Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold44
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: 3265628
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.28
Warning! 491382 characters in sequence are not A, C, G, or T
File 5 of 17
Found at i:704859 original size:52 final size:52
Alignment explanation
Indices: 704711--704839 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
704701 CGAAATATGA
704711 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
704763 AAATTTGCCTGTATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
704815 AAATTAGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
704840 AAGATGAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:704918 original size:19 final size:18
Alignment explanation
Indices: 704894--704991 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
704884 TAGCTTACAT
704894 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
704913 TGTATCGATAC--A-TTA
1 TGTATCGATACAAACTTA
704928 --TATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
704945 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
704958 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
704978 TGTATCGATACAAA
1 TGTATCGATACAAA
704992 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 20 0.30
14 1 0.02
15 3 0.05
16 4 0.06
17 3 0.05
19 22 0.33
20 13 0.20
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:704932 original size:32 final size:32
Alignment explanation
Indices: 704889--704989 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
704879 GGCAGTAGCT
*
704889 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
704921 TACATTATATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
704953 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
704986 TACA
1 TACA
704990 AATCGTTGAA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 50 0.77
33 15 0.23
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:705595 original size:49 final size:49
Alignment explanation
Indices: 705523--705620 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
705513 GTCTTGCAGT
* *
705523 GTGCCATTGTGCAGATTCAAGGCCTGCCACACTGGACTTAAAGATGAAG
1 GTGCCAATGTGCAGATTCAAGGCCAGCCACACTGGACTTAAAGATGAAG
* ** *
705572 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGCAGATTCAAGGCCAGCCACACTGGACTTAAAGATGAAG
705621 ATGAGAAAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (49 bp):
GTGCCAATGTGCAGATTCAAGGCCAGCCACACTGGACTTAAAGATGAAG
Found at i:705872 original size:92 final size:93
Alignment explanation
Indices: 705688--706452 Score: 798
Period size: 92 Copynumber: 8.1 Consensus size: 93
705678 AAAAATGAGA
* * * * *
705688 AAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGGTGGAA-AAGGTGCCA
1 AAAAGG-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA----GAAGAAGGTGCCA
* *
705752 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
61 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * * *
705785 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAGGTGCCAATGTG
*
705849 CTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
66 CTGATTCAAGGCCAGCTACATTGGAC-T-----T
*
705883 GACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 -A-AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAGGTGCCAATG
*
705948 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT
64 TGCTGATTCAAGGCCAGCTACATTGGAC-T-----T
* * *
705984 GACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGTGCCAATG
1 -A-AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAGGTGCCAATG
*
706049 TGCTGATTCAAGGCCAGCAACATTGGACTT
64 TGCTGATTCAAGGCCAGCTACATTGGACTT
706079 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G--G-AGGTGCCA
1 ----A-AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAGGTGCCA
706138 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
61 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
706171 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-----A-AAGGTGCCA
1 --A-A--AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAGGTGCCA
706230 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
61 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
706263 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----A-AAGGTGCCA
1 --A-A--AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAGGTGCCA
706322 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
61 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * * * * *
706355 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTTCCAATATG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAGGTGCCAATGTG
* * *
706419 CTGATTCAAGGCCAGCGATATTGGGCTT
66 CTGATTCAAGGCCAGCTACATTGGACTT
*
706447 AGAAGG
1 AAAAGG
706453 GTTGCCACCG
Statistics
Matches: 616, Mismatches: 28, Indels: 52
0.89 0.04 0.07
Matches are distributed among these distances:
86 40 0.06
88 1 0.00
90 3 0.00
91 3 0.00
92 291 0.47
93 6 0.01
95 41 0.07
96 5 0.01
98 44 0.07
100 1 0.00
101 181 0.29
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (93 bp):
AAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAGAAGGTGCCAATGTG
CTGATTCAAGGCCAGCTACATTGGACTT
Found at i:706337 original size:21 final size:21
Alignment explanation
Indices: 706313--706380 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
706303 ATTGGACTTA
706313 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
706334 AAGGCCAGCTACAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
706356 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
706377 AAGG
1 AAGG
706381 CCAGCTACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:706359 original size:22 final size:22
Alignment explanation
Indices: 706334--706401 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
706324 GTGCTGATTC
706334 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
* * *
706356 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTACAT-TG--GACTTA
706377 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
706399 AAG
1 AAG
706402 ATGAAGGTTC
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:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (22 bp):
AAGGCCAGCTACATTGGACTTA
Found at i:706442 original size:49 final size:49
Alignment explanation
Indices: 705698--706434 Score: 931
Period size: 49 Copynumber: 15.5 Consensus size: 49
705688 AAAAGGATGT
* * *
705698 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGGTGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
*
705750 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
705793 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
705842 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGGTGC
* *
705894 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
705943 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGGTGC
* * *
705995 CAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
706044 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
706093 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G--G-AGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
706136 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
706185 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
706228 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
706277 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
706320 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
706363 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTTC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
706412 CAATATGCTGATTCAAGGCCAGC
1 CAATATGCTGATTCAAGGCCAGC
706435 GATATTGGGC
Statistics
Matches: 614, Mismatches: 41, Indels: 63
0.86 0.06 0.09
Matches are distributed among these distances:
43 200 0.33
45 2 0.00
46 2 0.00
47 3 0.00
48 1 0.00
49 281 0.46
52 125 0.20
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:706491 original size:33 final size:33
Alignment explanation
Indices: 706447--707036 Score: 864
Period size: 33 Copynumber: 17.9 Consensus size: 33
706437 TATTGGGCTT
*
706447 AGAAGGGTTGCCACCGACTTGCGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
706480 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * ** * *
706513 AGAATGGCTGCCACTAACTTGTATGTGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
706546 AG-AGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
706577 AGAAGGGTTGCCACTGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
706610 AAGAA-GATTGCCACCGACTTGTGTGGGCTTTAG
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
706643 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
706676 AAAAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
706709 AAAAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
706742 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * * *
706775 AAAAAGGTTGCCATCGACTTGTGTGGGTTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
706808 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
706841 AAAAAGGTTGCCATCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
706874 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTTG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
706907 AAAAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
706940 AGAAGGGTTGCCACTGACTTGTGTGGGCTTTTG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
706973 AAGAA-TGTTGCCACCAACTTGTGTGGGCTTTAG
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
707006 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT
707037 TGAAAAGGAG
Statistics
Matches: 500, Mismatches: 51, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
31 3 0.01
32 57 0.11
33 432 0.86
34 8 0.02
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.29
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:707082 original size:27 final size:27
Alignment explanation
Indices: 707052--707105 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
707042 AGGAGAAAGA
*
707052 TGCCACGGAGTTGTGAACTTAAAAGGG
1 TGCCACGGAATTGTGAACTTAAAAGGG
*
707079 TGCCACGGAATTGTGGACTTAAAAGGG
1 TGCCACGGAATTGTGAACTTAAAAGGG
707106 AAAAAGAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (27 bp):
TGCCACGGAATTGTGAACTTAAAAGGG
Found at i:707163 original size:66 final size:66
Alignment explanation
Indices: 707039--707508 Score: 400
Period size: 66 Copynumber: 7.1 Consensus size: 66
707029 TGGGCTTTTG
* * *
707039 AAAAGGAGAAAGA-TGCCACGGAGTTGTGAAC-TT-AAAAG--GGTGCCACGGAATTGTGGAC-T
1 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAGGTGCCACGGAGTTGTGGACTT
707098 T
66 T
* * * *
707099 AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGATGCCACAGAGTTGTGGACT
1 AAAA-GGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAGGTGCCACGGAGTTGTGGACT
707164 TT
65 TT
* * * ** * *
707166 GAAAGGAACAAG-GTGCCACGGGGTCATGGAC-TTAAAAAGAAAAGGTGCCACGGAGTGGTGGGC
1 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAG--AAGGTGCCACGGAGTTGTGGAC
707229 TTT
64 TTT
*
707232 GAAAA-GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGG
1 -AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAG---AAGGTGCCACGGAGTTGTGG
707295 AC-TT
62 ACTTT
* * *
707299 AAAAGGAATAAGA-TGCCACGGGGTCGTGGAC-TTAAAAAGAACAAAGAGTGCCACGGAGTTGTG
1 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAG----AAG-GTGCCACGGAGTTGTG
*
707362 GGCTTT
61 GACTTT
* * *
707368 GAAAA-G---AAG-GTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGA
1 -AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAA--AAGAAGGTGCCACGGAGTTGTGGA
707428 CTTT
63 CTTT
* * * *
707432 AAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTCGTGG
1 AAAA-GGAAAAAGAGTGCCACGGAGTTGTGGACTTT--AAA-AAGAAGGTGCCACGGAGTTGTGG
707497 ACTTT
62 ACTTT
707502 AAGAAGG
1 AA-AAGG
707509 TATTTGAAGA
Statistics
Matches: 338, Mismatches: 41, Indels: 52
0.78 0.10 0.12
Matches are distributed among these distances:
60 4 0.01
61 8 0.02
62 16 0.05
63 6 0.02
64 33 0.10
65 19 0.06
66 98 0.29
67 48 0.14
68 43 0.13
69 23 0.07
70 35 0.10
71 5 0.01
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.19
Consensus pattern (66 bp):
AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAGGTGCCACGGAGTTGTGGACTT
T
Found at i:707196 original size:34 final size:34
Alignment explanation
Indices: 707072--707503 Score: 438
Period size: 34 Copynumber: 12.9 Consensus size: 34
707062 TTGTGAACTT
* * *
707072 AAAAGGGTGCCACGGAATTGTGGAC-TTAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAA-AG
* *
707106 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTTAAAAAG
* * * *
707141 ---AAGATGCCACAGAGTTGTGGACTTTGAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAAG
* * **
707172 AACAAGGTGCCACGGGGTCATGGAC-TTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAAG
* * *
707205 -AAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAAG
*
707238 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAAG
*
707272 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAAG
* * * *
707305 AATAAGATGCCACGGGGTCGTGGAC-TTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAAG
* *
707338 AACAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AA-AAAG-GTGCCACGGAGTTGTGGACTTTAAAAAG
* *
707374 ---AAGGTGCCACGGAGTCGTGGAC-TTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAAG
* *
707404 AACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAA-AG
* * *
707439 AAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTTAAAAAG
*
707474 AAAAAGGTGCCACGGAGTCGTGGACTTTAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAA
707504 GAAGGTATTT
Statistics
Matches: 331, Mismatches: 51, Indels: 32
0.80 0.12 0.08
Matches are distributed among these distances:
30 6 0.02
31 41 0.12
32 25 0.08
33 71 0.21
34 106 0.32
35 47 0.14
36 35 0.11
ACGTcount: A:0.34, C:0.14, G:0.33, T:0.19
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAAG
Found at i:707196 original size:100 final size:100
Alignment explanation
Indices: 707072--707500 Score: 505
Period size: 100 Copynumber: 4.3 Consensus size: 100
707062 TTGTGAACTT
* * * *
707072 AAAAGGGTGCCACGGAATTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
1 AAAAAGGTGCCACGGAGTCGTGGACTTAAAA-GGAAAAAG-GTGCCACGGAGTTGTGGACTTTGA
* *
707137 AAAG-AAGA-TGCCACAGAGTTGTGGACTTTGAAAGG
64 AAAGAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAG
* * * * * *
707172 AACAAGGTGCCACGGGGTCATGGACTTAAAAAG-AAAAGGTGCCACGGAGTGGTGGGCTTTGAAA
1 AAAAAGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAA
* * *
707236 AGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
66 AGAAAGA-GTGCCACAGAGTTGTGGGCTTTGAAAAG
* * * * * *
707272 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAATAAGATGCCACGGGGTCGTGGAC-TTAAAA
1 AAAAAGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAA
*
707336 AGAACAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG
66 AG---AAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAG
*
707374 ---AAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTT-AAA
1 AAAAAGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAA
707435 AGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAG
66 A--G--AAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAG
707474 AAAAAGGTGCCACGGAGTCGTGGACTT
1 AAAAAGGTGCCACGGAGTCGTGGACTT
707501 TAAGAAGGTA
Statistics
Matches: 283, Mismatches: 33, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
97 27 0.10
98 8 0.03
99 55 0.19
100 118 0.42
101 20 0.07
102 27 0.10
103 28 0.10
ACGTcount: A:0.34, C:0.14, G:0.34, T:0.19
Consensus pattern (100 bp):
AAAAAGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAA
AGAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAG
Found at i:708499 original size:24 final size:23
Alignment explanation
Indices: 708445--708502 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 23
708435 GAAAAAGGGG
* *
708445 TTTTTTCTTTCTTCTTTTTTTTG
1 TTTTTTGTTTCTTCTTTTTTTTC
708468 TTTGTTTGTTTCTTCTTTTTTTTCC
1 TTT-TTTGTTTCTTCTTTTTTTT-C
708493 TTTTTTGTTT
1 TTTTTTGTTT
708503 TGTTTCTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 3 0.10
24 25 0.81
25 3 0.10
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.81
Consensus pattern (23 bp):
TTTTTTGTTTCTTCTTTTTTTTC
Found at i:712371 original size:13 final size:13
Alignment explanation
Indices: 712353--712378 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
712343 TACACCAAGT
712353 ATGTATCGATACA
1 ATGTATCGATACA
712366 ATGTATCGATACA
1 ATGTATCGATACA
712379 CCAAAAATTG
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:712376 original size:32 final size:33
Alignment explanation
Indices: 712335--712398 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
712325 TAGCCAAACT
**
712335 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
712367 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
712399 TTGGCTTGTA
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:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:714631 original size:21 final size:21
Alignment explanation
Indices: 714598--714647 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
714588 TTGCAAGTTG
*
714598 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
714620 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
714641 AAATAAA
1 AAATAAA
714648 AAACTTGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:716465 original size:15 final size:15
Alignment explanation
Indices: 716445--716475 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
716435 TAAAAATGTC
*
716445 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
716460 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
716475 C
1 C
716476 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:718730 original size:20 final size:20
Alignment explanation
Indices: 718687--718732 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
718677 AAATCTTTTG
718687 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
718708 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
718728 CAAAA
1 CAAAA
718733 CCAGCATCAA
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:721104 original size:13 final size:13
Alignment explanation
Indices: 721086--721111 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
721076 TACACCAAGT
721086 ATGTATCGATACA
1 ATGTATCGATACA
721099 ATGTATCGATACA
1 ATGTATCGATACA
721112 CCAAAAATTG
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:721109 original size:32 final size:33
Alignment explanation
Indices: 721068--721131 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
721058 TAGCCAAACT
**
721068 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
721100 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
721132 TTGGCTTGTA
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:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:725727 original size:52 final size:52
Alignment explanation
Indices: 725579--725707 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
725569 CGAAATTTGA
725579 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* * * *
725631 AAATTTGCCTGTATGTATCGATACATTTTATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
725683 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
725708 AAGATGAGTG
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:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:725798 original size:32 final size:33
Alignment explanation
Indices: 725757--725825 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
725747 GGCAGTAGCT
725757 TACATTGTATCGATACAAAAC-TTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
*
725789 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
725822 TACA
1 TACA
725826 AATCGTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 20 0.57
33 15 0.43
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
TACATTGTATCGATACAAAACTTTATGTATCGA
Found at i:725799 original size:13 final size:13
Alignment explanation
Indices: 725781--725805 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
725771 ACAAAACTTA
725781 TGTATCGATACAT
1 TGTATCGATACAT
725794 TGTATCGATACA
1 TGTATCGATACA
725806 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:727404 original size:20 final size:20
Alignment explanation
Indices: 727379--727417 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
727369 CTACTGCCAG
727379 TTTCATGTATCGATACAATT
1 TTTCATGTATCGATACAATT
727399 TTTCATGTATCGATACAAT
1 TTTCATGTATCGATACAAT
727418 GTATCGATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (20 bp):
TTTCATGTATCGATACAATT
Found at i:727421 original size:13 final size:13
Alignment explanation
Indices: 727403--727429 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
727393 ACAATTTTTC
727403 ATGTATCGATACA
1 ATGTATCGATACA
727416 ATGTATCGATACA
1 ATGTATCGATACA
727429 A
1 A
727430 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:732327 original size:20 final size:19
Alignment explanation
Indices: 732281--732339 Score: 82
Period size: 20 Copynumber: 3.1 Consensus size: 19
732271 TTGTATCGAT
* *
732281 ACATTGTATCGATATATGC
1 ACATTGTATCGATACATGA
*
732300 TCATTGTATCGATACATGA
1 ACATTGTATCGATACATGA
732319 ACAATTGTATCGATACATGA
1 AC-ATTGTATCGATACATGA
732339 A
1 A
732340 ACTGATAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGA
Found at i:739720 original size:22 final size:22
Alignment explanation
Indices: 739676--739731 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
739666 AGATTTGACA
*
739676 AAGGGGGAGAAATGCCTTGATT
1 AAGGGGGAGAAATGCCTTAATT
* *
739698 AAGGGGGAGAAATTCTTTAATT
1 AAGGGGGAGAAATGCCTTAATT
739720 AAGGGGGAGAAA
1 AAGGGGGAGAAA
739732 AACGAAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.05, G:0.36, T:0.21
Consensus pattern (22 bp):
AAGGGGGAGAAATGCCTTAATT
Found at i:740332 original size:13 final size:13
Alignment explanation
Indices: 740314--740338 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
740304 CATTATGCTT
740314 TGTATCGATACAA
1 TGTATCGATACAA
740327 TGTATCGATACA
1 TGTATCGATACA
740339 TGCTCATTGT
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:740335 original size:33 final size:32
Alignment explanation
Indices: 740293--740357 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
740283 ACACACCCAG
* *
740293 ATGTATCGATACATTATGCTTTGTATCGATACA
1 ATGTATCGATACATGAT-CATTGTATCGATACA
*
740326 ATGTATCGATACATGCTCATTGTATCGATACA
1 ATGTATCGATACATGATCATTGTATCGATACA
740358 TGATGAAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (32 bp):
ATGTATCGATACATGATCATTGTATCGATACA
Found at i:740351 original size:19 final size:20
Alignment explanation
Indices: 740325--740378 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
740315 GTATCGATAC
* *
740325 AATGTATCGATACATGCT-C
1 AATGTATCGATACATGATGA
*
740344 ATTGTATCGATACATGATGA
1 AATGTATCGATACATGATGA
740364 AATGTATCGATACAT
1 AATGTATCGATACAT
740379 TGCTTATAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATGATGA
Found at i:745358 original size:21 final size:20
Alignment explanation
Indices: 745328--745381 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
745318 TTTTACAATT
* *
745328 TGTATCGATATAATAAGTGAA
1 TGTATTGATA-AATAACTGAA
* *
745349 TGTATTGATACATAACTGAT
1 TGTATTGATAAATAACTGAA
745369 TGTATTGATAAAT
1 TGTATTGATAAAT
745382 GTTTGAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATTGATAAATAACTGAA
Found at i:754332 original size:42 final size:42
Alignment explanation
Indices: 754277--754395 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
754267 TTCTTCTCTC
* *
754277 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
754319 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
754361 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
754396 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:754336 original size:12 final size:11
Alignment explanation
Indices: 754310--754385 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
754300 TCTATTATCT
*
754310 CTCCTGTCTCTC
1 CTCCTATCTC-C
754322 CTCCTATCATCC
1 CTCCTATC-TCC
754334 CTCCTATCT--
1 CTCCTATCTCC
*
754343 CTACTATCT--
1 CTCCTATCTCC
*
754352 CTCCTGTCTCTC
1 CTCCTATCTC-C
754364 CTCCTATCATCC
1 CTCCTATC-TCC
*
754376 CTCCTCTCTC
1 CTCCTATCTC
754386 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:754337 original size:24 final size:24
Alignment explanation
Indices: 754301--754386 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
754291 CCTCCTCTCT
* *
754301 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
754325 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
754346 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
754367 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
754387 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:754361 original size:18 final size:18
Alignment explanation
Indices: 754292--754362 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
754282 CCTGTCATCC
* *
754292 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
754310 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
754332 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
754352 CTCCTGTCTCT
1 CTCCTGTCTCT
754363 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:754814 original size:51 final size:51
Alignment explanation
Indices: 754654--754859 Score: 222
Period size: 51 Copynumber: 4.0 Consensus size: 51
754644 AAAATGTCCT
* * * *
754654 CGATTGTGAAAAATT-GATGTTTTTGAAAATAAAATCGGAGTTGGAGTATCCC
1 CGATTATGGAAAATTAG-TGTTTTAG-AAATAAAATCGGGGTTGGAGTATCCC
* * *
754706 CGATTAAAGGAAAATTGGTG-TTTAAAAATAAAATCGGGGTTGGAGTATCCC
1 CGATT-ATGGAAAATTAGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCC
*
754757 CAATTATGGAAAATTAGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCC
1 CGATTATGGAAAATTAGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCC
* * * * *
754808 CGATTAT-GAGAAATCAATATTTT-GAGAATAAAGTTGGGGTTGGAGTATCCC
1 CGATTATGGA-AAATTAGTGTTTTAGA-AATAAAATCGGGGTTGGAGTATCCC
754859 C
1 C
754860 TCGGAGGTAA
Statistics
Matches: 133, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
50 16 0.12
51 99 0.74
52 8 0.06
53 9 0.07
54 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (51 bp):
CGATTATGGAAAATTAGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCC
Found at i:754898 original size:28 final size:28
Alignment explanation
Indices: 754843--754918 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
754833 GAATAAAGTT
*** **
754843 GGGGTTGGAGTATCCCCTCGGAGGTAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
754871 GGGGTTGGAGTATCCCCGATGAAATAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
* *
754899 GAGGTTGGAGTATCCTCGAT
1 GGGGTTGGAGTATCCCCGAT
754919 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.22, C:0.18, G:0.36, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:754944 original size:15 final size:15
Alignment explanation
Indices: 754924--754958 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
754914 TCGATTGTGA
754924 AAAATTGGTGTTTGG
1 AAAATTGGTGTTTGG
*
754939 AAAATTGGTGTTTTG
1 AAAATTGGTGTTTGG
754954 AAAAT
1 AAAAT
754959 AAAACCGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (15 bp):
AAAATTGGTGTTTGG
Found at i:757041 original size:13 final size:13
Alignment explanation
Indices: 757023--757048 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
757013 ACAAAGATCC
757023 ATGTATCGATACA
1 ATGTATCGATACA
757036 ATGTATCGATACA
1 ATGTATCGATACA
757049 TGGAATAATG
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:757124 original size:19 final size:19
Alignment explanation
Indices: 757100--757163 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
757090 AGCGATACAT
757100 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
757119 TGTATC-A-A-TACA--T-
1 TGTATCGATACAACACTTA
757132 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
757151 TGTATCGATACAA
1 TGTATCGATACAA
757164 ATCGCTGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
13 6 0.16
14 2 0.05
15 1 0.03
16 6 0.16
17 1 0.03
18 2 0.05
19 19 0.51
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:757135 original size:32 final size:32
Alignment explanation
Indices: 757094--757162 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
757084 CTTTGTAGCG
757094 ATACATTGTATCGATACAACACTTATGTATCA
1 ATACATTGTATCGATACAACACTTATGTATCA
*
757126 ATACATTGTATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCA
757158 ATACA
1 ATACA
757163 AATCGCTGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (32 bp):
ATACATTGTATCGATACAACACTTATGTATCA
Found at i:757989 original size:14 final size:14
Alignment explanation
Indices: 757970--757997 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
757960 AAGAGGAAAA
757970 TAAAGTGTATCCTG
1 TAAAGTGTATCCTG
757984 TAAAGTGTATCCTG
1 TAAAGTGTATCCTG
757998 CTCTTTGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (14 bp):
TAAAGTGTATCCTG
Found at i:758060 original size:55 final size:55
Alignment explanation
Indices: 757993--758557 Score: 674
Period size: 55 Copynumber: 10.0 Consensus size: 55
757983 GTAAAGTGTA
* ** *
757993 TCCTGCTCTTTGAGGACTAAAAATTGCCACCAACTTGTGTGGCCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
758048 TCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
758103 TCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* *
758158 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
758213 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* * *
758274 TCCTGTTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * *
758329 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTATGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
758384 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
* * *
758445 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAACA
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* *
758506 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTATGTGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
758558 AAAAGGCATC
Statistics
Matches: 450, Mismatches: 33, Indels: 55
0.84 0.06 0.10
Matches are distributed among these distances:
54 10 0.02
55 270 0.60
56 22 0.05
59 8 0.02
60 26 0.06
61 110 0.24
62 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:758356 original size:171 final size:170
Alignment explanation
Indices: 757993--758491 Score: 814
Period size: 171 Copynumber: 3.0 Consensus size: 170
757983 GTAAAGTGTA
* * * *
757993 TCCTGCTCTTTGAGGACT-AAAAATTGCCACCAACTTGTGTGGCCTTTGAAAGGCGTCTTGCTCT
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
* *
758057 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG----GCGTCCTGCTCTTTGAA
65 TTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGCGTCCTGCTCTTTGAG
758117 GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
130 GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
758158 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
* *
758223 TGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGTTCTTTGAG
66 TGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAAGCGTCCTGCTCTTTGAG
*
758288 GACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAGAGGTG
130 GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
758329 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
758394 TGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCGTCCTGCTCTTTGAG
66 TGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA-GCGTCCTGCTCTTTGAG
*
758459 GACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT
130 GACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT
758492 GAAAAGAAAA
Statistics
Matches: 311, Mismatches: 14, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
165 93 0.30
166 8 0.03
170 4 0.01
171 202 0.65
172 4 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (170 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
TGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGCGTCCTGCTCTTTGAGG
ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:758434 original size:29 final size:29
Alignment explanation
Indices: 758353--758434 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 29
758343 GACTGGAAAA
*
758353 TGCCACCAACTTGTATGGGCTTTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGG
** *
758382 TGTCCTGC-TCTT-TG-GGGAC--TGAAAGG
1 TG-CCACCAACTTGTGTGGG-CTTTGAAAGG
758408 TGCCACCAACTTGTGTGGGCTTTGAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAA
758435 AGAAAAGGCG
Statistics
Matches: 39, Mismatches: 7, Indels: 14
0.65 0.12 0.23
Matches are distributed among these distances:
25 3 0.08
26 12 0.31
27 6 0.15
28 5 0.13
29 10 0.26
30 3 0.08
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (29 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGG
Found at i:759598 original size:24 final size:22
Alignment explanation
Indices: 759562--759641 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 22
759552 TTCTTCCTTT
*
759562 TTTTTTCTCTTTTTTCTTTATTTTG
1 TTTTTT-TGTTTTTT-TTT-TTTTG
*
759587 TTTTTTTGTTTTTTTTTTGGTTG
1 TTTTTTTGTTTTTTTTTT-TTTG
*
759610 TTTTTTTTGGTTGTTTTTTTTTTGG
1 -TTTTTTT-GTT-TTTTTTTTTTTG
759635 TTTTTTT
1 TTTTTTT
759642 TGAAGAAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
22 1 0.02
23 6 0.13
24 21 0.45
25 11 0.23
26 8 0.17
ACGTcount: A:0.01, C:0.04, G:0.12, T:0.82
Consensus pattern (22 bp):
TTTTTTTGTTTTTTTTTTTTTG
Found at i:759602 original size:28 final size:28
Alignment explanation
Indices: 759571--759642 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
759561 TTTTTTTCTC
* *
759571 TTTTTTCTTTATTTTGTTTT-TTTGTTTT
1 TTTTTTCGTTATTTT-TTTTGGTTGTTTT
* *
759599 TTTTTTGGTTGTTTTTTTTGGTTGTTTT
1 TTTTTTCGTTATTTTTTTTGGTTGTTTT
*
759627 TTTTTTGGTT-TTTTTT
1 TTTTTTCGTTATTTTTT
759643 GAAGAAGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
27 10 0.26
28 29 0.74
ACGTcount: A:0.01, C:0.01, G:0.14, T:0.83
Consensus pattern (28 bp):
TTTTTTCGTTATTTTTTTTGGTTGTTTT
Found at i:759603 original size:13 final size:13
Alignment explanation
Indices: 759559--759642 Score: 71
Period size: 13 Copynumber: 6.4 Consensus size: 13
759549 TTCTTCTTCC
* *
759559 TTTTTTTTTCTCT
1 TTTTTTTTTGTTT
* *
759572 TTTTTCTTTATTT
1 TTTTTTTTTGTTT
*
759585 TGTTTTTTTGTTT
1 TTTTTTTTTGTTT
759598 TTTTTTTGGTTGTTT
1 TTTTTTT--TTGTTT
**
759613 TTTTTGGTTG-TT
1 TTTTTTTTTGTTT
*
759625 TTTTTTTTGGTTT
1 TTTTTTTTTGTTT
759638 TTTTT
1 TTTTT
759643 GAAGAAGAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
12 9 0.16
13 36 0.64
15 11 0.20
ACGTcount: A:0.01, C:0.04, G:0.12, T:0.83
Consensus pattern (13 bp):
TTTTTTTTTGTTT
Found at i:759641 original size:15 final size:15
Alignment explanation
Indices: 759595--759642 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
759585 TGTTTTTTTG
759595 TTTTTTTTTTGG--T
1 TTTTTTTTTTGGTTT
* *
759608 TGTTTTTTTTGGTTG
1 TTTTTTTTTTGGTTT
759623 TTTTTTTTTTGGTTT
1 TTTTTTTTTTGGTTT
759638 TTTTT
1 TTTTT
759643 GAAGAAGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 11 0.38
15 18 0.62
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (15 bp):
TTTTTTTTTTGGTTT
Found at i:772077 original size:79 final size:78
Alignment explanation
Indices: 771896--772127 Score: 234
Period size: 79 Copynumber: 2.9 Consensus size: 78
771886 ATATGTCCCG
* * *
771896 ATGAGAAATTTAATATTTTGGAGATAATAAT-GGGGTTGGAGTATCCCCTTGAAAATAACGAGGT
1 ATGAGAAA-TCAATATTTTGGAAATAA-AATCGGGGTTGGAGTATCCCCTTG-AAATAACGGGGT
* **
771960 TGGAGTATCTCCGGTT
63 TGGAGTATCCCCAATT
* * * * * * *
771976 GTGAAAAATCGATGA-TTAGGAAATAAAATCGGGATTAGAGTATCCCCTTAGAAATAATGGGGTT
1 ATGAGAAATCAAT-ATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTT-GAAATAACGGGGTT
772040 GGAGTATCCCCAATT
64 GGAGTATCCCCAATT
** * **
772055 ATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCCTGGAGGTAACGGGGTTG
1 ATGAGAAATCAATATTTTGGAAATAAAATCGGGGTTGGAGTAT-CCCCTTGAAATAACGGGGTTG
772120 GAGTATCC
65 GAGTATCC
772128 TCGATGAAAT
Statistics
Matches: 122, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
78 4 0.03
79 105 0.86
80 13 0.11
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.28
Consensus pattern (78 bp):
ATGAGAAATCAATATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTTGAAATAACGGGGTTGG
AGTATCCCCAATT
Found at i:772213 original size:52 final size:51
Alignment explanation
Indices: 772143--772325 Score: 217
Period size: 52 Copynumber: 3.5 Consensus size: 51
772133 GAAATAACGA
* * *
772143 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGAAAATAAAATCG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGAAAATAAAACCG
* *
772194 GAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTGAAAATAAAACCAG
1 G-GTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTTGAAAATAAAACC-G
* * ** *
772247 GGTTGGAGTATCCCCGATTGTGGAAAATTAATGTTTTAG-AAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGAAAATAAAACC-G
*
772298 GGTTGGAGTATCCCCGATTATGAGAAAT
1 GGTTGGAGTATCCCCGATTATGAAAAAT
772326 CAATATTTTG
Statistics
Matches: 114, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
51 47 0.41
52 54 0.47
53 13 0.11
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGAAAATAAAACCG
Found at i:772293 original size:51 final size:51
Alignment explanation
Indices: 772143--772363 Score: 230
Period size: 51 Copynumber: 4.3 Consensus size: 51
772133 GAAATAACGA
* * * ** *
772143 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAATG-TTTTGAAAATAAAACCGG
* * ** *
772195 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCAG
1 GGTTGGAGTATCCCCGATT-ATGGAAAATTAATGTTTTGAAAATAAAACCGG
*
772247 GGTTGGAGTATCCCCGATTGTGGAAAATTAATGTTTT-AGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAATGTTTTGA-AAATAAAACCGG
* * ** *
772298 GGTTGGAGTATCCCCGATTAT-GAGAAATCAATATTTTGGGAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGGA-AAATTAATGTTTTGAAAATAAAACCGG
*
772349 GGTTAGAGTATCCCC
1 GGTTGGAGTATCCCC
772364 TCAGAGGTAA
Statistics
Matches: 145, Mismatches: 20, Indels: 9
0.83 0.11 0.05
Matches are distributed among these distances:
50 3 0.02
51 80 0.55
52 51 0.35
53 11 0.08
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGGAAAATTAATGTTTTGAAAATAAAACCGG
Found at i:772386 original size:28 final size:30
Alignment explanation
Indices: 772346--772417 Score: 80
Period size: 28 Copynumber: 2.5 Consensus size: 30
772336 GGAATAAAGC
* **
772346 CGGGGTTAGAGTATCCCCTC-A-GAGGTAA
1 CGGGGTTGGAGTATCCCCTCTATGAAATAA
772374 CGGGGTTGGAGTA--CCCTCTATGAAATAA
1 CGGGGTTGGAGTATCCCCTCTATGAAATAA
*
772402 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
772418 TCGATTGTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 5 0.14
27 1 0.03
28 29 0.81
30 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (30 bp):
CGGGGTTGGAGTATCCCCTCTATGAAATAA
Found at i:772448 original size:15 final size:15
Alignment explanation
Indices: 772428--772462 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
772418 TCGATTGTGA
772428 AAAATTGGTGTTTGG
1 AAAATTGGTGTTTGG
*
772443 AAAATTGGTGTTTTG
1 AAAATTGGTGTTTGG
772458 AAAAT
1 AAAAT
772463 AAAATCGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (15 bp):
AAAATTGGTGTTTGG
Found at i:774473 original size:13 final size:13
Alignment explanation
Indices: 774455--774480 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
774445 CAATTTTTTA
774455 TGTATCGATACAT
1 TGTATCGATACAT
774468 TGTATCGATACAT
1 TGTATCGATACAT
774481 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:774545 original size:21 final size:21
Alignment explanation
Indices: 774519--774594 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
774509 CTGCCAAGAA
*
774519 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
774540 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
774560 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
774581 ATGTATCGATACAT
1 ATGTATCGATACAT
774595 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:774565 original size:20 final size:20
Alignment explanation
Indices: 774540--774612 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
774530 CATCTTTTTT
774540 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
774560 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
774581 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
774601 ATGTATCGATAC
1 ATGTATCGATAC
774613 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:774576 original size:41 final size:41
Alignment explanation
Indices: 774519--774612 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
774509 CTGCCAAGAA
*
774519 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
774560 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
774601 ATGTATCGATAC
1 ATGTATCGATAC
774613 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:777084 original size:13 final size:13
Alignment explanation
Indices: 777066--777104 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
777056 ATAATCACCC
*
777066 TGTATCGATACAG
1 TGTATCGATACAA
777079 TGTATCGATACAA
1 TGTATCGATACAA
777092 TGTATCGATACAA
1 TGTATCGATACAA
777105 AGAAAAATGT
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:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:777115 original size:20 final size:20
Alignment explanation
Indices: 777090--777168 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
777080 GTATCGATAC
777090 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
777110 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
777135 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
777155 CATGTATCGATACA
1 AATGTATCGATACA
777169 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:779203 original size:15 final size:15
Alignment explanation
Indices: 779183--779213 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
779173 ATTTTGTTTG
*
779183 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
779198 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
779213 G
1 G
779214 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:783298 original size:13 final size:13
Alignment explanation
Indices: 783280--783305 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
783270 CAATTTTTTG
783280 TGTATCGATACAT
1 TGTATCGATACAT
783293 TGTATCGATACAT
1 TGTATCGATACAT
783306 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:783370 original size:21 final size:21
Alignment explanation
Indices: 783344--783419 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
783334 CTGCCAAGAA
*
783344 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
783365 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
783385 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
783406 ATGTATCGATACAT
1 ATGTATCGATACAT
783420 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:783390 original size:20 final size:20
Alignment explanation
Indices: 783365--783437 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
783355 CATCTTTTTT
783365 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
783385 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
783406 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
783426 ATGTATCGATAC
1 ATGTATCGATAC
783438 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:783401 original size:41 final size:41
Alignment explanation
Indices: 783344--783437 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
783334 CTGCCAAGAA
*
783344 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
783385 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
783426 ATGTATCGATAC
1 ATGTATCGATAC
783438 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:784909 original size:13 final size:13
Alignment explanation
Indices: 784891--784916 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
784881 ACAAAGATCC
784891 ATGTATCGATACA
1 ATGTATCGATACA
784904 ATGTATCGATACA
1 ATGTATCGATACA
784917 TGGAATAATG
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:784976 original size:13 final size:13
Alignment explanation
Indices: 784954--785011 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
784944 GGTAGTAGCT
*
784954 TTGTAGCGATACA
1 TTGTATCGATACA
784967 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
784983 CTTATGTATCGATACA
1 --T-TGTATCGATACA
784999 TTGTATCGATACA
1 TTGTATCGATACA
785012 AATCACTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:786683 original size:165 final size:167
Alignment explanation
Indices: 786506--786813 Score: 426
Period size: 166 Copynumber: 1.9 Consensus size: 167
786496 AGGTATAGAT
* * * * *
786506 TTTTTCAAAACTTTTCATATCTTCT-TAGTTTCCTTCGGGTATGAAATGAAATTTTTAAAAGTTT
1 TTTTTCAAAACTTTTCATATCCTCTCGAGTTTCCATCGGGTATGAAATGAAATTTTCAAAAGTTC
* * * *
786570 AGGGACTAAATAGCAAATTTAGTTTTTAGAAGAAAAA-TAGCTACCTTAGTCATTTTA-TTTAAA
66 AGGAACTAAATAGCAAATTCAGATTTTAGAAGAAAAATTAGC-ACCTTAGTCA-TCTACTTTAAA
786633 TTTCTATTATTCCTATGGTCTTCCACAGGGGTATAAAAA
129 TTTCTATTATTCCTATGGTCTTCCACAGGGGTATAAAAA
*
786672 TTTTT-AAAACTTTTCATATCCTCTCGATTTTCCATCGGGTATGAAATGAAATTTTCAAAAGTTC
1 TTTTTCAAAACTTTTCATATCCTCTCGAGTTTCCATCGGGTATGAAATGAAATTTTCAAAAGTTC
* * * * * *
786736 AGGAACTAAATAGCCAATTCAGATTTTGGAATAAAAATTATCATCTTAGTCATCTACTTTAGATT
66 AGGAACTAAATAGCAAATTCAGATTTTAGAAGAAAAATTAGCACCTTAGTCATCTACTTTAAATT
786801 TCTATTATTCCTA
131 TCTATTATTCCTA
786814 AGGATATAGA
Statistics
Matches: 123, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
165 21 0.17
166 99 0.80
167 3 0.02
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (167 bp):
TTTTTCAAAACTTTTCATATCCTCTCGAGTTTCCATCGGGTATGAAATGAAATTTTCAAAAGTTC
AGGAACTAAATAGCAAATTCAGATTTTAGAAGAAAAATTAGCACCTTAGTCATCTACTTTAAATT
TCTATTATTCCTATGGTCTTCCACAGGGGTATAAAAA
Found at i:787540 original size:150 final size:150
Alignment explanation
Indices: 787128--787797 Score: 504
Period size: 150 Copynumber: 4.6 Consensus size: 150
787118 ATTTATGACC
* *** * * **
787128 CTTTTTCAAGTCC-CTTAAGATCACCACACACTTCTAAGTCAATGGTAAACCTTAGGGATATTTT
1 CTTTTTCAAGTCCTCTTAGGATCACCGGGCACTTATAAGTCGATGGT-AACCTTAGGGACCTTTT
* * * * * * * *
787192 AGC-GTTTTCCCCG-AAACTTAGTTCTATAAGACTACTATGTCCGCTTCTAGGATGAAGGTATGA
65 AGCATTTTTTCCTGAAAACCTAGTCCTATAAGACTACTAAGT-CGCTTCTACGCTGAAGGTATGA
787255 ATTAGGAGTAGGTTTGTTTTTA
129 ATTAGGAGTAGGTTTGTTTTTA
* * * *
787277 CTTTTTCAAGTCC-CTTTGGATCACCAGGCACTTCTAAGTCGATGGCAAGCCTTAGGGACCTTTT
1 CTTTTTCAAGTCCTCTTAGGATCACCGGGCACTTATAAGTCGATGGTAA-CCTTAGGGACCTTTT
** * * * * * * * *
787341 AATATTTTTTCCTTAAAACCTAGTCCTATAAAACTACCAAGTCGTTTCTATGCTGAGGGTAGGTA
65 AGCATTTTTTCCTGAAAACCTAGTCCTATAAGACTACTAAGTCGCTTCTACGCTGAAGGTATGAA
* * * * *
787406 TTAGGTGTTGGTTCGCTTCTA
130 TTAGGAGTAGGTTTGTTTTTA
* * *
787427 CTTTTTCAAGTCCTC-TAGGATCACTGGGCACTTATAAGTTGATGGTAGACCTTAGGGACCTATT
1 CTTTTTCAAGTCCTCTTAGGATCACCGGGCACTTATAAGTCGATGGTA-ACCTTAGGGACCTTTT
* * ** **
787491 AGCATTTTTTTC-GAAAACCTATTCCTATAAGACTACTGGGTCTGCTTCTACGCCAAAGGTATGA
65 AGCATTTTTTCCTGAAAACCTAGTCCTATAAGACTACTAAGTC-GCTTCTACGCTGAAGGTATGA
*
787555 ATTAGGAGTGGGTTTGTTTTTA
129 ATTAGGAGTAGGTTTGTTTTTA
* * * * **
787577 CTTTTTCAAGT-CTCTTAGGATCACCGAGCACTTTTGAGTCAATGGTAAACCTTAGGGATATTTT
1 CTTTTTCAAGTCCTCTTAGGATCACCGGGCACTTATAAGTCGATGGT-AACCTTAGGGACCTTTT
* * * * * * *
787641 AGCATTTTCTCCCG-AAACCT-GTCTTATAA-A--ACT---T---TTGT--GCCGAGGGTATGTA
65 AGCATTTTTTCCTGAAAACCTAGTCCTATAAGACTACTAAGTCGCTTCTACGCTGAAGGTATGAA
** ***
787693 TTAGGCCTAGGTTCACTTTTA
130 TTAGGAGTAGGTTTGTTTTTA
** * *
787714 CTTTTTCAAGTCCTC-TAGGATCA-CAAGCACTTCTAAGTCGATGGTAGACCTTAAGGACCTTTT
1 CTTTTTCAAGTCCTCTTAGGATCACCGGGCACTTATAAGTCGATGGTA-ACCTTAGGGACCTTTT
*
787777 AGCATTTTTCCCTG-AAACCTA
65 AGCATTTTTTCCTGAAAACCTA
787798 ATCTTGTGAA
Statistics
Matches: 418, Mismatches: 91, Indels: 36
0.77 0.17 0.07
Matches are distributed among these distances:
135 1 0.00
136 48 0.11
137 45 0.11
138 3 0.01
139 3 0.01
143 1 0.00
146 3 0.01
148 3 0.01
149 88 0.21
150 197 0.47
151 26 0.06
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (150 bp):
CTTTTTCAAGTCCTCTTAGGATCACCGGGCACTTATAAGTCGATGGTAACCTTAGGGACCTTTTA
GCATTTTTTCCTGAAAACCTAGTCCTATAAGACTACTAAGTCGCTTCTACGCTGAAGGTATGAAT
TAGGAGTAGGTTTGTTTTTA
Found at i:791560 original size:15 final size:15
Alignment explanation
Indices: 791540--791586 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
791530 AATTCACTAT
*
791540 AAATAAGAAATAGAA
1 AAATAAGAAAAAGAA
791555 AAATAA-AAAAAGAA
1 AAATAAGAAAAAGAA
* *
791569 AAAAAAGAAAGAGAA
1 AAATAAGAAAAAGAA
791584 AAA
1 AAA
791587 AAATCATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (15 bp):
AAATAAGAAAAAGAA
Found at i:791570 original size:14 final size:14
Alignment explanation
Indices: 791540--791586 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
791530 AATTCACTAT
*
791540 AAATAAGAAATAGAA
1 AAATAA-AAAAAGAA
791555 AAATAAAAAAAGAA
1 AAATAAAAAAAGAA
791569 AAA-AAAGAAAGAGAA
1 AAATAAA-AAA-AGAA
791584 AAA
1 AAA
791587 AAATCATGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 3 0.10
14 13 0.45
15 13 0.45
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (14 bp):
AAATAAAAAAAGAA
Found at i:792396 original size:111 final size:113
Alignment explanation
Indices: 792196--792399 Score: 254
Period size: 111 Copynumber: 1.8 Consensus size: 113
792186 AAACATCAAA
* * * * * *
792196 TTTGTTTGATTTTTGAAGAAATTTATATTTTATATATTCTGATCCATTCATGCCTAGGAAAATGG
1 TTTGTATGATTTTTGAAGAAATTCATATTTTATAGATTCTGATCCATTCATACCTAGAAAAATAG
* * * *
792261 GGTAAGTATCCTCTGAGTTTTGAAATTTTTTGAGCCAACAGCACTAAG
66 GGCAAGCATCCTATGAGTTCTGAAATTTTTTGAGCCAACAGCACTAAG
*
792309 TTTGTATGATTTTTG-A-AAATTCATATTTTATACGA-TCTGATCCATTCGTACCTAGAAAAATA
1 TTTGTATGATTTTTGAAGAAATTCATATTTTATA-GATTCTGATCCATTCATACCTAGAAAAATA
*
792371 GGGCATGCATCCTAAT-AGTTCTGAAATTT
65 GGGCAAGCATCCT-ATGAGTTCTGAAATTT
792400 ATAAGCCAAC
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
111 60 0.78
112 3 0.04
113 14 0.18
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.40
Consensus pattern (113 bp):
TTTGTATGATTTTTGAAGAAATTCATATTTTATAGATTCTGATCCATTCATACCTAGAAAAATAG
GGCAAGCATCCTATGAGTTCTGAAATTTTTTGAGCCAACAGCACTAAG
Found at i:793156 original size:33 final size:32
Alignment explanation
Indices: 793113--793177 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
793103 TACACCTAGA
* *
793113 TGTATCGATACATATTACTTAGTATCGATACAT
1 TGTATCGATACATAAT-CATAGTATCGATACAT
* *
793146 TGTATGGATACATAATCATAGTATTGATACAT
1 TGTATCGATACATAATCATAGTATCGATACAT
793178 GAAACTGGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAATCATAGTATCGATACAT
Found at i:794819 original size:3 final size:3
Alignment explanation
Indices: 794811--794835 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
794801 TCAACCATCA
794811 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
794836 AGTTGACTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:796663 original size:13 final size:13
Alignment explanation
Indices: 796645--796671 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
796635 ACATGCTGCT
796645 TTGTATCGATACA
1 TTGTATCGATACA
796658 TTGTATCGATACA
1 TTGTATCGATACA
796671 T
1 T
796672 GTTCATTGTA
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:796668 original size:33 final size:32
Alignment explanation
Indices: 796626--796690 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
796616 CACACCTAGA
*
796626 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
796659 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
796691 GGACAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:796702 original size:21 final size:19
Alignment explanation
Indices: 796655--796712 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
796645 TTGTATCGAT
*
796655 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
796674 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
796693 ACAAATTGTATCGATACATG
1 AC--ATTGTATCGATACATG
796713 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:796778 original size:13 final size:13
Alignment explanation
Indices: 796757--796787 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
796747 TGATACATGG
*
796757 TACAATGTATCGA
1 TACATTGTATCGA
796770 TACATTGTATCGA
1 TACATTGTATCGA
796783 TACAT
1 TACAT
796788 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:805634 original size:32 final size:32
Alignment explanation
Indices: 805593--805669 Score: 145
Period size: 32 Copynumber: 2.4 Consensus size: 32
805583 CATTTCATAG
805593 TGTATCGATACATCTAGGCAAATTTGCCTGCA
1 TGTATCGATACATCTAGGCAAATTTGCCTGCA
*
805625 TGTATCGATACATCTAGGCAAATTTTCCTGCA
1 TGTATCGATACATCTAGGCAAATTTGCCTGCA
805657 TGTATCGATACAT
1 TGTATCGATACAT
805670 TTTTTGGCAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATCTAGGCAAATTTGCCTGCA
Found at i:805726 original size:32 final size:32
Alignment explanation
Indices: 805685--805784 Score: 173
Period size: 32 Copynumber: 3.1 Consensus size: 32
805675 GGCAGTAGCT
* *
805685 TACATTGTATCGATACAAAACTTATATATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
805717 TACATTGTATTGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
805749 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
805781 TACA
1 TACA
805785 AATCGTTGAA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:805750 original size:19 final size:19
Alignment explanation
Indices: 805690--805785 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
805680 TAGCTTACAT
*
805690 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
*
805709 TATATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
805722 TGTATTGATACAACACTTA
1 TGTATCGATACAACACTTA
805741 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
805754 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
805773 TGTATCGATACAA
1 TGTATCGATACAA
805786 ATCGTTGAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 24
0.67 0.06 0.27
Matches are distributed among these distances:
13 16 0.27
14 2 0.03
16 11 0.18
18 2 0.03
19 29 0.48
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:805759 original size:13 final size:13
Alignment explanation
Indices: 805741--805765 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
805731 ACAACACTTA
805741 TGTATCGATACAT
1 TGTATCGATACAT
805754 TGTATCGATACA
1 TGTATCGATACA
805766 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:805934 original size:14 final size:14
Alignment explanation
Indices: 805915--805945 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
805905 TCTCGACTAG
805915 GGACGATGGGAAAT
1 GGACGATGGGAAAT
805929 GGACGATGGGAAAT
1 GGACGATGGGAAAT
805943 GGA
1 GGA
805946 TTCGGGCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.45, T:0.13
Consensus pattern (14 bp):
GGACGATGGGAAAT
Found at i:806578 original size:39 final size:39
Alignment explanation
Indices: 806528--806619 Score: 116
Period size: 39 Copynumber: 2.4 Consensus size: 39
806518 CACATCCAGA
* *
806528 TGTATCGATACAT-TATGCTTTGTATCGATACATGTTC-AT
1 TGTATCGATACATGT-T-CATTGTATCGATACATGTACAAT
806567 TGTATCGATACATGTTCATTGTATCGATACATGTACAAT
1 TGTATCGATACATGTTCATTGTATCGATACATGTACAAT
* *
806606 TGTATTGGTACATG
1 TGTATCGATACATG
806620 AAACTGGCAG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
38 18 0.38
39 28 0.60
40 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.41
Consensus pattern (39 bp):
TGTATCGATACATGTTCATTGTATCGATACATGTACAAT
Found at i:806619 original size:20 final size:19
Alignment explanation
Indices: 806528--806610 Score: 114
Period size: 19 Copynumber: 4.3 Consensus size: 19
806518 CACATCCAGA
*
806528 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
806548 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
806567 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
*
806586 TGTATCGATACATGTACAAT
1 TGTATCGATACATGTTC-AT
806606 TGTAT
1 TGTAT
806611 TGGTACATGA
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
19 37 0.63
20 21 0.36
21 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:806691 original size:33 final size:33
Alignment explanation
Indices: 806649--806711 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
806639 TACCACTGTT
*
806649 TGTATCGATACATGACA-CATTGTATCGATATCA
1 TGTATCGATACATGA-AGAATTGTATCGATATCA
806682 TGTATCGATACATGAAGAATTGTATCGATA
1 TGTATCGATACATGAAGAATTGTATCGATA
806712 CATTGTCCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (33 bp):
TGTATCGATACATGAAGAATTGTATCGATATCA
Found at i:812689 original size:20 final size:20
Alignment explanation
Indices: 812660--812697 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
812650 TTTACCCAGA
*
812660 TGTATTGATACATTGTTCAT
1 TGTATCGATACATTGTTCAT
812680 TGTATCGATACATTGTTC
1 TGTATCGATACATTGTTC
812698 GAGCCATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (20 bp):
TGTATCGATACATTGTTCAT
Found at i:815745 original size:22 final size:21
Alignment explanation
Indices: 815695--815746 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
815685 TCAGAATCAA
*
815695 AAATGTTTTAGAGTTATGAAT
1 AAATGTTTTAGAGTTATAAAT
*
815716 AAATGTTTTCGAGCTT-TAAAT
1 AAATGTTTTAGAG-TTATAAAT
815737 AGAATGTTTT
1 A-AATGTTTT
815747 TAAGTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.44
Consensus pattern (21 bp):
AAATGTTTTAGAGTTATAAAT
Found at i:815897 original size:13 final size:13
Alignment explanation
Indices: 815879--815915 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
815869 TTATGCTTTG
815879 TATCGATACATTA
1 TATCGATACATTA
*
815892 TATCGATACATTG
1 TATCGATACATTA
815905 TATCGATACAT
1 TATCGATACAT
815916 GAACAATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:815926 original size:20 final size:20
Alignment explanation
Indices: 815901--815938 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
815891 ATATCGATAC
815901 ATTGTATCGATACATGAACA
1 ATTGTATCGATACATGAACA
* *
815921 ATTGTATTGATATATGAA
1 ATTGTATCGATACATGAA
815939 ACTGGCAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (20 bp):
ATTGTATCGATACATGAACA
Found at i:815990 original size:20 final size:20
Alignment explanation
Indices: 815965--816018 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
815955 CTACCACTAT
*
815965 TTGTATCGATACATGACA-CA
1 TTGTATCGATACATGA-AGAA
815985 TTGTATCGATACATGAAGAA
1 TTGTATCGATACATGAAGAA
816005 TTGTATCGATACAT
1 TTGTATCGATACAT
816019 TGTCCCAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATGAAGAA
Found at i:819379 original size:12 final size:12
Alignment explanation
Indices: 819362--819393 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
819352 CCCGAGTGAT
819362 GATTAGTCATAG
1 GATTAGTCATAG
819374 GATTAGTCATAG
1 GATTAGTCATAG
*
819386 GAGTAGTC
1 GATTAGTC
819394 GTATGATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.31
Consensus pattern (12 bp):
GATTAGTCATAG
Found at i:819712 original size:23 final size:23
Alignment explanation
Indices: 819677--819722 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
819667 AAAAGGGATA
**
819677 ACAAAAAGGGGGAGAAGTAATTT
1 ACAAAAAAAGGGAGAAGTAATTT
819700 ACAAAAAAAGGGAGAAGTAATTT
1 ACAAAAAAAGGGAGAAGTAATTT
819723 GCAATATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.52, C:0.04, G:0.26, T:0.17
Consensus pattern (23 bp):
ACAAAAAAAGGGAGAAGTAATTT
Found at i:822347 original size:92 final size:92
Alignment explanation
Indices: 822180--822348 Score: 211
Period size: 92 Copynumber: 1.8 Consensus size: 92
822170 GATGATTTAG
* *
822180 GCAAAAATAAGATTTAAACTTGACAAGTTTAAAAATAGGGTTAAGAGTATCCCCTTGCAAGAATG
1 GCAAAAATAAGATTTAAACTTAACAAGTTTAAAAATAGGGTTAAGAGTATCCCCTTGCAAAAATG
822245 GGGCTGGAGTATCCTTGACGATGATAA
66 GGGCTGGAGTATCCTTGACGATGATAA
* * * *
822272 GCAAAAATAAGATTTAAGTCTTAACGAGTTTAAAAAAATGGGGTT-GGAGTATCCCC-T-CAAAA
1 GCAAAAATAAGATTTAA-ACTTAACAAGTTT--AAAAATAGGGTTAAGAGTATCCCCTTGC-AAA
*
822334 AATGGGG-TTGAGTAT
62 AATGGGGCTGGAGTAT
822349 ACCCAATAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
92 25 0.38
93 20 0.30
94 10 0.15
95 11 0.17
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (92 bp):
GCAAAAATAAGATTTAAACTTAACAAGTTTAAAAATAGGGTTAAGAGTATCCCCTTGCAAAAATG
GGGCTGGAGTATCCTTGACGATGATAA
Found at i:825346 original size:155 final size:156
Alignment explanation
Indices: 825093--825731 Score: 505
Period size: 155 Copynumber: 4.1 Consensus size: 156
825083 CTTCAATGTA
* * * * * * *
825093 AAAGTACCTGATACCCCT-AAAGAACTTAAAAAGGATAAC-AAATGGGCTAAACCTATCCTAAAT
1 AAAGTACCCGACATCCCTAAAAGAACTTAAAAAAGATTACAAAATGGGATGAACCTATCCTAAAT
* * * * ** * * ** *
825156 GCTCACCTTTGGCATAAAAACGGAC-CTAGTAACAACCTAGGACTCGGTTCTAAAAAATACGAAA
66 ACCCACCTTCGGCATAAAAGCAAACTCGA-TGACAACCTAGGACTCAATTCTAAAAAATACAAAA
* *
825220 ATACCCATAGGGGATACCTTCGACGTT
130 ATACCCTTAGGGGATACCTTTGACGTT
*
825247 ATAGTACCCGACATCCCTAAAAG-ACTTAAAAAAGATTACAAAATGGGATGAACCTATCCTAAAT
1 AAAGTACCCGACATCCCTAAAAGAACTTAAAAAAGATTACAAAATGGGATGAACCTATCCTAAAT
* * *
825311 GCCCACCTTCGGCATAAAAGCAAACTCGATGACAACCTAGG-CTCAAATCTAAAAAATTACTAAA
66 ACCCACCTTCGGCATAAAAGCAAACTCGATGACAACCTAGGACTCAATTCTAAAAAA-TACAAAA
* *
825375 ATACCCTTAGGGAATATCTTTGACG-T
130 ATACCCTTAGGGGATACCTTTGACGTT
* * *
825401 AGAAGTGCCCGATAT-CCTTAAAGAAC-TAAAAAAGGATTACAAAATGGGATGAACCTATCCTAA
1 A-AAGTACCCGACATCCCTAAAAGAACTTAAAAAA-GATTACAAAATGGGATGAACCTATCCTAA
* * * * * * * * * * *
825464 ATACCCACTTTCAGTATTAAAGCGAACTCGATGAAAACCTAAGACTTAGTTCTAGAAAATTAAAA
64 ATACCCACCTTCGGCATAAAAGCAAACTCGATGACAACCTAGGACTCAATTCTA-AAAAATACAA
* * * *
825529 AAATACCCTTAGGGGATAGCTTTGGCATA
128 AAATACCCTTAGGGGATACCTTTGACGTT
* * * * * * *
825558 AAAGTACCCGGCACCCCT-AAAGGACTT-AAAAGGATCATAGAAAT--GATGAACTTATCCTAAA
1 AAAGTACCCGACATCCCTAAAAGAACTTAAAAAAGATTACA-AAATGGGATGAACCTATCCTAAA
* * * * * * * *
825619 CACCCACCTTCGACGTAAAAGCAGA-TACAAAGACAACCTAGGACTCGATTCTAAAAAAATTATA
65 TACCCACCTTCGGCATAAAAGCAAACT-CGATGACAACCTAGGACTCAATTCT-AAAAAA-TACA
* * * *
825683 AAAATGCCCTCT-GAGGATACCTTCGACGTA
127 AAAATACCCT-TAGGGGATACCTTTGACGTT
* *
825713 AAAGTACCTGATATCCCTA
1 AAAGTACCCGACATCCCTA
825732 GTATACATTA
Statistics
Matches: 384, Mismatches: 83, Indels: 34
0.77 0.17 0.07
Matches are distributed among these distances:
153 1 0.00
154 110 0.29
155 205 0.53
156 59 0.15
157 9 0.02
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (156 bp):
AAAGTACCCGACATCCCTAAAAGAACTTAAAAAAGATTACAAAATGGGATGAACCTATCCTAAAT
ACCCACCTTCGGCATAAAAGCAAACTCGATGACAACCTAGGACTCAATTCTAAAAAATACAAAAA
TACCCTTAGGGGATACCTTTGACGTT
Found at i:827450 original size:550 final size:548
Alignment explanation
Indices: 826395--827492 Score: 2079
Period size: 550 Copynumber: 2.0 Consensus size: 548
826385 AAATCAGATC
826395 CAAAAATTTTGAAAAGATTTGGCCAATGATCTTTGGCCTTGGAACAAATTTTCCAATATTTACAC
1 CAAAAATTTTGAAAAGATTTGGCCAATGATCTTTGGCCTTGGAACAAATTTTCCAATATTTACAC
* * * *
826460 TTAAACCCCAAACTTTCTTGAATTTGCAAATTAGTCTTTATATAACTAAAATACAAAATTAAGCA
66 TTAAACCCCAAACTTTCTTGAATTTGCAAATCAATCTTTATATAACGAAAATACAAAATTAAACA
* *
826525 CATCATAATCAACACAAAAATCAGATTTAAAGAATTACAAGAAGGATTCAGCTAAGAATTTTTGG
131 CATCATAATCAACACAAAAATCAAATTTAAAGAATTACAAGAAGGATTCAGCTAAGAATTTTTAG
826590 CCTAGGAACAATATTTTCACATATTTGCAATTAAACCCCTAAACTTTCTAAAATTACAAAAAGTC
196 CCTAGGAACAATATTTTCACATATTTGCAATTAAACCCCTAAACTTTCTAAAATTACAAAAAGTC
826655 CCAAACAATCAAAAATGTTTGAAAATGCATCAAAATGCATTTAAGGCATATGAGAACATTCTAAA
261 CCAAACAATCAAAAATGTTTGAAAATGCATCAAAATGCATTTAAGGCATATGAGAACATTCTAAA
826720 AACTACTTAGAAGCATTCGGCCAAGACTTAAATTTCTTACACAACAAATTTTGCAAAAATTACTA
326 AACTACTTAGAAGCATTCGGCCAAGACTTAAATTTCTTACACAACAAATTTTGCAAAAATTACTA
*
826785 ATTAATCCCTAAACTTCCTAAAATTGCAAAAAGGTCCCAACAATGTTAAATTGCCTAAAATATGT
391 ATTAATCCCTAAACTTCCTAAAATTGCAAAAAGGTCCCAAAAATGTTAAATTGCCTAAAATATGT
* *
826850 CTAAAATTCATGTAATACCTCTCCTATGATTTTTCAAACTTTCAGCCAAGCACTAGATTATTCAT
456 CTAAAATTCATGTAATACCTCTCCCATGATTTTTCAAACTTTCAGCCAAGCACCAGATTATTCAT
826915 AGAAATGTTTTTTTGGGTTTTTTGCAATT
521 AGAAATG-TTTTTTGGGTTTTTTGCAATT
826944 CAAAAATTTTGAAGAAGATTTGGCCAATGATCTTTGGCCTTGGAACAAATTTTCCAATATTTACA
1 CAAAAATTTTGAA-AAGATTTGGCCAATGATCTTTGGCCTTGGAACAAATTTTCCAATATTTACA
827009 CTTAAACCCCAAACTTTCTTGAATTTGCAAATCAATCTTTATATAACGAAAATACAAAATTAAAC
65 CTTAAACCCCAAACTTTCTTGAATTTGCAAATCAATCTTTATATAACGAAAATACAAAATTAAAC
*
827074 ACATCATAATCAACACAAAAATCAAATTTAAGGAATTACAAGAAGGATTCAGCTAAGAATTTTTA
130 ACATCATAATCAACACAAAAATCAAATTTAAAGAATTACAAGAAGGATTCAGCTAAGAATTTTTA
827139 GCCTAGGAACAATATTTTCACATATTTGCAATTAAACCCCTAAACTTTCTAAAATTACAAAAAGT
195 GCCTAGGAACAATATTTTCACATATTTGCAATTAAACCCCTAAACTTTCTAAAATTACAAAAAGT
827204 CCCAAACAATCAAAAATGTTTGAAAATGCATCAAAATGCATTTAAGGCATATGAGAACATTCTAA
260 CCCAAACAATCAAAAATGTTTGAAAATGCATCAAAATGCATTTAAGGCATATGAGAACATTCTAA
827269 AAACTACTTAGAAGCATTCGGCCAAGACTTAAATTTCTTACACAACAAATTTTGCAAAAATTACT
325 AAACTACTTAGAAGCATTCGGCCAAGACTTAAATTTCTTACACAACAAATTTTGCAAAAATTACT
827334 AATTAATCCCTAAACTTCCTAAAATTGCAAAAAGGTCCCAAAAATGTTAAATTGCCTAAAATATG
390 AATTAATCCCTAAACTTCCTAAAATTGCAAAAAGGTCCCAAAAATGTTAAATTGCCTAAAATATG
*
827399 TCTAAAATTCATGTAATACCTCTCCCATGATTTTTCAAACTTTCGGCCAAGCACCAGATTATTCA
455 TCTAAAATTCATGTAATACCTCTCCCATGATTTTTCAAACTTTCAGCCAAGCACCAGATTATTCA
827464 TAGAAATGTTTTTTGGGTTTTTTGCAATT
520 TAGAAATGTTTTTTGGGTTTTTTGCAATT
827493 TAGTCCCTAT
Statistics
Matches: 537, Mismatches: 11, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
549 34 0.06
550 503 0.94
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.31
Consensus pattern (548 bp):
CAAAAATTTTGAAAAGATTTGGCCAATGATCTTTGGCCTTGGAACAAATTTTCCAATATTTACAC
TTAAACCCCAAACTTTCTTGAATTTGCAAATCAATCTTTATATAACGAAAATACAAAATTAAACA
CATCATAATCAACACAAAAATCAAATTTAAAGAATTACAAGAAGGATTCAGCTAAGAATTTTTAG
CCTAGGAACAATATTTTCACATATTTGCAATTAAACCCCTAAACTTTCTAAAATTACAAAAAGTC
CCAAACAATCAAAAATGTTTGAAAATGCATCAAAATGCATTTAAGGCATATGAGAACATTCTAAA
AACTACTTAGAAGCATTCGGCCAAGACTTAAATTTCTTACACAACAAATTTTGCAAAAATTACTA
ATTAATCCCTAAACTTCCTAAAATTGCAAAAAGGTCCCAAAAATGTTAAATTGCCTAAAATATGT
CTAAAATTCATGTAATACCTCTCCCATGATTTTTCAAACTTTCAGCCAAGCACCAGATTATTCAT
AGAAATGTTTTTTGGGTTTTTTGCAATT
Found at i:827866 original size:20 final size:20
Alignment explanation
Indices: 827841--827888 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
827831 TTTCCTTAGT
827841 TTTTTTTC-TTCTCATTTTTC
1 TTTTTTTCTTTCT-ATTTTTC
*
827861 TTTTTTTCTTTCTTTTTTTC
1 TTTTTTTCTTTCTATTTTTC
*
827881 TATTTTTC
1 TTTTTTTC
827889 CTTCACTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTTCTTTCTATTTTTC
Found at i:827872 original size:12 final size:12
Alignment explanation
Indices: 827857--827881 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
827847 TCTTCTCATT
827857 TTTCTTTTTTTC
1 TTTCTTTTTTTC
827869 TTTCTTTTTTTC
1 TTTCTTTTTTTC
827881 T
1 T
827882 ATTTTTCCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTCTTTTTTTC
Found at i:828726 original size:167 final size:164
Alignment explanation
Indices: 828511--828981 Score: 546
Period size: 163 Copynumber: 2.8 Consensus size: 164
828501 TAGTAGATGA
* * * * * * *
828511 ATTTCAAAAATTTTAAATC-AAGAAAAATCTCC-CTAAAAATAATTATGGAGTAGAAAATTCAGT
1 ATTTTAAAAATTTTAGACCAAAG-AAAATCTCCGC-GAAAATATTTATGGAATAGAAAACTCAGT
** * * **
828574 TTTCCGAGAAGATAGGCATTTCAAGGAAAAAATAAAAAAACTCATGAAAGTGAATTAAATTTTCA
64 TTTTTGAGAA-AAAGGGATTTCAA-GAAAAAATACCAAAACTCATGAAA-TGAATTAAATTTTCA
* * *
828639 AAATTGATATAATGGGAATTCCATGACATTTTTAGATAC
126 AAATTGATTTAATGGGAATTCCATGAAATTATTAGATAC
*
828678 ATTTTAAAAATTTTAGACCAAAGAAAATC-CTCGCGAAAATATTTATGGAATAGGAAACTC-GAT
1 ATTTTAAAAATTTTAGACCAAAGAAAATCTC-CGCGAAAATATTTATGGAATAGAAAACTCAG-T
828741 TTTTTGAGAAAAATGGGATTTC-A-AAAAAAT-CCAAAACTCATGAATATGAATTAAATTTTCAA
64 TTTTTGAGAAAAA-GGGATTTCAAGAAAAAATACCAAAACTCATGAA-ATGAATTAAATTTTCAA
* * *
828803 AACTAATTTAATAGGAATTCCATGAAATTATTAGATAC
127 AATTGATTTAATGGGAATTCCATGAAATTATTAGATAC
* * *
828841 ATTTTAAAAATTTTTGACCAAAGAAAATCTCCTCGAAAATATTTATAGAATAGAAAACTCAGTTT
1 ATTTTAAAAATTTTAGACCAAAGAAAATCTCCGCGAAAATATTTATGGAATAGAAAACTCAGTTT
*
828906 TTTGAGAAAAAGGAGATTTCAAAGAAAAAA-ATCCAAAACTCATGAAAATGAGTTAAATTTTC-A
66 TTTGAGAAAAAGG-GATTTC-AAGAAAAAATA-CCAAAACTCATG-AAATGAATTAAATTTTCAA
828969 AATTGATTTAATG
127 AATTGATTTAATG
828982 TAAATTAAAT
Statistics
Matches: 261, Mismatches: 28, Indels: 31
0.82 0.09 0.10
Matches are distributed among these distances:
162 2 0.01
163 134 0.51
164 10 0.04
165 1 0.00
166 22 0.08
167 86 0.33
168 6 0.02
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.31
Consensus pattern (164 bp):
ATTTTAAAAATTTTAGACCAAAGAAAATCTCCGCGAAAATATTTATGGAATAGAAAACTCAGTTT
TTTGAGAAAAAGGGATTTCAAGAAAAAATACCAAAACTCATGAAATGAATTAAATTTTCAAAATT
GATTTAATGGGAATTCCATGAAATTATTAGATAC
Found at i:829156 original size:11 final size:11
Alignment explanation
Indices: 829140--829164 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
829130 TTTGAGAACT
829140 AATTAAATATG
1 AATTAAATATG
829151 AATTAAATATG
1 AATTAAATATG
829162 AAT
1 AAT
829165 ATTTGATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (11 bp):
AATTAAATATG
Found at i:830504 original size:42 final size:42
Alignment explanation
Indices: 830446--830852 Score: 331
Period size: 42 Copynumber: 9.7 Consensus size: 42
830436 ACAGGCAGGC
* * * *
830446 AAAGGTTGAAAGAGTCTCCCGAGTCAAAGCCGACGGGTAAGA-
1 AAAGGGTGAAGGAGTCTCCCGGGTCAAAGCCGATGGG-AAGAG
* * * * * *
830488 AAATGGTGAAGAAGTCTCTCTGGTCAAAGTCGATAGGCAA-AG
1 AAAGGGTGAAGGAGTCTCCCGGGTCAAAGCCGAT-GGGAAGAG
* *
830530 AAAGGGTGAAGCG-GTCTCTCGGGTCAAAGCCGATGGGCAA-AA
1 AAAGGGTGAAG-GAGTCTCCCGGGTCAAAGCCGATGGG-AAGAG
* * * * * * * *
830572 AAATGGTGAAAGAGTCTCTCGGGTCCAAGTCTACGGGCAGAG
1 AAAGGGTGAAGGAGTCTCCCGGGTCAAAGCCGATGGGAAGAG
* *
830614 AAAGGGTGAAGGAGTCTCCCGGGTTAAAGCCGATGGGCAGAG
1 AAAGGGTGAAGGAGTCTCCCGGGTCAAAGCCGATGGGAAGAG
* * * ** *
830656 AAAGGGTGAAGGAGCCTCTCGAGTCAAAATCGATGGGTAGAG
1 AAAGGGTGAAGGAGTCTCCCGGGTCAAAGCCGATGGGAAGAG
* * *
830698 AAAGGGTGAAGGAGTCTCCCGGGTTAAAGCCAAT-GAACAGAG
1 AAAGGGTGAAGGAGTCTCCCGGGTCAAAGCCGATGGGA-AGAG
* * * ** *
830740 AAAGGGTGAAGGAGCCTCTCGAGTCAAAATCGATGGGCAGAG
1 AAAGGGTGAAGGAGTCTCCCGGGTCAAAGCCGATGGGAAGAG
* * * *
830782 AAAGGGTGAAGGAGTCTCTCGGGTTAAAGCCAAT-GAACAGAG
1 AAAGGGTGAAGGAGTCTCCCGGGTCAAAGCCGATGGGA-AGAG
* *
830824 AAAGGGTGAAGGAGTCTCTCGAGTCAAAG
1 AAAGGGTGAAGGAGTCTCCCGGGTCAAAG
830853 TCAACGAACA
Statistics
Matches: 289, Mismatches: 67, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
41 7 0.02
42 279 0.97
43 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.34, T:0.16
Consensus pattern (42 bp):
AAAGGGTGAAGGAGTCTCCCGGGTCAAAGCCGATGGGAAGAG
Found at i:830622 original size:126 final size:127
Alignment explanation
Indices: 830446--830977 Score: 486
Period size: 126 Copynumber: 4.2 Consensus size: 127
830436 ACAGGCAGGC
* * * *
830446 AAAGGTTGAAAGAGTCTCCCGAGTCAAAGCCGACGGGTA-AGA-AAATGGTGAAGAAGTCTCTCT
1 AAAGGGTGAAAGAGTCTCCCGAGTCAAAGCCAAC--GAACAGAGAAAGGGTGAAGAAGTCTCTCT
* * * *
830509 G-GTCAAAGTCGATAGGCAAAGAAAGGGTGAAGCG-GTCTCTCGGGTCAAAGCCGATGGGCAAAA
64 GAGTCAAAGTCGATGGGCAGAGAAAGGGTGAAG-GAGTCTCTCGGGTCAAAGCCGATGGGCAGAG
* * * * * * ** * * *
830572 AAATGGTGAAAGAGTCTCTCGGGTCCAAGTCTACGGGCAGAGAAAGGGTGAAGGAGTCTC-CCGG
1 AAAGGGTGAAAGAGTCTCCCGAGTCAAAGCCAACGAACAGAGAAAGGGTGAAGAAGTCTCTCTGA
* * * * ** *
830636 GTTAAAGCCGATGGGCAGAGAAAGGGTGAAGGAGCCTCTCGAGTCAAAATCGATGGGTAGAG
66 GTCAAAGTCGATGGGCAGAGAAAGGGTGAAGGAGTCTCTCGGGTCAAAGCCGATGGGCAGAG
* * * * * *
830698 AAAGGGTGAAGGAGTCTCCCGGGTTAAAGCCAATGAACAGAGAAAGGGTGAAGGAGCCTCTC-GA
1 AAAGGGTGAAAGAGTCTCCCGAGTCAAAGCCAACGAACAGAGAAAGGGTGAAGAAGTCTCTCTGA
* * * **
830762 GTCAAAATCGATGGGCAGAGAAAGGGTGAAGGAGTCTCTCGGGTTAAAGCCAATGAACAGAG
66 GTCAAAGTCGATGGGCAGAGAAAGGGTGAAGGAGTCTCTCGGGTCAAAGCCGATGGGCAGAG
* * * * * * *
830824 AAAGGGTGAAGGAGTCTCTCGAGTCAAAGTCAACGAACAGAAAAAGAGTGAAAAAATCTC-CTGA
1 AAAGGGTGAAAGAGTCTCCCGAGTCAAAGCCAACGAACAGAGAAAGGGTGAAGAAGTCTCTCTGA
* * * * * ** *
830888 GTCAAAGTCAACGGGCAGACAAAGGGTGAAAGAGTCTCTCGGGTCAAAGCTGACAGGCAGAC
66 GTCAAAGTCGATGGGCAGAGAAAGGGTGAAGGAGTCTCTCGGGTCAAAGCCGATGGGCAGAG
* *
830950 AAAAGGT-AAAGGAGTCTCCCAAGTCAAA
1 AAAGGGTGAAA-GAGTCTCCCGAGTCAAA
830978 CCCGATGAGC
Statistics
Matches: 324, Mismatches: 75, Indels: 14
0.78 0.18 0.03
Matches are distributed among these distances:
124 1 0.00
125 9 0.03
126 313 0.97
127 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.32, T:0.16
Consensus pattern (127 bp):
AAAGGGTGAAAGAGTCTCCCGAGTCAAAGCCAACGAACAGAGAAAGGGTGAAGAAGTCTCTCTGA
GTCAAAGTCGATGGGCAGAGAAAGGGTGAAGGAGTCTCTCGGGTCAAAGCCGATGGGCAGAG
Found at i:830862 original size:42 final size:42
Alignment explanation
Indices: 830492--830936 Score: 417
Period size: 42 Copynumber: 10.6 Consensus size: 42
830482 GTAAGAAAAT
* * * * *
830492 GGTGAAGAAGTCTCTCTGGTCAAAGTCGATAGGCAAAGAAAG
1 GGTGAAGGAGTCTCTCGGGTCAAAGTCAATGGGCAGAGAAAG
* * * * *
830534 GGTGAAGCG-GTCTCTCGGGTCAAAGCCGATGGGCAAAAAAAT
1 GGTGAAG-GAGTCTCTCGGGTCAAAGTCAATGGGCAGAGAAAG
* * * *
830576 GGTGAAAGAGTCTCTCGGGTCCAAGTCTACGGGCAGAGAAAG
1 GGTGAAGGAGTCTCTCGGGTCAAAGTCAATGGGCAGAGAAAG
* * * *
830618 GGTGAAGGAGTCTCCCGGGTTAAAGCCGATGGGCAGAGAAAG
1 GGTGAAGGAGTCTCTCGGGTCAAAGTCAATGGGCAGAGAAAG
* * * * *
830660 GGTGAAGGAGCCTCTCGAGTCAAAATCGATGGGTAGAGAAAG
1 GGTGAAGGAGTCTCTCGGGTCAAAGTCAATGGGCAGAGAAAG
* * * **
830702 GGTGAAGGAGTCTCCCGGGTTAAAGCCAATGAACAGAGAAAG
1 GGTGAAGGAGTCTCTCGGGTCAAAGTCAATGGGCAGAGAAAG
* * * *
830744 GGTGAAGGAGCCTCTCGAGTCAAAATCGATGGGCAGAGAAAG
1 GGTGAAGGAGTCTCTCGGGTCAAAGTCAATGGGCAGAGAAAG
* * **
830786 GGTGAAGGAGTCTCTCGGGTTAAAGCCAATGAACAGAGAAAG
1 GGTGAAGGAGTCTCTCGGGTCAAAGTCAATGGGCAGAGAAAG
* * ** *
830828 GGTGAAGGAGTCTCTCGAGTCAAAGTCAACGAACAGAAAAAG
1 GGTGAAGGAGTCTCTCGGGTCAAAGTCAATGGGCAGAGAAAG
* ** * * * *
830870 AGTGAAAAAATCTC-CTGAGTCAAAGTCAACGGGCAGACAAAG
1 GGTGAAGGAGTCTCTC-GGGTCAAAGTCAATGGGCAGAGAAAG
*
830912 GGTGAAAGAGTCTCTCGGGTCAAAG
1 GGTGAAGGAGTCTCTCGGGTCAAAG
830937 CTGACAGGCA
Statistics
Matches: 328, Mismatches: 71, Indels: 8
0.81 0.17 0.02
Matches are distributed among these distances:
41 2 0.01
42 325 0.99
43 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.33, T:0.16
Consensus pattern (42 bp):
GGTGAAGGAGTCTCTCGGGTCAAAGTCAATGGGCAGAGAAAG
Found at i:830947 original size:42 final size:42
Alignment explanation
Indices: 830446--830967 Score: 301
Period size: 42 Copynumber: 12.4 Consensus size: 42
830436 ACAGGCAGGC
* * * * *
830446 AAAGGTTGAAAGAGTCTCCCGAGTCAAAGCCGACGGGTA-AG
1 AAAGGGTGAAAGAGTCTCTCGGGTCAAAGCTGACGGGCAGAG
* * ** *
830487 AAAATGGTG-AAGAAGTCTCTCTGGTCAAAG-TCGATAGGCAAAG
1 -AAAGGGTGAAAG-AGTCTCTCGGGTCAAAGCT-GACGGGCAGAG
* * * * *
830530 AAAGGGTG-AAGCGGTCTCTCGGGTCAAAGCCGATGGGCAAAA
1 AAAGGGTGAAAG-AGTCTCTCGGGTCAAAGCTGACGGGCAGAG
* *
830572 AAATGGTGAAAGAGTCTCTCGGGTCCAAGTCT-ACGGGCAGAG
1 AAAGGGTGAAAGAGTCTCTCGGGTCAAAG-CTGACGGGCAGAG
* * * * *
830614 AAAGGGTGAAGGAGTCTCCCGGGTTAAAGCCGATGGGCAGAG
1 AAAGGGTGAAAGAGTCTCTCGGGTCAAAGCTGACGGGCAGAG
* * * * * *
830656 AAAGGGTGAAGGAGCCTCTCGAGTCAAA-ATCGATGGGTAGAG
1 AAAGGGTGAAAGAGTCTCTCGGGTCAAAGCT-GACGGGCAGAG
* * * ** * **
830698 AAAGGGTGAAGGAGTCTCCCGGGTTAAAGCCAATGAACAGAG
1 AAAGGGTGAAAGAGTCTCTCGGGTCAAAGCTGACGGGCAGAG
* * * * *
830740 AAAGGGTGAAGGAGCCTCTCGAGTCAAA-ATCGATGGGCAGAG
1 AAAGGGTGAAAGAGTCTCTCGGGTCAAAGCT-GACGGGCAGAG
* * ** * **
830782 AAAGGGTGAAGGAGTCTCTCGGGTTAAAGCCAATGAACAGAG
1 AAAGGGTGAAAGAGTCTCTCGGGTCAAAGCTGACGGGCAGAG
* * * ** *
830824 AAAGGGTGAAGGAGTCTCTCGAGTCAAAG-TCAACGAACAGAA
1 AAAGGGTGAAAGAGTCTCTCGGGTCAAAGCT-GACGGGCAGAG
* * * * * *
830866 AAAGAGTGAAAAAATCTC-CTGAGTCAAAG-TCAACGGGCAGAC
1 AAAGGGTGAAAGAGTCTCTC-GGGTCAAAGCT-GACGGGCAGAG
* *
830908 AAAGGGTGAAAGAGTCTCTCGGGTCAAAGCTGACAGGCAGAC
1 AAAGGGTGAAAGAGTCTCTCGGGTCAAAGCTGACGGGCAGAG
*
830950 AAAAGGT-AAAGGAGTCTC
1 AAAGGGTGAAA-GAGTCTC
830968 CCAAGTCAAA
Statistics
Matches: 381, Mismatches: 83, Indels: 32
0.77 0.17 0.06
Matches are distributed among these distances:
41 8 0.02
42 365 0.96
43 8 0.02
ACGTcount: A:0.35, C:0.17, G:0.33, T:0.16
Consensus pattern (42 bp):
AAAGGGTGAAAGAGTCTCTCGGGTCAAAGCTGACGGGCAGAG
Found at i:830968 original size:84 final size:83
Alignment explanation
Indices: 830434--830969 Score: 427
Period size: 84 Copynumber: 6.4 Consensus size: 83
830424 GGATCTGAGT
* * * * * * *
830434 TGACAGGCAG-GCAAAGGTTGAAAGAGTCTCCCGAGTCAAAGCCGACGGGTA-AGAAAATGGTG-
1 TGACAGGCAGAG-AAAGGGTGAAGGAGTCTCCCGGGTCAAAGCCAATGGGCAGAG-AAAGGGTGA
830496 AAGAAGTCTCTCTG-GTCAAAG
64 AAG-AGTCTCTC-GAGTCAAAG
* * * * * * *
830517 TCGATAGGCAAAGAAAGGGTGAAGCG-GTCTCTCGGGTCAAAGCCGATGGGCAAAAAAATGGTGA
1 T-GACAGGCAGAGAAAGGGTGAAG-GAGTCTCCCGGGTCAAAGCCAATGGGCAGAGAAAGGGTGA
* *
830581 AAGAGTCTCTCGGGTCCAAG
64 AAGAGTCTCTCGAGTCAAAG
* * * *
830601 TCTACGGGCAGAGAAAGGGTGAAGGAGTCTCCCGGGTTAAAGCCGATGGGCAGAGAAAGGGTGAA
1 T-GACAGGCAGAGAAAGGGTGAAGGAGTCTCCCGGGTCAAAGCCAATGGGCAGAGAAAGGGTGAA
* * *
830666 GGAGCCTCTCGAGTCAAAA
65 AGAGTCTCTCGAGTCAAAG
** * * **
830685 TCGATGGGTAGAGAAAGGGTGAAGGAGTCTCCCGGGTTAAAGCCAATGAACAGAGAAAGGGTGAA
1 T-GACAGGCAGAGAAAGGGTGAAGGAGTCTCCCGGGTCAAAGCCAATGGGCAGAGAAAGGGTGAA
* * *
830750 GGAGCCTCTCGAGTCAAAA
65 AGAGTCTCTCGAGTCAAAG
** * * **
830769 TCGATGGGCAGAGAAAGGGTGAAGGAGTCTCTCGGGTTAAAGCCAATGAACAGAGAAAGGGTGAA
1 T-GACAGGCAGAGAAAGGGTGAAGGAGTCTCCCGGGTCAAAGCCAATGGGCAGAGAAAGGGTGAA
*
830834 GGAGTCTCTCGAGTCAAAG
65 AGAGTCTCTCGAGTCAAAG
* * * * ** * * * * * *
830853 TCA-ACGAACAGAAAAAGAGTGAAAAAATCTCCTGAGTCAAAGTCAACGGGCAGACAAAGGGTGA
1 TGACA-G-GCAGAGAAAGGGTGAAGGAGTCTCCCGGGTCAAAGCCAATGGGCAGAGAAAGGGTGA
*
830917 AAGAGTCTCTCGGGTCAAAG
64 AAGAGTCTCTCGAGTCAAAG
* * *
830937 CTGACAGGCAGACAAAAGGTAAAGGAGTCTCCC
1 -TGACAGGCAGAGAAAGGGTGAAGGAGTCTCCC
830970 AAGTCAAACC
Statistics
Matches: 379, Mismatches: 63, Indels: 21
0.82 0.14 0.05
Matches are distributed among these distances:
83 5 0.01
84 364 0.96
85 9 0.02
86 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.33, T:0.15
Consensus pattern (83 bp):
TGACAGGCAGAGAAAGGGTGAAGGAGTCTCCCGGGTCAAAGCCAATGGGCAGAGAAAGGGTGAAA
GAGTCTCTCGAGTCAAAG
Found at i:831067 original size:42 final size:42
Alignment explanation
Indices: 831020--831124 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
831010 CTCGGGTCTT
* *
831020 GTCTCCCGAGTTTGAGCC-ATTAGGCAAACAAAGGATAAAGAA
1 GTCTCCCGAGTTTGAGCCGA-TAGGCAAACAAAAGATAAAAAA
** * * *
831062 GTCTCCAAAGTTTGAACCGATGGGCAAATAAAAGATAAAAAA
1 GTCTCCCGAGTTTGAGCCGATAGGCAAACAAAAGATAAAAAA
* *
831104 GTCTCTCGAGTTTAAGCCGAT
1 GTCTCCCGAGTTTGAGCCGAT
831125 GGGTAGACAA
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 49 0.98
43 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (42 bp):
GTCTCCCGAGTTTGAGCCGATAGGCAAACAAAAGATAAAAAA
Found at i:831266 original size:44 final size:44
Alignment explanation
Indices: 831216--831641 Score: 218
Period size: 44 Copynumber: 9.7 Consensus size: 44
831206 ATGCTAATCG
* * *
831216 TTTGACTAGGGTGGTAACCATACGTCAGATAGGAAGGAGGCAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAATAGGAAGGAGACAGA
* *** * *
831260 TTTGACTATAATGGTAACCATACATCAAATCA-GAATGA-A-AGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAAT-AGGAAGGAGACAG-A
* * * *
831303 TCTGACCAGGGTGGTAACCATACGTCAGATAGGAAGAAGGCAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAATAGGAAGGAGACAGA
* ** * * *
831347 TTTGACCAGGGTGGTAACCACACACCAAAT-CGAGATGA-AAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAATAGGA-AGGAGACAG-A
* ** * * * * * *
831391 TCTGAATAAGGTGGTAACCATACGTCAGACAAGAAGAAGACGGA
1 TTTGACCAGGGTGGTAACCATACGTCAAATAGGAAGGAGACAGA
* * * * ** *
831435 CTTAACCAGGATGGTAACCACACGTCAAATCA-GAATTA-AAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAAT-AGGAAGGAGACAG-A
* * * * ** * * * *
831479 TCTAACCAAGGTGATAACCATATATCATACAGGAAGGAGGCAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAATAGGAAGGAGACAGA
* * * * * * *
831523 TTTGACCAAGGTGGTAACCATACGTCAAATCGAAATGAAAAAAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAATAGGAA-GGAGACAGA
* * * * * *
831568 TTTGACCGGGGTGGTAACCATACATCAGACAAGAAGGAGGCAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAATAGGAAGGAGACAGA
831612 TTTGACCAGGGTGGTAACCATACGTCAAAT
1 TTTGACCAGGGTGGTAACCATACGTCAAAT
831642 TAGAATGAAA
Statistics
Matches: 268, Mismatches: 100, Indels: 28
0.68 0.25 0.07
Matches are distributed among these distances:
42 3 0.01
43 35 0.13
44 189 0.71
45 41 0.15
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (44 bp):
TTTGACCAGGGTGGTAACCATACGTCAAATAGGAAGGAGACAGA
Found at i:831581 original size:45 final size:44
Alignment explanation
Indices: 831271--831683 Score: 153
Period size: 44 Copynumber: 9.4 Consensus size: 44
831261 TTGACTATAA
* * *
831271 TGGTAACCATACATCAAATCAGAATG--AAAGAATCTGACCAGGG
1 TGGTAACCATACGTCAAATCA-AATGAAAAAAAATTTGACCAGGG
* *** *
831314 TGGTAACCATACGTCAGAT-AGGAA-GAAGGCAGATTTGACCAGGG
1 TGGTAACCATACGTCAAATCA--AATGAAAAAAAATTTGACCAGGG
* ** * * * ** *
831358 TGGTAACCACACACCAAATCGAGATG-AAAAGAATCTGAATAAGG
1 TGGTAACCATACGTCAAATC-AAATGAAAAAAAATTTGACCAGGG
* * * *** * * *
831402 TGGTAACCATACGTCAGA-CAAGAAGAAGACGGACTTAACCAGGA
1 TGGTAACCATACGTCAAATCAA-ATGAAAAAAAATTTGACCAGGG
* * * * * *
831446 TGGTAACCACACGTCAAATCAGAAT-TAAAAGAATCTAACCAAGG
1 TGGTAACCATACGTCAAATCA-AATGAAAAAAAATTTGACCAGGG
* ** * * *** *
831490 TGATAACCATATATCATA-CAGGAA-GGAGGCAAATTTGACCAAGG
1 TGGTAACCATACGTCAAATCA--AATGAAAAAAAATTTGACCAGGG
*
831534 TGGTAACCATACGTCAAATCGAAATGAAAAAAAATTTGACCGGGG
1 TGGTAACCATACGTCAAATC-AAATGAAAAAAAATTTGACCAGGG
* * * * *** *
831579 TGGTAACCATACATCAGA-CAAGAAGGAGGCAGATTTGACCAGGG
1 TGGTAACCATACGTCAAATCAA-ATGAAAAAAAATTTGACCAGGG
* * * * *
831623 TGGTAACCATACGTCAAATTAGAATGAAAAGAAATCTGAGCAGGT
1 TGGTAACCATACGTCAAATCA-AATGAAAAAAAATTTGACCAGGG
*
831668 TGGTAACCATATGTCA
1 TGGTAACCATACGTCA
831684 GACAAGAAAA
Statistics
Matches: 259, Mismatches: 93, Indels: 34
0.67 0.24 0.09
Matches are distributed among these distances:
42 3 0.01
43 27 0.10
44 161 0.62
45 64 0.25
46 4 0.02
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (44 bp):
TGGTAACCATACGTCAAATCAAATGAAAAAAAATTTGACCAGGG
Found at i:831615 original size:89 final size:88
Alignment explanation
Indices: 831218--831691 Score: 499
Period size: 88 Copynumber: 5.4 Consensus size: 88
831208 GCTAATCGTT
* * * * *
831218 TGACTAGGGTGGTAACCATACGTCAGATAGGAAGGAGGCAGATTTGACTATA-ATGGTAACCATA
1 TGACCAGGGTGGTAACCATACGTCAGACAAGAAGGAGGCAGATTTGACCA-AGGTGGTAACCATA
*
831282 CATCAAATCAGAATG-AAAGAATC
65 CGTCAAATCAGAATGAAAAGAATC
* * * * *
831305 TGACCAGGGTGGTAACCATACGTCAGATAGGAAGAAGGCAGATTTGACCAGGGTGGTAACCACAC
1 TGACCAGGGTGGTAACCATACGTCAGACAAGAAGGAGGCAGATTTGACCAAGGTGGTAACCATAC
**
831370 ACCAAATC-GAGATGAAAAGAATC
66 GTCAAATCAGA-ATGAAAAGAATC
** * * * * * * *
831393 TGAATAAGGTGGTAACCATACGTCAGACAAGAAGAAGACGGACTTAACC-AGGATGGTAACCACA
1 TGACCAGGGTGGTAACCATACGTCAGACAAGAAGGAGGCAGATTTGACCAAGG-TGGTAACCATA
*
831457 CGTCAAATCAGAATTAAAAGAATC
65 CGTCAAATCAGAATGAAAAGAATC
* * * ** * * *
831481 TAACCAAGGTGATAACCATATATCATACAGGAAGGAGGCAAATTTGACCAAGGTGGTAACCATAC
1 TGACCAGGGTGGTAACCATACGTCAGACAAGAAGGAGGCAGATTTGACCAAGGTGGTAACCATAC
* *
831546 GTCAAATC-GAAATGAAAAAAAATT
66 GTCAAATCAG-AATG-AAAAGAATC
* * *
831570 TGACCGGGGTGGTAACCATACATCAGACAAGAAGGAGGCAGATTTGACCAGGGTGGTAACCATAC
1 TGACCAGGGTGGTAACCATACGTCAGACAAGAAGGAGGCAGATTTGACCAAGGTGGTAACCATAC
*
831635 GTCAAATTAGAATGAAAAGAAATC
66 GTCAAATCAGAATGAAAAG-AATC
* * *
831659 TGAGCAGGTTGGTAACCATATGTCAGACAAGAA
1 TGACCAGGGTGGTAACCATACGTCAGACAAGAA
831692 AAATGAGAGT
Statistics
Matches: 322, Mismatches: 55, Indels: 18
0.82 0.14 0.05
Matches are distributed among these distances:
86 2 0.01
87 71 0.22
88 138 0.43
89 110 0.34
90 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (88 bp):
TGACCAGGGTGGTAACCATACGTCAGACAAGAAGGAGGCAGATTTGACCAAGGTGGTAACCATAC
GTCAAATCAGAATGAAAAGAATC
Found at i:831852 original size:48 final size:48
Alignment explanation
Indices: 831697--831853 Score: 206
Period size: 48 Copynumber: 3.3 Consensus size: 48
831687 AAGAAAAATG
* * *
831697 AGAGTTTGACTAGGCCCTAACATCAATACAGTCAAACGAGGGATGAAA
1 AGAGTTTGACCAGGCCCTAACACCAATACAGTCAAACAAGGGATGAAA
* * * * **
831745 AGAATTTGACCTGGCCTTAACACCAATACAGTCAAACAAGGGAAGATT
1 AGAGTTTGACCAGGCCCTAACACCAATACAGTCAAACAAGGGATGAAA
* * *
831793 TGAGTTTGACCAGGCCCTAACACCAATACAGTCAAATAAGAGATGAAA
1 AGAGTTTGACCAGGCCCTAACACCAATACAGTCAAACAAGGGATGAAA
831841 AGAGTTTGACCAG
1 AGAGTTTGACCAG
831854 ATACAGTCAA
Statistics
Matches: 90, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 90 1.00
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (48 bp):
AGAGTTTGACCAGGCCCTAACACCAATACAGTCAAACAAGGGATGAAA
Found at i:833130 original size:19 final size:18
Alignment explanation
Indices: 833106--833141 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
833096 ACATAAAGTG
833106 TTGTATCGATACATATTTT
1 TTGTATCGATACA-ATTTT
833125 TTGTATCGATACAATTT
1 TTGTATCGATACAATTT
833142 AAGCTACTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (18 bp):
TTGTATCGATACAATTTT
Found at i:833200 original size:13 final size:13
Alignment explanation
Indices: 833182--833206 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
833172 ATTACTCAAA
833182 TGTATCGATACAT
1 TGTATCGATACAT
833195 TGTATCGATACA
1 TGTATCGATACA
833207 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:833271 original size:52 final size:52
Alignment explanation
Indices: 833215--833343 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
833205 CACTGATCTT
* *
833215 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
833267 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
833319 TGTATCAAAACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
833344 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:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:840274 original size:8 final size:8
Alignment explanation
Indices: 840261--840339 Score: 79
Period size: 8 Copynumber: 9.1 Consensus size: 8
840251 AAAGTGATGA
840261 AAAAAAAC
1 AAAAAAAC
840269 AAAAAACAC
1 AAAAAA-AC
840278 AAAAAAAACAC
1 --AAAAAA-AC
*
840289 AAAAAAAA
1 AAAAAAAC
840297 ACAAAAAAC
1 A-AAAAAAC
840306 AAAAAAAC
1 AAAAAAAC
840314 AAAAAAAC
1 AAAAAAAC
840322 AAAACAAA-
1 AAAA-AAAC
840330 AAAGAAAAC
1 AAA-AAAAC
840339 A
1 A
840340 CAGAAAAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
8 33 0.53
9 20 0.32
11 9 0.15
ACGTcount: A:0.85, C:0.14, G:0.01, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:840284 original size:12 final size:12
Alignment explanation
Indices: 840269--840349 Score: 83
Period size: 13 Copynumber: 6.4 Consensus size: 12
840259 GAAAAAAAAC
840269 AAAAAACAC-AA
1 AAAAAACACAAA
840280 AAAAAACACAAA
1 AAAAAACACAAA
*
840292 AAAAAACAAAAA
1 AAAAAACACAAA
*
840304 ACAAAAAAACAAA
1 A-AAAAACACAAA
*
840317 AAAACAAAACAAAA
1 AAAA-AACAC-AAA
840331 AAGAAAACACAGAA
1 AA-AAAACACA-AA
840345 AAAAA
1 AAAAA
840350 GGTGCAAAGG
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
11 9 0.15
12 17 0.28
13 19 0.32
14 13 0.22
15 2 0.03
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (12 bp):
AAAAAACACAAA
Found at i:840292 original size:28 final size:26
Alignment explanation
Indices: 840261--840348 Score: 99
Period size: 26 Copynumber: 3.3 Consensus size: 26
840251 AAAGTGATGA
840261 AAAAAAACAAAAAACACAAAAAAAACAC
1 AAAAAAACAAAAAA-A-AAAAAAAACAC
*
840289 AAAAAAA-AACAAAAAACAAAAAA-AC
1 AAAAAAACAA-AAAAAAAAAAAAACAC
*
840314 AAAAAAACAAAACAAAAAAGAAAACAC
1 AAAAAAACAAAA-AAAAAAAAAAACAC
840341 AGAAAAAA
1 A-AAAAAA
840349 AGGTGCAAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
25 11 0.21
26 18 0.35
27 6 0.12
28 17 0.33
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (26 bp):
AAAAAAACAAAAAAAAAAAAAAACAC
Found at i:840294 original size:30 final size:28
Alignment explanation
Indices: 840260--840337 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 28
840250 AAAAGTGATG
*
840260 AAAAAAAACAAAAAACACAAAAAA-AACAC
1 AAAAAAAACAAAAAACA-AAAAAACAA-AA
840289 AAAAAAAA-ACAAAAAACAAAAAAACAAAA
1 AAAAAAAACA-AAA-AACAAAAAAACAAAA
* *
840318 AAACAAAACAAAAAAGAAAA
1 AAAAAAAACAAAAAACAAAA
840338 CACAGAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
28 7 0.17
29 28 0.67
30 7 0.17
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (28 bp):
AAAAAAAACAAAAAACAAAAAAACAAAA
Found at i:840346 original size:27 final size:24
Alignment explanation
Indices: 840264--840349 Score: 84
Period size: 27 Copynumber: 3.4 Consensus size: 24
840254 GTGATGAAAA
*
840264 AAAACAAAAAACACAAAAAAAACAC
1 AAAA-AAAAAACAAAAAAAAAACAC
*
840289 -AAAAAAAAACAAAAAACAAAAAAAC
1 AAAAAAAAAAC-AAAAA-AAAAACAC
840314 AAAAAAACAAAACAAAAAAGAAAACAC
1 -AAAAAA-AAAACAAAAAA-AAAACAC
*
840341 AGAAAAAAA
1 AAAAAAAAA
840350 GGTGCAAAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
23 7 0.14
24 7 0.14
25 10 0.20
26 6 0.12
27 16 0.31
28 5 0.10
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAACAAAAAAAAAACAC
Found at i:840347 original size:17 final size:17
Alignment explanation
Indices: 840260--840350 Score: 80
Period size: 17 Copynumber: 5.3 Consensus size: 17
840250 AAAAGTGATG
840260 AAAA-AAAACA-AAAAA
1 AAAAGAAAACACAAAAA
*
840275 CACAAAAAAAACACAAAAA
1 -A-AAAGAAAACACAAAAA
* *
840294 AAAACAAAAAACAAAAA
1 AAAAGAAAACACAAAAA
*
840311 AACAAAAAAACA-AAACAA
1 AA-AAGAAAACACAAA-AA
*
840329 AAAAGAAAACACAGAAA
1 AAAAGAAAACACAAAAA
840346 AAAAG
1 AAAAG
840351 GTGCAAAGGC
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
16 1 0.02
17 37 0.59
18 20 0.32
19 5 0.08
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (17 bp):
AAAAGAAAACACAAAAA
Done.