761 GGTGCCACGGGGTCGTGGACTTAAAAAG-AAAA
1 AGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
* * *
3053793 GGTGCCACGGAGTGGTGGGCTTTGAAAAG--AAG
1 AGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAA
** * *
3053825 A-TGCCACGGAGTCATGGAC-TTAAAAGGAACAA
1 AGTGCCACGGAGTTGTGGGCTTTAAAA-GAAAAA
*
3053857 GGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAA
1 AGTGCCACGGAGTTGTGGGCTTTAAAA--GAAAAA
3053892 GAGTGCCACGGAGTTGTGGGCTTTAAAA-AGAAAA
1 -AGTGCCACGGAGTTGTGGGCTTTAAAAGA-AAAA
* * * *
3053926 GGTGCCACGGAGTTGTGGAC-TTAGAAGGAAAACG
1 AGTGCCACGGAGTTGTGGGCTTTA-AAAGAAAA-A
*
3053960 AGTGCCACGGAGTTGTAGGC-TTAAAAG-----
1 AGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
* * *
3053987 GGTGCCACGGAGTTGTGGAC-TTAGAAGGAAAAA
1 AGTGCCACGGAGTTGTGGGCTTTA-AAAGAAAAA
3054020 GAGTGCCACGGAGTTGTGGGC-TTAAAAG-----
1 -AGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
* * *
3054048 GGTGCCACGGAGTTGTGGAC-TTAGAAGGAAAAA
1 AGTGCCACGGAGTTGTGGGCTTTA-AAAGAAAAA
3054081 GAGTGCCACGGAGTTGTGGGC-TTAAAAG-----
1 -AGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
* * *
3054109 GGTGCCACAGAGTTGTGGGCTTT---A-AAAAG
1 AGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
*
3054138 AGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAA
1 AGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAA
* * * *
3054172 GGTGCCACGGAGTCGTGGACTTTGGAAAGAAA
1 AGTGCCACGGAGTTGTGGGCTTT-AAAAGAAA
3054204 TGCCACTAAA
Statistics
Matches: 499, Mismatches: 69, Indels: 90
0.76 0.10 0.14
Matches are distributed among these distances:
25 1 0.00
27 59 0.12
28 8 0.02
29 24 0.05
30 3 0.01
31 15 0.03
32 39 0.08
33 81 0.16
34 208 0.42
35 22 0.04
36 35 0.07
37 4 0.01
ACGTcount: A:0.33, C:0.14, G:0.34, T:0.19
Consensus pattern (33 bp):
AGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
Found at i:3053739 original size:102 final size:97
Alignment explanation
Indices: 3053558--3054189 Score: 553
Period size: 102 Copynumber: 6.5 Consensus size: 97
3053548 GCCACGGAGA
* * *
3053558 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAAG-TGCCACAGAGTTGTGGGCTTTAAAAAGAA
1 GTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGATGCCACGGAGTTGTGGGC-TT-AAAAGAA
3053622 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG
62 AAAGGTGCCACGGAGTTGTGGGC-TTAAAAAG-AAAAG
* * *
3053660 GTGCCACGGAGTTGTGGACTTAAAAGGAACAAGATGCCAC-GAGGTCGTGGACTTAAAAGGAACA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGA-GTTGTGGGCTTAAAA-GAA-A
* *
3053724 AAGAGTGCCATGGAGTTGTGGGCTTTGAAAAGAACAAG
63 AAG-GTGCCACGGAGTTGTGGGC-TTAAAAAGAA-AAG
* * * * * ** *
3053762 GTGCCACGGGGTCGTGGACTTAAAAAG-AAAAGGTGCCACGGAGTGGTGGGCTTTGAA-AAGAAG
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGGCTTAAAAGAAAAAG
* ** * *
3053825 ATGCCACGGAGTCATGGACTTAAAAGGAACAAG
66 GTGCCACGGAGTTGTGGGCTTAAAAAGAA-AAG
*
3053858 GTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-AG
1 GTGCCACGGAGTTGTGGAC-TTAAAA-GGAAAAAGA-TGCCACGGAGTTGTGGGC-TTAAAAGA-
* * *
3053922 AAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAACG
61 AAAAGGTGCCACGGAGTTGTGGGCTTAAAAAGAAAA-G
* *
3053960 AGTGCCACGGAGTTGTAGG-CTTAAAAGG-----G-TGCCACGGAGTTGTGGACTTAGAAGGAAA
1 -GTGCCACGGAGTTGT-GGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGGCTTA-AAAGAAA
3054018 AAGAGTGCCACGGAGTTGTGGGCTT-AAAAG----G
63 AAG-GTGCCACGGAGTTGTGGGCTTAAAAAGAAAAG
*
3054049 GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG-----
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGGAGTTGTGGGCTTAAAAGAAAAA
*
3054109 GGTGCCACAGAGTTGTGGGCTTTAAAAAG---A-
65 GGTGCCACGGAGTTGTGGGC-TTAAAAAGAAAAG
* *
3054139 GTGCCACGGAGTTGTGGACTTTGAAAA-GAAAAAGGTGCCACGGAGTCGTGG
1 GTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGATGCCACGGAGTTGTGG
3054190 ACTTTGGAAA
Statistics
Matches: 449, Mismatches: 49, Indels: 76
0.78 0.09 0.13
Matches are distributed among these distances:
87 2 0.00
88 41 0.09
89 4 0.01
90 39 0.09
91 9 0.02
92 3 0.01
93 4 0.01
94 30 0.07
95 41 0.09
96 29 0.06
97 20 0.04
98 4 0.01
99 11 0.02
100 34 0.08
101 51 0.11
102 109 0.24
103 16 0.04
104 2 0.00
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.19
Consensus pattern (97 bp):
GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGGCTTAAAAGAAAAAG
GTGCCACGGAGTTGTGGGCTTAAAAAGAAAAG
Found at i:3054024 original size:61 final size:61
Alignment explanation
Indices: 3053922--3054155 Score: 381
Period size: 61 Copynumber: 3.9 Consensus size: 61
3053912 CTTTAAAAAG
* *
3053922 AAAA-GGTGCCACGGAGTTGTGGACTTAGAAGGAAAACGAGTGCCACGGAGTTGTAGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
3053982 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
3054043 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
* * *
3054104 AAAAGGGTGCCACAGAGTTGTGGGCTT-----TAAAAAGAGTGCCACGGAGTTGTGG
1 AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGG
3054156 ACTTTGAAAA
Statistics
Matches: 168, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
56 24 0.14
60 4 0.02
61 140 0.83
ACGTcount: A:0.29, C:0.14, G:0.37, T:0.20
Consensus pattern (61 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
Found at i:3054085 original size:122 final size:124
Alignment explanation
Indices: 3053592--3054193 Score: 509
Period size: 122 Copynumber: 4.7 Consensus size: 124
3053582 AAAGAAAAAA
* *
3053592 GTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 GTGCCACGGAGTTGTGGGC-TT-AAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG--
* * *
3053656 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGA-TGCCAC-GAGGTCGT-GGACTTAAAA
62 --AGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGA-GTTGTAGG-CTTAAAA
3053718 GGAACAAAG
123 -G------G
* * * * * *
3053727 AGTGCCATGGAGTTGTGGGCTTTGAAAAGAACAAG-GTGCCACGGGGTCGTGGAC-TTAAAAAGA
1 -GTGCCACGGAGTTGTGGGC-TT-AAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG-
* * * * **
3053790 AAAGGTGCCACGGAGTGGTGGGCTTTGAA--AAGAAGA-TGCCACGGAGTCAT-GGACTTAAAAG
62 --AGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTAGG-CTTAAAA-
3053851 GAACAAG
123 G-----G
3053858 GTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
1 GTGCCACGGAGTTGTGGGC-TT-AAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG-
*
3053923 AAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAACGAGTGCCACGGAGTTGTAGGCTTAAAAGG
62 --AGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTAGGCTTAAAAGG
*
3053988 GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAG-GG
1 GTGCCACGGAGTTGTGGGCTTA-AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAGG
*
3054050 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG
65 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTAGGCTTAAAAGG
* * * *
3054110 GTGCCACAGAGTTGTGGGCTT----TAAAAAGAGTGCCACGGAGTTGTGGACTTTGAAAAGAAAA
1 GTGCCACGGAGTTGTGGGCTTAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT---AA-AAAG
*
3054171 AGGTGCCACGGAGTCGTGGACTT
62 AGGTGCCACGGAGTTGTGGACTT
3054194 TGGAAAGAAA
Statistics
Matches: 412, Mismatches: 38, Indels: 44
0.83 0.08 0.09
Matches are distributed among these distances:
117 25 0.06
118 2 0.00
122 80 0.19
123 3 0.01
124 21 0.05
126 5 0.01
127 2 0.00
128 29 0.07
129 4 0.01
130 43 0.10
131 10 0.02
132 44 0.11
133 37 0.09
134 26 0.06
135 14 0.03
136 65 0.16
137 2 0.00
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.20
Consensus pattern (124 bp):
GTGCCACGGAGTTGTGGGCTTAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAGGT
GCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTAGGCTTAAAAGG
Found at i:3054158 original size:90 final size:88
Alignment explanation
Indices: 3054016--3054189 Score: 260
Period size: 90 Copynumber: 2.0 Consensus size: 88
3054006 CTTAGAAGGA
* * *
3054016 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAG-AAGGAAAA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGAGTGCCACGGAGTTGTGGACTTAGAAAAGAAAA
*
3054080 AGAGTGCCACGGAGTTGTGGGCTT
66 AG-GTGCCACGGAGTCGTGGGCTT
* *
3054104 AAAAGGGTGCCACAGAGTTGTGGGCTTTAAAAAGAGTGCCACGGAGTTGTGGACTTTGAAAAGAA
1 AAAAGAGTGCCACAGAGTTGTGGGC-TT-AAAAGAGTGCCACGGAGTTGTGGACTTAGAAAAGAA
3054169 AAAGGTGCCACGGAGTCGTGG
64 AAAGGTGCCACGGAGTCGTGG
3054190 ACTTTGGAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
88 23 0.30
89 2 0.03
90 43 0.56
91 9 0.12
ACGTcount: A:0.30, C:0.14, G:0.36, T:0.20
Consensus pattern (88 bp):
AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGAGTGCCACGGAGTTGTGGACTTAGAAAAGAAAA
AGGTGCCACGGAGTCGTGGGCTT
Found at i:3054208 original size:30 final size:32
Alignment explanation
Indices: 3054138--3054264 Score: 98
Period size: 34 Copynumber: 3.9 Consensus size: 32
3054128 CTTTAAAAAG
*
3054138 AGTGCCACGGAGTTGTGGACTTTGAAAAGAAAA
1 AGTGCCACGGAGTCGTGGACTTTGAAAAG-AAA
*
3054171 AGGTGCCACGGAGTCGTGGACTTTGGAAAG-AA
1 A-GTGCCACGGAGTCGTGGACTTTGAAAAGAAA
** * * * *
3054203 A-TGCCACTAAATTGTGAACTTT-AAGAAGGAA
1 AGTGCCACGGAGTCGTGGACTTTGAA-AAGAAA
* * *
3054234 AGATGCCACTGAGCCGTGGACTTTGAGAAGA
1 AG-TGCCACGGAGTCGTGGACTTTGAAAAGA
3054265 GATTTGAAGA
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
29 1 0.01
30 19 0.26
31 3 0.04
32 3 0.04
33 20 0.27
34 27 0.37
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.21
Consensus pattern (32 bp):
AGTGCCACGGAGTCGTGGACTTTGAAAAGAAA
Found at i:3055255 original size:17 final size:17
Alignment explanation
Indices: 3055235--3055268 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3055225 TTGTTTCTTC
*
3055235 TTTTTTTTCCTTTTTTG
1 TTTTGTTTCCTTTTTTG
*
3055252 TTTTGTTTCTTTTTTTG
1 TTTTGTTTCCTTTTTTG
3055269 GAAAAGAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.82
Consensus pattern (17 bp):
TTTTGTTTCCTTTTTTG
Found at i:3055530 original size:9 final size:9
Alignment explanation
Indices: 3055518--3055558 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
3055508 TTTTCTGTGT
3055518 TTTTTTTTG
1 TTTTTTTTG
3055527 TTTTTTTTG
1 TTTTTTTTG
3055536 --TTTTTTG
1 TTTTTTTTG
3055543 -TTTTTTTG
1 TTTTTTTTG
3055551 TTTTTTTT
1 TTTTTTTT
3055559 ATCACTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.23
8 7 0.23
9 16 0.53
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:3055532 original size:8 final size:8
Alignment explanation
Indices: 3055519--3055557 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
3055509 TTTCTGTGTT
3055519 TTTTTTTG
1 TTTTTTTG
3055527 TTTTTTT-
1 TTTTTTTG
3055534 TGTTTTTTG
1 T-TTTTTTG
3055543 TTTTTTTG
1 TTTTTTTG
3055551 TTTTTTT
1 TTTTTTT
3055558 TATCACTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 1 0.03
8 27 0.93
9 1 0.03
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (8 bp):
TTTTTTTG
Found at i:3055533 original size:24 final size:24
Alignment explanation
Indices: 3055506--3055558 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
3055496 CCTTTGCACC
* *
3055506 TTTTTTCTGTGTT-TTTTTTTGTT
1 TTTTTTGTTTGTTGTTTTTTTGTT
*
3055529 TTTTTTGTTTTTTGTTTTTTTGTT
1 TTTTTTGTTTGTTGTTTTTTTGTT
3055553 TTTTTT
1 TTTTTT
3055559 ATCACTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (24 bp):
TTTTTTGTTTGTTGTTTTTTTGTT
Found at i:3055539 original size:16 final size:15
Alignment explanation
Indices: 3055520--3055556 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
3055510 TTCTGTGTTT
3055520 TTTTTTGTTTTTTTTG
1 TTTTTTG-TTTTTTTG
3055536 TTTTTTGTTTTTTTG
1 TTTTTTGTTTTTTTG
3055551 TTTTTT
1 TTTTTT
3055557 TTATCACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (15 bp):
TTTTTTGTTTTTTTG
Found at i:3055570 original size:24 final size:23
Alignment explanation
Indices: 3055517--3055570 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
3055507 TTTTTCTGTG
* **
3055517 TTTTTTTTTGTTTTTTTTGTTTT
1 TTTTTTTTTGTTTTTTTTATACT
3055540 TTGTTTTTTTGTTTTTTTTATCACT
1 TT-TTTTTTTGTTTTTTTTAT-ACT
3055565 TTTTTT
1 TTTTTT
3055571 AAGGGAACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.08
24 21 0.81
25 3 0.12
ACGTcount: A:0.04, C:0.04, G:0.07, T:0.85
Consensus pattern (23 bp):
TTTTTTTTTGTTTTTTTTATACT
Found at i:3062570 original size:12 final size:12
Alignment explanation
Indices: 3062555--3062593 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
3062545 CTTTGCACTC
3062555 TTTTTTGTGTG-
1 TTTTTTGTGTGT
3062566 TTTTTTGTGTGT
1 TTTTTTGTGTGT
3062578 TTTTTTGTGTGT
1 TTTTTTGTGTGT
3062590 TTTT
1 TTTT
3062594 ACTTTTGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 11 0.41
12 16 0.59
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (12 bp):
TTTTTTGTGTGT
Found at i:3062571 original size:11 final size:11
Alignment explanation
Indices: 3062555--3062593 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
3062545 CTTTGCACTC
3062555 TTTTTTGTGTG
1 TTTTTTGTGTG
3062566 TTTTTTGTGTG
1 TTTTTTGTGTG
3062577 TTTTTTTGTGTG
1 -TTTTTTGTGTG
3062589 TTTTT
1 TTTTT
3062594 ACTTTTGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (11 bp):
TTTTTTGTGTG
Found at i:3073520 original size:20 final size:20
Alignment explanation
Indices: 3073466--3073521 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
3073456 AAAACCCAGA
* *
3073466 TGTATCAATACAATATTCTT
1 TGTATCGATACAATGTTCTT
3073486 TGTATCGATACAATGTTCTT
1 TGTATCGATACAATGTTCTT
3073506 TGTATCGATACAATGT
1 TGTATCGATACAATGT
3073522 ATCGATACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (20 bp):
TGTATCGATACAATGTTCTT
Found at i:3073524 original size:13 final size:13
Alignment explanation
Indices: 3073506--3073530 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3073496 CAATGTTCTT
3073506 TGTATCGATACAA
1 TGTATCGATACAA
3073519 TGTATCGATACA
1 TGTATCGATACA
3073531 TGGGTTATTA
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:3076001 original size:13 final size:13
Alignment explanation
Indices: 3075983--3076009 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3075973 ACATTATGTT
3075983 TTGTATCGATACA
1 TTGTATCGATACA
3075996 TTGTATCGATACA
1 TTGTATCGATACA
3076009 T
1 T
3076010 GCACAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3076098 original size:13 final size:13
Alignment explanation
Indices: 3076080--3076130 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
3076070 CATGGCACAT
3076080 TGTATCGATACAA
1 TGTATCGATACAA
*
3076093 TGTATCTATACAA
1 TGTATCGATACAA
*
3076106 TGTATCTATACAA
1 TGTATCGATACAA
3076119 TGTATCGATACA
1 TGTATCGATACA
3076131 TGATAAACTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3080125 original size:164 final size:166
Alignment explanation
Indices: 3079780--3080162 Score: 424
Period size: 164 Copynumber: 2.3 Consensus size: 166
3079770 CATTGATCCA
* * * * * *
3079780 AAATTTTAAAAATTTATCAAATATTATTATTTAATTCATGTTAAATTAGTTTTCAAAAATTCATT
1 AAATTTTTAAAATTAATCAAATATTATTATTTAATTTATATTAAATCAG-TTTCAAAAAATCATT
** * * * *
3079845 CATTTTTCATGAGCTTTTTGTTTTTTTCTTAAAATTTCTCTATTTCTCAAAAATGGAGTTTTTTG
65 CATTTTTCATGAGCTTTTTCATTTTTTCTTAAAATTTCTCTATATCTCAAAAATCGAGTTTTCTA
* *
3079910 CTCTCTAAATATTTTCGGAGGAATTTTTCATGGTTTT
130 CTCTCTAAATATTTTCGGAGGAATTTTTCATAGTTTG
* * *
3079947 TAATCTTTAAAATTAATCAAATATTATTATTTTATTTATATTAAATCAGTTTCAAAAAAATCATT
1 AAATTTTTAAAATTAATCAAATATTATTATTTAATTTATATTAAATCAGTTTC-AAAAAATCATT
* *
3080012 TA-TTTTCATGAG-TTTTTCATTTTTTCTTTGAAA-TTCTCT-TATCTCAAAAAAATCGAGTTTT
65 CATTTTTCATGAGCTTTTTCATTTTTTC-TTAAAATTTCTCTATATCTC--AAAAATCGAGTTTT
* *
3080073 CTACTC-CGTAAATGTTTT-GGA-GAGATTTTT-TTAGTTTG
127 CTACTCTC-TAAATATTTTCGGAGGA-ATTTTTCATAGTTTG
* *
3080111 AAATTTTTAAAATTAATCTAATATTATTATTAAATTT-TAGTTAAATCAGTTT
1 AAATTTTTAAAATTAATCAAATATTATTATTTAATTTATA-TTAAATCAGTTT
3080163 TTTAAAATTC
Statistics
Matches: 183, Mismatches: 26, Indels: 17
0.81 0.12 0.08
Matches are distributed among these distances:
163 2 0.01
164 56 0.31
165 28 0.15
166 45 0.25
167 52 0.28
ACGTcount: A:0.33, C:0.09, G:0.08, T:0.50
Consensus pattern (166 bp):
AAATTTTTAAAATTAATCAAATATTATTATTTAATTTATATTAAATCAGTTTCAAAAAATCATTC
ATTTTTCATGAGCTTTTTCATTTTTTCTTAAAATTTCTCTATATCTCAAAAATCGAGTTTTCTAC
TCTCTAAATATTTTCGGAGGAATTTTTCATAGTTTG
Found at i:3080520 original size:16 final size:17
Alignment explanation
Indices: 3080486--3080528 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
3080476 AGTTTAAATC
* *
3080486 AAATTAAAATTAAATAA
1 AAATAAAAAATAAATAA
3080503 AAATAAAAAATAAA-AA
1 AAATAAAAAATAAATAA
*
3080519 AAGTAAAAAA
1 AAATAAAAAA
3080529 AGGAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (17 bp):
AAATAAAAAATAAATAA
Found at i:3080535 original size:21 final size:20
Alignment explanation
Indices: 3080511--3080550 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
3080501 AAAAATAAAA
3080511 AATAAAAAAAGTAAAAAAAGG
1 AATAAAAAAAG-AAAAAAAGG
*
3080532 AATAAAAAATGAAAAAAAG
1 AATAAAAAAAGAAAAAAAG
3080551 ATGACAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (20 bp):
AATAAAAAAAGAAAAAAAGG
Found at i:3083794 original size:155 final size:156
Alignment explanation
Indices: 3083439--3083821 Score: 438
Period size: 156 Copynumber: 2.5 Consensus size: 156
3083429 GTTCTATATT
* * * *
3083439 TCACTGGGTCCGTTTTTATGCTGAAGGTAGGTATTTAAGATAGGTTCATCCTATCTATAATCCTT
1 TCACTGGGTCCGTTTTTATGCTGAATGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTT
* * * * * **
3083504 TTTAAGTCCTTTTCGGGTATCAGGTACTTTTACATTGAAGATATCTCCTAGTGACATTTTTTTAA
66 TTTAAGTCATTTTCGGGTATCAGGCACTTTTACATCGAAGATATCCCCTAGAGACATTTTCATAA
*
3083569 ATTTTTTAGAACCGAGTCCAAAGTCA
131 ATTTTTCAGAACCGAGTCCAAAGTCA
* * *
3083595 TCATTAGGTCCGCTTTTATG-TCGAATGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCT
1 TCACTGGGTCCGTTTTTATGCT-GAATGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCT
* * * *
3083659 TTTTAAGTTATTTTGGGGTGTC-GAGCA-TTTCTACGTCGAAGATATCCCCTA-AGAGCATTTTC
65 TTTTAAGTCATTTTCGGGTATCAG-GCACTTT-TACATCGAAGATATCCCCTAGAGA-CATTTTC
** * **
3083721 AT-AATTTTTCAGAATTGAGT-CATAGGTTG
127 ATAAATTTTTCAGAACCGAGTCCA-AAGTCA
*
3083750 TTACTGGGTCCGTTTTTATGCTGAATGTGGGTATTTAGGATAGGTTCATCCCATCTATAAT-CTT
1 TCACTGGGTCCGTTTTTATGCTGAATGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTT
*
3083814 TCTAAGTC
66 TTTAAGTC
3083822 CTTTAAGGGT
Statistics
Matches: 191, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
154 11 0.06
155 80 0.42
156 100 0.52
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.40
Consensus pattern (156 bp):
TCACTGGGTCCGTTTTTATGCTGAATGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTT
TTTAAGTCATTTTCGGGTATCAGGCACTTTTACATCGAAGATATCCCCTAGAGACATTTTCATAA
ATTTTTCAGAACCGAGTCCAAAGTCA
Found at i:3083860 original size:155 final size:153
Alignment explanation
Indices: 3083372--3083865 Score: 475
Period size: 155 Copynumber: 3.2 Consensus size: 153
3083362 AGGTTACCAG
* * * * *
3083372 GATACTTTCATGTTGAAGGTATACCCATAAGGGCATTTTCGTAATTTTTTAGAAAGAGTTCTATA
1 GATACTTTCATGTCGAAGATAT-CCCCTAAGAGCATTTTCATAATTTTTTAGAAAGAG-TC-ATA
* * * *
3083437 -TTTCACTGGGTCCGTTTTTATGCTGAAGGTAGGTATTTAAGATAGGTTCATCCTATCTATAATC
63 GTTTCACTGGGTCCGTTTTTATGCTGAATGTGGGTATTTAGGATAGGTTCATCCCATCTATAATC
*
3083501 CTTTTTAAGTCCTTTTCGGGTATC-A
128 CTTTTTAAGTCCTTTTAGGGTATCGA
* * * ** *
3083526 GGTACTTTTACAT-T-GAAGATATCTCCT-AGTGACATTTTTTTAAATTTTTTAGAACCGAGTCC
1 GATAC-TTT-CATGTCGAAGATATCCCCTAAGAG-CATTTTCAT-AATTTTTTAGAA-AGAGT-C
* * * * *
3083588 AAAGTCATCATTAGGTCCGCTTTTATG-TCGAATGTGGGTATTTAGGATAGGTTCATCCCATCTA
60 ATAGT-TTCACTGGGTCCGTTTTTATGCT-GAATGTGGGTATTTAGGATAGGTTCATCCCATCTA
** * *
3083652 TAATCCTTTTTAAGTTATTTTGGGGTGTCGA
123 TAATCCTTTTTAAGTCCTTTTAGGGTATCGA
* * * *
3083683 G-CA-TTTCTACGTCGAAGATATCCCCTAAGAGCATTTTCATAATTTTTCAGAATTGAGTCATAG
1 GATACTTTC-ATGTCGAAGATATCCCCTAAGAGCATTTTCATAATTTTTTAGAA-AGAGTCATA-
*
3083746 GTTGTTACTGGGTCCGTTTTTATGCTGAATGTGGGTATTTAGGATAGGTTCATCCCATCTATAAT
63 GTT-TCACTGGGTCCGTTTTTATGCTGAATGTGGGTATTTAGGATAGGTTCATCCCATCTATAAT
* * *
3083811 -CTTTCTAAGTCCTTTAAGGGTACCGA
127 CCTTTTTAAGTCCTTTTAGGGTATCGA
* *
3083837 GATACTTTCATGTCAAAGGTATCCCCTAA
1 GATACTTTCATGTCGAAGATATCCCCTAA
3083866 AGGCATTCTT
Statistics
Matches: 274, Mismatches: 47, Indels: 37
0.77 0.13 0.10
Matches are distributed among these distances:
152 3 0.01
153 11 0.04
154 53 0.19
155 101 0.37
156 101 0.37
157 5 0.02
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.39
Consensus pattern (153 bp):
GATACTTTCATGTCGAAGATATCCCCTAAGAGCATTTTCATAATTTTTTAGAAAGAGTCATAGTT
TCACTGGGTCCGTTTTTATGCTGAATGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTT
TTTAAGTCCTTTTAGGGTATCGA
Found at i:3086367 original size:28 final size:28
Alignment explanation
Indices: 3086285--3086900 Score: 674
Period size: 28 Copynumber: 21.5 Consensus size: 28
3086275 CACCGACTCG
* * *
3086285 TGTGGGCTTTGAAAAGAGTTACCACTGGCT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* *
3086315 TGTGGGCTTTAAAAAGAGTGCCACTGACT
1 TGTGGGCTTT-GAAAGGGTGCCACTGACT
*
3086344 TGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3086372 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3086400 TGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3086428 TGTGGGCTTTGAAAGGATGCCACTAATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3086456 TATGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
3086485 TGTGGGCTTTGAAAGCGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
3086513 TGTGGGCTTTGAAAAGATGCCATTGAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3086541 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
3086570 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3086598 TGTGGGCTTTGAAAGGATGGCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3086626 TGTGGGCTTTGAAAGGATGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3086654 TGTGGGCTTTCAAAGGGTGCCACTCACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
3086682 TGTGTGCTTTGAAAGGATGCCACTAATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3086710 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* **
3086739 TGTGGGCTTTGAAAGGATGCCGTTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3086767 TGTGGGCTTTGAAAGGATGCTACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3086795 TGCGTGGACTTTGAAAAGAGTTGCCACCGACTT
1 T--GTGGGCTTTG-AAAG-GGTGCCACTGAC-T
* * * *
3086828 GTGTGGGCTTCGAAAAGAGTTACCACTGGCT
1 -TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* * *
3086859 TATGGGCTTTAAAAAGAGTGCCACTGACT
1 TGTGGGCTTT-GAAAGGGTGCCACTGACT
3086888 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
3086901 GAGATGAACG
Statistics
Matches: 496, Mismatches: 79, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
28 316 0.64
29 107 0.22
30 35 0.07
31 5 0.01
32 31 0.06
33 1 0.00
34 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:3086406 original size:85 final size:85
Alignment explanation
Indices: 3086285--3086900 Score: 709
Period size: 85 Copynumber: 7.2 Consensus size: 85
3086275 CACCGACTCG
* * *
3086285 TGTGGGCTTTGAAAAGAGTTACCACTGGCTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGG
1 TGTGGGCTTTGAAAAG-GGTGCCACTGACTTGTGGGCTTT-AAAAGAGTGCCACTGACTTGTGGG
* *
3086350 CTTTGAAAGGGTGCCACTGATT
64 CTTTGAAAGGATGCCACTAATT
* * * *
3086372 TGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCT
3086436 TTGAAAGGATGCCACTAATT
66 TTGAAAGGATGCCACTAATT
* * * *
3086456 TATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGCGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCT
* *
3086521 TTGAAAAGATGCCATTGAA-T
66 TTGAAAGGATGCCACT-AATT
* * *
3086541 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCT
* *
3086606 TTGAAAGGATGGCACTAACT
66 TTGAAAGGATGCCACTAATT
* * * * * *
3086626 TGTGGGCTTTG-AAAGGATGCCACTGATTTGTGGGCTTTCAAAGGGTGCCACTCACTTGTGTGCT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCT
3086690 TTGAAAGGATGCCACTAATT
66 TTGAAAGGATGCCACTAATT
* * **
3086710 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG-GATGCCGTTGACTTGTGGGC
1 TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGAG-TGCCACTGACTTGTGGGC
*
3086774 TTTGAAAGGATGCTACTAACTT
65 TTTGAAAGGATGCCACTAA-TT
* * * * * * * *
3086796 GCGTGGACTTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTCGAAAAGAGTTACCACTGGCTTA
1 -TGTGGGCTTTGAAAAG-GGTGCCACTGAC-T-TGTGGGCTT-TAAAAGAG-TGCCACTGACTTG
* * * *
3086861 TGGGCTTTAAAAAGAGTGCCACTGACT
60 TGGGCTTTGAAAGGA-TGCCACTAATT
3086888 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
3086901 GAGATGAACG
Statistics
Matches: 458, Mismatches: 58, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
84 130 0.28
85 231 0.50
86 8 0.02
87 25 0.05
88 9 0.02
89 1 0.00
90 9 0.02
91 15 0.03
92 23 0.05
93 7 0.02
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.30
Consensus pattern (85 bp):
TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCT
TTGAAAGGATGCCACTAATT
Found at i:3086477 original size:113 final size:113
Alignment explanation
Indices: 3086285--3086900 Score: 698
Period size: 113 Copynumber: 5.4 Consensus size: 113
3086275 CACCGACTCG
* * * * * *
3086285 TGTGGGCTTTGAAAAGAGTTACCACTGGCTTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGGG
1 TGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGG
* *
3086350 CTTTG-AAAGGGTGCCACTGATTTGTGGGCTTTGAAAGGGTGCCACTAACT
63 CTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
3086400 TGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTTGAAAGGATGCCACTAATTTATGGGCTT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTT
* *
3086465 TGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGCGTGCCACTGACT
66 TGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
3086513 TGTGGGCTTTGAAAAGATGCCATTGAATTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCT
* * * * *
3086578 TTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGGCACTAACT
65 TTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
3086626 TGTGGGCTTTGAAAGGATGCCACTGATTTGTGGGCTTTCAAAGGGTGCCACTCACTTGTGTGCTT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTT
* * *
3086691 TGAAAGGA-TGCCACTAATTTGTGGGCTTTGAAAAGAGTGCCACTGACT
66 TGAAAAGAGTGCCACTGATTTGTGGGCTTTG-AAAGGGTGCCACTGACT
** * *
3086739 TGTGGGCTTTGAAAGGATGCCGTTGACTTGTGGGCTTTGAAAGGATGCTACTAACTTGCGTGGAC
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTT--GTGGGC
* * * * *
3086804 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTCGAAAAGAGTTACCACTGGCT
64 TTTGAAAAGAG-TGCCACTGA-TT-TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* * *
3086859 TATGGGCTTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAA
1 TGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAA
3086901 GAGATGAACG
Statistics
Matches: 425, Mismatches: 64, Indels: 18
0.84 0.13 0.04
Matches are distributed among these distances:
112 59 0.14
113 250 0.59
114 23 0.05
115 24 0.06
117 7 0.02
118 2 0.00
119 15 0.04
120 23 0.05
121 22 0.05
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.30
Consensus pattern (113 bp):
TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTT
TGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:3088153 original size:18 final size:19
Alignment explanation
Indices: 3088126--3088172 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
3088116 GTGTGTTTTT
*
3088126 TGTTTGTTTTTT-TATTTA
1 TGTTTTTTTTTTGTATTTA
* *
3088144 TGTTTTTTTTTTGTTTTTT
1 TGTTTTTTTTTTGTATTTA
3088163 TGTTTTTTTT
1 TGTTTTTTTT
3088173 CTTGGTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.04, C:0.00, G:0.11, T:0.85
Consensus pattern (19 bp):
TGTTTTTTTTTTGTATTTA
Found at i:3088170 original size:33 final size:33
Alignment explanation
Indices: 3088123--3088206 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 33
3088113 CTTGTGTGTT
* *
3088123 TTTTGTTTGTTTTTTTAT-TTATGTTTTTTTTTTG-
1 TTTT-TTTGTTTTTTT-TCTT-GGTTTTGTTTTTGC
3088157 TTTTTTTGTTTTTTTTCTTGGTTTTGTTTTTGC
1 TTTTTTTGTTTTTTTTCTTGGTTTTGTTTTTGC
3088190 TTTTTTTGGTTTTTTTT
1 TTTTTTT-GTTTTTTTT
3088207 GTACGAAGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
32 12 0.27
33 20 0.44
34 13 0.29
ACGTcount: A:0.02, C:0.02, G:0.13, T:0.82
Consensus pattern (33 bp):
TTTTTTTGTTTTTTTTCTTGGTTTTGTTTTTGC
Found at i:3095109 original size:32 final size:30
Alignment explanation
Indices: 3095073--3095131 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
3095063 AAAATCAAAT
3095073 ACAAAGAGCT-TAGAAAAATAATAACAATATAA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATAA
*
3095105 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
3095132 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.61, C:0.10, G:0.08, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATAA
Found at i:3097992 original size:13 final size:13
Alignment explanation
Indices: 3097974--3098011 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
3097964 ATAATCCCTC
3097974 TGTATCGATACAG
1 TGTATCGATACAG
*
3097987 TGTATCGATACAT
1 TGTATCGATACAG
3098000 TGTATCGATACA
1 TGTATCGATACA
3098012 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:3100115 original size:15 final size:15
Alignment explanation
Indices: 3100095--3100125 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3100085 ATTTCGTTTG
*
3100095 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3100110 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3100125 G
1 G
3100126 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3101950 original size:21 final size:22
Alignment explanation
Indices: 3101924--3101972 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
3101914 ATGCAAGTTT
* *
3101924 TTATTTTTCTTAGCTAAC-TCA
1 TTATTTTCCTTAGCCAACTTCA
*
3101945 TTATTTTCCTTAGCCAACTTCT
1 TTATTTTCCTTAGCCAACTTCA
3101967 TTATTT
1 TTATTT
3101973 CAACTTGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.20, C:0.20, G:0.04, T:0.55
Consensus pattern (22 bp):
TTATTTTCCTTAGCCAACTTCA
Found at i:3103897 original size:32 final size:30
Alignment explanation
Indices: 3103861--3103919 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
3103851 AAAATTAAAT
3103861 ACAAAGAGCT-TAGAAAAATAATAACAATATAA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATAA
*
3103893 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
3103920 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.61, C:0.10, G:0.08, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATAA
Found at i:3104218 original size:13 final size:13
Alignment explanation
Indices: 3104200--3104225 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3104190 CAATTTTTTG
3104200 TGTATCGATACAT
1 TGTATCGATACAT
3104213 TGTATCGATACAT
1 TGTATCGATACAT
3104226 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3104240 original size:32 final size:33
Alignment explanation
Indices: 3104180--3104243 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
3104170 TACAAGCCAA
** *
3104180 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
3104213 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
3104244 AGTTTAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:3104794 original size:19 final size:19
Alignment explanation
Indices: 3104770--3104834 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
3104760 TAGCCAAACT
3104770 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
3104789 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
3104802 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
3104823 TGTATCGATACA
1 TGTATCGATACA
3104835 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:3104806 original size:13 final size:13
Alignment explanation
Indices: 3104788--3104813 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3104778 TACACAAAAT
3104788 ATGTATCGATACA
1 ATGTATCGATACA
3104801 ATGTATCGATACA
1 ATGTATCGATACA
3104814 CAAAAAATAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3104811 original size:32 final size:33
Alignment explanation
Indices: 3104770--3104834 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
3104760 TAGCCAAACT
3104770 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
3104802 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
3104835 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:3108903 original size:15 final size:15
Alignment explanation
Indices: 3108883--3108913 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3108873 TAAAAATGTC
*
3108883 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
3108898 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
3108913 C
1 C
3108914 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:3111002 original size:13 final size:13
Alignment explanation
Indices: 3110984--3111008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3110974 CATTTTTCTT
3110984 TGTATCGATACAA
1 TGTATCGATACAA
3110997 TGTATCGATACA
1 TGTATCGATACA
3111009 GGGGGATTAT
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:3113562 original size:19 final size:19
Alignment explanation
Indices: 3113538--3113602 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
3113528 TAGCCAAACT
3113538 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
3113557 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
3113570 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
3113591 TGTATCGATACA
1 TGTATCGATACA
3113603 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:3113574 original size:13 final size:13
Alignment explanation
Indices: 3113556--3113581 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3113546 TACACAAAAT
3113556 ATGTATCGATACA
1 ATGTATCGATACA
3113569 ATGTATCGATACA
1 ATGTATCGATACA
3113582 CAAAAAATAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3113579 original size:32 final size:33
Alignment explanation
Indices: 3113538--3113602 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
3113528 TAGCCAAACT
3113538 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
3113570 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
3113603 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:3115340 original size:13 final size:13
Alignment explanation
Indices: 3115322--3115346 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3115312 CATAAAGTGT
3115322 TGTATCGATACAA
1 TGTATCGATACAA
3115335 TGTATCGATACA
1 TGTATCGATACA
3115347 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3115344 original size:33 final size:33
Alignment explanation
Indices: 3115302--3115368 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3115292 TTGAATGATT
3115302 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
3115335 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
3115368 T
1 T
3115369 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:3115427 original size:13 final size:13
Alignment explanation
Indices: 3115409--3115433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3115399 ATTATGCAAA
3115409 TGTATCGATACAT
1 TGTATCGATACAT
3115422 TGTATCGATACA
1 TGTATCGATACA
3115434 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3115498 original size:52 final size:52
Alignment explanation
Indices: 3115442--3115570 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
3115432 CACTGATCTT
* *
3115442 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* **
3115494 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3115546 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3115571 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3126261 original size:20 final size:19
Alignment explanation
Indices: 3126215--3126271 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
3126205 ATGTATCGAT
* *
3126215 ACATTTTATCGATACATGT
1 ACATTGTATCGATACATGC
*
3126234 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
3126253 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
3126272 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:3126339 original size:13 final size:13
Alignment explanation
Indices: 3126321--3126345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3126311 CATGGCACAT
3126321 TGTATCGATACAA
1 TGTATCGATACAA
3126334 TGTATCGATACA
1 TGTATCGATACA
3126346 TAACGAATTG
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:3127983 original size:15 final size:15
Alignment explanation
Indices: 3127963--3127997 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
3127953 AACCATCAAA
3127963 GATGATGAAGATAAT
1 GATGATGAAGATAAT
**
3127978 GATGATGGTGATAAT
1 GATGATGAAGATAAT
3127993 GATGA
1 GATGA
3127998 AGTTAACTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (15 bp):
GATGATGAAGATAAT
Found at i:3132568 original size:13 final size:13
Alignment explanation
Indices: 3132550--3132589 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
3132540 ACAATGTTTT
3132550 TTGTATCGATACA
1 TTGTATCGATACA
* *
3132563 TTGTATCGCTATA
1 TTGTATCGATACA
*
3132576 ATGTATCGATACA
1 TTGTATCGATACA
3132589 T
1 T
3132590 GGGTTACTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3135082 original size:20 final size:19
Alignment explanation
Indices: 3135032--3135088 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
3135022 ATGTATCGAT
*
3135032 ACATTATATCGATACATGT
1 ACATTATATCGATACATGC
*
3135051 TCATTATATCGATACATGC
1 ACATTATATCGATACATGC
*
3135070 ACAATTGTATCGATACATG
1 AC-ATTATATCGATACATG
3135089 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (19 bp):
ACATTATATCGATACATGC
Found at i:3135142 original size:20 final size:20
Alignment explanation
Indices: 3135117--3135170 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
3135107 CTACCACTGT
** *
3135117 TTGTATCGATACATGGCACA
1 TTGTATCGATACATAACAAA
*
3135137 TTGTATCGATAGATAACAAA
1 TTGTATCGATACATAACAAA
3135157 TTGTATCGATACAT
1 TTGTATCGATACAT
3135171 TGTCCCAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATAACAAA
Found at i:3136410 original size:29 final size:29
Alignment explanation
Indices: 3136368--3136429 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
3136358 GATGCTTGTA
3136368 GACACTTCATTTTGTCCGGGCCAATTTTC
1 GACACTTCATTTTGTCCGGGCCAATTTTC
3136397 GACACTTCATTTTGTCCGGGCCAATTTTC
1 GACACTTCATTTTGTCCGGGCCAATTTTC
3136426 GACA
1 GACA
3136430 ATTTGAAGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.35
Consensus pattern (29 bp):
GACACTTCATTTTGTCCGGGCCAATTTTC
Found at i:3136663 original size:33 final size:33
Alignment explanation
Indices: 3136626--3136692 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3136616 TTCAACGATT
3136626 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
3136659 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
3136692 T
1 T
3136693 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:3136664 original size:13 final size:13
Alignment explanation
Indices: 3136646--3136670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3136636 CATAAAATGT
3136646 TGTATCGATACAA
1 TGTATCGATACAA
3136659 TGTATCGATACA
1 TGTATCGATACA
3136671 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3136751 original size:13 final size:13
Alignment explanation
Indices: 3136733--3136757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3136723 ATTACTCAAA
3136733 TGTATCGATACAT
1 TGTATCGATACAT
3136746 TGTATCGATACA
1 TGTATCGATACA
3136758 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3136859 original size:52 final size:52
Alignment explanation
Indices: 3136766--3136893 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
3136756 CACTGATCTT
3136766 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATTAAA
*
3136817 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACATTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATTAAA
3136869 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3136894 TCATATTTCG
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
51 19 0.25
52 56 0.75
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATTAAA
Found at i:3144648 original size:20 final size:19
Alignment explanation
Indices: 3144625--3144695 Score: 88
Period size: 20 Copynumber: 3.6 Consensus size: 19
3144615 AGATAGAATA
3144625 TATCGATACATTGAAGAATG
1 TATCGATACATTGAA-AATG
* *
3144645 TATCGATACATTCATACATG
1 TATCGATACATTGA-AAATG
*
3144665 TATCGATATATTGAAAATTG
1 TATCGATACATTGAAAA-TG
3144685 TATCGATACAT
1 TATCGATACAT
3144696 CTGGGAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
19 2 0.05
20 40 0.93
21 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (19 bp):
TATCGATACATTGAAAATG
Found at i:3145180 original size:45 final size:45
Alignment explanation
Indices: 3145112--3145282 Score: 200
Period size: 45 Copynumber: 3.7 Consensus size: 45
3145102 AACTAAGGAA
* *
3145112 AAAGTGGACCAATGTGCTGATTCAAGGCCAACGACATTGGGCTAAT
1 AAAGTGGA-CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAT
* *
3145158 AAAGTGGACAATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAGGG
1 AAAGTGGACAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA--T
* * *
3145205 AAAATGGATAATGTGCTGATTCAAGGCGAGCGACATTGAGCTAAT
1 AAAGTGGACAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAT
* * * *
3145250 AAAG-GTGCCAATATGCTGATTCAATGCTAGCGA
1 AAAGTG-GACAATGTGCTGATTCAAGGCCAGCGA
3145283 TATCGGATTT
Statistics
Matches: 107, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
44 1 0.01
45 58 0.54
46 8 0.07
47 40 0.37
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (45 bp):
AAAGTGGACAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAT
Found at i:3145231 original size:47 final size:47
Alignment explanation
Indices: 3145072--3145248 Score: 205
Period size: 47 Copynumber: 3.8 Consensus size: 47
3145062 AGAGGATTGC
** * *
3145072 CAATGTGCCAATTCAAGGCGAGCAACATTGAACTAAGGAAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAGGAAAAA-TGGA
* * * * *
3145120 CCAATGTGCTGATTCAAGGCCAACGACATTGGGCTAA--TAAAGTGGA
1 -CAATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAGGAAAAATGGA
*
3145166 CAATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAGGGAAAATGGA
1 CAATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAGGAAAAATGGA
* * *
3145213 TAATGTGCTGATTCAAGGCGAGCGACATTGAGCTAA
1 CAATGTGCTGATTCAAGGCCAGCAACATTGAGCTAA
3145249 TAAAGGTGCC
Statistics
Matches: 109, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
45 33 0.30
46 4 0.04
47 43 0.39
49 29 0.27
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.20
Consensus pattern (47 bp):
CAATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAGGAAAAATGGA
Found at i:3145251 original size:92 final size:94
Alignment explanation
Indices: 3145072--3145273 Score: 275
Period size: 92 Copynumber: 2.2 Consensus size: 94
3145062 AGAGGATTGC
** *
3145072 CAATGTGCCAATTCAAGGCGAGCAACATTGAACTAAGGAAAAAGTGGACCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCAACATTGAACTAAGGAAAAAGTGGACCAATGTGCTGATTCAA
*
3145137 GGCCAACGACATTGGGCTAATAAA-GTGGA
66 GGCCAACGACATTGAGCTAATAAAGGT-GA
* * *
3145166 CAATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAGGGAAAA-TGGA-TAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCAACATTGAACTAAGGAAAAAGTGGACCAATGTGCTGATTCAA
* * *
3145229 GGCGAGCGACATTGAGCTAATAAAGGTGC
66 GGCCAACGACATTGAGCTAATAAAGGTGA
*
3145258 CAATATGCTGATTCAA
1 CAATGTGCTGATTCAA
3145274 TGCTAGCGAT
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
92 52 0.54
93 6 0.06
94 38 0.40
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (94 bp):
CAATGTGCTGATTCAAGGCCAGCAACATTGAACTAAGGAAAAAGTGGACCAATGTGCTGATTCAA
GGCCAACGACATTGAGCTAATAAAGGTGA
Found at i:3145451 original size:28 final size:28
Alignment explanation
Indices: 3145359--3145672 Score: 373
Period size: 28 Copynumber: 11.1 Consensus size: 28
3145349 TTTTTAAAAA
* *
3145359 AAAAGGTGCCACTAACTTCTGTGGGCTTTG
1 AAAAGATGCCACTGAC-T-TGTGGGCTTTG
*
3145389 AAGAGATGCCACTGACTTGT-GGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
*
3145416 AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* * **
3145444 GAAAGATGCCACTAACTCATGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
3145472 AAAAGTTGCCACTGACTCGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
*
3145500 AAAAGTTGCCACTGACTTGTGGGC-TTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
3145527 AAAAAGATACCATTGACTTGTGGGCTTTG
1 -AAAAGATGCCACTGACTTGTGGGCTTTG
* *
3145556 AAAAGATGCCACCGACTTGT-GGATATTG
1 AAAAGATGCCACTGACTTGTGGGCT-TTG
*
3145584 AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
3145612 AAAGGATACCACTGACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
3145640 AAAAAATGCCACCGACTTGTGTGGGCTTTG
1 AAAAGATGCCACTGAC-T-TGTGGGCTTTG
3145670 AAA
1 AAA
3145673 TGGGTTGCCA
Statistics
Matches: 247, Mismatches: 30, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
27 31 0.13
28 181 0.73
29 8 0.03
30 27 0.11
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (28 bp):
AAAAGATGCCACTGACTTGTGGGCTTTG
Found at i:3145690 original size:32 final size:32
Alignment explanation
Indices: 3145646--3145997 Score: 506
Period size: 32 Copynumber: 11.0 Consensus size: 32
3145636 TTTGAAAAAA
*
3145646 TGCCACCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
*
3145678 TGCCACCAACTTGTGTGGGCTTTGAAATGAGT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
*** *
3145710 TGCCATGGACTTGTGTGGGCTTTCAAATGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
* * **
3145742 TGTCACCAACTTGTGTGGGCTTTCAAATGACT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
*
3145774 TGCCACCAACTTGTGTCGGCTTTGAAATGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
3145806 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
*
3145838 TGCCACCAACTTGTGTGGGCTTTGAAATGAGT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
** * **
3145870 TGCCACTGACTTGTGTGGGCTTTCAAATGACT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
* * *
3145902 TGCCACCAACATGTGTGGGCTTTAAAATAGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
**
3145934 TGCCACCAACTTGTGTGGGCTTTGAAATAAGT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
3145966 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
3145998 GTTGCCATGG
Statistics
Matches: 284, Mismatches: 36, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 284 1.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.32
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
Found at i:3146038 original size:27 final size:27
Alignment explanation
Indices: 3146000--3146404 Score: 578
Period size: 27 Copynumber: 14.9 Consensus size: 27
3145990 AAATGGGTGT
* *
3146000 TGCCATGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
3146027 TGCCACGGAGTTGTGGATTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
3146054 TGCCACGGAGTGGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
3146081 TGCCACAGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
*
3146109 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
3146136 TGCCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
3146164 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
3146191 TGCCACGGGGTTGTGGACTTAAAA-GG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
3146217 TGCCACGGGGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
3146244 TGCCACGAAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
3146271 TGCCACGAAGTTGTGGACTTAAAATGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
3146298 TGCCACAGAGTTGTGGACTTAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
3146325 TGCCACCGAGTTGTGGACTTTAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * * *
3146352 TGCCATGGAGTTATGGACTTTAAAAAGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
*
3146380 TGCCACAGAGTTGTGGACTTTAAAA
1 TGCCACGGAGTTGTGGAC-TTAAAA
3146405 AAAAATGCCA
Statistics
Matches: 343, Mismatches: 31, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
26 26 0.08
27 238 0.69
28 79 0.23
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.24
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:3146128 original size:55 final size:55
Alignment explanation
Indices: 3146000--3146404 Score: 579
Period size: 55 Copynumber: 7.4 Consensus size: 55
3145990 AAATGGGTGT
*
3146000 TGCCATGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGA-TTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGG
* *
3146054 TGCCACGGAGTGGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGG
3146109 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGG
* *
3146164 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGGGTTGTGGAC-TTAAAA-GG
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGG
* * *
3146217 TGCCACGGGGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGAC-TTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGG
* * *
3146271 TGCCACGAAGTTGTGGACTTAAAATGG-TGCCACAGAGTTGTGGAC-TTAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAA-GGATGCCACGGAGTTGTGGACTTTAAAAGGG
* * * * * * *
3146325 TGCCACCGAGTTGTGGACTTTAAAGGGTGCCATGGAGTTATGGACTTTAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGG
*
3146380 TGCCACAGAGTTGTGGACTTTAAAA
1 TGCCACGGAGTTGTGGAC-TTAAAA
3146405 AAAAATGCCA
Statistics
Matches: 321, Mismatches: 24, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
53 52 0.16
54 131 0.41
55 133 0.41
56 5 0.02
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.24
Consensus pattern (55 bp):
TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGG
Found at i:3153940 original size:20 final size:20
Alignment explanation
Indices: 3153911--3153988 Score: 88
Period size: 20 Copynumber: 3.9 Consensus size: 20
3153901 GTAAAAAGAC
*
3153911 AGAATATATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
3153931 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
3153951 TACG--TGTATCGATATATTGA
1 -A-GAATGTATCGATACATTGA
*
3153971 AAAATGTATCGATACATT
1 AGAATGTATCGATACATT
3153989 TGGGTAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.02
20 45 0.94
21 1 0.02
22 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:3156246 original size:20 final size:20
Alignment explanation
Indices: 3156221--3156274 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
3156211 TTTAACTGGT
*
3156221 TGTATCGATACATTGAAGAA
1 TGTATCAATACATTGAAGAA
3156241 TGTATCAATACATTGAAGAA
1 TGTATCAATACATTGAAGAA
3156261 TGTATCAATACATT
1 TGTATCAATACATT
3156275 TGGGTTGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (20 bp):
TGTATCAATACATTGAAGAA
Found at i:3156304 original size:52 final size:52
Alignment explanation
Indices: 3156237--3156378 Score: 205
Period size: 51 Copynumber: 2.8 Consensus size: 52
3156227 GATACATTGA
* * * *** *
3156237 AGAATGTATCAATACATTGAAGAATGTATCAATACATTTGGGTTGAAAACCT
1 AGAATGTATCGATACAATGAAGAATGTATCAATACATTTAGGACCAAAACCC
3156289 AGAATGTATCGATACAATGAAGAATGTATCAATACA-TTAGGACCAAAACCC
1 AGAATGTATCGATACAATGAAGAATGTATCAATACATTTAGGACCAAAACCC
*
3156340 AGAATGTATCGATACAATGAAAAATGTATCAATACATTT
1 AGAATGTATCGATACAATGAAGAATGTATCAATACATTT
3156379 TCTTTCCAGA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 45 0.56
52 36 0.44
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (52 bp):
AGAATGTATCGATACAATGAAGAATGTATCAATACATTTAGGACCAAAACCC
Found at i:3156462 original size:20 final size:20
Alignment explanation
Indices: 3156437--3156507 Score: 108
Period size: 20 Copynumber: 3.5 Consensus size: 20
3156427 TTCAAACATA
3156437 TATCGATACACTCACTTATG
1 TATCGATACACTCACTTATG
3156457 TATCGATACACTCACTTATG
1 TATCGATACACTCACTTATG
*
3156477 TATCGATACA-TTACTTTATTG
1 TATCGATACACTCAC-TTA-TG
3156498 TATCGATACA
1 TATCGATACA
3156508 AATTATTGAA
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
19 3 0.06
20 33 0.69
21 12 0.25
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (20 bp):
TATCGATACACTCACTTATG
Found at i:3158844 original size:251 final size:251
Alignment explanation
Indices: 3158396--3158881 Score: 767
Period size: 251 Copynumber: 1.9 Consensus size: 251
3158386 GCTTGCCAAA
* * *
3158396 ATATCTGTGTTGTCATTGTTGATGAACTCTGAAGCTCATAGGAATGCTCTTTTCAAAGTTTTGAA
1 ATATCTGTGTTGTCACTATTGATGAACTCTGAAGCTCATAGGAATGCTCTCTTCAAAGTTTTGAA
* *
3158461 TGAGGCTTATGTCCTATCTGATATTTCTATAGGCCAATTGGATGGCCTAGTGAACAACATCACAG
66 CGAGGCTTATGTCCTATCTGATATTTCTATAGGCCAATTGGATGGCCCAGTGAACAACATCACAG
* * * * * **
3158526 TCGATAATTACATATCTTTTAACGATGTTGAAATCCCAAATGAAAAGAGAGGAAATTACAAAGCC
131 TCAATAATTACATATCTTTTAACGATGATAAAATCCCAAACGAAAAAAGAAAAAATTACAAAGCC
* *
3158591 TTGCACATCACCATTTACTACCCAAGGTGCTCATTGATAAACTCATTGATAATTAC
196 TTGCACATCACCATTTACTACCCAAAGTGCTCATCGATAAACTCATTGATAATTAC
*
3158647 ATATCTGTGTTGTCACTATTGATGAACTCTGAAGCTCATAGGAATGCTCTCTTGAAAGTTTTGAA
1 ATATCTGTGTTGTCACTATTGATGAACTCTGAAGCTCATAGGAATGCTCTCTTCAAAGTTTTGAA
* * * *
3158712 CGAGGCTTATGTCCTATTTGATATTTCTGTAGGCCAATTGGATTGCCCATTGAACAACATCACTA
66 CGAGGCTTATGTCCTATCTGATATTTCTATAGGCCAATTGGATGGCCCAGTGAACAACATCAC-A
* *
3158777 -TCAATAATTACATATCTTTTAGCGATGATAAAATCCCAAACGAAAAAAGAAAAAATTACAGAGC
130 GTCAATAATTACATATCTTTTAACGATGATAAAATCCCAAACGAAAAAAGAAAAAATTACAAAGC
3158841 CTTGCACATCACCATTTACTACCCAAAGTGCTCATCGATAA
195 CTTGCACATCACCATTTACTACCCAAAGTGCTCATCGATAA
3158882 CGAGTCAACT
Statistics
Matches: 213, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
251 212 1.00
252 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (251 bp):
ATATCTGTGTTGTCACTATTGATGAACTCTGAAGCTCATAGGAATGCTCTCTTCAAAGTTTTGAA
CGAGGCTTATGTCCTATCTGATATTTCTATAGGCCAATTGGATGGCCCAGTGAACAACATCACAG
TCAATAATTACATATCTTTTAACGATGATAAAATCCCAAACGAAAAAAGAAAAAATTACAAAGCC
TTGCACATCACCATTTACTACCCAAAGTGCTCATCGATAAACTCATTGATAATTAC
Found at i:3162548 original size:13 final size:13
Alignment explanation
Indices: 3162530--3162555 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3162520 TACAGCAAGT
3162530 ATGTATCGATACA
1 ATGTATCGATACA
3162543 ATGTATCGATACA
1 ATGTATCGATACA
3162556 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3164812 original size:21 final size:22
Alignment explanation
Indices: 3164774--3164820 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
3164764 TTGCAAGTTG
* *
3164774 AAATAAAGAAGTTGGCTAATAA
1 AAATAAAGAAGTTAGCTAAGAA
*
3164796 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAGAA
3164817 AAAT
1 AAAT
3164821 GAAAACTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.55, C:0.04, G:0.17, T:0.23
Consensus pattern (22 bp):
AAATAAAGAAGTTAGCTAAGAA
Found at i:3168745 original size:20 final size:20
Alignment explanation
Indices: 3168666--3168745 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
3168656 AATGTCCAAA
*
3168666 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
3168686 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
3168711 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
3168731 TTGTATCGATACATT
1 ATGTATCGATACATT
3168746 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:3168749 original size:13 final size:13
Alignment explanation
Indices: 3168731--3168769 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3168721 ACATTTTTCT
3168731 TTGTATCGATACA
1 TTGTATCGATACA
3168744 TTGTATCGATACA
1 TTGTATCGATACA
*
3168757 CTGTATCGATACA
1 TTGTATCGATACA
3168770 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3171329 original size:13 final size:13
Alignment explanation
Indices: 3171311--3171336 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3171301 TACAGCAAGT
3171311 ATGTATCGATACA
1 ATGTATCGATACA
3171324 ATGTATCGATACA
1 ATGTATCGATACA
3171337 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3174028 original size:48 final size:48
Alignment explanation
Indices: 3173971--3174126 Score: 212
Period size: 48 Copynumber: 3.3 Consensus size: 48
3173961 CAATGTGCCA
*
3173971 ATTCAAGGCC-GACGACATCGAGCTAAGGGAAAAGTGGACAATATGCTG
1 ATTCAAGGCCAG-CGACATTGAGCTAAGGGAAAAGTGGACAATATGCTG
* *
3174019 ATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGGCAATGTGCTG
1 ATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAATATGCTG
* * *
3174067 ATTCAAGGCCAGCGACATTGAGCTAA--TAAAGGT-GTCAATATGCTG
1 ATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAATATGCTG
*
3174112 ATTCAATGCCAGCGA
1 ATTCAAGGCCAGCGA
3174127 TATCAGACTT
Statistics
Matches: 99, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
45 24 0.24
46 5 0.05
48 69 0.70
49 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.20
Consensus pattern (48 bp):
ATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGACAATATGCTG
Found at i:3174292 original size:28 final size:28
Alignment explanation
Indices: 3174248--3175002 Score: 586
Period size: 28 Copynumber: 26.1 Consensus size: 28
3174238 CACCAACTTG
* *
3174248 TGTGGGCTTCGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3174276 TGTAGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3174304 TGTGGGCTTTGGAAGGGTGCCACTAATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3174332 TGTGTGAGCTTTTAAAGGGTGCCACTGACC
1 TGTG-G-GCTTTGAAAGGGTGCCACTGACT
* *
3174362 TGTGGGTTTTGAAAGGGTGTCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3174390 TGTGGGCTTTGAAAGGGTGTCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
** *
3174418 TGTGGGCTTTGAAAGGGTGTTACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3174446 AGTGGTCTTTTG-AAGAGATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GGTGCCACTGACT
* ***
3174475 TGTCGGCTTTGAAAAAATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*** *
3174503 TGTGGGCTTTGAAAATATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
3174531 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
3174559 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3174587 TGTGGGCTTTGAAATGATGCCACTGATTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
*
3174616 GTGTGGGCTTTGAGAAGGATGCCACTGACT
1 -TGTGGGCTTTGA-AAGGGTGCCACTGACT
* * * *
3174646 TTTGGGCTTTGAGAAGGATGCCACTAAAT
1 TGTGGGCTTTGA-AAGGGTGCCACTGACT
* * *
3174675 TATGGGCTTTGAGAAGGATGCCATTGACT
1 TGTGGGCTTTGA-AAGGGTGCCACTGACT
* *
3174704 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
3174732 TATGGGCTTTGAAATGGGTTGCCA-TCGACTT
1 TGTGGGCTTTGAAA-GGG-TGCCACT-GAC-T
* * *
3174763 GTGTGGGCTTTCAAATGAGTTGCCACCGACTT
1 -TGTGGGCTTTGAAA-G-GGTGCCACTGAC-T
* * *
3174795 GTGTGGGCTTTGAAATAAGTTGCCACCGACAT
1 -TGTGGGCTTTG-AA-AGGGTGCCACTGAC-T
* *
3174827 ATGTGGGCTTTGAAATGGGTTCCACCGACT
1 -TGTGGGCTTTGAAA-GGGTGCCACTGACT
* * *
3174857 TGTGTAGGCTTTCAAATGAGTTGCCACTAACTT
1 TGTG--GGCTTTGAAA-G-GGTGCCACTGAC-T
* * * *
3174890 GTGTGGGC-TTAAAAGGTTGCCACGGAGT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
3174918 TGTGGG-TTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
3174945 TGTGGAC-TTAAAAGGTTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
3174972 TGTGGAC-TTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
3174999 TGTG
1 TGTG
3175003 TACTTAAAAA
Statistics
Matches: 620, Mismatches: 82, Indels: 51
0.82 0.11 0.07
Matches are distributed among these distances:
27 78 0.13
28 276 0.45
29 99 0.16
30 46 0.07
31 42 0.07
32 70 0.11
33 4 0.01
34 5 0.01
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:3174350 original size:86 final size:84
Alignment explanation
Indices: 3174198--3174745 Score: 535
Period size: 86 Copynumber: 6.4 Consensus size: 84
3174188 CTTTTAAAAA
* * *
3174198 AAAGG-TGCCACTAACTTATGTGGGCTTT-AAAGAGAGTTGCCACCAACTTGTGTGGGCTTCGAA
1 AAAGGATGCCACTGAC-T-TGTGGGCTTTGAAAG-GA--TGCCACTAAC-T-TGTGGGCTTTGAA
* *
3174261 AGGGTGCCACTAACTTGTAGGCTTTG
59 AGGATGCCACTAACTTGTGGGCTTTG
* * * * * * *
3174287 AAAGGGTGCCATTGACTTGTGGGCTTTGGAAGGGTGCCACTAATTTGTGTGAGCTTTTAAAGGGT
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTG-G-GCTTTGAAAGGAT
* * *
3174352 GCCACTGACCTGTGGGTTTTG
64 GCCACTAACTTGTGGGCTTTG
* * * * * * *
3174373 AAAGGGTGTCACTGACTTGTGGGCTTTGAAAGGGTGTCACTGACTTGTGGGCTTTGAAAGGGTGT
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGC
* * *
3174438 TACTAACTAGTGGTCTTTTG
66 CACTAACTTGTGGGC-TTTG
* ** * **
3174458 -AAGAGATGCCACTGACTTGTCGGCTTTGAAAAAATGCCACTGACTTGTGGGCTTTGAAAATATG
1 AAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATG
3174522 CCACTAACTTGTGGGCTTTG
65 CCACTAACTTGTGGGCTTTG
* * * *
3174542 AAAGGGTGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTGAAATGATGC
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGC
**
3174607 CACTGATTTGTGTGGGCTTTG
66 CACT-AACT-TGTGGGCTTTG
* * *
3174628 AGAAGGATGCCACTGACTTTTGGGCTTTGAGAAGGATGCCACTAAATTATGGGCTTTGAGAAGGA
1 A-AAGGATGCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTAACTTGTGGGCTTTGA-AAGGA
* *
3174693 TGCCATTGACTTGTGGGCTTTG
63 TGCCACTAACTTGTGGGCTTTG
* *
3174715 AAATGATGCCACTGACTTATGGGCTTTGAAA
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAA
3174746 TGGGTTGCCA
Statistics
Matches: 386, Mismatches: 61, Indels: 28
0.81 0.13 0.06
Matches are distributed among these distances:
84 92 0.24
85 76 0.20
86 117 0.30
87 38 0.10
88 36 0.09
89 19 0.05
90 8 0.02
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (84 bp):
AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGC
CACTAACTTGTGGGCTTTG
Found at i:3174779 original size:32 final size:32
Alignment explanation
Indices: 3174531--3174899 Score: 270
Period size: 32 Copynumber: 12.3 Consensus size: 32
3174521 GCCACTAACT
* *
3174531 TGTGGGCTTTGAAA-G-GGTGCCACTGAC-T-
1 TGTGGGCTTTGAAATGAGTTGCCACCGACTTG
*
3174559 TGTGGGCTTTGAAATGA--TGCCACTGAC-T-
1 TGTGGGCTTTGAAATGAGTTGCCACCGACTTG
* *
3174587 TGTGGGCTTTGAAATGA--TGCCACTGATTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCGACTTG
* *
3174617 TGTGGGCTTTGAGAA-G-GATGCCACTGACTT-
1 TGTGGGCTTTGA-AATGAGTTGCCACCGACTTG
* * **
3174647 T-TGGGCTTTGAGAA-G-GATGCCA-CTAAAT-
1 TGTGGGCTTTGA-AATGAGTTGCCACCGACTTG
* * **
3174675 TATGGGCTTTGAGAA-G-GATGCCATTGAC-T-
1 TGTGGGCTTTGA-AATGAGTTGCCACCGACTTG
*
3174704 TGTGGGCTTTGAAATGA--TGCCACTGAC-T-
1 TGTGGGCTTTGAAATGAGTTGCCACCGACTTG
* * *
3174732 TATGGGCTTTGAAATGGGTTGCCATCGACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCGACTTG
*
3174764 TGTGGGCTTTCAAATGAGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCGACTTG
* * *
3174796 TGTGGGCTTTGAAATAAGTTGCCACCGACATA
1 TGTGGGCTTTGAAATGAGTTGCCACCGACTTG
*
3174828 TGTGGGCTTTGAAATGGGTT-CCACCGACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCGACTTG
* * **
3174859 TGTAGGCTTTCAAATGAGTTGCCACTAACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCGACTTG
3174891 TGTGGGCTT
1 TGTGGGCTT
3174900 AAAAGGTTGC
Statistics
Matches: 292, Mismatches: 33, Indels: 28
0.83 0.09 0.08
Matches are distributed among these distances:
28 81 0.28
29 57 0.20
30 23 0.08
31 40 0.14
32 91 0.31
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (32 bp):
TGTGGGCTTTGAAATGAGTTGCCACCGACTTG
Found at i:3174870 original size:95 final size:92
Alignment explanation
Indices: 3174531--3174899 Score: 300
Period size: 87 Copynumber: 4.1 Consensus size: 92
3174521 GCCACTAACT
* * * * * *
3174531 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAT--GATGCCACTGACTTGTG--G
1 TGTGGGCTTTGAAATGATGCCACCGACTTATGGGCTTTGAAATGGGTTGCCACCGACTTGTGTAG
* ** *
3174592 GCTTTGAAATGA--TGCCACTGATTTG
66 GCTTTCAAATGAGTTGCCACCAACTTG
* * * * ** * *
3174617 TGTGGGCTTTGAGAAGGATGCCACTGACTTTTGGGCTTTGAGAA--GGATGCCACTAAATTATG-
1 TGTGGGCTTTGA-AATGATGCCACCGACTTATGGGCTTTGA-AATGGGTTGCCACCGACTTGTGT
* * ***
3174679 -GGCTTTGAGAA-G-GATGCCATTGAC-T-
64 AGGCTTTCA-AATGAGTTGCCACCAACTTG
* * *
3174704 TGTGGGCTTTGAAATGATGCCACTGACTTATGGGCTTTGAAATGGGTTGCCATCGACTTGTGTGG
1 TGTGGGCTTTGAAATGATGCCACCGACTTATGGGCTTTGAAATGGGTTGCCACCGACTTGTGTAG
*
3174769 GCTTTCAAATGAGTTGCCACCGACTTG
66 GCTTTCAAATGAGTTGCCACCAACTTG
* *
3174796 TGTGGGCTTTGAAATAAGTTGCCACCGACATATGTGGGCTTTGAAATGGGTT-CCACCGACTTGT
1 TGTGGGCTTTGAAAT--GATGCCACCGAC-T-TATGGGCTTTGAAATGGGTTGCCACCGACTTGT
*
3174860 GTAGGCTTTCAAATGAGTTGCCACTAACTTG
62 GTAGGCTTTCAAATGAGTTGCCACCAACTTG
3174891 TGTGGGCTT
1 TGTGGGCTT
3174900 AAAAGGTTGC
Statistics
Matches: 239, Mismatches: 26, Indels: 27
0.82 0.09 0.09
Matches are distributed among these distances:
85 2 0.01
86 38 0.16
87 50 0.21
88 28 0.12
89 18 0.08
90 9 0.04
91 1 0.00
92 15 0.06
94 10 0.04
95 49 0.21
96 19 0.08
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (92 bp):
TGTGGGCTTTGAAATGATGCCACCGACTTATGGGCTTTGAAATGGGTTGCCACCGACTTGTGTAG
GCTTTCAAATGAGTTGCCACCAACTTG
Found at i:3174929 original size:27 final size:27
Alignment explanation
Indices: 3174891--3175011 Score: 179
Period size: 27 Copynumber: 4.5 Consensus size: 27
3174881 CACTAACTTG
* *
3174891 TGTGGGCTTAAAAGGTTGCCACGGAGT
1 TGTGGACTTAAAAGGGTGCCACGGAGT
**
3174918 TGTGGGTTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTAAAAGGGTGCCACGGAGT
*
3174945 TGTGGACTTAAAAGGTTGCCACGGAGT
1 TGTGGACTTAAAAGGGTGCCACGGAGT
*
3174972 TGTGGACTTAAAAGGGTGCCACAGAGT
1 TGTGGACTTAAAAGGGTGCCACGGAGT
*
3174999 TGTGTACTTAAAA
1 TGTGGACTTAAAA
3175012 AGGAATGCAA
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.26, C:0.13, G:0.34, T:0.26
Consensus pattern (27 bp):
TGTGGACTTAAAAGGGTGCCACGGAGT
Found at i:3174973 original size:54 final size:54
Alignment explanation
Indices: 3174891--3175011 Score: 197
Period size: 54 Copynumber: 2.2 Consensus size: 54
3174881 CACTAACTTG
* ** *
3174891 TGTGGGCTTAAAAGGTTGCCACGGAGTTGTGGGTTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
3174945 TGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
1 TGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
*
3174999 TGTGTACTTAAAA
1 TGTGGACTTAAAA
3175012 AGGAATGCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.26, C:0.13, G:0.34, T:0.26
Consensus pattern (54 bp):
TGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
Done.