Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold565
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 391512
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
File 1 of 3
Found at i:6943 original size:10 final size:10
Alignment explanation
Indices: 6928--6954 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
6918 ATGTATCAAG
6928 CAAAAACAAA
1 CAAAAACAAA
6938 CAAAAACAAA
1 CAAAAACAAA
6948 CAAAAAC
1 CAAAAAC
6955 TTAGTTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:11164 original size:52 final size:51
Alignment explanation
Indices: 11086--11234 Score: 235
Period size: 52 Copynumber: 2.9 Consensus size: 51
11076 CGAAATATGA
11086 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
11138 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
**
11190 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
11235 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.96
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:11241 original size:13 final size:13
Alignment explanation
Indices: 11223--11247 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11213 CAAAGATCAG
11223 TGTATCGATACAA
1 TGTATCGATACAA
11236 TGTATCGATACA
1 TGTATCGATACA
11248 TTTAAGTGAT
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:11305 original size:87 final size:87
Alignment explanation
Indices: 11203--11421 Score: 379
Period size: 87 Copynumber: 2.5 Consensus size: 87
11193 TTTGCCTGCA
11203 TGTATCGATACAAAGATCAGTGTATCGATACAATGTATCGATACATTTAAGTGATGTATCGATAC
1 TGTATCGATACAAAGATCAGTGTATCGATACAATGTATCGATACATTTAAGTGATGTATCGATAC
11268 ATTTTTTGGCAGTACCTTAAAT
66 ATTTTTTGGCAGTACCTTAAAT
11290 TGTATCGATACAAAGATCAGTGTATCGATACAATGTATCGATACATTTAAGTGATGTATCGATAC
1 TGTATCGATACAAAGATCAGTGTATCGATACAATGTATCGATACATTTAAGTGATGTATCGATAC
*
11355 ATTTTTTGGCAGTAGCTTAAAT
66 ATTTTTTGGCAGTACCTTAAAT
* *
11377 TGTATCGATACAAAAAAAT-A-TGTATCGATACATTGTATCGATACA
1 TGTATCGATAC--AAAGATCAGTGTATCGATACAATGTATCGATACA
11422 ACACTTTATG
Statistics
Matches: 127, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
87 121 0.95
88 1 0.01
89 5 0.04
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (87 bp):
TGTATCGATACAAAGATCAGTGTATCGATACAATGTATCGATACATTTAAGTGATGTATCGATAC
ATTTTTTGGCAGTACCTTAAAT
Found at i:11328 original size:13 final size:13
Alignment explanation
Indices: 11310--11334 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11300 CAAAGATCAG
11310 TGTATCGATACAA
1 TGTATCGATACAA
11323 TGTATCGATACA
1 TGTATCGATACA
11335 TTTAAGTGAT
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:11412 original size:33 final size:33
Alignment explanation
Indices: 11375--11441 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
11365 AGTAGCTTAA
11375 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
11408 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
11441 A
1 A
11442 AATCGTTGAA
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:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:11415 original size:13 final size:13
Alignment explanation
Indices: 11397--11421 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11387 CAAAAAAATA
11397 TGTATCGATACAT
1 TGTATCGATACAT
11410 TGTATCGATACA
1 TGTATCGATACA
11422 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:14462 original size:13 final size:13
Alignment explanation
Indices: 14444--14469 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14434 TACACCAAGT
14444 ATGTATCGATACA
1 ATGTATCGATACA
14457 ATGTATCGATACA
1 ATGTATCGATACA
14470 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:14467 original size:32 final size:33
Alignment explanation
Indices: 14426--14489 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
14416 TAGCCAAACT
* **
14426 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
14458 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
14490 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:18548 original size:15 final size:15
Alignment explanation
Indices: 18528--18558 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18518 TAAAAATGTC
*
18528 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
18543 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
18558 C
1 C
18559 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:20806 original size:20 final size:20
Alignment explanation
Indices: 20763--20808 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
20753 AAATCTTTTG
20763 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
20784 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
20804 CAAAA
1 CAAAA
20809 CCAGAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:23042 original size:20 final size:20
Alignment explanation
Indices: 23019--23071 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
23009 ACAATTCAAA
23019 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
23039 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
23059 GTATCGATACATG
1 GTATCGATACATG
23072 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:23148 original size:13 final size:13
Alignment explanation
Indices: 23130--23155 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23120 TACACCAAGT
23130 ATGTATCGATACA
1 ATGTATCGATACA
23143 ATGTATCGATACA
1 ATGTATCGATACA
23156 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:23153 original size:32 final size:33
Alignment explanation
Indices: 23112--23175 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
23102 TAGCCAAACT
* **
23112 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
23144 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
23176 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:23986 original size:52 final size:52
Alignment explanation
Indices: 23908--24015 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
23898 TAAGCTTTCA
*
23908 GATACATTTTATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATC
1 GATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATC
*
23960 GATACATTTTATAATGTATCGATACATCTGGGTAAATTTGCCTGCATGTATC
1 GATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATC
24012 GATA
1 GATA
24016 TAAAGATCAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (52 bp):
GATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATC
Found at i:24030 original size:52 final size:52
Alignment explanation
Indices: 23918--24038 Score: 172
Period size: 52 Copynumber: 2.3 Consensus size: 52
23908 GATACATTTT
***
23918 ATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTTT
1 ATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATAAG
* * *
23970 ATAATGTATCGATACATCTGGGTAAATTTGCCTGCATGTATCGATATA-AAG
1 ATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATAAG
24021 ATCAGTGTATCGATACAT
1 AT-AGTGTATCGATACAT
24039 TTTTTTGGCA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 2 0.03
52 59 0.97
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (52 bp):
ATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATAAG
Found at i:24847 original size:58 final size:58
Alignment explanation
Indices: 24738--24847 Score: 132
Period size: 58 Copynumber: 1.9 Consensus size: 58
24728 TGAAGAAAAA
* * * **
24738 TGCCAATGTGCTGAGGCAAGGCCAGCGACATCGGGCTTAGGAATGTTAAAGATGAAGG
1 TGCCAATGTGCTGAGGCAAGGCCAGCAACATCGGACTTAAGAATGACAAAGATGAAGG
** *
24796 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAA-AGATGACAAAGA
1 TGCCAATGTGCTGAGGCAAGGCCAGCAACATCGGACTTAAGA-ATGACAAAGA
24848 CGCCAATATG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
57 1 0.02
58 42 0.98
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (58 bp):
TGCCAATGTGCTGAGGCAAGGCCAGCAACATCGGACTTAAGAATGACAAAGATGAAGG
Found at i:24863 original size:52 final size:50
Alignment explanation
Indices: 24783--25179 Score: 423
Period size: 52 Copynumber: 8.1 Consensus size: 50
24773 CTTAGGAATG
* * *
24783 TTAAAGATG-AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
** * *
24832 TTAAAGATGACAAAGACGCCAATATGTTGATTCAAGGCCAGCGATATAGGAC
1 TTAAAGATG--AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
24884 TTAAGGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG--AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * * *
24936 TT---G--G--AGGTGCCAATGTGCTGATTCAAAGCCAGCTACATTGGAC
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
24979 TTAAAGATG-AAGGTGCCAATATGCTGATTCAAAGCCAGCGATATTGGAC
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
25028 TT---G--G--AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
25071 TTAAAGAT-AAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGAC
1 TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
25120 TTAGAGGTGCCAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG--AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
25172 TTAGAAGA
1 TTA-AAGA
25180 AGACGCCACC
Statistics
Matches: 296, Mismatches: 32, Indels: 36
0.81 0.09 0.10
Matches are distributed among these distances:
43 73 0.25
44 1 0.00
46 3 0.01
47 1 0.00
48 1 0.00
49 90 0.30
52 125 0.42
53 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.23
Consensus pattern (50 bp):
TTAAAGATGAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:24967 original size:43 final size:43
Alignment explanation
Indices: 24901--25173 Score: 258
Period size: 49 Copynumber: 5.9 Consensus size: 43
24891 TGACAAAGGC
24901 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGGT
* * * *
24944 GCCAATGTGCTGATTCAAAGCCAGCTACATTGGACTTAAAGATGAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G--G-AGGT
*
24993 GCCAATATGCTGATTCAAAGCCAGCGATATTGGACTTGGAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGGT
* * * *
25036 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G---GAGGT
* *
25085 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAGAGGTGCCAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----G-G----AGGT
25137 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
25174 AGAAGAAGAC
Statistics
Matches: 192, Mismatches: 21, Indels: 25
0.81 0.09 0.11
Matches are distributed among these distances:
43 70 0.36
44 1 0.01
46 3 0.02
48 1 0.01
49 76 0.40
50 2 0.01
52 39 0.20
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (43 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGGT
Found at i:25026 original size:92 final size:92
Alignment explanation
Indices: 24849--25132 Score: 433
Period size: 92 Copynumber: 3.1 Consensus size: 92
24839 TGACAAAGAC
* * * * * * *
24849 GCCAATATGTTGATTCAAGGCCAGCGATATAGGACTTAAGGATGACAAAGGCGCCAATATGCTGA
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGA
24914 TTCAAGGCCAGCGATATTGGACTTGGAGGT
63 TTCAAGGCCAGCGATATTGGACTTGGAGGT
*
24944 GCCAATGTGCTGATTCAAAGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
*
25009 AAAGCCAGCGATATTGGACTTGGAGGT
66 AAGGCCAGCGATATTGGACTTGGAGGT
*
25036 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
* *
25101 AAGGCCAGCAATATTGGACTTAGAGGT
66 AAGGCCAGCGATATTGGACTTGGAGGT
25128 GCCAA
1 GCCAA
25133 AGGCGCCAAT
Statistics
Matches: 175, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
92 138 0.79
95 37 0.21
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (92 bp):
GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTGGAGGT
Found at i:25252 original size:28 final size:28
Alignment explanation
Indices: 25196--25347 Score: 182
Period size: 28 Copynumber: 5.3 Consensus size: 28
25186 CACCAACTTG
25196 TGTGGGCTTTTGAAAGGTTTG-CA-TCAACT
1 TGTGGGCTTTTG-AAGG-TTGCCACT-AACT
*
25225 TGTGTGCTTTTGAAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAGGTTGCCACTAACT
* * *
25253 TGTGGGCTTTTAAAGATTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTAACT
* *
25281 TGTGGGCTTTTAAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTAACT
*
25309 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTG--AAGGTTGCCACTAACT
25339 TGTGGGCTT
1 TGTGGGCTT
25348 AAAAGGAAAA
Statistics
Matches: 110, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
27 3 0.03
28 72 0.65
29 12 0.11
30 23 0.21
ACGTcount: A:0.19, C:0.16, G:0.28, T:0.36
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTAACT
Found at i:25350 original size:84 final size:84
Alignment explanation
Indices: 25196--25352 Score: 212
Period size: 86 Copynumber: 1.8 Consensus size: 84
25186 CACCAACTTG
* *
25196 TGTGGGCTTTTGAAAGGTTTGCATCAACTTGTGTGCTTTTGAAGGTTGCCACTAACTTGTGGGCT
1 TGTGGGCTTTTGAAAGGTTTGCATCAACTTGTGGGCTTTTGAAGGGTGCCACTAACTTGTGGGC-
25261 TTTAAAGATTGCCACTGACT
65 TTTAAAGATTGCCACTGACT
*
25281 TGTGGGCTTTT-AAAGG-TTGCCA-CTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTG
1 TGTGGGCTTTTGAAAGGTTTG-CATC-AACTTGTGGGCTTTTG--AAGGGTGCCACTAACTTGTG
*
25343 GGCTTAAAAG
62 GGCTTTAAAG
25353 GAAAAAGAGT
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
83 4 0.06
84 21 0.33
85 17 0.27
86 22 0.34
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.35
Consensus pattern (84 bp):
TGTGGGCTTTTGAAAGGTTTGCATCAACTTGTGGGCTTTTGAAGGGTGCCACTAACTTGTGGGCT
TTAAAGATTGCCACTGACT
Found at i:25376 original size:34 final size:35
Alignment explanation
Indices: 25338--25412 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
25328 TGCCACTAAC
* * *
25338 TTGTGGGCTTA-AAAGGAAAAAGAGTGCTATGGAG
1 TTGTGGGCTTACAAAAGAAAAAGAGTGCCACGGAG
*
25372 TTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAG
1 TTGTGGGCTTACAAAAGAAAAAGAGTGCCACGGAG
25407 TTGTGG
1 TTGTGG
25413 ACTTTGGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 10 0.29
35 25 0.71
ACGTcount: A:0.35, C:0.09, G:0.33, T:0.23
Consensus pattern (35 bp):
TTGTGGGCTTACAAAAGAAAAAGAGTGCCACGGAG
Found at i:25439 original size:29 final size:29
Alignment explanation
Indices: 25388--25475 Score: 115
Period size: 29 Copynumber: 3.0 Consensus size: 29
25378 GCTTACAAAA
* *
25388 GAAAAAGAGTGCCACGGAGTTGTGGACTTT
1 GAAAAAGA-TGCCACGGACTTGTGGGCTTT
*
25418 GGAAAAGATGCCATC-GACTTGTGGGCTTT
1 GAAAAAGATGCCA-CGGACTTGTGGGCTTT
*
25447 GAAAAAGATGCCACTGACTTGTGGGCTTT
1 GAAAAAGATGCCACGGACTTGTGGGCTTT
25476 TGAAGGGTGA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
28 1 0.02
29 43 0.83
30 8 0.15
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
GAAAAAGATGCCACGGACTTGTGGGCTTT
Found at i:26902 original size:11 final size:11
Alignment explanation
Indices: 26886--26916 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
26876 GTTGTTGTTG
26886 TTTTTTTTTTC
1 TTTTTTTTTTC
*
26897 TTTTTTTCTTC
1 TTTTTTTTTTC
26908 TTTTTTTTT
1 TTTTTTTTT
26917 GTGGAGGACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:37315 original size:21 final size:22
Alignment explanation
Indices: 37283--37337 Score: 94
Period size: 21 Copynumber: 2.5 Consensus size: 22
37273 ACAGTGACCT
*
37283 ATGAACGGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
37305 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
37326 ATGAACAGTGAT
1 ATGAACAGTGAT
37338 AAATAGTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:37454 original size:53 final size:53
Alignment explanation
Indices: 37380--37516 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
37370 CCACTACCAA
*
37380 TGTATCGATACATATTTTGTGTATCGATACAAATTTCGCTACTGCCAATGACC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTCGCTACTGCCAATGACC
* *
37433 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTCGCTACTGCCAATGACC
*
37486 TGTATCGATACATATTTGTGTGTATCAATAC
1 TGTATCGATACATA-TTGTGTGTATCGATAC
37517 TATGCAATTT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 64 0.81
54 15 0.19
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTGTGTGTATCGATACAAATTTCGCTACTGCCAATGACC
Found at i:43227 original size:16 final size:17
Alignment explanation
Indices: 43208--43240 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
43198 TTTCTTTAAT
43208 ATTAGTTTT-AATTTTA
1 ATTAGTTTTAAATTTTA
43224 ATTAGTTTTAAATTTTA
1 ATTAGTTTTAAATTTTA
43241 TTTTATTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (17 bp):
ATTAGTTTTAAATTTTA
Found at i:45799 original size:18 final size:18
Alignment explanation
Indices: 45772--45806 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45762 TATTTTTTAA
45772 AAATAAAAAAATAATTAT
1 AAATAAAAAAATAATTAT
* *
45790 AAATATAAAAATTATTA
1 AAATAAAAAAATAATTA
45807 AATATTATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAAAAAAATAATTAT
Found at i:46056 original size:2 final size:2
Alignment explanation
Indices: 46049--46094 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
46039 TATAAAAGGA
46049 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46091 AT AT
1 AT AT
46095 GAAACAATCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47746 original size:30 final size:28
Alignment explanation
Indices: 47698--47786 Score: 81
Period size: 30 Copynumber: 3.1 Consensus size: 28
47688 TCATTCTAAA
*
47698 ATACATTATGTGTGTGTATATATATATAT
1 ATACATTGTGTGT-TGTATATATATATAT
* *
47727 ATACACTTGTGTGTATGTATGTATGTATAT
1 ATACA-TTGTGTGT-TGTATATATATATAT
* * *
47757 TTGCATATGTATG-TGTATATATATATAT
1 ATACAT-TGTGTGTTGTATATATATATAT
47785 AT
1 AT
47787 TATGTTTGTT
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
28 14 0.29
29 6 0.12
30 28 0.58
ACGTcount: A:0.31, C:0.04, G:0.16, T:0.48
Consensus pattern (28 bp):
ATACATTGTGTGTTGTATATATATATAT
Found at i:49157 original size:28 final size:28
Alignment explanation
Indices: 49126--49187 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
49116 TTAATTTTGA
* * *
49126 TTTTAATTGTATTAAGAATTAATATCAT
1 TTTTAATAGTATTAAAAATAAATATCAT
*
49154 TTTTAATAGTATTAAAAATAAATATTAT
1 TTTTAATAGTATTAAAAATAAATATCAT
49182 TTTTAA
1 TTTTAA
49188 AATTTTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (28 bp):
TTTTAATAGTATTAAAAATAAATATCAT
Found at i:49209 original size:14 final size:14
Alignment explanation
Indices: 49192--49230 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
49182 TTTTAAAATT
49192 TTTTAAAAATATAA
1 TTTTAAAAATATAA
49206 TTTTAAAAA-ATAA
1 TTTTAAAAATATAA
*
49219 TTATTATAAATA
1 TT-TTAAAAATA
49231 ATTTTTTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 6 0.27
14 15 0.68
15 1 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTTAAAAATATAA
Found at i:49218 original size:13 final size:13
Alignment explanation
Indices: 49192--49235 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
49182 TTTTAAAATT
49192 TTTTAAAAATATAA
1 TTTTAAAAA-ATAA
49206 TTTTAAAAAATAA
1 TTTTAAAAAATAA
*
49219 TTATT-ATAAATAA
1 TT-TTAAAAAATAA
49232 TTTT
1 TTTT
49236 TTATCTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 2 0.07
13 15 0.54
14 11 0.39
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTAAAAAATAA
Found at i:51415 original size:32 final size:31
Alignment explanation
Indices: 51379--51455 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
51369 AATTTATTTT
51379 ATTATTTAAATAATAAATTTTAAATT-TTAAA-A
1 ATTATTTAAATAA-AAATTTT--ATTATTAAATA
*
51411 ATTATTTAATTAAAAATTTTATTATTAAATA
1 ATTATTTAAATAAAAATTTTATTATTAAATA
*
51442 ATAATTTAAATAAA
1 ATTATTTAAATAAA
51456 TCAAATTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
29 3 0.08
30 5 0.12
31 20 0.50
32 12 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
ATTATTTAAATAAAAATTTTATTATTAAATA
Found at i:51425 original size:15 final size:15
Alignment explanation
Indices: 51405--51455 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
51395 ATTTTAAATT
51405 TTAAAAATTATTTAA
1 TTAAAAATTATTTAA
*
51420 TTAAAAATT-TTATTA
1 TTAAAAATTATT-TAA
*
51435 TTAAATAATAATTTAA
1 TTAAA-AATTATTTAA
*
51451 ATAAA
1 TTAAA
51456 TCAAATTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 2 0.07
15 16 0.55
16 9 0.31
17 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAAAATTATTTAA
Found at i:51447 original size:19 final size:20
Alignment explanation
Indices: 51411--51448 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
51401 AATTTTAAAA
*
51411 ATTATTTAATTAAAAATTTT
1 ATTATTTAAATAAAAATTTT
*
51431 ATTA-TTAAATAATAATTT
1 ATTATTTAAATAAAAATTT
51449 AAATAAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTATTTAAATAAAAATTTT
Found at i:51465 original size:19 final size:19
Alignment explanation
Indices: 51443--51480 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
51433 TATTAAATAA
*
51443 TAATTTAAATAAATCAAAT
1 TAATTTAAATAAATAAAAT
51462 TAATTTAAATAAATAAAAT
1 TAATTTAAATAAATAAAAT
51481 ATTTATCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
TAATTTAAATAAATAAAAT
Found at i:55781 original size:16 final size:17
Alignment explanation
Indices: 55760--55791 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
55750 ATTTTATTTA
55760 AATATATT-GAATTTTC
1 AATATATTAGAATTTTC
55776 AATATATTAGAATTTT
1 AATATATTAGAATTTT
55792 TCTAGACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (17 bp):
AATATATTAGAATTTTC
Found at i:59063 original size:13 final size:13
Alignment explanation
Indices: 59045--59069 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59035 TTTTACCATG
59045 TATCGATACAATA
1 TATCGATACAATA
59058 TATCGATACAAT
1 TATCGATACAAT
59070 GTCCCATGTA
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:67612 original size:23 final size:23
Alignment explanation
Indices: 67568--67612 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
67558 AAGTAAATAA
*
67568 TTTTATAAATTTTAATCTTTTAT
1 TTTTATAAATTTTAATCATTTAT
*
67591 TTTTATCAAA-TTTATTCATTTA
1 TTTTAT-AAATTTTAATCATTTA
67613 AAGAAATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTATAAATTTTAATCATTTAT
Found at i:78903 original size:9 final size:9
Alignment explanation
Indices: 78889--78926 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
78879 ATTAAACAAA
78889 AAAAAAAAG
1 AAAAAAAAG
*
78898 AAAAAAAGG
1 AAAAAAAAG
78907 AAAAAAAAG
1 AAAAAAAAG
*
78916 AAAGAAAAG
1 AAAAAAAAG
78925 AA
1 AA
78927 GAAATTGTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:78910 original size:18 final size:19
Alignment explanation
Indices: 78889--78924 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
78879 ATTAAACAAA
78889 AAAAAAAAGAAA-AAAAGG
1 AAAAAAAAGAAAGAAAAGG
78907 AAAAAAAAGAAAGAAAAG
1 AAAAAAAAGAAAGAAAAG
78925 AAGAAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAAAAAAGAAAGAAAAGG
Found at i:81472 original size:3 final size:3
Alignment explanation
Indices: 81464--81504 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
81454 AATTTGATAC
*
81464 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
81505 ACATAGGACT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:83950 original size:18 final size:18
Alignment explanation
Indices: 83927--83962 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
83917 ATGATCCTGA
83927 ATATTTGAGAACGAAAAT
1 ATATTTGAGAACGAAAAT
83945 ATATTTGAGAACGAAAAT
1 ATATTTGAGAACGAAAAT
83963 GTAGCAGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.28
Consensus pattern (18 bp):
ATATTTGAGAACGAAAAT
Found at i:84124 original size:16 final size:15
Alignment explanation
Indices: 84105--84142 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
84095 ATCCGAAAAG
*
84105 AAATAATTTTGTTTTT
1 AAATAATTTT-TTATT
84121 AAATAATTTTTTATT
1 AAATAATTTTTTATT
84136 AAA-AATT
1 AAATAATT
84143 GAAATTATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.19
15 7 0.33
16 10 0.48
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
AAATAATTTTTTATT
Found at i:84947 original size:167 final size:164
Alignment explanation
Indices: 84689--85146 Score: 498
Period size: 166 Copynumber: 2.8 Consensus size: 164
84679 TTTTGAAATT
* * * *
84689 TTTTC-TATTTCT-AAAATACAGAGTTTTCTTCTCCGTAAAT-TTTTTCGAAGGATTTTCACTGG
1 TTTTCTTATTTCTGAAAA-ACAGAGTTTTCTACTCCATAAATATTTTTCGGA-GATTTTC-TTGG
* * *
84751 TTTATAAATTTTAAAATTCATCAAATATTATTATTTGATTTATATTAAATTAGTTTTGAAAAATT
63 TTTATAATTTTTAAAATTCATCAAATATTATTATTTGATTTACATTAAATCAGTTTTGAAAAATT
* * *
84816 CATTCATTTTCATGAGTTTTGAATGTTTTCCTTGACA
128 CATTCATTTTCATGAATTTTGAATGTTTTCCTTAAAA
* * *
84853 -TTTCTAATATTTCTGAAAAACGGAGTTTTCTACTCCATAAATATTTTTGGGATGATTTTTCTTA
1 TTTTCT--TATTTCTGAAAAACAGAGTTTTCTACTCCATAAATATTTTTCGGA-GA-TTTTCTTG
* * *
84917 GTTTATAATTTTTAAAATTTATCAAATATTATCATTTGATTCACATTAAATCAGTTTTGAAAAAT
62 GTTTATAATTTTTAAAATTCATCAAATATTATTATTTGATTTACATTAAATCAGTTTTGAAAAAT
* * *
84982 TTATTCATTTTCATGAATTTTGAATTTTTTCTTTAAAA
127 TCATTCATTTTCATGAATTTTGAATGTTTTCCTTAAAA
* * * * *
85020 TTTTCTTGTTTTTGAAAAACCA-AGTTTTCTATTCTATAAATA-TTTTCAGAGAGCTTTTCTTCG
1 TTTTCTTATTTCTGAAAAA-CAGAGTTTTCTACTCCATAAATATTTTTC-G-GAGATTTTCTT-G
* ** * *
85083 GTTTAAAATTTTTAAAATTCAT-ATAATATTATTATTAAATTTCCATTAAATCAGTTTTGTAAAA
62 GTTTATAATTTTTAAAATTCATCA-AATATTATTATTTGATTTACATTAAATCAGTTTTGAAAAA
85147 CTCAATTTAT
Statistics
Matches: 246, Mismatches: 36, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
163 4 0.02
165 12 0.05
166 112 0.46
167 108 0.44
168 10 0.04
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (164 bp):
TTTTCTTATTTCTGAAAAACAGAGTTTTCTACTCCATAAATATTTTTCGGAGATTTTCTTGGTTT
ATAATTTTTAAAATTCATCAAATATTATTATTTGATTTACATTAAATCAGTTTTGAAAAATTCAT
TCATTTTCATGAATTTTGAATGTTTTCCTTAAAA
Found at i:85132 original size:166 final size:166
Alignment explanation
Indices: 84748--85146 Score: 468
Period size: 167 Copynumber: 2.4 Consensus size: 166
84738 GGATTTTCAC
** *
84748 TGGTTTATAAA-TTTTAAAATTCATCAAATATTATTATTTGATTTATATTAAATTAGTTTTGAAA
1 TGGTTTA-AAATTTTTAAAATTCATCAAATATTATTATTTGATTTCCATTAAATCAGTTTTGAAA
* * * **
84812 AATTCATTCATTTTCATGAGTTTTGAATGTTTTCCTTGACATTTCTAATATTTCTGAAAAACGGA
65 AATTCATTCATTTTCATGAATTTTGAATGTTTTCCTTAAAATTTCT-ATATTTCTGAAAAACCAA
* * *
84877 GTTTTCTACTCCATAAATATTTTTGGGATGATTTTTCT
129 GTTTTCTACTCCATAAATATTTTAGAGATGACTTTTCT
* * * *
84915 TAGTTTATAATTTTTAAAATTTATCAAATATTATCATTTGA-TTCACATTAAATCAGTTTTGAAA
1 TGGTTTAAAATTTTTAAAATTCATCAAATATTATTATTTGATTTC-CATTAAATCAGTTTTGAAA
* * * * *
84979 AATTTATTCATTTTCATGAATTTTGAATTTTTTCTTTAAAATTTTCT-TGTTTTTGAAAAACCAA
65 AATTCATTCATTTTCATGAATTTTGAATGTTTTCCTTAAAA-TTTCTATATTTCTGAAAAACCAA
* *
85043 GTTTTCTATTCTATAAATATTTTCAGAGA-G-CTTTTCT
129 GTTTTCTACTCCATAAATATTTT-AGAGATGACTTTTCT
** *
85080 TCGGTTTAAAATTTTTAAAATTCAT-ATAATATTATTATTAAATTTCCATTAAATCAGTTTTGTA
1 T-GGTTTAAAATTTTTAAAATTCATCA-AATATTATTATTTGATTTCCATTAAATCAGTTTTGAA
85144 AAA
64 AAA
85147 CTCAATTTAT
Statistics
Matches: 196, Mismatches: 29, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
165 8 0.04
166 91 0.46
167 92 0.47
168 5 0.03
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (166 bp):
TGGTTTAAAATTTTTAAAATTCATCAAATATTATTATTTGATTTCCATTAAATCAGTTTTGAAAA
ATTCATTCATTTTCATGAATTTTGAATGTTTTCCTTAAAATTTCTATATTTCTGAAAAACCAAGT
TTTCTACTCCATAAATATTTTAGAGATGACTTTTCT
Found at i:85521 original size:24 final size:26
Alignment explanation
Indices: 85471--85522 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 26
85461 AAATTCAATT
*
85471 AAAAGTAAAAATATCATGATGAAAAA
1 AAAAGTAAAAATATCATGATAAAAAA
*
85497 AAAAG-AAAAA-ATCATGA-AAATAA
1 AAAAGTAAAAATATCATGATAAAAAA
85520 AAA
1 AAA
85523 GCAACATTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.29
24 7 0.29
25 5 0.21
26 5 0.21
ACGTcount: A:0.71, C:0.04, G:0.10, T:0.15
Consensus pattern (26 bp):
AAAAGTAAAAATATCATGATAAAAAA
Found at i:87003 original size:165 final size:163
Alignment explanation
Indices: 86425--87025 Score: 640
Period size: 165 Copynumber: 3.6 Consensus size: 163
86415 ATTTTTAAAG
* * * * *
86425 ATTTCTATTATTCCTATGGCATTCTGTAGGGGTATAAAAAATTTTAAAACTTTTCGTACCCTCTC
1 ATTTCTATTATTCCTATGGCCTTCTGTAAGGGTAT-AAAAATTTTAAAACTCTTCATATCCTCTC
* *
86490 GGTTTTCTGTCGGGTATGAAATAAAATTTTCAAAAGTTTAAGGACTAAATAGCAAATTTAGTTTT
65 GGTTTTCTATCGGGTATGAAATGAAATTTTCAAAAGTTTAA-GACTAAATAGCAAATTTAG-TTT
* *
86555 TAGAAG-AAAATAGCAATCTTATTCATCATTTTCTTTAA
128 TAGAAGAAAAATATC-ATCTTAGTCATC--TTTCTTTAA
* * * * *
86593 ATTTCTATTATTTCCTATGGTCTTTTGTAGGGGTGTAGAAAATTTTAAAACTCTTCATATCCTTT
1 ATTTCTATTA-TTCCTATGGCCTTCTGTAAGGGTATA-AAAATTTTAAAACTCTTCATATCCTCT
* * *
86658 CGGTTTT-TCATCAGGTATGAAATGTAATTTTCAAAAGTTTAAAGACTAAATAGCAAACTTAGTT
64 CGGTTTTCT-ATCGGGTATGAAATGAAATTTTCAAAAGTTT-AAGACTAAATAGCAAATTTAGTT
*** * *
86722 TTTTTA-AAAAATAGTTATCTTAGTTAT-TTTCTTTAA
127 TTAGAAGAAAAATA-TCATCTTAGTCATCTTTCTTTAA
* * * *
86758 ATTTATATTATTCCTATGGTCTTCTATAAGGGTGTAAAAATTTTTAAAACTCTTCATATCCTCTC
1 ATTTCTATTATTCCTATGGCCTTCTGTAAGGGTATAAAAA-TTTTAAAACTCTTCATATCCTCTC
* * * *
86823 GGTTCTCTGTTGGGTATGAAATGAAATTTTCAAAAGTTTAAGACTAAATAGCAAATTTGGATTTT
65 GGTTTTCTATCGGGTATGAAATGAAATTTTCAAAAGTTTAAGACTAAATAGCAAATTTAG-TTTT
*
86888 AGAAGAAAAATCATCATCTTAGTCATCTTT-TTTAG
129 AGAAGAAAAAT-ATCATCTTAGTCATCTTTCTTTAA
* * * * * * *
86923 ATTTCTATCATTCCTATGGCCTTCCGTAAGGATATAAAAATTCTTAAAACTTTTCATATCATTTT
1 ATTTCTATTATTCCTATGGCCTTCTGTAAGGGTATAAAAATT-TTAAAACTCTTCATATCCTCTC
* * * *
86988 GATTTTCTATTGGGTATAAAATGTAA-TTTCAAAA-TTTA
65 GGTTTTCTATCGGGTATGAAATGAAATTTTCAAAAGTTTA
87026 TGGACTTAAT
Statistics
Matches: 366, Mismatches: 54, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
163 27 0.07
164 93 0.25
165 112 0.31
166 4 0.01
168 32 0.09
169 96 0.26
170 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (163 bp):
ATTTCTATTATTCCTATGGCCTTCTGTAAGGGTATAAAAATTTTAAAACTCTTCATATCCTCTCG
GTTTTCTATCGGGTATGAAATGAAATTTTCAAAAGTTTAAGACTAAATAGCAAATTTAGTTTTAG
AAGAAAAATATCATCTTAGTCATCTTTCTTTAA
Found at i:90008 original size:19 final size:19
Alignment explanation
Indices: 89984--90021 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
89974 CGTGGATTTT
*
89984 CAAAAAAACAAAACACAAA
1 CAAAAAAACAAAAAACAAA
*
90003 CAAAAAAATAAAAAACAAA
1 CAAAAAAACAAAAAACAAA
90022 AATAATACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.82, C:0.16, G:0.00, T:0.03
Consensus pattern (19 bp):
CAAAAAAACAAAAAACAAA
Found at i:90031 original size:26 final size:27
Alignment explanation
Indices: 89986--90037 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
89976 TGGATTTTCA
89986 AAAAAACAAAACACAAACAA-AAAAAT
1 AAAAAACAAAACACAAACAAGAAAAAT
*
90012 AAAAAACAAAA-ATAATACAAGAAAAA
1 AAAAAACAAAACACAA-ACAAGAAAAA
90038 AAAGGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 3 0.13
26 15 0.65
27 5 0.22
ACGTcount: A:0.81, C:0.12, G:0.02, T:0.06
Consensus pattern (27 bp):
AAAAAACAAAACACAAACAAGAAAAAT
Found at i:90415 original size:24 final size:25
Alignment explanation
Indices: 90388--90437 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
90378 CCCTTTAAAT
*
90388 AAGAAATAGA-AAAACAAAAAAAAA
1 AAGAAAGAGACAAAACAAAAAAAAA
**
90412 AAGAAAGAGACAAAATGAAAAAAAA
1 AAGAAAGAGACAAAACAAAAAAAAA
90437 A
1 A
90438 GGGAAAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.80, C:0.04, G:0.12, T:0.04
Consensus pattern (25 bp):
AAGAAAGAGACAAAACAAAAAAAAA
Found at i:90446 original size:20 final size:21
Alignment explanation
Indices: 90408--90446 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
90398 AAAACAAAAA
*
90408 AAAAAAGAAAGAGACAAAATG
1 AAAAAAGAAAGAGAAAAAATG
*
90429 AAAAAA-AAAGGGAAAAAA
1 AAAAAAGAAAGAGAAAAAA
90447 GCATAAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.77, C:0.03, G:0.18, T:0.03
Consensus pattern (21 bp):
AAAAAAGAAAGAGAAAAAATG
Found at i:92716 original size:92 final size:93
Alignment explanation
Indices: 92520--92720 Score: 228
Period size: 92 Copynumber: 2.2 Consensus size: 93
92510 AACCACCTAT
* * * * *
92520 ATATTCCTAATCATA-CCCTCTTTATTCAACCACTAGATAGTATTGATGCATCACAAAACCTTAT
1 ATATTCCTAATCATATCCCTCTTCATCCAACCACTAAATAGTATTAATGCATCACAAAACCTGAT
*
92584 TTCTTTAGGGCAAGGATATCTTGACCAC
66 TTCCTTAGGGCAAGGATATCTTGACCAC
* ** * *
92612 ACATTTTTAATCATATCCC-CTTCATCCAACCACTAAAT-GATATTAATGCATCATAAAGCCTGA
1 ATATTCCTAATCATATCCCTCTTCATCCAACCACTAAATAG-TATTAATGCATCACAAAACCTGA
* * *
92675 TTTCCTTAGGGCAAGGGTATTTTGACTAC
65 TTTCCTTAGGGCAAGGATATCTTGACCAC
* *
92704 TTATTCCCAATCATATC
1 ATATTCCTAATCATATC
92721 TCTTTTTTTT
Statistics
Matches: 88, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
91 1 0.01
92 84 0.95
93 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (93 bp):
ATATTCCTAATCATATCCCTCTTCATCCAACCACTAAATAGTATTAATGCATCACAAAACCTGAT
TTCCTTAGGGCAAGGATATCTTGACCAC
Found at i:93236 original size:35 final size:35
Alignment explanation
Indices: 93190--93464 Score: 356
Period size: 35 Copynumber: 7.9 Consensus size: 35
93180 TTGATTGTTT
* * *
93190 AAACTTTTTTCATCATCGTTTGACTATATCTGGTC
1 AAACTCTTTTCATCATCGTTTGACTGTATTTGGTC
* * *
93225 AAACTCTTTTCATCATCATTTGGCTGTATCTGGTC
1 AAACTCTTTTCATCATCGTTTGACTGTATTTGGTC
* *
93260 AAACTCTTTTCATCATCGTTTGGCCGTATTTGGTC
1 AAACTCTTTTCATCATCGTTTGACTGTATTTGGTC
* *
93295 AAACTTTTTTCACCATCGTTTGACTGTATTTGGTC
1 AAACTCTTTTCATCATCGTTTGACTGTATTTGGTC
*
93330 AAACCCTTTTCATCATCGTTTGACTGTATTTGGTC
1 AAACTCTTTTCATCATCGTTTGACTGTATTTGGTC
* * * *
93365 AAACCCTTTTCATTATCATTTGACTATATTTGGTC
1 AAACTCTTTTCATCATCGTTTGACTGTATTTGGTC
* *
93400 AAACTCTTTTCATCATCGTTTGACTGCATATGGTC
1 AAACTCTTTTCATCATCGTTTGACTGTATTTGGTC
*
93435 AAAAC-CTTTTCATTC-TCATTTGACTGTATT
1 -AAACTCTTTTCA-TCATCGTTTGACTGTATT
93465 GGTTTCACCC
Statistics
Matches: 212, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
35 206 0.97
36 6 0.03
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.44
Consensus pattern (35 bp):
AAACTCTTTTCATCATCGTTTGACTGTATTTGGTC
Found at i:93642 original size:42 final size:41
Alignment explanation
Indices: 93596--93727 Score: 115
Period size: 43 Copynumber: 3.1 Consensus size: 41
93586 GTTGGTTCAA
93596 TCCCGATCAACTTTTTTATCCTTTATTTACTTATCGACTTAG
1 TCCCGATCAACTTTTTTATCCTTT-TTTACTTATCGACTTAG
* * * * * *
93638 TCCCGAGT-AAATCTTTTTATCCTTTGTTGATTTGTTGACTTAA
1 TCCCGA-TCAACT-TTTTTATCCTTT-TTTACTTATCGACTTAG
* * *
93681 CCCCGATCAACTTTTCTATCCCTTTTTTACCTATCAGA-TTAG
1 TCCCGATCAACTTTTTTAT-CCTTTTTTACTTATC-GACTTAG
93723 TCCCG
1 TCCCG
93728 GGTAACTTCT
Statistics
Matches: 68, Mismatches: 17, Indels: 10
0.72 0.18 0.11
Matches are distributed among these distances:
42 28 0.41
43 40 0.59
ACGTcount: A:0.20, C:0.25, G:0.10, T:0.45
Consensus pattern (41 bp):
TCCCGATCAACTTTTTTATCCTTTTTTACTTATCGACTTAG
Found at i:93648 original size:85 final size:85
Alignment explanation
Indices: 93504--93753 Score: 269
Period size: 85 Copynumber: 2.9 Consensus size: 85
93494 TCGACTTGTC
* * * * * * * *
93504 GGTTCATTCTCGAGCAACCTTTTTATCTTTTATTTACCTATAGGCTTAGT-CCTAGGTAAATCTT
1 GGTTCAATCCCGATCAACTTTTTTATCCTTTATTTACCTATCGACTTAGTCCCGA-GTAAATCTT
93568 TTTATCCTTTGTTGACTCGTT
65 TTTATCCTTTGTTGACTCGTT
*
93589 GGTTCAATCCCGATCAACTTTTTTATCCTTTATTTACTTATCGACTTAGTCCCGAGTAAATCTTT
1 GGTTCAATCCCGATCAACTTTTTTATCCTTTATTTACCTATCGACTTAGTCCCGAGTAAATCTTT
* *
93654 TTATCCTTTGTTGATTTGTT
66 TTATCCTTTGTTGACTCGTT
* * * *
93674 GACTT-AACCCCGATCAACTTTTCTATCCCTTT-TTTACCTATCAGA-TTAGTCCCGGGT-AA-C
1 G-GTTCAATCCCGATCAACTTTTTTAT-CCTTTATTTACCTATC-GACTTAGTCCCGAGTAAATC
93734 TTCTTTCATCCTTTGTTGAC
63 TT-TTT-ATCCTTTGTTGAC
93754 CTAACTGCCT
Statistics
Matches: 142, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
83 3 0.02
84 5 0.04
85 122 0.86
86 12 0.08
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.45
Consensus pattern (85 bp):
GGTTCAATCCCGATCAACTTTTTTATCCTTTATTTACCTATCGACTTAGTCCCGAGTAAATCTTT
TTATCCTTTGTTGACTCGTT
Found at i:93661 original size:43 final size:42
Alignment explanation
Indices: 93522--93662 Score: 108
Period size: 43 Copynumber: 3.3 Consensus size: 42
93512 CTCGAGCAAC
* * *
93522 CTTTTTATCTTTTATTTACCTATAGGCTTAGT-CCTAGGTAAAT
1 CTTTTTATCCTTTATTTACTTATA-GCTTAGTCCCGA-GTAAAT
* * ** * * * *
93565 CTTTTTATCCTTTGTTGACTCGTTGGTTCAATCCCGA-TCAA-
1 CTTTTTATCCTTTATTTACTTATAGCTT-AGTCCCGAGTAAAT
*
93606 CTTTTTTATCCTTTATTTACTTATCGACTTAGTCCCGAGTAAAT
1 C-TTTTTATCCTTTATTTACTTATAG-CTTAGTCCCGAGTAAAT
93650 CTTTTTATCCTTT
1 CTTTTTATCCTTT
93663 GTTGATTTGT
Statistics
Matches: 73, Mismatches: 19, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
41 1 0.01
42 32 0.44
43 36 0.49
44 4 0.05
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.49
Consensus pattern (42 bp):
CTTTTTATCCTTTATTTACTTATAGCTTAGTCCCGAGTAAAT
Found at i:93678 original size:43 final size:43
Alignment explanation
Indices: 93559--93686 Score: 127
Period size: 43 Copynumber: 3.0 Consensus size: 43
93549 TTAGTCCTAG
* *
93559 GTAAATCTTTTTATCCTTTGTTGACTCGTTG-GTTCAATCCCGA
1 GTAAATCTTTTTATCCTTTGTTGACTTGTTGACTT-AATCCCGA
* * * * * *
93602 -TCAA-CTTTTTTATCCTTTATTTACTTATCGACTTAGTCCCGA
1 GTAAATC-TTTTTATCCTTTGTTGACTTGTTGACTTAATCCCGA
* *
93644 GTAAATCTTTTTATCCTTTGTTGATTTGTTGACTTAACCCCGA
1 GTAAATCTTTTTATCCTTTGTTGACTTGTTGACTTAATCCCGA
93687 TCAACTTTTC
Statistics
Matches: 65, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
41 1 0.02
42 29 0.45
43 34 0.52
44 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.12, T:0.46
Consensus pattern (43 bp):
GTAAATCTTTTTATCCTTTGTTGACTTGTTGACTTAATCCCGA
Found at i:96937 original size:165 final size:167
Alignment explanation
Indices: 96587--96981 Score: 537
Period size: 167 Copynumber: 2.4 Consensus size: 167
96577 TTTTCTGTCG
*
96587 AGTATGAAATGAAATTTTCAAAAGTTTAGGGGCTATATAGCAAATTTAGTTTTTAGAAGAAAAAA
1 AGTATGAAATGAAATTTTCAAAAGTTTAGGGACTATATAGCAAATTTAGTTTTTAGAAGAAAAAA
* * *
96652 GCTATCTTAGTCCATTTTGTTTAAATTTTTATTATTCCTATGGTTTCCCGTAAAGGGTGTAAAAA
66 GCTATCTTAGTCCATTTTCTTTAAATTTCTATTATTCCTATGGTTTCCCATAAAGGGTGTAAAAA
* * *
96717 TTTTTAAGACTCTTCATATCCTCTCGGTTCTACGTTG
131 TTTTTAAAACTCTTCATATCCTCTCGGTTCTACCTTA
* * * * * *
96754 GGTATGAAACGAAATTTTCAAACGTTTAGGGACTAAATAGCAAACTTAGTTTTTAGAAGAAAATA
1 AGTATGAAATGAAATTTTCAAAAGTTTAGGGACTATATAGCAAATTTAGTTTTTAGAAGAAAAAA
* * * ** *
96819 GCTATTTTAGT-CATTTTCTTTAAATTTCTATTATTCCTATGGTTTTCCAT-AGGGGTGTGGAAG
66 GCTATCTTAGTCCATTTTCTTTAAATTTCTATTATTCCTATGGTTTCCCATAAAGGGTGTAAAAA
*
96882 TTTTTAAAACTCTTCATATTCTCTCGGTTCT-CCTTCA
131 TTTTTAAAACTCTTCATATCCTCTCGGTTCTACCTT-A
** * *
96919 AGTATGAAATGAAATTTTCAAAAGTTTA-TAACTATATAGCAAATTTGGATTTTAGAAGAAAAA
1 AGTATGAAATGAAATTTTCAAAAGTTTAGGGACTATATAGCAAATTTAGTTTTTAGAAGAAAAA
96982 TCATCATCTT
Statistics
Matches: 197, Mismatches: 30, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
164 31 0.16
165 63 0.32
166 35 0.18
167 68 0.35
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (167 bp):
AGTATGAAATGAAATTTTCAAAAGTTTAGGGACTATATAGCAAATTTAGTTTTTAGAAGAAAAAA
GCTATCTTAGTCCATTTTCTTTAAATTTCTATTATTCCTATGGTTTCCCATAAAGGGTGTAAAAA
TTTTTAAAACTCTTCATATCCTCTCGGTTCTACCTTA
Found at i:97479 original size:156 final size:154
Alignment explanation
Indices: 97182--97884 Score: 509
Period size: 156 Copynumber: 4.5 Consensus size: 154
97172 TAAAAATCAT
* * * **
97182 TATTACTTATCATTTTAGTGTCCACTAGGGTTACTAGGATA-TTTCCATGTCGAAAG-CATACCC
1 TATTACTTATCATTTTAGTGTCCACTAGGGTTAC-CGGATACTTT-TATGTC-AAAGATATATTC
* * * ** * * *** ** * *
97245 TTAGAGGCATTTTCATAATTTTTTAGAACCGAGTCCTAAGCTGTCATTGAGTTCTCTTTTATGCC
63 ATAGGGGTATTTTTGTAA-TTTTCAAAATAAAGTCCTAAGCTGTCACCGAGTCCGCTTTTATGCC
**
97310 AAAGATGAATATTTAGGATAGGTTCATCC
127 AAAG-TGGGTATTTAGGATAGGTTCATCC
* * *
97339 TATTCCTTATCATTGTAGTGTCCACTAGGGTTACCTGGATACTTTTTTGTC-AAGATATATTCAT
1 TATTACTTATCATTTTAGTGTCCACTAGGGTTACC-GGATACTTTTATGTCAAAGATATATTCAT
97403 AGGGGTATTTTTGTAATTTTCCAAAATAAAGTCCTAAGCTGTCACCGAGTCCGCTTTTATGCCAA
65 AGGGGTATTTTTGTAATTTT-CAAAATAAAGTCCTAAGCTGTCACCGAGTCCGCTTTTATGCCAA
97468 ATGTGGGTATTTAGGATAGGTTCATCC
129 A-GTGGGTATTTAGGATAGGTTCATCC
* * * * * *
97495 TAGTACTTATCATTTTAGTATCCACTATGGTCACCGGAATACTTTCATGTCAAAAATATACTT-A
1 TATTACTTATCATTTTAGTGTCCACTAGGGTTACCGG-ATACTTTTATGTCAAAGATATA-TTCA
* ** * * * * * * ** *
97559 TATGGGTATTTTCATAATTTT-TAGATATGAGTCCTAAGTTGTCATCGGGTTTGCTTTTATGTCA
64 TAGGGGTATTTTTGTAATTTTCAAAATA-AAGTCCTAAGCTGTCACCGAGTCCGCTTTTATGCCA
97623 AA---GG----TAGGATAGGTTCATCC
128 AAGTGGGTATTTAGGATAGGTTCATCC
* * * * * *
97643 TCTTACTTATCATTTTAGTGTCCACTAAGGTTACCGGGATA-TTTTCGTATCAAAGATACA-CCT
1 TATTACTTATCATTTTAGTGTCCACTAGGGTTACC-GGATACTTTT-ATGTCAAAGATATATTC-
* * * * * * * * *
97706 ATTGGGGCATTTTTGTAATTTTCTATAACT-AAGTCCTAGGTTGTCACTGGGTCTGTTTTTATGC
63 ATAGGGGTATTTTTGTAATTTTC-A-AAATAAAGTCCTAAGCTGTCACCGAGTCCGCTTTTATGC
* *
97770 CAATGGTGGGTATTTAGGATAGATTCATCC
126 CAA-AGTGGGTATTTAGGATAGGTTCATCC
* * * * * * **
97800 TATTACTTATCTTTTTATTGTCCATTAGGGTTACCGAGATACTTTCATGTCGAAGGTATACCCAT
1 TATTACTTATCATTTTAGTGTCCACTAGGGTTACCG-GATACTTTTATGTCAAAGATATATTCAT
* **
97865 AAGGGTATTTTCATAATTTT
65 AGGGGTATTTTTGTAATTTT
97885 TTCAGAATCG
Statistics
Matches: 430, Mismatches: 89, Indels: 54
0.75 0.16 0.09
Matches are distributed among these distances:
147 3 0.01
148 76 0.18
149 32 0.07
151 2 0.00
152 2 0.00
153 2 0.00
155 13 0.03
156 147 0.34
157 143 0.33
158 10 0.02
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.40
Consensus pattern (154 bp):
TATTACTTATCATTTTAGTGTCCACTAGGGTTACCGGATACTTTTATGTCAAAGATATATTCATA
GGGGTATTTTTGTAATTTTCAAAATAAAGTCCTAAGCTGTCACCGAGTCCGCTTTTATGCCAAAG
TGGGTATTTAGGATAGGTTCATCC
Found at i:97785 original size:305 final size:306
Alignment explanation
Indices: 97185--97932 Score: 795
Period size: 305 Copynumber: 2.4 Consensus size: 306
97175 AAATCATTAT
* * * * ** *
97185 TACTTATCATTTTAGTGTCCACTAGGGTTA-CTAGGATA-TTTCCATGTCGAAAGCATACCC-TT
1 TACTTATCATTTTAGTATCCACTAGGGTCACCGA-GATACTTT-CATGTCAAAAATATACCCATA
* * * * *
97247 AGAGGCATTTTCATAATTTTTT-AGAACCGAGTCCTAAGCTGTCAT-TGAGTTCTCTTTTATGCC
64 AG-GGTATTTTCATAATTTTTTCAGAATCGAGTCCTAAGTTGTCATCAG-GTTCTCTTTTATGTC
* * *
97310 AAAGATGAATATTTAGGATAGGTTCATCCTATTCCTTATCATTGTAGTGTCCACTAGGGTTACCT
127 AAAG--G------TAGGATAGGTTCATCCTATTACTTATCATTGTAGTGTCCACTAAGGTTACCG
* * * * *
97375 GGATACTTTTTTGTCAAGATATATTCATAGGGGTATTTTTGTAATTTTCCAAAATAAAGTCCTAA
184 GGATACTTTTGTATCAAGATACACTCATAGGGGCATTTTTGTAATTTTCCAAAATAAAGTCCTAA
*
97440 GCTGTCACCGAGTCCGCTTTTATGCCAAATGTGGGTATTTAGGATAGGTTCATCCTAG
249 GCTGTCACCGAGTCCGCTTTTATGCCAAATGTGGGTATTTAGGATAGATTCATCCTAG
* ** *
97498 TACTTATCATTTTAGTATCCACTATGGTCACCG-GAATACTTTCATGTCAAAAATATACTTATAT
1 TACTTATCATTTTAGTATCCACTAGGGTCACCGAG-ATACTTTCATGTCAAAAATATACCCATAA
*
97562 GGGTATTTTCATAA-TTTTT-AGATAT-GAGTCCTAAGTTGTCATCGGGTT-TGCTTTTATGTCA
65 GGGTATTTTCATAATTTTTTCAGA-ATCGAGTCCTAAGTTGTCATCAGGTTCT-CTTTTATGTCA
* *
97623 AAGGTAGGATAGGTTCATCCTCTTACTTATCATTTTAGTGTCCACTAAGGTTACCGGGATA-TTT
128 AAGGTAGGATAGGTTCATCCTATTACTTATCATTGTAGTGTCCACTAAGGTTACCGGGATACTTT
* * * * *
97687 TCGTATCAAAGATACAC-CTATTGGGGCATTTTTGTAATTTTCTATAACT-AAGTCCTAGGTTGT
193 T-GTATC-AAGATACACTC-ATAGGGGCATTTTTGTAATTTTCCA-AAATAAAGTCCTAAGCTGT
* * * * *
97750 CACTGGGTCTGTTTTTATGCC-AATGGTGGGTATTTAGGATAGATTCATCCTAT
254 CACCGAGTCCGCTTTTATGCCAAAT-GTGGGTATTTAGGATAGATTCATCCTAG
* * * * * * **
97803 TACTTATCTTTTTATTGTCCATTAGGGTTACCGAGATACTTTCATGTCGAAGGTATACCCATAAG
1 TACTTATCATTTTAGTATCCACTAGGGTCACCGAGATACTTTCATGTCAAAAATATACCCATAAG
*
97868 GGTATTTTCATAATTTTTTCAGAATCGAGTCCTAGGTTGTCATCAGGTTCTCTTTTATGTCAAAG
66 GGTATTTTCATAATTTTTTCAGAATCGAGTCCTAAGTTGTCATCAGGTTCTCTTTTATGTCAAAG
97933 CTGGGCATTT
Statistics
Matches: 367, Mismatches: 51, Indels: 40
0.80 0.11 0.09
Matches are distributed among these distances:
303 4 0.01
304 59 0.16
305 148 0.40
306 11 0.03
307 38 0.10
308 1 0.00
310 1 0.00
311 1 0.00
312 41 0.11
313 57 0.16
314 6 0.02
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (306 bp):
TACTTATCATTTTAGTATCCACTAGGGTCACCGAGATACTTTCATGTCAAAAATATACCCATAAG
GGTATTTTCATAATTTTTTCAGAATCGAGTCCTAAGTTGTCATCAGGTTCTCTTTTATGTCAAAG
GTAGGATAGGTTCATCCTATTACTTATCATTGTAGTGTCCACTAAGGTTACCGGGATACTTTTGT
ATCAAGATACACTCATAGGGGCATTTTTGTAATTTTCCAAAATAAAGTCCTAAGCTGTCACCGAG
TCCGCTTTTATGCCAAATGTGGGTATTTAGGATAGATTCATCCTAG
Found at i:97809 original size:157 final size:156
Alignment explanation
Indices: 97182--97884 Score: 603
Period size: 157 Copynumber: 4.5 Consensus size: 156
97172 TAAAAATCAT
** *
97182 TATTACTTATCATTTTAGTGTCCACTAGGGTTACTAGGATATTTCCATGTCGAAAGCATAC-CCT
1 TATTACTTATCATTTTAGTGTCCACTAGGGTTACCGGGATATTTTCATGTC-AAAG-ATACACCT
* * ** * *
97246 -TAGAGGCATTTTCATAATTTTTTAGAACCGAGTCCTAAGCTGTCATTGAGTTCT-CTTTTATGC
64 ATAGGGGCATTTTCATAATTTTCTAGAACTAAGTCCTAAGCTGTCACTG-GGTCTGCTTTTATGC
* **
97309 CAAAGATGAATATTTAGGATAGGTTCATCC
128 CAATG-TGGGTATTTAGGATAGGTTCATCC
* * * * * *
97339 TATTCCTTATCATTGTAGTGTCCACTAGGGTTACCTGGATACTTTT-TTGTC-AAGATATA-TTC
1 TATTACTTATCATTTTAGTGTCCACTAGGGTTACCGGGATA-TTTTCATGTCAAAGATACACCT-
* ** * * * * *
97401 ATAGGGGTATTTTTGTAATTTTCCA-AAATAAAGTCCTAAGCTGTCACCGAGTCCGCTTTTATGC
64 ATAGGGGCATTTTCATAATTTTCTAGAACT-AAGTCCTAAGCTGTCACTGGGTCTGCTTTTATGC
97465 CAAATGTGGGTATTTAGGATAGGTTCATCC
128 C-AATGTGGGTATTTAGGATAGGTTCATCC
* * * * * * * * *
97495 TAGTACTTATCATTTTAGTATCCACTATGGTCACCGGAATACTTTCATGTCAAAAATATACTTAT
1 TATTACTTATCATTTTAGTGTCCACTAGGGTTACCGGGATATTTTCATGTCAAAGATACACCTAT
* * * * * *
97560 ATGGGTATTTTCATAATTTT-TAGATA-TGAGTCCTAAGTTGTCA-TCGGGTTTGCTTTTATGTC
66 AGGGGCATTTTCATAATTTTCTAGA-ACTAAGTCCTAAGCTGTCACT-GGGTCTGCTTTTATGCC
*
97622 AA---AGG----TAGGATAGGTTCATCC
129 AATGTGGGTATTTAGGATAGGTTCATCC
* * * *
97643 TCTTACTTATCATTTTAGTGTCCACTAAGGTTACCGGGATATTTTCGTATCAAAGATACACCTAT
1 TATTACTTATCATTTTAGTGTCCACTAGGGTTACCGGGATATTTTCATGTCAAAGATACACCTAT
* ** * * * *
97708 TGGGGCATTTTTGTAATTTTCTATAACTAAGTCCTAGGTTGTCACTGGGTCTGTTTTTATGCCAA
66 AGGGGCATTTTCATAATTTTCTAGAACTAAGTCCTAAGCTGTCACTGGGTCTGCTTTTATGCCAA
*
97773 TGGTGGGTATTTAGGATAGATTCATCC
131 T-GTGGGTATTTAGGATAGGTTCATCC
* * * * * * * * *
97800 TATTACTTATCTTTTTATTGTCCATTAGGGTTACCGAGATACTTTCATGTCGAAGGTATACCCAT
1 TATTACTTATCATTTTAGTGTCCACTAGGGTTACCGGGATATTTTCATGTCAAAGATACACCTAT
* *
97865 AAGGGTATTTTCATAATTTT
66 AGGGGCATTTTCATAATTTT
97885 TTCAGAATCG
Statistics
Matches: 431, Mismatches: 91, Indels: 48
0.76 0.16 0.08
Matches are distributed among these distances:
148 85 0.20
149 34 0.08
150 1 0.00
152 2 0.00
153 2 0.00
154 4 0.01
155 12 0.03
156 131 0.30
157 154 0.36
158 6 0.01
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.40
Consensus pattern (156 bp):
TATTACTTATCATTTTAGTGTCCACTAGGGTTACCGGGATATTTTCATGTCAAAGATACACCTAT
AGGGGCATTTTCATAATTTTCTAGAACTAAGTCCTAAGCTGTCACTGGGTCTGCTTTTATGCCAA
TGTGGGTATTTAGGATAGGTTCATCC
Found at i:99591 original size:2 final size:2
Alignment explanation
Indices: 99578--99614 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
99568 CTCAATTGTT
*
99578 TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
99615 TTATTTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:103898 original size:2 final size:2
Alignment explanation
Indices: 103891--103923 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
103881 TTGGAAGTAC
103891 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
103924 CACACACTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:105051 original size:13 final size:13
Alignment explanation
Indices: 105033--105058 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
105023 TACACAAAGT
105033 ATGTATCGATACA
1 ATGTATCGATACA
105046 ATGTATCGATACA
1 ATGTATCGATACA
105059 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:105056 original size:32 final size:33
Alignment explanation
Indices: 105015--105078 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
105005 TAGCCAAACT
**
105015 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
105047 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
105079 TTGGCTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:107568 original size:13 final size:13
Alignment explanation
Indices: 107550--107575 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107540 CAATTTTTTG
107550 TGTATCGATACAT
1 TGTATCGATACAT
107563 TGTATCGATACAT
1 TGTATCGATACAT
107576 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:110138 original size:13 final size:13
Alignment explanation
Indices: 110120--110184 Score: 130
Period size: 13 Copynumber: 5.0 Consensus size: 13
110110 ATAATCACCC
110120 TGTATCGATACAA
1 TGTATCGATACAA
110133 TGTATCGATACAA
1 TGTATCGATACAA
110146 TGTATCGATACAA
1 TGTATCGATACAA
110159 TGTATCGATACAA
1 TGTATCGATACAA
110172 TGTATCGATACAA
1 TGTATCGATACAA
110185 AGAAAAATGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 52 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:112282 original size:15 final size:15
Alignment explanation
Indices: 112262--112292 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
112252 ATTTCGTTTG
*
112262 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
112277 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
112292 G
1 G
112293 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:114125 original size:21 final size:21
Alignment explanation
Indices: 114096--114140 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
114086 AAGTTTTCAT
*
114096 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
114116 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
114138 TTT
1 TTT
114141 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:116375 original size:13 final size:13
Alignment explanation
Indices: 116357--116382 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
116347 CAATTTTTTG
116357 TGTATCGATACAT
1 TGTATCGATACAT
116370 TGTATCGATACAT
1 TGTATCGATACAT
116383 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:119345 original size:20 final size:21
Alignment explanation
Indices: 119320--119363 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
119310 AGTTTGTATA
119320 AACTTT-GTATTAAAGGGAAG
1 AACTTTCGTATTAAAGGGAAG
* *
119340 AACTTTCGTATTAAGGGGGAG
1 AACTTTCGTATTAAAGGGAAG
119361 AAC
1 AAC
119364 CTGCATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.27
Consensus pattern (21 bp):
AACTTTCGTATTAAAGGGAAG
Found at i:120426 original size:21 final size:21
Alignment explanation
Indices: 120400--120456 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
120390 ACATGTTGCA
120400 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
120421 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
120442 ATGTATCGATACATG
1 ATGTATCGATACATG
120457 TCATTGGGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.26
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:120523 original size:13 final size:13
Alignment explanation
Indices: 120505--120530 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
120495 TACACAAAGT
120505 ATGTATCGATACA
1 ATGTATCGATACA
120518 ATGTATCGATACA
1 ATGTATCGATACA
120531 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:120528 original size:32 final size:33
Alignment explanation
Indices: 120487--120550 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
120477 TAGCCAAACT
**
120487 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
120519 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
120551 TTGGCTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:122900 original size:63 final size:63
Alignment explanation
Indices: 122829--122957 Score: 231
Period size: 63 Copynumber: 2.0 Consensus size: 63
122819 CACATATAAG
* * *
122829 GGTGATTAGTAGAAATTAAAATGAGACTGGGTTTATTTACCTAATAAAAGTAAAAATTACTTA
1 GGTGATTAGTAAAAATTAAAATGAGACTAGGCTTATTTACCTAATAAAAGTAAAAATTACTTA
122892 GGTGATTAGTAAAAATTAAAATGAGACTAGGCTTATTTACCTAATAAAAGTAAAAATTACTTA
1 GGTGATTAGTAAAAATTAAAATGAGACTAGGCTTATTTACCTAATAAAAGTAAAAATTACTTA
122955 GGT
1 GGT
122958 CCAATTTAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (63 bp):
GGTGATTAGTAAAAATTAAAATGAGACTAGGCTTATTTACCTAATAAAAGTAAAAATTACTTA
Found at i:122948 original size:35 final size:34
Alignment explanation
Indices: 122846--122948 Score: 85
Period size: 35 Copynumber: 3.1 Consensus size: 34
122836 AGTAGAAATT
*
122846 AAAATGAGACTGGGTTTATTTACCTAATAAAAGTA
1 AAAATGAGACTAGG-TTATTTACCTAATAAAAGTA
* * * *
122881 AAAAT--TACTTAGGTGA-TTA-GT-A-AAAA-TT
1 AAAATGAGAC-TAGGTTATTTACCTAATAAAAGTA
122909 AAAATGAGACTAGGCTTATTTACCTAATAAAAGTA
1 AAAATGAGACTAGG-TTATTTACCTAATAAAAGTA
122944 AAAAT
1 AAAAT
122949 TACTTAGGTC
Statistics
Matches: 50, Mismatches: 9, Indels: 18
0.65 0.12 0.23
Matches are distributed among these distances:
28 6 0.12
29 8 0.16
30 5 0.10
31 4 0.08
32 4 0.08
33 5 0.10
34 7 0.14
35 11 0.22
ACGTcount: A:0.47, C:0.08, G:0.15, T:0.31
Consensus pattern (34 bp):
AAAATGAGACTAGGTTATTTACCTAATAAAAGTA
Found at i:127750 original size:20 final size:20
Alignment explanation
Indices: 127727--127765 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
127717 TGATGTCATG
*
127727 GCTGAGTACCTATAGTCACA
1 GCTGAGTACCCATAGTCACA
127747 GCTGAGTACCCATAGTCAC
1 GCTGAGTACCCATAGTCAC
127766 GGCTTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (20 bp):
GCTGAGTACCCATAGTCACA
Found at i:130362 original size:46 final size:46
Alignment explanation
Indices: 130309--130400 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
130299 ACTGCTATTT
130309 TTGGTCCTCAATTTGCTATTAAAATTTTGAAATTATTAGTTTCCTC
1 TTGGTCCTCAATTTGCTATTAAAATTTTGAAATTATTAGTTTCCTC
* * * *
130355 TTGGTCCTTAGTTTGTTATTAAATTTTTGAAATTATTAGTTTCCTC
1 TTGGTCCTCAATTTGCTATTAAAATTTTGAAATTATTAGTTTCCTC
130401 CTTAGTGGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.24, C:0.13, G:0.12, T:0.51
Consensus pattern (46 bp):
TTGGTCCTCAATTTGCTATTAAAATTTTGAAATTATTAGTTTCCTC
Found at i:131539 original size:35 final size:35
Alignment explanation
Indices: 131473--131539 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
131463 ATAAAGAAAT
* * *
131473 GGTACATGGGAGGATTTATAAAGTTACCAAGCTGC
1 GGTACATGGGAAGATTTATAAAGTAAACAAGCTGC
131508 GGTACATGGGAAGATTTATAAAGTAAACAAGC
1 GGTACATGGGAAGATTTATAAAGTAAACAAGC
131540 AAAGGGGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (35 bp):
GGTACATGGGAAGATTTATAAAGTAAACAAGCTGC
Found at i:133130 original size:21 final size:21
Alignment explanation
Indices: 133104--133143 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
133094 CTGACGATAG
*
133104 TGATGAATATGATGATGATTT
1 TGATGAATATGAAGATGATTT
*
133125 TGATGACTATGAAGATGAT
1 TGATGAATATGAAGATGAT
133144 GGTGAGTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (21 bp):
TGATGAATATGAAGATGATTT
Found at i:133136 original size:27 final size:27
Alignment explanation
Indices: 133105--133175 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
133095 TGACGATAGT
* *
133105 GATGAATATGATGATGATTTTGATGAC
1 GATGAAGATGATGATGAGTTTGATGAC
* *
133132 TATGAAGATGATGGTGAGTTTGATGAC
1 GATGAAGATGATGATGAGTTTGATGAC
* *
133159 GATGAAGCTGAGGATGA
1 GATGAAGATGATGATGA
133176 CAACAATGAC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.32, C:0.04, G:0.32, T:0.31
Consensus pattern (27 bp):
GATGAAGATGATGATGAGTTTGATGAC
Found at i:134234 original size:16 final size:16
Alignment explanation
Indices: 134209--134242 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
134199 AAGCAGCGAG
134209 GAAAAAAAAAAAAAAA
1 GAAAAAAAAAAAAAAA
* *
134225 GAAAAGAAAAGAAAAA
1 GAAAAAAAAAAAAAAA
134241 GA
1 GA
134243 GAGCCAACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
GAAAAAAAAAAAAAAA
Found at i:138000 original size:7 final size:7
Alignment explanation
Indices: 137979--138010 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
137969 GCAAGCGCCT
137979 AAGAGAG
1 AAGAGAG
137986 AGAGAGAG
1 A-AGAGAG
137994 AAGAGAG
1 AAGAGAG
138001 AAGAGAG
1 AAGAGAG
138008 AAG
1 AAG
138011 GAAAAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (7 bp):
AAGAGAG
Found at i:144267 original size:165 final size:166
Alignment explanation
Indices: 143949--144568 Score: 688
Period size: 165 Copynumber: 3.8 Consensus size: 166
143939 TAGTCCCTAT
* * * ***
143949 ATAAATAAAACATAAAATTGAA-CATCAAATATATTAAAATTAACATTGAAAATCACATACAAAA
1 ATAATTAAAACACAAAATT-AAGCATCAAATATATCAAAATTAACACCAAAAATCACATACAAAA
* * * * *
144013 GTCACAAGAAAAATTC-AGCGAGTAACTTTAGCCTTGGAACAAATTTTTCAATATTTACAAATAA
65 ATCACAAGAAAGATTCGACCAAGTAACTTTGGCCTTGGAACAAATTTTTCAATATTTACAAATAA
*
144077 ACTTTTAAATTTTTTAAAATTACAAATTGGTCCTTAC
130 ACCTTTAAATTTTTTAAAATTACAAATTGGTCCTTAC
* * * *
144114 ATAATTAAAACACAAAATTAAGCATCAAATATATCAGAATTAATA-CAAAAATCAGATCCAAAAA
1 ATAATTAAAACACAAAATTAAGCATCAAATATATCAAAATTAACACCAAAAATCACATACAAAAA
* *
144178 TTACAAGAAAGATT-GACCAAGT-ACTTTTGGCCTTGGAAC-AATTTTTCCAATAGTTACAAATA
66 TCACAAGAAAGATTCGACCAAGTAAC-TTTGGCCTTGGAACAAATTTTT-CAATATTTACAAATA
* *
144240 AACCTTTAAAATTTTTTAAAATTACAAATTAGTCTTTAC
129 AACCTTT-AAATTTTTTAAAATTACAAATTGGTCCTTAC
* * * * * *
144279 ATAATTAAAACACAAAATTAAGCATCAAATATGTTAGAATCAACA-TAAAAATCATAT-CTAAAA
1 ATAATTAAAACACAAAATTAAGCATCAAATATATCAAAATTAACACCAAAAATCACATAC-AAAA
* * * * * * **
144342 ATTAGAAGAAAGATTCAACGAAGT-ACTTTTGGCCTTTGAACAAAATTTTCAAT-TTTACACTTA
65 ATCACAAGAAAGATTCGACCAAGTAAC-TTTGGCCTTGGAACAAATTTTTCAATATTTACAAATA
* * * *
144405 AATCC-CTAAACTTTTTAAAATTACAAATTGATCCTTAT
129 AA-CCTTTAAATTTTTTAAAATTACAAATTGGTCCTTAC
* * * **
144443 ATAATTAAAACACAAAATTAAACATTAAACATATCAAAATTAGTACCAAAAATCACATACAAAAA
1 ATAATTAAAACACAAAATTAAGCATCAAATATATCAAAATTAACACCAAAAATCACATACAAAAA
144508 TCACAAGAAAGATTCGACCAAGTAACTTTGGCCTTGGGAACAAAATTTTT-AATATTTACAA
66 TCACAAGAAAGATTCGACCAAGTAACTTTGGCCTT-GGAAC-AAATTTTTCAATATTTACAA
144569 TTTAGTTCCT
Statistics
Matches: 383, Mismatches: 57, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
163 9 0.02
164 129 0.34
165 188 0.49
166 38 0.10
167 19 0.05
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.30
Consensus pattern (166 bp):
ATAATTAAAACACAAAATTAAGCATCAAATATATCAAAATTAACACCAAAAATCACATACAAAAA
TCACAAGAAAGATTCGACCAAGTAACTTTGGCCTTGGAACAAATTTTTCAATATTTACAAATAAA
CCTTTAAATTTTTTAAAATTACAAATTGGTCCTTAC
Found at i:144841 original size:17 final size:17
Alignment explanation
Indices: 144819--144851 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
144809 TTAAATATGA
144819 AAAAATTAAAATCATAC
1 AAAAATTAAAATCATAC
*
144836 AAAAATTAACATCATA
1 AAAAATTAAAATCATA
144852 TCAACAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAATTAAAATCATAC
Found at i:145472 original size:17 final size:17
Alignment explanation
Indices: 145452--145516 Score: 112
Period size: 17 Copynumber: 3.8 Consensus size: 17
145442 TAAAATAAAA
145452 AAATTAAAATTAAAAGC
1 AAATTAAAATTAAAAGC
145469 AAATTAAAATTAAAAGC
1 AAATTAAAATTAAAAGC
* *
145486 AAATTGAAATTAAAAGA
1 AAATTAAAATTAAAAGC
145503 AAATTAAAATTAAA
1 AAATTAAAATTAAA
145517 GTTACTAATC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 45 1.00
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (17 bp):
AAATTAAAATTAAAAGC
Found at i:145472 original size:25 final size:25
Alignment explanation
Indices: 145430--145477 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
145420 ATGAAACTAC
*
145430 TTAAAAATAAAATAAAATAAAAAAA
1 TTAAAAATAAAAGAAAATAAAAAAA
* * *
145455 TTAAAATTAAAAGCAAATTAAAA
1 TTAAAAATAAAAGAAAATAAAAA
145478 TTAAAAGCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (25 bp):
TTAAAAATAAAAGAAAATAAAAAAA
Found at i:145478 original size:6 final size:6
Alignment explanation
Indices: 145451--145516 Score: 57
Period size: 6 Copynumber: 11.5 Consensus size: 6
145441 ATAAAATAAA
* * * * *
145451 AAAATT AAAATT AAAA-G CAAATT AAAATT AAAA-G CAAATT GAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
*
145497 AAAA-G AAAATT AAAATT AAA
1 AAAATT AAAATT AAAATT AAA
145517 GTTACTAATC
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
5 10 0.22
6 36 0.78
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (6 bp):
AAAATT
Found at i:149425 original size:2 final size:2
Alignment explanation
Indices: 149418--149449 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
149408 ATGAGAAACA
149418 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
149450 GAATACCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:151373 original size:2 final size:2
Alignment explanation
Indices: 151366--151405 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
151356 TACTGTCATA
151366 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
151406 ACACACACAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:152532 original size:32 final size:33
Alignment explanation
Indices: 152483--152545 Score: 110
Period size: 32 Copynumber: 1.9 Consensus size: 33
152473 TTGGCTTTCT
*
152483 AGAAACACTTAACTCAATCTTTCCTTAACAAAA
1 AGAAACACTTAACTCAATCTTTCCTAAACAAAA
152516 AGAAACAC-TAACTCAATCTTTCCTAAACAA
1 AGAAACACTTAACTCAATCTTTCCTAAACAA
152546 GAAGCGGCGT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 21 0.72
33 8 0.28
ACGTcount: A:0.46, C:0.25, G:0.03, T:0.25
Consensus pattern (33 bp):
AGAAACACTTAACTCAATCTTTCCTAAACAAAA
Found at i:153532 original size:34 final size:34
Alignment explanation
Indices: 153463--153645 Score: 242
Period size: 34 Copynumber: 5.4 Consensus size: 34
153453 ATCGAAAATA
* *
153463 TGTTGATTAAAT-GGTGATTTGGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
153496 TGTTGACTAAATGAGAAATTTAGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
153530 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
153564 TATTGATTAAATGGGTGATTTGGTGGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
153598 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
153632 TGTTGATTAAATGG
1 TGTTGATTAAATGG
153646 TGGTTTTTAC
Statistics
Matches: 128, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
33 11 0.09
34 117 0.91
ACGTcount: A:0.27, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:154003 original size:19 final size:19
Alignment explanation
Indices: 153947--154009 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
153937 TGGTTGTCGA
**
153947 GGTACTATTCACGTATATA
1 GGTACTATTCACGTATACG
153966 GGTACTATTCACGTATACG
1 GGTACTATTCACGTATACG
*
153985 GGTACTATTCAAGTATACG
1 GGTACTATTCACGTATACG
*
154004 GTTACT
1 GGTACT
154010 GTACACGTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (19 bp):
GGTACTATTCACGTATACG
Found at i:158141 original size:34 final size:34
Alignment explanation
Indices: 158075--158259 Score: 255
Period size: 34 Copynumber: 5.5 Consensus size: 34
158065 AAGTGGGAGA
* *
158075 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
158108 ATTGTTGACTAAATGAGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
158142 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
158176 ATTATTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
158210 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
158244 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
158260 TGGTTTTTAC
Statistics
Matches: 132, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
33 13 0.10
34 119 0.90
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:158608 original size:2 final size:2
Alignment explanation
Indices: 158601--158635 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
158591 GAACATGTCA
158601 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
158636 ACAAAACATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:159000 original size:15 final size:15
Alignment explanation
Indices: 158962--159000 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
158952 GAATATACAA
*
158962 TTTTTCTTTGTTTCTC
1 TTTTT-TTTCTTTCTC
*
158978 TTTATTTTCTTTCTC
1 TTTTTTTTCTTTCTC
158993 TTTTTTTT
1 TTTTTTTT
159001 ATATATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTTTTTCTTTCTC
Found at i:162731 original size:15 final size:16
Alignment explanation
Indices: 162703--162737 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
162693 AAATTTTTTT
162703 AATTAAATAAAATTTA
1 AATTAAATAAAATTTA
*
162719 AATTAAAT-TAATTTA
1 AATTAAATAAAATTTA
162734 AATT
1 AATT
162738 TTAAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATTAAATAAAATTTA
Found at i:163347 original size:2 final size:2
Alignment explanation
Indices: 163340--163367 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
163330 AATTCTTTTA
163340 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
163368 GTAAAGACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:167016 original size:2 final size:2
Alignment explanation
Indices: 167009--167043 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
166999 AGGATAGGAT
167009 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
167044 GTAAAGCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:167235 original size:22 final size:22
Alignment explanation
Indices: 167210--167252 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
167200 CATTTCCCTC
*
167210 TCAATACAACGTGTTCTCTTTG
1 TCAACACAACGTGTTCTCTTTG
167232 TCAACACAACGTGTTCTCTTT
1 TCAACACAACGTGTTCTCTTT
167253 TTCTTTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.40
Consensus pattern (22 bp):
TCAACACAACGTGTTCTCTTTG
Found at i:167797 original size:31 final size:30
Alignment explanation
Indices: 167735--167802 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
167725 TTTGTAATAA
* *
167735 ATTTAAATTTAAATTTAATTGATTTATAAT
1 ATTTAAATTTAAATTTAATAGATTTAAAAT
*
167765 ATTTAAATATTATATTTAATA-AGTTTAAAAT
1 ATTTAAAT-TTAAATTTAATAGA-TTTAAAAT
167796 ATTTAAA
1 ATTTAAA
167803 ATTTTAATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 9 0.27
31 24 0.73
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (30 bp):
ATTTAAATTTAAATTTAATAGATTTAAAAT
Found at i:171089 original size:16 final size:17
Alignment explanation
Indices: 171073--171106 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
171063 TATGTAAATT
*
171073 GTAAATTATAAATATTGA
1 GTAAATTAAAAATATT-A
171091 GTAAATTAAAAATATT
1 GTAAATTAAAAATATT
171107 TAATTAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (17 bp):
GTAAATTAAAAATATTA
Found at i:176961 original size:164 final size:164
Alignment explanation
Indices: 176631--177055 Score: 413
Period size: 164 Copynumber: 2.6 Consensus size: 164
176621 AGGAAGAAAT
* * * * * *
176631 TAATGCATGGATTCAGTTTTTGAATAAATATGATAAATGCATAGATTCTTAATAAAAATCAGATT
1 TAATGCATAGATTCTGTTTTTAAATAAATATGATAAATGCATAGATTATTAATGAGAATCAGATT
* * * * * * * * *
176696 TTTTTATATGAAGGAAGTTGATAAGACTAATGTATGAATTGTAAATATTAGATTGCAATGAATGG
66 CTTTGATATGAAAGAAGTTGATAAGACTAATGGATGAATTGTAAATATCAGACTACAAGGAATAG
* * * * *
176761 ACTAATGCATGGATCGAAATTTGAGAAATGGGAC
131 ACTAATACATGCATCGAAATTTCAAAAATAGGAC
* * * * *
176795 TAATAG-ATAGATTGTGTTTTTAAACAAATATGATAAATGCATAGATTTTTAATGAGAGTTAGAT
1 TAAT-GCATAGATTCTGTTTTTAAATAAATATGATAAATGCATAGATTATTAATGAGAATCAGAT
* * * *
176859 TCTTTGATATGAAAGAAGTTGATAAGAGTAATGGATGAATTGTAAATGTCATACTATAAGGAATA
65 TCTTTGATATGAAAGAAGTTGATAAGACTAATGGATGAATTGTAAATATCAGACTACAAGGAATA
* * *
176924 GATTAATACATGCATTGGAA-TTCAAAAGATAGGAC
130 GACTAATACATGCATCGAAATTTCAAAA-ATAGGAC
* * * * * * ** *
176959 TAATGCGTGGATTCTGCTTTGAAATAAATGTGATTAAATGCATAGATTACTGTTGAGAATCAAAT
1 TAATGCATAGATTCTGTTTTTAAATAAATATGA-TAAATGCATAGATTATTAATGAGAATCAGA-
*
177024 TTCTTTTGATATGAAAAAAGTTGATAAGACTA
64 TTC-TTTGATATGAAAGAAGTTGATAAGACTA
177056 GCGCATAATG
Statistics
Matches: 208, Mismatches: 47, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
163 6 0.03
164 149 0.72
165 24 0.12
166 3 0.01
167 26 0.12
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.34
Consensus pattern (164 bp):
TAATGCATAGATTCTGTTTTTAAATAAATATGATAAATGCATAGATTATTAATGAGAATCAGATT
CTTTGATATGAAAGAAGTTGATAAGACTAATGGATGAATTGTAAATATCAGACTACAAGGAATAG
ACTAATACATGCATCGAAATTTCAAAAATAGGAC
Found at i:177103 original size:67 final size:67
Alignment explanation
Indices: 176995--177122 Score: 186
Period size: 67 Copynumber: 1.9 Consensus size: 67
176985 AATGTGATTA
* * * *
176995 AATGCATAGATTACTGTTGAGAATCAAATTTCTTTTGATATGAAAAAAGTTGATAAGACTAGCGC
1 AATGCATAGATTACTGATGAAAATCAAATTTCCTTTGATATGAAAAAAATTGATAAGACTAGCGC
177060 AT
66 AT
* *
177062 AATGCATAGATT-CATGATGAAAATTAGATTTCCTTTGATATGAAAAAAATTGATAAGACTA
1 AATGCATAGATTAC-TGATGAAAATCAAATTTCCTTTGATATGAAAAAAATTGATAAGACTA
177123 ATGCATGGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 1 0.02
67 53 0.98
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.33
Consensus pattern (67 bp):
AATGCATAGATTACTGATGAAAATCAAATTTCCTTTGATATGAAAAAAATTGATAAGACTAGCGC
AT
Found at i:178993 original size:21 final size:21
Alignment explanation
Indices: 178948--178987 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
178938 ACTTCTTATA
178948 AGAAGGCGTGTATAGTAAAAC
1 AGAAGGCGTGTATAGTAAAAC
178969 AGAAGGCGTAG-ATAGTAAA
1 AGAAGGCGT-GTATAGTAAA
178988 GTAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.45, C:0.07, G:0.30, T:0.17
Consensus pattern (21 bp):
AGAAGGCGTGTATAGTAAAAC
Found at i:180941 original size:14 final size:15
Alignment explanation
Indices: 180922--180957 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
180912 TCTAAAAGTA
*
180922 ATTAATTGGTTGA-T
1 ATTAATTGGTTAATT
180936 ATTAATTGGTTAATT
1 ATTAATTGGTTAATT
180951 ATTAATT
1 ATTAATT
180958 TAATTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (15 bp):
ATTAATTGGTTAATT
Found at i:180995 original size:21 final size:20
Alignment explanation
Indices: 180949--180995 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
180939 AATTGGTTAA
*
180949 TTATTAATTTAATTTAATTT
1 TTATTAATTTAATCTAATTT
180969 TATATTAAATTT-ATCTAATTAT
1 T-TATT-AATTTAATCTAATT-T
180991 TTATT
1 TTATT
180996 GAGTGTTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 15 0.65
22 7 0.30
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTAATTTAATCTAATTT
Found at i:182392 original size:32 final size:30
Alignment explanation
Indices: 182356--182414 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
182346 GAAATCAAAT
182356 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
182388 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
182415 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:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:182814 original size:20 final size:20
Alignment explanation
Indices: 182768--182844 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
182758 TTCCCAATGA
***
182768 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
182789 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
* *
182809 CATGTATTGATACTTTGAAT
1 CATGTATCGATACATTGAAT
**
182829 TGTGTATCGATACATT
1 CATGTATCGATACATT
182845 TAAGGGTTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
19 2 0.04
20 28 0.62
21 15 0.33
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.42
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:184819 original size:21 final size:20
Alignment explanation
Indices: 184790--184832 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
184780 GACTAGTGTG
*
184790 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGTGACCT
*
184811 GGGAGTGCCGGTCGTGACCT
1 GGGACTGCCGGTCGTGACCT
184831 GG
1 GG
184833 TGATGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.26, G:0.44, T:0.21
Consensus pattern (20 bp):
GGGACTGCCGGTCGTGACCT
Found at i:185288 original size:13 final size:13
Alignment explanation
Indices: 185270--185308 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
185260 TATAAACCCC
185270 CTGTATCGATACA
1 CTGTATCGATACA
185283 CTGTATCGATACA
1 CTGTATCGATACA
*
185296 TTGTATCGATACA
1 CTGTATCGATACA
185309 AAGAAAAATG
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:0.21, G:0.15, T:0.33
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:187409 original size:15 final size:15
Alignment explanation
Indices: 187389--187419 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
187379 ATTTCGTTTG
*
187389 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
187404 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
187419 G
1 G
187420 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:191186 original size:32 final size:30
Alignment explanation
Indices: 191150--191208 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
191140 GAAATCAAAT
191150 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
191182 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
191209 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:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:191493 original size:20 final size:20
Alignment explanation
Indices: 191468--191519 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
191458 TACAAGCCAA
** *
191468 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTGG
191488 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
191507 TGTATCGATACAA
1 TGTATCGATACAA
191520 GTTTAGCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:191595 original size:20 final size:20
Alignment explanation
Indices: 191549--191625 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
191539 TTCCCAATGA
***
191549 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
191570 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
191590 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
**
191610 TGTGTATCGATACATT
1 CATGTATCGATACATT
191626 TAAGGGTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.04
20 30 0.64
21 15 0.32
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:195611 original size:13 final size:13
Alignment explanation
Indices: 195593--195617 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
195583 CATAAAGTGT
195593 TGTATCGATACAA
1 TGTATCGATACAA
195606 TGTATCGATACA
1 TGTATCGATACA
195618 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:195615 original size:33 final size:33
Alignment explanation
Indices: 195573--195639 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
195563 TTCAACGATT
195573 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
195606 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
195639 T
1 T
195640 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
Done.